Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 155 of 325
Found at i:49138505 original size:22 final size:20
Alignment explanation
Indices: 49138461--49138507 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
49138451 ATTTTTTTAA
* *
49138461 ATTTTTAATATTTAACTGTT
1 ATTTTTAATAATAAACTGTT
49138481 ATTTTTAATGAATAAACATGTT
1 ATTTTTAAT-AATAAAC-TGTT
49138503 ATTTT
1 ATTTT
49138508 CAAATTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 9 0.39
21 5 0.22
22 9 0.39
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.55
Consensus pattern (20 bp):
ATTTTTAATAATAAACTGTT
Found at i:49140001 original size:63 final size:62
Alignment explanation
Indices: 49139926--49140054 Score: 143
Period size: 62 Copynumber: 2.1 Consensus size: 62
49139916 ATATGCAGAT
* ** * * * *
49139926 CACACGCCCGTGTCATTTTCTCGTATGAT-TCTAAATCGTAAACAGTGAGTCACATGGCCTGGG
1 CACACGCACGTGTCATTGGC-CGTATGGTCT-TAAATCATAAACAGTGAGTCACACGGCCTGGA
* * *
49139989 CACACGCACGTGTCCTTGGCCGTATGGTCTTAAATCATAAATAGTGAGTTACACGGCCTGGA
1 CACACGCACGTGTCATTGGCCGTATGGTCTTAAATCATAAACAGTGAGTCACACGGCCTGGA
49140051 CACA
1 CACA
49140055 TGCCCATGTC
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
62 38 0.69
63 17 0.31
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (62 bp):
CACACGCACGTGTCATTGGCCGTATGGTCTTAAATCATAAACAGTGAGTCACACGGCCTGGA
Found at i:49141456 original size:26 final size:22
Alignment explanation
Indices: 49141407--49141451 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
49141397 CAAATCTAAG
49141407 TAGAAATATTTATTTTATTATT
1 TAGAAATATTTATTTTATTATT
49141429 TAGAAATATTTATTTTATTATT
1 TAGAAATATTTATTTTATTATT
49141451 T
1 T
49141452 CTTTAACGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (22 bp):
TAGAAATATTTATTTTATTATT
Found at i:49143879 original size:42 final size:42
Alignment explanation
Indices: 49143820--49143941 Score: 163
Period size: 43 Copynumber: 2.9 Consensus size: 42
49143810 TAGGGTTAGT
*
49143820 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCAATA
* * * *
49143862 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCAATT
1 TGAGATTACGTGTAAGACCATATCTGGGATA-TGGCATCAATA
** *
49143905 TGAGATCCCATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCAT
49143942 TGGTATGGTA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
42 34 0.49
43 35 0.51
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCAATA
Found at i:49145770 original size:28 final size:29
Alignment explanation
Indices: 49145720--49145774 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
49145710 ACAGGGGTTT
49145720 TCACACGGCCAAGTACACGCCTGTGTCCC
1 TCACACGGCCAAGTACACGCCTGTGTCCC
* *
49145749 TCACATGGCCTAG-ACACGCCTGTGTC
1 TCACACGGCCAAGTACACGCCTGTGTC
49145775 ATCGCCCGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.20, C:0.38, G:0.22, T:0.20
Consensus pattern (29 bp):
TCACACGGCCAAGTACACGCCTGTGTCCC
Found at i:49152637 original size:55 final size:54
Alignment explanation
Indices: 49152550--49152804 Score: 242
Period size: 55 Copynumber: 4.8 Consensus size: 54
49152540 ATTAGGGTTT
*
49152550 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * * *
49152605 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* *
49152660 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTAAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* * * *
49152713 CATGATACCATGTAAGACCATGTCAAGACATGG-AAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * * *
49152762 AATGATACCATGTAAGACCATGACAAGTCATGG-AAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
49152805 GTACCCGTGT
Statistics
Matches: 169, Mismatches: 24, Indels: 20
0.79 0.11 0.09
Matches are distributed among these distances:
49 40 0.24
52 5 0.03
53 42 0.25
54 10 0.06
55 68 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:49152794 original size:49 final size:50
Alignment explanation
Indices: 49152667--49152804 Score: 172
Period size: 49 Copynumber: 2.7 Consensus size: 50
49152657 GGCAAAGGTC
* * * *
49152667 CCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGCCATGATA
1 CCATGTAAGACCATGACAAGACATGGAAATGGTAAGTTCATAA---CATGATA
*
49152720 CCATGTAAGACCATGTCAAGACATGGAAATGGTAAGTTTCA-AA-ATGATA
1 CCATGTAAGACCATGACAAGACATGGAAATGGTAAG-TTCATAACATGATA
*
49152769 CCATGTAAGACCATGACAAGTCATGGAAATGGTAAG
1 CCATGTAAGACCATGACAAGACATGGAAATGGTAAG
49152805 GTACCCGTGT
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
49 40 0.51
53 34 0.44
54 4 0.05
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.22
Consensus pattern (50 bp):
CCATGTAAGACCATGACAAGACATGGAAATGGTAAGTTCATAACATGATA
Found at i:49153017 original size:16 final size:16
Alignment explanation
Indices: 49152996--49153026 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49152986 ATAAATTTGA
49152996 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
49153012 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
49153027 ATTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:49154820 original size:42 final size:42
Alignment explanation
Indices: 49154754--49154862 Score: 137
Period size: 42 Copynumber: 2.6 Consensus size: 42
49154744 ACAGTGAGTC
*
49154754 ACATGGCTTGGGCACACACCCATGTCCTTGCCCGTGTGGCTT
1 ACATGGCTTGGGCACACACACATGTCCTTGCCCGTGTGGCTT
* * * *
49154796 ACATGGCTTGGGCATACGCACATGTCCTTGCTCGTGTGGCTC
1 ACATGGCTTGGGCACACACACATGTCCTTGCCCGTGTGGCTT
* * * *
49154838 ACACGGCCTAGGCACACACCCATGT
1 ACATGGCTTGGGCACACACACATGT
49154863 TATTACTCGT
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.17, C:0.33, G:0.26, T:0.24
Consensus pattern (42 bp):
ACATGGCTTGGGCACACACACATGTCCTTGCCCGTGTGGCTT
Found at i:49156463 original size:19 final size:18
Alignment explanation
Indices: 49156426--49156465 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
49156416 CATAATGATA
* *
49156426 TATATAATATATTTTTAT
1 TATATAATACATATTTAT
49156444 TATATAATTACATATTTAT
1 TATATAA-TACATATTTAT
49156463 TAT
1 TAT
49156466 TTTATTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TATATAATACATATTTAT
Found at i:49156866 original size:21 final size:21
Alignment explanation
Indices: 49156826--49156867 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
49156816 TTTTGTCTAC
*
49156826 TTATTTTACATATAATTAATT
1 TTATTTTACATATAAATAATT
49156847 TTATTTTA-ATATATAATAATT
1 TTATTTTACATATA-AATAATT
49156868 ATTTACATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TTATTTTACATATAAATAATT
Found at i:49157610 original size:22 final size:20
Alignment explanation
Indices: 49157572--49157617 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
49157562 TACCCTAAAT
49157572 AAATATTTAAACTAAATAATTA
1 AAATATTTAAACTAAAT--TTA
49157594 AAATATTTAAA-TGAAATTTA
1 AAATATTTAAACT-AAATTTA
49157614 AAAT
1 AAAT
49157618 TGAAAGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.30
21 1 0.04
22 15 0.65
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
AAATATTTAAACTAAATTTA
Found at i:49158083 original size:18 final size:18
Alignment explanation
Indices: 49158056--49158095 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
49158046 TAGTTATACC
49158056 TCTACGTCTAT-TACTACA
1 TCTACGTCTATAT-CTACA
*
49158074 TCTACTTCTATATCTACA
1 TCTACGTCTATATCTACA
49158092 TCTA
1 TCTA
49158096 TGTTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 19 0.95
19 1 0.05
ACGTcount: A:0.28, C:0.28, G:0.03, T:0.42
Consensus pattern (18 bp):
TCTACGTCTATATCTACA
Found at i:49160223 original size:20 final size:20
Alignment explanation
Indices: 49160195--49160232 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
49160185 TAGGAAATTA
49160195 TGTGATCTGAGCTCATGAGT
1 TGTGATCTGAGCTCATGAGT
*
49160215 TGTGGTCTGAGCTCATGA
1 TGTGATCTGAGCTCATGA
49160233 TATATGTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.32, T:0.34
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGAGT
Found at i:49163087 original size:28 final size:28
Alignment explanation
Indices: 49163047--49163105 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
49163037 GTTCAGCTAC
49163047 ATATATGGCTAATAAATGCAATATTCTA
1 ATATATGGCTAATAAATGCAATATTCTA
* *
49163075 ATATATGGCTAATAAATGCATTTTTCTA
1 ATATATGGCTAATAAATGCAATATTCTA
49163103 ATA
1 ATA
49163106 AATGTTAGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (28 bp):
ATATATGGCTAATAAATGCAATATTCTA
Found at i:49167232 original size:20 final size:19
Alignment explanation
Indices: 49167209--49167255 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
49167199 TATTTCTTAA
49167209 AATTAAAACTCAATTCTACC
1 AATTAAAACTCAATTC-ACC
* *
49167229 AATTCAAAACTCCATTCAGC
1 AATT-AAAACTCAATTCACC
49167249 AATTAAA
1 AATTAAA
49167256 CATGAATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (19 bp):
AATTAAAACTCAATTCACC
Found at i:49171034 original size:14 final size:14
Alignment explanation
Indices: 49170991--49171036 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
49170981 AATAAGCATA
*
49170991 AAATA-TAATTTTT
1 AAATATTAATGTTT
* *
49171004 AAAAATT-ATGTTA
1 AAATATTAATGTTT
49171017 AAATATTAATGTTT
1 AAATATTAATGTTT
49171031 AAATAT
1 AAATAT
49171037 GTGGGGATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (14 bp):
AAATATTAATGTTT
Found at i:49179036 original size:4 final size:4
Alignment explanation
Indices: 49179027--49179063 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
49179017 AAGATGAAGG
49179027 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
49179064 AATCAATTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:49181251 original size:29 final size:29
Alignment explanation
Indices: 49181213--49181274 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
49181203 GTGTAAATTA
* *
49181213 GTTTATTTGAAATATGAAGATAATTATAT
1 GTTTACTTGAAATATCAAGATAATTATAT
*
49181242 GTTTACTTGAAATATCAAGATGATTATAT
1 GTTTACTTGAAATATCAAGATAATTATAT
49181271 GTTT
1 GTTT
49181275 TTGTGATTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (29 bp):
GTTTACTTGAAATATCAAGATAATTATAT
Found at i:49182019 original size:35 final size:35
Alignment explanation
Indices: 49181978--49182148 Score: 127
Period size: 35 Copynumber: 4.9 Consensus size: 35
49181968 CCAACATTTA
*
49181978 AAAAAGGTTGGAATAAACCCATCTAAAGCAACCTT
1 AAAAAGGTTGGAATAGACCCATCTAAAGCAACCTT
* * * *
49182013 AAAAAGGTAAGG-ATTGACCCGTCTAATGCAACCTT
1 AAAAAGGT-TGGAATAGACCCATCTAAAGCAACCTT
* *
49182048 TAAAAGGCTGGAATAGACCCATCT-AAGACAACCTT
1 AAAAAGGTTGGAATAGACCCATCTAAAG-CAACCTT
* * * *
49182083 AAAAAAGTT-GAGATAGACACGTCT-AAGACAACTTT
1 AAAAAGGTTGGA-ATAGACCCATCTAAAG-CAACCTT
* * * *
49182118 TAAAAGATTAGG-ATAGACTCGTCTAAAGCAA
1 AAAAAGGTT-GGAATAGACCCATCTAAAGCAA
49182149 TTTGTTTTCT
Statistics
Matches: 108, Mismatches: 21, Indels: 14
0.76 0.15 0.10
Matches are distributed among these distances:
34 6 0.06
35 96 0.89
36 5 0.05
37 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.22
Consensus pattern (35 bp):
AAAAAGGTTGGAATAGACCCATCTAAAGCAACCTT
Found at i:49182106 original size:70 final size:70
Alignment explanation
Indices: 49181979--49182123 Score: 179
Period size: 70 Copynumber: 2.1 Consensus size: 70
49181969 CAACATTTAA
