Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 171 of 356
Found at i:55533843 original size:26 final size:26
Alignment explanation
Indices: 55533804--55533870 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 26
55533794 ACCCTCTCTT
55533804 GCACATAACCCTAATATATAA-TTTG
1 GCACATAACCCTAATATATAACTTTG
* *
55533829 GGATCATAACCCTAATATATAACTTTT
1 GCA-CATAACCCTAATATATAACTTTG
55533856 GCACATAACCCTAAT
1 GCACATAACCCTAAT
55533871 TTCATCATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 2 0.05
26 30 0.81
27 5 0.14
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.31
Consensus pattern (26 bp):
GCACATAACCCTAATATATAACTTTG
Found at i:55535353 original size:101 final size:100
Alignment explanation
Indices: 55535151--55535365 Score: 295
Period size: 101 Copynumber: 2.1 Consensus size: 100
55535141 GTGTGATGGA
* * **
55535151 ACACAGGCGTGTGATCAACGAGCCAGGCCGTCCACGCATGACACTGCCTGTGATGGCCAGGTAGG
1 ACACAGGCGTGTGATCAACGAGCCAGGCCGTCCACGCATGACACGGCCTGTGATAGCCAAATAGG
* * *
55535216 CCGTCTGCTAGACACGGGCTACACTGAGTGAGACT
66 CCGTCTGCGAGACACAGGCTACACTGAGTAAGACT
* * * * * *
55535251 ACACGGGCGTGTGATCGACGAGCCAGGCTGTGCACGCATGACACGGCTGTGTGGTAGCCAAATAG
1 ACACAGGCGTGTGATCAACGAGCCAGGCCGTCCACGCATGACACGGC-CTGTGATAGCCAAATAG
*
55535316 GCCGTGTGCGAGACACAGGCTACACTGAGTAAGACT
65 GCCGTCTGCGAGACACAGGCTACACTGAGTAAGACT
55535352 ACACAGGCGTGTGA
1 ACACAGGCGTGTGA
55535366 GATTCTGGGT
Statistics
Matches: 99, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
100 42 0.42
101 57 0.58
ACGTcount: A:0.24, C:0.27, G:0.33, T:0.17
Consensus pattern (100 bp):
ACACAGGCGTGTGATCAACGAGCCAGGCCGTCCACGCATGACACGGCCTGTGATAGCCAAATAGG
CCGTCTGCGAGACACAGGCTACACTGAGTAAGACT
Found at i:55539199 original size:56 final size:56
Alignment explanation
Indices: 55539113--55539232 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
55539103 ACAAGGTATG
55539113 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
55539169 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
55539225 ATGGGCAA
1 ATGGGCAA
55539233 TAAACTAACA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:55540444 original size:40 final size:40
Alignment explanation
Indices: 55540420--55540624 Score: 333
Period size: 40 Copynumber: 5.2 Consensus size: 40
55540410 GATCCAAAGA
* * *
55540420 CATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGG
1 CATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGG
55540459 CATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGG
1 CATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGG
*
55540499 CATTTGTGTGAGTTACTAAATCCGGGTTAAGTCCCGAAGG
1 CATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGG
55540539 CATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGG
1 CATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGG
* *
55540579 CATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGG
1 CATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGG
55540619 CATTTG
1 CATTTG
55540625 AACAAGTAGC
Statistics
Matches: 157, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 28 0.18
40 127 0.81
41 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
CATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGG
Found at i:55540556 original size:80 final size:80
Alignment explanation
Indices: 55540360--55540624 Score: 358
Period size: 80 Copynumber: 3.3 Consensus size: 80
55540350 TCGAATGATG
* * * * ** * *
55540360 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCAAAGACAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
* *
55540423 TTGTGCGAGATACTAAT
64 TTGTGCGAGTTACTAAA
55540440 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
*
55540504 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
*
55540519 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
55540584 GTGCGAGTTACTATAA
66 GTGCGAGTTACTA-AA
*
55540600 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55540625 AACAAGTAGC
Statistics
Matches: 166, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 57 0.34
80 106 0.64
81 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:55540642 original size:120 final size:118
Alignment explanation
Indices: 55540360--55540657 Score: 316
Period size: 119 Copynumber: 2.5 Consensus size: 118
55540350 TCGAATGATG
** * * * * * *
55540360 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCAAAGACAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAAC-AAGTTACTAAATCCGG-TTAA-ATCCCGAAGGCAT
*
55540423 TTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
63 TTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
* **** *
55540479 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACAAGTTACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
55540544 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
* ** *
55540600 -CCGGGCTATGTCCCGAAGGCATTTGAACAAG-TAGCTCTATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACAAGTTA-CTAAATCCGGTTAAATCCCGAAGG
55540658 TACGTGATTT
Statistics
Matches: 150, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
118 1 0.01
119 82 0.55
120 65 0.43
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACAAGTTACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55547146 original size:56 final size:56
Alignment explanation
Indices: 55547081--55547200 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
55547071 GAAAGGGATG
55547081 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
55547137 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
55547193 ATGGGCAA
1 ATGGGCAA
55547201 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:55548565 original size:40 final size:40
Alignment explanation
Indices: 55548327--55548551 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
55548317 TCAAATGATG
* * * *
55548327 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
55548367 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
55548407 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55548446 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
55548486 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
55548527 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55548552 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 35 0.21
40 118 0.72
41 10 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55554012 original size:40 final size:39
Alignment explanation
Indices: 55553921--55554183 Score: 287
Period size: 40 Copynumber: 6.6 Consensus size: 39
55553911 TCCTCGTTCA
* * * *
55553921 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
55553960 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
55553999 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
55554039 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
55554079 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
55554119 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
55554160 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
55554184 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 39 0.20
40 146 0.74
41 12 0.06
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:55554129 original size:120 final size:119
Alignment explanation
Indices: 55553921--55554183 Score: 316
Period size: 120 Copynumber: 2.2 Consensus size: 119
55553911 TCCTCGTTCA
* * *
55553921 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGATT
* * *
55553986 TAATAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAATAACTTAGCAC
* * * *
55554039 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACTTAACCCGG-
* * ** * *
55554104 ATTT-GTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAATAACTTAGCAC
*
55554160 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
55554184 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 37 0.30
120 76 0.62
121 9 0.07
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAATAACTTAGCAC
Found at i:55554192 original size:41 final size:41
Alignment explanation
Indices: 55554115--55554192 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
55554105 TTTGTATCTC
* * *
55554115 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
55554156 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
55554193 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:55561982 original size:40 final size:39
Alignment explanation
Indices: 55561891--55562153 Score: 287
Period size: 40 Copynumber: 6.6 Consensus size: 39
55561881 TCCTCGTTCA
* * * *
55561891 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
55561930 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
55561969 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
55562009 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
55562049 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
55562089 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
55562130 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
55562154 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 39 0.20
40 146 0.74
41 12 0.06
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:55562099 original size:120 final size:119
Alignment explanation
Indices: 55561891--55562153 Score: 316
Period size: 120 Copynumber: 2.2 Consensus size: 119
55561881 TCCTCGTTCA
* * *
55561891 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGATT
* * *
55561956 TAATAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAATAACTTAGCAC
* * * *
55562009 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACTTAACCCGG-
* * ** * *
55562074 ATTT-GTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAATAACTTAGCAC
*
55562130 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
55562154 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 37 0.30
120 76 0.62
121 9 0.07
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAATAACTTAGCAC
Found at i:55562162 original size:41 final size:41
Alignment explanation
Indices: 55562085--55562162 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
55562075 TTTGTATCTC
* * *
55562085 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
55562126 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
55562163 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:55564968 original size:18 final size:19
Alignment explanation
Indices: 55564945--55564985 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
55564935 TAATTAAAAA
55564945 AATTGTTCAATCATAAG-T
1 AATTGTTCAATCATAAGCT
*
55564963 AATTGTTCAATTATAAGCT
