Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 293 of 310
Found at i:96527581 original size:80 final size:80
Alignment explanation
Indices: 96527483--96528394 Score: 1743
Period size: 80 Copynumber: 11.4 Consensus size: 80
96527473 CCAGCATGAT
* * * * * *
96527483 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGAATA
*
96527548 CATCACTAGCACGAA
66 TATCACTAGCACGAA
96527563 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGAATA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGAATA
96527628 TATCACTAGCACGAA
66 TATCACTAGCACGAA
96527643 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGAATA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGAATA
96527708 TATCACTAGCACGAA
66 TATCACTAGCACGAA
96527723 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGAATA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGAATA
96527788 TATCACTAGCACGAA
66 TATCACTAGCACGAA
96527803 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGAATA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGAATA
96527868 TATCACTAGCACGAA
66 TATCACTAGCACGAA
96527883 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGAATA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGAATA
96527948 TATCACTAGCACGAA
66 TATCACTAGCACGAA
96527963 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGAATA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGAATA
96528028 TATCACTAGCACGAA
66 TATCACTAGCACGAA
96528043 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGAATA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGAATA
96528108 TATCACTAGCACGAA
66 TATCACTAGCACGAA
96528123 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGAATA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGAATA
96528188 TATCACTAGCACGAA
66 TATCACTAGCACGAA
96528203 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGAATA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGAATA
96528268 TATCACTAGCACGAA
66 TATCACTAGCACGAA
96528283 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGAATA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGAATA
96528348 TATCACTAGCACGAA
66 TATCACTAGCACGAA
* *
96528363 TGCTCTTTGGGACTTAGCCCGAATATATCACT
1 TGCTCTTTGGGACTTAGCCCGGATACATCACT
96528395 CTCAATTCTC
Statistics
Matches: 823, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 823 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (80 bp):
TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGAATA
TATCACTAGCACGAA
Found at i:96530441 original size:119 final size:119
Alignment explanation
Indices: 96530230--96530469 Score: 426
Period size: 119 Copynumber: 2.0 Consensus size: 119
96530220 TCTCTTTTAT
* * *
96530230 AAGAAACTAGACTAATTAAGATTTGATTACATATTTTATTCATCCTATTATTCCATACCAACAAT
1 AAGAAACTAGACTAATTAAGATTTGATTACATATTTTATTCAGCCTATAATTCCACACCAACAAT
*
96530295 TTATAGTGATTTTCTAAAATCACGTTACTGCTGCTGTCCTAAGCAAATTATTAC
66 TTATAGTGATTTTCTAAAATCACGTTACTACTGCTGTCCTAAGCAAATTATTAC
*
96530349 AAGAAACTAGACTAATTAAGATTTGATTACATATTTTATTCAGCCTATAATTTCACACCAACAAT
1 AAGAAACTAGACTAATTAAGATTTGATTACATATTTTATTCAGCCTATAATTCCACACCAACAAT
*
96530414 TTATAGTGATTTTCTAAATTCACGTTACTACTGCTGTCCTAAGCAAATTATTAC
66 TTATAGTGATTTTCTAAAATCACGTTACTACTGCTGTCCTAAGCAAATTATTAC
96530468 AA
1 AA
96530470 TTTGCTCTTA
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 115 1.00
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.37
Consensus pattern (119 bp):
AAGAAACTAGACTAATTAAGATTTGATTACATATTTTATTCAGCCTATAATTCCACACCAACAAT
TTATAGTGATTTTCTAAAATCACGTTACTACTGCTGTCCTAAGCAAATTATTAC
Found at i:96534079 original size:40 final size:40
Alignment explanation
Indices: 96534026--96534251 Score: 337
Period size: 40 Copynumber: 5.7 Consensus size: 40
96534016 GAATACACAT
*
96534026 CACCAGCAT-GAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGC-TCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
96534066 CACCAGCTCGAATGCTCTTCGGGACCTAGCTCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
96534106 CACCAGCTCGAATGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
96534146 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * **
96534186 CACTAGCACGAATGCTCTTCAAGACTTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
96534226 CACCAGCTCGAATGCTCTTCAGGACT
1 CACCAGCTCGAATGCTCTTCGGGACT
96534252 GTGACAGTCT
Statistics
Matches: 171, Mismatches: 14, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
39 1 0.01
40 170 0.99
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (40 bp):
CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:96535100 original size:28 final size:28
Alignment explanation
Indices: 96535034--96535161 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
96535024 CATGAGATTG
* * **
96535034 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
96535063 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
96535091 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
96535120 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
96535148 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
96535162 GACTTACTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.51
29 44 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:96535123 original size:57 final size:57
Alignment explanation
Indices: 96535034--96535161 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
96535024 CATGAGATTG
*
96535034 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
96535091 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
96535148 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
96535162 GACTTACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:96536756 original size:40 final size:40
Alignment explanation
Indices: 96536701--96536994 Score: 462
Period size: 40 Copynumber: 7.3 Consensus size: 40
96536691 GGGTGTTACA
* *
96536701 GGGACCTAGCCCGGATATAACACCAGCACAAATGCTCTTC
1 GGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTC
* *
96536741 GGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTC
1 GGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTC
** * *
96536781 AAGACTTAGCCTGGATATAACACCAGCTCGAATGCTCTTC
1 GGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTC
96536821 GGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTC
1 GGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTC
* * * *
96536861 GGGATTTAGCCCGGATATATCACTAGCACGAATGCTTTTC
1 GGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTC
* *
96536901 GAGACTTAGCCCGGATATAACACCAGCTCGAATGCTCTTC
1 GGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTC
96536941 GGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTC
1 GGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTC
96536981 GGGACTTAGCCCGG
1 GGGACTTAGCCCGG
96536995 GTATCTAACT
Statistics
Matches: 228, Mismatches: 26, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 228 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
GGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTC
Found at i:96536917 original size:120 final size:120
Alignment explanation
Indices: 96536701--96536994 Score: 534
Period size: 120 Copynumber: 2.5 Consensus size: 120
96536691 GGGTGTTACA
* *
96536701 GGGACCTAGCCCGGATATAACACCAGCACAAATGCTCTTCGGGACTTAGCCCGGATATATCACTA
1 GGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTA
*
96536766 GCACGAATGCTCTTCAAGACTTAGCCTGGATATAACACCAGCTCGAATGCTCTTC
66 GCACGAATGCTCTTCAAGACTTAGCCCGGATATAACACCAGCTCGAATGCTCTTC
*
96536821 GGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTA
1 GGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTA
* *
96536886 GCACGAATGCTTTTCGAGACTTAGCCCGGATATAACACCAGCTCGAATGCTCTTC
66 GCACGAATGCTCTTCAAGACTTAGCCCGGATATAACACCAGCTCGAATGCTCTTC
96536941 GGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
1 GGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
96536995 GTATCTAACT
Statistics
Matches: 167, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 167 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (120 bp):
GGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTA
GCACGAATGCTCTTCAAGACTTAGCCCGGATATAACACCAGCTCGAATGCTCTTC
Found at i:96538431 original size:37 final size:37
Alignment explanation
Indices: 96538324--96538438 Score: 169
Period size: 37 Copynumber: 3.1 Consensus size: 37
96538314 AGATGAAATC
* * * *
96538324 TCCACACGAAGTTATCGGGTCTTACCCGGACA-AAATC
1 TCCACACGTAGTCATCGGGTCTTACCCGGA-ATATATT
96538361 TCCACACGTAGTCATCGGGTCTTACCCGGAATATATT
1 TCCACACGTAGTCATCGGGTCTTACCCGGAATATATT
*
96538398 TCCACACGTAGTCATCGGGTCTTACCCAGAATATATT
1 TCCACACGTAGTCATCGGGTCTTACCCGGAATATATT
96538435 TCCA
1 TCCA
96538439 AGTTTCATGT
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 1 0.01
37 71 0.99
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (37 bp):
TCCACACGTAGTCATCGGGTCTTACCCGGAATATATT
Found at i:96556755 original size:63 final size:63
Alignment explanation
Indices: 96556600--96556803 Score: 187
Period size: 63 Copynumber: 3.2 Consensus size: 63
96556590 GTGTAGCCCG
* * * * * * *
96556600 AAACAGTGAGTTACATGG-CTCGGACACATAG-TTGTATCTCTAGTCTGTATGACTCTAAATCCA
1 AAACAGTGAGTTACACGGACT-GGACACA-CGCTTGTATCCCTAGCCTGTGTGACCCTAAAACCA
* * * *
96556663 AAACATTGAATTACACGGACTGGATACACGCTTGTATCCCTAGCCTGTGTGACCCTAAAGCCA
1 AAACAGTGAGTTACACGGACTGGACACACGCTTGTATCCCTAGCCTGTGTGACCCTAAAACCA
* * * * * * * * * *
96556726 AAATAGTGAGTTAGACGGCCTGTACACACGCCTATTTCCCTAGCCCGTGTAACCCTAAAACTA
1 AAACAGTGAGTTACACGGACTGGACACACGCTTGTATCCCTAGCCTGTGTGACCCTAAAACCA
96556789 AAACAGTGAGTTACA
1 AAACAGTGAGTTACA
96556804 TGGCTTGCCA
Statistics
Matches: 113, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
62 1 0.01
63 110 0.97
64 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (63 bp):
AAACAGTGAGTTACACGGACTGGACACACGCTTGTATCCCTAGCCTGTGTGACCCTAAAACCA
Found at i:96560019 original size:46 final size:46
Alignment explanation
Indices: 96559914--96560039 Score: 155
Period size: 46 Copynumber: 2.7 Consensus size: 46
96559904 GGTTATTTGT
*
96559914 GAGAGCTAGTGTAAGATCATGTCTAGGACATAGCATCGACATTGAGAC
1 GAGAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGACATTGAGAC
* * * * * *
96559962 GAGTGCTAGTGTAAGACATGTCTGGGACATGTATCGGCCTTGAGAC
1 GAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGACATTGAGAC
96560008 GTA-AGCCAGTGTAAGACATGTCTAGGACATGC
1 G-AGAGCCAGTGTAAGACATGTCTAGGACATGC
96560040 GTTGGTACGA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 39 0.57
47 14 0.21
48 15 0.22
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (46 bp):
GAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGACATTGAGAC
Found at i:96560922 original size:20 final size:20
Alignment explanation
Indices: 96560897--96560939 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
96560887 GTGTTGTCCA
96560897 GCATGATAGTAAACACACGG
1 GCATGATAGTAAACACACGG
96560917 GCATGATAGTAAACACACGG
1 GCATGATAGTAAACACACGG
96560937 GCA
1 GCA
96560940 GAGACACGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.21, G:0.26, T:0.14
Consensus pattern (20 bp):
GCATGATAGTAAACACACGG
Found at i:96562201 original size:46 final size:46
Alignment explanation
Indices: 96562096--96562221 Score: 155
Period size: 46 Copynumber: 2.7 Consensus size: 46
96562086 GGTTATTTGT
*
96562096 GAGAGCTAGTGTAAGATCATGTCTAGGACATAGCATCGACATTGAGAC
1 GAGAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGACATTGAGAC
* * * * * *
96562144 GAGTGCTAGTGTAAGACATGTCTGGGACATGTATCGGCCTTGAGAC
1 GAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGACATTGAGAC
96562190 GTA-AGCCAGTGTAAGACATGTCTAGGACATGC
1 G-AGAGCCAGTGTAAGACATGTCTAGGACATGC
96562222 GTTGGTACGA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 39 0.57
47 14 0.21
48 15 0.22
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (46 bp):
GAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGACATTGAGAC
Found at i:96563104 original size:20 final size:20
Alignment explanation
Indices: 96563079--96563121 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
96563069 GTGTTGTCCA
96563079 GCATGATAGTAAACACACGG
1 GCATGATAGTAAACACACGG
96563099 GCATGATAGTAAACACACGG
1 GCATGATAGTAAACACACGG
96563119 GCA
1 GCA
96563122 GAGACACGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.21, G:0.26, T:0.14
Consensus pattern (20 bp):
GCATGATAGTAAACACACGG
Found at i:96563487 original size:74 final size:74
Alignment explanation
Indices: 96563366--96563525 Score: 257
Period size: 74 Copynumber: 2.2 Consensus size: 74
96563356 TGGGTGGAGG
* *
96563366 ACACGGGCGTGTCCCTGTTTTGCTTAGGCCGTGTAAAACACACGGGCCATTAGCATGGCCATGTT
1 ACACGGGCGTGTCCCTGTTTTGCTTAGGCCGTGTAAAACACACGGGCCATTAGCACGACCATGTT
96563431 AGAATGGTC
66 AGAATGGTC
* * *
96563440 ACACGGGCGTGTCCCTGTTTTGCTTAGGCCGTGTGAGACACATGGGCCATTAGCACGACCATGTT
1 ACACGGGCGTGTCCCTGTTTTGCTTAGGCCGTGTAAAACACACGGGCCATTAGCACGACCATGTT
*
96563505 GGAATGGTC
66 AGAATGGTC
*
96563514 ACACGGGTGTGT
1 ACACGGGCGTGT
96563526 TACCCCTCCT
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 79 1.00
ACGTcount: A:0.20, C:0.24, G:0.31, T:0.26
Consensus pattern (74 bp):
ACACGGGCGTGTCCCTGTTTTGCTTAGGCCGTGTAAAACACACGGGCCATTAGCACGACCATGTT
AGAATGGTC
Found at i:96569666 original size:30 final size:30
Alignment explanation
Indices: 96569632--96569692 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
96569622 TCCTTAACTC
96569632 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
96569662 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
96569692 A
1 A
96569693 GGCTCGGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:96569872 original size:20 final size:20
Alignment explanation
Indices: 96569847--96569885 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
96569837 TTCACTCAAA
96569847 ACCGAGTAGCACAAGTTGTC
1 ACCGAGTAGCACAAGTTGTC
96569867 ACCGAGTAGCACAAGTTGT
1 ACCGAGTAGCACAAGTTGT
96569886 TTAACATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.21
Consensus pattern (20 bp):
ACCGAGTAGCACAAGTTGTC
Found at i:96584917 original size:40 final size:40
Alignment explanation
Indices: 96584860--96585080 Score: 264
Period size: 40 Copynumber: 5.5 Consensus size: 40
96584850 CTTTGTATGT
*
96584860 TCCGGGCTAAGTCCCGAAGGCATTTGTACAAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA
* *
96584900 TCCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTAGTTGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACTATA
* * * *
96584943 CCCGGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA
* ** * *
96584983 TCCGGGCTAAGTCCCAAAGGCATTCATGCTAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA
* * *
96585023 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA
*
96585063 TCC-GGCTAAATCCCGAAG
1 TCCGGGCTAAGTCCCGAAG
96585081 ATACTTGGGT
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 13 0.08
40 106 0.68
41 1 0.01
43 35 0.23
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA
Found at i:96585003 original size:83 final size:80
Alignment explanation
Indices: 96584861--96585076 Score: 258
Period size: 83 Copynumber: 2.7 Consensus size: 80
96584851 TTTGTATGTT
* * * * **
96584861 CCGGGCTAAGTCCCGAAGGCATTTGTACAAGTTACTATATCCGGGCTAAGTTCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTCA
96584926 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
* *
96584944 CCGGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTCA
*
96585009 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
96585024 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCC
96585077 GAAGATACTT
Statistics
Matches: 118, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
79 12 0.10
80 44 0.37
81 2 0.02
83 60 0.51
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTCA
TGCTAGTGACTATAC
Found at i:96587986 original size:13 final size:13
Alignment explanation
Indices: 96587967--96588000 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
96587957 CAGAGACACG
*
96587967 ACCGTGTGTCTTA
1 ACCGTGTGTCTCA
*
96587980 GCCGTGTGTCTCA
1 ACCGTGTGTCTCA
96587993 ACCGTGTG
1 ACCGTGTG
96588001 AAGGGCACGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.12, C:0.26, G:0.29, T:0.32
Consensus pattern (13 bp):
ACCGTGTGTCTCA
Found at i:96588871 original size:31 final size:33
Alignment explanation
Indices: 96588817--96588877 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 33
96588807 ATCAAAACTC
** *
96588817 ATAATTATATATTATTTTGAATTTTTTAAATTT
1 ATAATTATATATTATTTAAAATTTTATAAATTT
96588850 ATAATTATATA-T-TTTAAAATTTTATAAA
1 ATAATTATATATTATTTAAAATTTTATAAA
96588878 AATTATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 13 0.52
32 1 0.04
33 11 0.44
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (33 bp):
ATAATTATATATTATTTAAAATTTTATAAATTT
Found at i:96588873 original size:23 final size:21
Alignment explanation
Indices: 96588836--96588890 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
96588826 TATTATTTTG
*
96588836 AATT-TTTT-AAATTTATAAT
1 AATTATTTTAAAATTTATAAA
*
96588855 TATATATTTTAAAATTTTATAAA
1 AAT-TATTTTAAAA-TTTATAAA
96588878 AATTATTTTAAAA
1 AATTATTTTAAAA
96588891 ATATTTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 2 0.07
20 1 0.03
21 4 0.14
22 13 0.45
23 9 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AATTATTTTAAAATTTATAAA
Found at i:96588887 original size:14 final size:14
Alignment explanation
Indices: 96588868--96588908 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
96588858 ATATTTTAAA
96588868 ATTTTATAAAAATT
1 ATTTTATAAAAATT
96588882 A-TTT-TAAAAA-T
1 ATTTTATAAAAATT
*
96588893 ATTTTAAAAAAATT
1 ATTTTATAAAAATT
96588907 AT
1 AT
96588909 ATATATCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 2 0.09
12 9 0.39
13 8 0.35
14 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATTTTATAAAAATT
Found at i:96588903 original size:12 final size:13
Alignment explanation
Indices: 96588868--96588908 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
96588858 ATATTTTAAA
96588868 ATTTTATAAAAATT
1 ATTTTA-AAAAATT
96588882 ATTTT-AAAAA-T
1 ATTTTAAAAAATT
96588893 ATTTTAAAAAAATT
1 ATTTT-AAAAAATT
96588907 AT
1 AT
96588909 ATATATCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 6 0.25
12 5 0.21
13 5 0.21
14 8 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTTTAAAAAATT
Found at i:96593477 original size:22 final size:22
Alignment explanation
Indices: 96593449--96593492 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
96593439 TAGTCATATA
96593449 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* *
96593471 ATAAATTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
96593493 TATTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:96593583 original size:14 final size:14
Alignment explanation
Indices: 96593514--96593583 Score: 53
Period size: 13 Copynumber: 5.3 Consensus size: 14
96593504 TTAATTTTAT
96593514 TTTAATAATAAAT-
1 TTTAATAATAAATA
96593527 TTT-A-AATAAA-A
1 TTTAATAATAAATA
* *
96593538 TATTATTGA-AAATA
1 T-TTAATAATAAATA
*
96593552 TTTAAT-ATTAATA
1 TTTAATAATAAATA
96593565 TTTTAATAATAAATA
1 -TTTAATAATAAATA
96593580 TTTA
1 TTTA
96593584 TTACAATTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 15
0.69 0.08 0.23
Matches are distributed among these distances:
11 7 0.16
12 4 0.09
13 14 0.32
14 13 0.30
15 6 0.14
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (14 bp):
TTTAATAATAAATA
Found at i:96593716 original size:23 final size:22
Alignment explanation
Indices: 96593686--96593728 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
96593676 AGTCTTTGTA
96593686 TTTTTATTTTTAAGAATTTAATT
1 TTTTTATTTTTAA-AATTTAATT
96593709 TTTTTATTTTTAAAATTTAA
1 TTTTTATTTTTAAAATTTAA
96593729 AAATTAAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTTTATTTTTAAAATTTAATT
Found at i:96594083 original size:13 final size:14
Alignment explanation
Indices: 96594054--96594092 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
96594044 TTAAAAAAGT
96594054 AAATTATTTTCTTG
1 AAATTATTTTCTTG
96594068 AAATTATTTT-TTG
1 AAATTATTTTCTTG
96594081 AAAGTTATTTTC
1 AAA-TTATTTTC
96594093 AGTAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.56
Consensus pattern (14 bp):
AAATTATTTTCTTG
Found at i:96621446 original size:46 final size:44
Alignment explanation
Indices: 96621297--96621514 Score: 289
Period size: 44 Copynumber: 4.8 Consensus size: 44
96621287 ACATATCCAT
96621297 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTTGTA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTTGTA
*
96621341 GCCAATGCATGTCCCAGACATGTCTTACACTAGCACATCTTGTA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTTGTA
*
96621385 GCCGATGCATTTCCCAGACATGTCTTACACTAGCTTACATCTTG-A
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC--ACATCTTGTA
* * *
96621430 GGCTGATGCATGTCCCAAACATGTCTTACACTAGCTC-TCGTCT-TAA
1 -GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATC-T-TGT-A
*
96621476 TGCCGATGCCATGTCCCAGAAATGTCTTACACTAGCACA
1 -GCCGATG-CATGTCCCAGACATGTCTTACACTAGCACA
96621515 CACACATCGC
Statistics
Matches: 153, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
43 2 0.01
44 77 0.50
45 2 0.01
46 46 0.30
47 26 0.17
