Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 360 of 438
Found at i:112349660 original size:64 final size:64
Alignment explanation
Indices: 112349536--112349678 Score: 148
Period size: 64 Copynumber: 2.2 Consensus size: 64
112349526 CCCTTTTTTA
* * * * *
112349536 TTTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTTATTATTTTTATATTTGTT
1 TTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTTATTCATATTATTTATATATTTATT
* *
112349600 TTTTTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCATATTA-TTATATTATTTA
1 TTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTT-T-ATTCATATTATTTATA-TATTTA
112349662 TT
63 TT
112349664 TATTATTATATATTT
1 T-TT-TTAT-TATTT
112349679 ATTATGTAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
62 2 0.03
63 25 0.38
64 28 0.42
65 2 0.03
66 4 0.06
67 5 0.08
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (64 bp):
TTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTTATTCATATTATTTATATATTTATT
Found at i:112349669 original size:19 final size:18
Alignment explanation
Indices: 112349645--112349681 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
112349635 TTATGTTTCA
112349645 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
112349664 TATTATTATATATTTATT
1 TATTATTATATATTTATT
112349682 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:112349670 original size:63 final size:63
Alignment explanation
Indices: 112349530--112349672 Score: 161
Period size: 63 Copynumber: 2.3 Consensus size: 63
112349520 TTTAACCCCT
* * *
112349530 TTTTTATTTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTTATTATTTTTATA
1 TTTTTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTTATTATTATTATA
*
112349594 TTTGTT-TTTTTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGT-TTCA-TATTATTAT
1 TTT-TTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTT-ATTATTATTAT
112349654 A
63 A
112349655 TTATTTATTTATTATTAT
1 TT-TTTATTT-TTATTAT
112349673 ATATTTATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
61 19 0.28
62 6 0.09
63 27 0.39
64 15 0.22
65 2 0.03
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (63 bp):
TTTTTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTTATTATTATTATA
Found at i:112349693 original size:17 final size:14
Alignment explanation
Indices: 112349653--112349683 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
112349643 CATATTATTA
*
112349653 TATTATTTATTTAT
1 TATTATATATTTAT
112349667 TATTATATATTTAT
1 TATTATATATTTAT
112349681 TAT
1 TAT
112349684 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:112349983 original size:3 final size:3
Alignment explanation
Indices: 112349975--112350038 Score: 51
Period size: 3 Copynumber: 20.7 Consensus size: 3
112349965 ATTATTGTAT
* * *
112349975 TTA TTA TTA TTT TTG TT- TTA TTAA TTA TT- TCTA TTAA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA T-TA TT-A TTA TTA TTA
112350021 TTA TTA TTTA TTA TTA TT
1 TTA TTA -TTA TTA TTA TT
112350039 TATATATGGT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
2 3 0.06
3 38 0.75
4 10 0.20
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:112350001 original size:18 final size:18
Alignment explanation
Indices: 112349969--112350039 Score: 60
Period size: 18 Copynumber: 4.0 Consensus size: 18
112349959 TATTACATTA
112349969 TTGTATTTATTATTATTT
1 TTGTATTTATTATTATTT
112349987 TTGT-TTTATTAATTATTT
1 TTGTATTTATT-ATTATTT
* *
112350005 CTAT-TAATTACTATTA-TT
1 -T-TGTATTTATTATTATTT
*
112350023 AT-TATTTATTATTATTT
1 TTGTATTTATTATTATTT
112350040 ATATATGGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
16 11 0.26
17 8 0.19
18 13 0.30
19 6 0.14
20 5 0.12
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.68
Consensus pattern (18 bp):
TTGTATTTATTATTATTT
Found at i:112350039 original size:10 final size:10
Alignment explanation
Indices: 112349972--112350041 Score: 61
Period size: 10 Copynumber: 6.7 Consensus size: 10
112349962 TACATTATTG
112349972 TATTTATTAT
1 TATTTATTAT
* *
112349982 TATTTTTGTTT
1 TATTTAT-TAT
*
112349993 TATTAATTAT
1 TATTTATTAT
*
112350003 T-TCTATTAAT
1 TATTTATT-AT
112350013 TACTATTATTAT
1 TA-T-TTATTAT
112350025 TATTTATTAT
1 TATTTATTAT
112350035 TATTTAT
1 TATTTAT
112350042 ATATGGTTAG
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
9 4 0.09
10 26 0.55
11 8 0.17
12 5 0.11
13 4 0.09
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (10 bp):
TATTTATTAT
Found at i:112364594 original size:41 final size:42
Alignment explanation
Indices: 112364535--112364617 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 42
112364525 TAACATAAAA
112364535 GAATTGAATTTCAAGGGATACAAGGAATAATGTGAATCAAAT
1 GAATTGAATTTCAAGGGATACAAGGAATAATGTGAATCAAAT
112364577 GAATTG-ATTTCAAGGGATACAAGGAATAATGTGAATCAAAT
1 GAATTGAATTTCAAGGGATACAAGGAATAATGTGAATCAAAT
112364618 CTGAAGATGG
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 35 0.85
42 6 0.15
ACGTcount: A:0.45, C:0.07, G:0.22, T:0.27
Consensus pattern (42 bp):
GAATTGAATTTCAAGGGATACAAGGAATAATGTGAATCAAAT
Found at i:112383644 original size:42 final size:43
Alignment explanation
Indices: 112383586--112383692 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
112383576 TTTTGTTTTG
* * * *
112383586 CATGTAAGACCATGTCTGTGACATTGACATC-GTGTTTGATTT
1 CATGTAAGACCATGTCTGGGACAGTGACATCAATGTTTGATTA
* * *
112383628 CGTGTAAGACCTTGTCTGGGACAGTGGCATCAATGTTTGATTA
1 CATGTAAGACCATGTCTGGGACAGTGACATCAATGTTTGATTA
*
112383671 CATGTAAGACCATGCCTGGGAC
1 CATGTAAGACCATGTCTGGGAC
112383693 GTTGGCATTG
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 26 0.48
43 28 0.52
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGGGACAGTGACATCAATGTTTGATTA
Found at i:112386032 original size:46 final size:46
Alignment explanation
Indices: 112385863--112386034 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
112385853 GGTTGAGCAT
* * *
112385863 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
112385909 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
* * *
112385954 ATCCAAATTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
112386002 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
112386035 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 57 0.56
47 25 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:112389876 original size:40 final size:40
Alignment explanation
Indices: 112389768--112389977 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
112389758 CGGGATTTAA
* * * * *
112389768 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
112389808 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
112389848 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
112389888 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
112389928 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
112389968 CCGGATATAT
1 CCGGATATAT
112389978 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:112398013 original size:40 final size:40
Alignment explanation
Indices: 112397905--112398114 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
112397895 CGGGATTTAA
* * * * *
112397905 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
112397945 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
112397985 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
112398025 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
112398065 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
112398105 CCGGATATAT
1 CCGGATATAT
112398115 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:112404958 original size:45 final size:45
Alignment explanation
Indices: 112404908--112405076 Score: 186
Period size: 45 Copynumber: 3.7 Consensus size: 45
112404898 TGGTTGAGCA
112404908 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATG
* *
112404953 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATG-GATGCGAA-T--G
*
112404998 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAATG
* * *
112405046 CCCGAGCTCATTGAGTTGAGTCC-AGTTCACT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
112405077 TAGGGGCGGG
Statistics
Matches: 105, Mismatches: 8, Indels: 23
0.77 0.06 0.17
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
44 1 0.01
45 36 0.34
46 20 0.19
47 28 0.27
48 1 0.01
49 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATG
Found at i:112405073 original size:92 final size:92
Alignment explanation
Indices: 112404905--112405073 Score: 286
Period size: 92 Copynumber: 1.8 Consensus size: 92
112404895 GGATGGTTGA
* * *
112404905 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCATTGAGTT
112404970 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
112404997 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAACTCATTGAGT
112405062 TGAGTCC-AGTTC
65 TGAGTCCGAGTTC
112405074 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 39 0.54
93 33 0.46
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCATTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:112407848 original size:19 final size:19
Alignment explanation
Indices: 112407803--112407848 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
112407793 CAAGGGACAT
* *
112407803 GGGCGTGCCCCATGTACAC
1 GGGCGTGTCCCATGCACAC
112407822 GGGCGTGTCCCATGCACAC
1 GGGCGTGTCCCATGCACAC
112407841 GGGCGTGT
1 GGGCGTGT
112407849 GAGGCTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.13, C:0.33, G:0.37, T:0.17
Consensus pattern (19 bp):
GGGCGTGTCCCATGCACAC
Found at i:112409659 original size:20 final size:20
Alignment explanation
Indices: 112409614--112409661 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
112409604 AAAGTCCCTG
*
112409614 TGGTATCGATATTTTTCCTAC
1 TGGTATCGATATTTTT-CTAA
*
112409635 GGGTATCGATATTTTT-TAAA
1 TGGTATCGATATTTTTCT-AA
112409655 TGGTATC
1 TGGTATC
112409662 ATTACCAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 1 0.04
20 7 0.30
21 15 0.65
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (20 bp):
TGGTATCGATATTTTTCTAA
Found at i:112411455 original size:47 final size:46
Alignment explanation
Indices: 112411392--112411649 Score: 152
Period size: 47 Copynumber: 5.5 Consensus size: 46
112411382 GACGAGGGCT
** *
112411392 AGTGTAAGATGTGTCTGGGACATGCATCAGCCGCATCATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCGCATGATGATAGCC
* * * * *
112411438 CGTGTAAGACCACGTCTGAGACATGGCATC-GGCGTA-GAGGTGAGT-GCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCGCATGA--TGA-TAGCC
* * * *
112411486 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGTTATCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCGC-ATGATGATAGCC
* * * * *
112411533 AGTGTAAGACGTGTCTGGGACATGCATCAG-C-TAAGTTTCG-T-GCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCGCATG-AT-GATAGCC
* * * * * * *
112411577 AGTGTAAGACATGTCTAGGACATACATTAGCACGTATACATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-CGCAT-GATGATAGCC
112411625 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
112411650 GCAGCGGCAA
Statistics
Matches: 161, Mismatches: 33, Indels: 33
0.71 0.15 0.15
Matches are distributed among these distances:
44 29 0.18
45 2 0.01
46 19 0.12
47 63 0.39
48 32 0.20
49 16 0.10
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCGCATGATGATAGCC
Found at i:112411549 original size:94 final size:93
Alignment explanation
Indices: 112411340--112411657 Score: 318
Period size: 94 Copynumber: 3.4 Consensus size: 93
112411330 GTTATGTGAG
* * * * **
112411340 AGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGATGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACATG
