Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 70 of 352
Found at i:21948377 original size:331 final size:327
Alignment explanation
Indices: 21947507--21948457 Score: 1424
Period size: 331 Copynumber: 2.9 Consensus size: 327
21947497 CAAAATTCAG
* *
21947507 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTACAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCTTAAGCAGTA
* * *
21947572 GTGGAACAGATCAAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGAT
66 GTGG-GCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGG-----TTCGCAGAT
* * *
21947637 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA--A-GACTCGCCTTAATCCCCTAAGCGGTAGG
125 CTTATCTCCCTAAGCAGTAGCGGAGCAGATCGACGACGACTCACCTTAATCCCCTAAGCAGTAGG
*
21947699 GTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCACCT
190 GTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACT-GCCT
* * * *
21947764 TAATCCCCTGAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTTCCTAAGCAGTAGTGGA
254 TAATCCCCTAAGCAGTAGGGTAACAGG-----TTCGCAGATCTTATCTCCCTAAGCAGTAGCGGA
21947829 GCAGATCGAAGACT
314 GCAGATCGAAGACT
*
21947843 TGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCTTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCTTAAGCAGTA
* * * *
21947908 GTAGAGCAGATTGAAGACTCGCCTTAATCCCCTAAGCAGTAAGGTAACAGGTTCGCAGATATTAT
66 GT-GGGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTAT
*
21947973 CTCCCTAAGCAGTAGCGGAGCAGATCGACGACGACTCACCTTAATCCCCTAAGTAGTAGGGTAAC
130 CTCCCTAAGCAGTAGCGGAGCAGATCGACGACGACTCACCTTAATCCCCTAAGCAGTAGGGTAAC
* *
21948038 AAGTTAAATTTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCTGCCTTAATC
195 AGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CTGCCTTAATC
**
21948103 TTCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAC
259 CCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGA-
21948168 GACGACT
323 -A-GACT
*
21948175 CGCCTTAATCCCCTAAGCAGTAGAGTAACAGGTTAAATTTGCAGATCTTATCTCCTTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCTTAAGCAGTA
* *
21948240 GTGGGCAGATCGAAGACCCGCCTTAATCCCTTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATC
66 GTGGGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATC
* *
21948305 TCCCTAAGCAGTAGCGGAGCAGATCGACGACGACTCTCCTTAATCCCCTAAGCAGTAGAGTAACA
131 TCCCTAAGCAGTAGCGGAGCAGATCGACGACGACTCACCTTAATCCCCTAAGCAGTAGGGTAACA
*
21948370 GGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGCGCCTTAACC
196 GGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACT--GCCTTAATC
* *
21948434 CCCTAAGTAGTAGGATAACAGGTT
259 CCCTAAGCAGTAGGGTAACAGGTT
21948458 AAAGTATAGC
Statistics
Matches: 564, Mismatches: 41, Indels: 25
0.90 0.07 0.04
Matches are distributed among these distances:
329 40 0.07
331 237 0.42
332 69 0.12
333 1 0.00
334 108 0.19
335 2 0.00
336 106 0.19
337 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (327 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCTTAAGCAGTA
GTGGGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATC
TCCCTAAGCAGTAGCGGAGCAGATCGACGACGACTCACCTTAATCCCCTAAGCAGTAGGGTAACA
GGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTGCCTTAATCCC
CTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGA
CT
Found at i:21948750 original size:87 final size:89
Alignment explanation
Indices: 21948579--21948783 Score: 245
Period size: 87 Copynumber: 2.3 Consensus size: 89
21948569 ATTCGACGGA
* * * * *
21948579 GAGCAGATCGAAGAAATAGCAGATCTGACCTTCGGATATTTTCACATTGAAGCATATCTAAAATG
1 GAGCAGATCGAAGACATAGCAGATCTGACCTTCGGATAGTTTCACACTGAAGCAGATCCAAAATG
*
21948644 ATTTAGCATCCTTATGTTTACAAG
66 ATTTAGCATCCCTATGTTTACAAG
* * * *
21948668 GAGCAAATCGAAGACATTGCAGATCTGACCTTCAGG-T-GTTT-ACGCTGAAGCAGATCCAAGAT
1 GAGCAGATCGAAGACATAGCAGATCTGACCTTC-GGATAGTTTCACACTGAAGCAGATCCAAAAT
* *
21948730 GATTTGGCATCCCTATGTTTACAGG
65 GATTTAGCATCCCTATGTTTACAAG
** *
21948755 GAATAGATCGAAGACCTAGCAGATCTGAC
1 GAGCAGATCGAAGACATAGCAGATCTGAC
21948784 ATTCCTGTGC
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
87 62 0.63
88 3 0.03
89 31 0.32
90 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (89 bp):
GAGCAGATCGAAGACATAGCAGATCTGACCTTCGGATAGTTTCACACTGAAGCAGATCCAAAATG
ATTTAGCATCCCTATGTTTACAAG
Found at i:21948806 original size:87 final size:87
Alignment explanation
Indices: 21948641--21948816 Score: 210
Period size: 87 Copynumber: 2.0 Consensus size: 87
21948631 CATATCTAAA
* * * *
21948641 ATGATTTAGCATCCTTATGTTTACAAGGAGCAAATCGAAGACATTGCAGATCTGACCTTCAGGTG
1 ATGATTTAGCATCCCTATGTTTACAAGGAACAAATCGAAGACATAGCAGATCTGACATTCAGGTG
* *
21948706 TTTACGCTGAAGCAGATCCAAG
66 CTTACGCTAAAGCAGATCCAAG
* * * * * **
21948728 ATGATTTGGCATCCCTATGTTTACAGGGAATAGATCGAAGACCTAGCAGATCTGACATTCCTGTG
1 ATGATTTAGCATCCCTATGTTTACAAGGAACAAATCGAAGACATAGCAGATCTGACATTCAGGTG
*
21948793 CTTACAGC-AAAGCAGATCGAAG
66 CTTAC-GCTAAAGCAGATCCAAG
21948815 AT
1 AT
21948817 TTCAGCATGG
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
87 72 0.97
88 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (87 bp):
ATGATTTAGCATCCCTATGTTTACAAGGAACAAATCGAAGACATAGCAGATCTGACATTCAGGTG
CTTACGCTAAAGCAGATCCAAG
Found at i:21951432 original size:96 final size:99
Alignment explanation
Indices: 21951316--21951523 Score: 253
Period size: 96 Copynumber: 2.1 Consensus size: 99
21951306 GTTTTTAAAT
* * ** *
21951316 TTTAGGGTTTTAAAGAAAAAAATAAAATAAATTAAGGTTTAGTGTTTGTTAATTAAATTAATTAC
1 TTTAAGGTTTTAAAGAAAAAAATAAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTA-
*
21951381 T-AATTTT-AAAAAA-TTAGATTATG-GTTTAGTG
65 TAAATTTTAAAAAAATTTAGATTATGAGTTTAGGG
* * * * * *
21951412 TTTATGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
1 TTTAAGGTTTTAAAGAAAAAAATAAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTAT
*
21951477 AAATTTTAAAAAAAATTTAGATTATGATTTTAGGG
66 AAATTTT-AAAAAAATTTAGATTATGAGTTTAGGG
21951512 TTTAAGGTTTTA
1 TTTAAGGTTTTA
21951524 GGATATTTAA
Statistics
Matches: 93, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
95 1 0.01
96 60 0.65
98 6 0.06
99 10 0.11
100 16 0.17
ACGTcount: A:0.41, C:0.01, G:0.16, T:0.42
Consensus pattern (99 bp):
TTTAAGGTTTTAAAGAAAAAAATAAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTAT
AAATTTTAAAAAAATTTAGATTATGAGTTTAGGG
Found at i:21951835 original size:126 final size:126
Alignment explanation
Indices: 21951611--21952142 Score: 842
Period size: 126 Copynumber: 4.3 Consensus size: 126
21951601 AAGTTTCTAG
21951611 GTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAA-AA-TTTGAGAAGACGTGTCTGCGCAAAT
1 GTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAAAT
21951674 A--GTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCAC
66 AGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCAC
* * * *
21951733 GTAGACGCTCTTTTGCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGACGTGTCTGTGCAAAT
1 GTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAAAT
* * *
21951798 AGTGTAAAAAACGCTTCAAGCGGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTTCCAC
66 AGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCAC
*
21951859 GTGGACGCTCTTTTGCTACAGTAGTCTCTG-AAAAATAATTTTGAGAAGACGTATCTGCGCAAAT
1 GTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAAAT
* * *
21951923 AGTGGT-AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCCAC
66 AGT-GTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCAC
* * **
21951984 ATGGATGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCATAAAT
1 GTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAAAT
* *
21952049 AGTGTCAAAAACACTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCCAC
66 AGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCAC
* *
21952110 GTGGACGCTCTTTTGCTACAGTGGTTTCTGAAA
1 GTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
21952143 TAACTTGGGC
Statistics
Matches: 374, Mismatches: 29, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
122 33 0.09
123 2 0.01
124 25 0.07
125 115 0.31
126 199 0.53
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (126 bp):
GTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAAAT
AGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCAC
Found at i:21952051 original size:251 final size:248
Alignment explanation
Indices: 21951611--21952142 Score: 848
Period size: 251 Copynumber: 2.1 Consensus size: 248
21951601 AAGTTTCTAG
*
21951611 GTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAAAATTTGAGAAGACGTGTCTGCGCAAATAG
1 GTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAAAATTTGAGAAGACGTATCTGCGCAAATAG
*
21951676 TCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCACGTAGACGC
66 TCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCACATAGACGC
**
21951741 TCTTTTGCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGACGTGTCTGTGCAAATAGTGTAAA
131 TCTTTTGCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGACGTGTCTGCACAAATAGTGTAAA
* * *
21951806 AAACGCTTCAAGCGGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTTCCAC
196 AAACACTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCAC
*
21951859 GTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAATAATTTTGAGAAGACGTATCTGCGCAAATA
1 GTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAA-AAATTTGAGAAGACGTATCTGCGCAAATA
* * * * *
21951924 GTGGTAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCCACATGGA
65 GT--CAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCACATAGA
* * * *
21951989 TGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCATAAATAGTGT
128 CGCTCTTTTGCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGACGTGTCTGCACAAATAGTGT
* *
21952054 CAAAAACACTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCCAC
193 AAAAAACACTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCAC
* *
21952110 GTGGACGCTCTTTTGCTACAGTGGTTTCTGAAA
1 GTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
21952143 TAACTTGGGC
Statistics
Matches: 260, Mismatches: 21, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
248 35 0.13
249 29 0.11
251 196 0.75
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (248 bp):
GTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAAAATTTGAGAAGACGTATCTGCGCAAATAG
TCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCACATAGACGC
TCTTTTGCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGACGTGTCTGCACAAATAGTGTAAA
AAACACTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCAC
Found at i:21955525 original size:117 final size:116
Alignment explanation
Indices: 21955163--21955546 Score: 669
Period size: 116 Copynumber: 3.3 Consensus size: 116
21955153 TTTATATTTT
* * *
21955163 ATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* * *
21955228 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATATT
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
* *
21955279 ATCACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAATTAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
21955344 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
21955395 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATT-
*
21955460 AAAAATATAAAAGTAAATTGCAATTACTTTATTTAAAACAACCTTTTATCTA
65 AAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
21955512 ATTACATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
21955547 TGTACAAATA
Statistics
Matches: 255, Mismatches: 12, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
116 170 0.67
117 85 0.33
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:21955963 original size:18 final size:18
Alignment explanation
Indices: 21955937--21955973 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
21955927 AAAAATGAAG
*
21955937 CATATAAGGGCTAGGATA
1 CATAAAAGGGCTAGGATA
*
21955955 CATAAAAGGGCTATGATA
1 CATAAAAGGGCTAGGATA
21955973 C
1 C
21955974 GTACCTGGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (18 bp):
CATAAAAGGGCTAGGATA
Found at i:21957807 original size:31 final size:31
Alignment explanation
Indices: 21957772--21957830 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
21957762 AAAAAATTAA
*
21957772 TGAGAGTTTTGAGAGGAATTTAAGAGAAATT
1 TGAGAGATTTGAGAGGAATTTAAGAGAAATT
* *
21957803 TGAGAGATTTGATAGGAATTTGAGAGAA
1 TGAGAGATTTGAGAGGAATTTAAGAGAA
21957831 TATTGAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (31 bp):
TGAGAGATTTGAGAGGAATTTAAGAGAAATT
Found at i:21957812 original size:20 final size:20
Alignment explanation
Indices: 21957779--21957829 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
21957769 TAATGAGAGT
21957779 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGA-G-ATTTAAGAGAAA
* * *
21957801 TTTGAGAGATTTGATAGGAA
1 TTTGAGAGATTTAAGAGAAA
21957821 TTTGAGAGA
1 TTTGAGAGA
21957830 ATATTGAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 18 0.69
21 1 0.04
22 7 0.27
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.31
Consensus pattern (20 bp):
TTTGAGAGATTTAAGAGAAA
Found at i:21957823 original size:11 final size:11
Alignment explanation
Indices: 21957779--21957828 Score: 59
Period size: 11 Copynumber: 4.7 Consensus size: 11
21957769 TAATGAGAGT
21957779 TTTGAGAGGAA
1 TTTGAGAGGAA
* *
21957790 TTTAAGAGAAA
1 TTTGAGAGGAA
21957801 TTTGAGA-G-A
1 TTTGAGAGGAA
*
21957810 TTTGATAGGAA
1 TTTGAGAGGAA
21957821 TTTGAGAG
1 TTTGAGAG
21957829 AATATTGAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
9 7 0.23
10 1 0.03
11 23 0.74
ACGTcount: A:0.38, C:0.00, G:0.30, T:0.32
Consensus pattern (11 bp):
TTTGAGAGGAA
Found at i:21957836 original size:11 final size:10
Alignment explanation
Indices: 21957779--21957836 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
21957769 TAATGAGAGT
21957779 TTTGAGAGGAA
1 TTTGAGA-GAA
*
21957790 TTTAAGAGAAA
1 TTTGAGAG-AA
21957801 TTTGAGAG-A
1 TTTGAGAGAA
*
21957810 TTTGATAGGAA
1 TTTGAGA-GAA
21957821 TTTGAGAGAA
1 TTTGAGAGAA
21957831 TATTGA
1 T-TTGA
21957837 AAGATTGAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 7 0.18
10 6 0.15
11 26 0.67
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.33
Consensus pattern (10 bp):
TTTGAGAGAA
Found at i:21957842 original size:31 final size:31
Alignment explanation
Indices: 21957779--21957842 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
21957769 TAATGAGAGT
*
21957779 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGGAATTTAAGAGAAATTTGAAAGA
* *
21957810 TTTGATAGGAATTTGAGAG-AATATTGAAAGA
1 TTTGAGAGGAATTTAAGAGAAAT-TTGAAAGA
21957841 TT
1 TT
21957843 GAAGATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.33
Consensus pattern (31 bp):
TTTGAGAGGAATTTAAGAGAAATTTGAAAGA
Found at i:21958958 original size:21 final size:22
Alignment explanation
Indices: 21958934--21958974 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
21958924 TAAAAAATTT
21958934 TAAAAAAATT-CTAAAATAAAA
1 TAAAAAAATTACTAAAATAAAA
* *
21958955 TAAAAACATTACTAATATAA
1 TAAAAAAATTACTAAAATAA
21958975 TTATATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAAAAAATTACTAAAATAAAA
Found at i:21960204 original size:19 final size:20
Alignment explanation
Indices: 21960180--21960224 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
21960170 GCAGAGGTAA
21960180 TAAAATGCAT-AACAAAAAT
1 TAAAATGCATAAACAAAAAT
* *
21960199 TAAAATGTATAAACAAATAT
1 TAAAATGCATAAACAAAAAT
21960219 TAAAAT
1 TAAAAT
21960225 AAAGTTTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (20 bp):
TAAAATGCATAAACAAAAAT
Found at i:21962106 original size:24 final size:24
Alignment explanation
Indices: 21962078--21962127 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
21962068 TACACACACT
21962078 TAAACTAAATGCACGGAAGCTATG
1 TAAACTAAATGCACGGAAGCTATG
*
21962102 TAAACTAGATGCACGGAAGCTATG
1 TAAACTAAATGCACGGAAGCTATG
21962126 TA
1 TA
21962128 GAATTATTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (24 bp):
TAAACTAAATGCACGGAAGCTATG
Found at i:21962241 original size:15 final size:15
Alignment explanation
Indices: 21962221--21962251 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
21962211 GAGAAACAAA
21962221 AACGCGTCCTGTAGG
1 AACGCGTCCTGTAGG
21962236 AACGCGTCCTGTAGG
1 AACGCGTCCTGTAGG
21962251 A
1 A
21962252 CTCGTTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.26, G:0.32, T:0.19
Consensus pattern (15 bp):
AACGCGTCCTGTAGG
Found at i:21967472 original size:7 final size:7
Alignment explanation
Indices: 21967460--21967500 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
21967450 TAAAAATAAT
21967460 AATTGAA
1 AATTGAA
*
21967467 AATTGAG
1 AATTGAA
*
21967474 AATTGAG
1 AATTGAA
21967481 AATTGAA
1 AATTGAA
21967488 AATTGAA
1 AATTGAA
21967495 AATTGA
1 AATTGA
21967501 GGACCGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (7 bp):
AATTGAA
Found at i:21967485 original size:21 final size:21
Alignment explanation
Indices: 21967460--21967501 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
21967450 TAAAAATAAT
*
21967460 AATTGAAAATTGAGAATTGAG
1 AATTGAAAATTGAAAATTGAG
21967481 AATTGAAAATTGAAAATTGAG
1 AATTGAAAATTGAAAATTGAG
21967502 GACCGAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (21 bp):
AATTGAAAATTGAAAATTGAG
Found at i:21967509 original size:21 final size:21
Alignment explanation
Indices: 21967464--21967512 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
21967454 AATAATAATT
* **
21967464 GAAAATTGAGAATTGAGAATT
1 GAAAATTGAAAATTGAGAACC
*
21967485 GAAAATTGAAAATTGAGGACC
1 GAAAATTGAAAATTGAGAACC
21967506 GAAAATT
1 GAAAATT
21967513 AAGTATTAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.49, C:0.04, G:0.22, T:0.24
Consensus pattern (21 bp):
GAAAATTGAAAATTGAGAACC
Found at i:21968797 original size:15 final size:16
Alignment explanation
Indices: 21968779--21968820 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
21968769 GTAATTTACA
21968779 TTTTAAAAATTTTA-T
1 TTTTAAAAATTTTATT
* *
21968794 TTTTATAATTTTTATT
1 TTTTAAAAATTTTATT
21968810 TTTTAAAAATT
1 TTTTAAAAATT
21968821 AGTTAATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTAAAAATTTTATT
Found at i:21969566 original size:24 final size:24
Alignment explanation
Indices: 21969517--21969604 Score: 63
Period size: 26 Copynumber: 3.5 Consensus size: 24
21969507 CAACCAAATT
* * **
21969517 ATATTTATA-AATATATTTGTTAC
1 ATATTTATATAAAATATATGTGCC
*
21969540 ATATTT-TTTAAACATATATGTGCC
1 ATATTTATATAAA-ATATATGTGCC
*
21969564 ATAATTTGATATAAATTATATGTGCC
1 AT-ATTT-ATATAAAATATATGTGCC
21969590 ATAATTTGATATAAA
1 AT-ATTT-ATATAAA
21969605 TTTAAGAAAG
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
22 1 0.02
23 8 0.15
24 10 0.19
25 4 0.08
26 25 0.47
27 5 0.09
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (24 bp):
ATATTTATATAAAATATATGTGCC
Found at i:21969583 original size:26 final size:26
Alignment explanation
Indices: 21969554--21969606 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
21969544 TTTTTAAACA
21969554 TATATGTGCCATAATTTGATATAAAT
1 TATATGTGCCATAATTTGATATAAAT
21969580 TATATGTGCCATAATTTGATATAAAT
1 TATATGTGCCATAATTTGATATAAAT
21969606 T
1 T
21969607 TAAGAAAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (26 bp):
TATATGTGCCATAATTTGATATAAAT
Found at i:21974056 original size:38 final size:38
