Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 174 of 325
Found at i:53453149 original size:29 final size:28
Alignment explanation
Indices: 53453108--53453194 Score: 95
Period size: 28 Copynumber: 3.1 Consensus size: 28
53453098 GAATATGAAT
*
53453108 GTGACTGGGCCTAATGGGCCATATACAG
1 GTGATTGGGCCTAATGGGCCATATACAG
*
53453136 GTGATTTGGGCCTAATGGGCCATATGA-AT
1 GTGA-TTGGGCCTAATGGGCCATAT-ACAG
* * * *
53453165 ATGATTGGACTTAATGGGCCAGATACAG
1 GTGATTGGGCCTAATGGGCCATATACAG
53453193 GT
1 GT
53453195 ATGTGAAATT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
27 1 0.02
28 23 0.48
29 23 0.48
30 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.26
Consensus pattern (28 bp):
GTGATTGGGCCTAATGGGCCATATACAG
Found at i:53453502 original size:26 final size:26
Alignment explanation
Indices: 53453469--53453520 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
53453459 ATACATACCT
* *
53453469 AGGGAAAATTG-CCAAAATGCCCCTA
1 AGGGAAAAATGACCAAAATACCCCTA
*
53453494 AGGGCAAAAATGACCAAATTACCCCTA
1 AGGG-AAAAATGACCAAAATACCCCTA
53453521 GGTATTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 4 0.18
26 6 0.27
27 12 0.55
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.15
Consensus pattern (26 bp):
AGGGAAAAATGACCAAAATACCCCTA
Found at i:53468275 original size:40 final size:40
Alignment explanation
Indices: 53468192--53468399 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
53468182 CGGGATTTAA
** * * * * *
53468192 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
53468232 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * *
53468272 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
*
53468312 CCGGATATAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
53468352 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACGAA-TGCCTTCGGGTCTTAGC
53468392 CCGGATAT
1 CCGGATAT
53468400 CATTCCAATG
Statistics
Matches: 141, Mismatches: 26, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
39 2 0.01
40 139 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:53468312 original size:80 final size:80
Alignment explanation
Indices: 53468218--53468399 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
53468208 GCTCGATTGT
* * * * * * * **
53468218 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAATAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
53468283 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
53468298 CTTCGGGTCTTAGCCCGGATATAATAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAATAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
53468363 TACTAGCATAATTGC
66 AACTAGCACAAATGC
53468378 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
53468400 CATTCCAATG
Statistics
Matches: 86, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
80 86 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.29
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAATAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:53470497 original size:96 final size:97
Alignment explanation
Indices: 53470302--53470569 Score: 296
Period size: 96 Copynumber: 2.8 Consensus size: 97
53470292 TGGTGTAATA
53470302 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-C--ATCAAGT--CGATGCCATGTC
1 CCGATG-CATGTCCCAGACATGGTCTTACACTGGCTC-TCACATATCAAGTGCCGATGCCATGTC
*
53470362 CTCA-ACATGGTCTTACACTGACTATAGAAATCTAGG
64 C-CAGACATGGTCTTACACTGAC--TACAAATCTAGG
* *
53470398 CCGATGTCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC-CGTGCCGATGCCATGTCC
1 CCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCAAGTGCCGATGCCATGTCC
* * **
53470462 CAGAGATGGTATTACACTGAC-ACATTTCGTA-G
65 CAGACATGGTCTTACACTGACTACAAATC-TAGG
*
53470494 CCGATGCATGTCCCAGACAT-GTCTTACACTGGCT-T-ACATCTCAAG-GCCGATG-CATGTCCC
1 CCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCAAGTGCCGATGCCATGTCCC
53470554 AGACAT-GTCTTACACT
66 AGACATGGTCTTACACT
53470570 AGCTCTCGTC
Statistics
Matches: 151, Mismatches: 13, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
90 9 0.06
91 13 0.09
92 13 0.09
93 2 0.01
94 13 0.09
95 16 0.11
96 47 0.31
97 4 0.03
98 5 0.03
99 29 0.19
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (97 bp):
CCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCAAGTGCCGATGCCATGTCCC
AGACATGGTCTTACACTGACTACAAATCTAGG
Found at i:53470543 original size:46 final size:49
Alignment explanation
Indices: 53470302--53470663 Score: 276
Period size: 46 Copynumber: 7.7 Consensus size: 49
53470292 TGGTGTAATA
*
53470302 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-ATC-CATCAA-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTA-CATATCAAGG
* * * * * *
53470349 TCGATGCCATGTCCTCA-ACATGGTCTTACACTGACTATAGAAATCTAGG
1 CCGATGCCATGTCC-CAGACATGGTCTTACACTGGCTCTACATATCAAGG
* * *
53470398 CCGATGTCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC-CGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATATCAAG-G
* * * * *
53470448 CCGATGCCATGTCCCAGAGATGGTATTACACT-G-AC-ACATTTCGTA-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATC-AAGG
*
53470494 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCAAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCAAGG
* * * *
53470540 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCAAGG
** * * * **
53470586 TTGATGCCATGTCTCAAACATGGTCTTACACTCGCTCT-CATAAT-GTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-ATCAAGG
**
53470634 TTGATG-CATGTCCCAGACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
53470664 AGCACACAAA
Statistics
Matches: 258, Mismatches: 40, Indels: 35
0.77 0.12 0.11
Matches are distributed among these distances:
44 9 0.03
45 15 0.06
46 75 0.29
47 56 0.22
48 34 0.13
49 34 0.13
50 35 0.14
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (49 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCAAGG
Found at i:53470612 original size:94 final size:92
Alignment explanation
Indices: 53470496--53470666 Score: 220
Period size: 94 Copynumber: 1.8 Consensus size: 92
53470486 TTTCGTAGCC
* * *
53470496 GATGCATGTCCCAGACATGTCTTACACTGGCT-TACAT-CTCAAGGCCGATGCATGTCCCAGACA
1 GATGCATGTCCCAAACATGTCTTACACTCGCTCT-CATAAT-AAGGCCGATGCATGTCCCAGACA
53470559 TGTCTTACACTAGCTCTCGTCTCAATGTT
64 TGTCTTACACTAGCTCTCGTCTCAATGTT
* ** **
53470588 GATGCCATGTCTCAAACATGGTCTTACACTCGCTCTCATAATGTGGTTGATGCATGTCCCAGACA
1 GATG-CATGTCCCAAACAT-GTCTTACACTCGCTCTCATAATAAGGCCGATGCATGTCCCAGACA
53470653 TGTCTTACACTAGC
64 TGTCTTACACTAGC
53470667 ACACAAATAA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
92 4 0.06
93 12 0.18
94 49 0.73
95 2 0.03
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (92 bp):
GATGCATGTCCCAAACATGTCTTACACTCGCTCTCATAATAAGGCCGATGCATGTCCCAGACATG
TCTTACACTAGCTCTCGTCTCAATGTT
Found at i:53477204 original size:47 final size:45
Alignment explanation
Indices: 53477003--53477266 Score: 159
Period size: 48 Copynumber: 5.6 Consensus size: 45
53476993 AGGCCAACGC
*
53477003 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCA-T-GCTGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCT--CATA---AGTGGCCGATG
* * *
53477052 CCATGTCCTAGACATGGTCTTAAACT-GACACCTCTATAAGT-GCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAG-C-TCTC-ATAAGTGGCCGATG
* * * * * *
53477100 CCATGCCCCAGACATGGTCTTACA-TTGACACATC-T-CGTAGCCAATG
1 -CATGTCCCAGACAT-GTCTTACACTAG-CTC-TCATAAGTGGCCGATG
* *
53477146 CATGTCCCAGACATGTCTTACACTAGCTCTCGTTTCAA-T-GCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTC--AT-AAGTGGCCGATG
*
53477192 ACATGTCTCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAA-GTGGCCGATG
53477240 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
53477267 ACACAAATAA
Statistics
Matches: 176, Mismatches: 20, Indels: 40
0.75 0.08 0.17
Matches are distributed among these distances:
43 2 0.01
44 10 0.06
45 19 0.11
46 27 0.15
47 31 0.18
48 56 0.32
49 2 0.01
50 27 0.15
51 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATAAGTGGCCGATG
Found at i:53477210 original size:140 final size:146
Alignment explanation
Indices: 53476948--53477263 Score: 379
Period size: 140 Copynumber: 2.2 Consensus size: 146
53476938 TCCATCAAGT
*
53476948 CGATGCCATGTCCTAGACATGGTCTTACACTGACTATCGAAATCGAGGCCAACGCCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCGAGGCCAACGCCATGTCCCAG
* *
53477013 ACATGGTCTTACACTAGCTCTCACATATCCATGCTGATGCCATGTCCTAGACATGGTCTTAAACT
66 ACATGGTCTTACACTAGCTCT-ACATATCAATGCTGATGACATGTCCTAGACATGGTCTTAAACT
53477078 GACAC-CTCTATAA-GT-GC
130 -AC-CTCTC-ATAATGTGGC
* * ** *
53477095 CGATGCCATGCCCCAGACATGGTCTTACATTGAC-A-C-ATCTCGTA-GCCAATG-CATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCG-AGGCCAACGCCATGTCCCA
* * *
53477155 GACAT-GTCTTACACTAGCTCT-CGTTTCAATGCTGATGACATGT-CTCAGACATGGTCTTACAC
65 GACATGGTCTTACACTAGCTCTACATATCAATGCTGATGACATGTCCT-AGACATGGTCTTAAAC
*
53477217 TAGCTCTCATAATGTGGC
129 TACCTCTCATAATGTGGC
53477235 CGATG-CATGTCCCAGACAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
53477264 AGCACACAAA
Statistics
Matches: 150, Mismatches: 14, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
138 14 0.09
139 21 0.14
140 41 0.27
142 16 0.11
143 14 0.09
144 10 0.07
145 2 0.01
146 1 0.01
147 31 0.21
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (146 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCGAGGCCAACGCCATGTCCCAG
ACATGGTCTTACACTAGCTCTACATATCAATGCTGATGACATGTCCTAGACATGGTCTTAAACTA
CCTCTCATAATGTGGC
Found at i:53479397 original size:40 final size:41
Alignment explanation
Indices: 53479353--53479454 Score: 125
Period size: 41 Copynumber: 2.5 Consensus size: 41
53479343 GATTTGAATA
** *
53479353 TATATATGGCACTTAGTGTGCGATTC-GAAATAGATTCAGT
1 TATATATGGCACTTAGTGTGCGAGACTGAAATAGATTCAGC
* * * *
53479393 TATATATGGCACTTAGTGTGTGAGACTGAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGAGACTGAAATAGATTCAGC
*
53479434 TATGTATGGCACTTAGTGTGC
1 TATATATGGCACTTAGTGTGC
53479455 AAGATTATAA
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
40 23 0.44
41 29 0.56
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.34
Consensus pattern (41 bp):
TATATATGGCACTTAGTGTGCGAGACTGAAATAGATTCAGC
Found at i:53479532 original size:43 final size:43
Alignment explanation
Indices: 53479465--53479566 Score: 150
Period size: 43 Copynumber: 2.4 Consensus size: 43
53479455 AAGATTATAA
*
53479465 TACGTGTAAGACCATAGCTAGGCTATTGGCATCGATATGAGAT
1 TACGTGTAAGACCATAGCTAGGCTATTGGCATCGATATGAAAT
* * *
53479508 TTCGTGTAAGACTATAGCTGGGCTATTGGCATCGATATGAAAT
1 TACGTGTAAGACCATAGCTAGGCTATTGGCATCGATATGAAAT
* *
53479551 TACATGTAAGATCATA
1 TACGTGTAAGACCATA
53479567 TCTGGGATAT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (43 bp):
TACGTGTAAGACCATAGCTAGGCTATTGGCATCGATATGAAAT
Found at i:53479572 original size:43 final size:42
Alignment explanation
Indices: 53479469--53479581 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 42
53479459 TTATAATACG
* * * *
53479469 TGTAAGACCATAGCTAGGCTATTGGCATCGATATGAGATTTCG
1 TGTAAGA-CATAGCTGGGCTATTGGCATCGATATGAAATTACA
53479512 TGTAAGACTATAGCTGGGCTATTGGCATCGATATGAAATTACA
1 TGTAAGAC-ATAGCTGGGCTATTGGCATCGATATGAAATTACA
* *
53479555 TGTAAGATCATATCTGGGATA-TGGCAT
1 TGTAAGA-CATAGCTGGGCTATTGGCAT
53479582 TGGTATGGTA
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
42 7 0.11
43 54 0.87
44 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACATAGCTGGGCTATTGGCATCGATATGAAATTACA
Found at i:53481113 original size:53 final size:54
Alignment explanation
Indices: 53480931--53481146 Score: 249
Period size: 55 Copynumber: 4.0 Consensus size: 54
53480921 ATTAGGGTTT
* *
53480931 AAGGATACCATGTAAGACCATGCCAAGGCATCGCAATTGATAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGATAA-GTTTCATAAGGC
* * *
53480986 AAGGATATCATGTAAGACCATGTCAAGACGTGGCATTGATAAGTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTTC-ATAAGGC
* * * *
53481041 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTTCATAAGGC
* * * * *
53481094 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTTTCAAAAGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTTCATAAGG
53481147 ATACCACATA
Statistics
Matches: 137, Mismatches: 19, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
52 4 0.03
53 44 0.32
54 19 0.14
55 66 0.48
