Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 172 of 444
Found at i:47526164 original size:37 final size:37
Alignment explanation
Indices: 47526114--47526198 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 37
47526104 AGGCTGCCTA
*
47526114 ATTCTAATTCTGTCACCTAATTCTGATTCTGATT-TT
1 ATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTT
* *
47526150 GATTCTGATTCTGTCACCTGATTCTGATTTTGATTCTT
1 -ATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTT
*
47526188 ATTTTGATTCT
1 ATTCTGATTCT
47526199 AGTTCTGATA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
37 41 0.95
38 2 0.05
ACGTcount: A:0.19, C:0.18, G:0.12, T:0.52
Consensus pattern (37 bp):
ATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTT
Found at i:47541861 original size:39 final size:39
Alignment explanation
Indices: 47541807--47541885 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
47541797 TACCATAAAT
47541807 TTCAAATTTTCAGCATATTCATCCATGACCTAATTTCCA
1 TTCAAATTTTCAGCATATTCATCCATGACCTAATTTCCA
*
47541846 TTCAAATTTTTAGCATATTCATCCATGACCTAATTTCCA
1 TTCAAATTTTCAGCATATTCATCCATGACCTAATTTCCA
47541885 T
1 T
47541886 ACTTTGATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.30, C:0.24, G:0.05, T:0.41
Consensus pattern (39 bp):
TTCAAATTTTCAGCATATTCATCCATGACCTAATTTCCA
Found at i:47554991 original size:16 final size:17
Alignment explanation
Indices: 47554960--47554993 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
47554950 TAAATCAATC
*
47554960 ATCAATCATTTCATTCA
1 ATCAATCATGTCATTCA
47554977 ATCAA-CATGTCATTCA
1 ATCAATCATGTCATTCA
47554993 A
1 A
47554994 ACTAAAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.35
Consensus pattern (17 bp):
ATCAATCATGTCATTCA
Found at i:47555342 original size:24 final size:24
Alignment explanation
Indices: 47555310--47555363 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
47555300 CGTACACGAT
*
47555310 CGTGTGGTAGACCATGTCACAGGC
1 CGTGTGGTAGACCATCTCACAGGC
*
47555334 CGTGTGGTAGACCATCTCACAGGT
1 CGTGTGGTAGACCATCTCACAGGC
47555358 CGTGTG
1 CGTGTG
47555364 TACCCAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.19, C:0.24, G:0.33, T:0.24
Consensus pattern (24 bp):
CGTGTGGTAGACCATCTCACAGGC
Found at i:47555816 original size:45 final size:45
Alignment explanation
Indices: 47555765--47555854 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
47555755 CCATTCATCA
47555765 AACCTTAACTTAGTATATAACCAAACATTATATTTGAATGTCAAT
1 AACCTTAACTTAGTATATAACCAAACATTATATTTGAATGTCAAT
47555810 AACCTTAACTTAGTATATAACCAAACATTATATTTGAATGTCAAT
1 AACCTTAACTTAGTATATAACCAAACATTATATTTGAATGTCAAT
47555855 CATTTCACAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.36
Consensus pattern (45 bp):
AACCTTAACTTAGTATATAACCAAACATTATATTTGAATGTCAAT
Found at i:47572262 original size:17 final size:18
Alignment explanation
Indices: 47572242--47572275 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
47572232 AAGTGAATTG
47572242 AAATTGC-GAAATTAAAT
1 AAATTGCAGAAATTAAAT
47572259 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
47572276 ATGAGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:47573012 original size:10 final size:10
Alignment explanation
Indices: 47572985--47573042 Score: 82
Period size: 10 Copynumber: 5.8 Consensus size: 10
47572975 TGAAATTTTA
47572985 AAAGATAAAT
1 AAAGATAAAT
47572995 ACAA-ATAAAT
1 A-AAGATAAAT
*
47573005 AAAGATAATT
1 AAAGATAAAT
*
47573015 AAAGATAATT
1 AAAGATAAAT
47573025 AAAGATAAAT
1 AAAGATAAAT
47573035 AAAGATAA
1 AAAGATAA
47573043 TCAAAAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
9 2 0.05
10 40 0.91
11 2 0.05
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:47573019 original size:30 final size:30
Alignment explanation
Indices: 47572985--47573054 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
47572975 TGAAATTTTA
*
47572985 AAAGATAAATACAA-ATAAATAAAGATAATT
1 AAAGATAAATA-AAGATAAATAAAGATAATC
*
47573015 AAAGATAATTAAAGATAAATAAAGATAATC
1 AAAGATAAATAAAGATAAATAAAGATAATC
*
47573045 AAAAATAAAT
1 AAAGATAAAT
47573055 CCTAGAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 2 0.06
30 33 0.94
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (30 bp):
AAAGATAAATAAAGATAAATAAAGATAATC
Found at i:47573043 original size:20 final size:20
Alignment explanation
Indices: 47572985--47573054 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
47572975 TGAAATTTTA
*
47572985 AAAGATAAATACAA-ATAAAT
1 AAAGATAAATA-AAGATAATT
*
47573005 AAAGATAATTAAAGATAATT
1 AAAGATAAATAAAGATAATT
*
47573025 AAAGATAAATAAAGATAATC
1 AAAGATAAATAAAGATAATT
*
47573045 AAAAATAAAT
1 AAAGATAAAT
47573055 CCTAGAATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
19 2 0.05
20 42 0.95
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:47574230 original size:29 final size:29
Alignment explanation
Indices: 47574187--47574263 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
47574177 GTATTTTACC
*
47574187 GATTTGGCTTTAGGCCATGCATATCGGAT
1 GATTTGGCTTTAGGCCATGCAAATCGGAT
* * *
47574216 GATTTGGCTTCAGGCTATGCAAATTGGAT
1 GATTTGGCTTTAGGCCATGCAAATCGGAT
*
47574245 GATTTGGCTTTGGGCCATG
1 GATTTGGCTTTAGGCCATG
47574264 ATAGTAGTTC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.19, C:0.16, G:0.30, T:0.35
Consensus pattern (29 bp):
GATTTGGCTTTAGGCCATGCAAATCGGAT
Found at i:47585197 original size:23 final size:23
Alignment explanation
Indices: 47585167--47585211 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
47585157 TTGAGATTAC
47585167 CTGTGCCCACTTGTACAACATAT
1 CTGTGCCCACTTGTACAACATAT
*
47585190 CTGTGCCCGCTTGTACAACATA
1 CTGTGCCCACTTGTACAACATA
47585212 ACTTATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (23 bp):
CTGTGCCCACTTGTACAACATAT
Found at i:47590441 original size:26 final size:27
Alignment explanation
Indices: 47590409--47590531 Score: 112
Period size: 26 Copynumber: 4.7 Consensus size: 27
47590399 TTCCTTAGCC
*
47590409 GATAGTCCTTACAGACTCCCTCA-ATA
1 GATAGTCCTTACAGACTTCCTCACATA
* * *
47590435 GACAGTCCTTGCGGACTT-CTCACATA
1 GATAGTCCTTACAGACTTCCTCACATA
** *
47590461 GGATAGTCCTT-GTGACTTCCACA-ATA
1 -GATAGTCCTTACAGACTTCCTCACATA
* *
47590487 GATAGTCTTTACAGACTTCCT-ATATAA
1 GATAGTCCTTACAGACTTCCTCACAT-A
47590514 GATAGTCCTTACAGACTT
1 GATAGTCCTTACAGACTT
47590532 TCCATAGAAA
Statistics
Matches: 78, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
25 14 0.18
26 34 0.44
27 30 0.38
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.31
Consensus pattern (27 bp):
GATAGTCCTTACAGACTTCCTCACATA
Found at i:47594968 original size:43 final size:45
Alignment explanation
Indices: 47594912--47595045 Score: 155
Period size: 51 Copynumber: 2.9 Consensus size: 45
47594902 GATATATATG
*
47594912 GCATCCGAGCTCGTTAAGAGGTCCGAGTTCATTATGGATGC-G-A
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCAGTA
* * *
47594955 GCATCTGAGCTCGTTGAGTGGTCCGAGTTCATAATGTATGCGATACATGTA
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTC---AT-TATG-GATGCA-GTA
*
47595006 ACATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
47595046 TGTTGCATGC
Statistics
Matches: 75, Mismatches: 8, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
43 27 0.36
46 5 0.07
47 8 0.11
48 6 0.08
50 1 0.01
51 28 0.37
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.28
Consensus pattern (45 bp):
GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCAGTA
Found at i:47598759 original size:40 final size:40
Alignment explanation
Indices: 47598700--47598804 Score: 149
Period size: 40 Copynumber: 2.6 Consensus size: 40
47598690 CATTTGAATG
* * *
47598700 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTG-TT
* *
47598740 ATGTCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTT
47598780 ATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
47598805 ATGGTGCAAG
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 56 0.97
41 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTT
Found at i:47606558 original size:40 final size:40
Alignment explanation
Indices: 47606499--47606603 Score: 149
Period size: 40 Copynumber: 2.6 Consensus size: 40
47606489 CATTTGAATG
* * *
47606499 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTG-TT
* *
47606539 ATGTCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTT
47606579 ATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
47606604 ATGGTGCAAG
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 56 0.97
41 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTT
Found at i:47606625 original size:40 final size:40
Alignment explanation
Indices: 47606542--47606650 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 40
47606532 AGTGATTATG
* * *** *
47606542 TCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATA
1 TCCGGGCTAAGACCCGAAGGCAATCGTGCAAGTTACCAAA
*
47606582 TCCGGGCTAAGACCCGAAGGCAATGGTGCAAGTTACCAAA
1 TCCGGGCTAAGACCCGAAGGCAATCGTGCAAGTTACCAAA
* *
47606622 TCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TCCGGGCTAAGACCCGAAGGCAATCGTGC
47606651 TTGTGGTTGT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (40 bp):
TCCGGGCTAAGACCCGAAGGCAATCGTGCAAGTTACCAAA
Found at i:47608920 original size:40 final size:40
Alignment explanation
Indices: 47608707--47608933 Score: 332
Period size: 40 Copynumber: 5.7 Consensus size: 40
47608697 ATAACCACCA
* * *
47608707 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
47608747 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
47608787 GCACAAATGCCTTCGGGTCTTAAG-CCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTT-AGCCCGGATATAGCAACTC
*
47608827 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* *
47608867 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT-AGCAACTC
* * *
47608907 GCATAAATACCTTCGGGGCTTAGCCCG
1 GCACAAATGCCTTCGGGTCTTAGCCCG
47608934 AGTATCATTC
Statistics
Matches: 172, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 1 0.01
40 167 0.97
41 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:47608920 original size:120 final size:120
Alignment explanation
Indices: 47608689--47608928 Score: 376
Period size: 120 Copynumber: 2.0 Consensus size: 120
47608679 TTCGGAATTT
* * *
47608689 AGCCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAA
1 AGCCGGATATAACAACCAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAA
* * *
47608754 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTA
66 TGCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAATACCTTCGGGGCTTA
*
47608809 AGCCGGATATAGCAACTC-GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAA
1 AGCCGGATATAACAAC-CAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAA
*
47608873 ATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATACCTTCGGGGCTTA
65 ATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTAGCACAAATACCTTCGGGGCTTA
47608929 GCCCGAGTAT
Statistics
Matches: 110, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
120 108 0.98
121 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (120 bp):
AGCCGGATATAACAACCAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAA
TGCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAATACCTTCGGGGCTTA
Found at i:47616892 original size:40 final size:40
Alignment explanation
Indices: 47616847--47617070 Score: 314
Period size: 40 Copynumber: 5.7 Consensus size: 40
47616837 ATAACCACAA
* *
47616847 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
47616887 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
*
47616927 GCACAAATGCCTTCGGGTCTT-AGCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
47616966 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACT-
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * *
47617005 -CACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* *
47617044 GCATAAATGCCTTCGGG-CTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
47617071 GTATCATTCA
Statistics
Matches: 169, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
38 33 0.20
39 48 0.28
40 88 0.52
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:47616970 original size:79 final size:78
Alignment explanation
Indices: 47616827--47617070 Score: 325
Period size: 79 Copynumber: 3.1 Consensus size: 78
47616817 TCTTCGGAAT
* * * * *
47616827 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAACAAC-TGCACAAATGCCTTCGGGTCTT-AGCCGGATATAGCAACTCGCAC
47616891 AAATGCCTTCGGGTC
64 AAATGCCTTCGGGTC
47616906 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCGGATATAGCAACTCGCACA
1 TTAGCCCGGATATAACAACT-GCACAAATGCCTTCGGGTCTTAGCCGGATATAGCAACTCGCACA
47616971 AATGCCTTCGGGTC
65 AATGCCTTCGGGTC
* * * * *
47616985 TTAACCCGGATATAGCAACT-CACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCAT
1 TTAGCCCGGATATAACAACTGCACAAATGCCTTCGGGTCTTAG-CCGGATAT-AGCAACTCGCAC
47617048 AAATGCCTTCGGG-C
64 AAATGCCTTCGGGTC
47617062 TTAGCCCGG
1 TTAGCCCGG
47617071 GTATCATTCA
Statistics
Matches: 150, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
77 31 0.21
78 27 0.18
79 59 0.39
80 33 0.22
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (78 bp):
TTAGCCCGGATATAACAACTGCACAAATGCCTTCGGGTCTTAGCCGGATATAGCAACTCGCACAA
ATGCCTTCGGGTC
Found at i:47620721 original size:22 final size:22
Alignment explanation
Indices: 47620696--47620737 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
47620686 TTAGTTATTC
* * *
47620696 ATTTAATTTTTTATTTTTTAAT
1 ATTTAAATTTGTATTGTTTAAT
47620718 ATTTAAATTTGTATTGTTTA
1 ATTTAAATTTGTATTGTTTA
47620738 TTAAATCACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (22 bp):
ATTTAAATTTGTATTGTTTAAT
Found at i:47620927 original size:29 final size:29
Alignment explanation
Indices: 47620857--47620929 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 29
47620847 TTAATTTTAA
47620857 AAAAAAATCA-AAAAATAATTTTAAAAAT
1 AAAAAAATCATAAAAATAATTTTAAAAAT
* * *
47620885 -GAAAAATTATTAAAAATTA-TTTAAAAAGT
1 AAAAAAATCA-TAAAAATAATTTTAAAAA-T
*
47620914 AAAAAAATGATAAAAA
1 AAAAAAATCATAAAAA
47620930 AATATTTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
27 7 0.19
28 8 0.22
29 14 0.39
30 7 0.19
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.26
Consensus pattern (29 bp):
AAAAAAATCATAAAAATAATTTTAAAAAT
Found at i:47629329 original size:17 final size:17
Alignment explanation
Indices: 47629307--47629341 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
47629297 CTCATGTCTA
47629307 TGTATACTAGTTTATTC
1 TGTATACTAGTTTATTC
* *
47629324 TGTATATTGGTTTATTC
1 TGTATACTAGTTTATTC
47629341 T
1 T
47629342 AAATACTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.20, C:0.09, G:0.14, T:0.57
Consensus pattern (17 bp):
TGTATACTAGTTTATTC
Found at i:47634573 original size:20 final size:19
Alignment explanation
Indices: 47634502--47634583 Score: 67
Period size: 20 Copynumber: 4.1 Consensus size: 19
47634492 TTTTTATAAT
*
47634502 TTTTAAAAATTTTTTTTTGGAA
1 TTTTAAAAA--TTATTTT-GAA
* *
47634524 TTTTTACAAA-TATTTTGTA
1 -TTTTAAAAATTATTTTGAA
47634543 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATTATTTTGAA
* *
47634562 TATTTGAAAATTATTTTAAA
1 T-TTTAAAAATTATTTTGAA
47634582 TT
1 TT
47634584 ATTTTGTAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
18 8 0.16
19 12 0.24
20 22 0.44
23 8 0.16
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.56
Consensus pattern (19 bp):
TTTTAAAAATTATTTTGAA
Found at i:47634767 original size:23 final size:23
Alignment explanation
Indices: 47634717--47634772 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
47634707 TTGAACTCAA
* *
47634717 AACTTGAATTACTTATTTGAATT
1 AACTTAAATAACTTATTTGAATT
*
47634740 GACTTAAATAACTTGATTTG-ATT
1 AACTTAAATAACTT-ATTTGAATT
47634763 AACTTGAAAT
1 AACTT-AAAT
47634773 TCAATTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.43
Consensus pattern (23 bp):
AACTTAAATAACTTATTTGAATT
Found at i:47637421 original size:16 final size:17
Alignment explanation
Indices: 47637399--47637463 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 17
47637389 TATACATTGT
47637399 AATATATATAAAAATATG
1 AATA-ATATAAAAATATG
*
47637417 AAT-ATAATATAATATATG
1 AATAAT-ATA-AAAATATG
47637435 TAATATAATATAAAAATAT-
1 --A-ATAATATAAAAATATG
47637454 AATAATATAA
1 AATAATATAA
47637464 CATTAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
16 11 0.28
17 4 0.10
18 10 0.26
20 7 0.18
21 5 0.13
22 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
AATAATATAAAAATATG
Found at i:47637463 original size:5 final size:5
Alignment explanation
Indices: 47637398--47637457 Score: 60
Period size: 5 Copynumber: 13.0 Consensus size: 5
47637388 ATATACATTG
*
47637398 TAATA T-ATA TAA-A -AATA TGAATA TAATA TAATA T-ATG TAATA TAATA
1 TAATA TAATA TAATA TAATA T-AATA TAATA TAATA TAATA TAATA TAATA
47637445 TAA-A -AATA TAATA
1 TAATA TAATA TAATA
47637458 ATATAACATT
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
3 4 0.09
4 11 0.24
5 26 0.57
6 5 0.11
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (5 bp):
TAATA
Found at i:47637839 original size:3 final size:3
Alignment explanation
Indices: 47637801--47637871 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
47637791 TTATACGTAC
* * * *
47637801 ATA ATA AAA ATA TATA CTA ATA CATA ATA GTA ATA ATA ATA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
** *
47637848 ATA ATA CCA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
47637872 CAAGGATATT
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.62, C:0.07, G:0.01, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:47638781 original size:21 final size:22
Alignment explanation
Indices: 47638735--47638786 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
47638725 GGTGTCAGAC
* *
47638735 GGTATGGGACTGTTGTAGTGGG
1 GGTATGGGGCGGTTGTAGTGGG
47638757 GGTATGGGGCGGTTGTAGT-GG
1 GGTATGGGGCGGTTGTAGTGGG
47638778 GGTATGGGG
1 GGTATGGGG
47638787 TTGCTTCATG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.12, C:0.04, G:0.56, T:0.29
Consensus pattern (22 bp):
GGTATGGGGCGGTTGTAGTGGG
Found at i:47639762 original size:21 final size:21
Alignment explanation
Indices: 47639736--47639780 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
47639726 AAAACGTAAA
47639736 GAACATTAAAAACGAGGCTTG
1 GAACATTAAAAACGAGGCTTG
47639757 GAACATTAAAAACGAGGCTTG
1 GAACATTAAAAACGAGGCTTG
47639778 GAA
1 GAA
47639781 TCACTTACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.13, G:0.24, T:0.18
Consensus pattern (21 bp):
GAACATTAAAAACGAGGCTTG
Found at i:47642295 original size:15 final size:14
Alignment explanation
Indices: 47642252--47642309 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 14
47642242 ATTAATTACT
*
47642252 ATAATTAAAAATAAA
1 ATAATT-AAAATCAA
*
47642267 ATATTTAAAA--AA
1 ATAATTAAAATCAA
47642279 ATAATTAAATATCAA
1 ATAATTAAA-ATCAA
47642294 ATACA-TAAAATCAA
1 ATA-ATTAAAATCAA
47642308 AT
1 AT
47642310 CTAAATTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
12 10 0.27
13 1 0.03
14 11 0.30
15 14 0.38
16 1 0.03
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAATTAAAATCAA
Found at i:47642302 original size:27 final size:27
Alignment explanation
Indices: 47642252--47642303 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
47642242 ATTAATTACT
**
47642252 ATAATTAAAAATAAAATATTTAAAAAA
1 ATAATTAAAAATAAAATACATAAAAAA
* *
47642279 ATAATTAAATATCAAATACATAAAA
1 ATAATTAAAAATAAAATACATAAAA
47642304 TCAAATCTAA
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:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (27 bp):
ATAATTAAAAATAAAATACATAAAAAA
Found at i:47648699 original size:21 final size:20
Alignment explanation
Indices: 47648675--47648735 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 20
47648665 TAAAATGGTA
47648675 ATAAATTTATATTTTAATATT
1 ATAAATTTATATTTTAAT-TT
*
47648696 ATAAAATATT-TA-ATTAATTT
1 AT-AAAT-TTATATTTTAATTT
*
47648716 TTAAATTTATAATTTTAATT
1 ATAAATTTAT-ATTTTAATT
47648736 ATTTTATTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
18 2 0.06
19 5 0.16
20 4 0.12
21 13 0.41
22 6 0.19
23 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATAAATTTATATTTTAATTT
Found at i:47649445 original size:5 final size:5
Alignment explanation
Indices: 47649437--47649506 Score: 56
Period size: 5 Copynumber: 14.0 Consensus size: 5
47649427 CACGACACCT
*
47649437 TTAAA TTAAAA TTAAA TTAAA TT--A TTAGAA TTAAA TTAAC TTATAA
1 TTAAA TT-AAA TTAAA TTAAA TTAAA TTA-AA TTAAA TTAAA TTA-AA
* * *
47649483 -AAAA TTAAT TTTAA TTAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA
47649507 AATTTTCAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
