Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 114 of 228
Found at i:33320051 original size:5 final size:5
Alignment explanation
Indices: 33320041--33320097 Score: 64
Period size: 5 Copynumber: 11.2 Consensus size: 5
33320031 ATTAAGTCCA
*
33320041 TTTAT TTTAT TTTAT TTTAT TTTATT TTTACT TTTAT TTT-T TAT-T TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTA-T TTTAT TTTAT TTTAT TTTAT
33320091 GTTTAT T
1 -TTTAT T
33320098 GTAATTTTCT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
4 6 0.13
5 25 0.54
6 15 0.33
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:33320081 original size:6 final size:6
Alignment explanation
Indices: 33320041--33320097 Score: 59
Period size: 6 Copynumber: 10.0 Consensus size: 6
33320031 ATTAAGTCCA
*
33320041 TTTA-T TTTA-T TTTA-T TTTA-T TTTATT TTTACT TTTATTT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA-TT TTTATT
*
33320086 TTTATG TTTATT
1 TTTATT TTTATT
33320098 GTAATTTTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
5 19 0.41
6 22 0.48
7 5 0.11
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:33322889 original size:22 final size:22
Alignment explanation
Indices: 33322863--33322918 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 22
33322853 CTGTGGTGTA
33322863 GTGGCAAGGTGGCGACACAGGT
1 GTGGCAAGGTGGCGACACAGGT
*
33322885 GTGGCAAGGAGGTGGCGTCACAGGT
1 GTGGC-A--AGGTGGCGACACAGGT
*
33322910 GTGGTAAGG
1 GTGGCAAGG
33322919 AGGTCAGAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 8 0.28
23 1 0.03
24 1 0.03
25 19 0.66
ACGTcount: A:0.21, C:0.14, G:0.48, T:0.16
Consensus pattern (22 bp):
GTGGCAAGGTGGCGACACAGGT
Found at i:33322897 original size:25 final size:25
Alignment explanation
Indices: 33322869--33322922 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
33322859 TGTAGTGGCA
33322869 AGGTGGCGACACAGGTGTGGCAAGG
1 AGGTGGCGACACAGGTGTGGCAAGG
* *
33322894 AGGTGGCGTCACAGGTGTGGTAAGG
1 AGGTGGCGACACAGGTGTGGCAAGG
33322919 AGGT
1 AGGT
33322923 CAGAGGTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.22, C:0.13, G:0.48, T:0.17
Consensus pattern (25 bp):
AGGTGGCGACACAGGTGTGGCAAGG
Found at i:33323066 original size:24 final size:24
Alignment explanation
Indices: 33323039--33323084 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
33323029 CAAATGAGTG
* *
33323039 ATTTAATGAGTGGATCATGGAGGA
1 ATTTAAGGAGGGGATCATGGAGGA
33323063 ATTTAAGGAGGGGATCATGGAG
1 ATTTAAGGAGGGGATCATGGAG
33323085 AGGTAAGGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.04, G:0.37, T:0.26
Consensus pattern (24 bp):
ATTTAAGGAGGGGATCATGGAGGA
Found at i:33329739 original size:49 final size:49
Alignment explanation
Indices: 33329667--33329765 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
33329657 ACAACTATTG
*
33329667 TTCTAATCATCTTGTGATTTATCCAAATTACTTGCCTCTAGGTTTCTAA
1 TTCTAATCATCTTATGATTTATCCAAATTACTTGCCTCTAGGTTTCTAA
33329716 TTCTAATCATCTTATGATTTATCCAAATTACTTGCCTCTAGGTTTCTAA
1 TTCTAATCATCTTATGATTTATCCAAATTACTTGCCTCTAGGTTTCTAA
33329765 T
1 T
33329766 CCTATTAGAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.25, C:0.20, G:0.09, T:0.45
Consensus pattern (49 bp):
TTCTAATCATCTTATGATTTATCCAAATTACTTGCCTCTAGGTTTCTAA
Found at i:33331010 original size:27 final size:26
Alignment explanation
Indices: 33330954--33331015 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 26
33330944 AAGAGGTTGT
* *
33330954 TAAAATAACCGAAAGACCCCATAGGG
1 TAAAATGACCGAAAAACCCCATAGGG
*
33330980 TAAAATGACCGAAATAACTCCATAGGG
1 TAAAATGACCGAAA-AACCCCATAGGG
33331007 TAAAATGAC
1 TAAAATGAC
33331016 TGTTATACCC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 13 0.41
27 19 0.59
ACGTcount: A:0.47, C:0.19, G:0.18, T:0.16
Consensus pattern (26 bp):
TAAAATGACCGAAAAACCCCATAGGG
Found at i:33332762 original size:98 final size:93
Alignment explanation
Indices: 33332516--33332837 Score: 424
Period size: 99 Copynumber: 3.4 Consensus size: 93
33332506 GTTAACCGTT
* *
33332516 ATCGGTGGATTCCGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGG
1 ATCGGTGGAATCAGCACTTAGCAACCACCAATG-ATC-GGGAAT---CACACAGCAACCCC-T-G
*
33332581 GGGAATCAGCACTTAGCAACCCCCTTCACATTTCAG
59 GGGAATCAGCACTTAGCAACCCCCTTCACATTT-AA
*
33332617 ATGCGGTGGAATCAGCACTTAGCAACCACCAATGATAGGGAATCACACTTAGCAACCCCTCGGGG
1 AT-CGGTGGAATCAGCACTTAGCAACCACCAATGATCGGGAATCACAC--AGCAACCCCT-GGGG
33332682 AATCAGCACTTAGCAACCCCCTTTCACATTTAAA
62 AATCAGCACTTAGCAACCCCC-TTCACATTT-AA
33332716 ATACGGTGGAATCAGCACTTAGCAACCACCAAT-ATCGGGAATCACACAGCAA-CCCT-GGGAAT
1 AT-CGGTGGAATCAGCACTTAGCAACCACCAATGATCGGGAATCACACAGCAACCCCTGGGGAAT
33332778 CAGCACTTAGCAA-CCCCTTCACA-TT-A
65 CAGCACTTAGCAACCCCCTTCACATTTAA
33332804 ATC-GTGGAATCAGCACTTAGCAACCACCAATGAT
1 ATCGGTGGAATCAGCACTTAGCAACCACCAATGAT
33332838 GGATCAGCAC
Statistics
Matches: 208, Mismatches: 8, Indels: 24
0.87 0.03 0.10
Matches are distributed among these distances:
86 28 0.13
87 3 0.01
88 3 0.01
90 2 0.01
91 6 0.03
92 4 0.02
93 19 0.09
95 4 0.02
96 5 0.02
97 5 0.02
98 39 0.19
99 51 0.25
100 6 0.03
101 4 0.02
102 29 0.14
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.19
Consensus pattern (93 bp):
ATCGGTGGAATCAGCACTTAGCAACCACCAATGATCGGGAATCACACAGCAACCCCTGGGGAATC
AGCACTTAGCAACCCCCTTCACATTTAA
Found at i:33332777 original size:20 final size:22
Alignment explanation
Indices: 33332752--33332793 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
33332742 CACCAATATC
33332752 GGGAATCA-CAC-AGCAACCCT
1 GGGAATCAGCACTAGCAACCCT
33332772 GGGAATCAGCACTTAGCAACCC
1 GGGAATCAGCAC-TAGCAACCC
33332794 CTTCACATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
21 3 0.16
23 8 0.42
ACGTcount: A:0.33, C:0.33, G:0.21, T:0.12
Consensus pattern (22 bp):
GGGAATCAGCACTAGCAACCCT
Found at i:33367669 original size:24 final size:23
Alignment explanation
Indices: 33367628--33367672 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
33367618 CCTACCCAAG
* *
33367628 CTCACCACCTTTTGTCTCCATCA
1 CTCACCACCTTATCTCTCCATCA
33367651 CTCACCTACCTTATCTCTCCAT
1 CTCACC-ACCTTATCTCTCCAT
33367673 GTAGGAAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.18, C:0.44, G:0.02, T:0.36
Consensus pattern (23 bp):
CTCACCACCTTATCTCTCCATCA
Found at i:33380411 original size:28 final size:29
Alignment explanation
Indices: 33380379--33380434 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
33380369 TAACATTGGC
*
33380379 ACAAAGTGCCTGCTACTAAAA-CACCAGT
1 ACAAAGTACCTGCTACTAAAATCACCAGT
33380407 ACAAAGTACCTGCTACTAAAATCACCAG
1 ACAAAGTACCTGCTACTAAAATCACCAG
33380435 AATGTAACAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.41, C:0.29, G:0.12, T:0.18
Consensus pattern (29 bp):
ACAAAGTACCTGCTACTAAAATCACCAGT
Found at i:33418950 original size:7 final size:7
Alignment explanation
Indices: 33418938--33419006 Score: 129
Period size: 7 Copynumber: 9.9 Consensus size: 7
33418928 CTTTCATTCT
33418938 TTATTTC
1 TTATTTC
33418945 TTATTTC
1 TTATTTC
33418952 TTATTTC
1 TTATTTC
33418959 TTATTTC
1 TTATTTC
33418966 TTATTTC
1 TTATTTC
33418973 TTATTTC
1 TTATTTC
33418980 TTATTTC
1 TTATTTC
33418987 TTATTTC
1 TTATTTC
33418994 TTATTTC
1 TTATTTC
*
33419001 GTATTT
1 TTATTT
33419007 TCATTAGTTA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 61 1.00
ACGTcount: A:0.14, C:0.13, G:0.01, T:0.71
Consensus pattern (7 bp):
TTATTTC
Found at i:33423598 original size:25 final size:25
Alignment explanation
Indices: 33423570--33423623 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
33423560 TGTAGTGGCA
*
33423570 AGGTGGCGACATAGGTGTGACAAGG
1 AGGTGGCGACACAGGTGTGACAAGG
* **
33423595 AGGTGGCGTCACAGGTGTGGTAAGG
1 AGGTGGCGACACAGGTGTGACAAGG
33423620 AGGT
1 AGGT
33423624 CAGAGGTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.11, G:0.46, T:0.19
Consensus pattern (25 bp):
AGGTGGCGACACAGGTGTGACAAGG
Found at i:33424009 original size:15 final size:15
Alignment explanation
Indices: 33423985--33424014 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33423975 TTTTTCCAAA
*
33423985 ATCGATCAATACCCC
1 ATCGAGCAATACCCC
33424000 ATCGAGCAATACCCC
1 ATCGAGCAATACCCC
33424015 TTTTCTCTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.40, G:0.10, T:0.17
Consensus pattern (15 bp):
ATCGAGCAATACCCC
Found at i:33425202 original size:27 final size:27
Alignment explanation
Indices: 33425115--33425193 Score: 131
Period size: 27 Copynumber: 2.9 Consensus size: 27
33425105 AAAAAAACCA
*
33425115 AAATACCCCCATAGGGTAAAATGACCG
1 AAATACCTCCATAGGGTAAAATGACCG
* *
33425142 AAATACTTCCATAGGGTAAAATAACCG
1 AAATACCTCCATAGGGTAAAATGACCG
33425169 AAATACCTCCATAGGGTAAAATGAC
1 AAATACCTCCATAGGGTAAAATGAC
33425194 TGTTATACCC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (27 bp):
AAATACCTCCATAGGGTAAAATGACCG
Found at i:33430884 original size:49 final size:49
Alignment explanation
Indices: 33430812--33430910 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
33430802 ACAACTCTTG
33430812 TTCTAATCATCTTATGATTTATCCAAATTACTTGCCTCTAGGTTTCTAA
1 TTCTAATCATCTTATGATTTATCCAAATTACTTGCCTCTAGGTTTCTAA
33430861 TTCTAATCATCTTATGATTTATCCAAATTACTTGCCTCTAGGTTTCTAA
1 TTCTAATCATCTTATGATTTATCCAAATTACTTGCCTCTAGGTTTCTAA
33430910 T
1 T
33430911 CCTATTAGAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.26, C:0.20, G:0.08, T:0.45
Consensus pattern (49 bp):
