Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 92 of 297
Found at i:33095980 original size:79 final size:81
Alignment explanation
Indices: 33095844--33096028 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
33095834 TTGAATGATG
*
33095844 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
33095908 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
33095923 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
33095985 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
33096003 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33096029 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:33096042 original size:40 final size:40
Alignment explanation
Indices: 33095845--33096028 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
33095835 TGAATGATGT
* * * *
33095845 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
33095885 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
33095925 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
33095963 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
33096004 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
33096029 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:33096050 original size:79 final size:79
Alignment explanation
Indices: 33095897--33096061 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
33095887 GGACTAAGAT
* **
33095897 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
33095962 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
33095976 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
33096039 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
33096055 CCGAAGG
1 CCGAAGG
33096062 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:33098003 original size:27 final size:27
Alignment explanation
Indices: 33097973--33098026 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
33097963 AGTTGAGAGT
* * *
33097973 GGGCTCGTGACACTGAGTTAGGGCGGA
1 GGGCCCGTGACACTGAGTCAGAGCGGA
*
33098000 GGGCCCGTGACAGTGAGTCAGAGCGGA
1 GGGCCCGTGACACTGAGTCAGAGCGGA
33098027 TGAGCTAGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.20, C:0.20, G:0.44, T:0.15
Consensus pattern (27 bp):
GGGCCCGTGACACTGAGTCAGAGCGGA
Found at i:33103091 original size:49 final size:47
Alignment explanation
Indices: 33103022--33103148 Score: 139
Period size: 47 Copynumber: 2.7 Consensus size: 47
33103012 TAAGAGCTAG
** * * * *
33103022 TGTAAGACCATGTCCGGGACATGTCGTCGGCCTCGATTTCGAT-AGTCAA
1 TGTAAGACCATGTCTAGGACATGGCATC-GACTCGA--TCGATGAGCCAA
* * *
33103071 TGTAAGACCATGTCTAGGACATGGCATCGACTTGATGGATGAGCCAG
1 TGTAAGACCATGTCTAGGACATGGCATCGACTCGATCGATGAGCCAA
33103118 TGTAAGACCATGTCTAGGACATGGCATCGAC
1 TGTAAGACCATGTCTAGGACATGGCATCGAC
33103149 ATTATACCCT
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 4 0.06
47 35 0.51
48 5 0.07
49 24 0.35
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (47 bp):
TGTAAGACCATGTCTAGGACATGGCATCGACTCGATCGATGAGCCAA
Found at i:33120714 original size:4 final size:4
Alignment explanation
Indices: 33120705--33120732 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
33120695 CTTCTCATAT
33120705 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
33120733 AAGTATGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:33122159 original size:19 final size:19
Alignment explanation
Indices: 33122114--33122160 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
33122104 ATCAAATTAA
*
33122114 AATAAAAATAAAACTATAG
1 AATAAAAATAAAACTAAAG
* *
33122133 AATCAAAACTAAAA-TAAAT
1 AAT-AAAAATAAAACTAAAG
33122152 AATAAAAAT
1 AATAAAAAT
33122161 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 9 0.39
20 9 0.39
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAACTAAAG
Found at i:33128927 original size:25 final size:25
Alignment explanation
Indices: 33128899--33128955 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
33128889 TTATTTTTTT
33128899 TTAT-TTAT-TTATAAATTACATATTA
1 TTATATTATATTATAAA-TA-ATATTA
* *
33128924 TTATATTGTATTATATATAATATTA
1 TTATATTATATTATAAATAATATTA
33128949 TTATATT
1 TTATATT
33128956 TGTTATTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 17 0.61
26 5 0.18
27 6 0.21
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (25 bp):
TTATATTATATTATAAATAATATTA
Found at i:33128972 original size:25 final size:24
Alignment explanation
Indices: 33128918--33128973 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 24
33128908 TATAAATTAC
33128918 ATATTATTATATTGTATTATATAT
1 ATATTATTATATTGTATTATATAT
*
33128942 AATATTATTATATT-TGTTAT-TAT
1 -ATATTATTATATTGTATTATATAT
*
33128965 GTATTATTA
1 ATATTATTA
33128974 CTCATTGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 8 0.28
23 3 0.10
24 5 0.17
25 13 0.45
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (24 bp):
ATATTATTATATTGTATTATATAT
Found at i:33132057 original size:41 final size:41
Alignment explanation
Indices: 33132012--33132189 Score: 234
Period size: 41 Copynumber: 4.4 Consensus size: 41
33132002 GTTATATAAC
* * *
33132012 TTTTAGCGGTGTTTTACCAAAAGCACCGCTAATGCCCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
33132053 TTTTAGTGGCGTTTTACCAAAAGCGCCTCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
33132094 TTTTAGCGGCGTTTTATCAAAAGCGCCGCTAATGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * * * *
33132134 TTTTAGCGGCGTTTTAACAAAAAACGCCGTTATTGCTC-AGT
1 TTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCTGGT
33132175 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
33132190 TGTTAAAACG
Statistics
Matches: 122, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 17 0.14
41 105 0.86
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:33132211 original size:81 final size:81
Alignment explanation
Indices: 33132012--33132220 Score: 217
Period size: 82 Copynumber: 2.6 Consensus size: 81
33132002 GTTATATAAC
* * * * * * * *
33132012 TTTTAGCGGTGTTTTACCAAAAGCACCGCTAATGCCCTGGTTTTTAGTGGCGTTTTACCAAAAGC
1 TTTTAGCGGCGTTTTATCAAAAGCGCCACTAATGCTCT-GTTTTTAGCGGCGTTTTACAAAAAAC
*
33132077 GCCTCTAATGCTCTGGT
65 GCCTCTAATGCTCTAGT
*
33132094 TTTTAGCGGCGTTTTATCAAAAGCGCCGCTAATGCTCTGTTTTTAGCGGCGTTTTAACAAAAAAC
1 TTTTAGCGGCGTTTTATCAAAAGCGCCACTAATGCTCTGTTTTTAGCGGCGTTTT-ACAAAAAAC
*
33132159 GCCGT-TATTGCTC-AGT
65 GCC-TCTAATGCTCTAGT
* * * *
33132175 TTTTAGCGGCGTTTTTGTTAAAA-CGCCATTATTGCTCTGTGTTTTA
1 TTTTAGCGGCG-TTTTATCAAAAGCGCCACTAATGCTCTGT-TTTTA
33132221 CAATTTTTGC
Statistics
Matches: 109, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
81 43 0.39
82 65 0.60
83 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (81 bp):
TTTTAGCGGCGTTTTATCAAAAGCGCCACTAATGCTCTGTTTTTAGCGGCGTTTTACAAAAAACG
CCTCTAATGCTCTAGT
Found at i:33132220 original size:41 final size:40
Alignment explanation
Indices: 33132051--33132220 Score: 148
Period size: 41 Copynumber: 4.2 Consensus size: 40
33132041 TAATGCCCTG
* * * *
33132051 GTTTTTAGTGGCG-TTTTACCAAAAGCGCC-TCTAATGCTCT
1 GTTTTTAGCGGCGTTTTTA-TAAAAACGCCGT-TATTGCTCT
* * *
33132091 GGTTTTTAGCGGCG-TTTTATCAAAAGCGCCGCTAATGCTCT
1 -GTTTTTAGCGGCGTTTTTAT-AAAAACGCCGTTATTGCTCT
* * *
33132132 GTTTTTAGCGGCGTTTTAACAAAAAACGCCGTTATTGCTCA
1 GTTTTTAGCGGCGTTTTTA-TAAAAACGCCGTTATTGCTCT
* * *
33132173 GTTTTTAGCGGCGTTTTTGTTAAAACGCCATTATTGCTCT
1 GTTTTTAGCGGCGTTTTTATAAAAACGCCGTTATTGCTCT
33132213 GTGTTTTA
1 GT-TTTTA
33132221 CAATTTTTGC
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
40 32 0.29
41 77 0.71
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (40 bp):
GTTTTTAGCGGCGTTTTTATAAAAACGCCGTTATTGCTCT
Found at i:33134846 original size:7 final size:7
Alignment explanation
Indices: 33134834--33134879 Score: 62
Period size: 7 Copynumber: 7.0 Consensus size: 7
33134824 AGACCACTAG
33134834 ATTTTTT
1 ATTTTTT
33134841 ATTTTTT
1 ATTTTTT
33134848 A-TTTTT
1 ATTTTTT
*
33134854 -TTGTTT
1 ATTTTTT
33134860 -TTTTTT
1 ATTTTTT
33134866 ATTTTTT
1 ATTTTTT
33134873 ATTTTTT
1 ATTTTTT
33134880 GTGTGTAAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 14 0.40
7 21 0.60
ACGTcount: A:0.11, C:0.00, G:0.02, T:0.87
Consensus pattern (7 bp):
ATTTTTT
Found at i:33137057 original size:22 final size:25
Alignment explanation
Indices: 33137031--33137077 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
33137021 GTTGAAATTT
33137031 TGAAAA-AT-AAA-AATAAAATATA
1 TGAAAAGATAAAACAATAAAATATA
33137053 TGAAAAGTATAAAACAATAAAATAT
1 TGAAAAG-ATAAAACAATAAAATAT
33137078 TGTTTTCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 6 0.29
24 2 0.10
25 3 0.14
26 10 0.48
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.23
Consensus pattern (25 bp):
TGAAAAGATAAAACAATAAAATATA
Found at i:33139126 original size:26 final size:26
Alignment explanation
Indices: 33139097--33139156 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
33139087 TATTTATTTA
*
33139097 TTTATTTTCTTGATTTATATATATAT
1 TTTATTTTCTAGATTTATATATATAT
* * *
33139123 TTTATTTTCTAGATTTCTATTTCTAT
1 TTTATTTTCTAGATTTATATATATAT
33139149 TTTATTTT
1 TTTATTTT
33139157 ATTATGCATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.22, C:0.07, G:0.03, T:0.68
Consensus pattern (26 bp):
TTTATTTTCTAGATTTATATATATAT
Found at i:33141214 original size:27 final size:26
Alignment explanation
Indices: 33141175--33141333 Score: 140
Period size: 27 Copynumber: 5.9 Consensus size: 26
33141165 GCGAGGTTGC
*
33141175 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGACAG-AGCCACCAGA-A
*
33141202 TAGATATTGTGACAGAGCCACCAGAA
1 CAGATATTGTGACAGAGCCACCAGAA
* * *
33141228 CAGATATATGTGGCAGAGCCACTAGAT
1 CAGATAT-TGTGACAGAGCCACCAGAA
* * * *
33141255 CAGATAATTATGGCATAGCCACCAGGA
1 CAGAT-ATTGTGACAGAGCCACCAGAA
* *
33141282 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGACAGAGCCACCAGAA
* *
33141309 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGACAGAGCCACCAG
33141334 GACACTTCCT
Statistics
Matches: 111, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
26 9 0.08
27 97 0.87
28 5 0.05
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGACAGAGCCACCAGAA
Found at i:33141285 original size:54 final size:54
Alignment explanation
Indices: 33141217--33141337 Score: 215
Period size: 54 Copynumber: 2.2 Consensus size: 54
33141207 ATTGTGACAG
* *
33141217 AGCCACCAGAACAGATATATGTGGCAGAGCCACTAGATCAGATAATTATGGCAT
1 AGCCACCAGGACAGATATATGTGGCAGAGCCACCAGATCAGATAATTATGGCAT
*
33141271 AGCCACCAGGACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCAT
1 AGCCACCAGGACAGATATATGTGGCAGAGCCACCAGATCAGATAATTATGGCAT
33141325 AGCCACCAGGACA
1 AGCCACCAGGACA