3 3 0.06
4 2 0.04
5 36 0.71
6 10 0.20
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (5 bp):
TTAAA
Found at i:47649468 original size:19 final size:19
Alignment explanation
Indices: 47649441--47649490 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
47649431 ACACCTTTAA
47649441 ATTAAAATTAAATTAAATT
1 ATTAAAATTAAATTAAATT
* *
47649460 ATTAGAATTAAATTAACTT
1 ATTAAAATTAAATTAAATT
*
47649479 ATAAAAAATTAA
1 AT-TAAAATTAA
47649491 TTTTAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (19 bp):
ATTAAAATTAAATTAAATT
Found at i:47649470 original size:14 final size:13
Alignment explanation
Indices: 47649437--47649474 Score: 53
Period size: 11 Copynumber: 3.0 Consensus size: 13
47649427 CACGACACCT
47649437 TTAAATTAAA--A
1 TTAAATTAAATTA
47649448 TTAAATTAAATTA
1 TTAAATTAAATTA
47649461 TTAGAATTAAATTA
1 TTA-AATTAAATTA
47649475 ACTTATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 10 0.42
13 4 0.17
14 10 0.42
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (13 bp):
TTAAATTAAATTA
Found at i:47657282 original size:9 final size:9
Alignment explanation
Indices: 47657268--47657376 Score: 148
Period size: 9 Copynumber: 12.2 Consensus size: 9
47657258 TATGTATTAC
47657268 GTAAGTTAT
1 GTAAGTTAT
47657277 GTAAGTTAT
1 GTAAGTTAT
* *
47657286 GTGAGGTAT
1 GTAAGTTAT
47657295 GTAAGTTAT
1 GTAAGTTAT
47657304 GTAAGTTAT
1 GTAAGTTAT
*
47657313 GTGAGTTAT
1 GTAAGTTAT
*
47657322 TTAAGTTAT
1 GTAAGTTAT
*
47657331 GTGAGTTAT
1 GTAAGTTAT
47657340 -TAAGTTAT
1 GTAAGTTAT
*
47657348 GTGAGTTAT
1 GTAAGTTAT
*
47657357 GTGAGTTAT
1 GTAAGTTAT
47657366 GTAAGTTAT
1 GTAAGTTAT
47657375 GT
1 GT
47657377 GAATCAACAT
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
8 7 0.08
9 80 0.92
ACGTcount: A:0.28, C:0.00, G:0.27, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:47660297 original size:31 final size:31
Alignment explanation
Indices: 47660259--47660322 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
47660249 AAAGGAAAAC
47660259 TTTTCTCATATGGGAGGAATTGAGAGAAAGA
1 TTTTCTCATATGGGAGGAATTGAGAGAAAGA
47660290 TTTTCTCATATGGGAGGAATTGAGAGAAAGA
1 TTTTCTCATATGGGAGGAATTGAGAGAAAGA
47660321 TT
1 TT
47660323 CATACTTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.31
Consensus pattern (31 bp):
TTTTCTCATATGGGAGGAATTGAGAGAAAGA
Found at i:47660898 original size:20 final size:20
Alignment explanation
Indices: 47660875--47660925 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
47660865 TTTCGACTTT
* *
47660875 GATTTGGGGAAAAATTTAGG
1 GATTTGGGGAAAAAGTTAAG
*
47660895 GATTAGGGG-AAAAGTTAAG
1 GATTTGGGGAAAAAGTTAAG
47660914 GATTTGGGGAAA
1 GATTTGGGGAAA
47660926 TTTTGTTGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.37, C:0.00, G:0.37, T:0.25
Consensus pattern (20 bp):
GATTTGGGGAAAAAGTTAAG
Found at i:47661355 original size:73 final size:74
Alignment explanation
Indices: 47661143--47661435 Score: 206
Period size: 73 Copynumber: 4.0 Consensus size: 74
47661133 CTATTGCGAC
* * * * * *
47661143 GTTTTGGGCAAAATGCCACTAATAACAAGGCTAAAATGGCGACATTTT-TCAAAATCTTAATACA
1 GTTTTGGGCAAAACGCCACTAATAACAAGGCTAAAACGGCGTCGTTTTGT-GAACTCTTAATACA
*
47661207 TATTTGAGGT
65 TATTTGCGGT
* * ** * * * *
47661217 GTTTTATGG--AAGCGCCACTAA-ATACAAAACATAAAACGACATCGTTTTG-GAAACACTTAAC
1 GTTTT-GGGCAAAACGCCACTAATA-ACAAGGC-TAAAACGGCGTCGTTTTGTG-AACTCTTAAT
47661278 ACATATTTGCGGT
62 ACATATTTGCGGT
* *
47661291 GTTTTGGGCAAAACGCCACTAATAACAAGGCT-AAACGGTGTCGTTTTGTGAACTCCTAATACAT
1 GTTTTGGGCAAAACGCCACTAATAACAAGGCTAAAACGGCGTCGTTTTGTGAACTCTTAATACAT
*
47661355 ATTTGCGGC
66 ATTTGCGGT
** ** * * ** * *
47661364 GTTTTTAAG-AAAGTGCCACTAAAAACAAAGCATAAAACGGCACCGTTTTGCT-AACACTTAACA
1 G-TTTTGGGCAAAACGCCACTAATAACAAGGC-TAAAACGGCGTCGTTTTG-TGAACTCTTAATA
47661427 CATATTTGC
63 CATATTTGC
47661436 TGTTTAAAAC
Statistics
Matches: 168, Mismatches: 38, Indels: 25
0.73 0.16 0.11
Matches are distributed among these distances:
72 1 0.01
73 68 0.40
74 49 0.29
75 48 0.29
76 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (74 bp):
GTTTTGGGCAAAACGCCACTAATAACAAGGCTAAAACGGCGTCGTTTTGTGAACTCTTAATACAT
ATTTGCGGT
Found at i:47661411 original size:148 final size:148
Alignment explanation
Indices: 47661143--47661435 Score: 383
Period size: 148 Copynumber: 2.0 Consensus size: 148
47661133 CTATTGCGAC
* * *
47661143 GTTTTGGGCAAAATGCCACTAATAACAAGGCTAAAATGGCGACATTTTTCAAAATCTTAATACAT
1 GTTTTGGGCAAAACGCCACTAATAACAAGGCTAAAACGGCGACATTTTTCAAAATCCTAATACAT
* * * * * *
47661208 ATTTGAGGTGTTTTATGGAAGCGCCACTAAATACAAAACATAAAACGACATCGTTTTGGAAACAC
66 ATTTGAGGCGTTTTAAGAAAGCGCCACTAAAAACAAAACATAAAACGACACCGTTTTGCAAACAC
47661273 TTAACACATATTTGCGGT
131 TTAACACATATTTGCGGT
* * * * *
47661291 GTTTTGGGCAAAACGCCACTAATAACAAGGCT-AAACGGTGTCGTTTTGT-GAACTCCTAATACA
1 GTTTTGGGCAAAACGCCACTAATAACAAGGCTAAAACGGCGACATTTT-TCAAAATCCTAATACA
* * * * *
47661354 TATTTGCGGCGTTTTTAAGAAAGTGCCACTAAAAACAAAGCATAAAACGGCACCGTTTTGCTAAC
65 TATTTGAGGCG-TTTTAAGAAAGCGCCACTAAAAACAAAACATAAAACGACACCGTTTTGCAAAC
47661419 ACTTAACACATATTTGC
129 ACTTAACACATATTTGC
47661436 TGTTTAAAAC
Statistics
Matches: 124, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
147 31 0.25
148 93 0.75
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (148 bp):
GTTTTGGGCAAAACGCCACTAATAACAAGGCTAAAACGGCGACATTTTTCAAAATCCTAATACAT
ATTTGAGGCGTTTTAAGAAAGCGCCACTAAAAACAAAACATAAAACGACACCGTTTTGCAAACAC
TTAACACATATTTGCGGT
Found at i:47661435 original size:75 final size:73
Alignment explanation
Indices: 47661198--47661435 Score: 228
Period size: 73 Copynumber: 3.2 Consensus size: 73
47661188 TTTTCAAAAT
* * * * * * *
47661198 CTTAATACATATTTGAGGTGTTTTATGGAAGCGCCACTAAATACAAAACATAAAACGACATCGTT
1 CTTAACACATATTTGCGGTGTTTTAAGAAAGCGCCACTAAAAACAAAGCATAAAACGGCATCGTT
*
47661263 TTGGAAACA
66 TT-GTAACA
** * * * **
47661272 CTTAACACATATTTGCGGTGTTTTGGGCAAAACGCCACTAATAACAAGGC-T-AAACGGTGTCGT
1 CTTAACACATATTTGCGGTGTTTTAAG-AAAGCGCCACTAAAAACAAAGCATAAAACGGCATCGT
*
47661335 TTTGTGAACT
65 TTTGT-AACA
* * * * *
47661345 CCTAATACATATTTGCGGCGTTTTTAAGAAAGTGCCACTAAAAACAAAGCATAAAACGGCACCGT
1 CTTAACACATATTTGCGGTG-TTTTAAGAAAGCGCCACTAAAAACAAAGCATAAAACGGCATCGT
47661410 TTTGCTAACA
65 TTTG-TAACA
47661420 CTTAACACATATTTGC
1 CTTAACACATATTTGC
47661436 TGTTTAAAAC
Statistics
Matches: 128, Mismatches: 30, Indels: 11
0.76 0.18 0.07
Matches are distributed among these distances:
72 1 0.01
73 50 0.39
74 30 0.23
75 46 0.36
76 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (73 bp):
CTTAACACATATTTGCGGTGTTTTAAGAAAGCGCCACTAAAAACAAAGCATAAAACGGCATCGTT
TTGTAACA
Found at i:47661968 original size:15 final size:15
Alignment explanation
Indices: 47661948--47661995 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
47661938 ATTTATTATC
47661948 AGGGTTTAAAGTTTT
1 AGGGTTTAAAGTTTT
**
47661963 AGGGTTTATGGTTTT
1 AGGGTTTAAAGTTTT
*
47661978 GGGGTTTAAAGGTTTT
1 AGGGTTTAAA-GTTTT
47661994 AG
1 AG
47661996 TTTCTAGAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 20 0.77
16 6 0.23
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (15 bp):
AGGGTTTAAAGTTTT
Found at i:47663745 original size:27 final size:28
Alignment explanation
Indices: 47663689--47663756 Score: 120
Period size: 27 Copynumber: 2.5 Consensus size: 28
47663679 AAACTTGTAC
47663689 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
47663717 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
47663744 AGCACTAAGTGTG
1 AGCACTAAGTGTG
47663757 TGGACTCACT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:47663769 original size:27 final size:27
Alignment explanation
Indices: 47663689--47663770 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
47663679 AAACTTGTAC
* *
47663689 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
47663717 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
47663744 AGCACTAAGTGTGTG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
47663771 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:47665286 original size:14 final size:14
Alignment explanation
Indices: 47665263--47665328 Score: 53
Period size: 14 Copynumber: 4.7 Consensus size: 14
47665253 AATTCATGGG
* *
47665263 TTAGGCTTTAGATT
1 TTAGGGTTTAGAGT
*
47665277 TTAGGGTTTA-TGT
1 TTAGGGTTTAGAGT
* * *
47665290 GTTAAGGTTTAGGGA
1 -TTAGGGTTTAGAGT
*
47665305 TTAGGCTTTAGAGT
1 TTAGGGTTTAGAGT
47665319 TTAGGGTTTA
1 TTAGGGTTTA
47665329 CGAGCTAAAA
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
13 1 0.03
14 37 0.95
15 1 0.03
ACGTcount: A:0.21, C:0.03, G:0.30, T:0.45
Consensus pattern (14 bp):
TTAGGGTTTAGAGT
Found at i:47665301 original size:21 final size:21
Alignment explanation
Indices: 47665263--47665328 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
47665253 AATTCATGGG
* *
47665263 TTAGGCTTTAGATTTTAGGGT
1 TTAGGCTTAAGAGTTTAGGGT
*
47665284 TTATGTG-TTAAG-GTTTAGGGA
1 TTA-G-GCTTAAGAGTTTAGGGT
*
47665305 TTAGGCTTTAGAGTTTAGGGT
1 TTAGGCTTAAGAGTTTAGGGT
47665326 TTA
1 TTA
47665329 CGAGCTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
19 1 0.03
20 5 0.14
21 24 0.67
22 5 0.14
23 1 0.03
ACGTcount: A:0.21, C:0.03, G:0.30, T:0.45
Consensus pattern (21 bp):
TTAGGCTTAAGAGTTTAGGGT
Found at i:47669975 original size:21 final size:23
Alignment explanation
Indices: 47669934--47669979 Score: 69
Period size: 21 Copynumber: 2.0 Consensus size: 23
47669924 TTCTATTGCA
47669934 TCATATTTTTAATATTAATTTATC
1 TCATATTTTT-ATATTAATTTATC
47669958 TCATATTTTT-TA-TAATTTATC
1 TCATATTTTTATATTAATTTATC
47669979 T
1 T
47669980 TAATTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.45
22 2 0.09
24 10 0.45
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (23 bp):
TCATATTTTTATATTAATTTATC
Found at i:47670722 original size:48 final size:48
Alignment explanation
Indices: 47670578--47670780 Score: 204
Period size: 48 Copynumber: 4.3 Consensus size: 48
47670568 ATGTGAGATT
* * * * **
47670578 CCATGTAAGACTATGTCTGGGACATGGCATTGGCATCAATATGAGAAA
1 CCATGTAAGACCATGTCTGGGACATGACATTGGCATCGATATGTGATC
* * *
47670626 TCATGTAAGACCATAGT-TGGG---T--TATCGGC-TACGATATGCATGATC
1 CCATGTAAGACCAT-GTCTGGGACATGACATTGGCAT-CGATATG--TGATC
* *
47670671 CCATTTAAGACCATGTCTGGGACATGACATTGGCATTGATATGTGATC
1 CCATGTAAGACCATGTCTGGGACATGACATTGGCATCGATATGTGATC
*