* * *
49181979 AAAAGGTTGGAATAAACCCATCTAAAGCAACCTTAAAAAGGTAAGGATTGACCCGTCTAATG-CA
1 AAAAGGCTGGAATAAACCCATCTAAAGCAACCTTAAAAAGGTAAGGATAGACACGTCTAA-GACA
49182043 ACCTTT
65 ACCTTT
* * *
49182049 AAAAGGCTGGAATAGACCCATCT-AAGACAACCTTAAAAAAGT-TGAGATAGACACGTCTAAGAC
1 AAAAGGCTGGAATAAACCCATCTAAAG-CAACCTTAAAAAGGTAAG-GATAGACACGTCTAAGAC
*
49182112 AACTTTT
64 AACCTTT
49182119 AAAAG
1 AAAAG
49182124 ATTAGGATAG
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
69 5 0.08
70 60 0.92
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (70 bp):
AAAAGGCTGGAATAAACCCATCTAAAGCAACCTTAAAAAGGTAAGGATAGACACGTCTAAGACAA
CCTTT
Found at i:49182134 original size:70 final size:70
Alignment explanation
Indices: 49181986--49182148 Score: 172
Period size: 70 Copynumber: 2.3 Consensus size: 70
49181976 TAAAAAAGGT
* * *
49181986 TGGAATAAACCCATCTAAAGCAACCTTAAAAAGGTAAGGATTGACCCGTCTAATGCAACCTTTAA
1 TGGAATAGACCCATCTAAAGCAACCTTAAAAAGGTAAGGATAGACACGTCTAATGCAACCTTTAA
*
49182051 AAGGC
66 AAGAC
* * *
49182056 TGGAATAGACCCATCT-AAGACAACCTTAAAAAAGT-TGAGATAGACACGTCTAA-GACAACTTT
1 TGGAATAGACCCATCTAAAG-CAACCTTAAAAAGGTAAG-GATAGACACGTCTAATG-CAACCTT
*
49182118 TAAAAGAT
63 TAAAAGAC
* *
49182126 TAGG-ATAGACTCGTCTAAAGCAA
1 T-GGAATAGACCCATCTAAAGCAA
49182149 TTTGTTTTCT
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
69 5 0.06
70 68 0.87
71 5 0.06
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (70 bp):
TGGAATAGACCCATCTAAAGCAACCTTAAAAAGGTAAGGATAGACACGTCTAATGCAACCTTTAA
AAGAC
Found at i:49183039 original size:15 final size:15
Alignment explanation
Indices: 49183019--49183052 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
49183009 CATAAAGGCT
49183019 TAAAGGTAAAATCAA
1 TAAAGGTAAAATCAA
*
49183034 TAAAGGTGAAATCAA
1 TAAAGGTAAAATCAA
49183049 TAAA
1 TAAA
49183053 CTGTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.59, C:0.06, G:0.15, T:0.21
Consensus pattern (15 bp):
TAAAGGTAAAATCAA
Found at i:49183068 original size:16 final size:16
Alignment explanation
Indices: 49183047--49183094 Score: 78
Period size: 16 Copynumber: 3.0 Consensus size: 16
49183037 AGGTGAAATC
49183047 AATAAACTGTTAAAAA
1 AATAAACTGTTAAAAA
*
49183063 AATAAATTGTTAAAAA
1 AATAAACTGTTAAAAA
*
49183079 AATAAACTATTAAAAA
1 AATAAACTGTTAAAAA
49183095 CTGTTAAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (16 bp):
AATAAACTGTTAAAAA
Found at i:49195574 original size:49 final size:49
Alignment explanation
Indices: 49195502--49195695 Score: 169
Period size: 50 Copynumber: 3.9 Consensus size: 49
49195492 GCCGAAGCTA
* *
49195502 TCTGGTACGCATAGTA-CCTTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCC-TGCACTTAGTACTACACACGCGACCAACAG
* ** *
49195551 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAACAG
** ** * * *
49195601 TCTAATACACGCAGTAGCCTGCACTTAGTACTACACACGTGATC-ATAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* * *
49195649 TTTTCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
49195696 TCGCAATAGA
Statistics
Matches: 116, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
47 1 0.01
48 1 0.01
49 34 0.29
50 41 0.35
51 39 0.34
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
Found at i:49199055 original size:12 final size:12
Alignment explanation
Indices: 49199038--49199065 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
49199028 GTTTAACAAA
49199038 TATGTTATAACT
1 TATGTTATAACT
49199050 TATGTTATAACT
1 TATGTTATAACT
49199062 TATG
1 TATG
49199066 GTGAAGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.07, G:0.11, T:0.50
Consensus pattern (12 bp):
TATGTTATAACT
Found at i:49209952 original size:20 final size:21
Alignment explanation
Indices: 49209912--49209952 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
49209902 ATGCCTTATA
*
49209912 TTTTGAAAATTTTTCTAAGTT
1 TTTTGAAAATTTTCCTAAGTT
*
49209933 TTTTGAAAA-TTTCCTGAGTT
1 TTTTGAAAATTTTCCTAAGTT
49209953 ATCGGTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.27, C:0.07, G:0.12, T:0.54
Consensus pattern (21 bp):
TTTTGAAAATTTTCCTAAGTT
Found at i:49216928 original size:13 final size:13
Alignment explanation
Indices: 49216907--49216938 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
49216897 GATACAGTCA
49216907 ACAGAATTAGATAT
1 ACAG-ATTAGATAT
49216921 ACAGATTAGATAT
1 ACAGATTAGATAT
49216934 ACAGA
1 ACAGA
49216939 ATCCTACCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.50, C:0.09, G:0.16, T:0.25
Consensus pattern (13 bp):
ACAGATTAGATAT
Found at i:49218923 original size:140 final size:140
Alignment explanation
Indices: 49218683--49219085 Score: 590
Period size: 140 Copynumber: 2.9 Consensus size: 140
49218673 AAAAGTCGGT
* * * * * *
49218683 ATAGTGTTAGACAAAGCTGAATCTTATTGAAGTGTTGCCTTAGTCATGCATATCCCAAACCTTAT
1 ATAGTGTTGGACAAAGCTGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTAT
49218748 ACAAAGAGTTGGCCAAAGCATATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAA
66 ACAAAGAGTTGGCCAAAGCATATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAA
49218813 AAATGTCGAC
131 AAATGTCGAC
*
49218823 ATAGTGTTGGACAAAGCTGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTAAT
1 ATAGTGTTGGACAAAGCTGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTAT
* * * * *
49218888 ATAAAGGGTTGGCTAAAGCATATGTCGACAAGTCTATCCCAACACTTAGGAAAGTGTCCGCCCAA
66 ACAAAGAGTTGGCCAAAGCATATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAA
* *
49218953 AAGTGTCGGC
131 AAATGTCGAC
** * * *
49218963 ATAGTGTTGGACAAAGCCAACTCTAATTTAAGCCTTGCCTTGGGCATGCATATCCCAACCCTTAT
1 ATAGTGTTGGACAAAGCTGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTAT
** * * *
49219028 ACAAAGAGTAAGCCAAAGCATGTGTTGGCAAGTCTATCCCAACACTCAGGAAAGTGTC
66 ACAAAGAGTTGGCCAAAGCATATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTC
49219086 GGCATAATAC
Statistics
Matches: 234, Mismatches: 29, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
140 234 1.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (140 bp):
ATAGTGTTGGACAAAGCTGACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTAT
ACAAAGAGTTGGCCAAAGCATATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCAGCCCAA
AAATGTCGAC
Found at i:49219435 original size:23 final size:24
Alignment explanation
Indices: 49219409--49219479 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 24
49219399 CAATAATTTT
* *
49219409 TTTATTTTTATATGTTTTT-AAAA
1 TTTATTATTATATATTTTTGAAAA
49219432 TTTATTATTATATATTTTTGAAAATA
1 TTTATTATTATATATTTTTG-AAA-A
*
49219458 TTTATGTATTTTATATATTTTG
1 TTTAT-TATTATATAT-TTTTG
49219480 TTGAATCTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
23 17 0.43
25 3 0.08
26 6 0.15
27 9 0.22
28 5 0.12
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
TTTATTATTATATATTTTTGAAAA
Found at i:49219968 original size:13 final size:13
Alignment explanation
Indices: 49219952--49219976 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49219942 TTTCTTTTCT
49219952 TTCTTTTTTTTTG
1 TTCTTTTTTTTTG
49219965 TTCTTTTTTTTT
1 TTCTTTTTTTTT
49219977 TCTTCTTGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTCTTTTTTTTTG
Found at i:49219977 original size:14 final size:14
Alignment explanation
Indices: 49219941--49219983 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
49219931 CGAGGGGCTG
*
49219941 TTTTCTTTTCTT-T
1 TTTTTTTTTCTTCT
*
49219954 CTTTTTTTTTGTTCT
1 -TTTTTTTTTCTTCT
49219969 TTTTTTTTTCTTCT
1 TTTTTTTTTCTTCT
49219983 T
1 T
49219984 GTTTAGGCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 24 0.96
15 1 0.04
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.84
Consensus pattern (14 bp):
TTTTTTTTTCTTCT
Found at i:49223315 original size:3 final size:3
Alignment explanation
Indices: 49223307--49223371 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
49223297 AATGTTATCT
49223307 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
49223355 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
49223372 TTACCTTTGA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:49227646 original size:22 final size:22
Alignment explanation
Indices: 49227621--49227662 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
49227611 TTAATCATTC
*
49227621 ATTTAATTTTAATATT-TTTAAT
1 ATTTAAATTT-ATATTATTTAAT
49227643 ATTTAAATTTATATTATTTA
1 ATTTAAATTTATATTATTTA
49227663 TTAAATTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTTAAATTTATATTATTTAAT
Found at i:49231393 original size:12 final size:11
Alignment explanation
Indices: 49231361--49231396 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
49231351 GCTACACTAG
*
49231361 TTTAGTTTTCC
1 TTTAGTTTTCT
49231372 TTTAGTTTTCT
1 TTTAGTTTTCT
49231383 TTTAGGTTTTCT
1 TTTA-GTTTTCT
49231395 TT
1 TT
49231397 CCCATTTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.08, C:0.11, G:0.11, T:0.69
Consensus pattern (11 bp):
TTTAGTTTTCT
Found at i:49233122 original size:45 final size:45
Alignment explanation
Indices: 49233036--49233122 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
49233026 TATGTGATCT
*
49233036 GAACTCATTGAGTTGCGGTCTGAGTTCATGATATATGTGACATCC
1 GAACTCATTGAGTTGCGGTCTGAGTTCATGATATATATGACATCC
* * *
49233081 GAACTCATTGAGTTGTGGTCTGAGTTCGTGATATTTATGACA
1 GAACTCATTGAGTTGCGGTCTGAGTTCATGATATATATGACA
49233123 CATGTTTTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (45 bp):
GAACTCATTGAGTTGCGGTCTGAGTTCATGATATATATGACATCC
Found at i:49242128 original size:19 final size:20
Alignment explanation
Indices: 49242084--49242130 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
49242074 GCAACTCAAT
* *
49242084 TTTATTTTATTTATTTTCCA
1 TTTATTTTAGTAATTTTCCA
49242104 TTTATTTTAGTAATTTTCC-
1 TTTATTTTAGTAATTTTCCA
49242123 TTTATTTT
1 TTTATTTT
49242131 TTATTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.19, C:0.09, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTATTTTAGTAATTTTCCA
Found at i:49247296 original size:17 final size:18
Alignment explanation
Indices: 49247260--49247296 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
49247250 ACTTTCAAGG
49247260 AAAACTTCCCATTCTAAA
1 AAAACTTCCCATTCTAAA
49247278 AAAACTTCCCATTCTAAA
1 AAAACTTCCCATTCTAAA
49247296 A
1 A
49247297 GGAAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAACTTCCCATTCTAAA
Found at i:49248005 original size:15 final size:16
Alignment explanation
Indices: 49247979--49248008 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
49247969 TTCATCCTCG
49247979 TTTGGCTTTGAGTTGC
1 TTTGGCTTTGAGTTGC
49247995 TTTGG-TTTGAGTTG
1 TTTGGCTTTGAGTTG
49248009 GATTTTATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.07, C:0.07, G:0.33, T:0.53
Consensus pattern (16 bp):
TTTGGCTTTGAGTTGC
Found at i:49251571 original size:37 final size:37
Alignment explanation
Indices: 49251513--49251691 Score: 295
Period size: 37 Copynumber: 4.8 Consensus size: 37
49251503 GCTCAGACGA
* * *
49251513 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
49251550 AATCTCCTCACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
49251587 AATCTCCACACGTAGTCATCGGGTCTTACCCGGGCAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
