Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 67 of 145
Found at i:22254568 original size:25 final size:25
Alignment explanation
Indices: 22254540--22254621 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
22254530 GTATACTCAT
*
22254540 ACGAGCTATGAATCGGTATGCTCTC
1 ACGAGCTATGAATCGGTAAGCTCTC
* *
22254565 ACGAGCTGTAAATCGGTAAGCTCAT-
1 ACGAGCTATGAATCGGTAAGCTC-TC
* *
22254590 ACGAGATGA-GAATTGGTAAGCTCTC
1 ACGAGCT-ATGAATCGGTAAGCTCTC
*
22254615 ATGAGCT
1 ACGAGCT
22254622 GCAAATTGGT
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
24 1 0.02
25 43 0.96
26 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (25 bp):
ACGAGCTATGAATCGGTAAGCTCTC
Found at i:22254613 original size:50 final size:50
Alignment explanation
Indices: 22254535--22254644 Score: 150
Period size: 50 Copynumber: 2.2 Consensus size: 50
22254525 TACATGTATA
* * *
22254535 CTCATACGAGCTATGAATCGGTATGCTCTCACGAGCTGTAAATCGGTAAG
1 CTCATACGAGATATGAATCGGTAAGCTCTCACGAGCTGCAAATCGGTAAG
* * *
22254585 CTCATACGAGATGA-GAATTGGTAAGCTCTCATGAGCTGCAAATTGGTAAG
1 CTCATACGAGAT-ATGAATCGGTAAGCTCTCACGAGCTGCAAATCGGTAAG
22254635 CTCATACGAG
1 CTCATACGAG
22254645 CTGTGGTGTG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 52 0.98
51 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (50 bp):
CTCATACGAGATATGAATCGGTAAGCTCTCACGAGCTGCAAATCGGTAAG
Found at i:22254628 original size:25 final size:24
Alignment explanation
Indices: 22254554--22254647 Score: 93
Period size: 25 Copynumber: 3.8 Consensus size: 24
22254544 GCTATGAATC
* *
22254554 GGTATGCTCTCACGAGCTGTAAATC
1 GGTAAGCTCTCACGAGCTG-AAATT
*
22254579 GGTAAGCTCAT-ACGAGATGAGAATT
1 GGTAAGCTC-TCACGAGCTGA-AATT
*
22254604 GGTAAGCTCTCATGAGCTGCAAATT
1 GGTAAGCTCTCACGAGCTG-AAATT
22254629 GGTAAGCTCAT-ACGAGCTG
1 GGTAAGCTC-TCACGAGCTG
22254648 TGGTGTGTCT
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
24 2 0.03
25 53 0.91
26 3 0.05
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (24 bp):
GGTAAGCTCTCACGAGCTGAAATT
Found at i:22261622 original size:25 final size:25
Alignment explanation
Indices: 22261593--22261666 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 25
22261583 AACAAGCTGT
* *
22261593 AAATCAGTAAGCTCATACGAGCTA-
1 AAATCGGTAAGCTCATATGAGCTAC
22261617 AGAATCGGTAAGCTC-TCATGAGCTAC
1 A-AATCGGTAAGCTCAT-ATGAGCTAC
*
22261643 AAATTGGTAAGCTCATATGAGCTA
1 AAATCGGTAAGCTCATATGAGCTA
22261667 TGGTGTGTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
24 2 0.05
25 39 0.91
26 2 0.05
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.24
Consensus pattern (25 bp):
AAATCGGTAAGCTCATATGAGCTAC
Found at i:22265846 original size:121 final size:121
Alignment explanation
Indices: 22265686--22265927 Score: 387
Period size: 121 Copynumber: 2.0 Consensus size: 121
22265676 TAGGGTGAGA
* * * * *
22265686 CTATTATTGTTTTCTCGATGGATACTTGTGGTATAATCAGATTATAGTAGCGCTAGAAGATCAAC
1 CTATTACTATTTTCTCAATGGATACTTGTGGTATAATCAGATTATAATAGCGCTAGAAGATCAAA
* *
22265751 ACAAAACAACATTCACATGCCCATACGATACATTTGCACTTAGACGCATGTCATTT
66 ACAAAACAACATTCACATGCCCATACGATACACTTGCACTTAGACGCATGCCATTT
22265807 CTATTACTATTTTCTCAATGGATACTTG-GGATATAATCAGATTATAATAGCGCTAGAAGATCAA
1 CTATTACTATTTTCTCAATGGATACTTGTGG-TATAATCAGATTATAATAGCGCTAGAAGATCAA
* *
22265871 AACAAAACAACATTCACATGCCTATACGATACACTTGCATTTAGACGCATGCCATTT
65 AACAAAACAACATTCACATGCCCATACGATACACTTGCACTTAGACGCATGCCATTT
22265928 GGTTTATGTA
Statistics
Matches: 111, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
120 2 0.02
121 109 0.98
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (121 bp):
CTATTACTATTTTCTCAATGGATACTTGTGGTATAATCAGATTATAATAGCGCTAGAAGATCAAA
ACAAAACAACATTCACATGCCCATACGATACACTTGCACTTAGACGCATGCCATTT
Found at i:22269119 original size:16 final size:16
Alignment explanation
Indices: 22269098--22269132 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
22269088 TGCACCAGTC
* *
22269098 CTGCTCTCATACGCTG
1 CTGCTCCCACACGCTG
22269114 CTGCTCCCACACGCTG
1 CTGCTCCCACACGCTG
22269130 CTG
1 CTG
22269133 TCATTTCTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.11, C:0.43, G:0.20, T:0.26
Consensus pattern (16 bp):
CTGCTCCCACACGCTG
Found at i:22275531 original size:17 final size:16
Alignment explanation
Indices: 22275492--22275548 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
22275482 CATACATTTC
* *
22275492 AAAAAGAAAAAAAACA
1 AAAAATAAAAAAAATA
22275508 AATAAATAAATAAAAATA
1 AA-AAATAAA-AAAAATA
*
22275526 AAAAATAAAACCAAATA
1 AAAAATAAAA-AAAATA
22275543 AAAAAT
1 AAAAAT
22275549 TAAAGGTCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 3 0.09
17 24 0.69
18 8 0.23
ACGTcount: A:0.81, C:0.05, G:0.02, T:0.12
Consensus pattern (16 bp):
AAAAATAAAAAAAATA
Found at i:22279177 original size:88 final size:88
Alignment explanation
Indices: 22279079--22279439 Score: 453
Period size: 88 Copynumber: 4.1 Consensus size: 88
22279069 GTAGTGGAGT
*
22279079 AGATCGAAGACACTAGCATTGCCTCCCTGGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTG
1 AGATCGAAGACACTAGCATTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTG
* *
22279144 CCTTCCTGTACTGACTA-TGAAAC
66 CCTTCCTGTACTGAC-AGCGAAGC
* * *
22279167 AGATCAAAGACACTAG-ACTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTT
1 AGATCGAAGACACTAGCA-TTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTT
22279231 GCCTTCC--TACATCGACAGCGAAGC
65 GCCTTCCTGTAC-T-GACAGCGAAGC
* * * *
22279255 AGATCGAAGACACTAGCCTTGCCTCCCTAGGTTACAGCAGAGCAGGTTGAAGATAGCAGATCTTG
1 AGATCGAAGACACTAGCATTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTG
* * *
22279320 CCTTCCTGCACTGGCAGCGAATC
66 CCTTCCTGTACTGACAGCGAAGC
* * * *
22279343 AGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAA-AGCACCAGATCTT
1 AGATCGAAGACACTAGCATTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGA-TAGCAGATCTT
* * **
22279407 GCCTTCCTGTATTGGCAATGAAGC
65 GCCTTCCTGTACTGACAGCGAAGC
22279431 AGATCGAAG
1 AGATCGAAG
22279440 CCAATAATCC
Statistics
Matches: 238, Mismatches: 27, Indels: 16
0.85 0.10 0.06
Matches are distributed among these distances:
86 3 0.01
87 4 0.02
88 228 0.96
89 1 0.00
90 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (88 bp):
AGATCGAAGACACTAGCATTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTG
CCTTCCTGTACTGACAGCGAAGC
Found at i:22279373 original size:176 final size:176
Alignment explanation
Indices: 22279079--22279414 Score: 512
Period size: 176 Copynumber: 1.9 Consensus size: 176
22279069 GTAGTGGAGT
* * **
22279079 AGATCGAAGACACTAGCATTGCCTCCCTGGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTG
1 AGATCGAAGACACTAGCATTGCCTCCCTAGGTTACAGCAGAGCAGGTTGAAGATAGCAGATCTTG
* * *
22279144 CCTTCCTGTACTGACTATGAAACAGATCAAAGACACTAGACTTGCCTCCCTGGGTTGCAGCGGAG
66 CCTTCCTGCACTGACTACGAAACAGATCAAAGACACCAGACTTGCCTCCCTGGGTTGCAGCGGAG
* *
22279209 CAGGTTAAAAATAGCAGATCTTGCCTTCCTACATCGACAGCGAAGC
131 CAGGTTAAAAACACCAGATCTTGCCTTCCTACATCGACAGCGAAGC
*
22279255 AGATCGAAGACACTAGCCTTGCCTCCCTAGGTTACAGCAGAGCAGGTTGAAGATAGCAGATCTTG
1 AGATCGAAGACACTAGCATTGCCTCCCTAGGTTACAGCAGAGCAGGTTGAAGATAGCAGATCTTG
* * * *
22279320 CCTTCCTGCACTGGC-AGCGAATCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGA
66 CCTTCCTGCACTGACTA-CGAAACAGATCAAAGACACCAGACTTGCCTCCCTGGGTTGCAGCGGA
* *
22279384 GCAGGTTGAAAGCACCAGATCTTGCCTTCCT
130 GCAGGTTAAAAACACCAGATCTTGCCTTCCT
22279415 GTATTGGCAA
Statistics
Matches: 143, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
175 1 0.01
176 142 0.99
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.22
Consensus pattern (176 bp):
AGATCGAAGACACTAGCATTGCCTCCCTAGGTTACAGCAGAGCAGGTTGAAGATAGCAGATCTTG
CCTTCCTGCACTGACTACGAAACAGATCAAAGACACCAGACTTGCCTCCCTGGGTTGCAGCGGAG
CAGGTTAAAAACACCAGATCTTGCCTTCCTACATCGACAGCGAAGC
Found at i:22279408 original size:44 final size:44
Alignment explanation
Indices: 22279097--22279415 Score: 171
Period size: 44 Copynumber: 7.2 Consensus size: 44
22279087 GACACTAGCA
* * *
22279097 TTGCCTCCCTGGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATC
1 TTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGACACCAGATC
* *** * * * * ** *
22279141 TTGCCTTCCTGTACTGACTA-TGAAACAGATCAAAGACACTAGA-C
1 TTGCCTCCCTGGGTTG-C-AGCGGAGCAGGTTGAAGACACCAGATC
* * * *
22279185 TTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATC
1 TTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGACACCAGATC
* *** * * * * * *
22279229 TTGCCTTCCTACATCGACAGCGAAGCAGATCGAAGACACTAG-CC
1 TTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTGAAGACACCAGATC
* * * * *
22279273 TTGCCTCCCTAGGTTACAGCAGAGCAGGTTGAAGATAGCAGATC
1 TTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGACACCAGATC
* ** * * * * * *
22279317 TTGCCTTCCTGCACTGGCAGCGAATCAGATCGAAGACACCAG-CC
1 TTGCCTCCCTG-GGTTGCAGCGGAGCAGGTTGAAGACACCAGATC
22279361 TTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAA-AGCACCAGATC
1 TTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGA-CACCAGATC
*
22279405 TTGCCTTCCTG
1 TTGCCTCCCTG
22279416 TATTGGCAAT
Statistics
Matches: 190, Mismatches: 76, Indels: 18
0.67 0.27 0.06
Matches are distributed among these distances:
42 2 0.01
43 54 0.28
44 81 0.43
45 52 0.27
46 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.26, T:0.23
Consensus pattern (44 bp):
TTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGACACCAGATC
Found at i:22279588 original size:44 final size:45
Alignment explanation
Indices: 22279528--22279619 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 45
22279518 TGGATCGCAT
* * *
22279528 CAAGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGAA-AG
1 CAAGCCTTATCCCCCTGAAGTTGCAGCGGAGCAGACTGAGAATAG
* * *
22279572 CAAGCCTTATCCCCCTGAAGTTGCAGTGGGGTAGACTGAGAATAG
1 CAAGCCTTATCCCCCTGAAGTTGCAGCGGAGCAGACTGAGAATAG
22279617 CAA
1 CAA
22279620 ATCTTACTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 36 0.88
45 5 0.12
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (45 bp):
CAAGCCTTATCCCCCTGAAGTTGCAGCGGAGCAGACTGAGAATAG
Found at i:22279812 original size:41 final size:41
Alignment explanation
Indices: 22279766--22279909 Score: 137
Period size: 41 Copynumber: 3.4 Consensus size: 41
22279756 AAATAAAAGA
*
22279766 TCTTATCTCTCT-AGAGTTACAGTAGAGTAGATCACATCATG
1 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCACATCAAG
* * * ** * * *
22279807 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAG
1 TCTTATCTCTCTGAAGTTACAGTAGAGTAGA-TCACAT-CAAG
* *
22279850 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
1 -TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAAG
*
22279892 TCTTATCTCCCTGAAGTT
1 TCTTATCTCTCTGAAGTT
22279910 GCAGCGGAGC
Statistics
Matches: 79, Mismatches: 20, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
41 41 0.52
42 7 0.09
43 5 0.06
44 26 0.33
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (41 bp):
TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAAG
Found at i:22279869 original size:85 final size:85
Alignment explanation
Indices: 22279725--22279946 Score: 329
Period size: 85 Copynumber: 2.6 Consensus size: 85
22279715 TTACAAATCC
* *
22279725 TATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAATAAAAGATCTTATCTCTCTAGAGTTACAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTAGAGTTACAGTA
*
22279790 GAGTAGATCACATCATGTCT
66 GAGTAGATCACATCAGGTCT
22279810 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCT-GAAGTTACAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTAG-AGTTACAGT
*
22279874 AGAGTAGATCGCATCAGGTCT
65 AGAGTAGATCACATCAGGTCT
* * * * *
22279895 TATCTCCCTGAAGTTGCAGCGGAGCTGATCGAAGAATTACAGATCTTATCTC
1 TATCTCCCTGAAGTTGCAGTGGAGCGGAT-TAA-AATAAAAGATCTTATCTC
22279947 CCTAAGCAGT
Statistics
Matches: 125, Mismatches: 9, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
84 1 0.01
85 106 0.85
86 2 0.02
87 16 0.13
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (85 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTAGAGTTACAGTA
GAGTAGATCACATCAGGTCT
Found at i:22279925 original size:41 final size:41
Alignment explanation
Indices: 22279795--22279924 Score: 118
Period size: 41 Copynumber: 3.1 Consensus size: 41
22279785 CAGTAGAGTA
* *
22279795 GATCACATCATGTCTTATCTCCCTGAAGTTGCAGTGGAGCG
1 GATCACATCAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCT
* * * * * * *
22279836 GATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAG-T
1 GA-TCACAT--CAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCT
* *
22279879 AGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCT
1 -GATCACATCAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCT
22279921 GATC
1 GATC
22279925 GAAGAATTAC
Statistics
Matches: 66, Mismatches: 18, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
41 31 0.47
42 5 0.08
43 3 0.05
44 27 0.41
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (41 bp):
GATCACATCAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCT
Found at i:22279989 original size:44 final size:45
Alignment explanation
Indices: 22279892--22280009 Score: 148
Period size: 44 Copynumber: 2.6 Consensus size: 45
22279882 TCGCATCAGG
* * * * *
22279892 TCTTATCTCCCTGAAGTTGCAGCGGAGCTGATCGAAGAATTACAGA
1 TCTTATCTCCCT-AAGTAGTAGCGGAGCAGATCAAAGAATGACAGA
* *
22279938 TCTTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAG-ATGGCAGA
1 TCTTATCTCCCTAAGTAGTAGCGGAGCAGATCAAAGAATGACAGA
*
22279982 TCTTATCTCCCTAAGTAGTAGTGGAGCA
