Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 66 of 185
Found at i:19325975 original size:120 final size:120
Alignment explanation
Indices: 19325759--19326021 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
19325749 TTGAATGCTG
* * *
19325759 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTACGTGAATATATCCGGACTAAGGTCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGACGTGAATAAATCCGGACTAAGGTCCGAAGGCATT
* *
19325823 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * **
19325879 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGA-GTTATTAAATCCGGGTTAA-GTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGACGTGAATAAATCCGGACTAAGGT-CCGAAGGCAT
* ** * * * *
19325942 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
19325998 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
19326022 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 39 0.32
120 71 0.59
121 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGACGTGAATAAATCCGGACTAAGGTCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:19326041 original size:79 final size:80
Alignment explanation
Indices: 19325812--19326056 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
19325802 GGACTAAGGT
* * * * * * * ** *
19325812 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
19325875 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
19325892 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
19325957 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
19325972 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
19326036 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
19326050 CCGAAGG
1 CCGAAGG
19326057 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:19333175 original size:40 final size:40
Alignment explanation
Indices: 19333009--19333267 Score: 235
Period size: 40 Copynumber: 6.6 Consensus size: 40
19332999 TTGAATGCTG
* * * * * *
19333009 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * *
19333049 TCCGGACTAAGGT-CCGAAGGCATTTGTGCGAGATAC--AA
1 TCCGGGTTAA-GTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * * * *
19333087 TTCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT-AA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
19333126 TCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
19333166 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
19333206 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
19333245 ACCGGGCTATGT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
19333268 TGAACGAGGA
Statistics
Matches: 188, Mismatches: 26, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
37 1 0.01
38 41 0.22
39 54 0.29
40 83 0.44
41 9 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:19333182 original size:79 final size:77
Alignment explanation
Indices: 19333009--19333269 Score: 228
Period size: 79 Copynumber: 3.3 Consensus size: 77
19332999 TTGAATGCTG
* **
19333009 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATATCCGGACTAAGGT-CCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-AATA-ATCCGGGTTAA-GTCCCGAAGGCA
19333071 TTTGTGCGAG--ATACAA
62 -TTGTGCGAGTTATA-AA
* * * * * *
19333087 TTCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAATCCGGGTTAAGTCCCAAAGGCATTCG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATAATAATCCGGGTTAAGTCCCGAAGGCATT-G
19333152 TGCGAGTTATTAAA
65 TGCGAGTTA-TAAA
* * * ** *
19333166 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATAAT-AATCCGGGTTAAGTCCCGAAGGCATTG
*
19333231 TGTGAGTTACTAAA
65 TGCGAGTTA-TAAA
* *
19333245 ACCGGGCTATGT-CCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19333270 AACGAGGAGC
Statistics
Matches: 152, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
76 4 0.03
77 24 0.16
78 33 0.22
79 64 0.42
80 27 0.18
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (77 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATAATAATCCGGGTTAAGTCCCGAAGGCATTGT
GCGAGTTATAAA
Found at i:19347323 original size:40 final size:40
Alignment explanation
Indices: 19347262--19347507 Score: 318
Period size: 40 Copynumber: 6.2 Consensus size: 40
19347252 CGGAATTTAG
* * * *
19347262 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
19347302 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
19347342 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
19347382 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
19347422 CCGGATAAAATCACTAGCATAAATGCCTTC-GGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
19347461 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
19347501 CCGGATA
1 CCGGATA
19347508 TCATTCAAAT
Statistics
Matches: 186, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 40 0.22
40 142 0.76
41 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:19355763 original size:40 final size:40
Alignment explanation
Indices: 19355717--19355948 Score: 324
Period size: 40 Copynumber: 5.8 Consensus size: 40
19355707 TATAACCACA
* * * *
19355717 AGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATC-ACT
* * *
19355757 CGCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACT
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATC-ACT
* *
19355797 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACT
19355837 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACT
*
19355877 AGCATAAATGCCTTCGGGTCTTAACCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACT
* *
19355917 AGCACAAATGCCTTCGGGACTTAGCCCGGATA
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATA
19355949 TCATTCAAAT
Statistics
Matches: 179, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 175 0.98
41 4 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACT
Found at i:19361550 original size:44 final size:43
Alignment explanation
Indices: 19361500--19361659 Score: 159
Period size: 43 Copynumber: 3.7 Consensus size: 43
19361490 TATGCGATAT
19361500 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTTAGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-TTTTAGATTTA
* * * *
19361544 CGTGTAACACCATGTCTGGGACATTGGCATCG-TATATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGTTTTA-GATTTA
*
19361587 CGTGTAAGACC-CTGTTTGGGACAG-TGGCATCGTTATTTA-A-TTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCG-T-TTTAGATTTA
* * *
19361630 CATGTAAGACCACGTCTAGGACGCTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
19361660 TGTACGAATC
Statistics
Matches: 96, Mismatches: 12, Indels: 17
0.77 0.10 0.14
Matches are distributed among these distances:
42 4 0.04
43 58 0.60
44 31 0.32
46 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGTTTTAGATTTA
Found at i:19364822 original size:27 final size:26
Alignment explanation
Indices: 19364805--19364874 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
19364795 ATATTAAGTC
19364805 CGCACACTAAGTGCTATATAATCAACT
1 CGCACACTAAGTGCTATAT-ATCAACT
*
19364832 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTAAGTGCTATAT-ATC-AACT
*
19364860 CGCACACTTAGTGCT
1 CGCACACTAAGTGCT
19364875 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTAAGTGCTATATATCAACT
Found at i:19364868 original size:28 final size:28
Alignment explanation
Indices: 19364805--19364902 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
19364795 ATATTAAGTC
*
19364805 CGCACACTAAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
19364832 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
19364860 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
19364889 CGCACACTTAGTGC
1 CGCACACTTAGTGC
19364903 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:19375973 original size:41 final size:42
Alignment explanation
Indices: 19375928--19376009 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
19375918 AATATGTGTG
19375928 AAACGTTTGAAATTCAAA-ATTTGAACTCTTGTTCTTATCCA
1 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
19375969 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCC
1 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCC
19376010 CTTTGAATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 18 0.45
42 22 0.55
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (42 bp):
AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
Found at i:19382447 original size:42 final size:42
Alignment explanation
Indices: 19382400--19382482 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
19382390 AATATGTGTG
19382400 AAACGTTTGAAATTCAAAAATTTAAACTCTTGTTCTTATCCA
1 AAACGTTTGAAATTCAAAAATTTAAACTCTTGTTCTTATCCA
* *
19382442 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCC
1 AAACGTTTGAAATTCAAAAATTTAAACTCTTGTTCTTATCC
19382483 CTTTGAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (42 bp):
AAACGTTTGAAATTCAAAAATTTAAACTCTTGTTCTTATCCA
Found at i:19395056 original size:28 final size:28
Alignment explanation
Indices: 19395024--19395094 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
19395014 TGAACTTACC
**
19395024 TTGTGTTTATTATCCTAGTGGACTATAT
1 TTGTGTTTATTATCCTAGTAAACTATAT
* *
19395052 TTGTGTTTATTGTCCTAGTAAACTATCT
1 TTGTGTTTATTATCCTAGTAAACTATAT
* *
19395080 TCGTGTTTACTATCC
1 TTGTGTTTATTATCC
19395095 CAACAGACTA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.49
Consensus pattern (28 bp):
TTGTGTTTATTATCCTAGTAAACTATAT
Found at i:19395371 original size:109 final size:110
Alignment explanation
Indices: 19395222--19395593 Score: 462
Period size: 109 Copynumber: 3.4 Consensus size: 110
19395212 TATACTTGGT
* * ** ** *
19395222 TGCCATAGCATCTTTCATCTATGGTCTTACACTGTATACCTTATATCTTGTACCATACTATCATG
1 TGCCATAGCGTCTTTCATCTATGGTCTTACGCCATATACCTTATATCTTGTACCATGTTGTCATG
19395287 GCGTCTTTCA-CACATGGTCTTACACTACATACCTCATACCAGAC
66 GCGTCTTTCATCACATGGTCTTACACTACATACCTCATACCAGAC
* * * * * *
19395331 TGCCTTAGTGTCTTTCATCTATTGTCTTACGCCATATACCTTATACCTTGTTCGATGTTGTCATG
1 TGCCATAGCGTCTTTCATCTATGGTCTTACGCCATATACCTTATATCTTGTACCATGTTGTCATG
* * * *
19395396 ACATCTTTCATCA-ATGGTCTTACGCTACGTACCTCATACCAGAC
66 GCGTCTTTCATCACATGGTCTTACACTACATACCTCATACCAGAC
* * * *
19395440 TACCATAGCGTCTTTCATCTATGGTCTTCCGCCATATGCCTTATATCTTGTACCATGTTGCCATG
1 TGCCATAGCGTCTTTCATCTATGGTCTTACGCCATATACCTTATATCTTGTACCATGTTGTCATG
* * * *
19395505 GCGTCTTTCATC-CATAGTCTTACACTACATACATTATACCAAAC
66 GCGTCTTTCATCACATGGTCTTACACTACATACCTCATACCAGAC
* * *
19395549 TGCCATAGCATCTTTTATCTATGGTTTTACGCCATATACCATTAT
1 TGCCATAGCGTCTTTCATCTATGGTCTTACGCCATATACC-TTAT
19395594 CACGGTGTCG
Statistics
Matches: 219, Mismatches: 41, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
109 213 0.97
110 6 0.03
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (110 bp):
TGCCATAGCGTCTTTCATCTATGGTCTTACGCCATATACCTTATATCTTGTACCATGTTGTCATG
GCGTCTTTCATCACATGGTCTTACACTACATACCTCATACCAGAC
Found at i:19396054 original size:26 final size:27
Alignment explanation
Indices: 19396020--19396075 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
19396010 TGAAAATTTA
* **
19396020 GGGTTTTTCAGTTGAATTGTGAACTAG
1 GGGTTTTCCAGTTGAATTACGAACTAG
19396047 GGGTTTTCCAGTTGAATTACGAACTAG
1 GGGTTTTCCAGTTGAATTACGAACTAG
19396074 GG
1 GG
19396076 CTTCGCCAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.11, G:0.30, T:0.36
Consensus pattern (27 bp):
GGGTTTTCCAGTTGAATTACGAACTAG
Found at i:19396084 original size:27 final size:27
Alignment explanation
Indices: 19396028--19396085 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
19396018 TAGGGTTTTT
** * **
19396028 CAGTTGAATTGTGAACTAGGGGTTTTC
1 CAGTTGAATTACGAACTAGGGCTTCGC
19396055 CAGTTGAATTACGAACTAGGGCTTCGC
1 CAGTTGAATTACGAACTAGGGCTTCGC
19396082 CAGT
1 CAGT
19396086 CAAAGATTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (27 bp):
CAGTTGAATTACGAACTAGGGCTTCGC
Found at i:19410819 original size:57 final size:57
Alignment explanation
Indices: 19410738--19410925 Score: 195
Period size: 57 Copynumber: 3.3 Consensus size: 57
19410728 TAAAATTTTG
* * * * * *
19410738 GAAAGGCAAGCATTGGTGGCGAACCTGTTAAAGGATAACATTTGTGGCAAAACTCTC
1 GAAAGGCAAGCCTTCGTGGTGAACCTATTAAAAGATAACATTTGTGGCAAAACTCTA
* * *
19410795 GAAACGCAAGCCTTTGTGGTGAACCTATTAAAAGATAGCATTTGTGGCAAAACTCTA
1 GAAAGGCAAGCCTTCGTGGTGAACCTATTAAAAGATAACATTTGTGGCAAAACTCTA
* * * * *
19410852 GAAAGGTAAGCCTTCGTGGTGAACCTCTTAAATA-A-CACACTTGTGGC-AATCTCTA
