Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 136 of 284
Found at i:45344884 original size:43 final size:43
Alignment explanation
Indices: 45344785--45344991 Score: 172
Period size: 43 Copynumber: 4.8 Consensus size: 43
45344775 TATGTGTTTT
* ** * *
45344785 CGTGTAAGACCACGCTTGGGACATTGGCATTG-ACTTACGATTTA
1 CGTGTAAGACCACGTTTGGGATGTTGGCATCGTA-TT-TGATTTA
45344829 CGTGTAAGACCACGTTTGGGATGTTGGCATCGTATTTGATTTA
1 CGTGTAAGACCACGTTTGGGATGTTGGCATCGTATTTGATTTA
* * *
45344872 TGTGTAAGACCACGTCTAGGATGTTGGCATCGTATTTGATTT-
1 CGTGTAAGACCACGTTTGGGATGTTGGCATCGTATTTGATTTA
* * ** *
45344914 CATATAAGACC-CTGCCTGGGACAG-TGGCATCGATATTTGA-TTA
1 CGTGTAAGACCAC-GTTTGGGA-TGTTGGCATCG-TATTTGATTTA
* * * * *
45344957 CATGCAAGACCACGTCTAGGATGTTGGCATTGTAT
1 CGTGTAAGACCACGTTTGGGATGTTGGCATCGTAT
45344992 GAGCTTTCCG
Statistics
Matches: 136, Mismatches: 20, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 28 0.21
43 75 0.55
44 31 0.23
45 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCACGTTTGGGATGTTGGCATCGTATTTGATTTA
Found at i:45351689 original size:21 final size:20
Alignment explanation
Indices: 45351656--45351695 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
45351646 AATTCTTTTC
* *
45351656 AAATTGAGTCGAGTGAAATG
1 AAATTGAATCGAGTAAAATG
45351676 AAATTCGAATCGAGTAAAAT
1 AAATT-GAATCGAGTAAAAT
45351696 TATTCAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (20 bp):
AAATTGAATCGAGTAAAATG
Found at i:45351993 original size:61 final size:57
Alignment explanation
Indices: 45351911--45352034 Score: 128
Period size: 61 Copynumber: 2.1 Consensus size: 57
45351901 ATTTTAACCT
*
45351911 TTTTTATATATTTTTAAAATTTTTTAAAAA-ATTTAT-AATTTTTAAAACATAAATTTTGAAA
1 TTTTTATAAATTTTTAAAA--TTTTAAAAATATTT-TGAATTTTTAAAA-ATAAA-TTT-AAA
* *
45351972 TTTTTATAAATATTTT-GAATTTTAAAAATTATTTTGAATTTTTAAAAATTAATTTAAA
1 TTTTTATAAAT-TTTTAAAATTTTAAAAA-TATTTTGAATTTTTAAAAATAAATTTAAA
45352030 TTTTT
1 TTTTT
45352035 TGTAATTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
58 8 0.14
59 12 0.21
60 5 0.09
61 27 0.48
62 4 0.07
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (57 bp):
TTTTTATAAATTTTTAAAATTTTAAAAATATTTTGAATTTTTAAAAATAAATTTAAA
Found at i:45351994 original size:19 final size:20
Alignment explanation
Indices: 45351931--45352034 Score: 101
Period size: 20 Copynumber: 5.2 Consensus size: 20
45351921 TTTTTAAAAT
45351931 TTTTTAAAAA--ATTTAT-AA
1 TTTTTAAAAATTATTT-TGAA
*
45351949 TTTTTAAAACATAAATTTTGAAA
1 TTTTTAAAA-AT-TATTTTG-AA
*
45351972 TTTTTATAAA-TATTTTGAA
1 TTTTTAAAAATTATTTTGAA
45351991 -TTTTAAAAATTATTTTGAA
1 TTTTTAAAAATTATTTTGAA
* *
45352010 TTTTTAAAAATTAATTTAAA
1 TTTTTAAAAATTATTTTGAA
45352030 TTTTT
1 TTTTT
45352035 TGTAATTTTT
Statistics
Matches: 73, Mismatches: 5, Indels: 14
0.79 0.05 0.15
Matches are distributed among these distances:
18 17 0.23
19 12 0.16
20 28 0.38
21 1 0.01
22 5 0.07
23 10 0.14
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTGAA
Found at i:45365702 original size:25 final size:25
Alignment explanation
Indices: 45365674--45365732 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
45365664 GGTAGCTCAT
*
45365674 AAGAGCCATAATCGGGAAATTCACA
1 AAGAGCCATAATCGGGAAATTCAAA
** *
45365699 AAGAGCC-TTGTCGGGAAGTTCAAA
1 AAGAGCCATAATCGGGAAATTCAAA
*
45365723 AAGAACCATA
1 AAGAGCCATA
45365733 TCAAGAAGCT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
24 19 0.70
25 8 0.30
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (25 bp):
AAGAGCCATAATCGGGAAATTCAAA
Found at i:45365817 original size:27 final size:26
Alignment explanation
Indices: 45365787--45365851 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
45365777 TTATTGGGAA
45365787 GCTCATAAAGAGCCACTTTAA-CAGGAT
1 GCTCAT-AAGAGCC-CTTTAATCAGGAT
*
45365814 GCTCATGAAGAG-CCTTTAATCGGGAT
1 GCTCAT-AAGAGCCCTTTAATCAGGAT
45365840 GCTCATAAGAGC
1 GCTCATAAGAGC
45365852 TAAGGTGTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 11 0.32
26 12 0.35
27 11 0.32
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (26 bp):
GCTCATAAGAGCCCTTTAATCAGGAT
Found at i:45365849 original size:25 final size:26
Alignment explanation
Indices: 45365782--45365851 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
45365772 GAGCATTATT
*
45365782 GGGAAGCTCATAAAGAGCCACTTTAAC
1 GGGATGCTCATAAAGAG-CACTTTAAC
* *
45365809 AGGATGCTCATGAAGAGC-CTTTAATC
1 GGGATGCTCATAAAGAGCACTTTAA-C
45365835 GGGATGCTCAT-AAGAGC
1 GGGATGCTCATAAAGAGC
45365852 TAAGGTGTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 12 0.32
26 12 0.32
27 14 0.37
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (26 bp):
GGGATGCTCATAAAGAGCACTTTAAC
Found at i:45365916 original size:23 final size:22
Alignment explanation
Indices: 45365890--45365958 Score: 59
Period size: 24 Copynumber: 3.0 Consensus size: 22
45365880 CACAACCTAT
45365890 CGGGACGCTCCGAAGAGCTATAA
1 CGGGACGCTCC-AAGAGCTATAA
* *
45365913 CGGGAAGCT-CAAGAGGGTTTATAA
1 CGGGACGCTCCAAGA--G-CTATAA
*
45365937 CGGGACGCTCATAAGAGCTATA
1 CGGGACGCTC-CAAGAGCTATA
45365959 GTGTGTCCGC
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
21 4 0.11
22 1 0.03
23 13 0.36
24 14 0.39
26 4 0.11
ACGTcount: A:0.32, C:0.20, G:0.30, T:0.17
Consensus pattern (22 bp):
CGGGACGCTCCAAGAGCTATAA
Found at i:45377730 original size:23 final size:23
Alignment explanation
Indices: 45377682--45377735 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
45377672 TAGCTCGTAT
** *
45377682 GAGCTTATTGTTTCAGCTCTTCA
1 GAGCTTACCGTTTCAGCTCATCA
45377705 GAGCTTACCGTTTCAGCTCAAT-A
1 GAGCTTACCGTTTCAGCTC-ATCA
45377728 GAGCTTAC
1 GAGCTTAC
45377736 TATCCATCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCATCA
Found at i:45379487 original size:12 final size:13
Alignment explanation
Indices: 45379470--45379501 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
45379460 TGAGGCACAC
45379470 GCCCATGTCC-TA
1 GCCCATGTCCTTA
45379482 GCCCATGTCCTTA
1 GCCCATGTCCTTA
45379495 -CCCATGT
1 GCCCATGT
45379502 AACTCCATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 17 0.89
13 2 0.11
ACGTcount: A:0.16, C:0.41, G:0.16, T:0.28
Consensus pattern (13 bp):
GCCCATGTCCTTA
Found at i:45381511 original size:41 final size:40
Alignment explanation
Indices: 45381346--45381567 Score: 166
Period size: 40 Copynumber: 5.5 Consensus size: 40
45381336 GATTATGTGT
* * * * *
45381346 GGCACTTAGTGTG-TATATTGAGATAGTTTCAGCTATATAA
1 GGCACTTAGTGTGCAAGATT-AAATAGCTTCGGCTATATAA
* ** * *
45381386 AGCACTTAGTGTGTGA-ATCGAAATAGCTTTGGCTATATAA
1 GGCACTTAGTGTGCAAGAT-TAAATAGCTTCGGCTATATAA
* * * **
45381426 AGCACTTAGTGTGCAA-ATCGAAATAGCTTTGGCTATATGT
1 GGCACTTAGTGTGCAAGAT-TAAATAGCTTCGGCTATATAA
45381466 GGCACTTAGTGTGCAAGATTAAGATAGCTTCGGCTATGA-AA
1 GGCACTTAGTGTGCAAGATTAA-ATAGCTTCGGCTAT-ATAA
* * * *
45381507 GGCACTTAGTGTGCGAGATTATAATAGCTTCAGCTATGCGT-T
1 GGCACTTAGTGTGCAAGATTA-AATAGCTTCGGCTAT--ATAA
45381549 GGCACTTAGTGTGCAAGAT
1 GGCACTTAGTGTGCAAGAT
45381568 ATCGAGTATT
Statistics
Matches: 152, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
40 83 0.55
41 49 0.32
42 20 0.13
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (40 bp):
GGCACTTAGTGTGCAAGATTAAATAGCTTCGGCTATATAA
Found at i:45381518 original size:81 final size:83
Alignment explanation
Indices: 45381408--45381567 Score: 202
Period size: 81 Copynumber: 2.0 Consensus size: 83
45381398 GTGAATCGAA
* ** *
45381408 ATAGCTTTGGCTATATAAAGCACTTAGTGTGC-AAATCGA-AATAGCTTTGGCTATATG-TGGCA
1 ATAGCTTCGGCTATATAAAGCACTTAGTGTGCGAAAT-GATAATAGCTTCAGCTATACGTTGGCA
45381470 CTTAGTGTGCAAGATTAAG
65 CTTAGTGTGCAAGATTAAG
* * * *
45381489 ATAGCTTCGGCTATGA-AAGGCACTTAGTGTGCGAGATTATAATAGCTTCAGCTATGCGTTGGCA
1 ATAGCTTCGGCTAT-ATAAAGCACTTAGTGTGCGAAATGATAATAGCTTCAGCTATACGTTGGCA
45381553 CTTAGTGTGCAAGAT
65 CTTAGTGTGCAAGAT
45381568 ATCGAGTATT
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
81 29 0.43
82 18 0.27
83 20 0.30
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (83 bp):
ATAGCTTCGGCTATATAAAGCACTTAGTGTGCGAAATGATAATAGCTTCAGCTATACGTTGGCAC
TTAGTGTGCAAGATTAAG
Found at i:45390412 original size:33 final size:33
Alignment explanation
Indices: 45390370--45390433 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
45390360 TTCTCAGGAC
*
45390370 ACTCGACCACTGGAACAAGTATACATTTATGCA
1 ACTCGACCACTGGAACAAGCATACATTTATGCA
45390403 ACTCGACCACTGGAACAAGCATACATTTATG
1 ACTCGACCACTGGAACAAGCATACATTTATG
45390434 AAAACAACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (33 bp):
ACTCGACCACTGGAACAAGCATACATTTATGCA
Found at i:45406648 original size:6 final size:6
Alignment explanation
Indices: 45406628--45406663 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
45406618 TTCAAACTAC
45406628 TTTTTA TTGTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TT-TTTA TTTTTA TTTTTA TTTTTA TTTTT
45406664 TTAGTAGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:45412645 original size:100 final size:101
Alignment explanation
Indices: 45412511--45412693 Score: 280
Period size: 101 Copynumber: 1.8 Consensus size: 101
45412501 ATCTGTTACA
*
45412511 CATAGTAGCCTGCACTTAGTACTACACATACGACC-AAGAATCT-GTCACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCTGGT-ACACGTAGTAGCCTGCA
45412574 CTTAGTACTACACACGTGATCGAAGTTGTTGGGTACG
65 CTTAGTACTACACACGTGATCGAAGTTGTTGGGTACG
* * * * *
45412611 CATAGTAGCCTGCACTTATTACTATACATGCGACCTAACCATCTGGTACACGTAGTAGCTTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCTGGTACACGTAGTAGCCTGCAC
*
45412676 TTAGTACTGCACACGTGA
66 TTAGTACTACACACGTGA
45412694 CCTAAAACCA
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 32 0.43
101 40 0.54
102 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (101 bp):
CATAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCTGGTACACGTAGTAGCCTGCAC
TTAGTACTACACACGTGATCGAAGTTGTTGGGTACG
Found at i:45418805 original size:55 final size:55
Alignment explanation
Indices: 45418671--45418833 Score: 143
Period size: 55 Copynumber: 3.0 Consensus size: 55
45418661 TATGTAAGCC
* * *
45418671 CACGCCCGTGTTAATTTGACAGGTTCGACCACTGGTTCT-AGACACGGGCGTGGCG
1 CACGCCCGTGTTATTTTGATAGGTTCGACCA-TGGTTCTAAGACACGGGCGTGGAG
* * * * * * *
45418726 AATGCCCGTGCTATTTT-CTCAGGTTCAACCATGGTTCTAAGACACGGTCGTGTAG
1 CACGCCCGTGTTATTTTGAT-AGGTTCGACCATGGTTCTAAGACACGGGCGTGGAG
* * * * *
45418781 CACGCCCGTGTTGTTTTGGTAGGTTCGCCCATGGTCCTAACG-CACGGCCGTGG
1 CACGCCCGTGTTATTTTGATAGGTTCGACCATGGTTCTAA-GACACGGGCGTGG
45418834 CGACTTATCG
Statistics
Matches: 84, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
54 7 0.08
55 75 0.89
56 2 0.02
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (55 bp):
CACGCCCGTGTTATTTTGATAGGTTCGACCATGGTTCTAAGACACGGGCGTGGAG
Found at i:45428201 original size:101 final size:101
Alignment explanation
Indices: 45428039--45428298 Score: 396
Period size: 101 Copynumber: 2.6 Consensus size: 101
45428029 CCAGTACACG
* * * *
45428039 TAGTAGCCTACACTTAGTACTA-ACACGTGACCTAAGCATCTGATACACATAGTAGCCTGCACTT
1 TAGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGGTACACGTAGTAGCCTGCACTT
* * *
