Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 336 of 373
Found at i:112633049 original size:50 final size:50
Alignment explanation
Indices: 112632983--112633106 Score: 149
Period size: 50 Copynumber: 2.4 Consensus size: 50
112632973 ACATTATTTT
112632983 TATTTATTATTATTACTATTATTACTACTATTTTCATTATTATTACTATTAC
1 TATTT-TT-TTATTACTATTATTACTACTATTTTCATTATTATTACTATTAC
* * ** *
112633035 TATTTTTTTATTACTATTTTTATTACTATTTTTGTTATTATTATTATTAC
1 TATTTTTTTATTACTATTATTACTACTATTTTCATTATTATTACTATTAC
*** *
112633085 TATTGAATAATTACTATTATTA
1 TATTTTTTTATTACTATTATTA
112633107 TATTTTCTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
50 55 0.89
51 2 0.03
52 5 0.08
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (50 bp):
TATTTTTTTATTACTATTATTACTACTATTTTCATTATTATTACTATTAC
Found at i:112636227 original size:24 final size:24
Alignment explanation
Indices: 112636200--112636254 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
112636190 TAGAAACATT
*
112636200 AGAACAGATGC-AGAAGGAAATGCA
1 AGAACAGATGCAAGAA-CAAATGCA
* *
112636224 AGAACAAATGCAAGCACAAATGCA
1 AGAACAGATGCAAGAACAAATGCA
112636248 AGAACAG
1 AGAACAG
112636255 TTGGCAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.53, C:0.16, G:0.24, T:0.07
Consensus pattern (24 bp):
AGAACAGATGCAAGAACAAATGCA
Found at i:112636232 original size:12 final size:12
Alignment explanation
Indices: 112636217--112636253 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
112636207 ATGCAGAAGG
112636217 AAATGCAAGAAC
1 AAATGCAAGAAC
*
112636229 AAATGCAAGCAC
1 AAATGCAAGAAC
112636241 AAATGCAAGAAC
1 AAATGCAAGAAC
112636253 A
1 A
112636254 GTTGGCAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.57, C:0.19, G:0.16, T:0.08
Consensus pattern (12 bp):
AAATGCAAGAAC
Found at i:112642123 original size:45 final size:45
Alignment explanation
Indices: 112642057--112642144 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 45
112642047 TTCTCCTTAT
* * *
112642057 TCATTTTGTATTTTGGAAAAATGC-GATATCTTGATTAATTTATCC
1 TCATTTTGTACTTTAGAAAAAT-CTGATATCGTGATTAATTTATCC
* *
112642102 TCATTTTGTACTTTAGCAAAATCTGCTATCGTGATTAATTTAT
1 TCATTTTGTACTTTAGAAAAATCTGATATCGTGATTAATTTAT
112642145 TTCGAGCTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
44 1 0.03
45 36 0.97
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (45 bp):
TCATTTTGTACTTTAGAAAAATCTGATATCGTGATTAATTTATCC
Found at i:112642960 original size:89 final size:89
Alignment explanation
Indices: 112642841--112643332 Score: 246
Period size: 89 Copynumber: 5.4 Consensus size: 89
112642831 ATGGCGAATA
* * * *
112642841 TTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGCCACAAGTCTTATTTCCTTGAAATTGAAGC
1 TTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTACAAGTCTTATTTCCTTGAAGTTGAAGC
112642906 GGAGCAGACTGAAGATAGCAAATC
66 GGAGCAGACTGAAGATAGCAAATC
* * * * *
112642930 TTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAGTTACAGATCTTATCTCTCTGAAG
1 TTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTACAAG-T-C--TTATT-TC-CT-TGAAG
* ** * *
112642995 TTGCAGTAGAGCAGA-T---CATAGCAAACC
59 TTGAAGCGGAGCAGACTGAAGATAGCAAATC
* * ** * * * * *
112643022 TTATCTCCATAAAGTAGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGTAGC
1 TTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTACAAGTCTTATTTCCTTGAAGTTGAAGC
* **
112643087 GGAGTAGACTGAAGATAGTGAATC
66 GGAGCAGACTGAAGATAGCAAATC
* * * * * * *
112643111 TCATTTCCTTGAAGTTGCAGTGGAATAGATTGAAGCTATAAAT-TATAGATCTTATCTCTCTGAA
1 TTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTACAAGTCT-T--A--TT-TC-CT-TGAA
* ** * * *
112643175 GTTGCAGTAGAGCAGA-T---CATAGTAAACC
58 GTTGAAGCGGAGCAGACTGAAGATAGCAAATC
* * * * * * * * * * *
112643203 TTATCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAGTTCCCAAGTTTTATCTCCCTAAAGTTGCAG
1 TTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCT-ACAAGTCTTATTTCCTTGAAGTTGAAG
* * *
112643268 TGGAGAAGACTGAAGATAGCGAATC
65 CGGAGCAGACTGAAGATAGCAAATC
* * * * * *
112643293 TCATTTCCCTGAAGTTGCAGTGGAGCATATTAAAGCTACA
1 TTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTACA
112643333 TAAAGAAAAG
Statistics
Matches: 296, Mismatches: 82, Indels: 50
0.69 0.19 0.12
Matches are distributed among these distances:
85 16 0.05
86 19 0.06
87 4 0.01
88 5 0.02
89 80 0.27
90 39 0.13
91 4 0.01
92 79 0.27
93 8 0.03
94 5 0.02
95 5 0.02
96 32 0.11
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (89 bp):
TTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTACAAGTCTTATTTCCTTGAAGTTGAAGC
GGAGCAGACTGAAGATAGCAAATC
Found at i:112642964 original size:45 final size:45
Alignment explanation
Indices: 112642841--112643319 Score: 276
Period size: 45 Copynumber: 10.6 Consensus size: 45
112642831 ATGGCGAATA
* * ** *
112642841 TTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGCCA-CAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATC
* * * * * *
112642885 TTATTTCCTTGAAATTGAAGCGGAGCAGACTGAAGATAGCAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATC
* * *
112642930 TTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAGTTACAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT-AG---CAAATC
* * * *
112642981 TTATCTCTCTGAAGTTGCAGTAGAGCAGA-T---CATAGCAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATC
* * * * * * *
112643022 TTATCTCCATAAAGTAGCAGTGGAGTAGGTTGAAGTTA-CAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATC
* * * * **
112643066 TTATCTCCCTGAAGTTGTAGCGGAGTAGACTGAAGATAGTGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATC
* * * ** **
112643111 TCATTTCCTTGAAGTTGCAGTGGAATAGATTGAAGCTATAAATTATAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--AGCA-A-ATC
* * * * *
112643162 TTATCTCTCTGAAGTTGCAGTAGAGCAGA-T---CATAGTAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATC
* * * ** * *
112643203 TTATCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAGTTCCCAAGTT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATC
* * * *
112643248 TTATCTCCCTAAAGTTGCAGTGGAGAAGACTGAAGATAGCGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATC
* *
112643293 TCATTTCCCTGAAGTTGCAGTGGAGCA
1 TTATCTCCCTGAAGTTGCAGTGGAGCA
112643320 TATTAAAGCT
Statistics
Matches: 321, Mismatches: 92, Indels: 43
0.70 0.20 0.09
Matches are distributed among these distances:
41 53 0.17
42 3 0.01
43 3 0.01
44 65 0.20
45 131 0.41
47 4 0.01
48 2 0.01
49 2 0.01
50 3 0.01
51 55 0.17
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (45 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATC
Found at i:112643043 original size:92 final size:90
Alignment explanation
Indices: 112642920--112643237 Score: 297
Period size: 92 Copynumber: 3.5 Consensus size: 90
112642910 CAGACTGAAG
* * *
112642920 ATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAGTTACAGATCTTAT
1 ATAGCAAACCTTATCTCCCTGAAGTAGCAGTGGAACAGATTGAAGCTATAA-TTA-AGATCTTAT
112642985 CTCTCTGAAGTTGCAGTAGAGCAGATC
64 CTCTCTGAAGTTGCAGTAGAGCAGATC
* * ** * *
112643012 ATAGCAAACCTTATCTCCATAAAGTAGCAGTGGAGTAGGTTGAAG-T-T-A-CAAG-TCTTATCT
1 ATAGCAAACCTTATCTCCCTGAAGTAGCAGTGGAACAGATTGAAGCTATAATTAAGATCTTATCT
* * **
112643072 CCCTGAAGTTGTAGCGGAGTAGA-CTGAAG
66 CTCTGAAG-T-T-GC--AGTAGAGCAGATC
** * * * * * *
112643101 ATAGTGAATCTCATTTCCTTGAAGTTGCAGTGGAATAGATTGAAGCTATAAATTATAGATCTTAT
1 ATAGCAAACCTTATCTCCCTGAAGTAGCAGTGGAACAGATTGAAGCTAT-AATTA-AGATCTTAT
112643166 CTCTCTGAAGTTGCAGTAGAGCAGATC
64 CTCTCTGAAGTTGCAGTAGAGCAGATC
* * *
112643193 ATAGTAAACCTTATCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAG
1 ATAGCAAACCTTATCTCCCTGAAGTAGCAGTGGAACAGATTGAAG
112643238 TTCCCAAGTT
Statistics
Matches: 176, Mismatches: 37, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
85 15 0.09
86 3 0.02
87 2 0.01
88 2 0.01
89 39 0.22
90 8 0.05
91 8 0.05
92 76 0.43
93 3 0.02
94 2 0.01
95 3 0.02
96 15 0.09
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (90 bp):
ATAGCAAACCTTATCTCCCTGAAGTAGCAGTGGAACAGATTGAAGCTATAATTAAGATCTTATCT
CTCTGAAGTTGCAGTAGAGCAGATC
Found at i:112643145 original size:181 final size:181
Alignment explanation
Indices: 112642841--112643330 Score: 701
Period size: 181 Copynumber: 2.7 Consensus size: 181
112642831 ATGGCGAATA
* * * ** * * *
112642841 TTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGCCACAAGTCTTATTTCCTTGAAATTGAAGC
1 TTATCTCCCTAAAGTAGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGAAGC
* * *
112642906 GGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAA
66 GGAGAAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAA
*
112642971 GTTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACC
131 ATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACC
* * *
112643022 TTATCTCCATAAAGTAGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGTAGC
1 TTATCTCCCTAAAGTAGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGAAGC
* * * *
112643087 GGAGTAGACTGAAGATAGTGAATCTCATTTCCTTGAAGTTGCAGTGGAATAGATTGAAGCTATAA
66 GGAGAAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAA
* *
112643152 ATTATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGTAAACC
131 ATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACC
* * * * *
112643203 TTATCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAGTTCCCAAGTTTTATCTCCCTAAAGTTGCAG
1 TTATCTCCCTAAAGTAGCAGTGGAGCAGGTTGAAGTT-ACAAGTCTTATCTCCCTGAAGTTGAAG
* * * *
112643268 TGGAGAAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAGCATATTAAAGCTA
65 CGGAGAAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTA
112643331 CATAAAGAAA
Statistics
Matches: 273, Mismatches: 35, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
181 195 0.71
182 78 0.29
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (181 bp):
TTATCTCCCTAAAGTAGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGAAGC
GGAGAAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAA
ATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACC
Found at i:112644726 original size:3 final size:3
Alignment explanation
Indices: 112644718--112644861 Score: 114
Period size: 3 Copynumber: 48.7 Consensus size: 3
112644708 TAATTTTAAC
* * *
112644718 ATT ATT ATT ATT -GT ATT ATT ATT -GT ATT ATT ATT ATT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
112644764 TTT ATT ACT ATT ATT ACT ACT ATT -TT CGTT ATT ATT ACT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT
* * * * * *
112644809 ATT ATT TTT ATT ACT ATT TTT ATT ACT ATT TTT GTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
112644857 ATT AT
1 ATT AT
112644862 ATTTTCTTTC
Statistics
Matches: 109, Mismatches: 28, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
2 4 0.04
3 103 0.94
4 2 0.02
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:112644736 original size:11 final size:11