112411405 TCTGGGACATGCATCAGCCGCATCATGAT
65 TCTGGGACATGCATCAGCCGCATCATGAT
* * * * *
112411434 AGCCCGTGTAAGACCACGTCTGAGACATGGCATCGGCGTAGAGGTGAGTGCCAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACATG
* * * *
112411499 TCTGGGACATGCATCGGCCTCGATGATGTT
65 TCTGGGACATGCATCAGCCGC-ATCATGAT
* * * * **
112411529 ATCCAGTGTAAGA-CGTGTCTGGGACAT-GCATCAGCTA-AGTTTCGTGCTAGTGTAAGACATGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAGATGAGTGCTAGTGTAAGACATGT
* * * * *
112411591 CTAGGACATACATTAGCACGTATACATGAG
66 CTGGGACATGCATCAGC-CGCAT-CATGAT
* *
112411621 AGCTAGTGTAAGACCATGTCTGGGACATGGCAGCGGC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
112411658 AACTTAACCC
Statistics
Matches: 179, Mismatches: 40, Indels: 10
0.78 0.17 0.04
Matches are distributed among these distances:
91 36 0.20
92 17 0.09
93 20 0.11
94 89 0.50
95 17 0.09
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (93 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAGATGAGTGCTAGTGTAAGACATGT
CTGGGACATGCATCAGCCGCATCATGAT
Found at i:112412536 original size:55 final size:55
Alignment explanation
Indices: 112412423--112412549 Score: 150
Period size: 55 Copynumber: 2.3 Consensus size: 55
112412413 ACTTTTTAAA
* * * *
112412423 TCAGTATTATCCACGGTTAGGCCACACGGGCGTGTTCCATAGCCGTGTCTATAAG
1 TCAGTATCACCCACGGGTAGGCCACACGGGCGTGTTCCATAGCCGTGCCTATAAG
* *
112412478 TCAGTATCACCCACGGGTAGGCCACACGGGCGTGTGT-CATGGCCGTGCCCTA-AGG
1 TCAGTATCACCCACGGGTAGGCCACACGGGCGTGT-TCCATAGCCGTG-CCTATAAG
* *
112412533 TCAGTGTCACACACGGG
1 TCAGTATCACCCACGGG
112412550 CTGAGGACAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
55 58 0.94
56 4 0.06
ACGTcount: A:0.20, C:0.28, G:0.29, T:0.22
Consensus pattern (55 bp):
TCAGTATCACCCACGGGTAGGCCACACGGGCGTGTTCCATAGCCGTGCCTATAAG
Found at i:112417746 original size:46 final size:46
Alignment explanation
Indices: 112417679--112417853 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
112417669 TGTAACCCGC
112417679 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
112417725 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-GCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * * *
112417775 --TTCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
** *
112417818 CCATAAATGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
112417854 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 62 0.57
47 26 0.24
48 3 0.03
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:112417794 original size:93 final size:93
Alignment explanation
Indices: 112417686--112417857 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
112417676 CGCCCATAAG
* * * *
112417686 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
112417751 ACGAGCTCGGATGCCTAGTTGCATTTCA
66 ACGAGCTCGGATGCCTAGTTGCATTTCA
*
112417779 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
*
112417844 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
112417858 TCAACCATCC
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:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTGCATTTCA
Found at i:112418512 original size:25 final size:25
Alignment explanation
Indices: 112418478--112418529 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
112418468 CTCGTTTTTG
112418478 CTTAAAATCGAGTAGTACAAGTTGT
1 CTTAAAATCGAGTAGTACAAGTTGT
112418503 CTTAAAATCGAGTAGTACAAGTTGT
1 CTTAAAATCGAGTAGTACAAGTTGT
112418528 CT
1 CT
112418530 AACATAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (25 bp):
CTTAAAATCGAGTAGTACAAGTTGT
Found at i:112422119 original size:47 final size:46
Alignment explanation
Indices: 112421876--112422138 Score: 193
Period size: 47 Copynumber: 5.6 Consensus size: 46
112421866 ATATATTGTC
*
112421876 GATGCTATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TACGTGTGCT
1 GATGC-ATGTCCCAGACAT-GTCTTACACTGGCTATCATACTA--TG-GCT
* * * *
112421926 GATGCATGTTCCAGACATGTCTTACACTAGC-A-CA-ACTCTTAG-T
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCATACT-ATGGCT
* * * * *
112421969 CGATACGTGTCCCAGACACGTCTTACACTGGCTATC-T-CTGTCGAGGCC
1 -GATGCATGTCCCAGACATGTCTTACACTGGCTATCATACTAT---GGCT
* * **
112422017 GATACATGTCCCAGACATGTCTTACACTGGC-ACTCAT-CTCTGTAT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTA-TCATACTATGGCT
*
112422062 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCT
1 -GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATACTATGGCT
*
112422111 TATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
112422139 AGCCCTTGTT
Statistics
Matches: 171, Mismatches: 25, Indels: 38
0.73 0.11 0.16
Matches are distributed among these distances:
43 1 0.01
44 28 0.16
45 6 0.04
46 18 0.11
47 60 0.35
48 36 0.21
49 17 0.10
50 5 0.03
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATCATACTATGGCT
Found at i:112422121 original size:94 final size:93
Alignment explanation
Indices: 112421874--112422188 Score: 324
Period size: 94 Copynumber: 3.4 Consensus size: 93
112421864 GGATATATTG
* * *
112421874 TCGATGCTATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TACGTGTGCTGATGCATGTTCC
1 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTA--TG-GCTGATGCATGTCCC
*
112421938 AGACATGTCTTACACTAGCA-CAACTCT-TA
63 AGACATGTCTTACACTAGCACCATCTCTGTA
* * * * * *
112421967 GTCGAT-ACGTGTCCCAGACA-CGTCTTACACTGGCTATC-TCTGTCGA-GGCCGATACATGTCC
1 -TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGT--ATGGCTGATGCATGTCC
*
112422028 CAGACATGTCTTACACTGGCACTCATCTCTGTA
62 CAGACATGTCTTACACTAGCAC-CATCTCTGTA
*
112422061 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTTATGCATGTCCCAGA
1 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
* * * *
112422126 CATGTCTTACACTAGC-CCTTGTTTGGATG
66 CATGTCTTACACTAGCACCATCTCT-G-TA
*
112422155 TCGATGCCATGTCCTAGACAT-GTCTTACACTGGC
1 TCGATGCCATGTCCCAGACATGGTCTTACACTGGC
112422189 GCACAAATCA
Statistics
Matches: 184, Mismatches: 24, Indels: 27
0.78 0.10 0.11
Matches are distributed among these distances:
91 32 0.17
92 21 0.11
93 39 0.21
94 71 0.39
95 20 0.11
96 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (93 bp):
TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
CATGTCTTACACTAGCACCATCTCTGTA
Found at i:112422166 original size:47 final size:46
Alignment explanation
Indices: 112421874--112422188 Score: 163
Period size: 47 Copynumber: 6.7 Consensus size: 46
112421864 GGATATATTG
* * * * *
112421874 TCGATGCTATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGTGT
1 TCGATGCCATGTCCCAGACAT-GTCTTACACTGGCAC-CTTGTATG-GT
* * *
112421923 GCTGATG-CATGTTCCAGACATGTCTTACACTAGCACAACTCT-TA--G-
1 TC-GATGCCATGTCCCAGACATGTCTTACACTGGCAC--CT-TGTATGGT
* * * *
112421968 TCGAT-ACGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGA-GG-
1 TCGATGCCATGTCCCAGACATGTCTTACACTGGC-ACCT-TGT--ATGGT
* * * * *
112422015 CCGAT-ACATGTCCCAGACATGTCTTACACTGGCACTCATCTCT-GT
1 TCGATGCCATGTCCCAGACATGTCTTACACTGGCAC-CTTGTATGGT
* *
112422060 ATCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCT
1 -TCGATGCCATGTCCCAGACAT-GTCTTACACTGGC-A-CCTTGTATGG-T
* *
112422111 T--ATG-CATGTCCCAGACATGTCTTACACTAGC-CCTTGTTTGGAT
1 TCGATGCCATGTCCCAGACATGTCTTACACTGGCACCTTGTATGG-T
*
112422154 GTCGATGCCATGTCCTAGACATGTCTTACACTGGC
1 -TCGATGCCATGTCCCAGACATGTCTTACACTGGC
112422189 GCACAAATCA
Statistics
Matches: 209, Mismatches: 34, Indels: 48
0.72 0.12 0.16
Matches are distributed among these distances:
43 12 0.06
44 29 0.14
45 2 0.01
46 24 0.11
47 85 0.41
48 29 0.14
49 19 0.09
50 8 0.04
51 1 0.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (46 bp):
TCGATGCCATGTCCCAGACATGTCTTACACTGGCACCTTGTATGGT
Found at i:112424509 original size:47 final size:46
Alignment explanation
Indices: 112424446--112424614 Score: 155
Period size: 47 Copynumber: 3.6 Consensus size: 46
112424436 GACGAGGGCT
* *
112424446 AGTGTAAGACGTGTCTGGGACATGCATCAGCCGCATCATGGTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCGCATGATGGTAGCC
* * ** * *
112424492 CGTGTAAGACCACGTCTGAAACATGGCATC-GGCGTA-GA-GGTGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCGCATGATGGT-A--GCC
* *
112424540 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGATGATGTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCGC-ATGATGGTAGCC
**
112424587 AGTGTAAGATGTGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
112424615 GGCTAAGTTT
Statistics
Matches: 96, Mismatches: 18, Indels: 17
0.73 0.14 0.13
Matches are distributed among these distances:
45 3 0.03
46 15 0.16
47 56 0.58
48 17 0.18
49 3 0.03
50 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCGCATGATGGTAGCC
Found at i:112424563 original size:94 final size:91
Alignment explanation
Indices: 112424446--112424657 Score: 246
Period size: 94 Copynumber: 2.3 Consensus size: 91
112424436 GACGAGGGCT
* *
112424446 AGTGTAAGACGTGTCTGGGACATGCATCAGCCGC-ATCATGGTAGCCCGTGTAAGACCACGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCGCGATCATGGTAGCCAGTGTAAGA-CACGTCTG
112424510 AAACATGGCATCGGCGTAGAGGTGAGTGCC
65 AAACAT-GCATCGGC-TA-AGGTGAGTGCC
* * * *** *
112424540 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGATGATGTTAGCCAGTGTAAGATGTGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCGCGATCATGGTAGCCAGTGTAAGACACGTCTGA
* * ** *
112424605 GACATGCATCGGCTAAGTTTCGTGCT
66 AACATGCATCGGCTAAGGTGAGTGCC
*
112424631 AGTGTAAGACATGTCTAGGACATGCAT
1 AGTGTAAGACATGTCTGGGACATGCAT
112424658 TAGCACATAT
Statistics
Matches: 102, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
91 33 0.32
92 2 0.02
93 8 0.08
94 41 0.40
95 18 0.18
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (91 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCGCGATCATGGTAGCCAGTGTAAGACACGTCTGA
AACATGCATCGGCTAAGGTGAGTGCC
Found at i:112425576 original size:55 final size:55
Alignment explanation
Indices: 112425472--112425595 Score: 137
Period size: 55 Copynumber: 2.3 Consensus size: 55
112425462 CTTAAACTTT
* * * * * *
112425472 TAAA-TCAGTATTGTCCACGGTTAGGCCACACGGGTGTGTTCCATAGCCGTG-TC
1 TAAAGTCAGTATCGCCCACGGGTAGGCCACACGGGCGCGTTCCATAGCCGTGCCC
*
112425525 TATAAGTCAGTATCGCCCACGGGTAGGCCACACGGGCGCGTGT-CATGGCCGTGCCC
1 TA-AAGTCAGTATCGCCCACGGGTAGGCCACACGGGCGCGT-TCCATAGCCGTGCCC
*
112425581 TAAAGTCAGTGTCGC
1 TAAAGTCAGTATCGC
112425596 ACACAGGCTG
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
53 2 0.03
54 2 0.03
55 51 0.86
56 4 0.07
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.23
Consensus pattern (55 bp):
TAAAGTCAGTATCGCCCACGGGTAGGCCACACGGGCGCGTTCCATAGCCGTGCCC
Found at i:112428436 original size:47 final size:47
Alignment explanation
Indices: 112428361--112428471 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 47
112428351 CCCCTCGGGA
* * *
112428361 CTTATCACATT-TATACACTTTCATATTCATCGCATTGGCCATTCGGC
1 CTTATCAC-TTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
112428408 CTTATCACTTATATACACTTTGACATTCATCACATCGGCCATTCGGC
1 CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
112428455 CTTATCACATATATACA
1 CTTATCACTTATATACA
112428472 TCTCATACAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.03
47 56 0.97
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.36
Consensus pattern (47 bp):
CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:112428527 original size:46 final size:46
Alignment explanation
Indices: 112428475--112428656 Score: 337
Period size: 46 Copynumber: 4.0 Consensus size: 46
112428465 ATATACATCT
* * *
112428475 CATACATGTTTCATACTAGCCATTTGGCTTTACCACACATATATCT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