56 4 0.03
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTTCATAAGGC
Found at i:53481137 original size:108 final size:110
Alignment explanation
Indices: 53480938--53481140 Score: 304
Period size: 108 Copynumber: 1.9 Consensus size: 110
53480928 TTTAAGGATA
*
53480938 CCATGTAAGACCATGCCAAGGCATCGCAATTGATAAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATCGCAATTGATAAGGTTTCTAAGGCAAGGATACCATGTAAGA
* *
53481003 CCATGTCAAGACGTGGCATTGATAAGTTTCTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
* * *
53481048 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATCGCAATTGATAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* *
53481110 ACCATGTCGAGACATGGCAATGGTAAGTTTC
65 ACCATGTCAAGACATGGCAATGATAAGTTTC
53481141 AAAAGGATAC
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 3 0.04
108 49 0.58
109 6 0.07
110 26 0.31
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATCGCAATTGATAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:53491068 original size:55 final size:54
Alignment explanation
Indices: 53490960--53491176 Score: 258
Period size: 53 Copynumber: 4.0 Consensus size: 54
53490950 ATTAGGGTTT
* *
53490960 AAGGATACCATGTAAGACCATGCCAAGGCATCGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCATAAGGC
* * *
53491015 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-ATAAGGC
* * * *
53491070 AAAGGGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGC
* * * * *
53491124 AAGGATACCATGTTAGACCATGTCGAGACATGGCAATGGTAAGTTTCAAAAGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGG
53491177 ATACCACATA
Statistics
Matches: 137, Mismatches: 21, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
53 40 0.29
54 22 0.16
55 39 0.28
56 36 0.26
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGC
Found at i:53491167 original size:109 final size:111
Alignment explanation
Indices: 53490967--53491170 Score: 315
Period size: 109 Copynumber: 1.9 Consensus size: 111
53490957 TTTAAGGATA
*
53490967 CCATGTAAGACCATGCCAAGGCATCGCAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATCGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
53491032 CCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAGGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGGTC
* * *
53491078 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTTAG
1 CCATGTAAGACCATGCCAAGGCATCGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* *
53491140 ACCATGTCGAGACATGGCAATGGTAAGTTTC
65 ACCATGTCAAGACATGGCAATGATAAGTTTC
53491171 AAAAGGATAC
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
108 3 0.04
109 49 0.58
110 7 0.08
111 26 0.31
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (111 bp):
CCATGTAAGACCATGCCAAGGCATCGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGGTC
Found at i:53498604 original size:49 final size:49
Alignment explanation
Indices: 53498438--53498675 Score: 287
Period size: 49 Copynumber: 4.8 Consensus size: 49
53498428 TGAGGTCGCA
* * * * *
53498438 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-T-TGGTCACG
* * **
53498489 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT-GGTCACG
* * *
53498539 TGTGTAGTACTAAGTGCAAGCTACTATGTGTACCGGATAATTGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACG
* * * *
53498588 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACG
* *
53498637 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
53498676 GCTTTCGCTA
Statistics
Matches: 161, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
49 86 0.53
50 42 0.26
51 33 0.20
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACG
Found at i:53499081 original size:74 final size:75
Alignment explanation
Indices: 53498993--53499145 Score: 281
Period size: 74 Copynumber: 2.1 Consensus size: 75
53498983 TGATATATGA
*
53498993 AAATAAAGCTTAATGAGTCTATTTTCACATGAAAGAAATAGGGGAAGCAAAAGAATTCTATATTG
1 AAATAAAGCTTAATGAGTCTATTTTCACATGAAAGAAACAGGGGAAGCAAAAGAATTCTATATTG
53499058 TGTGATATTT
66 TGTGATATTT
*
53499068 AAAT-AAGCTTAATGAGTCTATTTTCACATGAAAGAAACAGGGGAAGCAAAAGAATTCTATATTT
1 AAATAAAGCTTAATGAGTCTATTTTCACATGAAAGAAACAGGGGAAGCAAAAGAATTCTATATTG
53499132 TGTGATATTT
66 TGTGATATTT
53499142 AAAT
1 AAAT
53499146 TCTTGTGAAA
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
74 72 0.95
75 4 0.05
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (75 bp):
AAATAAAGCTTAATGAGTCTATTTTCACATGAAAGAAACAGGGGAAGCAAAAGAATTCTATATTG
TGTGATATTT
Found at i:53506301 original size:21 final size:20
Alignment explanation
Indices: 53506276--53506317 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
53506266 TCTTGTTCAA
53506276 TCTCAATCTCATTTTTCTTTC
1 TCTCAATCTCATTTTT-TTTC
*
53506297 TCTCACTCTCATTTTTTTTC
1 TCTCAATCTCATTTTTTTTC
53506317 T
1 T
53506318 TTCATTTCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.12, C:0.29, G:0.00, T:0.60
Consensus pattern (20 bp):
TCTCAATCTCATTTTTTTTC
Found at i:53509616 original size:41 final size:40
Alignment explanation
Indices: 53509559--53509864 Score: 249
Period size: 41 Copynumber: 7.5 Consensus size: 40
53509549 AAAAATGACG
* *
53509559 AATTGCACATACGTGCCCTTATTTGTACTTTGGTACTCCTA
1 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTAC-CCTA
* * *** *
53509600 AATTGCACATGCGTG-CCCTGTTAGTACTTCAATACCCCA
1 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCTA
* ** * *
53509639 GAATTGCAGATATTTTCCCCTGTTTGTTCTTTGGTACCCTGA
1 -AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCT-A
53509681 AA-TG-ACCATACGTGCCCCTGTTTGTACTTTGGTACCCCTA
1 AATTGCA-CATACGTGCCCCTGTTTGTACTTTGGTA-CCCTA
* * * * * *
53509721 AATTACACACACGTGCTCCTATTTCTACTTTGGTACCCTTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCC-TA
* * *
53509762 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACTGCTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTAC-CCTA
* * * * **
53509803 AATTGCATATATGTACCCCTATTTGTACTTCAGTACCCTCTA
1 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTA-CC-CTA
*
53509845 AATTGCACATACGTACCCCT
1 AATTGCACATACGTGCCCCT
53509865 ATTGAAAATC
Statistics
Matches: 208, Mismatches: 46, Indels: 21
0.76 0.17 0.08
Matches are distributed among these distances:
39 4 0.02
40 55 0.26
41 125 0.60
42 24 0.12
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.35
Consensus pattern (40 bp):
AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCTA
Found at i:53509824 original size:82 final size:81
Alignment explanation
Indices: 53509558--53509864 Score: 296
Period size: 81 Copynumber: 3.8 Consensus size: 81
53509548 GAAAAATGAC
* *
53509558 GAATTGCACATACGTGCCCTTATTTGTACTTTGGTACTCCTAAATTGCACATGCGTG-CCCTGTT
1 GAATTGCACATACGTGCCCCTATTTGTACTTTGGTAC-CCTAAATTGCACATACGTGCCCCTGTT
* ** *
53509622 AGTACTTCAATACCCCA
65 TGTACTTCGGTACCCCT
* ** * * *
53509639 GAATTGCAGATATTTTCCCCTGTTTGTTCTTTGGTACCCTGAAA-TG-ACCATACGTGCCCCTGT
1 GAATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCT-AAATTGCA-CATACGTGCCCCTGT
*
53509702 TTGTACTTTGGTACCCCT
64 TTGTACTTCGGTACCCCT
* * * * * *
53509720 AAATTACACACACGTGCTCCTATTTCTACTTTGGTACCCTTGAATTGCACATACGTGCCCCTGTT
1 GAATTGCACATACGTGCCCCTATTTGTACTTTGGTACCC-TAAATTGCACATACGTGCCCCTGTT
**
53509785 TGTACTTCGGTACTGCT
65 TGTACTTCGGTACCCCT
* * * ** *
53509802 GAATTGCATATATGTACCCCTATTTGTACTTCAGTACCCTCTAAATTGCACATACGTACCCCT
1 GAATTGCACATACGTGCCCCTATTTGTACTTTGGTA-CC-CTAAATTGCACATACGTGCCCCT
53509865 ATTGAAAATC
Statistics
Matches: 178, Mismatches: 40, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
79 1 0.01
80 12 0.07
81 82 0.46
82 59 0.33
83 23 0.13
84 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (81 bp):
GAATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCTAAATTGCACATACGTGCCCCTGTTT
GTACTTCGGTACCCCT
Found at i:53516304 original size:17 final size:17
Alignment explanation
Indices: 53516282--53516322 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
53516272 ACCTGTGTGA
*
53516282 GGCCCATGAGCCCGTGG
1 GGCCCACGAGCCCGTGG
53516299 GGCCCACGAGCCCGTGG
1 GGCCCACGAGCCCGTGG
53516316 GGCCCAC
1 GGCCCAC
53516323 ATAGCCCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.12, C:0.41, G:0.39, T:0.07
Consensus pattern (17 bp):
GGCCCACGAGCCCGTGG
Found at i:53522983 original size:11 final size:11
Alignment explanation
Indices: 53522967--53522997 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
53522957 TTATGATATG
53522967 ATTTCGTGAAA
1 ATTTCGTGAAA
53522978 ATTTCGTGAAA
1 ATTTCGTGAAA
53522989 ATTTCGTGA
1 ATTTCGTGA
53522998 TGAAATTCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (11 bp):
ATTTCGTGAAA
Found at i:53528705 original size:29 final size:29
Alignment explanation
Indices: 53528673--53528803 Score: 203
Period size: 29 Copynumber: 4.5 Consensus size: 29
53528663 ATAGTGAATC
53528673 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
53528702 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
53528732 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* * *
53528761 CGCACACTTAGTGCTGTATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AGCT
53528789 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53528804 GTACAATTTT
Statistics
Matches: 97, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
27 2 0.02
28 18 0.19
29 48 0.49
30 29 0.30
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:53528831 original size:57 final size:57
Alignment explanation
Indices: 53528673--53528803 Score: 210
Period size: 59 Copynumber: 2.3 Consensus size: 57
53528663 ATAGTGAATC
*
53528673 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA--TTCAACT
*
53528732 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTGTATAA-TCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTC-AACT
53528789 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53528804 GTACAATTTT
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
56 2 0.03
57 18 0.26
59 49 0.71
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTCAACT
Found at i:53533623 original size:530 final size:530
Alignment explanation
Indices: 53532622--53533627 Score: 2003
Period size: 530 Copynumber: 1.9 Consensus size: 530
53532612 TCCTAAAATA
53532622 ATTGTTTAATCAAGTTCAACATCCTCATATACGGCATTAGCATCCAAACAACCTATATGAACATT
1 ATTGTTTAATCAAGTTCAACATCCTCATATACGGCATTAGCATCCAAACAACCTATATGAACATT
53532687 TAACTAATTCAAGCTTCACCCATCCACACTTATTCATTTAACATAAAGAAAATATATCAACCTCT
66 TAACTAATTCAAGCTTCACCCATCCACACTTATTCATTTAACATAAAGAAAATATATCAACCTCT
53532752 TCACTATCAACCATGGCCGAATGCTTCATGGGTTTAAGGTAGATTCAAGAAAGAACCTCATAATT
131 TCACTATCAACCATGGCCGAATGCTTCATGGGTTTAAGGTAGATTCAAGAAAGAACCTCATAATT
53532817 ATTAAGATGTAAGCAACTACCCTTGTTCATCTAGATTTAGTATGAACAACAACTATCACCATTAT
196 ATTAAGATGTAAGCAACTACCCTTGTTCATCTAGATTTAGTATGAACAACAACTATCACCATTAT
*
53532882 TAATCACCATAGCCGAAAACCTCACCCTCATGGCCGAATGTACCAAACATTTCCTAACTAAACTT
261 TAATCACCATAGCCGAAAACCTCACCCTCATGGCCGAATGTACAAAACATTTCCTAACTAAACTT
53532947 TCACAAATTTTTAACCTCATATCGATCTCAACTTGTTCAATACAACATGAAACAATCCCTTCTCC
326 TCACAAATTTTTAACCTCATATCGATCTCAACTTGTTCAATACAACATGAAACAATCCCTTCTCC
53533012 TAACCTCTTGATACACGGCTTGATGTTCAAACCCCCATGAAAGTTTGATTTTCATGACATTACCA
391 TAACCTCTTGATACACGGCTTGATGTTCAAACCCCCATGAAAGTTTGATTTTCATGACATTACCA
53533077 AAATGCATTATGACAATTAGCACAATTTAGCATTTTCATTTACTTAATATTTCATACCTATCATG
456 AAATGCATTATGACAATTAGCACAATTTAGCATTTTCATTTACTTAATATTTCATACCTATCATG
53533142 CTAGCCGAAT
521 CTAGCCGAAT
53533152 ATTGTTTAATCAAGTTCAACATCCTCATATACGGCATTAGCATCCAAACAACCTATATGAACATT
1 ATTGTTTAATCAAGTTCAACATCCTCATATACGGCATTAGCATCCAAACAACCTATATGAACATT
53533217 TAACTAATTCAAGCTTCACCCATCCACACTTATTCATTTAACATAAAGAAAATATATCAACCTCT
66 TAACTAATTCAAGCTTCACCCATCCACACTTATTCATTTAACATAAAGAAAATATATCAACCTCT
53533282 TCACTATCAACCATGGCCGAATGCTTCATGGGTTTAAGGTAGATTCAAGAAAGAACCTCATAATT
131 TCACTATCAACCATGGCCGAATGCTTCATGGGTTTAAGGTAGATTCAAGAAAGAACCTCATAATT
53533347 ATTAAGATGTAAGCAACTACCCTTGTTCATCTAGATTTAGTATGAACAACAACTATCACCATTAT
196 ATTAAGATGTAAGCAACTACCCTTGTTCATCTAGATTTAGTATGAACAACAACTATCACCATTAT
53533412 TAATCACCATAGCCGAAAACCTCACCCTCATGGCCGAATGTACAAAACATTTCCTAACTAAACTT
261 TAATCACCATAGCCGAAAACCTCACCCTCATGGCCGAATGTACAAAACATTTCCTAACTAAACTT
53533477 TCACAAATTTTTAACCTCATATCGATCTCAACTTGTTCAATACAACATGAAACAATCCCTTCTCC