Alignment explanation
Indices: 112644720--112644751 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
112644710 ATTTTAACAT
112644720 TATTATTATTG
1 TATTATTATTG
112644731 TATTATTATTG
1 TATTATTATTG
112644742 TATTATTATT
1 TATTATTATT
112644752 ATTACTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (11 bp):
TATTATTATTG
Found at i:112644806 original size:51 final size:51
Alignment explanation
Indices: 112644742--112644866 Score: 198
Period size: 51 Copynumber: 2.5 Consensus size: 51
112644732 ATTATTATTG
112644742 TATTATTATTATTACTATTATTTTTATTACTATTATTACTACTATTTTCGT
1 TATTATTATTATTACTATTATTTTTATTACTATTATTACTACTATTTTCGT
* * * *
112644793 TATTATTACTATTACTATTATTTTTATTACTATTTTTATTACTATTTTTGT
1 TATTATTATTATTACTATTATTTTTATTACTATTATTACTACTATTTTCGT
*
112644844 TATTATTATTATTATTA-TATTTT
1 TATTATTATTATTACTATTATTTT
112644867 CTTTCTTTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 6 0.09
51 62 0.91
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (51 bp):
TATTATTATTATTACTATTATTTTTATTACTATTATTACTACTATTTTCGT
Found at i:112644877 original size:27 final size:26
Alignment explanation
Indices: 112644742--112644866 Score: 139
Period size: 27 Copynumber: 4.8 Consensus size: 26
112644732 ATTATTATTG
112644742 TATTATTATTATTACTATTATTTTTAT
1 TATTATTATTATTACTATT-TTTTTAT
* * **
112644769 TACTATTATTACTACTA--TTTTCGT
1 TATTATTATTATTACTATTTTTTTAT
*
112644793 TATTATTACTATTACTATTATTTTTAT
1 TATTATTATTATTACTATT-TTTTTAT
* *
112644820 TACTATTTTTATTACTATTTTTGTTAT
1 TATTATTATTATTACTATTTTT-TTAT
112644847 TATTATTATTATTA-TATTTT
1 TATTATTATTATTACTATTTT
112644867 CTTTCTTTAT
Statistics
Matches: 80, Mismatches: 14, Indels: 9
0.78 0.14 0.09
Matches are distributed among these distances:
24 19 0.24
26 9 0.11
27 52 0.65
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (26 bp):
TATTATTATTATTACTATTTTTTTAT
Found at i:112647176 original size:18 final size:18
Alignment explanation
Indices: 112647098--112647177 Score: 62
Period size: 18 Copynumber: 4.6 Consensus size: 18
112647088 AACTCCATAT
112647098 ATATATATATGTTTTGTAA
1 ATATAT-TATGTTTTGTAA
* *
112647117 ATCTATTATG---TGTAT
1 ATATATTATGTTTTGTAA
* *
112647132 ATATATATAT-TTATGTAT
1 ATATAT-TATGTTTTGTAA
112647150 ATATA-TATGTTTTGTAA
1 ATATATTATGTTTTGTAA
*
112647167 ATCTATTATGT
1 ATATATTATGT
112647178 GTATAGCTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
15 9 0.18
16 6 0.12
17 10 0.20
18 19 0.39
19 5 0.10
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.54
Consensus pattern (18 bp):
ATATATTATGTTTTGTAA
Found at i:112649037 original size:42 final size:42
Alignment explanation
Indices: 112648947--112649040 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
112648937 TAGTTTTTCC
* * * *
112648947 GAGCTTCAGATTAACCTTTATAGGTTTTTGTTTAGCTCCTAT
1 GAGCTTCTGTTTAACCCTTATAGGTTTTCGTTTAGCTCCTAT
* *
112648989 GAGCTTCTGTTTAACCCTTATGGGTTTTCGTTTAG-TACTTAT
1 GAGCTTCTGTTTAACCCTTATAGGTTTTCGTTTAGCT-CCTAT
*
112649031 GTGCTTCTGT
1 GAGCTTCTGT
112649041 GTAGGTATAC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.02
42 43 0.98
ACGTcount: A:0.17, C:0.17, G:0.19, T:0.47
Consensus pattern (42 bp):
GAGCTTCTGTTTAACCCTTATAGGTTTTCGTTTAGCTCCTAT
Found at i:112653264 original size:76 final size:77
Alignment explanation
Indices: 112653172--112653331 Score: 223
Period size: 76 Copynumber: 2.1 Consensus size: 77
112653162 GTTACATTTG
** ** * * *
112653172 TGTGCAAGTGTGAGACCATAGCTAAGCTATGGCAAAGTGGTAAAGTTTGTGATCATGGCAAGGCC
1 TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAAAGTAATAAAGTGTGTGAACATGGCAAAGCC
*
112653237 ATGGT-AAAATA
66 ATGATAAAAATA
* *
112653248 TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAATGTAATAAAGTGTGTGAACATGGTAAAGCC
1 TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAAAGTAATAAAGTGTGTGAACATGGCAAAGCC
112653313 ATGATAAAAATA
66 ATGATAAAAATA
112653325 TGTGCAA
1 TGTGCAA
112653332 AACCAAAGTG
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
76 60 0.82
77 13 0.18
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.24
Consensus pattern (77 bp):
TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAAAGTAATAAAGTGTGTGAACATGGCAAAGCC
ATGATAAAAATA
Found at i:112660327 original size:37 final size:37
Alignment explanation
Indices: 112660275--112660403 Score: 91
Period size: 37 Copynumber: 3.4 Consensus size: 37
112660265 ATTTGTGTGC
112660275 AAGTGTGAGACCATGGCTAAGCTATGGCAAAGTGATA
1 AAGTGTGAGACCATGGCTAAGCTATGGCAAAGTGATA
* * * * * *
112660312 AAGTGTGTGATCATGGC-AAGGCGATGGTAAAAT-ATGTGC
1 AAGTGTGAGACCATGGCTAA-GCTATGGCAAAGTGA--T-A
** ** *
112660351 AAGTGCAAGACCATATCTAAGCTATGGCAATGTGATA
1 AAGTGTGAGACCATGGCTAAGCTATGGCAAAGTGATA
* *
112660388 AAGTGTGTGATCATGG
1 AAGTGTGAGACCATGG
112660404 TAAAGCCATG
Statistics
Matches: 63, Mismatches: 23, Indels: 12
0.64 0.23 0.12
Matches are distributed among these distances:
36 3 0.05
37 35 0.56
38 2 0.03
39 20 0.32
40 3 0.05
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGTGTGAGACCATGGCTAAGCTATGGCAAAGTGATA
Found at i:112660419 original size:76 final size:77
Alignment explanation
Indices: 112660270--112660429 Score: 223
Period size: 76 Copynumber: 2.1 Consensus size: 77
112660260 GTTACATTTG
** * * *
112660270 TGTGCAAGTGTGAGACCATGGCTAAGCTATGGCAAAGTGATAAAGTGTGTGATCATGGCAAGGCG
1 TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAAAGTGATAAAGTGTGTGATCATGGCAAAGCC
*
112660335 ATGGT-AAAATA
66 ATGATAAAAATA
* * *
112660346 TGTGCAAGTGCAAGACCATATCTAAGCTATGGCAATGTGATAAAGTGTGTGATCATGGTAAAGCC
1 TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAAAGTGATAAAGTGTGTGATCATGGCAAAGCC
112660411 ATGATAAAAATA
66 ATGATAAAAATA
*
112660423 TATGCAA
1 TGTGCAA
112660430 AACCAAAGTG
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
76 61 0.84
77 12 0.16
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.25
Consensus pattern (77 bp):
TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAAAGTGATAAAGTGTGTGATCATGGCAAAGCC
ATGATAAAAATA
Found at i:112663610 original size:66 final size:65
Alignment explanation
Indices: 112663490--112663613 Score: 153
Period size: 66 Copynumber: 1.9 Consensus size: 65
112663480 ATCCCCTTTG
* * *
112663490 GTCTCAAGGCGCCCTTTGCAGGTTTTCACTTTGCCTCTCATTTTTTTTCTTTTTTATTTTTATTG
1 GTCTCAAAGCGCCCTTTGCAGGTTTTCACTTTGCCTCT-ATTTTTTTCCATTTTTATTTTTATTG
112663555 A
65 A
* *
112663556 GTCTCAAAGCGTCCTTTGCGGGTTTTCACTTTGGCC-CT-TTATCTTTTCCATTTTTATT
1 GTCTCAAAGCGCCCTTTGCAGGTTTTCACTTT-GCCTCTATT-T-TTTTCCATTTTTATT
112663614 AGGTCACAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
64 2 0.04
65 1 0.02
66 44 0.88
67 3 0.06
ACGTcount: A:0.12, C:0.23, G:0.15, T:0.51
Consensus pattern (65 bp):
GTCTCAAAGCGCCCTTTGCAGGTTTTCACTTTGCCTCTATTTTTTTCCATTTTTATTTTTATTGA
Found at i:112671544 original size:19 final size:19
Alignment explanation
Indices: 112671520--112671557 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
112671510 ATTCAACTTG
112671520 TTCATTTTTACTCTCTGAC
1 TTCATTTTTACTCTCTGAC
112671539 TTCATTTTTACTCTCTGAC
1 TTCATTTTTACTCTCTGAC
112671558 AAACTTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.05, T:0.53
Consensus pattern (19 bp):
TTCATTTTTACTCTCTGAC
Found at i:112675943 original size:21 final size:21
Alignment explanation
Indices: 112675917--112675959 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
112675907 TTAATTTTCT
*
112675917 ACTCCTACTAACAATCTAACA
1 ACTCCTACTAACAAGCTAACA
*
112675938 ACTCCTACTAATAAGCTAACA
1 ACTCCTACTAACAAGCTAACA
112675959 A
1 A
112675960 ATCTCCCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.30, G:0.02, T:0.23
Consensus pattern (21 bp):
ACTCCTACTAACAAGCTAACA
Found at i:112679788 original size:20 final size:20
Alignment explanation
Indices: 112679755--112679793 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
112679745 CAAAAATATT
*
112679755 AAAAATTATTAAATTTTAAC
1 AAAAATTATTAAATATTAAC
112679775 AAAAA-TATTAAAATATTAA
1 AAAAATTATT-AAATATTAA
112679794 AAATTAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAATTATTAAATATTAAC
Found at i:112679797 original size:29 final size:29
Alignment explanation
Indices: 112679726--112679798 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
112679716 TAAAAGTTAG
*
112679726 AAAAATTATTAAATTTTAACAAAAATATT
1 AAAAATTATAAAATTTTAACAAAAATATT
*
112679755 AAAAATTATTAAATTTTAACAAAAATATT
1 AAAAATTATAAAATTTTAACAAAAATATT
112679784 AAAATATTA-AAAATT
1 AAAA-ATTATAAAATT
112679799 AGAAAAAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
29 38 0.90
30 4 0.10
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (29 bp):
AAAAATTATAAAATTTTAACAAAAATATT
Found at i:112679807 original size:29 final size:29
Alignment explanation
Indices: 112679726--112679827 Score: 82
Period size: 29 Copynumber: 3.5 Consensus size: 29
112679716 TAAAAGTTAG
* ** *
112679726 AAAAATTATTAAATTTTAACAAAAATATT
1 AAAAATTATAAAATTAGAAAAAAAATATT
* ** *
112679755 AAAAATTATTAAATTTTAACAAAAATATT
1 AAAAATTATAAAATTAGAAAAAAAATATT
**
112679784 AAAATATTA-AAAATTAGAAAAAAAA-AGAA
1 AAAA-ATTATAAAATTAGAAAAAAAATA-TT
112679813 AAAAATTATAAAATT
1 AAAAATTATAAAATT
112679828 GTAGAAAATT
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
28 5 0.08
29 55 0.86
30 4 0.06
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (29 bp):
AAAAATTATAAAATTAGAAAAAAAATATT
Found at i:112679825 original size:10 final size:10
Alignment explanation
Indices: 112679812--112680014 Score: 74
Period size: 10 Copynumber: 21.4 Consensus size: 10
112679802 AAAAAAAAGA
112679812 AAAAAATTAT
1 AAAAAATTAT
*
112679822 --AAAATTGT
1 AAAAAATTAT
*
112679830 AGAAAATT-T
1 AAAAAATTAT
*
112679839 ATAAAAATTGT
1 A-AAAAATTAT
***
112679850 AAATTTTTAT
1 AAAAAATTAT
*
112679860 -AAAAATTGT
1 AAAAAATTAT
*
112679869 AAAAAAATAT
1 AAAAAATTAT
*
112679879 -AAAAATTGT
1 AAAAAATTAT
*
112679888 AAAAAAATAT
1 AAAAAATTAT
*
112679898 AAAATA-TAT
1 AAAAAATTAT
*
112679907 -AGAAA-TAT
1 AAAAAATTAT
*
112679915 AAAATA-TAT
1 AAAAAATTAT
*
112679924 -AGAAA-TAT
1 AAAAAATTAT
**
112679932 AAAAAAAAAT
1 AAAAAATTAT
* *
112679942 ATAAAATTTT
1 AAAAAATTAT
* * **
112679952 ATAAAGTCGT
1 AAAAAATTAT
112679962 AAGAAAATTAT
1 AA-AAAATTAT
*
112679973 AAAAAA-TGT
1 AAAAAATTAT
112679982 AAAAAATTAT
1 AAAAAATTAT
112679992 --AAAATTCAT
1 AAAAAATT-AT
112680001 AAAAAATTAT
1 AAAAAATTAT
112680011 AAAA
1 AAAA
112680015 TTTATTGTAC
Statistics
Matches: 141, Mismatches: 38, Indels: 28
0.68 0.18 0.14
Matches are distributed among these distances:
8 25 0.18
9 37 0.26
10 64 0.45
11 15 0.11
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:112679835 original size:19 final size:18
Alignment explanation
Indices: 112679812--112680016 Score: 117
Period size: 19 Copynumber: 10.9 Consensus size: 18
112679802 AAAAAAAAGA