TTCTAATCATCTTATGATTTATCCAAATTACTTGCCTCTAGGTTTCTAA
Found at i:33432129 original size:27 final size:27
Alignment explanation
Indices: 33432099--33432158 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
33432089 AAAAAGTTGT
33432099 TAAAATAACCAAAAT-ACCCCTATAGGG
1 TAAAATAACCAAAATAACCCC-ATAGGG
* * *
33432126 TAAAATGACCGAAATAACTCCATAGGG
1 TAAAATAACCAAAATAACCCCATAGGG
33432153 TAAAAT
1 TAAAAT
33432159 GACTGTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 25 0.86
28 4 0.14
ACGTcount: A:0.48, C:0.18, G:0.13, T:0.20
Consensus pattern (27 bp):
TAAAATAACCAAAATAACCCCATAGGG
Found at i:33451337 original size:27 final size:27
Alignment explanation
Indices: 33451303--33451453 Score: 160
Period size: 27 Copynumber: 5.6 Consensus size: 27
33451293 TGAATTGTAC
* *
33451303 AGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
33451329 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
33451357 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
33451385 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
33451412 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
33451439 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33451454 GACTCAATAT
Statistics
Matches: 108, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 84 0.78
28 23 0.21
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:33451395 original size:55 final size:54
Alignment explanation
Indices: 33451302--33451453 Score: 171
Period size: 55 Copynumber: 2.8 Consensus size: 54
33451292 TTGAATTGTA
** *
33451302 CAGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGACCATG
1 CAGCACTAAGTGTGCGAGTTGAATATGTA-GCACTAAGTGTGCGAATTGACCACG
* * * **
33451356 CGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG
1 CAGCACTAAGTGTGCGAG-TTGAATATGTAGCACTAAGTGTGCGAATTGACCACG
* * * *
33451411 TAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 CAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
33451454 GACTCAATAT
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 38 0.46
55 44 0.53
56 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (54 bp):
CAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAATTGACCACG
Found at i:33451444 original size:82 final size:82
Alignment explanation
Indices: 33451303--33451453 Score: 187
Period size: 82 Copynumber: 1.8 Consensus size: 82
33451293 TGAATTGTAC
* * *
33451303 AGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTG
1 AGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
33451368 TGCGAGTTTGACTATGT
66 TGCGAGTTTGACTATGT
** * * ** * *
33451385 AGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGTGTGCGAATTGACCATACAGCACTAAGT
33451449 GTGCG
65 GTGCG
33451454 GACTCAATAT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
81 1 0.02
82 56 0.98
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
TGCGAGTTTGACTATGT
Found at i:33459016 original size:27 final size:27
Alignment explanation
Indices: 33458985--33459163 Score: 207
Period size: 27 Copynumber: 6.6 Consensus size: 27
33458975 TGAATTGTAC
33458985 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
33459012 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33459038 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
33459066 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
33459094 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33459121 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
33459148 AGCACTGAGTGTGCGA
1 AGCACTAAGTGTGCGA
33459164 ACTCAATATA
Statistics
Matches: 130, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 107 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:33459099 original size:82 final size:81
Alignment explanation
Indices: 33458986--33459141 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33458976 GAATTGTACA
* *
33458986 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
33459050 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
33459067 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
33459132 TGCGAGTTGA
65 TGCGAATTGA
33459142 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:33459153 original size:82 final size:81
Alignment explanation
Indices: 33458982--33459163 Score: 231
Period size: 82 Copynumber: 2.2 Consensus size: 81
33458972 GATTGAATTG
* *
33458982 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
33459047 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
33459063 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
33459127 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
33459145 TATAGCACTGAGTGTGCGA
1 TACAGCACTAAGTGTGCGA
33459164 ACTCAATATA
Statistics
Matches: 85, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:33461195 original size:18 final size:18
Alignment explanation
Indices: 33461163--33461197 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33461153 ATTTACAGTA
**
33461163 CCCTAAAATCCAATAAAT
1 CCCTAAAATAAAATAAAT
33461181 CCCTAAAATAAAATAAA
1 CCCTAAAATAAAATAAA
33461198 ATAATACAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (18 bp):
CCCTAAAATAAAATAAAT
Found at i:33474476 original size:50 final size:50
Alignment explanation
Indices: 33474406--33474598 Score: 199
Period size: 50 Copynumber: 3.7 Consensus size: 50
33474396 GATAATAACA
* *
33474406 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
* * * ** * *
33474456 TGCCCATGTCATGTCCCAGACATTGTCTTACGGGGGACCTT-TCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CTTCTCATATCGG
* * * *
33474506 TGCCAACGCCATGTCCCACACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCAT-A--TC---GG
33474562 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
33474599 TCTCTTTACC
Statistics
Matches: 113, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
49 2 0.02
50 72 0.64
51 2 0.02
53 2 0.02
56 35 0.31
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
Found at i:33475371 original size:30 final size:30
Alignment explanation
Indices: 33475335--33475415 Score: 117
Period size: 30 Copynumber: 2.7 Consensus size: 30
33475325 TAAAAACAAG
* * *
33475335 GCTTGAAATCACTTACTATGGAGCTTGTAA
1 GCTTGAAAACACTAACTATGGAGCTTGGAA
*
33475365 GCTTGAAAACCCTAACTATGGAGCTTGGAA
1 GCTTGAAAACACTAACTATGGAGCTTGGAA
*
33475395 GCTTGAAAACCCTAACTATGG
1 GCTTGAAAACACTAACTATGG
33475416 CTTCCCCTTG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (30 bp):
GCTTGAAAACACTAACTATGGAGCTTGGAA
Found at i:33480695 original size:3 final size:3
Alignment explanation
Indices: 33480689--33480723 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
33480679 AGTGATAATA
*
33480689 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATA ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
33480724 AGAGCTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:33481868 original size:9 final size:9
Alignment explanation
Indices: 33481854--33481924 Score: 61
Period size: 9 Copynumber: 7.3 Consensus size: 9
33481844 AATGAATTTG
33481854 AAATTATTA
1 AAATTATTA
33481863 AAATTATTTTA
1 AAATTA--TTA
*
33481874 AAATAATTTA
1 AAATTA-TTA
33481884 AAATTATTA
1 AAATTATTA
* *
33481893 AAATGATTTTT
1 AAAT--TATTA
*
33481904 AAATCATTA
1 AAATTATTA
33481913 AAATTATTA
1 AAATTATTA
33481922 AAA
1 AAA
33481925 ATATAAAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
9 26 0.52
10 9 0.18
11 15 0.30
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (9 bp):
AAATTATTA
Found at i:33481877 original size:20 final size:20
Alignment explanation
Indices: 33481860--33481920 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
33481850 TTTGAAATTA
*
33481860 TTAAAATTATTTTAAAA-TAAT
1 TTAAAATTA--TTAAAATTATT
*
33481881 TTAAAATTATTAAAATGATT
1 TTAAAATTATTAAAATTATT
* *
33481901 TTTAAATCATTAAAATTATT
1 TTAAAATTATTAAAATTATT
33481921 AAAAATATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 6 0.18
20 19 0.56
21 9 0.26
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (20 bp):
TTAAAATTATTAAAATTATT
Found at i:33481926 original size:30 final size:30
Alignment explanation
Indices: 33481843--33481924 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 30
33481833 CCATGTCAGC
* *
33481843 AAATGAATTTGAAATTATTAAAATTATTTTA
1 AAAT-AATTTAAAATTATTAAAATGATTTTA
*
33481874 AAATAATTTAAAATTATTAAAATGATTTTT
1 AAATAATTTAAAATTATTAAAATGATTTTA
*
33481904 AAATCA-TTAAAATTATTAAAA
1 AAATAATTTAAAATTATTAAAA
33481925 ATATAAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
29 15 0.32
30 28 0.60
31 4 0.09
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.43
Consensus pattern (30 bp):
AAATAATTTAAAATTATTAAAATGATTTTA
Found at i:33485858 original size:18 final size:18
Alignment explanation
Indices: 33485814--33485878 Score: 91
Period size: 18 Copynumber: 3.8 Consensus size: 18
33485804 GTTTTTTCCG
33485814 AATATATAT-TTTTAAT-
1 AATATATATATTTTAATA
33485830 AA-ATATATATTTTAATA
1 AATATATATATTTTAATA
*
33485847 AATATATGTATTTTAATA
1 AATATATATATTTTAATA
*
33485865 ATTATATATATTTT
1 AATATATATATTTT
33485879 GATAGGAGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
15 6 0.14
16 9 0.21
17 2 0.05
18 26 0.60
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
AATATATATATTTTAATA
Found at i:33486135 original size:11 final size:11
Alignment explanation