Alignment explanation
Indices: 21974013--21974180 Score: 176
Period size: 38 Copynumber: 4.2 Consensus size: 38
21974003 TTTCAAATTA
21974013 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
21974051 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
* *
21974092 GAATCAATATATGTAACCATGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* * *
21974136 ACATGTTTAA-CGTAGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
*
21974173 ATATGTAT
1 ACATGTAT
21974181 CAATATGTGT
Statistics
Matches: 108, Mismatches: 13, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
37 30 0.28
38 37 0.34
39 1 0.01
40 3 0.03
41 2 0.02
42 1 0.01
43 1 0.01
44 2 0.02
45 3 0.03
46 1 0.01
47 27 0.25
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:21974118 original size:85 final size:85
Alignment explanation
Indices: 21974020--21974220 Score: 332
Period size: 85 Copynumber: 2.4 Consensus size: 85
21974010 TTAACATGTA
*
21974020 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAA-CGTAGTATATCCACTTAGCACCA
21974085 CGTTA-ATGAATCAATATATG
65 CGTTATATGAATCAATATATG
*
21974105 TAACCATGGCATATCCACTTAGCACCACGTTACATGTTTAACGTAGTATATCCACTTAGCACCAC
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACGTAGTATATCCACTTAGCACCAC
* *
21974170 GTTATATGTATCAATATGTG
66 GTTATATGAATCAATATATG
* *
21974190 TAATCGTGGTATATCCACTTAGCACCACGTT
1 TAACCGTGGCATATCCACTTAGCACCACGTT
21974221 TTTTCATTCC
Statistics
Matches: 108, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
84 27 0.25
85 81 0.75
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACGTAGTATATCCACTTAGCACCAC
GTTATATGAATCAATATATG
Found at i:21974127 original size:47 final size:45
Alignment explanation
Indices: 21974058--21974220 Score: 180
Period size: 47 Copynumber: 3.7 Consensus size: 45
21974048 GTTACATGTT
21974058 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATG-ATCAATAT-TG
* * *
21974105 TAACCATGGCATATCCACTTAGCACCACG-T--T-A-C-ATGTT-
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGATCAATATTG
*
21974143 TAA-CGTAGTATATCCACTTAGCACCACGTTATATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATG-ATCAATAT-TG
*
21974190 TAATCGTGGTATATCCACTTAGCACCACGTT
1 TAACCGTGGTATATCCACTTAGCACCACGTT
21974221 TTTTCATTCC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
37 22 0.23
38 4 0.04
39 1 0.01
40 3 0.03
41 2 0.02
42 1 0.01
43 1 0.01
44 2 0.02
45 3 0.03
46 2 0.02
47 30 0.31
48 26 0.27
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (45 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTAATGATCAATATTG
Found at i:21976184 original size:25 final size:25
Alignment explanation
Indices: 21976155--21976243 Score: 135
Period size: 25 Copynumber: 3.6 Consensus size: 25
21976145 AGACACACGA
*
21976155 CAGCTCGTATGAGCTTACCAATTCT
1 CAGCTCGTATGAGCTTACCGATTCT
*
21976180 CAGCTCGTATGAGCTTACCGATTCA
1 CAGCTCGTATGAGCTTACCGATTCT
21976205 CAGCTCGTATGAGCTTACCGATTCAT
1 CAGCTCGTATGAGCTTACCGATTC-T
*
21976231 -AGCTCATATGAGC
1 CAGCTCGTATGAGC
21976244 AGACATGTAA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGATTCT
Found at i:21978297 original size:16 final size:16
Alignment explanation
Indices: 21978276--21978319 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
21978266 AAAATAGAAT
21978276 AATTTAAAATAA-TTTA
1 AATTTAAAA-AACTTTA
21978292 AATTTAAAAAACTTTAA
1 AATTTAAAAAACTTT-A
*
21978309 AACTTAAAAAA
1 AATTTAAAAAA
21978320 TAACTTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 2 0.08
16 12 0.48
17 11 0.44
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (16 bp):
AATTTAAAAAACTTTA
Found at i:21978667 original size:23 final size:24
Alignment explanation
Indices: 21978617--21978671 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
21978607 AATTAAAGTC
21978617 ACCGTTGGACTGTTTCAATATTTT
1 ACCGTTGGACTGTTTCAATATTTT
* *
21978641 ACCGTTGGAGTGTTTGAAT-TTTT
1 ACCGTTGGACTGTTTCAATATTTT
21978664 ACCGTTGG
1 ACCGTTGG
21978672 GGAAAAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 12 0.41
24 17 0.59
ACGTcount: A:0.18, C:0.15, G:0.24, T:0.44
Consensus pattern (24 bp):
ACCGTTGGACTGTTTCAATATTTT
Found at i:21980347 original size:16 final size:17
Alignment explanation
Indices: 21980326--21980359 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
21980316 ATAAAGACAT
21980326 AATAAA-ATATTAAAAA
1 AATAAATATATTAAAAA
*
21980342 AATAAATATTTTAAAAA
1 AATAAATATATTAAAAA
21980359 A
1 A
21980360 GATACATGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AATAAATATATTAAAAA
Found at i:21981122 original size:6 final size:6
Alignment explanation
Indices: 21981113--21981152 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
21981103 CTTTTCTTTG
21981113 AGATTC AGATTC AGATTC AGATTC AGATTC AGATTC AGAT
1 AGATTC AGATTC AGATTC AGATTC AGATTC AGATTC AGAT
21981153 CTTATTTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (6 bp):
AGATTC
Found at i:21986348 original size:17 final size:19
Alignment explanation
Indices: 21986326--21986362 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
21986316 AACTACTTAA
21986326 TTAAAA-TTTATA-ATTTT
1 TTAAAATTTTATATATTTT
21986343 TTAAAATTTTATATATTTT
1 TTAAAATTTTATATATTTT
21986362 T
1 T
21986363 AATTTCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 6 0.33
19 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTAAAATTTTATATATTTT
Found at i:21997725 original size:21 final size:23
Alignment explanation
Indices: 21997684--21997730 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
21997674 TTTTAAATAA
*
21997684 TTTAATTTTTTTCTTTGATATTC
1 TTTAAATTTTTTCTTTGATATTC
21997707 TTTAAATTTTTT-TTT-ATATTC
1 TTTAAATTTTTTCTTTGATATTC
21997728 TTT
1 TTT
21997731 TCTTCTTCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.39
22 3 0.13
23 11 0.48
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.72
Consensus pattern (23 bp):
TTTAAATTTTTTCTTTGATATTC
Found at i:22004997 original size:19 final size:19
Alignment explanation
Indices: 22004975--22005012 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
22004965 AATTTTTGGA
*
22004975 AAATGACTTACTTTTCTGG
1 AAATGACTTACTGTTCTGG
*
22004994 AAATGATTTACTGTTCTGG
1 AAATGACTTACTGTTCTGG
22005013 TGTTTGGATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.42
Consensus pattern (19 bp):
AAATGACTTACTGTTCTGG
Found at i:22006674 original size:46 final size:46
Alignment explanation
Indices: 22006355--22006661 Score: 391
Period size: 46 Copynumber: 6.7 Consensus size: 46
22006345 TTATCTTTGA
* * * * *
22006355 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
* *
22006401 CATGTTGCCATGATATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * *
22006447 CACGTTGCTATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * * *
22006493 CACGCTGCCATGGTATCTTTCAACTATAGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * **
22006539 TACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * ** *
22006585 CATGTTGCCATGGTATCTTTCAACTACGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
22006631 CATGTTGCCATGGTATCTTTCAACCATGGTC
1 CATGTTGCCATGGTATCTTTCAACCATGGTC
22006662 CTACACATTT
Statistics
Matches: 228, Mismatches: 32, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 4 0.02
46 224 0.98
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
Found at i:22010937 original size:18 final size:19
Alignment explanation
Indices: 22010914--22010951 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
22010904 TTTGCAACCC
22010914 AAGGGGAAGG-GAAAGGGG
1 AAGGGGAAGGAGAAAGGGG
22010932 AAGGGGAAGGAGAAAGGGG
1 AAGGGGAAGGAGAAAGGGG
22010951 A
1 A
22010952 GAAGAAGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (19 bp):
AAGGGGAAGGAGAAAGGGG
Found at i:22013857 original size:24 final size:24
Alignment explanation
Indices: 22013830--22013885 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
22013820 TGAAAGAGGT
22013830 TGGCACTGATGTCCTAGAAATTGA
1 TGGCACTGATGTCCTAGAAATTGA
22013854 TGGCACTGATGTCCTAGAAATTGA
1 TGGCACTGATGTCCTAGAAATTGA
*
22013878 TAGCACTG
1 TGGCACTG
22013886 CTTTCATGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (24 bp):
TGGCACTGATGTCCTAGAAATTGA
Found at i:22029945 original size:14 final size:14
Alignment explanation
Indices: 22029926--22029953 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
22029916 TAAATCTCCC
22029926 ATATCTATCACACG
1 ATATCTATCACACG
22029940 ATATCTATCACACG
1 ATATCTATCACACG
22029954 TTGGCTTCCC
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:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (14 bp):
ATATCTATCACACG
Found at i:22030824 original size:247 final size:246
Alignment explanation
Indices: 22030389--22030888 Score: 912
Period size: 247 Copynumber: 2.0 Consensus size: 246
22030379 ACACAAATCT
* *
22030389 ATTTCAACACAAACTCTTGCAAATTTCCCCTAGTAGTATAAGTCATATTAGAATCTAATTTAATG
1 ATTTCAACACAAACTCTTGCAAATTTCCCCTAATAGTATAAGTCATATTAGAATATAATTTAATG
22030454 GGTTTTCCAACAATCTTCCCCACTTTAACAAGTACTTCATTGAAATATTCCAAAGGTAAACCAGG
66 GGTTTTCCAACAATCTTCCCCACTTTAACAAGTACTTCATTGAAATATTCCAAAGGTAAACCAGG
22030519 CAATTGAATCCACACAACTGTGGATACAATCATTCTGATAGCTAGGTGAAAGTTCGACTTCCATT
131 CAATTGAATCCACACAACTGTGGATACAATCATTCTGATAGCTAGGTGAAAGTTCGACTTCCATT
22030584 TTTGTATCGTCAGATAATGATCCATAATCTTCCAAGTACCCGTCGTTATCA
196 TTTGTATCGTCAGATAATGATCCATAATCTTCCAAGTACCCGTCGTTATCA
*
22030635 ATTTCAACACAAACTCTTGCAAATTTCCCCCTAATAGTATAAGTCGTATTAGAATATAATTTAAT
1 ATTTCAACACAAACTCTTGCAAATTT-CCCCTAATAGTATAAGTCATATTAGAATATAATTTAAT
*
22030700 GGGTTTTCCAACAATCTTCCCCACTTTAACAAGTACTTCATTGAAATATTCCAAAGGTAAACTAG
