Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 176 of 328
Found at i:52087091 original size:24 final size:24
Alignment explanation
Indices: 52087055--52087216 Score: 89
Period size: 24 Copynumber: 6.8 Consensus size: 24
52087045 GAGCCAACAT
* *
52087055 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * *
52087079 TGGCACTATGTGTGCGAAATCGAT
1 TGGCACTATGTGTGCGAATTTGAA
* *
52087103 TGGCACTATGTATGCTG-GTTTGAA
1 TGGCACTATGTGTGC-GAATTTGAA
* * ** * * *
52087127 TGTCAATAAATGAGTGAATTTCCAA
1 TGGCACTATGTGTGCGAATTT-GAA
* * *
52087152 -AGAACTATGTGTGCTG--TTTAGCA
1 TGGCACTATGTGTGC-GAATTT-GAA
*
52087175 TGGCACTATGTGTGCGAATTTGAT
1 TGGCACTATGTGTGCGAATTTGAA
*
52087199 TAGCACTATGTGTGCGAA
1 TGGCACTATGTGTGCGAA
52087217 ATCGGTTGAG
Statistics
Matches: 96, Mismatches: 35, Indels: 14
0.66 0.24 0.10
Matches are distributed among these distances:
23 6 0.06
24 83 0.86
25 7 0.07
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.33
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:52087830 original size:2 final size:2
Alignment explanation
Indices: 52087823--52087857 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
52087813 ATGAATGATG
* *
52087823 TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
52087858 GTTTGAGGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:52090399 original size:37 final size:37
Alignment explanation
Indices: 52090349--52090426 Score: 147
Period size: 37 Copynumber: 2.1 Consensus size: 37
52090339 TATAAAAGAA
*
52090349 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAACCTCCACACGTAGTCATCGG
52090386 GTCTTACCCGGTCATAACCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAACCTCCACACGTAGTCATCGG
52090423 GTCT
1 GTCT
52090427 CGCCCGGAAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.21, C:0.33, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGTCATAACCTCCACACGTAGTCATCGG
Found at i:52090589 original size:49 final size:49
Alignment explanation
Indices: 52090529--52090651 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
52090519 CATATATTTT
*
52090529 ACATTGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
52090578 ACATCGGCCATTAGGCCTCATCACATATACGTACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
52090627 ACATCGGCCATTAGGCCTTATCACA
1 ACATCGGCCATTAGGCCTCATCACA
52090652 CATATATGTA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.29, C:0.33, G:0.11, T:0.27
Consensus pattern (49 bp):
ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
Found at i:52097032 original size:46 final size:45
Alignment explanation
Indices: 52096982--52097157 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
52096972 TGTTTGGGCA
52096982 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
52097028 TCCGAACTAGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
52097075 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
52097121 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52097158 GCGGGTTATA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:52097137 original size:93 final size:93
Alignment explanation
Indices: 52096978--52097149 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
52096968 AGGATGTTTG
* *
52096978 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTAGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTAGTTGAG
52097043 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
52097071 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTAGTTGAG
*
52097136 TTGAGTTCGAGTTC
66 TTGAGTCCGAGTTC
52097150 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTAGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:52100360 original size:24 final size:24
Alignment explanation
Indices: 52100324--52100485 Score: 87
Period size: 24 Copynumber: 6.8 Consensus size: 24
52100314 GAGCCAACAT
* *
52100324 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * *
52100348 TGGCACTATGTGTGCGAAATCGAT
1 TGGCACTATGTGTGCGAATTTGAA
* *
52100372 TGGCACTATGTATGCTG-GTTTGAA
1 TGGCACTATGTGTGC-GAATTTGAA
* * ** * * *
52100396 TGTCAATAAATGAGTGAATTTCCAA
1 TGGCACTATGTGTGCGAATTT-GAA
* * * * *
52100421 -AGAAATATGTGTGCG-GTTTAGCA
1 TGGCACTATGTGTGCGAATTT-GAA
*
52100444 TGGCACTATGTGTGCGAATTTGAT
1 TGGCACTATGTGTGCGAATTTGAA
*
52100468 TAGCACTATGTGTGCGAA
1 TGGCACTATGTGTGCGAA
52100486 ATCGGTTGAG
Statistics
Matches: 96, Mismatches: 37, Indels: 10
0.67 0.26 0.07
Matches are distributed among these distances:
23 5 0.05
24 85 0.89
25 6 0.06
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:52102810 original size:18 final size:18
Alignment explanation
Indices: 52102787--52102821 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
52102777 ACGATGTGCC
52102787 AAACTATTTTCGTGCTTG
1 AAACTATTTTCGTGCTTG
52102805 AAACTATTTTCGTGCTT
1 AAACTATTTTCGTGCTT
52102822 CTTATTCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.46
Consensus pattern (18 bp):
AAACTATTTTCGTGCTTG
Found at i:52103871 original size:24 final size:24
Alignment explanation
Indices: 52103821--52103865 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
52103811 TCTTTGTAAA
* *
52103821 TTTAGTCTTTAGTTTTACTTTTCT
1 TTTAGGCTTTAGGTTTACTTTTCT
52103845 TTTAGGCTTTAGGTTTA-TTTT
1 TTTAGGCTTTAGGTTTACTTTT
52103866 AGTTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.13, C:0.09, G:0.13, T:0.64
Consensus pattern (24 bp):
TTTAGGCTTTAGGTTTACTTTTCT
Found at i:52115589 original size:200 final size:199
Alignment explanation
Indices: 52115240--52115638 Score: 744
Period size: 200 Copynumber: 2.0 Consensus size: 199
52115230 AAAAGTGAAA
52115240 ATGTAAAGAAATGATGGTATCTACGATTACTTGAGTCGAGCAAAATTTAAGGATGAAATTCTTTT
1 ATGTAAAGAAATGATGGTATCTACGATTACTTGAGTCGAGCAAAATTTAAGGATGAAATTCTTTT
52115305 AAGAAGGGAGAAATGTAACATCCCTAAAACCACTATGGTATATAAGTGAAGAGTTATATCAAGAA
66 AAGAAGGGAGAAATGTAACATCCCTAAAACCACTATGGTATATAAGTGAAGAGTTATATCAAGAA
52115370 GATGCATAGTGGAATTTCTCAATTAAAAGAAATGTAATATATTAGTTATAGTAAAGAAAGGTATT
131 GATGCATAGTGGAATTTCTCAATTAAAAG-AATGTAATATATTAGTTATAGTAAAGAAAGGTATT
52115435 TGATG
195 TGATG
* * *
52115440 ATGTAAAGAAATGATGGTATCTATGATTACTTGAGTCGAGCAAATTTTGAGGATGAAATTCTTTT
1 ATGTAAAGAAATGATGGTATCTACGATTACTTGAGTCGAGCAAAATTTAAGGATGAAATTCTTTT
*
52115505 AAGAAGGGAGAAATGTAACATCCCTAAAACTACTATGGTATATAAGTGAAGAGTTATATCAAGAA
66 AAGAAGGGAGAAATGTAACATCCCTAAAACCACTATGGTATATAAGTGAAGAGTTATATCAAGAA
*
52115570 GATGCATAGTGGGATTTCTCAATTAAAAGAATGTAATATATTAGTTATAGTAAAGAAAGGTATTT
131 GATGCATAGTGGAATTTCTCAATTAAAAGAATGTAATATATTAGTTATAGTAAAGAAAGGTATTT
52115635 GATG
196 GATG
52115639 CTGGAGAAAG
Statistics
Matches: 194, Mismatches: 5, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
199 40 0.21
200 154 0.79
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.31
Consensus pattern (199 bp):
ATGTAAAGAAATGATGGTATCTACGATTACTTGAGTCGAGCAAAATTTAAGGATGAAATTCTTTT
AAGAAGGGAGAAATGTAACATCCCTAAAACCACTATGGTATATAAGTGAAGAGTTATATCAAGAA
GATGCATAGTGGAATTTCTCAATTAAAAGAATGTAATATATTAGTTATAGTAAAGAAAGGTATTT
GATG
Found at i:52117901 original size:29 final size:28
Alignment explanation
Indices: 52117836--52117903 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
52117826 TTTAATTTCA
* * *
52117836 ACAC-CCGTGTGTCACACACGGCTGTGT
1 ACACGCCGTGTGTCACACACGACTGAGC
*
52117863 ACATGACCGTGTGTCACACACGACTGAGAC
1 ACACG-CCGTGTGTCACACACGACTGAG-C
52117893 ACACGCCGTGT
1 ACACGCCGTGT
52117904 CTCTGCCCGT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
27 3 0.09
29 26 0.79
30 4 0.12
ACGTcount: A:0.24, C:0.32, G:0.25, T:0.19
Consensus pattern (28 bp):
ACACGCCGTGTGTCACACACGACTGAGC
Found at i:52131256 original size:40 final size:40
Alignment explanation
Indices: 52131201--52131342 Score: 239
Period size: 40 Copynumber: 3.5 Consensus size: 40
52131191 GATGATAACT
52131201 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCC
52131241 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCC
* * ***
52131281 GGGCTAAGTCCCGAAGGCATTTGTGTGAGCTACTAAAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCC
52131321 GGGCTAAGTCCCGAAGGCATTT
1 GGGCTAAGTCCCGAAGGCATTT
52131343 AAGCGAGTAG
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCC
Found at i:52131362 original size:80 final size:80
Alignment explanation
Indices: 52131201--52131362 Score: 236
Period size: 80 Copynumber: 2.0 Consensus size: 80
52131191 GATGATAACT
* *** **
52131201 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAAACCGGGCTAAGTCCCGAAGGCATTTAAG
*
52131266 CGAGTTACTATTTCC
66 CGAGTTACTATATCC
*
52131281 GGGCTAAGTCCCGAAGGCATTTGTGTGAGCTACTAAAACCGGGCTAAGTCCCGAAGGCATTTAAG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAAACCGGGCTAAGTCCCGAAGGCATTTAAG
52131346 CGAG-TAGCTATATCC
66 CGAGTTA-CTATATCC
52131361 GG
1 GG
52131363 AAAAACCCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 2 0.03
80 71 0.97
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAAACCGGGCTAAGTCCCGAAGGCATTTAAG
CGAGTTACTATATCC
Found at i:52139036 original size:40 final size:40
Alignment explanation
Indices: 52138939--52139115 Score: 178
Period size: 40 Copynumber: 4.5 Consensus size: 40
52138929 TCGAATGTAT
* * * *
52138939 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGA-CTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAA
* * *
52138979 TCGGTC-AATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
52139018 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * * * * *
52139058 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
*
52139098 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
52139116 ACAATCGAGC
Statistics
Matches: 113, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
38 4 0.04
39 26 0.23
40 83 0.73
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:52139100 original size:80 final size:79
Alignment explanation
Indices: 52138939--52139115 Score: 230
Period size: 80 Copynumber: 2.2 Consensus size: 79
52138929 TCGAATGTAT
* * *
52138939 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCGGTCAATTCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCGGGCAATTCCCGAAGGCAATTGT
* *
52139004 GCGAGTTACCAAAA
66 GCGAATCACCAAAA
* * *
52139018 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAAT-CGGGC-AATTCCCGAAGGCAATT
* *
52139082 GTGCGAATCACTATAA
64 GTGCGAATCACCAAAA
*
52139098 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
52139116 ACAATCGAGC
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
78 10 0.12
79 30 0.36
80 44 0.52