45428103 AGTACTACACATGTGATTGAAGTTGTCGGGTACGTA
66 AGTACTACACATATGATCGAAGTTGTCGGGTACGCA
* * *
45428139 TAGTAGCCTATACTTAGTACTACACATGTGACCTAACCATTTGGTACATGTAGTAGCCTGCACTT
1 TAGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGGTACACGTAGTAGCCTGCACTT
*
45428204 AGTACTATACATATGATCGAAGTTGTCGGGTACGCA
66 AGTACTACACATATGATCGAAGTTGTCGGGTACGCA
* *
45428240 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGGTACACGTAGTAGCCT
1 TAGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGGTACACGTAGTAGCCT
45428299 AGTACTACAC
Statistics
Matches: 143, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 21 0.15
101 122 0.85
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (101 bp):
TAGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGGTACACGTAGTAGCCTGCACTT
AGTACTACACATATGATCGAAGTTGTCGGGTACGCA
Found at i:45428205 original size:50 final size:50
Alignment explanation
Indices: 45427988--45428365 Score: 246
Period size: 51 Copynumber: 7.6 Consensus size: 50
45427978 ATCTGTTATG
** ***
45427988 CATAGTAGCCTATACTTAGTACTACACATGCT-ACC--ACCAATCCAGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATG-TGACCTAACC-ATTTGGTACA
* * * * * *
45428037 CGTAGTAGCCTACACTTAGTACTA-ACACGTGACCTAAGCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATTTGGTACA
* * *
45428086 CATAGTAGCCTGCACTTAGTACTACACATGTGA-TTGAA--GTTGTCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCT-AACCATT-T--GGTACA
* **
45428137 TATAGTAGCCTATACTTAGTACTACACATGTGACCTAACCATTTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATTTGGTACA
** * * * * * *
45428187 TGTAGTAGCCTGCACTTAGTACTATACATATGATCGAA--GTTGTCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATT-T--GGTACA
* *
45428238 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATTTGGTACA
* * * ***
45428288 CGTAGTA----GC-C-TAGTACTACACACGTGACCTAAAACTATTTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACCATTTGGTACA
*
45428334 CATAGTAGCCTGCACATAGTACTACACATGTG
1 CATAGTAGCCTGCACTTAGTACTACACATGTG
45428366 TTGTAATATC
Statistics
Matches: 255, Mismatches: 50, Indels: 45
0.73 0.14 0.13
Matches are distributed among these distances:
44 18 0.07
45 1 0.00
46 17 0.07
47 1 0.00
48 10 0.04
49 54 0.21
50 60 0.24
51 73 0.29
52 18 0.07
53 3 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATTTGGTACA
Found at i:45432158 original size:238 final size:239
Alignment explanation
Indices: 45431740--45432215 Score: 891
Period size: 238 Copynumber: 2.0 Consensus size: 239
45431730 AAAAGCTTAA
*
45431740 TCGGTAAAAATACCTAATAGTCATAAGTACATGTTAGAGTGAGAGTTTGATGTTGCCATAGAAAG
1 TCGGTAAAAATACCTAATAGTCATAAGTACATGTTAGAGTGAGAATTTGATGTTGCCATAGAAAG
45431805 AAAAAATGATCAGCATGTCATAAAACATAAGAAAATAGGCTGAAGTTTAATTTACGAGCCTTGGG
66 AAAAAATGATCAGCATGTCATAAAACATAAGAAAATAGGCTGAAGTTTAATTTACGAGCCTTGGG
*
45431870 GAAAAAGTATAAATATGCAAAAGTTTAGGGGCAAAATTGTAATTTTTCCAAACTATGATTTTCGG
131 GAAAAAGTATAAATATGCAAAAGTTTAGGGGCAAAATTGTAATTTTTCCAAAATATGATTTTCGG
45431935 TCAATTTGAATAATGTGAGTCCTAATT-GACTATATTTTAAATT
196 TCAATTTGAATAATGTGAGTCCTAATTAGACTATATTTTAAATT
* *
45431978 TCGGTAAAAATACCTAATAGTCATAAGTACATGTTAGAGTGAGAATTTGATGTTTCCATAGAAGG
1 TCGGTAAAAATACCTAATAGTCATAAGTACATGTTAGAGTGAGAATTTGATGTTGCCATAGAAAG
*
45432043 GAAAAATGATCAGCATGTCATAAAACATAAGAAAATAGGCTGAAGTTTAATTTACGAGCCTTGGG
66 AAAAAATGATCAGCATGTCATAAAACATAAGAAAATAGGCTGAAGTTTAATTTACGAGCCTTGGG
*
45432108 GAAAAAGTATAAATATGCAAAAGTTTAGGGGCAAAATTGTAATTTTTCCAAAATATGATTTTGGG
131 GAAAAAGTATAAATATGCAAAAGTTTAGGGGCAAAATTGTAATTTTTCCAAAATATGATTTTCGG
45432173 TCAATTTGAATAATGTGAGTCCTAATTAGACTATATTTTAAAT
196 TCAATTTGAATAATGTGAGTCCTAATTAGACTATATTTTAAAT
45432216 GATAGAGCAA
Statistics
Matches: 231, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
238 216 0.94
239 15 0.06
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (239 bp):
TCGGTAAAAATACCTAATAGTCATAAGTACATGTTAGAGTGAGAATTTGATGTTGCCATAGAAAG
AAAAAATGATCAGCATGTCATAAAACATAAGAAAATAGGCTGAAGTTTAATTTACGAGCCTTGGG
GAAAAAGTATAAATATGCAAAAGTTTAGGGGCAAAATTGTAATTTTTCCAAAATATGATTTTCGG
TCAATTTGAATAATGTGAGTCCTAATTAGACTATATTTTAAATT
Found at i:45432652 original size:47 final size:47
Alignment explanation
Indices: 45432583--45433365 Score: 1452
Period size: 47 Copynumber: 16.7 Consensus size: 47
45432573 GGATGGTTGA
45432583 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
45432630 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
45432677 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
45432724 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
45432771 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
45432818 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
45432865 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
45432912 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
45432959 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
45433006 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
45433053 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
45433100 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
45433147 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
45433194 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACT-G
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
45433240 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--
1 -GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAG
45433289 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
45433334 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
45433366 ACTCATGGAT
Statistics
Matches: 720, Mismatches: 6, Indels: 20
0.97 0.01 0.03
Matches are distributed among these distances:
42 2 0.00
43 5 0.01
45 3 0.00
46 30 0.04
47 670 0.93
48 3 0.00
50 5 0.01
51 2 0.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:45433311 original size:46 final size:46
Alignment explanation
Indices: 45433244--45433419 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
45433234 TAACTGAGCA
45433244 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
45433290 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
45433335 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
45433383 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45433420 GTGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:45437385 original size:16 final size:16
Alignment explanation
Indices: 45437364--45437399 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
45437354 GAACTTGAGG
45437364 GCTCTGAATCCCTCTT
1 GCTCTGAATCCCTCTT
45437380 GCTCTGAATCCCTCTT
1 GCTCTGAATCCCTCTT
45437396 GCTC
1 GCTC
45437400 CTACCCCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.11, C:0.39, G:0.14, T:0.36
Consensus pattern (16 bp):
GCTCTGAATCCCTCTT
Found at i:45448524 original size:42 final size:41
Alignment explanation
Indices: 45448464--45448612 Score: 154
Period size: 42 Copynumber: 3.6 Consensus size: 41
45448454 AGATGCCAAT
* * *
45448464 GCCATGTCCCAGACATGGTCTTACATGGAATCTCACATCGAT
1 GCCATATCCCAGACATGGTCTTACA-GGAATCTCATATCGAC
* * * *
45448506 GCCATATCCCAGATATGGTCTTATACGAATTCTCATTTCGAC
1 GCCATATCCCAGACATGGTCTTACAGGAA-TCTCATATCGAC
* * *
45448548 GCCATGTCCCAGACATGGTCTTACACGAAATCTCATATCAAC
1 GCCATATCCCAGACATGGTCTTACA-GGAATCTCATATCGAC
** *
45448590 ATCATATCCCAGATATGGTCTTA
1 GCCATATCCCAGACATGGTCTTA
45448613 AATGATAAGT
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
41 3 0.03
42 82 0.94
43 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (41 bp):
GCCATATCCCAGACATGGTCTTACAGGAATCTCATATCGAC
Found at i:45451390 original size:31 final size:31
Alignment explanation
Indices: 45451352--45451421 Score: 113
Period size: 31 Copynumber: 2.2 Consensus size: 31
45451342 CTCAACTCCG
* *
45451352 CTAGTATGGATTCTTCGTCGGACACAATCAA
1 CTAGTATGGAATCATCGTCGGACACAATCAA
45451383 CTAGTATGGAATCATCGTCGGACACAATCAA
1 CTAGTATGGAATCATCGTCGGACACAATCAA
45451414 CTAAGTAT
1 CT-AGTAT
45451422 TCATAGCTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 31 0.86
32 5 0.14
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (31 bp):
CTAGTATGGAATCATCGTCGGACACAATCAA
Found at i:45456318 original size:42 final size:41
Alignment explanation
Indices: 45456258--45456406 Score: 136
Period size: 42 Copynumber: 3.6 Consensus size: 41
45456248 AGATGCCAAT
* * * * *
45456258 GCCATGTCCCAAACATGGTCTTACATGGAATCTCACATCGAT
1 GCCATATCCCAAATATGGTCTTACA-AGAATCTCATATCGAC
* * * * * *
45456300 GCCATATCCCAGATATGGTCTTATACGAATTATCATTTTGAC
1 GCCATATCCCAAATATGGTCTTACAAGAA-TCTCATATCGAC
* * * *
45456342 GCCATGTCCCAGATATGGTCTTACACAAAATCTCATATCAAC
1 GCCATATCCCAAATATGGTCTTACA-AGAATCTCATATCGAC
45456384 GCCATATCCCAAATATGGTCTTA
1 GCCATATCCCAAATATGGTCTTA
45456407 AATGATAACT
Statistics
Matches: 85, Mismatches: 20, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
41 3 0.04
42 80 0.94
43 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (41 bp):
GCCATATCCCAAATATGGTCTTACAAGAATCTCATATCGAC
Found at i:45464428 original size:13 final size:13
Alignment explanation
Indices: 45464410--45464436 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45464400 GAAGTAATCG
45464410 CACACGGGCGTGT
1 CACACGGGCGTGT
45464423 CACACGGGCGTGT
1 CACACGGGCGTGT
45464436 C
1 C
45464437 CCTGCCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:45473359 original size:103 final size:104
Alignment explanation
Indices: 45473115--45473380 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
45473105 GTTGTACATA
** *
45473115 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
45473180 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
45473219 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
45473283 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
45473322 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
45473381 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:45479413 original size:7 final size:6
Alignment explanation
Indices: 45479402--45479435 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
45479392 ATTTAATTTA
*
45479402 ATTTTT ATTTTT ATTTTT ATTTTAT GTTTTT ATT
1 ATTTTT ATTTTT ATTTTT ATTTT-T ATTTTT ATT
45479436 AATTTCACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (6 bp):
ATTTTT
Found at i:45479417 original size:12 final size:13
Alignment explanation
Indices: 45479393--45479435 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 13
45479383 TTTAATTTAA
*
45479393 TTTAATTTA-ATT
1 TTTATTTTATATT
45479405 TTTATTTT-TATT
1 TTTATTTTATATT
*
45479417 TTTATTTTATGTT
1 TTTATTTTATATT
45479430 TTTATT
1 TTTATT
45479436 AATTTCACCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 18 0.67
13 9 0.33
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (13 bp):
TTTATTTTATATT
Found at i:45487791 original size:40 final size:40
Alignment explanation
Indices: 45487723--45487918 Score: 261
Period size: 40 Copynumber: 4.9 Consensus size: 40
45487713 GGATTATATC
* * * *
45487723 CGGGTTAAGTCCCAAAGACATTCATGCTGGTTGTTATTTT
1 CGGGTTAAGTCTCGAAGGCATTCGTGCTGGTTGTTATTTT
* * **
45487763 CGAGTTAAGTCTCGAAGGCAATCGTGCTGGTTGTTATTCC