1 GAAAGGCAAGCCTTCGTGGTGAACCTATTAAA-AGATAACATTTGTGGCAAAACTCTA
*
19410907 GATAAGG-AAGCCTTTGTGG
1 GA-AAGGCAAGCCTTCGTGG
19410926 CTATCTCTAA
Statistics
Matches: 112, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
55 20 0.18
56 13 0.12
57 78 0.70
58 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (57 bp):
GAAAGGCAAGCCTTCGTGGTGAACCTATTAAAAGATAACATTTGTGGCAAAACTCTA
Found at i:19410856 original size:28 final size:28
Alignment explanation
Indices: 19410771--19410856 Score: 68
Period size: 28 Copynumber: 3.0 Consensus size: 28
19410761 CCTGTTAAAG
* *
19410771 GATAACATTTGTGGCAAAACTCTCGAAA
1 GATAGCATTTGTGGCAAAACTCTAGAAA
* ** * *
19410799 CGCA-AGCCTTTGTGGTGAACCTATTA-AAA
1 -G-ATAGCATTTGTGGCAAAACT-CTAGAAA
19410828 GATAGCATTTGTGGCAAAACTCTAGAAA
1 GATAGCATTTGTGGCAAAACTCTAGAAA
19410856 G
1 G
19410857 GTAAGCCTTC
Statistics
Matches: 41, Mismatches: 12, Indels: 9
0.66 0.19 0.15
Matches are distributed among these distances:
27 3 0.07
28 19 0.46
29 17 0.41
30 2 0.05
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (28 bp):
GATAGCATTTGTGGCAAAACTCTAGAAA
Found at i:19410923 original size:28 final size:28
Alignment explanation
Indices: 19410892--19410948 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
19410882 AATAACACAC
*
19410892 TTGTGGCAATCTCTAGATAAGGAA-GCCT
1 TTGTGGCAATCTCTA-AAAAGGAATGCCT
*
19410920 TTGTGGCTATCTCTAAAAAGGAATGCCT
1 TTGTGGCAATCTCTAAAAAGGAATGCCT
19410948 T
1 T
19410949 CGTGACGCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (28 bp):
TTGTGGCAATCTCTAAAAAGGAATGCCT
Found at i:19414107 original size:37 final size:37
Alignment explanation
Indices: 19414057--19414135 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
19414047 TTATTACGAA
* * *
19414057 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
19414094 GTCTTACCTGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
19414131 GTCTT
1 GTCTT
19414136 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:19414391 original size:47 final size:47
Alignment explanation
Indices: 19414254--19414391 Score: 195
Period size: 47 Copynumber: 2.9 Consensus size: 47
19414244 CCCTTCGGGA
* * * * * *
19414254 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19414301 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19414348 CTTATCACATATATACACTTTCACATTCATCACATCGGTCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
19414392 CGCCATACTA
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 80 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19417842 original size:40 final size:40
Alignment explanation
Indices: 19417802--19418109 Score: 474
Period size: 40 Copynumber: 7.7 Consensus size: 40
19417792 TGATTACTCT
* * * * *
19417802 TCGGGACCTAGCCCAGATATAACACCAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* * * *
19417842 TCGAGG-TTTAGCACGGATATATTACTAGCACGAATGCTCT
1 TCG-GGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* *
19417882 TCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
19417922 TCGGGACTTAGCCCGGATATATCACTAGCGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTA--GCACGAATGCTCC
19417964 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
19418004 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
19418044 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
*
19418084 TCTGGACTTAGCCCGGATATATCACT
1 TCGGGACTTAGCCCGGATATATCACT
19418110 CTCAATTCTC
Statistics
Matches: 248, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
39 1 0.00
40 205 0.83
41 2 0.01
42 40 0.16
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
Found at i:19417959 original size:122 final size:120
Alignment explanation
Indices: 19417802--19418109 Score: 465
Period size: 122 Copynumber: 2.5 Consensus size: 120
19417792 TGATTACTCT
* * * * * * *
19417802 TCGGGACCTAGCCCAGATATAACACCAGCACGAATGCTCTTCGAGG-TTTAGCACGGATATATTA
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCG-GGACTTAGCACGGATATATCA
*
19417866 CTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
65 CTAGCACGAATGCTCCTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
*
19417922 TCGGGACTTAGCCCGGATATATCACTAGCGCACGAATGCTCCTCGGGACTTAGCCCGGATATATC
1 TCGGGACTTAGCCCGGATATATCACTA--GCACGAATGCTCCTCGGGACTTAGCACGGATATATC
* *
19417987 ACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
64 ACTAGCACGAATGCTCCTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
* *
19418044 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCTGGACTTAGCCCGGATATATCAC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCACGGATATATCAC
19418109 T
66 T
19418110 CTCAATTCTC
Statistics
Matches: 173, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
120 61 0.35
121 2 0.01
122 110 0.64
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (120 bp):
TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCACGGATATATCAC
TAGCACGAATGCTCCTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
Found at i:19418070 original size:162 final size:162
Alignment explanation
Indices: 19417802--19418109 Score: 492
Period size: 162 Copynumber: 1.9 Consensus size: 162
19417792 TGATTACTCT
* * *
19417802 TCGGGACCTAGCCCAGATATAACACCAGCACGAATGCTCTTCGAGGTTTAGCACGGATATATTAC
1 TCGGGACCTAGCCCAGATATAACACCAGCACGAATGCTCCTCGAGGCTTAGCACGGATATATCAC
*
19417867 TAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGACTTA
66 TAGCACGAATGCTCCTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGACTTA
19417932 GCCCGGATATATCACTAGCGCACGAATGCTCC
131 GCCCGGATATATCACTAGCGCACGAATGCTCC
* * * * *
19417964 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCG-GGACTTAGCCCGGATATATCA
1 TCGGGACCTAGCCCAGATATAACACCAGCACGAATGCTCCTCGAGG-CTTAGCACGGATATATCA
* * *
19418028 CTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCTGGACTT
65 CTAGCACGAATGCTCCTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGACTT
19418093 AGCCCGGATATATCACT
130 AGCCCGGATATATCACT
19418110 CTCAATTCTC
Statistics
Matches: 133, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
161 2 0.02
162 131 0.98
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (162 bp):
TCGGGACCTAGCCCAGATATAACACCAGCACGAATGCTCCTCGAGGCTTAGCACGGATATATCAC
TAGCACGAATGCTCCTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGACTTA
GCCCGGATATATCACTAGCGCACGAATGCTCC
Found at i:19419384 original size:37 final size:37
Alignment explanation
Indices: 19419323--19419401 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
19419313 TTATTACGAA
* * *
19419323 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* * *
19419360 TTCTTACCTGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
19419397 GTCTT
1 GTCTT
19419402 TAGAGCTCGG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:19419598 original size:47 final size:47
Alignment explanation
Indices: 19419520--19419704 Score: 280
Period size: 47 Copynumber: 3.9 Consensus size: 47
19419510 CCCTTCGGGA
* * * * * * *
19419520 CTTATCACATTTATACACTTTCACATCCATCACGTTGGTCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19419567 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19419614 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19419661 CTTATCACATATATACACTTTCACATTCATCACATCGGTCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
19419705 CGCCATACTA
Statistics
Matches: 126, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 126 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19428075 original size:48 final size:48
Alignment explanation
Indices: 19427986--19428079 Score: 122
Period size: 48 Copynumber: 2.0 Consensus size: 48
19427976 TTTCTTGGCT
* *
19427986 TAAAAACGCCTAAGTCAGCCTAACTTCCACCGATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAATGGATTCAACCG
19428034 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAGA-GGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATA-ATGGATTCAAC
19428080 AGAATTCCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
47 4 0.10
48 36 0.88
49 1 0.02
ACGTcount: A:0.38, C:0.28, G:0.15, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAATGGATTCAACCG
Found at i:19430590 original size:48 final size:48
Alignment explanation
Indices: 19430501--19430594 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
19430491 TTTCTTGGCT
* * *
19430501 TAAAAACGCCTAAGTCAGCCTAACTTCCACCGATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
19430549 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
19430595 AGAATTCCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 4 0.10
48 37 0.90
ACGTcount: A:0.39, C:0.28, G:0.14, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:19432424 original size:118 final size:119
Alignment explanation
Indices: 19432217--19432458 Score: 339
Period size: 118 Copynumber: 2.0 Consensus size: 119
19432207 GTTGTCAACA
* *
19432217 ATGGCCTTTACAAAACTAAATACACTTCGTTTAGCCTAGCATGAGGGTTCCTACGTTTCTATATT
1 ATGGCCTTTACAAAACTAAATACACTTCGTTTAACCTAGCATGAGGGTTCCTACGTTTCTACATT
* *
19432282 TTAGCAGATTACTCTCA-CCCC-CTCTC-GAAAATTTATCTACATGGTATCTTTG
66 TTAGCAGATTACTCTCACCCCCTCTCTCTG-AAATTTAGCAACATGGTATCTTTG
* * * *
19432334 ATGGCCTTTTCAAAATTAAGTACACTTTCGTTTAACCTAGCATGAGGGTTCCTACGTTTCTGCAT
1 ATGGCCTTTACAAAACTAAATACAC-TTCGTTTAACCTAGCATGAGGGTTCCTACGTTTCTACAT
* *
19432399 TTTAGCTGCTTACTCT-ACCACCCTCTCTCTGAAATTTAGCAACATGGTATCTTTG
65 TTTAGCAGATTACTCTCACC-CCCTCTCTCTGAAATTTAGCAACATGGTATCTTTG
19432454 ATGGC
1 ATGGC
19432459 AGGGTAAATG
Statistics
Matches: 110, Mismatches: 10, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
117 23 0.21
118 51 0.46
119 3 0.03
120 32 0.29
121 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (119 bp):
ATGGCCTTTACAAAACTAAATACACTTCGTTTAACCTAGCATGAGGGTTCCTACGTTTCTACATT
TTAGCAGATTACTCTCACCCCCTCTCTCTGAAATTTAGCAACATGGTATCTTTG
Found at i:19437636 original size:45 final size:45
Alignment explanation
Indices: 19437556--19437642 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
19437546 CTATACGCCT
* ** *
19437556 AAAATGAGTAAGACCATAGTTGAACGATGTTATGGCATCATGACG
1 AAAATGAGTAAGACCATAGCTGAACGACATCATGGCATCATGACG
* *
19437601 AAAATGAGTAAGACCATGGCTGAAGGACATCATGGCATCATG
1 AAAATGAGTAAGACCATAGCTGAACGACATCATGGCATCATG
19437643 GTAAATAAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (45 bp):
AAAATGAGTAAGACCATAGCTGAACGACATCATGGCATCATGACG
Found at i:19442860 original size:29 final size:28
Alignment explanation
Indices: 19442809--19442871 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
19442799 CAATATCCAT
* * *
19442809 CACTGGTACATAGTACCTGCTAAATAAAA
1 CACTAGTACAGAGTACCTACT-AATAAAA
* *
19442838 CACTAGTACAGAGTGCCTACTAATATAA
1 CACTAGTACAGAGTACCTACTAATAAAA
19442866 CACTAG
1 CACTAG
19442872 CACGAAGCCT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 12 0.41
29 17 0.59
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.24
Consensus pattern (28 bp):
CACTAGTACAGAGTACCTACTAATAAAA
Found at i:19442894 original size:26 final size:28
Alignment explanation
Indices: 19442824--19442894 Score: 67
Period size: 28 Copynumber: 2.6 Consensus size: 28
19442814 GTACATAGTA
* * *
19442824 CCTGCTAAATAAAACACTAGTACAGAGTG
1 CCTGCTAAAT-ATACACTAGCACAGAGAG
*
19442853 CCTACT-AATATAACACTAGCAC-GA-AG
1 CCTGCTAAATAT-ACACTAGCACAGAGAG
19442879 CCTGCTAAATATACAC
1 CCTGCTAAATATACAC
19442895 CGGTACAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
26 10 0.29
27 8 0.23
28 12 0.34
29 5 0.14
ACGTcount: A:0.41, C:0.25, G:0.13, T:0.21
Consensus pattern (28 bp):
CCTGCTAAATATACACTAGCACAGAGAG
Found at i:19448273 original size:27 final size:27
Alignment explanation
Indices: 19448243--19448297 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
19448233 TCCACAAGAA
* *
19448243 AGCCAGATGTATGCACATCAGAATCAG
1 AGCCAGATGCATCCACATCAGAATCAG
19448270 AGCCAGATGCATCCACATCAGAATCAG
1 AGCCAGATGCATCCACATCAGAATCAG
19448297 A
1 A
19448298 CGTAGCCACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.16
Consensus pattern (27 bp):
AGCCAGATGCATCCACATCAGAATCAG
Found at i:19454843 original size:25 final size:25
Alignment explanation
Indices: 19454809--19454856 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
19454799 AATTGAGTTG
19454809 GTTTATTTTAAGTTTTAGTTGTATA
1 GTTTATTTTAAGTTTTAGTTGTATA