33141338 CTTCCTCCAT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
AGCCACCAGGACAGATATATGTGGCAGAGCCACCAGATCAGATAATTATGGCAT
Found at i:33144073 original size:40 final size:40
Alignment explanation
Indices: 33143987--33144078 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
33143977 TGACTAAGTT
** *
33143987 TGGCACTTAGTGTGCGTTTCGAGATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCAATTCGAGATAGCTTCAGCTATATA
* * *
33144027 TAGCACTTAGTGTGCAAATTGGA-ATAGCTTCAGCTATATG
1 TGGCACTTAGTGTGC-AATTCGAGATAGCTTCAGCTATATA
*
33144067 TGGCACTAAGTG
1 TGGCACTTAGTG
33144079 CACGATACTG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 39 0.91
41 4 0.09
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCAATTCGAGATAGCTTCAGCTATATA
Found at i:33146003 original size:17 final size:19
Alignment explanation
Indices: 33145983--33146023 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
33145973 AAAAACACAA
33145983 AAAAAGAAA-AGAAAAA-G
1 AAAAAGAAATAGAAAAATG
*
33146000 AAAAAGAAATATAAAAATG
1 AAAAAGAAATAGAAAAATG
33146019 AAAAA
1 AAAAA
33146024 AATTGATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.43
18 6 0.29
19 6 0.29
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (19 bp):
AAAAAGAAATAGAAAAATG
Found at i:33159355 original size:14 final size:15
Alignment explanation
Indices: 33159336--33159391 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
33159326 AATCTTCAAT
33159336 GATATG-CAATCTTA
1 GATATGACAATCTTA
33159350 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
33159367 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
33159385 GATATGA
1 GATATGA
33159392 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:33159380 original size:35 final size:37
Alignment explanation
Indices: 33159334--33159412 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
33159324 ATAATCTTCA
33159334 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
33159370 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGAT
33159406 A-GATATG
1 ATGATATG
33159413 ATTTTGAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
Found at i:33159412 original size:17 final size:19
Alignment explanation
Indices: 33159334--33159405 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
33159324 ATAATCTTCA
33159334 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33159353 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33159370 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33159388 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
33159406 AGATATGATT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:33159431 original size:22 final size:22
Alignment explanation
Indices: 33159384--33159428 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
33159374 TTGCAATCTT
* *
33159384 AGATATGATATGCAATCTTAGA
1 AGATATGATATGAAATATTAGA
*
33159406 AGATATGATTTTGAAATATTAGA
1 AGATATGA-TATGAAATATTAGA
33159429 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.42, C:0.04, G:0.18, T:0.36
Consensus pattern (22 bp):
AGATATGATATGAAATATTAGA
Found at i:33167877 original size:44 final size:43
Alignment explanation
Indices: 33167793--33167877 Score: 107
Period size: 44 Copynumber: 2.0 Consensus size: 43
33167783 GATCCAAGAT
* *
33167793 GATTTGGCATCTCTATACTGTCAGAGAACAAATCAAAGAAACA
1 GATTTGGCATCTCCATACTGACAGAGAACAAATCAAAGAAACA
* * * *
33167836 GATTTGGCATCTCCATATTCGACAGAGACCAGATCGAAGAAA
1 GATTTGGCATCTCCATACT-GACAGAGAACAAATCAAAGAAA
33167878 TAGCAGATCT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
43 17 0.49
44 18 0.51
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (43 bp):
GATTTGGCATCTCCATACTGACAGAGAACAAATCAAAGAAACA
Found at i:33167971 original size:78 final size:78
Alignment explanation
Indices: 33167836--33168440 Score: 809
Period size: 78 Copynumber: 7.8 Consensus size: 78
33167826 CAAAGAAACA
** * * * * * *
33167836 GATTTGGCATCTCCATATTCGACAGAGACCAGATCGAAGAAATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
33167901 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * * * * *
33167914 GATTTGGCATCTCTGTGTTAGACGGGGAGCAGATCGAAGACACATCATATCTAACCTTCATTAAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
*
33167979 GCAGATCTAAGAT
66 GCAGATCCAAGAT
* * * *
33167992 GATTTGGTACCTCTGTATTAAACGGGGAGCAGATCGAAGACATAACAGATCTGACATTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
33168057 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
33168070 GATTTGACATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAATAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCT-GACCTTCATTGA
33168134 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
** * * *
33168148 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
33168213 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
33168226 GACTTGGCATCTTTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
*
33168291 GCAGATTCAAGAT
66 GCAGATCCAAGAT
* * *
33168304 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCAAAGACATAACAAAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCT-GACCTTCATTGA
* *
33168368 AGTAGATCCGAGAT
65 AGCAGATCCAAGAT
* * * * * *
33168382 GATTTGGCATATCTGTATCATACGGGGAGTAGATCGAAGACATAGCAGATCTAACCTTC
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTC
33168441 GGATGTCTTT
Statistics
Matches: 458, Mismatches: 65, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
77 2 0.00
78 454 0.99
79 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:33168731 original size:78 final size:78
Alignment explanation
Indices: 33168602--33168896 Score: 421
Period size: 78 Copynumber: 3.8 Consensus size: 78
33168592 CGAAGAAACA
** * * *
33168602 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGTAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
* *
33168667 CCAAATCCAAGAT
66 GCAGATCCAAGAT
* * * * *
33168680 GATTTGCCATCTCTGTATTAGATGGGGAGCAGATCAAAGACACAGCAGATCTGACCTTTATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
33168745 GTAGATCCAAGAT
66 GCAGATCCAAGAT
*
33168758 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
33168822 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* * *
33168836 GCTTTGGCATCTCTGTATTAGACGGGGAGAAGATCGAAGAGATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
33168897 GTGTTTACAT
Statistics
Matches: 191, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
77 1 0.01
78 189 0.99
79 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:33169064 original size:45 final size:44
Alignment explanation
Indices: 33168838--33169042 Score: 207
Period size: 45 Copynumber: 4.5 Consensus size: 44
33168828 TCCAAGATGC
* *
33168838 TTTGGCATCTCTGTATTAGACGGGGAGAAGATCGAAGAGATAGCAGA
1 TTTGGCATCTCTGTATTAGAC-GGGAGCAGATCG-A-AGATAACAGA
* * * * * * * * *
33168885 TCTGACCT-TCATGTGTTTACATC-GAAGCAGATCCAAGATGACAAA
1 TTTGGCATCTC-TGT-ATTAGA-CGGGAGCAGATCGAAGATAACAGA
* *
33168930 TTTGGCATCTCTGTATTAGACGGGAGCAAATCGGAGATAACAGA
1 TTTGGCATCTCTGTATTAGACGGGAGCAGATCGAAGATAACAGA
33168974 TTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAACAGA
1 TTTGGCATCTCTGTATTAGAC-GGGAGCAGATCGAAGATAACAGA
*
33169019 TTTGGCGTCTCTGTATTAGACGGG
1 TTTGGCATCTCTGTATTAGACGGG
33169043 GAGTAGATAA
Statistics
Matches: 127, Mismatches: 25, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
43 1 0.01
44 44 0.35
45 56 0.44
46 5 0.04
47 16 0.13
48 4 0.03
49 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (44 bp):
TTTGGCATCTCTGTATTAGACGGGAGCAGATCGAAGATAACAGA
Found at i:33169356 original size:19 final size:19
Alignment explanation
Indices: 33169332--33170182 Score: 1649
Period size: 19 Copynumber: 44.9 Consensus size: 19
33169322 ATAATCTTCA
33169332 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169351 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169370 ATGATA--CAATCTCTTAGAT
1 ATGATATGCAA--TCTTAGAT
33169389 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169408 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169427 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169446 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169465 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169484 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169503 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169522 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169541 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169560 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169579 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169598 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169617 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169636 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169655 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169674 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169693 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169712 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169731 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169750 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169769 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169788 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169807 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169826 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169845 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169864 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169883 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169902 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169921 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169940 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169959 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169978 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33169997 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33170016 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33170035 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33170054 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33170073 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33170092 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33170111 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33170130 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33170147 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33170165 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
33170183 AGATATGATT
Statistics
Matches: 825, Mismatches: 0, Indels: 14