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCGGGCAATTCCCGAAGGCAATTGT
GCGAATCACCAAAA
Found at i:52139136 original size:40 final size:40
Alignment explanation
Indices: 52139058--52139141 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
52139048 GTTACTAAAT
* * *
52139058 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
52139098 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
52139138 CCGG
1 CCGG
52139142 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:52139150 original size:80 final size:80
Alignment explanation
Indices: 52138973--52139141 Score: 189
Period size: 80 Copynumber: 2.1 Consensus size: 80
52138963 GTGCTAAGTG
* * * * *
52138973 ACTAAAT-CGGTC-AATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
* * * * *
52139036 GCATTTGTGCGAGTT
66 ACAATCGAGCGAGTC
* * *
52139051 ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
52139116 ACAATCGAGCGAGTC
66 ACAATCGAGCGAGTC
* *
52139131 GCTATATCCGG
1 ACTAAATCCGG
52139142 TTAAATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
78 7 0.09
79 4 0.05
80 63 0.85
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (80 bp):
ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
ACAATCGAGCGAGTC
Found at i:52146946 original size:40 final size:40
Alignment explanation
Indices: 52146850--52147028 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
52146840 CGAATGGTAT
* * * *
52146850 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
52146891 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
52146931 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
52146971 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
52147011 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
52147029 ACAATCGAGC
Statistics
Matches: 118, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
40 93 0.79
41 25 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:52146991 original size:80 final size:81
Alignment explanation
Indices: 52146850--52147028 Score: 245
Period size: 80 Copynumber: 2.2 Consensus size: 81
52146840 CGAATGGTAT
* *
52146850 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
52146915 GTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAA
* * *
52146931 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* *
52146994 TGTGCGAATCACTATAA
65 TGTGCGAATCACCAAAA
*
52147011 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
52147029 ACAATCGAGC
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
79 1 0.01
80 59 0.69
81 26 0.30
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAA
Found at i:52147041 original size:80 final size:80
Alignment explanation
Indices: 52146884--52147068 Score: 203
Period size: 80 Copynumber: 2.3 Consensus size: 80
52146874 GTGCTAAGTG
* * * *
52146884 ACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
* * * *
52146949 GCATTTGTGCGAGTT
66 ACAATCGAGCGAGTT
* * *
52146964 ACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTC-AATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAA
*
52147028 GACAATCGAGCGAGTC
65 GACAATCGAGCGAGTT
* * * *
52147044 GCTATATCCGGTTAAATT-CCGAAGG
1 ACTAAATCCGGGTCAATTCCCGAAGG
52147069 TACGTGATTC
Statistics
Matches: 87, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
79 8 0.09
80 79 0.91
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (80 bp):
ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
ACAATCGAGCGAGTT
Found at i:52147049 original size:40 final size:40
Alignment explanation
Indices: 52146971--52147054 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
52146961 GTTACTAAAT
* * *
52146971 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
52147011 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
52147051 CCGG
1 CCGG
52147055 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:52152542 original size:47 final size:49
Alignment explanation
Indices: 52152469--52152695 Score: 226
Period size: 47 Copynumber: 4.8 Consensus size: 49
52152459 GGTAAGTTGC
*
52152469 CGATGCCATGTCCCAGACATGATCTTACACTGGCTCAT-ATCTC-AAAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAAT
* * * * **
52152516 CAATGCCATGTCCCAGACATGGTCTTACAGTGACT-ATCATCTCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAAT
* * * **
52152564 CGATG-CATGTCCTAGACAT-GTCTTACACTGGCTTA-CGTCTCGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAAT
* *
52152610 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTC--AAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAAT
52152654 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCAT
1 -C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT
52152696 AATGTGGCCG
Statistics
Matches: 150, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 62 0.41
47 64 0.43
48 22 0.15
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAAT
Found at i:52152605 original size:46 final size:47
Alignment explanation
Indices: 52152467--52152745 Score: 209
Period size: 46 Copynumber: 6.0 Consensus size: 47
52152457 TGGGTAAGTT
* *
52152467 GCCGATGCCATGTCCCAGACATGATCTTACACTGGCTCATATCTCAA-
1 GCCGATGCCATGTCCCAGACATG-TCTTACACTGGCTTACATCTCAAG
** * * * *
52152514 ATCAATGCCATGTCCCAGACATGGTCTTACAGTGAC-TATCATCTCGTA-
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTTA-CATCTC-AAG
* * *
52152562 GCCGATG-CATGTCCTAGACATGTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAG
* * * *
52152608 GTCGATG-CATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCAAG
* * **
52152654 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTG
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCAAG
* * * *
52152702 GCCGATG-CATATCCCAGATATGTCTTACACTAGCTCACA-CTCAA
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAA
52152746 ATGACCGAAA
Statistics
Matches: 184, Mismatches: 37, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 76 0.41
47 76 0.41
48 29 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAG
Found at i:52152727 original size:140 final size:141
Alignment explanation
Indices: 52152469--52152732 Score: 358
Period size: 140 Copynumber: 1.9 Consensus size: 141
52152459 GGTAAGTTGC
*
52152469 CGATGCCATGTCCCAGACATGATCTTACACTGGCTCATATCTCAAATCAATGCCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGATCTTACACTAGCTCATATCTCAAATCAATGCCATGTCCCAGAC
* * * *
52152534 ATGGTCTTACAGTGACTATCATCTCGTAGCCGATGCATGTCCTAGACATGTCTTACACTGGCTTA
66 ATGGTCTTACACTGACTATCATATCGTAGCCGATGCATATCCCAGACATGTCTTACACTGGCTTA
52152599 CGTCTCGAGGT
131 CGTCTCGAGGT
* *
52152610 CGATG-CATGTCCCAGACATG-TCTTACACTAGCTC-TCGTCTC-AATGCTGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGATCTTACACTAGCTCAT-ATCTCAAAT-C-AATGCCATGTCCCA
* * * *
52152671 GACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCATATCCCAGATATGTCTTACACT
63 GACATGGTCTTACACTGACTATCAT-ATCGTAGCCGATGCATATCCCAGACATGTCTTACACT
52152733 AGCTCACACT
Statistics
Matches: 108, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
138 4 0.04
139 18 0.17
140 80 0.74
141 6 0.06
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (141 bp):
CGATGCCATGTCCCAGACATGATCTTACACTAGCTCATATCTCAAATCAATGCCATGTCCCAGAC
ATGGTCTTACACTGACTATCATATCGTAGCCGATGCATATCCCAGACATGTCTTACACTGGCTTA
CGTCTCGAGGT
Found at i:52171625 original size:40 final size:40
Alignment explanation
Indices: 52171565--52171669 Score: 140
Period size: 40 Copynumber: 2.6 Consensus size: 40
52171555 CATTTGAATG
* * *
52171565 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTG-TT
* * *
52171605 ATGTTCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTT
52171645 ATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
52171670 ATTGTGCAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 54 0.96
41 2 0.04
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTT
Found at i:52171699 original size:40 final size:40
Alignment explanation
Indices: 52171610--52171716 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
52171600 TGATTATGTT
* *** *
52171610 CGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATATC
1 CGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTACCAAATC
52171650 CGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAATC
1 CGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAATC
* *
52171690 TGGGTTAAGACCCGAAGGCAATTGTGC
1 CGGGCTAAGACCCGAAGGCAATTGTGC
52171717 TTGTGGTTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 56 0.95
41 3 0.05
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.21
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAATC
Found at i:52173684 original size:29 final size:29
Alignment explanation
Indices: 52173622--52173724 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
52173612 GTGACGAGAT
* * *
52173622 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
52173651 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
52173680 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
52173709 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
52173725 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:52178115 original size:39 final size:39
Alignment explanation
Indices: 52178046--52178150 Score: 183
Period size: 39 Copynumber: 2.7 Consensus size: 39
52178036 CCGCACAAAG
*
52178046 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
*
52178086 GCCTTCGGGCTTAGCCCGGGTATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
52178125 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
52178151 TCGAACATTC
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
39 53 0.85
40 9 0.15
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:52186136 original size:38 final size:39
Alignment explanation
Indices: 52186023--52186165 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
52186013 CCGCACAAAG
*
52186023 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
52186063 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
52186102 GCCTTCGGGCTTAGCCCGG-TATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
52186140 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
52186166 TCGAACATTC
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:52186144 original size:77 final size:79
Alignment explanation
Indices: 52185983--52186164 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
52185973 TCGTTCAAAC
* * **
52185983 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
52186048 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