19454834 GTTTATTTTAAGTTTTAGTTGTA
1 GTTTATTTTAAGTTTTAGTTGTA
19454857 GTATTCATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (25 bp):
GTTTATTTTAAGTTTTAGTTGTATA
Found at i:19455671 original size:16 final size:16
Alignment explanation
Indices: 19455652--19455683 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
19455642 TTTTGTGTAT
19455652 TGTCGATGCAATATTC
1 TGTCGATGCAATATTC
19455668 TGTCGATGCAATATTC
1 TGTCGATGCAATATTC
19455684 AAGTTGCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (16 bp):
TGTCGATGCAATATTC
Found at i:19459182 original size:89 final size:92
Alignment explanation
Indices: 19458993--19459191 Score: 260
Period size: 89 Copynumber: 2.2 Consensus size: 92
19458983 AATTGGGTGC
*
19458993 AGCCAACAATTGAATAGAACCAATTGCAACAACCACCAATTGCCCAAAAAACAAAAAATAATAGC
1 AGCCAACAATTGAATAGAACCAATTGCAACAACCACCAAATGCCC-AAAAACAAAAAATAATAGC
*
19459058 AGTAGGGAACAATTGCAAAGACCTGAAG
65 AGCAGGGAACAATTGCAAAGACCTGAAG
* ** * *
19459086 AGCCAACAATTGAATAGAACCAATTGTATTAGCCACCAAATG-CC-GAAA-AAAAAATAATAGCA
1 AGCCAACAATTGAATAGAACCAATTGCAACAACCACCAAATGCCCAAAAACAAAAAATAATAGCA
* * * **
19459148 GCAGGGAATAGTTGCAGAGATGTGAAG
66 GCAGGGAACAATTGCAAAGACCTGAAG
19459175 AGCCAACAATTGAATAG
1 AGCCAACAATTGAATAG
19459192 TAAAGCAGTT
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
89 52 0.55
90 3 0.03
92 2 0.02
93 37 0.39
ACGTcount: A:0.47, C:0.19, G:0.18, T:0.16
Consensus pattern (92 bp):
AGCCAACAATTGAATAGAACCAATTGCAACAACCACCAAATGCCCAAAAACAAAAAATAATAGCA
GCAGGGAACAATTGCAAAGACCTGAAG
Found at i:19459738 original size:19 final size:20
Alignment explanation
Indices: 19459715--19459787 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
19459705 AAAATCACAA
19459715 AAAAATTCAAAATAATTTTC
1 AAAAATTCAAAATAATTTTC
19459735 AAAAATTCAAAATAATTTT-
1 AAAAATTCAAAATAATTTTC
* * *
19459754 TAAAATTCAGAAT-ATTTATA
1 AAAAATTCAAAATAATTT-TC
19459774 AAAAATTCCAAAAT
1 AAAAATT-CAAAAT
19459788 TTTTATTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
18 4 0.09
19 12 0.26
20 25 0.54
21 5 0.11
ACGTcount: A:0.56, C:0.08, G:0.01, T:0.34
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTC
Found at i:19461596 original size:14 final size:14
Alignment explanation
Indices: 19461577--19461604 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19461567 CACTGTACAA
19461577 ATATGAAATGGAAT
1 ATATGAAATGGAAT
19461591 ATATGAAATGGAAT
1 ATATGAAATGGAAT
19461605 GCAAGCAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (14 bp):
ATATGAAATGGAAT
Found at i:19476073 original size:580 final size:576
Alignment explanation
Indices: 19473175--19476801 Score: 5754
Period size: 576 Copynumber: 6.3 Consensus size: 576
19473165 ATAGCAAAGG
* * *
19473175 ATGCTCACGACGTTGTTCATACACCTTCCCTAAGTTACATAAACACTTTCCACACTTGTAACAAA
1 ATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAACACTTTCCACACTTGCAACAAA
*
19473240 TTAAAGGTTCACGATAATTATCAAATTCATCCCACCAAACCATTT-ATATACTAAAATAAACAGC
66 TTAAAGGTTCACGATAATTATCTAATTCATCCCACCAAACC-TTTAATATACTAAAATAAACAGC
*
19473304 AACACTCATAGTCTTGGTTTGCTCACAATGATTAATATTTGCTTAGTAAGTCAATTTATGCACTC
130 AACACTCATAGTCTTGGTTTGCTCACAACGATTAATATTTGCTTAGTAAGTCAATTTATGCACTC
* *
19473369 TCCAATAGAGGAACATGAAGAAGCAGTGTTTCGGATTCTGAGATACTTGAAGAGTTCATTTAGCA
195 TCCAATGGAGGAACATGAAGAAGCAGTGTTTCGGATTCTGAGATACTTGAAGAGTTCACTTAGCA
19473434 AGGGCTTATTCTTTAAAAAATTCGAACAAAGAGGAATTTAAGCTTATACAGATGCAGATTGGGCA
260 AGGGCTTATTCTTTAAAAAATTCGAACAAAGAGGAATTTAAGCTTATACAGATGCAGATTGGGCA
*
19473499 GGCTCAATAACAGATAGAAGATCTATATCAGGATACTGTACATTTGTTTGGGGAAACCTTGGGAC
325 GGCTCAATAACAGATAGAAGATCTATATCAGGATACTGTACATTTGTTTGGGGAAACCTTGTGAC
* *
19473564 TTGGTAAAGCAAAAAATAAAGTGTTGTAGCAAGAAGTAGTGTAAAGGCTGAGTTTAGATCAATGG
390 TTGGCAAAGCAAAAAATAAAGTGTTGTAGCAAGAAGTAGTGTAGAGGCTGAGTTTAGATCAATGG
19473629 CTCAAGGAATTTGTGAAATGATGTGGTTAAAAAGAATTATAGAAGAGCTGAGGAAACCAATAACT
455 CTCAAGGAATTTGTGAAATGATGTGGTTAAAAAGAATTATAGAAGAGCTGAGGAAACCAATAACT
* *
19473694 TCACCAATGAAGTTGTATCATGATAGCAAAGCTGCCATGACGTTGATGAAGCCTGTC
520 TCACCAATGAAGTTGTATCGTGATAGCAAAGCTGCCATGACGTTGATGAAGCCGGTC
* * *
19473751 ATGCTCACAACGTTGCTCATGCACCTTCCCTAAGTTACATAAACACTTTCCACACTTGCAACAAA
1 ATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAACACTTTCCACACTTGCAACAAA
* * *
19473816 TTAAATGTTCACGATAATTATCTAATTCACCCCACTAAACCTTTAATATACTAAAATAAACAGCA
66 TTAAAGGTTCACGATAATTATCTAATTCATCCCACCAAACCTTTAATATACTAAAATAAACAGCA
*
19473881 ACACTCATAGTCTTGGTGTGCTCACAACGATTAATATTTGCTTAGTAAGTCAATTTATGCACTCT
131 ACACTCATAGTCTTGGTTTGCTCACAACGATTAATATTTGCTTAGTAAGTCAATTTATGCACTCT
* * *
19473946 CCAATGGAAGAACATGAAGAAGCAGTGTTTTGGATTCTGAGATACTTAAAGAGTTCACTTAGCAA
196 CCAATGGAGGAACATGAAGAAGCAGTGTTTCGGATTCTGAGATACTTGAAGAGTTCACTTAGCAA
* * * *
19474011 GGGCTTATTCTTTAAAAAA-TCGAACAAAGAGGAA-TTGA-CTTATACATATGCAAATTTGGCAG
261 GGGCTTATTCTTTAAAAAATTCGAACAAAGAGGAATTTAAGCTTATACAGATGCAGATTGGGCAG
* * * * * *
19474073 GCTTAATAACATATAAAATATCTAAATCAGGATACTGTACATTTTTTTGGGGAAACCTTGTGACT
326 GCTCAATAACAGATAGAAGATCTATATCAGGATACTGTACATTTGTTTGGGGAAACCTTGTGACT
* * *
19474138 TGGAAAAGTAAAAAATAAAGTGTTGTAGCAAGAAGTAGTGTAGAGGCTAAGTTTAGATCAATGGC
391 TGGCAAAGCAAAAAATAAAGTGTTGTAGCAAGAAGTAGTGTAGAGGCTGAGTTTAGATCAATGGC
*
19474203 TCAAGGAATTTGTGAAATGATGTGGTTAAGAAGAATTATAGAAGAGCTGAGGAAACCAATAACTT
456 TCAAGGAATTTGTGAAATGATGTGGTTAAAAAGAATTATAGAAGAGCTGAGGAAACCAATAACTT
* *
19474268 CACCAATGAAGTTGTATCGTGATAGCAAAGTTACCATGACGTTGATGAAGCCGGTC
521 CACCAATGAAGTTGTATCGTGATAGCAAAGCTGCCATGACGTTGATGAAGCCGGTC
* * * * *
19474324 ATGCTTACGACGCTGTTCATGCGCCTTCCTTAAGTTACACAAACACTTTCCACACTTACAACAAA
1 ATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAACACTTTCCACACTTGCAACAAA
*
19474389 TTAAAGGTTCACG---ATTAGCTAATTCATCCCACCAAACCTTTAATATACTAAAATAAACAGCA
66 TTAAAGGTTCACGATAATTATCTAATTCATCCCACCAAACCTTTAATATACTAAAATAAACAGCA
* * * * *
19474451 ACACTCATATTCTTGGTATGCTCACAACGATTAGTATTTGCTAAGTAAGTCAATTTATGTACTCT
131 ACACTCATAGTCTTGGTTTGCTCACAACGATTAATATTTGCTTAGTAAGTCAATTTATGCACTCT
* * * *
19474516 CTAATGGAGAAACATGAAGAAGCAGTGTTTTGGATTCTAAGATACTTGAAGAGTTCACTTAGCAA
196 CCAATGGAGGAACATGAAGAAGCAGTGTTTCGGATTCTGAGATACTTGAAGAGTTCACTTAGCAA
* *
19474581 GGTCTTATTCTTTAAAAAATTCGAACAAAAAGGAATTTAAGCTTATACA-ATGCAGATTGGGCAG
261 GGGCTTATTCTTTAAAAAATTCGAACAAAGAGGAATTTAAGCTTATACAGATGCAGATTGGGCAG
* * * * *
19474645 GCTCAATAACGGATAGGAGATCTACATCAAGATACTGTACATTTGTTT-GGGAAACCTTATGACT
326 GCTCAATAACAGATAGAAGATCTATATCAGGATACTGTACATTTGTTTGGGGAAACCTTGTGACT
19474709 TGGCAAAGCAAAAAATAAAGTGTTGTAGCAAGAAGTAGTGTAGAGGCTGAGTTTAGATCAATGGC
391 TGGCAAAGCAAAAAATAAAGTGTTGTAGCAAGAAGTAGTGTAGAGGCTGAGTTTAGATCAATGGC
* * * * * * *
19474774 TCAAGAAATTTGTGAAATGATATGGTTAAAAAGAGTTATAGAAGAGTTTAGGAAATCGATAACTG
456 TCAAGGAATTTGTGAAATGATGTGGTTAAAAAGAATTATAGAAGAGCTGAGGAAACCAATAACT-
* * *
19474839 T-ACTAATGAAGTTGTATTGTGATAGCAAAGCTGCCATGACGTTGATGAAGCCAGTC
520 TCACCAATGAAGTTGTATCGTGATAGCAAAGCTGCCATGACGTTGATGAAGCCGGTC
* * * *
19474895 ATGCTCACGACGTTGTTTATGCGCCTTTCCTAAGTTACATAAACACTTTTCACACTTGAAACAAA
1 ATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAACACTTTCCACACTTGCAACAAA
* * *
19474960 TTAAAGGTTCACGATTATTATCTAATTCATCCCACCAAAACTTTAATATACTAAAATAAATAGCA
66 TTAAAGGTTCACGATAATTATCTAATTCATCCCACCAAACCTTTAATATACTAAAATAAACAGCA
* * * *
19475025 ACACTCATATTCTAGGTTTGCTCACAATGATTAATATTTGTTTAGTAAGTCAATTTATGCACTCT
131 ACACTCATAGTCTTGGTTTGCTCACAACGATTAATATTTGCTTAGTAAGTCAATTTATGCACTCT
* *
19475090 CTAATGGAGGAACATGAAGAAGCAATGTTTCGGATTCTGAGATACTTGAAGAGTTCACTTAGCAA
196 CCAATGGAGGAACATGAAGAAGCAGTGTTTCGGATTCTGAGATACTTGAAGAGTTCACTTAGCAA
* * * * * *
19475155 GGTCTTATTCTTTGAAAAAGTCAAACAAATAGGAATTTAAGCTTATATAGATGCAGATTGGGCAG
261 GGGCTTATTCTTTAAAAAATTCGAACAAAGAGGAATTTAAGCTTATACAGATGCAGATTGGGCAG
*
19475220 GCTCAATAACAGATAGAAGATCTATATCAGGATACTATACATTTGTTTGGGGAAACCTTGTGACT
326 GCTCAATAACAGATAGAAGATCTATATCAGGATACTGTACATTTGTTTGGGGAAACCTTGTGACT
* * * *
19475285 TGGCAAAGCAAAAAATAAAGTGTTGTACCAAGAAGTAGTGTAAAGGCTGAGTTTAGATTAATAGC
391 TGGCAAAGCAAAAAATAAAGTGTTGTAGCAAGAAGTAGTGTAGAGGCTGAGTTTAGATCAATGGC
*
19475350 TCAACGAATTTGTGAAATGATGTGGTTAAAAAGAATTATAGAAGAGCTGAGGAAACCAATAACTT
456 TCAAGGAATTTGTGAAATGATGTGGTTAAAAAGAATTATAGAAGAGCTGAGGAAACCAATAACTT
*
19475415 CACCAATGAAGTTGTATCGTGATAGCAAAGCTGCCATGACGTTGATGAAGCCAGTC
521 CACCAATGAAGTTGTATCGTGATAGCAAAGCTGCCATGACGTTGATGAAGCCGGTC
* *
19475471 ATGCTCATGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAACACTTTCCACACTTGTAACAAA
1 ATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAACACTTTCCACACTTGCAACAAA
* *
19475536 TTAAAGTTTCACGATAATTATCTAATTAATCCCACCAAACCTTTAATATACTAAAATAAACAGCA
66 TTAAAGGTTCACGATAATTATCTAATTCATCCCACCAAACCTTTAATATACTAAAATAAACAGCA
* * *
19475601 ACACTGATAGTCTTGGTTTGCTCACAATGATTAATATTTGCTTAGTAAGTCAATTTATGTACTCT
131 ACACTCATAGTCTTGGTTTGCTCACAACGATTAATATTTGCTTAGTAAGTCAATTTATGCACTCT
* * * * *
19475666 CCAAAGGAGGAACATGAAGAAGCAGTGCTTCAGATTCTGAGATACTTGAAGAGTTCAGTTAGCAG
196 CCAATGGAGGAACATGAAGAAGCAGTGTTTCGGATTCTGAGATACTTGAAGAGTTCACTTAGCAA
* *
19475731 GGGCTTATTCTTTAAAAAATTGGAACAAAGAGGAATTTAAGCTTATACAGATGCAAATTGGGCAG
261 GGGCTTATTCTTTAAAAAATTCGAACAAAGAGGAATTTAAGCTTATACAGATGCAGATT--G--G
* * * *
19475796 GCAGGCTCAATAATAAATAGAAGATCTATATCAAGATACTGTACATTTGTTTGGGGAAACCTTAT
322 GCAGGCTCAATAACAGATAGAAGATCTATATCAGGATACTGTACATTTGTTTGGGGAAACCTTGT
*
19475861 GACTTGGCAAAGCAAAAAATAAAGTGTTGTAGCAAGAAGTAGTGTAGAGGCCGAGTTTAGATCAA
387 GACTTGGCAAAGCAAAAAATAAAGTGTTGTAGCAAGAAGTAGTGTAGAGGCTGAGTTTAGATCAA
** *
19475926 CAGCTTAAGGAATTTGTGAAATGATGTGGTTAAAAAGAATTATAGAAGAGCTGAGGAAACCAATA
452 TGGCTCAAGGAATTTGTGAAATGATGTGGTTAAAAAGAATTATAGAAGAGCTGAGGAAACCAATA
*
19475991 ACTTCACCAATGAAGTTGTATCGTGATAGCAAAGCTACCATGACGTTGATGAAGCCGGTC
517 ACTTCACCAATGAAGTTGTATCGTGATAGCAAAGCTGCCATGACGTTGATGAAGCCGGTC
* ** * *
19476051 AGGCTCACGACGTTGTTCATGCGCCTTCTTTAAGTTACATAAACACTTTCCACAGTTGCAACACA
1 ATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAACACTTTCCACACTTGCAACAAA
* * *
19476116 TTAAAGGTTCACGATAATTA-CGTAATTCATCCCACTAAACCTTTAATTTACTAAAATAAATAGC
66 TTAAAGGTTCACGATAATTATC-TAATTCATCCCACCAAACCTTTAATATACTAAAATAAACAGC
* * *
19476180 AACACTAATAGTCTTAGTTTGCTCACAACGATTAATATTTGCTTCGTAAGTCAATTTATGCACTC
130 AACACTCATAGTCTTGGTTTGCTCACAACGATTAATATTTGCTTAGTAAGTCAATTTATGCACTC
** *
19476245 TCCAATGGAGGAACATGAAGAAATAGTGTTTTGGATTCTGAGATACTTGAAGAGTTCACTTAGCA
195 TCCAATGGAGGAACATGAAGAAGCAGTGTTTCGGATTCTGAGATACTTGAAGAGTTCACTTAGCA
* *
19476310 AGGTCTTATTCTTTAAAAAAATT-GAACAAAGAGGAATTGAAGCTTATACAGATGCAGATTGGGC
260 AGGGCTTATTCTTT-AAAAAATTCGAACAAAGAGGAATTTAAGCTTATACAGATGCAGATT--G-
19476374 AGGCAGGCTCAATAACAGATAGAAGATCTATATCAGGATACTGTACATTTGTTTGGGGAAACCTT
321 -GGCAGGCTCAATAACAGATAGAAGATCTATATCAGGATACTGTACATTTGTTTGGGGAAACCTT
* *
19476439 GTAACTTGGCAAAAGCAAAAAATGAAGTGTTGTAGCAAGAAGTAGTGTAGAGGCTGAGTTTAGAT
385 GTGACTTGGC-AAAGCAAAAAATAAAGTGTTGTAGCAAGAAGTAGTGTAGAGGCTGAGTTTAGAT
*
19476504 CAATGGCTCAACGAATTTGTGAAATGATGTGGTTAAAAAGAATTATAGAAGAGCTGAGGAAACCA
449 CAATGGCTCAAGGAATTTGTGAAATGATGTGGTTAAAAAGAATTATAGAAGAGCTGAGGAAACCA
*
19476569 ATAACTTCACCAATGAAGTTGTATCGTGATAGCAAAGGTGCCATGACGTTGATGAAGCCGGTC
514 ATAACTTCACCAATGAAGTTGTATCGTGATAGCAAAGCTGCCATGACGTTGATGAAGCCGGTC
19476632 ATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAACACTTTCCACACTTGCAACAAA
1 ATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAACACTTTCCACACTTGCAACAAA
19476697 TTAAAGGTTCACG---ATTATCTAATTCATCCCACCAAACCTTTAATATACTAAAATAAACAGCA
66 TTAAAGGTTCACGATAATTATCTAATTCATCCCACCAAACCTTTAATATACTAAAATAAACAGCA
* * *
19476759 ACACTCATAGTCTTGGTGTGCTCACAACAATTAGTATTTGCTT
131 ACACTCATAGTCTTGGTTTGCTCACAACGATTAATATTTGCTT
19476802 TTAATTGTTG
Statistics
Matches: 2798, Mismatches: 234, Indels: 36
0.91 0.08 0.01
Matches are distributed among these distances:
570 184 0.07
571 266 0.10
572 56 0.02
573 333 0.12
574 212 0.08
575 77 0.03
576 734 0.26
578 83 0.03
579 2 0.00
580 596 0.21
581 255 0.09
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (576 bp):
ATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAACACTTTCCACACTTGCAACAAA
TTAAAGGTTCACGATAATTATCTAATTCATCCCACCAAACCTTTAATATACTAAAATAAACAGCA
ACACTCATAGTCTTGGTTTGCTCACAACGATTAATATTTGCTTAGTAAGTCAATTTATGCACTCT
CCAATGGAGGAACATGAAGAAGCAGTGTTTCGGATTCTGAGATACTTGAAGAGTTCACTTAGCAA