1 AATTGTTCAATCATAAGCT
55564982 AATT
1 AATT
55564986 AATTATTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (19 bp):
AATTGTTCAATCATAAGCT
Found at i:55567953 original size:105 final size:105
Alignment explanation
Indices: 55567741--55567928 Score: 283
Period size: 105 Copynumber: 1.8 Consensus size: 105
55567731 AGTTTTTTTA
* * *
55567741 TTAAGAATGTATTGACCCTTTTGACGCAAAGAGGGATGACAACCTAAGCACCTCACCTAGGTTAC
1 TTAAGAATGTATTGACCCTTTTGACGCAAAGAGAGATGACAACCCAAGCACCTCACCCAGGTTAC
*
55567806 TCAGCCCAACACACTCTTATTTTATTATATATATTTGTGG
66 TCAGCCCAACACACTCTTATTTTATTATATATATTTGCGG
* *
55567846 TTAAGAATGTTTTGGA-CCTTTTGACGCGAAA-AGAGATGACAACCCAAGCACCTCACCCCGGTT
1 TTAAGAATGTATT-GACCCTTTTGACGC-AAAGAGAGATGACAACCCAAGCACCTCACCCAGGTT
55567909 ACTCA-CCCAACACACTCTTA
64 ACTCAGCCCAACACACTCTTA
55567929 AGTTTTTTTT
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
104 15 0.20
105 56 0.74
106 5 0.07
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (105 bp):
TTAAGAATGTATTGACCCTTTTGACGCAAAGAGAGATGACAACCCAAGCACCTCACCCAGGTTAC
TCAGCCCAACACACTCTTATTTTATTATATATATTTGCGG
Found at i:55573273 original size:50 final size:50
Alignment explanation
Indices: 55573198--55573299 Score: 186
Period size: 50 Copynumber: 2.0 Consensus size: 50
55573188 CGTAGAGGCC
*
55573198 TTGCTTTTACTGTAAAAAGAGAATTCACAATATTAGTAAGTTTATCAACT
1 TTGCTTTTACTGTAAAAAGAGAATTCACAATATTAGTAAGTCTATCAACT
*
55573248 TTGCTTTTACTGTAAAAAGAGAATTCATAATATTAGTAAGTCTATCAACT
1 TTGCTTTTACTGTAAAAAGAGAATTCACAATATTAGTAAGTCTATCAACT
55573298 TT
1 TT
55573300 ATCTTCTAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (50 bp):
TTGCTTTTACTGTAAAAAGAGAATTCACAATATTAGTAAGTCTATCAACT
Found at i:55579365 original size:20 final size:19
Alignment explanation
Indices: 55579316--55579365 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
55579306 AATTTGTAAA
*
55579316 TGAATTATGAAATGTGAAG
1 TGAATTATGAAATGTGAAC
*
55579335 TAGAA-TATGAAATAGTGTAC
1 T-GAATTATGAAAT-GTGAAC
55579355 TGAATTATGAA
1 TGAATTATGAA
55579366 TATTGATTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.44, C:0.02, G:0.22, T:0.32
Consensus pattern (19 bp):
TGAATTATGAAATGTGAAC
Found at i:55582148 original size:12 final size:12
Alignment explanation
Indices: 55582131--55582163 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
55582121 CGGCCCACCC
55582131 ATATTAATTTTT
1 ATATTAATTTTT
55582143 ATATT-ATTTTT
1 ATATTAATTTTT
55582154 ATA-TAATTTT
1 ATATTAATTTT
55582164 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:55582321 original size:30 final size:30
Alignment explanation
Indices: 55582285--55582345 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
55582275 CAATTTAACA
*
55582285 AGCAAAT-TCTTCTAAAATAATAACAAAATT
1 AGCAAATGTCTT-TAAAATAATAAAAAAATT
55582315 AGCAAATGTCTTTAAAATAATAAAAAAATT
1 AGCAAATGTCTTTAAAATAATAAAAAAATT
55582345 A
1 A
55582346 ACAATAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.30
Consensus pattern (30 bp):
AGCAAATGTCTTTAAAATAATAAAAAAATT
Found at i:55582438 original size:33 final size:33
Alignment explanation
Indices: 55582384--55582447 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 33
55582374 AAATAATAAC
* *
55582384 AACAAAATAGTAGCAATATAAT-AGTAAAATAGT
1 AACAAAATAGGAGCAAAATAATAAG-AAAATAGT
55582417 AACAAAATAGGGAG-AAAATAATAAGAAAATA
1 AACAAAATA-GGAGCAAAATAATAAGAAAATA
55582448 ATATTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 22 0.81
34 5 0.19
ACGTcount: A:0.62, C:0.05, G:0.14, T:0.19
Consensus pattern (33 bp):
AACAAAATAGGAGCAAAATAATAAGAAAATAGT
Found at i:55587227 original size:18 final size:18
Alignment explanation
Indices: 55587204--55587240 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
55587194 AAAATCAAAG
55587204 TAAAAGCACGGTGGCCCA
1 TAAAAGCACGGTGGCCCA
*
55587222 TAAAAGCACGGTGGGCCA
1 TAAAAGCACGGTGGCCCA
55587240 T
1 T
55587241 GGGTGACGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.30, T:0.14
Consensus pattern (18 bp):
TAAAAGCACGGTGGCCCA
Found at i:55588769 original size:28 final size:28
Alignment explanation
Indices: 55588737--55588792 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
55588727 TTGCAAGTAA
55588737 GTGATCTTGATGACTTTTCTTAAATATT
1 GTGATCTTGATGACTTTTCTTAAATATT
*
55588765 GTGATTTTGATGACTTTTCTTAAATATT
1 GTGATCTTGATGACTTTTCTTAAATATT
55588793 TTTGTACTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.09, G:0.14, T:0.52
Consensus pattern (28 bp):
GTGATCTTGATGACTTTTCTTAAATATT
Found at i:55590874 original size:13 final size:13
Alignment explanation
Indices: 55590858--55590892 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
55590848 ACGAGCATGG
55590858 GACACGGGCCATA
1 GACACGGGCCATA
*
55590871 GACAAGGGCCATA
1 GACACGGGCCATA
55590884 GACACGGGC
1 GACACGGGC
55590893 GTGTGTCAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.31, C:0.29, G:0.34, T:0.06
Consensus pattern (13 bp):
GACACGGGCCATA
Found at i:55590910 original size:99 final size:99
Alignment explanation
Indices: 55590778--55590965 Score: 295
Period size: 99 Copynumber: 1.9 Consensus size: 99
55590768 GAGGGACACA
* *
55590778 GGCCATAGACACGAGCGTGTTTTAGGCCGTGTGAAAACCCCTGTAGGTTCGAATTTAGAATTTAA
1 GGCCATAGACACGAGCGTGTGTCAGGCCGTGTGAAAACCCCTGTAGGTTCGAATTTAGAATTTAA
55590843 TTCACACGAGCATGGGACACGGGCCATAGACAAG
66 TTCACACGAGCATGGGACACGGGCCATAGACAAG
* ** * *
55590877 GGCCATAGACACGGGCGTGTGTCAGGCTTTGTGAAAACCTCTGTAGGTTTGAATTTAGAATTTAA
1 GGCCATAGACACGAGCGTGTGTCAGGCCGTGTGAAAACCCCTGTAGGTTCGAATTTAGAATTTAA
* *
55590942 TTTACACGGGCATGGGACACGGGC
66 TTCACACGAGCATGGGACACGGGC
55590966 GTGTCCCTTA
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
99 80 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (99 bp):
GGCCATAGACACGAGCGTGTGTCAGGCCGTGTGAAAACCCCTGTAGGTTCGAATTTAGAATTTAA
TTCACACGAGCATGGGACACGGGCCATAGACAAG
Found at i:55613804 original size:47 final size:46
Alignment explanation
Indices: 55613753--55613866 Score: 156
Period size: 47 Copynumber: 2.5 Consensus size: 46
55613743 AATTATGAGG
55613753 CATCCGAACTCGTTGAGTTGCATTCCGAGTTCACCTATGGATGCAAA
1 CATCCGAACTCGTTGAGTTGCATTCCGAGTTCA-CTATGGATGCAAA
* ** * *
55613800 CATCCGAACTCATTGAGTTGTGTTCCGAGTTCATTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGCATTCCGAGTTCACTATGGATGCAAA
* *
55613846 CACCCGAGCTCGTTGAGTTGC
1 CATCCGAACTCGTTGAGTTGC
55613867 GTTTCGAATT
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
46 28 0.48
47 30 0.52
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.29
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGCATTCCGAGTTCACTATGGATGCAAA
Found at i:55613862 original size:46 final size:46
Alignment explanation
Indices: 55613756--55613884 Score: 159
Period size: 46 Copynumber: 2.8 Consensus size: 46
55613746 TATGAGGCAT
* * *
55613756 CCGAACTCGTTGAGTTGCATTCCGAGTTCACCTATGGATGCAAACAT
1 CCGAACTCGTTGAGTTGCGTTCCGAGTTCA-TTATGGATGCAAACAC
* * *
55613803 CCGAACTCATTGAGTTGTGTTCCGAGTTCATTATGGATGCGAACAC
1 CCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGCAAACAC
* * * *
55613849 CCGAGCTCGTTGAGTTGCGTTTCGAATTTATTATGG
1 CCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGG
55613885 GTGAGATTAT
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
46 43 0.61
47 27 0.39
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGCAAACAC
Found at i:55630895 original size:93 final size:93
Alignment explanation
Indices: 55630780--55630950 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
55630770 GCCCATAAGT
* *
55630780 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAACTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAACTGAACTCGGACTCAACTCA
*
55630844 ATGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
*
55630873 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAACTGAACTCGGACTCAACTCAA
55630938 CGAGTTCGGATGC
66 CGAGTTCGGATGC
55630951 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAACTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:55630947 original size:46 final size:46
Alignment explanation
Indices: 55630772--55630947 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
55630762 TGTAACCCGC
* *
55630772 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCAT
* * *
55630818 CCATAACTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
55630868 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
55630911 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55630948 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 60 0.56
47 28 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:55631403 original size:30 final size:30
Alignment explanation
Indices: 55631369--55631429 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
55631359 CATTTAATAC
55631369 AAACTTTGGAAAAATCACACTTTTGCCCCT
1 AAACTTTGGAAAAATCACACTTTTGCCCCT
* * * *
55631399 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATCACACTTTTGCCCCT
55631429 A
1 A
55631430 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.34
Consensus pattern (30 bp):
AAACTTTGGAAAAATCACACTTTTGCCCCT
Found at i:55643121 original size:12 final size:11
Alignment explanation
Indices: 55643104--55643144 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 11
55643094 TCCTCCTATC
55643104 TTCTTATTCTTA
1 TTCTTATT-TTA
55643116 TTCTTATTTTA
1 TTCTTATTTTA
55643127 TT-TTA-TTTA
1 TTCTTATTTTA
55643136 TT-TTATTTT
1 TTCTTATTTT
55643145 TATTTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.32
10 6 0.21
11 5 0.18
12 8 0.29
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (11 bp):
TTCTTATTTTA
Found at i:55643129 original size:5 final size:5
Alignment explanation
Indices: 55643107--55643182 Score: 63
Period size: 5 Copynumber: 15.4 Consensus size: 5
55643097 TCCTATCTTC
*
55643107 TTATT CTTATT CTTATT TTATT TTA-T TTATT TTATT TT-TA TT-TT TTATT
1 TTATT -TTATT -TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
*
55643156 TTCATT TCAGTT TTA-- TTATT TTATT TT
1 TT-ATT TTA-TT TTATT TTATT TTATT TT
55643183 GAAAGACATA
Statistics
Matches: 60, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
3 3 0.05
4 10 0.17
5 28 0.47
6 19 0.32
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:55643949 original size:13 final size:13
Alignment explanation
Indices: 55643933--55643965 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
55643923 TTAAATTAAA
*
55643933 TTAGTTAATTAGT
1 TTAGATAATTAGT
55643946 TTAGATAATTAGT
1 TTAGATAATTAGT
55643959 TTA-ATAA
1 TTAGATAA