1 TCTTATCTCCCTAAGTAGTAGCGGAGCA
22280010 AATTGTAGCC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 32 0.51
45 19 0.30
46 12 0.19
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (45 bp):
TCTTATCTCCCTAAGTAGTAGCGGAGCAGATCAAAGAATGACAGA
Found at i:22280150 original size:173 final size:172
Alignment explanation
Indices: 22279961--22280355 Score: 610
Period size: 173 Copynumber: 2.3 Consensus size: 172
22279951 AGCAGTAGCG
* *
22279961 GAGCAGATCAAAGATGGCAGATCTTATCTCCCTAAGTAGTAGTGGAGCAAATTGTAGCCAGTAAT
1 GAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATTGTAGCCAGTAAT
* *
22280026 CCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATATTATCTCTCTGGAGTTGTAG
66 CCTATCTCCCTGAAGTTGCAGTGGAGCGGATT-AAATAAAAGATATTAACTCTCTAGAGTTGTAG
* * *
22280091 TAGAGTAGATCGCATCATGTCTTATCTCACTGAAGTTGCAGTA
130 TAGAGTAGATCACATCAGGTCTTATCTCACTGAAGTTACAGTA
* *
22280134 GAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATTGTAGCCAGTAAT
1 GAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATTGTAGCCAGTAAT
* * *
22280199 CCTATCTCCCTGAAGTTGTAGTGGAGCGTATTAAATAAAAGATCTTAACTCTCTAGAGTTGTAGT
66 CCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAATAAAAGATATTAACTCTCTAGAGTTGTAGT
*
22280264 AGAGTAGATCACATCAGGTCTTATCTCCCTGAAGTTACAGTA
131 AGAGTAGATCACATCAGGTCTTATCTCACTGAAGTTACAGTA
* *** *
22280306 GAGCAGACCGAAGAATTATAGATCTTATCTCCCTAAGCAGTAGCGGAGCA
1 GAGCAGATCGAAG-ATGGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCA
22280356 GATCGAAGAT
Statistics
Matches: 202, Mismatches: 19, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
172 80 0.40
173 122 0.60
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (172 bp):
GAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATTGTAGCCAGTAAT
CCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAATAAAAGATATTAACTCTCTAGAGTTGTAGT
AGAGTAGATCACATCAGGTCTTATCTCACTGAAGTTACAGTA
Found at i:22280334 original size:218 final size:217
Alignment explanation
Indices: 22280134--22280748 Score: 966
Period size: 218 Copynumber: 2.8 Consensus size: 217
22280124 AGTTGCAGTA
*
22280134 GAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATTGTAGCCAGTAAT
1 GAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGTAGCCAGTAAT
* * * *
22280199 CCTATCTCCCTGAAGTTGTAGTGGAGCGTATT-AAATAAAAGATCTTAACTCTCT-AGAGTTGTA
66 CCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGA-AGTTGCA
* * *
22280262 GTAGAGTAGATCACATCAGGTCTTATCTCCCTGAAGTTACAGTAGAGCAGACCGAAGAATTATAG
130 GTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTTACAGCAGAGCAGACCGAAGAATTAGAG
*
22280327 ATCTTATCTCCCTAAGCAGTAGCG
195 ATCTTATCT-CCTAAGCAGTAGTG
*
22280351 GAGCAGATCGAAGATGGCAGATCTAATCTCCCTAAGCAGTAGTGGAGCAGATTGTAGCCAGTAAT
1 GAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGTAGCCAGTAAT
* *
22280416 CCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAAGATCTTATCCCTCTGAAGTTGCAG
66 CCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAG
* * *
22280481 TAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGAATTAGAGA
131 TAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTTACAGCAGAGCAGACCGAAGAATTAGAGA
22280546 TCTTATCTCCTTAAGCAGTAGTG
196 TCTTATCTCC-TAAGCAGTAGTG
* * * *
22280569 GAGCAGATTGAAGATGGCAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATTGAAACCAGTAAT
1 GAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGTAGCCAGTAAT
* *
22280634 CCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATAAAAGATCTTATCTCTCTGAAGTGGCAG
66 CCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAG
* *
22280699 TAGAGTAGATCGCATCAGGTCTTATCTCCCT-AAGGTTGCAGCGGAGCAGA
131 TAGAGTAGATCGCATCAGGTCTTATCTCCCTGAA-GTTACAGCAGAGCAGA
22280749 TCAAGGAAGC
Statistics
Matches: 370, Mismatches: 24, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
217 96 0.26
218 273 0.74
219 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (217 bp):
GAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGTAGCCAGTAAT
CCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAG
TAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTTACAGCAGAGCAGACCGAAGAATTAGAGA
TCTTATCTCCTAAGCAGTAGTG
Found at i:22280340 original size:390 final size:392
Alignment explanation
Indices: 22279810--22280578 Score: 1224
Period size: 390 Copynumber: 2.0 Consensus size: 392
22279800 CATCATGTCT
*
22279810 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCTTAACTCTCTGAAGTTACAGTA
* * * * *
22279875 GAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCTGATCGAAGAATTACAGATC
66 GAGTAGATCACATCAGGTCTTATCTCCCTGAAGTTACAGCAGAGCAGACCGAAGAATTACAGATC
* *
22279940 TTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGATGGCAGATCTTATCTCCCTAAGTAGTAGTG
131 TTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGATGGCAGATCTAATCTCCCTAAGCAGTAGTG
*
22280005 GAGCAAATTGTAGCCAGTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGAT
196 GAGCAAATTGTAGCCAGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAAGAT
* * * * *
22280070 ATTATCTCTCTGGAGTTGTAGTAGAGTAGATCGCATCATGTCTTATCTCACTGAAGTTGCAGTAG
261 ATTATCCCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCACTGAAGTTGCAGCAG
*
22280135 AGCAGA-TCGAAG-A-TGGCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATTGTAGCCAGTA
326 AGCAGACT-GAAGAATTAG-AGATCTTATCTCCCTAAGCAGTAGTGGAACAGATTGTAGCCAGTA
22280197 ATCC
389 ATCC
* * **
22280201 TATCTCCCTGAAGTTGTAGTGGAGCGTATT-AAATAAAAGATCTTAACTCTCT-AGAGTTGTAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCTTAACTCTCTGA-AGTTACAGT
* *
22280264 AGAGTAGATCACATCAGGTCTTATCTCCCTGAAGTTACAGTAGAGCAGACCGAAGAATTATAGAT
65 AGAGTAGATCACATCAGGTCTTATCTCCCTGAAGTTACAGCAGAGCAGACCGAAGAATTACAGAT
*
22280329 CTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGGCAGATCTAATCTCCCTAAGCAGTAGT
130 CTTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGATGGCAGATCTAATCTCCCTAAGCAGTAGT
*
22280394 GGAGCAGATTGTAGCCAGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAAGA
195 GGAGCAAATTGTAGCCAGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAAGA
* * *
22280459 TCTTATCCCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCG
260 TATTATCCCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCACTGAAGTTGCAGCA
* *
22280524 GAGCAGACTGAAGAATTAGAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATTG
325 GAGCAGACTGAAGAATTAGAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATTG
22280579 AAGATGGCAG
Statistics
Matches: 346, Mismatches: 28, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
389 1 0.00
390 279 0.81
391 64 0.18
392 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (392 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCTTAACTCTCTGAAGTTACAGTA
GAGTAGATCACATCAGGTCTTATCTCCCTGAAGTTACAGCAGAGCAGACCGAAGAATTACAGATC
TTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGATGGCAGATCTAATCTCCCTAAGCAGTAGTG
GAGCAAATTGTAGCCAGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAAGAT
ATTATCCCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCACTGAAGTTGCAGCAG
AGCAGACTGAAGAATTAGAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATTGTAGCCAGTAAT
CC
Found at i:22280363 original size:45 final size:44
Alignment explanation
Indices: 22280306--22280402 Score: 131
Period size: 44 Copynumber: 2.2 Consensus size: 44
22280296 AGTTACAGTA
* * * *
22280306 GAGCAGACCGAAGAATTATAGATCTTATCTCCCTAAGCAGTAGCG
1 GAGCAGATCGAAG-ATGACAGATCTAATCTCCCTAAGCAGTAGCG
* *
22280351 GAGCAGATCGAAGATGGCAGATCTAATCTCCCTAAGCAGTAGTG
1 GAGCAGATCGAAGATGACAGATCTAATCTCCCTAAGCAGTAGCG
22280395 GAGCAGAT
1 GAGCAGAT
22280403 TGTAGCCAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 34 0.74
45 12 0.26
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.21
Consensus pattern (44 bp):
GAGCAGATCGAAGATGACAGATCTAATCTCCCTAAGCAGTAGCG
Found at i:22280581 original size:45 final size:44
Alignment explanation
Indices: 22280500--22280624 Score: 144
Period size: 44 Copynumber: 2.8 Consensus size: 44
22280490 TCGCATCAGG
** * * *
22280500 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGAATTAG-AGA
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGATTGAAG-A-TAGCAGA
* *
22280546 TCTTATCTCCTTAAGCAGTAGTGGAGCAGATTGAAGATGGCAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATAGCAGA
*
22280590 TCTTATCTCCCTAAGCAGTAGTAGAGCAGATTGAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAA
22280625 ACCAGTAATC
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
43 2 0.03
44 37 0.54
45 19 0.28
46 11 0.16
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATAGCAGA
Found at i:22280605 original size:44 final size:45
Alignment explanation
Indices: 22280500--22280693 Score: 139
Period size: 44 Copynumber: 4.4 Consensus size: 45
22280490 TCGCATCAGG
* * * *
22280500 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGAATTAG-AGA
1 TCTTATCTCCCTGAAGTAGTAGTGGAGCAGATTGAAG-A-TAGCAGA
* * *
22280546 TCTTATCT-CCTTAAGCAGTAGTGGAGCAGATTGAAGATGGCAGA
1 TCTTATCTCCCTGAAGTAGTAGTGGAGCAGATTGAAGATAGCAGA
* * * *
22280590 TCTTATCTCCCT-AAGCAGTAGTAGAGCAGATTGAA-ACCAGTA-A
1 TCTTATCTCCCTGAAGTAGTAGTGGAGCAGATTGAAGA-TAGCAGA
* * * ** * **
22280633 TCCTATCTCCCTGAAGTTGCAGTGGAGTGGATT-AAAATAAAAGA
1 TCTTATCTCCCTGAAGTAGTAGTGGAGCAGATTGAAGATAGCAGA
*
22280677 TCTTATCTCTCTGAAGT
1 TCTTATCTCCCTGAAGT
22280694 GGCAGTAGAG
Statistics
Matches: 119, Mismatches: 23, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
43 19 0.16
44 67 0.56
45 25 0.21
46 8 0.07
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTAGTAGTGGAGCAGATTGAAGATAGCAGA
Found at i:22280724 original size:390 final size:388
Alignment explanation
Indices: 22279810--22280752 Score: 1026
Period size: 390 Copynumber: 2.4 Consensus size: 388
22279800 CATCATGTCT
** * * * * * * * *
22279810 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCT-GAAGTTACAGT
1 TATCTCCCTGAAGCAGTAGTAGAGCGTATT-AAACAAAAGATCCTAACTCCCTAG-AGTTGCAGT
*** * * ** * *
22279874 AGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTTG-CAGCGGAGCTGATCGAAGAATTACAGA
64 AGAGTAGATAAAATAAGATCTTATCTCCCTGAAG-TGACAGTAGAGCAGA-C-CAGAATTACAGA
* *
22279938 TCTTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGATGGCAGATCTTATCTCCCTAAGTAGTAG
126 TCTTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGATGGCAGATCTAATCTCCCTAAGCAGTAG
*
22280003 TGGAGCAAATTGTAGCCAGTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAG
191 TGGAGCAAATTGTAGCCAGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAAG
* * * * *
22280068 ATATTATCTCTCTGGAGTTGTAGTAGAGTAGATCGCATCATGTCTTATCTCACTGAAGTTGCAGT
256 ATATTATCCCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCACTGAAGTTGCAGC
* * * *
22280133 AGAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATTGTAGCCAGTAA
321 AGAGCAGATCGAAGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATTGAAGACAGCAA
22280198 TCC
386 TCC
** * * * * *
22280201 TATCTCCCTGAAGTTGTAGTGGAGCGTATTAAATAAAAGATCTTAACTCTCTAGAGTTGTAGTAG
1 TATCTCCCTGAAGCAGTAGTAGAGCGTATTAAACAAAAGATCCTAACTCCCTAGAGTTGCAGTAG
* * * * * *
22280266 AGTAGATCACATCAGGTCTTATCTCCCTGAAGTTACAGTAGAGCAGACCGAAGAATTATAGATCT
66 AGTAGATAAAATAAGATCTTATCTCCCTGAAGTGACAGTAGAGCAGACC--AGAATTACAGATCT
*
22280331 TATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGGCAGATCTAATCTCCCTAAGCAGTAGTGG
129 TATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGATGGCAGATCTAATCTCCCTAAGCAGTAGTGG
* *
22280396 AGCAGATTGTAGCCAGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAAGATC
194 AGCAAATTGTAGCCAGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAAGATA
* *
22280461 TTATCCCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCGGA
259 TTATCCCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCACTGAAGTTGCAGCAGA
* * **
22280526 GCAGA-CTGAAGAATTAG-AGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATTGAAGATGGCAG
324 GCAGATC-GAAG-A-TAGCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATTGAAGACAGCA-
*
22280589 ATCT
385 ATCC
** *
22280593 TATCTCCCT-AAGCAGTAGTAGAGCAG-ATTGAAACCAGTA-ATCCTATCTCCCT-GAAGTTGCA
1 TATCTCCCTGAAGCAGTAGTAGAGC-GTATT-AAA-CAAAAGATCCTAACTCCCTAG-AGTTGCA
* * * * * * *
22280654 GTGGAGTGGATTAAAATAAAAGATCTTATCTCTCTGAAGTGGCAGTAGAGTAGATC-GCA-T-CA
62 GTAGAGTAGA-TAAAAT--AAGATCTTATCTCCCTGAAGTGACAGTAGAGCAGACCAGAATTACA
* ** *
22280716 GGTCTTATCTCCCTAAGGTTGCAGCGGAGCAGATCAA
124 GATCTTATCTCCCTAA-GCAGTAGCGGAGCAGATCAA
22280753 GGAAGCAAGT
Statistics
Matches: 474, Mismatches: 62, Indels: 32
0.83 0.11 0.06
Matches are distributed among these distances:
389 3 0.01
390 290 0.61
391 101 0.21
392 44 0.09
393 6 0.01
395 30 0.06
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (388 bp):
TATCTCCCTGAAGCAGTAGTAGAGCGTATTAAACAAAAGATCCTAACTCCCTAGAGTTGCAGTAG
AGTAGATAAAATAAGATCTTATCTCCCTGAAGTGACAGTAGAGCAGACCAGAATTACAGATCTTA
TCTCCCTAAGCAGTAGCGGAGCAGATCAAAGATGGCAGATCTAATCTCCCTAAGCAGTAGTGGAG
CAAATTGTAGCCAGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAAGATATT
ATCCCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCACTGAAGTTGCAGCAGAGC
AGATCGAAGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATTGAAGACAGCAATCC
Found at i:22286323 original size:49 final size:49
Alignment explanation
Indices: 22286251--22286346 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
22286241 TTTGGGAACG
22286251 CAGAAATAGATAAGTTTTTGTAATGCTCCCCTACTTTCCTATTACTTGT
1 CAGAAATAGATAAGTTTTTGTAATGCTCCCCTACTTTCCTATTACTTGT
**
22286300 CAGAAATAGATAAGTTTTTGTAATGCTTGCCTACTTTCCTATTACTT