GGGCTTATTCTTTAAAAAATTCGAACAAAGAGGAATTTAAGCTTATACAGATGCAGATTGGGCAG
GCTCAATAACAGATAGAAGATCTATATCAGGATACTGTACATTTGTTTGGGGAAACCTTGTGACT
TGGCAAAGCAAAAAATAAAGTGTTGTAGCAAGAAGTAGTGTAGAGGCTGAGTTTAGATCAATGGC
TCAAGGAATTTGTGAAATGATGTGGTTAAAAAGAATTATAGAAGAGCTGAGGAAACCAATAACTT
CACCAATGAAGTTGTATCGTGATAGCAAAGCTGCCATGACGTTGATGAAGCCGGTC
Found at i:19478032 original size:23 final size:24
Alignment explanation
Indices: 19477998--19478045 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
19477988 GGTTTTCAAC
19477998 ATTTCAATCTTTT-ACACTAACAT
1 ATTTCAATCTTTTAACACTAACAT
19478021 ATTT-AATACTTTTAGACACTAACAT
1 ATTTCAAT-CTTTTA-ACACTAACAT
19478046 TTTGATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 3 0.14
23 9 0.41
25 10 0.45
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.42
Consensus pattern (24 bp):
ATTTCAATCTTTTAACACTAACAT
Found at i:19482321 original size:25 final size:25
Alignment explanation
Indices: 19482293--19482344 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
19482283 TAGGGGCAAA
*
19482293 GTGGCAACACAAGTGTGGTAAGGAG
1 GTGGCAACACAAGTGTGGTAAGAAG
** *
19482318 GTGGCGTCACAGGTGTGGTAAGAAG
1 GTGGCAACACAAGTGTGGTAAGAAG
19482343 GT
1 GT
19482345 CAGATGTTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.12, G:0.42, T:0.19
Consensus pattern (25 bp):
GTGGCAACACAAGTGTGGTAAGAAG
Found at i:19483777 original size:23 final size:23
Alignment explanation
Indices: 19483741--19483784 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
19483731 GTGGGCCCTG
*
19483741 TAATATCCCAAAAATTACTACTA
1 TAATACCCCAAAAATTACTACTA
*
19483764 TAATACCCCGAAAATTACTAC
1 TAATACCCCAAAAATTACTAC
19483785 AGTAAGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.27
Consensus pattern (23 bp):
TAATACCCCAAAAATTACTACTA
Found at i:19486273 original size:27 final size:27
Alignment explanation
Indices: 19486174--19486260 Score: 140
Period size: 27 Copynumber: 3.3 Consensus size: 27
19486164 AAAAGGTTGT
*
19486174 TAAAATGACCGAAATA-CCCCATAGGG
1 TAAAATGACCAAAATACCCCCATAGGG
* *
19486200 TAAAATAACCAAAATACCCTCATAGGG
1 TAAAATGACCAAAATACCCCCATAGGG
19486227 TAAAATGACCAAAATACCCCCATAGGG
1 TAAAATGACCAAAATACCCCCATAGGG
19486254 TAAAATG
1 TAAAATG
19486261 GCTGTTATAC
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 14 0.25
27 41 0.75
ACGTcount: A:0.46, C:0.22, G:0.15, T:0.17
Consensus pattern (27 bp):
TAAAATGACCAAAATACCCCCATAGGG
Found at i:19495067 original size:16 final size:16
Alignment explanation
Indices: 19495046--19495078 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
19495036 TGAGAAATTG
19495046 ATGCTCAAAGTAAGCT
1 ATGCTCAAAGTAAGCT
19495062 ATGCTCAAAGTAAGCT
1 ATGCTCAAAGTAAGCT
19495078 A
1 A
19495079 CTTGGATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (16 bp):
ATGCTCAAAGTAAGCT
Found at i:19495880 original size:329 final size:329
Alignment explanation
Indices: 19495273--19495935 Score: 1263
Period size: 329 Copynumber: 2.0 Consensus size: 329
19495263 GTGGGCAACA
*
19495273 TGAAATGTCTGGACCGGTCGGACACAAATGGGACTACAGATATTTTAGCCCAACACGAATTTATT
1 TGAAATGTCTGGACCGGTCGGACACAAATGGGACTACAAATATTTTAGCCCAACACGAATTTATT
19495338 TTCCTCAGTAGAAAAAATTTGCTTATATATGAAAACTTATCCTATTGAATTGATTCCAATAAATC
66 TTCCTCAGTAGAAAAAATTTGCTTATATATGAAAACTTATCCTATTGAATTGATTCCAATAAATC
19495403 TATTTAAATATTTGATTTAATGACAAATTTTGGGGCTATTTTTCCATAATTACAACACTCTCCAT
131 TATTTAAATATTTGATTTAATGACAAATTTTGGGGCTATTTTTCCATAATTACAACACTCTCCAT
19495468 GCCTATAAAAGGCCATGATTCTGAATGGTTTTTTGGTACACTTTCATACTTTCTAAGAATTTCTC
196 GCCTATAAAAGGCCATGATTCTGAATGGTTTTTTGGTACACTTTCATACTTTCTAAGAATTTCTC
* *
19495533 TTACCGAAATTTTGTTATTCTAAAAAATCTCCTTTTCCATCTTTCGTGTTTTCTAAATATTCCGA
261 TTACCAAAATTCTGTTATTCTAAAAAATCTCCTTTTCCATCTTTCGTGTTTTCTAAATATTCCGA
19495598 TGAT
326 TGAT
* *
19495602 TGAAATGTCTGGACCGGTCGGACACAAATGGGCCTGCAAATATTTTAGCCCAACACGAATTTATT
1 TGAAATGTCTGGACCGGTCGGACACAAATGGGACTACAAATATTTTAGCCCAACACGAATTTATT
*
19495667 TTCCTCAGTAGAAAAAATTTGCTTATATATGAAAACTTATCTTATTGAATTGATTCCAATAAATC
66 TTCCTCAGTAGAAAAAATTTGCTTATATATGAAAACTTATCCTATTGAATTGATTCCAATAAATC
19495732 TATTTAAATATTTGATTTAATGACAAATTTTGGGGCTATTTTTCCATAATTACAACACTCTCCAT
131 TATTTAAATATTTGATTTAATGACAAATTTTGGGGCTATTTTTCCATAATTACAACACTCTCCAT
19495797 GCCTATAAAAGGCCATGATTCTGAATGGTTTTTTGGTACACTTTCATACTTTCTAAGAATTTCTC
196 GCCTATAAAAGGCCATGATTCTGAATGGTTTTTTGGTACACTTTCATACTTTCTAAGAATTTCTC
19495862 TTACCAAAATTCTGTTATTCTAAAAAATCTCCTTTTCCATCTTTCGTGTTTTCTAAATATTCCGA
261 TTACCAAAATTCTGTTATTCTAAAAAATCTCCTTTTCCATCTTTCGTGTTTTCTAAATATTCCGA
19495927 TGAT
326 TGAT
*
19495931 AGAAA
1 TGAAA
19495936 AAGACATTGT
Statistics
Matches: 327, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
329 327 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (329 bp):
TGAAATGTCTGGACCGGTCGGACACAAATGGGACTACAAATATTTTAGCCCAACACGAATTTATT
TTCCTCAGTAGAAAAAATTTGCTTATATATGAAAACTTATCCTATTGAATTGATTCCAATAAATC
TATTTAAATATTTGATTTAATGACAAATTTTGGGGCTATTTTTCCATAATTACAACACTCTCCAT
GCCTATAAAAGGCCATGATTCTGAATGGTTTTTTGGTACACTTTCATACTTTCTAAGAATTTCTC
TTACCAAAATTCTGTTATTCTAAAAAATCTCCTTTTCCATCTTTCGTGTTTTCTAAATATTCCGA
TGAT
Found at i:19500014 original size:78 final size:78
Alignment explanation
Indices: 19499816--19500169 Score: 385
Period size: 78 Copynumber: 4.6 Consensus size: 78
19499806 GGGAAATTAA
* *
19499816 AAGT-AAAT-AAAATCATTTCAGGATTGATTCCC-ACGTTCAACGATTTTATTCCAAATTTGTTT
1 AAGTAAAATAAAAATCATTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTT
*
19499878 TA-TTCAAAAAAC
66 TATTTCCAAAAAC
* ** ** * * *
19499890 AAGTAAAATAAAAAAAATTATTTCGATATTGATTCCCGTTGTTCAACGATTTTATTTCAAAATTC
1 AAGTAAAAT---AAAAATCATTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTG
**
19499955 TTTTATTTTTAAAAAC
63 TTTTATTTCCAAAAAC
* *
19499971 GAGTAAAATAAAAATCGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTT
1 AAGTAAAATAAAAATCATTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTT
*
19500036 TATTTCCAAAAAT
66 TATTTCCAAAAAC
* * * ** * *
19500049 GAGTAAAATAAAAATCATTTCTGGATTGGTTCCCTTCATTCAACGATTTCATTCCAAATTTGTTT
1 AAGTAAAATAAAAATCATTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTT
19500114 TATTTCCAAAAAC
66 TATTTCCAAAAAC
* * * * *
19500127 AAGTAACAT-AGAATCCTTTTCGGGATTGATTGCCACCGTTCAA
1 AAGTAAAATAAAAAT-CATTTCGGGATTGATTCCCGCCGTTCAA
19500170 TGGATTTATT
Statistics
Matches: 230, Mismatches: 42, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
74 4 0.02
75 4 0.02
77 4 0.02
78 155 0.67
79 20 0.09
80 27 0.12
81 16 0.07
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (78 bp):
AAGTAAAATAAAAATCATTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTT
TATTTCCAAAAAC
Found at i:19500300 original size:84 final size:84
Alignment explanation
Indices: 19500212--19500372 Score: 252
Period size: 84 Copynumber: 1.9 Consensus size: 84
19500202 AACGAGAAAT
* * *
19500212 TAAA-TATAGTAAAATCTATCTCGGGATTTATTCCTGCTGTTTAACAAGATTTTATTTGATTTTA
1 TAAATTATA-TAAAATCTATCTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTCGATTTTA
19500276 TGTTGTTTCCAAATTCAAAC
65 TGTTGTTTCCAAATTCAAAC
* *
19500296 TAAATTATATAAAATCTATTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTCGATTTTGT
1 TAAATTATATAAAATCTATCTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTCGATTTTAT
*
19500361 TTTGTTTCCAAA
66 GTTGTTTCCAAA
19500373 CAAAGATGTA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
84 66 0.94
85 4 0.06
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.45
Consensus pattern (84 bp):
TAAATTATATAAAATCTATCTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTCGATTTTAT
GTTGTTTCCAAATTCAAAC
Found at i:19509966 original size:7 final size:7
Alignment explanation
Indices: 19509956--19509982 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
19509946 GAGATGAGAA
19509956 GGATGAG
1 GGATGAG
19509963 GGATGAG
1 GGATGAG
19509970 GGATGAG
1 GGATGAG
19509977 GGATGA
1 GGATGA
19509983 TTGAAAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.56, T:0.15
Consensus pattern (7 bp):
GGATGAG
Found at i:19515817 original size:10 final size:10
Alignment explanation
Indices: 19515802--19515866 Score: 77
Period size: 10 Copynumber: 6.9 Consensus size: 10
19515792 TATATTTTCT
19515802 TTATATATTA
1 TTATATATTA
19515812 -T-TATATTA
1 TTATATATTA
*
19515820 TTA-ACATTA
1 TTATATATTA
19515829 TT-TATA-TA
1 TTATATATTA
19515837 TTATTATATTA
1 TTA-TATATTA
19515848 TTATATATTA
1 TTATATATTA
19515858 TTATATATT
1 TTATATATT
19515867 TAAATTTATA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
8 11 0.23
9 11 0.23
10 20 0.43
11 5 0.11
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (10 bp):
TTATATATTA
Found at i:19515832 original size:28 final size:29
Alignment explanation
Indices: 19515801--19515866 Score: 109
Period size: 28 Copynumber: 2.3 Consensus size: 29
19515791 ATATATTTTC
19515801 TTTATATATTATTATATTATTA-ACATTA
1 TTTATATATTATTATATTATTATACATTA
*
19515829 TTTATATATTATTATATTATTATATATTA
1 TTTATATATTATTATATTATTATACATTA
19515858 -TTATATATT
1 TTTATATATT
19515867 TAAATTTATA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 31 0.86
29 5 0.14
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (29 bp):
TTTATATATTATTATATTATTATACATTA
Found at i:19515863 original size:8 final size:8
Alignment explanation
Indices: 19515805--19515858 Score: 64
Period size: 8 Copynumber: 7.4 Consensus size: 8
19515795 ATTTTCTTTA
19515805 TATATTAT
1 TATATTAT
19515813 TATATTAT
1 TATATTAT
*
19515821 TA-A-CAT
1 TATATTAT
19515827 TAT-TTA-
1 TATATTAT
19515833 TATATTAT
1 TATATTAT
19515841 TATATTAT
1 TATATTAT
19515849 TATA-TAT
1 TATATTAT
19515856 TAT
1 TAT
19515859 TATATATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
6 7 0.17
7 11 0.28
8 22 0.55
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (8 bp):
TATATTAT
Found at i:19516056 original size:21 final size:21
Alignment explanation
Indices: 19516016--19516054 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
19516006 AAATCATGGA
19516016 TAAATCCAAGCGATTCTTTCT
1 TAAATCCAAGCGATTCTTTCT
19516037 TAAATCCAAGCGA-TCTTT
1 TAAATCCAAGCGATTCTTT
19516055 TCATAGGCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (21 bp):
TAAATCCAAGCGATTCTTTCT
Found at i:19517995 original size:15 final size:15
Alignment explanation
Indices: 19517975--19518011 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
19517965 AAGAAGAAAG
19517975 ATTAAATCAATCTTA
1 ATTAAATCAATCTTA
**
19517990 ATTAAATTGATCTTA
1 ATTAAATCAATCTTA
19518005 ATTAAAT
1 ATTAAAT
19518012 TGTGGATTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (15 bp):
ATTAAATCAATCTTA
Found at i:19518012 original size:15 final size:15
Alignment explanation
Indices: 19517984--19518013 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
19517974 GATTAAATCA
19517984 ATCTTAATTAAATTG
1 ATCTTAATTAAATTG
19517999 ATCTTAATTAAATTG
1 ATCTTAATTAAATTG
19518014 TGGATTGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (15 bp):
ATCTTAATTAAATTG
Found at i:19523031 original size:559 final size:560
Alignment explanation
Indices: 19521969--19523057 Score: 1620
Period size: 559 Copynumber: 1.9 Consensus size: 560
19521959 TATTTTTAAG
19521969 CTATAAAGTGGGTCATGCATGATTAAATTAAATAATAAAAATATAAAGTTATATTTAATAATTCA
1 CTATAAAGTGGGTCATGCATGATTAAATTAAATAATAAAAATATAAAGTTATATTTAATAATTCA
* * *
19522034 TTTTTAATATTTCATTACTAAATTGAGTTTTAATTAATTAAATAAATAAATTAATTAAAGTGGTT
66 TTTTAAATATTTCATTAATAAATTGAGGTTTAATTAATTAAATAAATAAATTAATTAAAGTGGTT
*
19522099 AAATTCTATTATTTGGTCCTCTAAACTATCTACTATTTTTTGACAGGGCTAAGAGTTTTCTTCTA
131 AAATTCAATTATTTGGTCCTCTAAACTATCTACTATTTTTTGACAGGGCTAAGAGTTTTCTTCTA
* * * * *
19522164 ATTGCAAAACCGTCCAAATTGGGGACCAATTCAACCCAATTTTTGGCTGCACGTGGATGTCATAA
196 ATTGCAAAACCGTCCAAAGTGGGGACCAAGTCAAACCAATTTTCGGCTGCACATGGATGTCATAA
* *
19522229 ACCATTTTTTTGGTTTAATTATATAAAGTACTTGAAGAGTTAAAGAAATCAGAGATTTTCTCGAA
261 ACCATTTTTTTGGTTTAATTACATAAAGCACTTGAAGAGTTAAAGAAATCAGAGATTTTCTCGAA
* * * *
19522294 GATTTACTGATGACCGATTTAGTGCTGAGTTGTTGTGACACTCAAATTGACCAAAAATCAAGGAA
326 GATTTACTGATGACCGATTTAATCCTGAGTTGTTGTGACACTCAAATTGAACAAAAATCAAGAAA
* * *
19522359 AAATCAGCCACCTTTCCTCAATTCATGGCCGGCCACTCTTGGAGGAAGTTTCAAAGGATGGACAC
391 AAATCAGCCACATTTCCTCAATTCATGGCCGACCACTCTTGGAGGAAGTTTCAAAGGATAGACAC
*
19522424 TCCTATTTTTAGCAAACTAGCTCCCTTGCCTCACCAATAAATAAGAGCTCATTTCTCACTTTTTC