55643966 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:55645941 original size:93 final size:93
Alignment explanation
Indices: 55645829--55646000 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
55645819 CGCCCATAAG
* *
55645829 CGAACTCGGACTCAACTCAACAAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACAAGCTC-GGACATTCACATCCATAAGTGAACTCGGACTCAACTC
*
55645893 AACGAGTTTGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
* *
55645922 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
55645987 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
55646001 TCAATCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:55645990 original size:46 final size:46
Alignment explanation
Indices: 55645822--55645997 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
55645812 TGTAACCCGC
* * * *
55645822 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCACAT
* *
55645868 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
*
55645918 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
55645961 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
55645998 TGCTCAATCA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 2 0.02
45 4 0.04
46 59 0.54
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:55646016 original size:46 final size:47
Alignment explanation
Indices: 55645865--55646016 Score: 154
Period size: 46 Copynumber: 3.3 Consensus size: 47
55645855 CAGGCGTTCG
* *
55645865 CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGC-CTAGTT
1 CATCC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A-AT
* * ***
55645914 ACAT-CTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTC-A-
1 -CATCCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAAT
55645958 CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAAT
1 CATCC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAAT
55646006 CATCCT-AGTGA
1 CATCCTAAGTGA
55646017 CATGTCACTT
Statistics
Matches: 84, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 2 0.02
46 36 0.43
47 30 0.36
48 8 0.10
49 1 0.01
50 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (47 bp):
CATCCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAAT
Found at i:55650788 original size:93 final size:93
Alignment explanation
Indices: 55650676--55650847 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
55650666 CGCCCATAAG
*
55650676 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCAGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCAGACTCAACTC
55650740 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
* *
55650769 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
55650834 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
55650848 TCAATCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:55650842 original size:46 final size:46
Alignment explanation
Indices: 55650669--55650844 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
55650659 TGTAACCCGC
* *
55650669 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* * *
55650715 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
55650765 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
55650808 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
55650845 TGCTCAATCA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 60 0.55
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:55657722 original size:48 final size:48
Alignment explanation
Indices: 55657661--55657888 Score: 225
Period size: 48 Copynumber: 4.8 Consensus size: 48
55657651 CAACCACATT
55657661 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
* * * *
55657709 ACGAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
* *
55657755 ATGTA-AGCCAATGTAAGACCATGTCTGGGACGTGGCATCGGCACGTAT-AG
1 ATG-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA--T-TGAG
* * * * ** *
55657805 A-G-GTGACGGTGTAAGACCATGTCTGGGACATGGCATTGGCACGGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
* *
55657851 ATGTGAGAGCTAGAGTAAGACCATGTCTGGGACATGGC
1 A--TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGC
55657889 GTTGGCCTTG
Statistics
Matches: 144, Mismatches: 24, Indels: 22
0.76 0.13 0.12
Matches are distributed among these distances:
46 27 0.19
47 28 0.19
48 56 0.39
49 2 0.01
50 31 0.22
ACGTcount: A:0.27, C:0.19, G:0.33, T:0.21
Consensus pattern (48 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
Found at i:55657783 original size:94 final size:94
Alignment explanation
Indices: 55657621--55657888 Score: 271
Period size: 94 Copynumber: 2.8 Consensus size: 94
55657611 TTAATTGTGT
* * ** *
55657621 ACTAGTGTAAGACATGTTTAGGACATGCATCAACCAC-ATTATG-AGAGCCAGTGTAAGACCATG
1 ACTAGTGTAAGACATGTCTGGGACATGCATCGGCC-CGA-TATGTAGAGCCAATGTAAGACCATG
55657684 TCTGGGACATGGCATCGGCA-T-TGAGACGAG
64 TCTGGGACATGGCATCGGCACTAT-AGACGAG
*
55657714 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-AGCCAATGTAAGACCATG
1 A-CTAGTGTAAGACATGTCTGGGACATGCATCGGCC-CGATATGTAGAGCCAATGTAAGACCATG
* * *
55657778 TCTGGGACGTGGCATCGGCACGTATAGAGGTG
64 TCTGGGACATGGCATCGGCAC-TATAGACGAG
* * * *
55657810 AC-GGTGTAAGACCATGTCTGGGACATGGCATTGGCACGGATATGTGAGAGCTAGA-GTAAGACC
1 ACTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CCGATATGT-AGAGCCA-ATGTAAGACC
55657873 ATGTCTGGGACATGGC
61 ATGTCTGGGACATGGC
55657889 GTTGGCCTTG
Statistics
Matches: 147, Mismatches: 16, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
93 1 0.01
94 78 0.53
95 17 0.12
96 20 0.14
97 3 0.02
98 27 0.18
99 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (94 bp):
ACTAGTGTAAGACATGTCTGGGACATGCATCGGCCCGATATGTAGAGCCAATGTAAGACCATGTC
TGGGACATGGCATCGGCACTATAGACGAG
Found at i:55663842 original size:40 final size:40
Alignment explanation
Indices: 55663779--55663904 Score: 171
Period size: 40 Copynumber: 3.1 Consensus size: 40
55663769 CTTAATTTGG
*
55663779 ACCTGATAATATCTCGATCGAAGGTCATTTTTTGAAAACA
1 ACCTTATAATATCTCGATCGAAGGTCATTTTTTGAAAACA
* * * *
55663819 ACCTTATAATATCCCGATTGAAGGTTAGTTTTTGAAAACA
1 ACCTTATAATATCTCGATCGAAGGTCATTTTTTGAAAACA
* * * *
55663859 ACTTTATAATATCTTGGTCAAAGGTCATTTTTTGAAAACA
1 ACCTTATAATATCTCGATCGAAGGTCATTTTTTGAAAACA
55663899 ACCTTA
1 ACCTTA
55663905 CTCTCTTGAG
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (40 bp):
ACCTTATAATATCTCGATCGAAGGTCATTTTTTGAAAACA
Found at i:55676102 original size:15 final size:15
Alignment explanation
Indices: 55676082--55676138 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
55676072 CGATGAATTT
55676082 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
55676097 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
55676112 ATTGAATTTATATTG
1 ATTGAATTTATATTG
55676127 ATTGAA-TTATAT
1 ATTGAATTTATAT
55676139 AATATATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:55676569 original size:21 final size:23
Alignment explanation
Indices: 55676510--55676574 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
55676500 GCTTTACTGA
55676510 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
* **
55676533 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACTTTATGTGTCGTATT
*
55676555 T-AGGCACTTTATGTGCCGTA
1 TCAGGCACTTTATGTGTCGTA
55676575 CTCTGATCAG
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 14 0.41
22 3 0.09
23 17 0.50
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:55678646 original size:45 final size:45
Alignment explanation
Indices: 55678582--55678672 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
55678572 CACGCTTGTC
*
55678582 TACTAGGTGTCTTCACTTGTGTCAGCAGAAATACATTCGTGATCT
1 TACTAGATGTCTTCACTTGTGTCAGCAGAAATACATTCGTGATCT
55678627 TACTAGATGTCTTCACTTGTGTCAGCAGAAATACATTCGTGATCT
1 TACTAGATGTCTTCACTTGTGTCAGCAGAAATACATTCGTGATCT
55678672 T
1 T
55678673 CTTGCTCGAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (45 bp):
TACTAGATGTCTTCACTTGTGTCAGCAGAAATACATTCGTGATCT
Found at i:55680473 original size:46 final size:46
Alignment explanation
Indices: 55680423--55680594 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
55680413 TGAGCATCCA
* *
55680423 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGTCCG
* * *
55680469 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CGTCCG
* *
55680516 AACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAACG-CCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGTCC-G
* * *
55680562 AGCTGGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55680595 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 56 0.53
47 29 0.28
48 3 0.03
50 6 0.06
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGTCCG
Found at i:55680575 original size:93 final size:93
Alignment explanation
Indices: 55680416--55680587 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
55680406 GGATGGTTGA
* *
55680416 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAGT
55680481 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* ** * *
55680509 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAACG-CCTGAGCTGGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCC-GAACTCGTTGAG
55680573 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
55680588 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55683574 original size:15 final size:15
Alignment explanation
Indices: 55683538--55683575 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
55683528 TCTTGGGTTG
*
55683538 CTTTATCCTGGATCT
1 CTTTATTCTGGATCT
55683553 CTTTATTCTGGAAT-T
1 CTTTATTCTGG-ATCT
55683568 CTTTATTC
1 CTTTATTC
55683576 GGTTTTCTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 19 0.90
16 2 0.10
ACGTcount: A:0.16, C:0.21, G:0.11, T:0.53
Consensus pattern (15 bp):
CTTTATTCTGGATCT
Found at i:55686024 original size:46 final size:45
Alignment explanation
Indices: 55685974--55686149 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
55685964 TGGTTGAGCA
55685974 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA-C
* * *
55686020 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--C
* *
55686066 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAAC
1 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAC
* * * *
55686112 GCCTGAGCTCGTTGAGTTAAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55686150 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 61 0.56
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAC
Found at i:55686135 original size:93 final size:93
Alignment explanation
Indices: 55685971--55686142 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
55685961 GGATGGTTGA
* *