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTTGTA
Found at i:96624347 original size:21 final size:21
Alignment explanation
Indices: 96624321--96624364 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
96624311 CATAAATAAT
*
96624321 TTAATGGTTTTGTCTTTTAAC
1 TTAATGGTTTTGACTTTTAAC
96624342 TTAATGGTTTTGACTTTTAAC
1 TTAATGGTTTTGACTTTTAAC
96624363 TT
1 TT
96624365 TAAAAAAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.09, G:0.14, T:0.57
Consensus pattern (21 bp):
TTAATGGTTTTGACTTTTAAC
Found at i:96625319 original size:22 final size:21
Alignment explanation
Indices: 96625277--96625332 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
96625267 TAAAAATTTC
* *
96625277 AAAACAAAAGGAAATAGAATA
1 AAAACAAAAAGAAATAAAATA
*
96625298 AAAACAAAAATAAGATAAAATA
1 AAAACAAAAAGAA-ATAAAATA
*
96625320 AAATAAAAAAAGA
1 AAA-ACAAAAAGA
96625333 CATACCCATT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 11 0.39
22 10 0.36
23 7 0.25
ACGTcount: A:0.77, C:0.04, G:0.09, T:0.11
Consensus pattern (21 bp):
AAAACAAAAAGAAATAAAATA
Found at i:96625443 original size:66 final size:66
Alignment explanation
Indices: 96625337--96625474 Score: 226
Period size: 66 Copynumber: 2.1 Consensus size: 66
96625327 AAAAGACATA
*
96625337 CCCATTATCCCAACTAACCTAATCCTTATTTAACAGATTTCTTAGACTTCAATTTGAATCCAAAT
1 CCCATTATCCCAACAAACCTAATCCTTATTTAACAGATTTCTTAGACTTCAATTTGAATCCAAAT
96625402 T
66 T
* *
96625403 CCCATTATCCCAACAAACCTAATCTTTATTTAGA-TGATTTCTTAGACTTCAATTTGAATCCAAA
1 CCCATTATCCCAACAAACCTAATCCTTATTTA-ACAGATTTCTTAGACTTCAATTTGAATCCAAA
96625467 TT
65 TT
96625469 -CCATTA
1 CCCATTA
96625475 GTTGTGAGAC
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
65 6 0.09
66 61 0.90
67 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (66 bp):
CCCATTATCCCAACAAACCTAATCCTTATTTAACAGATTTCTTAGACTTCAATTTGAATCCAAAT
T
Found at i:96628513 original size:9 final size:9
Alignment explanation
Indices: 96628499--96628529 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
96628489 GATCAAGTAA
96628499 AATTAAATT
1 AATTAAATT
96628508 AATTAAATT
1 AATTAAATT
96628517 AATTAAAATT
1 AATT-AAATT
96628527 AAT
1 AAT
96628530 ATGATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.62
10 8 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AATTAAATT
Found at i:96635212 original size:77 final size:77
Alignment explanation
Indices: 96635116--96635268 Score: 272
Period size: 77 Copynumber: 2.0 Consensus size: 77
96635106 TCTTTTATAA
*
96635116 GAAACTAGACTCATTAAGCTTTAATTACATAATTTATTCA-ACTTCTAATTCAATTTTCACAATT
1 GAAACTAGACTCATTAAGCTTTAATTACATAATTTATTCAGA-TTCTAATTCAATTTCCACAATT
96635180 TATCGTGATTTTT
65 TATCGTGATTTTT
96635193 GAAACTAGACTCATTAAGCTTTAATTACATAATTTATTCAGATTCTAATTCAATTTCCACAATTT
1 GAAACTAGACTCATTAAGCTTTAATTACATAATTTATTCAGATTCTAATTCAATTTCCACAATTT
*
96635258 ATGGTGATTTT
66 ATCGTGATTTT
96635269 CCAAAATTAA
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
77 72 0.99
78 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.43
Consensus pattern (77 bp):
GAAACTAGACTCATTAAGCTTTAATTACATAATTTATTCAGATTCTAATTCAATTTCCACAATTT
ATCGTGATTTTT
Found at i:96635890 original size:39 final size:39
Alignment explanation
Indices: 96635827--96635944 Score: 193
Period size: 39 Copynumber: 3.0 Consensus size: 39
96635817 ATTACCAGCA
*
96635827 CCAGCACGAAGCCTGC-GGATCTTTAGCCCGGACACATTT
1 CCAGCACGAAGCCTGCGGGA-CTTTAGCCCGGATACATTT
* *
96635866 CCAGCACGAAGCCTACGGGACTTTAGCCCTGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
96635905 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
96635944 C
1 C
96635945 NNNNNNNNNN
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
39 70 0.96
40 3 0.04
ACGTcount: A:0.24, C:0.32, G:0.23, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:96640500 original size:6 final size:6
Alignment explanation
Indices: 96640489--96640515 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
96640479 GTTTCTCTAA
96640489 TTTCAT TTTCAT TTTCAT TTTCAT TTT
1 TTTCAT TTTCAT TTTCAT TTTCAT TTT
96640516 GAAGAAAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTCAT
Found at i:96644021 original size:30 final size:30
Alignment explanation
Indices: 96643985--96644046 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
96643975 ATTCCCGAGC
* *
96643985 TTAGGGGCAAAAGTGTAATTATGTAAAAGT
1 TTAGGGGCAAAAATGTAATTATGCAAAAGT
*
96644015 TTAGGGGCAAAAATGTAATTTTGCAAAAGT
1 TTAGGGGCAAAAATGTAATTATGCAAAAGT
96644045 TT
1 TT
96644047 GTATTAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (30 bp):
TTAGGGGCAAAAATGTAATTATGCAAAAGT
Found at i:96646258 original size:46 final size:46
Alignment explanation
Indices: 96646208--96646383 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
96646198 TGTTTGGGCA
*
96646208 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
96646254 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
96646301 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
96646347 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
96646384 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
45 3 0.03
46 64 0.58
47 29 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:96646363 original size:93 final size:93
Alignment explanation
Indices: 96646204--96646375 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
96646194 AGGATGTTTG
* * *
96646204 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
96646269 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
96646297 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
96646362 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
96646376 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:96660465 original size:46 final size:46
Alignment explanation
Indices: 96660415--96660509 Score: 145
Period size: 46 Copynumber: 2.1 Consensus size: 46
96660405 TTTCATATAA
* *
96660415 ACATCAAGAAAAACATACATGAGCTTAATAATATTCAAACTCTCAT
1 ACATCAAGAAAAACATACATGAGCTCAACAATATTCAAACTCTCAT
* * *
96660461 ACATCAAGAAACACATATATGAGCTCAACAATATTCAAATTCTCAT
1 ACATCAAGAAAAACATACATGAGCTCAACAATATTCAAACTCTCAT
96660507 ACA
1 ACA
96660510 CATATGTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.47, C:0.21, G:0.06, T:0.25
Consensus pattern (46 bp):
ACATCAAGAAAAACATACATGAGCTCAACAATATTCAAACTCTCAT
Found at i:96665842 original size:15 final size:15
Alignment explanation
Indices: 96665818--96665859 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
96665808 TGATGATTGA
*
96665818 ACAA-AAAATACAAT
1 ACAATAAAATAAAAT
96665832 ACAATAAAATAAAAT
1 ACAATAAAATAAAAT
96665847 A-AATAGAAATAAA
1 ACAATA-AAATAAA
96665860 CAAAAGAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (15 bp):
ACAATAAAATAAAAT
Found at i:96665945 original size:75 final size:75
Alignment explanation
Indices: 96665843--96666112 Score: 393
Period size: 75 Copynumber: 3.6 Consensus size: 75
96665833 CAATAAAATA
* * *
96665843 AAATAAATAGAAATAAACAAAAGAAAGAAAAGGGATTTGATGGAAAAACAGAGGTAATGATGACG
1 AAATAAATAG-AATAAACAAAACAAAGAAAAGGGAATTGATGGCAAAACAGAGGTAATGATGACG
96665908 ATTAAACAATC
65 ATTAAACAATC
* *
96665919 AAATAAATAGAATAAACAAAACAAAGAAAAGGAAATTGATGGCAAAACAAAGGTAATGATGACGA
1 AAATAAATAGAATAAACAAAACAAAGAAAAGGGAATTGATGGCAAAACAGAGGTAATGATGACGA
96665984 TTAAACAATC
66 TTAAACAATC
* * *
96665994 AAATAAACAGAATAAACAAAACAAAGAAAAGGGAATTGATGGCAAAACAGAGGCAATGATGACAA
1 AAATAAATAGAATAAACAAAACAAAGAAAAGGGAATTGATGGCAAAACAGAGGTAATGATGACGA
96666059 TTAAACAATC
66 TTAAACAATC
* * * * *
96666069 AAATTAACA-AA-AAA-AACACAAAGACAAGGAAATTGATGGCAAAA
1 AAATAAATAGAATAAACAAAACAAAGAAAAGGGAATTGATGGCAAAA
96666113 AAATATGATA
Statistics
Matches: 180, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
72 27 0.15
73 3 0.02
74 2 0.01
75 138 0.77
76 10 0.06
ACGTcount: A:0.59, C:0.10, G:0.17, T:0.15
Consensus pattern (75 bp):
AAATAAATAGAATAAACAAAACAAAGAAAAGGGAATTGATGGCAAAACAGAGGTAATGATGACGA
TTAAACAATC
Found at i:96680233 original size:27 final size:26
Alignment explanation
Indices: 96680183--96680234 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
96680173 TAAATTATAT
* * *
96680183 AAATTATTTTATTTTTTTATTATTAG
1 AAATTATTTTATTTATTAAGTATTAG
96680209 AAATTATTTTTATTTATTAAGTATTA
1 AAATTA-TTTTATTTATTAAGTATTA
96680235 CTAATAGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (26 bp):
AAATTATTTTATTTATTAAGTATTAG
Found at i:96682037 original size:18 final size:19
Alignment explanation
Indices: 96682014--96682052 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
96682004 TATAAAGAAA
96682014 AAAAATATG-CATATATAT
1 AAAAATATGACATATATAT
96682032 AAAAATATGTACATATATAT
1 AAAAATATG-ACATATATAT
96682052 A
1 A
96682053 TAGGTGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (19 bp):
AAAAATATGACATATATAT
Found at i:96682497 original size:3 final size:3
Alignment explanation
Indices: 96682486--96682548 Score: 83
Period size: 3 Copynumber: 21.0 Consensus size: 3
96682476 CAATAATACC
* * *
96682486 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
96682531 AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
96682549 GATAGCAAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
2 1 0.02
3 51 0.98
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:96683614 original size:31 final size:29
Alignment explanation
Indices: 96683579--96683647 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
96683569 TTGTTTGTAA
*
96683579 TTGGGCTGAGGGTCTATTTTGGGTCTTGGGT
1 TTGGGCTGAGGGT-TATTTT-GGTCATGGGT
* * *
96683610 TTGGGCTGGTGGGTTGTTTTGGTGATGGGT
1 TTGGGCT-GAGGGTTATTTTGGTCATGGGT
96683640 TTGGGCTG
1 TTGGGCTG
96683648 GGTTAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 1 0.03
30 15 0.45
31 12 0.36
32 5 0.15
ACGTcount: A:0.04, C:0.07, G:0.46, T:0.42
Consensus pattern (29 bp):
TTGGGCTGAGGGTTATTTTGGTCATGGGT
Found at i:96684883 original size:23 final size:23
Alignment explanation
Indices: 96684857--96684900 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
96684847 ATTAGATGAT
96684857 TTTAAATT-TCATAAATGTTTTTA
1 TTTAAATTATCA-AAATGTTTTTA
96684880 TTTAAATTATCAAAATGTTTT
1 TTTAAATTATCAAAATGTTTT
96684901 AAATTCGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (23 bp):
TTTAAATTATCAAAATGTTTTTA
Found at i:96689872 original size:3 final size:3
Alignment explanation
Indices: 96689864--96690011 Score: 296
Period size: 3 Copynumber: 49.3 Consensus size: 3
96689854 AATTCAACTA
96689864 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
96689912 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
96689960 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