1 CAGAAATAGATAAGTTTTTGTAATGCTCCCCTACTTTCCTATTACTT
22286347 TCCTTGTTCG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (49 bp):
CAGAAATAGATAAGTTTTTGTAATGCTCCCCTACTTTCCTATTACTTGT
Found at i:22291070 original size:101 final size:102
Alignment explanation
Indices: 22290875--22291084 Score: 273
Period size: 101 Copynumber: 2.1 Consensus size: 102
22290865 CAAAAAATAT
* * *
22290875 CGATACATTTTTGGCCAAGTATCGATATATTCTGAATTATCGATACCCTCTCTTAAAAATGATGC
1 CGATACATTTTTGGCCAAGTATCGATATATTCTGAATTATCGATACCCCCTCTTAAAAACGATAC
* * *
22290940 CAAAATGGAATTTTGTTTCACAAACCCTACTAAGTAC
66 CAAAATAGAATTTTGTTTCACAAAACCTACAAAGTAC
* * * *
22290977 CGATACCTTTTT-GTCAAGTATCGATATTTTCTGAATTATCGATACCCCCTCTT-AAAGCGATAC
1 CGATACATTTTTGGCCAAGTATCGATATATTCTGAATTATCGATACCCCCTCTTAAAAACGATAC
* *
22291040 C-AAATAGCATTTTGTTTCTCACAAAACCTACAAAGTAT
66 CAAAATAGAATTTTG-TT-TCACAAAACCTACAAAGTAC
22291078 CGATACA
1 CGATACA
22291085 GCATTGATGC
Statistics
Matches: 93, Mismatches: 13, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
99 11 0.12
100 10 0.11
101 61 0.66
102 11 0.12
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (102 bp):
CGATACATTTTTGGCCAAGTATCGATATATTCTGAATTATCGATACCCCCTCTTAAAAACGATAC
CAAAATAGAATTTTGTTTCACAAAACCTACAAAGTAC
Found at i:22302829 original size:26 final size:26
Alignment explanation
Indices: 22302800--22302850 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
22302790 GGGTTTTATT
*
22302800 CTTGTAGACTAAGAAACTAAAATTAA
1 CTTGTAGAATAAGAAACTAAAATTAA
* *
22302826 CTTGTAGAATAAGAACCTATAATTA
1 CTTGTAGAATAAGAAACTAAAATTA
22302851 GGGTAACTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (26 bp):
CTTGTAGAATAAGAAACTAAAATTAA
Found at i:22303508 original size:37 final size:37
Alignment explanation
Indices: 22303467--22303553 Score: 140
Period size: 37 Copynumber: 2.4 Consensus size: 37
22303457 GAAACTAGAG
22303467 AAACTAATCCC-TATGTTGGGATTAATTTTGGAATTCT
1 AAACT-ATCCCTTATGTTGGGATTAATTTTGGAATTCT
*
22303504 AAACTCTCCCTTATGTTGGGATTAATTTTGGAATTCT
1 AAACTATCCCTTATGTTGGGATTAATTTTGGAATTCT
*
22303541 AAACTCTCCCTTA
1 AAACTATCCCTTA
22303554 AGCTAGAGGC
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
36 4 0.08
37 44 0.92
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (37 bp):
AAACTATCCCTTATGTTGGGATTAATTTTGGAATTCT
Found at i:22306076 original size:13 final size:13
Alignment explanation
Indices: 22306060--22306084 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22306050 CAAAATGTAC
22306060 AATATAAATAAAT
1 AATATAAATAAAT
22306073 AATATAAATAAA
1 AATATAAATAAA
22306085 ATAAAATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AATATAAATAAAT
Found at i:22307453 original size:18 final size:18
Alignment explanation
Indices: 22307430--22307468 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
22307420 GGGTAAACAG
22307430 TTAA-TTAAATTATTTTAT
1 TTAATTTAAATTA-TTTAT
*
22307448 TTAATTTATATTATTTAT
1 TTAATTTAAATTATTTAT
22307466 TTA
1 TTA
22307469 TATTGTACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTAATTTAAATTATTTAT
Found at i:22307456 original size:14 final size:14
Alignment explanation
Indices: 22307434--22307472 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
22307424 AAACAGTTAA
* *
22307434 TTAAATTATTTTAT
1 TTAATTTATATTAT
22307448 TTAATTTATATTAT
1 TTAATTTATATTAT
22307462 TT-ATTTATATT
1 TTAATTTATATT
22307473 GTACATTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 9 0.39
14 14 0.61
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTAATTTATATTAT
Found at i:22308150 original size:333 final size:333
Alignment explanation
Indices: 22307544--22308210 Score: 1334
Period size: 333 Copynumber: 2.0 Consensus size: 333
22307534 ACGGCACATG
22307544 TGTTCTCGAATTACAAAAATTAGCAATTAAAGTGCTTAGTCAAACAACTTCAGCATCAAATTGCG
1 TGTTCTCGAATTACAAAAATTAGCAATTAAAGTGCTTAGTCAAACAACTTCAGCATCAAATTGCG
22307609 AACGAAATTGGAGTACATTTAGTTATATTCACACCAAGACAAGAAATAGGTTAAAGTATAAAAAG
66 AACGAAATTGGAGTACATTTAGTTATATTCACACCAAGACAAGAAATAGGTTAAAGTATAAAAAG
22307674 CTTGAGAAACTAGTGTTTACCTATTATAGTATGAGGCTTCAGATAAGGCATCAAAAAAGAATAAG
131 CTTGAGAAACTAGTGTTTACCTATTATAGTATGAGGCTTCAGATAAGGCATCAAAAAAGAATAAG
22307739 CACGGATGATAAAAATGCTAGTTTTAATCCTATCAGCCTTGATCATATCTTTGAAGATGTTGATC
196 CACGGATGATAAAAATGCTAGTTTTAATCCTATCAGCCTTGATCATATCTTTGAAGATGTTGATC
22307804 CACTATCAGAATGGCTTCATGAGAAAGAGAATCCATTGTTAGATGGTGAAAATGTCGGTGTGTTG
261 CACTATCAGAATGGCTTCATGAGAAAGAGAATCCATTGTTAGATGGTGAAAATGTCGGTGTGTTG
22307869 CTTGTGGA
326 CTTGTGGA
22307877 TGTTCTCGAATTACAAAAATTAGCAATTAAAGTGCTTAGTCAAACAACTTCAGCATCAAATTGCG
1 TGTTCTCGAATTACAAAAATTAGCAATTAAAGTGCTTAGTCAAACAACTTCAGCATCAAATTGCG
22307942 AACGAAATTGGAGTACATTTAGTTATATTCACACCAAGACAAGAAATAGGTTAAAGTATAAAAAG
66 AACGAAATTGGAGTACATTTAGTTATATTCACACCAAGACAAGAAATAGGTTAAAGTATAAAAAG
22308007 CTTGAGAAACTAGTGTTTACCTATTATAGTATGAGGCTTCAGATAAGGCATCAAAAAAGAATAAG
131 CTTGAGAAACTAGTGTTTACCTATTATAGTATGAGGCTTCAGATAAGGCATCAAAAAAGAATAAG
22308072 CACGGATGATAAAAATGCTAGTTTTAATCCTATCAGCCTTGATCATATCTTTGAAGATGTTGATC
196 CACGGATGATAAAAATGCTAGTTTTAATCCTATCAGCCTTGATCATATCTTTGAAGATGTTGATC
22308137 CACTATCAGAATGGCTTCATGAGAAAGAGAATCCATTGTTAGATGGTGAAAATGTCGGTGTGTTG
261 CACTATCAGAATGGCTTCATGAGAAAGAGAATCCATTGTTAGATGGTGAAAATGTCGGTGTGTTG
22308202 CTTGTGGA
326 CTTGTGGA
22308210 T
1 T
22308211 ACTTATGATG
Statistics
Matches: 334, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
333 334 1.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (333 bp):
TGTTCTCGAATTACAAAAATTAGCAATTAAAGTGCTTAGTCAAACAACTTCAGCATCAAATTGCG
AACGAAATTGGAGTACATTTAGTTATATTCACACCAAGACAAGAAATAGGTTAAAGTATAAAAAG
CTTGAGAAACTAGTGTTTACCTATTATAGTATGAGGCTTCAGATAAGGCATCAAAAAAGAATAAG
CACGGATGATAAAAATGCTAGTTTTAATCCTATCAGCCTTGATCATATCTTTGAAGATGTTGATC
CACTATCAGAATGGCTTCATGAGAAAGAGAATCCATTGTTAGATGGTGAAAATGTCGGTGTGTTG
CTTGTGGA
Found at i:22314095 original size:5 final size:5
Alignment explanation
Indices: 22314087--22314114 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
22314077 ATGGTATTTT
22314087 TATAA TATAA TATAA TATAA TATAA TAT
1 TATAA TATAA TATAA TATAA TATAA TAT
22314115 TTACTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:22317120 original size:67 final size:67
Alignment explanation
Indices: 22317032--22317216 Score: 280
Period size: 67 Copynumber: 2.7 Consensus size: 67
22317022 TACCTGACAT
* *
22317032 CATAGCCTAGCTATGGTCTTACACAGTATACCCCATGTTTAATGTCTTGGCGGACTTCTTTTGTT
1 CATAGCCTAGCTATGGTCTTACACAGTATACCCCATGTTTAATGTCCTGGCGGACTTCCTTTGTT
22317097 GC
66 GC
* * *
22317099 CATAGTCTAGCTATGGTCTTACACAGTATACCCTATGTTTAATGTCCTGGTGGACTTCCTTTGTT
1 CATAGCCTAGCTATGGTCTTACACAGTATACCCCATGTTTAATGTCCTGGCGGACTTCCTTTGTT
22317164 GC
66 GC
* * *
22317166 CATAGCCTAGCTATGTTCTTACATAGTATATATCCCATGTTTAATGTCCTG
1 CATAGCCTAGCTATGGTCTTACACAG--TATACCCCATGTTTAATGTCCTG
22317217 ACGGGCTCTT
Statistics
Matches: 106, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
67 85 0.80
69 21 0.20
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (67 bp):
CATAGCCTAGCTATGGTCTTACACAGTATACCCCATGTTTAATGTCCTGGCGGACTTCCTTTGTT
GC
Found at i:22324049 original size:18 final size:16
Alignment explanation
Indices: 22324017--22324063 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
22324007 GACAACCCAA
22324017 TTTTATTTTTATTTTG
1 TTTTATTTTTATTTTG
22324033 TTTTATATTTTACTTTT-
1 TTTTAT-TTTTA-TTTTG
*
22324050 TTCTA-TTTTATTTT
1 TTTTATTTTTATTTT
22324064 CTTGCATGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 4 0.14
15 5 0.18
16 6 0.21
17 9 0.32
18 4 0.14
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTTATTTTTATTTTG
Found at i:22326653 original size:18 final size:19
Alignment explanation
Indices: 22326612--22326654 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
22326602 TAAAGATAAG
*
22326612 ATATTTTATCATCTTTTAAC
1 ATATTTTATCATC-TTTAAA
*
22326632 ATATTTTATTATC-TTAAA
1 ATATTTTATCATCTTTAAA
22326650 ATATT
1 ATATT
22326655 ATTTATTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 9 0.43
20 12 0.57
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (19 bp):
ATATTTTATCATCTTTAAA
Found at i:22327256 original size:23 final size:24
Alignment explanation
Indices: 22327229--22327279 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
22327219 TGTCAAAAAA
22327229 ATATCT-TTTT-TTATAAAAATATT
1 ATATCTATTTTATTAT-AAAATATT
*
22327252 ATATCTAATTTTATTATTAAATATT
1 ATATCT-ATTTTATTATAAAATATT
22327277 ATA
1 ATA
22327280 ATTAATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 6 0.25
25 14 0.58
26 4 0.17
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (24 bp):
ATATCTATTTTATTATAAAATATT
Found at i:22327522 original size:133 final size:134
Alignment explanation
Indices: 22327273--22327540 Score: 529
Period size: 133 Copynumber: 2.0 Consensus size: 134
22327263 TATTATTAAA
22327273 TATTATAATTAATTTTAGAAAATATTTTTATTATATTTTTATAACTATTTATTAATTTGTGTAAA
1 TATTATAATTAATTTTAGAAAATATTTTTATTATATTTTTATAACTATTTATTAATTTGTGTAAA
22327338 TTATAATATCAATATTTAAGAAAAGTATTGATGGTTAAAACATGACTTTATATATAAGAGGTATT
66 TTATAATATCAATATTTAAGAAAAGTATTGATGGTTAAAACATGACTTTATATATAAGAGGTATT
22327403 GGGT
131 GGGT
22327407 TATTATAATT-ATTTTAGAAAATATTTTTATTATATTTTTATAACTATTTATTAATTTGTGTAAA
1 TATTATAATTAATTTTAGAAAATATTTTTATTATATTTTTATAACTATTTATTAATTTGTGTAAA
22327471 TTATAATATCAATATTTAAGAAAAGTATTGATGGTTAAAACATGACTTTATATATAAGAGGTATT
66 TTATAATATCAATATTTAAGAAAAGTATTGATGGTTAAAACATGACTTTATATATAAGAGGTATT
22327536 GGGT
131 GGGT
22327540 T
1 T
22327541 CAAGCCTTGT
Statistics
Matches: 134, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
133 124 0.93
134 10 0.07
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.47
Consensus pattern (134 bp):
TATTATAATTAATTTTAGAAAATATTTTTATTATATTTTTATAACTATTTATTAATTTGTGTAAA
TTATAATATCAATATTTAAGAAAAGTATTGATGGTTAAAACATGACTTTATATATAAGAGGTATT
GGGT
Found at i:22335590 original size:24 final size:24
Alignment explanation
Indices: 22335562--22335749 Score: 121
Period size: 24 Copynumber: 7.6 Consensus size: 24
22335552 ATATAATAAA
22335562 AAGCTCATAAGAGCCATAATCGGG
1 AAGCTCATAAGAGCCATAATCGGG
**
22335586 AAGCTCATGCGAGCCAATAA-CGGG
1 AAGCTCATAAGAGCC-ATAATCGGG
* ** *
22335610 TAGCTCCGAAGAGCCATTAA-CGTG
1 AAGCTCATAAGAGCCA-TAATCGGG
*
22335634 AAGCTC-TAGATAGCCATATATCGGG
1 AAGCTCATA-AGAGCCATA-ATCGGG
*** *
22335659 AAGCTCCGGAGAGCCATTAATCAGG
1 AAGCTCATAAGAGCCA-TAATCGGG
* * *
22335684 AAGCTCACAAAGAGCCTTTAATCGAG
1 AAGCTCA-TAAGAGCC-ATAATCGGG
* *
22335710 AAGCTCATGAAGAGCCATATAACGAG
1 AAGCTCAT-AAGAGCCATA-ATCGGG
*
22335736 ACGCTCATAAGAGC
1 AAGCTCATAAGAGC
22335750 TGTGGTGTGC
Statistics
Matches: 127, Mismatches: 26, Indels: 21
0.73 0.15 0.12
Matches are distributed among these distances:
23 4 0.03
24 45 0.35
25 38 0.30
26 40 0.31
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (24 bp):
AAGCTCATAAGAGCCATAATCGGG
Found at i:22335704 original size:26 final size:26
Alignment explanation
Indices: 22335618--22335742 Score: 82
Period size: 26 Copynumber: 4.9 Consensus size: 26
22335608 GGTAGCTCCG
* *
22335618 AAGAGCCATTAA-CGTGAAGCTC-TA
1 AAGAGCCATTAATCGAGAAGCTCACA
* * * *
22335642 GATAGCCA-TATATCGGGAAGCTC-CG
1 AAGAGCCATTA-ATCGAGAAGCTCACA
*
22335667 GAGAGCCATTAATC-AGGAAGCTCACA
1 AAGAGCCATTAATCGA-GAAGCTCACA
* **
22335693 AAGAGCCTTTAATCGAGAAGCTCATG
1 AAGAGCCATTAATCGAGAAGCTCACA
*
22335719 AAGAGCCATATAA-CGAGACGCTCA
1 AAGAGCCAT-TAATCGAGAAGCTCA
22335743 TAAGAGCTGT
Statistics
Matches: 80, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
23 2 0.03
24 7 0.09
25 26 0.32
26 41 0.51
27 4 0.05
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.18
Consensus pattern (26 bp):
AAGAGCCATTAATCGAGAAGCTCACA
Found at i:22341013 original size:24 final size:24
Alignment explanation
Indices: 22340985--22341172 Score: 121
Period size: 24 Copynumber: 7.6 Consensus size: 24
22340975 ATATAATAAA
22340985 AAGCTCATAAGAGCCATAATCGGG
1 AAGCTCATAAGAGCCATAATCGGG
**
22341009 AAGCTCATGCGAGCCAATAA-CGGG
1 AAGCTCATAAGAGCC-ATAATCGGG
* ** *
22341033 TAGCTCCGAAGAGCCATTAA-CGTG
1 AAGCTCATAAGAGCCA-TAATCGGG
*
22341057 AAGCTC-TAGATAGCCATATATCGGG
1 AAGCTCATA-AGAGCCATA-ATCGGG
*** *
22341082 AAGCTCCGGAGAGCCATTAATCAGG
1 AAGCTCATAAGAGCCA-TAATCGGG
* * *
22341107 AAGCTCACAAAGAGCCTTTAATCGAG
1 AAGCTCA-TAAGAGCC-ATAATCGGG
* *
22341133 AAGCTCATGAAGAGCCATATAACGAG
1 AAGCTCAT-AAGAGCCATA-ATCGGG
*
22341159 ACGCTCATAAGAGC
1 AAGCTCATAAGAGC
22341173 TGTGGTGTGC
Statistics
Matches: 127, Mismatches: 26, Indels: 21
0.73 0.15 0.12
Matches are distributed among these distances:
23 4 0.03
24 45 0.35
25 38 0.30
26 40 0.31
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (24 bp):
AAGCTCATAAGAGCCATAATCGGG
Found at i:22341127 original size:26 final size:26
Alignment explanation
Indices: 22341041--22341165 Score: 82
Period size: 26 Copynumber: 4.9 Consensus size: 26
22341031 GGTAGCTCCG
* *
22341041 AAGAGCCATTAA-CGTGAAGCTC-TA
1 AAGAGCCATTAATCGAGAAGCTCACA
* * * *
22341065 GATAGCCA-TATATCGGGAAGCTC-CG
1 AAGAGCCATTA-ATCGAGAAGCTCACA
*
22341090 GAGAGCCATTAATC-AGGAAGCTCACA
1 AAGAGCCATTAATCGA-GAAGCTCACA
* **
22341116 AAGAGCCTTTAATCGAGAAGCTCATG
1 AAGAGCCATTAATCGAGAAGCTCACA
*
22341142 AAGAGCCATATAA-CGAGACGCTCA
1 AAGAGCCAT-TAATCGAGAAGCTCA
22341166 TAAGAGCTGT
Statistics
Matches: 80, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
23 2 0.03
24 7 0.09
25 26 0.32
26 41 0.51
27 4 0.05
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.18