52186063 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGG-TATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
52186126 CAATTTGCACAATT
66 CAATTTGCACAATT
52186140 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
52186165 CTCGAACATT
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:52195290 original size:40 final size:40
Alignment explanation
Indices: 52195231--52195335 Score: 131
Period size: 40 Copynumber: 2.6 Consensus size: 40
52195221 CATTTGAATG
* * *
52195231 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTG-TT
* * *
52195271 ATGTCCGGGCTAAGACCCGAATGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTT
*
52195311 ATATCCGGGCAAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
52195336 ATTGTGCAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 53 0.96
41 2 0.04
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTT
Found at i:52201918 original size:26 final size:26
Alignment explanation
Indices: 52201889--52201940 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
52201879 CATATTCGGC
52201889 CATAACAA-ATATAAATTCTAACATTT
1 CATAACAACATATAAATT-TAACATTT
*
52201915 CATAACAACATATATATTTAACATTT
1 CATAACAACATATAAATTTAACATTT
52201941 AACTACTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (26 bp):
CATAACAACATATAAATTTAACATTT
Found at i:52207056 original size:40 final size:40
Alignment explanation
Indices: 52206997--52207165 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
52206987 CGGGACTTTA
* * *
52206997 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
52207037 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
52207077 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
52207117 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
52207157 CCCGGATAT
1 CCCGGATAT
52207166 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:52215091 original size:40 final size:40
Alignment explanation
Indices: 52215032--52215200 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
52215022 CGGGACTTTA
* * *
52215032 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
52215072 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
52215112 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
52215152 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
52215192 CCCGGATAT
1 CCCGGATAT
52215201 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:52217324 original size:27 final size:26
Alignment explanation
Indices: 52217294--52217356 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
52217284 ATTTACTAAA
*
52217294 ATACCCCTAAGTATG-AAAATTACCTTT
1 ATACCCCT-AG-ATGCAAAATTACCATT
*
52217321 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAGATGCAAAATTACCATT
*
52217347 ATACCTCTAG
1 ATACCCCTAG
52217357 GGATAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.06
26 22 0.69
27 8 0.25
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCATT
Found at i:52217506 original size:27 final size:28
Alignment explanation
Indices: 52217465--52217568 Score: 97
Period size: 27 Copynumber: 3.8 Consensus size: 28
52217455 AAGCGTTCTG
* *
52217465 GTGGCTTTGCTACAAATATCTA-ATCTA
1 GTGGCTCTGCCACAAATATCTATATCTA
* *
52217492 GTGGCTCTGCCACAAATATCTATTTCTG
1 GTGGCTCTGCCACAAATATCTATATCTA
* * *
52217520 GTGGCTCTGCCA-TAATATCTGTATCTG
1 GTGGCTCTGCCACAAATATCTATATCTA
* * *
52217547 GTGACTCTGTCA-TAATATCTAT
1 GTGGCTCTGCCACAAATATCTAT
52217569 TCTGGAAGCC
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
27 51 0.77
28 15 0.23
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (28 bp):
GTGGCTCTGCCACAAATATCTATATCTA
Found at i:52217555 original size:55 final size:52
Alignment explanation
Indices: 52217460--52217573 Score: 122
Period size: 55 Copynumber: 2.1 Consensus size: 52
52217450 GGAGGAAGCG
* *
52217460 TTCTGGTGGCTTTGCTACAAATATCTAATCTAGTGGCTCTGCCACAAATATCTA
1 TTCTGGTGGCTCTGC-ACAAATATCTAATCTAGTGACTCTGCCA-AAATATCTA
* * * *
52217514 TTTCTGGTGGCTCTGC-CATAATATCTGTATCTGGTGACTCTGTCATAATATCTA
1 -TTCTGGTGGCTCTGCACA-AATATCT-AATCTAGTGACTCTGCCAAAATATCTA
52217568 TTCTGG
1 TTCTGG
52217574 AAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
53 8 0.16
54 15 0.29
55 28 0.55
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (52 bp):
TTCTGGTGGCTCTGCACAAATATCTAATCTAGTGACTCTGCCAAAATATCTA
Found at i:52225549 original size:77 final size:77
Alignment explanation
Indices: 52225457--52225683 Score: 368
Period size: 77 Copynumber: 2.9 Consensus size: 77
52225447 TATGGTAACC
* * * *
52225457 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACCATTGCCTTCGGGCTTA-CC
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAATTCGCACAATTGCCTTCGGGCTTACCC
52225521 GGATATCATAGCT
65 GGATATCATAGCT
*
52225534 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTGCCTTC-GGCTTAGCCC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTGCCTTCGGGCTTA-CCC
52225598 GGATATCATAGCT
65 GGATATCATAGCT
52225611 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTGCCTTCGGGCTTAGCCC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTGCCTTCGGGCTTA-CCC
52225676 GGATATCA
65 GGATATCA
52225684 CTCGAACATT
Statistics
Matches: 141, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
75 6 0.04
76 33 0.23
77 84 0.60
78 18 0.13
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (77 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTGCCTTCGGGCTTACCCG
GATATCATAGCT
Found at i:52225578 original size:39 final size:39
Alignment explanation
Indices: 52225457--52225684 Score: 329
Period size: 39 Copynumber: 5.9 Consensus size: 39
52225447 TATGGTAACC
* * *
52225457 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAATT
* * *
52225497 CGCACCATTGCCTTCGGGCTTA--CCGGATATCATAGCTT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACA-ATT
52225535 -GCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
* **
52225573 CGCACAATTGCCTTC-GGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
52225611 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
52225650 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
52225685 TCGAACATTC
Statistics
Matches: 169, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
37 31 0.18
38 38 0.22
39 84 0.50
40 16 0.09
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
Found at i:52225661 original size:116 final size:116
Alignment explanation
Indices: 52225457--52225684 Score: 345
Period size: 116 Copynumber: 2.0 Consensus size: 116
52225447 TATGGTAACC
*
52225457 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACCATTGCCTTCGGGCTTACCG
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTACCG
* *
52225522 GATATCATAGCTTGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
66 GATATCACAGATTGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
* * * *
52225573 CGCACAATTGCCTTC-GG-CTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTA--C
52225636 CGGATATCACA-ATTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
64 CGGATATCACAGATT-GCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
52225685 TCGAACATTC
Statistics
Matches: 102, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
114 39 0.38
115 4 0.04
116 59 0.58
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.25
Consensus pattern (116 bp):
CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTACCG
GATATCACAGATTGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
Found at i:52232934 original size:90 final size:90
Alignment explanation
Indices: 52232781--52232954 Score: 303
Period size: 90 Copynumber: 1.9 Consensus size: 90
52232771 ATGGATAGCC
* * *
52232781 TAATTTTCGTCAAGTCATACAAGTGATCATCTCAAGTATGCACTTCCGTGAACCTTATATCTTAC
1 TAATTTTCGTCAAGTCATACAAGTGACCATCTCAAGTACGCACTCCCGTGAACCTTATATCTTAC
52232846 GGCGGGATTACCAGTCCAGAGGATT
66 GGCGGGATTACCAGTCCAGAGGATT
* *
52232871 TAATTTTCTTCAAGTCATACAAGTGACCATCTCAAGTACGCACTCCCGTGAACCTTATATCTTAT
1 TAATTTTCGTCAAGTCATACAAGTGACCATCTCAAGTACGCACTCCCGTGAACCTTATATCTTAC
52232936 GGCGGGATTACCAGTCCAG
66 GGCGGGATTACCAGTCCAG
52232955 GCTAAATCCC
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 79 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (90 bp):
TAATTTTCGTCAAGTCATACAAGTGACCATCTCAAGTACGCACTCCCGTGAACCTTATATCTTAC
GGCGGGATTACCAGTCCAGAGGATT
Found at i:52241876 original size:40 final size:40
Alignment explanation
Indices: 52241823--52242127 Score: 524
Period size: 40 Copynumber: 7.6 Consensus size: 40
52241813 ACTACTTGCT
*
52241823 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
52241863 CAAATACCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
52241903 CAAATGCCTTTGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
52241943 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
52241983 CAAATGCAC-TCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGC-CTTCGGGACTTAGCCCGGATATAGTAACTCGCA
52242023 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
52242063 CAAATGCCTTCGGGACTTAGCCCAGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
52242103 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
52242128 TTATCATCCG
Statistics
Matches: 253, Mismatches: 9, Indels: 6
0.94 0.03 0.02
Matches are distributed among these distances:
39 2 0.01
40 250 0.99
41 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:52251031 original size:28 final size:29
Alignment explanation
Indices: 52250999--52251097 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
52250989 GCAATAAGCC
*
52250999 CGCACACTTAGTGCTTA-ATAGTCAAACT
1 CGCACACTTAGTGCTTATATAATCAAACT
52251027 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTATATAATCAAACT
* * ** *
52251055 TGCACACTTAGTGCTGTATA-ATTTGAACC
1 CGCACACTTAGTGCT-TATATAATCAAACT
52251084 CGCACACTTAGTGC
1 CGCACACTTAGTGC
52251098 CAATTTGTGA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 18 0.30
30 4 0.07
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTTATATAATCAAACT
Found at i:52255220 original size:71 final size:71
Alignment explanation
Indices: 52255057--52255220 Score: 301
Period size: 71 Copynumber: 2.3 Consensus size: 71
52255047 CGATTTGTCT
*
52255057 CGTAGCTCTCTTGTCTACATGATGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
52255122 CTTTCA
66 CTTTCA
* *
52255128 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
52255193 CTTTCA
66 CTTTCA
52255199 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
52255221 GATACATCTC
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 90 1.00