96690008 TCT T
1 TCT T
96690012 ATCTAAGCAA
Statistics
Matches: 145, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 145 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:96693623 original size:9 final size:9
Alignment explanation
Indices: 96693596--96693625 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
96693586 ATCTTCCTAA
96693596 TTGGTTTAG
1 TTGGTTTAG
*
96693605 CTGGTTTAG
1 TTGGTTTAG
96693614 TTGGTTTAG
1 TTGGTTTAG
96693623 TTG
1 TTG
96693626 TTTGTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.10, C:0.03, G:0.33, T:0.53
Consensus pattern (9 bp):
TTGGTTTAG
Found at i:96694041 original size:8 final size:7
Alignment explanation
Indices: 96694025--96694089 Score: 53
Period size: 7 Copynumber: 8.6 Consensus size: 7
96694015 TAGATACATT
96694025 ATTTTTA
1 ATTTTTA
96694032 ATTCTTTA
1 ATT-TTTA
96694040 ATTTTTA
1 ATTTTTA
96694047 ATTTTCTA
1 ATTTT-TA
96694055 ATTTATTA
1 ATTT-TTA
96694063 TTATTTGTTTA
1 --A-TT-TTTA
96694074 ATTTTT-
1 ATTTTTA
96694080 -TTTTTA
1 ATTTTTA
96694086 ATTT
1 ATTT
96694090 GTAGGTTGTT
Statistics
Matches: 49, Mismatches: 0, Indels: 18
0.73 0.00 0.27
Matches are distributed among these distances:
5 5 0.10
7 18 0.37
8 17 0.35
9 2 0.04
10 1 0.02
11 5 0.10
12 1 0.02
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.71
Consensus pattern (7 bp):
ATTTTTA
Found at i:96694045 original size:15 final size:15
Alignment explanation
Indices: 96694025--96694058 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
96694015 TAGATACATT
96694025 ATTTTTAATTCTT-TA
1 ATTTTTAATT-TTCTA
96694040 ATTTTTAATTTTCTA
1 ATTTTTAATTTTCTA
96694055 ATTT
1 ATTT
96694059 ATTATTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 16 0.89
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTTAATTTTCTA
Found at i:96706807 original size:45 final size:46
Alignment explanation
Indices: 96706758--96706949 Score: 209
Period size: 45 Copynumber: 4.3 Consensus size: 46
96706748 TCAGCCACGA
96706758 TCTTATTTC-TTTCCGACATGATGCCATAGTGTCTTTCAACTATGG
1 TCTTATTTCATTTCCGACATGATGCCATAGTGTCTTTCAACTATGG
* * *
96706803 TCTTA-TTCATTTCC-ATCATGTTGCCATAGTGTATTTAAACTATGG
1 TCTTATTTCATTTCCGA-CATGATGCCATAGTGTCTTTCAACTATGG
**** * * *
96706848 TCTTATTT-ATTTTTTTCATGTTGCCATAGTGTTTTTCAACTATGA
1 TCTTATTTCATTTCCGACATGATGCCATAGTGTCTTTCAACTATGG
* *
96706893 TCTTA-TTCATTTCTGATAT-AGTGCCATAGTGTCTTTCAACTATGG
1 TCTTATTTCATTTCCGACATGA-TGCCATAGTGTCTTTCAACTATGG
96706938 TCTTA-TTCATTT
1 TCTTATTTCATTT
96706950 TTAACGCCAA
Statistics
Matches: 125, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
44 6 0.05
45 117 0.94
46 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (46 bp):
TCTTATTTCATTTCCGACATGATGCCATAGTGTCTTTCAACTATGG
Found at i:96706887 original size:90 final size:90
Alignment explanation
Indices: 96706774--96706951 Score: 261
Period size: 90 Copynumber: 2.0 Consensus size: 90
96706764 TTCTTTCCGA
*
96706774 CATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTC-CATCAT-GTTGCCATAGTGTAT
1 CATGATGCCATAGTGTCTTTCAACTATGATCTTATTCATTTCTCAT-ATAG-TGCCATAGTGTAT
*
96706837 TTAAACTATGGTCTTATTTATTTTTTT
64 TTAAACTATGGTCTTATTCATTTTTTT
* * * *
96706864 CATGTTGCCATAGTGTTTTTCAACTATGATCTTATTCATTTCTGATATAGTGCCATAGTGTCTTT
1 CATGATGCCATAGTGTCTTTCAACTATGATCTTATTCATTTCTCATATAGTGCCATAGTGTATTT
*
96706929 CAACTATGGTCTTATTCATTTTT
66 AAACTATGGTCTTATTCATTTTT
96706952 AACGCCAATG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
90 76 0.96
91 3 0.04
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (90 bp):
CATGATGCCATAGTGTCTTTCAACTATGATCTTATTCATTTCTCATATAGTGCCATAGTGTATTT
AAACTATGGTCTTATTCATTTTTTT
Found at i:96709028 original size:10 final size:10
Alignment explanation
Indices: 96709013--96709043 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
96709003 AAAACTATTA
96709013 TTATTACTTT
1 TTATTACTTT
96709023 TTATTACTTT
1 TTATTACTTT
96709033 TTATTA-TTT
1 TTATTACTTT
96709042 TT
1 TT
96709044 GTTGGGTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.24
10 16 0.76
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (10 bp):
TTATTACTTT
Found at i:96709744 original size:42 final size:42
Alignment explanation
Indices: 96709644--96709745 Score: 145
Period size: 42 Copynumber: 2.4 Consensus size: 42
96709634 ATTTAGAGAT
*
96709644 CTCACACAGCCATGTCTGGTGGGCACACGGACGTGTGAGACC
1 CTCACACAGCCATGTCTGGTGGGCACACAGACGTGTGAGACC
*
96709686 CTCACAC-GATCATGTCTGGTGGGCACACA-AGCGTGTGAGACC
1 CTCACACAG-CCATGTCTGGTGGGCACACAGA-CGTGTGAGACC
*
96709728 CTCACACAGCCGTGTCTG
1 CTCACACAGCCATGTCTG
96709746 CCTTGTACCC
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
41 2 0.04
42 50 0.94
43 1 0.02
ACGTcount: A:0.22, C:0.31, G:0.28, T:0.19
Consensus pattern (42 bp):
CTCACACAGCCATGTCTGGTGGGCACACAGACGTGTGAGACC
Found at i:96712357 original size:20 final size:19
Alignment explanation
Indices: 96712321--96712449 Score: 114
Period size: 20 Copynumber: 6.5 Consensus size: 19
96712311 CAATTATTTA
*
96712321 TGTTTGCAAATCTGTGCCCC
1 TGTTTGCACATC-GTGCCCC
* * *
96712341 TGCTTGCATATCGGTGCCCT
1 TGTTTGCACATC-GTGCCCC
96712361 TGTTTGCACATTCGTGCCCC
1 TGTTTGCACA-TCGTGCCCC
* *
96712381 TATTTTCACATCAGTGCCCC
1 TGTTTGCACATC-GTGCCCC
**
96712401 TACTTGCACATTCGTGCCCC
1 TGTTTGCACA-TCGTGCCCC
* *
96712421 TGTTTGCACATTTGTGCGCC
1 TGTTTGCACA-TCGTGCCCC
96712441 TGTTTGCAC
1 TGTTTGCAC
96712450 TTTGGTGCCA
Statistics
Matches: 91, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
19 2 0.02
20 85 0.93
21 4 0.04
ACGTcount: A:0.13, C:0.32, G:0.19, T:0.36
Consensus pattern (19 bp):
TGTTTGCACATCGTGCCCC
Found at i:96712458 original size:60 final size:60
Alignment explanation
Indices: 96712323--96712449 Score: 157
Period size: 60 Copynumber: 2.1 Consensus size: 60
96712313 ATTATTTATG
* * * * *
96712323 TTTGCAAATCTGTGCCCCTGCTTGCATATCGGTGCCCTTGTTTGCACATTCGTGCCCCTA
1 TTTGCACATCAGTGCCCCTACTTGCACATCGGTGCCCCTGTTTGCACATTCGTGCCCCTA
* * * *
96712383 TTTTCACATCAGTGCCCCTACTTGCACATTC-GTGCCCCTGTTTGCACATTTGTGCGCCTG
1 TTTGCACATCAGTGCCCCTACTTGCACA-TCGGTGCCCCTGTTTGCACATTCGTGCCCCTA
96712443 TTTGCAC
1 TTTGCAC
96712450 TTTGGTGCCA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 54 0.96
61 2 0.04
ACGTcount: A:0.13, C:0.32, G:0.19, T:0.35
Consensus pattern (60 bp):
TTTGCACATCAGTGCCCCTACTTGCACATCGGTGCCCCTGTTTGCACATTCGTGCCCCTA
Found at i:96715764 original size:21 final size:21
Alignment explanation
Indices: 96715739--96715789 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
96715729 TTTTATTGGT
96715739 GCCAGAAATAGTGGTTTTAGG
1 GCCAGAAATAGTGGTTTTAGG
96715760 GCCAGAAATAGTGGTTTTAGG
1 GCCAGAAATAGTGGTTTTAGG
* *
96715781 ACCACAAAT
1 GCCAGAAAT
96715790 CCGACGAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.25
Consensus pattern (21 bp):
GCCAGAAATAGTGGTTTTAGG
Found at i:96726657 original size:12 final size:13
Alignment explanation
Indices: 96726631--96726659 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
96726621 TTGAAGATGG
96726631 AATTTTGTCTTTT
1 AATTTTGTCTTTT
96726644 AATTTTGT-TTTT
1 AATTTTGTCTTTT
96726656 AATT
1 AATT
96726660 CATTTTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.21, C:0.03, G:0.07, T:0.69
Consensus pattern (13 bp):
AATTTTGTCTTTT
Found at i:96728257 original size:15 final size:15
Alignment explanation
Indices: 96728239--96728278 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
96728229 TCCATAACAG
*
96728239 AGAAATCCAGA-ATAT
1 AGAAATCCA-ACATAA
96728254 AGAAATCCAACATAA
1 AGAAATCCAACATAA
96728269 AGAAATCCAA
1 AGAAATCCAA
96728279 AACAAGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 1 0.04
15 22 0.96
ACGTcount: A:0.57, C:0.17, G:0.10, T:0.15
Consensus pattern (15 bp):
AGAAATCCAACATAA
Found at i:96730341 original size:53 final size:53
Alignment explanation
Indices: 96730159--96730365 Score: 216
Period size: 53 Copynumber: 3.8 Consensus size: 53
96730149 ATTAGGGTTT
* * * * *
96730159 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * *
96730213 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTATGATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGT-TCATAAGGC
* * * * *
96730268 AAAGATCCCATGTAAGACCATACCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
96730321 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
96730366 TAAAAAGGAA
Statistics
Matches: 123, Mismatches: 28, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
53 46 0.37
54 37 0.30
55 40 0.33
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:96740079 original size:27 final size:27
Alignment explanation
Indices: 96740049--96740102 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
96740039 ATACAACCTG
96740049 ACTATAATCCCATAGACATTAAAATAA
1 ACTATAATCCCATAGACATTAAAATAA
96740076 ACTATAATCCCATAGACATTAAAATAA
1 ACTATAATCCCATAGACATTAAAATAA
96740103 CAAAATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.19, G:0.04, T:0.26
Consensus pattern (27 bp):
ACTATAATCCCATAGACATTAAAATAA
Found at i:96742795 original size:20 final size:20
Alignment explanation
Indices: 96742770--96742875 Score: 65
Period size: 20 Copynumber: 5.3 Consensus size: 20
96742760 TTTATGTTTT
96742770 CACATCGATGCCCCTGCTTG
1 CACATCGATGCCCCTGCTTG
* * **
96742790 CACATCGGTACCCCTATTTG
1 CACATCGATGCCCCTGCTTG
* * *
96742810 CATATATG-TGCCCCTGATTG
1 CACAT-CGATGCCCCTGCTTG
* *
96742830 AACAT--ATGCACCCTTGTTTG
1 CACATCGATGC-CCC-TGCTTG
* *
96742850 CACATCGGTGCCCATGCTTG
1 CACATCGATGCCCCTGCTTG
96742870 CACATC
1 CACATC
96742876 TGTGTCCCTT
Statistics
Matches: 64, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
18 3 0.05
19 3 0.05
20 52 0.81
21 3 0.05
22 3 0.05
ACGTcount: A:0.20, C:0.33, G:0.18, T:0.29
Consensus pattern (20 bp):
CACATCGATGCCCCTGCTTG
Found at i:96742890 original size:20 final size:19
Alignment explanation
Indices: 96742840--96742924 Score: 62
Period size: 20 Copynumber: 4.3 Consensus size: 19
96742830 AACATATGCA
96742840 CCCTTGTTTGCACATCGGTG
1 CCCTT-TTTGCACATCGGTG
** *
96742860 CCCATGCTTGCACATCTGTG
1 CCC-TTTTTGCACATCGGTG
* *
96742880 TCCCTTTTTGCACTTTGGTG
1 -CCCTTTTTGCACATCGGTG
** *
96742900 CCCTTAACTGCACATCTGTG
1 CCCTT-TTTGCACATCGGTG
96742920 CCCTT
1 CCCTT
96742925 ATTTTGCATC
Statistics
Matches: 49, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
19 5 0.10
20 40 0.82
21 4 0.08
ACGTcount: A:0.12, C:0.33, G:0.19, T:0.36
Consensus pattern (19 bp):
CCCTTTTTGCACATCGGTG
Found at i:96742890 original size:40 final size:40
Alignment explanation
Indices: 96742840--96742924 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 40
96742830 AACATATGCA
*