Consensus pattern (26 bp):
AAGAGCCATTAATCGAGAAGCTCACA
Found at i:22342864 original size:2 final size:2
Alignment explanation
Indices: 22342852--22342882 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
22342842 CAGAGACTAC
*
22342852 TA TA GA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22342883 TAAAGTTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:22344174 original size:43 final size:42
Alignment explanation
Indices: 22344078--22344303 Score: 147
Period size: 43 Copynumber: 5.3 Consensus size: 42
22344068 TACTTTGATT
* ** *
22344078 TATCCAATGATGCACTGTGTGTGCCAGTATAATTGCTTTCGCT-
1 TATCCGATGATGCACT-TACGTGCCAGTATAATTGC-TTCGGTA
* * *
22344121 TTTCTGATGATGCACTATATGTGCCAGTATAATTGCTTCGGTA
1 TATCCGATGATGCACT-TACGTGCCAGTATAATTGCTTCGGTA
* * * * *
22344164 TATCCAATGATGTACTTACG-GTCCAGTATATTTTCTTTGGTA
1 TATCCGATGATGCACTTACGTG-CCAGTATAATTGCTTCGGTA
* * * * * * * *
22344206 CATCCGTTGATGCGC-TACGTGTCAGCATAATTGCTCCGATT
1 TATCCGATGATGCACTTACGTGCCAGTATAATTGCTTCGGTA
* *
22344247 TTTCCGATGATGCAC-TACGCGTGCCAGTATAATTGCTTTTGGT-
1 TATCCGATGATGCACTTA--CGTGCCAGTATAATTGC-TTCGGTA
*
22344290 TGTCCGATGATGCA
1 TATCCGATGATGCA
22344304 TTGTGTGTTC
Statistics
Matches: 140, Mismatches: 37, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
41 30 0.21
42 36 0.26
43 71 0.51
44 3 0.02
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.37
Consensus pattern (42 bp):
TATCCGATGATGCACTTACGTGCCAGTATAATTGCTTCGGTA
Found at i:22349998 original size:22 final size:21
Alignment explanation
Indices: 22349973--22350035 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
22349963 GCCAGTTAAT
22349973 AGAACGGCTAAAAGCCATAAGC
1 AGAACGGCTAAAAGCCATAA-C
* * *
22349995 AGAAAGGC-AGTAAGCCTTGAAC
1 AGAACGGCTA-AAAGCCAT-AAC
*
22350017 AGAACGGCTACAAGCCATA
1 AGAACGGCTAAAAGCCATA
22350036 CACTTCCTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
21 2 0.06
22 27 0.84
23 3 0.09
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.11
Consensus pattern (21 bp):
AGAACGGCTAAAAGCCATAAC
Found at i:22350259 original size:27 final size:25
Alignment explanation
Indices: 22350206--22350261 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 25
22350196 TAAAATGGTA
* *
22350206 ATTTTACCCCAGGGGTATTTTGGTC
1 ATTTTACCCCAGGGGTATTTCGATC
*
22350231 ATTTTACCCTACGAGGGTATTTCGATC
1 ATTTTACCCCA-G-GGGTATTTCGATC
22350258 ATTT
1 ATTT
22350262 AATAACCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 10 0.38
26 1 0.04
27 15 0.58
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (25 bp):
ATTTTACCCCAGGGGTATTTCGATC
Found at i:22352373 original size:16 final size:16
Alignment explanation
Indices: 22352348--22352378 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22352338 ATCGAAGTTT
22352348 CACTACAGTTTCAGTC
1 CACTACAGTTTCAGTC
*
22352364 CACTATAGTTTCAGT
1 CACTACAGTTTCAGT
22352379 TTGCTCTATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (16 bp):
CACTACAGTTTCAGTC
Found at i:22358256 original size:85 final size:87
Alignment explanation
Indices: 22358111--22358376 Score: 292
Period size: 86 Copynumber: 3.1 Consensus size: 87
22358101 GTTTTTGGAA
* * * * *
22358111 ATAAACGCTGCTATAGACCATGACCTTTAGCGGC-ACTTTCCTCACAAACGCCGCTATAGATCAG
1 ATAAACGCCGCTATAGATCAAGACCTTTAGCGGCGATTTTCCTCACAAACGCCGCTATAGATCAA
*
22358175 GACCATTAGGGGCG-TTTTTCC
66 GACCATTAGCGGCGCTTTTTCC
* * *
22358196 ATAAACGCCGCTATAGATCAGGATCTTTAGCGGCGATTTTCC-CACAAACGCCGCTGTAGATCAA
1 ATAAACGCCGCTATAGATCAAGACCTTTAGCGGCGATTTTCCTCACAAACGCCGCTATAGATCAA
* *
22358260 GACCTTTAGCGGCGCTTTTTCT
66 GACCATTAGCGGCGCTTTTTCC
* * * *
22358282 ACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTT-ATCAAAAAACGCCGCTATAGAAT-
1 ATAAACGCCGCTATAGATCAAGACCTTTAGCGGCGATTTTCCTC-ACAAACGCCGCTATAG-ATC
* * * *
22358345 AA-ACCTTTAGCGACGCTTCTTGC
64 AAGACCATTAGCGGCGCTTTTTCC
*
22358368 AAAAACGCC
1 ATAAACGCC
22358377 ACTAAAAACT
Statistics
Matches: 154, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
85 62 0.40
86 74 0.48
87 16 0.10
88 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (87 bp):
ATAAACGCCGCTATAGATCAAGACCTTTAGCGGCGATTTTCCTCACAAACGCCGCTATAGATCAA
GACCATTAGCGGCGCTTTTTCC
Found at i:22358371 original size:43 final size:42
Alignment explanation
Indices: 22358113--22358376 Score: 264
Period size: 43 Copynumber: 6.2 Consensus size: 42
22358103 TTTTGGAAAT
* * * * * *
22358113 AAACGCTGCTATAGACCATGACCTTTAGCGGCACTTTCCTCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTT-TTCAA
* * * *
22358156 AAACGCCGCTATAGATCAGGACCATTAGGGGCG-TTTTTCCAT
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTT-CAA
* * * * *
22358198 AAACGCCGCTATAGATCAGGATCTTTAGCGGCGATTTTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTT-TCAA
* *
22358241 AAACGCCGCTGTAGATCAAGACCTTTAGCGGCGCTTTTTCTAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTC-AA
22358284 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTATCAAA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTT-TC-AA
* *
22358328 AAACGCCGCTATAGAAT-AA-ACCTTTAGCGACGCTTCTTGCAA
1 AAACGCCGCTATAG-ATCAAGACCTTTAGCGGCGCTT-TTTCAA
22358370 AAACGCC
1 AAACGCC
22358377 ACTAAAAACT
Statistics
Matches: 191, Mismatches: 23, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.01
42 45 0.24
43 122 0.64
44 21 0.11
45 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (42 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCAA
Found at i:22361940 original size:107 final size:105
Alignment explanation
Indices: 22361651--22362075 Score: 638
Period size: 106 Copynumber: 4.0 Consensus size: 105
22361641 ACAAAGAATT
* *
22361651 TTTCATTTTGAACAAAATGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTATTTATAAAT
1 TTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTTTATTTATAAAT
*
22361716 TGATTTATTTTTTGCGTCATTTTAATAAAAAAACGCCGCTA
66 TGATTTATTTTTTGCGGCATTTT-ATAAAAAAACGCCGCTA
* *
22361757 TTTCATTTTGAACAAAATGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTATTTATAAAT
1 TTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTTTATTTATAAAT
*
22361822 TGATTTATTTTTTGCGTCATTTTAATAAAAAAACGCCGCTA
66 TGATTTATTTTTTGCGGCATTTT-ATAAAAAAACGCCGCTA
*
22361863 TTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTGTTTTTTATAAA
1 TTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTT-TTATTTATAAA
* * * * *
22361928 TTGATTTATTTTTTGCGGCGTTTTTTATAAAAATGACGCTA
65 TTGATTTATTTTTTGCGGCATTTTATAAAAAAACGCCGCTA
* * *
22361969 TTTCATTTTGAACAAAATGACACAGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTTATAA
1 TTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTA-TTT-TTTATTTATAA
* *
22362034 ATTGATTTATTTTTTGCGGCGTTTT-T-TAAAAACGCCGCTA
64 ATTGATTTATTTTTTGCGGCATTTTATAAAAAAACGCCGCTA
22362074 TT
1 TT
22362076 GCTTATCTTT
Statistics
Matches: 303, Mismatches: 13, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
105 14 0.05
106 218 0.72
107 70 0.23
108 1 0.00
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.49
Consensus pattern (105 bp):
TTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTTTATTTATAAAT
TGATTTATTTTTTGCGGCATTTTATAAAAAAACGCCGCTA
Found at i:22362410 original size:41 final size:41
Alignment explanation
Indices: 22362350--22362429 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
22362340 TAAAATATTT
* *
22362350 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCCAGCA
1 TTAGCGGCACTTTTCCAAAAACGCCGCCAAAGCCCCCAGCA
*
22362391 TTAGCGGCACTTTTTCAAAAACGCCGCCAAAGCCCCCAG
1 TTAGCGGCACTTTTCCAAAAACGCCGCCAAAGCCCCCAG
22362430 AATTTTTGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.28, C:0.36, G:0.19, T:0.17
Consensus pattern (41 bp):
TTAGCGGCACTTTTCCAAAAACGCCGCCAAAGCCCCCAGCA
Found at i:22362632 original size:104 final size:104
Alignment explanation
Indices: 22362465--22362842 Score: 337
Period size: 115 Copynumber: 3.4 Consensus size: 104
22362455 CATTGCGTCA
* * * *
22362465 TTGGACTTAGGTTTTTTTGCCGCGCATTCTCAAAAACGCCGCTAAAGCCCTGAGCATTGGCGGCG
1 TTGGGCTTAGG-TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAG-CCTGAGCATTAGCGGCG
* * *
22362530 CTTTCTTAAAAACGCCTCTAAATCTCCGAAAGCT-TCATCG
64 CTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTAGCATCG
* * *
22362570 TTGGGCTTAGGTTTTTTGCGGCACTTTCTCAAAAACGGCGCTAAAGCCTTGAGTATTAGCGGCGC
1 TTGGGCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCC-TGAGCATTAGCGGCGC
* *
22362635 TTTAC-TAAAAATGCCGCTAAATCCCCGAAAACTCACAAAACGGCATCG
65 TTT-CTTAAAAACGCCGCTAAATCCCCGAAAGCT------A--GCATCG
* * **
22362683 TTGGGCTTAGATTTTTTTGGGGCGCTTTCTCAAAAAACGCCATTAAAGACCTGAGCATTAGCGGC
1 TTGGGCTTAG-GTTTTTTGCGGCGCTTTCTC-AAAAACGCCGCTAAAG-CCTGAGCATTAGCGGC
* * *
22362748 GCTTTCTTAAAAACACCGCTAAATCCCCAAAAGCTCAGAAAACTGCGTCG
63 GCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCT------A--GCATCG
** *
22362798 TTGGGCTTATTTTTTTTGCGGCGCTTTCTCATAAACGCCGCTAAA
1 TTGGGCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAA
22362843 TCCCCGAAAG
Statistics
Matches: 227, Mismatches: 31, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
103 2 0.01
104 72 0.32
105 11 0.05
113 27 0.12
114 37 0.16
115 76 0.33
116 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (104 bp):
TTGGGCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCTGAGCATTAGCGGCGCT
TTCTTAAAAACGCCGCTAAATCCCCGAAAGCTAGCATCG
Found at i:22362767 original size:115 final size:113
Alignment explanation
Indices: 22362565--22362842 Score: 355
Period size: 115 Copynumber: 2.4 Consensus size: 113
22362555 CCGAAAGCTT
* * * * *
22362565 CATCGTTGGGCTTAGGTTTTTTGCGGCACTTTCTCAAAAACGGCGCTAAAGCCTTGAGTATTAGC
1 CATCGTTGGGCTTAGTTTTTTTGCGGCGCTTTCTCAAAAACGCCACTAAAGCCTTGAGCATTAGC
**
22362630 GGCGCTTTACTAAAAATGCCGCTAAATCCCCGAAAA-CTCACAAAACGG
66 GGCGCTTTACTAAAAACACCGCTAAATCCCC-AAAAGCTCACAAAACGG
* *
22362678 CATCGTTGGGCTTAGATTTTTTTGGGGCGCTTTCTCAAAAAACGCCATTAAAGACC-TGAGCATT
1 CATCGTTGGGCTTAG-TTTTTTTGCGGCGCTTTCTC-AAAAACGCCACTAAAG-CCTTGAGCATT
* *
22362742 AGCGGCGCTTT-CTTAAAAACACCGCTAAATCCCCAAAAGCTCAGAAAACTG
63 AGCGGCGCTTTAC-TAAAAACACCGCTAAATCCCCAAAAGCTCACAAAACGG
* * * *
22362793 CGTCGTTGGGCTTATTTTTTTTGCGGCGCTTTCTCATAAACGCCGCTAAA
1 CATCGTTGGGCTTAGTTTTTTTGCGGCGCTTTCTCAAAAACGCCACTAAA
22362843 TCCCCGAAAG
Statistics
Matches: 143, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
113 27 0.19
114 41 0.29
115 73 0.51
116 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (113 bp):
CATCGTTGGGCTTAGTTTTTTTGCGGCGCTTTCTCAAAAACGCCACTAAAGCCTTGAGCATTAGC
GGCGCTTTACTAAAAACACCGCTAAATCCCCAAAAGCTCACAAAACGG
Found at i:22362913 original size:72 final size:72
Alignment explanation
Indices: 22362743--22362898 Score: 224
Period size: 72 Copynumber: 2.2 Consensus size: 72
22362733 CTGAGCATTA
* * * * * *
22362743 GCGGCGCTTTCTTAAAAACACCGCTAAATCCCCAAAAGCTCAGAAAACTGCGTCGTTGGGCTTAT
1 GCGGCGCTTTCTCATAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCATTGGGCTTAG
*
22362808 TTTTTTT
66 GTTTTTT
*
22362815 GCGGCGCTTTCTCATAAACGCCGCTAAATCCCCGAAAGCTCTA-AAAACGGCGTCATTGGGCTTA
1 GCGGCGCTTTCTCATAAACGCCGCTAAATCCCCAAAAGCTC-AGAAAACGGCGTCATTGGGCTTA
22362879 GGTTTTTT
65 GGTTTTTT
22362887 GCGGCGCTTTCT
1 GCGGCGCTTTCT
22362899 GGAAAGCGTC
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
72 74 0.99
73 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.29
Consensus pattern (72 bp):
GCGGCGCTTTCTCATAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCATTGGGCTTAG
GTTTTTT
Found at i:22365741 original size:23 final size:23
Alignment explanation
Indices: 22365715--22365763 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
22365705 GTTTAACTAC
22365715 TTGTTAGTGTCTTGGACTAGGAT
1 TTGTTAGTGTCTTGGACTAGGAT
22365738 TTGTTAGTGTCTTGGACTAGGAT
1 TTGTTAGTGTCTTGGACTAGGAT
22365761 TTG
1 TTG
22365764 CCTAATATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.16, C:0.08, G:0.31, T:0.45
Consensus pattern (23 bp):
TTGTTAGTGTCTTGGACTAGGAT
Found at i:22369562 original size:24 final size:24
Alignment explanation
Indices: 22369524--22369571 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
22369514 TTTCAAACAA
*
22369524 AAAAATAACAGAATAACAAA-AAAT
1 AAAAATAAAAGAATAA-AAACAAAT
*
22369548 AAAAATAAAATAATAAAAACAAAT
1 AAAAATAAAAGAATAAAAACAAAT
22369572 CCTAACCAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.77, C:0.06, G:0.02, T:0.15
Consensus pattern (24 bp):
AAAAATAAAAGAATAAAAACAAAT
Found at i:22371264 original size:45 final size:45
Alignment explanation
Indices: 22371210--22371319 Score: 168
Period size: 45 Copynumber: 2.4 Consensus size: 45
22371200 AAAAATGAGC
* *
22371210 AAGATCATGACTGAAAGACATTATGGCATCATGATTCTATCGAGT
1 AAGACCATGACTGAAAGACATTATGGCATCACGATTCTATCGAGT
* *
22371255 AAGACCATGACTGAAAAACATTATGGCATTACGATTCTATCGAGT
1 AAGACCATGACTGAAAGACATTATGGCATCACGATTCTATCGAGT
22371300 AAGACCAT-AGCTGAAAGACA
1 AAGACCATGA-CTGAAAGACA
22371320 CTATAGTATC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 1 0.02
45 58 0.98
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (45 bp):
AAGACCATGACTGAAAGACATTATGGCATCACGATTCTATCGAGT
Found at i:22380114 original size:45 final size:46
Alignment explanation
Indices: 22380000--22380119 Score: 145
Period size: 46 Copynumber: 2.6 Consensus size: 46
22379990 ATCATGAAAC
* *
22380000 AAATGAATAAGACTATGGTTGAAAGACACTATGGCAACACAACGAA
1 AAATAAATAAGACTATGGTTAAAAGACACTATGGCAACACAACGAA
* * * *
22380046 AAATGAATAAGACCATGGTTAAAAGACACTATGGCATCA-AGACG-T