55685971 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATCTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATCGCCGAACTCGTTGAGT
*
55686036 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TAAGTCCGAGTTCGTGAGATGTAACTAG
* *
55686064 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAA-CGCCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATCGCC-GAACTCGTTGAG
55686128 TTAAGTCCGAGTTCG
65 TTAAGTCCGAGTTCG
55686143 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 3 0.04
93 70 0.96
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATCGCCGAACTCGTTGAGT
TAAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55695968 original size:8 final size:8
Alignment explanation
Indices: 55695952--55695987 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
55695942 CTTAAAGGGC
55695952 AAAAA-AA
1 AAAAACAA
55695959 AAAAACAA
1 AAAAACAA
55695967 AAAAACAA
1 AAAAACAA
55695975 AAAAACAA
1 AAAAACAA
55695983 AAAAA
1 AAAAA
55695988 GTAATGACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 5 0.18
8 23 0.82
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAACAA
Found at i:55696749 original size:21 final size:22
Alignment explanation
Indices: 55696709--55696750 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
55696699 ATTAGAAAAA
*
55696709 CTTATAAAAAAATTCATAAATG
1 CTTATAAAAAAATCCATAAATG
*
55696731 CTTATAAATAAA-CCATAAAT
1 CTTATAAAAAAATCCATAAAT
55696751 AATATTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (22 bp):
CTTATAAAAAAATCCATAAATG
Found at i:55696789 original size:10 final size:10
Alignment explanation
Indices: 55696776--55696818 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
55696766 ATGAACGTAT
55696776 AAAACTTATA
1 AAAACTTATA
55696786 AAAACTTATA
1 AAAACTTATA
* * *
55696796 AAAAATCACA
1 AAAACTTATA
*
55696806 AAAACCTATA
1 AAAACTTATA
55696816 AAA
1 AAA
55696819 TGTAAAAAAC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.65, C:0.14, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAACTTATA
Found at i:55697535 original size:10 final size:10
Alignment explanation
Indices: 55697522--55697607 Score: 79
Period size: 10 Copynumber: 8.3 Consensus size: 10
55697512 TATATTAAAA
55697522 TTTTATAATT
1 TTTTATAATT
55697532 TTTTATAATT
1 TTTTATAATT
*
55697542 TTATAATATAAGT
1 TT-T--TATAATT
55697555 TTTTAT-ATT
1 TTTTATAATT
55697564 TTTTATAAGTT
1 TTTTATAA-TT
55697575 TTTTAATGAATT
1 TTTT-AT-AATT
55697587 TTTT-T-ATT
1 TTTTATAATT
*
55697595 TTTTATGATT
1 TTTTATAATT
55697605 TTT
1 TTT
55697608 ATAGTTTTAT
Statistics
Matches: 65, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
8 7 0.11
9 9 0.14
10 23 0.35
11 7 0.11
12 9 0.14
13 10 0.15
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (10 bp):
TTTTATAATT
Found at i:55697543 original size:9 final size:9
Alignment explanation
Indices: 55697522--55697615 Score: 54
Period size: 9 Copynumber: 10.3 Consensus size: 9
55697512 TATATTAAAA
55697522 TTTTATAATT
1 TTTTATAA-T
55697532 TTTTATAA-
1 TTTTATAAT
55697540 TTTTATAA-
1 TTTTATAAT
55697548 ---TATAAGT
1 TTTTATAA-T
*
55697555 TTTTATATT
1 TTTTATAAT
55697564 TTTTATAAGTT
1 TTTTATAA--T
55697575 TTTTAATGAAT
1 TTTT-AT-AAT
* *
55697586 TTTTTTATT
1 TTTTATAAT
*
55697595 TTTTATGAT
1 TTTTATAAT
*
55697604 TTTTATAGT
1 TTTTATAAT
55697613 TTT
1 TTT
55697616 ATGAATATTT
Statistics
Matches: 66, Mismatches: 9, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
5 5 0.08
8 8 0.12
9 26 0.39
10 13 0.20
11 10 0.15
12 2 0.03
13 2 0.03
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (9 bp):
TTTTATAAT
Found at i:55697551 original size:23 final size:24
Alignment explanation
Indices: 55697525--55697571 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
55697515 ATTAAAATTT
*
55697525 TATAATTTTTTATA-ATTTTATAA
1 TATAAGTTTTTATATATTTTATAA
*
55697548 TATAAGTTTTTATATTTTTTATAA
1 TATAAGTTTTTATATATTTTATAA
55697572 GTTTTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
TATAAGTTTTTATATATTTTATAA
Found at i:55697567 original size:33 final size:30
Alignment explanation
Indices: 55697522--55697606 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 30
55697512 TATATTAAAA
*
55697522 TTTTATAATTTTTTATAATTTTATAATATAAGT
1 TTTTAT-ATTTTTTATAATTTTATAAT-GAA-T
*
55697555 TTTTATATTTTTTATAAGTTTTTTAATGAAT
1 TTTTATATTTTTTATAA-TTTTATAATGAAT
* *
55697586 TTTTTTATTTTTTATGATTTT
1 TTTTATATTTTTTATAATTTT
55697607 TATAGTTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
30 4 0.09
31 16 0.34
32 13 0.28
33 14 0.30
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (30 bp):
TTTTATATTTTTTATAATTTTATAATGAAT
Found at i:55697596 original size:19 final size:18
Alignment explanation
Indices: 55697574--55697627 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
55697564 TTTTATAAGT
*
55697574 TTTTTAATGAATTTTTTTA
1 TTTTT-ATGAATTTTTATA
55697593 TTTTTTATG-ATTTTTATA
1 -TTTTTATGAATTTTTATA
* *
55697611 GTTTTATGAATATTTAT
1 TTTTTATGAATTTTTAT
55697628 GAGGAAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 7 0.23
18 15 0.50
19 3 0.10
20 5 0.17
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (18 bp):
TTTTTATGAATTTTTATA
Found at i:55705786 original size:40 final size:40
Alignment explanation
Indices: 55705702--55705925 Score: 217
Period size: 40 Copynumber: 5.7 Consensus size: 40
55705692 TTGAATGCTG
* * * *
55705702 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
**
55705742 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
*
55705781 TTCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
** * *
55705822 TCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
55705862 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
55705901 ACCGGGCTATGTCCCG-AGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
55705926 AACGAGGAGC
Statistics
Matches: 158, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
38 5 0.03
39 33 0.21
40 106 0.67
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:55713767 original size:40 final size:40
Alignment explanation
Indices: 55713644--55713867 Score: 226
Period size: 40 Copynumber: 5.7 Consensus size: 40
55713634 TTGAATGCTG
* * * *
55713644 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
**
55713684 TCCGGACTAAGAT-CCGAAGGCATTT-TGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
* *
55713722 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
55713763 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
55713803 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
55713842 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
55713868 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 54 0.34
40 93 0.59
41 8 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:55713780 original size:79 final size:78
Alignment explanation
Indices: 55713697--55713866 Score: 216
Period size: 79 Copynumber: 2.2 Consensus size: 78
55713687 GGACTAAGAT
*
55713697 CCGAAGGCATTTTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTA
1 CCGAAGGCATTTTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTA
* *
55713761 AATCCGGGTTAAGTC
64 AAACCGGGCTAAGTC
* * * * * *
55713776 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATT-TTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
55713841 AACCGGGCTATGTC
65 AACCGGGCTAAGTC
55713855 CCGAAGGCATTT
1 CCGAAGGCATTT
55713867 GAACGAGGAG
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
79 48 0.62
80 27 0.35
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
ACCGGGCTAAGTC
Found at i:55713885 original size:79 final size:80
Alignment explanation
Indices: 55713723--55713900 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
55713713 AGATACAAAT
* * * *
55713723 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
55713788 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
55713803 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
55713867 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
55713882 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
55713901 TATGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:55735092 original size:40 final size:40
Alignment explanation
Indices: 55735008--55735232 Score: 235
Period size: 40 Copynumber: 5.7 Consensus size: 40
55734998 TTGAATGCTG
* * * *
55735008 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
**
55735048 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
*
55735087 TTCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
55735128 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
55735168 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
55735207 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
55735233 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
39 37 0.23
40 110 0.68
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:55735250 original size:79 final size:80
Alignment explanation
Indices: 55735088--55735265 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
55735078 AGATACAAAT
* * *
55735088 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
55735153 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
55735168 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
55735232 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
55735247 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
55735266 TACGTGATTT
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
78 15 0.18
79 48 0.59
80 19 0.23
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:55743093 original size:80 final size:79
Alignment explanation
Indices: 55743008--55743179 Score: 202
Period size: 79 Copynumber: 2.2 Consensus size: 79
55742998 GGACTAAGAT
* *
55743008 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCAGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
55743072 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
55743088 CCGAAGGCATTCGTGCGAGTTATTAAATCCAGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCAGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
55743153 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
*
55743167 CCGAGGGCATTTG
1 CCGAAGGCATTTG
55743180 AACGAGGAGC
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 37 0.48
80 37 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCAGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:55743165 original size:39 final size:39
Alignment explanation
Indices: 55743008--55743177 Score: 189
Period size: 40 Copynumber: 4.3 Consensus size: 39