326 TCACAAATTTTTAACCTCATATCGATCTCAACTTGTTCAATACAACATGAAACAATCCCTTCTCC
53533542 TAACCTCTTGATACACGGCTTGATGTTCAAACCCCCATGAAAGTTTGATTTTCATGACATTACCA
391 TAACCTCTTGATACACGGCTTGATGTTCAAACCCCCATGAAAGTTTGATTTTCATGACATTACCA
53533607 AAATGCATTATGACAATTAGC
456 AAATGCATTATGACAATTAGC
53533628 TCAACAAACT
Statistics
Matches: 475, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
530 475 1.00
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.30
Consensus pattern (530 bp):
ATTGTTTAATCAAGTTCAACATCCTCATATACGGCATTAGCATCCAAACAACCTATATGAACATT
TAACTAATTCAAGCTTCACCCATCCACACTTATTCATTTAACATAAAGAAAATATATCAACCTCT
TCACTATCAACCATGGCCGAATGCTTCATGGGTTTAAGGTAGATTCAAGAAAGAACCTCATAATT
ATTAAGATGTAAGCAACTACCCTTGTTCATCTAGATTTAGTATGAACAACAACTATCACCATTAT
TAATCACCATAGCCGAAAACCTCACCCTCATGGCCGAATGTACAAAACATTTCCTAACTAAACTT
TCACAAATTTTTAACCTCATATCGATCTCAACTTGTTCAATACAACATGAAACAATCCCTTCTCC
TAACCTCTTGATACACGGCTTGATGTTCAAACCCCCATGAAAGTTTGATTTTCATGACATTACCA
AAATGCATTATGACAATTAGCACAATTTAGCATTTTCATTTACTTAATATTTCATACCTATCATG
CTAGCCGAAT
Found at i:53541341 original size:66 final size:68
Alignment explanation
Indices: 53541266--53541452 Score: 218
Period size: 71 Copynumber: 2.7 Consensus size: 68
53541256 TAGTACCACT
* * *
53541266 CATGCGACCTAAC-CGA-TT-TGTCTCGTAGCTCTCTTGTCTACGTGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAACAC-ATTTCTGTCACGTAGCTCTCTTGACTACATGGTGTCCTTCACTTGGAAT
53541328 CACG
65 CACG
* *
53541332 CATGCGACCTAGCTACATTTACCTTTCACGTAGCTCTCTTGACTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAAC-ACATTT--CTGTCACGTAGCTCTCTTGACTACATGGTGTCCTTCACTTGGA
53541397 ATCACG
63 ATCACG
* * *
53541403 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAAC-ACA-TT-TCTGTCACGTAGCTCTCTTGACTACATGG
53541453 GATACATCTC
Statistics
Matches: 107, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
66 12 0.11
67 1 0.01
68 3 0.03
71 88 0.82
72 2 0.02
73 1 0.01
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (68 bp):
CATGCGACCTAACACATTTCTGTCACGTAGCTCTCTTGACTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:53541383 original size:71 final size:71
Alignment explanation
Indices: 53541289--53541452 Score: 301
Period size: 71 Copynumber: 2.3 Consensus size: 71
53541279 CGATTTGTCT
*
53541289 CGTAGCTCTCTTGTCTACGTGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
53541354 CTTTCA
66 CTTTCA
* *
53541360 CGTAGCTCTCTTGACTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
53541425 CTTTCA
66 CTTTCA
53541431 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
53541453 GATACATCTC
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 89 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
CTTTCA
Found at i:53541490 original size:71 final size:70
Alignment explanation
Indices: 53541289--53541486 Score: 240
Period size: 71 Copynumber: 2.8 Consensus size: 70
53541279 CGATTTGTCT
* * * * *
53541289 CGTAGCTCTCTTGTCTACGTGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
1 CGTAGCTCTCTTGACTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAC
53541354 CTTTCA
65 CTTTCA
* * * *
53541360 CGTAGCTCTCTTGACTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGACTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAC
53541425 CTTTCA
65 CTTTCA
* * *
53541431 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGACTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
53541487 TACAGGGTGT
Statistics
Matches: 117, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
68 23 0.20
69 1 0.01
70 1 0.01
71 92 0.79
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGACTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTACC
TTTCA
Found at i:53544229 original size:77 final size:78
Alignment explanation
Indices: 53544110--53544293 Score: 223
Period size: 77 Copynumber: 2.3 Consensus size: 78
53544100 TTCGAATGAT
*
53544110 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAATCCGGACTAAGAT-CCGAAGGCATT
1 ATCCGGGCTAAG-CCCGAAGGCTTTGAGCTAAGTGACTAATCCGGACTAAG-TCCCGAAGGCATT
53544174 CGTGCGAGTTAATAA
64 CGTGCGAGTTAATAA
* **
53544189 ATCCGGGCTAAG-CCGAAGGCTTTGAGC-AAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 ATCCGGGCTAAGCCCGAAGGCTTTGAGCTAAGTGACT-AATCCGGACTAAGTCCCGAAGGCATTC
* *
53544252 GTGCGAGTTACTGTA
65 GTGCGAGTTAAT-AA
*
53544267 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAG-CCCGAAGGC-TTTGA
53544294 ATGTGTAGCC
Statistics
Matches: 92, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
76 8 0.09
77 57 0.62
78 2 0.02
79 20 0.22
80 5 0.05
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (78 bp):
ATCCGGGCTAAGCCCGAAGGCTTTGAGCTAAGTGACTAATCCGGACTAAGTCCCGAAGGCATTCG
TGCGAGTTAATAA
Found at i:53544272 original size:40 final size:40
Alignment explanation
Indices: 53544110--53544290 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
53544100 TTCGAATGAT
* * *
53544110 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-A
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAA
* *
53544149 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTAATAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* * *
53544189 ATCCGGGCTAAG--CCGAAGGC-TTTGAGCAAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAA
* *
53544226 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTGTA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT-AA
*
53544267 A-CCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATT
53544291 TGAATGTGTA
Statistics
Matches: 118, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
37 24 0.20
38 8 0.07
39 32 0.27
40 52 0.44
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:53552209 original size:40 final size:40
Alignment explanation
Indices: 53552130--53552287 Score: 160
Period size: 40 Copynumber: 4.0 Consensus size: 40
53552120 TTCGAATGAT
* * * *
53552130 ATCCGGGCTAAG-TCCTGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGATCC-GAAGGCATTCGTGC-GAGTTACTAA
* *
53552170 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * *
53552210 ATCCGGACTAAGATCCGAAGGCTTTCGAGCGAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
53552250 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCTAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
53552288 GTAACCGGGC
Statistics
Matches: 98, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.91
41 8 0.08
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:53553743 original size:25 final size:25
Alignment explanation
Indices: 53553715--53553803 Score: 115
Period size: 25 Copynumber: 3.6 Consensus size: 25
53553705 TTACATTTGT
* *
53553715 TCTTAATAATTCCAGTTAAATTTAC
1 TCTTAATATTTCCGGTTAAATTTAC
* *
53553740 TCTTAATATTTTCGGTTAAATTTGC
1 TCTTAATATTTCCGGTTAAATTTAC
*
53553765 TCTTAATATTTCCGGTTAAATTTGC
1 TCTTAATATTTCCGGTTAAATTTAC
* *
53553790 CCTTATTATTTCCG
1 TCTTAATATTTCCG
53553804 AATAAGTTAC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.48
Consensus pattern (25 bp):
TCTTAATATTTCCGGTTAAATTTAC
Found at i:53553800 original size:50 final size:50
Alignment explanation
Indices: 53553704--53553800 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
53553694 GGTACGAGGT
* * *
53553704 GTTACATTTGTTCTTAATAATTCCAGTTAAATTTACTCTTAATATTTTCG
1 GTTAAATTTGCTCTTAATAATTCCAGTTAAATTTACCCTTAATATTTTCG
* * * *
53553754 GTTAAATTTGCTCTTAATATTTCCGGTTAAATTTGCCCTTATTATTT
1 GTTAAATTTGCTCTTAATAATTCCAGTTAAATTTACCCTTAATATTT
53553801 CCGAATAAGT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.26, C:0.14, G:0.09, T:0.51
Consensus pattern (50 bp):
GTTAAATTTGCTCTTAATAATTCCAGTTAAATTTACCCTTAATATTTTCG
Found at i:53554691 original size:45 final size:45
Alignment explanation
Indices: 53554625--53554786 Score: 222
Period size: 45 Copynumber: 3.6 Consensus size: 45
53554615 TATCGTACAG
*
53554625 TACTATTCGGGCCTTTAAGCCTAGCAGGCTATAATGCTGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGA
* * *
53554670 TACTATTCGGGCCTTTGAGCCTAGTAGGCCATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGA
* *
53554715 TACTATTTGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGA
**
53554760 TGA-TATT-GGG-CTCCGAGCCTAGCAGGC
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGC
53554787 GAAATGTCGA
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
43 15 0.14
44 3 0.03
45 86 0.82
46 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGA
Found at i:53565959 original size:46 final size:45
Alignment explanation
Indices: 53565909--53566084 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
53565899 TGGTTGAGCA
*
53565909 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
53565955 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
53566000 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * **
53566048 CCCGAGCTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53566085 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:53566018 original size:93 final size:93
Alignment explanation
Indices: 53565906--53566075 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
53565896 GGATGGTTGA
* * * *
53565906 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAACTCGTTGAGT
53565971 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
53565999 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAACTCGTTGAGT
53566064 TGAGTCCGAGTT
66 TGAGTCCGAGTT
53566076 TGCTTATGGG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53580104 original size:22 final size:22
Alignment explanation
Indices: 53580004--53580165 Score: 125
Period size: 22 Copynumber: 7.0 Consensus size: 22
53579994 GACTCACCAT
*
53580004 AGCTCGTATGAGCTTACCAATATATC
1 AGCTCGTATGAGCTTA-C--TGT-TC
* *
53580030 TGCTCGTAAGAGCTTACTGTTTTC
1 AGCTCGTATGAGCTTACTG--TTC
* *
53580054 AGCTCAT-TGGAGGTTA-TCGTTTC
1 AGCTCGTAT-GAGCTTACT-G-TTC
53580077 AGCTCGTATGAGCTTACTGTTC
1 AGCTCGTATGAGCTTACTGTTC
*
53580099 AACTCGTATGAGCTTACTGTTC
1 AGCTCGTATGAGCTTACTGTTC
*
53580121 AGCTCGTATGAGC-TACCGTTTC
1 AGCTCGTATGAGCTTACTG-TTC
*
53580143 AGCACAGTA-GAGCTTACTGTTC
1 AGCTC-GTATGAGCTTACTGTTC
53580165 A
1 A
53580166 TCATCTCAAG
Statistics
Matches: 113, Mismatches: 14, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
21 4 0.04
22 51 0.45
23 26 0.23
24 16 0.14
25 2 0.02
26 14 0.12
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (22 bp):
AGCTCGTATGAGCTTACTGTTC
Found at i:53586752 original size:40 final size:39
Alignment explanation
Indices: 53586584--53586754 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
53586574 AGAAATTGAA
* *
53586584 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
53586624 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
53586664 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
53586704 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
53586744 TGATATCCGGG
1 TGATATCCGGG
53586755 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:53594860 original size:40 final size:39
Alignment explanation
Indices: 53594692--53594862 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
53594682 AGAAATTGAA
* *
53594692 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
53594732 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
53594772 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
53594812 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
53594852 TGATATCCGGG
1 TGATATCCGGG
53594863 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:53596708 original size:15 final size:15
Alignment explanation
Indices: 53596688--53596728 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
53596678 TTCTAACCCC
53596688 TAAACCCTAAAACCA
1 TAAACCCTAAAACCA
* **
53596703 TAAACCATAAAACTT
1 TAAACCCTAAAACCA
53596718 TAAACCCTAAA
1 TAAACCCTAAA
53596729 CCCTCCTTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.54, C:0.27, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCTAAAACCA
Found at i:53601012 original size:20 final size:20
Alignment explanation
Indices: 53600957--53601014 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
53600947 TGAGCTAAAA
*
53600957 TTGAGCTGGATGTGAACTTG
1 TTGAGCTGGATGTGAGCTTG
**
53600977 TTGAGCTGGAACTGAGCTTG
1 TTGAGCTGGATGTGAGCTTG
*
53600997 TTGAGCTGGTTGTGAGCT
1 TTGAGCTGGATGTGAGCT