96742840 CCCTTGTTTGCACATCGGTGCCCAT-GCTTGCACATCTGTG
1 CCCTTGTTTGCACATCGGTGCCCATAAC-TGCACATCTGTG
* * *
96742880 TCCCTT-TTTGCACTTTGGTGCCCTTAACTGCACATCTGTG
1 -CCCTTGTTTGCACATCGGTGCCCATAACTGCACATCTGTG
96742920 CCCTT
1 CCCTT
96742925 ATTTTGCATC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
39 5 0.13
40 28 0.72
41 6 0.15
ACGTcount: A:0.12, C:0.33, G:0.19, T:0.36
Consensus pattern (40 bp):
CCCTTGTTTGCACATCGGTGCCCATAACTGCACATCTGTG
Found at i:96743719 original size:10 final size:10
Alignment explanation
Indices: 96743704--96743766 Score: 60
Period size: 10 Copynumber: 6.3 Consensus size: 10
96743694 ATTTCTTTTT
96743704 TTTTAGTTTG
1 TTTTAGTTTG
*
96743714 TTTTAGTTTT
1 TTTTAGTTTG
96743724 TTTCTAGTTT-
1 TTT-TAGTTTG
*
96743734 ATTTAGTTTG
1 TTTTAGTTTG
96743744 TTTT-GTTTTG
1 TTTTAG-TTTG
96743754 TTTT-GTTTTG
1 TTTTAG-TTTG
96743764 TTT
1 TTT
96743767 GCTTGAGATT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
9 7 0.15
10 34 0.72
11 6 0.13
ACGTcount: A:0.08, C:0.02, G:0.16, T:0.75
Consensus pattern (10 bp):
TTTTAGTTTG
Found at i:96743750 original size:5 final size:5
Alignment explanation
Indices: 96743740--96743766 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
96743730 GTTTATTTAG
96743740 TTTGT TTTGT TTTGT TTTGT TTTGT TT
1 TTTGT TTTGT TTTGT TTTGT TTTGT TT
96743767 GCTTGAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TTTGT
Found at i:96747102 original size:66 final size:66
Alignment explanation
Indices: 96746992--96747124 Score: 187
Period size: 66 Copynumber: 2.0 Consensus size: 66
96746982 TATTGAAATG
* * *
96746992 TGAGAAATAAATTTGTACTATTGTTTGAGCATTATTCGCCTGTTGT-ACGCTGTGATTGACAGGA
1 TGAGAAATAAATTTGTACTATTGTTTGAGCATTACTCACCTGTTGTGA-GCTGTGAGTGACAGGA
96747056 AC
65 AC
** * *
96747058 TGAGAAATTGATTTGTACTATTGTTTGAGCATTACTCACTTGTTGTGAGTTGTGAGTGACAGGAA
1 TGAGAAATAAATTTGTACTATTGTTTGAGCATTACTCACCTGTTGTGAGCTGTGAGTGACAGGAA
96747123 C
66 C
96747124 T
1 T
96747125 TTATTAGTAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 58 0.98
67 1 0.02
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (66 bp):
TGAGAAATAAATTTGTACTATTGTTTGAGCATTACTCACCTGTTGTGAGCTGTGAGTGACAGGAA
C
Found at i:96752701 original size:280 final size:280
Alignment explanation
Indices: 96752195--96752760 Score: 1096
Period size: 280 Copynumber: 2.0 Consensus size: 280
96752185 ATAAGTTAGT
*
96752195 AAATAACTAAAAAATAATTAAGAAGAAGAAGAAGGAAGGAGGGTTTATTTTAGGGTTTTTTTAGA
1 AAATTACTAAAAAATAATTAAGAAGAAGAAGAAGGAAGGAGGGTTTATTTTAGGGTTTTTTTAGA
* * *
96752260 AAAATAAATTTTAGAGTATGAATTGAACGGAAATGAGGAGAAGGAGAAAAATGAATTGGGGTTTG
66 AAAATAAATTTTAGAGTATGAATTGAACGGAAATGAAGAGAAGAAGAAAAATAAATTGGGGTTTG
96752325 GAATTTGTTGGGGGTTTGATTTGGGGGGAGGAATTGGGATTTGGGAAAATAAATCTTTGGGGCTT
131 GAATTTGTTGGGGGTTTGATTTGGGGGGAGGAATTGGGATTTGGGAAAATAAATCTTTGGGGCTT
96752390 GGGCAGACGGGCTTGGGGAAATGGAAAATATAAAATGTTTGGGCTTGGGGGAAATTGGGTTTAAG
196 GGGCAGACGGGCTTGGGGAAATGGAAAATATAAAATGTTTGGGCTTGGGGGAAATTGGGTTTAAG
96752455 TAAAAGCCTAAATTTTAAAA
261 TAAAAGCCTAAATTTTAAAA
96752475 AAATTACTAAAAAATAATTAAGAAGAAGAAGAAGGAAGGAGGGTTTATTTTAGGGTTTTTTTAGA
1 AAATTACTAAAAAATAATTAAGAAGAAGAAGAAGGAAGGAGGGTTTATTTTAGGGTTTTTTTAGA
96752540 AAAATAAATTTTAGAGTATGAATTGAACGGAAATGAAGAGAAGAAGAAAAATAAATTGGGGTTTG
66 AAAATAAATTTTAGAGTATGAATTGAACGGAAATGAAGAGAAGAAGAAAAATAAATTGGGGTTTG
96752605 GAATTTGTTGGGGGTTTGATTTGGGGGGAGGAATTGGGATTTGGGAAAATAAATCTTTGGGGCTT
131 GAATTTGTTGGGGGTTTGATTTGGGGGGAGGAATTGGGATTTGGGAAAATAAATCTTTGGGGCTT
96752670 GGGCAGACGGGCTTGGGGAAATGGAAAATATAAAATGTTTGGGCTTGGGGGAAATTGGGTTTAAG
196 GGGCAGACGGGCTTGGGGAAATGGAAAATATAAAATGTTTGGGCTTGGGGGAAATTGGGTTTAAG
96752735 TAAAAGCCTAAATTTTAAAA
261 TAAAAGCCTAAATTTTAAAA
96752755 AAATTA
1 AAATTA
96752761 AAAAATATAT
Statistics
Matches: 282, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
280 282 1.00
ACGTcount: A:0.37, C:0.04, G:0.30, T:0.29
Consensus pattern (280 bp):
AAATTACTAAAAAATAATTAAGAAGAAGAAGAAGGAAGGAGGGTTTATTTTAGGGTTTTTTTAGA
AAAATAAATTTTAGAGTATGAATTGAACGGAAATGAAGAGAAGAAGAAAAATAAATTGGGGTTTG
GAATTTGTTGGGGGTTTGATTTGGGGGGAGGAATTGGGATTTGGGAAAATAAATCTTTGGGGCTT
GGGCAGACGGGCTTGGGGAAATGGAAAATATAAAATGTTTGGGCTTGGGGGAAATTGGGTTTAAG
TAAAAGCCTAAATTTTAAAA
Found at i:96753066 original size:12 final size:12
Alignment explanation
Indices: 96753051--96753075 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
96753041 ATCTTAATCT
96753051 AAATTAAAATTA
1 AAATTAAAATTA
96753063 AAATTAAAATTA
1 AAATTAAAATTA
96753075 A
1 A
96753076 TTAAAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATTAAAATTA
Found at i:96753069 original size:22 final size:22
Alignment explanation
Indices: 96753028--96753069 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
96753018 TTAAAATAGA
**
96753028 TAAATTAAAATTAATCTTAATC
1 TAAATTAAAATTAAAATTAATC
96753050 TAAATTAAAATTAAAATTAA
1 TAAATTAAAATTAAAATTAA
96753070 AATTAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATTAAAATTAAAATTAATC
Found at i:96753283 original size:12 final size:12
Alignment explanation
Indices: 96753263--96753291 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
96753253 CAATATTTGA
96753263 TTTTT-TTTAAT
1 TTTTTATTTAAT
96753274 TTTTTATTTAAT
1 TTTTTATTTAAT
96753286 TTTTTA
1 TTTTTA
96753292 AAAATATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTATTTAAT
Found at i:96756522 original size:21 final size:21
Alignment explanation
Indices: 96756496--96756563 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
96756486 TTCTAGGTTG
96756496 TGTGAAGAAGGCACATGCCCA
1 TGTGAAGAAGGCACATGCCCA
* *
96756517 TGTGAA-AGAGGCACACGACCA
1 TGTGAAGA-AGGCACATGCCCA
*
96756538 TGTGAAG-GGAGCACATGCCCA
1 TGTGAAGAAG-GCACATGCCCA
96756559 TGTGA
1 TGTGA
96756564 CCGAGTTACA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 2 0.05
21 37 0.95
ACGTcount: A:0.32, C:0.22, G:0.31, T:0.15
Consensus pattern (21 bp):
TGTGAAGAAGGCACATGCCCA
Found at i:96758062 original size:26 final size:26
Alignment explanation
Indices: 96758033--96758192 Score: 302
Period size: 26 Copynumber: 6.2 Consensus size: 26
96758023 TGGTACAAAT
96758033 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
96758059 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
96758085 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
96758111 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
96758137 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
96758163 TGATAATGGTTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
96758189 TGAT
1 TGAT
96758193 GGGCATTTCA
Statistics
Matches: 132, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 132 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:96759705 original size:26 final size:26
Alignment explanation
Indices: 96759676--96759728 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
96759666 TTTACAGTTT
96759676 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
96759702 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
96759728 T
1 T
96759729 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:96761822 original size:36 final size:36
Alignment explanation
Indices: 96761782--96761865 Score: 111
Period size: 35 Copynumber: 2.4 Consensus size: 36
96761772 ATGCCGACAT
96761782 TTAAAAAAGGTTGAGATAAACCCGTCTGAA-ACAACC
1 TTAAAAAAGGTTGAGATAAACCCGTCT-AAGACAACC
* * *
96761818 TT-AAAAAGATTAAGATAGACCCGTCTAAGACAACC
1 TTAAAAAAGGTTGAGATAAACCCGTCTAAGACAACC
96761853 TTAAAAAA-GTTGA
1 TTAAAAAAGGTTGA
96761866 AATAGACCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
34 2 0.05
35 32 0.78
36 7 0.17
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.21
Consensus pattern (36 bp):
TTAAAAAAGGTTGAGATAAACCCGTCTAAGACAACC
Found at i:96761871 original size:35 final size:34
Alignment explanation
Indices: 96761782--96762039 Score: 155
Period size: 36 Copynumber: 7.2 Consensus size: 34
96761772 ATGCCGACAT
* * *
96761782 TTAAAAAAGGTTGAGATAAACCCGTCTGAAACAACC
1 TTAAAAAA-GTTGAAATAGACCTGTCT-AAACAACC
*
96761818 TT-AAAAAGATT-AAGATAGACCCGTCTAAGACAACC
1 TTAAAAAAG-TTGAA-ATAGACCTGTCTAA-ACAACC
* * *
96761853 TTAAAAAAGTTGAAATAGACCTTATTTAAAGCAACTT
1 TTAAAAAAGTTGAAATAGACC-TGTCTAAA-CAAC-C
* *
96761890 TTAAAAAAAATT-AAGATAGGCC-GTCTAAAACAACC
1 TT-AAAAAAGTTGAA-ATAGACCTGTCT-AAACAACC
* * * *
96761925 TTAGAAAAGTTGGAATAAACCTTGTCTAAAATAACC
1 TTAAAAAAGTTGAAATAGACC-TGTCT-AAACAACC
* * *
96761961 TTAAAAAGGTTAAAATAGACATGTCTAAAGCAACC
1 TTAAAAAAGTTGAAATAGACCTGTCTAAA-CAACC
* ** *
96761996 TTTAAAACAGGTTGGGATAGACTTGTCTAAACTAACC
1 -TTAAAA-AAGTTGAAATAGACCTGTCTAAAC-AACC
96762033 TTAAAAA
1 TTAAAAA
96762040 GATTAGGATA
Statistics
Matches: 176, Mismatches: 28, Indels: 37
0.73 0.12 0.15
Matches are distributed among these distances:
34 19 0.11
35 49 0.28
36 64 0.36
37 30 0.17
38 14 0.08
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.25
Consensus pattern (34 bp):
TTAAAAAAGTTGAAATAGACCTGTCTAAACAACC
Found at i:96761907 original size:108 final size:107
Alignment explanation
Indices: 96761781--96762052 Score: 273
Period size: 108 Copynumber: 2.5 Consensus size: 107
96761771 AATGCCGACA
*
96761781 TTTAAAAAAGGTTGAGATAAACCCGTCTGAAACAACCTTAAAAAGATTAAGATAGACC-CGTCTA
1 TTTAAAAAAGGTTGAGATAAACCCGTCT-AAACAACCTTAAAAAGATTAGGATAGACCTCGTCTA
* * * * *
96761845 AGACAACCTTAAAAAAGTTGAAATAGACCTTATTTAAAGCAACT
65 AAACAACCTTAAAAAAGTTAAAATAGA-CATATCTAAAGCAACC
** * ** * *
96761889 TTTAAAAAAAATTAAGAT-AGGCCGTCTAAAACAACCTTAGAAAAG-TT-GGAATAAACCTTGTC
1 TTTAAAAAAGGTTGAGATAAACCCGTCT-AAACAACCTTA-AAAAGATTAGG-ATAGACCTCGTC
* * *
96761951 TAAAATAACCTTAAAAAGGTTAAAATAGACATGTCTAAAGCAACC
63 TAAAACAACCTTAAAAAAGTTAAAATAGACATATCTAAAGCAACC
* * * **
96761996 TTTAAAACAGGTTGGGATAGACTTGTCTAAACTAACCTTAAAAAGATTAGGATAGAC
1 TTTAAAAAAGGTTGAGATAAACCCGTCTAAAC-AACCTTAAAAAGATTAGGATAGAC
96762053 ACATCTAACG
Statistics
Matches: 129, Mismatches: 28, Indels: 14
0.75 0.16 0.08
Matches are distributed among these distances:
106 1 0.01
107 60 0.47
108 66 0.51
109 2 0.02
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (107 bp):
TTTAAAAAAGGTTGAGATAAACCCGTCTAAACAACCTTAAAAAGATTAGGATAGACCTCGTCTAA
AACAACCTTAAAAAAGTTAAAATAGACATATCTAAAGCAACC
Found at i:96761921 original size:107 final size:106
Alignment explanation
Indices: 96761803--96762052 Score: 254
Period size: 107 Copynumber: 2.3 Consensus size: 106
96761793 TGAGATAAAC
* * *
96761803 CCGTCTGAAACAACCTTAAAAAGATTAAGATAGACC-CGTCTAAGACAACCTTAAAAAAGTTGAA
1 CCGTCT-AAACAACCTTAAAAAGATTAGGATAGACCTCGTCTAAAACAACCTTAAAAAAGTTAAA
* * * *
96761867 ATAGACCTTATTTAAAGCAACTTTTAAAAAAAATTAAGATAGG