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:52255258 original size:71 final size:70
Alignment explanation
Indices: 52255057--52255254 Score: 240
Period size: 71 Copynumber: 2.8 Consensus size: 70
52255047 CGATTTGTCT
* * * * * *
52255057 CGTAGCTCTCTTGTCTACATGATGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
52255122 CTTTCA
65 CTTTCA
* * * *
52255128 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
52255193 CTTTCA
65 CTTTCA
* *
52255199 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
52255255 TACAGGGTGT
Statistics
Matches: 117, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 93 0.79
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:52258715 original size:40 final size:39
Alignment explanation
Indices: 52258671--52258840 Score: 155
Period size: 40 Copynumber: 4.2 Consensus size: 39
52258661 GCTCGATTGT
* * *
52258671 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
52258711 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
52258751 CTTCGGGACTTAACCCGGTTTTGGTAACTCACACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * * *
52258791 CTTCGGGA-ATTGACCCTGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCC-GGTTTAGTAAC-TCGCACAAATGC
52258832 CTTCGGGAC
1 CTTCGGGAC
52258841 TTACCCCTGA
Statistics
Matches: 106, Mismatches: 17, Indels: 12
0.79 0.13 0.09
Matches are distributed among these distances:
39 2 0.02
40 84 0.79
41 20 0.19
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:52258769 original size:80 final size:81
Alignment explanation
Indices: 52258671--52258843 Score: 215
Period size: 80 Copynumber: 2.1 Consensus size: 81
52258661 GCTCGATTGT
* * * * * *
52258671 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAG
1 CTTCGGGACTTAACCCGGTTATAGTAACTCACACAAATGCCTTCGGGAATTGA-CCCGGATTTAG
* *
52258735 TAAC-TCGCACAAATGC
65 TAACTTAGCACAAAAGC
* * *
52258751 CTTCGGGACTTAACCCGGTTTTGGTAACTCACACAAATGCCTTCGGGAATTGACCCTGATTTAGT
1 CTTCGGGACTTAACCCGGTTATAGTAACTCACACAAATGCCTTCGGGAATTGACCCGGATTTAGT
*
52258816 CACTTAGCACAAAAGC
66 AACTTAGCACAAAAGC
52258832 CTTCGGGACTTA
1 CTTCGGGACTTA
52258844 CCCCTGATAC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
80 56 0.71
81 23 0.29
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (81 bp):
CTTCGGGACTTAACCCGGTTATAGTAACTCACACAAATGCCTTCGGGAATTGACCCGGATTTAGT
AACTTAGCACAAAAGC
Found at i:52258851 original size:41 final size:40
Alignment explanation
Indices: 52258701--52258846 Score: 161
Period size: 40 Copynumber: 3.6 Consensus size: 40
52258691 ATAGTGATTC
* *
52258701 GCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAAC-TC
1 GCACAAATGCCTTCGGGAATTA-CCCGGATTTAGTAACTTA
* * * *
52258741 GCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCA
1 GCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAACTTA
* *
52258782 -CACAAATGCCTTCGGGAATTGACCCTGATTTAGTCACTTA
1 GCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAACTTA
* *
52258822 GCACAAAAGCCTTCGGGACTTACCC
1 GCACAAATGCCTTCGGGAATTACCC
52258847 CTGATACCAT
Statistics
Matches: 88, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
40 69 0.78
41 19 0.22
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGAATTACCCGGATTTAGTAACTTA
Found at i:52262203 original size:30 final size:30
Alignment explanation
Indices: 52262167--52262326 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
52262157 GACAAGATTG
* * * * *
52262167 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
52262197 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
52262225 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
52262254 GCACTAAGTGTGCAAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
52262284 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
52262313 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
52262327 GATTCACTAT
Statistics
Matches: 118, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.19
29 48 0.41
30 44 0.37
31 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:52270032 original size:22 final size:22
Alignment explanation
Indices: 52270007--52270049 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
52269997 CAGGAATTGT
52270007 TAGGCCACATATTCAAGCTCAG
1 TAGGCCACATATTCAAGCTCAG
52270029 TAGGCCACATATTCAAGCTCA
1 TAGGCCACATATTCAAGCTCA
52270050 ACACTTAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (22 bp):
TAGGCCACATATTCAAGCTCAG
Found at i:52271798 original size:40 final size:41
Alignment explanation
Indices: 52271745--52271871 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 41
52271735 CTGGAAATTA
* *
52271745 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGT--CATAC
* *
52271786 -ATCTGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCATAC
*
52271825 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCATAC
52271865 TATCCGG
1 TATCCGG
52271872 TTATATTCCG
Statistics
Matches: 78, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
38 1 0.01
39 5 0.06
40 72 0.92
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (41 bp):
TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCATAC
Found at i:52275598 original size:40 final size:40
Alignment explanation
Indices: 52275554--52275662 Score: 202
Period size: 40 Copynumber: 2.8 Consensus size: 40
52275544 TAGTGGCTAC
52275554 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCT
52275594 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCT
*
52275634 ATCCGGGCTAAGA-CCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGC
52275663 ACGTGGTTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
39 15 0.22
40 53 0.78
ACGTcount: A:0.23, C:0.27, G:0.28, T:0.22
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCT
Found at i:52283127 original size:29 final size:28
Alignment explanation
Indices: 52283044--52283146 Score: 109
Period size: 28 Copynumber: 3.6 Consensus size: 28
52283034 AATATGTTTA
* *
52283044 GGCCTAATGGGCCATATAAATGGGATTG
1 GGCCTAATGGGCCATATGAATGAGATTG
* * *
52283072 GGCCTAACGGGCCATACGATTATGA-TTTG
1 GGCCTAATGGGCCATATGA--ATGAGATTG
*
52283101 GGCCTAATAGGCCATATGAATGAGATTG
1 GGCCTAATGGGCCATATGAATGAGATTG
**
52283129 GGCCTGGTGGGCCATATG
1 GGCCTAATGGGCCATATG
52283147 CATGTATGTA
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
27 4 0.07
28 34 0.57
29 19 0.32
30 3 0.05
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.25
Consensus pattern (28 bp):
GGCCTAATGGGCCATATGAATGAGATTG
Found at i:52287377 original size:39 final size:40
Alignment explanation
Indices: 52287277--52287457 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
52287267 TCGAATGATG
* * *
52287277 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
52287317 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
52287357 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * *
52287395 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
52287436 -CC-GGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
52287458 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
38 22 0.19
39 40 0.34
40 46 0.39
41 9 0.08
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:52287422 original size:78 final size:80
Alignment explanation
Indices: 52287277--52287457 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
52287267 TCGAATGATG
* * * *
52287277 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
52287342 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
52287357 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
* *
52287419 CGTGCGAGTCACTATAA
65 CGTGCGAGTTAATA-AA
**
52287436 -CC-GGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
52287458 TGAGCGAGTC
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
77 6 0.07
78 53 0.61
79 17 0.20
80 11 0.13
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:52298040 original size:29 final size:29
Alignment explanation
Indices: 52297939--52298039 Score: 125
Period size: 29 Copynumber: 3.5 Consensus size: 29
52297929 GTGACGAGAT
52297939 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
52297968 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* * * ***
52297997 CGGCACT-GGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
52298025 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
52298040 GGGTTTAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
28 20 0.32
29 42 0.68
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:52298096 original size:28 final size:28
Alignment explanation
Indices: 52298027--52298127 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
52298017 GAAGGGTATG
* * * *
52298027 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
52298057 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
52298085 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
52298114 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
52298128 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:52305933 original size:29 final size:29
Alignment explanation
Indices: 52305831--52305932 Score: 125
Period size: 29 Copynumber: 3.5 Consensus size: 29
52305821 GTGACGAGAT
52305831 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
52305860 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
52305889 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
52305918 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
52305933 GGGTTTAAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 61 0.98
30 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:52305989 original size:28 final size:28
Alignment explanation
Indices: 52305920--52306020 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
52305910 GAAGGGTATG
* * * *
52305920 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
52305950 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
52305978 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
52306007 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
52306021 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:52308463 original size:27 final size:27
Alignment explanation
Indices: 52308081--52308452 Score: 448
Period size: 27 Copynumber: 13.8 Consensus size: 27
52308071 GGGTATTTTA
* * *
52308081 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
52308108 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
52308135 GTAATTCTATAAATCGAGGGT-AAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
52308161 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