47670719 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATC
1 CCATGTAAGACCATGTCTGGGACATGACATTGGCATCGATATGTGATC
*
47670767 TCATGTAAGACCAT
1 CCATGTAAGACCAT
47670781 ATCTAGGATA
Statistics
Matches: 127, Mismatches: 17, Indels: 22
0.77 0.10 0.13
Matches are distributed among these distances:
42 1 0.01
43 11 0.09
44 2 0.02
45 19 0.15
48 80 0.63
49 2 0.02
50 11 0.09
51 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (48 bp):
CCATGTAAGACCATGTCTGGGACATGACATTGGCATCGATATGTGATC
Found at i:47670801 original size:48 final size:47
Alignment explanation
Indices: 47670578--47670803 Score: 185
Period size: 48 Copynumber: 4.8 Consensus size: 47
47670568 ATGTGAGATT
* * * * **
47670578 CCATGTAAGACTATGTCTGGGACATGGCATTGGCATCAATATGAGAAA
1 CCATGTAAGACCATGTCTGGGACAT-GAATTGGCATCGATATGTGATC
* * *
47670626 TCATGTAAGACCATAGT-TGGG---T-TATCGGC-TACGATATGCATGATC
1 CCATGTAAGACCAT-GTCTGGGACATGAATTGGCAT-CGATATG--TGATC
* *
47670671 CCATTTAAGACCATGTCTGGGACATGACATTGGCATTGATATGTGATC
1 CCATGTAAGACCATGTCTGGGACATGA-ATTGGCATCGATATGTGATC
*
47670719 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATC
1 CCATGTAAGACCATGTCTGGGACAT-GAATTGGCATCGATATGTGATC
* * * * *
47670767 TCATGTAAGACCATATCTAGGATATAGAACTGGCATC
1 CCATGTAAGACCATGTCTGGGACAT-GAATTGGCATC
47670804 TTACTAAGTG
Statistics
Matches: 143, Mismatches: 23, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
42 1 0.01
43 11 0.08
44 2 0.01
45 19 0.13
48 95 0.66
49 3 0.02
50 11 0.08
51 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (47 bp):
CCATGTAAGACCATGTCTGGGACATGAATTGGCATCGATATGTGATC
Found at i:47677396 original size:27 final size:27
Alignment explanation
Indices: 47677361--47677541 Score: 197
Period size: 27 Copynumber: 6.7 Consensus size: 27
47677351 TTAGTTTACC
* *
47677361 AAATTACCAAAATACCCTTGATTAGCA
1 AAATTACCAAAATACCCCTGATTAGTA
47677388 AAATTACCAAAATA-CCCTCGATTAGTA
1 AAATTACCAAAATACCCCT-GATTAGTA
* *
47677415 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTAGTA
* **
47677442 AAATTACCAAAATACTCCTGATTTTTA
1 AAATTACCAAAATACCCCTGATTAGTA
* *
47677469 AAATTACCGAAATACCCCTG-TAAGGTA
1 AAATTACCAAAATACCCCTGATTA-GTA
* *
47677496 AAATTACCGAAATACCCCTG-TAAGGTA
1 AAATTACCAAAATACCCCTGATTA-GTA
* *
47677523 GAATTACCGAAATACCCCT
1 AAATTACCAAAATACCCCT
47677542 ATAGGGTGGA
Statistics
Matches: 138, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.03
27 130 0.94
28 4 0.03
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.27
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTAGTA
Found at i:47677528 original size:81 final size:81
Alignment explanation
Indices: 47677412--47677853 Score: 426
Period size: 81 Copynumber: 5.5 Consensus size: 81
47677402 CCCTCGATTA
* ** * * *** *
47677412 GTAAAATTACCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACTCCTG-ATTTTTAAAATTA
1 GTAAAATTACCGAAATACCCCT-GTAAGGTAGAATTACCAAAATACCCCTGTA-GGGTAGAATTA
47677475 CCGAAATACCCCTGTAAG
64 CCGAAATACCCCTGTAAG
* * * *
47677493 GTAAAATTACCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTATAGGGTGGAATTACT
1 GTAAAATTACCGAAATACCCCTGTAAGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACC
* * *
47677558 AAAATACTCTTGTAAG
66 GAAATACCCCTGTAAG
* * * *** * * * *
47677574 GTAGAATTACCGAAATACCCCTATAGGGTAGAATTATTGAAATACTCTTGTAAGATAGAATTACC
1 GTAAAATTACCGAAATACCCCTGTAAGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACC
*
47677639 GAAATACCCCTAT-AG
66 GAAATACCCCTGTAAG
* * * *
47677654 AGTAGAATGACTGAAATACCCCTGTAAGGTAGAATT-CCGAAATACCCCTGTAGGGTAGAATTAC
1 -GTAAAATTACCGAAATACCCCTGTAAGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTAC
* * *
47677718 TGAAATGCCCTTGTAAG
65 CGAAATACCCCTGTAAG
* * * *
47677735 GTAGAATTATCGAAATACCCCTGTAAGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACT
1 GTAAAATTACCGAAATACCCCTGTAAGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACC
* *
47677800 GAAATACCCTTGTAGG
66 GAAATACCCCTGTAAG
** *
47677816 GTAGAAA-TACTAAAATACCCCTGTAGGGTAGAATTACC
1 GTA-AAATTACCGAAATACCCCTGTAAGGTAGAATTACC
47677854 GAGATACCAT
Statistics
Matches: 296, Mismatches: 59, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
80 68 0.23
81 225 0.76
82 3 0.01
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.27
Consensus pattern (81 bp):
GTAAAATTACCGAAATACCCCTGTAAGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACC
GAAATACCCCTGTAAG
Found at i:47677553 original size:27 final size:27
Alignment explanation
Indices: 47677470--47677861 Score: 455
Period size: 27 Copynumber: 14.6 Consensus size: 27
47677460 TGATTTTTAA
*
47677470 AATTACCGAAATACCCCTGTAAGGTAA
1 AATTACCGAAATACCCCTGTAAGGTAG
47677497 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
* * *
47677524 AATTACCGAAATACCCCTATAGGGTGG
1 AATTACCGAAATACCCCTGTAAGGTAG
** * *
47677551 AATTACTAAAATACTCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
* *
47677578 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
** * * *
47677605 AATTATTGAAATACTCTTGTAAGATAG
1 AATTACCGAAATACCCCTGTAAGGTAG
*
47677632 AATTACCGAAATACCCCTAT-AGAGTAG
1 AATTACCGAAATACCCCTGTAAG-GTAG
* *
47677659 AATGACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
*
47677686 AATT-CCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
* * *
47677712 AATTACTGAAATGCCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
*
47677739 AATTATCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
** *
47677766 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
* * *
47677793 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
* ** *
47677820 AAATACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
*
47677847 AATTACCGAGATACC
1 AATTACCGAAATACC
47677862 ATCGTGGGCT
Statistics
Matches: 305, Mismatches: 57, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
26 26 0.09
27 277 0.91
28 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAAGGTAG
Found at i:47677555 original size:54 final size:54
Alignment explanation
Indices: 47677470--47677861 Score: 525
Period size: 54 Copynumber: 7.3 Consensus size: 54
47677460 TGATTTTTAA
* * *
47677470 AATTACCGAAATACCCCTGTAAGGTAAAATTACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * * * *
47677524 AATTACCGAAATACCCCTATAGGGTGGAATTACTAAAATACTCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * * * *
47677578 AATTACCGAAATACCCCTATAGGGTAGAATTATTGAAATACTCTTGTAAGATAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * *
47677632 AATTACCGAAATACCCCTATAGAGTAGAATGACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* *
47677686 AATT-CCGAAATACCCCTGTAGGGTAGAATTACTGAAATGCCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * * *
47677739 AATTATCGAAATACCCCTGTAAGGTAGAATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * * * *
47677793 AATTACTGAAATACCCTTGTAGGGTAGAAATACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
*
47677847 AATTACCGAGATACC
1 AATTACCGAAATACC
47677862 ATCGTGGGCT
Statistics
Matches: 301, Mismatches: 36, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
53 48 0.16
54 253 0.84
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
Found at i:47678210 original size:20 final size:20
Alignment explanation
Indices: 47678170--47678210 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
47678160 TGTGTGCCAT
* *
47678170 TATTGTGGGCTTCGTATCGA
1 TATTGTAGGCTTCGTACCGA
*
47678190 TATTGTAGGCTTCGTGCCGA
1 TATTGTAGGCTTCGTACCGA
47678210 T
1 T
47678211 TATAGACCCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.17, G:0.29, T:0.39
Consensus pattern (20 bp):
TATTGTAGGCTTCGTACCGA
Found at i:47678259 original size:22 final size:22
Alignment explanation
Indices: 47678227--47678285 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
47678217 CCCGTTATCG
* *
47678227 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACATAAAT
* * *
47678249 ATGGCTTTGTGCCATCATGACT
1 ATGGCTTTGTGCCAACATAAAT
*
47678271 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
47678286 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACATAAAT
Found at i:47678473 original size:27 final size:27
Alignment explanation
Indices: 47678443--47678578 Score: 127
Period size: 27 Copynumber: 5.0 Consensus size: 27
47678433 ATTCTGTTAA
* **
47678443 GTGGCTTTGCCACGTTATCTGATTCTG
1 GTGGCTCTGCCACAATATCTGATTCTG
*
47678470 GTGGCTCTGTCACAATATTCT-ATTTCTG
1 GTGGCTCTGCCACAATA-TCTGA-TTCTG
* *
47678498 GTGGCTATGCCGCAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGATTCTG
*
47678525 GTGGCTCTGCCACAATATCT-CTATCTG
1 GTGGCTCTGCCACAATATCTGAT-TCTG
* *
47678552 GTGACTCTGTCACAATATCTG-TTCTG
1 GTGGCTCTGCCACAATATCTGATTCTG
47678578 G
1 G
47678579 CAGCCATGAT
Statistics
Matches: 91, Mismatches: 11, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
26 13 0.14
27 53 0.58
28 21 0.23
29 4 0.04
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.38
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGATTCTG
Found at i:47678524 original size:55 final size:53
Alignment explanation
Indices: 47678458--47678578 Score: 154
Period size: 55 Copynumber: 2.2 Consensus size: 53
47678448 TTTGCCACGT
* * *
47678458 TATCTGATTCTGGTGGCTCTGTCACAATAT-TCTATTTCTGGTGGCTATGCCGCAAA
1 TATCTG-TTCTGGTGGCTCTGCCACAATATCTCTA--TCTGGTGACTATGCCAC-AA
* *
47678514 TATCTGTTCTGGTGGCTCTGCCACAATATCTCTATCTGGTGACTCTGTCACAA
1 TATCTGTTCTGGTGGCTCTGCCACAATATCTCTATCTGGTGACTATGCCACAA
47678567 TATCTGTTCTGG
1 TATCTGTTCTGG
47678579 CAGCCATGAT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
53 14 0.24
54 13 0.22
55 22 0.37
56 10 0.17
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (53 bp):
TATCTGTTCTGGTGGCTCTGCCACAATATCTCTATCTGGTGACTATGCCACAA
Found at i:47678704 original size:6 final size:6
Alignment explanation
Indices: 47678695--47678825 Score: 72
Period size: 6 Copynumber: 21.3 Consensus size: 6
47678685 TTGCATTCAC
* * * *
47678695 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTT ATTCTG ATTCTG -TCGCCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * * *
47678745 ATTTTG ATTCTG ATTTTG ATTATG ATTCT- ATCAACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* * *
47678794 ATTCTG ATTTTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
47678826 AATGTTTCTT
Statistics
Matches: 95, Mismatches: 19, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