112428521 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
112428567 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
112428613 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
112428657 ATATTTAACT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.34
Consensus pattern (46 bp):
CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
Found at i:112431407 original size:40 final size:40
Alignment explanation
Indices: 112431358--112431458 Score: 107
Period size: 40 Copynumber: 2.5 Consensus size: 40
112431348 GACTCGCTCG
* * *
112431358 ATTGTCTTCGGGACATAGCCCGG-TTATAGTGATTCACACA
1 ATTGCCTTCGGGACATAGCCCGGATT-TAGTAACTCACACA
*
112431398 ATTGCCTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACA
1 ATTGCCTTCGGGACA-TAGCCCGGATTTAGTAACTCACACA
** *
112431438 AAAGCCTTCGGGACTTAGCCC
1 ATTGCCTTCGGGACATAGCCC
112431459 AGATACCATT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
39 1 0.02
40 48 0.94
41 2 0.04
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
ATTGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACA
Found at i:112432171 original size:40 final size:40
Alignment explanation
Indices: 112432122--112432389 Score: 430
Period size: 40 Copynumber: 6.7 Consensus size: 40
112432112 CCAGCATGAT
* *
112432122 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
112432162 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* * *
112432202 TGCTCTTCGGAACTTAGTCCGGATACGTCACTAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
112432242 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
112432282 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* *
112432322 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
112432362 TGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TGCTCTTCGGAACTTAGCCCGGATACATC
112432390 GTCGAGACCT
Statistics
Matches: 217, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
39 3 0.01
40 214 0.99
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:112435021 original size:47 final size:47
Alignment explanation
Indices: 112434946--112435056 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 47
112434936 CCCCTCGGGA
* * *
112434946 CTTATCACATT-TATACACTTTCATATTCATCGCATTGGCCATTCGGC
1 CTTATCAC-TTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
112434993 CTTATCACTTATATACACTTTGACATTCATCACATCGGCCATTCGGC
1 CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
112435040 CTTATCACATATATACA
1 CTTATCACTTATATACA
112435057 TCTCATACAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.03
47 56 0.97
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.36
Consensus pattern (47 bp):
CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:112435112 original size:46 final size:46
Alignment explanation
Indices: 112435060--112435241 Score: 337
Period size: 46 Copynumber: 4.0 Consensus size: 46
112435050 ATATACATCT
* * *
112435060 CATACATGTTTCATACTAGCCATTTGGCTTTACCACACATATATCT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
112435106 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
112435152 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
112435198 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
112435242 ATATTTAACT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.34
Consensus pattern (46 bp):
CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
Found at i:112440138 original size:35 final size:35
Alignment explanation
Indices: 112440092--112440161 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
112440082 AAAGCAAATT
*
112440092 ATGCAAGCCTTGGTTCTTTTTCTCAAAATCATTTA
1 ATGCAAGCCTTGGTGCTTTTTCTCAAAATCATTTA
112440127 ATGCAAGCCTTGGTGCTTTTTCTCAAAATCATTTA
1 ATGCAAGCCTTGGTGCTTTTTCTCAAAATCATTTA
112440162 TGGTTGCTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (35 bp):
ATGCAAGCCTTGGTGCTTTTTCTCAAAATCATTTA
Found at i:112441251 original size:27 final size:26
Alignment explanation
Indices: 112441213--112441674 Score: 523
Period size: 27 Copynumber: 17.2 Consensus size: 26
112441203 GGCCGAGATG
112441213 ATGACCGAAATATCCCCATAGGGTAAA
1 ATGACCGAAATA-CCCCATAGGGTAAA
*
112441240 ATGACTGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATA-CCCCATAGGGTAAA
*
112441267 ATGACCGAAGTACCCCCATAGGGTAAA
1 ATGACCGAAATA-CCCCATAGGGTAAA
112441294 ATGACCGAAATACCCTCATAGGGTAAA
1 ATGACCGAAATACCC-CATAGGGTAAA
*
112441321 ATGACCAAAATATCCCCATAGGGTAAA
1 ATGACCGAAATA-CCCCATAGGGTAAA
112441348 ATGACCGAAATACCCCTATAGGGTAAA
1 ATGACCGAAATACCCC-ATAGGGTAAA
* *
112441375 ATGAACGAAATACCCCCATAGGATAAA
1 ATGACCGAAATA-CCCCATAGGGTAAA
***
112441402 ATGATTAAAATATCCCCATAGGGTAAA
1 ATGACCGAAATA-CCCCATAGGGTAAA
* *
112441429 AT-ACTGAAATACTCTCATAGGGTAAA
1 ATGACCGAAATAC-CCCATAGGGTAAA
112441455 ATGACCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATA-CCCCATAGGGTAAA
*
112441482 ATGACCGAAATACCCCTATAAGGTAAA
1 ATGACCGAAATACCCC-ATAGGGTAAA
* * *
112441509 ATGACTGTAATA-CCCATGTTGGGTAAA
1 ATGACCGAAATACCCCA--TAGGGTAAA
* *
112441536 ATAACCGAAAAACCCCATAGGGTAAA
1 ATGACCGAAATACCCCATAGGGTAAA
* *
112441562 ATGACCAAAATACTCCCATAAGGTAAA
1 ATGACCGAAATAC-CCCATAGGGTAAA
* *
112441589 ATAACCGAAATACCCCTATAAGGTAAA
1 ATGACCGAAATACCCC-ATAGGGTAAA
* *
112441616 ATGACTGTAATACCCCTATAGGGTAAA
1 ATGACCGAAATACCCC-ATAGGGTAAA
** * *
112441643 ATGAGTGTAATACCCCTGTAGGGTAAA
1 ATGACCGAAATACCCC-ATAGGGTAAA
112441670 ATGAC
1 ATGAC
112441675 TATAATACCC
Statistics
Matches: 380, Mismatches: 42, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
25 2 0.01
26 56 0.15
27 310 0.82
28 12 0.03
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (26 bp):
ATGACCGAAATACCCCATAGGGTAAA
Found at i:112441491 original size:107 final size:107
Alignment explanation
Indices: 112441216--112441644 Score: 546
Period size: 107 Copynumber: 4.0 Consensus size: 107
112441206 CGAGATGATG
* *
112441216 ACCGAAATA-TCCCCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCGAAGTAC
1 ACCGAAATACT-CCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATAC
* * *
112441280 CCCCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATG
65 CCCCATAAGGTAAAATGACTGAAATACCC-CATAGGGTAAAATA
* * *
112441324 ACCAAAATA-TCCCCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGAACGAAATAC
1 ACCGAAATACT-CCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATAC
* *
112441388 CCCCAT-AGGATAAAATGATTAAAATATCCCCATAGGGTAAAAT-
65 CCCCATAAGG-TAAAATGACTGAAATA-CCCCATAGGGTAAAATA
* *
112441431 ACTGAAATACTCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACC
1 ACCGAAATACTCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACC
* * *
112441496 CCTATAAGGTAAAATGACTGTAATA-CCCATGTTGGGTAAAATA
66 CCCATAAGGTAAAATGACTGAAATACCCCA--TAGGGTAAAATA
* * * * *
112441539 ACCGAAAAAC-CCCATAGGGTAAAATGACCAAAATACTCCCATAAGGTAAAATAACCGAAATACC
1 ACCGAAATACTCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACC
* *
112441603 CCTATAAGGTAAAATGACTGTAATACCCCTATAGGGTAAAAT
66 CCCATAAGGTAAAATGACTGAAATACCCC-ATAGGGTAAAAT
112441645 GAGTGTAATA
Statistics
Matches: 285, Mismatches: 27, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
105 4 0.01
107 171 0.60
108 106 0.37
109 4 0.01
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.20
Consensus pattern (107 bp):
ACCGAAATACTCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACC
CCCATAAGGTAAAATGACTGAAATACCCCATAGGGTAAAATA
Found at i:112448401 original size:50 final size:50
Alignment explanation
Indices: 112448242--112448612 Score: 275
Period size: 50 Copynumber: 7.7 Consensus size: 50
112448232 TGACCTATGT
** * *
112448242 GCTAGTGTAAGA-CATGTCTTTGACAT-GCATCGGCCAC-A-TTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGA
* * * * * * * * *
112448288 GCCAATGTAAGACCATGTATGGGATATAGCATCGACATTGAG--ACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGA
* * *
112448336 GCTAATGTAAGACCATGTCTGGGACATGACATCGGCCTCGAGATATGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGA
** * ** *
112448386 GCTAGTGTAAGACCATGTCTGGGACATAACATC-GACT--TTATATGTG-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGA
* * * * *
112448432 TC-AGTGTAAGACCATGTCTGGGACATGGCATCAGCATCGACAGATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGA
* * * * *
112448481 GCTAGTGTAAGACCATGTTTGGGAAATGGCATCAGCCTCAATATATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGA
* * * ** * *
112448531 -TTCAGTGTAAGACCATGTCTAGAACATGGCATCGG-CT-TTGATGTGTGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGA
*
112448579 GCTAGTGTAAGACCATGTCCGGGACATGGCATCG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG
112448613 ACATCTTACC
Statistics
Matches: 253, Mismatches: 59, Indels: 24
0.75 0.18 0.07
Matches are distributed among these distances:
45 28 0.11
46 13 0.05
47 15 0.06
48 85 0.34
49 9 0.04
50 103 0.41
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (50 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGA
Found at i:112448484 original size:95 final size:96
Alignment explanation
Indices: 112448245--112448614 Score: 315
Period size: 95 Copynumber: 3.9 Consensus size: 96
112448235 CCTATGTGCT
** ** * *
112448245 AGTGTAAGA-CATGTCTTTGACAT-GCATCGGCCA-C-ATTATGAGAGCCAATGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATCGAAGATGAGAGCTAGTGTAAGACCATGT
* * * * * * *
112448306 ATGGGATATAGCATCGAC-ATTGAGACGAGAGC
65 CTGGGACATGGCATCGACTAAT-ATATGAGATC
* * * * *
112448338 TAATGTAAGACCATGTCTGGGACATGACATCGGCCTCGAGATATGAAAGCTAGTGTAAGACCATG
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGA-AGATGAGAGCTAGTGTAAGACCATG
** * *
112448403 TCTGGGACATAACATCGACT-TTATATGTG-TC
64 TCTGGGACATGGCATCGACTAATATATGAGATC
*
112448434 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATCGACAGATGAGAGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGA-AGATGAGAGCTAGTGTAAGACCATGT
* * *
112448499 TTGGGAAATGGCATCAGCCTCAATATATGAGATTC
65 CTGGGACATGGCATC-GACT-AATATATGAGA-TC
* * * * * *
112448534 AGTGTAAGACCATGTCTAGAACATGGCATCGGCTTTGATG-TGTGAGCTAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAAGATGAGAGCTAGTGTAAGACCATGTC
*
112448598 CGGGACATGGCATCGAC
66 TGGGACATGGCATCGAC
112448615 ATCTTACCCT
Statistics
Matches: 224, Mismatches: 41, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
94 8 0.04
95 82 0.37
96 11 0.05
97 7 0.03
98 80 0.36
99 1 0.00
100 35 0.16
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAAGATGAGAGCTAGTGTAAGACCATGTC
TGGGACATGGCATCGACTAATATATGAGATC
Found at i:112448490 original size:145 final size:146
Alignment explanation
Indices: 112448293--112448617 Score: 381
Period size: 145 Copynumber: 2.2 Consensus size: 146
112448283 TGAGAGCCAA
* * * *
112448293 TGTAAGACCATGTATGGGATATAGCATCGACATTGAGACGAGAGCTAATGTAAGACCATGTCTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGACATCGAGACGAGAGCTAATGTAAGACCATGTCTGG
* * * * *
112448358 GACATGACATCGGCCTCGAGATATGAAAGCT-AGTGTAAGACCATGTCTGGGACATAACATCGAC
66 GAAATGACATCAGCCTCAAGATATGAAA-CTCAGTGTAAGACCATGTCTAGAACATAACATCGAC
*
112448422 TTT-ATATGTG-TC-AG
130 TTTGATATGTGAGCTAG
* * *
112448436 TGTAAGACCATGTCTGGGACATGGCATC-AGCATCGACAGATGAGAGCTAGTGTAAGACCATGTT
1 TGTAAGACCATGTCTGGGACATGGCATCGA-CATCG--AGACGAGAGCTAATGTAAGACCATGTC
* * * * **
112448500 TGGGAAATGGCATCAGCCTCAATATATGAGATTCAGTGTAAGACCATGTCTAGAACATGGCATCG
63 TGGGAAATGACATCAGCCTCAAGATATGAAACTCAGTGTAAGACCATGTCTAGAACATAACATCG
* *
112448565 GCTTTGATGTGTGAGCTAG
128 ACTTTGATATGTGAGCTAG
*
112448584 TGTAAGACCATGTCCGGGACATGGCATCGACATC
1 TGTAAGACCATGTCTGGGACATGGCATCGACATC
112448618 TTACCCTATG
Statistics
