Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 49 of 145
Found at i:17214333 original size:23 final size:22
Alignment explanation
Indices: 17214307--17214350 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
17214297 AATATGTTAC
*
17214307 TTTTATAGTTTATCGCACACTTA
1 TTTTATAGTTTAT-GCAAACTTA
* *
17214330 TTTTCTGGTTTATGCAAACTT
1 TTTTATAGTTTATGCAAACTT
17214351 TCACATATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.23, C:0.16, G:0.11, T:0.50
Consensus pattern (22 bp):
TTTTATAGTTTATGCAAACTTA
Found at i:17217117 original size:15 final size:13
Alignment explanation
Indices: 17217053--17217143 Score: 60
Period size: 13 Copynumber: 6.9 Consensus size: 13
17217043 TTTGATAAAA
*
17217053 ACATAAAAATAAT
1 ACATAAATATAAT
*
17217066 A-ATACATGATAAT
1 ACATAAAT-ATAAT
* * **
17217079 GCATGAATGCAAT
1 ACATAAATATAAT
17217092 ACATAAATATAAT
1 ACATAAATATAAT
17217105 ACAT-AATAATATAT
1 ACATAAAT-ATA-AT
* *
17217119 ATATAAATGTAAT
1 ACATAAATATAAT
*
17217132 ATATAAATATAA
1 ACATAAATATAA
17217144 CAAGGATATG
Statistics
Matches: 59, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
12 7 0.12
13 38 0.64
14 11 0.19
15 3 0.05
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.31
Consensus pattern (13 bp):
ACATAAATATAAT
Found at i:17218939 original size:102 final size:98
Alignment explanation
Indices: 17218787--17219048 Score: 328
Period size: 102 Copynumber: 2.6 Consensus size: 98
17218777 GCTTCGCTGT
* * * *
17218787 AACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGAGTC
1 AACTTCAGGGAGATAAGACTGGTGGCTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAGAGTC
*
17218852 GCCATAATTTGTAGCTTTAATCTATTCCATCCGCTAC
66 GCCATAATTTGTAGCTTTAATCT-TT---TCCACTAC
*
17218889 AACTTCAGGGAGATAAGACTGGTGGCTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAGATTC
1 AACTTCAGGGAGATAAGACTGGTGGCTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAGAGTC
*
17218954 GTCATAATTTGTAGCTTTAATCTTTTCCACTAC
66 GCCATAATTTGTAGCTTTAATCTTTTCCACTAC
* * * * * ** *
17218987 AA-TGCTAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCTGCTGCAACTTCAGGGAGATAAG
1 AACTTC-AGGGAGATAAGACT-GGTGGCTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAG
17219049 GCTGGTGGCT
Statistics
Matches: 143, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
97 2 0.01
98 21 0.15
99 36 0.25
101 2 0.01
102 82 0.57
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (98 bp):
AACTTCAGGGAGATAAGACTGGTGGCTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAGAGTC
GCCATAATTTGTAGCTTTAATCTTTTCCACTAC
Found at i:17219067 original size:143 final size:143
Alignment explanation
Indices: 17218885--17219231 Score: 437
Period size: 143 Copynumber: 2.4 Consensus size: 143
17218875 ATTCCATCCG
*
17218885 CTACAACTTCAGGGAGATAAGACTGGTGGCTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAG
1 CTACAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
* * * * ** * * *
17218950 ATTCGTCATAATTTGTAGCTTTAATCTTTTCCACTACAATGCTAGGGAAATAAGATTCGCTGTCT
66 ATCCGCCATAATTTGCAGCTTTAATCTGTTCCACTACAACACCAAGGAAATAAGATTCGATGTCT
**
17219015 TCAGTCTGCTCTG
131 TCAGTCTGCTCCA
* * * **
17219028 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCTACTTTTGGAAGATAAG
1 CTACAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
**
17219093 ATCCGCCATAATTTGCAGCTTTAATCTGTTCCACTGTAACACCAAGGAAATAAGATTCGATGTCT
66 ATCCGCCATAATTTGCAGCTTTAATCTGTTCCACTACAACACCAAGGAAATAAGATTCGATGTCT
*
17219158 TCAGTTTGCTCCA
131 TCAGTCTGCTCCA
* ** * * * *
17219171 CTACAACTTCAGGGAGATAAAACT--TCACTTCAATCCGCTCCATTGCAACTTTAGGGAGATA
1 CTACAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATA
17219232 GGATTATTGG
Statistics
Matches: 174, Mismatches: 30, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
141 30 0.17
143 144 0.83
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (143 bp):
CTACAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
ATCCGCCATAATTTGCAGCTTTAATCTGTTCCACTACAACACCAAGGAAATAAGATTCGATGTCT
TCAGTCTGCTCCA
Found at i:17219073 original size:245 final size:245
Alignment explanation
Indices: 17218643--17219125 Score: 765
Period size: 245 Copynumber: 2.0 Consensus size: 245
17218633 TACTCCACTG
*
17218643 CAACTTCAGGGAGATAAGGCTGGTGGCTTCGATCTGCTCCACTGCAACTTCAGGAAGATAAAATT
1 CAACTTCAGGGAGATAAGACTGGTGGCTTCGATCTGCTCCACTGCAACTTCAGGAAGATAAAATT
* * *
17218708 CGCCATAACTTGTGGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTTTCTTCA
66 CGCCATAACTTGTAGCTTTAATCTGTTCCACTACAATGCCAGGGAAATAAGATTCGCTGTCTTCA
*
17218773 GTCTGCTTCGCTGTAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTGCAACTTCA
131 GTCTGCTTCGCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTGCAACTTCA
*
17218838 GGAAGATAAGAGT-CGCCATAATTTGTAGCTTTAATCTATTCCATCCGCTA
196 GGAAGATAAGA-TCCGCCATAATTTGCAGCTTTAATCTATTCCATCCGCTA
*
17218888 CAACTTCAGGGAGATAAGACTGGTGGCTTC-AGTCTGCTCCACTGCAACTTCAGGAAGATAAGAT
1 CAACTTCAGGGAGATAAGACTGGTGGCTTCGA-TCTGCTCCACTGCAACTTCAGGAAGATAAAAT
* * * *
17218952 TCGTCATAATTTGTAGCTTTAATCTTTTCCACTACAATGCTAGGGAAATAAGATTCGCTGTCTTC
65 TCGCCATAACTTGTAGCTTTAATCTGTTCCACTACAATGCCAGGGAAATAAGATTCGCTGTCTTC
* * *
17219017 AGTCTGC-TCTGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCTACTT
130 AGTCTGCTTC-GCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTGCAACTT
** *
17219081 TTGGAAGATAAGATCCGCCATAATTTGCAGCTTTAATCTGTTCCA
194 CAGGAAGATAAGATCCGCCATAATTTGCAGCTTTAATCTATTCCA
17219126 CTGTAACACC
Statistics
Matches: 218, Mismatches: 17, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
244 4 0.02
245 214 0.98
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (245 bp):
CAACTTCAGGGAGATAAGACTGGTGGCTTCGATCTGCTCCACTGCAACTTCAGGAAGATAAAATT
CGCCATAACTTGTAGCTTTAATCTGTTCCACTACAATGCCAGGGAAATAAGATTCGCTGTCTTCA
GTCTGCTTCGCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTGCAACTTCA
GGAAGATAAGATCCGCCATAATTTGCAGCTTTAATCTATTCCATCCGCTA
Found at i:17223201 original size:33 final size:34
Alignment explanation
Indices: 17223159--17223417 Score: 147
Period size: 33 Copynumber: 7.6 Consensus size: 34
17223149 CAGATGCGGT
17223159 GGAATCAGCACTTAGCAACCACCAAT-GAATAGG
1 GGAATCAGCACTTAGCAACCACCAATAGAATAGG
*
17223192 GGAATCAGCACTTAGCAACC-CC--TCG----GG
1 GGAATCAGCACTTAGCAACCACCAATAGAATAGG
* *
17223219 GGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGG
1 GGAATCAGCACTTAGCAA-CCAC---CA-A--TAGAATA-GG
* *
17223261 TGGGATCAGCACTTAGCAACCACCGAT-GAATAGG
1 -GGAATCAGCACTTAGCAACCACCAATAGAATAGG
*
17223295 GGAATCAGCACTTAGCAACC-CC--TCG----GG
1 GGAATCAGCACTTAGCAACCACCAATAGAATAGG
* *
17223322 GGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGG
1 GGAATCAGCACTTAGCAA-CCAC---CA-A--TAGAATA-GG
* *
17223364 TGGGATCAGCACTTAGCAACCACCGAT-GAATAGG
1 -GGAATCAGCACTTAGCAACCACCAATAGAATAGG
17223398 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
17223418 CCTCTATATT
Statistics
Matches: 178, Mismatches: 14, Indels: 68
0.68 0.05 0.26
Matches are distributed among these distances:
27 40 0.22
28 4 0.02
29 2 0.01
30 2 0.01
31 2 0.01
32 6 0.03
33 58 0.33
34 4 0.02
35 8 0.04
36 2 0.01
37 2 0.01
38 2 0.01
39 2 0.01
42 10 0.06
43 34 0.19
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (34 bp):
GGAATCAGCACTTAGCAACCACCAATAGAATAGG
Found at i:17223292 original size:103 final size:103
Alignment explanation
Indices: 17223114--17223421 Score: 564
Period size: 103 Copynumber: 3.0 Consensus size: 103
17223104 NNNNNNNNNN
* * * *
17223114 GGGGGAATCAGCACTTAGCAACCCCC-TTCACATTTCAGATGCGGTGGAATCAGCACTTAGCAAC
1 GGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGGATCAGCACTTAGCAAC
*
17223178 CACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTC
66 CACCGATGAATAGGGGAATCAGCACTTAGCAACCCCTC
17223216 GGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGGATCAGCACTTAGCAAC
1 GGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGGATCAGCACTTAGCAAC
17223281 CACCGATGAATAGGGGAATCAGCACTTAGCAACCCCTC
66 CACCGATGAATAGGGGAATCAGCACTTAGCAACCCCTC
17223319 GGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGGATCAGCACTTAGCAAC
1 GGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGGATCAGCACTTAGCAAC
17223384 CACCGATGAATAGGGGAATCAGCACTTAGCAACCCCTC
66 CACCGATGAATAGGGGAATCAGCACTTAGCAACCCCTC
17223422 TATATTCAAT
Statistics
Matches: 200, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
102 26 0.13
103 174 0.87
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (103 bp):
GGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGGATCAGCACTTAGCAAC
CACCGATGAATAGGGGAATCAGCACTTAGCAACCCCTC
Found at i:17227796 original size:24 final size:24
Alignment explanation
Indices: 17227749--17227796 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
17227739 GGATCTTAGC
* *
17227749 TAGCTGCTCTTGCATTTGCATTTG
1 TAGCTGCTCTTGCATCTCCATTTG
* *
17227773 TAGCTGGTCTTGCATCTCCCTTTG
1 TAGCTGCTCTTGCATCTCCATTTG
17227797 AAGTTGTTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.44
Consensus pattern (24 bp):
TAGCTGCTCTTGCATCTCCATTTG
Found at i:17227981 original size:19 final size:19
Alignment explanation
Indices: 17227939--17227981 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
17227929 TGGTGGACTT
* *
17227939 TAATGCATATGATGTAATG
1 TAATGCAAATGATGAAATG
17227958 TAATGCAAATGCATGAAATG
1 TAATGCAAATG-ATGAAATG
17227978 -AATG
1 TAATG
17227982 TAAAAATGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (19 bp):
TAATGCAAATGATGAAATG
Found at i:17231778 original size:13 final size:13
Alignment explanation
Indices: 17231760--17231816 Score: 69
Period size: 13 Copynumber: 4.2 Consensus size: 13
17231750 GCATGAATGC
17231760 AATACATAAATAT
1 AATACATAAATAT
17231773 AATACATAATAATAT
1 AATACAT-A-AATAT
* *
17231788 ATATATATAAATGT
1 A-ATACATAAATAT
17231802 AATACATAAATAT
1 AATACATAAATAT
17231815 AA
1 AA
17231817 CAAGGATAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
13 19 0.51
14 6 0.16
15 7 0.19
16 5 0.14
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (13 bp):
AATACATAAATAT
Found at i:17233099 original size:10 final size:11
Alignment explanation
Indices: 17233074--17233099 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17233064 AGTGTTTGTT
17233074 TTTTTATTTGG
1 TTTTTATTTGG
17233085 TTTTTATTTGG
1 TTTTTATTTGG
17233096 TTTT
1 TTTT
17233100 GTTTATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.15, T:0.77
Consensus pattern (11 bp):
TTTTTATTTGG
Found at i:17234571 original size:12 final size:12
Alignment explanation
Indices: 17234554--17234578 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17234544 ATTAGATAAA
17234554 GTTGTATATGAT
1 GTTGTATATGAT
17234566 GTTGTATATGAT
1 GTTGTATATGAT
17234578 G
1 G
17234579 ATTATTTTTC
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:0.00, G:0.28, T:0.48
Consensus pattern (12 bp):
GTTGTATATGAT
Found at i:17236638 original size:22 final size:22
Alignment explanation
Indices: 17236607--17236650 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
17236597 TACACCAAAA
*
17236607 TAGGCTTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
17236629 TAGGCCTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
17236651 ATCGCCGCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.20, G:0.27, T:0.43
Consensus pattern (22 bp):
TAGGCCTTTAGCGGCGCTTTTT
Found at i:17236978 original size:43 final size:43
Alignment explanation
Indices: 17236914--17237186 Score: 273
Period size: 43 Copynumber: 6.3 Consensus size: 43
17236904 CTTTTTTTCT
* * * *
17236914 CAAACGCCGC-AATAGACCCTAATCTATAGTGACGCTTTGACCA
1 CAAACGCCGCTAA-AGAACCTAATCTTTAGCGGCGCTTTGACCA
* * ** *
17236957 CAAACGCCACGAAAGAACCTAATCTTTAGCGGCGCTTTCCCCT
1 CAAACGCCGCTAAAGAACCTAATCTTTAGCGGCGCTTTGACCA
* * * *
17237000 CAAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTCGACCA
1 CAAACGCCGCTAA-AGAACCTAATCTTTAGCGGCGCTTTGACCA
* **
17237043 CAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCA
1 CAAACGCCGCTAAAGAACCTAATCTTTAGCGGCGCTTTGACCA
* * **
17237086 CAAACGCCGCTAAAG-ACCATGATCTTTAGTGGCGCTTTTTCCA
1 CAAACGCCGCTAAAGAACC-TAATCTTTAGCGGCGCTTTGACCA
* * *
17237129 CAAACGCCGCTAAAGACCCTTATCTTTAGCGGGGCTTTGACCA
1 CAAACGCCGCTAAAGAACCTAATCTTTAGCGGCGCTTTGACCA
* *
17237172 AAAACGCCACTAAAG
1 CAAACGCCGCTAAAG
17237187 GCCAACACCT
Statistics
Matches: 189, Mismatches: 36, Indels: 10
0.80 0.15 0.04
Matches are distributed among these distances:
42 5 0.03
43 178 0.94
44 6 0.03
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.21
Consensus pattern (43 bp):
CAAACGCCGCTAAAGAACCTAATCTTTAGCGGCGCTTTGACCA
Found at i:17236983 original size:86 final size:86
Alignment explanation
Indices: 17236912--17237166 Score: 368
Period size: 86 Copynumber: 3.0 Consensus size: 86
17236902 GCCTTTTTTT
* * *
17236912 CTCAAACGCCGCAATAGACCCTAATCTATAGTGACGCTTTGACCACAAACGCCACGAAAGAACCT
1 CTCAAACGCCGCAATAGACCCTGATCTATAGTGGCGCTTTGACCACAAACGCCACTAAAGAACCT
17236977 AATCTTTAGCGGCGCTTTCCC
66 AATCTTTAGCGGCGCTTTCCC
* *
17236998 CTCAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCT
1 CTCAAACGCCGCAATAGACCCTGATCTATAGTGGCGCTTTGACCACAAACGCCACTAAAGAACCT
17237063 AATCTTTAGCGGCGCTTTCCC
66 AATCTTTAGCGGCGCTTTCCC
* * * ** * *
17237084 CACAAACGCCGCTAA-AGACCATGATCTTTAGTGGCGCTTTTTCCACAAACGCCGCTAAAGACCC
1 CTCAAACGCCGC-AATAGACCCTGATCTATAGTGGCGCTTTGACCACAAACGCCACTAAAGAACC
* *
17237148 TTATCTTTAGCGGGGCTTT
65 TAATCTTTAGCGGCGCTTT
17237167 GACCAAAAAC
Statistics
Matches: 152, Mismatches: 16, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
86 150 0.99
87 2 0.01
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (86 bp):
CTCAAACGCCGCAATAGACCCTGATCTATAGTGGCGCTTTGACCACAAACGCCACTAAAGAACCT
AATCTTTAGCGGCGCTTTCCC
Found at i:17237091 original size:129 final size:129
Alignment explanation
Indices: 17236914--17237186 Score: 327
Period size: 129 Copynumber: 2.1 Consensus size: 129
17236904 CTTTTTTTCT
* * * *
17236914 CAAACGCCGC-AATAGACCCTAATCTATAGTGACGCTTTGACCACAAACGCCACGAAAGAACC-T
1 CAAACGCCACTAA-AGAACCTAATCTATAGCGACGCTTTCACCACAAACGCCACGAAAG-ACCAT
*
17236977 AATCTTTAGCGGCGCTTTCCCCTCAAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTCGAC
64 AATCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAA-AGACCCTGATCTATAGCGGCGCTTCGAC
17237041 CA
128 CA
* * * * * *
17237043 CAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCATGA
1 CAAACGCCACTAAAGAACCTAATCTATAGCGACGCTTTCACCACAAACGCCACGAAAGACCATAA
* ** * * * *
17237108 TCTTTAGTGGCGCTTTTTCCACAAACGCCGCTAAAGACCCTTATCTTTAGCGGGGCTTTGACCA
66 TCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTCGACCA
*
17237172 AAAACGCCACTAAAG
1 CAAACGCCACTAAAG
17237187 GCCAACACCT
Statistics
Matches: 122, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
128 3 0.02
129 115 0.94
130 4 0.03
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.21
Consensus pattern (129 bp):
CAAACGCCACTAAAGAACCTAATCTATAGCGACGCTTTCACCACAAACGCCACGAAAGACCATAA
TCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTCGACCA
Found at i:17237199 original size:86 final size:86
Alignment explanation
Indices: 17236940--17237228 Score: 265
Period size: 86 Copynumber: 3.4 Consensus size: 86
17236930 CCCTAATCTA
* ** * * **
17236940 TAGTGACGCTTTGACCACAAACGCCACGAAAGAACCTAATCTTTAGCGGCGCTTTCCCCTCAAAC
1 TAGTGGCGCTTTTTCCACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCACCAAAAAC
* *** * *
17237005 GCCGC-AATAGACCCTGATCTA
66 GCCACTAA-AGACCAACACCTT
* *** * *
17237026 TAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAAC
1 TAGTGGCGCTTTTTCCACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCACCAAAAAC
* ** *
17237091 GCCGCTAAAGACCATGATCTT
66 GCCACTAAAGACCAACACCTT
* * * * *
17237112 TAGTGGCGCTTTTTCCACAAACGCCGCTAAAGACCCTTATCTTTAGCGGGGCTTTGACCAAAAAC
1 TAGTGGCGCTTTTTCCACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCACCAAAAAC
*
17237177 GCCACTAAAGGCCAACACCTT
66 GCCACTAAAGACCAACACCTT
* ** *
17237198 TAGTGGCGTTTTTTTAAAAAACGCCACTAAA
1 TAGTGGCGCTTTTTCCACAAACGCCACTAAA
17237229 TTTGGCAGAT
Statistics
Matches: 174, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
86 172 0.99
87 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.22
Consensus pattern (86 bp):
TAGTGGCGCTTTTTCCACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCACCAAAAAC
GCCACTAAAGACCAACACCTT
Found at i:17237220 original size:129 final size:129
Alignment explanation
Indices: 17236958--17237228 Score: 296
Period size: 129 Copynumber: 2.1 Consensus size: 129
17236948 CTTTGACCAC
* * *
17236958 AAACGCCACGAAAGAACC-TAATCTTTAGCGGCGCTTTCCCCTCAAACGCCGCAATAGACCCTGA
1 AAACGCCACTAAAG-ACCATGATCTTTAGCGGCGCTTTCCCCACAAACGCCGCAATAGACCCTGA
* * * * *
17237022 TCTATAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAC
65 TCTATAGCGGCGCTTCGACCAAAAACGCCACTAAAGAACCAAACCTTTAGCGGCGCTTTCCCAAA
* * ** *
17237087 AAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCCACAAACGCCGCTAA-AGACCCTTA
1 AAACGCCACTAAAGACCATGATCTTTAGCGGCGCTTTCCCCACAAACGCCGC-AATAGACCCTGA
* * * * * * ***
17237151 TCTTTAGCGGGGCTTTGACCAAAAACGCCACTAAAG-GCCAACACCTTTAGTGGCGTTTTTTTAA
65 TCTATAGCGGCGCTTCGACCAAAAACGCCACTAAAGAACCAA-ACCTTTAGCGGCGCTTTCCCAA
17237215 A
129 A
17237216 AAACGCCACTAAA
1 AAACGCCACTAAA
17237229 TTTGGCAGAT
Statistics
Matches: 116, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
128 6 0.05
129 108 0.93
130 2 0.02
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (129 bp):
AAACGCCACTAAAGACCATGATCTTTAGCGGCGCTTTCCCCACAAACGCCGCAATAGACCCTGAT
CTATAGCGGCGCTTCGACCAAAAACGCCACTAAAGAACCAAACCTTTAGCGGCGCTTTCCCAAA
Found at i:17237629 original size:21 final size:21
Alignment explanation
Indices: 17237536--17237648 Score: 102
Period size: 21 Copynumber: 5.4 Consensus size: 21
17237526 TTTGACGCTG
* *
17237536 CTCTGCTTC-CTTTGCTGTAGC
1 CTCTGCTTCTC-TCGCTGCAGC
* * **
17237557 CTCTGCTTCCCTCGTTTTAGC
1 CTCTGCTTCTCTCGCTGCAGC
17237578 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCTCTCGCTGCAGC
* * *
17237599 CTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCTCTCGCTGCAGC
* *
17237620 CTCTGCTTCTCTTGCTGCTGC
1 CTCTGCTTCTCTCGCTGCAGC
*
17237641 ATCTGCTT
1 CTCTGCTT
17237649 TAAGCTGCTG
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
21 75 0.99
22 1 0.01
ACGTcount: A:0.04, C:0.38, G:0.18, T:0.40
Consensus pattern (21 bp):
CTCTGCTTCTCTCGCTGCAGC
Found at i:17237697 original size:66 final size:66
Alignment explanation
Indices: 17237625--17237784 Score: 198
Period size: 66 Copynumber: 2.4 Consensus size: 66
17237615 GCCGCCTCTG
*
17237625 CTTCTCTTGCTGCTGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACCT
1 CTTCTCTCGCTGCTGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTTGAACCT
17237688 CAA
64 CAA
* * * *
17237691 CTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGCACCTCA
1 CTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTCA
*
17237756 G
66 A
* * * *
17237757 CTTCTCTCGATGTTGCCTCCGCTTTAAG
1 CTTCTCTCGCTGCTGCATCTGCTTTAAG
17237785 TTGTGTAATT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
65 1 0.01
66 76 0.94
67 4 0.05
ACGTcount: A:0.13, C:0.28, G:0.18, T:0.41
Consensus pattern (66 bp):
CTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTCA
A
Found at i:17254520 original size:41 final size:41
Alignment explanation
Indices: 17254460--17254657 Score: 256
Period size: 41 Copynumber: 4.8 Consensus size: 41
17254450 TTATTATTAC
* * * *
17254460 TAGCGGCGCTTTTTTAAAAACGCCGCTAAAGGCCACAGTAA
1 TAGCGGCGCTTCTTTAAAAACGCCGCTAAAGGCCAGAGCAT
* * *
17254501 TACCGGCGCTTCTTTAAAAACGCCGCTAAAAGACAGAGCAT
1 TAGCGGCGCTTCTTTAAAAACGCCGCTAAAGGCCAGAGCAT
17254542 TAGCGGCGCTT-TTTCAAAAACGCCGCTAAAGGCCAGAGCAT
1 TAGCGGCGCTTCTTT-AAAAACGCCGCTAAAGGCCAGAGCAT
* *
17254583 TAGCGGCGCTTAC-TCAAAAACGCCGCTAAAGGCTAGAGCAT
1 TAGCGGCGCTT-CTTTAAAAACGCCGCTAAAGGCCAGAGCAT
* * *
17254624 TAGCGGCGTTTATTCAAAAACGCCGCTAAAGGCC
1 TAGCGGCGCTTCTTTAAAAACGCCGCTAAAGGCC
17254658 CCAAAAACTC
Statistics
Matches: 138, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
40 3 0.02
41 134 0.97
42 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.20
Consensus pattern (41 bp):
TAGCGGCGCTTCTTTAAAAACGCCGCTAAAGGCCAGAGCAT
Found at i:17254602 original size:82 final size:82
Alignment explanation
Indices: 17254460--17254657 Score: 285
Period size: 82 Copynumber: 2.4 Consensus size: 82
17254450 TTATTATTAC
* * *
17254460 TAGCGGCGCTTTTTTAAAAACGCCGCTAAAGGCCACAGTAATACCGGCGCTTCTTTAAAAACGCC
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCACAGCAATACCGGCGCTTCTTCAAAAACGCC
17254525 GCTAAAAGAC-AGAGCAT
66 GCT-AAAGACTAGAGCAT
* * *
17254542 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTAC-TCAAAAACGC
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCACAGCAATACCGGCGCTT-CTTCAAAAACGC
*
17254606 CGCTAAAGGCTAGAGCAT
65 CGCTAAAGACTAGAGCAT
17254624 TAGCGGCG-TTTATTCAAAAACGCCGCTAAAGGCC
1 TAGCGGCGCTTT-TTCAAAAACGCCGCTAAAGGCC
17254658 CCAAAAACTC
Statistics
Matches: 106, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
81 8 0.08
82 97 0.92
83 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.20
Consensus pattern (82 bp):
TAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCACAGCAATACCGGCGCTTCTTCAAAAACGCC
GCTAAAGACTAGAGCAT
Found at i:17254818 original size:40 final size:40
Alignment explanation
Indices: 17254712--17254830 Score: 152
Period size: 40 Copynumber: 3.0 Consensus size: 40
17254702 GCGCTTTTCA
*
17254712 GAAAA-CGCCGCTAATGCT-TATTTTTAGCGGCGTTTTTG
1 GAAAAGCGCCGCTAATGCTCTATTTTTAGCGGCGTTTTTT
* ** *
17254750 GATAAGCGCCGCTAATGCTCTACCTTTAGCGGCATTTTTT
1 GAAAAGCGCCGCTAATGCTCTATTTTTAGCGGCGTTTTTT
* * *
17254790 TAAAAGCGCCGCTAATGCTCGATTTTTAGTGGCGTTTTTT
1 GAAAAGCGCCGCTAATGCTCTATTTTTAGCGGCGTTTTTT
17254830 G
1 G
17254831 TCCAAACGCC
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
38 4 0.06
39 13 0.20
40 49 0.74
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (40 bp):
GAAAAGCGCCGCTAATGCTCTATTTTTAGCGGCGTTTTTT
Found at i:17254851 original size:12 final size:12
Alignment explanation
Indices: 17254834--17254859 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17254824 TTTTTTGTCC
17254834 AAACGCCGCTAA
1 AAACGCCGCTAA
17254846 AAACGCCGCTAA
1 AAACGCCGCTAA
17254858 AA
1 AA
17254860 GCCTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:17261943 original size:13 final size:14
Alignment explanation
Indices: 17261929--17261967 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 14
17261919 TTTAAAAATA
17261929 ATTTAAAAAATTAAT
1 ATTTAAAAAATT-AT
17261944 CATTTGAAAAAATTAT
1 -ATTT-AAAAAATTAT
17261960 ATTTAAAA
1 ATTTAAAA
17261968 TTAAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.18
15 4 0.18
16 6 0.27
17 8 0.36
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (14 bp):
ATTTAAAAAATTAT
Found at i:17261991 original size:21 final size:19
Alignment explanation
Indices: 17261951--17261987 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
17261941 AATCATTTGA
*
17261951 AAAAATTATATTTAAAATT
1 AAAAATAATATTTAAAATT
17261970 AAAAATAATATTTAAAAT
1 AAAAATAATATTTAAAAT
17261988 ATTATAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATAATATTTAAAATT
Found at i:17262089 original size:33 final size:35
Alignment explanation
Indices: 17262052--17262126 Score: 84
Period size: 33 Copynumber: 2.2 Consensus size: 35
17262042 TAAATGTTTT
* *
17262052 ATAATATTAAAAATATATTTAAAAT-TT-TAAAA-A
1 ATAATAGTAAAAA-ACATTTAAAATATTATAAAACA
*
17262085 ATAATAGTATAAAACATTTAAAATATTATAAAACCA
1 ATAATAGTAAAAAACATTTAAAATATTATAAAA-CA
17262121 ATAATA
1 ATAATA
17262127 AACAAATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 10 0.29