53601015 GGACGAGCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.17, C:0.12, G:0.36, T:0.34
Consensus pattern (20 bp):
TTGAGCTGGATGTGAGCTTG
Found at i:53601568 original size:48 final size:48
Alignment explanation
Indices: 53601508--53601872 Score: 523
Period size: 48 Copynumber: 7.8 Consensus size: 48
53601498 TCTCATATCG
* ** *
53601508 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCGATGCTA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* *
53601556 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
**
53601604 ATGCCATGTCCCAGACATCTTCTTACATGGGATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* * * *
53601652 ATGCTATGT-CCAGACATGGTCTTACATTGCATCATATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
53601699 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATA---ATG---
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
53601741 ATGCCAATG--CCAGACATGGTCTTACATGGGATCACATATCGATGCCA
1 ATGCC-ATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* *
53601788 ACGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
*
53601836 ATGCCATGTCCCAGACATGGTCTTTCATGGGATCACA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
53601873 ATGCCATAGC
Statistics
Matches: 282, Mismatches: 25, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
41 29 0.10
42 5 0.02
43 3 0.01
44 3 0.01
45 3 0.01
46 3 0.01
47 45 0.16
48 191 0.68
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
Found at i:53601784 original size:89 final size:90
Alignment explanation
Indices: 53601508--53601872 Score: 437
Period size: 89 Copynumber: 3.9 Consensus size: 90
53601498 TCTCATATCG
* ** * *
53601508 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCGATGCTAATGCCATATCCCAGATA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC---G---ATGCCATATGCCAGACA
53601573 TGGTCTTACATGGGATCACATATCGATGCCA
60 TGGTCTTACATGGGATCACATATCGATGCCA
**
53601604 ATGCCATGTCCCAGACATCTTCTTACATGGGATCACATATCGATGCCAATGCTATGTCCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCC-A---TATG-CCAGACAT
* * *
53601669 GGTCTTACATTGCATCATATATCGATGCCA
61 GGTCTTACATGGGATCACATATCGATGCCA
53601699 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAAT-GATGCCA-ATGCCAGACATGGTC
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACAT-ATCGATGCCATATGCCAGACATGGTC
53601762 TTACATGGGATCACATATCGATGCCA
65 TTACATGGGATCACATATCGATGCCA
* *
53601788 ACGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCC-AT---ATG--CCAGACA
*
53601853 TGGTCTTTCATGGGATCACA
60 TGGTCTTACATGGGATCACA
53601873 ATGCCATAGC
Statistics
Matches: 237, Mismatches: 18, Indels: 28
0.84 0.06 0.10
Matches are distributed among these distances:
88 2 0.01
89 77 0.32
90 9 0.04
91 1 0.00
93 1 0.00
94 7 0.03
95 76 0.32
96 64 0.27
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (90 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCATATGCCAGACATGGTCT
TACATGGGATCACATATCGATGCCA
Found at i:53601824 original size:184 final size:188
Alignment explanation
Indices: 53601508--53601859 Score: 550
Period size: 184 Copynumber: 1.9 Consensus size: 188
53601498 TCTCATATCG
*
53601508 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCGATGCTAATGCCATATCCCAGATA
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATA-C-ATG--AATGCCATATCCCAGACA
* * *
53601573 TGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACATCTTCTTACATGGGATC
62 TGGTCTTACATGGGATCACATATCGATGCCAACGCCATGTCCCAAACATCGTCTTACATGGGATC
*
53601638 ACATATCGATGCCAATGCTATGT-CCAGACATGGTCTTACATTGCATCATATATCGATGCCA
127 ACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATTGCATCATATATCGATGCCA
* ** *
53601699 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATA-ATG-ATGCCA-ATGCCAGACATGGT
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATACATGAATGCCATATCCCAGACATGGT
*
53601761 CTTACATGGGATCACATATCGATGCCAACGCCATGTCCCAAACATGGTCTTACATGGGATCACAT
66 CTTACATGGGATCACATATCGATGCCAACGCCATGTCCCAAACATCGTCTTACATGGGATCACAT
53601826 ATCGATGCCAATGCCATGTCCCAGACATGGTCTT
131 ATCGATGCCAATGCCATGTCCCAGACATGGTCTT
53601860 TCATGGGATC
Statistics
Matches: 150, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
184 91 0.61
185 20 0.13
188 3 0.02
191 36 0.24
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (188 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATACATGAATGCCATATCCCAGACATGGT
CTTACATGGGATCACATATCGATGCCAACGCCATGTCCCAAACATCGTCTTACATGGGATCACAT
ATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATTGCATCATATATCGATGCCA
Found at i:53608315 original size:43 final size:42
Alignment explanation
Indices: 53608207--53608320 Score: 140
Period size: 42 Copynumber: 2.7 Consensus size: 42
53608197 AACTTATGAT
*
53608207 TTACGTGTAAGACCATGTCTGGGACGTTGACATCGTATTTGA
1 TTACGTGTAAGACCATGTCTGGGACGTTGACATCGTATTGGA
* * * *
53608249 TTTCGTGTAAAACCCTGTCTGGGACAG-TGGCATCGATATTGGA
1 TTACGTGTAAGACCATGTCTGGGAC-GTTGACATCG-TATTGGA
* *
53608292 TTACATGTAAGACCATATCTGGGACGTTG
1 TTACGTGTAAGACCATGTCTGGGACGTTG
53608321 GCAATGTATG
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
42 30 0.51
43 29 0.49
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTGGGACGTTGACATCGTATTGGA
Found at i:53608323 original size:43 final size:42
Alignment explanation
Indices: 53608166--53608323 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 42
53608156 CATGTGTTAT
** * * *
53608166 CGTGTAAGACCGCGTCTGGGATGTTGGCATC-AACTTATGATTTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGTA-TT-GGA-TTA
* * *
53608210 CGTGTAAGACCATGTCTGGGACGTTGACATCGTATTTGATTT
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGTATTGGATTA
* *
53608252 CGTGTAAAACCCTGTCTGGGACAG-TGGCATCGATATTGGATTA
1 CGTGTAAGACCATGTCTGGGAC-GTTGGCATCG-TATTGGATTA
* *
53608295 CATGTAAGACCATATCTGGGACGTTGGCA
1 CGTGTAAGACCATGTCTGGGACGTTGGCA
53608324 ATGTATGAGC
Statistics
Matches: 95, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
42 30 0.32
43 35 0.37
44 29 0.31
45 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACGTTGGCATCGTATTGGATTA
Found at i:53609737 original size:22 final size:22
Alignment explanation
Indices: 53609695--53609737 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
53609685 GTTGTGGATG
*
53609695 ATATTATTGAATTATTTGTAAA
1 ATATTATTGAATTATTGGTAAA
*
53609717 ATATT-TTGATTTATTCGGTAA
1 ATATTATTGAATTATT-GGTAA
53609738 CGCCTTTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (22 bp):
ATATTATTGAATTATTGGTAAA
Found at i:53613269 original size:17 final size:17
Alignment explanation
Indices: 53613247--53613281 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
53613237 ATAGAGGAGG
53613247 TGAGCCATGAAGGCTGC
1 TGAGCCATGAAGGCTGC
53613264 TGAGCCATGAAGGCTGC
1 TGAGCCATGAAGGCTGC
53613281 T
1 T
53613282 TAAGTACCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.34, T:0.20
Consensus pattern (17 bp):
TGAGCCATGAAGGCTGC
Found at i:53613853 original size:31 final size:31
Alignment explanation
Indices: 53613810--53613873 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
53613800 CCTGTTCATA
53613810 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
53613841 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
53613872 TT
1 TT
53613874 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:53614143 original size:23 final size:24
Alignment explanation
Indices: 53614066--53614234 Score: 254
Period size: 24 Copynumber: 7.0 Consensus size: 24
53614056 GCTTTATCAT
*
53614066 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
53614091 ATAACTGGGGCA-AAGCCCTTTTTTTA
1 ATAACTGGGGCATAAGCCC---TTTTA
53614117 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53614140 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53614164 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
53614188 ATAACTGGGGTATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53614212 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
53614235 GCACTTCCTC
Statistics
Matches: 135, Mismatches: 3, Indels: 13
0.89 0.02 0.09
Matches are distributed among these distances:
23 24 0.18
24 80 0.59
25 8 0.06
26 17 0.13
27 6 0.04
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:53614311 original size:20 final size:20
Alignment explanation
Indices: 53614288--53614387 Score: 182
Period size: 20 Copynumber: 5.0 Consensus size: 20
53614278 GAACATCTCG
53614288 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
53614308 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
53614328 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
53614348 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
53614368 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
53614388 GGTTTATCAA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 76 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:53618498 original size:42 final size:44
Alignment explanation
Indices: 53618398--53618498 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 44
53618388 TGTGTTATTC
* * *
53618398 TGTAAGACCACGTCTTGGACGTTGGCATCGACTTATGATTTACG
1 TGTAAGACCATGTCTGGGACGTTGACATCGACTTATGATTTACG
*
53618442 TGTAAGACCATGTCTGGGATGTTGACATCGTA-TT-TGATTT-CG
1 TGTAAGACCATGTCTGGGACGTTGACATCG-ACTTATGATTTACG
*
53618484 TGTAAGACCTTGTCT
1 TGTAAGACCATGTCT
53618499 AAGACTGTGG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
42 16 0.31
43 6 0.12
44 28 0.55
45 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.36
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGGACGTTGACATCGACTTATGATTTACG
Found at i:53618513 original size:42 final size:43
Alignment explanation
Indices: 53618398--53618536 Score: 115
Period size: 44 Copynumber: 3.2 Consensus size: 43
53618388 TGTGTTATTC
* ** *
53618398 TGTAAGACCACGTCTTGGACGTTGGCATCG-ACTTATGATTTACG
1 TGTAAGACCATGTCTAAGATGTTGGCATCGTA-TT-TGATTTACG
** *
53618442 TGTAAGACCATGTCTGGGATGTTGACATCGTATTTGATTT-CG
1 TGTAAGACCATGTCTAAGATGTTGGCATCGTATTTGATTTACG
* * *
53618484 TGTAAGACCTTGTCTAAGACTG-TGGCATCGATATTAGA-TTACA
1 TGTAAGACCATGTCTAAGA-TGTTGGCATCG-TATTTGATTTACG
*
53618527 TGGAAGACCA
1 TGTAAGACCA
53618537 CCTCTAGAAC
Statistics
Matches: 79, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
42 27 0.34
43 23 0.29
44 28 0.35
45 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTAAGATGTTGGCATCGTATTTGATTTACG
Found at i:53624801 original size:27 final size:27
Alignment explanation
Indices: 53624771--53624835 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
53624761 TTTAAAACCC
53624771 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAAT-TCGGTAATTTTGCTCTT
*
53624798 TAGGGGTAATTTGGTAATTTTGCTCTT
1 TAGGGGTAATTCGGTAATTTTGCTCTT
53624825 TAGGGGTAATT
1 TAGGGGTAATT
53624836 TCGTGATCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 34 0.94
28 2 0.06
ACGTcount: A:0.20, C:0.08, G:0.28, T:0.45
Consensus pattern (27 bp):
TAGGGGTAATTCGGTAATTTTGCTCTT
Found at i:53624836 original size:27 final size:27
Alignment explanation
Indices: 53624783--53624836 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
53624773 GGGGTATATC
53624783 GGTAATTTTGCTCTTTAGGGGTAATTT
1 GGTAATTTTGCTCTTTAGGGGTAATTT
53624810 GGTAATTTTGCTCTTTAGGGGTAATTT
1 GGTAATTTTGCTCTTTAGGGGTAATTT
53624837 CGTGATCTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.07, G:0.26, T:0.48
Consensus pattern (27 bp):
GGTAATTTTGCTCTTTAGGGGTAATTT
Found at i:53626487 original size:20 final size:20
Alignment explanation
Indices: 53626464--53626501 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53626454 CACATCCAAA
*
53626464 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
53626484 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
53626502 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:53639818 original size:29 final size:29
Alignment explanation
Indices: 53639785--53639877 Score: 123
Period size: 29 Copynumber: 3.2 Consensus size: 29
53639775 TGACGAGATT
* *
53639785 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
*
53639814 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
* * * *
53639843 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
53639872 GGCACT
1 GGCACT
53639878 GGGTGTGCGA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAA
Found at i:53639890 original size:29 final size:29