55742998 GGACTAAGAT
* * *
55743008 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGTTACTAAA-TCCGGGTTATGTC
* * *
55743048 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
* *
55743088 CCGAAGGCATTCGTGCGAGTTATTAAATCCAGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* * *
55743128 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
*
55743167 CCGAGGGCATT
1 CCGAAGGCATT
55743178 TGAACGAGGA
Statistics
Matches: 114, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 36 0.32
40 74 0.65
41 4 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:55750247 original size:49 final size:49
Alignment explanation
Indices: 55750192--55750429 Score: 230
Period size: 49 Copynumber: 4.8 Consensus size: 49
55750182 TAGCCAAAGC
55750192 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* *
55750241 TATCTGGTA-G-ATGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAAC
1 TATCTGGTACGCA--TAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
* * * * * * * * * *
55750291 CAACTGATACACGTAGCAGCCTGTACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-T
* * *
55750342 TATCAGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACTAAT
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
55750391 AAT-TCAGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCT-GGTACGCATAGTAGCCTGCACTTAGTACTACACA
55750430 CGTGACCTAA
Statistics
Matches: 151, Mismatches: 30, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
47 1 0.01
48 1 0.01
49 74 0.49
50 41 0.27
51 34 0.23
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:55750579 original size:89 final size:89
Alignment explanation
Indices: 55750428--55750603 Score: 334
Period size: 89 Copynumber: 2.0 Consensus size: 89
55750418 TAGTACTACA
55750428 CACGTGACCTAACAATAGATCATTCGTATCGTTTTTATTCCGAAGGCTCAACCGGGAAATTCCTC
1 CACGTGACCTAACAATAGATCATTCGTATCGTTTTTATTCCGAAGGCTCAACCGGGAAATTCCTC
55750493 ACTTTCCAACATGTTACAATTTGT
66 ACTTTCCAACATGTTACAATTTGT
* *
55750517 CACGTGACCTAACAATAGATCATTCGTATCGTTTTTATTCTGAAGGCTCAATCGGGAAATTCCTC
1 CACGTGACCTAACAATAGATCATTCGTATCGTTTTTATTCCGAAGGCTCAACCGGGAAATTCCTC
55750582 ACTTTCCAACATGTTACAATTT
66 ACTTTCCAACATGTTACAATTT
55750604 ATTCATAGTC
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 85 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (89 bp):
CACGTGACCTAACAATAGATCATTCGTATCGTTTTTATTCCGAAGGCTCAACCGGGAAATTCCTC
ACTTTCCAACATGTTACAATTTGT
Found at i:55755359 original size:49 final size:50
Alignment explanation
Indices: 55755298--55755530 Score: 247
Period size: 49 Copynumber: 4.7 Consensus size: 50
55755288 AAAGCTATCT
* *
55755298 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA-TTATCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAACTAATCC
* * * * *
55755347 GGTACACGTAGTAACCTGCACTTAGTACTACACATGTGACCTAACCAAT-T
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACTAATCC
* * * * * * *
55755397 GATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAACTAATCC
* * *
55755448 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCCA-TAATTC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAACTAATCC
* * *
55755497 GGTACACGTAGTAGCCTACACTTAGTACTGCACA
1 GGTACACATAGTAGCCTGCACTTAGTACTACACA
55755531 CGTGACCTAA
Statistics
Matches: 151, Mismatches: 29, Indels: 8
0.80 0.15 0.04
Matches are distributed among these distances:
49 70 0.46
50 43 0.28
51 38 0.25
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAACTAATCC
Found at i:55755477 original size:101 final size:98
Alignment explanation
Indices: 55755304--55755537 Score: 299
Period size: 101 Copynumber: 2.4 Consensus size: 98
55755294 ATCTGGTACG
* * *
55755304 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAACCTGCACT
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAACCTGCACT
*
55755369 TAGTACTACACATGTGACCTAACCAATT-GATACA
66 TAGTACTACACATGCGACC-AA-CAATTCGATACA
* * * *
55755403 CATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATAGTAACCTGCA
* * *
55755468 CTTAGTACTACACATGCGACCCATAATTCGGTACA
64 CTTAGTACTACACATGCGACCAACAATTCGATACA
* * *
55755503 CGTAGTAGCCTACACTTAGTACTGCACACGTGACC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACC
55755538 TAACAATAGA
Statistics
Matches: 117, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
99 36 0.31
100 39 0.33
101 42 0.36
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (98 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAACCTGCACT
TAGTACTACACATGCGACCAACAATTCGATACA
Found at i:55780079 original size:15 final size:15
Alignment explanation
Indices: 55780059--55780087 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
55780049 AAAGTATAAG
55780059 CCCTTAGTGAGATCA
1 CCCTTAGTGAGATCA
55780074 CCCTTAGTGAGATC
1 CCCTTAGTGAGATC
55780088 CTCTTTCTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (15 bp):
CCCTTAGTGAGATCA
Found at i:55790253 original size:24 final size:27
Alignment explanation
Indices: 55790225--55790274 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 27
55790215 TTAACAAGCA
55790225 TAAACAATAATA-A-GA-ATAATAATG
1 TAAACAATAATATAGGAGATAATAATG
*
55790249 TAAACGATAATATAGGAGATAATAAT
1 TAAACAATAATATAGGAGATAATAAT
55790275 AATAACATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 11 0.50
25 1 0.05
26 2 0.09
27 8 0.36
ACGTcount: A:0.58, C:0.04, G:0.12, T:0.26
Consensus pattern (27 bp):
TAAACAATAATATAGGAGATAATAATG
Found at i:55790407 original size:17 final size:17
Alignment explanation
Indices: 55790360--55790408 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
55790350 ATGCAAAATA
55790360 AATAA-AAATAAAAAGG
1 AATAATAAATAAAAAGG
*
55790376 AATAATAAA-AGAAAA-T
1 AATAATAAATA-AAAAGG
55790392 AATAAATAAATAAAAAG
1 AAT-AATAAATAAAAAG
55790409 AATGTGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
16 9 0.33
17 17 0.63
18 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (17 bp):
AATAATAAATAAAAAGG
Found at i:55792014 original size:44 final size:44
Alignment explanation
Indices: 55791950--55792072 Score: 147
Period size: 44 Copynumber: 2.8 Consensus size: 44
55791940 CCACTGCAAA
* * * * *
55791950 TTCATGGAGATAAGACTTGTAGCTTCGATTTATTCCAATGTAAT
1 TTCAAGGAGAAAAGATTTGTAGCTTCGATCTACTCCAATGTAAT
* * *
55791994 TTTAGGGAGAAAAGATTTGTAGCTTCAATCTACTCCAATGTAAT
1 TTCAAGGAGAAAAGATTTGTAGCTTCGATCTACTCCAATGTAAT
* * *
55792038 TTCAAAGAGAAGAGGTTTGTAGCTTCGATCTACTC
1 TTCAAGGAGAAAAGATTTGTAGCTTCGATCTACTC
55792073 TGCTGGAACT
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 66 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.35
Consensus pattern (44 bp):
TTCAAGGAGAAAAGATTTGTAGCTTCGATCTACTCCAATGTAAT
Found at i:55792243 original size:45 final size:45
Alignment explanation
Indices: 55792159--55792564 Score: 300
Period size: 45 Copynumber: 8.9 Consensus size: 45
55792149 TTGTAGCTTA
* * *
55792159 AATCTGTTTCACTGCAACTTCAGGG-GAATAAGATCTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAG-ATAAGATTTGCTATCTTC
* * *
55792204 AACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGCTATCCTT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT-CTTC
* * * * * * *
55792249 AGTCTACTCCACTGTAACTTCAAGGAGATAAGACTTG-TAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
* * * * *
55792293 AATCTACTCCACTGGAACTTCAGGAAGATAAGATTCGCCTTAACTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-C-T-A----T--CTTC
* * * * * * * *
55792347 AATCCGTTCCATTGCAACGTCAGAGAAACAAGATTTGCCATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
* * *
55792392 AATCTGCTCCACTGCAACTTTAGGGAGATAAGACTTG-TAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
* * * * *
55792436 CACCTGCTCTACTGCAACTTCAGGGAGATGAGGTTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
* * * * *
55792481 AATCTGCTCCACTGCGACTTTAGGGAGATAAGACTTG-TAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
* * *
55792525 AATCTGCTCCAATGCAACTTCAGGGAGACAAGATTAGCTA
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTA
55792565 GGGTGGCTTA
Statistics
Matches: 276, Mismatches: 70, Indels: 30
0.73 0.19 0.08
Matches are distributed among these distances:
43 3 0.01
44 104 0.38
45 130 0.47
46 4 0.01
47 2 0.01
48 1 0.00
51 1 0.00
53 1 0.00
54 30 0.11
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
Found at i:55792444 original size:44 final size:44
Alignment explanation
Indices: 55792388--55792557 Score: 205
Period size: 44 Copynumber: 3.8 Consensus size: 44
55792378 GATTTGCCAT
*
55792388 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAA
* * * * ** *
55792432 CTTCCACCTGCTCTACTGCAACTTCAGGGAGATGAGGTTTGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAA
* * *
55792477 CTTCAATCTGCTCCACTGCGACTTTAGGGAGATAAGACTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAA
* * *
55792521 CTTTAATCTGCTCCAATGCAACTTCAGGGAGACAAGA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
55792558 TTAGCTAGGG
Statistics
Matches: 103, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
44 68 0.66
45 35 0.34
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAA
Found at i:55792489 original size:89 final size:89
Alignment explanation
Indices: 55792380--55792552 Score: 274
Period size: 89 Copynumber: 1.9 Consensus size: 89
55792370 AGAAACAAGA
*
55792380 TTTGCCATCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCCACCTGCTC
1 TTTGCCATCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGCTC
* *
55792445 TACTGCAACTTCAGGGAGATGAGG
66 CAATGCAACTTCAGGGAGATGAGG
* * * * *
55792469 TTTGCTATCTTCAATCTGCTCCACTGCGACTTTAGGGAGATAAGACTTGTAGCTTTAATCTGCTC
1 TTTGCCATCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGCTC
55792534 CAATGCAACTTCAGGGAGA
66 CAATGCAACTTCAGGGAGA
55792553 CAAGATTAGC
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 76 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (89 bp):
TTTGCCATCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGCTC
CAATGCAACTTCAGGGAGATGAGG
Found at i:55792493 original size:188 final size:188
Alignment explanation
Indices: 55792149--55792513 Score: 405
Period size: 188 Copynumber: 1.9 Consensus size: 188
55792139 GATTTGTAAT
* * * * * * *
55792149 TTGTAGCTTAAATCTGTTTCACTGCAACTTCAGGGGAATAAGATCTGCTATCTTCAACCTGCTCC
1 TTGTAGCTTAAATCCGTTCCACTGCAACGTCAGAGAAACAAGATCTGCCATCTTCAACCTGCTCC
** * * *
55792214 ACTACAACTTCAGGGAGATAAGGTTTGCTATCCTTAGTCTACTCCACTGTAACTTCAAGGAGATA
66 ACTACAACTTCAGGGAGATAAGACTTGCTATACTTAGCCTACTCCACTGCAACTTCAAGGAGATA
*
55792279 AGACTTGTAGCTTTAATCTACTCCACTG-GAACTTCAGGAAGATAAGATTCGCCTTAAC
