Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 54 of 325
Found at i:14089374 original size:23 final size:22
Alignment explanation
Indices: 14089344--14089387 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
14089334 AGGCAACCCA
*
14089344 ATTTTTATTTCTCTTTATTTTTT
1 ATTTTTATTTAT-TTTATTTTTT
14089367 ATTTTTATTTATTTTATTTTT
1 ATTTTTATTTATTTTATTTTT
14089388 ATTATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.80
Consensus pattern (22 bp):
ATTTTTATTTATTTTATTTTTT
Found at i:14089388 original size:21 final size:20
Alignment explanation
Indices: 14089344--14089416 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 20
14089334 AGGCAACCCA
14089344 ATTTTTATTTCTCTTTATTTTTT
1 ATTTTTATTT-T-TTTA-TTTTT
14089367 ATTTTTATTTATTTTATTTTT
1 ATTTTTATTT-TTTTATTTTT
*
14089388 ATTATTTTATTTTTAATATTTATT
1 A-T-TTTTATTTTT-TTATTT-TT
14089412 ATTTT
1 ATTTT
14089417 ATCTTAATGA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
21 6 0.14
22 10 0.23
23 25 0.57
24 3 0.07
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (20 bp):
ATTTTTATTTTTTTATTTTT
Found at i:14089392 original size:14 final size:14
Alignment explanation
Indices: 14089357--14089408 Score: 79
Period size: 14 Copynumber: 3.7 Consensus size: 14
14089347 TTTATTTCTC
14089357 TTTATT-TTTTATT
1 TTTATTATTTTATT
14089370 TTTATTTATTTTATT
1 TTTA-TTATTTTATT
14089385 TTTATTATTTTATT
1 TTTATTATTTTATT
*
14089399 TTTAATATTT
1 TTTATTATTT
14089409 ATTATTTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
13 4 0.11
14 21 0.58
15 11 0.31
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTATTATTTTATT
Found at i:14089417 original size:21 final size:21
Alignment explanation
Indices: 14089385--14089433 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
14089375 TTATTTTATT
*
14089385 TTTATTATTTTATTTTTAAT-A
1 TTTATTATTTTA-TCTTAATGA
14089406 TTTATTATTTTATCTTAATGA
1 TTTATTATTTTATCTTAATGA
14089427 TTTATTA
1 TTTATTA
14089434 CATAATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTATTATTTTATCTTAATGA
Found at i:14090468 original size:93 final size:93
Alignment explanation
Indices: 14090308--14090481 Score: 294
Period size: 93 Copynumber: 1.9 Consensus size: 93
14090298 TAATTTTTAA
*
14090308 GAATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTATCATCTCTCTTCAAGTCAAAAGGT
1 GAATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTATCATCTCTCTTCAAGTCAAAAAGT
* *
14090373 TCAATATGTTCTTAAGAAAAAAAATTAG
66 TCAATATATTCCTAAGAAAAAAAATTAG
* * *
14090401 GAATGTGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTTTCTTCAAGTCAAAAAGT
1 GAATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTATCATCTCTCTTCAAGTCAAAAAGT
14090466 TCAATATATTCCTAAG
66 TCAATATATTCCTAAG
14090482 TAAACATAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (93 bp):
GAATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTATCATCTCTCTTCAAGTCAAAAAGT
TCAATATATTCCTAAGAAAAAAAATTAG
Found at i:14090517 original size:11 final size:11
Alignment explanation
Indices: 14090509--14090540 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
14090499 CTAAAAAACC
14090509 AAAAAAAAAGA
1 AAAAAAAAAGA
*
14090520 AAAAAAAAAGG
1 AAAAAAAAAGA
14090531 AAAAAAAAAG
1 AAAAAAAAAG
14090541 TATTAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:14091173 original size:10 final size:10
Alignment explanation
Indices: 14091158--14091207 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
14091148 TAACTTTAGG
14091158 ATTTAT-TTT
1 ATTTATCTTT
14091167 CATTTATCTTT
1 -ATTTATCTTT
*