Alignment explanation
Indices: 53639785--53639890 Score: 115
Period size: 29 Copynumber: 3.7 Consensus size: 29
53639775 TGACGAGATT
* *
53639785 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
*
53639814 GGCACTAAGTGTGC-ATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGA-GCTGGAAAAATAA
* * * *
53639843 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
**
53639872 GGCACTGGGTGTGCGAGCT
1 GGCACTAAGTGTGCGAGCT
53639891 CGGAGGGTAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
29 64 0.98
30 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGCTGGAAAAATAA
Found at i:53646506 original size:18 final size:17
Alignment explanation
Indices: 53646485--53646529 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
53646475 AAAGAAATGA
*
53646485 AAAAAAAAAGAGAATATG
1 AAAAAAAAAGAGAA-AAG
53646503 AAAAAAACAA-AGAAAAG
1 AAAAAAA-AAGAGAAAAG
53646520 AAAAAAAAAG
1 AAAAAAAAAG
53646530 TGTTCATTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 2 0.08
17 9 0.38
18 11 0.46
19 2 0.08
ACGTcount: A:0.80, C:0.02, G:0.13, T:0.04
Consensus pattern (17 bp):
AAAAAAAAAGAGAAAAG
Found at i:53646509 original size:20 final size:17
Alignment explanation
Indices: 53646475--53646528 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
53646465 TAGGAAGAAT
*
53646475 AAAGAAATGAAAAAAAA
1 AAAGAAAAGAAAAAAAA
* *
53646492 AAGAGAATATGAAAAAAAC
1 AA-AGAA-AAGAAAAAAAA
53646511 AAAGAAAAGAAAAAAAA
1 AAAGAAAAGAAAAAAAA
53646528 A
1 A
53646529 GTGTTCATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 12 0.38
18 8 0.25
19 12 0.38
ACGTcount: A:0.80, C:0.02, G:0.13, T:0.06
Consensus pattern (17 bp):
AAAGAAAAGAAAAAAAA
Found at i:53647776 original size:29 final size:29
Alignment explanation
Indices: 53647685--53647776 Score: 123
Period size: 29 Copynumber: 3.2 Consensus size: 29
53647675 TGACGAGATT
*
53647685 GGCACTAAGTGTGCGTGCTGG-AAAATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
*
53647713 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
* * * *
53647742 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
53647771 GGCACT
1 GGCACT
53647777 GGGTGTGCGA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 20 0.36
29 36 0.64
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAA
Found at i:53647789 original size:29 final size:29
Alignment explanation
Indices: 53647685--53647789 Score: 115
Period size: 29 Copynumber: 3.7 Consensus size: 29
53647675 TGACGAGATT
*
53647685 GGCACTAAGTGTGCGTGCTGG-AAAATAA
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
*
53647713 GGCACTAAGTGTGC-ATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGA-GCTGGAAAAATAA
* * * *
53647742 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
**
53647771 GGCACTGGGTGTGCGAGCT
1 GGCACTAAGTGTGCGAGCT
53647790 CGAGGGTATG
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
28 19 0.29
29 45 0.69
30 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.22
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGCTGGAAAAATAA
Found at i:53655940 original size:27 final size:28
Alignment explanation
Indices: 53655910--53655979 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
53655900 ATAATAAGTC
*
53655910 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
53655937 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
53655965 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53655980 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:53663862 original size:27 final size:28
Alignment explanation
Indices: 53663832--53663901 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
53663822 ATAATAAGTC
*
53663832 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
53663859 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
53663887 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53663902 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:53665868 original size:46 final size:46
Alignment explanation
Indices: 53665817--53666083 Score: 355
Period size: 46 Copynumber: 5.8 Consensus size: 46
53665807 GGTTGAGCAT
* * * * *
53665817 CCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGTGAATGT
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
53665863 TCGAACTCGTTGAGTTGAGTCCGAGTT---TGA-GAGATG-TAACTAGGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAAC---GC
*
53665908 ATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGC
1 --CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
53665956 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
53666002 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
53666048 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53666084 GCGGGTTACA
Statistics
Matches: 198, Mismatches: 12, Indels: 22
0.85 0.05 0.09
Matches are distributed among these distances:
42 3 0.02
43 6 0.03
45 1 0.01
46 152 0.77
47 24 0.12
48 2 0.01
50 6 0.03
51 4 0.02
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:53667643 original size:16 final size:18
Alignment explanation
Indices: 53667624--53667662 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 18
53667614 CAGCCCTTTC
53667624 TCTTTTCGTTT-TTT-TT
1 TCTTTTCGTTTCTTTGTT
53667640 TC-TTT-GTTTCTTTGTT
1 TCTTTTCGTTTCTTTGTT
53667656 TCTTTTC
1 TCTTTTC
53667663 TTGTTCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
14 4 0.21
15 6 0.32
16 6 0.32
17 3 0.16
ACGTcount: A:0.00, C:0.15, G:0.08, T:0.77
Consensus pattern (18 bp):
TCTTTTCGTTTCTTTGTT
Found at i:53668355 original size:26 final size:26
Alignment explanation
Indices: 53668325--53668377 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
53668315 TAAAAGTAAG
53668325 AGACGAAACAAAGAAAAAAGATGCAA
1 AGACGAAACAAAGAAAAAAGATGCAA
53668351 AGACGAAACAAAGAAAAAAGATGCAA
1 AGACGAAACAAAGAAAAAAGATGCAA
53668377 A
1 A
53668378 TTTGGCAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.66, C:0.11, G:0.19, T:0.04
Consensus pattern (26 bp):
AGACGAAACAAAGAAAAAAGATGCAA
Found at i:53671843 original size:27 final size:27
Alignment explanation
Indices: 53671794--53671951 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
53671784 GCGAGGCTGC
* *
53671794 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
53671821 CAGATATTGTGGCAGAGCTACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
53671847 TAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
53671874 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
53671901 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
53671928 CAGATAATTGTGGCATAG-CACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
53671952 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
26 15 0.13
27 92 0.82
28 5 0.04
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:53671884 original size:54 final size:53
Alignment explanation
Indices: 53671812--53671951 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 53
53671802 GTGACGAAGT
* *
53671812 CACCAGATACAGAT-ATTGTGGCAGAGCTACCAGAATAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGC-ACCAGAACAGATATATGTGGCAGAGC
*
53671866 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAG-CACCAGAACAGATATATGTGGCAGAGC
53671920 CACCAGATCAGATAATTGTGGCATAGCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCACCAG
53671952 GACGCTTCCT
Statistics
Matches: 81, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
53 11 0.14
54 69 0.85
55 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.19
Consensus pattern (53 bp):
CACCAGATCAGATAATTGTGGCATAGCACCAGAACAGATATATGTGGCAGAGC
Found at i:53679439 original size:40 final size:40
Alignment explanation
Indices: 53679394--53679561 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
53679384 CGGAATATAA
53679394 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
53679434 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
53679474 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
53679514 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
53679554 CCGGATAT
1 CCGGATAT
53679562 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:53681484 original size:51 final size:51
Alignment explanation
Indices: 53681429--53681627 Score: 301
Period size: 51 Copynumber: 3.9 Consensus size: 51
53681419 TGAACCTTAG
*
53681429 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATATGAAGGCCACTTTAT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATATGAAGGCCACTTTGT
* *
53681480 GAATATAATAGCTTTGGACACAAGTGTAGTACTATATGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATATGAAGGCCACTTTGT
* *
53681531 GAATAAAATAGCTTCGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATATGAAGGCCACTTTGT
* * * *
53681582 GCATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGACCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATATGAAGGCCAC
53681628 CGTGTATTCG
Statistics
Matches: 136, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
50 1 0.01
51 135 0.99
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATATGAAGGCCACTTTGT
Found at i:53683015 original size:46 final size:48
Alignment explanation
Indices: 53682872--53683277 Score: 235
Period size: 46 Copynumber: 8.6 Consensus size: 48
53682862 TTTGTGTGTT
* * * **
53682872 AGTGTAAGA-CATGTCTGGGA-AT-GCATCGGCCACATTATG-AGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCTCAAGATGTA-AGCC
* * * * *
53682917 AATGTAAGACCATGTCTGGGACATGGCATCAGCATTGAA-ATG-AGAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGC-CTCAAGATGTA-AGCC
53682965 AGTGTAAGA-CATGTCTAGGACAT-GCATCAGCCTCAAGATGTAAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCTCAAGATGTAAGCC
* * * *
53683011 AGTGTAAGA-CATGTCTAGGACAT-GCATCCG-TTACGAGATGT--GTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCT-CAAGATGTAAGCC
* * * *
53683055 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGT-ATAGAGGT--GTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGC-C-TCA-AGATGTAAGCC
* * * *
53683103 AGTGTAAGACCATGTCTAGGACATGGCATC-GGCACAGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCTCA-AGATGT-A-AGCC
* * * *
53683153 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCTC--GATTTCGATAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCTCAAGATGT--A-AGCC
* * * * *
53683202 ATTGTAAGACCATGTCTAAGACATGGCATC-GACT--TGATGAATGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCTCAAGATG--TAAGCC
*
53683249 AGTGTAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTAGGACATGGCAT
53683278 TGGCATTATA
Statistics
Matches: 291, Mismatches: 47, Indels: 44
0.76 0.12 0.12
Matches are distributed among these distances:
44 11 0.04
45 25 0.09
46 73 0.25
47 47 0.16
48 69 0.24
49 33 0.11
50 30 0.10
51 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCAGCCTCAAGATGTAAGCC
Found at i:53683225 original size:49 final size:50
Alignment explanation
Indices: 53682872--53683282 Score: 263
Period size: 48 Copynumber: 8.7 Consensus size: 50
53682862 TTTGTGTGTT
* * *
53682872 AGTGTAAGA-CATGTCTGGGA-AT-GCATCGGC-CACAT-TATGAGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCACAGATATGTGAGAGCC
* * * ** * *
53682917 AATGTAAGACCATGTCTGGGACATGGCATCAGCATTGA-A-ATGAGAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCACAGATATGTGAGAGCC
* * *
53682965 AGTGTAAGA-CATGTCTAGGACAT-GCATCAGCCTCA-AGATGT-A-AGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATC-GGCACAGATATGTGAGAGCC
** * *
53683011 AGTGTAAGA-CATGTCTAGGACAT-GCATCCGTTAC-GAGATGT----GTC
1 AGTGTAAGACCATGTCTAGGACATGGCAT-CGGCACAGATATGTGAGAGCC
* * * *
53683055 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-G-TAT-AGAGGTGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCACAGATATGTGA-GAGCC
*
53683103 AGTGTAAGACCATGTCTAGGACATGGCATCGGCACAGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCACAGATATGTGAGAGCC
* * * *
53683153 AGTGTAAGACCATGTTTGGGACATGGCATCGGC-CTCGAT-T-TCGATAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCAC-AGATATGT-GAGAGCC
* *
53683202 ATTGTAAGACCATGTCTAAGACATGGCATC-G-AC---T-TGATGAATGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCACAGATATG-TG-A-GAGCC
* *
53683249 AGTGTAAGACCATGTCTGGGACATGGCATTGGCA
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCA
53683283 TTATACACTA
Statistics
Matches: 294, Mismatches: 43, Indels: 54