1 CGGGTTAAGTCTCGAAGGCATTCGTGCTGGTTGTTATTTT
45487803 CGGGTTAAGT-TCCGAAGGCATTCGTGCTGGTTGTTATTTT
1 CGGGTTAAGTCT-CGAAGGCATTCGTGCTGGTTGTTATTTT
*
45487843 CGGGTTAAGTCTCGAAGGCATTCATGCTGGTT-TCTATTTT
1 CGGGTTAAGTCTCGAAGGCATTCGTGCTGGTTGT-TATTTT
* *
45487883 CGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGTTA
1 CGGGTTAAGTCTCGAAGGCATTCGTGCTGGTTGTTA
45487919 CATCCGGGCT
Statistics
Matches: 136, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.01
40 132 0.97
41 2 0.01
ACGTcount: A:0.18, C:0.17, G:0.28, T:0.37
Consensus pattern (40 bp):
CGGGTTAAGTCTCGAAGGCATTCGTGCTGGTTGTTATTTT
Found at i:45487940 original size:40 final size:40
Alignment explanation
Indices: 45487716--45487940 Score: 224
Period size: 40 Copynumber: 5.6 Consensus size: 40
45487706 CAATTGAGGA
* ** * *
45487716 TTATATCCGGGTTAAGTCCCAAAGACATTCATGCTGGTTG
1 TTATTTCCGGGTTAAGTCCTGAAGGCATTCGTGCTGGTTG
* * *
45487756 TTATTTTCGAGTTAAGT-CTCGAAGGCAATCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCT-GAAGGCATTCGTGCTGGTTG
*
45487796 TTATTCCCGGGTTAAGTTCC-GAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAG-TCCTGAAGGCATTCGTGCTGGTTG
* *
45487836 TTATTTTCGGGTTAAGT-CTCGAAGGCATTCATGCTGGTT-
1 TTATTTCCGGGTTAAGTCCT-GAAGGCATTCGTGCTGGTTG
* * *
45487875 TCTATTTTCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 T-TATTTCCGGGTTAAGTCCTGAAGGCATTCGTGCTGGTTG
** * *
45487916 TTACATCCGGGCTAAATCCTGAAGG
1 TTATTTCCGGGTTAAGTCCTGAAGG
45487941 TAATTGGGTT
Statistics
Matches: 153, Mismatches: 24, Indels: 16
0.79 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 3 0.02
40 145 0.95
41 3 0.02
42 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.36
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCTGAAGGCATTCGTGCTGGTTG
Found at i:45487940 original size:80 final size:80
Alignment explanation
Indices: 45487722--45487918 Score: 288
Period size: 80 Copynumber: 2.5 Consensus size: 80
45487712 AGGATTATAT
* * * * *
45487722 CCGGGTTAAGTCCCAAAGACATTCATGCTGGTTGTTATTTTCGAGTTAAGTCTCGAAGGCAATCG
1 CCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTTCGGGTTAAGTCTCGAAGGCAATCA
45487787 TGCTGGTTGTTATTC
66 TGCTGGTTGTTATTC
* *
45487802 CCGGGTTAAGTTCCGAAGGCATTCGTGCTGGTTGTTATTTTCGGGTTAAGTCTCGAAGGCATTCA
1 CCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTTCGGGTTAAGTCTCGAAGGCAATCA
*
45487867 TGCTGGTT-TCTATTT
66 TGCTGGTTGT-TATTC
* *
45487882 TCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGTTA
1 CCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTA
45487919 CATCCGGGCT
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
79 1 0.01
80 104 0.99
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (80 bp):
CCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTTCGGGTTAAGTCTCGAAGGCAATCA
TGCTGGTTGTTATTC
Found at i:45487940 original size:120 final size:120
Alignment explanation
Indices: 45487723--45487940 Score: 298
Period size: 120 Copynumber: 1.8 Consensus size: 120
45487713 GGATTATATC
*
45487723 CGGGTTAAGTCCCAAAGACATTCATGCTGGTTGTTATTTTCGAGTTAAGTCTCGAAGGCAATCGT
1 CGGGTTAAGTCCCAAAGACATTCATGCTGGTTGTTATTTTCGAGTTAAGTCCCGAAGGCAATCGT
* * *
45487788 GCTGGTTGTTATTCCCGGGTTAAGTTCCGAAGGCATTCGTGCTGGTTGTTATTTT
66 GCTGGTTGTTAATCCCGGGCTAAGATCCGAAGGCATTCGTGCTGGTTGTTATTTT
* * * * * *
45487843 CGGGTTAAGTCTCGAAGGCATTCATGCTGGTT-TCTATTTTCGGGTTAAGTCCCGAAGGCATTTG
1 CGGGTTAAGTCCCAAAGACATTCATGCTGGTTGT-TATTTTCGAGTTAAGTCCCGAAGGCAATCG
45487907 TGCTGGTTGTTACAT-CCGGGCTAA-ATCCTGAAGG
65 TGCTGGTTGTTA-ATCCCGGGCTAAGATCC-GAAGG
45487941 TAATTGGGTT
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
119 4 0.05
120 80 0.94
121 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.28, T:0.35
Consensus pattern (120 bp):
CGGGTTAAGTCCCAAAGACATTCATGCTGGTTGTTATTTTCGAGTTAAGTCCCGAAGGCAATCGT
GCTGGTTGTTAATCCCGGGCTAAGATCCGAAGGCATTCGTGCTGGTTGTTATTTT
Found at i:45496634 original size:48 final size:48
Alignment explanation
Indices: 45496555--45496786 Score: 196
Period size: 48 Copynumber: 4.9 Consensus size: 48
45496545 TTAGGGTTAT
*
45496555 ATGTGATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCATCG-C
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAC
* * * *
45496602 TATGAT-ATCCCATATAAGACCGTGTCTAGGACATGGAATTGGCATCGAC
1 -ATG-TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAC
* * * *
45496651 ATGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCAAT
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAC
* *** *
45496699 ATGAGA-CATTGTGTAAGACCATAGT-TGGG-C-T---ATTGGCTTCGATC
1 ATGTGATC-CCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGA-C
* * *
45496743 -TGTGATCCCATGTAAGATCATATCTGGGATATGGCATTGGCATC
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
45496787 TTACTATGTT
Statistics
Matches: 141, Mismatches: 30, Indels: 26
0.72 0.15 0.13
Matches are distributed among these distances:
42 1 0.01
43 27 0.19
44 1 0.01
45 1 0.01
46 1 0.01
47 2 0.01
48 105 0.74
49 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (48 bp):
ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAC
Found at i:45501106 original size:31 final size:31
Alignment explanation
Indices: 45501070--45501164 Score: 74
Period size: 31 Copynumber: 3.2 Consensus size: 31
45501060 GAAGAGTGGT
* *
45501070 AGAAGGATTCGGCTATGGAGAAAAGAAGAGG
1 AGAAGGATTCGGATATGAAGAAAAGAAGAGG
* * ** *
45501101 AGAAGG--T-AGAT-TGTAGGGAAG-AGTGG
1 AGAAGGATTCGGATATGAAGAAAAGAAGAGG
*
45501127 TAGAAGGATTCGGGTATGAAGAAAAGAAGAGG
1 -AGAAGGATTCGGATATGAAGAAAAGAAGAGG
45501159 AGAAGG
1 AGAAGG
45501165 TAGATGGAGA
Statistics
Matches: 46, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
26 4 0.09
27 13 0.28
28 2 0.04
29 2 0.04
30 2 0.04
31 19 0.41
32 4 0.09
ACGTcount: A:0.41, C:0.03, G:0.41, T:0.15
Consensus pattern (31 bp):
AGAAGGATTCGGATATGAAGAAAAGAAGAGG
Found at i:45501127 original size:58 final size:58
Alignment explanation
Indices: 45501058--45501169 Score: 206
Period size: 58 Copynumber: 1.9 Consensus size: 58
45501048 AAGTGGTGTT
*
45501058 GGGAAGAGTGGTAGAAGGATTCGGCTATGGAGAAAAGAAGAGGAGAAGGTAGATTGTA
1 GGGAAGAGTGGTAGAAGGATTCGGCTATGAAGAAAAGAAGAGGAGAAGGTAGATTGTA
*
45501116 GGGAAGAGTGGTAGAAGGATTCGGGTATGAAGAAAAGAAGAGGAGAAGGTAGAT
1 GGGAAGAGTGGTAGAAGGATTCGGCTATGAAGAAAAGAAGAGGAGAAGGTAGAT
45501170 GGAGAGAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.39, C:0.03, G:0.42, T:0.16
Consensus pattern (58 bp):
GGGAAGAGTGGTAGAAGGATTCGGCTATGAAGAAAAGAAGAGGAGAAGGTAGATTGTA
Found at i:45501192 original size:58 final size:58
Alignment explanation
Indices: 45501070--45501193 Score: 144
Period size: 58 Copynumber: 2.1 Consensus size: 58
45501060 GAAGAGTGGT
* * * * ***
45501070 AGAAGGATTCGGCTATGGAGAAAAGAAGAGGAGAAGGTAGATTGTAGGGAAGAGTGGT
1 AGAAGGATTCGGCTATGAAGAAAAGAAGAGGAGAAGGTAGATTGGAGGAAAAAGTAAA
*
45501128 AGAAGGATTCGGGTATGAAGAAAAGAAGAGGAGAAGGTAGA-TGGAGAGAAAAAG-AAA
1 AGAAGGATTCGGCTATGAAGAAAAGAAGAGGAGAAGGTAGATTGGAG-GAAAAAGTAAA
45501185 AGAAAGGAT
1 AG-AAGGAT
45501194 GAGGAGGTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
57 6 0.11
58 50 0.89
ACGTcount: A:0.45, C:0.02, G:0.39, T:0.14
Consensus pattern (58 bp):
AGAAGGATTCGGCTATGAAGAAAAGAAGAGGAGAAGGTAGATTGGAGGAAAAAGTAAA
Found at i:45502370 original size:141 final size:141
Alignment explanation
Indices: 45502210--45502529 Score: 389
Period size: 141 Copynumber: 2.3 Consensus size: 141
45502200 CCTTACTATA
* * **
45502210 ATATGTGTACTA-TAGTACTACATCCCCAACATCATGATATATC-TAGTCCCTAACATCAATATG
1 ATATGTGTACTATTA-TACTATATCCCAAACATCACAATATA-CATAGTCCCTAACATCAATATG
* * * * *
45502273 TACATGCATGCCTTATTATGATATGTGACTTATTTACATAGTCC-CTAAT-AACTGAAATTGCAT
64 TACATGCATACCTTATTATGATAAGTGACTTATGTACATAG-CCTCT-ATCAACTCAAATTACAT
*
45502336 GCGTT-CCTTCTTATG
127 GCATTACC-TCTTATG
* * ** * *
45502351 ATATGTGTACTATTATACTATGTCCCAAACATCACAATGTACATTTTCCCTGACATCAATGTGTA
1 ATATGTGTACTATTATACTATATCCCAAACATCACAATATACATAGTCCCTAACATCAATATGTA
45502416 CATGCATACCTTATTATGATAAGTGACTTATGTACATAGCCTCTATCAACTCAAATTACATGCAT
66 CATGCATACCTTATTATGATAAGTGACTTATGTACATAGCCTCTATCAACTCAAATTACATGCAT
45502481 TACCTCTTATG
131 TACCTCTTATG
* **
45502492 ATATGTGTATTATTATACTATATCCTTAACATCACAAT
1 ATATGTGTACTATTATACTATATCCCAAACATCACAAT
45502530 GTAAATGCAT
Statistics
Matches: 154, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
140 5 0.03
141 145 0.94
142 4 0.03
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (141 bp):
ATATGTGTACTATTATACTATATCCCAAACATCACAATATACATAGTCCCTAACATCAATATGTA
CATGCATACCTTATTATGATAAGTGACTTATGTACATAGCCTCTATCAACTCAAATTACATGCAT
TACCTCTTATG
Found at i:45502530 original size:141 final size:141
Alignment explanation
Indices: 45502256--45502532 Score: 398
Period size: 141 Copynumber: 2.0 Consensus size: 141
45502246 ATATATCTAG
* * *
45502256 TCCCTAACATCAATATGTACATGCATGCCTTATTATGATATGTGACTTATTTACATAGTCCCTAA
1 TCCCTAACATCAATATGTACATGCATACCTTATTATGATAAGTGACTTATGTACATAGTCCCTAA
* * * *
45502321 TAACTGAAATTGCATGCGTTCCTTCTTATGATATGTGTACTATTATACTATGTCCCAAACATCAC
66 TAACTCAAATTACATGCATTCCTTCTTATGATATGTGTACTATTATACTATATCCCAAACATCAC
45502386 AATGTACATTT
131 AATGTACATTT
* *
45502397 TCCCTGACATCAATGTGTACATGCATACCTTATTATGATAAGTGACTTATGTACATAG-CCTCT-
1 TCCCTAACATCAATATGTACATGCATACCTTATTATGATAAGTGACTTATGTACATAGTCC-CTA
* **
45502460 ATCAACTCAAATTACATGCATTACC-TCTTATGATATGTGTATTATTATACTATATCCTTAACAT
65 AT-AACTCAAATTACATGCATT-CCTTCTTATGATATGTGTACTATTATACTATATCCCAAACAT
45502524 CACAATGTA
128 CACAATGTA
45502533 AATGCATGTC
Statistics
Matches: 121, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
140 4 0.03
141 115 0.95
142 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (141 bp):
TCCCTAACATCAATATGTACATGCATACCTTATTATGATAAGTGACTTATGTACATAGTCCCTAA
TAACTCAAATTACATGCATTCCTTCTTATGATATGTGTACTATTATACTATATCCCAAACATCAC
AATGTACATTT
Found at i:45502682 original size:122 final size:123
Alignment explanation
Indices: 45502428--45502683 Score: 324
Period size: 123 Copynumber: 2.1 Consensus size: 123
45502418 TGCATACCTT
* * *
45502428 ATTATGATAAGTGACTTATGTACATAGCCTCTATCAACTCAAATTACATGCATTACCTCTTATGA
1 ATTATGATATGCGACTTATGCACATAGCCTCTATCAACTCAAATTACATGCATTACCTCTTATGA
* * * * *
45502493 TATGTGTATTATTATACTATATCCTTAACATCACAATGTAAATGCATGTCTTACTCCC
66 TATGTGTACTATCATACAATATCCCTAACATCACAATGTAAATGCATGCCTTACTCCC
* * *
45502551 ATTATGATATGCGACTTATGCACATAGTCC-CTA-CTAACTCAAATTACATGCATTCCCTTTTGT
1 ATTATGATATGCGACTTATGCACATAG-CCTCTATC-AACTCAAATTACATGCATTACCTCTTAT
* *
45502614 GATATTTG-ACCTA-CATA-AATAGTCCCTAACATCTCAATGTAAATGCATGCCTTACTCCC
64 GATATGTGTA-CTATCATACAATA-TCCCTAACATCACAATGTAAATGCATGCCTTACTCCC
45502673 ATTATGATATG
1 ATTATGATATG
45502684 TGACCTTGTA
Statistics
Matches: 116, Mismatches: 13, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
121 3 0.03
122 50 0.43
123 61 0.53
124 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.36
Consensus pattern (123 bp):
ATTATGATATGCGACTTATGCACATAGCCTCTATCAACTCAAATTACATGCATTACCTCTTATGA
TATGTGTACTATCATACAATATCCCTAACATCACAATGTAAATGCATGCCTTACTCCC
Found at i:45503652 original size:89 final size:89