33 13 0.37
34 5 0.14
36 7 0.20
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (35 bp):
ATAATAGTAAAAAACATTTAAAATATTATAAAACA
Found at i:17262140 original size:24 final size:24
Alignment explanation
Indices: 17262112--17262173 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
17262102 TTAAAATATT
*
17262112 ATAAAACCAATAATA-AACAAATAA
1 ATAAAACAAATAA-AGAACAAATAA
*
17262136 ATAAAACAAATAAAGGACAAATAA
1 ATAAAACAAATAAAGAACAAATAA
17262160 ATAAAA-AAAGTAAA
1 ATAAAACAAA-TAAA
17262174 AAAGTAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 4 0.12
24 30 0.88
ACGTcount: A:0.73, C:0.08, G:0.05, T:0.15
Consensus pattern (24 bp):
ATAAAACAAATAAAGAACAAATAA
Found at i:17262144 original size:13 final size:13
Alignment explanation
Indices: 17262112--17262149 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
17262102 TTAAAATATT
*
17262112 ATAAAACCAAT-A
1 ATAAAACAAATAA
17262124 AT-AAACAAATAA
1 ATAAAACAAATAA
17262136 ATAAAACAAATAA
1 ATAAAACAAATAA
17262149 A
1 A
17262150 GGACAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 7 0.30
12 5 0.22
13 11 0.48
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.16
Consensus pattern (13 bp):
ATAAAACAAATAA
Found at i:17266493 original size:22 final size:23
Alignment explanation
Indices: 17266468--17266511 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
17266458 ATTATACACT
17266468 TTAAAATTT-TCAAATATTTTAA
1 TTAAAATTTCTCAAATATTTTAA
** *
17266490 TTAAGCTTTCTCAAATTTTTTA
1 TTAAAATTTCTCAAATATTTTA
17266512 TAAATTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAAAATTTCTCAAATATTTTAA
Found at i:17285127 original size:12 final size:12
Alignment explanation
Indices: 17285110--17285134 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17285100 TGAAAAGTAA
17285110 ACGTGGTCATGG
1 ACGTGGTCATGG
17285122 ACGTGGTCATGG
1 ACGTGGTCATGG
17285134 A
1 A
17285135 TCGTCCATAT
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:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (12 bp):
ACGTGGTCATGG
Found at i:17285828 original size:26 final size:26
Alignment explanation
Indices: 17285794--17285866 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
17285784 AATTTTCTCC
17285794 AAATTTTATCGAGGGTAAAATCATCA
1 AAATTTTATCGAGGGTAAAATCATCA
* * *
17285820 AAATTTTATTGAAGGCAAAATCATCA
1 AAATTTTATCGAGGGTAAAATCATCA
*
17285846 AAATTTTA-CTAGGGGTAAAAT
1 AAATTTTATCGA-GGGTAAAAT
17285867 TGCCAAAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 1 0.03
26 38 0.97
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.32
Consensus pattern (26 bp):
AAATTTTATCGAGGGTAAAATCATCA
Found at i:17286397 original size:43 final size:43
Alignment explanation
Indices: 17286331--17286496 Score: 206
Period size: 43 Copynumber: 3.9 Consensus size: 43
17286321 AACACATAGT
* * *
17286331 TCGCCCATTGGCGAATACAATACACAAGTAGACTTCATACAAC
1 TCGCCCATTGGCGAATACTATACACAAGTAAACTTTATACAAC
* * *
17286374 TCGCCCATTGACGAATATTATACACAAGCAAACTTTATACAAC
1 TCGCCCATTGGCGAATACTATACACAAGTAAACTTTATACAAC
* * * *
17286417 TCGCCTATTGGTGAATACTATACACAATTAAAGTTTATACAAC
1 TCGCCCATTGGCGAATACTATACACAAGTAAACTTTATACAAC
* ** *
17286460 TCTCCCATTGGTAAATATTATACACAAGTAAACTTTA
1 TCGCCCATTGGCGAATACTATACACAAGTAAACTTTA
17286497 CAGCAGACTT
Statistics
Matches: 104, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 104 1.00
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (43 bp):
TCGCCCATTGGCGAATACTATACACAAGTAAACTTTATACAAC
Found at i:17289640 original size:14 final size:14
Alignment explanation
Indices: 17289621--17289648 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
17289611 TAAAAGACGG
17289621 TGGCCCAAAACAAA
1 TGGCCCAAAACAAA
17289635 TGGCCCAAAACAAA
1 TGGCCCAAAACAAA
17289649 ATCAGAAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.29, G:0.14, T:0.07
Consensus pattern (14 bp):
TGGCCCAAAACAAA
Found at i:17306565 original size:44 final size:44
Alignment explanation
Indices: 17306415--17307055 Score: 365
Period size: 44 Copynumber: 14.8 Consensus size: 44
17306405 ATCGGTAGCC
* ** *
17306415 AGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGTGGA-TTA--A
1 AGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCA
* * * *
17306456 ATCACAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGC-
1 AGCA-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCA
* * * *
17306498 ATCTAGTTTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGCA
1 AGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCA
17306542 AGCAAGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAG-A
1 AGCAAGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGCA
* * * * * * *
17306586 TGGCAAATATTATCTCCCTGAAGTTGCAGTGGAGTAGATTGGAGTCG
1 -AGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-CA
* * * * ** *
17306633 A-TAA-TCCTATCTCCCTGAAATTGCAGTAGAGTGGA-TTA--A
1 AGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCA
* * * *
17306672 ATCACAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGC-
1 AGCA-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCA
* * *
17306714 ATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGCA
1 AGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCA
17306758 AGCAAGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAG-A
1 AGCAAGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGCA
* * *
17306802 TGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGC-
1 -AGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTA-AGCA
* * * * * *
17306847 CG-ATAATCCTATCTCCCTGAAATTACAGTGGAGCAGATTAA--A
1 AGCA-AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCA
* ** * * *
17306889 ACCTTGGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGC-
1 AGC-AAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCA
* ** * *
17306931 ATCTGGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTA
1 AGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCA
*
17306975 AGCAAGTCTTATCTTCCTGAAGTTGCAGT-GAGGCAGACTGAAG-A
1 AGCAAGTCTTATCTCCCTGAAGTTGCAGTGGA-GCAGACT-AAGCA
* *
17307019 TTGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
1 -AGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
17307056 GTTAAAGCGA
Statistics
Matches: 473, Mismatches: 78, Indels: 94
0.73 0.12 0.15
Matches are distributed among these distances:
39 1 0.00
40 62 0.13
41 32 0.07
42 27 0.06
43 63 0.13
44 174 0.37
45 106 0.22
46 8 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
AGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCA
Found at i:17306901 original size:133 final size:127
Alignment explanation
Indices: 17306723--17306967 Score: 289
Period size: 133 Copynumber: 1.9 Consensus size: 127
17306713 CATCTAGTCT
* * *
17306723 TATCTCCCTGAAGTTACAGTGGAGCAGACTAAGCAAGCAAGTCTTATC-CTCCTGAAGTTGCAGT
1 TATCTCCCTGAAATTACAGTGGAGCAGACTAA-CAACCAAGTCTTATCTCT-CTGAAGTTGCAGA
*
17306787 GAGGCAGA-CTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCGAT
64 GA-GCAGATC-GAAGATGG----TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAGAGCCGAT
17306851 AATCC
123 AATCC
* **
17306856 TATCTCCCTGAAATTACAGTGGAGCAGATTAA-AACCTTGGATCTTATCTCTCTGAAGTTGCAGA
1 TATCTCCCTGAAATTACAGTGGAGCAGACTAACAACC-AAG-TCTTATCTCTCTGAAGTTGCAGA
* **
17306920 GAGCAGATCGCATCTGGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGA
64 GAGCAGATCGAAGATGGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGA
17306968 CTAAGTAAGC
Statistics
Matches: 98, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
128 30 0.31
131 3 0.03
132 11 0.11
133 52 0.53
134 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.26
Consensus pattern (127 bp):
TATCTCCCTGAAATTACAGTGGAGCAGACTAACAACCAAGTCTTATCTCTCTGAAGTTGCAGAGA
GCAGATCGAAGATGGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAGAGCCGATAATCC
Found at i:17307027 original size:217 final size:215
Alignment explanation
Indices: 17306419--17307170 Score: 1147
Period size: 216 Copynumber: 3.5 Consensus size: 215
17306409 GTAGCCAGCA
* * * *
17306419 AATCTTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAATCACAGATCTTATCTCTCTGAAGTTGC
1 AATCCTATCTCCCTGAAATTGCAGTGGAGCGGATTAAAACACAGATCTTATCTCTCTGAAGTTGC
* *
17306484 AGAGAGCAGATCGCATCTAGTTTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGT
66 AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGT
*
17306549 CTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATATTATCTCCCTGAAGTTGCA
131 CTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCA
* *
17306614 GTGGAGTAGATTGGAGTCGAT
196 GTGGAGCAGATTAGAG-CGAT
* * *
17306635 AATCCTATCTCCCTGAAATTGCAGTAGAGTGGATTAAATCACAGATCTTATCTCTCTGAAGTTGC
1 AATCCTATCTCCCTGAAATTGCAGTGGAGCGGATTAAAACACAGATCTTATCTCTCTGAAGTTGC
*
17306700 AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGCAAGCAAGT
66 AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGT
17306765 CTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCA
131 CTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCA
17306830 GTGGAGCAGATTAGAGCCGAT
196 GTGGAGCAGATTAGAG-CGAT
* * *
17306851 AATCCTATCTCCCTGAAATTACAGTGGAGCAGATTAAAAC-CTTGGATCTTATCTCTCTGAAGTT
1 AATCCTATCTCCCTGAAATTGCAGTGGAGCGGATTAAAACAC--AGATCTTATCTCTCTGAAGTT
* * *
17306915 GCAGAGAGCAGATCGCATCTGGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAA
64 GCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAA
* *
17306980 GTCTTATCTTCCTGAAGTTGCAGTGAGGCAGACTGAAGATTGCAAATCTTATCTCCCTGAAGTTG
129 GTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTG
* *
17307045 CAGTGGAGCAGGTTAAAGCGAT
194 CAGTGGAGCAGATTAGAGCGAT
* * * * *
17307067 AATCCTATC-CCCTGAAGTTGCAGTTGAGCGGATTAAAAC-CTTGGACCTTATCTCTTTGAAGTT
1 AATCCTATCTCCCTGAAATTGCAGTGGAGCGGATTAAAACAC--AGATCTTATCTCTCTGAAGTT
*
17307130 ACAGAGAGCAGATCGCA---AGTCTTATCTCCCTGAAGTTGCAG
64 GCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAG
17307171 AAGAGTAGAT
Statistics
Matches: 501, Mismatches: 33, Indels: 8
0.92 0.06 0.01
Matches are distributed among these distances:
212 22 0.04
215 65 0.13
216 254 0.51
217 160 0.32
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (215 bp):
AATCCTATCTCCCTGAAATTGCAGTGGAGCGGATTAAAACACAGATCTTATCTCTCTGAAGTTGC
AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGT
CTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCA
GTGGAGCAGATTAGAGCGAT
Found at i:17307455 original size:14 final size:14
Alignment explanation
Indices: 17307436--17307463 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
17307426 TAAAAGACGG
17307436 TGGCCCAAAACAAA
1 TGGCCCAAAACAAA
17307450 TGGCCCAAAACAAA
1 TGGCCCAAAACAAA
17307464 ATCAGAAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.29, G:0.14, T:0.07
Consensus pattern (14 bp):
TGGCCCAAAACAAA
Found at i:17308609 original size:25 final size:25
Alignment explanation
Indices: 17308580--17308630 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
17308570 AAATTAATTA
*
17308580 ATTTTAATA-ATGTAATTATTTTTT
1 ATTTTTATATATGTAATTATTTTTT
*
17308604 ATTTTTTTATATGTAATTATTTTTT
1 ATTTTTATATATGTAATTATTTTTT
17308629 AT
1 AT
17308631 AATCTATATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (25 bp):
ATTTTTATATATGTAATTATTTTTT
Found at i:17308638 original size:24 final size:25
Alignment explanation
Indices: 17308589--17308642 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
17308579 AATTTTAATA
** *
17308589 ATGTAATTATTTTTTATTTTTTTAT
1 ATGTAATTATTTTTTATTAATCTAT
17308614 ATGTAATTATTTTTTA-TAATCTAT
1 ATGTAATTATTTTTTATTAATCTAT
17308638 ATGTA
1 ATGTA
17308643 TATATTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 10 0.38
25 16 0.62
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.63
Consensus pattern (25 bp):
ATGTAATTATTTTTTATTAATCTAT