456 TCCTAATTTTAGCAAACTAGCTCCCTTGCCTCACCAATAAATAAGAGCTCATTTCTCACTTTTTC
19522489 -ATCATCCCTCATCTCATCATCTCTCACTCATTCATCATT
521 AATCATCCCTCATCTCATCATCTCTCACTCATTCATCATT
* **
19522528 CTATGAAGTGGGTCATGCATGATTAAATTAAATAAT-AAAATATAATTTTATATTTTAATAATTC
1 CTATAAAGTGGGTCATGCATGATTAAATTAAATAATAAAAATATAAAGTTATA-TTTAATAATTC
* **
19522592 ATTTTAAATATTTCATTAATAAAATT-AGGTTTAATTAATTAAGTAAATTGATTAATTAAAGTGG
65 ATTTTAAATATTTCATTAAT-AAATTGAGGTTTAATTAATTAAATAAATAAATTAATTAAAGTGG
** * * *
19522656 TTAAATT-AATTCATTTGGTCCTCTAAACTATCTGTTATTTTTT-ATAGGTCTGAGAGTTTT-TT
129 TTAAATTCAATT-ATTTGGTCCTCTAAACTATCTACTATTTTTTGACAGGGCTAAGAGTTTTCTT
* *** *
19522718 CTAATTGTAAAACCGTCCAAAGTGGGGACCAAGTCAAACCAATTTTCGGCTGCACATTTCTGATT
193 CTAATTGCAAAACCGTCCAAAGTGGGGACCAAGTCAAACCAATTTTCGGCTGCACATGGATG-TC
* * * *
19522783 ATAAACCA-TTTTTTGGTTTAATTACATAAGGCCCTTGAAGAGTTAAAGAAATCATATATTTATC
257 ATAAACCATTTTTTTGGTTTAATTACATAAAGCACTTGAAGAGTTAAAGAAATCAGAGATTT-TC
* * *
19522847 T-GAAGATTTGCTGGA-GACCGAGTCTTAATCCTGAGTTGTTGTGGCATTCAAATTGAACAAAAA
321 TCGAAGATTTACT-GATGACCGA-T-TTAATCCTGAGTTGTTGTGACACTCAAATTGAACAAAAA
* *
19522910 TCAAGAAAAAATTAGCCACATTTCCTCAATTCATGGCCGACCACTCTTGGAGGAGGTTTCAAAGG
383 TCAAGAAAAAATCAGCCACATTTCCTCAATTCATGGCCGACCACTCTTGGAGGAAGTTTCAAAGG
* * *
19522975 ATAGACACTCCTAATTTTAGCAAGCTAGTTCCCTTGCCTCACCTATAAATAAGAGCTCATTTCTC
448 ATAGACACTCCTAATTTTAGCAAACTAGCTCCCTTGCCTCACCAATAAATAAGAGCTCATTTCTC
19523040 ACTTTTTCAATCATCCCT
513 ACTTTTTCAATCATCCCT
19523058 AATCCCTCAT
Statistics
Matches: 474, Mismatches: 47, Indels: 17
0.88 0.09 0.03
Matches are distributed among these distances:
557 118 0.25
558 46 0.10
559 296 0.62
560 14 0.03
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (560 bp):
CTATAAAGTGGGTCATGCATGATTAAATTAAATAATAAAAATATAAAGTTATATTTAATAATTCA
TTTTAAATATTTCATTAATAAATTGAGGTTTAATTAATTAAATAAATAAATTAATTAAAGTGGTT
AAATTCAATTATTTGGTCCTCTAAACTATCTACTATTTTTTGACAGGGCTAAGAGTTTTCTTCTA
ATTGCAAAACCGTCCAAAGTGGGGACCAAGTCAAACCAATTTTCGGCTGCACATGGATGTCATAA
ACCATTTTTTTGGTTTAATTACATAAAGCACTTGAAGAGTTAAAGAAATCAGAGATTTTCTCGAA
GATTTACTGATGACCGATTTAATCCTGAGTTGTTGTGACACTCAAATTGAACAAAAATCAAGAAA
AAATCAGCCACATTTCCTCAATTCATGGCCGACCACTCTTGGAGGAAGTTTCAAAGGATAGACAC
TCCTAATTTTAGCAAACTAGCTCCCTTGCCTCACCAATAAATAAGAGCTCATTTCTCACTTTTTC
AATCATCCCTCATCTCATCATCTCTCACTCATTCATCATT
Found at i:19523064 original size:7 final size:7
Alignment explanation
Indices: 19523050--19523092 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
19523040 ACTTTTTCAA
19523050 TCATCCC
1 TCATCCC
*
19523057 TAATCCC
1 TCATCCC
19523064 TCATCCC
1 TCATCCC
19523071 TCATCCTTC
1 TCATCC--C
*
19523080 TCATCTC
1 TCATCCC
19523087 TCATCC
1 TCATCC
19523093 TCTCTCTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
7 24 0.80
9 6 0.20
ACGTcount: A:0.16, C:0.49, G:0.00, T:0.35
Consensus pattern (7 bp):
TCATCCC
Found at i:19523084 original size:16 final size:16
Alignment explanation
Indices: 19523050--19523098 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
19523040 ACTTTTTCAA
*
19523050 TCATCCCTAATCC--C
1 TCATCCCTCATCCTTC
19523064 TCATCCCTCATCCTTC
1 TCATCCCTCATCCTTC
*
19523080 TCATCTCTCATCCTCTC
1 TCATCCCTCATCCT-TC
19523097 TC
1 TC
19523099 TCAACTCTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 12 0.40
16 14 0.47
17 4 0.13
ACGTcount: A:0.14, C:0.49, G:0.00, T:0.37
Consensus pattern (16 bp):
TCATCCCTCATCCTTC
Found at i:19532266 original size:15 final size:15
Alignment explanation
Indices: 19532248--19532287 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
19532238 TTCTCACTTT
19532248 TTCAATCATCCCTCA
1 TTCAATCATCCCTCA
*
19532263 TTCAATCATCTCTCA
1 TTCAATCATCCCTCA
* *
19532278 CTCATTCATC
1 TTCAATCATC
19532288 ATTCTCTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.25, C:0.38, G:0.00, T:0.38
Consensus pattern (15 bp):
TTCAATCATCCCTCA
Found at i:19532281 original size:19 final size:19
Alignment explanation
Indices: 19532259--19532296 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
19532249 TCAATCATCC
19532259 CTCATTCAATCA-TCTCTCA
1 CTCATTC-ATCATTCTCTCA
19532278 CTCATTCATCATTCTCTCA
1 CTCATTCATCATTCTCTCA
19532297 ACTCTTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.24, C:0.37, G:0.00, T:0.39
Consensus pattern (19 bp):
CTCATTCATCATTCTCTCA
Found at i:19533525 original size:35 final size:35
Alignment explanation
Indices: 19533479--19533629 Score: 214
Period size: 35 Copynumber: 4.3 Consensus size: 35
19533469 GATAATCCAA
* *
19533479 CTCATAAGAGCTAATCCATCCGGAACACATCAATG
1 CTCATAAGAGCTAATCCATCCGAAACACACCAATG
19533514 CTCATAAGAGCTAATCCATCCGAAACACACCAATG
1 CTCATAAGAGCTAATCCATCCGAAACACACCAATG
*
19533549 CTCATAAGAGCTAATCCATCCGAAACACACCAACG
1 CTCATAAGAGCTAATCCATCCGAAACACACCAATG
* * * * *
19533584 CTTATAAAAG-TTATCCATCCGAAACAGATCAATG
1 CTCATAAGAGCTAATCCATCCGAAACACACCAATG
*
19533618 CTCATCAGAGCT
1 CTCATAAGAGCT
19533630 TAACATGAGA
Statistics
Matches: 103, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
34 27 0.26
35 76 0.74
ACGTcount: A:0.38, C:0.29, G:0.13, T:0.20
Consensus pattern (35 bp):
CTCATAAGAGCTAATCCATCCGAAACACACCAATG
Found at i:19546756 original size:27 final size:27
Alignment explanation
Indices: 19546729--19547002 Score: 248
Period size: 27 Copynumber: 10.0 Consensus size: 27
19546719 TATCCCCTTT
* *
19546729 ATAGATCACCACGAAGGCTTCCTTTTT
1 ATAGATCACCACAAAGGCTTCCTTTTC
*
19546756 ATAGATCACCACAAAGGCTTCCTTTTT
1 ATAGATCACCACAAAGGCTTCCTTTTC
* * * * *
19546783 AGAGATCGCCACAAATGTTTCCTATTC
1 ATAGATCACCACAAAGGCTTCCTTTTC
* *
19546810 ATAGATCGCTACAAAGGCTTCCTTTTC
1 ATAGATCACCACAAAGGCTTCCTTTTC
* *
19546837 ATAGATAGCCACACCACAAAGGCTTTCTTTTT
1 ATAGAT-----CACCACAAAGGCTTCCTTTTC
* * *
19546869 ATAGATCGCCACAAATGCTTTCTTTTC
1 ATAGATCACCACAAAGGCTTCCTTTTC
* *
19546896 ATTGAT-AGCTACAAAGGCTTCCTTTTC
1 ATAGATCA-CCACAAAGGCTTCCTTTTC
*
19546923 ATAGATCGCCACAAAGGCTTCCTTTTC
1 ATAGATCACCACAAAGGCTTCCTTTTC
* * *
19546950 ATTGAT-AGCCACAAATGATTCC-TTTC
1 ATAGATCA-CCACAAAGGCTTCCTTTTC
* *
19546976 AATAGATCACCATAAAGGCTTTCTTTT
1 -ATAGATCACCACAAAGGCTTCCTTTT
19547003 ATGATGTATT
Statistics
Matches: 200, Mismatches: 36, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
26 4 0.02
27 169 0.85
28 4 0.02
32 23 0.12
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (27 bp):
ATAGATCACCACAAAGGCTTCCTTTTC
Found at i:19546880 original size:86 final size:80
Alignment explanation
Indices: 19546724--19547002 Score: 317
Period size: 81 Copynumber: 3.4 Consensus size: 80
19546714 AAAGGTATCC
* * * * *
19546724 CCTTT-ATAGATCACCACGAAGGCTTCCTTTTTATAGATCACCACAAAGGCTTCCTTTTTAGAGA
1 CCTTTCATAGATCGCTACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCCTTTTTATAGA
19546788 TCGCCACAAATGTTT
66 TCGCCACAAATGTTT
*
19546803 CCTATTCATAGATCGCTACAAAGGCTTCCTTTTCATAGATAGCCACACCACAAAGGCTTTCTTTT
1 CCT-TTCATAGATCGCTACAAAGGCTTCCTTTTCATAGAT-----CACCACAAAGGCTTCCTTTT
19546868 TATAGATCGCCACAAATGCTTT
60 TATAGATCGCCACAAATG-TTT
* * * * * *
19546890 CTTTTCATTGATAGCTACAAAGGCTTCCTTTTCATAGATCGCCACAAAGGCTTCCTTTTCATTGA
1 CCTTTCATAGATCGCTACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCCTTTTTATAGA
* *
19546955 TAGCCACAAATGATT
66 TCGCCACAAATGTTT
* * * *
19546970 CCTTTCAATAGATCACCATAAAGGCTTTCTTTT
1 CCTTTC-ATAGATCGCTACAAAGGCTTCCTTTT
19547003 ATGATGTATT
Statistics
Matches: 169, Mismatches: 22, Indels: 16
0.82 0.11 0.08
Matches are distributed among these distances:
79 3 0.02
80 9 0.05
81 82 0.49
86 70 0.41
87 5 0.03
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (80 bp):
CCTTTCATAGATCGCTACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCCTTTTTATAGA
TCGCCACAAATGTTT
Found at i:19546937 original size:113 final size:113
Alignment explanation
Indices: 19546735--19546962 Score: 321
Period size: 113 Copynumber: 2.0 Consensus size: 113
19546725 CTTTATAGAT
* * * *
19546735 CACCACGAAGGCTTCCTTTTTATAGATCACCACAAAGGCTTCCTTTTTAGAGATCGCCACAAATG
1 CACCACAAAGGCTTCCTTTTTATAGATCACCACAAAGGCTTCCTTTTCAGAGATAGCCACAAAGG
* *
19546800 TTTCCTATTCATAGATCGCTACAAAGGCTTCCTTTTCATAGATAGCCA
66 CTTCCTATTCATAGATCGCCACAAAGGCTTCCTTTTCATAGATAGCCA
* * * * ** *
19546848 CACCACAAAGGCTTTCTTTTTATAGATCGCCACAAATGCTTTCTTTTCATTGATAGCTACAAAGG
1 CACCACAAAGGCTTCCTTTTTATAGATCACCACAAAGGCTTCCTTTTCAGAGATAGCCACAAAGG
* *
19546913 CTTCCTTTTCATAGATCGCCACAAAGGCTTCCTTTTCATTGATAGCCA
66 CTTCCTATTCATAGATCGCCACAAAGGCTTCCTTTTCATAGATAGCCA
19546961 CA
1 CA
19546963 AATGATTCCT
Statistics
Matches: 100, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
113 100 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (113 bp):
CACCACAAAGGCTTCCTTTTTATAGATCACCACAAAGGCTTCCTTTTCAGAGATAGCCACAAAGG
CTTCCTATTCATAGATCGCCACAAAGGCTTCCTTTTCATAGATAGCCA
Found at i:19555880 original size:20 final size:20
Alignment explanation
Indices: 19555845--19555893 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
19555835 TATCATTTCT
*
19555845 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
19555864 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
19555884 TTGCTTACTT
1 TTGCTTACTT
19555894 AAATAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:19556222 original size:50 final size:49
Alignment explanation
Indices: 19556159--19556280 Score: 127
Period size: 49 Copynumber: 2.4 Consensus size: 49
19556149 GATGCCATAT
* ** * * *
19556159 CCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCTATGC
1 CCCAGACATGGTCTTAC-TGGGACCTCTCATATCGGTGCCAACGCCATGC
* * * *
19556209 CCCAGACATGGTCTTACGGGGACCTCTCATCTCGGTGCTAACGCCATGT
1 CCCAGACATGGTCTTACTGGGACCTCTCATATCGGTGCCAACGCCATGC
*
19556258 CCCAAACATGGTCTTACTTGGGA
1 CCCAGACATGGTCTTAC-TGGGA
19556281 TCTCATTCCC
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
49 39 0.66
50 20 0.34
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (49 bp):
CCCAGACATGGTCTTACTGGGACCTCTCATATCGGTGCCAACGCCATGC
Found at i:19559385 original size:30 final size:30
Alignment explanation
Indices: 19559349--19559547 Score: 114
Period size: 30 Copynumber: 6.7 Consensus size: 30
19559339 TGGTTGACCC
* *
19559349 ATCCCTTTTCGTAATTCGATAACCGAAGTT
1 ATCCCTTTTCATAATTCGATAACCGAAGCT
* *
19559379 ATCCCTTTTCATAGTTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATTCGATAACCGAAGCT
* * **** * *
19559409 ATCTCTTTTCATAATTTGATGGTTGTCA-CC
1 ATCCCTTTTCATAATTCGATAACCG-AAGCT
** * ***
19559439 ATCCCTTTTCATTGTT-GCTGGTCGAAGCT
1 ATCCCTTTTCATAATTCGATAACCGAAGCT
** * * * *
19559468 ATAGCTTTTCATAGTTCGATAGCTGAAGCC
1 ATCCCTTTTCATAATTCGATAACCGAAGCT
* * * * *
19559498 ATCCCTTTTCATATTTTGATAGCTGAAGCC
1 ATCCCTTTTCATAATTCGATAACCGAAGCT
19559528 ATCCCTTTTCATAATTCGAT
1 ATCCCTTTTCATAATTCGAT
19559548 GGTCGTCACC
Statistics
Matches: 133, Mismatches: 33, Indels: 6
0.77 0.19 0.03
Matches are distributed among these distances:
28 1 0.01
29 20 0.15
30 111 0.83
31 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATAACCGAAGCT
Found at i:19559465 original size:89 final size:89
Alignment explanation
Indices: 19559372--19559539 Score: 230
Period size: 89 Copynumber: 1.9 Consensus size: 89
19559362 ATTCGATAAC
* * * * * * *
19559372 CGAAGTTATCCCTTTTCATAGTTCGATAGCCGAAGCTATCTCTTTTCATAATTTGATGGTTGTCA
1 CGAAGCTATACCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTTCATAATTTGATAGCTG-AA
19559437 -CCATCCCTTTTCATTGTTGCTGGT
65 GCCATCCCTTTTCATTGTTGCTGGT
* * *
19559461 CGAAGCTATAGCTTTTCATAGTTCGATAGCTGAAGCCATCCCTTTTCATATTTTGATAGCTGAAG
1 CGAAGCTATACCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTTCATAATTTGATAGCTGAAG
19559526 CCATCCCTTTTCAT
66 CCATCCCTTTTCAT
19559540 AATTCGATGG
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
88 1 0.01
89 67 0.99
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.39
Consensus pattern (89 bp):
CGAAGCTATACCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTTCATAATTTGATAGCTGAAG
CCATCCCTTTTCATTGTTGCTGGT
Found at i:19559587 original size:29 final size:30
Alignment explanation
Indices: 19559526--19559601 Score: 127
Period size: 29 Copynumber: 2.6 Consensus size: 30
19559516 ATAGCTGAAG
19559526 CCATCCCTTTTCATAATTCGATGGTCGTCA
1 CCATCCCTTTTCATAATTCGATGGTCGTCA
**
19559556 CCATCCCTTTTCATTGTT-GATGGTCGTCA
1 CCATCCCTTTTCATAATTCGATGGTCGTCA
19559585 CCATCCCTTTTCATAAT
1 CCATCCCTTTTCATAAT