49251624 AATCTCCACATGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
49251661 AATCGCCACACGTAGTCATCGGGTCTTACCC
1 AATCTCCACACGTAGTCATCGGGTCTTACCC
49251692 AGAATATATT
Statistics
Matches: 132, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 132 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:49252114 original size:47 final size:47
Alignment explanation
Indices: 49251897--49252116 Score: 386
Period size: 47 Copynumber: 4.7 Consensus size: 47
49251887 CATACATATT
* *
49251897 TCACATTAGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
49251944 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
49251991 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
49252038 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
49252085 TCACATTGGCCATTCGGCCTTATCTCATATAT
1 TCACATTGGCCATTCGGCCTTATCACATATAT
49252117 ACACATAAAA
Statistics
Matches: 164, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 164 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:49256237 original size:40 final size:40
Alignment explanation
Indices: 49256165--49256375 Score: 258
Period size: 39 Copynumber: 5.4 Consensus size: 40
49256155 CCAGCATGAT
*
49256165 TGCTCTTCGGGAC-TAG-CC-GATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
49256202 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
*
49256242 TGCTCTTCGGCACTTAGTCCGGATAC--CACTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
* * *
49256280 TAGCTCTTCGGGATTTAGTCCAGATACATATACTAGCACGAA
1 T-GCTCTTCGGGACTTAGTCCGGATACAT-CACTAGCACGAA
* * *
49256322 TGCTCTTC--GATTTAGCCCGGATATATC-CTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
* *
49256359 CGCTCTTCGGGATTTAG
1 TGCTCTTCGGGACTTAG
49256376 CCCGAATATA
Statistics
Matches: 154, Mismatches: 11, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
37 30 0.19
38 16 0.10
39 46 0.30
40 43 0.28
41 7 0.05
42 12 0.08
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
Found at i:49256286 original size:79 final size:77
Alignment explanation
Indices: 49256165--49256330 Score: 228
Period size: 79 Copynumber: 2.1 Consensus size: 77
49256155 CCAGCATGAT
* * *
49256165 TGCTCTTCGGGACTAGCCGATACATCACTAGCATGAATGCTCTTCGGGACTTAGTCCGGATACAT
1 TGCTCTTCGGCACTAGCCGATACA-CACTAGCACGAATGCTCTTCGGGACTTAGTCCAGATACAT
49256230 -CACTAGCACGAA
65 ACACTAGCACGAA
*
49256242 TGCTCTTCGGCACTTAGTCCGGATAC-CACTAGCACGAATAGCTCTTCGGGATTTAGTCCAGATA
1 TGCTCTTCGGCAC-TAG-CC-GATACACACTAGCACGAAT-GCTCTTCGGGACTTAGTCCAGATA
*
49256306 CATATACTAGCACGAA
62 CATACACTAGCACGAA
49256322 TGCTCTTCG
1 TGCTCTTCG
49256331 ATTTAGCCCG
Statistics
Matches: 79, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
77 12 0.15
78 15 0.19
79 27 0.34
80 25 0.32
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (77 bp):
TGCTCTTCGGCACTAGCCGATACACACTAGCACGAATGCTCTTCGGGACTTAGTCCAGATACATA
CACTAGCACGAA
Found at i:49257091 original size:22 final size:23
Alignment explanation
Indices: 49257059--49257101 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
49257049 CCACTAGTCT
* *
49257059 ATTCTATACATGACA-TAAAATA
1 ATTCTAAACATAACAGTAAAATA
49257081 ATTCTAAACATAACAGTAAAA
1 ATTCTAAACATAACAGTAAAA
49257102 GCGGTGGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.28
Consensus pattern (23 bp):
ATTCTAAACATAACAGTAAAATA
Found at i:49257672 original size:36 final size:37
Alignment explanation
Indices: 49257625--49257831 Score: 254
Period size: 36 Copynumber: 5.8 Consensus size: 37
49257615 AGCTCAGACG
* *
49257625 AAATCTCCACACGAAGTTATCGGGTCTTA-CCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
49257661 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC-
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
49257697 ATATCTCCACACGTAGTCATCGGGTCTTACCCGG-CA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
49257733 TAATCTTCACACGTAGTCATC-GGTCTTA-CCGG-GA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
49257767 TAATCTCCACACGTAGT-ATC-GGTCTTACCCGGGCA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
49257802 TAA--TCCACAACGTAGTCATCGGGTCTTACC
1 AAATCTCCAC-ACGTAGTCATCGGGTCTTACC
49257832 GGAATATATT
Statistics
Matches: 155, Mismatches: 9, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
33 15 0.10
34 32 0.21
35 15 0.10
36 87 0.56
37 6 0.04
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:49257815 original size:104 final size:108
Alignment explanation
Indices: 49257626--49257831 Score: 305
Period size: 104 Copynumber: 1.9 Consensus size: 108
49257616 GCTCAGACGA
*
49257626 AATCTCCACACGAAGTTATCGGGTCTTACCGGACAAAATCTCCACACGTAGTCATCGGGTCTTAC
1 AATCTCCACACGAAGTCATCGGGTCTTACCGGACAAAATCTCCACACGTAGTCATCGGGTCTTAC
*
49257691 CCGGACATATCTCCACACGTAGTCATCGGGTCTTACCCGGCAT
66 CCGGACATATATCCACACGTAGTCATCGGGTCTTACCCGGCAT
* * * *
49257734 AATCTTCACACGTAGTCATC-GGTCTTACCGG-GATAATCTCCACACGTAGT-ATC-GGTCTTAC
1 AATCTCCACACGAAGTCATCGGGTCTTACCGGACAAAATCTCCACACGTAGTCATCGGGTCTTAC
*
49257795 CCGGGCATA-ATCCACAACGTAGTCATCGGGTCTTACC
66 CCGGACATATATCCAC-ACGTAGTCATCGGGTCTTACC
49257832 GGAATATATT
Statistics
Matches: 90, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
103 5 0.06
104 37 0.41
105 3 0.03
106 17 0.19
107 11 0.12
108 17 0.19
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (108 bp):
AATCTCCACACGAAGTCATCGGGTCTTACCGGACAAAATCTCCACACGTAGTCATCGGGTCTTAC
CCGGACATATATCCACACGTAGTCATCGGGTCTTACCCGGCAT
Found at i:49258034 original size:48 final size:48
Alignment explanation
Indices: 49257980--49258114 Score: 227
Period size: 48 Copynumber: 2.8 Consensus size: 48
49257970 GCACATCGCC
49257980 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
49258028 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
49258076 TACATA-TTCACATTAGCCATTCGGCCTTATCACACATAT
1 TACATATTTCACACTAGCCATTCGGCTTTA-C-CACATAT
49258115 GCATGTTCAT
Statistics
Matches: 83, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
47 21 0.25
48 55 0.66
49 7 0.08
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.33
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:49258329 original size:182 final size:183
Alignment explanation
Indices: 49258083--49258480 Score: 660
Period size: 182 Copynumber: 2.2 Consensus size: 183
49258073 TCATACATAT
* *
49258083 TCACATTAGCCATTCGGCCTTATCACACATATGCATGTTCATTCATCAATTGGCCATTCGGCCTT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATTCATCAATTGGCCATTCGGCCTT
* *
49258148 AAACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTC
66 AAACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAACACACATATGCATGTTC
49258213 ACATTCATCACATTGGCCATTCGGCCTTAAC-C-ATATGCATGTTCACATTCA
131 ACATTCATCACATTGGCCATTCGGCCTTAACACAATATGCATGTTCACATTCA
*
49258264 TCA-ATTGGCCATTCGGCCTTAAC-CATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTT--CATTCATCA-ATTGGCCATTCGGC
* *
49258327 CTTATACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAACACATATATGCATG
63 CTTAAACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAACACACATATGCATG
49258392 TTCACATTCATCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
128 TTCACATTCATCACATTGGCCATTCGGCCTTAACACA-ATATGCATGTTCACATTCA
*
49258449 TCACATTGGCCATTCGGCCTTATCTCATATAT
1 TCACATTGGCCATTCGGCCTTATCACATATAT
49258481 ACACATAAAA
Statistics
Matches: 201, Mismatches: 8, Indels: 10
0.92 0.04 0.05
Matches are distributed among these distances:
179 13 0.06
180 18 0.09
181 12 0.06
182 109 0.54
183 1 0.00
185 22 0.11
186 19 0.09
187 7 0.03
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (183 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATTCATCAATTGGCCATTCGGCCTT
AAACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAACACACATATGCATGTTC
ACATTCATCACATTGGCCATTCGGCCTTAACACAATATGCATGTTCACATTCA
Found at i:49258359 original size:23 final size:23
Alignment explanation
Indices: 49258290--49258360 Score: 60
Period size: 23 Copynumber: 3.1 Consensus size: 23
49258280 CCTTAACCAT
49258290 ATATGCATGTTCACATTCATCAC
1 ATATGCATGTTCACATTCATCAC
* *
49258313 AT-TGGCCA--TTCGGCCTT-ATACAC
1 ATAT-G-CATGTTC-ACATTCAT-CAC
49258336 ATATGCATGTTCACATTCATCAC
1 ATATGCATGTTCACATTCATCAC
49258359 AT
1 AT
49258361 TGGCCATTCG
Statistics
Matches: 36, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
22 8 0.22
23 20 0.56
24 8 0.22
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.34
Consensus pattern (23 bp):
ATATGCATGTTCACATTCATCAC
Found at i:49258478 original size:47 final size:47
Alignment explanation
Indices: 49258083--49258480 Score: 647
Period size: 47 Copynumber: 8.7 Consensus size: 47
49258073 TCATACATAT
* * *
49258083 TCACATTAGCCATTCGGCCTTATCACACATATGCATGTT--CATTCA
1 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
49258128 TCA-ATTGGCCATTCGGCCTTAA-ACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
* *
49258173 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
49258220 TCACATTGGCCATTCGGCCTTAAC-C--ATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
49258264 TCA-ATTGGCCATTCGGCCTTAAC-CATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
49258309 TCACATTGGCCATTCGGCCTTATACAC--ATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTA-ACACATATATGCATGTTCACATTCA
49258355 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
49258402 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
* *
49258449 TCACATTGGCCATTCGGCCTTATCTCATATAT
1 TCACATTGGCCATTCGGCCTTAACACATATAT
49258481 ACACATAAAA
Statistics
Matches: 334, Mismatches: 8, Indels: 20
0.92 0.02 0.06
Matches are distributed among these distances:
43 35 0.10
44 39 0.12
45 38 0.11
46 78 0.23
47 143 0.43
48 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
Found at i:49266695 original size:33 final size:32
Alignment explanation
Indices: 49266658--49266759 Score: 105
Period size: 33 Copynumber: 3.1 Consensus size: 32
49266648 ATGTAAGACT
* *
49266658 ATAGCTGGACTATAGCATCCTGATGATAAGATC
1 ATAGCTGGGCTAT-GCATCATGATGATAAGATC
* * *
49266691 ATAGCTGGGTTATGGCATCTTGATGATAAAATC
1 ATAGCTGGGCTAT-GCATCATGATGATAAGATC
* * *
49266724 ATAGTTGGGCTATGACATTATGATGATAAGACC
1 ATAGCTGGGCTATG-CATCATGATGATAAGATC
49266757 ATA
1 ATA
49266760 ACCAGGTTAC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
32 1 0.02
33 56 0.98
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (32 bp):
ATAGCTGGGCTATGCATCATGATGATAAGATC
Found at i:49267296 original size:27 final size:27
Alignment explanation
Indices: 49267258--49267335 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
49267248 GCCCTCCCCC
49267258 AAAAAAACCTAACCCAAAAAAAAAAAG
1 AAAAAAACCTAACCCAAAAAAAAAAAG
49267285 AAAAAAACCTAACCCAAAAAAAAAAAG
1 AAAAAAACCTAACCCAAAAAAAAAAAG
**
49267312 --AAAAACCTAACCCCCAAAAAAAAA
1 AAAAAAACCTAACCCAAAAAAAAAAA
49267336 CCAAGAAACC
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
25 22 0.45
27 27 0.55
ACGTcount: A:0.72, C:0.22, G:0.03, T:0.04
Consensus pattern (27 bp):
AAAAAAACCTAACCCAAAAAAAAAAAG
Found at i:49267345 original size:27 final size:26
Alignment explanation
Indices: 49267258--49267335 Score: 113
Period size: 26 Copynumber: 3.0 Consensus size: 26