Found at i:17309850 original size:19 final size:19
Alignment explanation
Indices: 17309813--17309852 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
17309803 TTAGAAATGC
* **
17309813 TTTTGTCCTAAAAGTACTT
1 TTTTGTCCCAAAACCACTT
17309832 TTTTGTCCCAAAACCACTT
1 TTTTGTCCCAAAACCACTT
17309851 TT
1 TT
17309853 GAGAAGCATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.23, G:0.07, T:0.45
Consensus pattern (19 bp):
TTTTGTCCCAAAACCACTT
Found at i:17311220 original size:15 final size:15
Alignment explanation
Indices: 17311200--17311228 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17311190 CTCTTGGTTT
17311200 TTTTAACCCAATTTC
1 TTTTAACCCAATTTC
17311215 TTTTAACCCAATTT
1 TTTTAACCCAATTT
17311229 TTGGGATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTTAACCCAATTTC
Found at i:17316780 original size:47 final size:46
Alignment explanation
Indices: 17316694--17316786 Score: 114
Period size: 47 Copynumber: 2.0 Consensus size: 46
17316684 ATCCAATGAT
* * * *
17316694 AAATGGATGTCCATACCCCCAAATTTATCCTATTGTAACCCTTAAA
1 AAATGAATGTCCATACCCCCAAATTTATCATATTATAACCCCTAAA
* * *
17316740 AAATGAATGTCCATAACCCCTAAATTTATTATTTTATAACCCCTAAA
1 AAATGAATGTCCAT-ACCCCCAAATTTATCATATTATAACCCCTAAA
17316787 TTACTTATAG
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
46 13 0.33
47 26 0.67
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (46 bp):
AAATGAATGTCCATACCCCCAAATTTATCATATTATAACCCCTAAA
Found at i:17331785 original size:35 final size:36
Alignment explanation
Indices: 17331730--17331800 Score: 117
Period size: 35 Copynumber: 2.0 Consensus size: 36
17331720 TTTAATTATA
*
17331730 TTATTGTTAACAAATTTAATTTATATAAACAAAATT
1 TTATTGTTAACAAATTTAATTAATATAAACAAAATT
*
17331766 TTATTGTTAA-AAATTTAATTAATTTAAACAAAATT
1 TTATTGTTAACAAATTTAATTAATATAAACAAAATT
17331801 GAAATATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
35 23 0.70
36 10 0.30
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (36 bp):
TTATTGTTAACAAATTTAATTAATATAAACAAAATT
Found at i:17335144 original size:18 final size:17
Alignment explanation
Indices: 17335121--17335170 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
17335111 TTAGCCTAAA
17335121 GCTTTCTCTTGCTCTTTC
1 GCTTTCTCTT-CTCTTTC
* *
17335139 GCTTTCGCTT-TCCTTTT
1 GCTTTCTCTTCT-CTTTC
17335156 GCTTT-TCTTCTCTTT
1 GCTTTCTCTTCTCTTT
17335171 TCTTAACAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 8 0.30
17 10 0.37
18 9 0.33
ACGTcount: A:0.00, C:0.30, G:0.10, T:0.60
Consensus pattern (17 bp):
GCTTTCTCTTCTCTTTC
Found at i:17337901 original size:25 final size:25
Alignment explanation
Indices: 17337868--17337925 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
17337858 TTCAAGGATC
* *
17337868 AAAA-TGAATTTAGTTGCCAAATTT
1 AAAAGTGAATCTAATTGCCAAATTT
17337892 AAAAGTGAATCTAATTGCCAAATTT
1 AAAAGTGAATCTAATTGCCAAATTT
17337917 AAAAGTGAA
1 AAAAGTGAA
17337926 AAAAAATTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 4 0.13
25 27 0.87
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.31
Consensus pattern (25 bp):
AAAAGTGAATCTAATTGCCAAATTT
Found at i:17346264 original size:18 final size:18
Alignment explanation
Indices: 17346227--17346265 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17346217 TGTATTTGTC
*
17346227 AAACTGTGCTTATTCGTT
1 AAACTGTGCTTATTCCTT
17346245 AAACTGTGCTCT-TTCCTT
1 AAACTGTGCT-TATTCCTT
17346263 AAA
1 AAA
17346266 TCCTTACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.41
Consensus pattern (18 bp):
AAACTGTGCTTATTCCTT
Found at i:17357333 original size:31 final size:31
Alignment explanation
Indices: 17357295--17357389 Score: 97
Period size: 31 Copynumber: 3.0 Consensus size: 31
17357285 TTGAGCCCTC
*
17357295 AAAATTTTTGAAAATTTTAATTAGACCCTTT-
1 AAAATTTTTGAAAATTTTAATTA-AACCTTTG
*
17357326 AAAATTTTTTGAAAATTATT-ATTAAACTTTTG
1 AAAA-TTTTTGAAAATT-TTAATTAAACCTTTG
* *
17357358 AAAAATTTT-AAAATTTTCAATTAAACTTTTG
1 AAAATTTTTGAAAATTTT-AATTAAACCTTTG
17357389 A
1 A
17357390 CTTTTTTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
29 2 0.04
30 6 0.11
31 26 0.46
32 20 0.36
33 2 0.04
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.46
Consensus pattern (31 bp):
AAAATTTTTGAAAATTTTAATTAAACCTTTG
Found at i:17370945 original size:16 final size:17
Alignment explanation
Indices: 17370924--17370955 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
17370914 AAATATGCAA
17370924 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
17370940 TCACATAACTTCATAT
1 TCACATAACTTCATAT
17370956 CATCAATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:17377142 original size:13 final size:12
Alignment explanation
Indices: 17377106--17377166 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
17377096 AAAATCTTTT
17377106 AAAATTATAAAA
1 AAAATTATAAAA
*
17377118 GAAAA-TACAAAA
1 -AAAATTATAAAA
*
17377130 AAAATTATTAAA
1 AAAATTATAAAA
*
17377142 AAAA-TATAAAT
1 AAAATTATAAAA
* *
17377153 AGAATTGTAAAA
1 AAAATTATAAAA
17377165 AA
1 AA
17377167 TCCTATATGG
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
11 12 0.32
12 21 0.57
13 4 0.11
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (12 bp):
AAAATTATAAAA
Found at i:17378609 original size:7 final size:7
Alignment explanation
Indices: 17378597--17378624 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
17378587 ATTCGGGCAA
17378597 CGAAGAG
1 CGAAGAG
17378604 CGAAGAG
1 CGAAGAG
17378611 CGAAGAG
1 CGAAGAG
17378618 CGAAGAG
1 CGAAGAG
17378625 TTGATTGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.43, T:0.00
Consensus pattern (7 bp):
CGAAGAG
Found at i:17386514 original size:18 final size:18
Alignment explanation
Indices: 17386491--17386526 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
17386481 ATGAAATATA
17386491 ACTCTTTTCGAGAGTTAT
1 ACTCTTTTCGAGAGTTAT
17386509 ACTCTTTTCGAGAGTTAT
1 ACTCTTTTCGAGAGTTAT
17386527 CACTATGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (18 bp):
ACTCTTTTCGAGAGTTAT
Found at i:17388692 original size:2 final size:2
Alignment explanation
Indices: 17388685--17388723 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
17388675 ATTTTTATTT
**
17388685 CA CA CA CA CA CA CA TG CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
17388724 CTTGCATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.49, G:0.03, T:0.03
Consensus pattern (2 bp):
CA
Found at i:17391911 original size:8 final size:8
Alignment explanation
Indices: 17391898--17391924 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
17391888 ATCATTATCT
17391898 TTCATAAA
1 TTCATAAA
17391906 TTCATAAA
1 TTCATAAA
17391914 TTCATAAA
1 TTCATAAA
17391922 TTC
1 TTC
17391925 CCAAATTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (8 bp):
TTCATAAA
Found at i:17391930 original size:16 final size:16
Alignment explanation
Indices: 17391898--17391931 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17391888 ATCATTATCT
*
17391898 TTCATAAATTCATAAA
1 TTCATAAATTCACAAA
*
17391914 TTCATAAATTCCCAAA
1 TTCATAAATTCACAAA
17391930 TT
1 TT
17391932 GTGATTCATT
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:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (16 bp):
TTCATAAATTCACAAA
Found at i:17397602 original size:105 final size:101
Alignment explanation
Indices: 17397417--17397633 Score: 283
Period size: 105 Copynumber: 2.1 Consensus size: 101
17397407 AATCAGCAGA
* * * * *
17397417 TAAGACCATGGTTGGACCATGGCAGTGTTTAAATGTAAGATCATAGCTGGGTTATGGCATTTTAA
1 TAAGACCATGGTTGGACCATGGCAGTATTTAAATGTAAGACCATAGCTGGGCTATGACATTCTAA
* **
17397482 TGAAAATACCATAACTGGGTTATGGCACCT-TGAACG
66 TGAAAAGACCATAACTGGGTTATGGCA-CTACAAACG
*
17397518 TAAGACCATGGTTGGACCATGGCAGTATATATACATGTGTAAGACCATAGCTGGGCTATGACATT
1 TAAGACCATGGTTGGACCATGGCAGTAT-T-TA-A-ATGTAAGACCATAGCTGGGCTATGACATT
* *
17397583 CTGATGATAAGACCATAACTGGGTTATGGCACTACAAACG
62 CTAATGAAAAGACCATAACTGGGTTATGGCACTACAAACG
17397623 TAAGACCATGG
1 TAAGACCATGG
17397634 CAGGCTCATG
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
101 27 0.27
102 1 0.01
103 2 0.02
104 3 0.03
105 67 0.67
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCAGTATTTAAATGTAAGACCATAGCTGGGCTATGACATTCTAA
TGAAAAGACCATAACTGGGTTATGGCACTACAAACG
Found at i:17398851 original size:20 final size:21
Alignment explanation
Indices: 17398828--17398876 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
17398818 TTCTTATATG
17398828 TTTTTATAAAATTTCA-AAAT
1 TTTTTATAAAATTTCATAAAT
* * *
17398848 TTTTTAT-TAATTTTATAATT
1 TTTTTATAAAATTTCATAAAT
17398868 TTTTTATAA
1 TTTTTATAA
17398877 TTTATTAGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTTATAAAATTTCATAAAT
Found at i:17398869 original size:18 final size:17
Alignment explanation
Indices: 17398848--17398910 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 17
17398838 ATTTCAAAAT
17398848 TTTTTATTAATTTTATAA
1 TTTTT-TTAATTTTATAA
*
17398866 TTTTTTTATAATTTATTAGA
1 TTTTTTTA-ATTTTA-TA-A
*
17398886 TTTTTGTAATATTTATAA
1 TTTTTTTAAT-TTTATAA
17398904 TTTTTTT
1 TTTTTTT
17398911 CTATTTTCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 3 0.08
18 17 0.46
19 5 0.14
20 12 0.32
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTTTTAATTTTATAA
Found at i:17398888 original size:20 final size:19
Alignment explanation
Indices: 17398847--17398910 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
17398837 AATTTCAAAA
17398847 TTTTTTATTAATTT-TATAAT
1 TTTTTTA-TAATTTAT-TAAT
17398867 TTTTTTATAATTTATTAGAT
1 TTTTTTATAATTTATTA-AT
*
17398887 TTTTGTA-ATATTTA-TAAT
1 TTTTTTATA-ATTTATTAAT
17398905 TTTTTT
1 TTTTTT
17398911 CTATTTTCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 7 0.18
19 11 0.28
20 21 0.54
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTTTATAATTTATTAAT
Found at i:17398938 original size:38 final size:39
Alignment explanation
Indices: 17398859--17399027 Score: 137
Period size: 38 Copynumber: 4.2 Consensus size: 39
17398849 TTTTATTAAT
* * * * **
17398859 TTTATAATTTTTTTATAATTTAT-TAGATTTTTGTAATA
1 TTTATAATTTTTTTCTATTTTCTATATATTTTTACAATA
17398897 TTTATAATTTTTTTCTATTTTCTATATATTTTTACAAATTTA
1 TTTATAATTTTTTTCTATTTTCTATATATTTTTAC-AA--TA
* * **
17398939 TATCTAATTCAATATTTTATTCAATTTTATA-ATATTTTTGTAATA
1 T-T-T-A-T-AAT-TTTT-TTCTATTTTCTATATATTTTTACAATA
17398984 TTTATAATTTTTTTCTATTTTCTATATATTTTTACAA-A
1 TTTATAATTTTTTTCTATTTTCTATATATTTTTACAATA
17399022 TTTATA
1 TTTATA
17399028 TCTAATTCAA
Statistics
Matches: 105, Mismatches: 14, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
38 37 0.35
39 22 0.21
40 5 0.05
41 1 0.01
42 4 0.04
43 2 0.02
44 2 0.02
45 4 0.04
46 1 0.01
47 5 0.05
48 12 0.11
49 10 0.10
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (39 bp):
TTTATAATTTTTTTCTATTTTCTATATATTTTTACAATA
Found at i:17398974 original size:20 final size:20
Alignment explanation
Indices: 17398949--17399083 Score: 75
Period size: 20 Copynumber: 6.4 Consensus size: 20
17398939 TATCTAATTC
17398949 AATATTTTATTCAAT-TTTAT
1 AATATTTT-TTCAATATTTAT
17398969 AATATTTTTGT-AATATTTAT
1 AATATTTTT-TCAATATTTAT
* *
17398989 AAT-TTTTTTCTAT-TTTCT
1 AATATTTTTTCAATATTTAT
*
17399007 ATATATTTTTACAAATTTATATCTAATT
1 A-ATATTTTTTC-AA--TAT-T-T-A-T
17399035 CAATATTTTATTCAAT-TTTAT
1 -AATATTTT-TTCAATATTTAT
*
17399056 AATATTTTTGT-AATATTTTT
1 AATATTTTT-TCAATATTTAT
17399076 AATATTTT
1 AATATTTT
17399084 ATTTTTTTTT
Statistics
Matches: 91, Mismatches: 7, Indels: 34
0.69 0.05 0.26
Matches are distributed among these distances:
18 6 0.07
19 17 0.19
20 44 0.48
21 2 0.02
22 1 0.01
23 2 0.02
24 2 0.02
25 2 0.02
26 2 0.02
28 10 0.11
29 3 0.03
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (20 bp):
AATATTTTTTCAATATTTAT
Found at i:17398977 original size:87 final size:87
Alignment explanation