0.98 0.00 0.02
Matches are distributed among these distances:
17 19 0.02
18 16 0.02
19 787 0.95
21 3 0.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:33170497 original size:17 final size:17
Alignment explanation
Indices: 33170473--33170507 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33170463 TGTTTCCCTG
*
33170473 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
33170491 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
33170508 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:33173399 original size:12 final size:14
Alignment explanation
Indices: 33173379--33173414 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
33173369 TACATGAAAT
33173379 TTAAATTTAAAGAA
1 TTAAATTTAAAGAA
33173393 -T-AATTT-AAGAA
1 TTAAATTTAAAGAA
33173404 TTAAATTTAAA
1 TTAAATTTAAA
33173415 ATGGTCAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
11 5 0.26
12 6 0.32
13 6 0.32
14 2 0.11
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (14 bp):
TTAAATTTAAAGAA
Found at i:33187429 original size:10 final size:10
Alignment explanation
Indices: 33187396--33187429 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
33187386 TACCGGCCAC
33187396 CCCTAGCTCT
1 CCCTAGCTCT
*
33187406 CCCTAACTCT
1 CCCTAGCTCT
*
33187416 CCCTAGCTCA
1 CCCTAGCTCT
33187426 CCCT
1 CCCT
33187430 TCTACTTACC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.15, C:0.53, G:0.06, T:0.26
Consensus pattern (10 bp):
CCCTAGCTCT
Found at i:33198672 original size:96 final size:96
Alignment explanation
Indices: 33198503--33198718 Score: 317
Period size: 96 Copynumber: 2.2 Consensus size: 96
33198493 GAGGATGAAT
* * * * * *
33198503 TGCCGATGCCATGTTCCAAACATGGTCTTACACCAGCTTACATGTTGAGGCCGATGCCATGTCCC
1 TGCCAATGCCATATCCCAGACATGATCTTAAACCAGCTTACATGTTGAGGCCGATGCCATGTCCC
*
33198568 AAACATGGTCTTACACTAGCGCACATATCAA
66 AAACATGGTCTTACACTAGCACACATATCAA
* *
33198599 TGCCAATGCCATATCCCAGACATGATCTTAAACTAGCTCT-CATGTTGTGGCCGATGCCATGTCC
1 TGCCAATGCCATATCCCAGACATGATCTTAAACCAGCT-TACATGTTGAGGCCGATGCCATGTCC
*
33198663 CAAATATGGTCTTACACTAGCACACATATCAA
65 CAAACATGGTCTTACACTAGCACACATATCAA
*
33198695 TGCCAATGCCATATCCTAGACATG
1 TGCCAATGCCATATCCCAGACATG
33198719 GTTTTCATTG
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
96 107 0.99
97 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (96 bp):
TGCCAATGCCATATCCCAGACATGATCTTAAACCAGCTTACATGTTGAGGCCGATGCCATGTCCC
AAACATGGTCTTACACTAGCACACATATCAA
Found at i:33198834 original size:48 final size:48
Alignment explanation
Indices: 33198504--33198836 Score: 287
Period size: 48 Copynumber: 7.0 Consensus size: 48
33198494 AGGATGAATT
* * * * *
33198504 GCCGATGCCATGTTCCAAACATGGTCTTACACCAGCTTACATGTTGA-G
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACAT-ATCATG
*
33198552 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAAT-
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATC-ATG
* * * * * * * **
33198600 GCCAATGCCATATCCCAGACATGATCTTAAACTAGCTCTCATGTTGTG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCATG
* *
33198648 GCCGATGCCATGTCCCAAATATGGTCTTACACTAGCACACATATCAAT-
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATC-ATG
* * * * * * * * * * *
33198696 GCCAATGCCATATCCTAGACATGGT-TTTCATTGGCTCTCACAACATC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCATG
* * * * * *
33198743 GCTGATGCCATGTTCCAAACATGTTCTTACACTGGCTCTCATATCGTG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCATG
* *
33198791 GCCGATGCCATGTCCCAAACATGGTCTTACACTAACACACATATCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA
33198837 CCCAAATGTC
Statistics
Matches: 219, Mismatches: 60, Indels: 12
0.75 0.21 0.04
Matches are distributed among these distances:
46 2 0.01
47 32 0.15
48 184 0.84
49 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCATG
Found at i:33205137 original size:17 final size:17
Alignment explanation
Indices: 33205106--33205188 Score: 67
Period size: 17 Copynumber: 4.9 Consensus size: 17
33205096 CGACGTGGTG
* *
33205106 TGAATGAATTATTATAT
1 TGAATGAACTGTTATAT
*
33205123 TGAATGAACTGTTATAA
1 TGAATGAACTGTTATAT
* ** * *
33205140 TGTACAAACTATTATGT
1 TGAATGAACTGTTATAT
* *
33205157 GGAATGAACTGTTATTT
1 TGAATGAACTGTTATAT
*
33205174 TGCATGAACTGTTAT
1 TGAATGAACTGTTAT
33205189 TTGGATATTT
Statistics
Matches: 49, Mismatches: 17, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 49 1.00
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.41
Consensus pattern (17 bp):
TGAATGAACTGTTATAT
Found at i:33205216 original size:17 final size:17
Alignment explanation
Indices: 33205194--33205257 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 17
33205184 GTTATTTGGA
33205194 TATTTTATATGAATTAT
1 TATTTTATATGAATTAT
** **
33205211 TATTTTGCATGAGCTAT
1 TATTTTATATGAATTAT
* * *
33205228 CATTTTGTATGAATTTT
1 TATTTTATATGAATTAT
*
33205245 TATTTCATATGAA
1 TATTTTATATGAA
33205258 CAAATGTTTA
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.53
Consensus pattern (17 bp):
TATTTTATATGAATTAT
Found at i:33208634 original size:30 final size:30
Alignment explanation
Indices: 33208599--33208658 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
33208589 TCATTTTACT
33208599 ATTGAATGCTCATATTTAATTTTATTTTAA
1 ATTGAATGCTCATATTTAATTTTATTTTAA
33208629 ATTGAATGCTCATATTTAATTTTATTTTAA
1 ATTGAATGCTCATATTTAATTTTATTTTAA
33208659 GTTTTTTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (30 bp):
ATTGAATGCTCATATTTAATTTTATTTTAA
Found at i:33210556 original size:21 final size:21
Alignment explanation
Indices: 33210518--33210578 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
33210508 TCAAGCAAAC
*
33210518 AAGGGCAA-ACGCTCGTGTGG
1 AAGGGCAACACGCACGTGTGG
*
33210538 AAGGGCAACACGCAGGTGTGG
1 AAGGGCAACACGCACGTGTGG
*
33210559 AAGGGCAACACGCCCGTGTG
1 AAGGGCAACACGCACGTGTG
33210579 TCTTCCTAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 8 0.22
21 28 0.78
ACGTcount: A:0.26, C:0.23, G:0.39, T:0.11
Consensus pattern (21 bp):
AAGGGCAACACGCACGTGTGG
Found at i:33211853 original size:48 final size:48
Alignment explanation
Indices: 33211782--33212012 Score: 239
Period size: 48 Copynumber: 4.8 Consensus size: 48
33211772 ACTGCTGATT
* * * * *
33211782 CCATGTCCCAGACATGTTCTTACACTGGCTCACATGTCGAGGCCGATG
1 CCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAGGCCGATG
* * * * * * *
33211830 CCATGTTCGAAACATGGTCTTACACTAACTCTCATCTAAATGCCGATG
1 CCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAGGCCGATG
* * ** *
33211878 CCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGACGATG
1 CCATGTCCCAAACATGGTCTTACACTAGCTCACAT-ATCAAGGCCGATG
* *
33211926 CCATGTCCCAAACATGGTCTTACACTAGCACACATATCAATGCCGATG
1 CCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAGGCCGATG
* * * *
33211974 CCATGTCCCAGACATGGCCTTACACTAGCGCACGTATCA
1 CCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA
33212013 CCCAAATGTC
Statistics
Matches: 150, Mismatches: 31, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
47 2 0.01
48 147 0.98
49 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.25
Consensus pattern (48 bp):
CCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAGGCCGATG
Found at i:33211946 original size:96 final size:96
Alignment explanation
Indices: 33211768--33211999 Score: 295
Period size: 96 Copynumber: 2.4 Consensus size: 96
33211758 ATACAAGAGG
* * * * *
33211768 ATAAACTGCTGATTCCATGTCCCAGACATGTTCTTACACTGGCTCACATGTCGAGGCCGATGCCA
1 ATAAA-TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGACGATGCCA
* * * *
33211833 TGTTCGAAACATGGTCTTACACTAACTCTCAT
65 TGTCCCAAACATGGTCTTACACTAACACACAT
* * * *
33211865 CTAAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGACGATGCCA
1 ATAAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCGAGGACGATGCCA
*
33211929 TGTCCCAAACATGGTCTTACACTAGCACACAT
65 TGTCCCAAACATGGTCTTACACTAACACACAT
* *
33211961 ATCAATGCCGATGCCATGTCCCAGACATGGCCTTACACT
1 ATAAATGCCGATGCCATGTCCCAGACATGGTCTTACACT
33212000 AGCGCACGTA
Statistics
Matches: 116, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
96 111 0.96
97 5 0.04
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (96 bp):
ATAAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGACGATGCCAT
GTCCCAAACATGGTCTTACACTAACACACAT
Found at i:33213754 original size:19 final size:19
Alignment explanation
Indices: 33213727--33213764 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
33213717 ATACTTAATT
*
33213727 AAATGACTTA-AACCATCAA
1 AAATAACTTACAA-CATCAA
33213746 AAATAACTTACAACATCAA
1 AAATAACTTACAACATCAA
33213765 GTACCTCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.55, C:0.21, G:0.03, T:0.21
Consensus pattern (19 bp):
AAATAACTTACAACATCAA
Found at i:33215450 original size:98 final size:100
Alignment explanation
Indices: 33215275--33215592 Score: 304
Period size: 100 Copynumber: 3.2 Consensus size: 100
33215265 ATTATTAATT
* * * * * * *
33215275 CCAACACCAAATGTGGCTGCACTAGTAATTTCTTTTTACTTTTTTGGTGTTGCATCTTCATATGG
1 CCAACACCAAATGTGGCAGCACCAGTAATTT-TTTTTACTTTTTCGGTGTCGCCTCTTCATGTAG
*
33215340 AGGCACCAAAATCAAT-AAAAA-TATTTC-CTTGGTA
65 AGACACCAAAATCAATAAAAAATTATTTCTC-TGGTA
* * * *
33215374 CCAACTA-CAAATGTGGCGGCACCAGCAAATTTTTTTAATTTTTCGGTGTCGCCTCTTCATGTAG
1 CCAAC-ACCAAATGTGGCAGCACCAGTAATTTTTTTTACTTTTTCGGTGTCGCCTCTTCATGTAG
*
33215438 AGACACCAAAATCAATAAAAAATTATTTCTCTGGTG
65 AGACACCAAAATCAATAAAAAATTATTTCTCTGGTA
* * * * * *
33215474 CCAACACCAAATTTGACAGCACCAATAATTTTTTTTACTTTCTGGGTGCCGCCTCTTCATGTAGA
1 CCAACACCAAATGTGGCAGCACCAGTAATTTTTTTTACTTTTTCGGTGTCGCCTCTTCATGTAGA
* * * * * *
33215539 GGCACTAAATTTCGTAA-AAAAATTTATTTTCTATGCTA
66 GACACCAAA-ATC--AATAAAAAATTA-TTTCTCTGGTA
*
33215577 CCAACTCCAAATGTGG
1 CCAACACCAAATGTGG
33215593 TGGCACCTGA
Statistics
Matches: 178, Mismatches: 32, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
98 42 0.24
99 31 0.17
100 71 0.40
101 3 0.02
102 8 0.04
103 23 0.13
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (100 bp):
CCAACACCAAATGTGGCAGCACCAGTAATTTTTTTTACTTTTTCGGTGTCGCCTCTTCATGTAGA
GACACCAAAATCAATAAAAAATTATTTCTCTGGTA
Found at i:33219756 original size:50 final size:51
Alignment explanation
Indices: 33219579--33219821 Score: 201
Period size: 50 Copynumber: 4.8 Consensus size: 51
33219569 GTAACCGAAG
** *
33219579 CTATCTGGTATGCATAGTAGCCTACACTTAGTA-TACACATGCGACC--AA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAA
* * * * * * *
33219627 CAATCCGGTAAACGTAGTAGCCTGCACTTAGTACTACACATGTGA-TTGAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAA
* * **