Indices: 33486106--33486143 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
33486096 TTTCTTTAAG
33486106 TTTTATA-AAT
1 TTTTATATAAT
*
33486116 TTGTA-ATAAT
1 TTTTATATAAT
33486126 TTTTATATAAT
1 TTTTATATAAT
33486137 TTTTATA
1 TTTTATA
33486144 ACTTCTTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 1 0.04
10 11 0.46
11 12 0.50
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (11 bp):
TTTTATATAAT
Found at i:33486174 original size:17 final size:18
Alignment explanation
Indices: 33486152--33486193 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
33486142 TAACTTCTTA
33486152 CTATTTTTTTCTATT-TT
1 CTATTTTTTTCTATTATT
33486169 CTA-TTTTTTCTATTATT
1 CTATTTTTTTCTATTATT
*
33486186 TTATTTTT
1 CTATTTTT
33486194 AGATTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 11 0.50
17 7 0.32
18 4 0.18
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (18 bp):
CTATTTTTTTCTATTATT
Found at i:33491339 original size:38 final size:39
Alignment explanation
Indices: 33491293--33491390 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
33491283 GAAATCCTTG
* *
33491293 TTATAATTATTTTAATTATAA-TTTACGAT-AGAATATTA
1 TTATAATTATTGTAATTATAACTTTACGATCA-AACATTA
* * *
33491331 TTATAATTATTGTAATTGTAACTTTTCGGTCAAACATTA
1 TTATAATTATTGTAATTATAACTTTACGATCAAACATTA
* *
33491370 TTATAATTATGGGAATTATAA
1 TTATAATTATTGTAATTATAA
33491391 TTATTGTATT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
38 19 0.38
39 30 0.60
40 1 0.02
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (39 bp):
TTATAATTATTGTAATTATAACTTTACGATCAAACATTA
Found at i:33497304 original size:30 final size:30
Alignment explanation
Indices: 33497268--33497329 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
33497258 TGAGTGAATA
33497268 TAGTTACTAATTACATAAACAAAATTTAAC
1 TAGTTACTAATTACATAAACAAAATTTAAC
*
33497298 TAGTTACTAATTACATAAACAAAGTTTAAC
1 TAGTTACTAATTACATAAACAAAATTTAAC
33497328 TA
1 TA
33497330 AGTATGTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (30 bp):
TAGTTACTAATTACATAAACAAAATTTAAC
Found at i:33503332 original size:14 final size:14
Alignment explanation
Indices: 33503313--33503341 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
33503303 AAAACCTTGA
33503313 TTCCTCCTCAAATG
1 TTCCTCCTCAAATG
33503327 TTCCTCCTCAAATG
1 TTCCTCCTCAAATG
33503341 T
1 T
33503342 CAAATTCGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.34, G:0.07, T:0.38
Consensus pattern (14 bp):
TTCCTCCTCAAATG
Found at i:33508108 original size:50 final size:50
Alignment explanation
Indices: 33508054--33508176 Score: 147
Period size: 50 Copynumber: 2.5 Consensus size: 50
33508044 CTCCATTTAC
* * * * *
33508054 GGACAAGCCACCAATGATTTGTAGATAAATTGCCTCTGATAACACTTTGT
1 GGACAAGCCACCAATGATATGCAGATAAACTACCACTGATAACACTTTGT
* * ** *
33508104 GGACAAGCCACCACTAATATGCAGATGTACTACCACTTATAACACTTTGT
1 GGACAAGCCACCAATGATATGCAGATAAACTACCACTGATAACACTTTGT
*
33508154 GGACTAGCCACCAATGATATGCA
1 GGACAAGCCACCAATGATATGCA
33508177 AATATACTGC
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (50 bp):
GGACAAGCCACCAATGATATGCAGATAAACTACCACTGATAACACTTTGT
Found at i:33514120 original size:16 final size:16
Alignment explanation
Indices: 33514110--33514143 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33514100 CTTCACAGTT
33514110 TAGAGTTTTCAAAGTC
1 TAGAGTTTTCAAAGTC
* *
33514126 TATAGTTTTCAAAATC
1 TAGAGTTTTCAAAGTC
33514142 TA
1 TA
33514144 CAGCCTATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (16 bp):
TAGAGTTTTCAAAGTC
Found at i:33520108 original size:73 final size:73
Alignment explanation
Indices: 33519989--33520135 Score: 258
Period size: 73 Copynumber: 2.0 Consensus size: 73
33519979 TAGCCTTCTC
*
33519989 AATCTAGCCTCTACCCCGAGTTTGGAAAGTTACAAAACCTCAAATAACACTATTGATAAACAAGA
1 AATCTAGCCTCTACCCCGAGTTTGGAAAGTTACAAAACCTCAAATAACACCATTGATAAACAAGA
33520054 AGAACATT
66 AGAACATT
** *
33520062 AATCTAGCCTCTACGTCGAGTTTGGCAAGTTACAAAACCTCAAATAACACCATTGATAAACAAGA
1 AATCTAGCCTCTACCCCGAGTTTGGAAAGTTACAAAACCTCAAATAACACCATTGATAAACAAGA
33520127 AGAACATT
66 AGAACATT
33520135 A
1 A
33520136 TGAAAATGTT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.42, C:0.22, G:0.13, T:0.23
Consensus pattern (73 bp):
AATCTAGCCTCTACCCCGAGTTTGGAAAGTTACAAAACCTCAAATAACACCATTGATAAACAAGA
AGAACATT
Found at i:33520780 original size:146 final size:144
Alignment explanation
Indices: 33520518--33520803 Score: 421
Period size: 146 Copynumber: 2.0 Consensus size: 144
33520508 AATTGCTACC
* * * *
33520518 CAAATTTTATGGTTTCTTTAACCGATAAAAAATTTTACACTCTTTGACCCTTCAAATCCATACCT
1 CAAATTTTATGGCTTCTTTAACCAATAAAAAATTTTACAATCTTTGACCCTTCAAATCCATACAT
* * * * *
33520583 ATAATTACAAAATGCTTCATGGTTTTGAAGTAGTAACTCTAGTTTATCGACTCCACTTCTAAGCT
66 AGAATTACAAAATGCTTCATAGATCTGAAGTACTAACTCTAGTTTATCGACTCCACTTCTAAGCT
33520648 ATGTATTCTGCAAT
131 ATGTATTCTGCAAT
**
33520662 CAAATTTTATGGCTTCTTTAA-CAATAAAAAAATATTTTACAATCTTTGACCCTTCAAATTTATA
1 CAAATTTTATGGCTTCTTTAACCAAT--AAAAA-ATTTTACAATCTTTGACCCTTCAAATCCATA
*
33520726 CATAGAATTACAAAATGCTTCCTAGATCTGAAGTACTAACTCTAGTTTATCGACTCCACTTCTAA
63 CATAGAATTACAAAATGCTTCATAGATCTGAAGTACTAACTCTAGTTTATCGACTCCACTTCTAA
*
33520791 GTTATGTATTCTG
128 GCTATGTATTCTG
33520804 TAGTCAATAC
Statistics
Matches: 126, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
143 3 0.02
144 20 0.16
145 5 0.04
146 98 0.78
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (144 bp):
CAAATTTTATGGCTTCTTTAACCAATAAAAAATTTTACAATCTTTGACCCTTCAAATCCATACAT
AGAATTACAAAATGCTTCATAGATCTGAAGTACTAACTCTAGTTTATCGACTCCACTTCTAAGCT
ATGTATTCTGCAAT
Found at i:33523883 original size:39 final size:39
Alignment explanation
Indices: 33523722--33523985 Score: 266
Period size: 40 Copynumber: 6.6 Consensus size: 39
33523712 GCTCCTCGTT
* *
33523722 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATT-TAGT-ATCTCGCA
* *
33523762 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATTTAGTATCTCGCA
* * * *
33523802 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCCCA
1 CAAATGCCTTC-GGGCTTAGCCCGGATTTAGTATCTCGCA
*
33523842 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTATCTCGCA
* *
33523881 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCACA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTATCTCGCA
** * * * *
33523920 CAAATGCCTTCGAATCTTAGTCCGGATATGGTCA-CTTAGCA
1 CAAATGCCTTCG-GGCTTAGCCCGGATTTAGT-ATC-TCGCA
33523961 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
33523986 CATCATTCAA
Statistics
Matches: 194, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
39 74 0.38
40 108 0.56
41 12 0.06
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTTAGTATCTCGCA
Found at i:33531906 original size:39 final size:40
Alignment explanation
Indices: 33531777--33532012 Score: 311
Period size: 40 Copynumber: 6.0 Consensus size: 40
33531767 AGCCCGGTTA
* * *
33531777 TAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT
* *
33531817 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT
33531857 TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT
*
33531896 TAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT
* *
33531935 TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG-AT
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGAAT
* * *
33531974 ATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 -TAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
33532013 CATCATTCAA
Statistics
Matches: 180, Mismatches: 10, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
38 2 0.01
39 74 0.41
40 93 0.52
41 11 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT
Found at i:33536524 original size:24 final size:24
Alignment explanation
Indices: 33536495--33536540 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
33536485 TCAAATAGAT
33536495 ATAACTC-GACTAACTTTTCAAATG
1 ATAACTCAG-CTAACTTTTCAAATG
33536519 ATAACTCAGCTAACTTTTCAAA
1 ATAACTCAGCTAACTTTTCAAA
33536541 CGACTAATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.33
Consensus pattern (24 bp):
ATAACTCAGCTAACTTTTCAAATG
Found at i:33539776 original size:17 final size:17
Alignment explanation
Indices: 33539756--33539789 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
33539746 TTTCTCTGTA
33539756 ATTTGCCATTACATTTT
1 ATTTGCCATTACATTTT
33539773 ATTTGCCATTACATTTT
1 ATTTGCCATTACATTTT
33539790 TCTATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.53
Consensus pattern (17 bp):
ATTTGCCATTACATTTT
Found at i:33544140 original size:27 final size:27
Alignment explanation
Indices: 33544109--33544286 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33544099 TAAATTGTAC
33544109 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
33544136 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33544162 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
33544190 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
33544218 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33544245 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
33544272 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33544287 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:33544223 original size:82 final size:81
Alignment explanation
Indices: 33544110--33544265 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33544100 AAATTGTACA
* *