Indices: 17398885--17399083 Score: 380
Period size: 87 Copynumber: 2.3 Consensus size: 87
17398875 AATTTATTAG
17398885 ATTTTTGTAATATTTATAATTTTTTTCTATTTTCTATATATTTTTACAAATTTATATCTAATTCA
1 ATTTTTGTAATATTTATAATTTTTTTCTATTTTCTATATATTTTTACAAATTTATATCTAATTCA
17398950 ATATTTTATTCAATTTTATAAT
66 ATATTTTATTCAATTTTATAAT
17398972 ATTTTTGTAATATTTATAATTTTTTTCTATTTTCTATATATTTTTACAAATTTATATCTAATTCA
1 ATTTTTGTAATATTTATAATTTTTTTCTATTTTCTATATATTTTTACAAATTTATATCTAATTCA
17399037 ATATTTTATTCAATTTTATAAT
66 ATATTTTATTCAATTTTATAAT
* *
17399059 ATTTTTGTAATATTTTTAATATTTT
1 ATTTTTGTAATATTTATAATTTTTT
17399084 ATTTTTTTTT
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 110 1.00
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.61
Consensus pattern (87 bp):
ATTTTTGTAATATTTATAATTTTTTTCTATTTTCTATATATTTTTACAAATTTATATCTAATTCA
ATATTTTATTCAATTTTATAAT
Found at i:17399012 original size:28 final size:29
Alignment explanation
Indices: 17398894--17399014 Score: 81
Period size: 28 Copynumber: 4.2 Consensus size: 29
17398884 GATTTTTGTA
17398894 ATATTTA-TAATTTTTTTCTATTTTCTAT
1 ATATTTACTAATTTTTTTCTATTTTCTAT
* * * * *
17398922 ATATTTTTACAAATTTATATCTA-ATTCAAT
1 ATA--TTTACTAATTTTTTTCTATTTTCTAT
* * ** *
17398952 AT-TTTATTCAATTTTATAATATTTT-TGT
1 ATATTTACT-AATTTTTTTCTATTTTCTAT
17398980 AATATTTA-TAATTTTTTTCTATTTTCTAT
1 -ATATTTACTAATTTTTTTCTATTTTCTAT
17399009 ATATTT
1 ATATTT
17399015 TTACAAATTT
Statistics
Matches: 66, Mismatches: 19, Indels: 16
0.65 0.19 0.16
Matches are distributed among these distances:
27 4 0.06
28 30 0.45
29 7 0.11
30 15 0.23
31 10 0.15
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.62
Consensus pattern (29 bp):
ATATTTACTAATTTTTTTCTATTTTCTAT
Found at i:17399040 original size:28 final size:28
Alignment explanation
Indices: 17398922--17399043 Score: 79
Period size: 28 Copynumber: 4.2 Consensus size: 28
17398912 TATTTTCTAT
17398922 ATATTTTTACAAATTTATATCTAATTCA
1 ATATTTTTACAAATTTATATCTAATTCA
* * * ** *
17398950 ATATTTTATTCAATTTTATAATATTTTTGTA
1 ATATTTT-TACAAATTTAT-ATCTAATT-CA
* * * *
17398981 ATA--TTTA-TAATTTTTTTCTATTTTCTA
1 ATATTTTTACAAATTTATATCTA-ATTC-A
17399008 TATATTTTTACAAATTTATATCTAATTCA
1 -ATATTTTTACAAATTTATATCTAATTCA
17399037 ATATTTT
1 ATATTTT
17399044 ATTCAATTTT
Statistics
Matches: 67, Mismatches: 18, Indels: 18
0.65 0.17 0.17
Matches are distributed among these distances:
26 2 0.03
27 9 0.13
28 18 0.27
29 12 0.18
30 12 0.18
31 14 0.21
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.58
Consensus pattern (28 bp):
ATATTTTTACAAATTTATATCTAATTCA
Found at i:17399080 original size:9 final size:10
Alignment explanation
Indices: 17399036--17399085 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
17399026 TATCTAATTC
17399036 AATATTTTATT
1 AATATTTTA-T
*
17399047 CA-ATTTTAT
1 AATATTTTAT
*
17399056 AATATTTTTGT
1 AATA-TTTTAT
17399067 AATATTTT-T
1 AATATTTTAT
17399076 AATATTTTAT
1 AATATTTTAT
17399086 TTTTTTTTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
9 11 0.33
10 12 0.36
11 10 0.30
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (10 bp):
AATATTTTAT
Found at i:17414679 original size:3 final size:3
Alignment explanation
Indices: 17414671--17414715 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
17414661 ACCAGCCATC
*
17414671 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17414716 CATCTCTCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:17419801 original size:14 final size:15
Alignment explanation
Indices: 17419782--17419814 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
17419772 ACCAATAAAT
17419782 TTATTTTATT-TTTA
1 TTATTTTATTATTTA
17419796 TTA-TTTATTATTTA
1 TTATTTTATTATTTA
17419810 TTATT
1 TTATT
17419815 CATAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.35
14 10 0.59
15 1 0.06
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTTTATTATTTA
Found at i:17419804 original size:7 final size:7
Alignment explanation
Indices: 17419786--17419814 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
17419776 ATAAATTTAT
17419786 TTTATT-
1 TTTATTA
17419792 TTTATTA
1 TTTATTA
17419799 TTTATTA
1 TTTATTA
17419806 TTTATTA
1 TTTATTA
17419813 TT
1 TT
17419815 CATAAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTATTA
Found at i:17422875 original size:37 final size:37
Alignment explanation
Indices: 17422811--17422891 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 37
17422801 ATGGAGAAAT
*
17422811 ATGAAA-CATTTGGAAATGATTAAGGTTTTCT-TCAAA
1 ATGAAATCATTTGGAAATGAATAAGGTTTTCTCT-AAA
**
17422847 ATGAAATCATTTGGAAATGAATGTGGTTTTCTCTAAA
1 ATGAAATCATTTGGAAATGAATAAGGTTTTCTCTAAA
17422884 ATGGAAAT
1 AT-GAAAT
17422892 GAAAATGAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
36 6 0.15
37 27 0.69
38 6 0.15
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.36
Consensus pattern (37 bp):
ATGAAATCATTTGGAAATGAATAAGGTTTTCTCTAAA
Found at i:17422906 original size:7 final size:7
Alignment explanation
Indices: 17422882--17422913 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
17422872 GTTTTCTCTA
17422882 AAATG-G
1 AAATGAG
17422888 AAATGA-
1 AAATGAG
17422894 AAATGAG
1 AAATGAG
17422901 AAATGAG
1 AAATGAG
17422908 AAATGA
1 AAATGA
17422914 ATTTATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 11 0.46
7 13 0.54
ACGTcount: A:0.59, C:0.00, G:0.25, T:0.16
Consensus pattern (7 bp):
AAATGAG
Found at i:17430072 original size:22 final size:22
Alignment explanation
Indices: 17430028--17430069 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
17430018 AAATGTTGAA
17430028 CAGTAGGCACCATAGTGCAAAT
1 CAGTAGGCACCATAGTGCAAAT
*
17430050 CAGTAGGCACTATAGT-CAAA
1 CAGTAGGCACCATAGTGCAAA
17430070 ATCCTGTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (22 bp):
CAGTAGGCACCATAGTGCAAAT
Found at i:17435401 original size:23 final size:24
Alignment explanation
Indices: 17435370--17435416 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
17435360 TTGTCCACGG
* *
17435370 TATTGGCAGCTTGTCTGCA-TATT
1 TATTAGCAGCTTATCTGCACTATT
*
17435393 TATTAGCAGTTTATCTGCACTATT
1 TATTAGCAGCTTATCTGCACTATT
17435417 GTACCGGTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.21, C:0.17, G:0.17, T:0.45
Consensus pattern (24 bp):
TATTAGCAGCTTATCTGCACTATT
Found at i:17457340 original size:7 final size:7
Alignment explanation
Indices: 17457328--17457354 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17457318 ATATAGATAC
17457328 GATTGAT
1 GATTGAT
17457335 GATTGAT
1 GATTGAT
17457342 GATTGAT
1 GATTGAT
17457349 GATTGA
1 GATTGA
17457355 ATTAATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.41
Consensus pattern (7 bp):
GATTGAT
Found at i:17458086 original size:7 final size:7
Alignment explanation
Indices: 17458069--17458107 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
17458059 TGAGAACTAG
17458069 TTTTC-T
1 TTTTCTT
17458075 TTTTCTT
1 TTTTCTT
17458082 TTTTCTT
1 TTTTCTT
17458089 TTTTCTT
1 TTTTCTT
17458096 TTTTCTT
1 TTTTCTT
17458103 CTTTT
1 -TTTT
17458108 TTTAATAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 5 0.16
7 22 0.71
8 4 0.13
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTCTT
Found at i:17458617 original size:19 final size:20
Alignment explanation
Indices: 17458594--17458644 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
17458584 AAATTACAAA
17458594 AAAAATTCAAAACAATTTTC
1 AAAAATTCAAAACAATTTTC
*
17458614 AAAAATTCAAAATAATTTT-
1 AAAAATTCAAAACAATTTTC
*
17458633 TAAAATTCAAAA
1 AAAAATTCAAAA
17458645 GATATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAATTCAAAACAATTTTC
Found at i:17459652 original size:229 final size:229
Alignment explanation
Indices: 17459251--17459708 Score: 916
Period size: 229 Copynumber: 2.0 Consensus size: 229
17459241 GGTATTTTGT
17459251 ATTGTATTTGTAATAGAACTATTCATGGGTTAGTCTACTCACCTACGCTCAAAGCTCAGTCCAAA
1 ATTGTATTTGTAATAGAACTATTCATGGGTTAGTCTACTCACCTACGCTCAAAGCTCAGTCCAAA
17459316 ATTTGAGAGGATTTGGATAAAATTATTAAGTTTGAAAAATGGGTTTGGGCAAAAATATTAAACTC
66 ATTTGAGAGGATTTGGATAAAATTATTAAGTTTGAAAAATGGGTTTGGGCAAAAATATTAAACTC
17459381 ATTTAAAATATGAGTTGAGCTCAGGCTTAAATATCCAAAAGTTCGAGCTTAACCTAACCCGTCTT
131 ATTTAAAATATGAGTTGAGCTCAGGCTTAAATATCCAAAAGTTCGAGCTTAACCTAACCCGTCTT
17459446 TTAAGTTTGTAATGTTTTATATTTGTTAATTTTA
196 TTAAGTTTGTAATGTTTTATATTTGTTAATTTTA
17459480 ATTGTATTTGTAATAGAACTATTCATGGGTTAGTCTACTCACCTACGCTCAAAGCTCAGTCCAAA
1 ATTGTATTTGTAATAGAACTATTCATGGGTTAGTCTACTCACCTACGCTCAAAGCTCAGTCCAAA
17459545 ATTTGAGAGGATTTGGATAAAATTATTAAGTTTGAAAAATGGGTTTGGGCAAAAATATTAAACTC
66 ATTTGAGAGGATTTGGATAAAATTATTAAGTTTGAAAAATGGGTTTGGGCAAAAATATTAAACTC
17459610 ATTTAAAATATGAGTTGAGCTCAGGCTTAAATATCCAAAAGTTCGAGCTTAACCTAACCCGTCTT
131 ATTTAAAATATGAGTTGAGCTCAGGCTTAAATATCCAAAAGTTCGAGCTTAACCTAACCCGTCTT
17459675 TTAAGTTTGTAATGTTTTATATTTGTTAATTTTA
196 TTAAGTTTGTAATGTTTTATATTTGTTAATTTTA
17459709 TATTTAAGAG
Statistics
Matches: 229, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
229 229 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (229 bp):
ATTGTATTTGTAATAGAACTATTCATGGGTTAGTCTACTCACCTACGCTCAAAGCTCAGTCCAAA
ATTTGAGAGGATTTGGATAAAATTATTAAGTTTGAAAAATGGGTTTGGGCAAAAATATTAAACTC
ATTTAAAATATGAGTTGAGCTCAGGCTTAAATATCCAAAAGTTCGAGCTTAACCTAACCCGTCTT
TTAAGTTTGTAATGTTTTATATTTGTTAATTTTA
Found at i:17463884 original size:16 final size:16
Alignment explanation
Indices: 17463863--17463893 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17463853 GGGTATATAT
*
17463863 AAAATTTTAATAAATA
1 AAAATTTTAAAAAATA
17463879 AAAATTTTAAAAAAT
1 AAAATTTTAAAAAAT
17463894 TATAATGAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATTTTAAAAAATA
Found at i:17471125 original size:11 final size:11
Alignment explanation
Indices: 17471108--17471145 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
17471098 ATACAGAGAG
17471108 AGAAAGAGAAA
1 AGAAAGAGAAA
*
17471119 GGAAAGAGAAA
1 AGAAAGAGAAA
*
17471130 AG-AAGAGAAG
1 AGAAAGAGAAA
17471140 AGAAAG
1 AGAAAG
17471146 GGGTTTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (11 bp):
AGAAAGAGAAA
Found at i:17473767 original size:25 final size:25
Alignment explanation
Indices: 17473699--17473770 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
17473689 TTTAAAAGAA
*
17473699 CAAGGTAAATTCAATAACAGACTTG
1 CAAGGTAAATTCAATAAGAGACTTG
*
17473724 TAAGGTAAATTCAATAAGAGACTTG
1 CAAGGTAAATTCAATAAGAGACTTG
*
17473749 CAAGGTAAATTCAACAAGAGAC
1 CAAGGTAAATTCAATAAGAGAC
17473771 GCTTTACCTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.22
Consensus pattern (25 bp):
CAAGGTAAATTCAATAAGAGACTTG
Found at i:17479626 original size:31 final size:31
Alignment explanation
Indices: 17479542--17479627 Score: 109
Period size: 31 Copynumber: 2.8 Consensus size: 31
17479532 TAAGGTATTC
* * *
17479542 AACATCGGTACATAGTACCTGATATAATATA
1 AACATCGGTACATAGTACTTGCTATAACATA
* *
17479573 AACACCGGTACAAAGTACTTGCTATAACATA
1 AACATCGGTACATAGTACTTGCTATAACATA
* *
17479604 AACATCGATACATAGTAGTTGCTA
1 AACATCGGTACATAGTACTTGCTA
17479628 CTTTAAACCC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.27
Consensus pattern (31 bp):
AACATCGGTACATAGTACTTGCTATAACATA
Found at i:17483335 original size:13 final size:13
Alignment explanation
Indices: 17483317--17483342 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17483307 AATGATGAAA
17483317 TATGTTGGAAATG
1 TATGTTGGAAATG
17483330 TATGTTGGAAATG
1 TATGTTGGAAATG
17483343 GCATTCTGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (13 bp):
TATGTTGGAAATG
Found at i:17485424 original size:2 final size:2
Alignment explanation
Indices: 17485417--17485441 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17485407 TTTCTTTGAG
17485417 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