33219677 GT-TGTAGGGTACACATAGTAGTATGCACTTAGTACTACACATGCGACCT-AA
1 CTATCT--GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAA
* * * *
33219728 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTATACACGTGACCTAAAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCT-AAA
* *** * *
33219780 CCATCTTAAACACATAGTAGTCTGCACATAGTACTACACATG
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATG
33219822 TGTTCTCACA
Statistics
Matches: 151, Mismatches: 35, Indels: 14
0.75 0.17 0.07
Matches are distributed among these distances:
48 27 0.18
49 11 0.07
50 38 0.25
51 37 0.25
52 38 0.25
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (51 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAA
Found at i:33219805 original size:52 final size:50
Alignment explanation
Indices: 33219687--33219819 Score: 149
Period size: 52 Copynumber: 2.6 Consensus size: 50
33219677 GTTGTAGGGT
* * * **
33219687 ACACATAGTAGTATGCACTTAGTACTACACATGCGACCTAACTATCTGGT
1 ACACATAGTAGTCTGCACTTAGTACTACACACGCGACCTAACCATCTGAA
* * * * *
33219737 ACACGTAGTAGCCTGCACTTAGTACTATACACGTGACCTAAAACCATCTTAA
1 ACACATAGTAGTCTGCACTTAGTACTACACACGCGACCT--AACCATCTGAA
*
33219789 ACACATAGTAGTCTGCACATAGTACTACACA
1 ACACATAGTAGTCTGCACTTAGTACTACACA
33219820 TGTGTTCTCA
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
50 33 0.49
52 34 0.51
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (50 bp):
ACACATAGTAGTCTGCACTTAGTACTACACACGCGACCTAACCATCTGAA
Found at i:33219815 original size:102 final size:100
Alignment explanation
Indices: 33219591--33219821 Score: 257
Period size: 101 Copynumber: 2.3 Consensus size: 100
33219581 ATCTGGTATG
* *
33219591 CATAGTAGCCTACACTTAGTA-TACACATGCGACCAACAATCCGGTAAACGTAGTAGCCTGCACT
1 CATAGTAGTCTGCACTTAGTACTACACATGCGACCAACAATCCGGTAAACGTAGTAGCCTGCACT
* * * **** **
33219655 TAGTACTACACATGTGATTGAAGTTGTAGGGTACA
66 TAGTACTACACACGTGACTAAAACCATAGGAAACA
* * * *
33219690 CATAGTAGTATGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGCCTGCAC
1 CATAGTAGTCTGCACTTAGTACTACACATGCGACC-AACAATCCGGTAAACGTAGTAGCCTGCAC
* ***
33219755 TTAGTACTATACACGTGACCTAAAACCATCTTAAACA
65 TTAGTACTACACACGTGA-CTAAAACCATAGGAAACA
*
33219792 CATAGTAGTCTGCACATAGTACTACACATG
1 CATAGTAGTCTGCACTTAGTACTACACATG
33219822 TGTTCTCACA
Statistics
Matches: 108, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
99 18 0.17
100 13 0.12
101 42 0.39
102 35 0.32
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (100 bp):
CATAGTAGTCTGCACTTAGTACTACACATGCGACCAACAATCCGGTAAACGTAGTAGCCTGCACT
TAGTACTACACACGTGACTAAAACCATAGGAAACA
Found at i:33229576 original size:20 final size:22
Alignment explanation
Indices: 33229542--33229586 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
33229532 TTAGCATGTT
*
33229542 AAAATAATATTAAATAAAT-AC
1 AAAATAATATAAAATAAATAAC
33229563 AAAA-AATATAAAATAAATAAC
1 AAAATAATATAAAATAAATAAC
33229584 AAA
1 AAA
33229587 TCATGAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAATAATATAAAATAAATAAC
Found at i:33245907 original size:17 final size:19
Alignment explanation
Indices: 33245870--33245909 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
33245860 AATTTAAGTG
*
33245870 TTTTTATATTTTTTAAATA
1 TTTTTATATTGTTTAAATA
33245889 TTTTTATA-TGTTT-AATA
1 TTTTTATATTGTTTAAATA
33245906 TTTT
1 TTTT
33245910 AACAATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 4 0.20
19 8 0.40
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (19 bp):
TTTTTATATTGTTTAAATA
Found at i:33247936 original size:31 final size:31
Alignment explanation
Indices: 33247890--33247952 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
33247880 TATGAGCATA
* * * *
33247890 CTTGCTCAAATATTACTCCTTTTACCATATG
1 CTTGCTAAAAAATTACTCATTTTACCACATG
*
33247921 CTTGCTAAAAAATTACTCATTTTGCCACATG
1 CTTGCTAAAAAATTACTCATTTTACCACATG
33247952 C
1 C
33247953 ATTTATTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (31 bp):
CTTGCTAAAAAATTACTCATTTTACCACATG
Found at i:33251773 original size:48 final size:48
Alignment explanation
Indices: 33251717--33251812 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
33251707 CCGGAGTTAC
33251717 TGAAGATGCATTAAAGTTGAAATTGTTCCCATACTCACTGAGGGAAAG
1 TGAAGATGCATTAAAGTTGAAATTGTTCCCATACTCACTGAGGGAAAG
*
33251765 TGAAGATGCATTAAAGTTGAAATTGTTCCCATACTCACTGTGGGAAAG
1 TGAAGATGCATTAAAGTTGAAATTGTTCCCATACTCACTGAGGGAAAG
33251813 AGCAAAAGCT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (48 bp):
TGAAGATGCATTAAAGTTGAAATTGTTCCCATACTCACTGAGGGAAAG
Found at i:33253495 original size:46 final size:46
Alignment explanation
Indices: 33253320--33253495 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
33253310 TGTAACCCGC
* *
33253320 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCAT
*
33253366 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * * *
33253416 --TTCA-CGACCTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
33253459 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
33253496 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 61 0.56
47 28 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:33260205 original size:26 final size:26
Alignment explanation
Indices: 33260169--33260218 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
33260159 TTCAAAGCAT
*
33260169 ACACTATGGCGGCCAACTCTAAGTTA
1 ACACTATGGCGACCAACTCTAAGTTA
33260195 ACACTATGGCGACCAACTCTAAGT
1 ACACTATGGCGACCAACTCTAAGT
33260219 CATGTGTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (26 bp):
ACACTATGGCGACCAACTCTAAGTTA
Found at i:33263537 original size:31 final size:29
Alignment explanation
Indices: 33263473--33263537 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
33263463 TTTTAAGAGC
*
33263473 CACACGCCCGTATGCGTAGGCCGTGTGGT
1 CACACACCCGTATGCGTAGGCCGTGTGGT
*
33263502 CACACACCCGTATGTGTAGGCCGTGTGGT
1 CACACACCCGTATGCGTAGGCCGTGTGGT
33263531 CACACAC
1 CACACAC
33263538 GACCGTGTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.18, C:0.32, G:0.29, T:0.20
Consensus pattern (29 bp):
CACACACCCGTATGCGTAGGCCGTGTGGT
Found at i:33268971 original size:21 final size:20
Alignment explanation
Indices: 33268945--33268985 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
33268935 TAGAAATTAA
*
33268945 ATTTTTTTTAATTTTTTTAGG
1 ATTTTTTTT-ATTTTTCTAGG
33268966 ATTTTTTTTATTTTTCTAGG
1 ATTTTTTTTATTTTTCTAGG
33268986 TTCGTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.17, C:0.02, G:0.10, T:0.71
Consensus pattern (20 bp):
ATTTTTTTTATTTTTCTAGG
Found at i:33271664 original size:86 final size:86
Alignment explanation
Indices: 33271510--33271676 Score: 280
Period size: 86 Copynumber: 1.9 Consensus size: 86
33271500 TCTATTAAAC
* *
33271510 ATAGAAATATGTGAGATATGTTTAGAAATTAAATAAGTTAAATATTTTTACTCAATTTTATTAGG
1 ATAGAAATATGTGAGATATGTTTAGAAATTAAATAAGTTAAATATTTTTACTCAAATTGATTAGG
*
33271575 GTTAATAAATGGTCAACGTAG
66 GTTAATAAATAGTCAACGTAG
* * *
33271596 ATAGAAATATGTGAGATATGTTTAGAAATTAAATAAGTTGATTATTTTTACTCAAATTGATTATG
1 ATAGAAATATGTGAGATATGTTTAGAAATTAAATAAGTTAAATATTTTTACTCAAATTGATTAGG
33271661 GTTAATAAATAGTCAA
66 GTTAATAAATAGTCAA
33271677 TTTAGCCACA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 75 1.00
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.39
Consensus pattern (86 bp):
ATAGAAATATGTGAGATATGTTTAGAAATTAAATAAGTTAAATATTTTTACTCAAATTGATTAGG
GTTAATAAATAGTCAACGTAG
Found at i:33273077 original size:2 final size:2
Alignment explanation
Indices: 33273072--33273097 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33273062 ATTTTTTTCT
33273072 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
33273098 TAGAAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:33273421 original size:30 final size:31
Alignment explanation
Indices: 33273381--33273439 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
33273371 TCTTCTCTTT
*
33273381 CTCTTCATTAACATAACAAATACATAACACC
1 CTCTTCATTAAAATAACAAATACATAACACC
* * *
33273412 CTCTT-ATTAAAATCATAATTACATAACA
1 CTCTTCATTAAAATAACAAATACATAACA
33273440 TATTCATGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.31
Consensus pattern (31 bp):
CTCTTCATTAAAATAACAAATACATAACACC
Found at i:33274338 original size:3 final size:3
Alignment explanation
Indices: 33274330--33274384 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
33274320 GTGCATCCAT
33274330 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
33274378 TTC TTC T
1 TTC TTC T
33274385 CTATCGTTCT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:33274948 original size:21 final size:21
Alignment explanation
Indices: 33274905--33274950 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
33274895 GTACAATATC
* * *
33274905 CAAACAATAACAAAATGGTAG
1 CAAACAACAACAAAATAGCAG
*
33274926 CAAACAACAACAAACTAGCAG
1 CAAACAACAACAAAATAGCAG
33274947 CAAA
1 CAAA
33274951 TAGTAGCGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.59, C:0.22, G:0.11, T:0.09
Consensus pattern (21 bp):
CAAACAACAACAAAATAGCAG
Found at i:33289659 original size:153 final size:150
Alignment explanation
Indices: 33289462--33289755 Score: 436
Period size: 153 Copynumber: 1.9 Consensus size: 150
33289452 AAAAGGAGAA
33289462 AGTTTAGATTTTAAAAATAAAATATGTCTTTTAGTCATTTTAAAGGAAAA-TTTAAATTTTTAAA
1 AGTTTAGATTTTAAAAATAAAATATGTCTTTTAGTCATTTTAAAGGAAAAGTTTAAATTTTTAAA
* * * *
33289526 ATAAAGTTTT-ATTTTTTTTTCAACTATTTC-AAATAAAATCTTTGATTTTTAAGAAAAGTAGTG
66 ACAAAGTTTTGA--TCTTTTTCAACTATTTCGAAAT-AAAGCTTTGATTTTTAAGAAAAATAGTG
33289589 A-TTTTTTAAAAGAGAAAAAGAG
128 ATTTTTTTAAAAGAGAAAAAGAG
*
33289611 AGTTTAGATTTTTAAAAATAAAAATCTAAT-TTTTTTAGTCATTTTAAAGGAAAAGTTTAAATTT
1 AGTTTAGA-TTTTAAAAAT-AAAA--T-ATGTCTTTTAGTCATTTTAAAGGAAAAGTTTAAATTT
33289675 TTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGCTTTGATTTTTAAGAAAAATAG
61 TTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGCTTTGATTTTTAAGAAAAATAG
33289740 TGATTTTTTTAAAAGA
126 TGATTTTTTTAAAAGA
33289756 AAACTTTAAT
Statistics
Matches: 131, Mismatches: 5, Indels: 13
0.88 0.03 0.09
Matches are distributed among these distances:
149 8 0.06
150 10 0.08
151 4 0.03
153 67 0.51
154 41 0.31
155 1 0.01
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (150 bp):
AGTTTAGATTTTAAAAATAAAATATGTCTTTTAGTCATTTTAAAGGAAAAGTTTAAATTTTTAAA
ACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGCTTTGATTTTTAAGAAAAATAGTGATT
TTTTTAAAAGAGAAAAAGAG
Found at i:33303903 original size:40 final size:41
Alignment explanation
Indices: 33303844--33303995 Score: 193
Period size: 40 Copynumber: 3.8 Consensus size: 41
33303834 CATTTGAATG
* * *