1 AAATAAATAAGACTATGGTTAAAAGACACTATGGCAACACA-ACGAA
* *
22380091 GAATAAATAATACTATGGTTAAAAGACAC
1 AAATAAATAAGACTATGGTTAAAAGACAC
22380120 CATAGCACAC
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
45 26 0.40
46 39 0.60
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.20
Consensus pattern (46 bp):
AAATAAATAAGACTATGGTTAAAAGACACTATGGCAACACAACGAA
Found at i:22385181 original size:43 final size:42
Alignment explanation
Indices: 22385121--22385327 Score: 175
Period size: 42 Copynumber: 4.9 Consensus size: 42
22385111 GGCGCTTACA
**
22385121 GAAAAAAACACTACTAAAGCTCATGTTCTTTAGCGGCACTACC
1 GAAAAAAACACCGCTAAAGCTCATGTTCTTTAGCGGCACTA-C
* * *
22385164 GAAAAGAACGCCGCTAAAGCTCATGTTCTTTAGCGGCGCTAC
1 GAAAAAAACACCGCTAAAGCTCATGTTCTTTAGCGGCACTAC
* * * *
22385206 GAAAAAAACACCGCTAAAGATCATGTTCTTTAGCAGCGCTTAG
1 GAAAAAAACACCGCTAAAGCTCATGTTCTTTAGCGGCAC-TAC
* * ** * * **
22385249 GAAGAAAACGCCGCTAAAAG-AAATGTTCTGTAGCGGCGCTTG
1 GAAAAAAACACCGCT-AAAGCTCATGTTCTTTAGCGGCACTAC
* * * *
22385291 GTAAAAAACGCCGCTAAAAG-TAATGTTCTTTACCGGC
1 GAAAAAAACACCGCT-AAAGCTCATGTTCTTTAGCGGC
22385328 GCTTCATCTA
Statistics
Matches: 140, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
42 70 0.50
43 66 0.47
44 4 0.03
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (42 bp):
GAAAAAAACACCGCTAAAGCTCATGTTCTTTAGCGGCACTAC
Found at i:22385222 original size:42 final size:41
Alignment explanation
Indices: 22385109--22385373 Score: 210
Period size: 43 Copynumber: 6.2 Consensus size: 41
22385099 CTAACTTTTT
* **
22385109 GCGGCGCTTACAGAAAAAAACACTACTAAAGCTCATGTTCTTTA
1 GCGGCGC-TAC-GAAAAAAACGCCGCTAAAG-TCATGTTCTTTA
* *
22385153 GCGGCACTACCGAAAAGAACGCCGCTAAAGCTCATGTTCTTTA
1 GCGGCGCTA-CGAAAAAAACGCCGCTAAAG-TCATGTTCTTTA
*
22385196 GCGGCGCTACGAAAAAAACACCGCTAAAGATCATGTTCTTTA
1 GCGGCGCTACGAAAAAAACGCCGCTAAAG-TCATGTTCTTTA
* * * ** *
22385238 GCAGCGCTTAGGAAGAAAACGCCGCTAAAAGAAATGTTCTGTA
1 GCGGCGC-TACGAAAAAAACGCCGCT-AAAGTCATGTTCTTTA
** * *
22385281 GCGGCGCTTGGTAAAAAACGCCGCTAAAAGTAATGTTCTTTA
1 GCGGCGCTACGAAAAAAACGCCGCT-AAAGTCATGTTCTTTA
* * * * *
22385323 CCGGCGCTTC-ATCTACAAACGCCGCTAAAAGT-AGTGTTCTTTC
1 GCGGCGCTACGA--AAAAAACGCCGCT-AAAGTCA-TGTTCTTTA
22385366 GCGGCGCT
1 GCGGCGCT
22385374 TATTTCACAA
Statistics
Matches: 186, Mismatches: 29, Indels: 13
0.82 0.13 0.06
Matches are distributed among these distances:
42 75 0.40
43 100 0.54
44 11 0.06
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (41 bp):
GCGGCGCTACGAAAAAAACGCCGCTAAAGTCATGTTCTTTA
Found at i:22385259 original size:85 final size:86
Alignment explanation
Indices: 22385109--22385331 Score: 231
Period size: 85 Copynumber: 2.6 Consensus size: 86
22385099 CTAACTTTTT
** * *
22385109 GCGGCGCTTACAGAAAAAAACACTACTAAAGCTCATGTTCTTTAGCGGCAC-TACCGAAAAGAAC
1 GCGGCGC-TAC-GAAAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTACCGAAAAGAAC
** *
22385173 GCCGCT-AAAGCTCATGTTCTTTA
64 GCCGCTAAAAG-AAATGTTCTGTA
* *
22385196 GCGGCGCTACGAAAAAAACACCGCTAAAGATCATGTTCTTTAGCAGCGCTTA-GGAAGAA-AACG
1 GCGGCGCTACGAAAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTACCGAA-AAGAACG
22385259 CCGCTAAAAGAAATGTTCTGTA
65 CCGCTAAAAGAAATGTTCTGTA
** * * * *
22385281 GCGGCGCTTGGTAAAAAACGCCGCTAAA-AGTAATGTTCTTTACCGGCGCTT
1 GCGGCGCTACGAAAAAAACACCGCTAAAGA-TCATGTTCTTTAGCGGCGCTT
22385332 CATCTACAAA
Statistics
Matches: 116, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
84 1 0.01
85 97 0.84
86 11 0.09
87 7 0.06
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (86 bp):
GCGGCGCTACGAAAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTACCGAAAAGAACGC
CGCTAAAAGAAATGTTCTGTA
Found at i:22385354 original size:43 final size:41
Alignment explanation
Indices: 22385254--22385388 Score: 146
Period size: 43 Copynumber: 3.2 Consensus size: 41
22385244 CTTAGGAAGA
* * * * * *
22385254 AAACGCCGCTAAAAGAAATGTTCTGTAGCGGCGCTTGGTAAA
1 AAACGCCGCTAAAAGTAATGTTCTTTACCGGCGCTT-ATTAC
22385296 AAACGCCGCTAAAAGTAATGTTCTTTACCGGCGCTTCATCTAC
1 AAACGCCGCTAAAAGTAATGTTCTTTACCGGCGCTT-AT-TAC
*
22385339 AAACGCCGCTAAAAGTAGTGTTCTTT-CGCGGCGCTTATTTCAC
1 AAACGCCGCTAAAAGTAATGTTCTTTAC-CGGCGCTTA-TT-AC
22385382 AAACGCC
1 AAACGCC
22385389 ACTATGTGAT
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
42 37 0.46
43 44 0.54
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (41 bp):
AAACGCCGCTAAAAGTAATGTTCTTTACCGGCGCTTATTAC
Found at i:22393848 original size:36 final size:35
Alignment explanation
Indices: 22393800--22393869 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
22393790 TACACCTGTT
* *
22393800 AAAATGTTCAATGTGGTACTTCAAATTTAATTTTTC
1 AAAATGTCCAATGT-GAACTTCAAATTTAATTTTTC
* *
22393836 AAAATGTCCAATGTGAACTTGAACTTTAATTTTT
1 AAAATGTCCAATGTGAACTTCAAATTTAATTTTT
22393870 GTATATAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 17 0.57
36 13 0.43
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (35 bp):
AAAATGTCCAATGTGAACTTCAAATTTAATTTTTC
Found at i:22394975 original size:20 final size:20
Alignment explanation
Indices: 22394947--22394995 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
22394937 ATATATCCTG
*
22394947 ATTTTATTTGATTTCAATCA
1 ATTTGATTTGATTTCAATCA
*
22394967 ATTTGATTTGATTTTAATCA
1 ATTTGATTTGATTTCAATCA
*
22394987 AATTGATTT
1 ATTTGATTT
22394996 AATTGCTCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.55
Consensus pattern (20 bp):
ATTTGATTTGATTTCAATCA
Found at i:22395565 original size:127 final size:129
Alignment explanation
Indices: 22395327--22395583 Score: 484
Period size: 127 Copynumber: 2.0 Consensus size: 129
22395317 ACTGTGTAAA
22395327 ACAAGCCTCAACATCTAGTGAAACTCAATTCTTCTTTTTGATTTCTGGTTTTCGTTATGTTATTT
1 ACAAGCCTCAACATCTAGTGAAACTCAATTCTTCTTTTTGATTTCTGGTTTTCGTTATGTTATTT
22395392 ATTGGTTTTTTCATATCTGATCATTTAAATATAAATTATTCAATTTATATTTTATTTTATATAT
66 ATTGGTTTTTTCATATCTGATCATTTAAATATAAATTATTCAATTTATATTTTATTTTATATAT
22395456 ACAAGCCTC-A-ATCTAGTGAAACTCAATTCTTCTTTTTGATTTCTGGTTTTCGTTATGTTATTT
1 ACAAGCCTCAACATCTAGTGAAACTCAATTCTTCTTTTTGATTTCTGGTTTTCGTTATGTTATTT
22395519 ATTGGTTTTTTCATATCTGATCATTTATAA-ATAAATTATTCAATTTATATTTTATTTTATATAT
66 ATTGGTTTTTTCATATCTGATCATTTA-AATATAAATTATTCAATTTATATTTTATTTTATATAT
22395583 A
1 A
22395584 AATATTTTTT
Statistics
Matches: 127, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
127 115 0.91
128 3 0.02
129 9 0.07
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.51
Consensus pattern (129 bp):
ACAAGCCTCAACATCTAGTGAAACTCAATTCTTCTTTTTGATTTCTGGTTTTCGTTATGTTATTT
ATTGGTTTTTTCATATCTGATCATTTAAATATAAATTATTCAATTTATATTTTATTTTATATAT
Found at i:22395597 original size:19 final size:20
Alignment explanation
Indices: 22395565--22395602 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
22395555 TATTCAATTT
22395565 ATATTTTATTTTATATATAA
1 ATATTTTATTTTATATATAA
*
22395585 ATATTTT-TTTTATTTATA
1 ATATTTTATTTTATATATA
22395603 TTTATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
ATATTTTATTTTATATATAA
Found at i:22395600 original size:23 final size:24
Alignment explanation
Indices: 22395568--22395613 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
22395558 TCAATTTATA
22395568 TTTTATTTTATATATAAATATTTT
1 TTTTATTTTATATATAAATATTTT
* *
22395592 TTTTA-TTTATATTTATATATTT
1 TTTTATTTTATATATAAATATTT
22395614 ATTCGCTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTATTTTATATATAAATATTTT
Found at i:22398426 original size:3 final size:3
Alignment explanation
Indices: 22398418--22398459 Score: 59
Period size: 3 Copynumber: 13.7 Consensus size: 3
22398408 TGTACATGGA
22398418 AAT AAT AAT AAT AAT AA- ATAT AAT AAT AAT AAGT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AA-T AAT AAT AA
22398460 AAAACAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 1 0.03
3 31 0.86
4 4 0.11
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22406890 original size:130 final size:129
Alignment explanation
Indices: 22406658--22406912 Score: 474
Period size: 130 Copynumber: 2.0 Consensus size: 129
22406648 ACAATTCCTT
*
22406658 TAAAATTCCAAACTCGGAATACTTCCTTTATTATTTTTTTAGAAAAAATATTCATTTCGAGAAAT
1 TAAAATCCCAAACTCGGAATACTTCCTTTATTATTTTTTTAGAAAAAATATTCATTTCGAGAAAT
*
22406723 CAGTGCGTCACATCCAATACGTTAGGACACAACGTGTTGAATTCCCAATAATGAGTTCTTTCTC
66 CAATGCGTCACATCCAATACGTTAGGACACAACGTGTTGAATTCCCAATAATGAGTTCTTTCTC
22406787 TAAAATCCCAAACTCGGAATACTTCCTTTATTATTTTTTTAGAAAAAAATATTCATTTCGAGAAA
1 TAAAATCCCAAACTCGGAATACTTCCTTTATTATTTTTTTAG-AAAAAATATTCATTTCGAGAAA
*
22406852 TCAATGCGTCACATCCAATACGTTAGGAGACAACGTGTTGAATTCCCAATAATGAGTTCTT
65 TCAATGCGTCACATCCAATACGTTAGGACACAACGTGTTGAATTCCCAATAATGAGTTCTT
22406913 ATTTTATTTT
Statistics
Matches: 122, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
129 41 0.34
130 81 0.66
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.34
Consensus pattern (129 bp):
TAAAATCCCAAACTCGGAATACTTCCTTTATTATTTTTTTAGAAAAAATATTCATTTCGAGAAAT
CAATGCGTCACATCCAATACGTTAGGACACAACGTGTTGAATTCCCAATAATGAGTTCTTTCTC
Found at i:22407384 original size:20 final size:17
Alignment explanation
Indices: 22407343--22407376 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
22407333 GAATAAATAA
22407343 AAAAATAATAATTACAT
1 AAAAATAATAATTACAT
22407360 AAAAATAATAATTACAT
1 AAAAATAATAATTACAT
22407377 CCTAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAATAATAATTACAT
Found at i:22408843 original size:44 final size:44
Alignment explanation
Indices: 22408791--22409119 Score: 188
Period size: 44 Copynumber: 7.5 Consensus size: 44
22408781 GATATGCTCT
*
22408791 CTGCAACTTCAAAGAGATAAGATCT-AAGATTTTAATCCT-CTCCA
1 CTGCAACTTCAAGGAGATAAGAT-TGAAGATTTTAAT-CTGCTCCA
* **
22408835 CTGCAACTTC-AGGAAGATAGGATTGTCGATTTTAATCTGCTCCA
1 CTGCAACTTCAAGG-AGATAAGATTGAAGATTTTAATCTGCTCCA
* ** *
22408879 CTGCAACTTCAGGGAGATAAGATTTG-CCATCTTCAATCTGC-CTCA
1 CTGCAACTTCAAGGAGATAAGA-TTGAAGAT-TTTAATCTGCTC-CA
*** * * *
22408924 CTGCAACTTC-AGGAGGATAAGACTTGCTTA-CTTAGTCTGCCCCA
1 CTGCAACTTCAAGGA-GATAAGA-TTGAAGATTTTAATCTGCTCCA
* *** *
22408968 CTGCAACTTC-AGAGAGATAAGACT--AGA-TGCGATCTGCT-CT
1 CTGCAACTTCAAG-GAGATAAGATTGAAGATTTTAATCTGCTCCA
*
22409008 CTGCAACTTC-AGAAAGATAAGACTTG-AGATTTTAAT-TCGCTCCA
1 CTGCAACTTCAAG-GAGATAAGA-TTGAAGATTTTAATCT-GCTCCA
* ** * *
22409052 CTGCAACTTC-AGAGAGATAGGATTGTCGGTTTTAATCTGCTTCA
1 CTGCAACTTCAAG-GAGATAAGATTGAAGATTTTAATCTGCTCCA
22409096 CTGCAACTTC-AGGAAGATAAGATT
1 CTGCAACTTCAAGG-AGATAAGATT
22409120 TGCCATCTTC
Statistics
Matches: 229, Mismatches: 37, Indels: 38
0.75 0.12 0.12
Matches are distributed among these distances:
40 22 0.10
41 7 0.03
42 4 0.02
43 16 0.07
44 139 0.61
45 40 0.17
46 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (44 bp):
CTGCAACTTCAAGGAGATAAGATTGAAGATTTTAATCTGCTCCA
Found at i:22408978 original size:217 final size:217
Alignment explanation
Indices: 22408723--22409147 Score: 676
Period size: 217 Copynumber: 2.0 Consensus size: 217
22408713 GCTTAGGGAA
* * *
22408723 ATAAGACCTGCTTACTTAGTCTGCTCGACTGCAACTTCAGAGAGATAAGGCTAGATACGATATGC
1 ATAAGACCTGCTTACTTAGTCTGCCCCACTGCAACTTCAGAGAGATAAGACTAGATACGATATGC
*
22408788 TCTCTGCAACTTCA-AAGAGATAAGA-TCTAAGATTTTAATCCTCTCCACTGCAACTTCAG-GAA
66 TCTCTGCAACTTCAGAA-AGATAAGACT-TAAGATTTTAATCCGCTCCACTGCAACTTCAGAG-A
*
22408850 GATAGGATTGTCGATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAA
128 GATAGGATTGTCGATTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAA
22408915 TCTGCCTCACTGCAACTTCAGGAGG
193 TCTGCCTCACTGCAACTTCAGGAGG
* * *
22408940 ATAAGACTTGCTTACTTAGTCTGCCCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGC
1 ATAAGACCTGCTTACTTAGTCTGCCCCACTGCAACTTCAGAGAGATAAGACTAGATACGATATGC
* *
22409005 TCTCTGCAACTTCAGAAAGATAAGACTTGAGATTTTAATTCGCTCCACTGCAACTTCAGAGAGAT
66 TCTCTGCAACTTCAGAAAGATAAGACTTAAGATTTTAATCCGCTCCACTGCAACTTCAGAGAGAT
* * * *
22409070 AGGATTGTCGGTTTTAATCTGCTTCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCACTTT
131 AGGATTGTCGATTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAATCT
22409135 GCCTCACTGCAAC
196 GCCTCACTGCAAC
22409148 CTACTTCAGA
Statistics
Matches: 191, Mismatches: 14, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
217 187 0.98
218 4 0.02
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (217 bp):
ATAAGACCTGCTTACTTAGTCTGCCCCACTGCAACTTCAGAGAGATAAGACTAGATACGATATGC
TCTCTGCAACTTCAGAAAGATAAGACTTAAGATTTTAATCCGCTCCACTGCAACTTCAGAGAGAT
AGGATTGTCGATTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAATCT
GCCTCACTGCAACTTCAGGAGG
Found at i:22409053 original size:84 final size:86
Alignment explanation
Indices: 22408833--22409117 Score: 260
Period size: 84 Copynumber: 3.3 Consensus size: 86
22408823 TAATCCTCTC
* *
22408833 CACTGCAACTTCAGGAAGATAGGA-TTGTCGATTTTAATCTGCTCCACTGCAACTTCAGGGAGAT
1 CACTGCAACTTCAGGAAGATAAGACTTG--GATTTTAATCTGCTCCACTGCAACTTCAGAGAGAT
* * *
22408897 AAGATTTGCCATCTTCAATCTGCCT
64 AAGACTAG-CA-CTGCAATCTGCCT
* * * *
22408922 CACTGCAACTTCAGGAGGATAAGACTT-GCTTACTTAGTCTGCCCCACTGCAACTTCAGAGAGAT
1 CACTGCAACTTCAGGAAGATAAGACTTGGATT--TTAATCTGCTCCACTGCAACTTCAGAGAGAT
*
22408986 AAGACTAG-A-TGCGATCTG-CT
64 AAGACTAGCACTGCAATCTGCCT
* *
22409006 CTCTGCAACTTCAGAAAGATAAGACTTGAGATTTTAAT-TCGCTCCACTGCAACTTCAGAGAGAT
1 CACTGCAACTTCAGGAAGATAAGACTTG-GATTTTAATCT-GCTCCACTGCAACTTCAGAGAGAT
* * ** ** *
22409070 AGGA-TTGTCGGTTTTAATCTGCTT
64 AAGACTAG-C-ACTGCAATCTGCCT
22409094 CACTGCAACTTCAGGAAGATAAGA
1 CACTGCAACTTCAGGAAGATAAGA
22409118 TTTGCCATCT
Statistics