Alignment explanation
Indices: 45503500--45503662 Score: 299
Period size: 89 Copynumber: 1.8 Consensus size: 89
45503490 CTTTTGAATA
* * *
45503500 TGTGAGGTAGAGTTGGAGTGATTCTAGACTCCCTTGTCTTAACTTTTGAAAATCACTATAAATTT
1 TGTGAGATAGAGTTGGAGTGATTCTAGACTCCCCTGTCTTAACTTTTGAAAATCACTAGAAATTT
45503565 TAAAAAAATGGATATTTGAATTCT
66 TAAAAAAATGGATATTTGAATTCT
45503589 TGTGAGATAGAGTTGGAGTGATTCTAGACTCCCCTGTCTTAACTTTTGAAAATCACTAGAAATTT
1 TGTGAGATAGAGTTGGAGTGATTCTAGACTCCCCTGTCTTAACTTTTGAAAATCACTAGAAATTT
45503654 TAAAAAAAT
66 TAAAAAAAT
45503663 AATTATGAGT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 71 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (89 bp):
TGTGAGATAGAGTTGGAGTGATTCTAGACTCCCCTGTCTTAACTTTTGAAAATCACTAGAAATTT
TAAAAAAATGGATATTTGAATTCT
Found at i:45507602 original size:15 final size:15
Alignment explanation
Indices: 45507582--45507611 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45507572 CTTTTCTGGC
*
45507582 CGATTTGCTTTCTGT
1 CGATTTGCTCTCTGT
45507597 CGATTTGCTCTCTGT
1 CGATTTGCTCTCTGT
45507612 TTTACCCTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.23, G:0.20, T:0.50
Consensus pattern (15 bp):
CGATTTGCTCTCTGT
Found at i:45508721 original size:19 final size:19
Alignment explanation
Indices: 45508697--45508733 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
45508687 GCATGACCTC
45508697 TATATGCACCTGAACGATT
1 TATATGCACCTGAACGATT
*
45508716 TATATGTACCTGAACGAT
1 TATATGCACCTGAACGAT
45508734 AATATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (19 bp):
TATATGCACCTGAACGATT
Found at i:45510373 original size:18 final size:17
Alignment explanation
Indices: 45510345--45510379 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45510335 AGTATTAAGA
*
45510345 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
45510362 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
45510380 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:45510379 original size:16 final size:16
Alignment explanation
Indices: 45510345--45510399 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
45510335 AGTATTAAGA
45510345 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
45510362 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
45510378 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
45510392 ATGTTTAA
1 AT-TTTAA
45510400 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:45510636 original size:16 final size:16
Alignment explanation
Indices: 45510615--45510682 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
45510605 GATTTGCTAT
45510615 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
45510631 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
45510647 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45510663 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45510679 TACA
1 TACA
45510683 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:45514750 original size:23 final size:23
Alignment explanation
Indices: 45514724--45514771 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
45514714 CTTTACTTAG
*
45514724 TAAATACGCATTTTATTGATCCT
1 TAAATACGCATTTTACTGATCCT
45514747 TAAATACGCATTTTACTGATCCT
1 TAAATACGCATTTTACTGATCCT
45514770 TA
1 TA
45514772 TTTACTAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (23 bp):
TAAATACGCATTTTACTGATCCT
Found at i:45518461 original size:50 final size:50
Alignment explanation
Indices: 45518400--45518534 Score: 182
Period size: 50 Copynumber: 2.7 Consensus size: 50
45518390 CCACATAGGC
*
45518400 TTTACAGGTGACTCACCACAAAGGCTTCCTAAATAAATTGCCAGAAAGGA
1 TTTACAGGTGACTCACCACAAAGACTTCCTAAATAAATTGCCAGAAAGGA
* * * * * *
45518450 TTTACAAGTGACTCGCCAAAAAGCCTTCCAAAATAAATTGCCATAAAGGA
1 TTTACAGGTGACTCACCACAAAGACTTCCTAAATAAATTGCCAGAAAGGA
*
45518500 TTTATAGGTGACTCACC-CAAAAGACTTCCTAAATA
1 TTTACAGGTGACTCACCAC-AAAGACTTCCTAAATA
45518535 TGGATTTTCC
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (50 bp):
TTTACAGGTGACTCACCACAAAGACTTCCTAAATAAATTGCCAGAAAGGA
Found at i:45526613 original size:18 final size:18
Alignment explanation
Indices: 45526586--45526624 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
45526576 GCCTCGACCT
*
45526586 CCTCTACCACGATAACCA
1 CCTCTACCACAATAACCA
*
45526604 CCTCTGCCACAATAACCA
1 CCTCTACCACAATAACCA
45526622 CCT
1 CCT
45526625 TTGTATGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.31, C:0.46, G:0.05, T:0.18
Consensus pattern (18 bp):
CCTCTACCACAATAACCA
Found at i:45530385 original size:15 final size:15
Alignment explanation
Indices: 45530365--45530394 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45530355 TTTTCTTTTT
45530365 TTTAAATCATGATTA
1 TTTAAATCATGATTA
*
45530380 TTTAAATTATGATTA
1 TTTAAATCATGATTA
45530395 AATGTGGATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (15 bp):
TTTAAATCATGATTA
Found at i:45531529 original size:18 final size:18
Alignment explanation
Indices: 45531508--45531545 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
45531498 ATTAAATGAC
45531508 ATTTTTATTTTAAAATAA
1 ATTTTTATTTTAAAATAA
45531526 ATTTTTATTTTAAAATAA
1 ATTTTTATTTTAAAATAA
45531544 AT
1 AT
45531546 AAATAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTTATTTTAAAATAA
Found at i:45538417 original size:28 final size:27
Alignment explanation
Indices: 45538350--45538419 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 27
45538340 AGAATATGAT
* *
45538350 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTAACCATGCA
* *
45538377 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TAACCATGCA
*
45538405 GCACTAAGGGTGCGA
1 GCACTAAGTGTGCGA
45538420 TTTGATTACG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 17 0.46
28 20 0.54
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTAACCATGCA
Found at i:45538435 original size:55 final size:53
Alignment explanation
Indices: 45538295--45538446 Score: 178
Period size: 55 Copynumber: 2.8 Consensus size: 53
45538285 TAAATTGTAC
* *
45538295 AGCACTAAGTGTGCGATTCGATTATGTTGCACTAAGTGTGCGAAAAGAATATG
1 AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
* ** * ***
45538348 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAATCTAACTATG
1 A-GCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAA-TATG
* *
45538403 TAGCACTAAGGGTGCGATTTGATTACGTGGCACTAAGTGTGCGA
1 -AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGA
45538447 GTTGAGTGAA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 39 0.48
55 40 0.49
56 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
Found at i:45538451 original size:27 final size:27
Alignment explanation
Indices: 45538296--45538451 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
45538286 AAATTGTACA
* *
45538296 GCACTAAGTGTGCG-ATTCGATTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
** *
45538323 GCACTAAGTGTGCGAAAAGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
45538350 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* *
45538377 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * * *
45538405 GCACTAAGGGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
45538432 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
45538452 GTGAATAGCA
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
27 82 0.78
28 23 0.22
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:45540514 original size:48 final size:48
Alignment explanation
Indices: 45540444--45540770 Score: 332
Period size: 48 Copynumber: 6.8 Consensus size: 48
45540434 TAATATGATA
* * * *
45540444 ATGCCATGTCTCAGAAATGGTCTTACACTAGCTCACA-AGTTGAGGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATA-TCGAGGCCG
* * * ** * *
45540492 ATGCCATGTCCTAGACATGGTCTTACAGTAGCTCTCATATAAATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCCG
* * * * * *
45540540 ATGCCATGTTCCAAACATAGTCTTACACTATCTCATATATCGAGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCCG
* * * * *
45540588 ATGTCATGTCCCAGACATGGTCTTACACTATCTCACTTATCGACGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCCG
* * * *
45540636 ATACCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCCG
* * ** *
45540684 ATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCATATAAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCCG
* * *
45540732 ATGCCATGTTCCAAACATGATCTTACACTAGCTCACATA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATA
45540771 ACTCTAGTAT
Statistics
Matches: 229, Mismatches: 49, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
48 228 1.00
49 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCCG
Found at i:45546460 original size:92 final size:91
Alignment explanation
Indices: 45546261--45546464 Score: 261
Period size: 92 Copynumber: 2.2 Consensus size: 91
45546251 TTGGTATCCA
*
45546261 CAACCAGAGGCAGATTCCATCTCAATTATATGTTGTGTAAATCACAGCCAAAAGCAGATTTCATT
1 CAACCAGAGGCAGATTCCATCTCAATTATATGTTGTGTAAATCACAGCCAAAAGCAGATTTCATA
*
45546326 TGTAAGACATTGTTTTGGGAACCCAT
66 TGTAAGACATTGTTTTAGGAACCCAT
* * * * * * *
45546352 -AGCCGGAGGAAAATTCCATCTGCGAGTTATTTGTTGTGTAAATCATAGCCAAAAGCAGATTTCA
1 CAACCAGAGGCAGATTCCATCT-C-AATTATATGTTGTGTAAATCACAGCCAAAAGCAGATTTCA
* *
45546416 TATGTGATACATT-TTGTTAGGAACCC-T
64 TATGTAAGACATTGTT-TTAGGAACCCAT
45546443 CAACCAGAGGCAGATTCCATCT
1 CAACCAGAGGCAGATTCCATCT
45546465 ATGGGGATTT
Statistics
Matches: 94, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
90 17 0.18
91 4 0.04
92 73 0.78
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (91 bp):
CAACCAGAGGCAGATTCCATCTCAATTATATGTTGTGTAAATCACAGCCAAAAGCAGATTTCATA
TGTAAGACATTGTTTTAGGAACCCAT
Found at i:45550012 original size:25 final size:24
Alignment explanation
Indices: 45549984--45550040 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
45549974 TTATAAACGC
**
45549984 CCTGATATAGGCTCTTTTTGAACTT
1 CCTGATATAGGCTC-GCTTGAACTT
45550009 CCTGATAT-GGCTCGCTTGAACTT
1 CCTGATATAGGCTCGCTTGAACTT
*
45550032 TCTGATATA
1 CCTGATATA
45550041 CAGCTATCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.54
24 5 0.18
25 8 0.29
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (24 bp):
CCTGATATAGGCTCGCTTGAACTT
Found at i:45552612 original size:10 final size:9
Alignment explanation
Indices: 45552589--45552614 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
45552579 TTTGATGTTA
45552589 GTTTTTGAT
1 GTTTTTGAT
45552598 GTTTTTGAT
1 GTTTTTGAT
45552607 GTTTTTGA
1 GTTTTTGA
45552615 GATCCTTGAA
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:0.12, C:0.00, G:0.23, T:0.65
Consensus pattern (9 bp):
GTTTTTGAT
Found at i:45553393 original size:48 final size:49
Alignment explanation
Indices: 45553314--45553444 Score: 140
Period size: 50 Copynumber: 2.7 Consensus size: 49
45553304 AGATCCAGTA
* * * * * **
45553314 TAAGACCATATCTGGGATATGGCATCGGCATC-AGTATGTGTTAT-CATG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCGA-CATATGAAATCCATG
* *
45553362 TAAGACCATGTCTGGGACATGGTATTTGCATCGACATATGAAATCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCGACATATGAAAT-CCATG