33303844 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
33303884 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
33303924 ATATCTGGGCTAAGACTCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
33303964 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
33303996 TTGTGGTTAT
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
40 95 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:33304007 original size:80 final size:80
Alignment explanation
Indices: 33303844--33304015 Score: 195
Period size: 80 Copynumber: 2.2 Consensus size: 80
33303834 CATTTGAATG
* * * * *
33303844 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
* *
33303909 TTTGTGCGAGTTGAT
66 ATTGTGCGAGTGGAT
* * * *
33303924 ATATCTGGGCTAAGACTCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGCTAAGACCCGAAGGC
** *
33303988 AATTGTGCTTGTGGTT
65 AATTGTGCGAGTGGAT
33304004 ATATCC-GGCTAA
1 ATATCCGGGCTAA
33304016 ATACCGAAGA
Statistics
Matches: 76, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
79 6 0.08
80 68 0.89
81 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTGGAT
Found at i:33308144 original size:30 final size:30
Alignment explanation
Indices: 33308110--33308170 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
33308100 TCCTTAACTC
33308110 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
33308140 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
33308170 A
1 A
33308171 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:33316110 original size:41 final size:41
Alignment explanation
Indices: 33316065--33316195 Score: 101
Period size: 41 Copynumber: 3.1 Consensus size: 41
33316055 AAAACATGTC
33316065 ATAAACATGTTGGGGTAGTGCATTATGTATGGATTAATAAA
1 ATAAACATGTTGGGGTAGTGCATTATGTATGGATTAATAAA
* * ** * *
33316106 ATAAAGA-GCAT-GGGT-G-GACAAGATGTTATGG-CTAAAAACA
1 ATAAACATG-TTGGGGTAGTG-CATTATG-TATGGATTAATAA-A
33316146 TGTCATAAACATGTTGGGGTAGTGCATTATGTATGGATTAATAAA
1 ----ATAAACATGTTGGGGTAGTGCATTATGTATGGATTAATAAA
33316191 ATAAA
1 ATAAA
33316196 GAGCATGGGT
Statistics
Matches: 65, Mismatches: 12, Indels: 26
0.63 0.12 0.25
Matches are distributed among these distances:
38 1 0.02
39 11 0.17
40 11 0.17
41 12 0.18
44 7 0.11
45 11 0.17
46 11 0.17
47 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (41 bp):
ATAAACATGTTGGGGTAGTGCATTATGTATGGATTAATAAA
Found at i:33316169 original size:85 final size:85
Alignment explanation
Indices: 33316026--33316289 Score: 501
Period size: 85 Copynumber: 3.1 Consensus size: 85
33316016 GGCCGGCCAT
33316026 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
33316091 GTATGGATTAATAAAATAAA
66 GTATGGATTAATAAAATAAA
33316111 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
33316176 GTATGGATTAATAAAATAAA
66 GTATGGATTAATAAAATAAA
*
33316196 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAGCATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
*
33316261 GTAAGGATTAATAAAATAAA
66 GTATGGATTAATAAAATAAA
*
33316281 GGGCATGGG
1 GAGCATGGG
33316290 CAATAAAATA
Statistics
Matches: 176, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 176 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTATGGATTAATAAAATAAA
Found at i:33316242 original size:41 final size:41
Alignment explanation
Indices: 33316027--33316243 Score: 98
Period size: 39 Copynumber: 5.1 Consensus size: 41
33316017 GCCGGCCATG
33316027 AGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATA
1 AGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATA
* ** * *
33316068 AACATGTTGG-GGTAGTGCATTATG-TATGGATTAATAAA-A--T-AAA
1 AGCATG--GGTGG-A---CAAGATGTTATGG-CTAA-AAACATGTCATA
33316111 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATA
1 -AGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATA
* ** * *
33316153 AACATGTTGG-GGTAGTGCATTATG-TATGGATTAATAAA-A--T-AAA
1 AGCATG--GGTGG-A---CAAGATGTTATGG-CTAA-AAACATGTCATA
33316196 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATA
1 -AGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATA
33316238 AGCATG
1 AGCATG
33316244 TTGGGGTAGT
Statistics
Matches: 126, Mismatches: 20, Indels: 60
0.61 0.10 0.29
Matches are distributed among these distances:
38 6 0.05
39 18 0.14
40 10 0.08
41 18 0.14
42 14 0.11
43 14 0.11
44 12 0.10
45 10 0.08
46 18 0.14
47 6 0.05
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.27
Consensus pattern (41 bp):
AGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATA
Found at i:33318531 original size:47 final size:47
Alignment explanation
Indices: 33318480--33318623 Score: 234
Period size: 47 Copynumber: 3.1 Consensus size: 47
33318470 TTAGGATTTT
* *
33318480 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
33318527 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
33318574 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
33318621 ATG
1 ATG
33318624 CGAAACGTGT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 90 1.00
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:33318686 original size:46 final size:46
Alignment explanation
Indices: 33318597--33318687 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
33318587 GAACATGAAT
* * * *
33318597 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
33318643 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
33318688 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:33318884 original size:37 final size:37
Alignment explanation
Indices: 33318831--33318920 Score: 162
Period size: 37 Copynumber: 2.4 Consensus size: 37
33318821 GAAATATATC
33318831 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
* *
33318868 CCGGGTAAGACTCGATGACTACGTGTGGAGATTTTGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
33318905 CCGGGTAAGACCCGAT
1 CCGGGTAAGACCCGAT
33318921 NNNNNNNNNN
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
Found at i:33321898 original size:27 final size:27
Alignment explanation
Indices: 33321867--33322044 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33321857 TAAATTGTAC
33321867 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
33321894 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33321920 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
33321948 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
33321976 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33322003 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
33322030 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33322045 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:33321981 original size:82 final size:81
Alignment explanation
Indices: 33321868--33322023 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33321858 AAATTGTACA
* *
33321868 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
33321932 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
33321949 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
33322014 TGCGAGTTGA
65 TGCGAATTGA
33322024 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:33322035 original size:82 final size:81
Alignment explanation
Indices: 33321864--33322044 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
33321854 GATTAAATTG
* *
33321864 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
33321929 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
33321945 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
33322009 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
33322027 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
33322045 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:33329915 original size:27 final size:27
Alignment explanation
Indices: 33329884--33330061 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
33329874 TAAATTGTAC
33329884 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
33329911 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33329937 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
33329965 GGCACTAAGTGTGCGAGTTTAACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
33329993 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * * *
33330020 GGCACTAAGTGTGCGAGTTGATTTTAT
1 AGCACTAAGTGTGCGATTTGACTATGT
33330047 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
33330062 GGCTCGATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:33330001 original size:82 final size:81
Alignment explanation
Indices: 33329885--33330040 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33329875 AAATTGTACA
* *
33329885 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAATGAATATG-TGGCACTAAGTG
33329949 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
33329966 GCACTAAGTGTGCGAGTTTAACTATGTAGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTAACTATGTAGCACTAAGTGTGCGAAATGAATATGTGGCACTAAGTG
*
33330031 TGCGAGTTGA
65 TGCGAATTGA
33330041 TTTTATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAATGAATATGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:33330052 original size:82 final size:81
Alignment explanation
Indices: 33329881--33330061 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
33329871 GATTAAATTG
* *
33329881 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
33329946 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
33329962 TGCGGCACTAAGTGTGCGAGTTTAACTATGTAGCACTAAGTGTGCGATTTGATTATG-TGGCACT
1 TACAGCACTAAGTGTGCGA-TTTAACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* ***
33330026 AAGTGTGCGAGTTGATTT
64 AAGTGTGCGAATTGACCA
*
33330044 TATAGCACTAAGTGTGCG
1 TACAGCACTAAGTGTGCG
33330062 GGCTCGATAT
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:0.27, T:0.31
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:33341675 original size:45 final size:45
Alignment explanation
Indices: 33341584--33341754 Score: 197
Period size: 45 Copynumber: 3.9 Consensus size: 45
33341574 ATTTTTCCAT
* * * *
33341584 CGGCATT-TCGCCTGCTAGGCTCGAA-GCCCG-ATA-TAATTTTAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCAC
* * ** *
33341626 CGGCATTATATCCTACTAGGCTTGAAGGCTCGAATAGTATCTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
33341671 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
* * *
33341716 CGGCATCATAGCCTGCTAGGTTCAAAGGCCAGAATAGTA
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
33341755 CCGTACGATA
Statistics
Matches: 110, Mismatches: 15, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
42 7 0.06
43 14 0.13
44 4 0.04
45 84 0.76
46 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (45 bp):
CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
Found at i:33344570 original size:30 final size:30
Alignment explanation
Indices: 33344536--33344597 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
33344526 GTAATTAAAA
33344536 GAAATAAAAAGGGAAAATAAAGCCAAAATT
1 GAAATAAAAAGGGAAAATAAAGCCAAAATT
33344566 GAAATAAAAAGGGAAAATAAAGCCAAAATT
1 GAAATAAAAAGGGAAAATAAAGCCAAAATT
33344596 GA
1 GA
33344598 CTCATCTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.63, C:0.06, G:0.18, T:0.13
Consensus pattern (30 bp):
GAAATAAAAAGGGAAAATAAAGCCAAAATT
Found at i:33346014 original size:50 final size:49
Alignment explanation
Indices: 33345944--33346089 Score: 211
Period size: 50 Copynumber: 3.0 Consensus size: 49
33345934 ATAACTTCGA
*
33345944 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT-GG
* *
33345994 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTGG
* * * * *
33346043 TCGCATGTATAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
33346090 TGGCTACATA
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
49 42 0.49
50 44 0.51
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTGG
Found at i:33347006 original size:46 final size:47
Alignment explanation
Indices: 33346939--33347036 Score: 171
Period size: 46 Copynumber: 2.1 Consensus size: 47
33346929 ATTATAAATA
*
33346939 AGTAAGTTACTATGACTCGTGTGGACAGTTTGATGTGAGCATTTA-T
1 AGTAAGTGACTATGACTCGTGTGGACAGTTTGATGTGAGCATTTATT
*
33346985 AGTAAGTGACTATGACTCGTGTGGACAGTTTGTTGTGAGCATTTATT
1 AGTAAGTGACTATGACTCGTGTGGACAGTTTGATGTGAGCATTTATT
33347032 AGTAA
1 AGTAA
33347037 ATTGTGAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 43 0.88
47 6 0.12
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.37
Consensus pattern (47 bp):
AGTAAGTGACTATGACTCGTGTGGACAGTTTGATGTGAGCATTTATT
Found at i:33354988 original size:48 final size:47
Alignment explanation
Indices: 33354934--33355156 Score: 234
Period size: 48 Copynumber: 4.7 Consensus size: 47
33354924 CATCATGAGA
* * * *
33354934 GCTAGTGTAAGACCATGTTTGGGACATGGCATTGACGTTGATATGTAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATG-AT
** *
33354982 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CAATATGCGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGATATG-AT
* * *
33355030 GCTAGTGTAAGACCAAGTCTGGGACATGGCATCGGCATTGTTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGA-T
* * *
33355078 GCTAGTGTACGACCATGTTTGGGACATGGCATCGGCTTTGACATATGAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG--ATATGAT
* * *
33355127 -CCAATGTAAGACCATGTCTAGGACATGGCA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCA
33355157 CTGGCAACTT
Statistics
Matches: 145, Mismatches: 25, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
47 2 0.01
48 137 0.94
49 1 0.01
50 5 0.03
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAT
Found at i:33355053 original size:96 final size:96
Alignment explanation
Indices: 33354934--33355113 Score: 263
Period size: 96 Copynumber: 1.9 Consensus size: 96
33354924 CATCATGAGA
* * * * *
33354934 GCTAGTGTAAGACCATGTTTGGGACATGGCATTGACGTTGATATGTA-TGCTAGTGTAAGACCAT
1 GCTAGTGTAAGACCAAGTCTGGGACATGGCATCGACATTGATATG-AGAGCTAGTGTAAGACCAT
33354998 GTCTGGGACATGGCATCGGCCACAATATGCGT
65 GTCTGGGACATGGCATCGGCCACAATATGCGT
* * *
33355030 GCTAGTGTAAGACCAAGTCTGGGACATGGCATCGGCATTGTTATGAGAGCTAGTGTACGACCATG
1 GCTAGTGTAAGACCAAGTCTGGGACATGGCATCGACATTGATATGAGAGCTAGTGTAAGACCATG
*
33355095 TTTGGGACATGGCATCGGC
66 TCTGGGACATGGCATCGGC
33355114 TTTGACATAT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
95 1 0.01
96 73 0.99
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (96 bp):
GCTAGTGTAAGACCAAGTCTGGGACATGGCATCGACATTGATATGAGAGCTAGTGTAAGACCATG
TCTGGGACATGGCATCGGCCACAATATGCGT
Found at i:33372984 original size:24 final size:24
Alignment explanation
Indices: 33372947--33373035 Score: 74
Period size: 24 Copynumber: 3.6 Consensus size: 24
33372937 ATCGAAATTA
33372947 ATAATTAAAAATAAAATTATAAAAT
1 ATAA-TAAAAATAAAATTATAAAAT
*
33372972 ATAATAAAAATAAAAATA-AAAAGT
1 ATAATAAAAATAAAATTATAAAA-T
** *
33372996 AGTTTTAATAA-AAAATTATAAACAT
1 A-TAATAAAAATAAAATTATAAA-AT
*
33373021 AAAATAATAAATAAA
1 ATAATAA-AAATAAA
33373036 TGTTTTTAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
23 4 0.08
24 24 0.49
25 17 0.35
26 4 0.08
ACGTcount: A:0.69, C:0.01, G:0.02, T:0.28
Consensus pattern (24 bp):
ATAATAAAAATAAAATTATAAAAT
Found at i:33372985 original size:6 final size:6
Alignment explanation
Indices: 33372952--33372993 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
33372942 AATTAATAAT
* *
33372952 TAAAAA TAAAAT TATAAAA T-ATAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TA-AAAA TAAAAA TAAAAA TAAAAA TAAAAA
33372994 GTAGTTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
5 4 0.13
6 22 0.73
7 4 0.13
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (6 bp):
TAAAAA
Found at i:33385728 original size:27 final size:27
Alignment explanation
Indices: 33385698--33385751 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
33385688 TGTCATGTGA
* *
33385698 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
33385725 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
33385752 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:33386076 original size:49 final size:49
Alignment explanation
Indices: 33386004--33386191 Score: 259
Period size: 49 Copynumber: 3.8 Consensus size: 49
33385994 GTAGGTCACG
*
33386004 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAATTGGTCGCA
* * * * * *
33386053 TGTGTAGTACTAAGTGTAGGCTACTATGCATACCCGATAATTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAA-TT-GGTCGCA
* * *
33386104 TGTGTAGTACTAAGTGCAGGCTACTACGTGTGCCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAATTGGTCGCA
*
33386153 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATA
33386192 GCCTTGTCTA
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 75 0.64
50 4 0.03
51 38 0.32
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAATTGGTCGCA
Found at i:33386174 original size:100 final size:100
Alignment explanation
Indices: 33385999--33386191 Score: 341
Period size: 100 Copynumber: 1.9 Consensus size: 100
33385989 CTATTGTAGG
*
33385999 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
* *
33386064 AAGTGTAGGCTACTATGCATACCCGATAATTTCGA
66 AAGTGCAGGCTACTATGCATACCAGATAATTTCGA
*
33386099 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTGCCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
*
33386164 AAGTGCAGGCTACTATGCGTACCAGATA
66 AAGTGCAGGCTACTATGCATACCAGATA
33386192 GCCTTGTCTA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 88 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCAGATAATTTCGA
Found at i:33391916 original size:49 final size:50
Alignment explanation
Indices: 33391834--33392058 Score: 199
Period size: 49 Copynumber: 4.5 Consensus size: 50
33391824 TGAGGTCACG
* * * * *
33391834 TGTGTAGTACTAAGTTCATGCTACTACGTGTACCGGATGATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTAGATCGCA
* * * * * *
33391883 TGTGCAGTACTAAGTGCAGGCTACTATGCGTACCCAATAACTTCA-ATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAA-TT-AGATCGCA
* * ** * *
33391934 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATC-AGATGGTTAGGTC-AA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGA-ATAATTAGATCGCA
* *
33391983 GTGTGTAGTACTAAGTGCAGGCAACTACGTATACCGAATAATT-GATCGCA
1 -TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTAGATCGCA
*
33392033 TGTGTAGTACTAATTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
33392059 TGCGTACCAG
Statistics
Matches: 137, Mismatches: 31, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
49 60 0.44
50 42 0.31
51 35 0.26
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTAGATCGCA
Found at i:33399615 original size:12 final size:12
Alignment explanation
Indices: 33399581--33399609 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
33399571 CCTTGATCCA
33399581 CTCCTTAAATCT
1 CTCCTTAAATCT
33399593 CTCCTTAAATCT
1 CTCCTTAAATCT
33399605 CTCCT
1 CTCCT
33399610 CTAATCCCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.21, C:0.38, G:0.00, T:0.41
Consensus pattern (12 bp):
CTCCTTAAATCT
Found at i:33403146 original size:13 final size:13
Alignment explanation
Indices: 33403130--33403154 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33403120 TTAAATCAGT
33403130 TAATTAGTTTAAA
1 TAATTAGTTTAAA
33403143 TAATTAGTTTAA
1 TAATTAGTTTAA
33403155 TAAATAAAGC
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:33408408 original size:5 final size:5
Alignment explanation
Indices: 33408382--33408469 Score: 65
Period size: 5 Copynumber: 16.8 Consensus size: 5
33408372 TCCTCCTATT
*
33408382 TTTTA -TTTA TTCTTA TTTTTA TTTTA -TTTA TTTTTA TTTTTC TTTTGA
1 TTTTA TTTTA TT-TTA -TTTTA TTTTA TTTTA -TTTTA -TTTTA TTTT-A
* *
33408430 TTTTTA TTTTCA TTTCA ATTT- TTTTA TTTTA TTTTA TTTT
1 -TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
33408470 GAAAGACATA
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
4 11 0.16
5 31 0.46
6 20 0.29
7 6 0.09
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:33408434 original size:7 final size:6
Alignment explanation
Indices: 33408378--33408469 Score: 68
Period size: 6 Copynumber: 16.0 Consensus size: 6
33408368 TGACTCCTCC
* *
33408378 TATTTT T-TATT TATTCT TATTTT TA-TTT TA--TT TATTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
* * * * * *
33408422 TCTTTT GATTTT TATTTT CATTTC AATTTT TTTATTT TA-TTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TAT-TTT TATTTT TATTTT
33408470 GAAAGACATA
Statistics
Matches: 66, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
4 4 0.06
5 14 0.21
6 44 0.67
7 4 0.06
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.77
Consensus pattern (6 bp):
TATTTT
Found at i:33408452 original size:18 final size:16
Alignment explanation
Indices: 33408394--33408444 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 16
33408384 TTATTTATTC
33408394 TTATTTTTATTTT-AT
1 TTATTTTTATTTTCAT
*
33408409 TTATTTTTATTTTTCTT
1 TTATTTTTA-TTTTCAT
33408426 TTGATTTTTATTTTCAT
1 TT-ATTTTTATTTTCAT
33408443 TT
1 TT
33408445 CAATTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 9 0.29
16 4 0.13
17 11 0.35
18 7 0.23
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (16 bp):
TTATTTTTATTTTCAT
Found at i:33408454 original size:38 final size:38
Alignment explanation
Indices: 33408378--33408467 Score: 96
Period size: 38 Copynumber: 2.4 Consensus size: 38