Matches: 152, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
142 1 0.01
143 29 0.19
144 1 0.01
145 80 0.53
146 6 0.04
147 1 0.01
148 33 0.22
149 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (146 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACATCGAGACGAGAGCTAATGTAAGACCATGTCTGG
GAAATGACATCAGCCTCAAGATATGAAACTCAGTGTAAGACCATGTCTAGAACATAACATCGACT
TTGATATGTGAGCTAG
Found at i:112451238 original size:23 final size:23
Alignment explanation
Indices: 112451212--112451258 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
112451202 CTCTGAGAAA
112451212 TGGCTATGAATTCTTATTGTTGT
1 TGGCTATGAATTCTTATTGTTGT
112451235 TGGCTATGAATTCTTATTGTTGT
1 TGGCTATGAATTCTTATTGTTGT
112451258 T
1 T
112451259 TTGAACTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.09, G:0.21, T:0.53
Consensus pattern (23 bp):
TGGCTATGAATTCTTATTGTTGT
Found at i:112452336 original size:50 final size:50
Alignment explanation
Indices: 112452282--112452378 Score: 194
Period size: 50 Copynumber: 1.9 Consensus size: 50
112452272 TTGAGTTATT
112452282 AGTATATGGCCAACAGGTGTGTCTCATATTGATTATGGTTTGTGGACTAA
1 AGTATATGGCCAACAGGTGTGTCTCATATTGATTATGGTTTGTGGACTAA
112452332 AGTATATGGCCAACAGGTGTGTCTCATATTGATTATGGTTTGTGGAC
1 AGTATATGGCCAACAGGTGTGTCTCATATTGATTATGGTTTGTGGAC
112452379 CTATCTATCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.36
Consensus pattern (50 bp):
AGTATATGGCCAACAGGTGTGTCTCATATTGATTATGGTTTGTGGACTAA
Found at i:112460505 original size:27 final size:27
Alignment explanation
Indices: 112460472--112460598 Score: 143
Period size: 27 Copynumber: 4.7 Consensus size: 27
112460462 TGGATAAGTT
*
112460472 GTAGAATTACCGAAATACCCCTATAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
112460499 GTAGAATTACCGGAATACCCCTGT-AG
1 GTAGAATTACCGAAATACCCCTGTAAG
* *
112460525 GATAGAATTACCGAAATACCCTTGTATG
1 G-TAGAATTACCGAAATACCCCTGTAAG
* * *
112460553 GTAGAAATATTC-AAATACCCCTGTAGG
1 GTAGAATTA-CCGAAATACCCCTGTAAG
112460580 GTAGAATTACC-AAGATACC
1 GTAGAATTACCGAA-ATACC
112460599 TTTATAGGGT
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
26 6 0.07
27 76 0.89
28 3 0.04
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAAG
Found at i:112460556 original size:54 final size:53
Alignment explanation
Indices: 112460473--112460618 Score: 168
Period size: 54 Copynumber: 2.7 Consensus size: 53
112460463 GGATAAGTTG
* *
112460473 TAGAATTACCGAAATACCCCTATAAGGTAGAATTACCGGAATACCCCTGTAGGA
1 TAGAATTACCGAAATACCCTTATAAGGTAGAATTACC-AAATACCCCTGTAGGA
* * * * *
112460527 TAGAATTACCGAAATACCCTTGTATGGTAGAAATATTCAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCTTATAAGGTAGAATTA-CCAAATACCCCTGTAGGA
* * *
112460581 TAGAATTACC-AAGATACCTTTATAGGGTAAAATTACCA
1 TAGAATTACCGAA-ATACCCTTATAAGGTAGAATTACCA
112460619 TTTTGTCCCT
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
53 4 0.05
54 72 0.94
55 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (53 bp):
TAGAATTACCGAAATACCCTTATAAGGTAGAATTACCAAATACCCCTGTAGGA
Found at i:112460606 original size:27 final size:26
Alignment explanation
Indices: 112460472--112460618 Score: 141
Period size: 27 Copynumber: 5.5 Consensus size: 26
112460462 TGGATAAGTT
* *
112460472 GTAGAATTACCGAAATACCCCTATAAG
1 GTAGAATTACC-AAATACCCCTGTAGG
*
112460499 GTAGAATTACCGGAATACCCCTGTAGG
1 GTAGAATTACC-AAATACCCCTGTAGG
* * *
112460526 ATAGAATTACCGAAATACCCTTGTATG
1 GTAGAATTACC-AAATACCCCTGTAGG
* *
112460553 GTAGAAATATTCAAATACCCCTGTAGG
1 GTAGAATTA-CCAAATACCCCTGTAGG
** *
112460580 GTAGAATTACCAAGATACCTTTATAGG
1 GTAGAATTACCAA-ATACCCCTGTAGG
*
112460607 GTAAAATTACCA
1 GTAGAATTACCA
112460619 TTTTGTCCCT
Statistics
Matches: 100, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 3 0.03
27 96 0.96
28 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (26 bp):
GTAGAATTACCAAATACCCCTGTAGG
Found at i:112468031 original size:27 final size:27
Alignment explanation
Indices: 112468000--112468140 Score: 169
Period size: 27 Copynumber: 5.3 Consensus size: 27
112467990 ATAAGTTGTA
*
112468000 AATTACCGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
112468027 AATTACCGAAATACCCCTGT-AGGATAG
1 AATTACCGAAATACCCCTGTAAGG-TAG
* *
112468054 AATTATCGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
* * *
112468081 AAATACTGAAATA-CCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
* * * *
112468107 AATTACCGAGATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAAGGTAG
112468134 AATTACC
1 AATTACC
112468141 ATTTTGCCCC
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
26 24 0.24
27 71 0.72
28 3 0.03
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAAGGTAG
Found at i:112468121 original size:53 final size:54
Alignment explanation
Indices: 112468000--112468136 Score: 188
Period size: 53 Copynumber: 2.6 Consensus size: 54
112467990 ATAAGTTGTA
* * *
112468000 AATTACCGAAATACCCCTATAAGGTAGAATTACCGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCTTGTAAGGTAGAAATACCGAAATACCCCTGTAGGATAG
* * *
112468054 AATTATCGAAATACCCTTGTAAGGTAGAAATACTGAAATA-CCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAAGGTAGAAATACCGAAATACCCCTGTAGGATAG
* *
112468107 AATTACCGAGATACCCTTGTAGGGTA-AAAT
1 AATTACCGAAATACCCTTGTAAGGTAGAAAT
112468137 TACCATTTTG
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
52 4 0.05
53 35 0.47
54 35 0.47
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (54 bp):
AATTACCGAAATACCCTTGTAAGGTAGAAATACCGAAATACCCCTGTAGGATAG
Found at i:112468903 original size:33 final size:32
Alignment explanation
Indices: 112468854--112468917 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
112468844 CTTGCTGCAA
* *
112468854 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
112468887 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
112468918 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:112468931 original size:27 final size:26
Alignment explanation
Indices: 112468879--112468938 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
112468869 ACATATATAT
*
112468879 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
112468905 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
112468932 ATATCTG
1 ATATCTG
112468939 GCAGCCTCAC
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:112481564 original size:41 final size:41
Alignment explanation
Indices: 112481464--112481653 Score: 276
Period size: 40 Copynumber: 4.7 Consensus size: 41
112481454 ATATGGTCCC
* * * *
112481464 AAATGCCTTCGGGACTTAGCCTGGATTTAGTAACTCGCACA
1 AAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACA
112481505 AAA-GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACA
1 AAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACA
* * *
112481545 AAATGCCTTCGGGTCTTAGCCCGGATATCGTCACTAGCGC-
1 AAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACA
*
112481585 AAATGCCTTCGGGACTTAACCCGGATATAGTCACTAGCACA
1 AAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACA
* *
112481626 AAGTGCCTTCGGGTCTTAGCCCGGATAT
1 AAATGCCTTCGGGACTTAGCCCGGATAT
112481654 CATCCGAATA
Statistics
Matches: 133, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 72 0.54
41 61 0.46
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (41 bp):
AAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACA
Found at i:112481599 original size:81 final size:81
Alignment explanation
Indices: 112481464--112481654 Score: 292
Period size: 81 Copynumber: 2.4 Consensus size: 81
112481454 ATATGGTCCC
* * * * * *
112481464 AAATGCCTTCGGGACTTAGCCTGGATTTAGTAACTCGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGTCTTAGCCCGGATATCGTAACTAGCACAAAAGCCTTCGGGACTTAACCCGGA
112481529 TATAGTCACTAGCACA
66 TATAGTCACTAGCACA
* * *
112481545 AAATGCCTTCGGGTCTTAGCCCGGATATCGTCACTAGCGCAAATGCCTTCGGGACTTAACCCGGA
1 AAATGCCTTCGGGTCTTAGCCCGGATATCGTAACTAGCACAAAAGCCTTCGGGACTTAACCCGGA
112481610 TATAGTCACTAGCACA
66 TATAGTCACTAGCACA
*
112481626 AAGTGCCTTCGGGTCTTAGCCCGGATATC
1 AAATGCCTTCGGGTCTTAGCCCGGATATC
112481655 ATCCGAATAA
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 100 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (81 bp):
AAATGCCTTCGGGTCTTAGCCCGGATATCGTAACTAGCACAAAAGCCTTCGGGACTTAACCCGGA
TATAGTCACTAGCACA
Found at i:112488434 original size:40 final size:40
Alignment explanation
Indices: 112488352--112488532 Score: 249
Period size: 40 Copynumber: 4.5 Consensus size: 40
112488342 ACCCAAGTTT
* * * *
112488352 CTTCGGGAT-TTAG-CCGGATATAACCACACGCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * * *
112488391 CTTCGGGTCTTAACTCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
112488431 CTTCGGGTCTTAGCCCGGTTATAACAACTCACACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
112488471 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
112488511 CTTCGGGTCTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
112488533 CATTCAAATG
Statistics
Matches: 124, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
38 1 0.01
39 10 0.08
40 113 0.91
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:112492308 original size:19 final size:19
Alignment explanation
Indices: 112492271--112492308 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
112492261 ACCTATCAGA
*
112492271 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
112492290 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
112492309 TAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:112503518 original size:83 final size:84
Alignment explanation
Indices: 112503376--112503604 Score: 239
Period size: 83 Copynumber: 2.7 Consensus size: 84
112503366 CTTTGTGACG
* ** * * * *
112503376 AACTACGAAAGAATAAGTCTTTGTGGGGAACTATGAAAGAATAAG-ATTTTGTGGAGAACTATGA
1 AACTATGAAAGAATAAACCCTTGTGGCGAACTATGAAAGAATAAGCA-CTTGTGGTGAACTATGA
* **
112503440 AACAATAAG-CCTTTATGGTG
65 AACAAAAAGACC-TTATGGCA
* * * *
112503460 AACTATGAAATAATAAACTCTTGT-GTGAACTATGAAAGATTAAGCACTTGTGGTGAACTATGAA
1 AACTATGAAAGAATAAACCCTTGTGGCGAACTATGAAAGAATAAGCACTTGTGGTGAACTATGAA
*
112503524 ACAAAAAGACCTTGTGGCA
66 ACAAAAAGACCTTATGGCA
* * * * *
112503543 AACTATGAAAGAATAAGCCCTTGTGGCGAACTATGAAAGACTAAGCCCTTGTTGTTAACTAT
1 AACTATGAAAGAATAAACCCTTGTGGCGAACTATGAAAGAATAAGCACTTGTGGTGAACTAT
112503605 CAAAGATTAA
Statistics
Matches: 120, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
83 67 0.56
84 53 0.44
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (84 bp):
AACTATGAAAGAATAAACCCTTGTGGCGAACTATGAAAGAATAAGCACTTGTGGTGAACTATGAA
ACAAAAAGACCTTATGGCA
Found at i:112503574 original size:111 final size:112
Alignment explanation
Indices: 112503396--112503614 Score: 280
Period size: 111 Copynumber: 2.0 Consensus size: 112
112503386 GAATAAGTCT
* * ** * *
112503396 TTGTGGGGAACTATGAAAGAATAAGATTTTGTGGAGAACTATGAAACAATAAGCCTTTATGGTGA
1 TTGTGGGGAACTATGAAACAAAAAGACCTTGTGGAGAACTATGAAACAATAAGCCCTTATGGCGA
* * *
112503461 ACTATGAAATAATAAACTCTTG-TGTGAACTATGAAAGATTAAGCAC
66 ACTATGAAAGAATAAACCCTTGTTGTGAACTATCAAAGATTAAGCAC
* * *
112503507 TTGTGGTGAACTATGAAACAAAAAGACCTTGTGGCA-AACTATGAAAGAATAAGCCCTTGTGGCG
1 TTGTGGGGAACTATGAAACAAAAAGACCTTGTGG-AGAACTATGAAACAATAAGCCCTTATGGCG
* * *
112503571 AACTATGAAAGACTAAGCCCTTGTTGTTAACTATCAAAGATTAA
65 AACTATGAAAGAATAAACCCTTGTTGTGAACTATCAAAGATTAA
112503615 ACCCTTATGG
Statistics
Matches: 91, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
111 72 0.79
112 19 0.21
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (112 bp):
TTGTGGGGAACTATGAAACAAAAAGACCTTGTGGAGAACTATGAAACAATAAGCCCTTATGGCGA
ACTATGAAAGAATAAACCCTTGTTGTGAACTATCAAAGATTAAGCAC