*
45553412 TAAGACCTTGTCTGGGACATGGCATTGGCATCG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCG
45553445 TGTGGTGATC
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
48 33 0.49
49 1 0.01
50 34 0.50
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
TAAGACCATGTCTGGGACATGGCATTGGCATCGACATATGAAATCCATG
Found at i:45553491 original size:98 final size:98
Alignment explanation
Indices: 45553314--45553491 Score: 216
Period size: 98 Copynumber: 1.8 Consensus size: 98
45553304 AGATCCAGTA
* * * *
45553314 TAAGACCATATCTGGGATATGGCATCGGCATCAGTATGTGTTATCATGTAAGACCATGTCTGGGA
1 TAAGACCATATCTGGGACATGGCATCGGCATCAGTATGTGTGATCATATAAGACCATATCTGGGA
* *
45553379 CATGGTATTTGCATCGACATATGAAATCCCATG
66 CATGGCATTGGCATCGACATATGAAATCCCATG
* * * *
45553412 TAAGACCTTGTCTGGGACATGGCATTGGCATC-GTGTG-GTGATCGCATATAAGACCATATCTGG
1 TAAGACCATATCTGGGACATGGCATCGGCATCAGTATGTGTGAT--CATATAAGACCATATCTGG
* *
45553475 GATATGGCGTTGGCATC
64 GACATGGCATTGGCATC
45553492 TTATTATTTG
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
96 4 0.06
97 4 0.06
98 58 0.88
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (98 bp):
TAAGACCATATCTGGGACATGGCATCGGCATCAGTATGTGTGATCATATAAGACCATATCTGGGA
CATGGCATTGGCATCGACATATGAAATCCCATG
Found at i:45558100 original size:31 final size:31
Alignment explanation
Indices: 45558065--45558130 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
45558055 TGTGTTTCAT
45558065 ACTAGTATGCAGCATATATGTGAATTTGATC
1 ACTAGTATGCAGCATATATGTGAATTTGATC
45558096 ACTAGTATGCAGCATATATGTGAATTTGATC
1 ACTAGTATGCAGCATATATGTGAATTTGATC
45558127 ACTA
1 ACTA
45558131 TGTTTAGTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (31 bp):
ACTAGTATGCAGCATATATGTGAATTTGATC
Found at i:45564458 original size:48 final size:48
Alignment explanation
Indices: 45564290--45564467 Score: 146
Period size: 48 Copynumber: 3.7 Consensus size: 48
45564280 AGATACCGTA
* * * *
45564290 TAAGACCATATCTAGGATATGGCATCGACATCGGTATGTGTTAT--CATG
1 TAAGACCATATCTAGGACATGGCATTGGCATC-GTATG-GTGATCCCATG
* * * *
45564338 TAAGACCATGTCTGGGACATGGCATTGGCATCAACATAT-GAGATCCCATG
1 TAAGACCATATCTAGGACATGGCATTGGCAT---CGTATGGTGATCCCATG
** * *
45564388 TAAGACCACGTCTTGGACATGGCATTGGCATCGTGTGGTGATCCCATG
1 TAAGACCATATCTAGGACATGGCATTGGCATCGTATGGTGATCCCATG
* * * *
45564436 TAAGACAATATCTAGGATATGGCGTTGCCATC
1 TAAGACCATATCTAGGACATGGCATTGGCATC
45564468 TTATTATGTG
Statistics
Matches: 104, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
47 3 0.03
48 64 0.62
50 36 0.35
51 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (48 bp):
TAAGACCATATCTAGGACATGGCATTGGCATCGTATGGTGATCCCATG
Found at i:45568250 original size:53 final size:53
Alignment explanation
Indices: 45568180--45568319 Score: 201
Period size: 53 Copynumber: 2.6 Consensus size: 53
45568170 CACATATCAT
* * *
45568180 ACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTATCACATTAT
1 ACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTATCACATTAC
* * *
45568233 GCCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTATCACATTGC
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATTAC
*
45568286 ACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGG
45568320 GCACACTCAT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
52 1 0.01
53 77 0.99
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (53 bp):
ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATTAC
Found at i:45580361 original size:47 final size:47
Alignment explanation
Indices: 45580292--45580504 Score: 200
Period size: 46 Copynumber: 4.6 Consensus size: 47
45580282 GGTGCTGATG
* **
45580292 CCATGTCCTAGACATGGTCTTACACTGGCTCACATCT-AAAATCGATT
1 CCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAAGCCGA-T
* * ** *
45580339 CCATGTCCCAGAGATGGTCTTACACTGACT-ATCATCTCGTACCCGAT
1 CCATGTCCCAGACATGGTCTTACACTGGCTCA-CATCTCAAAGCCGAT
* * * * *
45580386 GCATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAGGCCGAT
1 CCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAAGCCGAT
* * * * *
45580432 GCATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCAATGTCGAT
1 CCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAAGCCGAT
*
45580478 GCCATGTCCCAAACATGGTCTTACACT
1 -CCATGTCCCAGACATGGTCTTACACT
45580505 AACTCTCATA
Statistics
Matches: 138, Mismatches: 23, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
46 64 0.46
47 60 0.43
48 14 0.10
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (47 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAAGCCGAT
Found at i:45580531 original size:47 final size:46
Alignment explanation
Indices: 45580340--45580537 Score: 179
Period size: 46 Copynumber: 4.2 Consensus size: 46
45580330 AAATCGATTC
* * * * *
45580340 CATGTCCCAGAGATGGTCTTACACTGACTATCATCTCGTACCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAACTCTCATATCGTAGCCGATG
** * *
45580387 CATGTCCCAGACATGTCTTACACTGGCT-TACGTCTCG-AGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAACTCT-CATATCGTA-GCCGATG
* * * *
45580433 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTC-AATGTCGATG
1 CATGTCCCAGACATGTCTTACACTAACTCTCATATCGTA-GCCGATG
*
45580479 CCATGTCCCAAACATGGTCTTACACTAACTCTCATAAT-GTAGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAACTCTCAT-ATCGTAGCCGATG
45580527 CATGTCCCAGA
1 CATGTCCCAGA
45580538 TGTAACACCC
Statistics
Matches: 129, Mismatches: 14, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
45 2 0.02
46 64 0.50
47 37 0.29
48 24 0.19
49 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAACTCTCATATCGTAGCCGATG
Found at i:45588218 original size:29 final size:29
Alignment explanation
Indices: 45588179--45588257 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
45588169 CTTAATAATC
*
45588179 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
45588209 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
45588238 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
45588258 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:45588300 original size:43 final size:43
Alignment explanation
Indices: 45588239--45588341 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
45588229 TGCATTTCAA
45588239 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
45588282 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
45588325 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
45588342 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:45614136 original size:5 final size:5
Alignment explanation
Indices: 45614126--45614157 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
45614116 TATACACGTG
45614126 AATTC AATTC AATTC AATTC AATTC AATTC AA
1 AATTC AATTC AATTC AATTC AATTC AATTC AA
45614158 ATAATCAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTC
Found at i:45616150 original size:12 final size:12
Alignment explanation
Indices: 45616117--45616171 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
45616107 ATCAGGTATG
* *
45616117 GATGCATATTCA
1 GATGCAGATACA
*
45616129 GATTCAGATACA
1 GATGCAGATACA
* *
45616141 AATGCAGATATA
1 GATGCAGATACA
*
45616153 GATTCAGATACA
1 GATGCAGATACA
45616165 GATGCAG
1 GATGCAG
45616172 TCACAAATCC
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (12 bp):
GATGCAGATACA
Found at i:45622681 original size:18 final size:18
Alignment explanation
Indices: 45622660--45622695 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
45622650 AAACTTTCTT
45622660 TCATTTAATTATCTAACG
1 TCATTTAATTATCTAACG
45622678 TCATTTAATTATCTAACG
1 TCATTTAATTATCTAACG
45622696 ATAAAATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.06, T:0.44
Consensus pattern (18 bp):
TCATTTAATTATCTAACG
Found at i:45623144 original size:35 final size:35
Alignment explanation
Indices: 45623086--45623168 Score: 96
Period size: 35 Copynumber: 2.4 Consensus size: 35
45623076 GATATCAGTT
* * **
45623086 AGATACAGACTTGGGCCTAAGCCCAT-TACAGATTC
1 AGATATAGATTTGGGCCTAAGCCCATCT-CAGAGAC
* *
45623121 AGATGTAGATTTGGGCCTTAGCCCATCTCAGAGAC
1 AGATATAGATTTGGGCCTAAGCCCATCTCAGAGAC
45623156 AGATATAGATTTG
1 AGATATAGATTTG
45623169 CACTCAGAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
35 39 0.98
36 1 0.03
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (35 bp):
AGATATAGATTTGGGCCTAAGCCCATCTCAGAGAC
Found at i:45634479 original size:26 final size:26
Alignment explanation
Indices: 45634434--45634612 Score: 141
Period size: 26 Copynumber: 6.9 Consensus size: 26
45634424 TAATTATCGG
* * *
45634434 CTCATAGTCTGCTTAGTAATCACCGG
1 CTCATAGCCTGCTAAGTAATCACCGA
* * * *
45634460 CTCA-AGGCCTGTTAAATAATCATCGT
1 CTCATA-GCCTGCTAAGTAATCACCGA
* * *
45634486 CTCAATA-CCTGCTAAATGATCACCAA
1 CTC-ATAGCCTGCTAAGTAATCACCGA
* * *
45634512 CTCATAACCTGCTAAGTAGTCA-CTA
1 CTCATAGCCTGCTAAGTAATCACCGA
*
45634537 GCTTATAGCCTGCTAAGTAATCACCGA
1 -CTCATAGCCTGCTAAGTAATCACCGA
*
45634564 CTCATAGCCTACTAAGTAATCACCGA
1 CTCATAGCCTGCTAAGTAATCACCGA
* *
45634590 CTCA-AGGCCTGTTAATTAATCAC
1 CTCATA-GCCTGCTAAGTAATCAC
45634613 ATTAGCCATT
Statistics
Matches: 122, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
25 7 0.06
26 111 0.91
27 3 0.02
28 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (26 bp):
CTCATAGCCTGCTAAGTAATCACCGA
Found at i:45635959 original size:26 final size:25
Alignment explanation
Indices: 45635906--45635959 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
45635896 CTATAATTGT
* *
45635906 ATATATTATATAATAAGACCCATAC
1 ATATATTACATAATAAGACCCACAC
* *
45635931 ATATATGTACATAGTAAGACCCACGC
1 ATATAT-TACATAATAAGACCCACAC
45635957 ATA
1 ATA
45635960 CAATATAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (25 bp):
ATATATTACATAATAAGACCCACAC
Found at i:45637244 original size:3 final size:3
Alignment explanation
Indices: 45637236--45637274 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
45637226 AATTAGTCTC
45637236 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
45637275 TAATTAGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:45643294 original size:47 final size:46
Alignment explanation
Indices: 45643127--45643301 Score: 142
Period size: 44 Copynumber: 3.7 Consensus size: 46
45643117 GGAATAAAAT
* * *
45643127 GCCGATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATATATG-CGT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC-T-T-TGTCGG
* * * * *
45643177 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-T--G
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TATCTTTGTCGG
* **
45643221 GCCGATGCGTGTCCCAGACACATCTTACACTGGCTATCTTTGTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCTTTGTCG-G
* *
45643268 GCCGATGCATGTCCCAAACATGTCTTACTCTGGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
45643302 ACTCATAATA
Statistics
Matches: 98, Mismatches: 21, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
43 4 0.04
44 30 0.31
46 1 0.01
47 30 0.31
48 12 0.12
49 15 0.15
50 6 0.06
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCTTTGTCGG
Found at i:45643335 original size:46 final size:46
Alignment explanation