5 6 0.06
6 77 0.81
7 8 0.08
8 4 0.04
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:47678754 original size:25 final size:26
Alignment explanation
Indices: 47678699--47678759 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
47678689 ATTCACATTC
* *
47678699 TGATTCTGATTCTGTTACCTGATACT
1 TGATTCTGATTCTGTCACCTAATACT
* *
47678725 T-ATTCTGATTCTGTCGCCTAAT-TT
1 TGATTCTGATTCTGTCACCTAATACT
47678749 TGATTCTGATT
1 TGATTCTGATT
47678760 TTGATTATGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 2 0.07
25 27 0.90
26 1 0.03
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (26 bp):
TGATTCTGATTCTGTCACCTAATACT
Found at i:47680837 original size:27 final size:27
Alignment explanation
Indices: 47680803--47680954 Score: 182
Period size: 27 Copynumber: 5.6 Consensus size: 27
47680793 TTAGTTTACC
*
47680803 AAATTACCAAAATATCCTAGATTAGCA
1 AAATTACCAAAATACCCTAGATTAGCA
*
47680830 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTAGATTAGCA
47680857 AAATTACCAAAATACCCTCA-ATTAGCA
1 AAATTACCAAAATACCCT-AGATTAGCA
* * * *
47680884 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTAGATTAGCA
* *
47680911 AAATTACCAAAATACCCCTA-ATTTGTA
1 AAATTACCAAAATA-CCCTAGATTAGCA
* *
47680938 AAATTATCGAAATACCC
1 AAATTACCAAAATACCC
47680955 CTGTAAGGTA
Statistics
Matches: 111, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
26 3 0.03
27 104 0.94
28 4 0.04
ACGTcount: A:0.45, C:0.22, G:0.07, T:0.26
Consensus pattern (27 bp):
AAATTACCAAAATACCCTAGATTAGCA
Found at i:47680840 original size:9 final size:9
Alignment explanation
Indices: 47680798--47680896 Score: 53
Period size: 9 Copynumber: 11.1 Consensus size: 9
47680788 ATACTTTAGT
47680798 TTACC-AAA
1 TTACCAAAA
47680806 TTACCAAAA
1 TTACCAAAA
* *
47680815 -TATCCTAGA
1 TTA-CCAAAA
*
47680824 TTAGCAAAA
1 TTACCAAAA
47680833 TTACCAAAA
1 TTACCAAAA
***
47680842 -TACCCTCGA
1 TTA-CCAAAA
*
47680851 TTAGCAAAA
1 TTACCAAAA
47680860 TTACCAAAA
1 TTACCAAAA
**
47680869 -TACCCTCAA
1 TTA-CCAAAA
*
47680878 TTAGCAAAA
1 TTACCAAAA
47680887 TTACCAAAA
1 TTACCAAAA
47680896 T
1 T
47680897 ACCCTTGGTT
Statistics
Matches: 64, Mismatches: 20, Indels: 13
0.66 0.21 0.13
Matches are distributed among these distances:
8 11 0.17
9 47 0.73
10 6 0.09
ACGTcount: A:0.47, C:0.23, G:0.05, T:0.24
Consensus pattern (9 bp):
TTACCAAAA
Found at i:47680965 original size:27 final size:27
Alignment explanation
Indices: 47680939--47681170 Score: 279
Period size: 27 Copynumber: 8.6 Consensus size: 27
47680929 TAATTTGTAA
* *
47680939 AATTATCGAAATACCCCTGTAAGGTA-
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
47680965 AAGTTATCGAAATACCCCTGTAGGGTGG
1 AA-TTACCGAAATACCCCTGTAGGGTAG
* ** *
47680993 AATTACTGAAATACTGCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
47681020 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
47681047 AATTATTGAAATACTCCTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
47681074 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
47681101 AATGACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
47681128 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
47681155 AATTACC-AAGATACCC
1 AATTACCGAA-ATACCC
47681171 TCGTGGGCTA
Statistics
Matches: 174, Mismatches: 29, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
26 4 0.02
27 168 0.97
28 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:47680966 original size:54 final size:53
Alignment explanation
Indices: 47680908--47681170 Score: 276
Period size: 54 Copynumber: 4.9 Consensus size: 53
47680898 CCCTTGGTTT
* ** *
47680908 GTAAAATTACCAAAATACCCCT-AATTTGTAAAATTATCGAAATACCCCTGTAAG
1 GTAAAATTACCAAAATACCCCTGTA-GGGTAGAATTA-CGAAATACCCCTGTAAG
* * * * **
47680962 GTAAAGTTATCGAAATACCCCTGTAGGGTGGAATTACTGAAATACTGCTGTAAG
1 GTAAAATTACCAAAATACCCCTGTAGGGTAGAATTAC-GAAATACCCCTGTAAG
* * * *
47681016 GTAGAATTACCAAAATACCCCTGTAGGGTAGAATTATTGAAATACTCCTGTATG
1 GTAAAATTACCAAAATACCCCTGTAGGGTAGAATTA-CGAAATACCCCTGTAAG
* * *
47681070 GTAGAATTACCGAAATACCCCTGTAGGGTAGAATGACTGAAATACCCCTGTAAG
1 GTAAAATTACCAAAATACCCCTGTAGGGTAGAATTAC-GAAATACCCCTGTAAG
* * * *
47681124 GTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCAAGATACCC
1 GTAAAATTACCAAAATACCCCTGTAGGGTAGAATTACGAA-ATACCC
47681171 TCGTGGGCTA
Statistics
Matches: 178, Mismatches: 26, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
53 3 0.02
54 174 0.98
55 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (53 bp):
GTAAAATTACCAAAATACCCCTGTAGGGTAGAATTACGAAATACCCCTGTAAG
Found at i:47680997 original size:81 final size:79
Alignment explanation
Indices: 47680912--47681170 Score: 261
Period size: 81 Copynumber: 3.2 Consensus size: 79
47680902 TGGTTTGTAA
* *
47680912 AATTACCAAAATACCCCTAATTTGTAAAATTATCGAAATACCCCTGTAAGGTA-AAGTTATCGAA
1 AATTACCAAAATACCCCTAA-TGGTAGAATTA-CGAAATACCCCTGTAAGGTAGAA-TTATCGAA
*
47680976 ATACCCCTGTAGGGTGG
63 ATACCCCTGTAGGGTAG
** ** * * *
47680993 AATTACTGAAATACTGCTGTAA-GGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTATTGAA
1 AATTACCAAAATAC--CCCTAATGGTAGAATTA-CGAAATACCCCTGTAAGGTAGAATTATCGAA
* *
47681057 ATACTCCTGTATGGTAG
63 ATACCCCTGTAGGGTAG
* * * * *
47681074 AATTACCGAAATACCCCTGTAGGGTAGAATGACTGAAATACCCCTGTAAGGTAGAATTACCGAAA
1 AATTACCAAAATACCCCT-AATGGTAGAATTAC-GAAATACCCCTGTAAGGTAGAATTATCGAAA
*
47681139 TACCCCTATAGGGTAG
64 TACCCCTGTAGGGTAG
*
47681155 AATTACCAAGATACCC
1 AATTACCAAAATACCC
47681171 TCGTGGGCTA
Statistics
Matches: 145, Mismatches: 27, Indels: 12
0.79 0.15 0.07
Matches are distributed among these distances:
79 2 0.01
80 2 0.01
81 135 0.93
82 2 0.01
83 4 0.03
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (79 bp):
AATTACCAAAATACCCCTAATGGTAGAATTACGAAATACCCCTGTAAGGTAGAATTATCGAAATA
CCCCTGTAGGGTAG
Found at i:47681762 original size:27 final size:26
Alignment explanation
Indices: 47681732--47681867 Score: 155
Period size: 27 Copynumber: 5.0 Consensus size: 26
47681722 ATTCTGTTAA
* *
47681732 GTGGCTTTGCCACATTATCTGATTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
*
47681759 GTGGCTCTGTCACAATATTCTGTTTCTG
1 GTGGCTCTGCCACAATA-TCTG-TTCTG
* * *
47681787 GTGGCTATGCCACAAATAACTATTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
47681814 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
47681841 GTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
47681867 G
1 G
47681868 CAGCCATGCT
Statistics
Matches: 93, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
26 12 0.13
27 55 0.59
28 22 0.24
29 4 0.04
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:47681798 original size:55 final size:54
Alignment explanation
Indices: 47681732--47681867 Score: 168
Period size: 55 Copynumber: 2.5 Consensus size: 54
47681722 ATTCTGTTAA
* * * *
47681732 GTGGCTTTGCCACATTATCTGATTCTGGTGGCTCTGTCACAATATTCTGTTTCTG
1 GTGGCTATGCCACAATATCTGATTCTGGTGGCTCTGCCACAATA-TCTGTATCTG
*
47681787 GTGGCTATGCCACAAATAACT-ATTCTGGTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCAC-AATATCTGATTCTGGTGGCTCTGCCACAATATCTGTATCTG
* * *
47681841 GTGACTCTGTCACAATATCTG-TTCTGG
1 GTGGCTATGCCACAATATCTGATTCTGG
47681868 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
53 12 0.17
54 19 0.27
55 34 0.49
56 5 0.07
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (54 bp):
GTGGCTATGCCACAATATCTGATTCTGGTGGCTCTGCCACAATATCTGTATCTG
Found at i:47681994 original size:6 final size:6
Alignment explanation
Indices: 47681985--47682115 Score: 81
Period size: 6 Copynumber: 21.3 Consensus size: 6
47681975 TTGCATTCAC
* * * *
47681985 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTT ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * * *
47682035 ATTCTG ATTCTG ATTTTG ATTATG ATTCTG -TCACCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
47682084 ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
47682116 AATGTTTCTT
Statistics
Matches: 95, Mismatches: 19, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
5 5 0.05
6 78 0.82
7 9 0.09
8 3 0.03
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:47682019 original size:25 final size:25
Alignment explanation
Indices: 47681988--47682049 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
47681978 CATTCACATT
* *
47681988 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTAATA
* *
47682013 CTTATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGTCACCTAATA
47682038 CTGATTCTGATT
1 CTGATTCTGATT
47682050 TTGATTATGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTAATA
Found at i:47682048 original size:37 final size:36
Alignment explanation
Indices: 47682007--47682094 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 36
47681997 ATTCTGTTAC
47682007 CTGATACTTATTCTGATTCTGTCACCTAATTCTGATT
1 CTGAT-CTTATTCTGATTCTGTCACCTAATTCTGATT
* * * *
47682044 CTGATTTTGATTATGATTCTGTCACCTGATTTTGATT
1 CTGATCTT-ATTCTGATTCTGTCACCTAATTCTGATT
*
47682081 CTGATTCTGATTCT
1 CTGA-TCTTATTCT
47682095 CATTTTGATT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
36 2 0.05
37 38 0.90
38 2 0.05
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (36 bp):
CTGATCTTATTCTGATTCTGTCACCTAATTCTGATT
Found at i:47682079 original size:19 final size:19
Alignment explanation
Indices: 47682020--47682083 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
47682010 ATACTTATTC
* *
47682020 TGATTCTGTCACCTAATTC
1 TGATTCTGTCACCTGATTA
**
47682039 TGATTCTG--ATTTTGATTA
1 TGATTCTGTCA-CCTGATTA
*
47682057 TGATTCTGTCACCTGATTT
1 TGATTCTGTCACCTGATTA
47682076 TGATTCTG
1 TGATTCTG
47682084 ATTCTGATTC
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
17 1 0.03
18 12 0.34
19 21 0.60
20 1 0.03
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.48
Consensus pattern (19 bp):
TGATTCTGTCACCTGATTA
Found at i:47686272 original size:48 final size:48
Alignment explanation
Indices: 47686220--47686434 Score: 238
Period size: 48 Copynumber: 4.5 Consensus size: 48
47686210 CGGTGTCGAC
* * * * *
47686220 GCCATGTCCCAGACATGGTCTTATACGGGACCTCATA-TCGATGCCAAT
1 GCCATATCCCAGATATGGTCTTACACGGGACCTCATACT-AATGCCGAT
* * *
47686268 GCCATATCCCAGATATGGT-TTGACATGAGATCTCATACTAATGCCGAT
1 GCCATATCCCAGATATGGTCTT-ACACGGGACCTCATACTAATGCCGAT
* * * *
47686316 GTCACATCCCAAATATGGTCTTACACGGGACCTCATACTAATGCTGAT
1 GCCATATCCCAGATATGGTCTTACACGGGACCTCATACTAATGCCGAT