19559602 CGACAGCCGA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 26 0.62
30 16 0.38
ACGTcount: A:0.18, C:0.30, G:0.12, T:0.39
Consensus pattern (30 bp):
CCATCCCTTTTCATAATTCGATGGTCGTCA
Found at i:19559595 original size:119 final size:118
Alignment explanation
Indices: 19559347--19559635 Score: 373
Period size: 119 Copynumber: 2.4 Consensus size: 118
19559337 GATGGTTGAC
* * * *
19559347 CCATCCCTTTTCGTAATTCGATAACCGAAGTTATCCCTTTTCATAGTTCGATAGCCGAAGCTATC
1 CCATCCCTTTTCAT-ATTCGATAGCCGAAGCTATCCCTTTTCATAGTTCGATAGCCGAAGCCATC
* * * *
19559412 TCTTTTCATAATTTGATGGTTGTCACCATCCCTTTTCATTGTTGCTGGTCGAAG
65 CCTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATTGTTGATGGTCGAAG
* ** * * * * *
19559466 CTATAGCTTTTCATAGTTCGATAGCTGAAGCCATCCCTTTTCATATTTTGATAGCTGAAGCCATC
1 CCATCCCTTTTCATA-TTCGATAGCCGAAGCTATCCCTTTTCATAGTTCGATAGCCGAAGCCATC
*
19559531 CCTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATTGTTGATGGTCGTCA-
65 CCTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATTGTTGATGGTCG-AAG
* *
19559585 CCATCCCTTTTCATAATCGACAGCCGAAGCTATCCCTTTTCATAGTTCGAT
1 CCATCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATAGTTCGAT
19559636 GATTGACATT
Statistics
Matches: 142, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
118 31 0.22
119 110 0.77
120 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (118 bp):
CCATCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATAGTTCGATAGCCGAAGCCATCC
CTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATTGTTGATGGTCGAAG
Found at i:19559600 original size:59 final size:60
Alignment explanation
Indices: 19559379--19559601 Score: 199
Period size: 59 Copynumber: 3.8 Consensus size: 60
19559369 AACCGAAGTT
* * * * * * *
19559379 ATCCCTTTTCATAGTTCGATAGCCG-AAGCTATCTCTTTTCATAATTTGATGGTTGTCACC
1 ATCCCTTTTCATTGTT-GATGGTCGTAAGCCATCCCTTTTCATAATTCGATGGTCGTCACC
* * ** * * *
19559439 ATCCCTTTTCATTGTTGCTGGTCG-AAGCTATAGCTTTTCATAGTTCGATAG-C-TGAAGCC
1 ATCCCTTTTCATTGTTGATGGTCGTAAGCCATCCCTTTTCATAATTCGATGGTCGT-CA-CC
* *
19559498 ATCCCTTTTCATATTTTGATAG-C-TGAAGCCATCCCTTTTCATAATTCGATGGTCGTCACC
1 ATCCCTTTTCAT-TGTTGATGGTCGT-AAGCCATCCCTTTTCATAATTCGATGGTCGTCACC
*
19559558 ATCCCTTTTCATTGTTGATGGTCGTCA-CCATCCCTTTTCATAAT
1 ATCCCTTTTCATTGTTGATGGTCGTAAGCCATCCCTTTTCATAAT
19559602 CGACAGCCGA
Statistics
Matches: 131, Mismatches: 23, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
57 1 0.01
58 1 0.01
59 66 0.50
60 59 0.45
61 3 0.02
62 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (60 bp):
ATCCCTTTTCATTGTTGATGGTCGTAAGCCATCCCTTTTCATAATTCGATGGTCGTCACC
Found at i:19571658 original size:50 final size:50
Alignment explanation
Indices: 19571591--19571885 Score: 401
Period size: 50 Copynumber: 5.9 Consensus size: 50
19571581 TTTCCTGTAC
* * * * ** *
19571591 TGCCAATGCCATATCCCAAATATGATCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
* * * **
19571641 TGCCTATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
19571691 TGCCAACGACATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGA
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
19571741 TGCCAACACCATGTCCCAAACATGGTCTTACATAGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
*
19571791 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
* *
19571841 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCAT
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCAT
19571886 AATTTCAATA
Statistics
Matches: 217, Mismatches: 28, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 217 1.00
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:19580409 original size:17 final size:17
Alignment explanation
Indices: 19580387--19580444 Score: 71
Period size: 17 Copynumber: 3.2 Consensus size: 17
19580377 TCAAGATAAG
19580387 TATTAAATATAATTTAA
1 TATTAAATATAATTTAA
*
19580404 TATTAAAATGATTATCTTAA
1 TATT-AAAT-ATAAT-TTAA
*
19580424 TATTAAATTTAATTTAA
1 TATTAAATATAATTTAA
19580441 TATT
1 TATT
19580445 TATCTTGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
17 12 0.34
18 7 0.20
19 8 0.23
20 8 0.23
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
TATTAAATATAATTTAA
Found at i:19580477 original size:69 final size:68
Alignment explanation
Indices: 19580352--19580486 Score: 173
Period size: 69 Copynumber: 2.0 Consensus size: 68
19580342 TTTAATAAAT
19580352 TTAATATTAAATTAATATAATACTATCAAGATAAGTATTAAATATAATTTAATATTAAAATGATT
1 TTAATATTAAATTAATATAATACTATCAAGATAAGTATTAAATATAATTTAATATTAAAATGATT
19580417 ATC
66 ATC
* * ** * * * *
19580420 TTAATATTAAATTTAATTTAATATTTATCTTGATAAGTATTATAT-TTATTTAGTATTAAAGTGA
1 TTAATATTAAA-TTAATATAATA-CTATCAAGATAAGTATTAAATATAATTTAATATTAAAATGA
19580484 TTA
64 TTA
19580487 AGTTTGATCT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
68 11 0.19
69 29 0.51
70 17 0.30
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (68 bp):
TTAATATTAAATTAATATAATACTATCAAGATAAGTATTAAATATAATTTAATATTAAAATGATT
ATC
Found at i:19581089 original size:25 final size:24
Alignment explanation
Indices: 19581059--19581122 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
19581049 GAAATGAAAC
* *
19581059 AAAAAAAAGAAAATATATTCTAAA
1 AAAAAAAAGAAAACATAATCTAAA
* *
19581083 AAGAAAAGAGAAAACCTAATCTAAA
1 AA-AAAAAAGAAAACATAATCTAAA
19581108 AAAATGAAAAGAAAA
1 AAAA--AAAAGAAAA
19581123 GAAAACCCCT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
24 4 0.12
25 20 0.62
26 8 0.25
ACGTcount: A:0.70, C:0.06, G:0.09, T:0.14
Consensus pattern (24 bp):
AAAAAAAAGAAAACATAATCTAAA
Found at i:19581120 original size:33 final size:33
Alignment explanation
Indices: 19581081--19581150 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
19581071 ATATATTCTA
19581081 AAAAGAAAAGAGAAA-ACCTAATCTAAAAAAATG
1 AAAAGAAAAGA-AAACACCTAATCTAAAAAAATG
* **
19581114 AAAAGAAAAGAAAACCCCTAATCTAAAACTATG
1 AAAAGAAAAGAAAACACCTAATCTAAAAAAATG
19581147 AAAA
1 AAAA
19581151 CCTAAGGAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 3 0.09
33 30 0.91
ACGTcount: A:0.64, C:0.13, G:0.10, T:0.13
Consensus pattern (33 bp):
AAAAGAAAAGAAAACACCTAATCTAAAAAAATG
Found at i:19591826 original size:28 final size:28
Alignment explanation
Indices: 19591761--19591817 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
19591751 TAGTTAATTA
19591761 AGACATAATTAAGCATATAATTTTTTCT
1 AGACATAATTAAGCATATAATTTTTTCT
19591789 AGACATAATTAAGCATATAATTTTTTCT
1 AGACATAATTAAGCATATAATTTTTTCT
19591817 A
1 A
19591818 AGTGGAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (28 bp):
AGACATAATTAAGCATATAATTTTTTCT
Found at i:19594060 original size:14 final size:14
Alignment explanation
Indices: 19594041--19594071 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
19594031 TGATTGTTTT
*
19594041 TAATCTAAATTTAC
1 TAATCTAAATTAAC
19594055 TAATCTAAATTAAC
1 TAATCTAAATTAAC
19594069 TAA
1 TAA
19594072 GAACGTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:19600355 original size:25 final size:25
Alignment explanation
Indices: 19600326--19600376 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
19600316 ATTGTTTAAC
19600326 TGTATTTCAAATTTAAAACTCTTTA
1 TGTATTTCAAATTTAAAACTCTTTA
19600351 TGTATTTCAAATTTAAAACTCTTTA
1 TGTATTTCAAATTTAAAACTCTTTA
19600376 T
1 T
19600377 AATTTTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.04, T:0.49
Consensus pattern (25 bp):
TGTATTTCAAATTTAAAACTCTTTA
Found at i:19612461 original size:22 final size:19
Alignment explanation
Indices: 19612419--19612465 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
19612409 TGGCCGGCTG
19612419 GAAGAGAGAAAGAAGAAAA
1 GAAGAGAGAAAGAAGAAAA
*
19612438 GAAGAGAAGAGAAGAAGGAGAA
1 GAAGAG-AGA-AAGAA-GAAAA
19612460 GAAGAG
1 GAAGAG
19612466 GGCGGGGCGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 6 0.25
20 3 0.12
21 5 0.21
22 10 0.42
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (19 bp):
GAAGAGAGAAAGAAGAAAA
Found at i:19612707 original size:23 final size:24
Alignment explanation
Indices: 19612646--19612717 Score: 94
Period size: 23 Copynumber: 3.0 Consensus size: 24
19612636 GTGTGTTGTC
*
19612646 TCATCAATTTTTTTT-TTGTTTTT
1 TCATCAGTTTTTTTTATTGTTTTT
*
19612669 TCATCAGTTTTATTTATTG-TTTT
1 TCATCAGTTTTTTTTATTGTTTTT
*
19612692 TCATCAGTTTTTTTTATCAGTTTTT
1 TCATCAGTTTTTTTTAT-TGTTTTT
19612717 T
1 T
19612718 TTCTTTATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
23 33 0.79
24 4 0.10
25 5 0.12
ACGTcount: A:0.15, C:0.10, G:0.07, T:0.68
Consensus pattern (24 bp):
TCATCAGTTTTTTTTATTGTTTTT
Found at i:19612719 original size:14 final size:13
Alignment explanation
Indices: 19612664--19612718 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
19612654 TTTTTTTTTG
19612664 TTTTTTCATCAGT
1 TTTTTTCATCAGT
19612677 TTTATTT-AT---T
1 TTT-TTTCATCAGT
*
19612687 GTTTTTCATCAGT
1 TTTTTTCATCAGT
*
19612700 TTTTTTTATCAGT
1 TTTTTTCATCAGT
19612713 TTTTTT
1 TTTTTT
19612719 TCTTTATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
9 3 0.09
10 5 0.15
13 23 0.68
14 3 0.09
ACGTcount: A:0.15, C:0.09, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTTTCATCAGT
Found at i:19612833 original size:16 final size:18
Alignment explanation
Indices: 19612814--19612846 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
19612804 AAACATAGCC
19612814 ATTTTAT-TT-TTTTAAA
1 ATTTTATATTATTTTAAA
19612830 ATTTTATATTATTTTAA
1 ATTTTATATTATTTTAA
19612847 TAAAAAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTATATTATTTTAAA
Found at i:19617674 original size:25 final size:25
Alignment explanation
Indices: 19617624--19617693 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
19617614 TAGGCCCATT
* **
19617624 TTCATAGCTCGTGTGAG-ACTTTTGA
1 TTCACAGCTCGTGTGAGCA-TCCTGA
*
19617649 TTTACAGCTCGTGTGAGCATCCTGA
1 TTCACAGCTCGTGTGAGCATCCTGA
*
19617674 TTCACAACTCGTGTGAGCAT
1 TTCACAGCTCGTGTGAGCAT
19617694 ACATGTACAG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
25 37 0.97
26 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCATCCTGA
Found at i:19619384 original size:101 final size:102
Alignment explanation
Indices: 19619263--19619456 Score: 311
Period size: 102 Copynumber: 1.9 Consensus size: 102
19619253 AAAGTGATAG
* *
19619263 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATGATAATGGTCACATATGTAGT
* *
19619326 ACTATGTGCAGGCTACTATGTGTACCGAATAGTTTCAA
65 ACTATGTGCAAGCTACTATGTGAACCGAATAGTTTCAA
* *
19619364 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGTAATGGTCACATATGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAATGGTCACATATGTAGTA
19619429 CTATGTGCAAGCTACTATGTGAACCGAA
66 CTATGTGCAAGCTACTATGTGAACCGAA
19619457 CATCATTGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
100 6 0.07
101 39 0.46
102 40 0.47
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAATGGTCACATATGTAGTA
CTATGTGCAAGCTACTATGTGAACCGAATAGTTTCAA
Found at i:19619393 original size:51 final size:49
Alignment explanation
Indices: 19619259--19619456 Score: 227
Period size: 51 Copynumber: 3.9 Consensus size: 49
19619249 AGTGAAAGTG
*
19619259 ATAGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATG-
1 ATAGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATGT
* *
19619308 ATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATAGT
1 ATA-GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAT-GT
* * * *
19619359 TTCAATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGT
1 AT-AGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAT-GT
* * * * *
19619410 AATGGTCACATATGTAGTACTATGTGCAAGCTACTATGTGAACCGAA
1 -ATAGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA
19619457 CATCATTGAT
Statistics
Matches: 125, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
49 7 0.06
50 38 0.30
51 78 0.62
52 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (49 bp):
ATAGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGT
Found at i:19619507 original size:45 final size:45
Alignment explanation
Indices: 19619456--19619541 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
19619446 TGTGAACCGA
* *
19619456 ACATCATTGATTAGTAAAGTGGTTGCTATGTGCTGATTCCATCGG
1 ACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCCATCGG
**
19619501 ACATCATTGATTAATAGGGTGGTTGCTATGTGCTGAATCCA