65 GGGTTTTCCAACAATCTTCCCCACTTTAACAAGTACTTCATTGAAATATTCCAAAGGTAAACCAG
*
22030765 GCAATTGAATCCACACAACTGTGGATACAATCATTCTGATAG-TCGGGTGAAAGTTCGACTTCCA
130 GCAATTGAATCCACACAACTGTGGATACAATCATTCTGATAGCT-AGGTGAAAGTTCGACTTCCA
*
22030829 TTTTTGTATCGTCAGATAATGATCCATAATCTTCCAAGTACTCGTCGTTATCA
194 TTTTTGTATCGTCAGATAATGATCCATAATCTTCCAAGTACCCGTCGTTATCA
*
22030882 CTTTCAA
1 ATTTCAA
22030889 ACCATCATCT
Statistics
Matches: 245, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
246 27 0.11
247 218 0.89
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.33
Consensus pattern (246 bp):
ATTTCAACACAAACTCTTGCAAATTTCCCCTAATAGTATAAGTCATATTAGAATATAATTTAATG
GGTTTTCCAACAATCTTCCCCACTTTAACAAGTACTTCATTGAAATATTCCAAAGGTAAACCAGG
CAATTGAATCCACACAACTGTGGATACAATCATTCTGATAGCTAGGTGAAAGTTCGACTTCCATT
TTTGTATCGTCAGATAATGATCCATAATCTTCCAAGTACCCGTCGTTATCA
Found at i:22036572 original size:29 final size:29
Alignment explanation
Indices: 22036529--22036585 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
22036519 AAAATGAACT
*
22036529 AAATGAAAATCTCATGTATAAACATGTATA
1 AAATCAAAATCTCATGTATAAAC-TGTATA
*
22036559 AAATCAAAAT-TCATGTATGAACTGTAT
1 AAATCAAAATCTCATGTATAAACTGTAT
22036586 GTGATGGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.20
29 11 0.44
30 9 0.36
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (29 bp):
AAATCAAAATCTCATGTATAAACTGTATA
Found at i:22047987 original size:10 final size:10
Alignment explanation
Indices: 22047961--22048003 Score: 56
Period size: 11 Copynumber: 4.5 Consensus size: 10
22047951 TGATTAAGGT
22047961 ATGATTTTTG
1 ATGATTTTTG
22047971 ATCGATTTTTG
1 AT-GATTTTTG
22047982 ATGATTTTT-
1 ATGATTTTTG
22047991 ATG-TTTTTG
1 ATGATTTTTG
22048000 -TGAT
1 ATGAT
22048004 CGTTGCTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 7 0.23
9 4 0.13
10 9 0.30
11 10 0.33
ACGTcount: A:0.19, C:0.02, G:0.19, T:0.60
Consensus pattern (10 bp):
ATGATTTTTG
Found at i:22055670 original size:50 final size:47
Alignment explanation
Indices: 22055609--22055720 Score: 127
Period size: 47 Copynumber: 2.3 Consensus size: 47
22055599 ATCTAATGCA
* * * *
22055609 TTGGCTTCGGGCCATGATATCGGCACTTTGGGTGCGAATA-ATACCTTGAT
1 TTGGCTACGGGCCATGATATAGGCA-TTT---TGAGAAGAGATACCTTGAT
* *
22055659 TTGGCTACGGGCCATGATATAGGTATTTTGAGAAGAGTTACCTTGAT
1 TTGGCTACGGGCCATGATATAGGCATTTTGAGAAGAGATACCTTGAT
22055706 TTGGCTACGGGCCAT
1 TTGGCTACGGGCCAT
22055721 AGTATTGGTA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
46 6 0.11
47 24 0.44
49 3 0.05
50 22 0.40
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (47 bp):
TTGGCTACGGGCCATGATATAGGCATTTTGAGAAGAGATACCTTGAT
Found at i:22055714 original size:47 final size:47
Alignment explanation
Indices: 22055650--22055779 Score: 167
Period size: 47 Copynumber: 2.8 Consensus size: 47
22055640 GTGCGAATAA
***
22055650 TACCTTGATTTGGCTACGGGCCATGATATAGGTA-TTTTGAGA-AGAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTACTCCAG-GATA-AGT
*
22055697 TACCTTGATTTGGCTACGGGCCAT-AGTATTGGTACTCCAGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGA-TATAGGTACTCCAGGATAAGT
*
22055744 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTACT
22055780 TATCGATTGT
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
46 1 0.01
47 69 0.95
48 3 0.04
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGATATAGGTACTCCAGGATAAGT
Found at i:22058404 original size:31 final size:31
Alignment explanation
Indices: 22058369--22058429 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
22058359 TTTTCAAAAC
22058369 ATAAATCATTTTCCTAAAGTGATAGGTTAAG
1 ATAAATCATTTTCCTAAAGTGATAGGTTAAG
* *
22058400 ATAAATCATTTTCCTAAAGTTATATGTTAA
1 ATAAATCATTTTCCTAAAGTGATAGGTTAA
22058430 CATTTTATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.39
Consensus pattern (31 bp):
ATAAATCATTTTCCTAAAGTGATAGGTTAAG
Found at i:22059945 original size:26 final size:26
Alignment explanation
Indices: 22059893--22059941 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
22059883 AAATCAAATT
22059893 AAAATAATTTATGTATATAATATTTA
1 AAAATAATTTATGTATATAATATTTA
22059919 AAAATAATTT-T-TATATAA-ATTTA
1 AAAATAATTTATGTATATAATATTTA
22059942 TTAATTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.22
24 7 0.30
25 1 0.04
26 10 0.43
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
AAAATAATTTATGTATATAATATTTA
Found at i:22066288 original size:4 final size:4
Alignment explanation
Indices: 22066281--22066342 Score: 110
Period size: 4 Copynumber: 16.0 Consensus size: 4
22066271 CACGCATGCA
22066281 TATG TATG TATG --TG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
22066327 TATG TATG TATG TATG
1 TATG TATG TATG TATG
22066343 GCTTAAAATG
Statistics
Matches: 56, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.04
4 54 0.96
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:22076483 original size:19 final size:21
Alignment explanation
Indices: 22076444--22076487 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
22076434 TAGGTAATTC
22076444 TAAAAATTAAATAAAAGTAGA
1 TAAAAATTAAATAAAAGTAGA
*
22076465 TAAAATTTAAA-AAAA-TAGA
1 TAAAAATTAAATAAAAGTAGA
22076484 TAAA
1 TAAA
22076488 GTGAGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.36
20 4 0.18
21 10 0.45
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (21 bp):
TAAAAATTAAATAAAAGTAGA
Found at i:22083003 original size:20 final size:20
Alignment explanation
Indices: 22082980--22083027 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
22082970 AAATCCAAAT
22082980 TAAAATACTGAAATTAAGGA
1 TAAAATACTGAAATTAAGGA
* * *
22083000 TAAACTCCTGAAATTTAGGA
1 TAAAATACTGAAATTAAGGA
22083020 TAAGAATA
1 TAA-AATA
22083028 TTGATGTGGC
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (20 bp):
TAAAATACTGAAATTAAGGA
Found at i:22084000 original size:31 final size:31
Alignment explanation
Indices: 22083960--22084019 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
22083950 AAAATTTCAA
* **
22083960 AATTTGAAAACTATTGGGACTAAAATTGACC
1 AATTCGAAAACTAGAGGGACTAAAATTGACC
*
22083991 AATTCGAAAAGTAGAGGGACTAAAATTGA
1 AATTCGAAAACTAGAGGGACTAAAATTGA
22084020 TCAAATAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.25
Consensus pattern (31 bp):
AATTCGAAAACTAGAGGGACTAAAATTGACC
Found at i:22085038 original size:40 final size:40
Alignment explanation
Indices: 22084983--22085063 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
22084973 ATAATGAGTT
22084983 AGAATAGAATTGTATTGAGTGAACAAATTTAACTTAAAGG
1 AGAATAGAATTGTATTGAGTGAACAAATTTAACTTAAAGG
22085023 AGAATAGAATTGTATTGAGTGAACAAATTTAACTTAAAGG
1 AGAATAGAATTGTATTGAGTGAACAAATTTAACTTAAAGG
22085063 A
1 A
22085064 ATCAAGGATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.46, C:0.05, G:0.20, T:0.30
Consensus pattern (40 bp):
AGAATAGAATTGTATTGAGTGAACAAATTTAACTTAAAGG
Found at i:22086037 original size:61 final size:61
Alignment explanation
Indices: 22085967--22086085 Score: 186
Period size: 61 Copynumber: 2.0 Consensus size: 61
22085957 AATGAATTTA
* * *
22085967 ATATTAAATTTAATTTAAA-ATTTATCTAGATAGTATTTTATTAATTTAGTATTAATATGAG
1 ATATTAAA-TTAAATTAAATATTTATCTAGATAATATTTTATTAATTTAATATTAATATGAG
*
22086028 ATATTAAATTAAATTAAATATTTATCTATATAATATTTTATTAATTTAATATTAATAT
1 ATATTAAATTAAATTAAATATTTATCTAGATAATATTTTATTAATTTAATATTAATAT
22086086 AATTAATTCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
60 9 0.17
61 44 0.83
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (61 bp):
ATATTAAATTAAATTAAATATTTATCTAGATAATATTTTATTAATTTAATATTAATATGAG
Found at i:22088095 original size:35 final size:34
Alignment explanation
Indices: 22088056--22088179 Score: 131
Period size: 35 Copynumber: 3.6 Consensus size: 34
22088046 GGAAAATTTG
*
22088056 TGAAATGTAGGTATGGTATCATCCATACTGAGTTT
1 TGAAATGTAGGTATGGTAT-ATCCATACTGAGTTA
* *
22088091 TGAAATGTAGGTATGGTATTATTCATACTAAGTTA
1 TGAAATGTAGGTATGGTA-TATCCATACTGAGTTA
* * * * * *
22088126 AGAAACGTAGGTATGGCATTTCCCATACCGAGTTG
1 TGAAATGTAGGTATGGTATAT-CCATACTGAGTTA
*
22088161 TAAAATGTAGGTATGGTAT
1 TGAAATGTAGGTATGGTAT
22088180 TTTAATGAGG
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
34 2 0.03
35 69 0.96
36 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.35
Consensus pattern (34 bp):
TGAAATGTAGGTATGGTATATCCATACTGAGTTA
Found at i:22095522 original size:35 final size:35
Alignment explanation
Indices: 22095483--22095568 Score: 136
Period size: 35 Copynumber: 2.5 Consensus size: 35
22095473 GGCAAATTTG
* *
22095483 TGAAACGCAGGTATGGTATCATCCATACTGAGTTT
1 TGAAACGTAGGTATGGTATCATCCATACTGAGTTA
*
22095518 TGAAACGTAGGTATGGTATTATCCATACTGAGTTA
1 TGAAACGTAGGTATGGTATCATCCATACTGAGTTA
*
22095553 AGAAACGTAGGTATGG
1 TGAAACGTAGGTATGG
22095569 CATTTCCCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (35 bp):
TGAAACGTAGGTATGGTATCATCCATACTGAGTTA
Found at i:22095579 original size:35 final size:35
Alignment explanation
Indices: 22095484--22095586 Score: 127
Period size: 35 Copynumber: 2.9 Consensus size: 35
22095474 GCAAATTTGT
* * * **
22095484 GAAACGCAGGTATGGTATCATCCATACTGAGTTTT
1 GAAACGTAGGTATGGCATTATCCATACTGAGTTAA
*
22095519 GAAACGTAGGTATGGTATTATCCATACTGAGTTAA
1 GAAACGTAGGTATGGCATTATCCATACTGAGTTAA
*
22095554 GAAACGTAGGTATGGCATT-TCCCATACCGAGTT
1 GAAACGTAGGTATGGCATTAT-CCATACTGAGTT
22095587 GTAAAATGTA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
34 1 0.02
35 60 0.98
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (35 bp):
GAAACGTAGGTATGGCATTATCCATACTGAGTTAA
Found at i:22095598 original size:35 final size:34