112679812 AAAAAATTATAAAATTGT
1 AAAAAATTATAAAATTGT
*
112679830 AGAAAATTTATAAAAATTGT
1 A-AAAAATTAT-AAAATTGT
***
112679850 AAATTTTTATAAAAATTGT
1 AAAAAATTAT-AAAATTGT
*
112679869 AAAAAAATATAAAAATTGT
1 AAAAAATTAT-AAAATTGT
* *
112679888 AAAAAAATATAAAA-TAT
1 AAAAAATTATAAAATTGT
* *
112679905 ATAGAAA-TATAAAATATAT
1 A-AAAAATTATAAAAT-TGT
* * * * *
112679924 AGAAATATAAAAAAAAATAT
1 A-AAAAAT-TATAAAATTGT
** * *
112679944 AAAATTTTATAAAGTCGT
1 AAAAAATTATAAAATTGT
*
112679962 AAGAAAATTATAAAAAATGT
1 AA-AAAATTAT-AAAATTGT
*
112679982 AAAAAATTATAAAATTCAT
1 AAAAAATTATAAAATT-GT
112680001 AAAAAATTATAAAATT
1 AAAAAATTATAAAATT
112680017 TATTGTACCA
Statistics
Matches: 148, Mismatches: 29, Indels: 19
0.76 0.15 0.10
Matches are distributed among these distances:
17 10 0.07
18 21 0.14
19 92 0.62
20 20 0.14
21 5 0.03
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.31
Consensus pattern (18 bp):
AAAAAATTATAAAATTGT
Found at i:112679914 original size:17 final size:17
Alignment explanation
Indices: 112679892--112679935 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
112679882 AATTGTAAAA
112679892 AAATATAAAATATATAG
1 AAATATAAAATATATAG
112679909 AAATATAAAATATATAG
1 AAATATAAAATATATAG
112679926 AAATATAAAA
1 AAATATAAAA
112679936 AAAAATATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (17 bp):
AAATATAAAATATATAG
Found at i:112680019 original size:28 final size:27
Alignment explanation
Indices: 112679726--112679918 Score: 59
Period size: 29 Copynumber: 6.8 Consensus size: 27
112679716 TAAAAGTTAG
* * * *
112679726 AAAAATTATTAAATTTTAACAAAAATATT
1 AAAAATTATAAAATTAT-A-AAAAATGTA
* * *
112679755 AAAAATTATTAAATTTTAACAAAAATATTA
1 AAAAATTATAAAATTAT-A-AAAAAT-GTA
* * * *
112679785 AAATATTA-AAAATTAGAAAAAAAAAGAA
1 AAAAATTATAAAATT--ATAAAAAATGTA
* * *
112679813 AAAAATTATAAAATTGTAGAAAATTTA
1 AAAAATTATAAAATTATAAAAAATGTA
* * *
112679840 TAAAAATTGTAAATTTTTATAAAAATTGTA
1 -AAAAATTATAAA--ATTATAAAAAATGTA
* * *
112679870 AAAAAATATAAAAATTGTAAAAAA-ATA
1 AAAAATTAT-AAAATTATAAAAAATGTA
*
112679897 TAAAATATATAGAAA-TATAAAA
1 AAAAAT-TATA-AAATTATAAAA
112679919 TATATAGAAA
Statistics
Matches: 123, Mismatches: 31, Indels: 22
0.70 0.18 0.12
Matches are distributed among these distances:
27 19 0.15
28 33 0.27
29 49 0.40
30 22 0.18
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (27 bp):
AAAAATTATAAAATTATAAAAAATGTA
Found at i:112680212 original size:45 final size:45
Alignment explanation
Indices: 112680143--112680235 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
112680133 AATTGGGGTC
* *
112680143 TTTAACTTTAACAGTCAACGGTTAAAGTTAATGGTTAAAGGGCAT
1 TTTAACTTTAACAGTCAACAGTTAAAGCTAATGGTTAAAGGGCAT
112680188 TTTAACTTTAACAGTCAACAGTTAAAGCTAATGGTTAAAGGGCAT
1 TTTAACTTTAACAGTCAACAGTTAAAGCTAATGGTTAAAGGGCAT
112680233 TTT
1 TTT
112680236 TTATGCATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.34
Consensus pattern (45 bp):
TTTAACTTTAACAGTCAACAGTTAAAGCTAATGGTTAAAGGGCAT
Found at i:112680292 original size:29 final size:29
Alignment explanation
Indices: 112680231--112680292 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
112680221 GTTAAAGGGC
* *
112680231 ATTTTTTATGCATTTTATAATTTTTTTTT
1 ATTTTTTATGCATTTTATAATTTTTTCTA
*
112680260 ATTTTTTATG-ATATTTATACTTTTTTCTA
1 ATTTTTTATGCAT-TTTATAATTTTTTCTA
112680289 ATTT
1 ATTT
112680293 ATAATAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (29 bp):
ATTTTTTATGCATTTTATAATTTTTTCTA
Found at i:112684823 original size:20 final size:20
Alignment explanation
Indices: 112684798--112684849 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
112684788 ATTAAATCAT
112684798 AAGTATCGATACCCTACTCA
1 AAGTATCGATACCCTACTCA
* * *
112684818 AAGTATCAATACCTTACTCT
1 AAGTATCGATACCCTACTCA
112684838 AAGTATCGATAC
1 AAGTATCGATAC
112684850 TATGCCCCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.29
Consensus pattern (20 bp):
AAGTATCGATACCCTACTCA
Found at i:112687265 original size:20 final size:20
Alignment explanation
Indices: 112687240--112687283 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
112687230 AAAGTAAAAT
112687240 TCTTTAATCTATTCACTTTC
1 TCTTTAATCTATTCACTTTC
112687260 TCTTTAATCTATTCACTTTC
1 TCTTTAATCTATTCACTTTC
112687280 TCTT
1 TCTT
112687284 CAACTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.25, G:0.00, T:0.57
Consensus pattern (20 bp):
TCTTTAATCTATTCACTTTC
Found at i:112689524 original size:42 final size:42
Alignment explanation
Indices: 112689411--112689559 Score: 156
Period size: 43 Copynumber: 3.5 Consensus size: 42
112689401 ATGTGATATA
* * *
112689411 GTGTAAGACCATGTCTGGGACATTGGCATCAATTTAAGATTTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATC-GTATATGATTT-C
* *
112689455 GTGTACGACCATGTCTGGGGCATTGGCATCGTATATGATTTC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTC
* * * *
112689497 GTGTAAGATCC-TGTCTAGGACAGTGGCATCGATATTTGATATC
1 GTGTAAGA-CCATGTCTGGGACATTGGCATCG-TATATGATTTC
* *
112689540 ATGTAAGACCATATCTGGGA
1 GTGTAAGACCATGTCTGGGA
112689560 TATAGCATTG
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
42 27 0.31
43 33 0.38
44 28 0.32
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTC
Found at i:112693173 original size:13 final size:13
Alignment explanation
Indices: 112693157--112693189 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
112693147 TTTAATTAAA
*
112693157 TTAGTTAATTAGT
1 TTAGATAATTAGT
112693170 TTAGATAATTAGT
1 TTAGATAATTAGT
112693183 TTA-ATAA
1 TTAGATAA
112693190 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:112696521 original size:22 final size:23
Alignment explanation
Indices: 112696490--112696532 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
112696480 GGGTGAACTT
112696490 GATAGGAAAAACACGGGTGTGGG
1 GATAGGAAAAACACGGGTGTGGG
* *
112696513 GATA-GAAAACCACTGGTGTG
1 GATAGGAAAAACACGGGTGTG
112696533 TTAAGGACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.35, C:0.12, G:0.37, T:0.16
Consensus pattern (23 bp):
GATAGGAAAAACACGGGTGTGGG
Found at i:112698580 original size:5 final size:5
Alignment explanation
Indices: 112698538--112698636 Score: 53
Period size: 6 Copynumber: 18.8 Consensus size: 5
112698528 ATCCTCCTTT
* *
112698538 TTTTA -TTTA TTCTTA TTTT- TATTA TATTA TATTTA TTTTA TTTTTA
1 TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA T-TTTA TTTTA -TTTTA
* *
112698584 TTTTTC TTTTGA TTTTTA TTTTTA TTTTCA TTTCAA TTTTA --TTA TTTTA
1 -TTTTA TTTT-A -TTTTA -TTTTA TTTT-A TTT-TA TTTTA TTTTA TTTTA
112698633 TTTT
1 TTTT
112698637 GAAAGACATA
Statistics
Matches: 77, Mismatches: 6, Indels: 22
0.73 0.06 0.21
Matches are distributed among these distances:
3 3 0.04
4 7 0.09
5 29 0.38
6 34 0.44
7 4 0.05
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:112698600 original size:7 final size:6
Alignment explanation
Indices: 112698543--112698616 Score: 78
Period size: 6 Copynumber: 12.2 Consensus size: 6
112698533 CCTTTTTTTA
* * *
112698543 TTTATT CTTATT TTTATT ATATTATA TTTA-T TTTATT TTTATT TTTCTT
1 TTTATT TTTATT TTTATT -T-TTATT TTTATT TTTATT TTTATT TTTATT
* *
112698592 TTGATT TTTATT TTTATT TTCATT T
1 TTTATT TTTATT TTTATT TTTATT T
112698617 CAATTTTATT
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
5 4 0.07
6 46 0.82
7 2 0.04
8 4 0.07
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:112698600 original size:18 final size:17
Alignment explanation
Indices: 112698537--112698636 Score: 82
Period size: 18 Copynumber: 5.9 Consensus size: 17
112698527 AATCCTCCTT
*
112698537 TTTTTA-TTTATTCTTA
1 TTTTTATTTTATTTTTA
*
112698553 TTTTTA--TTA-TATTA
1 TTTTTATTTTATTTTTA
*
112698567 TATTTATTTTATTTTTA
1 TTTTTATTTTATTTTTA
*
112698584 TTTTTCTTTTGATTTTTA
1 TTTTTATTTT-ATTTTTA
**
112698602 TTTTTATTTTCATTTCAA
1 TTTTTATTTT-ATTTTTA
112698620 TTTTATTATTTTATTTT
1 -TTT-TTATTTTATTTT
112698637 GAAAGACATA
Statistics
Matches: 68, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
14 9 0.13
15 3 0.04
16 9 0.13
17 12 0.18
18 21 0.31
19 7 0.10
20 7 0.10
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (17 bp):
TTTTTATTTTATTTTTA
Found at i:112698622 original size:24 final size:22
Alignment explanation
Indices: 112698572--112698636 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 22
112698562 TATTATATTT
*
112698572 ATTTTATTTTTATTTTTCTTTTGA
1 ATTTTATTTTTA-TTTTC-TTTCA
*
112698596 TTTTTATTTTTATTTTCATTTCA
1 ATTTTATTTTTATTTTC-TTTCA
112698619 ATTTTATTATTTTATTTT
1 ATTTTA-T-TTTTATTTT
112698637 GAAAGACATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 14 0.40
24 12 0.34
25 9 0.26
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (22 bp):
ATTTTATTTTTATTTTCTTTCA
Found at i:112705209 original size:26 final size:26
Alignment explanation
Indices: 112705173--112705227 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
112705163 CATGAACTAC
112705173 CCCGATTCATGGAACTTGTAGACAAG
1 CCCGATTCATGGAACTTGTAGACAAG
112705199 CCCGATTCATGGAACTTGTAGACAAG
1 CCCGATTCATGGAACTTGTAGACAAG
112705225 CCC
1 CCC
112705228 ATCTACTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (26 bp):
CCCGATTCATGGAACTTGTAGACAAG
Found at i:112715232 original size:22 final size:22
Alignment explanation
Indices: 112715198--112715252 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
112715188 TATTTTAAAT
*
112715198 AATTAA-TATTTTGAGAATATA
1 AATTAATTATTTTGAGAATAGA
112715219 AATTAATTATTTTGAGAATAGA
1 AATTAATTATTTTGAGAATAGA
112715241 AATTAATTATTT
1 AATTAATTATTT
112715253 AGTTGAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 6 0.19
22 26 0.81
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (22 bp):
AATTAATTATTTTGAGAATAGA
Found at i:112733528 original size:13 final size:13
Alignment explanation
Indices: 112733510--112733535 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
112733500 ACGTTTGCTT
112733510 ATCGTAGAATGCC
1 ATCGTAGAATGCC
112733523 ATCGTAGAATGCC
1 ATCGTAGAATGCC
112733536 TTTTGGATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (13 bp):
ATCGTAGAATGCC
Found at i:112737195 original size:14 final size:14
Alignment explanation
Indices: 112737176--112737203 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
112737166 TCTATATAAC
112737176 TATGATAAAATCAA
1 TATGATAAAATCAA
112737190 TATGATAAAATCAA
1 TATGATAAAATCAA
112737204 GAACTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (14 bp):
TATGATAAAATCAA
Found at i:112741881 original size:41 final size:40
Alignment explanation
Indices: 112741805--112742012 Score: 231
Period size: 41 Copynumber: 5.1 Consensus size: 40
112741795 GCAAAAATTA
* * **
112741805 TAAAACACAGAGCAATAGCGGTG-TTTTGACAAAAACGCCGC
1 TAAAA-ACAGAGCATTAGCGGCGCTTTTG-GTAAAACGCCGC
* * ** *
112741846 TAAAAACTGAGCAATAGCGGCATTTTTTGTTAAAACG-CGC