Found at i:112503602 original size:28 final size:28
Alignment explanation
Indices: 112503354--112503620 Score: 239
Period size: 28 Copynumber: 9.6 Consensus size: 28
112503344 AACATGTTAG
* * ** *
112503354 GAAAGAACAAGCCTTTGTGACGAACTAC
1 GAAAGAATAAGCCCTTGTGGTGAACTAT
* * *
112503382 GAAAGAATAAGTCTTTGTGGGGAACTAT
1 GAAAGAATAAGCCCTTGTGGTGAACTAT
*** *
112503410 GAAAGAATAAGATTTTGTGGAGAACTAT
1 GAAAGAATAAGCCCTTGTGGTGAACTAT
* * *
112503438 GAAACAATAAGCCTTTATGGTGAACTAT
1 GAAAGAATAAGCCCTTGTGGTGAACTAT
* * *
112503466 GAAATAATAAACTCTTGT-GTGAACTAT
1 GAAAGAATAAGCCCTTGTGGTGAACTAT
* *
112503493 GAAAGATTAAGCACTTGTGGTGAACTAT
1 GAAAGAATAAGCCCTTGTGGTGAACTAT
* * * **
112503521 GAAACAAAAAGACCTTGTGGCAAACTAT
1 GAAAGAATAAGCCCTTGTGGTGAACTAT
*
112503549 GAAAGAATAAGCCCTTGTGGCGAACTAT
1 GAAAGAATAAGCCCTTGTGGTGAACTAT
* * *
112503577 GAAAGACTAAGCCCTTGTTGTTAACTAT
1 GAAAGAATAAGCCCTTGTGGTGAACTAT
* * *
112503605 CAAAGATTAAACCCTT
1 GAAAGAATAAGCCCTT
112503621 ATGGCGACTC
Statistics
Matches: 198, Mismatches: 40, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
27 23 0.12
28 175 0.88
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (28 bp):
GAAAGAATAAGCCCTTGTGGTGAACTAT
Found at i:112508162 original size:24 final size:24
Alignment explanation
Indices: 112508135--112508232 Score: 151
Period size: 24 Copynumber: 4.0 Consensus size: 24
112508125 AAGGCTGTCA
112508135 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
112508159 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* * *
112508183 GGAGAGGATTTAGGAACTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
112508207 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
112508232 G
1 G
112508233 AGCAGGAGTT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
24 64 0.96
25 3 0.04
ACGTcount: A:0.37, C:0.05, G:0.38, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:112516086 original size:24 final size:24
Alignment explanation
Indices: 112516059--112516180 Score: 181
Period size: 24 Copynumber: 5.0 Consensus size: 24
112516049 AAGGCTGTCA
112516059 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* * *
112516083 GGAGAGGATTTAGAAGTTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
112516107 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
*
112516131 GGAGAAGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
112516155 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
112516180 G
1 G
112516181 AGCAGGAGTT
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
24 86 0.97
25 3 0.03
ACGTcount: A:0.38, C:0.04, G:0.37, T:0.21
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:112516133 original size:12 final size:12
Alignment explanation
Indices: 112516118--112516183 Score: 51
Period size: 12 Copynumber: 5.5 Consensus size: 12
112516108 GAGAGGATTT
112516118 AGGAGCTGATAA
1 AGGAGCTGATAA
** **
112516130 AGGAGAAGATTT
1 AGGAGCTGATAA
112516142 AGGAGCTGATAA
1 AGGAGCTGATAA
** **
112516154 AGGAGAAGATTT
1 AGGAGCTGATAA
*
112516166 AGGAGCTGATCA
1 AGGAGCTGATAA
112516178 AGGAGC
1 AGGAGC
112516184 AGGAGTTGGC
Statistics
Matches: 38, Mismatches: 16, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.39, C:0.08, G:0.35, T:0.18
Consensus pattern (12 bp):
AGGAGCTGATAA
Found at i:112517839 original size:33 final size:34
Alignment explanation
Indices: 112517762--112517842 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
112517752 TATGGGCCAT
*
112517762 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
* * **
112517796 AATGTAATCTGAA-AA-GGGCTCTGGCCCAGTATC
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGT-TC
112517829 ACTGTTATCTGAAT
1 ACTGTTATCTGAAT
112517843 GGGCTTAGGC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 13 0.34
33 14 0.37
34 11 0.29
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:112517847 original size:32 final size:31
Alignment explanation
Indices: 112517762--112517854 Score: 78
Period size: 32 Copynumber: 2.8 Consensus size: 31
112517752 TATGGGCCAT
*
112517762 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAAT---GGGCTAAGGCCCAGTTC
* * * **
112517796 AATGTAATCTGAAAAGGGCTCTGGCCCAGTATC
1 ACTGTTATCTG-AATGGGCTAAGGCCCAGT-TC
*
112517829 ACTGTTATCTGAATGGGCTTAGGCCC
1 ACTGTTATCTGAATGGGCTAAGGCCC
112517855 GATGGGCTTG
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
32 25 0.54
33 10 0.22
34 9 0.20
35 2 0.04
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (31 bp):
ACTGTTATCTGAATGGGCTAAGGCCCAGTTC
Found at i:112521910 original size:20 final size:20
Alignment explanation
Indices: 112521869--112521910 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
112521859 TCAACCCATC
* *
112521869 TTTTGCTTTATCGTCCTTAT
1 TTTTGCTTAATCGTCCTCAT
112521889 TTTTGCTTGAATCGT-CTCAT
1 TTTTGCTT-AATCGTCCTCAT
112521909 TT
1 TT
112521911 CTTCCTCGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.12, C:0.19, G:0.12, T:0.57
Consensus pattern (20 bp):
TTTTGCTTAATCGTCCTCAT
Found at i:112532321 original size:14 final size:14
Alignment explanation
Indices: 112532302--112532330 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
112532292 CCCATGGTGT
112532302 AGCCACAATTCGAG
1 AGCCACAATTCGAG
112532316 AGCCACAATTCGAG
1 AGCCACAATTCGAG
112532330 A
1 A
112532331 TTTACGTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.28, G:0.21, T:0.14
Consensus pattern (14 bp):
AGCCACAATTCGAG
Found at i:112540928 original size:39 final size:39
Alignment explanation
Indices: 112540869--112540948 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
112540859 CCTCTCCTCC
112540869 CTGGCTACCCGTTACAAGTCTAGAATCAGACGGTGCTAT
1 CTGGCTACCCGTTACAAGTCTAGAATCAGACGGTGCTAT
*
112540908 CTGGCTACCCGTTACGAGTCTAGAATCAGACGGTGCTAT
1 CTGGCTACCCGTTACAAGTCTAGAATCAGACGGTGCTAT
112540947 CT
1 CT
112540949 CTTCAGTGGG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CTGGCTACCCGTTACAAGTCTAGAATCAGACGGTGCTAT
Found at i:112545569 original size:55 final size:54
Alignment explanation
Indices: 112545489--112545647 Score: 198
Period size: 55 Copynumber: 2.9 Consensus size: 54
112545479 TATGTGGTAT
*
112545489 CCTTGCCTTAT-GAACTCA-CTAATGCCATGCCTTGGCATTGTCTTACATG-GGA
1 CCTTGCCTTATAGAACTCATC-AATGCCATGCCTTGGCATGGTCTTACATGAGGA
* * * ***
112545541 CCTTTTCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTT
1 CC-TTGCCTTATAG-AACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAGGA
*
112545597 CCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGA
1 CCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGA
112545648 TATCCTTATC
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
52 2 0.02
53 8 0.09
54 36 0.40
55 42 0.46
56 3 0.03
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
CCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAGGA
Found at i:112545638 original size:54 final size:54
Alignment explanation
Indices: 112545471--112545654 Score: 221
Period size: 54 Copynumber: 3.4 Consensus size: 54
112545461 CATGTCTAGA
** *
112545471 CATGGTCTTATGTGGTATCCTTGCCTTAT-GAACTCA-CTAATGCCATGCCTTGG
1 CATGGTCTTACATGATATCCTTGCCTTATAGAACTCATC-AATGCCATGCCTTGG
* ** * * *
112545524 CATTGTCTTACATGGGA-CCTTTTCCTTATAGTAACTCATCAATGCCATGTCTTGA
1 CATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAATGCCATGCCTTGG
* *
112545579 CATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGG
1 CATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGG
112545633 CATGGTCTTACATGATATCCTT
1 CATGGTCTTACATGATATCCTT
112545655 ATCTTACCAA
Statistics
Matches: 110, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
52 2 0.02
53 21 0.19
54 42 0.38
55 42 0.38
56 3 0.03
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.38
Consensus pattern (54 bp):
CATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGG
Found at i:112545688 original size:47 final size:47
Alignment explanation
Indices: 112545633--112545754 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
112545623 CATGCCTTGG
* *
112545633 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
112545680 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
112545727 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
112545755 GTGCCAATGC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:112547617 original size:40 final size:40
Alignment explanation
Indices: 112547572--112547739 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
112547562 CGGAATATAA
112547572 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
112547612 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
112547652 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
112547692 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
112547732 CCGGATAT
1 CCGGATAT
112547740 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:112556506 original size:40 final size:40
Alignment explanation
Indices: 112556424--112556643 Score: 236
Period size: 40 Copynumber: 5.5 Consensus size: 40
112556414 ACCCAAGTAT
* * * *
112556424 CTTCGGGATTTAG-CCAGATATAG-CAACTCGC-ACAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCAAAAATGC
* * *
112556462 CTTCGGGTCTTAGCCCGGATGTAGTCACTTGCAAAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCAAAAATGC
* *
112556502 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATAC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCAAAAATGC
* * *
112556542 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCAAAAATGC
* *
112556582 CTTC-GGATCTTAGTCC-GATTATAGTCACTAACACAAAA-GC
1 CTTCGGGA-CTTAGCCCGGA-TATAGTCACTAGCA-AAAATGC
112556622 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
112556644 CATTCGAATA
Statistics
Matches: 154, Mismatches: 20, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
38 11 0.07
39 18 0.12
40 117 0.76
41 8 0.05
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCAAAAATGC
Found at i:112556624 original size:120 final size:118
Alignment explanation
Indices: 112556424--112556643 Score: 318
Period size: 120 Copynumber: 1.8 Consensus size: 118
112556414 ACCCAAGTAT
* * *
112556424 CTTCGGGATTTAGCCAGATATAGCAACTCGCACAATGCCTTCGGGTCTTAGCCCGGATGTAGTCA
1 CTTCGGGACTTAGCCAGATATAGCAACTCGCACAATGCCTTCGGATCTTAGCCCGGATATAGTCA
**
112556489 CTTGCAAAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATAC
66 CTAACAAAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATAC
* * *
112556542 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAGTCC-GATTATAG
1 CTTCGGGACTTAG-CCAGATATAGCAACTCGCAC-AATGCCTTCGGATCTTAGCCCGGA-TATAG
112556606 TCACTAACACAAAA-GCCTTCGGGACTTAGCCCGGATAT
63 TCACTAACA-AAAATGCCTTCGGGACTTAGCCCGGATAT
112556644 CATTCGAATA
Statistics
Matches: 90, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
118 12 0.13
119 20 0.22
120 54 0.60
121 4 0.04
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (118 bp):
CTTCGGGACTTAGCCAGATATAGCAACTCGCACAATGCCTTCGGATCTTAGCCCGGATATAGTCA
CTAACAAAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATAC
Found at i:112564447 original size:40 final size:40
Alignment explanation
Indices: 112564365--112564583 Score: 270
Period size: 40 Copynumber: 5.5 Consensus size: 40
112564355 ACCCAAGTAT
* * *
112564365 CTTCGGGATTTAG-CCGAATATAG-CAACTCGCAC-AATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
112564403 CTTCGGGTCTTAGCCCGGATGTAGTCACTTGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
112564443 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
112564483 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
112564523 CTTC-GGATCTTAGTCC-GATTATAGTCACTAACACAAA-GC