49267248 GCCCTCCCCC
*
49267258 AAAAAAACCTAACCCAAAAAAAAAAA
1 AAAAAAACCTAACCCCAAAAAAAAAA
49267284 GAAAAAAACCTAA-CCCAAAAAAAAAA
1 -AAAAAAACCTAACCCCAAAAAAAAAA
* *
49267310 AGAAAAACCTAACCCCCAAAAAAAAA
1 AAAAAAACCTAACCCCAAAAAAAAAA
49267336 CCAAGAAACC
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
25 11 0.23
26 24 0.51
27 12 0.26
ACGTcount: A:0.72, C:0.22, G:0.03, T:0.04
Consensus pattern (26 bp):
AAAAAAACCTAACCCCAAAAAAAAAA
Found at i:49269853 original size:12 final size:12
Alignment explanation
Indices: 49269836--49269870 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
49269826 ATTCATTTGA
49269836 CATTCATGCATT
1 CATTCATGCATT
49269848 CATTCATGCATT
1 CATTCATGCATT
49269860 CATTCAT-CATT
1 CATTCATGCATT
49269871 GCATATCCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.43
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:49278318 original size:72 final size:71
Alignment explanation
Indices: 49278220--49278385 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
49278210 GAGTTAAGTC
** * *
49278220 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTTAGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
49278284 TGAGGTA
65 TGAGGTA
*
49278291 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
49278356 TGAGGTA
65 TGAGGTA
* *
49278363 TTTTCAATTTATGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
49278386 ACGTTGTTCA
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:49278381 original size:13 final size:13
Alignment explanation
Indices: 49278363--49278396 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
49278353 CGCTGAGGTA
*
49278363 TTTTCAATTTATG
1 TTTTCAATTTACG
49278376 TTTTCAATTTACG
1 TTTTCAATTTACG
49278389 TTGTTCAA
1 TT-TTCAA
49278397 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.56
Consensus pattern (13 bp):
TTTTCAATTTACG
Found at i:49278519 original size:13 final size:13
Alignment explanation
Indices: 49278501--49278525 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49278491 CACGCTGAGG
49278501 TATTTTCAATTTC
1 TATTTTCAATTTC
49278514 TATTTTCAATTT
1 TATTTTCAATTT
49278526 ACGTTGTTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTTCAATTTC
Found at i:49278570 original size:140 final size:140
Alignment explanation
Indices: 49278318--49278945 Score: 1114
Period size: 140 Copynumber: 4.5 Consensus size: 140
49278308 TTAATTTCAA
*
49278318 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTATGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
49278383 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
*
49278448 TCACAATCAG
131 TCAAAATCAG
* *
49278458 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACGCTGAGGTATTTTCAATTTCTATTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
49278523 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
49278588 TCAAAATCAG
131 TCAAAATCAG
* *
49278598 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCAGGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
49278663 TTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
49278728 TCAAAATCAG
131 TCAAAATCAG
*
49278738 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCATGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
**
49278803 TTTATATTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
49278868 TCAAAATCAG
131 TCAAAATCAG
*
49278878 CTCATATTGCGGGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTGT-TT
49278942 TCAA
62 TCAA
49278946 AAAAAAAAAA
Statistics
Matches: 472, Mismatches: 12, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
139 2 0.00
140 441 0.93
142 23 0.05
143 6 0.01
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.38
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:49278661 original size:13 final size:13
Alignment explanation
Indices: 49278643--49278676 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
49278633 GGCTGAGGTA
*
49278643 TTTTCAATTTCTG
1 TTTTCAATTTATG
49278656 TTTTCAATTTATG
1 TTTTCAATTTATG
49278669 TTGTTCAA
1 TT-TTCAA
49278677 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:49279045 original size:49 final size:49
Alignment explanation
Indices: 49278973--49279068 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
49278963 ATATTGCGAG
* *
49278973 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATGTTCA
49279022 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATGTT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATGTT
49279069 TTCAAAATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATGTTCA
Found at i:49279248 original size:72 final size:72
Alignment explanation
Indices: 49279022--49279982 Score: 1164
Period size: 72 Copynumber: 13.2 Consensus size: 72
49279012 TTTCTGTTCA
* *
49279022 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATA
49279087 TTGCGAG
66 TTGCGAG
* * * *
49279094 AAATTACTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAAATCAA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC-----AAAAATCAA
*
49279159 CTCATATTGTGAG
60 CTCATATTGCGAG
* * *
49279172 AAATGAGTTGAGCCTCAAGACATGCTAAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATA
49279237 TTGCGAG
66 TTGCGAG
* * * * *
49279244 AAATGAGTTGAACCTCAAGACATGCTGAGGTATTTTCAATTTTTGTTTTTCAAAAAAATTAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC--AAAAATCAACTC
49279309 ATATTGCGAG
63 ATATTGCGAG
** * ** * *
49279319 AGGTGAATTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCCGTTGTCAAAAAAATCAACTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTC--AAAAATCAACTCA
49279384 TATTGCGAG
64 TATTGCGAG
** ** *
49279393 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTTTTTTCAAAAATCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATA
49279458 TTGCGAG
66 TTGCGAG
** ** *
49279465 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATA
*
49279530 TTGCGTG
66 TTGCGAG
* * *
49279537 AAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTTTGTCTTTCAAAACAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGT-TTTC-AAA-AATCAACTC
*
49279602 ATACTGCGAG
63 ATATTGCGAG
** * *
49279612 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTTAAAAAAATCAACTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT-TT-CAAAAATCAACTCA
49279677 TATTGCGAG
64 TATTGCGAG
* *
49279686 AAATGAGTTGAGCCTCAGGACACGCTGAAGTAATTTCAATTTCTG-TTT------TCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATA
49279744 TTGCGAG
66 TTGCGAG
* * * *
49279751 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTTAATTTTTGTTTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC--AAAAATCAACTC
49279816 ATATTGCGAG
63 ATATTGCGAG
** ** *
49279826 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTTTGTTTTCAAAAATCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATA
*
49279891 TTGCAAG
66 TTGCGAG
** *
49279898 AGGTGAGTTGA-CCTTAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAATCAACTCAT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTC-AAAAATCAACTCAT
49279962 ATTGCGAG
65 ATTGCGAG
**
49279970 AGGTGAGTTGAGC
1 AAATGAGTTGAGC
49279983 TTCAGATCAC
Statistics
Matches: 785, Mismatches: 78, Indels: 51
0.86 0.09 0.06
Matches are distributed among these distances:
65 56 0.07
67 3 0.00
71 34 0.04
72 297 0.38
73 16 0.02
74 142 0.18
75 171 0.22
77 5 0.01
78 61 0.08
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (72 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATA
TTGCGAG
Found at i:49279432 original size:221 final size:218
Alignment explanation
Indices: 49279022--49279982 Score: 1299
Period size: 221 Copynumber: 4.4 Consensus size: 218
49279012 TTTCTGTTCA
*
49279022 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATT-AACTCATA
* * *
49279087 TTGCGAGAAATTACTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAA
65 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTC---AAAA
* ** * * *
49279152 AAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACATGCTAAGGTAATTTCAATTTCTG
127 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
*
49279217 TTTTCAAAATTCAACTCATATTGCGAG
192 TTTTCAAAAATCAACTCATATTGCGAG
* * * *
49279244 AAATGAGTTGAACCTCAAGACATGCTGAGGTATTTTCAATTTTTGTTTTTCAAAAAAATTAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC---AAAATTAACTC
** * ** * * *
49279309 ATATTGCGAGAGGTGAATTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCCG-TTGTCAAAA
62 ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAA
* *
49279373 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTT
127 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
49279438 TTTTCAAAAATCAACTCATATTGCGAG
192 TTTTCAAAAATCAACTCATATTGCGAG
** **
49279465 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATT-AACTCATA
* * * * *
49279530 TTGCGTGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTTTGTCTTTCAAAACAA
65 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAA
*
49279595 TCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
130 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT-
*
49279660 TTAAAAAAATCAACTCATATTGCGAG
194 TT-CAAAAATCAACTCATATTGCGAG
* *
49279686 AAATGAGTTGAGCCTCAGGACACGCTGAAGTAATTTCAATTTCTGTTTTC------AACTCATAT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTAACTCATAT
* * *
49279745 TGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTTAATTTTTGTTTTTCAAAAAAAT
66 TGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAT
* *
49279810 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTTTGTTTT
131 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTT
*
49279875 CAAAAATCAACTCATATTGCAAG
196 CAAAAATCAACTCATATTGCGAG
** * *
49279898 AGGTGAGTTGA-CCTTAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAATCAACTCAT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTC--AAAATTAACTCAT
**
49279962 ATTGCGAGAGGTGAGTTGAGC
64 ATTGCGAGAAATGAGTTGAGC
49279983 TTCAGATCAC
Statistics
Matches: 653, Mismatches: 70, Indels: 35
0.86 0.09 0.05
Matches are distributed among these distances:
211 35 0.05
212 30 0.05
213 2 0.00
214 128 0.20
217 6 0.01
218 50 0.08
219 96 0.15
220 7 0.01
221 192 0.29
222 41 0.06
223 5 0.01
224 4 0.01
225 51 0.08
226 6 0.01
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (218 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTAACTCATAT
TGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAT
CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTT
CAAAAATCAACTCATATTGCGAG
Found at i:49279568 original size:293 final size:292
Alignment explanation
Indices: 49279025--49279987 Score: 1302
Period size: 293 Copynumber: 3.3 Consensus size: 292
49279015 CTGTTCAAAA
* * *
49279025 TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATGTTTTC-AAAATTCAACTCATATT
1 TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATCAACTCATATT
* * * * *
49279089 GCGAGAAATTACTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAA
66 GCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT-TTTTTC-----AAAA
* *
49279154 ATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACATGCTAAGGTAATTTCAATTTCTGTT