33408368 TGACTCCTCC
* * *
33408378 TATTTTTTATTTATTCTTATTTTTATTTTATTTATTTT
1 TATTTTTTATTTATTCTTATTTTCATTTCAATTATTTT
*
33408416 TATTTTTCT-TTTGATTTTTATTTTCATTTCAATT-TTTT
1 TATTTTT-TATTT-ATTCTTATTTTCATTTCAATTATTTT
*
33408454 TATTTTAT-TTTATT
1 TATTTTTTATTTATT
33408468 TTGAAAGACA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
36 3 0.07
37 4 0.09
38 20 0.44
39 18 0.40
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (38 bp):
TATTTTTTATTTATTCTTATTTTCATTTCAATTATTTT
Found at i:33412009 original size:207 final size:207
Alignment explanation
Indices: 33411654--33412067 Score: 828
Period size: 207 Copynumber: 2.0 Consensus size: 207
33411644 TCCTCCAACC
33411654 TATCGATTCAGTTTCATATCAATTCATGCAATCACATTCCATATACTCATCAATAGGACATTGAA
1 TATCGATTCAGTTTCATATCAATTCATGCAATCACATTCCATATACTCATCAATAGGACATTGAA
33411719 GCATTTTCATAAATCAATTTATTTTCGTTACAATCAAACGACTAAACGGCCTTTCACCCATCCTA
66 GCATTTTCATAAATCAATTTATTTTCGTTACAATCAAACGACTAAACGGCCTTTCACCCATCCTA
33411784 CGATAAATTTTATGTACGTGACTTCAAGTATATTTGTCACATAGGTTCAAACTTACCGAGCTCAA
131 CGATAAATTTTATGTACGTGACTTCAAGTATATTTGTCACATAGGTTCAAACTTACCGAGCTCAA
33411849 CACCAAGTATAA
196 CACCAAGTATAA
33411861 TATCGATTCAGTTTCATATCAATTCATGCAATCACATTCCATATACTCATCAATAGGACATTGAA
1 TATCGATTCAGTTTCATATCAATTCATGCAATCACATTCCATATACTCATCAATAGGACATTGAA
33411926 GCATTTTCATAAATCAATTTATTTTCGTTACAATCAAACGACTAAACGGCCTTTCACCCATCCTA
66 GCATTTTCATAAATCAATTTATTTTCGTTACAATCAAACGACTAAACGGCCTTTCACCCATCCTA
33411991 CGATAAATTTTATGTACGTGACTTCAAGTATATTTGTCACATAGGTTCAAACTTACCGAGCTCAA
131 CGATAAATTTTATGTACGTGACTTCAAGTATATTTGTCACATAGGTTCAAACTTACCGAGCTCAA
33412056 CACCAAGTATAA
196 CACCAAGTATAA
33412068 GCATAGCACC
Statistics
Matches: 207, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
207 207 1.00
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.33
Consensus pattern (207 bp):
TATCGATTCAGTTTCATATCAATTCATGCAATCACATTCCATATACTCATCAATAGGACATTGAA
GCATTTTCATAAATCAATTTATTTTCGTTACAATCAAACGACTAAACGGCCTTTCACCCATCCTA
CGATAAATTTTATGTACGTGACTTCAAGTATATTTGTCACATAGGTTCAAACTTACCGAGCTCAA
CACCAAGTATAA
Found at i:33412212 original size:27 final size:27
Alignment explanation
Indices: 33412182--33412359 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
33412172 ATATTGAGTC
* * * *
33412182 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
33412209 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33412236 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
* * *
33412264 CGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
33412291 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
33412318 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33412345 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33412360 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 106 0.80
28 25 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:33412321 original size:82 final size:81
Alignment explanation
Indices: 33412203--33412358 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33412193 TGCTATATAA
* *
33412203 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
33412268 CACTTAGTGCCACATGG
65 CACTTAGTGCCACATGG
* * **
33412285 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
33412349 CACTTAGTGC
65 CACTTAGTGC
33412359 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCACATGG
Found at i:33424537 original size:48 final size:48
Alignment explanation
Indices: 33424429--33424660 Score: 175
Period size: 48 Copynumber: 4.9 Consensus size: 48
33424419 CATTTGGTTA
* * * ***
33424429 ATATCTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGAAAC
1 ATATGTGTGCTAGTGTAAGACCATATCTGGGACATGGCATCAGCATTG
*** * *
33424476 ATCATGAAAGCTAGTGTACGACCATATCTGGGACATGGCATCAGCGTTG
1 AT-ATGTGTGCTAGTGTAAGACCATATCTGGGACATGGCATCAGCATTG
* * * * **
33424525 ATATGTGTGCTAGTGTTAGACCA-AGTCTGGGATATGGCGTTAGCCA-CA
1 ATATGTGTGCTAGTGTAAGACCATA-TCTGGGACATGGCATCAG-CATTG
* * *
33424573 ATATGTATGCTAGT-TAAGACCATGTCTGGGACATGGCATCGGCATTG
1 ATATGTGTGCTAGTGTAAGACCATATCTGGGACATGGCATCAGCATTG
* * * * * *
33424620 TTTTGAGAGATAGTGTAAGACCATGTCTGGGACATGGCATC
1 ATATGTGTGCTAGTGTAAGACCATATCTGGGACATGGCATC
33424661 GGCAACTTAA
Statistics
Matches: 141, Mismatches: 37, Indels: 13
0.74 0.19 0.07
Matches are distributed among these distances:
46 2 0.01
47 32 0.23
48 103 0.73
49 4 0.03
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (48 bp):
ATATGTGTGCTAGTGTAAGACCATATCTGGGACATGGCATCAGCATTG
Found at i:33424641 original size:95 final size:96
Alignment explanation
Indices: 33424439--33424657 Score: 235
Period size: 95 Copynumber: 2.3 Consensus size: 96
33424429 ATATCTGTGC
* * ** ** * * *
33424439 TAGTGTAAGACCATGTCTGGGACATGGCATCGGAAAC-ATCATGAAAGCTAGTGTACGACCATAT
1 TAGTGTAAGACCAAGTCTGGGACATGGCGTTAGCCACAAT-ATGTATGCTAGTGTAAGACCATAT
* * * *
33424503 CTGGGACATGGCATCAGCGTTGATATGTGTGC
65 CTGGGACATGGCATCAGCATTGATATGAGAGA
* * *
33424535 TAGTGTTAGACCAAGTCTGGGATATGGCGTTAGCCACAATATGTATGCTAGT-TAAGACCATGTC
1 TAGTGTAAGACCAAGTCTGGGACATGGCGTTAGCCACAATATGTATGCTAGTGTAAGACCATATC
* * *
33424599 TGGGACATGGCATCGGCATTGTTTTGAGAGA
66 TGGGACATGGCATCAGCATTGATATGAGAGA
*
33424630 TAGTGTAAGACCATGTCTGGGACATGGC
1 TAGTGTAAGACCAAGTCTGGGACATGGC
33424658 ATCGGCAACT
Statistics
Matches: 100, Mismatches: 22, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
95 59 0.59
96 39 0.39
97 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (96 bp):
TAGTGTAAGACCAAGTCTGGGACATGGCGTTAGCCACAATATGTATGCTAGTGTAAGACCATATC
TGGGACATGGCATCAGCATTGATATGAGAGA
Found at i:33426762 original size:22 final size:23
Alignment explanation
Indices: 33426680--33426793 Score: 81
Period size: 23 Copynumber: 5.0 Consensus size: 23
33426670 AGACTCACCA
* *
33426680 CAGCTCGTAAGAGCTTACTATTT
1 CAGCTCGAAAGAGCTTACTGTTT
* ** *
33426703 CAGC-CCATTGGAGCTTACCGTTT
1 CAGCTCGA-AAGAGCTTACTGTTT
* **
33426726 CAGCTCGTATTAGCTTACTG-TT
1 CAGCTCGAAAGAGCTTACTGTTT
*
33426748 CAGCTCGAAAGAGCTTATTGTTT
1 CAGCTCGAAAGAGCTTACTGTTT
* *
33426771 CAACTC-AACAGAGCTTATTGTTT
1 CAGCTCGAA-AGAGCTTACTGTTT
33426794 ATCATCTCAG
Statistics
Matches: 70, Mismatches: 17, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
22 21 0.30
23 48 0.69
24 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (23 bp):
CAGCTCGAAAGAGCTTACTGTTT
Found at i:33426985 original size:20 final size:20
Alignment explanation
Indices: 33426960--33427005 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
33426950 GAATAAGCTA
* * *
33426960 TGTTGAAATGGATGAGTTAT
1 TGTTGAAATGAATGAATTAC
33426980 TGTTGAAATGAATGAATTAC
1 TGTTGAAATGAATGAATTAC
33427000 TGTTGA
1 TGTTGA
33427006 TACAGATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.26, T:0.39
Consensus pattern (20 bp):
TGTTGAAATGAATGAATTAC
Found at i:33427052 original size:20 final size:20
Alignment explanation
Indices: 33426991--33427088 Score: 65
Period size: 20 Copynumber: 5.0 Consensus size: 20
33426981 GTTGAAATGA
*
33426991 ATGAATTACT-GTTGATACAG
1 ATGAATTACTGGTT-ATACGG
* * * *
33427011 ATAAATTA-TTGATATACCG
1 ATGAATTACTGGTTATACGG
33427030 ATGAATTACTGGTTATACGG
1 ATGAATTACTGGTTATACGG
* ** * *
33427050 ATGAACTACTAATTATATGA
1 ATGAATTACTGGTTATACGG
* *
33427070 ATGAATTACAGTTTATACG
1 ATGAATTACTGGTTATACG
33427089 AATAAAAATG
Statistics
Matches: 59, Mismatches: 17, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
19 13 0.22
20 46 0.78
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (20 bp):
ATGAATTACTGGTTATACGG
Found at i:33428685 original size:50 final size:53
Alignment explanation
Indices: 33428440--33428695 Score: 236
Period size: 55 Copynumber: 4.8 Consensus size: 53
33428430 ATTAGGGTTT
* * * *
33428440 AAGGATAACATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTA-AGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAA-TGGTAA-G-TTCTATAAGA
* * * * * *
33428495 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAACTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT-CTATAA-G-A
* * * * *
33428551 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAA-GA
*
33428603 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT-T-TAA-A
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGA
* * *
33428653 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG
33428696 GTACCCGCGT
Statistics
Matches: 168, Mismatches: 27, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
50 40 0.24
52 9 0.05
53 44 0.26
54 7 0.04
55 64 0.38
56 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGA
Found at i:33438961 original size:46 final size:46
Alignment explanation
Indices: 33438905--33439041 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
33438895 TATATATACA
* * * *
33438905 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * * *
33438951 CATCTTATACACGTTTCGCATTAGCCATTCAGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
33438997 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
33439042 ATACATGTTC
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:33439079 original size:47 final size:47
Alignment explanation
Indices: 33439015--33439487 Score: 856
Period size: 47 Copynumber: 10.1 Consensus size: 47
33439005 ACACATTTCG
* * *
33439015 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCA
33439062 CATTGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCA
33439109 CATTGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCA
33439156 CATTGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCA
33439203 CATTGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCA
33439250 CATTGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCA
33439297 CATTGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCA
33439344 CATTGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCA
* **
33439391 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCA
* * **
33439438 CATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCA
33439485 CAT
1 CAT
33439488 AAAATCCTAA
Statistics
Matches: 413, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 413 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCAGCCTTATCACATATATACATGTTCACATTCATCA
Found at i:33442060 original size:39 final size:39
Alignment explanation
Indices: 33442005--33442148 Score: 207
Period size: 39 Copynumber: 3.7 Consensus size: 39
33441995 CCAACATAAT
33442005 TGCCTTCGGGACTTAGCCCAGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCAGATATAACACCAGCACGAA
*
33442044 TGCCTTCGGGATTTAGCCCAGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCAGATATAACACCAGCACGAA
* ** * *