1 CTTCGGGA-CTTAGCCCGGA-TATAGTCACTAGCACAAATGC
112564562 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
112564584 CATTCGAATA
Statistics
Matches: 157, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
38 11 0.07
39 35 0.22
40 111 0.71
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:112564575 original size:119 final size:118
Alignment explanation
Indices: 112564365--112564583 Score: 316
Period size: 119 Copynumber: 1.8 Consensus size: 118
112564355 ACCCAAGTAT
* * *
112564365 CTTCGGGATTTAGCCGAATATAGCAACTCGCACAATGCCTTCGGGTCTTAGCCCGGATGTAGTCA
1 CTTCGGGACTTAGCCGAATATAGCAACTCGCACAATGCCTTCGGATCTTAGCCCGGATATAGTCA
** *
112564430 CTTGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
66 CTAACACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
112564483 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAGTCC-GATTATAG
1 CTTCGGGACTTAG-CCGAATATAGCAACTCGCAC-AATGCCTTCGGATCTTAGCCCGGA-TATAG
112564547 TCACTAACACAAA-GCCTTCGGGACTTAGCCCGGATAT
63 TCACTAACACAAATGCCTTCGGGACTTAGCCCGGATAT
112564584 CATTCGAATA
Statistics
Matches: 89, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
118 12 0.13
119 44 0.49
120 33 0.37
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (118 bp):
CTTCGGGACTTAGCCGAATATAGCAACTCGCACAATGCCTTCGGATCTTAGCCCGGATATAGTCA
CTAACACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:112566326 original size:54 final size:55
Alignment explanation
Indices: 112566156--112566338 Score: 198
Period size: 55 Copynumber: 3.4 Consensus size: 55
112566146 GGGCTGTCAT
* * * *
112566156 ATGGCCTTACGTGGTATCCTTGCGTTAT-G-AACTCA-CTAATGCCATGCCTTGGC
1 ATGGTCTTACATGATATCCTTGCCTTATAGTAACTCATC-AATGCCATGCCTTGGC
** * * **
112566209 ATGGTCTTACATGGGA-CCTTTTCCTTATAGTAACTCATCAATGCCATGTCTTAAC
1 ATGGTCTTACATGATATCC-TTGCCTTATAGTAACTCATCAATGCCATGCCTTGGC
*
112566264 ATGGTCTTACATGATTTCCTTGCCTTATAG-AACAT-ATCAATGCCATGCCTTGGC
1 ATGGTCTTACATGATATCCTTGCCTTATAGTAAC-TCATCAATGCCATGCCTTGGC
112566318 ATGGTCTTACATGATATCCTT
1 ATGGTCTTACATGATATCCTT
112566339 ATCTTACCAA
Statistics
Matches: 108, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
52 2 0.02
53 20 0.19
54 40 0.37
55 43 0.40
56 3 0.03
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (55 bp):
ATGGTCTTACATGATATCCTTGCCTTATAGTAACTCATCAATGCCATGCCTTGGC
Found at i:112566370 original size:47 final size:47
Alignment explanation
Indices: 112566317--112566437 Score: 206
Period size: 47 Copynumber: 2.6 Consensus size: 47
112566307 CATGCCTTGG
* *
112566317 CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
* *
112566364 CATGGTCTTACATGGTATCATTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
112566411 CATGGTCTTACATGGTATCCTTATCTT
1 CATGGTCTTACATGGTATCCTTATCTT
112566438 GGTGCCAATG
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:112566512 original size:47 final size:45
Alignment explanation
Indices: 112566301--112566570 Score: 147
Period size: 47 Copynumber: 5.8 Consensus size: 45
112566291 TAGAACATAT
* * * * *
112566301 CAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT-ATCTTAC
1 CAATGCCATGTCTTGACATGGTCTTACATG-GATCCTTCATCATGC
* *** * * * *
112566346 CAAATGTCATGTTCCAAACATGGTCTTACATGGTATCATT-GTCTTAC
1 C-AATGCCATG-TCTTGACATGGTCTTACATGG-ATCCTTCATCATGC
*** *
112566393 CAAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTT-ATCTTGGTGC
1 C-AATGCCATG-TCTTGACATGGTCTTACATGG-ATCCTTCATC---ATGC
**
112566443 CAATGCCACATCTTGATC-TGGTCTTACATGGAGTCCTTCATCAATGC
1 CAATGCCATGTCTTGA-CATGGTCTTACATGGA-TCCTTCATC-ATGC
* * *
112566490 CAATGCCATGTCTTGACATGGTCTTACACAGGATCCTTGC--CCTAC
1 CAATGCCATGTCTTGACATGGTCTTACA-TGGATCCTT-CATCATGC
*
112566535 CAATGCCATGTCTTAACATGGTCTTACATGGTATCC
1 CAATGCCATGTCTTGACATGGTCTTACATGG-ATCC
112566571 CTAATTCCTC
Statistics
Matches: 184, Mismatches: 28, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
44 2 0.01
45 34 0.18
46 10 0.05
47 99 0.54
48 25 0.14
49 11 0.06
50 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (45 bp):
CAATGCCATGTCTTGACATGGTCTTACATGGATCCTTCATCATGC
Found at i:112571473 original size:19 final size:18
Alignment explanation
Indices: 112571439--112571485 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
112571429 TTTTTATCAT
112571439 TTATCATTTA-TCAGGCA
1 TTATCATTTATTCAGGCA
112571456 TTATCATTTATTTCAGGCA
1 TTATCATTTA-TTCAGGCA
*
112571475 TTATCACTTAT
1 TTATCATTTAT
112571486 CGGGCTTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 10 0.37
18 1 0.04
19 16 0.59
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.47
Consensus pattern (18 bp):
TTATCATTTATTCAGGCA
Found at i:112575462 original size:49 final size:47
Alignment explanation
Indices: 112575294--112575515 Score: 129
Period size: 48 Copynumber: 4.7 Consensus size: 47
112575284 ATTATGAGAG
* * * * *
112575294 CCAGTGCAAGACCATGTCTAGGACATGGCATCAGCATTGAGA-CGA-GAG
1 CCAGTGTAAGACCATGTTTGGGACATGGCATC-G-ACTG-GATCGATGAA
* * * **
112575342 CTAGTGTAAGAACATGTCTGGGACATGGCATCAGCAC-GGATATATGAGA
1 CCAGTGTAAGACCATGTTTGGGACATGGCATC-G-ACTGGATCGATGA-A
* * *
112575391 GCTAGTGTAAGA-C----TTGGGACATGGCGTCAGCCTGGATTTCGAT-AA
1 -CCAGTGTAAGACCATGTTTGGGACATGGCATC-GACTGGA--TCGATGAA
* * * *
112575436 TCAGTGTAAGACCATGTTTGGGACATGGCATCGACTTGATGGATGAG
1 CCAGTGTAAGACCATGTTTGGGACATGGCATCGACTGGATCGATGAA
*
112575483 CCAGTGTAAGACCATGTTTGGGACATGGAATCG
1 CCAGTGTAAGACCATGTTTGGGACATGGCATCG
112575516 GGATTATACC
Statistics
Matches: 139, Mismatches: 22, Indels: 27
0.74 0.12 0.14
Matches are distributed among these distances:
44 10 0.07
45 20 0.14
46 7 0.05
47 37 0.27
48 39 0.28
49 15 0.11
50 11 0.08
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (47 bp):
CCAGTGTAAGACCATGTTTGGGACATGGCATCGACTGGATCGATGAA
Found at i:112586082 original size:39 final size:39
Alignment explanation
Indices: 112586001--112586220 Score: 314
Period size: 39 Copynumber: 5.6 Consensus size: 39
112585991 AACATGTTTT
* *
112586001 TGAGTATTTTGATATATGCTTAAAATATTATGTGATTATA
1 TGAGTATTGTGATATATGCTT-AAATGTTATGTGATTATA
112586041 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * *
112586080 TGAGTATTCTGATAAATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* *
112586119 TGAGAATTGTGATATATACTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* *
112586158 TGAGTATTGTGACATATGCTTAAATTTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
** * *
112586197 TGCTTAATATGATATATGCTTAAA
1 TGAGTATTGTGATATATGCTTAAA
112586221 AGTGAATATG
Statistics
Matches: 161, Mismatches: 19, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 141 0.88
40 20 0.12
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.45
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:112586229 original size:16 final size:16
Alignment explanation
Indices: 112586193--112586230 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
112586183 TTTATGTGAT
*
112586193 TATATGCTTAATATGA
1 TATATGCTTAAAATGA
112586209 TATATGCTTAAAAGTGA
1 TATATGCTTAAAA-TGA
112586226 -ATATG
1 TATATG
112586231 ATTACCATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.39
Consensus pattern (16 bp):
TATATGCTTAAAATGA
Found at i:112587079 original size:68 final size:68
Alignment explanation
Indices: 112586970--112587106 Score: 229
Period size: 68 Copynumber: 2.0 Consensus size: 68
112586960 TCAGTTTTGA
* * * *
112586970 GATTTTGCTGAGTGGACCTTATACATGTTTAATTATTATTACAAGAATATTTGATGTATGTTCAG
1 GATTTTGCTAAATGGACCTTATACATGTTTAATTATTATTACAAGAATATCTAATGTATGTTCAG
112587035 CAT
66 CAT
*
112587038 GATTTTGCTAAATGGACCTTATACATGTTTAATTATTATTACAAGAATATCTAATTTATGTTCAG
1 GATTTTGCTAAATGGACCTTATACATGTTTAATTATTATTACAAGAATATCTAATGTATGTTCAG
112587103 CAT
66 CAT
112587106 G
1 G
112587107 CAACAATGAT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.42
Consensus pattern (68 bp):
GATTTTGCTAAATGGACCTTATACATGTTTAATTATTATTACAAGAATATCTAATGTATGTTCAG
CAT
Found at i:112607302 original size:39 final size:39
Alignment explanation
Indices: 112607259--112607371 Score: 113
Period size: 39 Copynumber: 2.9 Consensus size: 39
112607249 TTGGATAGTT
*
112607259 CGAAGTAATAGTTGACACCTAGTGTCTCATCGACCTAGC
1 CGAAGTAATAGTTGACACCCAGTGTCTCATCGACCTAGC
** ** * *
112607298 CGAAGTAA-AGTTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGTAATAGTTGACACCCAGTGTCTCATCG-ACCTAGC
*
112607337 CGAAGAAATTTAG-TGACACCCAGTGTCTCATCGAC
1 CGAAGTAA--TAGTTGACACCCAGTGTCTCATCGAC
112607372 TCGAGGTCGA
Statistics
Matches: 57, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
38 18 0.32
39 20 0.35
40 1 0.02
41 16 0.28
42 2 0.04
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (39 bp):
CGAAGTAATAGTTGACACCCAGTGTCTCATCGACCTAGC
Found at i:112621604 original size:40 final size:40
Alignment explanation
Indices: 112621545--112621731 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
112621535 CATTGGAATG
* * * *
112621545 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
112621585 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
112621625 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * * *
112621665 AAATCCGGGTTAAGACCCGAAGGCAATCGTGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTATT
* * * *
112621705 ATAACCGGGCTAGGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
112621732 CGAGCGAGTC
Statistics
Matches: 122, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.94
41 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:112621647 original size:80 final size:80
Alignment explanation
Indices: 112621545--112621698 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
112621535 CATTGGAATG
* * ** *
112621545 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
112621610 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * *
112621625 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
112621690 ATCGTGCGA
66 ATCGTGCGA
112621699 ATCACTATAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:112621713 original size:80 final size:80
Alignment explanation
Indices: 112621549--112621731 Score: 213
Period size: 80 Copynumber: 2.3 Consensus size: 80
112621539 GGAATGATAT
* ** * *
112621549 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
* *** *
112621614 TGCGAGTTGTTATAT
66 TGCGAATCACTATAA
* * * * *
112621629 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
112621694 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* *
112621709 CCGGGCTAGGTCCCGAAGACAAT
1 CCGGGCTAAGTCCCGAAGGCAAT
112621732 CGAGCGAGTC
Statistics
Matches: 84, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 84 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:112621751 original size:80 final size:80
Alignment explanation
Indices: 112621549--112621766 Score: 181
Period size: 80 Copynumber: 2.7 Consensus size: 80
112621539 GGAATGATAT
* * * * * * * *
112621549 CCGGGCTAAGTCCCGAAGGCAAT-TATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTC
1 CCGGGCTAAGACCCGAAGACAATCGA-GCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATC
* *** *
112621613 GTGCGAGTTGTTATAT
65 GTGCGAATCACTATAA
* * * * * * *
112621629 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
112621694 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* * * *
112621709 CCGGGCTAGGTCCCGAAGACAATCGAGCGAGTCGCTATATCC-GGTTAA-ATCCCGAAGG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGA-CCCGAAGG
112621767 TACGTGATTC
Statistics
Matches: 109, Mismatches: 27, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
78 1 0.01
79 14 0.13
80 94 0.86
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:112629974 original size:20 final size:20