52308188 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
52308215 ATAATTATGTAAATC-AGGGGTAAAACG
1 GTAATTCTATAAATCGA-GGGTAAAACG
* * *
52308242 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTATAAATCGA-GGGTAAAACG
**
52308269 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
52308296 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTATAAATC-GAGGGTAAAACG
* **
52308323 GTAATTCTATAAATTGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
52308350 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTATAAATC-GAGGGTAAAACG
*
52308377 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
52308404 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
52308431 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
52308453 CTTTGGTAAT
Statistics
Matches: 303, Mismatches: 34, Indels: 16
0.86 0.10 0.05
Matches are distributed among these distances:
26 25 0.08
27 276 0.91
28 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:52308474 original size:27 final size:27
Alignment explanation
Indices: 52308403--52308680 Score: 242
Period size: 27 Copynumber: 10.3 Consensus size: 27
52308393 AGGGTAAAAC
****
52308403 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
52308430 GGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
52308457 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
** ** *
52308484 AATAATTTTACAGGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
52308511 AGTAATTTCACAAAT-TAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
52308538 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* *
52308565 GATAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
52308592 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * *
52308619 GGTAATTTTATAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
52308646 AGTAATTTTACAAAGC-ATGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
52308672 GGTAATTTT
1 GGTAATTTT
52308681 GTAAACCAAA
Statistics
Matches: 217, Mismatches: 31, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
26 18 0.08
27 197 0.91
28 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:52308694 original size:26 final size:26
Alignment explanation
Indices: 52308530--52308697 Score: 174
Period size: 27 Copynumber: 6.3 Consensus size: 26
52308520 ACAAATTAGG
* *
52308530 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* * *
52308557 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* *
52308584 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
*
52308611 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
* * *
52308637 GGGTATTTTAGTAATTTTACAAAGCAT
1 -GGTATTTTGGTAATTTTACAAACCAA
**
52308664 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
*
52308690 AGTATTTT
1 GGTATTTT
52308698 AAACATGGAT
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
26 28 0.22
27 97 0.78
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACCAA
Found at i:52318104 original size:18 final size:18
Alignment explanation
Indices: 52318081--52318117 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
52318071 GGAATTTGTG
52318081 TGTAAAATAAATGTAAAA
1 TGTAAAATAAATGTAAAA
52318099 TGTAAAATAAATGTAAAA
1 TGTAAAATAAATGTAAAA
52318117 T
1 T
52318118 ATTCGGCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (18 bp):
TGTAAAATAAATGTAAAA
Found at i:52321132 original size:33 final size:33
Alignment explanation
Indices: 52321094--52321164 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
52321084 CAATCAATGC
52321094 ATAAATGACTATGTATTAATTCAAGACATATCA
1 ATAAATGACTATGTATTAATTCAAGACATATCA
* *
52321127 ATAAATGCCTATGTTTTAATTCAAGACATATCA
1 ATAAATGACTATGTATTAATTCAAGACATATCA
52321160 ATAAA
1 ATAAA
52321165 AATCATAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.34
Consensus pattern (33 bp):
ATAAATGACTATGTATTAATTCAAGACATATCA
Found at i:52323883 original size:55 final size:55
Alignment explanation
Indices: 52323783--52323886 Score: 136
Period size: 55 Copynumber: 1.9 Consensus size: 55
52323773 GGGTGGTGGG
* * **
52323783 CACGGGCGTGTTGCACGCCCGTGTTAATTTCTCAGTTTCAACCATGGCCTCTAGA
1 CACGGGCGTGTCGCACGCCCGTGTTAATTTCACAAATTCAACCATGGCCTCTAGA
** * *
52323838 CACGGGCGTGTCGCACGCCCGTGTTGTTTTGACAAATTCACCCATGGCC
1 CACGGGCGTGTCGCACGCCCGTGTTAATTTCACAAATTCAACCATGGCC
52323887 ATGTCACACG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.25, T:0.27
Consensus pattern (55 bp):
CACGGGCGTGTCGCACGCCCGTGTTAATTTCACAAATTCAACCATGGCCTCTAGA
Found at i:52331105 original size:31 final size:31
Alignment explanation
Indices: 52331070--52331132 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
52331060 CAAAAAAGTC
* *
52331070 TGAAATACTTGACGTCACAGAAAGATTTGAA
1 TGAAATACTTAACGTAACAGAAAGATTTGAA
52331101 TGAAATACTTAACGTAACAGAAAGATTTGAA
1 TGAAATACTTAACGTAACAGAAAGATTTGAA
52331132 T
1 T
52331133 TTGAGATAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.27
Consensus pattern (31 bp):
TGAAATACTTAACGTAACAGAAAGATTTGAA
Found at i:52333475 original size:20 final size:20
Alignment explanation
Indices: 52333450--52333488 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
52333440 AGGGACTAAA
* *
52333450 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
52333470 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
52333489 TAAGAATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:52340782 original size:46 final size:46
Alignment explanation
Indices: 52340732--52340900 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 46
52340722 TGAGCATCCA
*
52340732 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
* * * * *
52340778 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCCG
* * *
52340825 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
* * *
52340871 AGCTCATTGAGCTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
52340901 GGGGCGGGTT
Statistics
Matches: 99, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 56 0.57
47 29 0.29
48 3 0.03
50 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.28
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
Found at i:52340887 original size:93 final size:93
Alignment explanation
Indices: 52340725--52340895 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
52340715 GGATGGTTGA
* * * * *
52340725 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCATTGAGC
52340790 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
52340818 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTCATTGAGC
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCATTGAGC
52340883 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
52340896 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.27
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCATTGAGC
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:52342919 original size:26 final size:27
Alignment explanation
Indices: 52342890--52343029 Score: 110
Period size: 27 Copynumber: 5.2 Consensus size: 27
52342880 TTAATTTACC
52342890 AAATTACTGAAATACCCCT-AGTTGTA
1 AAATTACTGAAATACCCCTGAGTTGTA
* * *
52342916 AAATTAC-CAAAGTACCCCCG-GTTTATA
1 AAATTACTGAAA-TACCCCTGAG-TTGTA
* * * *
52342943 AAATTACCGAAATATCCTTGATTTGTA
1 AAATTACTGAAATACCCCTGAGTTGTA
* *
52342970 AAATTA-TCGAAATA-CCCTCAGTTTGCA
1 AAATTACT-GAAATACCCCTGAG-TTGTA
* *
52342997 AAATTACTGAAATACCCTTGAGATGTA
1 AAATTACTGAAATACCCCTGAGTTGTA
52343024 AAATTA
1 AAATTA
52343030 TCAAAGTACC
Statistics
Matches: 87, Mismatches: 18, Indels: 17
0.71 0.15 0.14
Matches are distributed among these distances:
25 3 0.03
26 18 0.21
27 57 0.66
28 9 0.10
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCCTGAGTTGTA
Found at i:52343053 original size:27 final size:26
Alignment explanation
Indices: 52342969--52343056 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 26
52342959 CTTGATTTGT
*
52342969 AAAATTATCGAAATACCCTC-AGTTTGC
1 AAAATTATC-AAATACCCTCGAATTT-C
* * *
52342996 AAAATTACTGAAATACCCTTGAGATGT-
1 AAAATTA-TCAAATACCCTCGA-ATTTC
52343023 AAAATTATCAAAGTACCCTCGAATTTC
1 AAAATTATCAAA-TACCCTCGAATTTC
52343050 AAAATTA
1 AAAATTA
52343057 CTATTTTACC
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
26 7 0.14
27 38 0.78
28 2 0.04
29 2 0.04
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (26 bp):
AAAATTATCAAATACCCTCGAATTTC
Found at i:52343058 original size:54 final size:55
Alignment explanation
Indices: 52342884--52343058 Score: 207
Period size: 54 Copynumber: 3.3 Consensus size: 55
52342874 AATACTTTAA
* * * *
52342884 TTTACCAAATTACTGAAATACCCCT-AGTTGTAAAATTACCAAAGTACCCCCG-G
1 TTTACAAAATTACTGAAATACCCTTGAGTTGTAAAATTATCAAAGTACCCTCGAG
* * * *
52342937 TTTATAAAATTACCGAAATATCCTTGATTTGTAAAATTATCGAAA-TACCCTC-AG
1 TTTACAAAATTACTGAAATACCCTTGAGTTGTAAAATTATC-AAAGTACCCTCGAG
* * *
52342991 TTTGCAAAATTACTGAAATACCCTTGAGATGTAAAATTATCAAAGTACCCTCGAA
1 TTTACAAAATTACTGAAATACCCTTGAGTTGTAAAATTATCAAAGTACCCTCGAG
52343046 TTT-CAAAATTACT
1 TTTACAAAATTACT
52343059 ATTTTACCCT
Statistics
Matches: 102, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
53 23 0.23
54 72 0.71
55 7 0.07
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.31
Consensus pattern (55 bp):
TTTACAAAATTACTGAAATACCCTTGAGTTGTAAAATTATCAAAGTACCCTCGAG
Found at i:52343066 original size:27 final size:27
Alignment explanation
Indices: 52343036--52343364 Score: 358
Period size: 27 Copynumber: 12.2 Consensus size: 27
52343026 ATTATCAAAG
52343036 TACCCTCGAATTT-CAAAATTACTATTT
1 TACCCTCG-ATTTACAAAATTACTATTT
* *
52343063 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* * *
52343090 TACCCTTC-ACTTACAAAATTTCCATTT
1 TACCC-TCGATTTACAAAATTACTATTT
* **
52343117 TACCCTCAATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* * *
52343144 TACCCTCGAATTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* * *
52343171 TACCCTCGATTTATAGAGTTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
52343198 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
*
52343225 TACCCTCGATTTACAGAATTA-TCATTT
1 TACCCTCGATTTACAAAATTACT-ATTT
* * *
52343252 TACCCTCGATTAACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* * *
52343279 TACCCTTGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * *
52343306 TACCCTCGATTGATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * *
52343333 CACCCTTGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
52343360 TACCC
1 TACCC
52343365 CTAGGGTGTT
Statistics
Matches: 259, Mismatches: 38, Indels: 10
0.84 0.12 0.03
Matches are distributed among these distances:
26 7 0.03
27 249 0.96
28 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:52343915 original size:31 final size:31
Alignment explanation
Indices: 52343868--52343940 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
52343858 TTGCATTCAC
* * * *
52343868 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTAATTCTGTCACCTAATACTG
* *
52343899 ATTTTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTAATTCTGTCACCTAATACTG
52343930 ATTCTGATTCT
1 ATTCTGATTCT
52343941 GTCACCTGAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTAATTCTGTCACCTAATACTG
Found at i:52343931 original size:25 final size:25
Alignment explanation
Indices: 52343903--52343964 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
52343893 ATACTGATTT
52343903 TGATTCTAATTCTGTCACCTAATTC
1 TGATTCTAATTCTGTCACCTAATTC
* *
52343928 TGATTCTGATTCTGTCACCTGATTC
1 TGATTCTAATTCTGTCACCTAATTC
52343953 TG-TTCTAATTCT
1 TGATTCTAATTCT
52343965 CATTTTGATT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
24 9 0.26
25 25 0.74
ACGTcount: A:0.19, C:0.23, G:0.11, T:0.47
Consensus pattern (25 bp):
TGATTCTAATTCTGTCACCTAATTC
Found at i:52354934 original size:40 final size:39
Alignment explanation
Indices: 52354784--52354936 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
52354774 AAATGTTCGA
* *
52354784 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
52354823 GTGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
52354862 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
52354901 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
52354937 GGTTACCATA
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:52354952 original size:40 final size:39
Alignment explanation
Indices: 52354785--52354967 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
52354775 AATGTTCGAG
* * *
52354785 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
52354824 TGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
52354863 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
52354902 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
52354942 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
52354968 GTTTGAACGA
Statistics
Matches: 128, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 87 0.68
40 41 0.32
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:52355003 original size:79 final size:79
Alignment explanation
Indices: 52354791--52355005 Score: 177
Period size: 78 Copynumber: 2.7 Consensus size: 79
52354781 CGAGTGATAT
** * * * * * *
52354791 CCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGACATCCGGGCT-AA-GCCCGAAGGCAATTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCC-GGATAAACTCCCGAAGGCAATTG
** *
52354854 TGCGAGTTATGATAT
65 TGCGAGTTACCATAA
** * * * * *
52354869 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
*
52354934 GCGGGTTACCATAA
66 GCGAGTTACCATAA
* **
52354948 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCCGGATAAACT-CCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGATAAACTCCCGAAGG
52355006 TATGTGATTC
Statistics
Matches: 114, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
77 3 0.03
78 40 0.35
79 40 0.35
80 30 0.26
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.22
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
GCGAGTTACCATAA
Found at i:52366193 original size:80 final size:80
Alignment explanation
Indices: 52366109--52366257 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
52366099 TATGGTAACC
* * * *
52366109 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
52366173 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
52366189 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
52366254 CCGG
66 CCGG
52366258 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:52366199 original size:40 final size:38
Alignment explanation
Indices: 52366150--52366257 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
52366140 ATCACGATTT
*
52366150 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
52366190 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
52366230 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
52366258 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:52368643 original size:30 final size:30
Alignment explanation
Indices: 52368609--52368668 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
52368599 CCTTAACTCG
52368609 AACTTTGGCAAAATTACAATTTTGCCCCTA
1 AACTTTGGCAAAATTACAATTTTGCCCCTA
* * * **
52368639 AACTTTTGCATATTTACTCTTTTGCCCCTA
1 AACTTTGGCAAAATTACAATTTTGCCCCTA
52368669 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACAATTTTGCCCCTA
Found at i:52369712 original size:14 final size:12
Alignment explanation
Indices: 52369679--52369716 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 12
52369669 GTGCGTTTCT
52369679 AAAAT-AAAATG
1 AAAATAAAAATG
52369690 AAAATAAAAATG
1 AAAATAAAAATG
52369702 AGAAATGAAAAATG
1 A-AAAT-AAAAATG
52369716 A
1 A
52369717 TCCATTAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 5 0.21
12 7 0.29
13 4 0.17
14 8 0.33
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (12 bp):
AAAATAAAAATG
Found at i:52375734 original size:46 final size:45
Alignment explanation
Indices: 52375667--52375839 Score: 208
Period size: 46 Copynumber: 3.8 Consensus size: 45
52375657 TGTAACCCAC
* * *
52375667 CCATAAGCGAACTCAGACTCAACTCAACAAGTTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTT-GCAT
* *
52375713 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTGCAT
*
52375763 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTGCAT
52375806 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
52375840 AGATGCCCAA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 1 0.01
43 5 0.05
44 2 0.02
45 2 0.02
46 60 0.55
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTGCAT
Found at i:52375783 original size:93 final size:93
Alignment explanation
Indices: 52375675--52375846 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
52375665 ACCCATAAGC
52375675 GAACTCAGACTCAACTCAACAAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
52375740 CGAGCTCGGATGCCTAGTTACATCTCAT
66 CGAGCTCAGATGCCTAGTTACATCTCAT
* * *
52375768 GAACTCGGACTCAACTCAACGAGTTCGGACGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
52375833 CGAGTTCAGATGCC
66 CGAGCTCAGATGCC
52375847 CAAATATCTG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACAAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCAT
Found at i:52378735 original size:18 final size:18
Alignment explanation
Indices: 52378694--52378753 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 18
52378684 AATCTGTAGA
* *
52378694 AAAATCAAAAGAAAAAGAG
1 AAAA-CAAAAAAAAAAGTG
52378713 CAAAACAAAAAAAAAAGTG
1 -AAAACAAAAAAAAAAGTG
* *
52378732 AAAA-AGAAAAGAAAGTGG
1 AAAACAAAAAAAAAAGT-G
52378750 AAAA
1 AAAA
52378754 AAAGAAAGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
17 10 0.29
18 9 0.26
19 12 0.34
20 4 0.11
ACGTcount: A:0.73, C:0.05, G:0.17, T:0.05
Consensus pattern (18 bp):
AAAACAAAAAAAAAAGTG
Found at i:52378736 original size:19 final size:19
Alignment explanation
Indices: 52378691--52378741 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
52378681 AACAATCTGT
*
52378691 AGAAAAATCAAAAGAAAAAG
1 AGAAAAA-CAAAAAAAAAAG
*
52378711 AGCAAAACAAAAAAAAAAG
1 AGAAAAACAAAAAAAAAAG
* *
52378730 TGAAAAAGAAAA
1 AGAAAAACAAAA
52378742 GAAAGTGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.76, C:0.06, G:0.14, T:0.04
Consensus pattern (19 bp):
AGAAAAACAAAAAAAAAAG
Found at i:52378741 original size:17 final size:18
Alignment explanation
Indices: 52378721--52378754 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
52378711 AGCAAAACAA
52378721 AAAAAAAAGT-GAAAAAG
1 AAAAAAAAGTGGAAAAAG
*
52378738 AAAAGAAAGTGGAAAAA
1 AAAAAAAAGTGGAAAAA
52378755 AAGAAAGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.06
Consensus pattern (18 bp):
AAAAAAAAGTGGAAAAAG
Found at i:52383857 original size:87 final size:87
Alignment explanation
Indices: 52383710--52383869 Score: 250
Period size: 87 Copynumber: 1.8 Consensus size: 87
52383700 GTGACGAGAT
* *
52383710 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCAAT
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCAAT
52383775 AAGTGTGCATGCTGGAAATATA
66 AAGTGTGCATGCTGGAAATATA
* * *
52383797 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAAGGGTATGGCAC
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTCGAAAGATATGGCAA
*
52383861 TATGTGTGC
65 TAAGTGTGC
52383870 GGGCTTAAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
87 65 0.98
88 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (87 bp):
TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCAAT
AAGTGTGCATGCTGGAAATATA
Found at i:52383862 original size:29 final size:29
Alignment explanation
Indices: 52383710--52383840 Score: 253
Period size: 29 Copynumber: 4.5 Consensus size: 29
52383700 GTGACGAGAT
52383710 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
52383739 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
52383768 TGGCAATAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
52383797 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
52383826 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
52383841 GAGCTCGAAG
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 100 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:52383887 original size:87 final size:87
Alignment explanation
Indices: 52383710--52383898 Score: 238
Period size: 87 Copynumber: 2.2 Consensus size: 87
52383700 GTGACGAGAT
* *
52383710 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCAAT
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCAAT
* *
52383775 AAGTGTGCATGCTGGAAATATA
66 AAGTGTGCAGGCTGGAAATACA
* * *
52383797 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAAGGGTATGGCAC
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTCGAAAGATATGGCAA
* * * *
52383861 TATGTGTGCGGGCT-TAAATCGCA
65 TAAGTGTGCAGGCTGGAAAT-ACA
*
52383884 TGGCACTAACTGTGC
1 TGGCACTAAGTGTGC
52383899 GAAATCGAGT
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
86 4 0.05
87 83 0.94
88 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (87 bp):
TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCAAT
AAGTGTGCAGGCTGGAAATACA
Found at i:52391492 original size:29 final size:29
Alignment explanation
Indices: 52391459--52391588 Score: 235