1 TAAAAACAGAGCATTAGCGGC-GCTTTTGGTAAAACGCCGC
* *
112741886 AAAAAACAGAGCATTAGCGGCGCTTTTGGTGAAACGCCGC
1 TAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
* *
112741926 TAAAGACGAGAGCATTAGCGGCGCTTTTGGTGAAACGCCGC
1 TAAAAAC-AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
*
112741967 TAAAGACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAA-AACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
112742008 TAAAA
1 TAAAA
112742013 GTCATGTAAC
Statistics
Matches: 145, Mismatches: 17, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 11 0.08
40 44 0.30
41 84 0.58
42 6 0.04
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (40 bp):
TAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:112742078 original size:48 final size:47
Alignment explanation
Indices: 112742019--112742133 Score: 122
Period size: 47 Copynumber: 2.4 Consensus size: 47
112742009 AAAAGTCATG
* * *
112742019 TAACTCCTAAAATCTTAAACCCCAAAAAAAACATAAAACACTAATCTA
1 TAACCCCTAAAATCCTAAACCCCAAAAAAAACAT-AAACACTAAACTA
* ** * * ** *
112742067 TAACCCTTAAAATAGTAAACCCCTAACAAGCCCTAAACACTAAACTA
1 TAACCCCTAAAATCCTAAACCCCAAAAAAAACATAAACACTAAACTA
112742114 TAACCCCTAAAATCCTAAAC
1 TAACCCCTAAAATCCTAAAC
112742134 GCCGCAATAG
Statistics
Matches: 54, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
47 29 0.54
48 25 0.46
ACGTcount: A:0.50, C:0.29, G:0.02, T:0.20
Consensus pattern (47 bp):
TAACCCCTAAAATCCTAAACCCCAAAAAAAACATAAACACTAAACTA
Found at i:112743165 original size:9 final size:8
Alignment explanation
Indices: 112743149--112743258 Score: 52
Period size: 8 Copynumber: 13.9 Consensus size: 8
112743139 TTTATATGTT
112743149 AATTTAAA
1 AATTTAAA
112743157 AATTATAAA
1 AATT-TAAA
112743166 AATATTCAAAAA
1 AAT-TT---AAA
*
112743178 AAATT-AA
1 AATTTAAA
112743185 AATTTAAA
1 AATTTAAA
112743193 AA--TAAA
1 AATTTAAA
**
112743199 AAAATAAA
1 AATTTAAA
*
112743207 AA-ATAAA
1 AATTTAAA
* *
112743214 AAATAAAA
1 AATTTAAA
112743222 AATTT-AA
1 AATTTAAA
*
112743229 AATTTAGA
1 AATTTAAA
*
112743237 AA-TAAAA
1 AATTTAAA
*
112743244 AACTTAAA
1 AATTTAAA
112743252 AATTTAA
1 AATTTAA
112743259 TATTTAATAT
Statistics
Matches: 80, Mismatches: 11, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
6 6 0.08
7 25 0.31
8 33 0.41
9 8 0.10
10 1 0.01
11 2 0.03
12 5 0.06
ACGTcount: A:0.70, C:0.02, G:0.01, T:0.27
Consensus pattern (8 bp):
AATTTAAA
Found at i:112743191 original size:7 final size:7
Alignment explanation
Indices: 112743176--112743255 Score: 61
Period size: 7 Copynumber: 11.0 Consensus size: 7
112743166 AATATTCAAA
112743176 AAAAATT
1 AAAAATT
*
112743183 AAAATTT
1 AAAAATT
*
112743190 AAAAATAA
1 AAAAAT-T
*
112743198 AAAAATA
1 AAAAATT
*
112743205 AAAAATA
1 AAAAATT
*
112743212 AAAAATA
1 AAAAATT
112743219 AAAAATTT
1 AAAAA-TT
*
112743227 AAAATTT
1 AAAAATT
* *
112743234 AGAAATA
1 AAAAATT
112743241 AAAAACTT
1 AAAAA-TT
112743249 AAAAATT
1 AAAAATT
112743256 TAATATTTAA
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
7 43 0.72
8 17 0.28
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (7 bp):
AAAAATT
Found at i:112743199 original size:22 final size:22
Alignment explanation
Indices: 112743174--112743258 Score: 107
Period size: 22 Copynumber: 3.8 Consensus size: 22
112743164 AAAATATTCA
112743174 AAAAAAATTAAAATTTAAAAAT
1 AAAAAAATTAAAATTTAAAAAT
* * *
112743196 AAAAAAATAAAAAATAAAAAAT
1 AAAAAAATTAAAATTTAAAAAT
* *
112743218 AAAAAATTTAAAATTTAGAAAT
1 AAAAAAATTAAAATTTAAAAAT
*
112743240 AAAAAACTTAAAAATTTAA
1 AAAAAAATT-AAAATTTAA
112743259 TATTTAATAT
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
22 44 0.85
23 8 0.15
ACGTcount: A:0.73, C:0.01, G:0.01, T:0.25
Consensus pattern (22 bp):
AAAAAAATTAAAATTTAAAAAT
Found at i:112743200 original size:6 final size:7
Alignment explanation
Indices: 112743175--112743224 Score: 64
Period size: 7 Copynumber: 7.0 Consensus size: 7
112743165 AAATATTCAA
112743175 AAAAAAT
1 AAAAAAT
* *
112743182 TAAAATT
1 AAAAAAT
*
112743189 TAAAAAT
1 AAAAAAT
112743196 AAAAAAAT
1 -AAAAAAT
112743204 AAAAAAT
1 AAAAAAT
112743211 AAAAAAT
1 AAAAAAT
112743218 AAAAAAT
1 AAAAAAT
112743225 TTAAAATTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
7 32 0.84
8 6 0.16
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (7 bp):
AAAAAAT
Found at i:112743255 original size:30 final size:29
Alignment explanation
Indices: 112743207--112743264 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
112743197 AAAAAATAAA
112743207 AAATAAAAAATAAAAAATTTAAAATTTAG
1 AAATAAAAAATAAAAAATTTAAAATTTAG
* *
112743236 AAATAAAAAACTTAAAAATTTAATATTTA
1 AAATAAAAAA-TAAAAAATTTAAAATTTA
112743265 ATATTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (29 bp):
AAATAAAAAATAAAAAATTTAAAATTTAG
Found at i:112743265 original size:15 final size:15
Alignment explanation
Indices: 112743175--112743265 Score: 58
Period size: 15 Copynumber: 6.1 Consensus size: 15
112743165 AAATATTCAA
*
112743175 AAAAAATTAAAATTT
1 AAAAATTTAAAATTT
* **
112743190 AAAAA-TAAAAAAAT
1 AAAAATTTAAAATTT
* * * *
112743204 AAAAAATAAAAAATA
1 AAAAATTTAAAATTT
112743219 AAAAATTTAAAATTT
1 AAAAATTTAAAATTT
* ** *
112743234 AGAAATAAAAAACTT
1 AAAAATTTAAAATTT
*
112743249 AAAAATTTAATATTT
1 AAAAATTTAAAATTT
112743264 AA
1 AA
112743266 TATTTTAATT
Statistics
Matches: 57, Mismatches: 18, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
14 11 0.19
15 46 0.81
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.27
Consensus pattern (15 bp):
AAAAATTTAAAATTT
Found at i:112743351 original size:17 final size:18
Alignment explanation
Indices: 112743317--112743358 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
112743307 ATTTAAAAAT
*
112743317 AAATAAAAAAAATGTTAA
1 AAATAAAAAAAATATTAA
112743335 AAATAAAAAAAA-ATTAA
1 AAATAAAAAAAATATTAA
*
112743352 AATTAAA
1 AAATAAA
112743359 CAATAGTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (18 bp):
AAATAAAAAAAATATTAA
Found at i:112746427 original size:4 final size:4
Alignment explanation
Indices: 112746418--112746442 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
112746408 GTTGGCTGTT
112746418 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
112746443 GAATATACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:112746894 original size:21 final size:21
Alignment explanation
Indices: 112746849--112746894 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
112746839 CATTTCATTG
*
112746849 TGTTTGGAAGAAACAAAGAAG
1 TGTTTGGAAGAAACAAAGAAA
* * *
112746870 TGTTTGGAATAAATAAATAAA
1 TGTTTGGAAGAAACAAAGAAA
112746891 TGTT
1 TGTT
112746895 GTCAACATGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.02, G:0.22, T:0.30
Consensus pattern (21 bp):
TGTTTGGAAGAAACAAAGAAA
Found at i:112748558 original size:30 final size:30
Alignment explanation
Indices: 112748524--112748591 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
112748514 ATTCTTCTCA
*
112748524 ATATTTTGATAATGAATTTTA-AAT-TTTTTT
1 ATATTTT--TAATGAATTTTATAATATTTTAT
* *
112748554 ATATTTTTCATGATTTTTATAATATTTTAT
1 ATATTTTTAATGAATTTTATAATATTTTAT
112748584 ATATTTTT
1 ATATTTTT
112748592 TTAAATTTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 10 0.30
29 3 0.09
30 20 0.61
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (30 bp):
ATATTTTTAATGAATTTTATAATATTTTAT
Found at i:112748569 original size:20 final size:19
Alignment explanation
Indices: 112748546--112748599 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
112748536 TGAATTTTAA
112748546 ATTTTTTTATATTTT-TCAT
1 ATTTTTTTATATTTTAT-AT
*
112748565 GATTTTTATAATATTTTATAT
1 -ATTTTT-TTATATTTTATAT
*
112748586 ATTTTTTTAAATTT
1 ATTTTTTTATATTT
112748600 CATTATCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 6 0.21
20 12 0.41
21 10 0.34
22 1 0.03
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (19 bp):
ATTTTTTTATATTTTATAT
Found at i:112748571 original size:28 final size:30
Alignment explanation
Indices: 112748535--112748591 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
112748525 TATTTTGATA
*
112748535 ATGAATTTTA-AAT-TTTTTTATATTTTTC
1 ATGAATTTTATAATATTTTATATATTTTTC
*
112748563 ATGATTTTTATAATATTTTATATATTTTT
1 ATGAATTTTATAATATTTTATATATTTTT
112748592 TTAAATTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.36
29 3 0.12
30 13 0.52
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (30 bp):
ATGAATTTTATAATATTTTATATATTTTTC
Found at i:112749767 original size:14 final size:15
Alignment explanation
Indices: 112749743--112749772 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
112749733 GGATATCAAA
112749743 ACATGAATTAAGAAC
1 ACATGAATTAAGAAC
112749758 ACAT-AATTAAGAAC
1 ACATGAATTAAGAAC
112749772 A
1 A
112749773 TGTCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.57, C:0.13, G:0.10, T:0.20
Consensus pattern (15 bp):
ACATGAATTAAGAAC
Found at i:112751380 original size:21 final size:21
Alignment explanation
Indices: 112751342--112751381 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
112751332 ATTACTCCAA
*
112751342 AGAAGCCGATTGATCCATCTT
1 AGAAGCCGATTCATCCATCTT
112751363 AGAAGCCTGATTCA-CCATC
1 AGAAGCC-GATTCATCCATC
112751382 AAGACTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (21 bp):
AGAAGCCGATTCATCCATCTT
Found at i:112761598 original size:46 final size:46
Alignment explanation
Indices: 112761545--112761714 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 46
112761535 GGTATCCGAA
**
112761545 CTCGTTGAGTTGAGTTTGAGTTCACTTATGGATACGAATGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCTGAG
* * * * *
112761591 CTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATA-TAACTAGGCATACGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAA-T--GCCT--GAG
*
112761638 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCTGAG
* *
112761684 CTCATTGAGTTGAGGT-CGAGTTCGCTTATGG
1 CTCGTTGAGTTGA-GTCCGAGTTCACTTATGG
112761715 GCGAGTTACA
Statistics
Matches: 99, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 49 0.49
47 27 0.27
48 4 0.04
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCTGAG
Found at i:112765848 original size:39 final size:39
Alignment explanation
Indices: 112765804--112765882 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
112765794 TTAAGTAGTA
112765804 TTACGTGGTCAGATCATAATACAAAAAGATAACTTATAT
1 TTACGTGGTCAGATCATAATACAAAAAGATAACTTATAT
* * *
112765843 TTACGTGGTCGGATTATAATACATAAAGATAACTTATAT
1 TTACGTGGTCAGATCATAATACAAAAAGATAACTTATAT
112765882 T
1 T
112765883 AGTAGACGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (39 bp):
TTACGTGGTCAGATCATAATACAAAAAGATAACTTATAT
Found at i:112768917 original size:39 final size:39
Alignment explanation
Indices: 112768874--112768996 Score: 210
Period size: 39 Copynumber: 3.2 Consensus size: 39