14091178 AATTATCTTT
1 ATTTATCTTT
* *
14091188 AATTATTTTT
1 ATTTATCTTT
14091198 ATTTATCTTT
1 ATTTATCTTT
14091208 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 32 0.91
11 3 0.09
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:14092898 original size:45 final size:45
Alignment explanation
Indices: 14092795--14092908 Score: 133
Period size: 45 Copynumber: 2.5 Consensus size: 45
14092785 GACGAGAGCT
* * *
14092795 AGTGTAAGACATGTCTGGGACATACACCGGCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCACCGGCTCAAAATGTAAGCC
** *
14092840 AGTGTAAGACATGTCTGGGACATGCATTGGCTACAAAATGT-A-TC
1 AGTGTAAGACATGTCTGGGACATGCACCGGCT-CAAAATGTAAGCC
*
14092884 AGTGTAAGACCATGTCTGGTACATG
1 AGTGTAAGA-CATGTCTGGGACATG
14092909 GCATCGGTAC
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
44 10 0.17
45 44 0.73
46 6 0.10
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCACCGGCTCAAAATGTAAGCC
Found at i:14092946 original size:50 final size:49
Alignment explanation
Indices: 14092839--14093109 Score: 203
Period size: 50 Copynumber: 5.7 Consensus size: 49
14092829 AGATGTAAGC
* * *
14092839 CAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCTACA-AAAT-G-TA-T
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGG-TACAGATATGGAGAGT
*
14092883 CAGTGTAAGACCATGTCTGGTACATGGCATCGGTACAGATATGCGAGAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGTACAGATATG-GAGAGT
* * * ** *
14092933 CAGTGTTAGACCATGTCTGGGTCATGGCATCGAT-TTG--ATGGATGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGTACAGATATGGA-GAGT
*
14092980 CAATGTAAGACCATGTCTGGGACATGGCATC-G-ACATGGATATGTGAGAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGTACA--GATATG-GAGAGT
** * * *
14093030 CAGCATAAGACCATGTCGGGGACATGGCATC-G-AC--TTGATGGATGAAT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGTACAGAT-ATGGA-GAGT
* *
14093077 CAGTGTAAGACCATTTCTAGGACATGGCATCGG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGG
14093110 CATTATACTT
Statistics
Matches: 181, Mismatches: 29, Indels: 30
0.75 0.12 0.12
Matches are distributed among these distances:
44 10 0.06
45 17 0.09
46 14 0.08
47 66 0.36
48 3 0.02
49 2 0.01
50 67 0.37
51 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (49 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGTACAGATATGGAGAGT
Found at i:14092993 original size:97 final size:96
Alignment explanation
Indices: 14092886--14093109 Score: 290
Period size: 97 Copynumber: 2.3 Consensus size: 96
14092876 AATGTATCAG
** *
14092886 TGTAAGACCATGTCTGGTACATGGCATCGGTACA-GATATGCGAGAGTCAGTGTTAGACCATGTC
1 TGTAAGACCATGTCTGG-ACATGGCATCGG-ACAGGATATGCGAGAGTCAGCATAAGACCATGTC
* * * *
14092950 TGGGTCATGGCATCGATTTGATGGATGAGCCAA
64 GGGGACATGGCATCGACTTGATGGATGAACCAA
*
14092983 TGTAAGACCATGTCTGGGACATGGCATC-GACATGGATATGTGAGAGTCAGCATAAGACCATGTC
1 TGTAAGACCATGTCT-GGACATGGCATCGGACA-GGATATGCGAGAGTCAGCATAAGACCATGTC
* *
14093047 GGGGACATGGCATCGACTTGATGGATGAATCAG
64 GGGGACATGGCATCGACTTGATGGATGAACCAA
*
14093080 TGTAAGACCATTTCTAGGACATGGCATCGG
1 TGTAAGACCATGTCT-GGACATGGCATCGG
14093110 CATTATACTT
Statistics
Matches: 111, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
95 3 0.03
96 1 0.01
97 104 0.94
98 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (96 bp):
TGTAAGACCATGTCTGGACATGGCATCGGACAGGATATGCGAGAGTCAGCATAAGACCATGTCGG
GGACATGGCATCGACTTGATGGATGAACCAA
Found at i:14093006 original size:47 final size:48
Alignment explanation
Indices: 14092882--14093108 Score: 210
Period size: 47 Copynumber: 4.7 Consensus size: 48
14092872 ACAAAATGTA
* * **