Matches: 160, Mismatches: 25, Indels: 23
0.77 0.12 0.11
Matches are distributed among these distances:
83 3 0.02
84 56 0.35
85 7 0.04
86 3 0.02
87 10 0.06
88 23 0.14
89 56 0.35
90 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (86 bp):
CACTGCAACTTCAGGAAGATAAGACTTGGATTTTAATCTGCTCCACTGCAACTTCAGAGAGATAA
GACTAGCACTGCAATCTGCCT
Found at i:22409145 original size:173 final size:173
Alignment explanation
Indices: 22408835--22409147 Score: 411
Period size: 173 Copynumber: 1.8 Consensus size: 173
22408825 ATCCTCTCCA
* * * *
22408835 CTGCAACTTCAGGAAGATAGGATTGTCGATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGAAAGATAAGATTGTAGATTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAG
* * *
22408900 ATTTGCCATCTTCAATCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCC
66 ATTTGCCATCTTCAATCTGCCTCACTGCAACTTCAGGAAGATAAGACTTGCATACTTACTCTGCC
22408965 CCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCTCT
131 CCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCTCT
22409008 CTGCAACTTCAGAAAGATAAGACTTG-AGATTTTAAT-TCGCTCCACTGCAACTTCAGAGAGATA
1 CTGCAACTTCAGAAAGATAAGA-TTGTAGATTTTAATCT-GCTCCACTGCAACTTCAGAGAGATA
* ** * * *
22409071 GGA-TTGTCGGT-TTTAATCTGCTTCACTGCAACTTCAGGAAGATAAGATTTGCCAT-CTTCACT
64 AGATTTG-CCATCTTCAATCTGCCTCACTGCAACTTCAGGAAGATAAGACTTG-CATACTT-ACT
* *
22409133 TTGCCTCACTGCAAC
126 CTGCCCCACTGCAAC
22409148 CTACTTCAGA
Statistics
Matches: 120, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
172 43 0.36
173 74 0.62
174 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (173 bp):
CTGCAACTTCAGAAAGATAAGATTGTAGATTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAG
ATTTGCCATCTTCAATCTGCCTCACTGCAACTTCAGGAAGATAAGACTTGCATACTTACTCTGCC
CCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCTCT
Found at i:22410670 original size:8 final size:9
Alignment explanation
Indices: 22410653--22410683 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
22410643 CCCTGGTAGA
22410653 TTTTGTTTT
1 TTTTGTTTT
22410662 TTTTGTTTT
1 TTTTGTTTT
22410671 TTTTGTTTT
1 TTTTGTTTT
22410680 TTTT
1 TTTT
22410684 TTGTCATCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (9 bp):
TTTTGTTTT
Found at i:22416049 original size:20 final size:17
Alignment explanation
Indices: 22416009--22416041 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
22415999 ATAAATAATT
22416009 AAAATAATAATTACATA
1 AAAATAATAATTACATA
22416026 AAAATAATAATTACAT
1 AAAATAATAATTACAT
22416042 CCTAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATAATAATTACATA
Found at i:22416519 original size:11 final size:11
Alignment explanation
Indices: 22416503--22416537 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
22416493 CCCTGCTTGT
22416503 CCGGTCATCGG
1 CCGGTCATCGG
*
22416514 CCGGTCATCGT
1 CCGGTCATCGG
*
22416525 CCGATCATCGG
1 CCGGTCATCGG
22416536 CC
1 CC
22416538 ATCGTGCCGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.11, C:0.40, G:0.29, T:0.20
Consensus pattern (11 bp):
CCGGTCATCGG
Found at i:22429369 original size:33 final size:33
Alignment explanation
Indices: 22429327--22429393 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
22429317 CATACAAGAC
22429327 TTGGGTATTTCTTATGAAAGAAAAATTTGTGGT
1 TTGGGTATTTCTTATGAAAGAAAAATTTGTGGT
22429360 TTGGGTATTTCTTATGAAAGAAAAATTTGTGGT
1 TTGGGTATTTCTTATGAAAGAAAAATTTGTGGT
22429393 T
1 T
22429394 GAAAGAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.03, G:0.24, T:0.43
Consensus pattern (33 bp):
TTGGGTATTTCTTATGAAAGAAAAATTTGTGGT
Found at i:22429398 original size:19 final size:19
Alignment explanation
Indices: 22429374--22429442 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
22429364 GTATTTCTTA
22429374 TGAAAGAAAAATTTGTGGT
1 TGAAAGAAAAATTTGTGGT
* ***
22429393 TGAAAG-AATATTTCAAGT
1 TGAAAGAAAAATTTGTGGT
** *
22429411 CTTCAAGAAAAGTTTGTGGT
1 -TGAAAGAAAAATTTGTGGT
22429431 TGAAAGAAAAAT
1 TGAAAGAAAAAT
22429443 GGGGTTACAG
Statistics
Matches: 34, Mismatches: 14, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
18 8 0.24
19 19 0.56
20 7 0.21
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.30
Consensus pattern (19 bp):
TGAAAGAAAAATTTGTGGT
Found at i:22438670 original size:60 final size:58
Alignment explanation
Indices: 22438613--22438733 Score: 136
Period size: 60 Copynumber: 2.1 Consensus size: 58
22438603 TTAAAAAGAT
* *
22438613 AAAATAAC-ATAATTGAATGATCATTTTGTAACTTTTCATAGTTAGGTGACTAAAAAAG
1 AAAATAACAATAATTGAATGATCATTTTATAACTTTTCATAGTT-GGTGACCAAAAAAG
* * * ** * *
22438671 AAATTTACTAATTATTGGGTGATTATTTTATAACTTTTCATAGTTGGTGACCAAAAATG
1 AAAATAAC-AATAATTGAATGATCATTTTATAACTTTTCATAGTTGGTGACCAAAAAAG
22438730 AAAA
1 AAAA
22438734 AAAAAACCAT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
58 6 0.12
59 15 0.29
60 30 0.59
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.37
Consensus pattern (58 bp):
AAAATAACAATAATTGAATGATCATTTTATAACTTTTCATAGTTGGTGACCAAAAAAG
Found at i:22441750 original size:41 final size:41
Alignment explanation
Indices: 22441694--22441778 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 41
22441684 TGATTCAGTA
* *
22441694 CACCGGCTTTAAGCCTGCTAGACT-TATAGTCTAAATTGTTT
1 CACCGGCTTTAAGCCTGCTAGA-TGTAAAGTCTAAATGGTTT
*
22441735 CACCGGCATTT-AGCCTGCTAGATGTAAAGTCTGAATGGTTT
1 CACCGGC-TTTAAGCCTGCTAGATGTAAAGTCTAAATGGTTT
22441776 CAC
1 CAC
22441779 TAGCAATAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
40 1 0.03
41 35 0.90
42 3 0.08
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (41 bp):
CACCGGCTTTAAGCCTGCTAGATGTAAAGTCTAAATGGTTT
Found at i:22441791 original size:41 final size:41
Alignment explanation
Indices: 22441703--22441792 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 41
22441693 ACACCGGCTT
* * * *
22441703 TAAGCCTGCTAGACTTATAGTCTAAATTGTTTCACCGGCAT
1 TAAGCCTGCTAGACTTAAAGTCTAAATGGTTTCACCAGCAA
* * *
22441744 TTAGCCTGCTAGA-TGTAAAGTCTGAATGGTTTCACTAGCAA
1 TAAGCCTGCTAGACT-TAAAGTCTAAATGGTTTCACCAGCAA
22441785 TAAGCCTG
1 TAAGCCTG
22441793 AACAGCATAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
40 1 0.03
41 39 0.98
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (41 bp):
TAAGCCTGCTAGACTTAAAGTCTAAATGGTTTCACCAGCAA
Found at i:22443715 original size:21 final size:21
Alignment explanation
Indices: 22443689--22443744 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
22443679 AACAACGGTG
*
22443689 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
22443710 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
22443731 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
22443745 AACAATGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:22453053 original size:16 final size:16
Alignment explanation
Indices: 22453032--22453063 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22453022 TTTTCGAGAG
22453032 AAGTGGGAAAGAAGGA
1 AAGTGGGAAAGAAGGA
*
22453048 AAGTGGGAAAGCAGGA
1 AAGTGGGAAAGAAGGA
22453064 GTTGAAGAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.44, T:0.06
Consensus pattern (16 bp):
AAGTGGGAAAGAAGGA
Found at i:22455561 original size:8 final size:8
Alignment explanation
Indices: 22455544--22455580 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
22455534 CCAAAAATAA
*
22455544 TAATATTT
1 TAATAGTT
22455552 TAATAGTT
1 TAATAGTT
*
22455560 TAATATTT
1 TAATAGTT
22455568 TAATAGTT
1 TAATAGTT
22455576 TAATA
1 TAATA
22455581 TTAAATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (8 bp):
TAATAGTT
Found at i:22455565 original size:16 final size:16
Alignment explanation
Indices: 22455544--22455582 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
22455534 CCAAAAATAA
22455544 TAATATTTTAATAGTT
1 TAATATTTTAATAGTT
22455560 TAATATTTTAATAGTT
1 TAATATTTTAATAGTT
22455576 TAATATT
1 TAATATT
22455583 AAATTAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (16 bp):
TAATATTTTAATAGTT
Found at i:22455630 original size:16 final size:16
Alignment explanation
Indices: 22455544--22455644 Score: 53
Period size: 16 Copynumber: 6.2 Consensus size: 16
22455534 CCAAAAATAA
* * *
22455544 TAATATTTTAATAGTT
1 TAATATTATATTAATT
* * *
22455560 TAATATTTTAATAGTT
1 TAATATTATATTAATT
* *
22455576 TAATATTAAATTAAATG
1 TAATATTATATT-AATT
*
22455593 TAATACTTATCTTAA--
1 TAATA-TTATATTAATT
* *
22455608 TAGTATTTTATTAATT
1 TAATATTATATTAATT
*
22455624 TAATATTAAATTAAATT
1 TAATATTATATT-AATT
22455641 TAAT
1 TAAT
22455645 GTTTATATTG
Statistics
Matches: 67, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
14 7 0.10
15 4 0.06
16 34 0.51
17 17 0.25
18 5 0.07
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (16 bp):
TAATATTATATTAATT
Found at i:22462390 original size:16 final size:16
Alignment explanation
Indices: 22462351--22462381 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
22462341 TAATAGGGCC
22462351 GAGCTCGAGAAAATCT
1 GAGCTCGAGAAAATCT
22462367 GAGCTCGAGAAAATC
1 GAGCTCGAGAAAATC
22462382 CTAGTTCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.19, G:0.26, T:0.16
Consensus pattern (16 bp):
GAGCTCGAGAAAATCT
Found at i:22464560 original size:27 final size:27
Alignment explanation
Indices: 22464518--22464594 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
22464508 CATTTAAGAT
* **
22464518 CAAGCCATGGTCATCAACAACCT-TTG
1 CAAGCCATGGTGATCAACAACCTGTAC
* *
22464544 CAGATCCATGGTGATCAACAATCTGTAC
1 CA-AGCCATGGTGATCAACAACCTGTAC
22464572 CAAGCCATGGTGATCAACAACCT
1 CAAGCCATGGTGATCAACAACCT
22464595 ACGTCAAACC
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 2 0.05
27 37 0.88
28 3 0.07
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (27 bp):
CAAGCCATGGTGATCAACAACCTGTAC
Found at i:22464645 original size:171 final size:171
Alignment explanation
Indices: 22464434--22464776 Score: 632
Period size: 171 Copynumber: 2.0 Consensus size: 171
22464424 CCTGTGGCTT
22464434 ATATTACCAACTATGATTCCCATCCAGTACAAAGCAATGAGCGAGTGGCAAAACAACCTAGGAGG
1 ATATTACCAACTATGATTCCCATCCAGTACAAAGCAATGAGCGAGTGGCAAAACAACCTAGGAGG
22464499 AAGAGACCTCATTTAAGATCAAGCCATGGTCATCAACAACCTTTGCAGATCCATGGTGATCAACA
66 AAGAGACCTCATTTAAGATCAAGCCATGGTCATCAACAACCTTTGCAGATCCATGGTGATCAACA
*
22464564 ATCTGTACCAAGCCATGGTGATCAACAACCTACGTCAAACC
131 ATCTGTACCAAGCCATGGTGATCAACAACCAACGTCAAACC
*
22464605 ATATTACCAACTATGATTCCCATCCAGTACAAATCAATGAGCGAGTGGCAAAACAACCTAGGAGG
1 ATATTACCAACTATGATTCCCATCCAGTACAAAGCAATGAGCGAGTGGCAAAACAACCTAGGAGG
* *
22464670 AAGAGACCTCGTTTAAGATCAAGCCATGGTCATCAACAACCTTTGCCGATCCATGGTGATCAACA
66 AAGAGACCTCATTTAAGATCAAGCCATGGTCATCAACAACCTTTGCAGATCCATGGTGATCAACA
* *
22464735 ATCTGTACTAAGCCATGGTGATCAACAACCAATGTCAAACC
131 ATCTGTACCAAGCCATGGTGATCAACAACCAACGTCAAACC
22464776 A
1 A
22464777 CAGTGATCAA
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
171 166 1.00
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.21
Consensus pattern (171 bp):
ATATTACCAACTATGATTCCCATCCAGTACAAAGCAATGAGCGAGTGGCAAAACAACCTAGGAGG
AAGAGACCTCATTTAAGATCAAGCCATGGTCATCAACAACCTTTGCAGATCCATGGTGATCAACA
ATCTGTACCAAGCCATGGTGATCAACAACCAACGTCAAACC
Found at i:22464731 original size:27 final size:27
Alignment explanation
Indices: 22464689--22464825 Score: 125
Period size: 27 Copynumber: 5.1 Consensus size: 27
22464679 CGTTTAAGAT
* * *
22464689 CAAGCCATGGTCATCAACAACCTTTGC
1 CAAGCCATGGTGATCAACAACCTGTAC
* * *
22464716 CGATCCATGGTGATCAACAATCTGTAC
1 CAAGCCATGGTGATCAACAACCTGTAC
*
22464743 TAAGCCATGGTGATCAACAACCAATGT--
1 CAAGCCATGGTGATCAACAACC--TGTAC
* ** *
22464770 CAAACCACAGTGATCAACAATCTGTAC
1 CAAGCCATGGTGATCAACAACCTGTAC
* *
22464797 CAAGCTATGGTGATCAACAACCTGGAC
1 CAAGCCATGGTGATCAACAACCTGTAC
22464824 CA
1 CA
22464826 CGGCATTATG
Statistics
Matches: 85, Mismatches: 21, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
25 3 0.04
27 79 0.93
29 3 0.04
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (27 bp):
CAAGCCATGGTGATCAACAACCTGTAC
Found at i:22468834 original size:7 final size:7
Alignment explanation
Indices: 22468824--22468848 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22468814 CTTGTTTTAC
22468824 AGTGCTT
1 AGTGCTT
22468831 AGTGCTT
1 AGTGCTT
22468838 AGTGCTT
1 AGTGCTT
22468845 AGTG
1 AGTG
22468849 GGCTATTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.12, G:0.32, T:0.40
Consensus pattern (7 bp):
AGTGCTT
Found at i:22476608 original size:11 final size:11
Alignment explanation
Indices: 22476592--22476618 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
22476582 AGTTACACTC
22476592 CTACTGGGACT
1 CTACTGGGACT
22476603 CTACTGGGACT
1 CTACTGGGACT
22476614 CTACT
1 CTACT
22476619 AGAGAATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.30, G:0.22, T:0.30
Consensus pattern (11 bp):
CTACTGGGACT
Found at i:22476800 original size:26 final size:26
Alignment explanation
Indices: 22476738--22476807 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 26
22476728 AAGATTTAAT
*
22476738 ATTAAATTTAATCTAATATTTATCAAG
1 ATTAAATTTAATTTAATATTTA-CAAG
*
22476765 ATTATA-TTAATTTAATA-TTA-AAGTG
1 ATTAAATTTAATTTAATATTTACAA--G
22476790 ATTAAATTTAATTATAAT
1 ATTAAATTTAATT-TAAT
22476808 TGAACTCCCT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
23 2 0.06
25 9 0.25
26 16 0.44
27 9 0.25
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (26 bp):
ATTAAATTTAATTTAATATTTACAAG
Found at i:22480680 original size:13 final size:13
Alignment explanation
Indices: 22480662--22480686 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22480652 ACAAATGATA