125 ATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTCTGTT
* *
49279219 TTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACATGCTGAGGTATTTTCAAT
190 TTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAAT
*
49279284 TTTTGTTTTTCAAAAAAATTAACTCATATTGCGAGAGG
255 TTTTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGG
* ** *
49279322 TGAATTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCCGTTGTCAAAAAAATCAACTCATAT
1 TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTGTC-AAAAAATCAACTCATAT
** *
49279387 TGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTTTTTTCAAAAATCAA
65 TGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTTTTTTCAAAAATCAA
** ** *
49279452 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
130 CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTCTGTTTTCAA
* *
49279517 AATTCAACTCATATTGCGTGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTTTG
195 AATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTTTG
* * *
49279582 TCTTTCAAAACAATCAACTCATACTGCGAGAGG
260 TTTTTCAAAAAAATCAACTCATATTGCGAGAGG
* *
49279615 TGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTTAAAAAAATCAACTCATAT
1 TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTG-TCAAAAAATCAACTCATAT
* *
49279680 TGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAAGTAATTTCAATTTC-TGTTT------TCAA
65 TGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTTTTTTCAAAAATCAA
* * *
49279738 CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTTAATTTTTGTTTTTCA
130 CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTCTG-TTTTC-
* ** ** *
49279803 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
193 -AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
*
49279868 TTG-TTTTC--AAAAATCAACTCATATTGCAAGAGG
257 TTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGG
* *
49279901 TGAGTTGA-CCTTAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAATCAACTCATATT
1 TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATCAACTCATATT
** *
49279965 GCGAGAGGTGAGTTGAGCTTCAG
66 GCGAGAAATGAGTTGAGCCTCAG
49279988 ATCACACATG
Statistics
Matches: 594, Mismatches: 66, Indels: 25
0.87 0.10 0.04
Matches are distributed among these distances:
284 39 0.07
285 33 0.06
286 84 0.14
287 5 0.01
288 4 0.01
289 59 0.10
292 4 0.01
293 261 0.44
294 1 0.00
297 41 0.07
298 6 0.01
299 57 0.10
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (292 bp):
TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATCAACTCATATT
GCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTTTTTTCAAAAATCAAC
TCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTCTGTTTTCAAA
ATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTTTGT
TTTTCAAAAAAATCAACTCATATTGCGAGAGG
Found at i:49280126 original size:361 final size:356
Alignment explanation
Indices: 49279025--49280025 Score: 983
Period size: 361 Copynumber: 2.8 Consensus size: 356
49279015 CTGTTCAAAA
* * *
49279025 TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATGTTTTCAAAATTCAACTCATATTG
1 TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTTTTTTCAAAAATCAACTCATATTG
** * * ** * *
49279090 CGAGAAATTACTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAAA
66 CGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTG-TTTTC-----AAAAA
** * *
49279155 TCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACATGCTAAGGTAATTTCAATTTCTGT-T
125 TCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTCT
* * ** * * ** *
49279219 TTC-AAA-ATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACATGCTGAGGTATTTTCA
190 TTCAAAACAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCA
* * * * * * * ** ** * *
49279282 ATTTTTGTTTTTC-AAAAAAATTAACTCATATTGCGAGAGGTGAATTGAGCCTCGGGACACGCTG
255 A--TTTATATTGCGAAAAAAATCAACTCAGAGTGCGACAAATGAGGTGAGCCTC-AGAAACGCT-
* **
49279346 AGGTAATTTCAATTTCCGTTGTCAAAAAAATCAACTCATATTGCGAGAGG
316 AAGTAAGATCAA------TT-TC--AAAAATCAACTCATATTGCGAGAGG
**
49279396 TGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTTTTTTCAAAAATCAACTCATATTG
1 TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTTTTTTCAAAAATCAACTCATATTG
*
49279461 CGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACT
66 CGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACT
** * * *
49279526 CATATTGCGTGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTTTGTCTTTCAAA
131 CATATTGCAAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTCTTTCAAA
* *
49279591 ACAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
196 ACAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCAATTTAT
* ** * * * * * **
49279656 GTTGTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAAGTAATT
261 ATTGCGAAAAAAATCAACTCAGAGTGCGACAAATGAGGTGAGCCTCA-GAAACGCT-AAGTAAGA
***** **
49279721 TCAATTTCTGTTTTCAACTCATATTGCGAGAAA
324 TCAATTTCAAAAATCAACTCATATTGCGAGAGG
* * * *
49279754 TGAGTTGAGCCTCAAGACATGCTGAGGTATTTTTAATTTTTGTTTTTCAAAAAAATCAACTCATA
1 TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT-TTTTTC--AAAAATCAACTCATA
*
49279819 TTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTTTGTTTTCAAAAATCA
63 TTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCA
** *
49279884 ACTCATATTGCAAGAGGTGAGTTGA-CCTTAAGACACGCTGAGGTAATTTCAATTTCTGT-TTTC
128 ACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTCTTTC
* * * *
49279947 AAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCA-GATCACACATGTGGTATTTTTTC
193 AAAACAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGA-CACAC-TGAGGTA--ATTTC
49280010 AATTTATATTGCGAAA
254 AATTTATATTGCGAAA
49280026 GGTGAGTTAA
Statistics
Matches: 547, Mismatches: 71, Indels: 34
0.84 0.11 0.05
Matches are distributed among these distances:
357 2 0.00
358 91 0.17
359 20 0.04
360 32 0.06
361 117 0.21
365 60 0.11
366 10 0.02
367 59 0.11
368 50 0.09
370 5 0.01
371 101 0.18
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (356 bp):
TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTTTTTTCAAAAATCAACTCATATTG
CGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACT
CATATTGCAAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTCTTTCAAA
ACAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCAATTTAT
ATTGCGAAAAAAATCAACTCAGAGTGCGACAAATGAGGTGAGCCTCAGAAACGCTAAGTAAGATC
AATTTCAAAAATCAACTCATATTGCGAGAGG
Found at i:49280881 original size:32 final size:34
Alignment explanation
Indices: 49280842--49280908 Score: 102
Period size: 32 Copynumber: 2.0 Consensus size: 34
49280832 CCCTCCCCAA
49280842 AAAAAAACCTAA-CCCAAAAAAAA-AAGAAAAAG
1 AAAAAAACCTAACCCCAAAAAAAAGAAGAAAAAG
49280874 AAAAAAACCTAACCCCCCAAAAAAAAGAAGAAAAA
1 AAAAAAACCTAA--CCCCAAAAAAAAGAAGAAAAA
49280909 CCTAACCCCC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 12 0.39
35 11 0.35
36 8 0.26
ACGTcount: A:0.72, C:0.19, G:0.06, T:0.03
Consensus pattern (34 bp):
AAAAAAACCTAACCCCAAAAAAAAGAAGAAAAAG
Found at i:49280899 original size:28 final size:28
Alignment explanation
Indices: 49280868--49280927 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
49280858 AAAAAAAAAG
49280868 AAAAAGAA-AAAAACCTAACCCCCCAAA
1 AAAAAGAAGAAAAACCTAACCCCCCAAA
*
49280895 AAAAAGAAGAAAAACCTAACCCCCCCAA
1 AAAAAGAAGAAAAACCTAACCCCCCAAA
49280923 AAAAA
1 AAAAA
49280928 CCAAGAAACC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 8 0.26
28 23 0.74
ACGTcount: A:0.63, C:0.28, G:0.05, T:0.03
Consensus pattern (28 bp):
AAAAAGAAGAAAAACCTAACCCCCCAAA
Found at i:49280940 original size:28 final size:28
Alignment explanation
Indices: 49280868--49280935 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 28
49280858 AAAAAAAAAG
*
49280868 AAAAAGAA-AAAAACCTAACCCCCCAAA
1 AAAAACAAGAAAAACCTAACCCCCCAAA
*
49280895 AAAAAGAAGAAAAACCTAACCCCCCCAAA
1 AAAAACAAGAAAAACCTAA-CCCCCCAAA
*
49280924 AAAACCAAGAAA
1 AAAAACAAGAAA
49280936 CCCTAGCCAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 8 0.22
28 10 0.27
29 19 0.51
ACGTcount: A:0.63, C:0.28, G:0.06, T:0.03
Consensus pattern (28 bp):
AAAAACAAGAAAAACCTAACCCCCCAAA
Found at i:49285129 original size:39 final size:39
Alignment explanation
Indices: 49285068--49285178 Score: 150
Period size: 39 Copynumber: 2.8 Consensus size: 39
49285058 TGATGTTTAT
* * * *
49285068 CCGGGCTTAGGGTCAGCAGGCTATGTGCTGGAATTATAT
1 CCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAA
* * *
49285107 CTGGACTTTAGGTCCGCAGGCTATATGCTGGAATTATAA
1 CCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAA
*
49285146 CCGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 CCGGACTTAAGGTCCGCAGGCTATGTGCTGGAA
49285179 ATATGTTTGG
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 61 1.00
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.26
Consensus pattern (39 bp):
CCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAA
Found at i:49293372 original size:37 final size:37
Alignment explanation
Indices: 49293322--49293432 Score: 141
Period size: 37 Copynumber: 2.9 Consensus size: 37
49293312 AGTTTGAGTA
*
49293322 TTTAATTATGTCATAATTTGAACATCGTTAATATGAT
1 TTTAATTATGTCATAATTTGAACATCTTTAATATGAT
* * *
49293359 TTTAATTATGTCATAATCTGAACATCTTTAATAAGGGTT
1 TTTAATTATGTCATAATTTGAACATCTTTAAT-A-TGAT
* *
49293398 TTTAATTATGTCATAGTTTAGGACATCTTTAATAT
1 TTTAATTATGTCATAATTT-GAACATCTTTAATAT
49293433 ATGTTTTAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
37 30 0.48
38 1 0.02
39 20 0.32
40 12 0.19
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (37 bp):
TTTAATTATGTCATAATTTGAACATCTTTAATATGAT
Found at i:49293440 original size:39 final size:39
Alignment explanation
Indices: 49293322--49293448 Score: 145
Period size: 39 Copynumber: 3.3 Consensus size: 39
49293312 AGTTTGAGTA
*
49293322 TTTAATTATGTCATAATTTGAACATCGTT-A-ATATGAT
1 TTTAATTATGTCATAATTTGAACATCTTTAATATATGAT
* * *
49293359 TTTAATTATGTCATAATCTGAACATCTTTAATA-AGGGTT
1 TTTAATTATGTCATAATTTGAACATCTTTAATATA-TGAT
* *
49293398 TTTAATTATGTCATAGTTTAGGACATCTTTAATATATG-T
1 TTTAATTATGTCATAATTT-GAACATCTTTAATATATGAT
*
49293437 TTTAAATATGTC
1 TTTAATTATGTC
49293449 TTAGTTTAGA
Statistics
Matches: 76, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
37 27 0.36
38 2 0.03
39 32 0.42
40 14 0.18
41 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (39 bp):
TTTAATTATGTCATAATTTGAACATCTTTAATATATGAT
Found at i:49295457 original size:162 final size:162
Alignment explanation
Indices: 49295190--49295499 Score: 467
Period size: 162 Copynumber: 1.9 Consensus size: 162
49295180 GTTCTAATAA
* * *
49295190 TTTTTCCAAGACAAGATCTTGGTTGTGATATCTAAAGTAATAAACCCTTAAGCAAAATTTTAGCT
1 TTTTTCCAAAACAAGATCTTGGTTGTGATATCTAAAGTAATAAACACTTAAGCAAAATTTTACCT
* * * * *
49295255 TTTCAATTTTTCTAGGATGAGTGCTTCTACTGAGTAGTCTTCTTCGCTATCCTCAAGCTCACGTC
66 TTTCAATTTGTCTAGGATGAGCGCTTCGACCGAGTAGTCTTCTCCGCTATCCTCAAGCTCACGTC
49295320 TGCCGAGTGTGGGCTTGCGTTAGTTTTAAATT
131 TGCCGAGTGTGGGCTTGCGTTAGTTTTAAATT
* * *
49295352 TTTTTCCAAAATAAGATCTTGGTTGTGATATCTAAAGTAATAAAGACTTAATCAAAATTTTACCT
1 TTTTTCCAAAACAAGATCTTGGTTGTGATATCTAAAGTAATAAACACTTAAGCAAAATTTTACCT
* * * *