Alignment explanation
Indices: 22095485--22095609 Score: 119
Period size: 35 Copynumber: 3.6 Consensus size: 34
22095475 CAAATTTGTG
* * *
22095485 AAACGCAGGTATGGTATCAT-CCATACTGAGTTTTG
1 AAACGTAGGTATGGTAT-TTCCCATACTGAG-TTTA
*
22095520 AAACGTAGGTATGGTATTAT-CCATACTGAGTTAA
1 AAACGTAGGTATGGTATT-TCCCATACTGAGTTTA
* *
22095554 GAAACGTAGGTATGGCATTTCCCATACCGAGTTGTA
1 -AAACGTAGGTATGGTATTTCCCATACTGAGTT-TA
* *
22095590 AAATGTAGGTGTGGTATTTC
1 AAACGTAGGTATGGTATTTC
22095610 AATGAGGAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
34 3 0.04
35 72 0.95
36 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (34 bp):
AAACGTAGGTATGGTATTTCCCATACTGAGTTTA
Found at i:22097246 original size:3 final size:3
Alignment explanation
Indices: 22097240--22097266 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
22097230 AAGAAGAGAA
22097240 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
22097267 CTTCCTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22099227 original size:4 final size:4
Alignment explanation
Indices: 22099218--22099244 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
22099208 TTAAATTTTA
22099218 ATTT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATT
22099245 AAAAGTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:22108803 original size:3 final size:3
Alignment explanation
Indices: 22108795--22108822 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
22108785 TGATCGGCAC
22108795 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
22108823 CTTTTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22110930 original size:17 final size:17
Alignment explanation
Indices: 22110910--22110962 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
22110900 TTGAATTCCA
22110910 TAGCTATTTGATCCTTC
1 TAGCTATTTGATCCTTC
* *
22110927 TAGCTA-CT-ATCC--A
1 TAGCTATTTGATCCTTC
22110940 TAGCTATTTGATCCTTC
1 TAGCTATTTGATCCTTC
22110957 TAGCTA
1 TAGCTA
22110963 CTAGAATTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
13 6 0.21
14 1 0.04
15 8 0.29
16 1 0.04
17 12 0.43
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.42
Consensus pattern (17 bp):
TAGCTATTTGATCCTTC
Found at i:22110942 original size:30 final size:30
Alignment explanation
Indices: 22110906--22110965 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
22110896 ATTTTTGAAT
22110906 TCCATAGCTATTTGATCCTTCTAGCTACTA
1 TCCATAGCTATTTGATCCTTCTAGCTACTA
22110936 TCCATAGCTATTTGATCCTTCTAGCTACTA
1 TCCATAGCTATTTGATCCTTCTAGCTACTA
22110966 GAATTCAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.27, G:0.10, T:0.40
Consensus pattern (30 bp):
TCCATAGCTATTTGATCCTTCTAGCTACTA
Found at i:22112011 original size:23 final size:23
Alignment explanation
Indices: 22111983--22112105 Score: 88
Period size: 23 Copynumber: 5.3 Consensus size: 23
22111973 TCTGATTTTG
22111983 GTTTTTCTGCTATTTTGTTTATA
1 GTTTTTCTGCTATTTTGTTTATA
* * * * *
22112006 GGTTTTGTGGT-TTTTCTTATTCTA
1 GTTTTTCTGCTATTTT-GT-TTATA
*
22112030 GTTTTTCTGCTATTGTGTTTATA
1 GTTTTTCTGCTATTTTGTTTATA
* * * * *
22112053 GTTTTTGTGGT-TTTTCTTATTCTG
1 GTTTTTCTGCTATTTT-GT-TTATA
*
22112077 GTTTTTCTGCTATTATGTTTATA
1 GTTTTTCTGCTATTTTGTTTATA
22112100 GTTTTT
1 GTTTTT
22112106 GTGGTTTTTC
Statistics
Matches: 71, Mismatches: 23, Indels: 12
0.67 0.22 0.11
Matches are distributed among these distances:
22 7 0.10
23 32 0.45
24 26 0.37
25 6 0.08
ACGTcount: A:0.11, C:0.08, G:0.17, T:0.64
Consensus pattern (23 bp):
GTTTTTCTGCTATTTTGTTTATA
Found at i:22112037 original size:47 final size:47
Alignment explanation
Indices: 22111972--22112137 Score: 269
Period size: 47 Copynumber: 3.5 Consensus size: 47
22111962 TTTTACCTTA
* * * *
22111972 TTCTGATTTTGGTTTTTCTGCTATTTTGTTTATAGGTTTTGTGGTTT
1 TTCTTATTCTGGTTTTTCTGCTATTATGTTTATAGTTTTTGTGGTTT
* *
22112019 TTCTTATTCTAGTTTTTCTGCTATTGTGTTTATAGTTTTTGTGGTTT
1 TTCTTATTCTGGTTTTTCTGCTATTATGTTTATAGTTTTTGTGGTTT
22112066 TTCTTATTCTGGTTTTTCTGCTATTATGTTTATAGTTTTTGTGGTTT
1 TTCTTATTCTGGTTTTTCTGCTATTATGTTTATAGTTTTTGTGGTTT
*
22112113 TTCTTATTCTGGTTTTTCTTCTATT
1 TTCTTATTCTGGTTTTTCTGCTATT
22112138 GGGCTTTTCT
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 111 1.00
ACGTcount: A:0.10, C:0.09, G:0.17, T:0.64
Consensus pattern (47 bp):
TTCTTATTCTGGTTTTTCTGCTATTATGTTTATAGTTTTTGTGGTTT
Found at i:22112078 original size:15 final size:15
Alignment explanation
Indices: 22112013--22112132 Score: 73
Period size: 15 Copynumber: 7.7 Consensus size: 15
22112003 ATAGGTTTTG
22112013 TGGTTTTTCTTATTC
1 TGGTTTTTCTTATTC
* *
22112028 TAGTTTTTCTGCTATTG
1 TGGTTTTTCT--TATTC
** * *
22112045 T-GTTTATAGTTTTTG
1 TGGTTT-TTCTTATTC
22112060 TGGTTTTTCTTATTC
1 TGGTTTTTCTTATTC
*
22112075 TGGTTTTTCTGCTATTA
1 TGGTTTTTCT--TATTC
** * *
22112092 T-GTTTATAGTTTTTG
1 TGGTTT-TTCTTATTC
22112107 TGGTTTTTCTTATTC
1 TGGTTTTTCTTATTC
22112122 TGGTTTTTCTT
1 TGGTTTTTCTT
22112133 CTATTGGGCT
Statistics
Matches: 79, Mismatches: 18, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
15 49 0.62
16 16 0.20
17 14 0.18
ACGTcount: A:0.09, C:0.09, G:0.17, T:0.65
Consensus pattern (15 bp):
TGGTTTTTCTTATTC
Found at i:22112159 original size:63 final size:63
Alignment explanation
Indices: 22112079--22112200 Score: 201
Period size: 63 Copynumber: 1.9 Consensus size: 63
22112069 TTATTCTGGT
* *
22112079 TTTTCTGCTATTATGTTTATAGTTTTTGT-GGTTTTTCTTATTCTGGTTTTTCTTCTATTGGGC
1 TTTTCTGCTATTATGTTTATAGTTTTTGTAGG-TCTTCTTATTCTGGTTTTTCTGCTATTGGGC
*
22112142 TTTTCTGCTATTGTGTTTATAGTTTTTGTAGGTCTTCTTATTCTGGTTTTTCTGCTATT
1 TTTTCTGCTATTATGTTTATAGTTTTTGTAGGTCTTCTTATTCTGGTTTTTCTGCTATT
22112201 ACTGTCTCTA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
63 53 0.96
64 2 0.04
ACGTcount: A:0.10, C:0.11, G:0.17, T:0.61
Consensus pattern (63 bp):
TTTTCTGCTATTATGTTTATAGTTTTTGTAGGTCTTCTTATTCTGGTTTTTCTGCTATTGGGC
Found at i:22112538 original size:41 final size:41
Alignment explanation
Indices: 22112493--22112578 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
22112483 AATTTAATTG
*
22112493 TCATTATAAGGTTATTTTTTTACTAAATTCAAAGACAAAAA
1 TCATTACAAGGTTATTTTTTTACTAAATTCAAAGACAAAAA
* *
22112534 TCATTACAAGGTTCTTTTTTTACTAAATTCGAAGACAAAAA
1 TCATTACAAGGTTATTTTTTTACTAAATTCAAAGACAAAAA
22112575 TCAT
1 TCAT
22112579 ACCTGATTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (41 bp):
TCATTACAAGGTTATTTTTTTACTAAATTCAAAGACAAAAA
Found at i:22113486 original size:14 final size:14
Alignment explanation
Indices: 22113467--22113493 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22113457 TAACCTTAGT
22113467 CAAACACACTCTCC
1 CAAACACACTCTCC
22113481 CAAACACACTCTC
1 CAAACACACTCTC
22113494 GACTTGCCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.48, G:0.00, T:0.15
Consensus pattern (14 bp):
CAAACACACTCTCC
Found at i:22117879 original size:50 final size:50
Alignment explanation
Indices: 22117825--22117919 Score: 190
Period size: 50 Copynumber: 1.9 Consensus size: 50
22117815 TATAAATTAA
22117825 ATCCCTAATTCATCAATTAATTCAACATAAACTACATCCAAAAATAAACT
1 ATCCCTAATTCATCAATTAATTCAACATAAACTACATCCAAAAATAAACT
22117875 ATCCCTAATTCATCAATTAATTCAACATAAACTACATCCAAAAAT
1 ATCCCTAATTCATCAATTAATTCAACATAAACTACATCCAAAAAT
22117920 CTACTAACTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.28
Consensus pattern (50 bp):
ATCCCTAATTCATCAATTAATTCAACATAAACTACATCCAAAAATAAACT
Found at i:22118738 original size:44 final size:46
Alignment explanation
Indices: 22118668--22118755 Score: 153
Period size: 44 Copynumber: 1.9 Consensus size: 46
22118658 ATTCTGACGA
22118668 GTAAATTATTATTTTATTATTATTTTAATGTTTACATAATTATACTT
1 GTAAATTATTA-TTTATTATTATTTTAATGTTTACATAATTATACTT
22118715 GTAAATTATTA-TT-TTATTATTTTAATGTTTACATAATTATA
1 GTAAATTATTATTTATTATTATTTTAATGTTTACATAATTATA
22118756 TTAAGGTCGT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
44 28 0.68
45 2 0.05
47 11 0.27
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (46 bp):
GTAAATTATTATTTATTATTATTTTAATGTTTACATAATTATACTT
Found at i:22122255 original size:23 final size:23
Alignment explanation
Indices: 22122228--22122278 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
22122218 TTTAAATTGT
*
22122228 TTTATATACCTTTCAAA-ATTCTA
1 TTTATATA-CTTTAAAATATTCTA
* *
22122251 TTTATTTATTTTAAAATATTCTA
1 TTTATATACTTTAAAATATTCTA
22122274 TTTAT
1 TTTAT
22122279 TATTCATTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTATATACTTTAAAATATTCTA
Found at i:22122364 original size:27 final size:27
Alignment explanation
Indices: 22122326--22122378 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
22122316 TTTTATGTAC
*
22122326 ATATGTATATTAT-TTGTTCTAAAATTT
1 ATATATATATTATCTT-TTCTAAAATTT
*
22122353 ATATATATATTATCTTTTCTTAAATT
1 ATATATATATTATCTTTTCTAAAATT
22122379 GTTTTACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.57
Consensus pattern (27 bp):
ATATATATATTATCTTTTCTAAAATTT
Found at i:22126227 original size:18 final size:18
Alignment explanation
Indices: 22126200--22126234 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22126190 CAACGCCTCT
22126200 TTTTGCATTCATCCATTC
1 TTTTGCATTCATCCATTC
* *
22126218 TTTTGTATTCATGCATT
1 TTTTGCATTCATCCATT
22126235 TGTATTACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.20, G:0.09, T:0.54
Consensus pattern (18 bp):
TTTTGCATTCATCCATTC
Found at i:22133193 original size:49 final size:50
Alignment explanation
Indices: 22133119--22133314 Score: 198
Period size: 50 Copynumber: 3.9 Consensus size: 50
22133109 TAGCCGAAGC
* *
22133119 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCACAA
* * * *
22133167 TAGTCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCAC
1 TA-TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCACAA
* ** * * * * *
22133218 CATCTAATACACGTAGTAGCCTACACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCACA-A
* * * *
22133269 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
22133315 TCATAATAGA
Statistics
Matches: 121, Mismatches: 23, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
48 2 0.02
49 38 0.31
50 43 0.36
51 38 0.31
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (50 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCACAA
Found at i:22133305 original size:101 final size:99
Alignment explanation
Indices: 22133132--22133317 Score: 255
Period size: 101 Copynumber: 1.9 Consensus size: 99
22133122 CTGGTACGCA
* * * *
22133132 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTACACTTAGTACTACACACGCGACCAATAGTCGGGTACACATAGTAGCCTGCACTTA
*
22133197 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * ** *
22133231 TAGTAGCCTACACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTACACTTAGTACTACACACGCGA-C-CAATAGTCGGGTACACATAGTAGCCTGCACT
*
22133296 TAGTACTACACATGCGACCTCA
64 TAGTACTACACACGCGACCTCA
22133318 TAATAGATCA
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 28 0.38
100 1 0.01
101 45 0.61
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTACACTTAGTACTACACACGCGACCAATAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:22136863 original size:49 final size:50
Alignment explanation
Indices: 22136789--22136984 Score: 198
Period size: 50 Copynumber: 3.9 Consensus size: 50
22136779 TAGCCGAAGC
* *
22136789 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCACAA
* * * *
22136837 TAGTCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCAC
1 TA-TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCACAA
* ** * * * * *
22136888 CATCTAATACACGTAGTAGCCTGCACTTCGTACTACACACGTGATCACAG
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCACAA
* * * *
22136938 TTTTTGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
22136985 TCACAATAGA
Statistics
Matches: 121, Mismatches: 23, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
48 2 0.02
49 38 0.31
50 45 0.37
51 36 0.30
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (50 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCACAA
Found at i:22136875 original size:26 final size:26
Alignment explanation
Indices: 22136845--22136925 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
22136835 AATAGTCTGG
22136845 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACGTAGTAGCCTGCACTTAGTAC
* * *
22136871 TACAC--ACGT-GACCT-CAC-CATCTAA
1 TACACGTA-GTAG-CCTGCACTTA-GTAC
*
22136895 TACACGTAGTAGCCTGCACTTCGTAC
1 TACACGTAGTAGCCTGCACTTAGTAC
22136921 TACAC
1 TACAC
22136926 ACGTGATCAC
Statistics
Matches: 40, Mismatches: 7, Indels: 16
0.63 0.11 0.25
Matches are distributed among these distances:
23 1 0.03
24 12 0.30
25 10 0.25
26 17 0.43
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (26 bp):
TACACGTAGTAGCCTGCACTTAGTAC
Found at i:22140814 original size:44 final size:44
Alignment explanation
Indices: 22140766--22141102 Score: 236
Period size: 44 Copynumber: 7.5 Consensus size: 44
22140756 CAACCACTAA
* * *
22140766 CCTTATCTCCCTGAAGTTGTAGTGGAATAGGTTGAAGTTACAAG
1 CCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAATTACAAG
* * ** *
22140810 CCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAAATTACAGAT
1 CCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTG-AAATTACA-AG
* * * *
22140856 CC-TATCTCTCTGAAGTTGTAGTAGAACAGG-TCAAA--ACAAG
1 CCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAATTACAAG
* * * *
22140896 CCTTATCTCCCTGAAGTTGCAGTGGAGCGGGCTGAAGA-TAGCAAA
1 CCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAA-ATTA-CAAG
* * * * * * *
22140941 TCTTATTTTCCTGAAGTTGCAGTAGAACAGATTGAAGCTATGAATCGCAG
1 CCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAA---AT-TA-C-AAG
* * * * * *
22140991 ATCTTATCTCTCTGAAGTTGCAGTGGAGCTGGTCGAAATTACAAA
1 -CCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAATTACAAG
* * *
22141036 CCTCATCTTCCC-GAAGTTGCAGTGGAGCAGGTTAAAATTACAAG
1 CCTTATC-TCCCTGAAGTTGCAGTGGAACAGGTTGAAATTACAAG
22141080 CCTTATCTCCCTGAAGTTGCAGT
1 CCTTATCTCCCTGAAGTTGCAGT
22141103 AGAGTGGATT
Statistics
Matches: 225, Mismatches: 53, Indels: 30
0.73 0.17 0.10
Matches are distributed among these distances:
40 3 0.01
41 26 0.12
42 3 0.01
43 8 0.04
44 80 0.36
45 66 0.29
46 4 0.02
47 2 0.01
48 2 0.01
49 2 0.01
50 1 0.00
51 28 0.12
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
CCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAATTACAAG
Found at i:22140931 original size:86 final size:88
Alignment explanation
Indices: 22140769--22140970 Score: 232
Period size: 86 Copynumber: 2.3 Consensus size: 88
22140759 CCACTAACCT
* * * * *
22140769 TATCTCCCTGAAGTTGTAGTGGAATAGGTTGAAGTTACAAGCCTTATCTCCCTGAAGTTGCAGTA
1 TATCTCTCTGAAGTTGTAGTAGAACAGGTTCAAG-AACAAGCCTTATCTCCCTGAAGTTGCAGTA
*
22140834 GAGCAGACTGAAAATTA-CAGATCC
65 GAGCAGACTGAAAA-TAGCAAATCC
*
22140858 TATCTCTCTGAAGTTGTAGTAGAACAGG-TCAA-AACAAGCCTTATCTCCCTGAAGTTGCAGTGG
1 TATCTCTCTGAAGTTGTAGTAGAACAGGTTCAAGAACAAGCCTTATCTCCCTGAAGTTGCAGTAG
* * * *
22140921 AGCGGGCTGAAGATAGCAAATCT
66 AGCAGACTGAAAATAGCAAATCC
* *
22140944 TAT-TTTCCTGAAGTTGCAGTAGAACAG
1 TATCTCT-CTGAAGTTGTAGTAGAACAG
22140971 ATTGAAGCTA
Statistics
Matches: 98, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
85 4 0.04
86 66 0.67
88 3 0.03
89 25 0.26
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (88 bp):
TATCTCTCTGAAGTTGTAGTAGAACAGGTTCAAGAACAAGCCTTATCTCCCTGAAGTTGCAGTAG
AGCAGACTGAAAATAGCAAATCC
Found at i:22143155 original size:23 final size:23
Alignment explanation
Indices: 22143128--22143178 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
22143118 TTTAAATTGT
*
22143128 TTTATATACCTTTCAAA-ATTCTA
1 TTTATATA-CTTTAAAATATTCTA
* *
22143151 TTTATTTATTTTAAAATATTCTA
1 TTTATATACTTTAAAATATTCTA
22143174 TTTAT
1 TTTAT
22143179 TATTCATTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTATATACTTTAAAATATTCTA
Found at i:22143341 original size:20 final size:21
Alignment explanation
Indices: 22143316--22143370 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
22143306 CATTTTTTAC
*
22143316 TTTATTTAT-TTTTAAAATTG
1 TTTATTTATATTTTAAAATAG
* *
22143336 TTTA-TTATCTTTTTAAATAG
1 TTTATTTATATTTTAAAATAG
*
22143356 TTTTTTTATATTTTA
1 TTTATTTATATTTTA
22143371 TTCATTTTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 4 0.14
20 16 0.57
21 8 0.29
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (21 bp):
TTTATTTATATTTTAAAATAG
Found at i:22143364 original size:21 final size:21
Alignment explanation
Indices: 22143316--22143369 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
22143306 CATTTTTTAC
22143316 TTTATT-TATTTTTAAAATTG
1 TTTATTATATTTTTAAAATTG
*
22143336 TTTATTATCTTTTTAAATAGTT-
1 TTTATTATATTTTTAAA-A-TTG
22143358 TTT-TTATATTTT
1 TTTATTATATTTT
22143370 ATTCATTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 6 0.21
21 17 0.59
22 4 0.14
23 2 0.07
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.69
Consensus pattern (21 bp):
TTTATTATATTTTTAAAATTG
Found at i:22145976 original size:25 final size:25
Alignment explanation
Indices: 22145884--22145983 Score: 130
Period size: 26 Copynumber: 3.9 Consensus size: 25
22145874 ACATATTTTC
*
22145884 TCAAAATTTTATTAAGGGTAAAATCG
1 TCAAAATTTTACT-AGGGTAAAATCG
*
22145910 TCAAAATTTTATCGAGGGTAAAATCG
1 TCAAAATTTTA-CTAGGGTAAAATCG
* *
22145936 TTAAAA-TTTACCAGGGTAAAATCG
1 TCAAAATTTTACTAGGGTAAAATCG
22145960 TCAAAATTTTACTAGGGATAAAAT
1 TCAAAATTTTACTAGGG-TAAAAT
22145984 AGGGACGAGA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
24 18 0.28
25 13 0.20
26 34 0.52
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (25 bp):
TCAAAATTTTACTAGGGTAAAATCG
Found at i:22152897 original size:21 final size:21
Alignment explanation
Indices: 22152873--22152912 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
22152863 TTTACTTCTG
*
22152873 ATTTTTAACTTTTTCCTCTTT
1 ATTTTTAACCTTTTCCTCTTT
22152894 ATTTTTAACCTTTTCCTCT
1 ATTTTTAACCTTTTCCTCT
22152913 AGATAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTTAACCTTTTCCTCTTT
Found at i:22153087 original size:25 final size:25
Alignment explanation
Indices: 22153069--22153118 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
22153059 AATTTTGTTT
22153069 ATTTAATTAAATATTAATTTTCAAA
1 ATTTAATTAAATATTAATTTTCAAA
22153094 ATTTAATTAAATATTAATTTTCAAA
1 ATTTAATTAAATATTAATTTTCAAA
22153119 CATACATGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (25 bp):
ATTTAATTAAATATTAATTTTCAAA
Found at i:22156105 original size:22 final size:23
Alignment explanation
Indices: 22156050--22156106 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 23
22156040 TTAAAATTTA
*
22156050 TTTGATATAT-TACTTAAGATTG
1 TTTGATATATATAATTAAGATTG
* *
22156072 ATTGCA-AAATATAATT-AGATTG
1 TTTG-ATATATATAATTAAGATTG
22156094 TTTGATATATATA
1 TTTGATATATATA
22156107 TATATTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
21 1 0.04
22 21 0.78
23 5 0.19
ACGTcount: A:0.39, C:0.04, G:0.12, T:0.46
Consensus pattern (23 bp):
TTTGATATATATAATTAAGATTG
Found at i:22160944 original size:34 final size:34
Alignment explanation
Indices: 22160901--22160971 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
22160891 TTATAACTGA
22160901 GATTAATTTACTAAAAGTACCAAAAGAGCCGATG