112768864 CACAAAGCCC
* *
112768874 GAATAATCACCGGCACAAAGCCTGCTAGGCACTTAGCCT
1 GAATAATCACCGACACAAAGCCTGCTAGGCACTTAACCT
*
112768913 GAATAATCACCGACACAAAGCTTGCTAGGCACTTAACCT
1 GAATAATCACCGACACAAAGCCTGCTAGGCACTTAACCT
*
112768952 GAATAATCACCGACACAAAGCCTGCTAGGTACTTAACCT
1 GAATAATCACCGACACAAAGCCTGCTAGGCACTTAACCT
112768991 GAATAA
1 GAATAA
112768997 GCCTGCTAGG
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.36, C:0.28, G:0.17, T:0.20
Consensus pattern (39 bp):
GAATAATCACCGACACAAAGCCTGCTAGGCACTTAACCT
Found at i:112769005 original size:26 final size:26
Alignment explanation
Indices: 112768969--112769022 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
112768959 CACCGACACA
112768969 AAGCCTGCTAGGTACTTAACCTGAAT
1 AAGCCTGCTAGGTACTTAACCTGAAT
*
112768995 AAGCCTGCTAGGTACTTAGCCTGAAT
1 AAGCCTGCTAGGTACTTAACCTGAAT
112769021 AA
1 AA
112769023 TCACCGTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (26 bp):
AAGCCTGCTAGGTACTTAACCTGAAT
Found at i:112772860 original size:11 final size:11
Alignment explanation
Indices: 112772844--112772888 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 11
112772834 TATCCCATAC
112772844 TATAATATTAT
1 TATAATATTAT
112772855 TATAATATTCATAT
1 TATAATA-T--TAT
*
112772869 TACAATATTAT
1 TATAATATTAT
112772880 TATAATATT
1 TATAATATT
112772889 TAATTTTACG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 18 0.62
12 1 0.03
13 1 0.03
14 9 0.31
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATATTAT
Found at i:112772867 original size:25 final size:25
Alignment explanation
Indices: 112772839--112772888 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
112772829 ATTTTTATCC
*
112772839 CATACTATAATATTATTATAATATT
1 CATACTACAATATTATTATAATATT
*
112772864 CATATTACAATATTATTATAATATT
1 CATACTACAATATTATTATAATATT
112772889 TAATTTTACG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (25 bp):
CATACTACAATATTATTATAATATT
Found at i:112774208 original size:3 final size:3
Alignment explanation
Indices: 112774200--112774229 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
112774190 ATGCTATGAT
112774200 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
112774230 ACATGCATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:112775368 original size:24 final size:24
Alignment explanation
Indices: 112775331--112775422 Score: 87
Period size: 24 Copynumber: 3.8 Consensus size: 24
112775321 CAGTAGAAAA
*
112775331 CCTGGAGGCATGCCTGGTGGGTTT
1 CCTGGAGGAATGCCTGGTGGGTTT
* * *
112775355 CCAGGTGGAATGCCCGG-GGGTTTT
1 CCTGGAGGAATGCCTGGTGGG-TTT
* * *
112775379 CCTGGAGGTATGCCTGGAGGTTTT
1 CCTGGAGGAATGCCTGGTGGGTTT
* *
112775403 CCTGGAGGCATGCCAGGTGG
1 CCTGGAGGAATGCCTGGTGG
112775423 CATGCCTGGA
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
23 3 0.06
24 49 0.91
25 2 0.04
ACGTcount: A:0.12, C:0.21, G:0.41, T:0.26
Consensus pattern (24 bp):
CCTGGAGGAATGCCTGGTGGGTTT
Found at i:112775396 original size:12 final size:12
Alignment explanation
Indices: 112775379--112775432 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 12
112775369 CGGGGGTTTT
*
112775379 CCTGGAGGTATG
1 CCTGGAGGCATG
** *
112775391 CCTGGAGGTTTT
1 CCTGGAGGCATG
112775403 CCTGGAGGCATG
1 CCTGGAGGCATG
* *
112775415 CCAGGTGGCATG
1 CCTGGAGGCATG
112775427 CCTGGA
1 CCTGGA
112775433 AATGTTGATT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.15, C:0.22, G:0.39, T:0.24
Consensus pattern (12 bp):
CCTGGAGGCATG
Found at i:112778214 original size:28 final size:28
Alignment explanation
Indices: 112778182--112778238 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
112778172 GGTTATTTAT
112778182 TTATTTATAATTATAACCTTTTATCTAA
1 TTATTTATAATTATAACCTTTTATCTAA
*
112778210 TTATTTATAATTTTAACCTTTTATCTAA
1 TTATTTATAATTATAACCTTTTATCTAA
112778238 T
1 T
112778239 GTATGTTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (28 bp):
TTATTTATAATTATAACCTTTTATCTAA
Found at i:112790867 original size:21 final size:21
Alignment explanation
Indices: 112790826--112790867 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
112790816 CGTGGCGCGT
* *
112790826 GTACGGGGGCTGTGTGCTGGC
1 GTACGGAGGCTGTGGGCTGGC
112790847 GTACGGAGGC-GTGGGCGTGGC
1 GTACGGAGGCTGTGGGC-TGGC
112790868 TGTGGTGCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.07, C:0.19, G:0.55, T:0.19
Consensus pattern (21 bp):
GTACGGAGGCTGTGGGCTGGC
Found at i:112792758 original size:30 final size:26
Alignment explanation
Indices: 112792723--112792791 Score: 75
Period size: 30 Copynumber: 2.4 Consensus size: 26
112792713 TGTTAAATAT
112792723 ATATATATATAGATCTTTAAAAGAAATAA
1 ATATATATATAGA--TTTAAAAGAAA-AA
*
112792752 ATTATATATAAGTAGATTTAAAAGAAAAT
1 A-TATATAT-A-TAGATTTAAAAGAAAAA
112792781 ATATATATATA
1 ATATATATATA
112792792 CAAATATAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
26 2 0.06
27 1 0.03
28 7 0.19
29 3 0.08
30 18 0.50
31 1 0.03
32 4 0.11
ACGTcount: A:0.55, C:0.01, G:0.07, T:0.36
Consensus pattern (26 bp):
ATATATATATAGATTTAAAAGAAAAA
Found at i:112807599 original size:22 final size:22
Alignment explanation
Indices: 112807557--112807600 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
112807547 GGTCATGATT
*
112807557 TTAAAAATTAAGAAAATATAAA
1 TTAAAAATTAAGAAAACATAAA
*
112807579 TTAAAATTTAA-AAATACATAAA
1 TTAAAAATTAAGAAA-ACATAAA
112807601 AACATAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (22 bp):
TTAAAAATTAAGAAAACATAAA
Found at i:112807629 original size:39 final size:38
Alignment explanation
Indices: 112807586--112807672 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 38
112807576 AAATTAAAAT
112807586 TTAAAAATACATAAAAACATAAAAAATA-AAAAAATTATA
1 TTAAAAATACATAAAAACATAAAAAATACAAAAAA-T-TA
** * *
112807625 TTAAAAATTGATAAAAATATATAAAATACTAAAAAATTA
1 TTAAAAATACATAAAAACATAAAAAATAC-AAAAAATTA
112807664 TTAAAAATA
1 TTAAAAATA
112807673 TATTTAAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 34 0.83
40 1 0.02
41 6 0.15
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (38 bp):
TTAAAAATACATAAAAACATAAAAAATACAAAAAATTA
Found at i:112807658 original size:49 final size:47
Alignment explanation
Indices: 112807558--112807661 Score: 122
Period size: 49 Copynumber: 2.2 Consensus size: 47
112807548 GTCATGATTT
* *
112807558 TAAAAATTAAGAAAATATAAATTAAAATTTAAAAATACATAAAAACA
1 TAAAAAATAAAAAAATATAAATTAAAATTTAAAAATACATAAAAACA
* *
112807605 TAAAAAATAAAAAAAT-TATATTAAAAATTGATAAAAATATATAAAATAC-
1 TAAAAAATAAAAAAATATAAATT-AAAATT--TAAAAATACATAAAA-ACA
112807654 TAAAAAAT
1 TAAAAAAT
112807662 TATTAAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
46 5 0.10
47 20 0.41
49 22 0.45
50 2 0.04
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (47 bp):
TAAAAAATAAAAAAATATAAATTAAAATTTAAAAATACATAAAAACA
Found at i:112807660 original size:10 final size:9
Alignment explanation
Indices: 112807588--112807674 Score: 52
Period size: 10 Copynumber: 9.0 Consensus size: 9
112807578 ATTAAAATTT
*
112807588 AAAAATACA
1 AAAAATATA
*
112807597 TAAAAACATA
1 -AAAAATATA
112807607 AAAAATA-A
1 AAAAATATA
112807615 AAAAATTATA
1 AAAAA-TATA
112807625 TTAAAAAT-TGA
1 --AAAAATAT-A
112807636 TAAAAATATA
1 -AAAAATATA
*
112807646 TAAAATACTA
1 AAAAATA-TA
*
112807656 AAAAATTATT
1 AAAAA-TATA
112807666 AAAAATATA
1 AAAAATATA
112807675 TTTAAATATT
Statistics
Matches: 62, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
8 6 0.10
9 17 0.27
10 29 0.47
11 5 0.08
12 5 0.08
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.26
Consensus pattern (9 bp):
AAAAATATA
Found at i:112807679 original size:12 final size:10
Alignment explanation
Indices: 112807623--112807698 Score: 52
Period size: 10 Copynumber: 7.5 Consensus size: 10
112807613 AAAAAAATTA
112807623 TATTAAAAAT
1 TATTAAAAAT
112807633 TGA-TAAAAA-
1 T-ATTAAAAAT
112807642 TA-TATAAAA-
1 TATTA-AAAAT
*
112807651 TACTAAAAAAT
1 TA-TTAAAAAT
112807662 TATTAAAAAT
1 TATTAAAAAT
*
112807672 ATATTTAAATAT
1 -TA-TTAAAAAT
*
112807684 TATTAAAATT
1 TATTAAAAAT
112807694 TATTA
1 TATTA
112807699 TATTTTCACA
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
8 3 0.06
9 7 0.13
10 29 0.54
11 8 0.15
12 7 0.13
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (10 bp):
TATTAAAAAT
Found at i:112807692 original size:11 final size:11
Alignment explanation
Indices: 112807623--112807698 Score: 51
Period size: 11 Copynumber: 7.5 Consensus size: 11
112807613 AAAAAAATTA
112807623 TATTAAAA-AT
1 TATTAAAATAT
*
112807633 TGATAAAAATA-
1 T-ATTAAAATAT
*
112807644 TA-TAAAATAC
1 TATTAAAATAT
112807654 TA--AAAA-AT
1 TATTAAAATAT
112807662 TATTAAAA-AT
1 TATTAAAATAT
*
112807672 ATATTTAAATAT
1 -TATTAAAATAT
112807684 TATTAAAAT-T
1 TATTAAAATAT
112807694 TATTA
1 TATTA
112807699 TATTTTCACA
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
8 3 0.06
9 10 0.19
10 16 0.30
11 22 0.41
12 3 0.06
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (11 bp):
TATTAAAATAT
Found at i:112808200 original size:30 final size:31
Alignment explanation
Indices: 112808138--112808214 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
112808128 TCATTTTAAG
112808138 ATAGAA-TGACTAAAATTGACAACTTATCTA
1 ATAGAAGTGACTAAAATTGACAACTTATCTA
** * *
112808168 ATA-AAGTGACTAAAATTGGTAACTTTTTTA
1 ATAGAAGTGACTAAAATTGACAACTTATCTA
**
112808198 ATAGGGGTGACTAAAAT
1 ATAGAAGTGACTAAAAT
112808215 AACAAAATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 2 0.05
30 26 0.67
31 11 0.28
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.32
Consensus pattern (31 bp):
ATAGAAGTGACTAAAATTGACAACTTATCTA
Found at i:112808914 original size:126 final size:125
Alignment explanation
Indices: 112808737--112808999 Score: 375
Period size: 126 Copynumber: 2.1 Consensus size: 125
112808727 TTGTACAGTT
* * *
112808737 AGCAAAAGTACTGAAAAAACTCCTAGCTGGAAGCTATTTTTGTACAGTAGTTTGTGAAAAAATAA
1 AGCAAAAGTACTGAAAAAACTCCTAGCTGGAAGCTATTTTTCTACAATAGTTTCTGAAAAAATAA
* * * * * *
112808802 TTTTGAGAAGATGGTTCTGAAAAAATATGTTCAAAAACAGTTCAAGCAGGATACACTGTC
66 TTTTGAAAAGATGGTTCTGAAAAAATAGGCTAAAAAACAATTCAAGAAGGATACACTGTC
* * *
112808862 AGCAAAAGTACTGAAAAAAGCT-CTCAGCTGGACGTTCTTTTTCTACAATAGTTTCTGAAAAAAT
1 AGCAAAAGTACTGAAAAAA-CTCCT-AGCTGGAAGCTATTTTTCTACAATAGTTTCTGAAAAAAT
*
112808926 AATTTTGAAAAGATGGTTCTGAAAAAATAGGCTAAAAAACAATTCAAGAAGGATGCACTGTC
64 AATTTTGAAAAGATGGTTCTGAAAAAATAGGCTAAAAAACAATTCAAGAAGGATACACTGTC
*
112808988 AGCAAAAATACT
1 AGCAAAAGTACT
112809000 ACAGACCCAT
Statistics
Matches: 122, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
125 21 0.17
126 101 0.83
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (125 bp):
AGCAAAAGTACTGAAAAAACTCCTAGCTGGAAGCTATTTTTCTACAATAGTTTCTGAAAAAATAA
TTTTGAAAAGATGGTTCTGAAAAAATAGGCTAAAAAACAATTCAAGAAGGATACACTGTC
Found at i:112809318 original size:25 final size:23