17485442 TACATAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17487381 original size:207 final size:209
Alignment explanation
Indices: 17487026--17487441 Score: 800
Period size: 207 Copynumber: 2.0 Consensus size: 209
17487016 TGAATTTATT
17487026 TTGAAATTATAAAAATACATAAAATTATTAAAATCTATGTCCAGGACATATGTGTGTTTGGGTTC
1 TTGAAATTATAAAAATACATAAAATTATTAAAATCTATGTCCAGGACATATGTGTGTTTGGGTTC
17487091 AGTTGAACTTGGACATAATTTTGTTTAGATTCATTCTAAGCCTGCATTTTTAGTAATTAATTCAT
66 AGTTGAACTTGGACATAATTTTGTTTAGATTCATTCTAAGCCTGCATTTTTAGTAATTAATTCAT
* *
17487156 AAAAATTTTAAAACTACATAAAATTAC-AAAAAAAAAACTTTTAATTAAGAAACTTTAAATTATT
131 AAAAATTTTAAAACTACATAAAATTACAAAAAAAAAAACTATAAATTAAGAAACTTTAAATTATT
17487220 TTA-AAAATTAAAA
196 TTATAAAATTAAAA
17487233 TTGAAATTATAAAAATACATAAAATTATTAAAATCTATGTCCAGGACATATGTGTGTTTGGGTTC
1 TTGAAATTATAAAAATACATAAAATTATTAAAATCTATGTCCAGGACATATGTGTGTTTGGGTTC
17487298 AGTTGAACTTGGACATAATTTTGTTTAGATTCATTCTAAGCCTGCATTTTTAGTAATTAATTCAT
66 AGTTGAACTTGGACATAATTTTGTTTAGATTCATTCTAAGCCTGCATTTTTAGTAATTAATTCAT
17487363 AAAAATTTTAAAACTACATAAAATTACAAAAAAAAAAACTATAAATTAAGAAACTTTAAATTATT
131 AAAAATTTTAAAACTACATAAAATTACAAAAAAAAAAACTATAAATTAAGAAACTTTAAATTATT
17487428 TTATAAAATTAAAA
196 TTATAAAATTAAAA
17487442 ATATATAAAA
Statistics
Matches: 205, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
207 157 0.77
208 38 0.19
209 10 0.05
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.37
Consensus pattern (209 bp):
TTGAAATTATAAAAATACATAAAATTATTAAAATCTATGTCCAGGACATATGTGTGTTTGGGTTC
AGTTGAACTTGGACATAATTTTGTTTAGATTCATTCTAAGCCTGCATTTTTAGTAATTAATTCAT
AAAAATTTTAAAACTACATAAAATTACAAAAAAAAAAACTATAAATTAAGAAACTTTAAATTATT
TTATAAAATTAAAA
Found at i:17489368 original size:285 final size:286
Alignment explanation
Indices: 17488858--17489429 Score: 1137
Period size: 285 Copynumber: 2.0 Consensus size: 286
17488848 CAAAATAGGC
17488858 ATTAAGCCTTATATTAACTATACAATATGGTTATTTTTTAAATGAACTTGAATGTATGAGGTTAG
1 ATTAAGCCTTATATTAACTATACAATATGGTTATTTTTTAAATGAACTTGAATGTATGAGGTTAG
17488923 CATAGCTTTATTTATCTATATCTATCATTAAGTTTTTAATTAAGTTTAGTGTTATTTAACTCAAT
66 CATAGCTTTATTTATCTATATCTATCATTAAGTTTTTAATTAAGTTTAGTGTTATTTAACTCAAT
17488988 GACATTAACTACAAAATAAATAATATGTTTGTTAATTTTCTTTTCATTTAAATAAAATCATTTTT
131 GACATTAACTACAAAATAAATAATATGTTTGTTAATTTTCTTTTCATTTAAATAAAATCATTTTT
17489053 CGTTATTTATGCACTCTCCTATTTTTACTACATAAATTTATGTTACTATTTCATTTTTTTTTACC
196 CGTTATTTATGCACTCTCCTATTTTTACTACATAAATTTATGTTACTATTTCATTTTTTTTTACC
17489118 TTTTTCTATTATAAA-ATTTTATTAT
261 TTTTTCTATTATAAATATTTTATTAT
17489143 ATTAAGCCTTATATTAACTATACAATATGGTTATTTTTTAAATGAACTTGAATGTATGAGGTTAG
1 ATTAAGCCTTATATTAACTATACAATATGGTTATTTTTTAAATGAACTTGAATGTATGAGGTTAG
17489208 CATAGCTTTATTTATCTATATCTATCATTAAGTTTTTAATTAAGTTTAGTGTTATTTAACTCAAT
66 CATAGCTTTATTTATCTATATCTATCATTAAGTTTTTAATTAAGTTTAGTGTTATTTAACTCAAT
17489273 GACATTAACTACAAAATAAATAATATGTTTGTTAATTTTCTTTTCATTTAAATAAAATCATTTTT
131 GACATTAACTACAAAATAAATAATATGTTTGTTAATTTTCTTTTCATTTAAATAAAATCATTTTT
17489338 CGTTATTTATGCACTCTCCTATTTTTACTACATAAATTTATGTTACTATTTCATTTTTTTTTACC
196 CGTTATTTATGCACTCTCCTATTTTTACTACATAAATTTATGTTACTATTTCATTTTTTTTTACC
17489403 TTTTTCTATTATAAATATTTTATTAT
261 TTTTTCTATTATAAATATTTTATTAT
17489429 A
1 A
17489430 ATTTTCATTA
Statistics
Matches: 286, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
285 275 0.96
286 11 0.04
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.49
Consensus pattern (286 bp):
ATTAAGCCTTATATTAACTATACAATATGGTTATTTTTTAAATGAACTTGAATGTATGAGGTTAG
CATAGCTTTATTTATCTATATCTATCATTAAGTTTTTAATTAAGTTTAGTGTTATTTAACTCAAT
GACATTAACTACAAAATAAATAATATGTTTGTTAATTTTCTTTTCATTTAAATAAAATCATTTTT
CGTTATTTATGCACTCTCCTATTTTTACTACATAAATTTATGTTACTATTTCATTTTTTTTTACC
TTTTTCTATTATAAATATTTTATTAT
Found at i:17490901 original size:22 final size:20
Alignment explanation
Indices: 17490852--17490904 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
17490842 TTATTCATGT
*
17490852 AGGTATCAATATTTCATCAA
1 AGGTATCGATATTTCATCAA
*
17490872 AGGTATCGATATTTCTTTCAA
1 AGGTATCGATATTTC-ATCAA
17490893 ATGGTATCGATA
1 A-GGTATCGATA
17490905 CTGCTTGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 14 0.48
21 5 0.17
22 10 0.34
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (20 bp):
AGGTATCGATATTTCATCAA
Found at i:17491441 original size:18 final size:18
Alignment explanation
Indices: 17491391--17491441 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
17491381 GTTACAACAT
*
17491391 ATTTCACATTTCATTTTCC
1 ATTTCACATCTCA-TTTCC
*
17491410 A-TCCACTATCTCATTTCC
1 ATTTCAC-ATCTCATTTCC
*
17491428 ATTTCACATGTCAT
1 ATTTCACATCTCAT
17491442 GCCATTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.24, C:0.29, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTTCACATCTCATTTCC
Found at i:17503680 original size:3 final size:3
Alignment explanation
Indices: 17503672--17503726 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
17503662 GTAATAGATT
17503672 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17503720 TAA TAA T
1 TAA TAA T
17503727 TTGATAAGAG
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:17512164 original size:25 final size:25
Alignment explanation
Indices: 17512112--17512222 Score: 96
Period size: 25 Copynumber: 4.4 Consensus size: 25
17512102 TTGAGTAATA
* * *
17512112 CACCACGAAGGCTTTTTCAGAGAATT
1 CACCACAAAGGC-TTTACAGAGAGTT
* * *
17512138 CGCCACAATGACTTTACAGAGAGTT
1 CACCACAAAGGCTTTACAGAGAGTT
** * * *
17512163 CGTCATAAGGGCTTTACAAAGAGTT
1 CACCACAAAGGCTTTACAGAGAGTT
* *
17512188 TACCATAAAGGCTTTACAGAGAGTT
1 CACCACAAAGGCTTTACAGAGAGTT
17512213 CACCACAAAG
1 CACCACAAAG
17512223 CCTTGGTTTA
Statistics
Matches: 67, Mismatches: 18, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
25 59 0.88
26 8 0.12
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (25 bp):
CACCACAAAGGCTTTACAGAGAGTT
Found at i:17516840 original size:19 final size:19
Alignment explanation
Indices: 17516816--17516907 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
17516806 NNNNNNNNNN
17516816 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
17516835 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
17516854 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
17516873 TCTAAGATTACCTATCATA
1 TCTAAGATTGCATATCATA
*
17516892 TCTAAGATTCCATATC
1 TCTAAGATTGCATATC
17516908 CTTGAAGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 69 1.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:17517513 original size:45 final size:45
Alignment explanation
Indices: 17517452--17517580 Score: 161
Period size: 45 Copynumber: 2.9 Consensus size: 45
17517442 TTGTTTATTT
* * * *
17517452 AGTCTGCCCCATTGCAATTTCAGGGGGATAAGACTTGATTTCTTG
1 AGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTCGATTTCTTG
*
17517497 AGTCTGCTCCACTGCAACTTT-AGGGAGATAAGACTCGCTTTCTTG
1 AGTCTGCTCCACTGCAA-TTTCAGGGAGATAAGACTCGATTTCTTG
* * * *
17517542 GGACTGCTCCACTGCAAATTCAGGGAGATAAGACCCGAT
1 AGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTCGAT
17517581 GCGATCTGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
44 2 0.03
45 67 0.93
46 3 0.04
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (45 bp):
AGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTCGATTTCTTG
Found at i:17517815 original size:217 final size:217
Alignment explanation
Indices: 17517545--17517936 Score: 604
Period size: 217 Copynumber: 1.8 Consensus size: 217
17517535 TTTCTTGGGA
* * *
17517545 CTGCTCCACTGCAAATTCAGGGAGATAAGACCCGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
1 CTGCTCCACTGCAAATTCAGGGAAATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAAAGAGA
* ** * *
17517610 TAAGATTTGTGATTTTAATCCACTCCACTGTAACTTTAGGGAGATAGGATTATTGGCTTTAATCT
66 TAAGATCTGTGATTTTAATCCACTCCACTACAACTTCAGAGAGATAGGATTATTGGCTTTAATCT
* *
17517675 GTTCCACTGCAACTTCAGAGAGATAAGATTCGCCATCTTTAGTCTGCCTCACTACAACTTCAGGA
131 GCTCCACTGCAACTTCAGAGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGA
17517740 GGATAAGGCTTGCTTACTTAGT
196 GGATAAGGCTTGCTTACTTAGT
* ** *
17517762 CTGCTCCACTGCAACTTCATTGAAATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAAAGAGA
1 CTGCTCCACTGCAAATTCAGGGAAATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAAAGAGA
** *
17517827 TAAGATCTGTGATTTTAATCTGCTCCACTACGACTTCAGAGAGATAGGATTATTGGCTTTAATCT
66 TAAGATCTGTGATTTTAATCCACTCCACTACAACTTCAGAGAGATAGGATTATTGGCTTTAATCT
* * *
17517892 GCTCCACTGTAACTTCAGGGAGATAAGATTCGCTATCTTCAGTCT
131 GCTCCACTGCAACTTCAGAGAGATAAGATTCGCCATCTTCAGTCT
17517937 TTTAAATCGC
Statistics
Matches: 155, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
217 155 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (217 bp):
CTGCTCCACTGCAAATTCAGGGAAATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAAAGAGA
TAAGATCTGTGATTTTAATCCACTCCACTACAACTTCAGAGAGATAGGATTATTGGCTTTAATCT
GCTCCACTGCAACTTCAGAGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGA
GGATAAGGCTTGCTTACTTAGT
Found at i:17517870 original size:44 final size:44
Alignment explanation
Indices: 17517596--17517921 Score: 186
Period size: 44 Copynumber: 7.5 Consensus size: 44
17517586 CTGCTCTCTG
* * ** *
17517596 CAACTTCAGAGAGATAAGATTTGTGATTTTAATCCACTCCACTG
1 CAACTTCAGAGAGATAAGATTAGTGACTTTAATCTGCTCCACTA
* * * * * * * *
17517640 TAACTTTAGGGAGATAGGATTATTGGCTTTAATCTGTTCCACTG
1 CAACTTCAGAGAGATAAGATTAGTGACTTTAATCTGCTCCACTA
* ** *
17517684 CAACTTCAGAGAGATAAGATTCGCCATCTTTAGTCTGC-CTCACTA
1 CAACTTCAGAGAGATAAGATTAGTGA-CTTTAATCTGCTC-CACTA
* * * *
17517729 CAACTTCAG-GAGGATAAGGCTT-GCTTAC-TTAGTCTGCTCCACTG
1 CAACTTCAGAGA-GATAA-GATTAG-TGACTTTAATCTGCTCCACTA
** * * * * *
17517773 CAACTTCATTGAAATAAGACTAGATG-C---GATCTGCT-CTCTG
1 CAACTTCAGAGAGATAAGATTAG-TGACTTTAATCTGCTCCACTA
* *
17517813 CAACTTCAAAGAGATAAGATCT-GTGATTTTAATCTGCTCCACTA
1 CAACTTCAGAGAGATAAGAT-TAGTGACTTTAATCTGCTCCACTA
* * * * *
17517857 CGACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTG
1 CAACTTCAGAGAGATAAGATTAGTGACTTTAATCTGCTCCACTA
* *
17517901 TAACTTCAGGGAGATAAGATT
1 CAACTTCAGAGAGATAAGATT
17517922 CGCTATCTTC
Statistics
Matches: 212, Mismatches: 55, Indels: 30
0.71 0.19 0.10
Matches are distributed among these distances:
39 2 0.01
40 21 0.10
41 7 0.03
43 11 0.05
44 135 0.64
45 32 0.15
46 4 0.02
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
CAACTTCAGAGAGATAAGATTAGTGACTTTAATCTGCTCCACTA
Found at i:17518530 original size:88 final size:88
Alignment explanation
Indices: 17518420--17518810 Score: 613
Period size: 88 Copynumber: 4.4 Consensus size: 88
17518410 GGCTGGGGTA
* *
17518420 TCGATCCGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGCAAC
*
17518485 CCAGGGAGACAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* *
17518508 TCGATCTGCTTCGCTGTCGGTGCAGGAATGCAAGATCTG-TAATTTTTAACTTGCTCCACTGCAA
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCT-ATTTTTAACCTGCTCCACTGCAA
*
17518572 CCTAGGGAGGCAAGGCTGGTGTCT
65 CCCAGGGAGGCAAGGCTGGTGTCT
* * * * *
17518596 TCGATCTGCTTCGCTGTCGGTGCAGAAAGGTAAAATCTGCTATTTTTAACCTGCTCCGCTGTAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGCAAC
* * *
17518661 ACAGAGAGGCAAGGCTAGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* *
17518684 TCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGCAAC
*
17518749 CCAGGGAGGCAAGGTTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
17518772 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
17518811 TTATCTTCAC
Statistics
Matches: 272, Mismatches: 29, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
87 1 0.00
88 270 0.99
89 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.27
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGCAAC
CCAGGGAGGCAAGGCTGGTGTCT
Found at i:17521042 original size:25 final size:26
Alignment explanation