0.75 0.11 0.14
Matches are distributed among these distances:
44 15 0.05
45 27 0.09
46 61 0.21
47 49 0.17
48 65 0.22
49 36 0.12
50 39 0.13
51 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCACAGATATGTGAGAGCC
Found at i:53686562 original size:17 final size:17
Alignment explanation
Indices: 53686540--53686581 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
53686530 ACAGGGGTCA
*
53686540 CACGGCCGTGTGACTCC
1 CACGGCCATGTGACTCC
53686557 CACGGCCATGTGACTCC
1 CACGGCCATGTGACTCC
53686574 CACGGCCA
1 CACGGCCA
53686582 AGAGACACGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.17, C:0.43, G:0.26, T:0.14
Consensus pattern (17 bp):
CACGGCCATGTGACTCC
Found at i:53687981 original size:25 final size:25
Alignment explanation
Indices: 53687907--53687983 Score: 93
Period size: 25 Copynumber: 3.1 Consensus size: 25
53687897 TTTCATGAGT
* *
53687907 TGCAAATCGGTAAGCTCATACAAGC
1 TGCAAATCAGTAAGCTCATACGAGC
*
53687932 TG-AGAATCAGTAAGCTCTTACGAGC
1 TGCA-AATCAGTAAGCTCATACGAGC
* *
53687957 TGCAAATAAGTAAGCTCATATGAGC
1 TGCAAATCAGTAAGCTCATACGAGC
53687982 TG
1 TG
53687984 TGGTGTGTCC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
24 1 0.02
25 42 0.95
26 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.23
Consensus pattern (25 bp):
TGCAAATCAGTAAGCTCATACGAGC
Found at i:53688878 original size:12 final size:13
Alignment explanation
Indices: 53688861--53688892 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
53688851 ATAGCACATT
53688861 TCAAAAC-ATGCA
1 TCAAAACTATGCA
53688873 TCAAAACTATGCA
1 TCAAAACTATGCA
53688886 -CAAAACT
1 TCAAAACT
53688893 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:53692345 original size:44 final size:44
Alignment explanation
Indices: 53692289--53692376 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
53692279 ACAATTTCTT
53692289 CTATTTGGCTTTGCATACAAAACCAATTGAGGACAATTATATAA
1 CTATTTGGCTTTGCATACAAAACCAATTGAGGACAATTATATAA
53692333 CTATTTGGCTTTGCATACAAAACCAATTGAGGACAATTATATAA
1 CTATTTGGCTTTGCATACAAAACCAATTGAGGACAATTATATAA
53692377 TTTGTTTTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (44 bp):
CTATTTGGCTTTGCATACAAAACCAATTGAGGACAATTATATAA
Found at i:53694452 original size:100 final size:100
Alignment explanation
Indices: 53694339--53694538 Score: 319
Period size: 100 Copynumber: 2.0 Consensus size: 100
53694329 TTGTTTTGAT
53694339 CATTTTCAATTTTATCGATTATGTTTCAGAAAATGTTTTCCTTTGAAGGGATCCAAAACAATAGG
1 CATTTTCAATTTTATCGATTATGTTTCAGAAAATGTTTTCCTTTGAAGGGATCCAAAACAATAGG
*
53694404 AGAAATGAATTGTTTGTGTGTGGAAACAAAGCTAC
66 AGAAATGAACTGTTTGTGTGTGGAAACAAAGCTAC
* * * * * * **
53694439 CATTTTTAATTTTATTGATTATGTTTGAGAAAATGTTTTCCTTTGAAGGGATTCAAGACAGTCTG
1 CATTTTCAATTTTATCGATTATGTTTCAGAAAATGTTTTCCTTTGAAGGGATCCAAAACAATAGG
53694504 AGAAATGAACTGTTTGTGTGTGGAAACAAAGCTAC
66 AGAAATGAACTGTTTGTGTGTGGAAACAAAGCTAC
53694539 TTTGATCAAA
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 91 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (100 bp):
CATTTTCAATTTTATCGATTATGTTTCAGAAAATGTTTTCCTTTGAAGGGATCCAAAACAATAGG
AGAAATGAACTGTTTGTGTGTGGAAACAAAGCTAC
Found at i:53707369 original size:29 final size:29
Alignment explanation
Indices: 53707337--53707443 Score: 108
Period size: 29 Copynumber: 3.7 Consensus size: 29
53707327 ATACCCTCCG
** *
53707337 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* *
53707366 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* * *
53707395 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACATAGTGCCATATTTTTCC
* *
53707424 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACATAGTGCCA
53707444 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 64 0.98
30 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACATAGTGCCATATTTTTCC
Found at i:53711038 original size:31 final size:31
Alignment explanation
Indices: 53711003--53711086 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
53710993 CGTTTACAGT
53711003 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
53711034 AAAGGCTTCGGCCCAGTGACATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
53711065 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
53711087 CTGAGATTGA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 4 0.08
31 46 0.92
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:53717898 original size:50 final size:50
Alignment explanation
Indices: 53717804--53718019 Score: 220
Period size: 50 Copynumber: 4.3 Consensus size: 50
53717794 GCTAAATGTC
* * * * *
53717804 CTTGAATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTGGAT
1 CTTGTATATTCGGCCATAAAGGTATGCACATATGTGATATTATATTGGAT
* * * * *
53717854 CTTGTTTATTGGGCTATAAAGGTATGCACAAATGTGATATTATATTTGAAT
1 CTTGTATATTCGGCCATAAAGGTATGCACATATGTGATATTATA-TTGGAT
* * * *
53717905 -TTGTATATTCAGCCATATAA-GTAAGCACATATGTGATGTTATATTTGAT
1 CTTGTATATTCGGCCATA-AAGGTATGCACATATGTGATATTATATTGGAT
* * * * * *
53717954 CTTGCATATTTGGCCACATAGGTATGCATATATGTGATATTATATTTGAT
1 CTTGTATATTCGGCCATAAAGGTATGCACATATGTGATATTATATTGGAT
53718004 CTTGTATATTCGGCCA
1 CTTGTATATTCGGCCA
53718020 AATGAGTGAT
Statistics
Matches: 133, Mismatches: 29, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
49 5 0.04
50 121 0.91
51 7 0.05
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (50 bp):
CTTGTATATTCGGCCATAAAGGTATGCACATATGTGATATTATATTGGAT
Found at i:53717989 original size:100 final size:100
Alignment explanation
Indices: 53717804--53718019 Score: 272
Period size: 100 Copynumber: 2.2 Consensus size: 100
53717794 GCTAAATGTC
* * * * * * ** *
53717804 CTTGAATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTGGATCTTGTTTATTGGGCT
1 CTTGTATATTCAGCCATATAAGTAAGCACATATGTGATGTTATATTGGATCTTGCATATTGGGCC
*
53717869 ATAAAGGTATGCACAAATGTGATATTATATTTGAAT
66 ACAAAGGTATGCACAAATGTGATATTATATTTG-AT
* *
53717905 -TTGTATATTCAGCCATATAAGTAAGCACATATGTGATGTTATATTTGATCTTGCATATTTGGCC
1 CTTGTATATTCAGCCATATAAGTAAGCACATATGTGATGTTATATTGGATCTTGCATATTGGGCC
* * *
53717969 ACATAGGTATGCATATATGTGATATTATATTTGAT
66 ACAAAGGTATGCACAAATGTGATATTATATTTGAT
*
53718004 CTTGTATATTCGGCCA
1 CTTGTATATTCAGCCA
53718020 AATGAGTGAT
Statistics
Matches: 98, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
99 2 0.02
100 96 0.98
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (100 bp):
CTTGTATATTCAGCCATATAAGTAAGCACATATGTGATGTTATATTGGATCTTGCATATTGGGCC
ACAAAGGTATGCACAAATGTGATATTATATTTGAT
Found at i:53721531 original size:57 final size:57
Alignment explanation
Indices: 53721470--53721584 Score: 194
Period size: 57 Copynumber: 2.0 Consensus size: 57
53721460 GACGGAACTA
*
53721470 TGAAAATGTGTATTGATTACCACCAGCTAAATAAGGTGAATATAAAGAATACATACC
1 TGAAAATGTGTATTGATTACCACCAACTAAATAAGGTGAATATAAAGAATACATACC
** *
53721527 TGAAAATGTGTATTGATTACCGTCAACTAAATAAGGTGACTATAAAGAATACATACC
1 TGAAAATGTGTATTGATTACCACCAACTAAATAAGGTGAATATAAAGAATACATACC
53721584 T
1 T
53721585 ATTGCCACGG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.28
Consensus pattern (57 bp):
TGAAAATGTGTATTGATTACCACCAACTAAATAAGGTGAATATAAAGAATACATACC
Found at i:53727861 original size:40 final size:40
Alignment explanation
Indices: 53727815--53728490 Score: 1077
Period size: 40 Copynumber: 16.9 Consensus size: 40
53727805 GAATACACAT
* * *
53727815 CACCAGCATGAATGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
53727855 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
* *
53727895 CACCAGCAAGAATGCTCTTCGAGACTTAGCCCGGATGTAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
53727935 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
* *
53727975 CACCAACACGAATGCTCTTCGAGACTTATCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
53728015 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
* * * **
53728055 CACCAGCATGAATACTCTTCGGGACTTAGTTCGGATAT-A
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
* *
53728094 CACCAGCACGAATGCTCTTCGGGACTTAGCCTGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
* * *
53728134 CACCAGCAAGAATGCTCTTCGAGACTTAGCCCAGATGTAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
53728174 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
* * *
53728214 CACCAACACGAATGCTCTTCGAGACTTATCCCGGGTATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
53728254 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
* * ** *
53728294 CACCAGCACGAATACTCTTCGGGACTTAGTTCGAATAT-A
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
* *
53728333 CACCAGCACGAATGCTCTTCGGGACTTAGCCTGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
*
53728373 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
53728413 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
*
53728453 CACCAGCACGAATGCTCTTCGAGACTTAGCCCAGATAT
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATAT
53728491 CTAACTCTAA
Statistics
Matches: 586, Mismatches: 48, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
39 68 0.12
40 518 0.88
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
Found at i:53728235 original size:239 final size:239
Alignment explanation
Indices: 53727815--53728490 Score: 1199
Period size: 239 Copynumber: 2.8 Consensus size: 239
53727805 GAATACACAT
* * ** *
53727815 CACCAGCATGAATGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGAGAC
1 CACCAGCATGAATACTCTTCGGGACTTAGTTCGGATAT-ACACCAGCACGAATGCTCTTCGGGAC
*
53727880 TTAGCCCGGATATAACACCAGCAAGAATGCTCTTCGAGACTTAGCCCGGATGTAACACCAGCACG
65 TTAGCCTGGATATAACACCAGCAAGAATGCTCTTCGAGACTTAGCCCGGATGTAACACCAGCACG
53727945 AATGCTCTTCGAGACTTAGCCCGGATATAACACCAACACGAATGCTCTTCGAGACTTATCCCGGA
130 AATGCTCTTCGAGACTTAGCCCGGATATAACACCAACACGAATGCTCTTCGAGACTTATCCCGGA
53728010 TATAACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
195 TATAACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
53728055 CACCAGCATGAATACTCTTCGGGACTTAGTTCGGATATACACCAGCACGAATGCTCTTCGGGACT
1 CACCAGCATGAATACTCTTCGGGACTTAGTTCGGATATACACCAGCACGAATGCTCTTCGGGACT
*
53728120 TAGCCTGGATATAACACCAGCAAGAATGCTCTTCGAGACTTAGCCCAGATGTAACACCAGCACGA
66 TAGCCTGGATATAACACCAGCAAGAATGCTCTTCGAGACTTAGCCCGGATGTAACACCAGCACGA
*
53728185 ATGCTCTTCGAGACTTAGCCCGGATATAACACCAACACGAATGCTCTTCGAGACTTATCCCGGGT
131 ATGCTCTTCGAGACTTAGCCCGGATATAACACCAACACGAATGCTCTTCGAGACTTATCCCGGAT
53728250 ATAACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
196 ATAACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
* *
53728294 CACCAGCACGAATACTCTTCGGGACTTAGTTCGAATATACACCAGCACGAATGCTCTTCGGGACT
1 CACCAGCATGAATACTCTTCGGGACTTAGTTCGGATATACACCAGCACGAATGCTCTTCGGGACT
* * *
53728359 TAGCCTGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGA
66 TAGCCTGGATATAACACCAGCAAGAATGCTCTTCGAGACTTAGCCCGGATGTAACACCAGCACGA
* * *
53728424 ATGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGAGACTTAGCCCAGAT
131 ATGCTCTTCGAGACTTAGCCCGGATATAACACCAACACGAATGCTCTTCGAGACTTATCCCGGAT
53728489 AT
196 AT
53728491 CTAACTCTAA
Statistics
Matches: 418, Mismatches: 18, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
239 384 0.92
240 34 0.08
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (239 bp):
CACCAGCATGAATACTCTTCGGGACTTAGTTCGGATATACACCAGCACGAATGCTCTTCGGGACT
TAGCCTGGATATAACACCAGCAAGAATGCTCTTCGAGACTTAGCCCGGATGTAACACCAGCACGA
ATGCTCTTCGAGACTTAGCCCGGATATAACACCAACACGAATGCTCTTCGAGACTTATCCCGGAT
ATAACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
Found at i:53730891 original size:39 final size:40
Alignment explanation
Indices: 53730807--53730891 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
53730797 ACTTAATTCA
* * * *
53730807 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCAGATACAATC
*
53730847 CCAGCATGAAGCCAGCGGGTCTCT-AACCCAGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCAGATACAATC
*
53730886 TCAGCA
1 CCAGCA
53730892 CAATTCATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 19 0.49
40 20 0.51
ACGTcount: A:0.31, C:0.32, G:0.20, T:0.18
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCAGATACAATC
Found at i:53734855 original size:40 final size:40
Alignment explanation
Indices: 53734802--53735238 Score: 723
Period size: 40 Copynumber: 10.9 Consensus size: 40
53734792 GAATACACAT
* * *
53734802 CACCAGCATGAATGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