* * *
47686364 GCCATATCCCAGATATGGTCTTACACAGGATCTCAT-CTCGATGCCGAT
1 GCCATATCCCAGATATGGTCTTACACGGGACCTCATACT-AATGCCGAT
*
47686412 GTCATATCCCAGATATGGTCTTA
1 GCCATATCCCAGATATGGTCTTA
47686435 TATGGGATTC
Statistics
Matches: 140, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
47 4 0.03
48 133 0.95
49 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCATATCCCAGATATGGTCTTACACGGGACCTCATACTAATGCCGAT
Found at i:47686334 original size:96 final size:96
Alignment explanation
Indices: 47686234--47686441 Score: 271
Period size: 96 Copynumber: 2.2 Consensus size: 96
47686224 TGTCCCAGAC
* *
47686234 ATGGTCTTATACGGGACCTCATA-TCGATGCCAATGCCATATCCCAGATATGGT-TTGACA-TGA
1 ATGGTCTTATACGGGACCTCATACT-AATGCCAATGCCATATCCCAGATATGGTCTT-ACACAG-
47686296 GATCTCATACT-AATGCCGATGTCACATCCCAAAT
63 GATCTCAT-CTCAATGCCGATGTCACATCCCAAAT
* **
47686330 ATGGTCTTACACGGGACCTCATACTAATGCTGATGCCATATCCCAGATATGGTCTTACACAGGAT
1 ATGGTCTTATACGGGACCTCATACTAATGCCAATGCCATATCCCAGATATGGTCTTACACAGGAT
* * *
47686395 CTCATCTCGATGCCGATGTCATATCCCAGAT
66 CTCATCTCAATGCCGATGTCACATCCCAAAT
*
47686426 ATGGTCTTATATGGGA
1 ATGGTCTTATACGGGA
47686442 TTCCAATAAT
Statistics
Matches: 98, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
95 2 0.02
96 92 0.94
97 4 0.04
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (96 bp):
ATGGTCTTATACGGGACCTCATACTAATGCCAATGCCATATCCCAGATATGGTCTTACACAGGAT
CTCATCTCAATGCCGATGTCACATCCCAAAT
Found at i:47686577 original size:6 final size:6
Alignment explanation
Indices: 47686566--47686595 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
47686556 ATAAAGACAA
47686566 ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT
47686596 TTCATGCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATACAT
Found at i:47693430 original size:19 final size:19
Alignment explanation
Indices: 47693406--47693446 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
47693396 AACTCAGTAG
47693406 ACTCAACAGGAAAACTCAT
1 ACTCAACAGGAAAACTCAT
47693425 ACTCAACAGGAAAACTCAT
1 ACTCAACAGGAAAACTCAT
47693444 ACT
1 ACT
47693447 AGACACTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.46, C:0.27, G:0.10, T:0.17
Consensus pattern (19 bp):
ACTCAACAGGAAAACTCAT
Found at i:47720130 original size:43 final size:42
Alignment explanation
Indices: 47720080--47720194 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 42
47720070 GGTGTGATTT
* *
47720080 CATGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTA
1 CATGTAAGACCATATCTGGGACA-TGGCATCGATATGAGATAA
* * * *
47720123 CGTGTAAGACCCTATCTGGGACAAAGGCATCGATATGTGATAA
1 CATGTAAGACCATATCTGGGAC-ATGGCATCGATATGAGATAA
* *
47720166 CATGTAAGACTATATCTGGGATATGGCAT
1 CATGTAAGACCATATCTGGGACATGGCAT
47720195 TGTATGTGAT
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 6 0.10
43 53 0.88
44 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (42 bp):
CATGTAAGACCATATCTGGGACATGGCATCGATATGAGATAA
Found at i:47730343 original size:26 final size:26
Alignment explanation
Indices: 47730306--47730441 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
47730296 TGATACAAAT
* *
47730306 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
47730332 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
47730358 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
47730384 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
47730410 TGATAATGGGTTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
47730436 TGATAA
1 TGATAA
47730442 GAATATCATG
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:47732192 original size:27 final size:27
Alignment explanation
Indices: 47732061--47732202 Score: 198
Period size: 27 Copynumber: 5.3 Consensus size: 27
47732051 TGGAGGAAGC
* *
47732061 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACATATATCT
*
47732088 GATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACATATATCT
47732115 GTTCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACATATATCT
47732142 GTTCTGGTGGCTCTGCCACGAT-TATCT
1 GTTCTGGTGGCTCTGCCAC-ATATATCT
* *
47732169 GTATCTGGTGACTCTGTCACAT-TATCT
1 GT-TCTGGTGGCTCTGCCACATATATCT
*
47732196 ATTCTGG
1 GTTCTGG
47732203 CAGCCATGCT
Statistics
Matches: 106, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.37
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACATATATCT
Found at i:47737731 original size:27 final size:28
Alignment explanation
Indices: 47737675--47737744 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
47737665 AAACTTGTAC
47737675 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
47737703 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
47737730 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
47737745 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:47737755 original size:27 final size:27
Alignment explanation
Indices: 47737675--47737756 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
47737665 AAACTTGTAC
* *
47737675 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
47737703 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
47737730 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
47737757 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:47739510 original size:27 final size:27
Alignment explanation
Indices: 47739476--47739593 Score: 141
Period size: 27 Copynumber: 4.4 Consensus size: 27
47739466 TATATACATT
* *
47739476 ACAT-AGGGAAAAATATTCATCTTACC
1 ACATAAGGGCAAAATATTCATTTTACC
* * *
47739502 ATATAAGGGCAAAACAATCATTTTACC
1 ACATAAGGGCAAAATATTCATTTTACC
47739529 ACATAAGGGCAAAATAGTT-ATTTTACC
1 ACATAAGGGCAAAATA-TTCATTTTACC
* * *
47739556 ACATAAGGGCAAAACAATAATTTTACC
1 ACATAAGGGCAAAATATTCATTTTACC
47739583 ACATAAGGGCA
1 ACATAAGGGCA
47739594 TAGTCATTTT
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.05
27 74 0.94
28 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.25
Consensus pattern (27 bp):
ACATAAGGGCAAAATATTCATTTTACC
Found at i:47739544 original size:54 final size:54
Alignment explanation
Indices: 47739476--47739593 Score: 177
Period size: 54 Copynumber: 2.2 Consensus size: 54
47739466 TATATACATT
* * *
47739476 ACAT-AGGGAAAAATA-TTCATCTTACCATATAAGGGCAAAACAATCATTTTACC
1 ACATAAGGGCAAAATAGTT-ATCTTACCACATAAGGGCAAAACAATAATTTTACC
*
47739529 ACATAAGGGCAAAATAGTTATTTTACCACATAAGGGCAAAACAATAATTTTACC
1 ACATAAGGGCAAAATAGTTATCTTACCACATAAGGGCAAAACAATAATTTTACC
47739583 ACATAAGGGCA
1 ACATAAGGGCA
47739594 TAGTCATTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
53 4 0.07
54 53 0.90
55 2 0.03
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.25
Consensus pattern (54 bp):
ACATAAGGGCAAAATAGTTATCTTACCACATAAGGGCAAAACAATAATTTTACC
Found at i:47749162 original size:30 final size:30
Alignment explanation
Indices: 47749128--47749195 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
47749118 TAGGGAGACA
*
47749128 GGCGTGTGTAGTACACAGCCTGACCACATG
1 GGCGTGTGTAGTACACAGCCTGACCACACG
*
47749158 GGCGTGTGTAGTACACGGCCTGACCACACG
1 GGCGTGTGTAGTACACAGCCTGACCACACG
*
47749188 GACGTGTG
1 GGCGTGTG
47749196 AGCCTTGTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.21, C:0.26, G:0.34, T:0.19
Consensus pattern (30 bp):
GGCGTGTGTAGTACACAGCCTGACCACACG
Found at i:47751496 original size:39 final size:39
Alignment explanation
Indices: 47751442--47751709 Score: 395
Period size: 39 Copynumber: 7.0 Consensus size: 39
47751432 TTTTATTACT
*
47751442 AGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
1 AGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTTCC
*
47751481 AGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTTCT
1 AGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTTCC
* * *
47751520 AGCACGAAGCCTGCGGGTCTTTGGCCCGGATATATTTCC
1 AGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTTCC
*
47751559 AGCACAAAGCCTGC-GGACTTTAGCCC-GATACATTTCC
1 AGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTTCC
47751596 AGCACAAAGCCTGC-GGTCTTTAGCCCGGAT--ATTTCC
1 AGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTTCC
* * *
47751632 AGCACGAAG-CTGCGGGTCTTTGGCCCGGATATATTTCC
1 AGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTTCC
* *
47751670 AGCACAAAGCCTGCAGGTCTTTAGCCCGGATATATTTCC
1 AGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTTCC
47751709 A
1 A
47751710 TACACATTTC
Statistics
Matches: 208, Mismatches: 16, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
35 4 0.02
36 29 0.14
37 35 0.17
38 27 0.13
39 113 0.54
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
AGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTTCC
Found at i:47757036 original size:93 final size:93
Alignment explanation
Indices: 47756877--47757047 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
47756867 GCCCCTAAGT
* * * *
47756877 GAACTCGGACTCAGCTCAATGAGCTCAGGCATTCGTATCCATAAATGAACTCTGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
47756942 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
47756970 GAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATTCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAATGAACTCGGACTCAACTCA
47757034 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
47757048 TCAACCATCC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:47757037 original size:46 final size:46
Alignment explanation
Indices: 47756872--47757044 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
47756862 AACCCGCCCC
* * * * * *
47756872 TAAGTGAACTCGGACTCAGCTCAATGAGCTCAGG-CATTCGTATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATTCA
* * * *
47756918 TAAATGAACTCTGACTCAACTCAACGAGTTCGGATGCCTAGTTACA-TC-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATTCA
* *
47756966 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATTCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATTCA
47757011 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47757045 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 17, Indels: 16
0.76 0.13 0.12
Matches are distributed among these distances:
43 5 0.05
44 3 0.03
45 4 0.04
46 55 0.54
47 28 0.27
48 2 0.02
49 2 0.02
50 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATTCA
Found at i:47757063 original size:46 final size:44
Alignment explanation
Indices: 47756922--47757063 Score: 112