Alignment explanation
Indices: 112629949--112629989 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
112629939 GAAATGGGAA
112629949 AGAGTTACTATGGATTTTGT
1 AGAGTTACTATGGATTTTGT
112629969 AGAGTTACTATGGATTTTGT
1 AGAGTTACTATGGATTTTGT
112629989 A
1 A
112629990 ATGGGATTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.05, G:0.24, T:0.44
Consensus pattern (20 bp):
AGAGTTACTATGGATTTTGT
Found at i:112635389 original size:15 final size:15
Alignment explanation
Indices: 112635369--112635433 Score: 80
Period size: 15 Copynumber: 4.4 Consensus size: 15
112635359 ATAACATAAA
112635369 TTCAATACTTAATTT
1 TTCAATACTTAATTT
*
112635384 TTCAATACTTATTTT
1 TTCAATACTTAATTT
*
112635399 TTCAATGCTT-ATTT
1 TTCAATACTTAATTT
*
112635413 TTC-ATCATTTAATTT
1 TTCAAT-ACTTAATTT
112635428 TTCAAT
1 TTCAAT
112635434 TTATCAAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
13 2 0.05
14 8 0.19
15 30 0.71
16 2 0.05
ACGTcount: A:0.28, C:0.14, G:0.02, T:0.57
Consensus pattern (15 bp):
TTCAATACTTAATTT
Found at i:112635412 original size:29 final size:30
Alignment explanation
Indices: 112635369--112635433 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
112635359 ATAACATAAA
*
112635369 TTCAATACTTAATTTTTCAAT-ACTTATTTT
1 TTCAATACTTAATTTTTC-ATCACTTAATTT
* *
112635399 TTCAATGCTT-ATTTTTCATCATTTAATTT
1 TTCAATACTTAATTTTTCATCACTTAATTT
112635428 TTCAAT
1 TTCAAT
112635434 TTATCAAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 2 0.06
29 20 0.65
30 9 0.29
ACGTcount: A:0.28, C:0.14, G:0.02, T:0.57
Consensus pattern (30 bp):
TTCAATACTTAATTTTTCATCACTTAATTT
Found at i:112636106 original size:19 final size:19
Alignment explanation
Indices: 112636082--112636122 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
112636072 GAGCAGTTGT
112636082 TGGAAGAATGAAAAGAATG
1 TGGAAGAATGAAAAGAATG
*
112636101 TGGAAGAATGGAAAGAATG
1 TGGAAGAATGAAAAGAATG
112636120 TGG
1 TGG
112636123 CTTTATATCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.37, T:0.17
Consensus pattern (19 bp):
TGGAAGAATGAAAAGAATG
Found at i:112639822 original size:27 final size:27
Alignment explanation
Indices: 112639763--112639843 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
112639753 GCTAACACCA
*
112639763 AGCTCGCCAAACAGACTAGAG-AAACTCT
1 AGCTCACCAAACAGACT-G-GCAAACTCT
*
112639791 AGCTCACCAAATAGACTGGCAAACTCT
1 AGCTCACCAAACAGACTGGCAAACTCT
* *
112639818 AGCTCACCAAACAGATTGGCTAACTC
1 AGCTCACCAAACAGACTGGCAAACTC
112639844 GACTTTCAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
26 1 0.02
27 31 0.66
28 15 0.32
ACGTcount: A:0.37, C:0.30, G:0.16, T:0.17
Consensus pattern (27 bp):
AGCTCACCAAACAGACTGGCAAACTCT
Found at i:112640774 original size:16 final size:16
Alignment explanation
Indices: 112640753--112640790 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
112640743 AGAAGAAAAG
112640753 ATAGAAATAAGGAGAA
1 ATAGAAATAAGGAGAA
112640769 ATAGAAATAAGGAGAA
1 ATAGAAATAAGGAGAA
112640785 AT-GAAA
1 ATAGAAA
112640791 AAAAAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.63, C:0.00, G:0.24, T:0.13
Consensus pattern (16 bp):
ATAGAAATAAGGAGAA
Found at i:112640907 original size:15 final size:15
Alignment explanation
Indices: 112640887--112640924 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
112640877 TAGCCAAGGT
112640887 AAGAAAAAGAA-AAA
1 AAGAAAAAGAAGAAA
112640901 GAAGAAAAAGAAGAAA
1 -AAGAAAAAGAAGAAA
112640917 AA-AAAAAG
1 AAGAAAAAG
112640925 GTACAAAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.27
15 13 0.59
16 3 0.14
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAGAAAAAGAAGAAA
Found at i:112640917 original size:8 final size:9
Alignment explanation
Indices: 112640893--112640918 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
112640883 AGGTAAGAAA
112640893 AAGAAAAAG
1 AAGAAAAAG
112640902 AAGAAAAAG
1 AAGAAAAAG
112640911 AAGAAAAA
1 AAGAAAAA
112640919 AAAAAGGTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (9 bp):
AAGAAAAAG
Found at i:112641122 original size:1 final size:1
Alignment explanation
Indices: 112641116--112641144 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
112641106 TATATTTAGC
112641116 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
112641145 AAGAAAATCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:112649779 original size:28 final size:28
Alignment explanation
Indices: 112649739--112649802 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
112649729 ATTGGAGGAA
112649739 TCTAAGTTTAAATTGCAAATAAAACTTG
1 TCTAAGTTTAAATTGCAAATAAAACTTG
112649767 TCTAAGTTTAAATTGCAAATAAAACTTG
1 TCTAAGTTTAAATTGCAAATAAAACTTG
112649795 TCTAAGTT
1 TCTAAGTT
112649803 CTCATCGACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (28 bp):
TCTAAGTTTAAATTGCAAATAAAACTTG
Found at i:112652239 original size:42 final size:42
Alignment explanation
Indices: 112652178--112652259 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
112652168 CCGTATCAAT
*
112652178 GCCATATCCCAGATATGGTCTTACATGAAAT-ATCATATCGAC
1 GCCATATCCCAGACATGGTCTTACATGAAATCA-CATATCGAC
* * *
112652220 GCCATGTCCCTGACATGGTCTTATATGAAATCACATATCG
1 GCCATATCCCAGACATGGTCTTACATGAAATCACATATCG
112652260 GTACCGTATC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 34 0.97
43 1 0.03
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (42 bp):
GCCATATCCCAGACATGGTCTTACATGAAATCACATATCGAC
Found at i:112654630 original size:24 final size:24
Alignment explanation
Indices: 112654600--112654650 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
112654590 TATAAAGACG
112654600 TCTTATTCTTTAAAAATTATTTTA
1 TCTTATTCTTTAAAAATTATTTTA
112654624 TCTTATTCTTTAAAAATTATTTTA
1 TCTTATTCTTTAAAAATTATTTTA
112654648 TCT
1 TCT
112654651 CTAATTGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (24 bp):
TCTTATTCTTTAAAAATTATTTTA
Found at i:112658757 original size:16 final size:16
Alignment explanation
Indices: 112658738--112658768 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
112658728 CTTCTTCACT
112658738 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
112658754 TACTTACTTACTTAA
1 TACTCACTTACTTAA
112658769 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:112658774 original size:20 final size:20
Alignment explanation
Indices: 112658735--112658774 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
112658725 AAACTTCTTC
* *
112658735 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
112658755 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
112658775 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:112659151 original size:108 final size:110
Alignment explanation
Indices: 112659007--112659204 Score: 267
Period size: 108 Copynumber: 1.8 Consensus size: 110
112658997 ATCCTTTTGA
* * * *
112659007 AACTTACCATTGCCATGTCTTGACATAGTCATACATGGTAGCCTTGCCTTATG-AA-CTCACCTA
1 AACTTACCAATGCCATGTCTTGACATAGTCATACATGATAGCCTTACCTTA-GAAACCTCACCAA
*
112659070 -TGCCATGCTTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * ** *
112659115 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATAGTCATACATGATAGCCTTACCTTAGAAACCTCACCAAT
112659180 TGCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
112659205 CGGTATCCTT
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
107 1 0.01
108 45 0.59
109 6 0.08
110 24 0.32
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATAGTCATACATGATAGCCTTACCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:112659214 original size:55 final size:53
Alignment explanation
Indices: 112658960--112659215 Score: 211
Period size: 55 Copynumber: 4.8 Consensus size: 53
112658950 ACACGGGTAC
* * *
112658960 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTAGAAA
* * * * *
112659009 CTTACCATTGCCATGTCTTGACATAGTCATACATGGTAGCCTTGCCTTATG-AA
1 CTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTA-GAAA
* * * * * *
112659062 CTCACC-TATGCCATGCTTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAT-TGCCATGCCTTGACATGGTCTTACATGGTATCC-TTACC-T-TAGAAA
* * * * *
112659117 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTAGAAA
1 CTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTAGAAA
* *
112659170 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTTA
1 -CTTACC-ATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTA
112659216 AACCCTAATG
Statistics
Matches: 162, Mismatches: 31, Indels: 22
0.75 0.14 0.10
Matches are distributed among these distances:
49 37 0.23
52 5 0.03
53 41 0.25
54 9 0.06
55 68 0.42
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTAGAAA
Found at i:112662868 original size:39 final size:39
Alignment explanation
Indices: 112662771--112662961 Score: 184
Period size: 39 Copynumber: 4.9 Consensus size: 39
112662761 ACATAACCAT
* * * * * *
112662771 GGCACGAAAGTGCTAACAAGAGTACTGAAATACAACAGG
1 GGCACGTAAGTGCGATCAAGGGTACCGAAGTACAACAGG
* * * * * *
112662810 GGAACATAGGTGCGTTCAGGGGTATCGAAGTACAACAGG
1 GGCACGTAAGTGCGATCAAGGGTACCGAAGTACAACAGG
* * * *
112662849 GGCACGTAAGTGTGATCAGGGGTACCGAAGCACAATAGG
1 GGCACGTAAGTGCGATCAAGGGTACCGAAGTACAACAGG
* * * *
112662888 GGCATGTAAGTGAGATCAAGGGTACCAAAGTAGAACAGG
1 GGCACGTAAGTGCGATCAAGGGTACCGAAGTACAACAGG
* *
112662927 GGCACGTAAGTGCAATAAAGGGTACCGAAGTACAA
1 GGCACGTAAGTGCGATCAAGGGTACCGAAGTACAA
112662962 GAGTTTTCTA
Statistics
Matches: 119, Mismatches: 33, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
39 119 1.00
ACGTcount: A:0.37, C:0.16, G:0.32, T:0.15
Consensus pattern (39 bp):
GGCACGTAAGTGCGATCAAGGGTACCGAAGTACAACAGG
Found at i:112666235 original size:23 final size:22
Alignment explanation
Indices: 112666181--112666256 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 22
112666171 TACCAAGATA
*
112666181 TCAGCTC-TAAGAGCTTACTATT
1 TCAGCTCGT-AGAGCTTACTGTT
*
112666203 CTCAGTTCGTATGAGCTTACTGTT
1 -TCAGCTCGTA-GAGCTTACTGTT
*
112666227 TCAGCTCGTCAGAGCTTACCGTT
1 TCAGCTCGT-AGAGCTTACTGTT
112666250 TCAGCTC
1 TCAGCTC
112666257 AATAGAGATT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
23 33 0.72
24 13 0.28
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (22 bp):
TCAGCTCGTAGAGCTTACTGTT
Found at i:112666268 original size:23 final size:23
Alignment explanation
Indices: 112666219--112666268 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
112666209 TCGTATGAGC
* * *
112666219 TTACTGTTTCAGCTCGTCAGAGC
1 TTACCGTTTCAGCTCATCAGAGA
112666242 TTACCGTTTCAGCTCAAT-AGAGA
1 TTACCGTTTCAGCTC-ATCAGAGA
112666265 TTAC
1 TTAC
112666269 TATCCATCAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (23 bp):
TTACCGTTTCAGCTCATCAGAGA
Found at i:112672031 original size:39 final size:39
Alignment explanation
Indices: 112671962--112672124 Score: 186
Period size: 39 Copynumber: 4.2 Consensus size: 39
112671952 ATTACTGAAA
* *
112671962 TACAACAGGGGCACGTAGGTGCGTTTAGGGGTACCAAAG
1 TACAACAGGGGCACGTAAGTGCGATTAGGGGTACCAAAG
* * * * *
112672001 TACAACAGGGGCACGCAAGTGTGATCAGGGGTATCGAAG
1 TACAACAGGGGCACGTAAGTGCGATTAGGGGTACCAAAG
* * * *
112672040 TACAACAGGGGCACATAAGTACGATGAAGGGTGT-CGAAA-
1 TACAACAGGGGCACGTAAGTGCGAT-TAGGG-GTACCAAAG
*
112672079 TACAACAGGGGCACGTGAGTGCGATTAGGGGTACCAAAG
1 TACAACAGGGGCACGTAAGTGCGATTAGGGGTACCAAAG
112672118 TACAACA
1 TACAACA
112672125 ATTTTCTACT
Statistics
Matches: 100, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
37 2 0.02
38 8 0.08
39 82 0.82
40 6 0.06
41 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.33, T:0.16
Consensus pattern (39 bp):
TACAACAGGGGCACGTAAGTGCGATTAGGGGTACCAAAG
Found at i:112680737 original size:29 final size:29