Alignment explanation
Indices: 112809264--112809320 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
112809254 TACTGAGTGT
* *
112809264 TATTAAAAATTATAAAATAAATAC
1 TATT-AAAATTATAAAATAAAAAA
112809288 TAATTAAAATTATATAAATGAAAAAA
1 T-ATTAAAATTATA-AAAT-AAAAAA
112809314 TATTAAA
1 TATTAAA
112809321 TAATATTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 10 0.36
25 13 0.46
26 5 0.18
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
TATTAAAATTATAAAATAAAAAA
Found at i:112810384 original size:25 final size:24
Alignment explanation
Indices: 112810338--112810385 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
112810328 AAGATAATGG
*
112810338 AAAATAAATAAAAAAAGGAAATTT
1 AAAATAAATAAAAAAAGAAAATTT
112810362 AAAATAACATAAAAGAAA-AAAATT
1 AAAATAA-ATAAAA-AAAGAAAATT
112810386 AAATTGCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 11 0.52
26 3 0.14
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.19
Consensus pattern (24 bp):
AAAATAAATAAAAAAAGAAAATTT
Found at i:112810387 original size:24 final size:23
Alignment explanation
Indices: 112810338--112810388 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 23
112810328 AAGATAATGG
*
112810338 AAAATAAATAAAAAAAGGAAATTT
1 AAAATAAATAAAAAAA-GAAAATT
112810362 AAAATAACATAAAAGAAA-AAAATT
1 AAAATAA-ATAAAA-AAAGAAAATT
112810386 AAA
1 AAA
112810389 TTGCTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 15 0.62
25 6 0.25
26 3 0.12
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.18
Consensus pattern (23 bp):
AAAATAAATAAAAAAAGAAAATT
Found at i:112817351 original size:24 final size:25
Alignment explanation
Indices: 112817294--112817356 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 25
112817284 GTCTTTTAAG
* *
112817294 AACATGAAAATTAAAAACAAAAATA
1 AACATGAAAAATAAAAACAAAAACA
*
112817319 AACAT-AAAAATAAAAAGAAAAACA
1 AACATGAAAAATAAAAACAAAAACA
*
112817343 AA-GTGAAAAATAAA
1 AACATGAAAAATAAA
112817357 TGGAAACAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 1 0.03
24 27 0.82
25 5 0.15
ACGTcount: A:0.75, C:0.06, G:0.06, T:0.13
Consensus pattern (25 bp):
AACATGAAAAATAAAAACAAAAACA
Found at i:112819180 original size:13 final size:14
Alignment explanation
Indices: 112819156--112819185 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
112819146 GGTAAACAAT
112819156 AAGGGAGAAGGGAC
1 AAGGGAGAAGGGAC
112819170 AAGGG-GAAGGGAC
1 AAGGGAGAAGGGAC
112819183 AAG
1 AAG
112819186 TGTGAGGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.43, C:0.07, G:0.50, T:0.00
Consensus pattern (14 bp):
AAGGGAGAAGGGAC
Found at i:112829143 original size:46 final size:46
Alignment explanation
Indices: 112829090--112829183 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
112829080 AAATTGTTGA
112829090 ATTAATTTAATTTGATAGTTAATGTACCACCCCAAACCCGGCTTAG
1 ATTAATTTAATTTGATAGTTAATGTACCACCCCAAACCCGGCTTAG
112829136 ATTAATTTAATTTGATAGTTAATGTACCACCCCAAACCCGGCTTAG
1 ATTAATTTAATTTGATAGTTAATGTACCACCCCAAACCCGGCTTAG
112829182 AT
1 AT
112829184 GTTATGGCCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (46 bp):
ATTAATTTAATTTGATAGTTAATGTACCACCCCAAACCCGGCTTAG
Found at i:112830042 original size:21 final size:21
Alignment explanation
Indices: 112830016--112830079 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
112830006 TTATAACAAA
*
112830016 TACAAATCATGCTTATCATAT
1 TACAAATCATACTTATCATAT
* * *
112830037 TACAAATCAAACATATCGTAT
1 TACAAATCATACTTATCATAT
*
112830058 TACAAATTATACTTATCATAT
1 TACAAATCATACTTATCATAT
112830079 T
1 T
112830080 TTAGATCATA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.38
Consensus pattern (21 bp):
TACAAATCATACTTATCATAT
Found at i:112833264 original size:26 final size:26
Alignment explanation
Indices: 112833228--112833337 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
112833218 TAATACAAAT
112833228 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
112833254 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
112833280 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
112833306 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
112833332 TGATAA
1 TGATAA
112833338 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:112834821 original size:28 final size:26
Alignment explanation
Indices: 112834779--112834853 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
112834769 AAAAGTAGCT
* * *
112834779 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
*
112834807 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
112834833 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
112834854 GATTACTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.31
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:112835053 original size:54 final size:54
Alignment explanation
Indices: 112834955--112835085 Score: 217
Period size: 54 Copynumber: 2.4 Consensus size: 54
112834945 TGGAGGAAGC
* *
112834955 GTCCTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCAC-AATTATCTGATATGATGGCTCTGCCACATATATCT
112835010 GTCCTGGTGGCTATGCCACAATTATCTGATATGATGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATATGATGGCTCTGCCACATATATCT
* *
112835064 GTTCTGGTGGCTCTGCCACAAT
1 GTCCTGGTGGCTATGCCACAAT
112835086 ATTTGTATCT
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
54 53 0.74
55 19 0.26
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATATGATGGCTCTGCCACATATATCT
Found at i:112835096 original size:27 final size:27
Alignment explanation
Indices: 112834958--112835117 Score: 159
Period size: 27 Copynumber: 5.9 Consensus size: 27
112834948 AGGAAGCGTC
*
112834958 CTGGTGGCTATGCCACAAATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AA-TATCTGTAT
*
112834986 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
112835013 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
* *
112835040 ATGATGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
112835067 CTGGTGGCTCTGCCACAATATTTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
112835094 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
112835118 GCAGCCTCGC
Statistics
Matches: 111, Mismatches: 13, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
26 9 0.08
27 85 0.77
28 17 0.15
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:112835111 original size:81 final size:81
Alignment explanation
Indices: 112834962--112835117 Score: 201
Period size: 81 Copynumber: 1.9 Consensus size: 81
112834952 AGCGTCCTGG
*
112834962 TGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTATGCC
1 TGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTATGCC
112835027 ACAATTATCTGATATGA
66 ACAA-TATCTGATATGA
* * * * *
112835044 TGGCTCTGCCACATA-TATCTGTTCTGGTGGCTCTGCCACA-ATATTTGTATCTGGTGACT-TCG
1 TGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACTAT-G
*
112835106 TCACAATATCTG
64 CCACAATATCTG
112835118 GCAGCCTCGC
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
80 14 0.22
81 38 0.58
82 13 0.20
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.35
Consensus pattern (81 bp):
TGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTATGCC
ACAATATCTGATATGA
Found at i:112837205 original size:24 final size:24
Alignment explanation
Indices: 112837159--112837205 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
112837149 AGGATCGTAA
* *
112837159 AGGAGTTCCAAGATGTTTTTCCGG
1 AGGAGTTCCAAGATGTGTCTCCGG
112837183 AGGAGCTTCCAAGAT-TGTCTCCG
1 AGGAG-TTCCAAGATGTGTCTCCG
112837206 AATCGAGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (24 bp):
AGGAGTTCCAAGATGTGTCTCCGG
Found at i:112839124 original size:26 final size:26
Alignment explanation
Indices: 112839088--112839197 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
112839078 TGATACAAAT
112839088 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
112839114 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
112839140 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
112839166 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
112839192 TGATAA
1 TGATAA
112839198 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:112840681 original size:28 final size:26
Alignment explanation
Indices: 112840639--112840713 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
112840629 AAAAGTAGCT
* * *
112840639 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
*
112840667 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
112840693 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
112840714 GGTTACTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.31
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:112840876 original size:27 final size:25
Alignment explanation
Indices: 112840818--112840949 Score: 147
Period size: 27 Copynumber: 4.9 Consensus size: 25
112840808 AGGAAGCGTC
* *
112840818 CTGGTGGCTATACCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC-AA-TATCTG-T
112840846 CTGGTGGCTCTGCCACATATATCTGT
1 CTGGTGGCTCTGCCACA-ATATCTGT
*
112840872 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAA-TATCTG-T
*
112840900 ATGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTG-T
112840927 CTGGTGGCTCTGCCACAATATCT
1 CTGGTGGCTCTGCCACAATATCT
112840950 ATATCTGGTG
Statistics
Matches: 92, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
26 8 0.09
27 67 0.73
28 17 0.18
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.33
Consensus pattern (25 bp):
CTGGTGGCTCTGCCACAATATCTGT
Found at i:112840909 original size:54 final size:54
Alignment explanation
Indices: 112840815--112840953 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 54
112840805 TGGAGGAAGC
* *
112840815 GTCCTGGTGGCTATACCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCAC-AATTATCTGATATGGTGGCTCTGCCACATATATCT
112840870 GTCCTGGTGGCTATGCCACAATTATCTGATATGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATATGGTGGCTCTGCCACATATATCT
* *
112840924 GTTCTGGTGGCTCTGCCACAA-TATCT-ATAT
1 GTCCTGGTGGCTATGCCACAATTATCTGATAT
112840954 CTGGTGACTT
Statistics
Matches: 80, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
52 4 0.05
53 5 0.06
54 53 0.66
55 18 0.22
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATATGGTGGCTCTGCCACATATATCT
Found at i:112840956 original size:27 final size:27
Alignment explanation
Indices: 112840818--112840977 Score: 134
Period size: 27 Copynumber: 5.9 Consensus size: 27
112840808 AGGAAGCGTC
* * *
112840818 CTGGTGGCTATACCACAAATTATCT-GAT
1 CTGGTGGCTCTGCCAC-AA-TATCTATAT
* *
112840846 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTATAT
*
112840873 CTGGTGGCTATGCCACAATTATCTGATA-
1 CTGGTGGCTCTGCCACAA-TATCT-ATAT
*
112840901 -TGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTATAT
112840927 CTGGTGGCTCTGCCACAATATCTATAT