65 ATAGA-CATATCTAAAGCAACCTTTAAAAAAAATTAAGATAGA
* * * *
96761910 CCGTCTAAAACAACCTTAGAAAAG-TT-GGAATAAACCTTGTCTAAAATAACCTTAAAAAGGTTA
1 CCGTCT-AAACAACCTTA-AAAAGATTAGG-ATAGACCTCGTCTAAAACAACCTTAAAAAAGTTA
* * ** **
96761973 AAATAGACATGTCTAAAGCAACCTTTAAAACAGGTTGGGATAGA
63 AAATAGACATATCTAAAGCAACCTTTAAAAAAAATTAAGATAGA
*
96762017 CTTGTCTAAACTAACCTTAAAAAGATTAGGATAGAC
1 C-CGTCTAAAC-AACCTTAAAAAGATTAGGATAGAC
96762053 ACATCTAACG
Statistics
Matches: 116, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
106 1 0.01
107 62 0.53
108 51 0.44
109 2 0.02
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (106 bp):
CCGTCTAAACAACCTTAAAAAGATTAGGATAGACCTCGTCTAAAACAACCTTAAAAAAGTTAAAA
TAGACATATCTAAAGCAACCTTTAAAAAAAATTAAGATAGA
Found at i:96762037 original size:36 final size:34
Alignment explanation
Indices: 96761805--96762052 Score: 128
Period size: 35 Copynumber: 6.9 Consensus size: 34
96761795 AGATAAACCC
* **
96761805 GTCTGAAACAACCTTAAAAAGATTA-AGATAGACCC
1 GTCT-AAACAACCTTAAAAAGGTTAGA-ATAGACTT
*
96761840 GTCTAAGACAACCTTAAAAAAGTT-GAAATAGACCTT
1 GTCTAA-ACAACCTTAAAAAGGTTAG-AATAGA-CTT
* * * ** * *
96761876 ATTTAAAGCAACTTTTAAAAAAAATTA-AGATAGGC-C
1 GTCTAAA-CAAC-CTT-AAAAAGGTTAGA-ATAGACTT
* *
96761912 GTCTAAAACAACCTTAGAAAA-GTTGGAATAAACCTT
1 GTCT-AAACAACCTTA-AAAAGGTTAGAATAGA-CTT
* * *
96761948 GTCTAAAATAACCTTAAAAAGGTTAAAATAGACAT
1 GTCT-AAACAACCTTAAAAAGGTTAGAATAGACTT
* *
96761983 GTCTAAAGCAACCTTTAAAACAGGTTGGGATAGACTT
1 GTCTAAA-CAACC-TTAAAA-AGGTTAGAATAGACTT
* *
96762020 GTCTAAACTAACCTTAAAAAGATTAGGATAGAC
1 GTCTAAAC-AACCTTAAAAAGGTTAGAATAGAC
96762053 ACATCTAACG
Statistics
Matches: 164, Mismatches: 30, Indels: 38
0.71 0.13 0.16
Matches are distributed among these distances:
34 11 0.07
35 59 0.36
36 52 0.32
37 30 0.18
38 12 0.07
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (34 bp):
GTCTAAACAACCTTAAAAAGGTTAGAATAGACTT
Found at i:96762051 original size:72 final size:70
Alignment explanation
Indices: 96761785--96762060 Score: 238
Period size: 72 Copynumber: 3.9 Consensus size: 70
96761775 CCGACATTTA
* * *
96761785 AAAAAGGTTGAGATAAACC-CGTCTGAAACAACCTTAAAAAGATTAAGATAGACCCGTCT-AAGA
1 AAAAAGGTTGAAATAAACCTTGTCT-AAACAACCTTAAAAAGATTAAGATAGACACGTCTAAAG-
96761848 CAACCTT
64 CAACCTT
* * * * * * *
96761855 AAAAAAGTTGAAATAGACCTTATTTAAAGCAACTTTTAAAAAAAATTAAGATAGGC-CGTCTAAA
1 AAAAAGGTTGAAATAAACCTTGTCTAAA-CAAC-CTT-AAAAAGATTAAGATAGACACGTCTAAA
*
96761919 ACAACCTT
63 GCAACCTT
* * * * *
96761927 AGAAAA-GTTGGAATAAACCTTGTCTAAAATAACCTTAAAAAGGTTAAAATAGACATGTCTAAAG
1 A-AAAAGGTTGAAATAAACCTTGTCT-AAACAACCTTAAAAAGATTAAGATAGACACGTCTAAAG
96761991 CAACCTTT
64 CAACC-TT
** * * *
96761999 AAAACAGGTTGGGATAGA-CTTGTCTAAACTAACCTTAAAAAGATTAGGATAGACACATCTAA
1 AAAA-AGGTTGAAATAAACCTTGTCTAAAC-AACCTTAAAAAGATTAAGATAGACACGTCTAA
96762061 CGCATTTTTT
Statistics
Matches: 164, Mismatches: 30, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
70 33 0.20
71 26 0.16
72 71 0.43
73 34 0.21
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (70 bp):
AAAAAGGTTGAAATAAACCTTGTCTAAACAACCTTAAAAAGATTAAGATAGACACGTCTAAAGCA
ACCTT
Found at i:96768787 original size:10 final size:10
Alignment explanation
Indices: 96768754--96768810 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
96768744 CCCTTTGTGC
*
96768754 AAATTTATCA
1 AAATTAATCA
*
96768764 AAAATAATCA
1 AAATTAATCA
96768774 AAATTAATCA
1 AAATTAATCA
96768784 AAATTTGATAT-A
1 AAA-TT-A-ATCA
*
96768796 AAATTAATTA
1 AAATTAATCA
96768806 AAATT
1 AAATT
96768811 CAACATGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 2 0.05
10 27 0.68
11 4 0.10
12 5 0.12
13 2 0.05
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (10 bp):
AAATTAATCA
Found at i:96772540 original size:5 final size:5
Alignment explanation
Indices: 96772530--96772557 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
96772520 TTTTCCTTAC
96772530 AATTT AATTT AATTT AATTT AATTT AAT
1 AATTT AATTT AATTT AATTT AATTT AAT
96772558 ATTATTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
AATTT
Found at i:96784699 original size:40 final size:40
Alignment explanation
Indices: 96784655--96784916 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
96784645 GCTCCTCGTT
* *
96784655 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
96784695 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
96784735 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
96784774 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
96784813 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
96784852 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
96784893 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
96784917 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:96790657 original size:29 final size:30
Alignment explanation
Indices: 96790623--96790680 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
96790613 ACGGCCGGAT
* *
96790623 CACATGCCCATGGGACA-GACCGTGTGTCA
1 CACATGCCCAAGGCACATGACCGTGTGTCA
* *
96790652 CACATGGCCAAGGCACATGCCCGTGTGTC
1 CACATGCCCAAGGCACATGACCGTGTGTC
96790681 TAACCATGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.22, C:0.33, G:0.28, T:0.17
Consensus pattern (30 bp):
CACATGCCCAAGGCACATGACCGTGTGTCA
Found at i:96794659 original size:9 final size:9
Alignment explanation
Indices: 96794645--96794672 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
96794635 AAAGCCAAGC
96794645 AAATTGACT
1 AAATTGACT
96794654 AAATTGACT
1 AAATTGACT
96794663 AAATTGACT
1 AAATTGACT
96794672 A
1 A
96794673 GTCGCCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AAATTGACT
Found at i:96794833 original size:9 final size:9
Alignment explanation
Indices: 96794819--96794846 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
96794809 AAAGCCAAGC
96794819 AAATTGACT
1 AAATTGACT
96794828 AAATTGACT
1 AAATTGACT
96794837 AAATTGACT
1 AAATTGACT
96794846 A
1 A
96794847 GTCGCCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AAATTGACT
Found at i:96794873 original size:174 final size:174
Alignment explanation
Indices: 96794593--96794941 Score: 698
Period size: 174 Copynumber: 2.0 Consensus size: 174
96794583 GTATTTTGCT
96794593 ATTATAGATCAAGAAATACCGAATCCAAACCTAGACCGAGGGAAAGCCAAGCAAATTGACTAAAT
1 ATTATAGATCAAGAAATACCGAATCCAAACCTAGACCGAGGGAAAGCCAAGCAAATTGACTAAAT
96794658 TGACTAAATTGACTAGTCGCCACATTTTGTAATCCGAGGTAAGTTGTATGTAAATAAAAAAATAC
66 TGACTAAATTGACTAGTCGCCACATTTTGTAATCCGAGGTAAGTTGTATGTAAATAAAAAAATAC
96794723 ATTGATGATATATGTGTTTAAATTGCATCAAAATTATTATAGCA
131 ATTGATGATATATGTGTTTAAATTGCATCAAAATTATTATAGCA
96794767 ATTATAGATCAAGAAATACCGAATCCAAACCTAGACCGAGGGAAAGCCAAGCAAATTGACTAAAT
1 ATTATAGATCAAGAAATACCGAATCCAAACCTAGACCGAGGGAAAGCCAAGCAAATTGACTAAAT
96794832 TGACTAAATTGACTAGTCGCCACATTTTGTAATCCGAGGTAAGTTGTATGTAAATAAAAAAATAC
66 TGACTAAATTGACTAGTCGCCACATTTTGTAATCCGAGGTAAGTTGTATGTAAATAAAAAAATAC
96794897 ATTGATGATATATGTGTTTAAATTGCATCAAAATTATTATAGCA
131 ATTGATGATATATGTGTTTAAATTGCATCAAAATTATTATAGCA
96794941 A
1 A
96794942 AAATTGCTTG
Statistics
Matches: 175, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
174 175 1.00
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (174 bp):
ATTATAGATCAAGAAATACCGAATCCAAACCTAGACCGAGGGAAAGCCAAGCAAATTGACTAAAT
TGACTAAATTGACTAGTCGCCACATTTTGTAATCCGAGGTAAGTTGTATGTAAATAAAAAAATAC
ATTGATGATATATGTGTTTAAATTGCATCAAAATTATTATAGCA
Found at i:96795163 original size:46 final size:46
Alignment explanation
Indices: 96795058--96795229 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
96795048 AGTCATTTGT
* *
96795058 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC
1 GAGAGCAAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGAC
* * *
96795106 GAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAC
1 GAGAGCAAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAC
* * *
96795152 GTA-AGCAAGTGTAAGACATGTCTGGGATATGCGTCGGC-TACGAGAT
1 G-AGAGCAAGTGTAAGACATGTCTGGGACATGCATCGGCAT-CGAGAC
* * *
96795198 GATAGTAAGTAG-AAGACCATGTCTAGGACATG
1 GAGAGCAAGT-GTAAGA-CATGTCTGGGACATG
96795230 GCTTTGACTT
Statistics
Matches: 108, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
45 2 0.02
46 62 0.57
47 29 0.27
48 15 0.14
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.22
Consensus pattern (46 bp):
GAGAGCAAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAC
Found at i:96797329 original size:23 final size:22
Alignment explanation
Indices: 96797302--96797354 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
96797292 AACACTAGAT
*
96797302 TTTTATTAC-TTTAGCAATTTTA
1 TTTTATTACATTTA-AAATTTTA
96797324 CTTTTATTACAATTTAAAATTTTA
1 -TTTTATTAC-ATTTAAAATTTTA
96797348 TTTTATT
1 TTTTATT
96797355 TTCTAATTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 16 0.59
24 7 0.26
25 4 0.15
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTATTACATTTAAAATTTTA
Found at i:96812683 original size:24 final size:24
Alignment explanation
Indices: 96812656--96812701 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
96812646 TCAAAGAATG
*
96812656 GATTATGGAGAAAATCAAGGAGAA
1 GATTAGGGAGAAAATCAAGGAGAA
* * *
96812680 GATTGGGGAGGAAATCATGGAG
1 GATTAGGGAGAAAATCAAGGAG
96812702 GGATTTTAGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.41, C:0.04, G:0.37, T:0.17
Consensus pattern (24 bp):
GATTAGGGAGAAAATCAAGGAGAA
Found at i:96814241 original size:27 final size:27
Alignment explanation
Indices: 96814211--96814370 Score: 164
Period size: 27 Copynumber: 5.9 Consensus size: 27
96814201 TTAAGACCTT
*
96814211 GATTTGTAAAATTATCGAAATACCCCC
1 GATTTGTAAAATTATCAAAATACCCCC
* *
96814238 GATTTGTAAAATTA-CTAAAATACACCT
1 GATTTGTAAAATTATC-AAAATACCCCC
*
96814265 GATTTGTAAAATTATCGAAATA-CCCC
1 GATTTGTAAAATTATCAAAATACCCCC
* * * *
96814291 TAGTTTGTAAAATTACCAAAATACCTCT
1 GA-TTTGTAAAATTATCAAAATACCCCC
* *
96814319 GATTTGCAAAATTATCAAAATACCCTC
1 GATTTGTAAAATTATCAAAATACCCCC
* *
96814346 -AGTTTGTAAAATTACCGAAATACCC
1 GA-TTTGTAAAATTATCAAAATACCC
96814371 TTGTAGTGTA
Statistics
Matches: 108, Mismatches: 20, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
26 5 0.05
27 99 0.92
28 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
GATTTGTAAAATTATCAAAATACCCCC
Found at i:96814298 original size:54 final size:54
Alignment explanation
Indices: 96814206--96814369 Score: 228
Period size: 54 Copynumber: 3.1 Consensus size: 54
96814196 GATCGTTAAG
* *
96814206 ACCT-TGATTTGTAAAATTATCGAAATACCCC-CGATTTGTAAAATTACTAAAAT
1 ACCTCTGATTTGTAAAATTATCGAAATACCCCTAG-TTTGTAAAATTACCAAAAT
96814259 ACAC-CTGATTTGTAAAATTATCGAAATACCCCTAGTTTGTAAAATTACCAAAAT