22480662 AAATTTTCACACG
1 AAATTTTCACACG
22480675 AAATTTTCACAC
1 AAATTTTCACAC
22480687 ATATAAACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:22483393 original size:16 final size:16
Alignment explanation
Indices: 22483374--22483410 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
22483364 AAAAATCGGT
22483374 GAAAAGAAAAT-ACAAA
1 GAAAAGAAAATCA-AAA
22483390 GAAAAGAAAATCAAAA
1 GAAAAGAAAATCAAAA
22483406 GAAAA
1 GAAAA
22483411 AGACTGAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 19 0.95
17 1 0.05
ACGTcount: A:0.76, C:0.05, G:0.14, T:0.05
Consensus pattern (16 bp):
GAAAAGAAAATCAAAA
Found at i:22487495 original size:199 final size:196
Alignment explanation
Indices: 22487155--22487550 Score: 621
Period size: 199 Copynumber: 2.0 Consensus size: 196
22487145 ATCGTTGATG
* * **
22487155 GTAAGTTGGGTTTCTGTTCGTTCTTGGTTTTCAATTTGCTTGTAAATCAATTAAATTGATGTTGA
1 GTAAGTTGGGTTTCTATTCATTCTTGGTTGCCAATTTGCTTGTAAATCAATTAAATTGATGTTGA
*
22487220 GTATCTTGATTATAGGCTTTGGAGTGCTCAGGGACTGATTTAGCATCAAAGAGATCCAGGTGAGT
66 GTATCTTGATTATAGGCTTTGGAGTGCTCAGGGACTGATTTAGCATCAAAGAGAACCAGGTGAGT
* * *
22487285 ACCAGAAACGCAAAGAAAAAGGGATTCGGTGAAAAGCTAAAATTGCTTGTTGTTTGGACAGCAGC
131 ACCAGAAACGC-AA-AAAAA-GGATTCAGTGAAAAGCTAAAATTGCTTGCTGTTTGGACAGAAGC
22487350 AGTA
193 AGTA
**
22487354 GTAAGTTGGGTTTCTATTCATTCTTGGTTGCCAATTTGCTTGTAAATCTGTTAAATTGATGTTGA
1 GTAAGTTGGGTTTCTATTCATTCTTGGTTGCCAATTTGCTTGTAAATCAATTAAATTGATGTTGA
* * * *
22487419 GTATCTTGATTATAGGCTTTGGAGTGCTCGGGGATTGTTTTAGCATCAAAGAGAACCAGGTGTGT
66 GTATCTTGATTATAGGCTTTGGAGTGCTCAGGGACTGATTTAGCATCAAAGAGAACCAGGTGAGT
* *
22487484 ACCAGAAACGCAAAAAAAGGATTCAGTGAAAAGTTGAAATTGCTTGCTGTTTGGACAGAAGCAGT
131 ACCAGAAACGCAAAAAAAGGATTCAGTGAAAAGCTAAAATTGCTTGCTGTTTGGACAGAAGCAGT
22487549 A
196 A
22487550 G
1 G
22487551 GCTAATTGTG
Statistics
Matches: 181, Mismatches: 16, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
196 44 0.24
197 5 0.03
198 2 0.01
199 130 0.72
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (196 bp):
GTAAGTTGGGTTTCTATTCATTCTTGGTTGCCAATTTGCTTGTAAATCAATTAAATTGATGTTGA
GTATCTTGATTATAGGCTTTGGAGTGCTCAGGGACTGATTTAGCATCAAAGAGAACCAGGTGAGT
ACCAGAAACGCAAAAAAAGGATTCAGTGAAAAGCTAAAATTGCTTGCTGTTTGGACAGAAGCAGT
A
Found at i:22487839 original size:45 final size:41
Alignment explanation
Indices: 22487801--22487878 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
22487791 ATTTAAATTA
*
22487801 TTAATGAGTCTAATTACTACTTGATGCCTTATTATATTTTT
1 TTAATGAATCTAATTACTACTTGATGCCTTATTATATTTTT
*
22487842 TTAATTAATCTAATTACTACTTGATGCCTTATTATAT
1 TTAATGAATCTAATTACTACTTGATGCCTTATTATAT
22487879 ATCTAATGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (41 bp):
TTAATGAATCTAATTACTACTTGATGCCTTATTATATTTTT
Found at i:22487924 original size:36 final size:35
Alignment explanation
Indices: 22487892--22487961 Score: 104
Period size: 36 Copynumber: 2.0 Consensus size: 35
22487882 TAATGTAATT
22487892 GTTAATTAAATTGAATGGAAGTTTATGGATGTATAA
1 GTTAATTAAATTGAATGGAAG-TTATGGATGTATAA
* * *
22487928 GTTAATTCAATTGAATGTAAGTTATGGAAGTATA
1 GTTAATTAAATTGAATGGAAGTTATGGATGTATA
22487962 TGTATTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 12 0.39
36 19 0.61
ACGTcount: A:0.39, C:0.01, G:0.21, T:0.39
Consensus pattern (35 bp):
GTTAATTAAATTGAATGGAAGTTATGGATGTATAA
Found at i:22488206 original size:74 final size:76
Alignment explanation
Indices: 22488113--22488275 Score: 204
Period size: 74 Copynumber: 2.2 Consensus size: 76
22488103 CAGTTATCCA
** * ** *
22488113 ACTAGCGCCGGGTGCAATAATTTTTCGACTCGTTCGACTAGTGCT-GGCACACTGTTGATCTTGT
1 ACTAGCGCTAGGTGCAATAATTTGTCGACTCGTTCGACTAGTGCTGGGCACACCATTGATCATGT
**
22488177 CG-GTTATTCG
66 CGAGTTAAACG
* * * *
22488187 GCTAGCGCTAGGTGTAATAATTTGTCGACTCGTTTGACTAGTGTTGGGCACACCATTGATCATGT
1 ACTAGCGCTAGGTGCAATAATTTGTCGACTCGTTCGACTAGTGCTGGGCACACCATTGATCATGT
22488252 CGAGTTAAACG
66 CGAGTTAAACG
22488263 ACTAGCGCTAGGT
1 ACTAGCGCTAGGT
22488276 ACAAAAACCT
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
74 38 0.51
75 18 0.24
76 18 0.24
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (76 bp):
ACTAGCGCTAGGTGCAATAATTTGTCGACTCGTTCGACTAGTGCTGGGCACACCATTGATCATGT
CGAGTTAAACG
Found at i:22492203 original size:216 final size:216
Alignment explanation
Indices: 22491826--22492261 Score: 748
Period size: 216 Copynumber: 2.0 Consensus size: 216
22491816 TCGATACTTT
* *
22491826 TCTTAAGGTATCAATATATTTCTTAAGTTATAGATATTCCTGCTTCAACGGTCACTGAAATCAAC
1 TCTTAAGGTATCAATATATTTCCTAAGGTATAGATATTCCTGCTTCAACGGTCACTGAAATCAAC
* *
22491891 ATTATTTACAAAAAATATCGATACCCTTTTAGTTGGTATCGATACTCGTTGCTGCAGGTGAAGTT
66 ATTATTTACAAAAAATATCGATACCCTTTTAGTTGGTATCGATACTCATTGCTACAGGTGAAGTT
*
22491956 AATGACCTAGTATTTCATCCCAACAGCTACATTCACTTCTACAACAACCACAACAATTGAAAATC
131 AATGACCTAGTATTTCATCCCAACAGCTACATTCACTTCTACAACAACCACAACAATTGAAAATA
22492021 AATTAGAGGGTATAAATACCA
196 AATTAGAGGGTATAAATACCA
*
22492042 TCTTAAGGTATCAATATATTTCCTAAGGTATAGATATTCCTGCTTCAACGGTCACTGAAATCAGC
1 TCTTAAGGTATCAATATATTTCCTAAGGTATAGATATTCCTGCTTCAACGGTCACTGAAATCAAC
* *
22492107 ATTATTTACAAAAAATATCGATACCTTTTTAGTTGTTATCGATACTCATTGCTACAGGTGAAGTT
66 ATTATTTACAAAAAATATCGATACCCTTTTAGTTGGTATCGATACTCATTGCTACAGGTGAAGTT
* **
22492172 AATGATCTAGTATTTCATCCCAA-AGGCTACATTCACTTCTACAACAACCACAACGGTTGAAAAT
131 AATGACCTAGTATTTCATCCCAACA-GCTACATTCACTTCTACAACAACCACAACAATTGAAAAT
*
22492236 AAATTAGAGGGTATAAATACTA
195 AAATTAGAGGGTATAAATACCA
22492258 TCTT
1 TCTT
22492262 CCAAAGGTTT
Statistics
Matches: 207, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
215 1 0.00
216 206 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (216 bp):
TCTTAAGGTATCAATATATTTCCTAAGGTATAGATATTCCTGCTTCAACGGTCACTGAAATCAAC
ATTATTTACAAAAAATATCGATACCCTTTTAGTTGGTATCGATACTCATTGCTACAGGTGAAGTT
AATGACCTAGTATTTCATCCCAACAGCTACATTCACTTCTACAACAACCACAACAATTGAAAATA
AATTAGAGGGTATAAATACCA
Found at i:22503042 original size:19 final size:18
Alignment explanation
Indices: 22503013--22503061 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
22503003 ATTGAACATA
22503013 AAAATAAAAAT-AAAATTG
1 AAAATAAAAATGAAAA-TG
*
22503031 GAAATAAAAAATGAAAATG
1 AAAAT-AAAAATGAAAATG
22503050 AAAATGAAAAAT
1 AAAAT-AAAAAT
22503062 TTCTTTTGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 4 0.15
19 18 0.69
20 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.18
Consensus pattern (18 bp):
AAAATAAAAATGAAAATG
Found at i:22503190 original size:6 final size:6
Alignment explanation
Indices: 22503176--22503244 Score: 93
Period size: 6 Copynumber: 11.0 Consensus size: 6
22503166 CCTTAGACAG
* *
22503176 AATAAT AAAAAT AAAAAT GGAAATAAT AATAAT AATAAT AATAAT AATAAT
1 AATAAT AATAAT AATAAT --AA-TAAT AATAAT AATAAT AATAAT AATAAT
22503227 AATAAT AATAAT AATAAT
1 AATAAT AATAAT AATAAT
22503245 GAAAATGAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
6 51 0.88
7 2 0.03
8 2 0.03
9 3 0.05
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (6 bp):
AATAAT
Found at i:22503205 original size:3 final size:3
Alignment explanation
Indices: 22503197--22503244 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
22503187 TAAAAATGGA
22503197 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22503245 GAAAATGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22507485 original size:37 final size:37
Alignment explanation
Indices: 22507435--22507509 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
22507425 ACCAATCTCG
* * *
22507435 TTGTATTGATTAAGAGTGGAACGACGAATTTATCGAT
1 TTGTATCGATTAAGAGTGGAACAACGAATCTATCGAT
22507472 TTGTATCGATTAAGAGTGGAACAACGAATCTATCGAT
1 TTGTATCGATTAAGAGTGGAACAACGAATCTATCGAT
22507509 T
1 T
22507510 GGGAAAACTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (37 bp):
TTGTATCGATTAAGAGTGGAACAACGAATCTATCGAT
Found at i:22508287 original size:23 final size:23
Alignment explanation
Indices: 22508234--22508278 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
22508224 AAAGCAAACT
*
22508234 AATAAAA-ACAAAAACAAAACAA
1 AATAAAATAGAAAAACAAAACAA
22508256 AATAAAATAGAAAAA-AAAACAA
1 AATAAAATAGAAAAACAAAACAA
22508278 A
1 A
22508279 TAGGAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.82, C:0.09, G:0.02, T:0.07
Consensus pattern (23 bp):
AATAAAATAGAAAAACAAAACAA
Found at i:22509627 original size:17 final size:17
Alignment explanation
Indices: 22509605--22509654 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
22509595 TATCAGATTT
22509605 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
*
22509622 TGATACCTATATCTTTC
1 TGATACCCATATCTTTC
22509639 TGATACCCATATCTTT
1 TGATACCCATATCTTT
22509655 GACTTTCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.24, C:0.26, G:0.06, T:0.44
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:22514010 original size:17 final size:17
Alignment explanation
Indices: 22513988--22514037 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
22513978 TCTCATATTT
22513988 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
* *
22514005 TGATACCTATATATTTC
1 TGATACCCATATCTTTC
22514022 TGATACCCATATCTTT
1 TGATACCCATATCTTT
22514038 GACTTTCTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:22521417 original size:9 final size:9
Alignment explanation
Indices: 22521405--22521430 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
22521395 TAAAAATTAA
22521405 AAATAAAAT
1 AAATAAAAT
22521414 AAATAAAAT
1 AAATAAAAT
22521423 AAATAAAA
1 AAATAAAA
22521431 ATATCGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:22525620 original size:16 final size:16
Alignment explanation
Indices: 22525599--22525630 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
22525589 TGGTTACTTA
22525599 GCTTGAGAATACCTCT
1 GCTTGAGAATACCTCT
22525615 GCTTGAGAATACCTCT
1 GCTTGAGAATACCTCT
22525631 TTCTTCACTT
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:0.25, G:0.19, T:0.31
Consensus pattern (16 bp):
GCTTGAGAATACCTCT
Found at i:22526870 original size:14 final size:16
Alignment explanation
Indices: 22526848--22526882 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
22526838 GTAATATAGT
22526848 AATATATATCAAATTA
1 AATATATATCAAATTA
22526864 AATATATATCAAATTA
1 AATATATATCAAATTA
22526880 AAT
1 AAT
22526883 GTGCAAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (16 bp):
AATATATATCAAATTA
Found at i:22531648 original size:17 final size:17
Alignment explanation
Indices: 22531626--22531669 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
22531616 ATATAGCTCT
22531626 AACAAGCTTCCAACCCA
1 AACAAGCTTCCAACCCA
*
22531643 AACAAGCTTCCAACCCG
1 AACAAGCTTCCAACCCA
*
22531660 AACGAGCTTC
1 AACAAGCTTC
22531670 TGATTCACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.36, C:0.39, G:0.11, T:0.14
Consensus pattern (17 bp):
AACAAGCTTCCAACCCA
Found at i:22532218 original size:24 final size:24
Alignment explanation
Indices: 22532146--22532219 Score: 60
Period size: 24 Copynumber: 3.0 Consensus size: 24
22532136 TCATGAATTG
* * *
22532146 GAAATCGATAAGCTTATATGAGTT
1 GAAATCGATAAGCTCATACGAGCT
* * * *
22532170 GAGAATCGGTAAACTC-TCCCAAGCT
1 GA-AATCGATAAGCTCAT-ACGAGCT
22532195 GAAATCGATAAGCTCATACGAGCT
1 GAAATCGATAAGCTCATACGAGCT
22532219 G
1 G
22532220 TGGTGTGTCC
Statistics
Matches: 36, Mismatches: 11, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
24 20 0.56
25 16 0.44
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (24 bp):
GAAATCGATAAGCTCATACGAGCT
Found at i:22539072 original size:17 final size:17
Alignment explanation
Indices: 22539050--22539085 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
22539040 GTTGGGGCTC
22539050 TAATGACTGAGTTTTCT
1 TAATGACTGAGTTTTCT
22539067 TAATGACTGAGTTTTCT
1 TAATGACTGAGTTTTCT
22539084 TA
1 TA
22539086 CTTTTGTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.25, C:0.11, G:0.17, T:0.47
Consensus pattern (17 bp):
TAATGACTGAGTTTTCT
Found at i:22542182 original size:28 final size:28
Alignment explanation
Indices: 22542129--22542194 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
22542119 AGTACAATGA
**
22542129 GGGCCTTAGCCCAATTCAATAGCAGTCT
1 GGGCCTTAGCCCAACACAATAGCAGTCT
* * *
22542157 GGGCCTTAGCCCAACACAGTATCAGTGT
1 GGGCCTTAGCCCAACACAATAGCAGTCT
*
22542185 GGACCTTAGC
1 GGGCCTTAGC
22542195 GTAATACAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (28 bp):
GGGCCTTAGCCCAACACAATAGCAGTCT
Found at i:22542641 original size:27 final size:27
Alignment explanation
Indices: 22542559--22543288 Score: 620
Period size: 27 Copynumber: 27.3 Consensus size: 27
22542549 TCATCTCCTA
*
22542559 GGTATTTC-AGTCATTTTACCCTTC-AA
1 GGTATTTCGA-TCATTTTACCCTTCGAG
* *
22542585 GGTATTTCAATTATTTTA-CCTTCGAG
1 GGTATTTCGATCATTTTACCCTTCGAG
22542611 GGTATTTCGATCATTTTACCCTTCGAG
1 GGTATTTCGATCATTTTACCCTTCGAG
* *
22542638 GGTATTTTGATCATTTTACCCTTCAAG
1 GGTATTTCGATCATTTTACCCTTCGAG
* *
22542665 GGTATTTCGGTCATATTACCCTTCGA-
1 GGTATTTCGATCATTTTACCCTTCGAG
*
22542691 GGTATTTC-AGTCATTTTACCCTTC-AA
1 GGTATTTCGA-TCATTTTACCCTTCGAG
* *
22542717 GGTATTTCAATTATTTTA-CCTTCGAG
1 GGTATTTCGATCATTTTACCCTTCGAG
22542743 GGTATTTCGATCATTTTACCCTTCGAG
1 GGTATTTCGATCATTTTACCCTTCGAG
* *
22542770 GGTATTTTGATCATTTTACCCTTCAAG
1 GGTATTTCGATCATTTTACCCTTCGAG
* *
22542797 GGTATTTCGGTCATATTACCCTTCGA-
1 GGTATTTCGATCATTTTACCCTTCGAG
*
22542823 GGTATTTC-AGTCATTTTACCCTAT-GGG
1 GGTATTTCGA-TCATTTTACCCT-TCGAG
* * * *
22542850 GGTAATTCGGTCATTTTTCCCTGT-GGG