1 ACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCCA
19619542 CCGAGTATCT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (45 bp):
ACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCCATCGG
Found at i:19627502 original size:30 final size:31
Alignment explanation
Indices: 19627447--19627514 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
19627437 ACCCTTAAAA
** * **
19627447 TATTTACACTATTGGTCCTTCAAATTTTTTG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
19627478 TATTTACACT-TTAATCCCTCAAATTTTGAG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
19627508 TATTTAC
1 TATTTAC
19627515 TCTTGGGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.26, C:0.18, G:0.07, T:0.49
Consensus pattern (31 bp):
TATTTACACTATTAATCCCTCAAATTTTGAG
Found at i:19629894 original size:50 final size:50
Alignment explanation
Indices: 19629831--19630070 Score: 288
Period size: 50 Copynumber: 4.8 Consensus size: 50
19629821 CATTTGGGTA
* * *
19629831 AAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGACATCGAGAT
1 AAGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGAT
* * *
19629881 AAGAGATCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGAT
* *
19629931 AAGAGATCCCATATAAGACCATGTCTAGGACATGGCGTTGGCACCGAGAT
1 AAGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGAT
* * * * *
19629981 GAGAGTTCCCCA--TAAGACCATGTCTGGGACATGGCATGGGCACCGATAT
1 AAGAGAT-CCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGAT
* * * *
19630030 GAGA-ACTCCCATGTAAGACTATATCTAGGATATGGCATTGG
1 AAGAGA-TCCCATGTAAGACCATGTCTAGGACATGGCATTGG
19630071 TAGTACAGAA
Statistics
Matches: 165, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
48 4 0.02
49 38 0.23
50 119 0.72
51 4 0.02
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (50 bp):
AAGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGAT
Found at i:19630040 original size:99 final size:99
Alignment explanation
Indices: 19629831--19630070 Score: 304
Period size: 99 Copynumber: 2.4 Consensus size: 99
19629821 CATTTGGGTA
* * *
19629831 AAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGACATCGAGATAAGAGATCCCATGTA
1 AAGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATAAGAGATCCCA-GTA
* * *
19629896 AGACCATGTTTGGGACATGGCGTTGGCACCGAGAT
65 AGACCATGTCTGGGACATGGCATGGGCACCGAGAT
* * * *
19629931 AAGAGATCCCATATAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGTTCCCCA-TA
1 AAGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATAAGAGAT-CCCAGTA
*
19629995 AGACCATGTCTGGGACATGGCATGGGCACCGATAT
65 AGACCATGTCTGGGACATGGCATGGGCACCGAGAT
* * * *
19630030 GAGA-ACTCCCATGTAAGACTATATCTAGGATATGGCATTGG
1 AAGAGA-TCCCATGTAAGACCATGTCTAGGACATGGCATTGG
19630071 TAGTACAGAA
Statistics
Matches: 121, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
98 1 0.01
99 66 0.55
100 50 0.41
101 4 0.03
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (99 bp):
AAGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATAAGAGATCCCAGTAA
GACCATGTCTGGGACATGGCATGGGCACCGAGAT
Found at i:19634273 original size:36 final size:36
Alignment explanation
Indices: 19634226--19634372 Score: 204
Period size: 36 Copynumber: 4.1 Consensus size: 36
19634216 AAAAAAAAGA
19634226 TTTGTATACATAATAGGGTTCACATACATGTAAGGG
1 TTTGTATACATAATAGGGTTCACATACATGTAAGGG
** *
19634262 TTTGTATACATAATAGGGTTTGCATACATGTAAGGA
1 TTTGTATACATAATAGGGTTCACATACATGTAAGGG
* *
19634298 TTTGTATACATAATAGGGTTTACATACATGTAAGTG
1 TTTGTATACATAATAGGGTTCACATACATGTAAGGG
* * * *
19634334 TTCGCATACATAATAAGGTTCACATACATGACAAGGG
1 TTTGTATACATAATAGGGTTCACATACATG-TAAGGG
19634371 TT
1 TT
19634373 CGTAGAAATA
Statistics
Matches: 98, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
36 92 0.94
37 6 0.06
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (36 bp):
TTTGTATACATAATAGGGTTCACATACATGTAAGGG
Found at i:19634362 original size:18 final size:18
Alignment explanation
Indices: 19634226--19634353 Score: 91
Period size: 18 Copynumber: 7.1 Consensus size: 18
19634216 AAAAAAAAGA
* *
19634226 TTTGTATACATAATAGGG
1 TTTGCATACATAATAAGG
** *
19634244 TTCACATACAT-GTAAGGG
1 TTTGCATACATAATAA-GG
* *
19634262 TTTGTATACATAATAGGG
1 TTTGCATACATAATAAGG
*
19634280 TTTGCATACAT-GTAAGG
1 TTTGCATACATAATAAGG
* *
19634297 ATTTGTATACATAATAGGG
1 -TTTGCATACATAATAAGG
* *
19634316 TTTACATACAT-GTAAGTG
1 TTTGCATACATAATAAG-G
*
19634334 TTCGCATACATAATAAGG
1 TTTGCATACATAATAAGG
19634352 TT
1 TT
19634354 CACATACATG
Statistics
Matches: 81, Mismatches: 23, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
17 9 0.11
18 62 0.77
19 10 0.12
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (18 bp):
TTTGCATACATAATAAGG
Found at i:19634369 original size:18 final size:18
Alignment explanation
Indices: 19634231--19634369 Score: 68
Period size: 18 Copynumber: 7.7 Consensus size: 18
19634221 AAAGATTTGT
* *
19634231 ATACATAATAGGGTTCAC
1 ATACATGATAAGGTTCAC
***
19634249 ATACATG-TAAGGGTTTGT
1 ATACATGATAA-GGTTCAC
* * **
19634267 ATACATAATAGGGTTTGC
1 ATACATGATAAGGTTCAC
***
19634285 ATACATG-TAAGGATTTGT
1 ATACATGATAAGG-TTCAC
* * *
19634303 ATACATAATAGGGTTTAC
1 ATACATGATAAGGTTCAC
*
19634321 ATACATG-TAAGTGTTCGC
1 ATACATGATAAG-GTTCAC
*
19634339 ATACATAATAAGGTTCAC
1 ATACATGATAAGGTTCAC
*
19634357 ATACATGACAAGG
1 ATACATGATAAGG
19634370 GTTCGTAGAA
Statistics
Matches: 92, Mismatches: 23, Indels: 12
0.72 0.18 0.09
Matches are distributed among these distances:
17 9 0.10
18 73 0.79
19 10 0.11
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (18 bp):
ATACATGATAAGGTTCAC
Found at i:19634849 original size:27 final size:27
Alignment explanation
Indices: 19634819--19634870 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
19634809 CTCAACTCTT
* * *
19634819 CAAAACATATTTGTGAGCTTGGCTCGC
1 CAAAACATATATGTAAGCTTAGCTCGC
19634846 CAAAACATATATGTAAGCTTAGCTC
1 CAAAACATATATGTAAGCTTAGCTC
19634871 ACCAGAACGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (27 bp):
CAAAACATATATGTAAGCTTAGCTCGC
Found at i:19645682 original size:18 final size:18
Alignment explanation
Indices: 19645661--19645697 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
19645651 AAGAGTGAAA
19645661 AATAAGGGATAACATAGT
1 AATAAGGGATAACATAGT
19645679 AATAAGGGATAACATAGT
1 AATAAGGGATAACATAGT
19645697 A
1 A
19645698 TCATAAGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.22, T:0.22
Consensus pattern (18 bp):
AATAAGGGATAACATAGT
Found at i:19650352 original size:11 final size:11
Alignment explanation
Indices: 19650302--19650352 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
19650292 ATAAAAGTTC
19650302 TAAAATA-AAT
1 TAAAATAGAAT
19650312 TAAATATATGAAT
1 TAAA-ATA-GAAT
*
19650325 TCAAAATAGACT
1 T-AAAATAGAAT
*
19650337 CAAAATAGAAT
1 TAAAATAGAAT
19650348 TAAAA
1 TAAAA
19650353 GAACCATTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
10 4 0.12
11 16 0.48
12 3 0.09
13 7 0.21
14 3 0.09
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (11 bp):
TAAAATAGAAT
Found at i:19650442 original size:3 final size:3
Alignment explanation
Indices: 19650434--19650463 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
19650424 AAAGATAAAC
19650434 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
19650464 CATATACTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19652605 original size:119 final size:120
Alignment explanation
Indices: 19652423--19652645 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
19652413 TCCTCGTTCA
*
19652423 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
19652488 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
19652543 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
19652605 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
19652646 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:19652645 original size:40 final size:40
Alignment explanation
Indices: 19652421--19652645 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
19652411 GCTCCTCGTT
* *
19652421 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
19652461 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
19652501 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
19652541 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
19652580 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
19652621 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19652646 CATCATTCGA
Statistics
Matches: 164, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 119 0.73
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:19660565 original size:39 final size:40
Alignment explanation
Indices: 19660408--19660630 Score: 256
Period size: 40 Copynumber: 5.6 Consensus size: 40
19660398 GCTCCTCGTT
* *
19660408 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
19660448 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
19660488 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * *
19660528 CCAATGCCTTTTGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
19660567 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
19660608 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAACCCG
19660631 AACATCATTC
Statistics
Matches: 160, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 114 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:19663272 original size:100 final size:100
Alignment explanation
Indices: 19663148--19663512 Score: 453
Period size: 100 Copynumber: 3.6 Consensus size: 100
19663138 TAACTCGCAA
** * * * * * *
19663148 CTTTAAT-CTATTTAACTGTGATGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCC
1 CTTTAATCCT-TTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGCTCC
* * * * *
19663212 ACTACACCGCCTGGGAAGTAAGATTTGCTGTTGTAG
65 ACTGCATCGCCAGGGAGGTAAGATTCGCTGTTGTAG
* ** *
19663248 CTTTAATCCTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGAATTTAATCTGTTCCA
1 CTTTAATCCTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGCTCCA
* * * * *
19663313 CTGCATCGTCAGGGAGGTAATATTCACTGCTGTGG
66 CTGCATCGCCAGGGAGGTAAGATTCGCTGTTGTAG
*
19663348 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGCTCCA
1 CTTTAATCCTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGCTCCA
* *
19663413 CTGCATCGCCAGGGTGGTAAGATTCGCTATTGTAG
66 CTGCATCGCCAGGGAGGTAAGATTCGCTGTTGTAG
* * **
19663448 CTTTAATCTTTTTAACTGCAGTGTCGGGGAAGTGAGATTCACTGATGTGGCTTTAATCTGCTCCA
1 CTTTAATCCTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGCTCCA
19663513 TGATGTGGCT
Statistics
Matches: 229, Mismatches: 35, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
100 227 0.99
101 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (100 bp):
CTTTAATCCTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGCTCCA
CTGCATCGCCAGGGAGGTAAGATTCGCTGTTGTAG
Found at i:19663278 original size:50 final size:50
Alignment explanation
Indices: 19663148--19663507 Score: 253
Period size: 50 Copynumber: 7.2 Consensus size: 50
19663138 TAACTCGCAA
* ** * * * *
19663148 CTTTAATCTATTTAACTGTGATGTCGAGGAAGCAAGATTCGCTGTTGTAG
1 CTTTAATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACTGATGTAG
* ** * ** * * ** *
19663198 CTTCAATCTGTTCCACTACACCGCCTGGGAAGTAAGATTTGCTGTTGTAG
1 CTTTAATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACTGATGTAG
* *
19663248 CTTTAATCCT-TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGT-G
1 CTTTAAT-CTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACTGATGTAG
* ** * * * * *
19663297 AATTTAATCTGTTCCACTGC-ATCGTCAGGGAGGTAATATTCACTGCTGTGG
1 -CTTTAATCTGTTTAACTGCAAT-GTCGGGGAAGTAAGATTCACTGATGTAG
* * *
19663348 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGG
1 CTTTAATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACTGATGTAG
* ** * * ** *
19663398 CTTTAATCTGCTCCACTGC-ATCGCCAGGGTGGTAAGATTCGCT-ATTGTAG
1 CTTTAATCTGTTTAACTGCAAT-GTCGGGGAAGTAAGATTCACTGA-TGTAG
* * * *
19663448 CTTTAATCTTTTTAACTGCAGTGTCGGGGAAGTGAGATTCACTGATGTGG
1 CTTTAATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACTGATGTAG
19663498 CTTTAATCTG
1 CTTTAATCTG
19663508 CTCCATGATG
Statistics
Matches: 231, Mismatches: 69, Indels: 20
0.72 0.22 0.06
Matches are distributed among these distances:
49 8 0.03
50 216 0.94
51 7 0.03
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (50 bp):
CTTTAATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACTGATGTAG
Found at i:19663505 original size:200 final size:200
Alignment explanation
Indices: 19663148--19663512 Score: 514
Period size: 200 Copynumber: 1.8 Consensus size: 200
19663138 TAACTCGCAA
** * * *
19663148 CTTTAATCTATTTAACTGTGATGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCA
1 CTTTAATCTATTTAACTGCAATGTCGAGGAAGCAAGATTCACTGATGTAGCTTCAATCTGCTCCA
* * *
19663213 CTACACCGCCTGGGAAGTAAGATTTGCTGTTGTAGCTTTAATCCTTTTAACTGCAATGTCGGGGA
66 CTACACCGCCAGGGAAGTAAGATTCGCTATTGTAGCTTTAATCCTTTTAACTGCAATGTCGGGGA
*
19663278 AGCAAGATTCACCGATGTGAATTTAATCTGTTCCACTGCATCGTCAGGGAGGTAATATTCACTGC
131 AGCAAGATTCACCGATGTGAATTTAATCTGCTCCACTGCATCGTCAGGGAGGTAATATTCACTGC
19663343 TGTGG
196 TGTGG
* * * *
19663348 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGCTCCA
1 CTTTAATCTATTTAACTGCAATGTCGAGGAAGCAAGATTCACTGATGTAGCTTCAATCTGCTCCA
* * ** * *
19663413 CTGCATCGCCAGGGTGGTAAGATTCGCTATTGTAGCTTTAATCTTTTTAACTGCAGTGTCGGGGA
66 CTACACCGCCAGGGAAGTAAGATTCGCTATTGTAGCTTTAATCCTTTTAACTGCAATGTCGGGGA
** * **
19663478 AGTGAGATTCACTGATGTGGCTTTAATCTGCTCCA
131 AGCAAGATTCACCGATGTGAATTTAATCTGCTCCA
19663513 TGATGTGGCT
Statistics
Matches: 141, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
200 141 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (200 bp):
CTTTAATCTATTTAACTGCAATGTCGAGGAAGCAAGATTCACTGATGTAGCTTCAATCTGCTCCA
CTACACCGCCAGGGAAGTAAGATTCGCTATTGTAGCTTTAATCCTTTTAACTGCAATGTCGGGGA
AGCAAGATTCACCGATGTGAATTTAATCTGCTCCACTGCATCGTCAGGGAGGTAATATTCACTGC
TGTGG
Found at i:19663705 original size:44 final size:44
Alignment explanation
Indices: 19663656--19663890 Score: 147
Period size: 44 Copynumber: 5.1 Consensus size: 44
19663646 CCTTTATTTT
*
19663656 AATCTGCTCCACT-TCAAT-TTCAAGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGT-AATCTT-AAGGAGATAAGATTACTAGCTTC
* * * *
19663700 AATCTGCTCCTCTGTAATCTTAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTTAAGGAGATAAGATTACTAGCTTC
* * * *
19663744 AATCTGATGCATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTT
1 AATC---TG---CT-C-C-ACTGTAATCTTAAG-GAGATAAGAT--TACTAGCTTC
* * * *
19663797 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTTAAGGAGATAAGATTACTAGCTTC
* * * * *
19663841 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTTAAGGAGATAAGATTACTAGCTTC
19663885 AATCTG
1 AATCTG
19663891 TGGCTTAAAT
Statistics
Matches: 149, Mismatches: 25, Indels: 34
0.72 0.12 0.16
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 101 0.68
45 7 0.05
46 1 0.01
47 4 0.03
50 3 0.02
51 1 0.01
52 5 0.03
53 22 0.15
54 1 0.01
55 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTTAAGGAGATAAGATTACTAGCTTC
Found at i:19663786 original size:141 final size:142
Alignment explanation
Indices: 19663606--19663890 Score: 493
Period size: 141 Copynumber: 2.0 Consensus size: 142
19663596 AGATAAGACA
* *
19663606 TGATGCGATCTACTCTATTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACT-T
1 TGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
* * *
19663670 CAATTTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCTCTGTAATCTTAGGGAGATAAGATT
66 -AATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
19663735 TCTGGCTTCAATC
130 TCTGGCTTCAATC
19663748 TGATGC-ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
1 TGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
*
19663812 AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTT
66 AATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTT
19663877 CTGGCTTCAATC
131 CTGGCTTCAATC
19663889 TG
1 TG
19663891 TGGCTTAAAT
Statistics
Matches: 136, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
141 129 0.95
142 7 0.05
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (142 bp):
TGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
AATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTT
CTGGCTTCAATC
Found at i:19666213 original size:15 final size:15
Alignment explanation
Indices: 19666189--19666222 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
19666179 TTTTTCTCTC
*
19666189 ATTTTTATTTTGATT
1 ATTTTGATTTTGATT
19666204 ATTTTGATTTTGATT
1 ATTTTGATTTTGATT
19666219 -TTTT
1 ATTTT
19666223 TTGAAAGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (15 bp):
ATTTTGATTTTGATT
Found at i:19673212 original size:15 final size:15
Alignment explanation
Indices: 19673192--19673220 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19673182 GTATTGTTGC
19673192 TTGATAACATGGTGA
1 TTGATAACATGGTGA
19673207 TTGATAACATGGTG
1 TTGATAACATGGTG
19673221 TGTGAGACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.28, T:0.34
Consensus pattern (15 bp):
TTGATAACATGGTGA
Found at i:19676007 original size:23 final size:22
Alignment explanation
Indices: 19675964--19676007 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
19675954 TTCTAAGTCG
19675964 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
19675987 ATATTCACTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
19676008 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.36
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:19676121 original size:45 final size:45
Alignment explanation
Indices: 19676052--19676140 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
19676042 AACAGATACT
* * *
19676052 CGGTGGATTCAGCACATAGTAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
19676097 CGGTGGAATCAGCACATAGCAACCACCTTACTAATTAATGATGT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
19676141 TCAGTTCACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:19690356 original size:16 final size:15
Alignment explanation
Indices: 19690331--19690364 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
19690321 GAAGTTGATA
*
19690331 ATAATTAATATACATT
1 ATAATAAATATA-ATT
19690347 ATAATAAATATAATT
1 ATAATAAATATAATT
19690362 ATA
1 ATA
19690365 TATTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:19698591 original size:17 final size:17
Alignment explanation
Indices: 19698565--19698597 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19698555 TTTCGGAACA
19698565 AAATAAAAATAAAATAC
1 AAATAAAAATAAAATAC
*
19698582 AAATACAAATAAAATA
1 AAATAAAAATAAAATA
19698598 AAGGTAACAA
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:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (17 bp):
AAATAAAAATAAAATAC
Found at i:19701058 original size:40 final size:40
Alignment explanation
Indices: 19701014--19701198 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
19701004 GCTCCTCGTT
* *
19701014 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
19701054 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
19701094 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
19701134 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
19701175 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19701199 CAGCATTCAA
Statistics
Matches: 132, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
39 19 0.14
40 104 0.79
41 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:19711751 original size:10 final size:9
Alignment explanation
Indices: 19711726--19711753 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
19711716 ATTTTAGATG
19711726 AAATTTTTT
1 AAATTTTTT
19711735 AAATTTTTT
1 AAATTTTTT
19711744 AAATTTTTT
1 AAATTTTTT
19711753 A
1 A
19711754 TTATTGCATG
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
AAATTTTTT
Found at i:19719868 original size:69 final size:69
Alignment explanation
Indices: 19719783--19719919 Score: 172
Period size: 69 Copynumber: 2.0 Consensus size: 69
19719773 GCTAAAGCTC
* * *
19719783 AATATGGATAAACCACCAATGTCAGTAATG-AAGTTAAACTAG-CAACAAC-GATGCAGACAAGC
1 AATATGGACAAACCACCAATATCAGTAATGCAA-ATAAA-TAGCCAACAACAG-TGCAGACAAGC
19719845 TGCTAGA
63 TGCTAGA
* * *
19719852 AATATGGACAAGCCACCAATATCAGTAATGCAAATAAATTGCCAATAACAGTGCAGACAAGCTGC
1 AATATGGACAAACCACCAATATCAGTAATGCAAATAAATAGCCAACAACAGTGCAGACAAGCTGC
19719917 TAG
66 TAG
19719920 TAATGTGATT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
68 2 0.03
69 54 0.92
70 3 0.05
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (69 bp):
AATATGGACAAACCACCAATATCAGTAATGCAAATAAATAGCCAACAACAGTGCAGACAAGCTGC
TAGA
Found at i:19727866 original size:7 final size:7
Alignment explanation
Indices: 19727837--19727902 Score: 51
Period size: 7 Copynumber: 9.1 Consensus size: 7
19727827 TTTTAATTTT
*
19727837 TAATAAA
1 TAATATA
*
19727844 TAAGATAA
1 TAATAT-A
*
19727852 TAAAATA
1 TAATATA
19727859 TAATATA
1 TAATATA
19727866 TTAATATA
1 -TAATATA
*
19727874 TTATATA
1 TAATATA
*
19727881 TTATATA
1 TAATATA
*
19727888 TTATATA
1 TAATATA
*
19727895 TTATATA
1 TAATATA
19727902 T
1 T
19727903 TAATTGTAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
7 39 0.75
8 13 0.25
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (7 bp):
TAATATA
Found at i:19727903 original size:7 final size:7
Alignment explanation
Indices: 19727856--19727904 Score: 80
Period size: 7 Copynumber: 6.9 Consensus size: 7
19727846 AGATAATAAA
*
19727856 ATATAAT
1 ATATTAT
19727863 ATATTAAT
1 ATATT-AT
19727871 ATATTAT
1 ATATTAT
19727878 ATATTAT
1 ATATTAT
19727885 ATATTAT
1 ATATTAT
19727892 ATATTAT
1 ATATTAT
19727899 ATATTA
1 ATATTA
19727905 ATTGTAATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
7 33 0.82
8 7 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
ATATTAT
Found at i:19740075 original size:6 final size:6
Alignment explanation
Indices: 19740064--19740091 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
19740054 GACTTGAATG
19740064 AATATA AATATA AATATA AATATA AATA
1 AATATA AATATA AATATA AATATA AATA
19740092 AACAAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATATA
Found at i:19740489 original size:12 final size:12
Alignment explanation
Indices: 19740460--19740496 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 12
19740450 AATTGAGATA
19740460 AAAATAAATAATG
1 AAAATAAATAA-G
19740473 AAAATAAATAAG
1 AAAATAAATAAG
19740485 AAAATAAA-AAG
1 AAAATAAATAAG
19740496 A
1 A
19740497 CTATTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 4 0.17
12 9 0.38
13 11 0.46
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATAAATAAG
Found at i:19752292 original size:20 final size:20
Alignment explanation
Indices: 19752246--19752292 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
19752236 GCTTGTACGG
19752246 GTTTGCACTTCGGTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
* *
19752266 ATCTGCACTTCGGTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
19752286 GTTTGCA
1 GTTTGCA
19752293 TTATGGTGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.09, C:0.30, G:0.23, T:0.38
Consensus pattern (20 bp):
GTTTGCACTTCGGTGCCTCT
Found at i:19756470 original size:11 final size:11
Alignment explanation
Indices: 19756444--19756485 Score: 52
Period size: 10 Copynumber: 3.9 Consensus size: 11
19756434 TGAATTAATA
19756444 TTTTCTTTTTTC
1 TTTTC-TTTTTC
19756456 TTTTC-TTTTC
1 TTTTCTTTTTC
*
19756466 TTTTTTTTTTC
1 TTTTCTTTTTC
19756477 TTTT-TTTTT
1 TTTTCTTTTT
19756486 TTTGAGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 14 0.50
11 9 0.32
12 5 0.18
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:19756475 original size:16 final size:16
Alignment explanation
Indices: 19756444--19756488 Score: 74
Period size: 17 Copynumber: 2.8 Consensus size: 16
19756434 TGAATTAATA
19756444 TTTTCTTTTTTCTTTTC
1 TTTTCTTTTTT-TTTTC
19756461 TTTTCTTTTTTTTTTC
1 TTTTCTTTTTTTTTTC
19756477 TTTT-TTTTTTTT
1 TTTTCTTTTTTTT
19756489 GAGAAAAGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.29
16 9 0.32
17 11 0.39
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (16 bp):
TTTTCTTTTTTTTTTC
Found at i:19756487 original size:12 final size:11
Alignment explanation
Indices: 19756444--19756486 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
19756434 TGAATTAATA
19756444 TTTTCTTTTTTC
1 TTTT-TTTTTTC
*
19756456 -TTTTCTTTTC
1 TTTTTTTTTTC
19756466 TTTTTTTTTTC
1 TTTTTTTTTTC
19756477 TTTTTTTTTT
1 TTTTTTTTTT
19756487 TTGAGAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 6 0.21
11 22 0.79
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTC
Done.