1 CTGGTGGCTCTGCCACAATATCTATAT
* *
112840954 CTGGTGACT-TCGTCACAATATCTA
1 CTGGTGGCTCT-GCCACAATATCTA
112840978 GCAGCCTCGC
Statistics
Matches: 111, Mismatches: 11, Indels: 21
0.78 0.08 0.15
Matches are distributed among these distances:
26 10 0.09
27 84 0.76
28 17 0.15
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTATAT
Found at i:112840971 original size:81 final size:81
Alignment explanation
Indices: 112840819--112840976 Score: 196
Period size: 81 Copynumber: 2.0 Consensus size: 81
112840809 GGAAGCGTCC
* *
112840819 TGGTGGCTATACCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 TGGTGGCTATACCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTATCCTGGTGACTAT
112840884 GCCACAATTATCTGATA
66 GCCACAA-TATCTGATA
* * * * *
112840901 TGGTGGCTCTGCCACATA-TATCTGTTCTGGTGGCTCTGCCACA-ATATCTATATCTGGTGACT-
1 TGGTGGCTATACCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTAT-CCTGGTGACTA
*
112840963 TCGTCACAATATCT
65 T-GCCACAATATCT
112840977 AGCAGCCTCG
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
80 13 0.20
81 38 0.58
82 15 0.23
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (81 bp):
TGGTGGCTATACCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTATCCTGGTGACTAT
GCCACAATATCTGATA
Found at i:112842761 original size:45 final size:44
Alignment explanation
Indices: 112842712--112842803 Score: 109
Period size: 45 Copynumber: 2.1 Consensus size: 44
112842702 AAAATTCATC
112842712 ATCTTC-GATCTAC-TCCACTGCTACCTCAAGGAA-ATAAGATCTACA
1 ATCTTCAG-TCTACTTCC-CTGCTACCTC-AGGAAGATAAGA-CTACA
* *
112842757 ATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACA
1 ATCTTCAGTCTACTTCCCTGCTACCTCAGGAAGATAAGACTACA
112842801 ATC
1 ATC
112842804 GTCAACCTGC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
44 13 0.31
45 25 0.60
46 4 0.10
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.28
Consensus pattern (44 bp):
ATCTTCAGTCTACTTCCCTGCTACCTCAGGAAGATAAGACTACA
Found at i:112842803 original size:44 final size:45
Alignment explanation
Indices: 112842730--112842838 Score: 136
Period size: 44 Copynumber: 2.4 Consensus size: 45
112842720 TCTACTCCAC
* **
112842730 TGCTACCTCAAGGAA-ATAAGATCTACAATCTTCAGTCTGCT-TCCT
1 TGCTACCTC-AGGAAGATAAGATCTACAATCGTCAACCTGCTCT-CT
112842775 TGCTACCTCAGGAAGATAAGA-CTACAATCGTCAACCTGCTCTCT
1 TGCTACCTCAGGAAGATAAGATCTACAATCGTCAACCTGCTCTCT
112842819 TGCTACCTCA-GAGAGATAAG
1 TGCTACCTCAGGA-AGATAAG
112842839 GCTAGGGGCT
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
43 2 0.03
44 40 0.69
45 16 0.28
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (45 bp):
TGCTACCTCAGGAAGATAAGATCTACAATCGTCAACCTGCTCTCT
Found at i:112843049 original size:177 final size:177
Alignment explanation
Indices: 112842739--112843059 Score: 518
Period size: 177 Copynumber: 1.8 Consensus size: 177
112842729 CTGCTACCTC
112842739 AAGGAAATAAGATCTACAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATC
1 AAGGAAATAAGATCTACAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATC
** * * *
112842804 GTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGGGGCTAAAATCTGCTCTATTATCGA
66 ACCAACCTGATCTCTTGCTACCTCAGAGAGATAAGGCTAGGGGCTAAAATCTGCTCCATTACCGA
112842869 TACATGGAGATAAGATTCGCCATCTTCATTCTGCTCCACAACTGCTT
131 TACATGGAGATAAGATTCGCCATCTTCATTCTGCTCCACAACTGCTT
* * * *
112842916 AAGGAGATAAGATCTTCAATTTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTACAATC
1 AAGGAAATAAGATCTACAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATC
* * *
112842981 ACCAACCTGATCTCTTGCTACCTCAGAGAGATAAGGCT-GGTGGCTTAAATCTGTTCCATTGCCG
66 ACCAACCTGATCTCTTGCTACCTCAGAGAGATAAGGCTAGG-GGCTAAAATCTGCTCCATTACCG
112843045 ATACATGGAGATAAG
130 ATACATGGAGATAAG
112843060 TGTAGCGTCC
Statistics
Matches: 131, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
176 2 0.02
177 129 0.98
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (177 bp):
AAGGAAATAAGATCTACAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATC
ACCAACCTGATCTCTTGCTACCTCAGAGAGATAAGGCTAGGGGCTAAAATCTGCTCCATTACCGA
TACATGGAGATAAGATTCGCCATCTTCATTCTGCTCCACAACTGCTT
Found at i:112843191 original size:13 final size:13
Alignment explanation
Indices: 112843175--112843199 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
112843165 GAATGATTTC
112843175 GTGAAAATTTCGT
1 GTGAAAATTTCGT
112843188 GTGAAAATTTCG
1 GTGAAAATTTCG
112843200 ACGTTTGGGC
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:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (13 bp):
GTGAAAATTTCGT
Found at i:112846421 original size:20 final size:18
Alignment explanation
Indices: 112846396--112846434 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
112846386 AGGACATGGG
112846396 CGTGTCCCAATCCACACGGA
1 CGTGT-CCAA-CCACACGGA
*
112846416 CGTGTCCGACCACACGGA
1 CGTGTCCAACCACACGGA
112846434 C
1 C
112846435 CAACCCATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 3 0.17
20 5 0.28
ACGTcount: A:0.23, C:0.41, G:0.23, T:0.13
Consensus pattern (18 bp):
CGTGTCCAACCACACGGA
Found at i:112847322 original size:177 final size:176
Alignment explanation
Indices: 112846698--112847323 Score: 952
Period size: 176 Copynumber: 3.5 Consensus size: 176
112846688 GGGTGTTACA
*
112846698 ATAAGATTTGCCACCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTTAGT
1 ATAAGATTCGCCACCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTTAGT
112846763 CTGCTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCCAACCTACTCTCTTGCTACCTCAGAG
66 CTGCTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCCAACCTACTCTCTTGCTACCTCAGAG
*
112846828 AGATAAGGCTGGTGGCTTAAATCTTCTCCATTGCTGATATATGGAA
131 AGATAAGGCTGGTGGCTTAAATCTTCTCCATTGCTGATATATGGAG
* * *
112846874 ATAAGATTCGTCGCCTTCGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTTCAATCTTTAGT
1 ATAAGATTCGCCACCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTTAGT
112846939 CTGCTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCCAACCTACTCTCTTGCTACCTCAGAG
66 CTGCTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCCAACCTACTCTCTTGCTACCTCAGAG
*
112847004 AGATAAGGCTGGTGGCTTAAATTTTCTCCATTGCTGATATATGGAG
131 AGATAAGGCTGGTGGCTTAAATCTTCTCCATTGCTGATATATGGAG
* * *
112847050 ATAAGATTCGTCGCCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTAAGT
1 ATAAGATTCGCCACCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTTAGT
* * * *
112847115 CTGCTTCCTTACTACCTTAGGAAGATAAGACTATAATCGCCAACCTGCTCTCTTGCTACCTCAGA
66 CTGC-TCCTTGCTACCTCAGGAAGATAAGACTACAATCGCCAACCTACTCTCTTGCTACCTCAGA
* * * ** * *
112847180 GAGATAAGGCTGGTGACTAAAATCTGCTCCATTGCCAATACATAGAG
130 GAGATAAGGCTGGTGGCTTAAATCTTCTCCATTGCTGATATATGGAG
* * *
112847227 ATAAGATTCGCCATCTTAGATCTGCTCCACTACTGCCTAGGGAGATAAGATCTAT-AAT-TTTCA
1 ATAAGATTCGCCACCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-TCAATCTTT-A
* * *
112847290 GACTGCTCCACTGCAACCTCAGGGAA-ATAAGACT
64 GTCTGCTCC-TTGCTACCTCA-GGAAGATAAGACT
112847324 TGTATATTGA
Statistics
Matches: 414, Mismatches: 31, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
176 242 0.58
177 167 0.40
178 5 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (176 bp):
ATAAGATTCGCCACCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTTAGT
CTGCTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCCAACCTACTCTCTTGCTACCTCAGAG
AGATAAGGCTGGTGGCTTAAATCTTCTCCATTGCTGATATATGGAG
Found at i:112847364 original size:44 final size:44
Alignment explanation
Indices: 112847292--112847408 Score: 114
Period size: 44 Copynumber: 2.7 Consensus size: 44
112847282 AATTTTCAGA
* * * *
112847292 CTGCTCCACTGCAACCTCAGGGAA-ATAAGACTTGTAT-A-TTGAGC
1 CTGCTCCACTGCAACTTTA-GGAAGATAAG-CTT-TATCACTTCAAC
* * *
112847336 CTGCTCCATTGCAACTTTAGGAAGATAAGGTTTTTCACTTCAAC
1 CTGCTCCACTGCAACTTTAGGAAGATAAGCTTTATCACTTCAAC
*
112847380 CTGCTCCACTGCAACTTTAGGGAGATAAG
1 CTGCTCCACTGCAACTTTAGGAAGATAAG
112847409 GTTTGTAATC
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
42 2 0.03
43 7 0.11
44 52 0.85
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTTAGGAAGATAAGCTTTATCACTTCAAC
Found at i:112847409 original size:44 final size:45
Alignment explanation
Indices: 112847295--112847498 Score: 198
Period size: 45 Copynumber: 4.6 Consensus size: 45
112847285 TTTCAGACTG
* * * ** * *
112847295 CTCCACTGCAACCTCAGGGAAATAAGACTTGT-AT-ATTGAGCCTG
1 CTCCACTGCAACTTTAGGGAGATAAGGTTTGTAATCTTTGA-CCTA
* * * * ** *
112847339 CTCCATTGCAACTTTAGGAAGATAAGGTTTTTCA-CTTCAACCTG
1 CTCCACTGCAACTTTAGGGAGATAAGGTTTGTAATCTTTGACCTA
*
112847383 CTCCACTGCAACTTTAGGGAGATAAGGTTTGTAATCTTTGATCTA
1 CTCCACTGCAACTTTAGGGAGATAAGGTTTGTAATCTTTGACCTA
* * *
112847428 TTCCACTGCAACTTCAGGGAGATAAGGTTTGTAATCTTTGATCTA
1 CTCCACTGCAACTTTAGGGAGATAAGGTTTGTAATCTTTGACCTA
* *
112847473 TTCCACTGCAACTTTAGGGATATAAG
1 CTCCACTGCAACTTTAGGGAGATAAG
112847499 ATCTGACTTC
Statistics
Matches: 134, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
44 58 0.43
45 76 0.57
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (45 bp):
CTCCACTGCAACTTTAGGGAGATAAGGTTTGTAATCTTTGACCTA
Found at i:112847447 original size:45 final size:45
Alignment explanation
Indices: 112847340--112847498 Score: 212
Period size: 45 Copynumber: 3.6 Consensus size: 45
112847330 TTGAGCCTGC
* * * * ** * **
112847340 TCCATTGCAACTTTAGGAAGATAAGGTTTTTCA-CTTCAACCTGC
1 TCCACTGCAACTTTAGGGAGATAAGGTTTGTAATCTTTGATCTAT
112847384 TCCACTGCAACTTTAGGGAGATAAGGTTTGTAATCTTTGATCTAT
1 TCCACTGCAACTTTAGGGAGATAAGGTTTGTAATCTTTGATCTAT
*
112847429 TCCACTGCAACTTCAGGGAGATAAGGTTTGTAATCTTTGATCTAT
1 TCCACTGCAACTTTAGGGAGATAAGGTTTGTAATCTTTGATCTAT
*
112847474 TCCACTGCAACTTTAGGGATATAAG
1 TCCACTGCAACTTTAGGGAGATAAG
112847499 ATCTGACTTC
Statistics
Matches: 102, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
44 29 0.28
45 73 0.72
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (45 bp):
TCCACTGCAACTTTAGGGAGATAAGGTTTGTAATCTTTGATCTAT
Found at i:112847674 original size:64 final size:64
Alignment explanation
Indices: 112847567--112847694 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 64
112847557 TTATGTATCC
112847567 ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAATAAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAATAAATCAAATGCTCCTAACTAAATGTG
* * * * *
112847631 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATTCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAATAAATCAAATGCTCCTAACTAAATGTG
112847695 TTATGAATGA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAATAAATCAAATGCTCCTAACTAAATGTG
Found at i:112848812 original size:13 final size:13
Alignment explanation
Indices: 112848796--112848820 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
112848786 TTTCTTCTTT
112848796 TTTTTTATTTTTA
1 TTTTTTATTTTTA
112848809 TTTTTTATTTTT