Period size: 29 Copynumber: 4.5 Consensus size: 29
52391449 GTGACGAGAT
52391459 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
52391488 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
52391517 TGGCAATAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
52391546 TGGCACTAAGTGTGCATGTTGGAAATA-A
1 TGGCACTAAGTGTGCATGCTGGAAATATA
52391574 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
52391589 GAGCTCGAAG
Statistics
Matches: 98, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
28 16 0.16
29 82 0.84
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:52393657 original size:47 final size:47
Alignment explanation
Indices: 52393594--52393886 Score: 469
Period size: 47 Copynumber: 6.2 Consensus size: 47
52393584 GTATGAGATA
* * * *
52393594 TATATATATGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
52393641 TATATAAGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
52393688 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
52393735 TATATAAGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
52393782 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * *
52393829 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
52393876 TATAAATGTGA
1 TATATATGTGA
52393887 AAGTGTAAAA
Statistics
Matches: 232, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 232 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:52393886 original size:16 final size:16
Alignment explanation
Indices: 52393865--52393901 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
52393855 AATGTGATGG
*
52393865 ATGTGAAAGTGTATAA
1 ATGTGAAAGTGTAAAA
52393881 ATGTGAAAGTGTAAAA
1 ATGTGAAAGTGTAAAA
52393897 ATGTG
1 ATGTG
52393902 GGGTACAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.30
Consensus pattern (16 bp):
ATGTGAAAGTGTAAAA
Found at i:52396462 original size:47 final size:47
Alignment explanation
Indices: 52396392--52396828 Score: 732
Period size: 47 Copynumber: 9.3 Consensus size: 47
52396382 ATGAGATATA
* * * *
52396392 TATATATATGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
52396439 TATATAAGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
52396486 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
52396533 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
52396580 TATATAAGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
52396627 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
52396674 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
52396721 -ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
52396767 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
52396814 TATAAATGTGATAAG
1 TATATATGTGATAAG
52396829 TCCCGAAGGG
Statistics
Matches: 372, Mismatches: 17, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
46 44 0.12
47 328 0.88
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:52397013 original size:36 final size:37
Alignment explanation
Indices: 52396945--52397026 Score: 130
Period size: 36 Copynumber: 2.2 Consensus size: 37
52396935 CCGAGCTCTA
*
52396945 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGGGTGGAGATTATGTCCGGGT
*
52396982 AAGACCCGATGAC-ACGGGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGGGTGGAGATTATGTCCGGGT
*
52397018 AAGCCCCGA
1 AAGACCCGA
52397027 ACTAAAGGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
36 29 0.69
37 13 0.31
ACGTcount: A:0.24, C:0.22, G:0.33, T:0.21
Consensus pattern (37 bp):
AAGACCCGATGACTACGGGTGGAGATTATGTCCGGGT
Found at i:52405051 original size:26 final size:25
Alignment explanation
Indices: 52405022--52405100 Score: 88
Period size: 26 Copynumber: 3.1 Consensus size: 25
52405012 TATCCAAAGC
*
52405022 TCCTGATTAAAGGCTCTTCGTGAGCT
1 TCCTGATTAAAGGCTCTT-ATGAGCT
* * *
52405048 TCCTGATTAAAAGTTCTTTATGAACT
1 TCCTGATTAAAGGCTC-TTATGAGCT
*
52405074 TCCTGATT-ATGGCTCTTATGAGCT
1 TCCTGATTAAAGGCTCTTATGAGCT
52405098 TCC
1 TCC
52405101 GTTATATAGC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
24 11 0.25
25 4 0.09
26 27 0.61
27 2 0.05
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.39
Consensus pattern (25 bp):
TCCTGATTAAAGGCTCTTATGAGCT
Found at i:52405099 original size:24 final size:25
Alignment explanation
Indices: 52405022--52405162 Score: 87
Period size: 26 Copynumber: 5.7 Consensus size: 25
52405012 TATCCAAAGC
* *
52405022 TCCTGATTAAAGGCTCTTCGTGAGCT
1 TCCTGATTAATGGCTCTT-ATGAGCT
** * *
52405048 TCCTGATTAAAAGTTCTTTATGAACT
1 TCCTGATTAATGGCTC-TTATGAGCT
52405074 TCCTGATT-ATGGCTCTTATGAGCT
1 TCCTGATTAATGGCTCTTATGAGCT
* ** *
52405098 TCC-G-TTATATAGCTCAGATAAGCT
1 TCCTGATTA-ATGGCTCTTATGAGCT
*
52405122 TCCTGA-T-A-GGCTCTTTGTGAGCT
1 TCCTGATTAATGGCTC-TTATGAGCT
**
52405145 TCCCAATTAATGGCTCTT
1 TCCTGATTAATGGCTCTT
52405163 TGTGAACTTC
Statistics
Matches: 87, Mismatches: 19, Indels: 19
0.70 0.15 0.15
Matches are distributed among these distances:
22 6 0.07
23 11 0.13
24 27 0.31
25 9 0.10
26 32 0.37
27 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.38
Consensus pattern (25 bp):
TCCTGATTAATGGCTCTTATGAGCT
Found at i:52409673 original size:42 final size:43
Alignment explanation
Indices: 52409614--52409777 Score: 165
Period size: 47 Copynumber: 3.7 Consensus size: 43
52409604 TGTAACCCGC
*
52409614 CCATAAGTGAACTCGGACTCAACTGAAC-TCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGTCGGACGCTCGCAT
* *
52409656 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAAC--G-TCGGACG-CTCG---CAT
* *
52409706 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAAC--G-TCGGACGCTCGCAT
52409749 CCATAAGTGAACTCGGACTCAACTCAACG
1 CCATAAGTGAACTCGGACTCAACTCAACG
52409778 AGTTCGGATG
Statistics
Matches: 102, Mismatches: 9, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
42 27 0.26
43 3 0.03
44 2 0.02
45 2 0.02
46 29 0.28
47 33 0.32
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (43 bp):
CCATAAGTGAACTCGGACTCAACTCAACGTCGGACGCTCGCAT
Found at i:52409777 original size:93 final size:89
Alignment explanation
Indices: 52409622--52409788 Score: 289
Period size: 93 Copynumber: 1.8 Consensus size: 89
52409612 GCCCATAAGT
*
52409622 GAACTCGGACTCAACTGAACTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAG
1 GAACTCGGACTCAACTCAACTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAG
52409687 TTCGGATGCCTAGTTACATCTCAC
66 TTCGGATGCCTAGTTACATCTCAC
52409711 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAAC----TCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52409776 CGAGTTCGGATGC
62 CGAGTTCGGATGC
52409789 TCAACCATCC
Statistics
Matches: 73, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
89 19 0.26
93 54 0.74
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (89 bp):
GAACTCGGACTCAACTCAACTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAG
TTCGGATGCCTAGTTACATCTCAC
Found at i:52409778 original size:46 final size:46
Alignment explanation
Indices: 52409614--52409790 Score: 215
Period size: 46 Copynumber: 3.9 Consensus size: 46
52409604 TGTAACCCGC
*
52409614 CCATAAGTGAACTCGGACTCAACTGAAC----TCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
52409656 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
52409706 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
52409749 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
52409791 AACCATCCTA
Statistics
Matches: 114, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 27 0.24
43 3 0.03
44 1 0.01
45 2 0.02
46 42 0.37
47 33 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:52412211 original size:30 final size:30
Alignment explanation
Indices: 52412167--52412255 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
52412157 CAAAGATAAC
52412167 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
52412196 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
52412226 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
52412256 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:52412215 original size:15 final size:15
Alignment explanation
Indices: 52412167--52412246 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
52412157 CAAAGATAAC
*
52412167 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
52412181 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
52412196 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
52412211 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
52412226 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
52412241 AAGAAA
1 AAGAAA
52412247 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:52412255 original size:15 final size:15
Alignment explanation
Indices: 52412178--52412255 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
52412168 AGAAAACCGA
52412178 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
52412193 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
52412207 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
52412222 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
52412238 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
52412253 ATA
1 ATA
52412256 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:52415323 original size:47 final size:48
Alignment explanation
Indices: 52415268--52415403 Score: 176
Period size: 46 Copynumber: 2.9 Consensus size: 48
52415258 TCAACGGATG
*
52415268 ACTC-GACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA-CGA
1 ACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTAAGCGA
* * *
52415314 ACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CATCCATAAGTGA
1 ACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TAAGCGA
52415360 ACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTAA
1 ACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTAA
52415404 CTCGGTTCAA
Statistics
Matches: 76, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 2 0.03
46 37 0.49
47 26 0.34
48 3 0.04
49 1 0.01
50 3 0.04
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (48 bp):
ACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTAAGCGA
Found at i:52422237 original size:20 final size:20
Alignment explanation
Indices: 52422212--52422251 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
52422202 TTGATGGTAG
52422212 AATATGAATGTTTGAGGTTA
1 AATATGAATGTTTGAGGTTA
52422232 AATATGAATGTTTGAGGTTA
1 AATATGAATGTTTGAGGTTA
52422252 GGAGAACGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.25, T:0.40
Consensus pattern (20 bp):
AATATGAATGTTTGAGGTTA
Found at i:52434864 original size:67 final size:68