49295417 TTTCGATTTGTCTAGGATGAGCGCTTCGACCGAGTAGTCTTCTCCTCTATCCTTAAGCTCACGTT
66 TTTCAATTTGTCTAGGATGAGCGCTTCGACCGAGTAGTCTTCTCCGCTATCCTCAAGCTCACGTC
**
49295482 TGTTGAGTGTGGGCTTGC
131 TGCCGAGTGTGGGCTTGC
49295500 TTTGAATCAA
Statistics
Matches: 131, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
162 131 1.00
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (162 bp):
TTTTTCCAAAACAAGATCTTGGTTGTGATATCTAAAGTAATAAACACTTAAGCAAAATTTTACCT
TTTCAATTTGTCTAGGATGAGCGCTTCGACCGAGTAGTCTTCTCCGCTATCCTCAAGCTCACGTC
TGCCGAGTGTGGGCTTGCGTTAGTTTTAAATT
Found at i:49295623 original size:25 final size:26
Alignment explanation
Indices: 49295580--49295632 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
49295570 AAGTTGTAAA
49295580 CTAGAAAAATATCTCTAGA-AATTTT
1 CTAGAAAAATATCTCTAGATAATTTT
* * *
49295605 CTAGAATAATCTCTTTAGATAATTTT
1 CTAGAAAAATATCTCTAGATAATTTT
49295631 CT
1 CT
49295633 CTTTACAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.42
Consensus pattern (26 bp):
CTAGAAAAATATCTCTAGATAATTTT
Found at i:49295764 original size:16 final size:16
Alignment explanation
Indices: 49295743--49295800 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
49295733 TTAATCACTT
49295743 TAATATTAAATTAATA
1 TAATATTAAATTAATA
* * *
49295759 TAATATT-TATCAAGA
1 TAATATTAAATTAATA
*
49295774 TAAATATTAAATTAGATT
1 T-AATATTAAATTA-ATA
49295792 TAATATTAA
1 TAATATTAA
49295801 GATAATCACT
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
15 6 0.19
16 13 0.41
17 11 0.34
18 2 0.06
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:49312886 original size:19 final size:20
Alignment explanation
Indices: 49312862--49312903 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
49312852 AAATAGTTAT
49312862 ATATATTAATAC-TTATAAA
1 ATATATTAATACATTATAAA
* *
49312881 ATATATTATTTCATTATAAA
1 ATATATTAATACATTATAAA
49312901 ATA
1 ATA
49312904 CTATATCACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATATTAATACATTATAAA
Found at i:49313003 original size:35 final size:35
Alignment explanation
Indices: 49312957--49313028 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
49312947 ATTATTATAT
*
49312957 TAGTTAAAATATGCTTTGAGTCCTTATACTTTTCA
1 TAGTTAAAATATGCTTTGAATCCTTATACTTTTCA
* *
49312992 TAGTTGAAATATGTTTTGAATCCTTATACTTTTCA
1 TAGTTAAAATATGCTTTGAATCCTTATACTTTTCA
49313027 TA
1 TA
49313029 CATTTGAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.47
Consensus pattern (35 bp):
TAGTTAAAATATGCTTTGAATCCTTATACTTTTCA
Found at i:49313216 original size:20 final size:20
Alignment explanation
Indices: 49313191--49313283 Score: 82
Period size: 21 Copynumber: 4.7 Consensus size: 20
49313181 CTTCAAATAT
*
49313191 TTTTAACTCAAGTGAAACAA
1 TTTTAAATCAAGTGAAACAA
* *
49313211 TTTTAAATCGAGT-AAAAAA
1 TTTTAAATCAAGTGAAACAA
** *
49313230 TTTTAAATTGAGTGAAACGAT
1 TTTTAAATCAAGTGAAAC-AA
* *
49313251 TTTTAAATCAAGTAAAAACAT
1 TTTTAAATCAAGT-GAAACAA
49313272 TTTTAAA-CAAGT
1 TTTTAAATCAAGT
49313284 AAAAAATTGC
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
19 17 0.28
20 19 0.31
21 21 0.34
22 4 0.07
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (20 bp):
TTTTAAATCAAGTGAAACAA
Found at i:49313233 original size:19 final size:19
Alignment explanation
Indices: 49313191--49313291 Score: 87
Period size: 20 Copynumber: 5.1 Consensus size: 19
49313181 CTTCAAATAT
* *
49313191 TTTTAACTCAAGTGAAACAA
1 TTTTAAATCAAGT-AAAAAA
*
49313211 TTTTAAATCGAGTAAAAAA
1 TTTTAAATCAAGTAAAAAA
** * *
49313230 TTTTAAATTGAGTGAAACGAT
1 TTTTAAATCAAGT-AAA-AAA
49313251 TTTTAAATCAAGTAAAAACA
1 TTTTAAATCAAGTAAAAA-A
49313271 TTTTTAAA-CAAGTAAAAAA
1 -TTTTAAATCAAGTAAAAAA
49313290 TT
1 TT
49313292 GCTCAAAACA
Statistics
Matches: 67, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
18 2 0.03
19 19 0.28
20 27 0.40
21 19 0.28
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.34
Consensus pattern (19 bp):
TTTTAAATCAAGTAAAAAA
Found at i:49313234 original size:39 final size:41
Alignment explanation
Indices: 49313191--49313283 Score: 111
Period size: 40 Copynumber: 2.3 Consensus size: 41
49313181 CTTCAAATAT
* *
49313191 TTTTAACTCAAGTGAAAC-AATTTTAAATCGAGTAAAAA-A
1 TTTTAAATCAAGTGAAACGAATTTTAAATCAAGTAAAAACA
** *
49313230 TTTTAAATTGAGTGAAACGATTTTTAAATCAAGTAAAAACA
1 TTTTAAATCAAGTGAAACGAATTTTAAATCAAGTAAAAACA
49313271 TTTTTAAA-CAAGT
1 -TTTTAAATCAAGT
49313284 AAAAAATTGC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
39 15 0.34
40 18 0.41
41 4 0.09
42 7 0.16
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (41 bp):
TTTTAAATCAAGTGAAACGAATTTTAAATCAAGTAAAAACA
Found at i:49313489 original size:103 final size:103
Alignment explanation
Indices: 49313302--49313489 Score: 245
Period size: 103 Copynumber: 1.8 Consensus size: 103
49313292 GCTCAAAACA
* * * *
49313302 AAAAGTATCGATATTTTTCAATAAGTATCGATACCTATAAATTTTTGTCGATACCTTTTCTGGTA
1 AAAAGTATCGATACTTATCAATAAGTATCGATACCTATAAATTTTTCTCGATACCTTTTCTAGTA
* *
49313367 TCGATATGAAAATGTCATTCTGGAGTTTTTATCAAAGT
66 TCGATACGAAAATGACATTCTGGAGTTTTTATCAAAGT
* * * *
49313405 AAAATTATCGATACTTATCATTAAGTATCGATACC-ATGATATTTTTCTTGATACCTTTT-TCAG
1 AAAAGTATCGATACTTATCAATAAGTATCGATACCTAT-AAATTTTTCTCGATACCTTTTCT-AG
*
49313468 TATCGATACGAAATTGACATTC
64 TATCGATACGAAAATGACATTC
49313490 CGACTTTGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
102 3 0.04
103 69 0.96
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.40
Consensus pattern (103 bp):
AAAAGTATCGATACTTATCAATAAGTATCGATACCTATAAATTTTTCTCGATACCTTTTCTAGTA
TCGATACGAAAATGACATTCTGGAGTTTTTATCAAAGT
Found at i:49328967 original size:95 final size:95
Alignment explanation
Indices: 49328801--49328989 Score: 288
Period size: 95 Copynumber: 2.0 Consensus size: 95
49328791 ATAGTTAATC
* **
49328801 TGCATTAATGTGAAACTATTCACGATTTGATTATATGACAGTTTATCTGTGACTCTGATGGCTTG
1 TGCATTAATGTGAAACTAATCACGATTTGATTATATGACAGTTTATCTACGACTCTGATGGCTTG
*
49328866 TCCATGATTTTGTTTATGTGGCAGTTTATT
66 TCCATGATTTTGATTATGTGGCAGTTTATT
* ** * *
49328896 TGCATTAATGTGACACTAATCACGATTTGATTATATGGGAGTTTATGTACGACTCTGGTGGCTTG
1 TGCATTAATGTGAAACTAATCACGATTTGATTATATGACAGTTTATCTACGACTCTGATGGCTTG
*
49328961 TGCATGATTTTGATTATGTGGCAGTTTAT
66 TCCATGATTTTGATTATGTGGCAGTTTAT
49328990 CTACGTTGCT
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
95 84 1.00
ACGTcount: A:0.23, C:0.12, G:0.22, T:0.42
Consensus pattern (95 bp):
TGCATTAATGTGAAACTAATCACGATTTGATTATATGACAGTTTATCTACGACTCTGATGGCTTG
TCCATGATTTTGATTATGTGGCAGTTTATT
Found at i:49332700 original size:42 final size:46
Alignment explanation
Indices: 49332637--49332848 Score: 161
Period size: 49 Copynumber: 4.6 Consensus size: 46
49332627 CTTCGTTTAC
** * *
49332637 TCGATGCCATAGTTCAACTATGGTCTTACAC-AT-C-T-TCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACAATACATATCACATA
49332679 TCGAT-CTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGC-CATAGCCCAGCTATGGTCTTACAC--AAT-ACATATCACATA
* *
49332728 TCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCA-C
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-AAT-ACATATCACATA
* * * * * *
49332775 T-GATGCCATATCCCAGATAAGGTCTTATACAGTAGCATAT-ATCACA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACAATA-CATATCA-CATA
* * *
49332821 CCGATGCCATATCCCAGATATGGTCTTA
1 TCGATGCCATAGCCCAGCTATGGTCTTA
49332849 TACGAAAATC
Statistics
Matches: 141, Mismatches: 16, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
41 1 0.01
42 26 0.18
44 1 0.01
45 11 0.08
46 25 0.18
47 27 0.19
48 14 0.10
49 35 0.25
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (46 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACAATACATATCACATA
Found at i:49332739 original size:49 final size:48
Alignment explanation
Indices: 49332678--49332848 Score: 181
Period size: 47 Copynumber: 3.6 Consensus size: 48
49332668 ATCTTCATAT
*
49332678 ATCGAT-CTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACA
1 ATCGATGC-CATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* *
49332726 TATCGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCTCA
1 -ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* * * * * *
49332774 CT-GATGCCATATCCCAGATAAGGTCTTATACAGT-AGCATATATCAC-
1 ATCGATGCCATAGCCCAGATATGGTCTTACAC-GTAATCACATATCACA
* *
49332820 ACCGATGCCATATCCCAGATATGGTCTTA
1 ATCGATGCCATAGCCCAGATATGGTCTTA
49332849 TACGAAAATC
Statistics
Matches: 106, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
46 25 0.24
47 36 0.34
48 13 0.12
49 31 0.29
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (48 bp):
ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
Found at i:49332913 original size:31 final size:31
Alignment explanation
Indices: 49332870--49333018 Score: 201
Period size: 31 Copynumber: 4.8 Consensus size: 31
49332860 CTTGTCACTT
* *
49332870 GTAGCCGAAGCTACCACTATTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
49332901 GTAGCCGGAGCTACCA-TCTTTCACTGATCAG
1 GTAGCCGAAGCTACCACT-TTTCACTGATCAG
* * * *
49332932 GTAGTCGGAGCTGCCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
49332963 GTAGCAGAAGCTACCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
49332994 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
49333019 TGTCATTTGT
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
30 1 0.01
31 102 0.98
32 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:49333100 original size:50 final size:51
Alignment explanation
Indices: 49332995--49333122 Score: 186
Period size: 50 Copynumber: 2.5 Consensus size: 51
49332985 ACTAATCAGG
* * * * * *
49332995 TAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGTG
1 TAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAAATAAGTA
*
49333046 TAGCCGAAGCTATTACTTATCACTT-TCACTTATCCTTGATCAAATAAGTA
1 TAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAAATAAGTA
49333096 TAGCCGAAGCTATCACTTATCACTTGT
1 TAGCCGAAGCTATCACTTATCACTTGT
49333123 TGCCATGGTC
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 45 0.66
51 23 0.34
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.35
Consensus pattern (51 bp):
TAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAAATAAGTA
Found at i:49341352 original size:13 final size:13
Alignment explanation
Indices: 49341334--49341375 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
49341324 ATTTTTCCTA
49341334 AAAAATAACAA-CT
1 AAAAATAA-AATCT
*
49341347 AAAAATAAAATTT
1 AAAAATAAAATCT
*
49341360 AAAAATAAAATTT
1 AAAAATAAAATCT
49341373 AAA
1 AAA
49341376 CTATTTATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 2 0.07
13 25 0.93
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAATAAAATCT
Found at i:49341985 original size:115 final size:114
Alignment explanation
Indices: 49341856--49342063 Score: 344
Period size: 115 Copynumber: 1.8 Consensus size: 114
49341846 TCAATATATA
* * *
49341856 CTTTTTTTTTACATATTTGAGACATAGTCAAACCTTTTTACGCGAAATGAGATGACAACCCAAGC
1 CTTTTTTTTAACATATTTGAGACATAGTCAAACCTTTTTACGCAAAATAAGATGACAACCCAAGC
49341921 ACCTCACCTCAGTTACTCAATTTGACATTTATTTTTTTTCTTTTTTTCC
66 ACCTCACCTCAGTTACTCAATTTGACATTTATTTTTTTTCTTTTTTTCC
* * *