131 AGACTTGTAGCTTCAATCTACTCCACTGCG-ACTTCAGGAAGATAAGATTCGCCTTAAC
* * * *
55792337 TTGTAGCTTTAATCCGTTCCATTGCAACGTCAGAGAAACAAGATTTGCCATCTTCAATCTGCTCC
1 TTGTAGCTTAAATCCGTTCCACTGCAACGTCAGAGAAACAAGATCTGCCATCTTCAACCTGCTCC
* * * * *
55792402 ACTGCAACTTTAGGGAGATAAGACTTG-TA-ACTTCCA-CCTGCTCTACTGCAACTTCAGGGAGA
66 ACTACAACTTCAGGGAGATAAGACTTGCTATACTT--AGCCTACTCCACTGCAACTTCAAGGAGA
* ** * * * *
55792464 TGAGGTTTGCTATCTTCAATCTGCTCCACTGCGACTTTAGGGAGATAAGA
129 TAAGACTTG-TAGCTTCAATCTACTCCACTGCGACTTCAGGAAGATAAGA
55792514 CTTGTAGCTT
Statistics
Matches: 144, Mismatches: 29, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
186 3 0.02
187 29 0.20
188 111 0.77
189 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (188 bp):
TTGTAGCTTAAATCCGTTCCACTGCAACGTCAGAGAAACAAGATCTGCCATCTTCAACCTGCTCC
ACTACAACTTCAGGGAGATAAGACTTGCTATACTTAGCCTACTCCACTGCAACTTCAAGGAGATA
AGACTTGTAGCTTCAATCTACTCCACTGCGACTTCAGGAAGATAAGATTCGCCTTAAC
Found at i:55798817 original size:18 final size:18
Alignment explanation
Indices: 55798794--55798830 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
55798784 AACCAAACTA
55798794 AAAGATCCAGGAAGTTTT
1 AAAGATCCAGGAAGTTTT
55798812 AAAGATCCAGGAAGTTTT
1 AAAGATCCAGGAAGTTTT
55798830 A
1 A
55798831 CTATTCCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.27
Consensus pattern (18 bp):
AAAGATCCAGGAAGTTTT
Found at i:55812289 original size:13 final size:13
Alignment explanation
Indices: 55812271--55812295 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55812261 TAATGGTATA
55812271 TTGAATCCATGAT
1 TTGAATCCATGAT
55812284 TTGAATCCATGA
1 TTGAATCCATGA
55812296 AAATTTAGTA
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:55813863 original size:47 final size:47
Alignment explanation
Indices: 55813809--55814399 Score: 958
Period size: 47 Copynumber: 12.6 Consensus size: 47
55813799 TATTTGAATA
*
55813809 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
55813856 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
55813903 AATGTGCAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
55813949 AATGTG-AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
55813995 AATGTGAAAGTGTATATATGTGATAAGGCCTAA-GAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATG-GCCGATGTGATG
55814042 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
55814091 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
55814138 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
55814185 AATGTGAAAGTGTATATATGTGATAAGGTCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
55814232 AATGTGAAAGTGTATATATATGTGACAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
55814281 AATGTGAAA--GTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
55814326 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
55814373 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
55814400 TCCCGAAGGG
Statistics
Matches: 510, Mismatches: 24, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
45 69 0.14
46 36 0.07
47 319 0.63
49 85 0.17
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:55817319 original size:22 final size:23
Alignment explanation
Indices: 55817288--55817336 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
55817278 AATAAGTAAA
* *
55817288 AAAATAAAAAGGCATAATAA-AAT
1 AAAATAAAAAAGAATAA-AATAAT
55817311 AAAAT-AAAAAGAATAAAATAAT
1 AAAATAAAAAAGAATAAAATAAT
55817333 AAAA
1 AAAA
55817337 AAGAATGTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 16 0.70
23 5 0.22
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (23 bp):
AAAATAAAAAAGAATAAAATAAT
Found at i:55817325 original size:19 final size:18
Alignment explanation
Indices: 55817303--55817342 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
55817293 AAAAAGGCAT
55817303 AATAAAATAAAATAAAAAG
1 AATAAAATAAAA-AAAAAG
*
55817322 AATAAAATAATAAAAAAG
1 AATAAAATAAAAAAAAAG
55817340 AAT
1 AAT
55817343 GTGAAAACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (18 bp):
AATAAAATAAAAAAAAAG
Found at i:55817337 original size:23 final size:24
Alignment explanation
Indices: 55817287--55817337 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
55817277 AAATAAGTAA
*
55817287 AAAAATAAAAAGGCATAATAAAAT
1 AAAAATAAAAAGGAATAATAAAAT
55817311 -AAAATAAAAA-GAATAA-AATAAT
1 AAAAATAAAAAGGAATAATAA-AAT
55817333 AAAAA
1 AAAAA
55817338 AGAATGTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 2 0.08
22 8 0.33
23 14 0.58
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (24 bp):
AAAAATAAAAAGGAATAATAAAAT
Found at i:55818681 original size:21 final size:23
Alignment explanation
Indices: 55818650--55818695 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
55818640 ATTGTAAAAT
*
55818650 TTGGCTTGTAATTGGGTTT-TAA
1 TTGGCTTGTAAATGGGTTTGTAA
55818672 TTGG-TTGTAAATGGGTTTGTAA
1 TTGGCTTGTAAATGGGTTTGTAA
55818694 TT
1 TT
55818696 TGTTTGTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.20, C:0.02, G:0.28, T:0.50
Consensus pattern (23 bp):
TTGGCTTGTAAATGGGTTTGTAA
Found at i:55835368 original size:76 final size:75
Alignment explanation
Indices: 55835224--55835455 Score: 221
Period size: 76 Copynumber: 3.1 Consensus size: 75
55835214 ACAACAGGTT
* ** ** * * *
55835224 TGCCTTGTACTAGTCAGATAAACTGACAATGTTTTGCGCCCAGTGCTAGTCAAATAAACTGACTA
1 TGCC-TGTACTAGTCGGATAAACCAACAATGAGTTGCGCCCAGTGCTAGTCGAGTAAACTGACGA
55835289 TATCAAATGTG
65 TATCAAATGTG
* * * *
55835300 TGCCTAGTACTAGTCGGATAAACCAACAATGAGTTGTGCCCAGAGCTAGTCGAGTACACCGACGA
1 TGCCT-GTACTAGTCGGATAAACCAACAATGAGTTGCGCCCAGTGCTAGTCGAGTAAACTGACGA
**
55835365 TATCAAAAATG
65 TATCAAATGTG
* * ** * * * * *
55835376 TGCCCTGCACTAGTTGGATGTACCAATAATGAGTTGCGTCCAGTGCTAGTTGGGTAAACTGATGA
1 TG-CCTGTACTAGTCGGATAAACCAACAATGAGTTGCGCCCAGTGCTAGTCGAGTAAACTGACGA
*
55835441 TATCGAATGTG
65 TATCAAATGTG
55835452 TGCC
1 TGCC
55835456 CAACACTAGT
Statistics
Matches: 124, Mismatches: 30, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
75 3 0.02
76 118 0.95
77 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (75 bp):
TGCCTGTACTAGTCGGATAAACCAACAATGAGTTGCGCCCAGTGCTAGTCGAGTAAACTGACGAT
ATCAAATGTG
Found at i:55835456 original size:76 final size:76
Alignment explanation
Indices: 55835257--55835501 Score: 235
Period size: 76 Copynumber: 3.2 Consensus size: 76
55835247 TGACAATGTT
* * * * * *
55835257 TTGCGCCCAGTGCTAGTCAAATAAACTGACT-ATATCAAATGTGTG-CCTAGTACTAGTCGGATA
1 TTGCGCCCAGAGCTAGTCGAGTAAACTGA-TGATATCAAATGTGTGCCCT-GCACTAGTTGGATG
* *
55835320 AACCAACAATGAG
64 TACCAATAATGAG
* * * * **
55835333 TTGTGCCCAGAGCTAGTCGAGTACACCGACGATATCAAAAATGTGCCCTGCACTAGTTGGATGTA
1 TTGCGCCCAGAGCTAGTCGAGTAAACTGATGATATCAAATGTGTGCCCTGCACTAGTTGGATGTA
55835398 CCAATAATGAG
66 CCAATAATGAG
* * * * * ** *
55835409 TTGCGTCCAGTGCTAGTTGGGTAAACTGATGATATCGAATGTGTGCCCAACACTAGTTTGATGTA
1 TTGCGCCCAGAGCTAGTCGAGTAAACTGATGATATCAAATGTGTGCCCTGCACTAGTTGGATGTA
55835474 CCAATAATGAG
66 CCAATAATGAG
*
55835485 TTGCACCC-GATGCTAGT
1 TTGCGCCCAGA-GCTAGT
55835502 TGCATAAACT
Statistics
Matches: 135, Mismatches: 31, Indels: 6
0.78 0.18 0.03
Matches are distributed among these distances:
75 1 0.01
76 131 0.97
77 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (76 bp):
TTGCGCCCAGAGCTAGTCGAGTAAACTGATGATATCAAATGTGTGCCCTGCACTAGTTGGATGTA
CCAATAATGAG
Found at i:55839200 original size:150 final size:150
Alignment explanation
Indices: 55838929--55839231 Score: 597
Period size: 150 Copynumber: 2.0 Consensus size: 150
55838919 TGGAAATAAC
55838929 ATAAATTTAGTAAGAAAATCATAGCTCTAAATCTTTTGTAGATACTGTTGCAATTCAGGTCATTC
1 ATAAATTTAGTAAGAAAATCATAGCTCTAAATCTTTTGTAGATACTGTTGCAATTCAGGTCATTC
55838994 ATCAATTAATTCAACAAATATTCTTTTGTATTATTCACATTGTGCATATATATAAATGTCTCAAG
66 ATCAATTAATTCAACAAATATTCTTTTGTATTATTCACATTGTGCATATATATAAATGTCTCAAG
55839059 CCAGAAAACAATTAATGCAT
131 CCAGAAAACAATTAATGCAT
55839079 ATAAATTTAGTAAGAAAATCATAGCTCTAAATCTTTTGTAGATACTGTTGCAATTCAGGTCATTC
1 ATAAATTTAGTAAGAAAATCATAGCTCTAAATCTTTTGTAGATACTGTTGCAATTCAGGTCATTC
*
55839144 ATCAATTAATTCAACTAATATTCTTTTGTATTATTCACATTGTGCATATATATAAATGTCTCAAG
66 ATCAATTAATTCAACAAATATTCTTTTGTATTATTCACATTGTGCATATATATAAATGTCTCAAG
55839209 CCAGAAAACAATTAATGCAT
131 CCAGAAAACAATTAATGCAT
55839229 ATA
1 ATA
55839232 CTATAATATC
Statistics
Matches: 152, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 152 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.37
Consensus pattern (150 bp):
ATAAATTTAGTAAGAAAATCATAGCTCTAAATCTTTTGTAGATACTGTTGCAATTCAGGTCATTC
ATCAATTAATTCAACAAATATTCTTTTGTATTATTCACATTGTGCATATATATAAATGTCTCAAG
CCAGAAAACAATTAATGCAT
Found at i:55846337 original size:76 final size:76
Alignment explanation
Indices: 55846234--55846446 Score: 275
Period size: 76 Copynumber: 2.8 Consensus size: 76
55846224 ACAATTTTTT
* ** *
55846234 TGTGCCCAGCACTAGTTAGATAAACCAATAAT-AGGTTGCGCCCAGTGCTAGTCGGATAAACTGA
1 TGTGCCCAGCACTAGTTGGATGTACCAATAATGA-GTTGCTCCCAGTGCTAGTCGGATAAACTGA
*
55846298 CGATATCATATG
65 CGATATCAAATG
* * ** * * *
55846310 TGTGTCGAGCACTAGTTGGATGTACCAACGATGAGTTGCTCCTAGTGCTAGTCGGGTAAATTGAC
1 TGTGCCCAGCACTAGTTGGATGTACCAATAATGAGTTGCTCCCAGTGCTAGTCGGATAAACTGAC
55846375 GATATCAAATG
66 GATATCAAATG
* * *
55846386 TGTGCCCAGCACTAGTTGGATGTACCAATAATGAGTTGATCCCAGCGCTTGTCGGATAAAC
1 TGTGCCCAGCACTAGTTGGATGTACCAATAATGAGTTGCTCCCAGTGCTAGTCGGATAAAC
55846447 CGAAAAATAC
Statistics
Matches: 114, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
76 113 0.99
77 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (76 bp):
TGTGCCCAGCACTAGTTGGATGTACCAATAATGAGTTGCTCCCAGTGCTAGTCGGATAAACTGAC
GATATCAAATG
Found at i:55855858 original size:20 final size:21
Alignment explanation
Indices: 55855825--55855863 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
55855815 ATTAAATATC
55855825 TAAAATTCTAAAAA-AATCCT
1 TAAAATTCTAAAAACAATCCT
55855845 TAAAATT-TAGAAAACAATC
1 TAAAATTCTA-AAAACAATC
55855864 TAATTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.12
20 11 0.65
21 4 0.24
ACGTcount: A:0.56, C:0.13, G:0.03, T:0.28
Consensus pattern (21 bp):
TAAAATTCTAAAAACAATCCT
Found at i:55861617 original size:47 final size:47
Alignment explanation
Indices: 55861551--55862169 Score: 995
Period size: 47 Copynumber: 13.1 Consensus size: 47
55861541 GAAATGATAG
*
55861551 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
55861598 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
55861645 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
55861692 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA--TGTGA