Indices: 17520991--17521051 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
17520981 AAGAAAATCC
* **
17520991 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
17521017 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
17521042 AAAATGAATG
1 AAAA-GAATG
17521052 CAAAGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:17525172 original size:23 final size:22
Alignment explanation
Indices: 17525146--17525188 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
17525136 ATAAGCATAC
*
17525146 ATATACTATATATAAAACAATAT
1 ATATACTACATA-AAAACAATAT
*
17525169 ATATATTACATAAAAACAAT
1 ATATACTACATAAAAACAAT
17525189 GCATGCGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (22 bp):
ATATACTACATAAAAACAATAT
Found at i:17525724 original size:19 final size:19
Alignment explanation
Indices: 17525700--17525744 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
17525690 AATCATATCT
**
17525700 TCTAAGACTGCATATCATA
1 TCTAAGACTAAATATCATA
*
17525719 TCTAAGATTAAATATCATA
1 TCTAAGACTAAATATCATA
17525738 TCTAAGA
1 TCTAAGA
17525745 TTGAATATCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (19 bp):
TCTAAGACTAAATATCATA
Found at i:17525745 original size:19 final size:19
Alignment explanation
Indices: 17525711--17525753 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
17525701 CTAAGACTGC
17525711 ATATCATATCTAAGATTAA
1 ATATCATATCTAAGATTAA
*
17525730 ATATCATATCTAAGATTGA
1 ATATCATATCTAAGATTAA
17525749 ATATC
1 ATATC
17525754 CTTGAAGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (19 bp):
ATATCATATCTAAGATTAA
Found at i:17525753 original size:38 final size:40
Alignment explanation
Indices: 17525677--17525753 Score: 95
Period size: 38 Copynumber: 1.9 Consensus size: 40
17525667 AAATTAAATC
*
17525677 TCTAAGATTATAAAATCATATCTTCTAAGACTGCATATCATA
1 TCTAAGATTATAAAATCATA--TTCTAAGACTGAATATCATA
* *
17525719 TCTAAGATTA-AATATCATA-TCTAAGATTGAATATC
1 TCTAAGATTATAAAATCATATTCTAAGACTGAATATC
17525754 CTTGAAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 14 0.44
41 8 0.25
42 10 0.31
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (40 bp):
TCTAAGATTATAAAATCATATTCTAAGACTGAATATCATA
Found at i:17526965 original size:19 final size:19
Alignment explanation
Indices: 17526941--17526981 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
17526931 AAATTTATGA
17526941 TGTTTTC-CTATTGTTTTCT
1 TGTTTTCTC-ATTGTTTTCT
*
17526960 TGTTTTCTCATTGTTTTGT
1 TGTTTTCTCATTGTTTTCT
17526979 TGT
1 TGT
17526982 CATTTCACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.05, C:0.12, G:0.15, T:0.68
Consensus pattern (19 bp):
TGTTTTCTCATTGTTTTCT
Found at i:17529545 original size:13 final size:13
Alignment explanation
Indices: 17529523--17529558 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
17529513 GCTCAACCCG
*
17529523 TATTAATTTTTTA
1 TATTATTTTTTTA
17529536 TATTATTTTTTTA
1 TATTATTTTTTTA
17529549 TA-TATTTTTT
1 TATTATTTTTT
17529559 AAAAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TATTATTTTTTTA
Found at i:17531859 original size:25 final size:23
Alignment explanation
Indices: 17531801--17531860 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 23
17531791 TGGTAAGAAG
*
17531801 AATTTTTAAATTTCGTTATTTTT
1 AATTTTTAAATTTAGTTATTTTT
* *
17531824 AATTAAGTTAAATTTGAAGTTTTTTTT
1 AATT--TTTAAATTT--AGTTATTTTT
17531851 AATTTTTAAA
1 AATTTTTAAA
17531861 ATATTTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
23 4 0.14
25 13 0.45
27 12 0.41
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (23 bp):
AATTTTTAAATTTAGTTATTTTT
Found at i:17539842 original size:18 final size:18
Alignment explanation
Indices: 17539820--17539860 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
17539810 ATCCACTGCC
17539820 CCTTCTTCATCAATTGCA
1 CCTTCTTCATCAATTGCA
* *
17539838 TCTTCTTCCTCAATTGCA
1 CCTTCTTCATCAATTGCA
17539856 CCTTC
1 CCTTC
17539861 ATTGTTATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.17, C:0.37, G:0.05, T:0.41
Consensus pattern (18 bp):
CCTTCTTCATCAATTGCA
Found at i:17542151 original size:26 final size:28
Alignment explanation
Indices: 17542104--17542162 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
17542094 TTTCACTCTT
*
17542104 AAAAACCTAAACCTTAATTCCT-AACAA
1 AAAAACCTAAACCCTAATTCCTAAACAA
*
17542131 AAAAACTCT-AACCCTAA-TCCTAAAGAA
1 AAAAAC-CTAAACCCTAATTCCTAAACAA
17542158 AAAAA
1 AAAAA
17542163 ATGGGCGCGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 4 0.14
27 22 0.79
28 2 0.07
ACGTcount: A:0.56, C:0.24, G:0.02, T:0.19
Consensus pattern (28 bp):
AAAAACCTAAACCCTAATTCCTAAACAA
Found at i:17543409 original size:20 final size:20
Alignment explanation
Indices: 17543384--17543437 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
17543374 TGAAGCAGAA
17543384 ATTTTTTTATTTTTTAAATT
1 ATTTTTTTATTTTTTAAATT
17543404 A-TTTTTTATTTTTATAAATT
1 ATTTTTTTATTTTT-TAAATT
**
17543424 -TTTAATTATTTTTT
1 ATTTTTTTATTTTTT
17543438 TAATGAGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
ATTTTTTTATTTTTTAAATT
Found at i:17550321 original size:22 final size:22
Alignment explanation
Indices: 17550296--17550338 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
17550286 ATAAGCTCCT
* *
17550296 TTACATTCGATTAATAAATGTA
1 TTACATTCAATCAATAAATGTA
*
17550318 TTACATTTAATCAATAAATGT
1 TTACATTCAATCAATAAATGT
17550339 GAATTAAGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (22 bp):
TTACATTCAATCAATAAATGTA
Found at i:17555705 original size:37 final size:38
Alignment explanation
Indices: 17555631--17555717 Score: 124
Period size: 37 Copynumber: 2.3 Consensus size: 38
17555621 CTTATTGAAG
*
17555631 GGTTGGGAAAGACCTAGTCAAGGCCAACCTTTAAAAAA
1 GGTTGGGATAGACCTAGTCAAGGCCAACCTTTAAAAAA
*
17555669 GGTTGGGATAGACC-AGTCTAAGG-TAACCTTTAAAAAA
1 GGTTGGGATAGACCTAGTC-AAGGCCAACCTTTAAAAAA
*
17555706 GATTGGGATAGA
1 GGTTGGGATAGA
17555718 ATTGTCGAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
37 28 0.62
38 17 0.38
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (38 bp):
GGTTGGGATAGACCTAGTCAAGGCCAACCTTTAAAAAA
Found at i:17558761 original size:37 final size:37
Alignment explanation
Indices: 17558696--17559482 Score: 660
Period size: 37 Copynumber: 21.5 Consensus size: 37
17558686 CAAGAATCTT
* * * * *
17558696 TAAGGCAACC-TTAAATACGTTGGTATAGATCTTGTT
1 TAAGGCAACCTTTAAAAAAGTTGGGATAGACCTTGTC
*
17558732 TAAGGCAACCTTTAAAAAAGTTGGGATAGACC-AGTC
1 TAAGGCAACCTTTAAAAAAGTTGGGATAGACCTTGTC
17558768 TAAGGCAACCTTTAAAAAAGTTGGGATAGACCTTGTC
1 TAAGGCAACCTTTAAAAAAGTTGGGATAGACCTTGTC
* *
17558805 TAAGGCAACCTTTAAAATTATTGAAGGGTTGGGAAAGACCTAGTC
1 TAAGGCAACCTTT-AAA--A---AA--GTTGGGATAGACCTTGTC
* *
17558850 -AAGGCCAACCTTTAAAAAGGGTTGGGATAGACCTAGTC
1 TAAGG-CAACCTTTAAAAA-AGTTGGGATAGACCTTGTC
* * * *
17558888 -AAGGCCAACCTTTGAAAAAGGTTGTGATAAACC-TATC
1 TAAGG-CAACCTTT-AAAAAAGTTGGGATAGACCTTGTC
* * *
17558925 TAAGGCAACC-TTAACAAGGTTGGGATAGA-CTAGTC
1 TAAGGCAACCTTTAAAAAAGTTGGGATAGACCTTGTC
* *
17558960 TAA-G--A--TATAAAAAAGTTGGGATAGACCTTATC
1 TAAGGCAACCTTTAAAAAAGTTGGGATAGACCTTGTC
* * *
17558992 TAAGGCAACATTTAAAAAAAGTTGGGATAGTCATTGTC
1 TAAGGCAACCTTT-AAAAAAGTTGGGATAGACCTTGTC
* *
17559030 TAAGGCAACCTTTAAAAAAGATTGGGATAGA-ATCGTC
1 TAAGGCAACCTTTAAAAAAG-TTGGGATAGACCTTGTC
* * * * *
17559067 TAAGGCAACC-TTAAATAGGTTGGTATAAACCTTATC
1 TAAGGCAACCTTTAAAAAAGTTGGGATAGACCTTGTC
* *
17559103 TAAGGCAACTTTTAAAAAAGGTTGGGATAGACC-AGTC
1 TAAGGCAACCTTTAAAAAA-GTTGGGATAGACCTTGTC
* * *
17559140 TAAGGCAACCTTTTAAAAATGTTGGGATAGAGC-AGTC
1 TAAGGCAACC-TTTAAAAAAGTTGGGATAGACCTTGTC
* * * *
17559177 TAAGGTAACATTTTAAAAATGTTAGGATAGACCTTGTC
1 TAAGGCAAC-CTTTAAAAAAGTTGGGATAGACCTTGTC
*
17559215 TAAGGCAACCTTAAAAAAAGGTTGGGATAGA-CTTGTC
1 TAAGGCAACCTTTAAAAAA-GTTGGGATAGACCTTGTC
* *
17559252 TAAAGCAACC-TTAAAAAGGTTGGGATAGA--TTAGTC
1 TAAGGCAACCTTTAAAAAAGTTGGGATAGACCTT-GTC
* *
17559287 TAAGGTAACC-TTAAAAAGGTTGGGATAGACCTTGTC
1 TAAGGCAACCTTTAAAAAAGTTGGGATAGACCTTGTC
* * * *
17559323 TAAGGTAACTTTTAGAAAAGGTTGGGATTGA-CTTGTC
1 TAAGGCAACCTTTA-AAAAAGTTGGGATAGACCTTGTC
* * * *
17559360 TAAGACAACC-TTAAAAATGTTGGGATAGACC-CGTT
1 TAAGGCAACCTTTAAAAAAGTTGGGATAGACCTTGTC
* * *
17559395 TAAAGCAACC-TTAAAAAAGTTGGGATAAACCTTTTC
1 TAAGGCAACCTTTAAAAAAGTTGGGATAGACCTTGTC
* ** *
17559431 CAAGGCAA-CTTTAAAAAAGTTGAAATA-AACTCT-TC
1 TAAGGCAACCTTTAAAAAAGTTGGGATAGACCT-TGTC
17559466 TAAGGCAACC-TTAAAAA
1 TAAGGCAACCTTTAAAAA
17559483 GGTTAAGGTA
Statistics
Matches: 624, Mismatches: 86, Indels: 83
0.79 0.11 0.10
Matches are distributed among these distances:
31 16 0.03
32 8 0.01
33 1 0.00
34 4 0.01
35 132 0.21
36 111 0.18
37 165 0.26
38 146 0.23
39 6 0.01
40 1 0.00
42 1 0.00
43 2 0.00
44 7 0.01
45 24 0.04
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.27
Consensus pattern (37 bp):
TAAGGCAACCTTTAAAAAAGTTGGGATAGACCTTGTC
Found at i:17558797 original size:73 final size:74
Alignment explanation
Indices: 17558696--17559482 Score: 669
Period size: 73 Copynumber: 10.7 Consensus size: 74
17558686 CAAGAATCTT
* * * * *
17558696 TAAGGCAACC-TTAAATACGTTGGTATAGATCTTGTTTAAGGCAACCTTTAAAAAAGTTGGGATA
1 TAAGGCAACCTTTAAAAAAGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGTTGGGATA
17558760 GACC-AGTC
66 GACCTAGTC
17558768 TAAGGCAACCTTTAAAAAAGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAATTATTGAAGGG
1 TAAGGCAACCTTTAAAAAAGTTGGGATAGACCTTGTCTAAGGCAACCTTT-AAA--A---AA--G
*
17558833 TTGGGAAAGACCTAGTC
58 TTGGGATAGACCTAGTC
* * * *
17558850 -AAGGCCAACCTTTAAAAAGGGTTGGGATAGACCTAGTC-AAGGCCAACCTTTGAAAAAGGTTGT
1 TAAGG-CAACCTTTAAAAA-AGTTGGGATAGACCTTGTCTAAGG-CAACCTTT-AAAAAAGTTGG
*
17558913 GATAAACCTA-TC
62 GATAGACCTAGTC
* * * *
17558925 TAAGGCAACC-TTAACAAGGTTGGGATAGA-CTAGTCTAA-G--A--TATAAAAAAGTTGGGATA
1 TAAGGCAACCTTTAAAAAAGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGTTGGGATA
17558983 GACCTTA-TC
66 GACC-TAGTC
* * *
17558992 TAAGGCAACATTTAAAAAAAGTTGGGATAGTCATTGTCTAAGGCAACCTTTAAAAAAGATTGGGA
1 TAAGGCAACCTTT-AAAAAAGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAG-TTGGGA
* *
17559057 TAGA-ATCGTC
64 TAGACCTAGTC
* * * * * *
17559067 TAAGGCAACC-TTAAATAGGTTGGTATAAACCTTATCTAAGGCAACTTTTAAAAAAGGTTGGGAT
1 TAAGGCAACCTTTAAAAAAGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAA-GTTGGGAT
17559131 AGACC-AGTC
65 AGACCTAGTC
* * * * * * *
17559140 TAAGGCAACCTTTTAAAAATGTTGGGATAGAGC-AGTCTAAGGTAACATTTTAAAAATGTTAGGA
1 TAAGGCAACC-TTTAAAAAAGTTGGGATAGACCTTGTCTAAGGCAAC-CTTTAAAAAAGTTGGGA
*
17559204 TAGACCTTGTC
64 TAGACCTAGTC
* * *
17559215 TAAGGCAACCTTAAAAAAAGGTTGGGATAGA-CTTGTCTAAAGCAACC-TTAAAAAGGTTGGGAT
1 TAAGGCAACCTTTAAAAAA-GTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGTTGGGAT
*
17559278 AGA-TTAGTC
65 AGACCTAGTC
* * * * *
17559287 TAAGGTAACC-TTAAAAAGGTTGGGATAGACCTTGTCTAAGGTAACTTTTAGAAAAGGTTGGGAT
1 TAAGGCAACCTTTAAAAAAGTTGGGATAGACCTTGTCTAAGGCAACCTTTA-AAAAAGTTGGGAT
* *
17559351 TGA-CTTGTC
65 AGACCTAGTC
* * * * *
17559360 TAAGACAACC-TTAAAAATGTTGGGATAGACC-CGTTTAAAGCAACC-TTAAAAAAGTTGGGATA
1 TAAGGCAACCTTTAAAAAAGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGTTGGGATA
* **
17559422 AACCTTTTC
66 GACCTAGTC
* ** *
17559431 CAAGGCAA-CTTTAAAAAAGTTGAAATA-AACTCT-TCTAAGGCAACC-TTAAAAA
1 TAAGGCAACCTTTAAAAAAGTTGGGATAGACCT-TGTCTAAGGCAACCTTTAAAAA
17559483 GGTTAAGGTA
Statistics
Matches: 585, Mismatches: 89, Indels: 83
0.77 0.12 0.11
Matches are distributed among these distances:
66 16 0.03
67 15 0.03
68 2 0.00
69 15 0.03
70 34 0.06
71 65 0.11
72 42 0.07
73 171 0.29
74 43 0.07
75 86 0.15
76 27 0.05
78 1 0.00
79 2 0.00
81 17 0.03
82 21 0.04
83 28 0.05
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.27
Consensus pattern (74 bp):
TAAGGCAACCTTTAAAAAAGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGTTGGGATA
GACCTAGTC