Period size: 46 Copynumber: 3.1 Consensus size: 44
47756912 TATCCATAAA
*
47756922 TGAACTCTGACTCAACTCAACGAGTTCGGATGC-CTAGTTACATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACATCT-AG
* * * *
47756969 CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATTCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CA-ACATCTAG
47757015 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA-CAT-CTAG
47757061 TGA
1 TGA
47757064 CATGTCACTT
Statistics
Matches: 77, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
44 7 0.09
45 2 0.03
46 33 0.43
47 31 0.40
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (44 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCTAG
Found at i:47760894 original size:40 final size:41
Alignment explanation
Indices: 47760833--47760913 Score: 96
Period size: 40 Copynumber: 2.0 Consensus size: 41
47760823 ATTGTTTCTA
47760833 TACTGAGATGGGTTAAAGCCCAAACTG-ATATTG-TCACTGT
1 TACTGAGATGGGTTAAAGCCCAAACTGTAT-TTGCTCACTGT
* * *
47760873 TACTGATATGGGCTT-AGGCCCAGACTGTATTTGCTCACTGT
1 TACTGAGATGGG-TTAAAGCCCAAACTGTATTTGCTCACTGT
47760914 ATGTTTGACT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
40 24 0.69
41 11 0.31
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (41 bp):
TACTGAGATGGGTTAAAGCCCAAACTGTATTTGCTCACTGT
Found at i:47761644 original size:43 final size:43
Alignment explanation
Indices: 47761597--47761720 Score: 144
Period size: 42 Copynumber: 2.9 Consensus size: 43
47761587 TCTCAGACCT
* * *
47761597 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAAATAA
1 GGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAAACAA
* * * * *
47761640 GGTCTTACACGAAATCATATAT-GATGCCAATGTCTCAGACAT
1 GGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAAACAA
47761682 GGTCTTACACGTAAATCATAA-ATCGATGCCAATGTCCCA
1 GGTCTTACACGT-AATCA-AATATCGATGCCAATGTCCCA
47761721 GACGTGGTCG
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 26 0.39
43 26 0.39
44 15 0.22
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.27
Consensus pattern (43 bp):
GGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAAACAA
Found at i:47764946 original size:20 final size:20
Alignment explanation
Indices: 47764894--47764966 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
47764884 ATCAGTATAT
*
47764894 GGCACAAAGCCATGAGTAGC
1 GGCACAAAGCCATCAGTAGC
* * *
47764914 GGCTCGAATCCATCAGTAGC
1 GGCACAAAGCCATCAGTAGC
* *
47764934 GGCACAAAGCCATCAATAGT
1 GGCACAAAGCCATCAGTAGC
47764954 GGCACAAAGCCAT
1 GGCACAAAGCCAT
47764967 AAATATTGCA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.27, G:0.25, T:0.14
Consensus pattern (20 bp):
GGCACAAAGCCATCAGTAGC
Found at i:47768726 original size:40 final size:40
Alignment explanation
Indices: 47768672--47768879 Score: 301
Period size: 40 Copynumber: 5.2 Consensus size: 40
47768662 CCTTTGGGGT
* * *
47768672 TTAG-CCGGATATAGTTACTCGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGGAC
** * *
47768711 TTAGCCCGGTTATAGTAACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGGAC
* *
47768751 TTAGCCCGGAAATAGTAACTCGTACAAATGCCTCCGGGAC
1 TTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGGAC
* *
47768791 TTAGCCCGAAAATAGTAACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGGAC
*
47768831 TTAGCCCGGAAATAGTAACTCGAACAAATGCCTTCGGGAC
1 TTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGGAC
47768871 TTAGCCCGG
1 TTAGCCCGG
47768880 TTATCATCCG
Statistics
Matches: 150, Mismatches: 18, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 4 0.03
40 146 0.97
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:47777008 original size:40 final size:40
Alignment explanation
Indices: 47776821--47777033 Score: 330
Period size: 39 Copynumber: 5.5 Consensus size: 40
47776811 CAACCAAGTA
* * *
47776821 CCTTCGGG-TTTAG-CCGGATATAGT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
** *
47776858 CCTTC-GGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
47776897 CCTTCGGGACTTAGCCCGG-AATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
47776936 CCTTCGGGACTTAGCCC-GAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
47776975 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
47777015 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
47777034 TTATCATCCG
Statistics
Matches: 164, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
36 2 0.01
37 9 0.05
38 11 0.07
39 88 0.54
40 54 0.33
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
Found at i:47781414 original size:28 final size:28
Alignment explanation
Indices: 47781353--47781450 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
47781343 TCACAAATTG
** * *
47781353 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
47781382 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
47781410 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
47781438 GCACTAAGTGTGC
1 GCACTAAGTGTGC
47781451 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:47789093 original size:28 final size:28
Alignment explanation
Indices: 47789032--47789129 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
47789022 TCACAAATTG
** * *
47789032 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
47789061 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
47789089 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
47789117 GCACTAAGTGTGC
1 GCACTAAGTGTGC
47789130 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:47796360 original size:17 final size:18
Alignment explanation
Indices: 47796328--47796361 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47796318 GATGGGTTGA
*
47796328 AATGGGCTGTGTGGGCCT
1 AATGGGCTGCGTGGGCCT
47796346 AATGGGCT-CGTGGGCC
1 AATGGGCTGCGTGGGCC
47796362 CACACAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.12, C:0.21, G:0.44, T:0.24
Consensus pattern (18 bp):
AATGGGCTGCGTGGGCCT
Found at i:47796773 original size:27 final size:27
Alignment explanation
Indices: 47796573--47796773 Score: 206
Period size: 27 Copynumber: 7.4 Consensus size: 27
47796563 TTAAGACCTC
47796573 GATTTGTAAAATTACCGAAATACCCCT
1 GATTTGTAAAATTACCGAAATACCCCT
* * * *
47796600 AATTTGGAAAATTACCCAAATACCTCT
1 GATTTGTAAAATTACCGAAATACCCCT
* * **
47796627 AATTTGTAAAAATATTGAAATACCCCT
1 GATTTGTAAAATTACCGAAATACCCCT
* *
47796654 GATTTGGAAAACTACCGAAATACCCCT
1 GATTTGTAAAATTACCGAAATACCCCT
* * * *
47796681 GATTTGTGAAATTATCGAAACACCCAT
1 GATTTGTAAAATTACCGAAATACCCCT
** *
47796708 GGGTTGTAAAATTACCAAAATACCCCT
1 GATTTGTAAAATTACCGAAATACCCCT
* *
47796735 AATTTGTGAAATTACCGAAATACCTCC-
1 GATTTGTAAAATTACCGAAATACC-CCT
*
47796762 GATTGGTAAAAT
1 GATTTGTAAAAT
47796774 GACGGTAATA
Statistics
Matches: 137, Mismatches: 36, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
27 135 0.99
28 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (27 bp):
GATTTGTAAAATTACCGAAATACCCCT
Found at i:47796796 original size:27 final size:26
Alignment explanation
Indices: 47796766--47796911 Score: 157
Period size: 27 Copynumber: 5.4 Consensus size: 26
47796756 ACCTCCGATT
*
47796766 GGTAAAATGACGGTAATACCTCTGTAG
1 GGTAAAATGACCGTAATACC-CTGTAG
*
47796793 GGTAAAATGACCATAATACCCCTGTAG
1 GGTAAAATGACCGTAATA-CCCTGTAG
* * *
47796820 GGTAAAATGGCCGTAATGCCCCTGTAT
1 GGTAAAATGACCGTAAT-ACCCTGTAG
* *
47796847 GGTAAAATGATCGTAATTGCCCTGTAG
1 GGTAAAATGACCGTAA-TACCCTGTAG
* * *
47796874 GGTAAACTGACCGTAACACCCTTGTAT
1 GGTAAAATGACCGTAATACCC-TGTAG
47796901 GGTAAAATGAC
1 GGTAAAATGAC
47796912 GATTATGCCC
Statistics
Matches: 99, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
26 3 0.03
27 93 0.94
28 3 0.03
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.25
Consensus pattern (26 bp):
GGTAAAATGACCGTAATACCCTGTAG
Found at i:47796811 original size:54 final size:54
Alignment explanation
Indices: 47796766--47796911 Score: 175
Period size: 54 Copynumber: 2.7 Consensus size: 54
47796756 ACCTCCGATT
* *
47796766 GGTAAAATGACGGTAATACCTCTGTAGGGTAAAATGACCATAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCATAATACCCCTGTAG
* * * * * **
47796820 GGTAAAATGGCCGTAATGCCCCTGTATGGTAAAATGATCGTAATTGCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCATAATACCCCTGTAG
* * * *
47796874 GGTAAACTGACCGTAACACCCTTGTATGGTAAAATGAC
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGAC
47796912 GATTATGCCC
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 77 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.25
Consensus pattern (54 bp):
GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCATAATACCCCTGTAG
Found at i:47797097 original size:27 final size:26
Alignment explanation
Indices: 47797057--47797137 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 26
47797047 AGAAGTATTG
** *
47797057 TACTAGTGATTATGTCACATTCACTGT
1 TACTAGTGGCTATGCCACATT-ACTGT
* * *
47797084 TACTTGTGGCTATGCCACAATTATTGA
1 TACTAGTGGCTATGCCAC-ATTACTGT
47797111 TACTAGTGGCT-TGCCACATTTACTGT
1 TACTAGTGGCTATGCCACA-TTACTGT
47797137 T
1 T
47797138 TCTGGCAGCT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
25 1 0.02
26 12 0.28
27 27 0.63
28 3 0.07
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (26 bp):
TACTAGTGGCTATGCCACATTACTGT
Found at i:47797168 original size:26 final size:26
Alignment explanation
Indices: 47797139--47797238 Score: 164
Period size: 26 Copynumber: 3.8 Consensus size: 26
47797129 TTTACTGTTT
*
47797139 CTGGCAGCTATGCTGCATTATTATTA
1 CTGGCAGCTTTGCTGCATTATTATTA
*
47797165 CTGGCAGCTTTGTTGCATTATTATTA
1 CTGGCAGCTTTGCTGCATTATTATTA
*
47797191 CTGGCAGCTTTGTTGCATTATTATTA
1 CTGGCAGCTTTGCTGCATTATTATTA
*
47797217 CTGGCAGCTTTGCTGCAATATT
1 CTGGCAGCTTTGCTGCATTATT
47797239 GGTGTGCTGG
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 70 1.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (26 bp):
CTGGCAGCTTTGCTGCATTATTATTA
Found at i:47797414 original size:33 final size:33
Alignment explanation
Indices: 47797377--47797477 Score: 130
Period size: 33 Copynumber: 3.0 Consensus size: 33
47797367 GCGCACACTA
* *
47797377 TTACTGTATAGGGCTAAAGCCTAGACTGTTCTG
1 TTACTGTATAGGGCTAAGGCCCAGACTGTTCTG
* *
47797410 TTACTGTATAAGGCTAAGGCCCAGACTGTACTG
1 TTACTGTATAGGGCTAAGGCCCAGACTGTTCTG
* * *
47797443 ATACTGGATAGGGCTCAGGCCCAGACTGTTACTG
1 TTACTGTATAGGGCTAAGGCCCAGACTGTT-CTG
47797477 T
1 T