33544110 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
33544174 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
33544191 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
33544256 TGCGAGTTGA
65 TGCGAATTGA
33544266 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:33544277 original size:82 final size:81
Alignment explanation
Indices: 33544106--33544286 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
33544096 GATTAAATTG
* *
33544106 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
33544171 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
33544187 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
33544251 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
33544269 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
33544287 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:33552178 original size:27 final size:27
Alignment explanation
Indices: 33552147--33552324 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33552137 TAAATTGTAC
33552147 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
33552174 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33552200 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
33552228 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
33552256 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33552283 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
33552310 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33552325 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:33552261 original size:82 final size:81
Alignment explanation
Indices: 33552148--33552303 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33552138 AAATTGTACA
* *
33552148 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
33552212 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
33552229 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
33552294 TGCGAGTTGA
65 TGCGAATTGA
33552304 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:33552315 original size:82 final size:81
Alignment explanation
Indices: 33552144--33552324 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
33552134 GATTAAATTG
* *
33552144 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
33552209 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
33552225 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
33552289 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
33552307 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
33552325 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:33556891 original size:13 final size:13
Alignment explanation
Indices: 33556873--33556910 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
33556863 TCTCTTCACT
33556873 TTAATTAATTTAG
1 TTAATTAATTTAG
*
33556886 TTAATTAGTTTAG
1 TTAATTAATTTAG
*
33556899 ATAATTAATTTA
1 TTAATTAATTTA
33556911 ATAAACAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (13 bp):
TTAATTAATTTAG
Found at i:33559088 original size:17 final size:17
Alignment explanation
Indices: 33559047--33559091 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
33559037 TCCTCTATTC
* * *
33559047 ATTTTTTTTTTTTTTTT
1 ATTTTTATTTTTCTTTG
*
33559064 ATTCTTATTTTTCTTTG
1 ATTTTTATTTTTCTTTG
33559081 ATTTTTATTTT
1 ATTTTTATTTT
33559092 CATTTCAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.11, C:0.04, G:0.02, T:0.82
Consensus pattern (17 bp):
ATTTTTATTTTTCTTTG
Found at i:33559096 original size:23 final size:24
Alignment explanation
Indices: 33559044--33559096 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
33559034 GAATCCTCTA
* **
33559044 TTCATTTTTTTTTTTTTTTTATTC
1 TTCATTTTTCTTTGATTTTTATTC
33559068 TT-ATTTTTCTTTGATTTTTATT-
1 TTCATTTTTCTTTGATTTTTATTC
33559090 TTCATTT
1 TTCATTT
33559097 CAATTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 2 0.08
23 21 0.84
24 2 0.08
ACGTcount: A:0.11, C:0.08, G:0.02, T:0.79
Consensus pattern (24 bp):
TTCATTTTTCTTTGATTTTTATTC
Found at i:33576536 original size:27 final size:27
Alignment explanation
Indices: 33576505--33576682 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33576495 TAAATTGTAC
33576505 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
33576532 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33576558 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
33576586 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
33576614 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33576641 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
33576668 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33576683 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:33576619 original size:82 final size:81
Alignment explanation
Indices: 33576506--33576661 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33576496 AAATTGTACA
* *
33576506 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
33576570 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
33576587 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
33576652 TGCGAGTTGA
65 TGCGAATTGA
33576662 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:33576673 original size:82 final size:81
Alignment explanation
Indices: 33576502--33576682 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
33576492 GATTAAATTG
* *
33576502 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
33576567 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
33576583 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
33576647 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
33576665 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
33576683 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:33587272 original size:39 final size:39
Alignment explanation
Indices: 33587196--33587491 Score: 400
Period size: 39 Copynumber: 7.6 Consensus size: 39
33587186 CATATTCACT
* * * * *
33587196 TTTAATCATATATCATATTACACAT-TAATCACCTAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
33587234 TTCAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* *
33587273 TTTAAACATATATCACAATACTCGTATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* *
33587312 TTCAAGCATATATCACAATA-TACATATAATCGCATAACA
1 TTTAAGCATATATCACAATACT-CATATAATCACATAACA
*
33587351 TTTAAGCATATATCACCATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* * *
33587390 TTTATGCATATATCACAGTACTCGTATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* *
33587429 TTCAAGCATATATCATAATA-TACATATAATCACATAACA
1 TTTAAGCATATATCACAATACT-CATATAATCACATAACA
*
33587468 TTTAAGCATACATCACAATACTCA
1 TTTAAGCATATATCACAATACTCA
33587492 AAACATCTTA
Statistics
Matches: 225, Mismatches: 28, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
38 22 0.10
39 201 0.89
40 2 0.01
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.31
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:33587359 original size:117 final size:117
Alignment explanation
Indices: 33587202--33587491 Score: 474
Period size: 117 Copynumber: 2.5 Consensus size: 117
33587192 CACTTTTAAT
* * * *
33587202 CATATATCATATTACACAT-TAATCACCTAACATTCAAGCATATATCACAATACTCATATAATCA
1 CATATATCATAATATACATATAATCACATAACATTTAAGCATATATCACAATACTCATATAATCA
33587266 CATAACATTTAAACATATATCACAATACTCGTATAATCACATAACATTCAAG
66 CATAACATTTAAACATATATCACAATACTCGTATAATCACATAACATTCAAG
* * *
33587318 CATATATCACAATATACATATAATCGCATAACATTTAAGCATATATCACCATACTCATATAATCA
1 CATATATCATAATATACATATAATCACATAACATTTAAGCATATATCACAATACTCATATAATCA
** *
33587383 CATAACATTTATGCATATATCACAGTACTCGTATAATCACATAACATTCAAG
66 CATAACATTTAAACATATATCACAATACTCGTATAATCACATAACATTCAAG
*
33587435 CATATATCATAATATACATATAATCACATAACATTTAAGCATACATCACAATACTCA
1 CATATATCATAATATACATATAATCACATAACATTTAAGCATATATCACAATACTCA
33587492 AAACATCTTA
Statistics
Matches: 159, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
116 16 0.10
117 143 0.90
ACGTcount: A:0.44, C:0.22, G:0.03, T:0.30
Consensus pattern (117 bp):
CATATATCATAATATACATATAATCACATAACATTTAAGCATATATCACAATACTCATATAATCA
CATAACATTTAAACATATATCACAATACTCGTATAATCACATAACATTCAAG
Found at i:33592751 original size:18 final size:18
Alignment explanation
Indices: 33592728--33592767 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
33592718 ATTACTAGGT
33592728 CAAAATTCAATATAACAC
1 CAAAATTCAATATAACAC
33592746 CAAAATTCAATATAACAC
1 CAAAATTCAATATAACAC
33592764 CAAA
1 CAAA
33592768 GTGATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (18 bp):
CAAAATTCAATATAACAC
Found at i:33594513 original size:57 final size:57
Alignment explanation
Indices: 33594408--33594533 Score: 166
Period size: 57 Copynumber: 2.2 Consensus size: 57
33594398 GAAAAAATGA
* *
33594408 TGCAAGAAAAGATGAGTGAACAGGAAATATTCCCTAATGAATATAGTAAATATTCCC
1 TGCAAGAAAAGACGAGTGAACAGGAAATATTCCCTAATGAATACAGTAAATATTCCC
* * *
33594465 TGCAAGAAAATACGAGTGAACAGGAAATATTTCCTGACA-GAA-ACAGTAAATATTCTC
1 TGCAAGAAAAGACGAGTGAACAGGAAATATTCCCT-A-ATGAATACAGTAAATATTCCC
*
33594522 TGTAAGAAAAGA
1 TGCAAGAAAAGA
33594534 TGCATGAATA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
57 55 0.92
58 4 0.07
59 1 0.02
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.23
Consensus pattern (57 bp):
TGCAAGAAAAGACGAGTGAACAGGAAATATTCCCTAATGAATACAGTAAATATTCCC