*
55861741 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
55861788 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
55861835 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * *
55861884 TAAGGCCCAATGGCCGATATGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
55861931 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
55861978 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
55862025 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
55862072 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * * *
55862119 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
55862166 TAAG
1 TAAG
55862170 TCCCGAAGGG
Statistics
Matches: 539, Mismatches: 29, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
47 449 0.83
49 90 0.17
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:55861807 original size:143 final size:141
Alignment explanation
Indices: 55861551--55862169 Score: 1031
Period size: 143 Copynumber: 4.4 Consensus size: 141
55861541 GAAATGATAG
*
55861551 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
55861616 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
55861681 TATATATGTGA
131 TATATATGTGA
*
55861692 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGTGATAAGGCCTAATAGCCG
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA--TGTGATAAGGCCTAATGGCCG
55861757 ATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
64 ATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
55861822 TGTATATATGTGA
129 TGTATATATGTGA
*
55861835 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCCAATGGCCG
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
55861900 ATATGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
64 ATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
*
55861965 TGTATATGTGTGA
129 TGTATATATGTGA
*
55861978 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* *
55862043 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
55862108 TATATATGTGA
131 TATATATGTGA
*** * * * * * * * *
55862119 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
55862170 TCCCGAAGGG
Statistics
Matches: 450, Mismatches: 24, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
141 179 0.40
143 265 0.59
145 6 0.01
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (141 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
TATATATGTGA
Found at i:55861874 original size:190 final size:190
Alignment explanation
Indices: 55861551--55862117 Score: 1021
Period size: 190 Copynumber: 3.0 Consensus size: 190
55861541 GAAATGATAG
* * *
55861551 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
*
55861616 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
*
55861681 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGTGA
131 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGTGA
55861741 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
55861806 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
* *
55861871 TATATATATGTGATAAGGCCCAATGGCCGATATGATGAATGTGAAAGTG--TATATGTGTGA
131 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGTGA
55861931 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
* *
55861996 GTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
55862061 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
131 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
55862118 ACGGGGCCGA
Statistics
Matches: 362, Mismatches: 11, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
188 45 0.12
190 273 0.75
192 44 0.12
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (190 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGTGA
Found at i:55862357 original size:37 final size:37
Alignment explanation
Indices: 55862288--55862366 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
55862278 CCGAGCTCTA
* * *
55862288 AAGACCCGATGACTACGTGTGGGAATTTTGTCCGGGT
1 AAGACCCGATAACTACGAGTGGGAATTATGTCCGGGT
*
55862325 AAGACCCGATAACTTCGAG-GGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGAGTGGGA-ATTATGTCCGGGT
55862362 AAGAC
1 AAGAC
55862367 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 4 0.11
37 33 0.89
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.23
Consensus pattern (37 bp):
AAGACCCGATAACTACGAGTGGGAATTATGTCCGGGT
Found at i:55868675 original size:7 final size:7
Alignment explanation
Indices: 55868663--55868693 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
55868653 AGTAAAAAAA
55868663 TTTACAT
1 TTTACAT
55868670 TTTACAT
1 TTTACAT
55868677 TTTACAT
1 TTTACAT
55868684 TTTACAT
1 TTTACAT
55868691 TTT
1 TTT
55868694 TCAATTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTACAT
Found at i:55870081 original size:22 final size:22
Alignment explanation
Indices: 55870048--55870090 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
55870038 GATAAAAATT
**
55870048 ATTATGATTTTTTTAATTTTTA
1 ATTATGATTTTTAGAATTTTTA
55870070 ATTAT-ATATTTTAGAATTTTT
1 ATTATGAT-TTTTAGAATTTTT
55870091 TAATATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (22 bp):
ATTATGATTTTTAGAATTTTTA
Found at i:55883986 original size:23 final size:24
Alignment explanation
Indices: 55883954--55883999 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
55883944 AGAGTTAAAC
55883954 AAAATGTT-AAATTTTTATTTTTT
1 AAAATGTTAAAATTTTTATTTTTT
*
55883977 AAAATTTTAAAATTTTTATTTTT
1 AAAATGTTAAAATTTTTATTTTT
55884000 AGCTTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAAATGTTAAAATTTTTATTTTTT
Found at i:55884000 original size:23 final size:23
Alignment explanation
Indices: 55883954--55883999 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
55883944 AGAGTTAAAC
*
55883954 AAAATGTTAAATTTTTATTTTTT
1 AAAATGTTAAAATTTTATTTTTT
*
55883977 AAAATTTTAAAATTTTTATTTTT
1 AAAATGTTAAAA-TTTTATTTTT
55884000 AGCTTATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
AAAATGTTAAAATTTTATTTTTT
Found at i:55884071 original size:28 final size:26
Alignment explanation
Indices: 55884032--55884099 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 26
55884022 AAGTTTCTAG
55884032 ATTTTTAAAATTT-ACCAAGTTTTTTA
1 ATTTTTAAAATTTAACCAA-TTTTTTA
*
55884058 ATTTTCTAGAAATTTAACTAATTTTTT-
1 ATTTT-TA-AAATTTAACCAATTTTTTA
*
55884085 ATTTTTGAATATTTA
1 ATTTTT-AAAATTTA
55884100 TTTATATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
26 12 0.33
27 8 0.22
28 12 0.33
29 4 0.11
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (26 bp):
ATTTTTAAAATTTAACCAATTTTTTA
Found at i:55887517 original size:11 final size:11
Alignment explanation
Indices: 55887502--55887534 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
55887492 TAAAAGTACA
*
55887502 TAAAAAAT-TA
1 TAAAAAATATT
55887512 TAAAAAATATT
1 TAAAAAATATT
55887523 TAAAAAATATT
1 TAAAAAATATT
55887534 T
1 T
55887535 TTTTATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 8 0.38
11 13 0.62
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TAAAAAATATT
Found at i:55887903 original size:21 final size:20
Alignment explanation
Indices: 55887874--55887921 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
55887864 CGATTTGAAT
55887874 TAAAT-TTAAATAATGATAAA
1 TAAATATTAAATAAT-ATAAA
* *
55887894 TATATATTAAATAATATTAA
1 TAAATATTAAATAATATAAA
55887914 TAAATATT
1 TAAATATT
55887922 TTTTATTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
TAAATATTAAATAATATAAA
Found at i:55891704 original size:19 final size:20
Alignment explanation
Indices: 55891665--55891702 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
55891655 TCAAATAAAA
55891665 AGTTTTTTACTTTCATTTTG
1 AGTTTTTTACTTTCATTTTG
55891685 AGTTTTTT-CTTTTCATTT
1 AGTTTTTTAC-TTTCATTT
55891703 GATTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.13, C:0.11, G:0.08, T:0.68
Consensus pattern (20 bp):
AGTTTTTTACTTTCATTTTG
Found at i:55893346 original size:31 final size:31
Alignment explanation
Indices: 55893306--55893374 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
55893296 CATGTGGTGG
*
55893306 TGTGCGTGTGACCCTGTGGGCCACACGAGCA
1 TGTGGGTGTGACCCTGTGGGCCACACGAGCA
**
55893337 TGTGGGTGTGACCCTGTGGGCCACACGAGTG
1 TGTGGGTGTGACCCTGTGGGCCACACGAGCA
55893368 TGTGGGT
1 TGTGGGT
55893375 TTTGGGCCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.13, C:0.23, G:0.41, T:0.23
Consensus pattern (31 bp):
TGTGGGTGTGACCCTGTGGGCCACACGAGCA
Found at i:55893855 original size:13 final size:14
Alignment explanation
Indices: 55893831--55893864 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
55893821 ATGGGGTTAG
*
55893831 GATTCTGTATATCT
1 GATTCTGCATATCT
55893845 G-TTCTGCATATCT
1 GATTCTGCATATCT
55893858 GATTCTG
1 GATTCTG
55893865 TTATTTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (14 bp):
GATTCTGCATATCT
Found at i:55912104 original size:95 final size:97
Alignment explanation
Indices: 55911934--55912162 Score: 365
Period size: 95 Copynumber: 2.4 Consensus size: 97
55911924 AGTGTAAGAT
*
55911934 GCCGATGCCATGTCCCAGACATGGTCTTAC-CTAGCTCTCATATATCGATCTCGATGCCATGTTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA-CAATCTCGATGCCATGTTC
*
55911998 CAAACATGGTCTTACACTAGCTCACATGTCGAG
65 CAAACATGGTCTTACACTAGCTCACATATCGAG
* * *
55912031 GCCGATG-CATGTCCCAAACATGGTCTTACACTAGCTCTCATATA-AATGTCGGTGCCATGTTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATACAATCTCGATGCCATGTTCC
*
55912094 AAACATGGTCTTACACTGGCTCACATATCGAG
66 AAACATGGTCTTACACTAGCTCACATATCGAG
*
55912126 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT
55912163 TGTCATGCAT
Statistics
Matches: 122, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
95 52 0.43
96 49 0.40
97 21 0.17
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (97 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATACAATCTCGATGCCATGTTCC
AAACATGGTCTTACACTAGCTCACATATCGAG
Found at i:55912109 original size:48 final size:48
Alignment explanation
Indices: 55911930--55912162 Score: 265
Period size: 48 Copynumber: 4.9 Consensus size: 48
55911920 CAAAAGTGTA
* * *
55911930 AGATGCCGATGCCATGTCCCAGACATGGTCTTAC-CTAGCTCTCATAT
1 AGATGTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT
* * *
55911977 ATCGATCTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGT
1 A--GATGTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT
* * * *
55912027 CGAGGCCGATG-CATGTCCCAAACATGGTCTTACACTAGCTCTCATAT
1 AGATGTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT
* * * *