Alignment explanation
Indices: 112680703--112680776 Score: 114
Period size: 29 Copynumber: 2.6 Consensus size: 29
112680693 TAATCAACCA
*
112680703 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
*
112680732 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAACT
112680761 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
112680777 ATCTCACAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 3 0.07
29 39 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:112692824 original size:29 final size:28
Alignment explanation
Indices: 112692790--112692884 Score: 109
Period size: 29 Copynumber: 3.3 Consensus size: 28
112692780 TACTCAATCA
*
112692790 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
112692819 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
112692848 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
112692877 CGCACACT
1 CGCACACT
112692885 CAATGCCAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
28 2 0.04
29 53 0.96
ACGTcount: A:0.29, C:0.33, G:0.16, T:0.22
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:112697386 original size:451 final size:445
Alignment explanation
Indices: 112696692--112697534 Score: 1134
Period size: 451 Copynumber: 1.9 Consensus size: 445
112696682 GTCGACTCGA
* * * *
112696692 ATACCCGATGCAGATACCACATGACCCAAGAAGCTAACCTCTTAACCAGAACTCACACTTGCTGA
1 ATACCCGATGCAGACACCACATGACCCAAAAAGCTAACCTCTTAACCAAAACTCACACTTACTGA
* * *
112696757 ACTTAGCATATAACTGCTTATCCCGTAAAATTGCAACACTAATCTCAGTGCTCCGCATGTTCGGT
66 ACTTAGCATATAACTGCTTATCCCGTAAAATTGCAACACTAACCTCAGTGCTCAGCATGCTCGGT
* * * * * *
112696822 CATCTCTTGAATAGACCAAGATGTCGTCAATGAACACCACTACGAACCGATCCAAATTGATCTGA
131 CATCTCTCGAATAGACCAAAATGTCATCAATAAACACAACTACGAACCGATCCAAATTGACCTGA
* * *
112696887 AGATCCATCATCAAATCCATAAATACCGCAGGGGCATTAGTGAGCCCAAACGGCATCACTAAGAA
196 AAATCCATCATCAAATCCATAAACACCGCAGGGGCATTAGTGAGCCCAAACGGCATCACCAAGAA
* * **
112696952 TTCGTAGTGACCATATCTCGTTCT-GAAGCAG-TTTGGGTATATCCGAATCTCGGATTCGCAACT
261 TTCGTAGTGACCATACCTCGTTCTAAAAGCAGTTTTGGGTATATCCGAATCTCGGACCCGCAACT
* * * * *
112697015 GATAATAGCCCGATCTCAAATCTAT-TTTGAAAACACTGAGGCTCCCTTCAGTTGATCGAACAAA
326 GATAATACCCCGACCTCAAATCTATCTTTGAAAACACCGAGGCTCCCTTCAATTGATCAAACAAA
112697079 TCATCGATACGCGGTAACGGANCGCTATGGCCAGAATTTTGTTCGGGTCCACCCTG
391 TCATCGATACGCGGTAACGGA-CGCTATGGCCAGAATTTTGTTCGGGTCCACCCTG
* * * * *
112697135 ATACCCGATGCGGACACCACGTGCCCCAAAAAGCTAACCTCTTTCAACCAAAATTCACATTTACT
1 ATACCCGATGCAGACACCACATGACCCAAAAAGCTAACCTC-TT-AACCAAAACTCACACTTACT
* * * * * *
112697200 GAACTTTGCGTATAACTGCTTATCTCGTAAGATTTGCAACACTAGCCTCAGTGTTCAGCATGCTC
64 GAACTTAGCATATAACTGCTTATCCCGTAA-AATTGCAACACTAACCTCAGTGCTCAGCATGCTC
* * * *
112697265 AGTTTCATCTCTCGAATAGACCAAAATGTCATCGATAAATACAACTACGAACCGATCCAAGTATG
128 -G-GTCATCTCTCGAATAGACCAAAATGTCATCAATAAACACAACTACGAACCGATCCAAAT-TG
* * *
112697330 GCCTGAAAATTCTATTCATTAAATCCATAAACACCGCAGGGGCATTAGTGAGCCCAAACGGCATC
190 ACCTGAAAA-TCCA-TCATCAAATCCATAAACACCGCAGGGGCATTAGTGAGCCCAAACGGCATC
* * * *
112697395 ACCAAGAATTCGTAGTGACCGTACCTCGTTCTAAAAGCGGTTTTGGGTATGTCCGATTCTCGGAC
253 ACCAAGAATTCGTAGTGACCATACCTCGTTCTAAAAGCAGTTTTGGGTATATCCGAATCTCGGAC
* * *
112697460 CCTCAACTGATAGTACCCCGACCTCAAATCTATCTTTGAAAACACCGAGGCTCCCTTTAATTGAT
318 CCGCAACTGATAATACCCCGACCTCAAATCTATCTTTGAAAACACCGAGGCTCCCTTCAATTGAT
112697525 CAAACAAATC
383 CAAACAAATC
112697535 GTCAATTCGT
Statistics
Matches: 339, Mismatches: 50, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
443 36 0.11
444 2 0.01
445 43 0.13
446 28 0.08
447 1 0.00
448 50 0.15
449 8 0.02
450 3 0.01
451 77 0.23
452 5 0.01
453 49 0.14
454 37 0.11
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (445 bp):
ATACCCGATGCAGACACCACATGACCCAAAAAGCTAACCTCTTAACCAAAACTCACACTTACTGA
ACTTAGCATATAACTGCTTATCCCGTAAAATTGCAACACTAACCTCAGTGCTCAGCATGCTCGGT
CATCTCTCGAATAGACCAAAATGTCATCAATAAACACAACTACGAACCGATCCAAATTGACCTGA
AAATCCATCATCAAATCCATAAACACCGCAGGGGCATTAGTGAGCCCAAACGGCATCACCAAGAA
TTCGTAGTGACCATACCTCGTTCTAAAAGCAGTTTTGGGTATATCCGAATCTCGGACCCGCAACT
GATAATACCCCGACCTCAAATCTATCTTTGAAAACACCGAGGCTCCCTTCAATTGATCAAACAAA
TCATCGATACGCGGTAACGGACGCTATGGCCAGAATTTTGTTCGGGTCCACCCTG
Found at i:112701200 original size:30 final size:30
Alignment explanation
Indices: 112701145--112701275 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
112701135 ATAGTGAATC
*
112701145 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
112701174 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
112701204 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
112701232 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
112701262 CGCACACTTAGTGC
1 CGCACACTTAGTGC
112701276 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:112701255 original size:58 final size:58
Alignment explanation
Indices: 112701144--112701275 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
112701134 TATAGTGAAT
* * * * *
112701144 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
112701203 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
112701261 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
112701276 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:112705425 original size:29 final size:28
Alignment explanation
Indices: 112705391--112705493 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
112705381 TACTCAATCA
*
112705391 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
112705420 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
112705449 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
112705478 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
112705494 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:112709802 original size:22 final size:23
Alignment explanation
Indices: 112709777--112709822 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
112709767 AATGTTTTAA
112709777 GTTAGAAATAATA-AAAT-AAAAG
1 GTTAGAAATAA-AGAAATGAAAAG
*
112709799 GTTAGTAATAAAGAAATGAAAAG
1 GTTAGAAATAAAGAAATGAAAAG
112709822 G
1 G
112709823 GAGGGGTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 14 0.67
23 6 0.29
ACGTcount: A:0.59, C:0.00, G:0.20, T:0.22
Consensus pattern (23 bp):
GTTAGAAATAAAGAAATGAAAAG
Found at i:112711200 original size:40 final size:40
Alignment explanation
Indices: 112711145--112711326 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
112711135 TATTCGAATG
112711145 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
112711185 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
112711225 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
112711265 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* * *
112711305 ATAT-CTGGCTAAATCCTGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
112711327 TACTTGGGTT
Statistics
Matches: 131, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 13 0.10
40 116 0.89
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:112716315 original size:42 final size:41
Alignment explanation
Indices: 112716257--112716410 Score: 154
Period size: 42 Copynumber: 3.7 Consensus size: 41
112716247 TAAGACCATG
*
112716257 TGTAAGACCATATCTGGGATATGGCATCATTATGAGACTTCG
1 TGTAAGACCATATCTGGGATATGGCATCATTATGAGA-TTCA
* *
112716299 TGTAAGACCAGATCTGGGATATGG-A--ATTGATGTAAGTTTTCA
1 TGTAAGACCATATCTGGGATATGGCATCATT-ATG--AG-ATTCA
* * *
112716341 TGTAAGACCATAGCTGGGCTAATGGCATCGA-TACGAGATTACA
1 TGTAAGACCATATCTGGGAT-ATGGCATC-ATTATGAGATT-CA
112716384 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
112716411 TGGTATGGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 20
0.75 0.08 0.16
Matches are distributed among these distances:
39 3 0.03
40 3 0.03
41 1 0.01
42 54 0.59
43 26 0.28
44 1 0.01
45 2 0.02
46 1 0.01
47 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (41 bp):
TGTAAGACCATATCTGGGATATGGCATCATTATGAGATTCA
Found at i:112716399 original size:85 final size:84
Alignment explanation
Indices: 112716257--112716412 Score: 217
Period size: 85 Copynumber: 1.8 Consensus size: 84
112716247 TAAGACCATG
* * *
112716257 TGTAAGACCATATCTGGGATATGGCATCATTATGAGACTTCGTGTAAGACCAGATCTGGGATATG
1 TGTAAGACCATAGCTGGGATATGGCATCATTACGAGACTTCATGTAAGACCAGATCTGGGATATG
112716322 GAATTGATGTAAGTTTTCA
66 GAATTGATGTAAGTTTTCA
* *
112716341 TGTAAGACCATAGCTGGGCTAATGGCATCGA-TACGAGA-TTACATGTAAGACCATATCTGGGAT
1 TGTAAGACCATAGCTGGGAT-ATGGCATC-ATTACGAGACTT-CATGTAAGACCAGATCTGGGAT
*
112716404 ATGGCATTG
63 ATGGAATTG
112716413 GTATGGTACC
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
84 20 0.32
85 42 0.67
86 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (84 bp):
TGTAAGACCATAGCTGGGATATGGCATCATTACGAGACTTCATGTAAGACCAGATCTGGGATATG
GAATTGATGTAAGTTTTCA
Found at i:112722643 original size:40 final size:40
Alignment explanation
Indices: 112722558--112722708 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
112722548 AATTGAATGA
* * * **
112722558 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
112722598 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
* *
112722639 -ATCCGGGCTAAGACTCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
112722678 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
112722709 ACATGGTTAT
Statistics
Matches: 90, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.06
40 82 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:112722722 original size:40 final size:40
Alignment explanation
Indices: 112722595--112722724 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
112722585 ATGCTGGAAA
* * *
112722595 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * * **
112722635 CTACATCCGGGCTAAGACTCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
112722675 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
112722715 TTATATCCGG
1 TTATATCCGG
112722725 TTATATTCCG
Statistics
Matches: 71, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 70 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:112730298 original size:39 final size:39
Alignment explanation
Indices: 112730244--112730383 Score: 226
Period size: 39 Copynumber: 3.5 Consensus size: 39
112730234 TAATGGAGAA
112730244 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
112730283 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
112730322 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
112730361 TTATATTCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
112730384 CATGCTTTGT
Statistics
Matches: 93, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 85 0.91
40 1 0.01
41 7 0.08
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:112734861 original size:27 final size:26
Alignment explanation
Indices: 112734826--112734937 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
112734816 AGCATGGCTG
* *
112734826 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
112734852 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
112734880 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
112734907 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
112734934 CCAG
1 CCAG
112734938 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:112734918 original size:54 final size:54
Alignment explanation
Indices: 112734826--112734937 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
112734816 AGCATGGCTG
* *
112734826 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
112734880 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
112734934 CCAG
1 CCAG
112734938 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Done.