Found at i:33594775 original size:19 final size:18
Alignment explanation
Indices: 33594751--33594795 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
33594741 AACTCATTTA
33594751 TCCAAAGTTTTAAAGTTTC
1 TCCAAA-TTTTAAAGTTTC
*
33594770 TCCAAATTTTTAAGTTT-
1 TCCAAATTTTAAAGTTTC
*
33594787 TCAAAATTT
1 TCCAAATTT
33594796 AAGTTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.33
18 10 0.42
19 6 0.25
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (18 bp):
TCCAAATTTTAAAGTTTC
Found at i:33594808 original size:14 final size:15
Alignment explanation
Indices: 33594778--33594809 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
33594768 TCTCCAAATT
33594778 TTTAAGTTTTCAAAA
1 TTTAAGTTTTCAAAA
33594793 TTTAAGTTTT-AAAA
1 TTTAAGTTTTCAAAA
33594807 TTT
1 TTT
33594810 TTATTACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (15 bp):
TTTAAGTTTTCAAAA
Found at i:33599040 original size:21 final size:21
Alignment explanation
Indices: 33599016--33599059 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
33599006 TTTTGCAGAA
33599016 AAACCAAAAATAAGAAATCTC
1 AAACCAAAAATAAGAAATCTC
33599037 AAACCAAAAATAAGAAATCTC
1 AAACCAAAAATAAGAAATCTC
33599058 AA
1 AA
33599060 CTTATTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.64, C:0.18, G:0.05, T:0.14
Consensus pattern (21 bp):
AAACCAAAAATAAGAAATCTC
Found at i:33602120 original size:57 final size:58
Alignment explanation
Indices: 33602047--33602169 Score: 173
Period size: 57 Copynumber: 2.2 Consensus size: 58
33602037 AAAAATGATG
33602047 CAAGAAAAAACGAGTGAACAGGAAATA-TTCCATAAC-GAAAACAGTAAATATTCCCT-T
1 CAAGAAAAAACGAGTGAACAGGAAATATTTCC-TAACAG-AAACAGTAAATATTCCCTGT
* * *
33602104 CAAGAAAATACTAGTGAACAGGAAATATTTCCTGACAGAAACAGTAAATATTCCCTGT
1 CAAGAAAAAACGAGTGAACAGGAAATATTTCCTAACAGAAACAGTAAATATTCCCTGT
33602162 -AAGAAAAA
1 CAAGAAAAA
33602170 TGCATGAATA
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
57 53 0.90
58 6 0.10
ACGTcount: A:0.49, C:0.16, G:0.15, T:0.20
Consensus pattern (58 bp):
CAAGAAAAAACGAGTGAACAGGAAATATTTCCTAACAGAAACAGTAAATATTCCCTGT
Found at i:33602407 original size:18 final size:17
Alignment explanation
Indices: 33602381--33602429 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
33602371 ATCAAAACTC
33602381 GTTTATCCAAATTTTAAA
1 GTTT-TCCAAATTTTAAA
*
33602399 GTTTCTCCAAATTTTTAA
1 GTTT-TCCAAATTTTAAA
*
33602417 GTTTTCAAAATTT
1 GTTTTCCAAATTT
33602430 AAGTTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 8 0.29
18 20 0.71
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.49
Consensus pattern (17 bp):
GTTTTCCAAATTTTAAA
Found at i:33602442 original size:14 final size:15
Alignment explanation
Indices: 33602412--33602443 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
33602402 TCTCCAAATT
33602412 TTTAAGTTTTCAAAA
1 TTTAAGTTTTCAAAA
33602427 TTTAAGTTTT-AAAA
1 TTTAAGTTTTCAAAA
33602441 TTT
1 TTT
33602444 TTATTACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (15 bp):
TTTAAGTTTTCAAAA
Found at i:33604503 original size:21 final size:23
Alignment explanation
Indices: 33604460--33604502 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
33604450 CAATGAACAA
33604460 TGAAGATTCTCTATAATAAAAAG
1 TGAAGATTCTCTATAATAAAAAG
33604483 TGAAGATTCTCTATAA-AAAA
1 TGAAGATTCTCTATAATAAAA
33604503 GAGTTTGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (23 bp):
TGAAGATTCTCTATAATAAAAAG
Found at i:33604552 original size:16 final size:16
Alignment explanation
Indices: 33604528--33604561 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
33604518 GAATATATTC
33604528 TTTGTAAAAATG-ATAG
1 TTTG-AAAAATGAATAG
33604544 TTTGAAAAATGAATAG
1 TTTGAAAAATGAATAG
33604560 TT
1 TT
33604562 GTAATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (16 bp):
TTTGAAAAATGAATAG
Found at i:33604553 original size:15 final size:17
Alignment explanation
Indices: 33604528--33604565 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
33604518 GAATATATTC
33604528 TTTGTAAAAATG-ATAG
1 TTTGTAAAAATGAATAG
33604544 TTTG-AAAAATGAATAG
1 TTTGTAAAAATGAATAG
33604560 -TTGTAA
1 TTTGTAA
33604566 TAATTTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.45, C:0.00, G:0.18, T:0.37
Consensus pattern (17 bp):
TTTGTAAAAATGAATAG
Found at i:33611073 original size:36 final size:36
Alignment explanation
Indices: 33611026--33611097 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
33611016 AATGATCGAG
33611026 TGTTTGGCTGCTGAACAGGAGCTGGAAAATCAAGAA
1 TGTTTGGCTGCTGAACAGGAGCTGGAAAATCAAGAA
**
33611062 TGTTTGGCTGCTGGGCAGGAGCTGGAAAATCAAGAA
1 TGTTTGGCTGCTGAACAGGAGCTGGAAAATCAAGAA
33611098 GAAAGAATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.22
Consensus pattern (36 bp):
TGTTTGGCTGCTGAACAGGAGCTGGAAAATCAAGAA
Found at i:33619662 original size:3 final size:3
Alignment explanation
Indices: 33619656--33619696 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
33619646 CTGAATGTTG
33619656 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
33619697 CTTGTTATTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:33623789 original size:35 final size:35
Alignment explanation
Indices: 33623750--33623842 Score: 107
Period size: 35 Copynumber: 2.6 Consensus size: 35
33623740 TTAGACTAGT
* * *
33623750 TCTTATGAGCATTGGTGTGTTTTGGAGGGA-TTAGC
1 TCTTACGAGCATTGGTGTGTTTCGGAGGGACTGA-C
* *
33623785 TCTTACGAGCATTGGTATGTTTCGGATGGACTGAC
1 TCTTACGAGCATTGGTGTGTTTCGGAGGGACTGAC
*
33623820 TCTTACAAGCATTTGGTGTGTTT
1 TCTTACGAGCA-TTGGTGTGTTT
33623843 GGGTGGTTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
35 37 0.76
36 12 0.24
ACGTcount: A:0.18, C:0.13, G:0.29, T:0.40
Consensus pattern (35 bp):
TCTTACGAGCATTGGTGTGTTTCGGAGGGACTGAC
Found at i:33624614 original size:19 final size:18
Alignment explanation
Indices: 33624568--33624615 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
33624558 GATAGAAATT
*
33624568 TTGTCATAAAATAATTAAT
1 TTGT-ATAAAATAATTAAA
*
33624587 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
33624605 TTGTATTAAAA
1 TTGTA-TAAAA
33624616 ATATGAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:33636125 original size:47 final size:47
Alignment explanation
Indices: 33635900--33636287 Score: 607
Period size: 47 Copynumber: 8.1 Consensus size: 47
33635890 TATGAAATGA
33635900 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
*
33635949 TGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
*
33635998 TGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
33636045 TGATAAGGCCT-ATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
33636091 TGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
33636138 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
33636185 TGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
* * * * * * * *
33636234 TGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
33636281 TGATAAG
1 TGATAAG
33636288 TCCCGAAGGG
Statistics
Matches: 320, Mismatches: 16, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
46 45 0.14
47 149 0.47
49 126 0.39
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
Found at i:33636462 original size:37 final size:37
Alignment explanation
Indices: 33636406--33636484 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
33636396 CCGAGCTCTA
* * * *
33636406 AAGACCTGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
33636443 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
33636480 AAGAC
1 AAGAC
33636485 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:33638387 original size:43 final size:43
Alignment explanation
Indices: 33638339--33638441 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
33638329 TTGGTTTTCA
33638339 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
33638382 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
33638425 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
33638442 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:33638460 original size:29 final size:29
Alignment explanation
Indices: 33638425--33638496 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
33638415 TGTGAGATTG
* *
33638425 GCACTAAGTGTGCGGGCTTGAAA-TGCATA
1 GCACTAAGTGTGCGAG-TTGAAAGTACATA
* *
33638454 GCACTAAGTGTGCGAGTTTAAAGTACATG
1 GCACTAAGTGTGCGAGTTGAAAGTACATA
33638483 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
33638497 TGGTTGATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 5 0.13
29 33 0.87
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.25
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTGAAAGTACATA
Found at i:33638907 original size:38 final size:39
Alignment explanation
Indices: 33638807--33638949 Score: 139
Period size: 40 Copynumber: 3.6 Consensus size: 39
33638797 TCGAATGATG
* * * *
33638807 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTGGTGCGAGA-T-ACTAAA
* * *
33638847 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTGGTGCGAGATACTAAA
*
33638887 TCCGGGCTAAG-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTGGTGCGAGATACTAAA
33638925 TCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAG-TCCGAAG-GCATT
33638950 CATGCTAGTG
Statistics
Matches: 88, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
38 35 0.40
40 37 0.42
41 15 0.17