Indices: 45643135--45643438 Score: 190
Period size: 47 Copynumber: 6.5 Consensus size: 46
45643125 ATGCCGATGC
* * *
45643135 CATGTCCCAGACATGGTCTTATACTGGCTCTCAT-ATAT-GCGTGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCACTCATAATATAGC---C-GAAG
* * * * *
45643184 CATGTCCCAGACATGTCTTACACTAGCA--CA-ACTCTTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCACTCATAAT-ATAGCCGAAG
* ** * ** ** *
45643228 CGTGTCCCAGACACATCTTACACTGGCTA-TCTTTGTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-ACTCATAATATA-GCCGAAG
* * *
45643275 CATGTCCCAAACATGTCTTACTCTGGCACTCATAATATAGCTGAAG
1 CATGTCCCAGACATGTCTTACACTGGCACTCATAATATAGCCGAAG
* * * * * * *
45643321 CATGTCCTAGACATGTCTTACACTAGCCCTCGTCTAGATA-CCGATG
1 CATGTCCCAGACATGTCTTACACTGGCACTCAT-AATATAGCCGAAG
* *
45643367 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCCGAAG
1 -CATGTCCCAGACAT-GTCTTACACTGGCACTCATAATATAGCCGAAG
*
45643415 CATGTCCCAGACATGCCTTACACT
1 CATGTCCCAGACATGTCTTACACT
45643439 AGCGCACAAA
Statistics
Matches: 197, Mismatches: 46, Indels: 27
0.73 0.17 0.10
Matches are distributed among these distances:
44 27 0.14
45 2 0.01
46 50 0.25
47 70 0.36
48 34 0.17
49 14 0.07
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCACTCATAATATAGCCGAAG
Found at i:45643380 original size:47 final size:46
Alignment explanation
Indices: 45643269--45643441 Score: 152
Period size: 46 Copynumber: 3.7 Consensus size: 46
45643259 TTTGTCGAGG
* * * * * *
45643269 CCGATGCATGTCCCAAACATGTCTTACTCTGGCACTCATAATAT-A
1 CCGAAGCATGTCCCAGACATGTCTTACACTAGCCCTCATAAGATGA
* * * *
45643314 GCTGAAGCATGTCCTAGACATGTCTTACACTAGCCCTCGTCTAGAT-A
1 -CCGAAGCATGTCCCAGACATGTCTTACACTAGCCCTCAT-AAGATGA
* * * * *
45643361 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGG
1 CCGAAG-CATGTCCCAGACAT-GTCTTACACTAGCCCTCATAAGATGA
*
45643409 CCGAAGCATGTCCCAGACATGCCTTACACTAGC
1 CCGAAGCATGTCCCAGACATGTCTTACACTAGC
45643442 GCACAAATCA
Statistics
Matches: 101, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
46 46 0.46
47 34 0.34
48 21 0.21
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (46 bp):
CCGAAGCATGTCCCAGACATGTCTTACACTAGCCCTCATAAGATGA
Found at i:45643420 original size:94 final size:92
Alignment explanation
Indices: 45643269--45643441 Score: 265
Period size: 94 Copynumber: 1.9 Consensus size: 92
45643259 TTTGTCGAGG
* * *
45643269 CCGATGCATGTCCCAAACATGTCTTACTCTGGCACTCATAATATAGCTGAAGCATGTCCTAGACA
1 CCGATGCATGTCCCAAACATGTCTTACACTGGCACTCATAATATAGCCGAAGCATGTCCCAGACA
*
45643334 TGTCTTACACTAGCCCTCGTCTAGATA
66 TGCCTTACACTAGCCCTCGTCTAGATA
* * *
45643361 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCCGAAGCATGTCCCAGA
1 CCGATG-CATGTCCCAAACAT-GTCTTACACTGGCACTCATAATATAGCCGAAGCATGTCCCAGA
45643426 CATGCCTTACACTAGC
64 CATGCCTTACACTAGC
45643442 GCACAAATCA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 6 0.08
93 13 0.18
94 53 0.74
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (92 bp):
CCGATGCATGTCCCAAACATGTCTTACACTGGCACTCATAATATAGCCGAAGCATGTCCCAGACA
TGCCTTACACTAGCCCTCGTCTAGATA
Found at i:45649477 original size:68 final size:65
Alignment explanation
Indices: 45649405--45649554 Score: 167
Period size: 64 Copynumber: 2.2 Consensus size: 65
45649395 CATCATGTGT
* * * *
45649405 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTA-CACCAT
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAAGTGAAGCACCAT
45649469 GTAG
62 GTAG
** * *
45649473 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGCCACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAAGTGAA-G-CACCATGT
45649538 AG
64 AG
45649540 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
45649555 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 28 0.40
65 3 0.04
66 2 0.03
67 24 0.34
68 13 0.19
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (65 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAAGTGAAGCACCATGTAG
Found at i:45649510 original size:64 final size:64
Alignment explanation
Indices: 45649429--45649612 Score: 212
Period size: 67 Copynumber: 2.8 Consensus size: 64
45649419 AGACATTATG
* * * *
45649429 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
45649493 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGCCACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTA---CACCATGTAGACAAGAGAGCTACGAGAT
45649558 AA
63 AA
* *
45649560 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAG-ACAAGAGAGC
45649613 CGAACTATAT
Statistics
Matches: 101, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.18
64 28 0.28
66 23 0.23
67 29 0.29
68 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:45654714 original size:79 final size:81
Alignment explanation
Indices: 45654578--45654760 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
45654568 TTGAATGATG
* *
45654578 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
45654642 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
45654657 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
45654719 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
45654737 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
45654761 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:45654776 original size:40 final size:40
Alignment explanation
Indices: 45654579--45654762 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
45654569 TGAATGATGT
* * * *
45654579 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
45654619 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
45654659 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
45654697 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
45654738 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
45654763 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:45654784 original size:79 final size:79
Alignment explanation
Indices: 45654631--45654795 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
45654621 GGACTAAGAT
* **
45654631 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
45654696 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
45654710 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
45654773 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
45654789 CCGAAGG
1 CCGAAGG
45654796 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:45665338 original size:47 final size:46
Alignment explanation
Indices: 45665102--45665360 Score: 179
Period size: 47 Copynumber: 5.6 Consensus size: 46
45665092 GCGTGCTGAT
* * * *
45665102 GCATGTCCCAGACATGTCTTACACTAG--CACA-ACTCTTGGCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCTCTCATAAT-GTGGCCGAA
* * * * * * ** * *
45665146 GCGTGTCCTAGACACGTCTTACACTGGCTATCTTTGTCGAGGCAGATA
1 GCATGTCCCAGACATGTCTTACACTAGCTCTCATAAT-GTGGCCGA-A
* * * * **
45665194 -CATGTCCCAAACATGTCTTACTCTAGCACTCATAATATGGCTAAA
1 GCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTGGCCGAA
* * * *
45665239 GCATGTCCCAGACATGTCTTACACTAGCCCTCGT-CTG-GATGCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTG--GCCGAA
*
45665285 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGAA
1 G-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATGTGGCCGAA
*
45665333 GCATGTCCTAGACATGTCTTACACTAGC
1 GCATGTCCCAGACATGTCTTACACTAGC
45665361 GCACAAATCA
Statistics
Matches: 160, Mismatches: 44, Indels: 20
0.71 0.20 0.09
Matches are distributed among these distances:
44 24 0.15
45 2 0.01
46 50 0.31
47 59 0.37
48 22 0.14
49 2 0.01
50 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
GCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTGGCCGAA
Found at i:45666093 original size:12 final size:12
Alignment explanation
Indices: 45666076--45666100 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45666066 TAAAAATGTA
45666076 AAAATCATCAAG
1 AAAATCATCAAG
45666088 AAAATCATCAAG
1 AAAATCATCAAG
45666100 A
1 A
45666101 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:45666793 original size:13 final size:13
Alignment explanation
Indices: 45666777--45666837 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
45666767 TAAATGTGTG
45666777 AATGAAATGATCA
1 AATGAAATGATCA
*
45666790 AATGAAATGTTCA
1 AATGAAATGATCA
* * *
45666803 GATGAAATGGTTA
1 AATGAAATGATCA
* *
45666816 TATGAAATGATTA
1 AATGAAATGATCA
*
45666829 CATGAAATG
1 AATGAAATG
45666838 GTTATATTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.46, C:0.05, G:0.20, T:0.30
Consensus pattern (13 bp):
AATGAAATGATCA
Found at i:45666807 original size:26 final size:26
Alignment explanation
Indices: 45666778--45666837 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
45666768 AAATGTGTGA
*
45666778 ATGAAATGATCAAATGAAATG-TTCAG
1 ATGAAATGATCAAATGAAATGATT-AC
* * *
45666804 ATGAAATGGTTATATGAAATGATTAC
1 ATGAAATGATCAAATGAAATGATTAC
45666830 ATGAAATG
1 ATGAAATG
45666838 GTTATATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 27 0.93
27 2 0.07
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (26 bp):
ATGAAATGATCAAATGAAATGATTAC
Found at i:45666838 original size:26 final size:26
Alignment explanation
Indices: 45666791--45666844 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
45666781 AAATGATCAA
*
45666791 ATGAAATGTTCAGATGAAATGGTTAT
1 ATGAAATGTTCACATGAAATGGTTAT
45666817 ATGAAATGATT-ACATGAAATGGTTAT
1 ATGAAATG-TTCACATGAAATGGTTAT
45666843 AT
1 AT
45666845 TTTGTGCCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (26 bp):
ATGAAATGTTCACATGAAATGGTTAT
Found at i:45672055 original size:120 final size:121
Alignment explanation
Indices: 45671893--45672112 Score: 298
Period size: 122 Copynumber: 1.8 Consensus size: 121
45671883 CATAATAACA
* * * **
45671893 ATGAGAATGAGAATAGAAATGTAATGGGTATGAGGTTTTCCTAAT-CTCAATTTAACACGGAATA
1 ATGAGAATAAGAATAGAAATGTAATAGGTATGAGGTGTTCCTAATACTCAATTTAACACAAAATA
**
45671957 TATGATAACTAACCTAGGAATGCAAATTAAATGAAAGACATTGGCATGGTAATAGC
66 TATGATAACTAACCTAAAAATGCAAATTAAATGAAAGACATTGGCATGGTAATAGC
* * * ** *
45672013 ATGAGAATAAGCATAGTAATGTCATAGGTATGAGGTGTTCCTAATAACTTGATTTAACATAAAAT
1 ATGAGAATAAGAATAGAAATGTAATAGGTATGAGGTGTTCCTAAT-ACTCAATTTAACACAAAAT
*
45672078 GTATGATAACTAACCTAAAAATGCAAATTAAATGA
65 ATATGATAACTAACCTAAAAATGCAAATTAAATGA
45672113 TAGAAAAATG
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
120 39 0.46
122 45 0.54
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (121 bp):
ATGAGAATAAGAATAGAAATGTAATAGGTATGAGGTGTTCCTAATACTCAATTTAACACAAAATA
TATGATAACTAACCTAAAAATGCAAATTAAATGAAAGACATTGGCATGGTAATAGC
Found at i:45679367 original size:15 final size:15
Alignment explanation
Indices: 45679347--45679396 Score: 50
Period size: 17 Copynumber: 3.3 Consensus size: 15
45679337 CCACTTGGCA
45679347 GCCACACGGGCGTGT
1 GCCACACGGGCGTGT
45679362 GCCACACACGGGCG-GT
1 G-C-CACACGGGCGTGT
* *
45679378 -CCACACGGCCATGT
1 GCCACACGGGCGTGT
45679392 GCCAC
1 GCCAC
45679397 CTAGAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 8 0.28
14 3 0.10
15 5 0.17
16 3 0.10
17 10 0.34
ACGTcount: A:0.18, C:0.40, G:0.32, T:0.10
Consensus pattern (15 bp):
GCCACACGGGCGTGT
Found at i:45679371 original size:17 final size:15