Alignment explanation
Indices: 52434735--52434891 Score: 289
Period size: 67 Copynumber: 2.3 Consensus size: 68
52434725 TTCACTTGGA
* *
52434735 ATCACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
52434800 CGT
66 CGT
52434803 ATCACACATGTGACCTAGCTACATTTATCTCTCA-GTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
52434867 CGT
66 CGT
52434870 ATCACACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
52434892 TATAGTATCT
Statistics
Matches: 87, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
67 55 0.63
68 32 0.37
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
CGT
Found at i:52438546 original size:38 final size:38
Alignment explanation
Indices: 52438502--52438577 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
52438492 TGTGCAAGTA
52438502 TACACTATCATTGACAAGTAATAAAGTGATAAGTATAT
1 TACACTATCATTGACAAGTAATAAAGTGATAAGTATAT
52438540 TACACTATCATTGACAAGTAATAAAGTGATAAGTATAT
1 TACACTATCATTGACAAGTAATAAAGTGATAAGTATAT
52438578 CGAATATCGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (38 bp):
TACACTATCATTGACAAGTAATAAAGTGATAAGTATAT
Found at i:52444843 original size:43 final size:44
Alignment explanation
Indices: 52444794--52444962 Score: 177
Period size: 43 Copynumber: 3.9 Consensus size: 44
52444784 GGTTATCGAG
*
52444794 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGATATTGGCATTGTAT
52444838 -TGTGATTACATGTAAGACCATGTCTGGGATATTGGCATCT-T-T
1 ATGTGATTACATGTAAGACCATGTCTGGGATATTGGCAT-TGTAT
* * *** * * *
52444880 GTATGATTTTGTGTAAGACCCTGTCTGGGATAGTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTGGGATATTGGCATTGTAT
* * * *
52444923 ATGTGGTAACATGTAAGACCATATCTAGGATA-TGGCATTG
1 ATGTGATTACATGTAAGACCATGTCTGGGATATTGGCATTG
52444963 CATGAGCCTT
Statistics
Matches: 102, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
42 8 0.08
43 93 0.91
44 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGATATTGGCATTGTAT
Found at i:52446035 original size:22 final size:23
Alignment explanation
Indices: 52445996--52446038 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
52445986 GAAGTCCTAC
*
52445996 CCGTCCATCCTCTACACTCCACT
1 CCGTCCAGCCTCTACACTCCACT
52446019 CCGTCCAGCC-CTACACTCCA
1 CCGTCCAGCCTCTACACTCCA
52446039 TGTGGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.19, C:0.53, G:0.07, T:0.21
Consensus pattern (23 bp):
CCGTCCAGCCTCTACACTCCACT
Found at i:52449593 original size:194 final size:194
Alignment explanation
Indices: 52449259--52449647 Score: 751
Period size: 194 Copynumber: 2.0 Consensus size: 194
52449249 GCAACTGATG
*
52449259 TTCCATTTTAACCTATTGACAAGTCAGGCATTTCCTTACAAAGTCGATAGCCTCACGCTTAAAAC
1 TTCCATTTTAACCTATTGACAAGTCAGGCATTTCCTTACAAAGTCGATAACCTCACGCTTAAAAC
52449324 CTGGCCACCAATATATCTCATGAAGATCTCTGTACATTTTATTTCCATCTGGGTGCATAGCATAG
66 CTGGCCACCAATATATCTCATGAAGATCTCTGTACATTTTATTTCCATCTGGGTGCATAGCATAG
52449389 GGGCTACTATGCGCCTCTCGCAATTTAGACTGCCTCAAATCACTATCCTTAGGTACATAAATTC
131 GGGCTACTATGCGCCTCTCGCAATTTAGACTGCCTCAAATCACTATCCTTAGGTACATAAATTC
52449453 TTCCATTTTAACCTATTGACAAGTCAGGCATTTCCTTACAAAGTCGATAACCTCACGCTTAAAAC
1 TTCCATTTTAACCTATTGACAAGTCAGGCATTTCCTTACAAAGTCGATAACCTCACGCTTAAAAC
*
52449518 CTGGCCACCAATATATCTCATGAAGATCTTTGTACATTTTATTTCCATCTGGGTGCATAGCATAG
66 CTGGCCACCAATATATCTCATGAAGATCTCTGTACATTTTATTTCCATCTGGGTGCATAGCATAG
*
52449583 GGGTTACTATGCGCCTCTCGCAATTTAGACTGCCTCAAATCACTATCCTTAGGTACATAAATTC
131 GGGCTACTATGCGCCTCTCGCAATTTAGACTGCCTCAAATCACTATCCTTAGGTACATAAATTC
52449647 T
1 T
52449648 GCCTAGGAAA
Statistics
Matches: 192, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
194 192 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (194 bp):
TTCCATTTTAACCTATTGACAAGTCAGGCATTTCCTTACAAAGTCGATAACCTCACGCTTAAAAC
CTGGCCACCAATATATCTCATGAAGATCTCTGTACATTTTATTTCCATCTGGGTGCATAGCATAG
GGGCTACTATGCGCCTCTCGCAATTTAGACTGCCTCAAATCACTATCCTTAGGTACATAAATTC
Found at i:52453913 original size:34 final size:34
Alignment explanation
Indices: 52453841--52453918 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
52453831 AGTAATAGAC
* * **
52453841 CAGTATCAGTGTGGGCCTTAGCCCAAAGCAGTTG
1 CAGTATCAATGTAGGCCTTAGCCCAAAGCAGTAA
*
52453875 CAGTATCAATGTAGGCCTTAGCCCATTAG-AGTAA
1 CAGTATCAATGTAGGCCTTAGCCCA-AAGCAGTAA
52453909 CAGTATCAAT
1 CAGTATCAAT
52453919 AATGCAACAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
34 36 0.95
35 2 0.05
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (34 bp):
CAGTATCAATGTAGGCCTTAGCCCAAAGCAGTAA
Found at i:52457264 original size:27 final size:26
Alignment explanation
Indices: 52457212--52457271 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
52457202 ACATATATAT
*
52457212 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
52457238 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
52457265 ATATCTG
1 ATATCTG
52457272 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:52461529 original size:62 final size:62
Alignment explanation
Indices: 52461432--52461555 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
52461422 TATCTTTGAA
52461432 AACACAGTAGCACCTTTCAACTGATCGAATAAGTCATCAATTCAAGGCAGAGGATATTTGTT
1 AACACAGTAGCACCTTTCAACTGATCGAATAAGTCATCAATTCAAGGCAGAGGATATTTGTT
52461494 AACACAGTAGCACCTTTCAACTGATCGAATAAGTCATCAATTCAAGGCAGAGGATATTTGTT
1 AACACAGTAGCACCTTTCAACTGATCGAATAAGTCATCAATTCAAGGCAGAGGATATTTGTT
52461556 CTTTATATTC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (62 bp):
AACACAGTAGCACCTTTCAACTGATCGAATAAGTCATCAATTCAAGGCAGAGGATATTTGTT
Found at i:52466174 original size:30 final size:30
Alignment explanation
Indices: 52466140--52466200 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52466130 TCCTTAACTC
52466140 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
52466170 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
52466200 A
1 A
52466201 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:52473296 original size:13 final size:13
Alignment explanation
Indices: 52473280--52473305 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52473270 AATCAATTAG
52473280 GTTAAACAAAATA
1 GTTAAACAAAATA
52473293 GTTAAACAAAATA
1 GTTAAACAAAATA
52473306 AAGGAGAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (13 bp):
GTTAAACAAAATA
Found at i:52477949 original size:40 final size:39
Alignment explanation
Indices: 52477885--52478122 Score: 280
Period size: 39 Copynumber: 6.1 Consensus size: 39
52477875 GCTACTCGTT
* * * * *
52477885 CAAACGCCTTCGGGACATAGCCCGGTTATGATAACCCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
*
52477925 CAAATGCCTTCGGGACTTAACCCGGATATCATAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
*
52477965 C-AATCGCCTTCGGGCTTAGCCCGGATATCATATCTCGCA
1 CAAAT-GCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
* * *
52478004 CAATTGCCTTCGGGCTTAGCCCGGATATCACAATTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
** * *
52478043 CATTTGCCTTCGGGCTTAGCCCGGATATCACAATTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
** * *
52478082 CATTTGCCTTCGGGCTTAGCCCGGATATCACAATTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
52478121 CA
1 CA
52478123 TTCATACACA
Statistics
Matches: 183, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
39 137 0.75
40 46 0.25
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
Found at i:52478054 original size:78 final size:78
Alignment explanation
Indices: 52477889--52478125 Score: 323
Period size: 78 Copynumber: 3.0 Consensus size: 78
52477879 CTCGTTCAAA
* * * * * * *
52477889 CGCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATAT
1 CGCCTTCGGG-CTTAGCCCGGATATCATATCTCGCACAATTGCCTTCGGG-CTTAGCCCGGATAT
* * *
52477954 CATAACTCGCACAAT
64 CACAATTCGCACATT
52477969 CGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
52478034 CAATTCGCACATT
66 CAATTCGCACATT
* * *
52478047 TGCCTTCGGGCTTAGCCCGGATATCACAAT-TCGCACATTTGCCTTCGGGCTTAGCCCGGATATC
1 CGCCTTCGGGCTTAGCCCGGATATCA-TATCTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
52478111 ACAATTCGCACATT
65 ACAATTCGCACATT
52478125 C
1 C
52478126 ATACACATCT
Statistics
Matches: 142, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
78 97 0.68
79 35 0.25
80 10 0.07
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (78 bp):
CGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
CAATTCGCACATT
Found at i:52478112 original size:39 final size:39
Alignment explanation
Indices: 52477929--52478124 Score: 304
Period size: 39 Copynumber: 5.0 Consensus size: 39
52477919 CCCGCACAAA
* * * *
52477929 TGCCTTCGGGACTTAACCCGGATATCATAACTCGCACAAT
1 TGCCTTCGGG-CTTAGCCCGGATATCACAATTCGCACATT
* * *
52477969 CGCCTTCGGGCTTAGCCCGGATATCA-TATCTCGCACAAT
1 TGCCTTCGGGCTTAGCCCGGATATCACAAT-TCGCACATT
52478008 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
1 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
52478047 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
1 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
52478086 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
1 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
52478125 CATACACATC
Statistics
Matches: 147, Mismatches: 7, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
38 1 0.01
39 135 0.92
40 11 0.07
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (39 bp):
TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
Found at i:52486014 original size:37 final size:39
Alignment explanation
Indices: 52485939--52486023 Score: 147
Period size: 37 Copynumber: 2.2 Consensus size: 39
52485929 TTATGATATC
*
52485939 TCGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAAT
1 TCGCACATTTGCCTTCGGGCTTAGCCCGGATATCACAAT
52485978 TCGCACATTTGCCTTC-GGCTTAG-CCGGATATCACAAT
1 TCGCACATTTGCCTTCGGGCTTAGCCCGGATATCACAAT
52486015 TCGCACATT
1 TCGCACATT
52486024 CATACACATC
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
37 23 0.51
38 7 0.16
39 15 0.33
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (39 bp):
TCGCACATTTGCCTTCGGGCTTAGCCCGGATATCACAAT
Found at i:52490502 original size:29 final size:29
Alignment explanation
Indices: 52490469--52490550 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
52490459 TGACGAGATA
*
52490469 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAATATAT
52490498 GGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAATATAT
52490527 GGCACTAAGTGTGCATGCTGGAAA
1 GGCACTAAGTGTGCATGCTGGAAA
52490551 AAAAAAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAATATAT
Done.