1 GATTAATTTACTAAAAGTACCAAAAGAGCCGATG
22160935 GATTAATTTACTAAAAGTACCAAAAGAGCCGATG
1 GATTAATTTACTAAAAGTACCAAAAGAGCCGATG
22160969 GAT
1 GAT
22160972 AATGTGTAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.44, C:0.14, G:0.18, T:0.24
Consensus pattern (34 bp):
GATTAATTTACTAAAAGTACCAAAAGAGCCGATG
Found at i:22167177 original size:25 final size:25
Alignment explanation
Indices: 22167080--22167200 Score: 100
Period size: 25 Copynumber: 4.8 Consensus size: 25
22167070 ACGAGCTGTA
* * *
22167080 AACGGGAAGCTCTTCCGAGCTAAAT
1 AACGGAAAGCTCATACGAGCTAAAT
* * * *
22167105 AACGAAAAGCTCGTGCGAGCTGAAT
1 AACGGAAAGCTCATACGAGCTAAAT
* * * * *
22167130 AACAGG-GAGCTCATGCAAACTAAGT
1 AAC-GGAAAGCTCATACGAGCTAAAT
* *
22167155 ATCGGGAAGCTCATACGAGCTAAAT
1 AACGGAAAGCTCATACGAGCTAAAT
22167180 AACGGAAAGCTCATACGAGCT
1 AACGGAAAGCTCATACGAGCT
22167201 CGTGTGTCCG
Statistics
Matches: 74, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
24 2 0.03
25 71 0.96
26 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.17
Consensus pattern (25 bp):
AACGGAAAGCTCATACGAGCTAAAT
Found at i:22168655 original size:14 final size:14
Alignment explanation
Indices: 22168636--22168663 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
22168626 TAATGTAAAA
22168636 CAAAATAATGATTT
1 CAAAATAATGATTT
22168650 CAAAATAATGATTT
1 CAAAATAATGATTT
22168664 ATTTAACCAA
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:0.07, G:0.07, T:0.36
Consensus pattern (14 bp):
CAAAATAATGATTT
Found at i:22170481 original size:23 final size:21
Alignment explanation
Indices: 22170408--22170516 Score: 110
Period size: 21 Copynumber: 5.1 Consensus size: 21
22170398 CCTGATCAGT
* * * *
22170408 ATACGAAACATAAAGTGCCTA
1 ATACGACACACAAGGTGCCTG
* *
22170429 AAACGACACACGAGGTGCCTG
1 ATACGACACACAAGGTGCCTG
*
22170450 ATACGACACACAAGGTGTCTG
1 ATACGACACACAAGGTGCCTG
*
22170471 ATACGACACACGAGGTGCCTG
1 ATACGACACACAAGGTGCCTG
* *
22170492 AAATACGACACATAAAGTGCCTG
1 --ATACGACACACAAGGTGCCTG
22170515 AT
1 AT
22170517 CGATAAAGCC
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
21 54 0.75
23 18 0.25
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.17
Consensus pattern (21 bp):
ATACGACACACAAGGTGCCTG
Found at i:22170911 original size:15 final size:15
Alignment explanation
Indices: 22170886--22170943 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
22170876 TCATATATAT
22170886 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
22170902 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
22170917 AATAATTTCAATCAA
1 TATAAATTCAATCAA
22170932 TATAAATTCAAT
1 TATAAATTCAAT
22170944 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:22172213 original size:5 final size:5
Alignment explanation
Indices: 22172200--22172236 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
22172190 TTCTTTAGTT
22172200 TATATA TATAA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA T
22172237 TAAAACATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:22172272 original size:8 final size:8
Alignment explanation
Indices: 22172259--22172287 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
22172249 TATCTTTATT
22172259 ATATAATA
1 ATATAATA
22172267 ATATAATA
1 ATATAATA
22172275 ATATAATA
1 ATATAATA
22172283 ATATA
1 ATATA
22172288 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:22174663 original size:44 final size:44
Alignment explanation
Indices: 22174599--22174694 Score: 140
Period size: 44 Copynumber: 2.2 Consensus size: 44
22174589 GTAGGTCAAA
*
22174599 TAATATTAAAATAACCTACACTAGTC-AGAGTTTAAGTGAGAAAT
1 TAATATTAAAATAACCTACACTAATCGA-AGTTTAAGTGAGAAAT
* *
22174643 TAATATTAAAATAACTTACACTAATCGAAGTTTAAGTGGGAAAT
1 TAATATTAAAATAACCTACACTAATCGAAGTTTAAGTGAGAAAT
*
22174687 TAAAATTA
1 TAATATTA
22174695 TAATTTAACT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
44 46 0.98
45 1 0.02
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.31
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATCGAAGTTTAAGTGAGAAAT
Found at i:22177508 original size:15 final size:16
Alignment explanation
Indices: 22177485--22177517 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
22177475 GTGAGTGTTC
*
22177485 AATCGAATCGAAT-AA
1 AATCAAATCGAATGAA
22177500 AATCAAATCGAATGAA
1 AATCAAATCGAATGAA
22177516 AA
1 AA
22177518 AAATTTCGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.18
Consensus pattern (16 bp):
AATCAAATCGAATGAA
Found at i:22177617 original size:5 final size:5
Alignment explanation
Indices: 22177607--22177637 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
22177597 GAGATGGAAT
*
22177607 TCGAA TCGAA TCGAA TCGAA TTGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
22177638 ATATTTGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (5 bp):
TCGAA
Found at i:22178171 original size:18 final size:18
Alignment explanation
Indices: 22178111--22178171 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 18
22178101 AAATGGTGAG
*
22178111 AAGTAAAAGTTTAGGGGAA
1 AAGTAAAAGTTTAAGGG-A
* *
22178130 AATTAAAAAGTTT-TGGG-
1 AAGT-AAAAGTTTAAGGGA
*
22178147 GAGTAAAAGTTTAAGGGA
1 AAGTAAAAGTTTAAGGGA
22178165 AAGTAAA
1 AAGTAAA
22178172 TAGGGGGAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
16 8 0.24
17 5 0.15
18 6 0.18
19 6 0.18
20 8 0.24
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.25
Consensus pattern (18 bp):
AAGTAAAAGTTTAAGGGA
Found at i:22182124 original size:41 final size:40
Alignment explanation
Indices: 22182073--22182149 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 40
22182063 AGATTAAAAA
* *
22182073 AATGTGTAAGTTTAT-TATATATATTATAATATAAAAATCTT
1 AATGTGTAAGTATATATAT-TATAATATAATA-AAAAATCTT
*
22182114 AATGTTTAAGTATATATATTATAATATAATAAAAAA
1 AATGTGTAAGTATATATATTATAATATAATAAAAAA
22182150 GGAAAGAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
40 5 0.16
41 24 0.75
42 3 0.09
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.43
Consensus pattern (40 bp):
AATGTGTAAGTATATATATTATAATATAATAAAAAATCTT
Found at i:22183535 original size:26 final size:25
Alignment explanation
Indices: 22183492--22183542 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
22183482 GAAACAAGTG
*
22183492 AAATATGATATAATTGTTGTAATATTT
1 AAATATGATATAAGTGTT-T-ATATTT
*
22183519 AAATATTA-ATAAGTGTTTATATTT
1 AAATATGATATAAGTGTTTATATTT
22183543 CAATTGTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 6 0.27
25 1 0.05
26 8 0.36
27 7 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (25 bp):
AAATATGATATAAGTGTTTATATTT
Found at i:22188848 original size:39 final size:38
Alignment explanation
Indices: 22188775--22188849 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 38
22188765 AATTAATTAT
*
22188775 AATTTAAGTTTATATATTTGATATATCATAATATTAATG
1 AATTTAAGTTTATATATTTCATATAT-ATAATATTAATG
* *
22188814 AATTTGAGTTTATATATATTCCATATAT-TTATATTA
1 AATTTAAGTTTATATAT-TT-CATATATATAATATTA
22188850 TAATATTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
39 23 0.74
40 2 0.06
41 6 0.19
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.51
Consensus pattern (38 bp):
AATTTAAGTTTATATATTTCATATATATAATATTAATG
Found at i:22189322 original size:23 final size:22
Alignment explanation
Indices: 22189286--22189328 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
22189276 TAAAAGCCTT
* *
22189286 TTAAAAATGTTAAAATTATAAA
1 TTAAAAATGATAAAAATATAAA
22189308 TTAATAAATGATAAAAATATA
1 TTAA-AAATGATAAAAATATA
22189329 TTTTGACCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (22 bp):
TTAAAAATGATAAAAATATAAA
Found at i:22195465 original size:17 final size:17
Alignment explanation
Indices: 22195443--22195476 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22195433 TATTGAGTTC
*
22195443 ACCAAAGAGTTTCTTTA
1 ACCAAAGAGCTTCTTTA
*
22195460 ACCAAATAGCTTCTTTA
1 ACCAAAGAGCTTCTTTA
22195477 CAAGCCTCAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (17 bp):
ACCAAAGAGCTTCTTTA
Found at i:22198842 original size:14 final size:14
Alignment explanation
Indices: 22198825--22198852 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
22198815 CTATTATTTA
22198825 TGGAAATTTGTTCT
1 TGGAAATTTGTTCT
22198839 TGGAAATTTGTTCT
1 TGGAAATTTGTTCT
22198853 GATTGTGTCA
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:0.21, C:0.07, G:0.21, T:0.50
Consensus pattern (14 bp):
TGGAAATTTGTTCT
Found at i:22200994 original size:11 final size:11
Alignment explanation
Indices: 22200978--22201038 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
22200968 GAAAAGACTG
22200978 ATTAAAAAGTT
1 ATTAAAAAGTT
22200989 ATT--AAAGTT
1 ATTAAAAAGTT
*
22200998 ATTGAAAAGTT
1 ATTAAAAAGTT
** *
22201009 ATACTAAATGGAT
1 AT--TAAAAAGTT
22201022 ATTAAAAAGTT
1 ATTAAAAAGTT
22201033 ATTAAA
1 ATTAAA
22201039 GTGTTAATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
9 9 0.23
11 23 0.59
13 7 0.18
ACGTcount: A:0.51, C:0.02, G:0.11, T:0.36
Consensus pattern (11 bp):
ATTAAAAAGTT
Found at i:22216752 original size:46 final size:45
Alignment explanation
Indices: 22216700--22216815 Score: 155
Period size: 46 Copynumber: 2.5 Consensus size: 45
22216690 CCTGAGCTGA
* *
22216700 TAAACAGTAAGCTCTATTGAGCTGAAAAT-GGTAAGCTCTATTGAGC
1 TAAACAGTAAGCTCT-TTGAGCTG-AAATCGGTAAGCTCCAATGAGC
22216746 TAAACAGTAAGCTCTTTCGAGCT-AAATCGGTAAGCTCCAATGAGC
1 TAAACAGTAAGCTCTTT-GAGCTGAAATCGGTAAGCTCCAATGAGC
22216791 TGAAACAGTAAGCTCTTATGAGCTG
1 T-AAACAGTAAGCTCTT-TGAGCTG
22216816 TGGTGAGTCC
Statistics
Matches: 63, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
44 4 0.06
45 18 0.29