1 AC-CTCTGATTTGTAAAATTATCGAAATACCCCTAGTTTGTAAAATTACCAAAAT
* * *
96814313 ACCTCTGATTTGCAAAATTATCAAAATA-CCCTCAGTTTGTAAAATTACCGAAAT
1 ACCTCTGATTTGTAAAATTATCGAAATACCCCT-AGTTTGTAAAATTACCAAAAT
96814367 ACC
1 ACC
96814370 CTTGTAGTGT
Statistics
Matches: 101, Mismatches: 5, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
53 7 0.07
54 93 0.92
55 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
ACCTCTGATTTGTAAAATTATCGAAATACCCCTAGTTTGTAAAATTACCAAAAT
Found at i:96814352 original size:81 final size:80
Alignment explanation
Indices: 96814213--96814394 Score: 224
Period size: 81 Copynumber: 2.2 Consensus size: 80
96814203 AAGACCTTGA
* * * *
96814213 TTTGTAAAATTATCGAAATACCCCCGATTTGTAAAATTACTAAAATACACCTGATTTGTAAAATT
1 TTTGTAAAATTACCAAAATACCCCCGATTTGCAAAATTACTAAAATACACCTCATTTGTAAAATT
*
96814278 ATCGAAATACCCCTAG
66 ACCGAAATA-CCCTAG
* *
96814294 TTTGTAAAATTACCAAAATACCTCTGATTTGCAAAATTA-TCAAAATAC-CCTCAGTTTGTAAAA
1 TTTGTAAAATTACCAAAATACCCCCGATTTGCAAAATTACT-AAAATACACCTCA-TTTGTAAAA
*
96814357 TTACCGAAATACCCTTG
64 TTACCGAAATACCCTAG
* *
96814374 TAGTGTAAAATTACTAAAATA
1 T-TTGTAAAATTACCAAAATA
96814395 TCCCTGTAGG
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
80 11 0.12
81 77 0.88
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (80 bp):
TTTGTAAAATTACCAAAATACCCCCGATTTGCAAAATTACTAAAATACACCTCATTTGTAAAATT
ACCGAAATACCCTAG
Found at i:96814371 original size:27 final size:27
Alignment explanation
Indices: 96814213--96814399 Score: 159
Period size: 27 Copynumber: 6.9 Consensus size: 27
96814203 AAGACCTTGA
* * *
96814213 TTTGTAAAATTATCGAAATACCC-CCG
1 TTTGTAAAATTACCAAAATACCCTCAG
* *
96814239 ATTTGTAAAATTACTAAAATACACCTGA-
1 -TTTGTAAAATTACCAAAATAC-CCTCAG
* *
96814267 TTTGTAAAATTATCGAAATACCC-CTAG
1 TTTGTAAAATTACCAAAATACCCTC-AG
*
96814294 TTTGTAAAATTACCAAAATA-CCTCTG
1 TTTGTAAAATTACCAAAATACCCTCAG
* *
96814320 ATTTGCAAAATTATCAAAATACCCTCAG
1 -TTTGTAAAATTACCAAAATACCCTCAG
* *
96814348 TTTGTAAAATTACCGAAATACCCT-TG
1 TTTGTAAAATTACCAAAATACCCTCAG
* *
96814374 TAGTGTAAAATTACTAAAATATCCCT
1 T-TTGTAAAATTACCAAAATA-CCCT
96814400 GTAGGGTAAA
Statistics
Matches: 129, Mismatches: 22, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
26 8 0.06
27 110 0.85
28 11 0.09
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
TTTGTAAAATTACCAAAATACCCTCAG
Found at i:96814384 original size:54 final size:53
Alignment explanation
Indices: 96814207--96814394 Score: 222
Period size: 54 Copynumber: 3.5 Consensus size: 53
96814197 ATCGTTAAGA
* * *
96814207 CCTTGATTTGTAAAATTATCGAAATACCCCCGATTTGTAAAATTACTAAAATAC
1 CCTTGATTTGTAAAATTATCAAAATACCCCAG-TTTGTAAAATTACCAAAATAC
*
96814261 ACC-TGATTTGTAAAATTATCGAAATACCCCTAGTTTGTAAAATTACCAAAATA-
1 -CCTTGATTTGTAAAATTATCAAAATACCCC-AGTTTGTAAAATTACCAAAATAC
* *
96814314 CCTCTGATTTGCAAAATTATCAAAATACCCTCAGTTTGTAAAATTACCGAAATAC
1 CCT-TGATTTGTAAAATTATCAAAATACCC-CAGTTTGTAAAATTACCAAAATAC
*
96814369 CCTTG-TAGTGTAAAATTA-CTAAAATA
1 CCTTGAT-TTGTAAAATTATC-AAAATA
96814395 TCCCTGTAGG
Statistics
Matches: 119, Mismatches: 7, Indels: 15
0.84 0.05 0.11
Matches are distributed among these distances:
52 2 0.02
53 2 0.02
54 108 0.91
55 7 0.06
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (53 bp):
CCTTGATTTGTAAAATTATCAAAATACCCCAGTTTGTAAAATTACCAAAATAC
Found at i:96815201 original size:27 final size:27
Alignment explanation
Indices: 96815142--96815201 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
96815132 AGATTGGCTA
* *
96815142 GGCCCAATTGATTCTGTTATGGGCTGT
1 GGCCCAAATGATTCTGTAATGGGCTGT
* *
96815169 GACCCAAATGATAT-TGTAATGGGCTTT
1 GGCCCAAATGAT-TCTGTAATGGGCTGT
96815196 GGCCCA
1 GGCCCA
96815202 CTTATGCTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (27 bp):
GGCCCAAATGATTCTGTAATGGGCTGT
Found at i:96818188 original size:27 final size:27
Alignment explanation
Indices: 96818158--96818256 Score: 155
Period size: 27 Copynumber: 3.7 Consensus size: 27
96818148 CCCTGATTTA
96818158 AAAATTA-TCGAAATACCCCCAGTTTGT
1 AAAATTACT-GAAATACCCCCAGTTTGT
* *
96818185 AAAATTACTAAAATACCCCCAGTTTAT
1 AAAATTACTGAAATACCCCCAGTTTGT
96818212 AAAATTACTGAAATACCCCCAGTTTGT
1 AAAATTACTGAAATACCCCCAGTTTGT
*
96818239 AAAATTACCGAAATACCC
1 AAAATTACTGAAATACCC
96818257 TTGTAGTGTA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 65 0.98
28 1 0.02
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.27
Consensus pattern (27 bp):
AAAATTACTGAAATACCCCCAGTTTGT
Found at i:96818266 original size:27 final size:26
Alignment explanation
Indices: 96818158--96818297 Score: 118
Period size: 27 Copynumber: 5.2 Consensus size: 26
96818148 CCCTGATTTA
* * *
96818158 AAAATTATCGAAATACCCCCAGTTTGT
1 AAAATTACCGAAATA-CCCCTGTATGT
** * * *
96818185 AAAATTACTAAAATACCCCCAGTTTAT
1 AAAATTACCGAAATA-CCCCTGTATGT
* * *
96818212 AAAATTACTGAAATACCCCCAGTTTGT
1 AAAATTACCGAAATA-CCCCTGTATGT
*
96818239 AAAATTACCGAAATACCCTTGTAGTGT
1 AAAATTACCGAAATACCCCTGTA-TGT
*
96818266 AAAATTGCCGAAATACCCCTGTATGGT
1 AAAATTACCGAAATACCCCTGTAT-GT
96818293 AAAAT
1 AAAAT
96818298 AACTGTTTTT
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
26 6 0.06
27 93 0.94
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (26 bp):
AAAATTACCGAAATACCCCTGTATGT
Found at i:96818279 original size:54 final size:54
Alignment explanation
Indices: 96818158--96818284 Score: 157
Period size: 54 Copynumber: 2.4 Consensus size: 54
96818148 CCCTGATTTA
* * *
96818158 AAAATTATCGAAATACCCCCAGTTTGTAAAATTACTAAAATACCCCCAGTTTAT
1 AAAATTACCGAAATACCCCCAGTTTGTAAAATTACCAAAATACCCCCAGTGTAT
* * ** *
96818212 AAAATTACTGAAATACCCCCAGTTTGTAAAATTACCGAAATA-CCCTTGTAGTGT
1 AAAATTACCGAAATACCCCCAGTTTGTAAAATTACCAAAATACCCCCAGT-GTAT
*
96818266 AAAATTGCCGAAATACCCC
1 AAAATTACCGAAATACCCC
96818285 TGTATGGTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
53 5 0.08
54 57 0.92
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.28
Consensus pattern (54 bp):
AAAATTACCGAAATACCCCCAGTTTGTAAAATTACCAAAATACCCCCAGTGTAT
Found at i:96818787 original size:27 final size:27
Alignment explanation
Indices: 96818723--96818787 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
96818713 GTATTTACCA
* * *
96818723 ATGGCTTTGTGTCTATCATATTTATTG
1 ATGGCTCTGTGTCGATCATATTTATTC
*
96818750 ATGACTCTGTGTCGATCATATTT-TCTC
1 ATGGCTCTGTGTCGATCATATTTAT-TC
*
96818777 ATGGCTGTGTG
1 ATGGCTCTGTG
96818788 CCAATTATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
26 1 0.03
27 30 0.97
ACGTcount: A:0.17, C:0.15, G:0.22, T:0.46
Consensus pattern (27 bp):
ATGGCTCTGTGTCGATCATATTTATTC
Found at i:96820027 original size:27 final size:27
Alignment explanation
Indices: 96819996--96820173 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
96819986 TAAATTGTAC
96819996 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
96820023 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
96820049 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
96820077 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
96820105 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
96820132 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
96820159 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
96820174 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:96820110 original size:82 final size:81
Alignment explanation
Indices: 96819997--96820152 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
96819987 AAATTGTACA
* *
96819997 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
96820061 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
96820078 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
96820143 TGCGAGTTGA
65 TGCGAATTGA
96820153 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:96820164 original size:82 final size:81
Alignment explanation
Indices: 96819993--96820173 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
96819983 GATTAAATTG
* *
96819993 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
96820058 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
96820074 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
96820138 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
96820156 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
96820174 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:96824752 original size:140 final size:140
Alignment explanation
Indices: 96824495--96824819 Score: 438
Period size: 140 Copynumber: 2.3 Consensus size: 140
96824485 CATCATTCCA
* * *
96824495 CATGCATATCTCAACCCTTATACAAAGAGTTAGCCAAAGCGTATGTCGGCAAGTCTATCCCAACA
1 CATGCATATCCCAACTCTTATACAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACA
96824560 CTTAGGAAAGTATAGGCCCAAAAGTATCAGCATAGTGTTGGAGAAAATCGACTATTATTGAAGTG
66 CTTAGGAAAGTATAGGCCCAAAAGTATCAGCATAGTGTTGGAGAAAATCGACTATTATTGAAGTG
96824625 TTGCCTTAGG
131 TTGCCTTAGG
* * *
96824635 CATGTATATCCCAACAT-TTATACAAAGAGTTGGCCAAAGCGTATGTCGGCAGGTCTATCCCAAT
1 CATGCATATCCCAAC-TCTTATACAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAAC
* * * * * ** * * * *
96824699 AGTTAGGAAAGTGTCGGCTCAAAAGTGTTGGCATAGTGTTGGATAAAGTCGACTCTTATTTAAGT
65 ACTTAGGAAAGTATAGGCCCAAAAGTATCAGCATAGTGTTGGAGAAAATCGACTATTATTGAAGT
96824764 GTTGCCTTAGG
130 GTTGCCTTAGG
* * * *
96824775 CATGCATATCTCGACTCTTAT-CAAATAGTTGGCCAAAGCATATGT
1 CATGCATATCCCAACTCTTATACAAAGAGTTGGCCAAAGCGTATGT
96824820 TGACATGTTT
Statistics
Matches: 161, Mismatches: 22, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
139 23 0.14
140 138 0.86
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (140 bp):
CATGCATATCCCAACTCTTATACAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACA
CTTAGGAAAGTATAGGCCCAAAAGTATCAGCATAGTGTTGGAGAAAATCGACTATTATTGAAGTG
TTGCCTTAGG
Found at i:96828236 original size:17 final size:17
Alignment explanation
Indices: 96828216--96828248 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
96828206 TTTAAAATAA
96828216 TTTTTATAATTTTTAAT
1 TTTTTATAATTTTTAAT
96828233 TTTTTATAATTTTTAA
1 TTTTTATAATTTTTAA
96828249 ATTTAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTATAATTTTTAAT
Found at i:96828242 original size:10 final size:9
Alignment explanation
Indices: 96828212--96828252 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
96828202 TATTTTTAAA
96828212 ATAATTTTT
1 ATAATTTTT
96828221 ATAATTTTT
1 ATAATTTTT
*
96828230 A-ATTTTTT
1 ATAATTTTT
96828238 ATAATTTTT
1 ATAATTTTT
96828247 A-AATTT
1 ATAATTT
96828253 AAAAAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 12 0.41
9 17 0.59
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
ATAATTTTT