Found at i:17558859 original size:45 final size:40
Alignment explanation
Indices: 17558733--17559327 Score: 223
Period size: 38 Copynumber: 16.1 Consensus size: 40
17558723 GATCTTGTTT
17558733 AAGG-CAACCTTT-AAAAAA--GTTGGGATAGACC-AGTC
1 AAGGCCAACCTTTAAAAAAAGGGTTGGGATAGACCTAGTC
*
17558768 TAAGG-CAACCTTT-AAAAAA--GTTGGGATAGACCTTGTC
1 -AAGGCCAACCTTTAAAAAAAGGGTTGGGATAGACCTAGTC
*
17558805 TAAGG-CAACCTTTAAAATTATTGAAGGGTTGGGAAAGACCTAGTC
1 -AAGGCCAACCTTTAAAA--A---AAGGGTTGGGATAGACCTAGTC
17558850 AAGGCCAACCTTT--AAAAAGGGTTGGGATAGACCTAGTC
1 AAGGCCAACCTTTAAAAAAAGGGTTGGGATAGACCTAGTC
* * *
17558888 AAGGCCAACCTTT-GAAAAA-GGTTGTGATAAACCTA-TC
1 AAGGCCAACCTTTAAAAAAAGGGTTGGGATAGACCTAGTC
*
17558925 TAAGG-CAACC-TT--AACAA-GGTTGGGATAGA-CTAGTC
1 -AAGGCCAACCTTTAAAAAAAGGGTTGGGATAGACCTAGTC
*
17558960 TAA-G---A--TAT-AAAAAA--GTTGGGATAGACCTTA-TC
1 -AAGGCCAACCTTTAAAAAAAGGGTTGGGATAGACC-TAGTC
* * * *
17558992 TAAGG-CAACATTTAAAAAAA--GTTGGGATAGTCATTGTC
1 -AAGGCCAACCTTTAAAAAAAGGGTTGGGATAGACCTAGTC
* * *
17559030 TAAGG-CAACCTTT-AAAAAA-GATTGGGATAGA-ATCGTC
1 -AAGGCCAACCTTTAAAAAAAGGGTTGGGATAGACCTAGTC
* * *
17559067 TAAGG-CAACC-TT--AAATA-GGTTGGTATAAACCTTA-TC
1 -AAGGCCAACCTTTAAAAAAAGGGTTGGGATAGACC-TAGTC
*
17559103 TAAGG-CAA-CTTTTAAAAAA-GGTTGGGATAGACC-AGTC
1 -AAGGCCAACCTTTAAAAAAAGGGTTGGGATAGACCTAGTC
* * *
17559140 TAAGG-CAACCTTT-TAAAAA-TGTTGGGATAGAGC-AGTC
1 -AAGGCCAACCTTTAAAAAAAGGGTTGGGATAGACCTAGTC
* * * * * *
17559177 TAAGG-TAACATTT-TAAAAA-TGTTAGGATAGACCTTGTC
1 -AAGGCCAACCTTTAAAAAAAGGGTTGGGATAGACCTAGTC
*
17559215 TAAGG-CAACC-TTAAAAAAA-GGTTGGGATAGA-CTTGTC
1 -AAGGCCAACCTTTAAAAAAAGGGTTGGGATAGACCTAGTC
* *
17559252 TAAAG-CAACC-TT--AAAAA-GGTTGGGATAGA-TTAGTC
1 -AAGGCCAACCTTTAAAAAAAGGGTTGGGATAGACCTAGTC
* *
17559287 TAAGG-TAACC-TT--AAAAA-GGTTGGGATAGACCTTGTC
1 -AAGGCCAACCTTTAAAAAAAGGGTTGGGATAGACCTAGTC
17559323 TAAGG
1 -AAGG
17559328 TAACTTTTAG
Statistics
Matches: 476, Mismatches: 48, Indels: 70
0.80 0.08 0.12
Matches are distributed among these distances:
31 12 0.03
32 11 0.02
33 3 0.01
34 4 0.01
35 82 0.17
36 57 0.12
37 127 0.27
38 141 0.30
39 5 0.01
40 1 0.00
41 1 0.00
43 4 0.01
44 4 0.01
45 24 0.05
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (40 bp):
AAGGCCAACCTTTAAAAAAAGGGTTGGGATAGACCTAGTC
Found at i:17558882 original size:38 final size:37
Alignment explanation
Indices: 17558831--17559529 Score: 551
Period size: 35 Copynumber: 19.3 Consensus size: 37
17558821 ATTATTGAAG
*
17558831 GGTTGGGAAAGACCTAGTC-AAGGCCAACCTTTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGG-CAACCTTTAAAAA
17558868 GGGTTGGGATAGACCTAGTC-AAGGCCAACCTTTGAAAAA
1 -GGTTGGGATAGACCTAGTCTAAGG-CAACCTTT-AAAAA
* * *
17558907 GGTTGTGATAAACCTA-TCTAAGGCAACC-TTAACAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
*
17558942 GGTTGGGATAGA-CTAGTCTAA-G--A--TATAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
* *
17558973 AGTTGGGATAGACCTTA-TCTAAGGCAACATTTAAAAAA
1 GGTTGGGATAGACC-TAGTCTAAGGCAACCTTT-AAAAA
* * * *
17559011 AGTTGGGATAGTCATTGTCTAAGGCAACCTTTAAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTT-AAAAA
* * * *
17559049 GATTGGGATAGA-ATCGTCTAAGGCAACC-TTAAATA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
* * *
17559084 GGTTGGTATAAACCTTA-TCTAAGGCAACTTTTAAAAAA
1 GGTTGGGATAGACC-TAGTCTAAGGCAACCTTT-AAAAA
17559122 GGTTGGGATAGACC-AGTCTAAGGCAACCTTTTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACC-TTTAAAAA
* * * *
17559159 TGTTGGGATAGAGC-AGTCTAAGGTAACATTTTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAAC-CTTTAAAAA
* * * *
17559196 TGTTAGGATAGACCTTGTCTAAGGCAACCTTAAAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTT-TAAAAA
* *
17559234 GGTTGGGATAGA-CTTGTCTAAAGCAACC-TTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
* *
17559269 GGTTGGGATAGA-TTAGTCTAAGGTAACC-TTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
* * *
17559304 GGTTGGGATAGACCTTGTCTAAGGTAACTTTTAGAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTA-AAAA
* * *
17559342 GGTTGGGATTGA-CTTGTCTAAGACAACC-TTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
* * * *
17559377 TGTTGGGATAGACC-CGTTTAAAGCAACC-TTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
* * ** *
17559412 AGTTGGGATAAACCTTTTCCAAGGCAA-CTTTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
* ** *
17559448 AGTTGAAATAAACTCT--TCTAAGGCAACC-TTAAAAA
1 GGTTGGGATAGAC-CTAGTCTAAGGCAACCTTTAAAAA
* * * * *
17559483 GGTTAAGG-TAAACCT-GTCTAAAGAAAAC-TTAAAAA
1 GGTT-GGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
*
17559518 GGTTGGAATAGA
1 GGTTGGGATAGA
17559530 TCTTTGTCTC
Statistics
Matches: 548, Mismatches: 80, Indels: 69
0.79 0.11 0.10
Matches are distributed among these distances:
31 16 0.03
32 7 0.01
33 3 0.01
34 7 0.01
35 172 0.31
36 60 0.11
37 123 0.22
38 155 0.28
39 5 0.01
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (37 bp):
GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
Found at i:17559858 original size:75 final size:75
Alignment explanation
Indices: 17559720--17559870 Score: 194
Period size: 75 Copynumber: 2.0 Consensus size: 75
17559710 TAGTAATTTA
* * * * * *
17559720 TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCGAGCATGTTGTCGACCTATTTCACATGAC
1 TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCAAACATGATGCCAACCTATTTCACATGAA
*
17559785 ATCCAAAAAT
66 ATCAAAAAAT
* * * * *
17559795 TATACAAAATCCTAATAGAAGCAGTTAACACGTTGCAAACATGATGCCAACTTGTTTCCCATGAA
1 TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCAAACATGATGCCAACCTATTTCACATGAA
17559860 ATCAAAAAAT
66 ATCAAAAAAT
17559870 T
1 T
17559871 TTGGGACAAC
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
75 64 1.00
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (75 bp):
TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCAAACATGATGCCAACCTATTTCACATGAA
ATCAAAAAAT
Found at i:17560836 original size:10 final size:10
Alignment explanation
Indices: 17560821--17560846 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
17560811 ATTGATGTCA
17560821 AAATAAATAT
1 AAATAAATAT
17560831 AAATAAATAT
1 AAATAAATAT
17560841 AAATAA
1 AAATAA
17560847 TACTCATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AAATAAATAT
Found at i:17563003 original size:6 final size:7
Alignment explanation
Indices: 17562978--17563002 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17562968 AAACTTTTGG
17562978 AAAAATA
1 AAAAATA
17562985 AAAAATA
1 AAAAATA
17562992 AAAAATA
1 AAAAATA
17562999 AAAA
1 AAAA
17563003 TCTAAGGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:17564097 original size:22 final size:22
Alignment explanation
Indices: 17564061--17564120 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
17564051 TAAATATATA
*
17564061 TTATAAAAAATTATATATATAAGT
1 TTAT-AAAAA-TATATATATAAAT
17564085 TTATAAAAATATAT-TATAAAT
1 TTATAAAAATATATATATAAAT
*
17564106 TTA-GAAAATATATAT
1 TTATAAAAATATATAT
17564121 TTGTTATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 9 0.27
21 10 0.30
22 5 0.15
23 5 0.15
24 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (22 bp):
TTATAAAAATATATATATAAAT
Found at i:17564098 original size:20 final size:19
Alignment explanation
Indices: 17564054--17564120 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 19
17564044 AATTTTATAA
*
17564054 ATATATATTATAAAAAATTAT
1 ATATAAATT-TAAAAAA-TAT
17564075 ATATATAAGTTTATAAAAATAT
1 ATATA-AA-TTTA-AAAAATAT
*
17564097 ATTATAAATTTAGAAAATAT
1 A-TATAAATTTAAAAAATAT
17564117 ATAT
1 ATAT
17564121 TTGTTATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
19 3 0.08
20 8 0.20
21 9 0.22
22 9 0.22
23 11 0.28
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
ATATAAATTTAAAAAATAT
Found at i:17564121 original size:22 final size:22
Alignment explanation
Indices: 17564067--17564121 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
17564057 TATATTATAA
* *
17564067 AAAAT-TATATATATAAGTTTAT
1 AAAATATATAT-TATAAATTTAG
17564089 AAAA-ATATATTATAAATTTAG
1 AAAATATATATTATAAATTTAG
17564110 AAAATATATATT
1 AAAATATATATT
17564122 TGTTATATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
AAAATATATATTATAAATTTAG
Found at i:17569070 original size:64 final size:64
Alignment explanation
Indices: 17569000--17569721 Score: 1437
Period size: 64 Copynumber: 11.3 Consensus size: 64
17568990 GAAAATACGG
17569000 ATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGTAATT
1 ATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGTAATT
17569064 ATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGTAATT
1 ATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGTAATT
17569128 ATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGTAATT
1 ATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGTAATT
17569192 ATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGTAATT
1 ATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGTAATT
17569256 ATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGTAATT
1 ATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGTAATT
17569320 ATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGTAATT
1 ATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGTAATT
17569384 ATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGTAATT
1 ATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGTAATT
17569448 ATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGTAATT
1 ATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGTAATT
17569512 ATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGTAATT
1 ATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGTAATT
17569576 ATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGTAATT
1 ATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGTAATT
17569640 ATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGTAATT
1 ATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGTAATT
17569704 ATTTTATAATT-AATTTGT
1 ATTTTATAATTAAATTTGT
17569722 TAGTAATTTG
Statistics
Matches: 658, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
63 7 0.01
64 651 0.99
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (64 bp):
ATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGTAATT
Found at i:17569902 original size:37 final size:38
Alignment explanation
Indices: 17569851--17569923 Score: 130
Period size: 37 Copynumber: 1.9 Consensus size: 38
17569841 CATATAAAGT
17569851 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
*
17569889 TTAT-AAAAAATTAAAAATCATTTTATTAAAAGTTT
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTT
17569924 GGGTTTTTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 30 0.88
38 4 0.12
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
Found at i:17572572 original size:6 final size:6
Alignment explanation
Indices: 17572557--17572596 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
17572547 TGCACTGAGT
* *
17572557 CAGAGC CAGAGA CAGAGC CAGAGC TAGAGC CAGAGC CAGA
1 CAGAGC CAGAGC CAGAGC CAGAGC CAGAGC CAGAGC CAGA
17572597 ACTACATTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.38, C:0.28, G:0.33, T:0.03
Consensus pattern (6 bp):
CAGAGC
Found at i:17577673 original size:22 final size:22
Alignment explanation
Indices: 17577645--17577722 Score: 79
Period size: 22 Copynumber: 3.5 Consensus size: 22
17577635 TAAATAATTT
17577645 AAAAATTATATTCATAAAA-TAA
1 AAAAATTA-ATTCATAAAATTAA
* *
17577667 AAAAATTAAAATTCAAAAAATTAT
1 AAAAATT--AATTCATAAAATTAA
*
17577691 AAAAA-TAGTTCATAAAAATTAA
1 AAAAATTAATTCAT-AAAATTAA
17577713 AAAAATTAAT
1 AAAAATTAAT
17577723 AACATGGATT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
21 5 0.11
22 19 0.42
23 13 0.29
24 8 0.18
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (22 bp):
AAAAATTAATTCATAAAATTAA
Done.