55912074 AAATGTCGGTGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAT
1 AGATGTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT
* * *
55912122 CGA-GGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCT
1 AGATGTC-GATGCCATGTCCCAAACATGGTCTTACACTAGCT
55912163 TGTCATGCAT
Statistics
Matches: 153, Mismatches: 28, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
47 42 0.27
48 71 0.46
49 29 0.19
50 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (48 bp):
AGATGTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT
Found at i:55922646 original size:48 final size:48
Alignment explanation
Indices: 55922518--55922868 Score: 382
Period size: 48 Copynumber: 7.3 Consensus size: 48
55922508 AGGGTAAGAT
* *
55922518 GCCGATGCCATGTCCCAAACATGGTCTTACATTAGCTCTCATATATCG-G
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAG--CTCACATATCGAG
* * * *
55922567 TGTCGATGCTATGTTCCAAACATGGTCTTACACTA-CGTCACATGTCGAG
1 -GCCGATGCCATGTCCCAAACATGGTCTTACACTAGC-TCACATATCGAG
* * * ** *
55922616 GCCGATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCATATAAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
* * * *
55922664 GCCGATGCCATGTTCAAAACATGGTCTTACACTGGCTCATATATCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
* * *
55922712 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
* * * * * *
55922760 GTCGATGCCATGTTCCAATCATGGTCTCACACTGGCTCATATATCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
* * * *
55922808 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
*
55922856 GTCGATGCCATGT
1 GCCGATGCCATGT
55922869 GTAATGCCCC
Statistics
Matches: 245, Mismatches: 53, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
47 1 0.00
48 212 0.87
49 2 0.01
50 30 0.12
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
Found at i:55922715 original size:96 final size:96
Alignment explanation
Indices: 55922518--55922868 Score: 524
Period size: 96 Copynumber: 3.6 Consensus size: 96
55922508 AGGGTAAGAT
* ** *
55922518 GCCGATGCCATGTCCCAAACATGGTCTTACATTAGCTCTCATATATCGGTGTCGATGCTATGTTC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATA--AATGTCGATGCCATGTTC
* * *
55922583 CAAACATGGTCTTACACT-ACGTCACATGTCGAG
64 CAAACATGGTCTTACACTGGC-TCATATATCGAG
* * * *
55922616 GCCGATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCAA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCA
55922681 AACATGGTCTTACACTGGCTCATATATCGAG
66 AACATGGTCTTACACTGGCTCATATATCGAG
*
55922712 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATGTCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCA
* *
55922777 ATCATGGTCTCACACTGGCTCATATATCGAG
66 AACATGGTCTTACACTGGCTCATATATCGAG
* *
55922808 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGTCGATGCCATGT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGT
55922869 GTAATGCCCC
Statistics
Matches: 233, Mismatches: 19, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
96 190 0.82
97 1 0.00
98 42 0.18
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCA
AACATGGTCTTACACTGGCTCATATATCGAG
Found at i:55924774 original size:22 final size:22
Alignment explanation
Indices: 55924746--55924867 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
55924736 TTCCACATCC
55924746 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
55924768 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
55924792 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
55924815 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
55924839 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
55924862 ATCACA
1 ATCACA
55924868 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:55924781 original size:47 final size:47
Alignment explanation
Indices: 55924718--55925018 Score: 401
Period size: 47 Copynumber: 6.3 Consensus size: 47
55924708 CCCTTCGGGA
* * *
55924718 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
55924765 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
55924812 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
55924859 CTTATCACACATACACATGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
55924906 CTTATC-CAACATACACATGTTCACATTCATTCATCACATTGGCCATTCGGC
1 CTTATCAC-ATATATACATGTT--CA--CATTCATCACATTGGCCATTCGGC
* * *
55924957 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
55925004 CTTATCACATATATA
1 CTTATCACATATATA
55925019 TATACACTTT
Statistics
Matches: 233, Mismatches: 14, Indels: 14
0.89 0.05 0.05
Matches are distributed among these distances:
46 2 0.01
47 184 0.79
49 4 0.02
51 42 0.18
52 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:55925035 original size:98 final size:98
Alignment explanation
Indices: 55924724--55925042 Score: 429
Period size: 98 Copynumber: 3.3 Consensus size: 98
55924714 GGGACTTATC
* * * * *
55924724 ACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TTCA
1 ACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA-TGTTCA
55924788 CATTCATCACATTGGCCATTCGGCCTTAT--C-T
65 CATTCATCACATTGGCCATTCGGCCTTATCACAT
*
55924819 -CATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCA
1 ACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCA
*
55924882 CATTCATCACATTGGTCATTCGGCCTTATCCAACAT
65 CATTCATCACATTGGCCATTCGGCCTTAT-C-ACAT
* * * *
55924918 ACACATGTTCACATT--CATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCAC
1 ACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCAC
*
55924981 ATTCATCACATTGGCCATTAGGCCTTATCACAT
66 ATTCATCACATTGGCCATTCGGCCTTATCACAT
*
55925014 ATATATATACACTTTCACATTCATCACAT
1 ACATATATACACTTTCACATTCATCACAT
55925043 CATGTACAGA
Statistics
Matches: 195, Mismatches: 18, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
93 2 0.01
94 81 0.42
96 14 0.07
97 1 0.01
98 87 0.45
99 1 0.01
100 9 0.05
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (98 bp):
ACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCAC
ATTCATCACATTGGCCATTCGGCCTTATCACAT
Found at i:55960618 original size:18 final size:18
Alignment explanation
Indices: 55960597--55960642 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
55960587 CCGTATTGGT
* * *
55960597 CACACGGGCGTGTGGGTC
1 CACACGGGCATATGGGCC
55960615 CACACGGGCATATGGGCC
1 CACACGGGCATATGGGCC
*
55960633 CACACAGGCA
1 CACACGGGCA
55960643 GGCCACATGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.22, C:0.33, G:0.35, T:0.11
Consensus pattern (18 bp):
CACACGGGCATATGGGCC
Found at i:55963399 original size:30 final size:30
Alignment explanation
Indices: 55963363--55963423 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
55963353 CTCGTATAAT
55963363 CCAATTCACATGATCTTTCACTTATTAAAG
1 CCAATTCACATGATCTTTCACTTATTAAAG
*
55963393 CCAATTCACATGGTCTTTCACTTATTAAAG
1 CCAATTCACATGATCTTTCACTTATTAAAG
55963423 C
1 C
55963424 TAATAACAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (30 bp):
CCAATTCACATGATCTTTCACTTATTAAAG
Found at i:55968592 original size:22 final size:22
Alignment explanation
Indices: 55968562--55968604 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
55968552 GAATAACATA
*
55968562 AAACCATTTAAAATAAATAATG
1 AAACAATTTAAAATAAATAATG
* *
55968584 AAACAATTTTAAATAAGTAAT
1 AAACAATTTAAAATAAATAAT
55968605 ACATAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.30
Consensus pattern (22 bp):
AAACAATTTAAAATAAATAATG
Found at i:55968906 original size:22 final size:24
Alignment explanation
Indices: 55968859--55968908 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
55968849 GAAATCTTAA
* *
55968859 AATAAATAATAACAAGAGGTTTAC
1 AATAAATAAGAACAAGAGATTTAC
55968883 AATAAATAAGAA-AAGA-ATTTAC
1 AATAAATAAGAACAAGAGATTTAC
55968905 AATA
1 AATA
55968909 GTTTGCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 9 0.38
23 4 0.17
24 11 0.46
ACGTcount: A:0.60, C:0.06, G:0.10, T:0.24
Consensus pattern (24 bp):
AATAAATAAGAACAAGAGATTTAC
Found at i:55970469 original size:18 final size:18
Alignment explanation
Indices: 55970442--55970479 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
55970432 TTCCTCAATA
* *
55970442 TTATATTCTATAACTAAT
1 TTATACTCTATAAATAAT
55970460 TTATACTCTATAAATAAT
1 TTATACTCTATAAATAAT
55970478 TT
1 TT
55970480 TAAGAAGACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (18 bp):
TTATACTCTATAAATAAT
Found at i:55977921 original size:31 final size:31
Alignment explanation
Indices: 55977886--55977945 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
55977876 TCATATCTTA
55977886 TTTATATTATATTCAAATATTTGTTTTACTT
1 TTTATATTATATTCAAATATTTGTTTTACTT
55977917 TTTATATTATATTCAAATATTTGTTTTAC
1 TTTATATTATATTCAAATATTTGTTTTAC
55977946 ATTTCATCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (31 bp):
TTTATATTATATTCAAATATTTGTTTTACTT
Found at i:55978828 original size:19 final size:19
Alignment explanation
Indices: 55978804--55978842 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
55978794 CTCACCACAA
55978804 AAAAAATCA-AAATATTTAT
1 AAAAAATCATAAA-ATTTAT
*
55978823 AAAAAATTATAAAATTTAT
1 AAAAAATCATAAAATTTAT
55978842 A
1 A
55978843 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAAATCATAAAATTTAT
Found at i:55982678 original size:17 final size:18
Alignment explanation
Indices: 55982656--55982689 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
55982646 ATAATTTTAC
*
55982656 TTTAAAT-TTTAATTATT
1 TTTAAATGTATAATTATT
55982673 TTTAAATGTATAATTAT
1 TTTAAATGTATAATTAT
55982690 CACAAAATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TTTAAATGTATAATTATT
Found at i:55986488 original size:43 final size:43
Alignment explanation
Indices: 55986456--55986538 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
55986446 TGTCTGCTCG
* *
55986456 TGTGAATATTTGAAATAGGGCCACACGACCGTGTGTCAAACCA
1 TGTGAATATTCGAAATAGAGCCACACGACCGTGTGTCAAACCA
* *
55986499 TGTGTATATTCGAAATAGAGCCACACGACCGTGTGCCAAA
1 TGTGAATATTCGAAATAGAGCCACACGACCGTGTGTCAAA
55986539 GTGTGCCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.23
Consensus pattern (43 bp):
TGTGAATATTCGAAATAGAGCCACACGACCGTGTGTCAAACCA
Found at i:55986600 original size:43 final size:43
Alignment explanation
Indices: 55986539--55986620 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
55986529 GTGTGCCAAA
* *
55986539 GTGTGCCAAACCGTGTGTATATTTGAATTTTGGACACATGGCT
1 GTGTGCCAAACCGTGTGTATATTCGAATTGTGGACACATGGCT
*
55986582 GTGTGCCAAACTGTGTGTATATTCGAATTGTGGACACAT
1 GTGTGCCAAACCGTGTGTATATTCGAATTGTGGACACAT
55986621 TGCCGTGTCG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (43 bp):
GTGTGCCAAACCGTGTGTATATTCGAATTGTGGACACATGGCT
Done.