*
53734842 CACCAGGACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
* * *
53734882 CTCCAGCACGAATGCTCTTCGAGACTTAGCCCGAATGTAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
53734922 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
* *
53734962 CACCAACACGAATGCTCTTCGAGACTTATCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
53735002 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
* * **
53735042 CACCAGCACGAATACTCTTCGGGACTTAGTTCGGATAT-A
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
*
53735081 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
*
53735121 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
53735161 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
*
53735201 CACCAGCACGAATGCTCTTCGAGACTTAGCCCAGATAT
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATAT
53735239 CTAACTCTAA
Statistics
Matches: 372, Mismatches: 24, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 36 0.10
40 336 0.90
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
Found at i:53737634 original size:39 final size:40
Alignment explanation
Indices: 53737550--53737634 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
53737540 ACTTAATTCA
* * * *
53737550 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCAGATACAATC
*
53737590 CCAGCATGAAGCCAGCGGGTCTCT-AACCCAGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCAGATACAATC
*
53737629 TCAGCA
1 CCAGCA
53737635 CAATTCATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 19 0.49
40 20 0.51
ACGTcount: A:0.31, C:0.32, G:0.20, T:0.18
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCAGATACAATC
Found at i:53738116 original size:2 final size:2
Alignment explanation
Indices: 53738109--53738140 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
53738099 GCAACCGATC
53738109 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53738141 TTTTCCATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53744189 original size:50 final size:49
Alignment explanation
Indices: 53744104--53744315 Score: 191
Period size: 50 Copynumber: 4.3 Consensus size: 49
53744094 GCTAAATGTC
* * *
53744104 CTTGAATATTCGGCAACAT-AGGTATGTACATATGTGATGTTATATTGGAT
1 CTTGTATATTCGGC--CATAAGGTATGCACATATGTGATATTATATTGGAT
* * * *
53744154 CTTGTATATTGGGCTATAAAGGTATGCACAAATGTGATATTATATTTGAAT
1 CTTGTATATTCGGCCAT-AAGGTATGCACATATGTGATATTATA-TTGGAT
* * * *
53744205 -TTGTATATTCAGCCAT-A--TAAGCACATATGTGATGTTATATTTGAT
1 CTTGTATATTCGGCCATAAGGTATGCACATATGTGATATTATATTGGAT
* * * * * *
53744250 CTTGCATATTTGACCACATAGGTATGCATATATGTGATATTATATTTGAT
1 CTTGTATATTCGGCCATA-AGGTATGCACATATGTGATATTATATTGGAT
53744300 CTTGTATATTCGGCCA
1 CTTGTATATTCGGCCA
53744316 AATGAGTGAT
Statistics
Matches: 128, Mismatches: 26, Indels: 16
0.75 0.15 0.09
Matches are distributed among these distances:
45 4 0.03
46 30 0.23
48 4 0.03
50 85 0.66
51 5 0.04
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.40
Consensus pattern (49 bp):
CTTGTATATTCGGCCATAAGGTATGCACATATGTGATATTATATTGGAT
Found at i:53744295 original size:96 final size:96
Alignment explanation
Indices: 53744131--53744315 Score: 264
Period size: 96 Copynumber: 1.9 Consensus size: 96
53744121 ATAGGTATGT
* * * *
53744131 ACATATGTGATGTTATATTGGATCTTGTATATTGGGCTATAAAGGTATGCACAAATGTGATATTA
1 ACATATGTGATGTTATATTGGATCTTGCATATTGGACCACAAAGGTATGCACAAATGTGATATTA
53744196 TATTTGAAT-TTGTATATTCAGCCATATAAGC
66 TATTTG-ATCTTGTATATTCAGCCATATAAGC
* * * * *
53744227 ACATATGTGATGTTATATTTGATCTTGCATATTTGACCACATAGGTATGCATATATGTGATATTA
1 ACATATGTGATGTTATATTGGATCTTGCATATTGGACCACAAAGGTATGCACAAATGTGATATTA
*
53744292 TATTTGATCTTGTATATTCGGCCA
66 TATTTGATCTTGTATATTCAGCCA
53744316 AATGAGTGAT
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
95 2 0.03
96 76 0.97
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (96 bp):
ACATATGTGATGTTATATTGGATCTTGCATATTGGACCACAAAGGTATGCACAAATGTGATATTA
TATTTGATCTTGTATATTCAGCCATATAAGC
Found at i:53748115 original size:16 final size:16
Alignment explanation
Indices: 53748094--53748124 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53748084 ATAGGAGTAA
*
53748094 AATGGTCATTTTGCCC
1 AATGGTCACTTTGCCC
53748110 AATGGTCACTTTGCC
1 AATGGTCACTTTGCC
53748125 AAAGTCTAGG
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:0.19, C:0.26, G:0.19, T:0.35
Consensus pattern (16 bp):
AATGGTCACTTTGCCC
Found at i:53748612 original size:47 final size:46
Alignment explanation
Indices: 53748497--53748816 Score: 204
Period size: 47 Copynumber: 6.8 Consensus size: 46
53748487 AATTTCTTAT
* *
53748497 GTGCCAGTGTAAGACATGTCTGGGACAAGCATCGGCCACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGA
* * * *
53748543 GTGCCAGTATAAGATGATGTCTGGGACATGGCATCGGCGTAGA-GATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CACATGATGA
* * * * *
53748591 GTGCCAATGTAAGACAGGTCTGGGACATGCATCAGCCTCGATGATTA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGA
* * * * *
53748638 -TAGCCAGTGTAAGACGTGTCTGGGACACGTATCGGCTA-A-GA-GTT
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATG-A
* * * *
53748682 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAG-CATGTATATATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCA--CAT-GATGA
* * * * *
53748730 GGGCTAGTATAAGACCATATCTGGGACATGGCATCGGCCTCGATGATG-
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-ATGATGA
* * *
53748778 CTACCCAGTGTAAGACCATGTTTGGGACATGGCATCGGC
1 GT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
53748817 AACTTATCCC
Statistics
Matches: 208, Mismatches: 47, Indels: 35
0.72 0.16 0.12
Matches are distributed among these distances:
43 1 0.00
44 30 0.14
45 2 0.01
46 23 0.11
47 56 0.27
48 37 0.18
49 50 0.24
50 8 0.04
51 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGA
Found at i:53748658 original size:94 final size:91
Alignment explanation
Indices: 53748497--53748717 Score: 250
Period size: 94 Copynumber: 2.4 Consensus size: 91
53748487 AATTTCTTAT
* * * *
53748497 GTGCCAGTGTAAGACATGTCTGGGACAAGCATCGGCCACATTATGAGTGCCAGTATAAGATGATG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGTGCCAGTATAAGACGATG
*
53748562 TCTGGGACATGGCATCGGCGT-AGAGATGA
66 TCTGGGACA-CGCATCGGC-TAAGAG-T-A
* * * * *
53748591 GTGCCAATGTAAGACAGGTCTGGGACATGCATCAGCCTCGATGATTA-TAGCCAGTGTAAGACG-
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATGAGT-GCCAGTATAAGACGA
* *
53748654 TGTCTGGGACACGTATCGGCTAAGAGTT
64 TGTCTGGGACACGCATCGGCTAAGAGTA
*
53748682 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGC
53748718 ATGTATATAT
Statistics
Matches: 109, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
91 33 0.30
92 2 0.02
93 11 0.10
94 46 0.42
95 17 0.16
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (91 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGTGCCAGTATAAGACGATG
TCTGGGACACGCATCGGCTAAGAGTA
Found at i:53749721 original size:19 final size:19
Alignment explanation
Indices: 53749697--53749740 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
53749687 AAGTCAGTGT
*
53749697 ACGGGCGTGCCCAACCCAC
1 ACGGGCGTGCCCAAACCAC
53749716 ACGGGCGTGCCCAAACCAC
1 ACGGGCGTGCCCAAACCAC
53749735 ACGGGC
1 ACGGGC
53749741 TTGTGGAGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.23, C:0.43, G:0.30, T:0.05
Consensus pattern (19 bp):
ACGGGCGTGCCCAAACCAC
Found at i:53751428 original size:44 final size:43
Alignment explanation
Indices: 53751380--53751468 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 43
53751370 CTATTCGTGC
*
53751380 CTGCGATGAGGCAGAGTCTCCTGATGTTATCACGGGTACTTTTT
1 CTGCGATGAAGCAGAGTCTCCTGATGTTAT-ACGGGTACTTTTT
*
53751424 CTGCGATGAAGCAGAGTCTCCTGATGTTATACTGGTACTTTTT
1 CTGCGATGAAGCAGAGTCTCCTGATGTTATACGGGTACTTTTT
53751467 CT
1 CT
53751469 ATCCATGATA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
43 14 0.33
44 29 0.67
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (43 bp):
CTGCGATGAAGCAGAGTCTCCTGATGTTATACGGGTACTTTTT
Found at i:53764395 original size:66 final size:68
Alignment explanation
Indices: 53764317--53764503 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
53764307 TAGTACCACT
*
53764317 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
53764379 CACG
65 CACG
53764383 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
53764448 ATCACG
63 ATCACG
53764454 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
53764504 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:53764428 original size:71 final size:71
Alignment explanation
Indices: 53764340--53764503 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
53764330 CGATTTGTCT
53764340 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
53764405 CTTTCA
66 CTTTCA
53764411 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
53764476 CTTTCA
66 CTTTCA
53764482 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
53764504 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:53764541 original size:71 final size:70
Alignment explanation
Indices: 53764340--53764537 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
53764330 CGATTTGTCT
* * * *
53764340 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
53764405 CTTTCA
65 CTTTCA
* * * *
53764411 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
53764476 CTTTCA
65 CTTTCA
* *
53764482 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
53764538 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:53771957 original size:70 final size:71
Alignment explanation
Indices: 53771874--53772036 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
53771864 CGATTTGTCT
53771874 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
53771938 CTTTCA
66 CTTTCA
53771944 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
53772009 CTTTCA
66 CTTTCA
53772015 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
53772037 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 52 0.57
71 40 0.43
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:53772074 original size:71 final size:70
Alignment explanation
Indices: 53771874--53772070 Score: 249
Period size: 70 Copynumber: 2.8 Consensus size: 70
53771864 CGATTTGTCT
* * * *
53771874 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
53771938 CTTTCA
65 CTTTCA
* * * *
53771944 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
53772009 CTTTCA
65 CTTTCA
* *
53772015 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
53772071 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 53 0.45
71 43 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:53776299 original size:47 final size:45
Alignment explanation
Indices: 53776159--53776478 Score: 204
Period size: 47 Copynumber: 6.8 Consensus size: 45
53776149 GATTTCTTGT
* * * *
53776159 GTGCCAGTGTAAGACATGTCTGGGTCATGCATCAGCCACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC-GGCTCATGATGA
* * * *
53776205 GTGTCAGTATAAGACCATGTTTGGGACATGGCATCGGCGT-AGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TCA-TGATGA
*
53776253 GTGCCAGTGTAAGACATGTTTGGGACATGCATCGGTCTCGATGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTC-ATGATGA
* * * * *
53776300 -TAACCAGTGTAAGACGTGTCTGGGACACGCATCGGCT-AAGA-GTT
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTCATGATG-A
* * *
53776344 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATGTACAT-ACGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGC---T-CATGATGA
* * * * *
53776392 GAGCTAGTATAAGACCATGTCTGCGACATGACATCAGCCTCGATGATGCTA
1 GTGCCAGTGTAAGA-CATGTCTGGGACATG-CATC-GGCTC-ATGATG--A
53776443 -T-CCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
53776479 AACTTATCCC
Statistics
Matches: 215, Mismatches: 35, Indels: 46
0.73 0.12 0.16
Matches are distributed among these distances:
43 1 0.00
44 32 0.15
45 1 0.00
46 23 0.11
47 66 0.31
48 40 0.19
49 45 0.21
50 5 0.02
51 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (45 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTCATGATGA
Found at i:53776324 original size:94 final size:91
Alignment explanation
Indices: 53776159--53776379 Score: 241
Period size: 94 Copynumber: 2.4 Consensus size: 91
53776149 GATTTCTTGT
* * **