1 GGTATTTCGATCATTTTACCCT-TCGAG
** *
22542877 GGTATTTC-ATTCATTTCCCCCTT-GGG
1 GGTATTTCGA-TCATTTTACCCTTCGAG
* * * * *
22542903 GGTATTTCGGTTATTTCACCCTTTGGG
1 GGTATTTCGATCATTTTACCCTTCGAG
*
22542930 GGTATTTCGATCATTTTACTCTTCGAG
1 GGTATTTCGATCATTTTACCCTTCGAG
22542957 GG-ATTTC-AGTCATTTTACCCTTCGAG
1 GGTATTTCGA-TCATTTTACCCTTCGAG
* * * * * *
22542983 GGTATTTCGGTGATCTTACCTTTTGGG
1 GGTATTTCGATCATTTTACCCTTCGAG
*
22543010 GGTATTTCGATCATTTTATCCTTCG-G
1 GGTATTTCGATCATTTTACCCTTCGAG
**
22543036 GAGTATTTTAATCATTTTACCCTTCG-G
1 G-GTATTTCGATCATTTTACCCTTCGAG
* * * *
22543063 AGGTAATTCGGTCATTTTACCCTTTGTG
1 -GGTATTTCGATCATTTTACCCTTCGAG
* * *
22543091 AGTGA-TTC-AGTCATTTTAACCTTTTG-G
1 GGT-ATTTCGA-TCATTTT-ACCCTTCGAG
* * *
22543118 GGTAATCCGATCATTTTACCCTTCGGG
1 GGTATTTCGATCATTTTACCCTTCGAG
* *
22543145 GGTAATTCGATCATTTTACCCTTCAAG
1 GGTATTTCGATCATTTTACCCTTCGAG
* *
22543172 GGTATTTCAATCATTTTACCCTTCGGG
1 GGTATTTCGATCATTTTACCCTTCGAG
* * *
22543199 GGTAATTCGGTCATTTTACCCATT-AAG
1 GGTATTTCGATCATTTTACCC-TTCGAG
* * *
22543226 GGTATTTCGGTTATTTTACCCTTCAAG
1 GGTATTTCGATCATTTTACCCTTCGAG
* * * * * *
22543253 AGTAATTCGGTCATTTTATCCTACGGG
1 GGTATTTCGATCATTTTACCCTTCGAG
*
22543280 GGTAATTCG
1 GGTATTTCG
22543289 GTCAATTTCC
Statistics
Matches: 583, Mismatches: 92, Indels: 57
0.80 0.13 0.08
Matches are distributed among these distances:
25 12 0.02
26 162 0.28
27 396 0.68
28 13 0.02
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (27 bp):
GGTATTTCGATCATTTTACCCTTCGAG
Found at i:22543105 original size:81 final size:79
Alignment explanation
Indices: 22542559--22543280 Score: 584
Period size: 80 Copynumber: 9.0 Consensus size: 79
22542549 TCATCTCCTA
* * ** *
22542559 GGTATTTCAGTCATTTTACCCTTCAAGGTATTTCAATTATTTTA-CCTTCGAGGGTATTTC-GAT
1 GGTATTTCAATCATTTTACCCTTCGAGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCAG-T
22542622 CATTTTACCCTTCGAG
65 CATTTTACCCTTCG-G
** * *
22542638 GGTATTTTGATCATTTTACCCTTCAAGGGTATTTCGGTCATATTACCCTTCGA-GGTATTTCAGT
1 GGTATTTCAATCATTTTACCCTTCGA-GGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCAGT
**
22542702 CATTTTACCCTTCAA
65 CATTTTACCCTTCGG
* * *
22542717 GGTATTTCAATTATTTTA-CCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTT-TGA
1 GGTATTTCAATCATTTTACCCTTCGA-GGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCAG-
*
22542780 TCATTTTACCCTTCAAG
64 TCATTTTACCCTTC-GG
** * * * * *
22542797 GGTATTTCGGTCATATTACCCTTCGAGGTATTTCAGTCATTTTACCCTAT-GGGGGTAATTCGGT
1 GGTATTTCAATCATTTTACCCTTCGAGGTATTTCGGTCATTTTACCCT-TCGAGGGTATTTCAGT
* *
22542861 CATTTTTCCCTGTGGG
65 CATTTTACCCT-TCGG
* ** * * * * * *
22542877 GGTATTTCATTCATTTCCCCCTTGGGGGTATTTCGGTTATTTCACCCTTTGGGGGTATTTC-GAT
1 GGTATTTCAATCATTTTACCCTTCGAGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCAG-T
*
22542941 CATTTTACTCTTCGAG
65 CATTTTACCCTTCG-G
* * * * * *
22542957 GG-ATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTGATCTTACCTTTTGGGGGTATTTC-GA
1 GGTATTTCAATCATTTTACCCTTCGA-GGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCAG-
*
22543020 TCATTTTATCCTTCGG
64 TCATTTTACCCTTCGG
* * * * *
22543036 GAGTATTTTAATCATTTTACCCTTCGGAGGTAATTCGGTCATTTTACCCTTTGTGAGTGA-TTCA
1 G-GTATTTCAATCATTTTACCCTTC-GAGGTATTTCGGTCATTTTACCCTTCGAGGGT-ATTTCA
* *
22543100 GTCATTTTAACCTTTTGG
63 GTCATTTT-ACCCTTCGG
* * * * * * * *
22543118 GGTAATCCGATCATTTTACCCTTCGGGGGTAATTCGATCATTTTACCCTTCAAGGGTATTTCAAT
1 GGTATTTCAATCATTTTACCCTTC-GAGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCAGT
22543183 CATTTTACCCTTCGGG
65 CATTTTACCCTTC-GG
* ** * * * * * *
22543199 GGTAATTCGGTCATTTTACCCATT-AAGGGTATTTCGGTTATTTTACCCTTCAAGAGTAATTCGG
1 GGTATTTCAATCATTTTACCC-TTCGA-GGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCAG
* *
22543263 TCATTTTATCCTACGG
64 TCATTTTACCCTTCGG
22543279 GG
1 GG
22543281 GTAATTCGGT
Statistics
Matches: 528, Mismatches: 91, Indels: 47
0.79 0.14 0.07
Matches are distributed among these distances:
78 32 0.06
79 83 0.16
80 209 0.40
81 191 0.36
82 13 0.02
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (79 bp):
GGTATTTCAATCATTTTACCCTTCGAGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCAGTC
ATTTTACCCTTCGG
Found at i:22546303 original size:359 final size:359
Alignment explanation
Indices: 22545634--22546325 Score: 1222
Period size: 359 Copynumber: 1.9 Consensus size: 359
22545624 GGCCCTAACA
* *
22545634 TTCGACGATTGCCTCTTATTACTTACCAATCTTGGTATACCTCTTAACTGTCACAAGGCCGTTTG
1 TTCGACGATTGCCTCTTATTACTTACCAATCTTGGTATACCTCTTAACTGTCACAAGGCCATTCG
* *
22545699 GCAAGGTCCAAAATCAGTATGCACAATTAATCACATGCATAAAATATACCATTTCTTAAACACTA
66 GCAAGGTCCAAAATCAGTATGAAAAATTAATCACATGCATAAAATATACCATTTCTTAAACACTA
*
22545764 ATACACACAAAAGGTTAGACCCACACCTTATTTACATGAATCTGATGCACTAAAATCATCGCAAC
131 ATACACACAAAAGGTTAAACCCACACCTTATTTACATGAATCTGATGCACTAAAATCATCGCAAC
*
22545829 TTCTACAACTTAAATCTAGACAGCTCTAGACCAGATCTGTACACAACATGAATGAAACTCGATTA
196 TTCTACAACTTAAATATAGACAGCTCTAGACCAGATCTGTACACAACATGAATGAAACTCGATTA
* *
22545894 AAACTAGCCTTTAGAAACACCTATAAGGTTCAAACAGAACAAGGATTAACAATGTCAAATCAAAT
261 AAACAAGCCTTTAGAAACACCTATAAGGTTCAAACAGAACAAGAATTAACAATGTCAAATCAAAT
22545959 TCAATTTTACCAATCTTGGTATACCTCTTAACTG
326 TCAATTTTACCAATCTTGGTATACCTCTTAACTG
* *
22545993 TTCGATGATTGCCTCTTATTACTTACCAATCTTGGTATACCTCTTAACTGTCACAATGCCATTCG
1 TTCGACGATTGCCTCTTATTACTTACCAATCTTGGTATACCTCTTAACTGTCACAAGGCCATTCG
22546058 GCAAGGTCCAAAATCAGTATGAAAAATTAATCACATGCATAAAATATACCATTTCTTAAACACTA
66 GCAAGGTCCAAAATCAGTATGAAAAATTAATCACATGCATAAAATATACCATTTCTTAAACACTA
* * **
22546123 ATACACACAAAAGGTTAAATCCACACCTTATTTACATGAATCTGATGTACTAACGTCATCGCAAC
131 ATACACACAAAAGGTTAAACCCACACCTTATTTACATGAATCTGATGCACTAAAATCATCGCAAC
* *
22546188 TTCTATAACTTAAATATAGACAGCTCTAGACCAGATTTGTACACAACATGAATGAAACTCGATTA
196 TTCTACAACTTAAATATAGACAGCTCTAGACCAGATCTGTACACAACATGAATGAAACTCGATTA
* *
22546253 AAACAAGCCTTTAGAAACCCCTATAAGGTTCGAACAGAACAAGAATTAACAATGTCAAATCAAAT
261 AAACAAGCCTTTAGAAACACCTATAAGGTTCAAACAGAACAAGAATTAACAATGTCAAATCAAAT
22546318 TCAATTTT
326 TCAATTTT
22546326 TGATCACTTA
Statistics
Matches: 315, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
359 315 1.00
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.28
Consensus pattern (359 bp):
TTCGACGATTGCCTCTTATTACTTACCAATCTTGGTATACCTCTTAACTGTCACAAGGCCATTCG
GCAAGGTCCAAAATCAGTATGAAAAATTAATCACATGCATAAAATATACCATTTCTTAAACACTA
ATACACACAAAAGGTTAAACCCACACCTTATTTACATGAATCTGATGCACTAAAATCATCGCAAC
TTCTACAACTTAAATATAGACAGCTCTAGACCAGATCTGTACACAACATGAATGAAACTCGATTA
AAACAAGCCTTTAGAAACACCTATAAGGTTCAAACAGAACAAGAATTAACAATGTCAAATCAAAT
TCAATTTTACCAATCTTGGTATACCTCTTAACTG
Found at i:22547127 original size:528 final size:524
Alignment explanation
Indices: 22546073--22547653 Score: 2082
Period size: 528 Copynumber: 3.0 Consensus size: 524
22546063 GTCCAAAATC
* *
22546073 AGTATGAAAAATTAATCACATGCATAAAATATACCATTTCTTAAACACTAATACACACAAAAGGT
1 AGTA-GAATAATTAATCACATGCATAAAATATACCATTTTTTAAACACTAATACACA-AAAAGGT
* * ** * * *
22546138 TAAATCCACACCTTATTTACATGAATCTGATGTACTAACGTC-ATCGCAACTTCTATAACTTAAA
64 TAAACCCACACCTAATTTATGTGAATCTGATGCACTAACG-CAATCGCAACTTCTACAACTTAGA
* * * *
22546202 TATAGACAGCTCTAGACCAGATTTGTACACAACATGAATGAAACTCGATTAAAACAAGCCTTTAG
128 TCTAGACAGCTCTAGACCGGATTTGTACACAACATGAATGAAACTCAATTAAAACCAGCCTTTAG
* * * *
22546267 AAACCCCTATAAGGTTCGAACAGAACAAGAATTAACAATGTCAAATCAAATTCAATTTTTGATCA
193 AAACCCCTATAAGGTTCGACCAGAACAAGGATTAACAGTGTCAAATCGAATTCAA-TTTTG-TCA
* * * * * **
22546332 CTTACTTACTGTATTTTGATATATAACGAAGACATGAATGAGTTTTGATGTCACTACTGATCCAT
256 CTTACTTACTATATTCT-ATATATAACAAAGACACGAATGAGTTTAGATGTCACTGTTGATCCAT
*
22546397 GACATTCGGATTAGGTCCTTCAATCAAAATAACACTCAAAAGTTAGTATAGAATATTTGACTATG
320 GACGTTCGGATTAGGTCCTTCAATCAAAATAACACTCAAAAGTTAGTATAGAATATTTGACTATG
** * * *
22546462 CCACCAGTAACATTCAACCAAAGTAGAAAAGAAAGGAAGAAGGAAACGAGATAAGATCTGATTGA
385 CCACCAGTAACATT-TGCCAAAGCAGAAAATAAAGGAAGAAGGAAACGAGATAAGATCTGATCGA
* *
22546527 AAGAAAAACTACTTACTCCACATGAACGACAGATTCGAAGAACCAATCAAAAATCCAAGCAGTAC
449 AAGAAAAACTACTTACTCCACATGAACAACAGATTCGAAGAACCAATCAAAAATCCAAGCAATAC
22546592 AGATGAATTC-
514 AGATGAATTCG
* *
22546602 AGCTAGAATAATTAATCACATGTATAAAATATACCATTTTTTAAACACTAATACACAAAAAGGTC
1 AG-TAGAATAATTAATCACATGCATAAAATATACCATTTTTTAAACACTAATACACAAAAAGGTT
* *
22546667 AAACCCACACCTAATTTATGTGAATAC-GATACACTAACGCAATTGCAACTTCTACAACTTAGAT
65 AAACCCACACCTAATTTATGTGAAT-CTGATGCACTAACGCAATCGCAACTTCTACAACTTAGAT
*
22546731 CTAGACAGCTCTAGACCGGATTTGTACACAACATGAATGAAACTCAATTAAAACCAGCCATTAGA
129 CTAGACAGCTCTAGACCGGATTTGTACACAACATGAATGAAACTCAATTAAAACCAGCCTTTAGA
*
22546796 AACCCCTATAAGGTTTGACCAGAACAAGGATTAACAGTGTCAAATCGAATTCAATATTTCGTCAC
194 AACCCCTATAAGGTTCGACCAGAACAAGGATTAACAGTGTCAAATCGAATTCAAT-TTT-GTCAC
* * * *
22546861 TTACTTACTCTATCTCTATTTATACCAAAGACACAAATGAGTTTAGATGTCACTGTTGATCCATG
257 TTACTTACTATAT-TCTATATATAACAAAGACACGAATGAGTTTAGATGTCACTGTTGATCCATG
* * *
22546926 ACGTTCGGATTAGGTCCTTCAATCAAAATAACAATCAAAAGCTAGTAAAGAATATTTGACTATGC
321 ACGTTCGGATTAGGTCCTTCAATCAAAATAACACTCAAAAGTTAGTATAGAATATTTGACTATGC
* * * * *
22546991 CACCAGTAACATTTGCCCAAAGCAAAAAATCAAGGGAGAAGGAACCGAGATCAGATCTGATCGAA
386 CACCAGTAACATTTG-CCAAAGCAGAAAATAAAGGAAGAAGGAAACGAGATAAGATCTGATCGAA
* * * *
22547056 AGAAAAATTACTTACTCTAC-TAGAACAACAGATTCGAAGAACCAATGAAAAATCTAAGCAATAT
450 AGAAAAACTACTTACTCCACAT-GAACAACAGATTCGAAGAACCAATCAAAAATCCAAGCAATA-
22547120 C-GATGAATTCG
513 CAGATGAATTCG
* *
22547131 AGTAGAATAATTAATCACATGCATAAAATATACCATTTTTTAAACACTAATACACACAAATGTTA
1 AGTAGAATAATTAATCACATGCATAAAATATACCATTTTTTAAACACTAATACACAAAAAGGTTA
* * **
22547196 GACCCACACCTAATTTATGTCAATCTGATGCACTAACATAATCGCAACTTCTACAACTTAGATCT
66 AACCCACACCTAATTTATGTGAATCTGATGCACTAACGCAATCGCAACTTCTACAACTTAGATCT
* * *
22547261 AGACAGCTCTAGATCGGATCTGTACACAACATGAATGAAACTTAATTAAAACCAGCCTTTAGAAA
131 AGACAGCTCTAGACCGGATTTGTACACAACATGAATGAAACTCAATTAAAACCAGCCTTTAGAAA
* * * * *
22547326 CCCCTATAAGGTTCGGCCAGAACAAGGACTAACAGTGTCAAATCGGATTCAATTTT-T-AATCAC
196 CCCCTATAAGGTTCGACCAGAACAAGGATTAACAGTGTCAAATCGAATTCAATTTTGTCACTTAC
* * * *
22547389 TTACTATATTTCGATATAGAACAAAGACACGAATGAGTCTCGATGTCACTGTTGATCCATGACGT
261 TTACTATA-TTCTATATATAACAAAGACACGAATGAGTTTAGATGTCACTGTTGATCCATGACGT
* * * *
22547454 TTGGATTAGGTCCTTCAATCAAAATAACACTCAAAAGTTAGTATAGAACATTCGGCTATGCCACC
325 TCGGATTAGGTCCTTCAATCAAAATAACACTCAAAAGTTAGTATAGAATATTTGACTATGCCACC
* * * * * * *
22547519 AATAACTTTTAGACAAATCAGAAAATAAAGGAAGAAGGAAACAAGATAAGATTTTGATCAAAAGA
390 AGTAACATTT-GCCAAAGCAGAAAATAAAGGAAGAAGGAAACGAGATAAGA-TCTGATCGAAAGA
* * * * * * * * * *
22547584 AAAACTATTTATTCAAC-CGAAACGACAAATTTGAAGCACCAAGT-AAAAATCGAAGCAGTACAG
453 AAAACTACTTACTCCACATG-AACAACAGATTCGAAGAACCAA-TCAAAAATCCAAGCAATACAG
22547647 ATGAATT
516 ATGAATT
22547654 TAGCCAGAAT
Statistics
Matches: 924, Mismatches: 111, Indels: 38
0.86 0.10 0.04
Matches are distributed among these distances:
524 158 0.17
525 67 0.07
526 1 0.00
527 7 0.01
528 631 0.68
529 58 0.06
530 2 0.00
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (524 bp):
AGTAGAATAATTAATCACATGCATAAAATATACCATTTTTTAAACACTAATACACAAAAAGGTTA
AACCCACACCTAATTTATGTGAATCTGATGCACTAACGCAATCGCAACTTCTACAACTTAGATCT
AGACAGCTCTAGACCGGATTTGTACACAACATGAATGAAACTCAATTAAAACCAGCCTTTAGAAA
CCCCTATAAGGTTCGACCAGAACAAGGATTAACAGTGTCAAATCGAATTCAATTTTGTCACTTAC
TTACTATATTCTATATATAACAAAGACACGAATGAGTTTAGATGTCACTGTTGATCCATGACGTT
CGGATTAGGTCCTTCAATCAAAATAACACTCAAAAGTTAGTATAGAATATTTGACTATGCCACCA
GTAACATTTGCCAAAGCAGAAAATAAAGGAAGAAGGAAACGAGATAAGATCTGATCGAAAGAAAA
ACTACTTACTCCACATGAACAACAGATTCGAAGAACCAATCAAAAATCCAAGCAATACAGATGAA
TTCG
Found at i:22554026 original size:18 final size:18
Alignment explanation
Indices: 22553998--22554035 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
22553988 TGCTTGTTTG
22553998 TTATTTTTTCTTTT-CTT
1 TTATTTTTTCTTTTGCTT
22554015 TTATTATTTTCTTTTGCTT
1 TTATT-TTTTCTTTTGCTT
22554034 TT
1 TT
22554036 CTTGTGTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 9 0.47
19 5 0.26
ACGTcount: A:0.08, C:0.11, G:0.03, T:0.79
Consensus pattern (18 bp):
TTATTTTTTCTTTTGCTT
Found at i:22557824 original size:41 final size:42
Alignment explanation
Indices: 22557766--22557884 Score: 206
Period size: 41 Copynumber: 2.9 Consensus size: 42
22557756 ATTTACTAGC
* *
22557766 GATACAATTTAAGCCATCACAACTATTCTTAAAATA-CTTGT
1 GATACAATTTAAACCATCACAACTATTGTTAAAATAGCTTGT
22557807 GATACAATTTAAACCATCACAACTATTGTTAAAA-AGCTTGT
1 GATACAATTTAAACCATCACAACTATTGTTAAAATAGCTTGT
22557848 GATACAATTTAAACCATCACAACTATTGTTAAAATAG
1 GATACAATTTAAACCATCACAACTATTGTTAAAATAG
22557885 TAACCAAGTA
Statistics
Matches: 74, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
40 1 0.01
41 71 0.96
42 2 0.03
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (42 bp):
GATACAATTTAAACCATCACAACTATTGTTAAAATAGCTTGT
Found at i:22571720 original size:22 final size:22
Alignment explanation
Indices: 22571655--22571734 Score: 76
Period size: 22 Copynumber: 3.7 Consensus size: 22
22571645 TACTATTTTC
*
22571655 TCTTTTAAACAGTAATTTATCTGA
1 TCTTTTAAACA-T-ATTTATTTGA
**
22571679 TCTTTTCTACATA---ATTTGA
1 TCTTTTAAACATATTTATTTGA
22571698 TCTTTTAAACATATTTATTTGA
1 TCTTTTAAACATATTTATTTGA
**
22571720 TCTTTTCTACATATT
1 TCTTTTAAACATATT
22571735 AAGTCACTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
19 16 0.35
22 20 0.43
23 1 0.02
24 9 0.20
ACGTcount: A:0.29, C:0.14, G:0.05, T:0.53
Consensus pattern (22 bp):
TCTTTTAAACATATTTATTTGA
Done.