Found at i:96832764 original size:33 final size:32
Alignment explanation
Indices: 96832726--96832833 Score: 103
Period size: 32 Copynumber: 3.3 Consensus size: 32
96832716 TGCAGTTCTA
*
96832726 TGAAATGATAACAAATATCATCTTTTCATTTTG
1 TGAAATGATAACAAATATCAAC-TTTCATTTTG
* *
96832759 TGAAATTATAACAAAT-TACAACTTTAATTTTG
1 TGAAATGATAACAAATAT-CAACTTTCATTTTG
* * **
96832791 T-AAACTTATAATAAATATCAACTAGCATTTTG
1 TGAAA-TGATAACAAATATCAACTTTCATTTTG
*
96832823 TTAAATGATAA
1 TGAAATGATAA
96832834 TAATACTTCT
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
31 3 0.05
32 38 0.60
33 22 0.35
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (32 bp):
TGAAATGATAACAAATATCAACTTTCATTTTG
Found at i:96835004 original size:17 final size:17
Alignment explanation
Indices: 96834979--96835011 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
96834969 TAAAAATATT
96834979 AATAAAAATAGAATTTA
1 AATAAAAATAGAATTTA
*
96834996 AATAGAAATAGAATTT
1 AATAAAAATAGAATTT
96835012 TCGTAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (17 bp):
AATAAAAATAGAATTTA
Found at i:96839525 original size:96 final size:96
Alignment explanation
Indices: 96839356--96839586 Score: 304
Period size: 96 Copynumber: 2.4 Consensus size: 96
96839346 TGATATGTGT
* * * * * *
96839356 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGATACTAATATGTATGCTAGTGTAAGACCATG
1 GCCAATGTAAGACCATGTCTGGGACATGGCATCGGTAATAAGACGTAAGCTAGTGTAAGACCATG
96839421 TCTGGGACATGGCATCAGCCAC-ATCATGAGA
66 TCTGGGACATGGCATCAGCCACGA-CATGAGA
* *
96839452 TCCAATGTAAGACCATGTCTGGGACATGGCATCGGTAATGAGACG-AGAGCTAGTGTAAGACCAT
1 GCCAATGTAAGACCATGTCTGGGACATGGCATCGGTAATAAGACGTA-AGCTAGTGTAAGACCAT
* * *
96839516 GTCTGGGACATGGCATCGGCCTCGACATGCGA
65 GTCTGGGACATGGCATCAGCCACGACATGAGA
* * *
96839548 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGTAAT
1 GCCAATGTAAGACCATGTCTGGGACATGGCATCGGTAAT
96839587 TCACCCTCTT
Statistics
Matches: 118, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
95 1 0.01
96 116 0.98
97 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (96 bp):
GCCAATGTAAGACCATGTCTGGGACATGGCATCGGTAATAAGACGTAAGCTAGTGTAAGACCATG
TCTGGGACATGGCATCAGCCACGACATGAGA
Found at i:96839582 original size:48 final size:48
Alignment explanation
Indices: 96839356--96839582 Score: 228
Period size: 48 Copynumber: 4.7 Consensus size: 48
96839346 TGATATGTGT
** * * *
96839356 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGATACT-AATATGTA-T
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG-GCCTCGACATG-AGA
* * *
96839404 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCAC-ATCATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-CATGAGA
* * ** * *
96839452 TCCAATGTAAGACCATGTCTGGGACATGGCATCGGTAAT-GAGACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CCTCGACATGAGA
* *
96839500 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGCGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGAGA
* *
96839548 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
96839583 TAATTCACCC
Statistics
Matches: 146, Mismatches: 27, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
47 4 0.03
48 141 0.97
49 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGAGA
Found at i:96841767 original size:14 final size:14
Alignment explanation
Indices: 96841748--96841778 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
96841738 CTGGAGTTGA
96841748 TTAAATACTATGAG
1 TTAAATACTATGAG
96841762 TTAAATACTATGAG
1 TTAAATACTATGAG
96841776 TTA
1 TTA
96841779 GTAATTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (14 bp):
TTAAATACTATGAG
Found at i:96844643 original size:48 final size:47
Alignment explanation
Indices: 96844569--96844797 Score: 202
Period size: 48 Copynumber: 4.8 Consensus size: 47
96844559 TGATATGCAT
*
96844569 GCCAGTGTAAGACCATGTTTGAGACATGGCATCGGCGATGC-TGTGAGA
1 GCCAGTGTAAGACCATG-TTGGGACATGGCATCGGC-ATGCATGTGAGA
* * *
96844617 GCCAGTGTAAGACCATGTCTAGGACATGGCATCCGCCA--CATCATGAGA
1 GCCAGTGTAAGACCATGT-TGGGACATGGCAT-CGGCATGCAT-GTGAGA
* *
96844665 GCCAGTGTAAAACCATGTTTGGGACATGGCATCGGCAATG-A-GACGAGA
1 GCCAGTGTAAGACCATG-TTGGGACATGGCATCGGC-ATGCATG-TGAGA
* * * *
96844713 GCTATTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATG-CA-A
1 GCCAGTGTAAGACCATGT-TGGGACATGGCATCGGCAT-G-CATGTGAGA
*
96844761 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCA
1 GCCAGTGTAAGACCATG-TTGGGACATGGCATCGGCA
96844798 ATTCACCCTC
Statistics
Matches: 148, Mismatches: 18, Indels: 30
0.76 0.09 0.15
Matches are distributed among these distances:
46 1 0.01
47 7 0.05
48 131 0.89
49 7 0.05
50 1 0.01
51 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTTGGGACATGGCATCGGCATGCATGTGAGA
Found at i:96844738 original size:96 final size:96
Alignment explanation
Indices: 96844563--96844799 Score: 318
Period size: 96 Copynumber: 2.5 Consensus size: 96
96844553 TTTGGGTGAT
* * * * *
96844563 ATGCATGCCAGTGTAAGACCATGTTTGAGACATGGCATCGGCGATGCTGTGAGAGCCAGTGTAAG
1 ATGCAAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCAATGCAGCGAGAGCCAGTGTAAG
96844628 ACCATGTCTAGGACATGGCATCCGCCAC-ATC
66 ACCATGTCTAGGACATGGCATCCGCCACGA-C
* * *
96844659 ATG-AGAGCCAGTGTAAAACCATGTTTGGGACATGGCATCGGCAATG-AGACGAGAGCTATTGTA
1 ATGCA-AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCAATGCAG-CGAGAGCCAGTGTA
* * *
96844722 AGACCATGTCTGGGACATGGCATCGGCCTCGAC
64 AGACCATGTCTAGGACATGGCATCCGCCACGAC
*
96844755 ATGCAAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCAAT
1 ATGCAAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCAAT
96844800 TCACCCTCTT
Statistics
Matches: 124, Mismatches: 13, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
95 2 0.02
96 120 0.97
97 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (96 bp):
ATGCAAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCAATGCAGCGAGAGCCAGTGTAAG
ACCATGTCTAGGACATGGCATCCGCCACGAC
Found at i:96849813 original size:42 final size:42
Alignment explanation
Indices: 96849718--96849815 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 42
96849708 GAAGTATTGA
* * * *
96849718 CAGCTTGTCTGCAACACTAGTGGCTTGTCCACACATTATTGG
1 CAGCTTGTCTACAACACTAGTGGCTTGACAACACATTACTGG
* * * *
96849760 CAACTTTTCTACAACACTTGTGGCTTGACAACATATTACTGG
1 CAGCTTGTCTACAACACTAGTGGCTTGACAACACATTACTGG
**
96849802 TGGCTTGTCTACAA
1 CAGCTTGTCTACAA
96849816 TACTGACAGT
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (42 bp):
CAGCTTGTCTACAACACTAGTGGCTTGACAACACATTACTGG
Found at i:96849846 original size:41 final size:40
Alignment explanation
Indices: 96849794--96849889 Score: 138
Period size: 41 Copynumber: 2.4 Consensus size: 40
96849784 TTGACAACAT
*
96849794 ATTACTGGTGGCTTGTCTACAATACTGACAGTTTATCTAC
1 ATTACTGGTGGCTTGTCCACAATACTGACAGTTTATCTAC
* * *
96849834 AATTATTGGTGGCTTGTCCACAATACTGATAGTTTATCTGC
1 -ATTACTGGTGGCTTGTCCACAATACTGACAGTTTATCTAC
*
96849875 ATTACAGGTGGCTTG
1 ATTACTGGTGGCTTG
96849890 AGCACAAACT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
40 13 0.27
41 36 0.73
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.38
Consensus pattern (40 bp):
ATTACTGGTGGCTTGTCCACAATACTGACAGTTTATCTAC
Found at i:96855292 original size:27 final size:27
Alignment explanation
Indices: 96855251--96855396 Score: 166
Period size: 27 Copynumber: 5.4 Consensus size: 27
96855241 GGGATAAGTT
96855251 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
96855278 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
96855305 ATAGAATCACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
96855332 GTAGAAATACTGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * * * *
96855359 GAAAAATTGCCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
96855386 GTAAAATTACC
1 GTAGAATTACC
96855397 ATTTTGCCCC
Statistics
Matches: 97, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:96855330 original size:54 final size:55
Alignment explanation
Indices: 96855252--96855395 Score: 193
Period size: 54 Copynumber: 2.7 Consensus size: 55
96855242 GGATAAGTTG
* *
96855252 TAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTA-GGA
1 TAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTATAGGGA
* *
96855306 TAGAATCACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTATAGGGA
1 TAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTATAGGGA
* * * * *
96855361 -AAAATTGCCGAGATACCCTTGTGGGGTAAAATTAC
1 TAGAATTACCGAAATACCCTTGTAGGGTAGAATTAC
96855396 CATTTTGCCC
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
54 75 0.96
55 3 0.04
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (55 bp):
TAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTATAGGGA
Found at i:96855407 original size:28 final size:27
Alignment explanation
Indices: 96855383--96855434 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
96855373 ATACCCTTGT
*
96855383 GGGGTAAAATTACCATTTTGCCCCTAG
1 GGGGTAAAATAACCATTTTGCCCCTAG
* * *
96855410 GGTGTTAAATAACTATTTTGCCCCT
1 GGGGTAAAATAACCATTTTGCCCCT
96855435 CGTGCATAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGGGTAAAATAACCATTTTGCCCCTAG
Found at i:96861112 original size:27 final size:27
Alignment explanation
Indices: 96861073--96861162 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
96861063 ATAAGTTGTT
* *
96861073 GAATTACCGAAATACCCCTGTAGGATA
1 GAATTACCAAAATACCCCTGTAGGGTA
96861100 GAATTACCAAAATACCCCTGTAGGGTA
1 GAATTACCAAAATACCCCTGTAGGGTA
* * * * *
96861127 GAAATACCGAGATACCCTTGTGGGGTA
1 GAATTACCAAAATACCCCTGTAGGGTA
*
96861154 AAATTACCA
1 GAATTACCA
96861163 TTTTGCCCCT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (27 bp):
GAATTACCAAAATACCCCTGTAGGGTA
Found at i:96863824 original size:30 final size:29
Alignment explanation
Indices: 96863746--96863924 Score: 171
Period size: 29 Copynumber: 6.1 Consensus size: 29
96863736 ATCGACACCT
* * *
96863746 ATCGAATATGAAAGAGGATGGTTTCGACT
1 ATCGATTATGAAAAAGGATGGTTTCGACC
* * *
96863775 ATCGAATATGAAAAGGGATGGCTTCGACC
1 ATCGATTATGAAAAAGGATGGTTTCGACC
*
96863804 ATCGATTAAAGAAAAAGGATGGTTTCGACC
1 ATCGATT-ATGAAAAAGGATGGTTTCGACC
* * **
96863834 ATCAATTGTGAAAAAGGATGGTGACGACC
1 ATCGATTATGAAAAAGGATGGTTTCGACC
* * *
96863863 ATCGAATATG-AAAAGGATAGTTTTGACC
1 ATCGATTATGAAAAAGGATGGTTTCGACC
* * * *
96863891 ATCAATTAAAGAAAAGGGATGGTTTCGACT
1 ATCGATT-ATGAAAAAGGATGGTTTCGACC
96863921 ATCG
1 ATCG
96863925 TTTAGCACAC
Statistics
Matches: 119, Mismatches: 28, Indels: 5
0.78 0.18 0.03
Matches are distributed among these distances:
28 19 0.16
29 58 0.49
30 42 0.35
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (29 bp):
ATCGATTATGAAAAAGGATGGTTTCGACC
Done.