53776159 GTGCCAGTGTAAGACATGTCTGGGTCATGCATCAGCCACATTATGAGTGTCAGTATAAGACCATG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGTACCAGTATAAGACCATG
* *
53776224 TTTGGGACATGGCATCGGCGT-AGAGATGA
66 TCTGGGACA-CGCATCGGC-TAAGAG-T-A
* * * * * *
53776253 GTGCCAGTGTAAGACATGTTTGGGACATGCATCGGTCTCGATGATGA-TAACCAGTGTAAGA-CG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATGAGT-ACCAGTATAAGACCA
*
53776316 TGTCTGGGACACGCATCGGCTAAGAGTT
64 TGTCTGGGACACGCATCGGCTAAGAGTA
*
53776344 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGC
53776380 ATGTACATAC
Statistics
Matches: 107, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
91 32 0.30
92 2 0.02
93 12 0.11
94 46 0.43
95 15 0.14
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (91 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGTACCAGTATAAGACCATG
TCTGGGACACGCATCGGCTAAGAGTA
Found at i:53781003 original size:15 final size:15
Alignment explanation
Indices: 53780980--53781013 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
53780970 ATCTAATCTA
*
53780980 ATCTTTTTTTCTTTT
1 ATCTTTTTTTTTTTT
53780995 -TCTTTTTTTTTTTT
1 ATCTTTTTTTTTTTT
53781009 ATCTT
1 ATCTT
53781014 CAATTTTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (15 bp):
ATCTTTTTTTTTTTT
Found at i:53782158 original size:3 final size:3
Alignment explanation
Indices: 53782150--53782194 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
53782140 TTATAGTAAC
53782150 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
53782195 ATACCTGATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:53783560 original size:2 final size:2
Alignment explanation
Indices: 53783553--53783584 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
53783543 GTATCATTAC
*
53783553 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
53783585 ATTATTGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:53784515 original size:67 final size:64
Alignment explanation
Indices: 53784368--53784528 Score: 191
Period size: 67 Copynumber: 2.4 Consensus size: 64
53784358 GTAAATGTGG
53784368 GATTAAAATTATTTTTTATGAAAATTGAATAAGTAAGCTATAGAAGTATTTCTAGTTAATGCAA
1 GATTAAAATTATTTTTTATGAAAATTGAATAAGTAAGCTATAGAAGTATTTCTAGTTAATGCAA
* * * *
53784432 GATAAAAATTATTTTTTATTGAAAATAGTGAA-AAGTGAGTTATACG-AGTATTCTCTATTTAAT
1 GATTAAAATTATTTTTTA-TGAAAAT--TGAATAAGTAAGCTATA-GAAGTATT-TCTAGTTAAT
*
53784495 GCGA
61 GCAA
53784499 GATTAAAATTAATTTTTTTAATGAAAATTG
1 GATTAAAATT-A-TTTTTT-ATGAAAATTG
53784529 TAAAGAAATT
Statistics
Matches: 83, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
64 17 0.20
65 7 0.08
66 16 0.19
67 28 0.34
68 1 0.01
69 13 0.16
70 1 0.01
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.40
Consensus pattern (64 bp):
GATTAAAATTATTTTTTATGAAAATTGAATAAGTAAGCTATAGAAGTATTTCTAGTTAATGCAA
Found at i:53785114 original size:94 final size:92
Alignment explanation
Indices: 53785015--53785220 Score: 277
Period size: 94 Copynumber: 2.2 Consensus size: 92
53785005 GTTAGTGTAG
* * *
53785015 GATTAAAATTAAGTTTTTAATAAAACTAATGAAGAAATTGACACTTATTTATAAGGTAAATGTGA
1 GATTAAAATTAACTTTTTAATAAAAATAATGAAGAAATTGACACTTATTTATAAGATAAATGTG-
* * * *
53785080 GATATGAGAGTGCTCTTTAGTCAATCTGA
65 G-CATGAGAGTACTCTCTAGCCAATCTGA
* * *
53785109 GATTAAAATGAACTTTTTAATAAAAATAATGAAGAAATTGACATTTATTTATAAGATAAGTGTGG
1 GATTAAAATTAACTTTTTAATAAAAATAATGAAGAAATTGACACTTATTTATAAGATAAATGTGG
* * *
53785174 CATGAGAGTATTCTCTAGCCACTGTGA
66 CATGAGAGTACTCTCTAGCCAATCTGA
53785201 GATTAAAATTAACTTTTTAA
1 GATTAAAATTAACTTTTTAA
53785221 GGGATTAAAA
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
92 39 0.40
93 1 0.01
94 58 0.59
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (92 bp):
GATTAAAATTAACTTTTTAATAAAAATAATGAAGAAATTGACACTTATTTATAAGATAAATGTGG
CATGAGAGTACTCTCTAGCCAATCTGA
Found at i:53785324 original size:69 final size:67
Alignment explanation
Indices: 53785221--53785348 Score: 179
Period size: 69 Copynumber: 1.9 Consensus size: 67
53785211 AACTTTTTAA
* * *
53785221 GGGATTAAAAATATTTTTAATGAAATAAGTGAAGAAGTGT-GTTATGAGAGTATTCTCTAGTCGA
1 GGGATTAAAAAAATTTTTAACGAAATAAGTGAAGAAGT-TAGCTATGAGAGTATTCTCTAGTCGA
53785285 TGT
65 TGT
53785288 GGGATTAAAATAAATTTTTTAACGAAA-ATAGTGAAGAAGTTAGCTATGAGAGTATTCTCTA
1 GGGATTAAAA-AAA-TTTTTAACGAAATA-AGTGAAGAAGTTAGCTATGAGAGTATTCTCTA
53785349 ATTAATATGA
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
67 10 0.19
68 4 0.07
69 40 0.74
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.34
Consensus pattern (67 bp):
GGGATTAAAAAAATTTTTAACGAAATAAGTGAAGAAGTTAGCTATGAGAGTATTCTCTAGTCGAT
GT
Found at i:53785364 original size:69 final size:70
Alignment explanation
Indices: 53785229--53785364 Score: 161
Period size: 69 Copynumber: 2.0 Consensus size: 70
53785219 AAGGGATTAA
* * * * * **
53785229 AAATATTTTTAATGAAATAAGTGAAGAAGTGTGTTATGAGAGTATTCTCTAGTCGATGTGGGATT
1 AAATATTTTTAACGAAATAAGTGAAGAAGTGTGCTATGAGAGTATTCTCTAATCAATATGACATT
53785294 AAAAT
66 AAAAT
*
53785299 AAAT-TTTTTAACGAAA-ATAGTGAAGAAGT-TAGCTATGAGAGTATTCTCTAATTAATATGACA
1 AAATATTTTTAACGAAATA-AGTGAAGAAGTGT-GCTATGAGAGTATTCTCTAATCAATATGACA
53785361 TTAA
64 TTAA
53785365 TTAACTTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
68 2 0.04
69 50 0.89
70 4 0.07
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.35
Consensus pattern (70 bp):
AAATATTTTTAACGAAATAAGTGAAGAAGTGTGCTATGAGAGTATTCTCTAATCAATATGACATT
AAAAT
Found at i:53787687 original size:25 final size:25
Alignment explanation
Indices: 53787659--53787709 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
53787649 AGATGCTAAG
53787659 TTAGTTTTCATGCGTGTGTTATTTA
1 TTAGTTTTCATGCGTGTGTTATTTA
53787684 TTAGTTTTCATGCGTGTGTTATTTA
1 TTAGTTTTCATGCGTGTGTTATTTA
53787709 T
1 T
53787710 ACCATGTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.16, C:0.08, G:0.20, T:0.57
Consensus pattern (25 bp):
TTAGTTTTCATGCGTGTGTTATTTA
Found at i:53788731 original size:48 final size:48
Alignment explanation
Indices: 53788658--53788928 Score: 303
Period size: 48 Copynumber: 5.6 Consensus size: 48
53788648 ATATGTCTGT
* * *
53788658 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATACGAGAGC
1 TAGTGTAAGACCATGTCTGGAACATGGCATCGGCCACGACATGAGAGC
* * * * * *
53788706 TAGTGTAGGACCATGTATGGAACATGGCATCGG-TATTGAGACGAGAGC
1 TAGTGTAAGACCATGTCTGGAACATGGCATCGGCCA-CGACATGAGAGC
* * *
53788754 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGC
1 TAGTGTAAGACCATGTCTGGAACATGGCATCGGCCACGACATGAGAGC
* * * * *
53788802 CAGTGTAAGACCATGTTTGGAACATGGCATC-GACATTGAGATGAGAGC
1 TAGTGTAAGACCATGTCTGGAACATGGCATCGGCCA-CGACATGAGAGC
* * * * *
53788850 TAGTGTAAGACCATGTCTGGGACATGGCATCTGCCTCTACATGTGAGC
1 TAGTGTAAGACCATGTCTGGAACATGGCATCGGCCACGACATGAGAGC
*
53788898 TAGTGTAAGACCATGTTTGGAACATGGCATC
1 TAGTGTAAGACCATGTCTGGAACATGGCATC
53788929 AGCAATTCAC
Statistics
Matches: 185, Mismatches: 34, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
47 3 0.02
48 180 0.97
49 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (48 bp):
TAGTGTAAGACCATGTCTGGAACATGGCATCGGCCACGACATGAGAGC
Found at i:53788823 original size:96 final size:96
Alignment explanation
Indices: 53788658--53788928 Score: 434
Period size: 96 Copynumber: 2.8 Consensus size: 96
53788648 ATATGTCTGT
* * * * * *
53788658 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATACGAGAGCTAGTGTAGGACCATGTA
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCTAGTGTAAGACCATGTT
**
53788723 TGGAACATGGCATCGGTATTGAGACGAGAGC
66 TGGAACATGGCATCGACATTGAGACGAGAGC
*
53788754 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGACCATGTT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCTAGTGTAAGACCATGTT
*
53788819 TGGAACATGGCATCGACATTGAGATGAGAGC
66 TGGAACATGGCATCGACATTGAGACGAGAGC
* *
53788850 TAGTGTAAGACCATGTCTGGGACATGGCATCTGCCTCTACATGTGAGCTAGTGTAAGACCATGTT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCTAGTGTAAGACCATGTT
53788915 TGGAACATGGCATC
66 TGGAACATGGCATC
53788929 AGCAATTCAC
Statistics
Matches: 162, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 162 1.00
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (96 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCTAGTGTAAGACCATGTT
TGGAACATGGCATCGACATTGAGACGAGAGC
Found at i:53788923 original size:144 final size:144
Alignment explanation
Indices: 53788659--53788928 Score: 355
Period size: 144 Copynumber: 1.9 Consensus size: 144
53788649 TATGTCTGTT
* * * *
53788659 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATACGAGAGCTAGTGTAGGACCATGTAT
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGACACGAGACGAGAGCTAGTGTAAGACCATGTAT
* * *
53788724 GGAACATGGCATCGGTATTGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCC
66 GGAACATGGCATCGGCATTGACACGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCC
53788789 TCGACATGTGAGCC
131 TCGACATGTGAGCC
* * * *
53788803 AGTGTAAGACCATGTTTGGAACATGGCATC-GACATTGAGATGAGAGCTAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGACA-CGAGACGAGAGCTAGTGTAAGACCATGTA
* * * * * *
53788867 TGGGACATGGCATCTGCCTCT-ACATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATC
65 TGGAACATGGCATCGGCAT-TGACACGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATC
53788929 AGCAATTCAC
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
143 3 0.03
144 103 0.96
145 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (144 bp):
AGTGTAAGACCATGTCTGGAACATGGCATCGGACACGAGACGAGAGCTAGTGTAAGACCATGTAT
GGAACATGGCATCGGCATTGACACGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCC
TCGACATGTGAGCC
Found at i:53790998 original size:79 final size:82
Alignment explanation
Indices: 53790882--53791066 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
53790872 ACGACTCGCT
** * *
53790882 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
53790945 GGGTTTAGTAACTT-GCA
65 GGATATAGTAACTTAGCA
* **
53790962 CAAATGCCTTCGGG-CTTAGCCCGGATT-TATTAACTCGCACGAATGCCTTCGGATCCTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCG
*
53791025 GATATAGTCACTTAGCA
66 GATATAGTAACTTAGCA
53791042 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
53791067 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCG
GATATAGTAACTTAGCA
Found at i:53791066 original size:40 final size:39
Alignment explanation
Indices: 53790875--53791066 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
53790865 GGATATAACG
* ** * *
53790875 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
53790915 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
53790955 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
53790994 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
53791034 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
53791067 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:53797519 original size:29 final size:29
Alignment explanation
Indices: 53797487--53797564 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
53797477 ATACCCTCCG
** *
53797487 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
53797516 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
53797545 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
53797565 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:53805686 original size:40 final size:40
Alignment explanation
Indices: 53805620--53805786 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
53805610 AAATTGAATG
* * *
53805620 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
53805659 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
53805699 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
53805739 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
53805779 ATATCCGG
1 ATATCCGG
53805787 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:53813697 original size:40 final size:40
Alignment explanation
Indices: 53813631--53813797 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
53813621 AAATTGAATG
* * *
53813631 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
53813670 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
53813710 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
53813750 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
53813790 ATATCCGG
1 ATATCCGG
53813798 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Done.