33442083 TGCCATCGGGACTTAGCCTGGATATAACAACAGCACAAA
1 TGCCTTCGGGACTTAGCCCAGATATAACACCAGCACGAA
* * *
33442122 TGCCTTCGGGACTGAGCGCGGATATAA
1 TGCCTTCGGGACTTAGCCCAGATATAA
33442149 ATCTCACACA
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 94 1.00
ACGTcount: A:0.31, C:0.27, G:0.23, T:0.19
Consensus pattern (39 bp):
TGCCTTCGGGACTTAGCCCAGATATAACACCAGCACGAA
Found at i:33444208 original size:45 final size:44
Alignment explanation
Indices: 33444122--33444208 Score: 104
Period size: 45 Copynumber: 2.0 Consensus size: 44
33444112 TTATTTAATT
* * *
33444122 TGAACTCATTGAGTTGTGTCTGAGTTCATGATATATGTGACATC
1 TGAACCCATTGAGTTGTGTCTGAGTTCATGATAGATATGACATC
* *
33444166 TGAACCCATTGAGTTGTGGTCTGAGTGT-GTGATAGGTATGACA
1 TGAACCCATTGAGTTGT-GTCTGAGT-TCATGATAGATATGACA
33444209 CATGTTTTGG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
44 16 0.44
45 19 0.53
46 1 0.03
ACGTcount: A:0.24, C:0.13, G:0.28, T:0.36
Consensus pattern (44 bp):
TGAACCCATTGAGTTGTGTCTGAGTTCATGATAGATATGACATC
Found at i:33446846 original size:12 final size:12
Alignment explanation
Indices: 33446829--33446853 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33446819 GGTGTTCATT
33446829 CGGTTAACCGAC
1 CGGTTAACCGAC
33446841 CGGTTAACCGAC
1 CGGTTAACCGAC
33446853 C
1 C
33446854 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:33447027 original size:9 final size:9
Alignment explanation
Indices: 33447013--33447277 Score: 521
Period size: 9 Copynumber: 29.4 Consensus size: 9
33447003 TTTGGTTAAA
33447013 AATTACCCG
1 AATTACCCG
33447022 AATTACCCG
1 AATTACCCG
33447031 AATTACCCG
1 AATTACCCG
33447040 AATTACCCG
1 AATTACCCG
33447049 AATTACCCG
1 AATTACCCG
33447058 AATTACCCG
1 AATTACCCG
33447067 AATTACCCG
1 AATTACCCG
33447076 AATTACCCG
1 AATTACCCG
33447085 AATTACCCG
1 AATTACCCG
33447094 AATTACCCG
1 AATTACCCG
33447103 AATTACCCG
1 AATTACCCG
33447112 AATTACCCG
1 AATTACCCG
33447121 AATTACCCG
1 AATTACCCG
33447130 AATTACCCG
1 AATTACCCG
33447139 AATTACCCG
1 AATTACCCG
33447148 AATTACCCG
1 AATTACCCG
33447157 AATTACCCG
1 AATTACCCG
33447166 AATTACCCG
1 AATTACCCG
33447175 AATTACCCG
1 AATTACCCG
33447184 AATTACCCG
1 AATTACCCG
33447193 AATTACCCG
1 AATTACCCG
33447202 AATTACCCG
1 AATTACCCG
33447211 AATTACCCG
1 AATTACCCG
33447220 AATTACCCG
1 AATTACCCG
33447229 AATTACCCG
1 AATTACCCG
33447238 AATTACCCG
1 AATTACCCG
33447247 AATTACCCG
1 AATTACCCG
33447256 AATTACCCG
1 AATTACCCG
*
33447265 AATTACCCT
1 AATTACCCG
33447274 AATT
1 AATT
33447278 GGGTAAACTT
Statistics
Matches: 255, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 255 1.00
ACGTcount: A:0.34, C:0.33, G:0.11, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:33472150 original size:27 final size:28
Alignment explanation
Indices: 33472101--33472181 Score: 76
Period size: 29 Copynumber: 2.9 Consensus size: 28
33472091 ACCCCTACAT
* *
33472101 ACATGCATATGGCCCA-CTTGGCCCA-TC
1 ACATTCATATGGCCCATC-AGGCCCATTC
*
33472128 TCATTCATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCC-ATTC
* * *
33472157 ACATTCATATCGCCTATTAGGCCCA
1 ACATTCATATGGCCCATCAGGCCCA
33472182 AATCACCTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
27 19 0.43
28 3 0.07
29 22 0.50
ACGTcount: A:0.25, C:0.35, G:0.15, T:0.26
Consensus pattern (28 bp):
ACATTCATATGGCCCATCAGGCCCATTC
Found at i:33472178 original size:29 final size:29
Alignment explanation
Indices: 33472129--33472216 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 29
33472119 TGGCCCATCT
* *
33472129 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATCGCCCATCAGGCCCAAATCA
* *
33472158 CATTCATATCGCCTATTAGGCCCAAATCA
1 CATTCATATCGCCCATCAGGCCCAAATCA
* * * * * *
33472187 CCTTTATGTGGCCCGTTAGGCCCAAATCA
1 CATTCATATCGCCCATCAGGCCCAAATCA
33472216 C
1 C
33472217 CTTGTATTAA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.26
Consensus pattern (29 bp):
CATTCATATCGCCCATCAGGCCCAAATCA
Found at i:33478983 original size:15 final size:16
Alignment explanation
Indices: 33478938--33478971 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33478928 TGTAACTATA
* *
33478938 AAACCAAAGTGAACAT
1 AAACCAAACTTAACAT
33478954 AAACCAAACTTAACAT
1 AAACCAAACTTAACAT
33478970 AA
1 AA
33478972 CCGAATTTAA
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:0.59, C:0.21, G:0.06, T:0.15
Consensus pattern (16 bp):
AAACCAAACTTAACAT
Found at i:33485388 original size:43 final size:44
Alignment explanation
Indices: 33485308--33485393 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 44
33485298 AAACAACTTA
33485308 AAATAAAGAAGTAAGAAAGAATATAAAAAAATAATGATTAATAAC
1 AAATAAAGAAGTAAGAAAGAATATAAAAAAATAATGA-TAATAAC
*
33485353 AAAT-AAGAA-TAAGAAAG-ATGATAAAATAAA-CATGATAATAA
1 AAATAAAGAAGTAAGAAAGAAT-ATAAAA-AAATAATGATAATAA
33485394 TAATAATAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
42 8 0.21
43 18 0.47
44 8 0.21
45 4 0.11
ACGTcount: A:0.66, C:0.02, G:0.12, T:0.20
Consensus pattern (44 bp):
AAATAAAGAAGTAAGAAAGAATATAAAAAAATAATGATAATAAC
Found at i:33494129 original size:55 final size:55
Alignment explanation
Indices: 33494034--33494149 Score: 144
Period size: 55 Copynumber: 2.1 Consensus size: 55
33494024 TAGGCCCACG
** *
33494034 CCCGTGTTAATTTAACAGGTTCACCCACAGTTGCTTGGCACGGGCGTGTCGTACA
1 CCCGTGTTAATTTAACAGGTTCACCCACAGTTGCAAGGCACGGGCGTGTCGCACA
* * * * *
33494089 CCCGTGTTAATTTGACATGTTCAGCCACGGGTT-CAAGGCACGGGCGTGTCGCACG
1 CCCGTGTTAATTTAACAGGTTCACCCAC-AGTTGCAAGGCACGGGCGTGTCGCACA
33494144 CCCGTG
1 CCCGTG
33494150 CTGTTTTGGC
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
55 49 0.94
56 3 0.06
ACGTcount: A:0.18, C:0.28, G:0.28, T:0.25
Consensus pattern (55 bp):
CCCGTGTTAATTTAACAGGTTCACCCACAGTTGCAAGGCACGGGCGTGTCGCACA
Found at i:33496268 original size:25 final size:25
Alignment explanation
Indices: 33496215--33496268 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
33496205 AATTGTATTT
* *
33496215 AATTATTTAATTTTTCATATTATTG
1 AATTATTTAATTTTTCATATAATTA
33496240 AATTA-TTAATATTTT-ATACTAATTA
1 AATTATTTAAT-TTTTCATA-TAATTA
33496265 AATT
1 AATT
33496269 TTTCTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.56
Consensus pattern (25 bp):
AATTATTTAATTTTTCATATAATTA
Found at i:33501024 original size:24 final size:23
Alignment explanation
Indices: 33500997--33501042 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
33500987 ATCCACACTG
*
33500997 GAGTGTAGGTTTGGATGAGATACA
1 GAGTGTAGGGTTGGATG-GATACA
*
33501021 GAGTGTAGGGTTGGTTGGATAC
1 GAGTGTAGGGTTGGATGGATAC
33501043 TTGTGCATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.24, C:0.04, G:0.41, T:0.30
Consensus pattern (23 bp):
GAGTGTAGGGTTGGATGGATACA
Found at i:33503511 original size:28 final size:28
Alignment explanation
Indices: 33503471--33503526 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
33503461 GTTTGAGCCT
33503471 TTCAAGTCAACCTTGATGAATTTTTATC
1 TTCAAGTCAACCTTGATGAATTTTTATC
33503499 TTCAAGTCAACCTTGATGAATTTTTATC
1 TTCAAGTCAACCTTGATGAATTTTTATC
33503527 CCTTGAAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.43
Consensus pattern (28 bp):
TTCAAGTCAACCTTGATGAATTTTTATC
Found at i:33503742 original size:3 final size:3
Alignment explanation
Indices: 33503734--33503771 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
33503724 AAATGCTCAT
*
33503734 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA AAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
33503772 GCATATGTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:33508893 original size:43 final size:43
Alignment explanation
Indices: 33508830--33508911 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
33508820 ACATATCATT
* *
33508830 TCACCGGCACTACGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
33508873 TCACCGGCACAAAGCTTGCTAGGCATGAAGGCCCGAATA
1 TCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATA
33508912 TAATACCAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.29, C:0.33, G:0.24, T:0.13
Consensus pattern (43 bp):
TCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:33508985 original size:38 final size:38
Alignment explanation
Indices: 33508904--33509026 Score: 149
Period size: 38 Copynumber: 3.2 Consensus size: 38
33508894 GGCATGAAGG
* * * *
33508904 CCCGAATATAATACCAGCACTAGGCCT-CGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
33508941 CCCGGATATAATACCAGCACGAAGCCTGCGCGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
33508979 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
33509018 GCCCGGATA
1 -CCCGGATA
33509027 CACATCAAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
37 24 0.32
38 37 0.50
39 5 0.07
40 8 0.11
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:33534406 original size:26 final size:26
Alignment explanation
Indices: 33534370--33534421 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
33534360 GGTCAAAGGC
33534370 CGGTTAAGTGTTCTGGAAATGATTAA
1 CGGTTAAGTGTTCTGGAAATGATTAA
*
33534396 CGGTTAAGTGTTTTGGAAATGATTAA
1 CGGTTAAGTGTTCTGGAAATGATTAA
33534422 GCTAGGTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
CGGTTAAGTGTTCTGGAAATGATTAA
Found at i:33535411 original size:40 final size:40
Alignment explanation
Indices: 33535317--33535501 Score: 223
Period size: 40 Copynumber: 4.6 Consensus size: 40
33535307 TATTCGAATG
*
33535317 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * * *
33535358 ATAACCGGACTAAGATCTGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* *
33535398 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
*
33535438 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
*
33535478 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
33535502 CTTGTGCAAG
Statistics
Matches: 122, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
39 1 0.01
40 92 0.75
41 28 0.23
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:33535487 original size:80 final size:81
Alignment explanation
Indices: 33535317--33535501 Score: 250
Period size: 80 Copynumber: 2.3 Consensus size: 81
33535307 TATTCGAATG
* * * *
33535317 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCTGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
*
33535382 ATTCGTGCGAGTTGCT
66 ATTCATGCGAGTTGCT
* *
33535398 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* *
33535461 CATTTATGCTAG-TGACT
65 CATTCATGCGAGTTG-CT
33535478 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
33535502 CTTGTGCAAG
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
79 3 0.03
80 58 0.62
81 32 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCT
Done.