49341970 CTTTTTTTTAAACATATTTGAGACATAGTCAAATCTTTTTATGCAAAATAAGATGACAACTCAAG
1 CTTTTTTTT-AACATATTTGAGACATAGTCAAACCTTTTTACGCAAAATAAGATGACAACCCAAG
*
49342035 CACCTCACCTCAGTTACTTAATTTGACAT
65 CACCTCACCTCAGTTACTCAATTTGACAT
49342064 ATCCATAATC
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
114 9 0.10
115 77 0.90
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (114 bp):
CTTTTTTTTAACATATTTGAGACATAGTCAAACCTTTTTACGCAAAATAAGATGACAACCCAAGC
ACCTCACCTCAGTTACTCAATTTGACATTTATTTTTTTTCTTTTTTTCC
Found at i:49345988 original size:96 final size:96
Alignment explanation
Indices: 49345824--49346010 Score: 313
Period size: 96 Copynumber: 1.9 Consensus size: 96
49345814 ATGTATCGTA
* * * **
49345824 CCAATGCCATGTCTCAGACATGGTCTTACACTGGCTCTTATATCGTGGCTGATGCCATGTCTTAG
1 CCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTGGCTGATGACATGTCCCAG
49345889 ACATGGTCTTACACTAGCAT-ACATATCAATG
66 ACATGGTCTTACACTAGC-TCACATATCAATG
49345920 CCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTGGCTGATGACATGTCCCAG
1 CCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTGGCTGATGACATGTCCCAG
49345985 ACATGGTCTTACACTAGCTCACATAT
66 ACATGGTCTTACACTAGCTCACATAT
49346011 TGCCATGGTC
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
95 1 0.01
96 84 0.99
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (96 bp):
CCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTGGCTGATGACATGTCCCAG
ACATGGTCTTACACTAGCTCACATATCAATG
Found at i:49346010 original size:48 final size:48
Alignment explanation
Indices: 49345827--49346010 Score: 228
Period size: 48 Copynumber: 3.8 Consensus size: 48
49345817 TATCGTACCA
* * **
49345827 ATGCCATGTCTCAGACATGGTCTTACACTGGCTCTTATATCGTGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGTGGCTG
** * **
49345875 ATGCCATGTCTTAGACATGGTCTTACACTAGCAT-ACATATCAAT-GCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC-TCACATATC-GTGGCTG
* *
49345923 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGTGGCTG
*
49345971 ATGACATGTCCCAGACATGGTCTTACACTAGCTCACATAT
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAT
49346011 TGCCATGGTC
Statistics
Matches: 115, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
47 2 0.02
48 111 0.97
49 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGTGGCTG
Found at i:49347092 original size:32 final size:32
Alignment explanation
Indices: 49347043--49347170 Score: 193
Period size: 32 Copynumber: 4.0 Consensus size: 32
49347033 CATAAAAAAT
* * *
49347043 ATCATATATTTGTTTTACATATAAAAAAGTAA
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* * *
49347075 ATCATGCATTAGGTTTACATATAAAAAAGTTG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
*
49347107 ATCATACATTAGTTTTGCATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
49347139 ATCATACATTAGTTTTACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
49347171 TATAGTTAGA
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 85 1.00
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.36
Consensus pattern (32 bp):
ATCATACATTAGTTTTACATATAAAAAAGTAG
Found at i:49349843 original size:20 final size:19
Alignment explanation
Indices: 49349818--49349857 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
49349808 TGGTAAATAA
49349818 ATTATTTTCTTGATCACTTT
1 ATTATTTTCTTGATCA-TTT
49349838 ATTATTTTCTTGATCATTT
1 ATTATTTTCTTGATCATTT
49349857 A
1 A
49349858 GCACAGGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.23, C:0.12, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTATTTTCTTGATCATTT
Found at i:49349944 original size:5 final size:5
Alignment explanation
Indices: 49349934--49349982 Score: 89
Period size: 5 Copynumber: 9.8 Consensus size: 5
49349924 AGCTACAATC
*
49349934 ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG AATAG ATTAG ATTA
1 ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG ATTA
49349983 CATGTTTATC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.43, C:0.00, G:0.18, T:0.39
Consensus pattern (5 bp):
ATTAG
Found at i:49351864 original size:35 final size:31
Alignment explanation
Indices: 49351825--49351913 Score: 112
Period size: 29 Copynumber: 2.8 Consensus size: 31
49351815 TTTGGTACCT
49351825 ATACAAGTAGAAATCTCAATGTTAAGCACAGACCC
1 ATACAAGTAGAAATCTCAATGTT-AG--CA-ACCC
49351860 ATACAAGTAGAAATCTC-A-GCTT-GCAACCC
1 ATACAAGTAGAAATCTCAATG-TTAGCAACCC
49351889 ATACAAGTAGAAATCTCAATGTTAG
1 ATACAAGTAGAAATCTCAATGTTAG
49351914 GTATAGACCC
Statistics
Matches: 50, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
29 21 0.42
30 5 0.10
31 2 0.04
32 1 0.02
33 1 0.02
34 3 0.06
35 17 0.34
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (31 bp):
ATACAAGTAGAAATCTCAATGTTAGCAACCC
Found at i:49352122 original size:35 final size:35
Alignment explanation
Indices: 49352083--49352189 Score: 187
Period size: 35 Copynumber: 3.1 Consensus size: 35
49352073 GAGGAGTTGA
*
49352083 CACAGCTTACAGCAGAGGTATTTCTTCCTCGTTAT
1 CACAGCTTGCAGCAGAGGTATTTCTTCCTCGTTAT
*
49352118 CACAGCTTGCAGCAGATGTATTTCTTCCTCGTTAT
1 CACAGCTTGCAGCAGAGGTATTTCTTCCTCGTTAT
*
49352153 CACAGCTTGCAGTAGAGGTATTTCTTCCTCGTTAT
1 CACAGCTTGCAGCAGAGGTATTTCTTCCTCGTTAT
49352188 CA
1 CA
49352190 GCAAAATTTG
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (35 bp):
CACAGCTTGCAGCAGAGGTATTTCTTCCTCGTTAT
Found at i:49359957 original size:13 final size:13
Alignment explanation
Indices: 49359941--49359971 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
49359931 TATTATTTGA
49359941 CCTATGAATTTAG
1 CCTATGAATTTAG
*
49359954 CCTATGTATTTAG
1 CCTATGAATTTAG
49359967 CCTAT
1 CCTAT
49359972 AAATAGGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (13 bp):
CCTATGAATTTAG
Found at i:49364293 original size:21 final size:21
Alignment explanation
Indices: 49364257--49364299 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
49364247 ATCTTAAGGT
* *
49364257 AACTTCTTGGTGAGTTAGGGC
1 AACTTCTTGATAAGTTAGGGC
*
49364278 AACTTCTTGATAAGTTGGGGC
1 AACTTCTTGATAAGTTAGGGC
49364299 A
1 A
49364300 GCCACTTGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.33
Consensus pattern (21 bp):
AACTTCTTGATAAGTTAGGGC
Found at i:49369031 original size:20 final size:19
Alignment explanation
Indices: 49368991--49369033 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
49368981 TGTGACTAAA
*
49368991 TTAACAAAAAATAATATCT
1 TTAACAAAAAAGAATATCT
49369010 TTAACAAAAATAGAGATA-CT
1 TTAACAAAAA-AGA-ATATCT
49369030 TTAA
1 TTAA
49369034 AATTTAGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 10 0.48
20 8 0.38
21 3 0.14
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (19 bp):
TTAACAAAAAAGAATATCT
Found at i:49369423 original size:4 final size:4
Alignment explanation
Indices: 49369416--49369441 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
49369406 CTCTCTCTCC
49369416 TTCT TTCT TTCT TTCT TTCT TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TT
49369442 ATTTACTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTCT
Found at i:49371541 original size:7 final size:7
Alignment explanation
Indices: 49371520--49371567 Score: 71
Period size: 7 Copynumber: 6.9 Consensus size: 7
49371510 ATAGATACAT
49371520 TTTTTAA
1 TTTTTAA
49371527 TATTTTAA
1 T-TTTTAA
49371535 TTTTTAA
1 TTTTTAA
*
49371542 TTTTTAG
1 TTTTTAA
49371549 TTTTTAA
1 TTTTTAA
49371556 TTTTT-A
1 TTTTTAA
49371562 TTTTTA
1 TTTTTA
49371568 TTCTCCTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 6 0.16
7 24 0.65
8 7 0.19
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (7 bp):
TTTTTAA
Found at i:49376816 original size:33 final size:33
Alignment explanation
Indices: 49376770--49376954 Score: 113
Period size: 33 Copynumber: 5.5 Consensus size: 33
49376760 ATTGCCATGG
* *
49376770 CCAACCATGGTCTTACATTCGTAGTGCCATAAC
1 CCAACTATGGTCTTACATTCATAGTGCCATAAC
** * *
49376803 CCAGTTATGGTCTTATCA-TCATAATGCCATAGC
1 CCAACTATGGTCTTA-CATTCATAGTGCCATAAC
* ** * **
49376836 CCAACTATGATCTTACTTATAGATATTGCCATAGT
1 CCAACTATGGTCTTAC--ATTCATAGTGCCATAAC
* * *
49376871 CCAACCATGGTCTTACGTTCAAAGTGCCATAAC
1 CCAACTATGGTCTTACATTCATAGTGCCATAAC
** * * * *
49376904 CCAGTTATGGTCTTTTCATT-AAAATGCCATATC
1 CCAACTATGGTC-TTACATTCATAGTGCCATAAC
* *
49376937 CCAGCTATGGTATTACAT
1 CCAACTATGGTCTTACAT
49376955 ATAAACATTG
Statistics
Matches: 115, Mismatches: 32, Indels: 11
0.73 0.20 0.07
Matches are distributed among these distances:
32 6 0.05
33 76 0.66
34 8 0.07
35 25 0.22
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (33 bp):
CCAACTATGGTCTTACATTCATAGTGCCATAAC
Found at i:49376878 original size:101 final size:100
Alignment explanation
Indices: 49376759--49376986 Score: 312
Period size: 101 Copynumber: 2.3 Consensus size: 100
49376749 CTTATACATG
* **
49376759 CATTGCCATGGCCAACCATGGTCTTACATTCGTAGTGCCATAACCCAGTTATGGTCTTATCATCA
1 CATTGCCATGTCCAACCATGGTCTTACATTCAAAGTGCCATAACCCAGTTATGGTCTTATCATCA
* * * *
49376824 TAATGCCATAGCCCAACTATGATCTTACTTATAGA
66 AAATGCCATAGCCCAACTATGATATTACATATAAA
* * * *
49376859 TATTGCCATAGTCCAACCATGGTCTTACGTTCAAAGTGCCATAACCCAGTTATGGTCTTTTCATT
1 CATTGCCAT-GTCCAACCATGGTCTTACATTCAAAGTGCCATAACCCAGTTATGGTCTTATCATC
* * *
49376924 AAAATGCCATATCCCAGCTATGGTATTACATATAAA
65 AAAATGCCATAGCCCAACTATGATATTACATATAAA
49376960 CATTGCCATGGTCCAACCATGGTCTTA
1 CATTGCCAT-GTCCAACCATGGTCTTA
49376987 TCCGTCAATT
Statistics
Matches: 111, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
100 8 0.07
101 103 0.93
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.32
Consensus pattern (100 bp):
CATTGCCATGTCCAACCATGGTCTTACATTCAAAGTGCCATAACCCAGTTATGGTCTTATCATCA
AAATGCCATAGCCCAACTATGATATTACATATAAA
Found at i:49379552 original size:39 final size:39
Alignment explanation
Indices: 49379468--49379578 Score: 116
Period size: 40 Copynumber: 2.8 Consensus size: 39
49379458 AGATACTAAT
** *
49379468 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTCTAAAA
* **
49379508 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTT-CTAAAA
* *
49379548 -CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 TCCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
49379579 GAGCTATATC
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
39 25 0.42
40 35 0.58
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTTCTAAAA
Found at i:49384973 original size:12 final size:12
Alignment explanation
Indices: 49384942--49384976 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
49384932 CTGGGTTTTT
*
49384942 AGACACGAGCGA
1 AGACACGGGCGA
49384954 AGACACGGGCGA
1 AGACACGGGCGA
49384966 AGACACGGGCG
1 AGACACGGGCG
49384977 TGTCTAGGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.34, C:0.26, G:0.40, T:0.00
Consensus pattern (12 bp):
AGACACGGGCGA
Found at i:49385006 original size:28 final size:29
Alignment explanation
Indices: 49384966--49385021 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
49384956 ACACGGGCGA
*
49384966 AGACACGGGCGTGT-CTAGGCAGTGTGAG
1 AGACACGAGCGTGTGCTAGGCAGTGTGAG
*
49384994 AGACACGAGCGTGTGCTTGGCAGTGTGA
1 AGACACGAGCGTGTGCTAGGCAGTGTGA
49385022 AAACCCCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.21, C:0.18, G:0.41, T:0.20