Alignment explanation
Indices: 45679349--45679383 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
45679339 ACTTGGCAGC
45679349 CACACGGGCGTGTGCCA
1 CACACGGGCG-GT-CCA
45679366 CACACGGGCGGTCCA
1 CACACGGGCGGTCCA
45679381 CAC
1 CAC
45679384 GGCCATGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 2 0.11
17 10 0.56
ACGTcount: A:0.20, C:0.40, G:0.31, T:0.09
Consensus pattern (15 bp):
CACACGGGCGGTCCA
Found at i:45679612 original size:21 final size:21
Alignment explanation
Indices: 45679567--45679646 Score: 88
Period size: 21 Copynumber: 3.8 Consensus size: 21
45679557 CCCACACAGT
* * *
45679567 CGTGTATCTCAGTTACATGGT
1 CGTGTATCTCAGTCACATAGC
*
45679588 CGTGTATCTCAGTCATATAGC
1 CGTGTATCTCAGTCACATAGC
* *
45679609 CGTGTCTCTCAGCCACATAGC
1 CGTGTATCTCAGTCACATAGC
**
45679630 CGTGTCCCTCAGTCACA
1 CGTGTATCTCAGTCACA
45679647 CGAGCATGTG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (21 bp):
CGTGTATCTCAGTCACATAGC
Found at i:45679677 original size:21 final size:21
Alignment explanation
Indices: 45679559--45679676 Score: 78
Period size: 21 Copynumber: 5.6 Consensus size: 21
45679549 ACGGTCTACC
*
45679559 CACACAGTCGTGTATCTCAGT
1 CACACAGTCGTGTACCTCAGT
* ** *
45679580 TACATGGTCGTGTATCTCAGT
1 CACACAGTCGTGTACCTCAGT
* * * *
45679601 CATATAGCCGTGT-CTCTCAGC
1 CACACAGTCGTGTAC-CTCAGT
* * *
45679622 CACATAGCCGTGTCCCTCAGT
1 CACACAGTCGTGTACCTCAGT
* *
45679643 CACACGAG-CATGTGCCTCAGT
1 CACAC-AGTCGTGTACCTCAGT
45679664 CACACAGTCGTGT
1 CACACAGTCGTGT
45679677 GATATGGACC
Statistics
Matches: 78, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
20 2 0.03
21 73 0.94
22 3 0.04
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (21 bp):
CACACAGTCGTGTACCTCAGT
Found at i:45681713 original size:31 final size:31
Alignment explanation
Indices: 45681668--45681733 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 31
45681658 TAAATATTAA
45681668 TTTAACTTCAATGCACAATT-TG-ATATATAAAT
1 TTTAACTTCAATG--CAATTATGCATATA-AAAT
*
45681700 TTTAATTTC-ATGCAATTATGCATATAAAAT
1 TTTAACTTCAATGCAATTATGCATATAAAAT
45681730 TTTA
1 TTTA
45681734 CTTGTAGTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
29 5 0.16
30 10 0.32
31 8 0.26
32 8 0.26
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (31 bp):
TTTAACTTCAATGCAATTATGCATATAAAAT
Found at i:45682768 original size:28 final size:29
Alignment explanation
Indices: 45682728--45682782 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 29
45682718 CTAAATCTTA
45682728 ATTTTAATCTAT-ATATAA-CTAAAATAGG
1 ATTTTAATCTATAAT-TAATCTAAAATAGG
45682756 ATTTTAAGT-TATAATTAATCTAAAATA
1 ATTTTAA-TCTATAATTAATCTAAAATA
45682783 ATAAAGTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (29 bp):
ATTTTAATCTATAATTAATCTAAAATAGG
Found at i:45691204 original size:3 final size:3
Alignment explanation
Indices: 45691196--45691227 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
45691186 TGAGTTCTTC
45691196 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
45691228 TATCTTTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:45693721 original size:42 final size:43
Alignment explanation
Indices: 45693613--45693739 Score: 134
Period size: 43 Copynumber: 3.0 Consensus size: 43
45693603 AGCTCGTACA
* * * * *
45693613 ATGCCAATGTCCTAGACGTGGTCTTATATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
* ***
45693656 ATGCC-TCTGTCCCAGATAAGGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGACGTGGTCTTACACGAAATCAAATATCG
*
45693698 ATGCCAACGTCCCAGACGTGGTCTTACACGAAA-CATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
45693740 GATTCTATGT
Statistics
Matches: 67, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
41 6 0.09
42 29 0.43
43 32 0.48
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
Found at i:45698350 original size:94 final size:94
Alignment explanation
Indices: 45698155--45698361 Score: 213
Period size: 94 Copynumber: 2.2 Consensus size: 94
45698145 TGATATGTGT
* * * *
45698155 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAGAGCAACTATAAGACATTTCT
1 GCTAATGTAAGACATGTCTGGAACATGCATCAGCCACAGCACGAGAGCAACTATAAGACATGTCT
* * * **
45698220 AGGACATGCATTGGCCTCGAGATATTTAA
66 AGGACATGCATCGACCTCGAAATATACAA
* * * * * *
45698249 GCCAATGTAAGACATGTCTGGAACATGCATC-GGCATTGAG-ACGAGAGCTAGTGTAAGACATGT
1 GCTAATGTAAGACATGTCTGGAACATGCATCAGCCA--CAGCACGAGAGCAACTATAAGACATGT
*
45698312 CTGGGACATGCATCGACCTC-ACAATATACAA
64 CTAGGACATGCATCGACCTCGA-AATATACAA
*
45698343 GCTAATGTAAGACCTGTCT
1 GCTAATGTAAGACATGTCT
45698362 AAGAGATGGC
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
93 4 0.04
94 86 0.93
95 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (94 bp):
GCTAATGTAAGACATGTCTGGAACATGCATCAGCCACAGCACGAGAGCAACTATAAGACATGTCT
AGGACATGCATCGACCTCGAAATATACAA
Found at i:45698467 original size:49 final size:49
Alignment explanation
Indices: 45698389--45698514 Score: 146
Period size: 49 Copynumber: 2.6 Consensus size: 49
45698379 TGTTGTCTAT
* * * *
45698389 CAGTGTAAGACCTGTCTAGGACATAGCATCGACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAAC
* * * * *
45698438 TAGTGTAAGACCTGTCTGGGATATGGCATCGGCCTCGCTATATGAAAAC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAAC
45698487 CAGTGTAAGACCATGTCTGGGACATGGC
1 CAGTGTAAGACC-TGTCTGGGACATGGC
45698515 GTCGGTATCT
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
48 1 0.02
49 49 0.77
50 14 0.22
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAAC
Found at i:45699695 original size:20 final size:21
Alignment explanation
Indices: 45699656--45699695 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
45699646 GGTATAATGA
*
45699656 CCACATGAGCGTGTTGCCCTT
1 CCACACGAGCGTGTTGCCCTT
45699677 CCACACGAGCGTG-TGCCCT
1 CCACACGAGCGTGTTGCCCT
45699696 GTTTGAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.15, C:0.38, G:0.25, T:0.23
Consensus pattern (21 bp):
CCACACGAGCGTGTTGCCCTT
Found at i:45704016 original size:99 final size:100
Alignment explanation
Indices: 45703903--45704142 Score: 446
Period size: 100 Copynumber: 2.4 Consensus size: 100
45703893 GAAGCTATCT
45703903 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCT-GTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCC
45703967 TGCACTTAGTACTACACACGTGACCTCAGTTTTCA
66 TGCACTTAGTACTACACACGTGACCTCAGTTTTCA
*
45704002 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCC
*
45704067 TGCACTTAGTACTACACACGTGACCTCAGTTTTCG
66 TGCACTTAGTACTACACACGTGACCTCAGTTTTCA
*
45704102 GGTACGTATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
45704143 TCACAATAGA
Statistics
Matches: 136, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
99 48 0.35
100 88 0.65
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGACCTCAGTTTTCA
Found at i:45704035 original size:51 final size:47
Alignment explanation
Indices: 45703903--45704145 Score: 270
Period size: 51 Copynumber: 4.9 Consensus size: 47
45703893 GAAGCTATCT
*
45703903 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-TCAGTC
* * * * *
45703951 TGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCAGTTTTC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTCAG---TC
* *
45704001 AGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAACAGTC
1 -GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-TCAGTC
* * * *
45704050 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCAGTTTTC
1 -GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTCAG---TC
*
45704101 GGGTACGTATAGTAGCCTGCACTTAGTACTACACATGCGACCTCA
1 -GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTCA
45704146 CAATAGATCA
Statistics
Matches: 161, Mismatches: 26, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
47 3 0.02
48 39 0.24
49 38 0.24
50 2 0.01
51 76 0.47
52 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (47 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTCAGTC
Found at i:45712045 original size:17 final size:16
Alignment explanation
Indices: 45712025--45712070 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
45712015 TATATATGTA
45712025 TAATAAATATATAAAAT
1 TAATAAATAT-TAAAAT
*
45712042 TAATAATTATTAAAAT
1 TAATAAATATTAAAAT
*
45712058 TTATAAA-ATTAAA
1 TAATAAATATTAAA
45712071 CTTTAATGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 6 0.23
16 11 0.42
17 9 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATAAATATTAAAAT
Found at i:45712206 original size:5 final size:5
Alignment explanation
Indices: 45712198--45712225 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
45712188 TATACTATTA
45712198 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
45712226 TAAATATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:45712623 original size:234 final size:230
Alignment explanation
Indices: 45712346--45713133 Score: 807
Period size: 250 Copynumber: 3.3 Consensus size: 230
45712336 GTATTAATAT
* * *
45712346 ATTATATGAA-ATGATATAGGA-GGCTAACTTTCAAATATACGAAAAGTATAGGGATTTAGAGCA
1 ATTATAT-AATATGAT-T-GGAGGGCTAACTTTCAAATGTACGAAAAGTATAGGGACTTAAAGCA
*
45712409 TATTTCAACTAGTATAAAAATAAACAATAATACATAATAAGTAATATATAATGTACTACTATTAT
63 TATTTCAACTAGTATAAAAATAAACAATAATATATAATAA-TAATATATAATGTACTACTATTAT
* * * *
45712474 AATATAGATTATAATAAAAGGTATAGTTTTATATTATATTATAATGTTTAATCATTTATGCATAT
127 AATATAGATTATAATAAAAAGTATAGTATTATATAATATTATAATGTTTAATCATTGATGCATAT
*
45712539 ATATAAACTATTAATATATGATATGATATAATATGATATAGC
192 ATATAAACTATTAATATAT-ATAT-ATAT-ATATGATATAAC
* *
45712581 ATTATATAATATGGTTGGAGGGCTAACTTTTAAATGTACGAAAAGTATAGGGACTTAAAGCATAT
1 ATTATATAATATGATTGGAGGGCTAACTTTCAAATGTACGAAAAGTATAGGGACTTAAAGCATAT
* * *
45712646 TTCAACTAGTATAACAATAAACAATAATATTTAATATATATATATATGTACTACTATTACATATA
66 TTCAACTAGTATAAAAATAAACAATAATATATAATA-ATA-ATATA--TA--A-T-GTAC---T-
* * *
45712711 ACTATTATTATATTATAGATTGTAATAAAAAG-ATATGATATTACATAATATTATAATGTTCAAT
119 ACTATTA-TA-A-TATAGATTATAATAAAAAGTATA-G-TATTATATAATATTATAATGTTTAAT
*
45712775 CATTGATGCATATATATAAACTATTAATATATTATATACTATATGATTGGTATAAC
179 CATTGATGCATATATATAAACTATTAATATA-TATATA-TATAT-A-TGATATAAC
* * * * ** * * *
45712831 ATTATATAGTATGATAGGAGGGTTAACTTTCAAGTGTATAAAAAATATACAGG-CTTAAAGTATA
1 ATTATATAATATGATTGGAGGGCTAACTTTCAAATGTACGAAAAGTATA-GGGACTTAAAGCATA
* * *
45712895 TTTCAACCAGTATAATAATAAACAATAATATATGTTAATAATTAATATATAATGTACTACTTTTA
65 TTTCAACTAGTATAAAAATAAACAATAATATA---TAATAA-TAATATATAATGTACTACTATTA
* * * * * * * *
45712960 TATTATAAAATATAATAAAAAATATAGTACTATATGATATTATAGTGTTTAATCAATGATGCATA
126 TAATATAGATTATAATAAAAAGTATAGTATTATATAATATTATAATGTTTAATCATTGATGCATA
* *
45713025 TATATAAACTATTTATATAT-TATATGT-TATGATATAAC
191 TATATAAACTATTAATATATATATATATATATGATATAAC
* * * * *
45713063 ATTATAGAATAT-ATTAGGAGAGCTAACTTTTAAATGTAGGAAAAGTATAGGGACTTAAAACATA
1 ATTATATAATATGATT-GGAGGGCTAACTTTCAAATGTACGAAAAGTATAGGGACTTAAAGCATA
*
45713127 ATTCAAC
65 TTTCAAC
45713134 CAATATGATA
Statistics
Matches: 460, Mismatches: 62, Indels: 65
0.78 0.11 0.11
Matches are distributed among these distances:
231 4 0.01
232 59 0.13
233 4 0.01
234 80 0.17