46 40 0.63
47 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (45 bp):
TAAACAGTAAGCTCTTTGAGCTGAAATCGGTAAGCTCCAATGAGC
Found at i:22216790 original size:23 final size:23
Alignment explanation
Indices: 22216692--22216815 Score: 123
Period size: 23 Copynumber: 5.3 Consensus size: 23
22216682 AAGCTCCTCC
22216692 TGAGCTGATAAACAGTAAGCTCTAT
1 TGAGCTG--AAACAGTAAGCTCTAT
22216717 TGAGCTGAAA-ATGGTAAGCTCTAT
1 TGAGCTGAAACA--GTAAGCTCTAT
22216741 TGAGCT-AAACAGTAAGCTCT-T
1 TGAGCTGAAACAGTAAGCTCTAT
* * *
22216762 TCGAGCT-AAATCGGTAAGCTCCAA
1 T-GAGCTGAAA-CAGTAAGCTCTAT
22216786 TGAGCTGAAACAGTAAGCTCT-T
1 TGAGCTGAAACAGTAAGCTCTAT
22216808 ATGAGCTG
1 -TGAGCTG
22216816 TGGTGAGTCC
Statistics
Matches: 85, Mismatches: 6, Indels: 18
0.78 0.06 0.17
Matches are distributed among these distances:
21 2 0.02
22 18 0.21
23 36 0.42
24 22 0.26
25 7 0.08
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTAT
Found at i:22220933 original size:23 final size:23
Alignment explanation
Indices: 22220899--22220945 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
22220889 ATCAGCGGTA
*
22220899 AACCTGGAAATTCTTCTGGAAAT
1 AACCTGGAAATTCTTCTAGAAAT
*
22220922 AACCTGGTAATTCTTCTAGAAAT
1 AACCTGGAAATTCTTCTAGAAAT
22220945 A
1 A
22220946 CATCCAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (23 bp):
AACCTGGAAATTCTTCTAGAAAT
Found at i:22224730 original size:25 final size:23
Alignment explanation
Indices: 22224701--22224746 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
22224691 AAATAAAAAC
*
22224701 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
22224726 TTTAAAACATAAAAACAAATA
1 TTTAAAACATAAAAACAAATA
22224747 AAAAATAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:22226226 original size:13 final size:12
Alignment explanation
Indices: 22226208--22226232 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22226198 TCCCCTTTTT
22226208 AAAAAAAGAAAC
1 AAAAAAAGAAAC
22226220 AAAAAAAGAAAC
1 AAAAAAAGAAAC
22226232 A
1 A
22226233 TTGAATCCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAC
Found at i:22227422 original size:21 final size:21
Alignment explanation
Indices: 22227393--22227432 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22227383 ATTCATGTAT
*
22227393 TTTATTATATATGTATATATC
1 TTTAATATATATGTATATATC
*
22227414 TTTAATATATATTTATATA
1 TTTAATATATATGTATATA
22227433 AGTATATCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTAATATATATGTATATATC
Found at i:22227794 original size:22 final size:24
Alignment explanation
Indices: 22227768--22227826 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 24
22227758 TCCGTATATC
*
22227768 ATATTATTCATTTTTAT-ACTTAT
1 ATATTATTCATTATTATCACTTAT
*
22227791 -TATT-TTCATTATTGTCACTTAT
1 ATATTATTCATTATTATCACTTAT
22227813 ATATTATT-ATTATT
1 ATATTATTCATTATT
22227827 TGGTGTACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
21 9 0.29
22 10 0.32
23 10 0.32
24 2 0.06
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (24 bp):
ATATTATTCATTATTATCACTTAT
Found at i:22229200 original size:15 final size:15
Alignment explanation
Indices: 22229169--22229212 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
22229159 TGATTAAATT
*
22229169 ATAATGATAGT-ATA
1 ATAATGATAATAATA
22229183 ATAATGATAATAATA
1 ATAATGATAATAATA
*
22229198 ATAATGAGAATAATA
1 ATAATGATAATAATA
22229213 TATGTAGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (15 bp):
ATAATGATAATAATA
Found at i:22229293 original size:11 final size:11
Alignment explanation
Indices: 22229266--22229311 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 11
22229256 AAAAGGTAAC
22229266 AAATAACTAAGTG
1 AAATAA-TAA-TG
22229279 AAATAATAATG
1 AAATAATAATG
22229290 AAATAATAATG
1 AAATAATAATG
22229301 ATGAATAATAA
1 A--AATAATAA
22229312 AACAGTAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
11 14 0.45
12 3 0.10
13 14 0.45
ACGTcount: A:0.61, C:0.02, G:0.11, T:0.26
Consensus pattern (11 bp):
AAATAATAATG
Found at i:22230962 original size:24 final size:24
Alignment explanation
Indices: 22230920--22231023 Score: 101
Period size: 24 Copynumber: 4.4 Consensus size: 24
22230910 AAGCTCCTCC
**
22230920 TGAGCTGATAAACAATAAGCTCTAT
1 TGAGCTGA-AAACGGTAAGCTCTAT
22230945 TGAGCTGAAAACGGTAAGCTCTAT
1 TGAGCTGAAAACGGTAAGCTCTAT
22230969 TGAGCTGAACAA---TAAGCTCT-T
1 TGAGCTGAA-AACGGTAAGCTCTAT
* * *
22230990 TCGAGCTG-AATCGGTAAGCTCCAA
1 T-GAGCTGAAAACGGTAAGCTCTAT
22231014 TGAGCTGAAA
1 TGAGCTGAAA
22231024 TAGTAAGCTC
Statistics
Matches: 67, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
20 1 0.01
21 3 0.04
22 14 0.21
23 13 0.19
24 26 0.39
25 10 0.15
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (24 bp):
TGAGCTGAAAACGGTAAGCTCTAT
Found at i:22230987 original size:46 final size:45
Alignment explanation
Indices: 22230930--22231042 Score: 140
Period size: 46 Copynumber: 2.5 Consensus size: 45
22230920 TGAGCTGATA
* *
22230930 AACAATAAGCTCTATT-GAGCTGAAAACGGTAAGCTCTATTGAGCTG
1 AACAATAAGCTCT-TTCGAGCTG-AAACGGTAAGCTCCAATGAGCTG
*
22230976 AACAATAAGCTCTTTCGAGCTGAATCGGTAAGCTCCAATGAGCTG
1 AACAATAAGCTCTTTCGAGCTGAAACGGTAAGCTCCAATGAGCTG
*
22231021 AA-ATAGTAAGCTCTTACGAGCT
1 AACA-A-TAAGCTCTTTCGAGCT
22231043 ATGGTGAGTC
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
44 1 0.02
45 25 0.42
46 34 0.57
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (45 bp):
AACAATAAGCTCTTTCGAGCTGAAACGGTAAGCTCCAATGAGCTG
Found at i:22231041 original size:23 final size:23
Alignment explanation
Indices: 22230970--22231042 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
22230960 AAGCTCTATT
* *
22230970 GAGCTGAA-CAATAAGCTCTTTC
1 GAGCTGAATCAGTAAGCTCTTAC
* ** *
22230992 GAGCTGAATCGGTAAGCTCCAAT
1 GAGCTGAATCAGTAAGCTCTTAC
22231015 GAGCTGAAAT-AGTAAGCTCTTAC
1 GAGCTG-AATCAGTAAGCTCTTAC
22231038 GAGCT
1 GAGCT
22231043 ATGGTGAGTC
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
22 8 0.21
23 28 0.72
24 3 0.08
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (23 bp):
GAGCTGAATCAGTAAGCTCTTAC
Found at i:22236198 original size:7 final size:7
Alignment explanation
Indices: 22236179--22236220 Score: 66
Period size: 7 Copynumber: 5.9 Consensus size: 7
22236169 TAGAACATAC
22236179 TTTTGGAA
1 TTTTGG-A
22236187 TTTTGGA
1 TTTTGGA
22236194 TTTTGGA
1 TTTTGGA
22236201 TTTTGGA
1 TTTTGGA
*
22236208 TTTTGGG
1 TTTTGGA
22236215 TTTTGG
1 TTTTGG
22236221 TTATGTGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
7 27 0.82
8 6 0.18
ACGTcount: A:0.12, C:0.00, G:0.31, T:0.57
Consensus pattern (7 bp):
TTTTGGA
Found at i:22241184 original size:30 final size:30
Alignment explanation
Indices: 22241150--22241233 Score: 168
Period size: 30 Copynumber: 2.8 Consensus size: 30
22241140 CAACTAAATC
22241150 CTAGCCACACTTGCTCCACCACCAACTCCA
1 CTAGCCACACTTGCTCCACCACCAACTCCA
22241180 CTAGCCACACTTGCTCCACCACCAACTCCA
1 CTAGCCACACTTGCTCCACCACCAACTCCA
22241210 CTAGCCACACTTGCTCCACCACCA
1 CTAGCCACACTTGCTCCACCACCA
22241234 CTTCTACCTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.26, C:0.50, G:0.07, T:0.17
Consensus pattern (30 bp):
CTAGCCACACTTGCTCCACCACCAACTCCA
Found at i:22241198 original size:18 final size:18
Alignment explanation
Indices: 22241175--22241228 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
22241165 CCACCACCAA
22241175 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
22241193 CTCCACCA-CCA-A----
1 CTCCACTAGCCACACTTG
22241205 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
22241223 CTCCAC
1 CTCCAC
22241229 CACCACTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 7 0.25
13 3 0.11
14 1 0.04
16 1 0.04
17 3 0.11
18 13 0.46
ACGTcount: A:0.24, C:0.50, G:0.07, T:0.19
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:22241425 original size:16 final size:15
Alignment explanation
Indices: 22241406--22241435 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
22241396 TTGTAAAGGC
22241406 TAGTTTTTGGAGAGAG
1 TAGTTTTTGG-GAGAG
22241422 TAGTTTTTGGGAGA
1 TAGTTTTTGGGAGA
22241436 TTAATCAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (15 bp):
TAGTTTTTGGGAGAG
Found at i:22241748 original size:23 final size:23
Alignment explanation
Indices: 22241711--22241840 Score: 86
Period size: 25 Copynumber: 5.5 Consensus size: 23
22241701 TTTTTTTTGT
*
22241711 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATACTA
* *
22241734 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATACTA
** * *
22241756 TATTAGGTATATTCTAAATTCTA
1 TATTATATATATTCTTAATACTA
*
22241779 TATTACGTATATATATATT-ATACTA
1 TATTA--TATATAT-TCTTAATACTA
* *
22241804 TTTTATGTATATATCTTTAATACTA
1 TATTATATATAT-TC-TTAATACTA
*
22241829 TATTATTTATAT
1 TATTATATATAT
22241841 ATATATATTT
Statistics
Matches: 82, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
22 17 0.21
23 27 0.33
24 6 0.07
25 30 0.37
26 2 0.02
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (23 bp):
TATTATATATATTCTTAATACTA
Found at i:22241804 original size:25 final size:26
Alignment explanation
Indices: 22241776--22241846 Score: 92
Period size: 25 Copynumber: 2.8 Consensus size: 26
22241766 ATTCTAAATT
*
22241776 CTATATTACGTATATATATATT-ATA
1 CTATATTATGTATATATATATTAATA
* *
22241801 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATTAATA
*
22241826 CTATATTATTTATATATATAT
1 CTATATTATGTATATATATAT
22241847 ATTTTTTACA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
24 2 0.05
25 35 0.92
26 1 0.03
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.54
Consensus pattern (26 bp):
CTATATTATGTATATATATATTAATA
Done.