Consensus pattern (29 bp):
AGACACGAGCGTGTGCTAGGCAGTGTGAG
Found at i:49392261 original size:14 final size:14
Alignment explanation
Indices: 49392230--49392270 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
49392220 TAAGTTCTTC
49392230 AAATT-ATTAA-TT
1 AAATTAATTAATTT
49392242 -AATTAATTAATTT
1 AAATTAATTAATTT
*
49392255 AAATTAAATAATTT
1 AAATTAATTAATTT
49392269 AA
1 AA
49392271 GTTTAAAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 4 0.16
12 5 0.20
13 2 0.08
14 14 0.56
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
AAATTAATTAATTT
Found at i:49392409 original size:9 final size:9
Alignment explanation
Indices: 49392394--49392445 Score: 52
Period size: 9 Copynumber: 5.9 Consensus size: 9
49392384 TTGGGTTAAG
49392394 AAATTAATT
1 AAATTAATT
* *
49392403 TAATTAA-G
1 AAATTAATT
49392411 AAATTAATT
1 AAATTAATT
* *
49392420 TAGTTAATT
1 AAATTAATT
*
49392429 AAATTGATT
1 AAATTAATT
49392438 AAATTAAT
1 AAATTAAT
49392446 ATTTTGGGAA
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (9 bp):
AAATTAATT
Found at i:49392409 original size:17 final size:17
Alignment explanation
Indices: 49392389--49392426 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
49392379 TAGAATTGGG
49392389 TTAAGAAATTAATTTAA
1 TTAAGAAATTAATTTAA
*
49392406 TTAAGAAATTAATTTAG
1 TTAAGAAATTAATTTAA
49392423 TTAA
1 TTAA
49392427 TTAAATTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (17 bp):
TTAAGAAATTAATTTAA
Found at i:49393836 original size:26 final size:27
Alignment explanation
Indices: 49393785--49393838 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
49393775 ATCATTTAGA
49393785 AGACTTAGAAATTTTTTTCAAGGAAAC
1 AGACTTAGAAATTTTTTTCAAGGAAAC
* *
49393812 AGACTTAGAATTTTTTTTCAAGAAAAC
1 AGACTTAGAAATTTTTTTCAAGGAAAC
49393839 CCTGATTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (27 bp):
AGACTTAGAAATTTTTTTCAAGGAAAC
Found at i:49395764 original size:24 final size:24
Alignment explanation
Indices: 49395737--49395809 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
49395727 ATTCAAGCCG
*
49395737 GCACACATAGTGCCATTCGACTTC
1 GCACACATAGTGCCATTCGACTCC
* * *
49395761 GCACACATAGTGTCATTCAAATCC
1 GCACACATAGTGCCATTCGACTCC
*
49395785 GCACACTTAGTGCCAATATCGACTC
1 GCACACATAGTGCC-AT-TCGACTC
49395810 ATGTGATAGG
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
24 32 0.82
25 2 0.05
26 5 0.13
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.25
Consensus pattern (24 bp):
GCACACATAGTGCCATTCGACTCC
Found at i:49398465 original size:33 final size:32
Alignment explanation
Indices: 49398343--49398500 Score: 104
Period size: 33 Copynumber: 4.8 Consensus size: 32
49398333 ATTTTCCTTG
* *
49398343 TGCCATAGTCCAAATATGGTCTTATACATGCAT-
1 TGCCATAGCCCAACTATGGTCTTAT-CAT-CATA
* * * *
49398376 TTCCATGGCCCAACCATGGTCTTA-CATTCGTA
1 TGCCATAGCCCAACTATGGTCTTATCA-TCATA
* **
49398408 GTGCCATAACCCAGTTATGGTCTTATCATCATAA
1 -TGCCATAGCCCAACTATGGTCTTATCATCAT-A
* * *
49398442 TGCCATAGCCCAACTATGATCTTAGTTATAGATA
1 TGCCATAGCCCAACTATGGTCTTA-TCAT-CATA
* *
49398476 TTGCCATAGTCCAACCATGGTCTTA
1 -TGCCATAGCCCAACTATGGTCTTA
49398501 CGTTCAAAGT
Statistics
Matches: 95, Mismatches: 22, Indels: 14
0.73 0.17 0.11
Matches are distributed among these distances:
31 4 0.04
32 1 0.01
33 60 0.63
34 7 0.07
35 23 0.24
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (32 bp):
TGCCATAGCCCAACTATGGTCTTATCATCATA
Found at i:49398499 original size:68 final size:69
Alignment explanation
Indices: 49398424--49398570 Score: 165
Period size: 68 Copynumber: 2.2 Consensus size: 69
49398414 TAACCCAGTT
* * ** * *
49398424 ATGGTCTTATC-ATCATAA-TGCCATAGCCCAACTATGATCTTAGTTATAGATATTGCCATAGTC
1 ATGGTCTTATCGATCA-AAGTGCCATAACCCAACTATGATATTACATATAAACATTGCCATAGTC
49398487 CAACC
65 CAACC
* * * * *
49398492 ATGGTCTTA-CGTTCAAAGTGCCATAACCCAGCTATGGTATTACATATAAACATTTCCATGGTCC
1 ATGGTCTTATCGATCAAAGTGCCATAACCCAACTATGATATTACATATAAACATTGCCATAGTCC
49398556 AACC
66 AACC
49398560 ATGGTCTTATC
1 ATGGTCTTATC
49398571 CGTCAATTCA
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
67 3 0.05
68 61 0.94
69 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (69 bp):
ATGGTCTTATCGATCAAAGTGCCATAACCCAACTATGATATTACATATAAACATTGCCATAGTCC
AACC
Found at i:49398529 original size:33 final size:34
Alignment explanation
Indices: 49398384--49398534 Score: 96
Period size: 33 Copynumber: 4.5 Consensus size: 34
49398374 ATTTCCATGG
* * *
49398384 CCCAACCATGGTCTTACATTC-GTAGTGCCATAA
1 CCCAACTATGGTCTTACGTTCAGAAGTGCCATAA
** * * *
49398417 CCCAGTTATGGTCTTATC-ATCATAA-TGCCATAG
1 CCCAACTATGGTCTTA-CGTTCAGAAGTGCCATAA
* * * *
49398450 CCCAACTATGATCTTA-GTTATAGATATTGCCATAG
1 CCCAACTATGGTCTTACGTT-CAGA-AGTGCCATAA
* *
49398485 TCCAACCATGGTCTTACGTTCA-AAGTGCCATAA
1 CCCAACTATGGTCTTACGTTCAGAAGTGCCATAA
* *
49398518 CCCAGCTATGGTATTAC
1 CCCAACTATGGTCTTAC
49398535 ATATAAACAT
Statistics
Matches: 88, Mismatches: 23, Indels: 14
0.70 0.18 0.11
Matches are distributed among these distances:
32 1 0.01
33 58 0.66
34 4 0.05
35 22 0.25
36 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.30
Consensus pattern (34 bp):
CCCAACTATGGTCTTACGTTCAGAAGTGCCATAA
Found at i:49402126 original size:19 final size:19
Alignment explanation
Indices: 49402090--49402128 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
49402080 TTTTCATCAT
* *
49402090 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
49402109 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
49402128 A
1 A
49402129 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:49402633 original size:27 final size:27
Alignment explanation
Indices: 49402582--49402671 Score: 110
Period size: 27 Copynumber: 3.2 Consensus size: 27
49402572 GTGACAGAGT
49402582 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* * *
49402611 CACCAGAACAAATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
49402638 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
49402666 CACCAG
1 CACCAG
49402672 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 23 0.43
28 23 0.43
29 7 0.13
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:49403080 original size:16 final size:15
Alignment explanation
Indices: 49403059--49403089 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
49403049 CCCAAAATAC
49403059 CGGCTTTTCGGCATTT
1 CGGCTTTTCGG-ATTT
49403075 CGGCTTTTCGGATTT
1 CGGCTTTTCGGATTT
49403090 TACCGATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.06, C:0.23, G:0.26, T:0.45
Consensus pattern (15 bp):
CGGCTTTTCGGATTT
Found at i:49410463 original size:28 final size:26
Alignment explanation
Indices: 49410379--49410467 Score: 99
Period size: 26 Copynumber: 3.2 Consensus size: 26
49410369 GTGACAGAGT
49410379 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCA-TGC
* *
49410408 CACCAGAACAGAT-TATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCA-TGC
49410434 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGAT-ATTTGTGGCAT-GC
49410462 CACCAG
1 CACCAG
49410468 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
26 24 0.45
28 22 0.42
29 7 0.13
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (26 bp):
CACCAGAACAGATATTTGTGGCATGC
Found at i:49413695 original size:47 final size:47
Alignment explanation
Indices: 49413641--49414019 Score: 544
Period size: 47 Copynumber: 8.1 Consensus size: 47
49413631 TTAGGATTTT
** * * * * *
49413641 ATGTGATGAATGTGAATGTGTATATATGAGATGAGGCCGAATAGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49413688 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
49413735 ATGTGATGAGTGTGAACATGCATATATGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
49413782 ACGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49413829 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49413876 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
49413923 ATGTGATGAATGTGAACATGCATATATATGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
49413970 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
49414017 ATG
1 ATG
49414020 CGAAATGTGT
Statistics
Matches: 304, Mismatches: 27, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
47 301 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:49413834 original size:22 final size:22
Alignment explanation
Indices: 49413808--49413929 Score: 72
Period size: 22 Copynumber: 5.3 Consensus size: 22
49413798 CATGCATATG
49413808 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
49413830 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
49413853 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
* * * *
49413877 TGTGATGAATG-TGAATATGCATATA
1 TGTGAT-AAGGCCGAAT-GGC-CA-A
49413902 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
49413924 TGTGAT
1 TGTGAT
49413930 GAATGTGAAC
Statistics
Matches: 74, Mismatches: 12, Indels: 28
0.65 0.11 0.25
Matches are distributed among these distances:
22 26 0.35
23 14 0.19
24 14 0.19
25 20 0.27
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:49413976 original size:22 final size:22
Alignment explanation
Indices: 49413855--49413976 Score: 54
Period size: 22 Copynumber: 5.3 Consensus size: 22
49413845 CATGCATATG
*
49413855 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
* * * *
49413877 TGTGATGAATG-TGAATATGCATATA
1 TGTGAT-AAGGCAGAAT-GGC-CA-A
*
49413902 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
*
49413924 TGTGATGAATGTG-A-ACAT-GCATATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
*
49413949 TATGATAAGGCAGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
49413971 TGTGAT
1 TGTGAT
49413977 GAACGTGGAA
Statistics
Matches: 73, Mismatches: 13, Indels: 28
0.64 0.11 0.25
Matches are distributed among these distances:
22 24 0.33
23 16 0.22
24 15 0.21
25 18 0.25
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.26
Consensus pattern (22 bp):
TGTGATAAGGCAGAATGGCCAA
Found at i:49414049 original size:46 final size:46
Alignment explanation
Indices: 49413993--49414175 Score: 276
Period size: 46 Copynumber: 4.0 Consensus size: 46
49413983 GGAAGTGTAT
* *
49413993 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
49414039 ATATGAGGTAAAGCCGAATGGCTAATGTGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
49414085 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTTTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* * * * **
49414131 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
49414176 TGTATATATA
Statistics
Matches: 125, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 125 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:49425233 original size:12 final size:12
Alignment explanation
Indices: 49425216--49425249 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
49425206 CTGGGTTTTT
**
49425216 AGACACGGGTGA
1 AGACACGGGCAA
49425228 AGACACGGGCAA
1 AGACACGGGCAA
49425240 AGACACGGGC
1 AGACACGGGC
49425250 GTGTCTAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.35, C:0.24, G:0.38, T:0.03
Consensus pattern (12 bp):
AGACACGGGCAA
Done.