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTGGTGCGAGATACTAAA
Found at i:33638968 original size:40 final size:40
Alignment explanation
Indices: 33638924--33639120 Score: 252
Period size: 40 Copynumber: 4.9 Consensus size: 40
33638914 GAGTTACTAA
*
33638924 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATAT
*
33638964 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATAT
*
33639004 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATAT
* ** * * *
33639044 ATCCGTGCTAA-ACCCTGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTTCC-GAAGAGCATTCATGCTAGTGATAT
* * * * *
33639084 ATCTGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGA
33639121 CGTGTATTCG
Statistics
Matches: 141, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
39 2 0.01
40 136 0.96
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATAT
Found at i:33642494 original size:49 final size:49
Alignment explanation
Indices: 33642422--33642522 Score: 202
Period size: 49 Copynumber: 2.1 Consensus size: 49
33642412 TATGAAATGA
33642422 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
33642471 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
33642520 TGA
1 TGA
33642523 AGTGTATATA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.31
Consensus pattern (49 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
Found at i:33642527 original size:17 final size:17
Alignment explanation
Indices: 33642499--33642539 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
33642489 GATGTGATGA
33642499 ATGTGAAAGTGTATATAT
1 ATGTG-AAGTGTATATAT
33642517 ATGTGAAGTGTATATAT
1 ATGTGAAGTGTATATAT
33642534 ATGTGA
1 ATGTGA
33642540 TAGGGCCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (17 bp):
ATGTGAAGTGTATATAT
Found at i:33642557 original size:66 final size:66
Alignment explanation
Indices: 33642450--33642588 Score: 260
Period size: 66 Copynumber: 2.1 Consensus size: 66
33642440 GATGTGATGA
33642450 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTG-AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
33642515 AT
65 AT
*
33642517 ATGTGAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 ATGTGAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
33642582 T
66 T
33642583 ATGTGA
1 ATGTGA
33642589 TAGGGCCTAA
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
66 66 0.93
67 5 0.07
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (66 bp):
ATGTGAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
T
Found at i:33642577 original size:49 final size:49
Alignment explanation
Indices: 33642517--33642826 Score: 469
Period size: 47 Copynumber: 6.5 Consensus size: 49
33642507 GTGTATATAT
33642517 ATGTG-AAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGA
33642565 ATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGA
*
33642614 ATGTGAAAGTG--TATATATGTGATAAGGCCT-ATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGA
33642660 ATGTGAAAGTG--TATATATGTGATAGGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGA
*
33642707 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGA
* * * * * * *
33642754 ATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGA
33642803 ATGTGAAAGTGTATA-A-ATGTGATA
1 ATGTGAAAGTGTATATATATGTGATA
33642827 AGTCCCGAAG
Statistics
Matches: 245, Mismatches: 13, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
46 45 0.18
47 97 0.40
48 6 0.02
49 97 0.40
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGA
Found at i:33642624 original size:115 final size:115
Alignment explanation
Indices: 33642422--33642631 Score: 402
Period size: 115 Copynumber: 1.8 Consensus size: 115
33642412 TATGAAATGA
33642422 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
33642487 CCGATGTGATGAATGTGAAAGTGTATATATATGTGAAGTGTATATATATG
66 CCGATGTGATGAATGTGAAAGTGTATATATATGTGAAGTGTATATATATG
* *
33642537 TGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
33642602 CCGATGTGATGAATGTGAAAGTGTATATAT
66 CCGATGTGATGAATGTGAAAGTGTATATAT
33642632 GTGATAAGGC
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 93 1.00
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (115 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATATATGTGAAGTGTATATATATG
Found at i:33643003 original size:37 final size:37
Alignment explanation
Indices: 33642947--33643025 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
33642937 CCGAGCTCTA
* * * *
33642947 AAGACCTGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
33642984 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
33643021 AAGAC
1 AAGAC
33643026 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:33652804 original size:14 final size:14
Alignment explanation
Indices: 33652787--33652853 Score: 75
Period size: 14 Copynumber: 4.9 Consensus size: 14
33652777 TTTGAAAAAT
33652787 AATTGAGGATTGAA
1 AATTGAGGATTGAA
*
33652801 AATTTGA-AATTGAA
1 AA-TTGAGGATTGAA
*
33652815 AATTGAAGATTG-A
1 AATTGAGGATTGAA
*
33652828 AACTGAGGATTGAA
1 AATTGAGGATTGAA
*
33652842 GATTGAGGATTG
1 AATTGAGGATTG
33652854 GGAATTTAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
13 15 0.34
14 25 0.57
15 4 0.09
ACGTcount: A:0.42, C:0.01, G:0.27, T:0.30
Consensus pattern (14 bp):
AATTGAGGATTGAA
Found at i:33652829 original size:20 final size:20
Alignment explanation
Indices: 33652804--33652847 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
33652794 GATTGAAAAT
*
33652804 TTGAAATTGAAAATTGAAGA
1 TTGAAACTGAAAATTGAAGA
**
33652824 TTGAAACTGAGGATTGAAGA
1 TTGAAACTGAAAATTGAAGA
33652844 TTGA
1 TTGA
33652848 GGATTGGGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.02, G:0.25, T:0.30
Consensus pattern (20 bp):
TTGAAACTGAAAATTGAAGA
Found at i:33652845 original size:7 final size:7
Alignment explanation
Indices: 33652788--33652853 Score: 55
Period size: 7 Copynumber: 9.6 Consensus size: 7
33652778 TTGAAAAATA
*
33652788 ATTGAGG
1 ATTGAAG
*
33652795 ATTGAAA
1 ATTGAAG
33652802 ATTTGAA-
1 A-TTGAAG
*
33652809 ATTGAAA
1 ATTGAAG
33652816 ATTGAAG
1 ATTGAAG
33652823 ATTGAA-
1 ATTGAAG
* *
33652829 ACTGAGG
1 ATTGAAG
33652836 ATTGAAG
1 ATTGAAG
*
33652843 ATTGAGG
1 ATTGAAG
33652850 ATTG
1 ATTG
33652854 GGAATTTAGA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
6 9 0.19
7 34 0.71
8 5 0.10
ACGTcount: A:0.41, C:0.02, G:0.27, T:0.30
Consensus pattern (7 bp):
ATTGAAG
Found at i:33654074 original size:20 final size:20
Alignment explanation
Indices: 33654046--33654083 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33654036 GTACACAGGC
33654046 GTGTAGACCACCACATGGGT
1 GTGTAGACCACCACATGGGT
* *
33654066 GTGTCGACCTCCACATGG
1 GTGTAGACCACCACATGG
33654084 CCTAGGCACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.29, G:0.29, T:0.21
Consensus pattern (20 bp):
GTGTAGACCACCACATGGGT
Found at i:33664312 original size:31 final size:31
Alignment explanation
Indices: 33664173--33664313 Score: 119
Period size: 31 Copynumber: 4.6 Consensus size: 31
33664163 AGGTATCCAA
*
33664173 CACTGGTACATAGTACCTGATAAAATATAAA
1 CACTGGTACATAGTACCTGATAAAATATAAT
** * * *
33664204 CA-TCGACACATTGTTCTTGATACAAAT-T-AT
1 CACT-GGTACATAGTACCTGATA-AAATATAAT
* * * *
33664234 CACCT-GTACGTAGTACATGATATAATATAGT
1 CA-CTGGTACATAGTACCTGATAAAATATAAT
* *
33664265 CACCGGTACATAGTACCTGATAAAATACAAT
1 CACTGGTACATAGTACCTGATAAAATATAAT
33664296 CACTGGTACATAGTACCT
1 CACTGGTACATAGTACCT
33664314 AATACTTTAA
Statistics
Matches: 82, Mismatches: 21, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
29 3 0.04
30 17 0.21
31 57 0.70
32 5 0.06
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (31 bp):
CACTGGTACATAGTACCTGATAAAATATAAT
Found at i:33666132 original size:498 final size:498
Alignment explanation
Indices: 33665195--33666679 Score: 2943
Period size: 498 Copynumber: 3.0 Consensus size: 498
33665185 AGGGTATGTT
33665195 ATATAGTCGACTATGTCTAGGGATTGCTCACATACATTGTAAAAAATAAAATAATTGAATGAAAT
1 ATATAGTCGACTATGTCTAGGGATTGCTCACATACATTGTAAAAAATAAAATAATTGAATGAAAT
33665260 AGTAAAATAACTCAGATTTATACTGTAGCCATTAAAGACAGTTAAAGTTTCATCAAAGTAATTCC
66 AGTAAAATAACTCAGATTTATACTGTAGCCATTAAAGACAGTTAAAGTTTCATCAAAGTAATTCC
33665325 AATCCTATGAGATTTAACTCATAAGTTGTTAAATAAAATTCAACTCAAACGTCATTTTCATCATT
131 AATCCTATGAGATTTAACTCATAAGTTGTTAAATAAAATTCAACTCAAACGTCATTTTCATCATT
33665390 GTAATTCACGAAGGAACATATTAGAAATAATGGAAGAACGTCGGGAAGATATCGTTCCCTTGTCC
196 GTAATTCACGAAGGAACATATTAGAAATAATGGAAGAACGTCGGGAAGATATCGTTCCCTTGTCC
33665455 AATCCATACTCCAGCTACGTAGTGTCTTGACGTGGCCGAGAGGGGTTGCCTGTGTCTTTCCTCTT
261 AATCCATACTCCAGCTACGTAGTGTCTTGACGTGGCCGAGAGGGGTTGCCTGTGTCTTTCCTCTT
33665520 CCTGTCTCTATTCAGCCGCTACCTTTTAATTTTCCTAAGGATCTCTACTTGCAGTTCCATGTGCT
326 CCTGTCTCTATTCAGCCGCTACCTTTTAATTTTCCTAAGGATCTCTACTTGCAGTTCCATGTGCT
33665585 AGGGTTTTCTCCTTTGCTTTTTTTAAATCACTTTGTTTTTCTTTTTCAGGATAACTCCAGCAGCC
391 AGGGTTTTCTCCTTTGCTTTTTTTAAATCACTTTGTTTTTCTTTTTCAGGATAACTCCAGCAGCC
33665650 CCAATATTTATCTTCTCCTCTTTTCTAGGCAGATTTAAATCTC
456 CCAATATTTATCTTCTCCTCTTTTCTAGGCAGATTTAAATCTC
33665693 ATATAGTCGACTATGTCTAGGGATTGCTCACATACATTGTAAAAAATAAAATAATTGAATGAAAT
1 ATATAGTCGACTATGTCTAGGGATTGCTCACATACATTGTAAAAAATAAAATAATTGAATGAAAT
33665758 AGTAAAATAACTCAGATTTATACTGTAGCCATTAAAGACAGTTAAAGTTTCATCAAAGTAATTCC
66 AGTAAAATAACTCAGATTTATACTGTAGCCATTAAAGACAGTTAAAGTTTCATCAAAGTAATTCC