47797478 ATACATTGTT
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
33 54 0.95
34 3 0.05
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.29
Consensus pattern (33 bp):
TTACTGTATAGGGCTAAGGCCCAGACTGTTCTG
Found at i:47802637 original size:3 final size:3
Alignment explanation
Indices: 47802624--47802657 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
47802614 ATGTTTAATT
47802624 TAA TAA TTAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
47802658 AACAAAAGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:47802799 original size:2 final size:2
Alignment explanation
Indices: 47802792--47802831 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
47802782 GTTCTTAGTT
47802792 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47802832 ATTATTATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47805854 original size:93 final size:93
Alignment explanation
Indices: 47805695--47805865 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
47805685 AGGATATTTG
* * * **
47805695 GGCATCCGACCTTGTTGAGTAGAGTCCGAGTTCACTTACGGATGCGAATGTCCGAGCTTGTTGAG
1 GGCATCCGACCTCGTTGAGTAGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAGCTCATTGAG
47805760 TTGAGTCCGAGTTCGTAAGATGTAATTA
66 TTGAGTCCGAGTTCGTAAGATGTAATTA
* * * *
47805788 GGCATCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGACCTCGTTGAGTAGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAGCTCATTGAG
*
47805853 TTGAGTCTGAGTT
66 TTGAGTCCGAGTT
47805866 TTCTTATGGG
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
GGCATCCGACCTCGTTGAGTAGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAGCTCATTGAG
TTGAGTCCGAGTTCGTAAGATGTAATTA
Found at i:47812794 original size:14 final size:15
Alignment explanation
Indices: 47812765--47812802 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
47812755 CTCAACATTT
*
47812765 TAATATCTCACAATA
1 TAATATTTCACAATA
47812780 TAATATTTC-CAATA
1 TAATATTTCACAATA
47812794 TAA-ATTTCA
1 TAATATTTCA
47812803 TGTGGAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 5 0.24
14 8 0.38
15 8 0.38
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (15 bp):
TAATATTTCACAATA
Found at i:47819439 original size:21 final size:18
Alignment explanation
Indices: 47819404--47819449 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
47819394 AACTTGCTAC
*
47819404 AAGCTCATTTAGCTCATTT
1 AAGCTCATCTAGCTCA-TT
47819423 ATAGCTCATCCTAGCTCATT
1 A-AGCTCAT-CTAGCTCATT
47819443 AAGCTCA
1 AAGCTCA
47819450 ACATTATTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 7 0.29
20 10 0.42
21 7 0.29
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (18 bp):
AAGCTCATCTAGCTCATT
Found at i:47821975 original size:4 final size:4
Alignment explanation
Indices: 47821966--47821991 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
47821956 ATTATTATAG
47821966 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
47821992 TGTAATGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:47823403 original size:31 final size:31
Alignment explanation
Indices: 47823379--47823448 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
47823369 TATATTATTA
47823379 AATAAATAATATATATTATCATATATAAAAT
1 AATAAATAATATATATTATCATATATAAAAT
* * *
47823410 AATAAATAATTTATATTATTATGTAT-AAAT
1 AATAAATAATATATATTATCATATATAAAAT
*
47823440 AATATATAA
1 AATAAATAA
47823449 ATAAATTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
30 12 0.34
31 23 0.66
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (31 bp):
AATAAATAATATATATTATCATATATAAAAT
Found at i:47823406 original size:19 final size:19
Alignment explanation
Indices: 47823363--47823406 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
47823353 TCTCTCTTTC
47823363 ATATAATATATTATTAAAT
1 ATATAATATATTATTAAAT
* *
47823382 AAATAATATA-TATTATCAT
1 ATATAATATATTATTA-AAT
47823401 ATATAA
1 ATATAA
47823407 AATAATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
ATATAATATATTATTAAAT
Found at i:47823410 original size:21 final size:21
Alignment explanation
Indices: 47823368--47823413 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 21
47823358 CTTTCATATA
*
47823368 ATATATTATTAAATAAATAAT
1 ATATATTATCAAATAAATAAT
47823389 ATATATTATCATATATAAAATAAT
1 ATATATTATCA-A-AT-AAATAAT
47823413 A
1 A
47823414 AATAATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 10 0.48
22 1 0.05
23 2 0.10
24 8 0.38
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
ATATATTATCAAATAAATAAT
Found at i:47838915 original size:21 final size:23
Alignment explanation
Indices: 47838891--47838933 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
47838881 TTTTAAAACA
*
47838891 TTTAAA-ATTATTTTT-ATATTT
1 TTTAAAGAATATTTTTAATATTT
47838912 TTTAAAGAATATTTTTAATATT
1 TTTAAAGAATATTTTTAATATT
47838934 ATGAAATACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 8 0.42
23 5 0.26
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTAAAGAATATTTTTAATATTT
Found at i:47839052 original size:26 final size:26
Alignment explanation
Indices: 47838985--47839057 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
47838975 TTAAAATTTT
* * *
47838985 TAATAAAATTAATAAGTAAATACATA
1 TAATAAAATCAATAAATAAATACACA
*
47839011 TAATAAAATTAATAAATAAATACACA
1 TAATAAAATCAATAAATAAATACACA
47839037 TAAT-AAATCAATTAAA-AAATA
1 TAATAAAATCAA-TAAATAAATA
47839058 ACTTGTAGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
25 11 0.26
26 32 0.74
ACGTcount: A:0.64, C:0.05, G:0.01, T:0.29
Consensus pattern (26 bp):
TAATAAAATCAATAAATAAATACACA
Found at i:47839058 original size:29 final size:26
Alignment explanation
Indices: 47838985--47839043 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
47838975 TTAAAATTTT
* *
47838985 TAATAAAATTAATAAGTAAATACATA
1 TAATAAAATTAATAAATAAATACACA
47839011 TAATAAAATTAATAAATAAATACACA
1 TAATAAAATTAATAAATAAATACACA
47839037 TAATAAA
1 TAATAAA
47839044 TCAATTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (26 bp):
TAATAAAATTAATAAATAAATACACA
Found at i:47839891 original size:2 final size:2
Alignment explanation
Indices: 47839884--47839909 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
47839874 TGTTATGATA
47839884 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
47839910 TTAAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47845808 original size:27 final size:27
Alignment explanation
Indices: 47845761--47845874 Score: 138
Period size: 27 Copynumber: 4.2 Consensus size: 27
47845751 AAAATGGTAT
* * *
47845761 ACTGTTTGCGCCTATCTGACAGGCGTG
1 ACTGGTTGAGCCTATCTGACAGGCGCG
* * *
47845788 AATAGTTGAGCCTATCTGACAGGTGCG
1 ACTGGTTGAGCCTATCTGACAGGCGCG
*
47845815 ACTGGTTGAGCCTATTTGACAGGCGCG
1 ACTGGTTGAGCCTATCTGACAGGCGCG
* * *
47845842 ACTGGTTGAGCCTATCTCAAAGGCGCA
1 ACTGGTTGAGCCTATCTGACAGGCGCG
47845869 ACTGGT
1 ACTGGT
47845875 GGGACCCACA
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (27 bp):
ACTGGTTGAGCCTATCTGACAGGCGCG
Found at i:47845964 original size:24 final size:24
Alignment explanation
Indices: 47845936--47845985 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
47845926 AAAATCAAAT
47845936 GAGCAACAGACACAAAATTTAGCA
1 GAGCAACAGACACAAAATTTAGCA
*
47845960 GAGCAACAGTCACAAAATTTAGCA
1 GAGCAACAGACACAAAATTTAGCA
47845984 GA
1 GA
47845986 ACGGAAGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.48, C:0.20, G:0.18, T:0.14
Consensus pattern (24 bp):
GAGCAACAGACACAAAATTTAGCA
Found at i:47851559 original size:60 final size:60
Alignment explanation
Indices: 47851486--47851604 Score: 177
Period size: 60 Copynumber: 2.0 Consensus size: 60
47851476 ATATTAAACT
* * *
47851486 AAACACAACAATTTAT-ACAATAATCCTAAATTAATAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAAC-ATAATCCCAAATTAATAACAAATTAATTTTAAAATAATTAC
* *
47851546 AAACACAAAAATTTATAACATAATCCCAAATTACTAACAAATTAATTTTAAATTAATTA
1 AAACACAAAAATTTATAACATAATCCCAAATTAATAACAAATTAATTTTAAAATAATTA
47851605 TAAAAAAAAC
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
60 51 0.96
61 2 0.04
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.33
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCCAAATTAATAACAAATTAATTTTAAAATAATTAC
Found at i:47851806 original size:18 final size:18
Alignment explanation
Indices: 47851769--47851806 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
47851759 AATACATTAC
*
47851769 CTTTTTTTCTTTCTTATT
1 CTTTTTTTCTTTCCTATT
47851787 CTTTTTTTCTTCTCCT-TT
1 CTTTTTTTCTT-TCCTATT
47851805 CT
1 CT
47851807 CTCTGTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (18 bp):
CTTTTTTTCTTTCCTATT
Found at i:47853031 original size:42 final size:43
Alignment explanation
Indices: 47852718--47853007 Score: 453
Period size: 43 Copynumber: 6.8 Consensus size: 43
47852708 TTTATTGGAA
*
47852718 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* * *
47852761 AAAAGCACCGCTAAAGGTCAAGGCTTTTTAGCGGTGTTTGTTGG
1 AAAAGCGCCGCTAAAGGTCAAGGC-TTTTAGCGGCGTTTGTGGG
*
47852805 -AAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTTGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
47852847 AGAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
47852890 ATAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* *
47852933 AAAAGCGCCGCTAAACGT-AAGGCTTTTAGCGGTGTTTGCT-GG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTG-TGGG
47852975 AAAAGCGCCGCTAAA-GTCAAGGCTTTTAGCGGC
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGC
47853008 ACTTTTTTTA
Statistics
Matches: 230, Mismatches: 13, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
41 2 0.01
42 68 0.30
43 143 0.62
44 17 0.07
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
Found at i:47853160 original size:32 final size:31
Alignment explanation
Indices: 47853083--47853162 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
47853073 CTTCCTGCAT
* * *
47853083 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATACAACCAAAAACAACAAATATAACA
* * * *
47853114 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATACAACCAAAAACAACAAATATAACA
47853145 TAAAAATACAACCAAAAA
1 T-AAAATACAACCAAAAA
47853163 TATTAATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 26 0.65
32 14 0.35
ACGTcount: A:0.61, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATACAACCAAAAACAACAAATATAACA
Done.