1 TTTTTTATTTTT
112848821 TTAAATTTTT
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:112853825 original size:8 final size:8
Alignment explanation
Indices: 112853812--112853842 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
112853802 TATATAATAT
112853812 ATGAATTG
1 ATGAATTG
112853820 ATGAATTG
1 ATGAATTG
112853828 ATGAATTG
1 ATGAATTG
112853836 ATGAATT
1 ATGAATT
112853843 TGAAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (8 bp):
ATGAATTG
Found at i:112856461 original size:13 final size:13
Alignment explanation
Indices: 112856443--112856469 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
112856433 GCTTGGCAGG
112856443 GACACGCCTGTGT
1 GACACGCCTGTGT
112856456 GACACGCCTGTGT
1 GACACGCCTGTGT
112856469 G
1 G
112856470 CGATTGCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (13 bp):
GACACGCCTGTGT
Found at i:112873551 original size:15 final size:14
Alignment explanation
Indices: 112873531--112873577 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
112873521 AATGAATGTG
112873531 AAATGAATCTAAAAA
1 AAATGAAT-TAAAAA
*
112873546 AAATG-ATGAAAAA
1 AAATGAATTAAAAA
*
112873559 AAATTAATTAAAATA
1 AAATGAATTAAAA-A
112873574 AAAT
1 AAAT
112873578 TAAAATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 9 0.33
14 8 0.30
15 10 0.37
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.23
Consensus pattern (14 bp):
AAATGAATTAAAAA
Found at i:112876061 original size:138 final size:138
Alignment explanation
Indices: 112875808--112876364 Score: 810
Period size: 138 Copynumber: 4.0 Consensus size: 138
112875798 ACATAGATAA
* *
112875808 AATTAATATATGAATTTGATTCATACAAAATATTAATTTTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
* * * *
112875873 TAAACAGTTATATTAATTGATTT-TGGTCAAAATATAAAAGACATGGAAATTAAGATTTTTTTGG
66 TAAACAGTTATATTAATTAATTTCT-GTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGG
112875937 AAAGAATAT
130 AAAGAATAT
*
112875946 AATTAATATATGAATTTAATTCATACAAAATATTAATTATATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
* *
112876011 TAAACAGTTATATTAATTAATTCCTGTCAAAATATAAAAGACATAAAAATTAATATTCTTTTGGA
66 TAAACAGTTATATTAATTAATTTCTGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGA
*
112876076 AGGAATAT
131 AAGAATAT
* * * * *
112876084 AATTAATATATGAATTTGATTTATACAAAAAATTAATTGTATACATTTTACCGAATTTGTTAATA
1 AATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
* * * * * *
112876149 TAAATAGTTATATTAATTAATTTCAGTCAAAACATAAATGACATGGAAATTAATATTATTTTGGA
66 TAAACAGTTATATTAATTAATTTCTGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGA
112876214 AAGAATAT
131 AAGAATAT
** * ***
112876222 AATTAGCATATGAATTTAATTCATACAAAACATTAATTGTATATATTTTGTTGAATTTATTAATA
1 AATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
* * * *
112876287 TAAACAATTATATTAATTTAATTTCGGTCAAAATATAAAAAATATGAAAATTAATATTCTTTTGG
66 TAAACAGTTATATTAA-TTAATTTCTGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGG
112876352 AAAGAATAT
130 AAAGAATAT
112876361 AATT
1 AATT
112876365 CATTTGTCTA
Statistics
Matches: 374, Mismatches: 43, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
138 319 0.85
139 55 0.15
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (138 bp):
AATTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
TAAACAGTTATATTAATTAATTTCTGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGA
AAGAATAT
Found at i:112876469 original size:78 final size:78
Alignment explanation
Indices: 112876340--112876559 Score: 343
Period size: 78 Copynumber: 2.8 Consensus size: 78
112876330 ATGAAAATTA
* * * *
112876340 ATATTCTTTTGGAAAGAATATAATTCATTTGTCTAAC-TTCCTATTTTTCTTCTCTATTAATAAT
1 ATATTCTTTTGAAAAGAATATAATTCTTTTTTCTAACTTTCC-ATTTGTCTTCTCTATTAATAAT
*
112876404 AAGAGAATAATCAT
65 AAGAGAAAAATCAT
112876418 ATATTCTTTTGAAAAGAATATAATTCTTTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAATA
1 ATATTCTTTTGAAAAGAATATAATTCTTTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAATA
* *
112876483 AGGGAAAAATCCT
66 AGAGAAAAATCAT
*
112876496 ATATTCTTTTGAAAAGAATATAATTATTTTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAA
1 ATATTCTTTTGAAAAGAATATAATT-CTTTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAA
112876560 GAGAATAATC
Statistics
Matches: 132, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
78 91 0.69
79 41 0.31
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (78 bp):
ATATTCTTTTGAAAAGAATATAATTCTTTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAATA
AGAGAAAAATCAT
Found at i:112879500 original size:48 final size:48
Alignment explanation
Indices: 112879429--112879794 Score: 350
Period size: 48 Copynumber: 7.6 Consensus size: 48
112879419 TATGTGTGCT
*
112879429 AGTGTAAGACCATAG-CTGGGACATGACATCGACCACATTATGAGAGCC
1 AGTGTAAGACCAT-GTCTGGGACATGGCATCGACCACATTATGAGAGCC
* * *
112879477 AGTGTAAGGCCATGTCTGGGACATTGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCC
* * * **
112879525 AATGTAAGACCATGTTTGGAACATGGCATCAGTA--ATGTTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACCACATTATGAGAGCC
* *
112879573 AGAGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCC
* * * ** **
112879621 AATGTAAGACCATGTTTGGAACATGGCATCGAAAATGTTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCC
** * * *
112879669 AAAGTAAGACCATGTCTGGGACATGGCATCG---GCATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATT---ATGAGAGCC
* * * * * *
112879717 AGTGTAAGATCATGTCTGGGACATGGCATCGGCCTCGA-CATGTGAGAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCAC-ATTATGAGAGCC
*
112879765 AGTGTAAGACCATGTTTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
112879795 AGCAATTTAC
Statistics
Matches: 259, Mismatches: 47, Indels: 24
0.78 0.14 0.07
Matches are distributed among these distances:
45 2 0.01
47 2 0.01
48 252 0.97
49 1 0.00
51 1 0.00
52 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.22
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCC
Found at i:112879595 original size:96 final size:96
Alignment explanation
Indices: 112879466--112879701 Score: 411
Period size: 96 Copynumber: 2.5 Consensus size: 96
112879456 ATCGACCACA
* * *
112879466 TTATGAGAGCCAGTGTAAGGCCATGTCTGGGACATTGCATCGGCCACATTATGAGAGCCAATGTA
1 TTATGAGAGCCAGAGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAATGTA
*
112879531 AGACCATGTTTGGAACATGGCATC-AGTAATG
66 AGACCATGTTTGGAACATGGCATCGA-AAATG
112879562 TTATGAGAGCCAGAGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAATGTA
1 TTATGAGAGCCAGAGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAATGTA
112879627 AGACCATGTTTGGAACATGGCATCGAAAATG
66 AGACCATGTTTGGAACATGGCATCGAAAATG
*
112879658 TTATGAGAGCCAAAGTAAGACCATGTCTGGGACATGGCATCGGC
1 TTATGAGAGCCAGAGTAAGACCATGTCTGGGACATGGCATCGGC
112879702 ATTGAGACGA
Statistics
Matches: 134, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
96 133 0.99
97 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.23
Consensus pattern (96 bp):
TTATGAGAGCCAGAGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAATGTA
AGACCATGTTTGGAACATGGCATCGAAAATG
Found at i:112879693 original size:144 final size:144
Alignment explanation
Indices: 112879432--112879794 Score: 442
Period size: 144 Copynumber: 2.5 Consensus size: 144
112879422 GTGTGCTAGT
* * * *
112879432 GTAAGACCATAG-CTGGGACATGACATCGACCACATTATGAGAGCCAGTGTAAGGCCATGTCTGG
1 GTAAGACCAT-GTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTTTGG
* *** * * *
112879496 GACATTGCATCGGCCACATTATGAGAGCCAATGTAAGACCATGTTTGGAACATGGCATCAGTAAT
65 GACATGGCATCGAAAACATTATGAGAGCCAAAGTAAGACCATGTCTGGAACATGGCATCAGCAAT
** *
112879561 GTTATGAGAGCCAGA
130 GAGACGAGAGCCAGA
* *
112879576 GTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAATGTAAGACCATGTTTGGA
1 GTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTTTGGG
** * * *
112879641 ACATGGCATCGAAAATGTTATGAGAGCCAAAGTAAGACCATGTCTGGGACATGGCATCGGCATTG
66 ACATGGCATCGAAAACATTATGAGAGCCAAAGTAAGACCATGTCTGGAACATGGCATCAGCAATG
* *
112879706 AGACGAGAGCTAGT
131 AGACGAGAGCCAGA
* * * * *
112879720 GTAAGATCATGTCTGGGACATGGCATCGGCCTCGA-CATGTGAGACAGTGTAAGACCATGTTTGG
1 GTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTATGAGAGCCAGTGTAAGACCATGTTTGG
112879784 GACATGGCATC
65 GACATGGCATC
112879795 AGCAATTTAC
Statistics
Matches: 187, Mismatches: 30, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
143 1 0.01
144 185 0.99
145 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (144 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTTTGGG
ACATGGCATCGAAAACATTATGAGAGCCAAAGTAAGACCATGTCTGGAACATGGCATCAGCAATG
AGACGAGAGCCAGA
Found at i:112880114 original size:26 final size:26
Alignment explanation
Indices: 112880084--112880133 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
112880074 TTCACTCAAG
112880084 AATGTTGTGTTGATTTATAATATTCT
1 AATGTTGTGTTGATTTATAATATTCT
112880110 AATGTTGTGTTGATTTATAATATT
1 AATGTTGTGTTGATTTATAATATT
112880134 TTATGTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.02, G:0.16, T:0.54
Consensus pattern (26 bp):
AATGTTGTGTTGATTTATAATATTCT
Found at i:112882187 original size:50 final size:51
Alignment explanation
Indices: 112882111--112882210 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 51
112882101 TAGGGTTCAT
112882111 GTTAAAAAATTTACCCATGCATGAGATGTTTGTGTTTTGATGATTTATGGA
1 GTTAAAAAATTTACCCATGCATGAGATGTTTGTGTTTTGATGATTTATGGA
112882162 GTTAAAAAATTTA-CCATGCATGAGATGTTTGTGTTTTGATGATTTATGG
1 GTTAAAAAATTTACCCATGCATGAGATGTTTGTGTTTTGATGATTTATGG
112882211 TGGAATATGA
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 36 0.73
51 13 0.27
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (51 bp):
GTTAAAAAATTTACCCATGCATGAGATGTTTGTGTTTTGATGATTTATGGA
Found at i:112886849 original size:30 final size:30
Alignment explanation
Indices: 112886815--112886876 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
112886805 ATTTGTTTTA
*
112886815 TTGTTAATTTTGTTATTATTTTAGATGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
112886845 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
112886875 TT
1 TT
112886877 ACTTGTTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.03, G:0.15, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAGGCAT
Found at i:112890071 original size:20 final size:19
Alignment explanation
Indices: 112890045--112890104 Score: 84
Period size: 20 Copynumber: 3.1 Consensus size: 19
112890035 AATTTTATAA
*
112890045 TTTTATAGTTTTTAAATTT
1 TTTTATAATTTTTAAATTT
112890064 TGTTTATAATTTTTATAATTT
1 T-TTTATAATTTTTA-AATTT
*
112890085 TTTAATAATTTTTAAATTT
1 TTTTATAATTTTTAAATTT
112890104 T
1 T
112890105 AAAAGGGCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.19
20 24 0.65
21 6 0.16
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTTATAATTTTTAAATTT
Done.