33665823 AATCCTATGAGATTTAACTCATAAGTTGTTAAATAAAATTCAACTCAAACGTCATTTTCATCATT
131 AATCCTATGAGATTTAACTCATAAGTTGTTAAATAAAATTCAACTCAAACGTCATTTTCATCATT
33665888 GTAATTCACGAAGGAACATATTAGAAATAATGGAAGAACGTCGGGAAGATATCGTTCCCTTGTCC
196 GTAATTCACGAAGGAACATATTAGAAATAATGGAAGAACGTCGGGAAGATATCGTTCCCTTGTCC
33665953 AATCCATACTCCAGCTACGTAGTGTCTTGACGTGGCCGAGAGGGGTTGCCTGTGTCTTTCCTCTT
261 AATCCATACTCCAGCTACGTAGTGTCTTGACGTGGCCGAGAGGGGTTGCCTGTGTCTTTCCTCTT
33666018 CCTGTCTCTATTCAGCCGCTACCTTTTAATTTTCCTAAGGATCTCTACTTGCAGTTCCATGTGCT
326 CCTGTCTCTATTCAGCCGCTACCTTTTAATTTTCCTAAGGATCTCTACTTGCAGTTCCATGTGCT
33666083 AGGGTTTTCTCCTTTGCTTTTTTTAAATCACTTTGTTTTTCTTTTTCAGGATAACTCCAGCAGCC
391 AGGGTTTTCTCCTTTGCTTTTTTTAAATCACTTTGTTTTTCTTTTTCAGGATAACTCCAGCAGCC
33666148 CCAATATTTATCTTCTCCTCTTTTCTAGGCAGATTTAAATCTC
456 CCAATATTTATCTTCTCCTCTTTTCTAGGCAGATTTAAATCTC
*
33666191 ATATAGTCGACTATGTCTAGGGATTGCTCATATACATTGTAAAAAATAAAATAATTGAATGAAAT
1 ATATAGTCGACTATGTCTAGGGATTGCTCACATACATTGTAAAAAATAAAATAATTGAATGAAAT
*
33666256 AGTAAAATAACTCAGATTTATACTGTAGCCATTAAAGGCAGTTAAAGTTTCATCAAAGTAATTCC
66 AGTAAAATAACTCAGATTTATACTGTAGCCATTAAAGACAGTTAAAGTTTCATCAAAGTAATTCC
33666321 AATCCTATGAGATTTAACTCATAAGTTGTTAAATAAAATTCAACTCAAACGTCATTTTCATCATT
131 AATCCTATGAGATTTAACTCATAAGTTGTTAAATAAAATTCAACTCAAACGTCATTTTCATCATT
33666386 GTAATTCACGAAGGAACATATTAGAAATAATGGAAGAACGTCGGGAAGATATCGTTCCCTTGTCC
196 GTAATTCACGAAGGAACATATTAGAAATAATGGAAGAACGTCGGGAAGATATCGTTCCCTTGTCC
*
33666451 AATCCATACTCCAACTACGTAGTGTCTTGACGTGGCCGAGAGGGGTTGCCTGTGTCTTTCCTCTT
261 AATCCATACTCCAGCTACGTAGTGTCTTGACGTGGCCGAGAGGGGTTGCCTGTGTCTTTCCTCTT
33666516 CCTGTCTCTATTCAGCCGCTACCTTTTAATTTTCCTAAGGATCTCTACTTGCAGTTCCATGTGCT
326 CCTGTCTCTATTCAGCCGCTACCTTTTAATTTTCCTAAGGATCTCTACTTGCAGTTCCATGTGCT
33666581 AGGGTTTTCTCCTTTGCTTTTTTTAAATCACTTTGTTTTTCTTTTTCAGGATAACTCCAGCAGCC
391 AGGGTTTTCTCCTTTGCTTTTTTTAAATCACTTTGTTTTTCTTTTTCAGGATAACTCCAGCAGCC
33666646 CCAATATTTATCTTCTCCTCTTTTCTAGGCAGAT
456 CCAATATTTATCTTCTCCTCTTTTCTAGGCAGAT
33666680 GTATCTGGTA
Statistics
Matches: 984, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
498 984 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (498 bp):
ATATAGTCGACTATGTCTAGGGATTGCTCACATACATTGTAAAAAATAAAATAATTGAATGAAAT
AGTAAAATAACTCAGATTTATACTGTAGCCATTAAAGACAGTTAAAGTTTCATCAAAGTAATTCC
AATCCTATGAGATTTAACTCATAAGTTGTTAAATAAAATTCAACTCAAACGTCATTTTCATCATT
GTAATTCACGAAGGAACATATTAGAAATAATGGAAGAACGTCGGGAAGATATCGTTCCCTTGTCC
AATCCATACTCCAGCTACGTAGTGTCTTGACGTGGCCGAGAGGGGTTGCCTGTGTCTTTCCTCTT
CCTGTCTCTATTCAGCCGCTACCTTTTAATTTTCCTAAGGATCTCTACTTGCAGTTCCATGTGCT
AGGGTTTTCTCCTTTGCTTTTTTTAAATCACTTTGTTTTTCTTTTTCAGGATAACTCCAGCAGCC
CCAATATTTATCTTCTCCTCTTTTCTAGGCAGATTTAAATCTC
Found at i:33669563 original size:25 final size:23
Alignment explanation
Indices: 33669520--33669565 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
33669510 CGAAAATAAC
33669520 TAAAAGAAAAAAAGAAATAAATT
1 TAAAAGAAAAAAAGAAATAAATT
*
33669543 TAAAAGTAAAGAAAATAAATAAA
1 TAAAAG-AAA-AAAAGAAATAAA
33669566 ATAAAATCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (23 bp):
TAAAAGAAAAAAAGAAATAAATT
Found at i:33682524 original size:10 final size:10
Alignment explanation
Indices: 33682509--33682543 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
33682499 ATAGATACGG
33682509 ATTTATTTTT
1 ATTTATTTTT
*
33682519 ATTTATCTTT
1 ATTTATTTTT
33682529 ATTTCATTTTT
1 ATTT-ATTTTT
33682540 ATTT
1 ATTT
33682544 TTTAGTTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:33685573 original size:29 final size:29
Alignment explanation
Indices: 33685530--33685760 Score: 175
Period size: 29 Copynumber: 8.0 Consensus size: 29
33685520 GCATGCTAAA
*
33685530 CGATGGTCATAACCATCCATTTTCATATT
1 CGATGGTCATAACCATCCCTTTTCATATT
*
33685559 CGATGGTCATCACCATCCCTTTTCATATT
1 CGATGGTCATAACCATCCCTTTTCATATT
** *
33685588 CGATGGTCGGAACCATCCATTTTCATTAATT
1 CGATGGTCATAACCATCCCTTTTCA-T-ATT
* * *
33685619 -GACGGTCGTCACCATCCCTTTTCATAGTT
1 CGATGGTCATAACCATCCCTTTTCATA-TT
** * * **
33685648 -GATGGTTGTCACCATCTCTTTTCATAGC
1 CGATGGTCATAACCATCCCTTTTCATATT
* * * *
33685676 CGCTAGTCGA-AACTATCCCTTTTCATAGT
1 CGATGGTC-ATAACCATCCCTTTTCATATT
* * *
33685705 CGACGGTCAAAACTATCCCTTTTCATATT
1 CGATGGTCATAACCATCCCTTTTCATATT
* * *
33685734 CAATGGTCGTCACCAT-CCTTTT-ATATT
1 CGATGGTCATAACCATCCCTTTTCATATT
33685761 GTTGATAATC
Statistics
Matches: 163, Mismatches: 33, Indels: 14
0.78 0.16 0.07
Matches are distributed among these distances:
27 5 0.03
28 8 0.05
29 126 0.77
30 21 0.13
31 3 0.02
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (29 bp):
CGATGGTCATAACCATCCCTTTTCATATT
Found at i:33685699 original size:88 final size:86
Alignment explanation
Indices: 33685534--33685755 Score: 239
Period size: 88 Copynumber: 2.5 Consensus size: 86
33685524 GCTAAACGAT
* * * ** * *
33685534 GGTCATAACCATCCATTTTCATATTCGATGGTCATCACCATCCCTTTTCATATTCGATGGTCGGA
1 GGTCAAAACCATCCCTTTTCATATTCGATGGTCGTCACCAT-CCTTTTCATAGCCGATAGTCGAA
*
33685599 ACCATCCATTTTCATTAATTGAC
65 ACCATCCATTTTCA-TAATCGAC
*** * *
33685622 GGTCGTCACCATCCCTTTTCATAGTT-GATGGTTGTCACCATCTCTTTTCATAGCCGCTAGTCGA
1 GGTCAAAACCATCCCTTTTCATA-TTCGATGGTCGTCACCATC-CTTTTCATAGCCGATAGTCGA
* * *
33685686 AACTATCCCTTTTCATAGTCGAC
64 AACCATCCATTTTCATAATCGAC
* *
33685709 GGTCAAAACTATCCCTTTTCATATTCAATGGTCGTCACCATCCTTTT
1 GGTCAAAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCTTTT
33685756 ATATTGTTGA
Statistics
Matches: 111, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
86 7 0.06
87 40 0.36
88 62 0.56
89 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (86 bp):
GGTCAAAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCTTTTCATAGCCGATAGTCGAAA
CCATCCATTTTCATAATCGAC
Found at i:33694711 original size:18 final size:17
Alignment explanation
Indices: 33694684--33694719 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
33694674 TTTATTTTCC
33694684 TTGTTTTTATGATTGTT
1 TTGTTTTTATGATTGTT
*
33694701 TTGTGTTTTATTATTGTT
1 TTGT-TTTTATGATTGTT
33694719 T
1 T
33694720 ATTTTCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.11, C:0.00, G:0.17, T:0.72
Consensus pattern (17 bp):
TTGTTTTTATGATTGTT
Found at i:33698709 original size:14 final size:15
Alignment explanation
Indices: 33698680--33698709 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33698670 GTGAAAAAAA
33698680 TATTTTTCTTCTCCT
1 TATTTTTCTTCTCCT
33698695 TATTTTTCTTC-CCT
1 TATTTTTCTTCTCCT
33698709 T
1 T
33698710 GGTTGAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTTTCTTCTCCT
Found at i:33700576 original size:2 final size:2
Alignment explanation
Indices: 33700564--33700593 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
33700554 TTCATACATA
33700564 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT A
33700594 AATTCGAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:33702816 original size:18 final size:18
Alignment explanation
Indices: 33702769--33702836 Score: 68
Period size: 18 Copynumber: 3.7 Consensus size: 18
33702759 TGTCACATTG
33702769 ATAAATAATTT-AAAATAT
1 ATAAA-AATTTAAAAATAT
33702787 AT-AAAATATTAAAAATAT
1 ATAAAAAT-TTAAAAATAT
33702805 ATAAAAATTTAATAAATAAT
1 ATAAAAATTTAA-AAAT-AT
* *
33702825 TTAAAAAATTAA
1 ATAAAAATTTAA
33702837 TATAGAGTAC
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
16 3 0.07
17 4 0.09
18 15 0.35
19 9 0.21
20 12 0.28
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAAAAATTTAAAAATAT
Found at i:33703233 original size:3 final size:3
Alignment explanation
Indices: 33703220--33703265 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
33703210 TCGAGACCTA
33703220 TCT TC- TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
33703266 CTCAAAAGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:33703326 original size:34 final size:35
Alignment explanation
Indices: 33703282--33703350 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
33703272 AGGTAGTAAG
*
33703282 AAAATTTTCTCACAA-TTTAATACATGCATGGTTA
1 AAAATCTTCTCACAATTTTAATACATGCATGGTTA
*
33703316 AAAATCTTCTCACAATTTTAGTACATGCATGGTTA
1 AAAATCTTCTCACAATTTTAATACATGCATGGTTA
33703351 TCTAATTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 14 0.44
35 18 0.56
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (35 bp):
AAAATCTTCTCACAATTTTAATACATGCATGGTTA
Found at i:33710652 original size:33 final size:33
Alignment explanation
Indices: 33710610--33710677 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
33710600 AAGGTTACTT
*
33710610 GGGGTTGGATCAAATGACGAAGACACTGGTATA
1 GGGGTTGGATCAAATGACGAAGACACTGATATA
* *
33710643 GGGGTTGGATCTAATGATGAAGACACTGATATA
1 GGGGTTGGATCAAATGACGAAGACACTGATATA
33710676 GG
1 GG
33710678 ACATGTATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.32, C:0.10, G:0.34, T:0.24
Consensus pattern (33 bp):
GGGGTTGGATCAAATGACGAAGACACTGATATA
Found at i:33715454 original size:3 final size:3
Alignment explanation
Indices: 33715446--33715487 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
33715436 TATTTTACTT
33715446 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
33715488 GGAAATGGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:33715803 original size:13 final size:13
Alignment explanation
Indices: 33715785--33715809 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33715775 TGAACTTAAA