235 19 0.04
236 4 0.01
237 3 0.01
238 50 0.11
239 17 0.04
240 4 0.01
241 5 0.01
242 6 0.01
243 1 0.00
244 1 0.00
245 7 0.02
246 5 0.01
247 5 0.01
248 22 0.05
249 60 0.13
250 89 0.19
251 2 0.00
252 6 0.01
253 7 0.02
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (230 bp):
ATTATATAATATGATTGGAGGGCTAACTTTCAAATGTACGAAAAGTATAGGGACTTAAAGCATAT
TTCAACTAGTATAAAAATAAACAATAATATATAATAATAATATATAATGTACTACTATTATAATA
TAGATTATAATAAAAAGTATAGTATTATATAATATTATAATGTTTAATCATTGATGCATATATAT
AAACTATTAATATATATATATATATATGATATAAC
Found at i:45713842 original size:15 final size:15
Alignment explanation
Indices: 45713824--45713867 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
45713814 ATAAATTATT
*
45713824 ATATTCAAAATTAAA
1 ATATTTAAAATTAAA
*
45713839 ATATTTATAACTTAAA
1 ATATTTA-AAATTAAA
*
45713855 AAATTTAAAATTA
1 ATATTTAAAATTA
45713868 TCTAAATTCG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (15 bp):
ATATTTAAAATTAAA
Found at i:45717713 original size:26 final size:23
Alignment explanation
Indices: 45717567--45717697 Score: 95
Period size: 23 Copynumber: 5.5 Consensus size: 23
45717557 ATCAGGTAGT
*
45717567 TCACAAAGAACCATATCGGGAAGC
1 TCACAAAGAGCC-TATCGGGAAGC
* *
45717591 TCACAAAGAACCATATCAGGAAGC
1 TCACAAAGAGCC-TATCGGGAAGC
** * * *
45717615 TC-CGGATAGCCATATATCAGGAAGT
1 TCACAAAGAGCC---TATCGGGAAGC
**
45717640 TCA-AGCGAGCACTATCGGGAAGC
1 TCACAAAGAGC-CTATCGGGAAGC
45717663 TCACAAAGAGCCTATCGGGAAGC
1 TCACAAAGAGCCTATCGGGAAGC
*
45717686 TCACGAAGAGCC
1 TCACAAAGAGCC
45717698 ATATATCGGG
Statistics
Matches: 88, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
23 40 0.45
24 30 0.34
25 17 0.19
26 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.24, T:0.15
Consensus pattern (23 bp):
TCACAAAGAGCCTATCGGGAAGC
Found at i:45718269 original size:5 final size:5
Alignment explanation
Indices: 45718259--45718301 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
45718249 CACAAACTTA
***
45718259 TCTTT TCTTT TCTTT TCTTT TCCACA TCTTT TCTTT TCTTT TC
1 TCTTT TCTTT TCTTT TCTTT T-CTTT TCTTT TCTTT TCTTT TC
45718302 CGATATCCTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
5 29 0.94
6 2 0.06
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.70
Consensus pattern (5 bp):
TCTTT
Found at i:45719890 original size:43 final size:43
Alignment explanation
Indices: 45719779--45719893 Score: 133
Period size: 45 Copynumber: 2.6 Consensus size: 43
45719769 AAAAAAAATA
* *
45719779 AATTTAAAAAGAGAAGAAGATAATATTAGGTCATTGAAAAAAG
1 AATTTAAAAAGAGGAGAAGATAATCTTAGGTCATTGAAAAAAG
* * * *
45719822 AATTTTTAAAAAAAGGAGAATATAATCTTAGATTGA-TGAAAAAAG
1 AA--TTTAAAAAGAGGAGAAGATAATCTTAG-GTCATTGAAAAAAG
*
45719867 AATTTAAATAGAGGAGAAGATAATCTT
1 AATTTAAAAAGAGGAGAAGATAATCTT
45719894 GGGTTGTTGG
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
43 24 0.40
45 34 0.57
46 2 0.03
ACGTcount: A:0.53, C:0.03, G:0.17, T:0.27
Consensus pattern (43 bp):
AATTTAAAAAGAGGAGAAGATAATCTTAGGTCATTGAAAAAAG
Found at i:45728476 original size:21 final size:20
Alignment explanation
Indices: 45728450--45728500 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
45728440 GTGTTGTGGT
45728450 TGCATCTGATTCTGATGTAGA
1 TGCATCTGATT-TGATGTAGA
* * *
45728471 TGCATCTGGCTTTGTTGTGGA
1 TGCATCT-GATTTGATGTAGA
45728492 TGCATCTGA
1 TGCATCTGA
45728501 GTATGCTGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 21 0.84
22 3 0.12
ACGTcount: A:0.18, C:0.16, G:0.27, T:0.39
Consensus pattern (20 bp):
TGCATCTGATTTGATGTAGA
Found at i:45730370 original size:49 final size:49
Alignment explanation
Indices: 45730232--45730370 Score: 179
Period size: 49 Copynumber: 2.8 Consensus size: 49
45730222 CTTGTTGTGT
* * * *
45730232 GTCAGCGTAAAACCTGTCTGGGACATGGCATCAACACTGATAAATGAGA
1 GTCAGTGTAAAACCTGTCTGGGACATGGCATCGACATTGATAAATGAAA
* * * * * *
45730281 GCCAGTGTAAGACCTGTCTGGGACACGGCATCGGCCTTGATATATGAAA
1 GTCAGTGTAAAACCTGTCTGGGACATGGCATCGACATTGATAAATGAAA
*
45730330 GTCAGTGTAAAACCTGTCTGGGACATGGCATCGACTTTGAT
1 GTCAGTGTAAAACCTGTCTGGGACATGGCATCGACATTGAT
45730371 GTGCTAGCCA
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 75 1.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.24
Consensus pattern (49 bp):
GTCAGTGTAAAACCTGTCTGGGACATGGCATCGACATTGATAAATGAAA
Found at i:45730957 original size:12 final size:12
Alignment explanation
Indices: 45730940--45730965 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45730930 ATTATGGCAT
45730940 GTATAGGAACTA
1 GTATAGGAACTA
45730952 GTATAGGAACTA
1 GTATAGGAACTA
45730964 GT
1 GT
45730966 CTTTTGTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.27
Consensus pattern (12 bp):
GTATAGGAACTA
Found at i:45742231 original size:51 final size:50
Alignment explanation
Indices: 45742086--45742255 Score: 189
Period size: 51 Copynumber: 3.4 Consensus size: 50
45742076 AGGGGTGTTA
* * * *
45742086 CATACTGATTATGTAAAGTTTTATGTATGAATTTTCTATGCAAAGTATGTG
1 CATACTAATTATGTAAAG-TTTATGTGTGAAATGTCTATGCAAAGTATGTG
* * * * *
45742137 CATACTAATTATATAAAG-TTCTGTGTGAACTGTCTATACAAAGTGTGTG
1 CATACTAATTATGTAAAGTTTATGTGTGAAATGTCTATGCAAAGTATGTG
* *
45742186 CGTACTAATTACGTAAAGTTATATGTGTGAAATGTCTATGCAAAGTATGTG
1 CATACTAATTATGTAAAGTT-TATGTGTGAAATGTCTATGCAAAGTATGTG
* * *
45742237 CTTGCTGATTATGTAAAGT
1 CATACTAATTATGTAAAGT
45742256 ACTATATGCA
Statistics
Matches: 98, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 40 0.41
50 1 0.01
51 57 0.58
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (50 bp):
CATACTAATTATGTAAAGTTTATGTGTGAAATGTCTATGCAAAGTATGTG
Found at i:45744909 original size:23 final size:23
Alignment explanation
Indices: 45744882--45744925 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
45744872 CATGCTAATA
45744882 ATAAATGCATTC-ATCATGCATTC
1 ATAAAT-CATTCAATCATGCATTC
*
45744905 ATAAATCATTCAATTATGCAT
1 ATAAATCATTCAATCATGCAT
45744926 ATTAGGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (23 bp):
ATAAATCATTCAATCATGCATTC
Found at i:45745860 original size:28 final size:28
Alignment explanation
Indices: 45745829--45745885 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
45745819 ACCTTATACT
45745829 TAGAATTTCTTCATGAAACTTTAACACA
1 TAGAATTTCTTCATGAAACTTTAACACA
45745857 TAGAATTTCTTCATGAAACTTTAACACA
1 TAGAATTTCTTCATGAAACTTTAACACA
45745885 T
1 T
45745886 GCATATAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.37
Consensus pattern (28 bp):
TAGAATTTCTTCATGAAACTTTAACACA
Found at i:45760536 original size:28 final size:25
Alignment explanation
Indices: 45760467--45760724 Score: 124
Period size: 25 Copynumber: 10.3 Consensus size: 25
45760457 AAACGAAACA
* *
45760467 AAATAATATATAAAACAATTCGAAGT
1 AAATAATATATAAAA-AATTTGAAAT
*
45760493 AAATAATATATAAAAAGTTTGAAAT
1 AAATAATATATAAAAAATTTGAAAT
* *
45760518 AAATAATATATAGGAAAAAAATTAAAAT
1 AAATAATATAT---AAAAAATTTGAAAT
* *
45760546 AAAT-A-ACA-AAAAAATGGTTCAAAAT
1 AAATAATATATAAAAAAT--TT-GAAAT
* *
45760571 AAA-CA-ATA-AAAAAA-TTGACAT
1 AAATAATATATAAAAAATTTGAAAT
* * *
45760592 AAATAAAATACAAAACAGTTTGAAAT
1 AAATAATATATAAAA-AATTTGAAAT
** *
45760618 AAATAATATA-AAGCAATTTAAAAT
1 AAATAATATATAAAAAATTTGAAAT
** ***
45760642 AAATAATATATAAAGCATTTTTTA-
1 AAATAATATATAAAAAATTTGAAAT
* *
45760666 AAAGAA-ATA-AAAAAATTTAAAAT
1 AAATAATATATAAAAAATTTGAAAT
* *
45760689 AAATAATATATATGAAACAGTTTAAAAT
1 AAATAATATATA--AAA-AATTTGAAAT
45760717 AAATAATA
1 AAATAATA
45760725 GAAAACAGTT
Statistics
Matches: 180, Mismatches: 33, Indels: 36
0.72 0.13 0.14
Matches are distributed among these distances:
21 6 0.03
22 17 0.09
23 11 0.06
24 32 0.18
25 46 0.26
26 32 0.18
27 4 0.02
28 32 0.18
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.27
Consensus pattern (25 bp):
AAATAATATATAAAAAATTTGAAAT
Found at i:45760625 original size:24 final size:24
Alignment explanation
Indices: 45760598--45760754 Score: 110
Period size: 24 Copynumber: 6.4 Consensus size: 24
45760588 ACATAAATAA
* *
45760598 AATACAAAACAGTTTGAAATAAAT
1 AATATAAAACAGTTTAAAATAAAT
* *
45760622 AATATAAAGCAATTTAAAATAAAT
1 AATATAAAACAGTTTAAAATAAAT
* *
45760646 AATATATAAAGCATTTTTTAAAAGAAAT
1 AATATA-AAA-CA--GTTTAAAATAAAT
45760674 -A-A-AAAA-A-TTTAAAATAAAT
1 AATATAAAACAGTTTAAAATAAAT
45760693 AATATATATGAAACAGTTTAAAATAAAT
1 -A-ATATA--AAACAGTTTAAAATAAAT
*
45760721 AATAGAAAACAGTTTAATATATAAA-
1 AATATAAAACAGTTTAA-A-ATAAAT
*
45760746 AATTTAAAA
1 AATATAAAA
45760755 TAAATAAAAT
Statistics
Matches: 107, Mismatches: 11, Indels: 29
0.73 0.07 0.20
Matches are distributed among these distances:
19 11 0.10
22 2 0.02
23 1 0.01
24 41 0.38
25 11 0.10
26 15 0.14
27 3 0.03
28 23 0.21
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.30
Consensus pattern (24 bp):
AATATAAAACAGTTTAAAATAAAT
Found at i:45760713 original size:47 final size:46
Alignment explanation
Indices: 45760575--45760722 Score: 122
Period size: 47 Copynumber: 3.1 Consensus size: 46
45760565 CAAAATAAAC
* * * * *
45760575 AATAAAAAAA-TTGACATAAATAAAATACAAAACA-GTTTGAAATAAA
1 AATAAAAAAATTTAAAATAAATAATATATAAAACATGTTT-AAA-AGA
* * *
45760621 TAATATAAAGCAATTTAAAATAAATAATATATAAAGCATTTTTTAAAAGA
1 -AATA-AAA-AAATTTAAAATAAATAATATATAAAACA-TGTTTAAAAGA
*
45760671 AATAAAAAAATTTAAAATAAATAATATATATGAAACA-GTTTAAAATA
1 AATAAAAAAATTTAAAATAAATAATATATA--AAACATGTTTAAAAGA
45760718 AATAA
1 AATAA
45760723 TAGAAAACAG
Statistics
Matches: 82, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
47 39 0.48
48 6 0.07
49 10 0.12
50 21 0.26
51 3 0.04
52 3 0.04
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.28
Consensus pattern (46 bp):
AATAAAAAAATTTAAAATAAATAATATATAAAACATGTTTAAAAGA
Found at i:45760717 original size:43 final size:39
Alignment explanation
Indices: 45760670--45760789 Score: 98
Period size: 43 Copynumber: 2.9 Consensus size: 39
45760660 TTTTTAAAAG
45760670 AAATAAAAAAATTTAAAATAAATAATATATATGAAACAGTTTA
1 AAATAAAAAAATTTAAAATAAATAATATATA--AAA-A-TTTA
* ** * **
45760713 AAAT-AAATAATAGAAAACAGTTTAATATATAAAAATTTA
1 AAATAAAAAAATTTAAAATA-AATAATATATAAAAATTTA
45760752 AAATAAATAAAATAGCTTAAAATAAATAATATATAAAA
1 AAATAAA-AAAAT---TTAAAATAAATAATATATAAAA
45760790 CTATTAACAA
Statistics
Matches: 59, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
39 8 0.14
40 3 0.05
41 7 0.12
42 11 0.19
43 25 0.42
44 5 0.08
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (39 bp):
AAATAAAAAAATTTAAAATAAATAATATATAAAAATTTA
Found at i:45763001 original size:46 final size:46
Alignment explanation
Indices: 45762951--45763061 Score: 125
Period size: 46 Copynumber: 2.4 Consensus size: 46
45762941 GGGAGATAAA
*
45762951 ATTTTTGGTTTCTTCCATCCATCCCACTGCAACTCAAGGGTATAGG
1 ATTTTTGGTTTCTTCAATCCATCCCACTGCAACTCAAGGGTATAGG
* * * * * *
45762997 ATTTTT-ATCATCTTTAATCCATCCCATTGCAGCTCATGGGTATAGG
1 ATTTTTGGT-TTCTTCAATCCATCCCACTGCAACTCAAGGGTATAGG
* *
45763043 ATTTGTGGCTTCTTCAATC
1 ATTTTTGGTTTCTTCAATC
45763062 AATTGATCTA
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
45 1 0.02
46 50 0.98
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (46 bp):
ATTTTTGGTTTCTTCAATCCATCCCACTGCAACTCAAGGGTATAGG
Done.