33715785 GTGTAATTTTATC
1 GTGTAATTTTATC
33715798 GTGTAATTTTAT
1 GTGTAATTTTAT
33715810 AAAAATTTAA
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:0.04, G:0.16, T:0.56
Consensus pattern (13 bp):
GTGTAATTTTATC
Found at i:33716835 original size:17 final size:17
Alignment explanation
Indices: 33716813--33716876 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
33716803 AATCTTAGAG
33716813 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
* *
33716830 TTCTAATTGTGT-CTTAGAG
1 TTCTAATTGTATAC--AG-C
33716849 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
*
33716866 TTTTAATTGTA
1 TTCTAATTGTA
33716877 GCCCTTGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 1 0.03
17 21 0.55
18 4 0.11
19 11 0.29
20 1 0.03
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (17 bp):
TTCTAATTGTATACAGC
Found at i:33716852 original size:36 final size:36
Alignment explanation
Indices: 33716805--33716875 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
33716795 GATTATGTAA
33716805 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGTG
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGTG
*
33716841 TCTTAGAGTTCTAATTGTATACAGCTTTTAATTGT
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGT
33716876 AGCCCTTGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.46
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGTG
Found at i:33716854 original size:19 final size:19
Alignment explanation
Indices: 33716804--33716860 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
33716794 TGATTATGTA
33716804 ATCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
*
33716823 ATAC--AG-CTTCTAATTGT
1 AT-CTTAGAGTTCTAATTGT
*
33716840 GTCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
33716859 AT
1 AT
33716861 ACAGCTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
16 1 0.03
17 11 0.37
18 4 0.13
19 13 0.43
20 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.46
Consensus pattern (19 bp):
ATCTTAGAGTTCTAATTGT
Found at i:33717163 original size:48 final size:49
Alignment explanation
Indices: 33717069--33717165 Score: 144
Period size: 48 Copynumber: 2.0 Consensus size: 49
33717059 TGAGGGAATT
* *
33717069 CTGTTGAATCCTTTGTCATTGCTAGATTAAGCTGACTTAGGTGTTTTTA
1 CTGTTGAATCCGTTATCATTGCTAGATTAAGCTGACTTAGGTGTTTTTA
*
33717118 CTGTTGAATCCGTTATCATTG-T-GAGTTAGGCTGACTTAGGTGTTTTTA
1 CTGTTGAATCCGTTATCATTGCTAGA-TTAAGCTGACTTAGGTGTTTTTA
33717166 AGCAAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
47 2 0.05
48 23 0.52
49 19 0.43
ACGTcount: A:0.20, C:0.13, G:0.23, T:0.44
Consensus pattern (49 bp):
CTGTTGAATCCGTTATCATTGCTAGATTAAGCTGACTTAGGTGTTTTTA
Found at i:33721964 original size:17 final size:17
Alignment explanation
Indices: 33721942--33722005 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
33721932 AATCTTAGAG
33721942 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
* *
33721959 TTCTAATTGTGT-CTTAGAG
1 TTCTAATTGTATAC--AG-C
*
33721978 TTCTAATTGTATACAAC
1 TTCTAATTGTATACAGC
*
33721995 TTTTAATTGTA
1 TTCTAATTGTA
33722006 GCCCTTGATT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
16 1 0.03
17 21 0.57
18 3 0.08
19 11 0.30
20 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (17 bp):
TTCTAATTGTATACAGC
Found at i:33721981 original size:36 final size:36
Alignment explanation
Indices: 33721934--33722004 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
33721924 GATTATGTAA
*
33721934 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGTG
1 TCTTAGAGTTCTAATTGTATACAACTTCTAATTGTG
*
33721970 TCTTAGAGTTCTAATTGTATACAACTTTTAATTGT
1 TCTTAGAGTTCTAATTGTATACAACTTCTAATTGT
33722005 AGCCCTTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.46
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAACTTCTAATTGTG
Found at i:33721983 original size:19 final size:19
Alignment explanation
Indices: 33721933--33721989 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
33721923 TGATTATGTA
33721933 ATCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
*
33721952 ATAC--AG-CTTCTAATTGT
1 AT-CTTAGAGTTCTAATTGT
*
33721969 GTCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
33721988 AT
1 AT
33721990 ACAACTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
16 1 0.03
17 11 0.37
18 4 0.13
19 13 0.43
20 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.46
Consensus pattern (19 bp):
ATCTTAGAGTTCTAATTGT
Found at i:33737504 original size:8 final size:8
Alignment explanation
Indices: 33737491--33737519 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
33737481 TATATATACT
33737491 AAATAATA
1 AAATAATA
33737499 AAATAATA
1 AAATAATA
33737507 AAATAATA
1 AAATAATA
33737515 AAATA
1 AAATA
33737520 TCATTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:33737736 original size:48 final size:48
Alignment explanation
Indices: 33737665--33737760 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
33737655 TTCCATCCTT
33737665 GAGTCATTACTTAATTTGGTAAAATTACAATTTAGTCCCTCATAATTC
1 GAGTCATTACTTAATTTGGTAAAATTACAATTTAGTCCCTCATAATTC
33737713 GAGTCATTACTTAATTTGGTAAAATTACAATTTAGTCCCTCATAATTC
1 GAGTCATTACTTAATTTGGTAAAATTACAATTTAGTCCCTCATAATTC
33737761 TTCACCTATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (48 bp):
GAGTCATTACTTAATTTGGTAAAATTACAATTTAGTCCCTCATAATTC
Found at i:33739575 original size:19 final size:20
Alignment explanation
Indices: 33739533--33739575 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
33739523 TCATGCTTTC
*
33739533 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
33739553 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
33739571 TATTC
1 TATTC
33739576 CACTTAGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:33739702 original size:44 final size:45
Alignment explanation
Indices: 33739648--33739741 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 45
33739638 AATAATAACA
* *
33739648 GATACACGGTGGAATTATCACATAGCAACCACC-TTATAATCAAT
1 GATACACGGTGGAATCAGCACATAGCAACCACCTTTATAATCAAT
* * *
33739692 GATACTCGGTGGAATCAGCAGATAGCAACCACCTTTATAGTCAAT
1 GATACACGGTGGAATCAGCACATAGCAACCACCTTTATAATCAAT
33739737 GATAC
1 GATAC
33739742 CCGATTCACA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 29 0.66
45 15 0.34
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.24
Consensus pattern (45 bp):
GATACACGGTGGAATCAGCACATAGCAACCACCTTTATAATCAAT
Found at i:33742489 original size:8 final size:8
Alignment explanation
Indices: 33742476--33742503 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
33742466 TATATATACT
33742476 AAATAATA
1 AAATAATA
33742484 AAATAATA
1 AAATAATA
33742492 AAATAATA
1 AAATAATA
33742500 AAAT
1 AAAT
33742504 CAAATTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
AAATAATA
Found at i:33754945 original size:27 final size:27
Alignment explanation
Indices: 33754915--33754974 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
33754905 TATTGCAAGT
* * *
33754915 GGGTTCGTCAGTGTGTTTGGCGAGCTA
1 GGGTTCGCCAGGGTGTTTGGCGAGCCA
* *
33754942 GGGTTTGCCAGGGTGTTTGGTGAGCCA
1 GGGTTCGCCAGGGTGTTTGGCGAGCCA
33754969 GGGTTC
1 GGGTTC
33754975 ACTAGGTAAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.10, C:0.15, G:0.43, T:0.32
Consensus pattern (27 bp):
GGGTTCGCCAGGGTGTTTGGCGAGCCA
Found at i:33771827 original size:50 final size:50
Alignment explanation
Indices: 33771773--33771949 Score: 212
Period size: 50 Copynumber: 3.5 Consensus size: 50
33771763 TTCTGCATTT
* *
33771773 AATAAAGTCATGCATTATGTAACTCTCATGTTAGTTAAGTATGCATCATA
1 AATAAAGACATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCATCATA
* * *
33771823 AATAATGACCTGCATTATGTAACTATCATGTTAGTTAAGTTTGCATCATA
1 AATAAAGACATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCATCATA
* * * *
33771873 AATAATGACAT-CTATTATGTAACTCCCATGTTAGTTAAAGTTTTCATCTTTA
1 AATAAAGACATGC-ATTATGTAACTCTCATGTTAGTT-AAGTTTGCATC-ATA
* * *
33771925 AATTAAGCCATGCATTAAGTAACTC
1 AATAAAGACATGCATTATGTAACTC
33771950 ATTTGTTCAT
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 76 0.70
51 10 0.09
52 21 0.19
53 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (50 bp):
AATAAAGACATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCATCATA
Found at i:33772730 original size:25 final size:24
Alignment explanation
Indices: 33772702--33772753 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
33772692 AAAATTTTAA
33772702 AAAAATCAAAATATAAAAAAAAAAG
1 AAAAATCAAAATA-AAAAAAAAAAG
* ** *
33772727 AAAATTTGAAGTAAAAAAAAAAAG
1 AAAAATCAAAATAAAAAAAAAAAG
33772751 AAA
1 AAA
33772754 GCAAAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.77, C:0.02, G:0.08, T:0.13
Consensus pattern (24 bp):
AAAAATCAAAATAAAAAAAAAAAG
Found at i:33772749 original size:29 final size:30
Alignment explanation
Indices: 33772716--33772776 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
33772706 ATCAAAATAT
33772716 AAAAAAAAAAG-AAAA-TTTGAAGTAAAAA
1 AAAAAAAAAAGCAAAATTTTGAAGTAAAAA
* *
33772744 AAAAAAGAAAGCAAAATTTTGAATTAAAAA
1 AAAAAAAAAAGCAAAATTTTGAAGTAAAAA
33772774 AAA
1 AAA
33772777 GAAGGATTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 10 0.34
29 4 0.14
30 15 0.52
ACGTcount: A:0.72, C:0.02, G:0.10, T:0.16
Consensus pattern (30 bp):
AAAAAAAAAAGCAAAATTTTGAAGTAAAAA
Done.