14092882 TCAGTGTAAGACCATGTCTGGTACATGGCATCGGTACAGATATGCGAGAG
1 TCAGTGTAAGACCATGTCTGGGACATGGCATCGAT-TTGA-ATGCGAGAG
* *
14092932 TCAGTGTTAGACCATGTCTGGGTCATGGCATCGATTTG-ATG-GATGAG
1 TCAGTGTAAGACCATGTCTGGGACATGGCATCGATTTGAATGCGA-GAG
* * * * *
14092979 CCAATGTAAGACCATGTCTGGGACATGGCATCGACATGGATATGTGAGAG
1 TCAGTGTAAGACCATGTCTGGGACATGGCATCGA-TTTGA-ATGCGAGAG
** * * *
14093029 TCAGCATAAGACCATGTCGGGGACATGGCATCGACTTG-ATG-GATGAA
1 TCAGTGTAAGACCATGTCTGGGACATGGCATCGATTTGAATGCGA-GAG
* *
14093076 TCAGTGTAAGACCATTTCTAGGACATGGCATCG
1 TCAGTGTAAGACCATGTCTGGGACATGGCATCG
14093109 GCATTATACT
Statistics
Matches: 146, Mismatches: 25, Indels: 15
0.78 0.13 0.08
Matches are distributed among these distances:
46 4 0.03
47 69 0.47
48 2 0.01
49 3 0.02
50 66 0.45
51 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
TCAGTGTAAGACCATGTCTGGGACATGGCATCGATTTGAATGCGAGAG
Found at i:14100651 original size:46 final size:46
Alignment explanation
Indices: 14100497--14100666 Score: 211
Period size: 46 Copynumber: 3.7 Consensus size: 46
14100487 TCATTTGTGT
* *
14100497 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGA
* * *
14100543 GCTAGTGTAAGACCATGTC-GGGAACATGGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGG-ACAT-GCATCGGCCTCGAGATGAGA
*
14100591 GCTAGTGTAAGACATGTCTGGGACATGCAACGGCCTCGAGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGA
*
14100637 GCCAGTGTAAGACATGTCTGGGACATGCAT
1 GCTAGTGTAAGACATGTCTGGGACATGCAT
14100667 TGGCTACAAA
Statistics
Matches: 107, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
46 57 0.53
47 21 0.20
48 28 0.26
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGA
Found at i:14100799 original size:47 final size:49
Alignment explanation
Indices: 14100683--14100860 Score: 182
Period size: 50 Copynumber: 3.6 Consensus size: 49
14100673 CAAAATGTGT
* * *
14100683 CAGTTTAAGACCATGTCTGGGACATGGCATCGACACGGATATGTGAGAGT
1 CAGTGTAAGACCATGTTTGGGACATGGCATCGACACGGA-ATGTGAGAGC
**
14100733 CAGTGTAAGACCATGTTTGGGACATGGCATCGAC-TTG-ATG-GATGAGC
1 CAGTGTAAGACCATGTTTGGGACATGGCATCGACACGGAATGTGA-GAGC
* * **
14100780 CAGTGTAAGACCATATTTGGGACATGGCATCGGCACGGATATGTGAGAAT
1 CAGTGTAAGACCATGTTTGGGACATGGCATCGACACGGA-ATGTGAGAGC
* * * * *
14100830 CAATCTAAGAACATGTCTGGGACATGACATC
1 CAGTGTAAGACCATGTTTGGGACATGGCATC
14100861 AACTTGATGG
Statistics
Matches: 106, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
46 2 0.02
47 38 0.36
48 1 0.01
49 1 0.01
50 62 0.58
51 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCATGTTTGGGACATGGCATCGACACGGAATGTGAGAGC
Found at i:14100909 original size:97 final size:97
Alignment explanation
Indices: 14100683--14100911 Score: 323
Period size: 97 Copynumber: 2.4 Consensus size: 97
14100673 CAAAATGTGT
* * * * *
14100683 CAGTTTAAGACCATGTCTGGGACATGGCATCGACACGGATATGTGAGAGTCAGTGTAAGACCATG
1 CAGTTTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGAATCAATCTAAGAACATG
* * * *
14100748 TTTGGGACATGGCATCGACTTGATGGATGAGC
66 TCTGGGACATGACATCAACTTGATGGATAAGC
* * *
14100780 CAGTGTAAGACCATATTTGGGACATGGCATCGGCACGGATATGTGAGAATCAATCTAAGAACATG
1 CAGTTTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGAATCAATCTAAGAACATG
14100845 TCTGGGACATGACATCAACTTGATGGATAAGC
66 TCTGGGACATGACATCAACTTGATGGATAAGC
* * *
14100877 CAGTTTAAGAACATGTCTGAGATATGGCATCGGCA
1 CAGTTTAAGACCATGTCTGGGACATGGCATCGGCA
14100912 TTACATCTTG
Statistics
Matches: 114, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
97 114 1.00
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (97 bp):
CAGTTTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGAATCAATCTAAGAACATG
TCTGGGACATGACATCAACTTGATGGATAAGC
Found at i:14103084 original size:9 final size:10
Alignment explanation
Indices: 14103047--14103097 Score: 57
Period size: 11 Copynumber: 4.8 Consensus size: 10
14103037 TAAAGAGAGC
*
14103047 TTTGAGAAAA
1 TTTGAGAGAA
*
14103057 TATGAGAGAAA
1 TTTGAGAG-AA
14103068 TTTGAGAGAA
1 TTTGAGAGAA
14103078 TTTAGAGAGAA
1 TTT-GAGAGAA
14103089 TTATGAGAG
1 TT-TGAGAG
14103098 GACTATTGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 11 0.31
11 23 0.66
12 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.27, T:0.27
Consensus pattern (10 bp):
TTTGAGAGAA
Found at i:14103088 original size:22 final size:20
Alignment explanation
Indices: 14103047--14103097 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
14103037 TAAAGAGAGC
*
14103047 TTTGAGAAAATATGAGAGAAA
1 TTTGAGAGAATATGAGAG-AA
*
14103068 TTTGAGAGAATTTAGAGAGAA
1 TTTGAGAGAATAT-GAGAGAA
14103089 TTATGAGAG
1 TT-TGAGAG
14103098 GACTATTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.45, C:0.00, G:0.27, T:0.27
Consensus pattern (20 bp):
TTTGAGAGAATATGAGAGAA
Found at i:14106932 original size:10 final size:10
Alignment explanation
Indices: 14106917--14106966 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
14106907 TAAATTTAGG
14106917 ATTTATTTTT
1 ATTTATTTTT
*
14106927 ATTTATCTTT
1 ATTTATTTTT
* *
14106937 AATTATCTTT
1 ATTTATTTTT
* *
14106947 AATTATTTGT
1 ATTTATTTTT
14106957 ATTTATTTTT
1 ATTTATTTTT
14106967 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 34 1.00
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:14110754 original size:20 final size:20
Alignment explanation
Indices: 14110729--14110766 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
14110719 AATTTATTAG
*
14110729 TATTTATTATTTTATTTTAT
1 TATTTATTACTTTATTTTAT
14110749 TATTTATTACTTTATTTT
1 TATTTATTACTTTATTTT
14110767 TTGATATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (20 bp):
TATTTATTACTTTATTTTAT
Found at i:14110765 original size:12 final size:11
Alignment explanation
Indices: 14110697--14110756 Score: 50
Period size: 12 Copynumber: 5.2 Consensus size: 11
14110687 TTTCTTAATT
*
14110697 TTTATAATTTA
1 TTTATTATTTA
*
14110708 TTATCTTATTTAA
1 TT-TATTATTT-A
*
14110721 TTTATTA-GTA
1 TTTATTATTTA
14110731 TTTATTATTTTA
1 TTTATTA-TTTA
14110743 TTTTATTATTTA
1 -TTTATTATTTA
14110755 TT
1 TT
14110757 ACTTTATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
10 8 0.21
11 5 0.13
12 16 0.41
13 10 0.26
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (11 bp):
TTTATTATTTA
Found at i:14112015 original size:96 final size:97
Alignment explanation
Indices: 14111851--14112041 Score: 276
Period size: 96 Copynumber: 2.0 Consensus size: 97
14111841 GAATTAATTT
* * *
14111851 TTAAGAATATGTTGGGCTGAGTAACTAGGTTGAGGAGTTTGACTGTCATCTTTCTTCGCGTCAAA
1 TTAAGAATATGTTGGGCTGAGTAACTAGGGTGAGGAGCTTGACTGTCATCTCTCTTCGCGTCAAA
* * *
14111916 AGGTTCGATATGTTCTTAAG-AAAAATAAAAA
66 AGGTTCAATATATTCCTAAGTAAAAATAAAAA
* * * * *
14111947 TTAAGAGTATGTTGGGCTGAGTAACTGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
1 TTAAGAATATGTTGGGCTGAGTAACTAGGGTGAGGAGCTTGACTGTCATCTCTCTTCGCGTCAAA
14112012 AGGTTCAATATATTCCTAAGTAAAAATAAA
66 AGGTTCAATATATTCCTAAGTAAAAATAAA
14112042 TAAATTAAAT
Statistics
Matches: 83, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
96 74 0.89
97 9 0.11
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (97 bp):
TTAAGAATATGTTGGGCTGAGTAACTAGGGTGAGGAGCTTGACTGTCATCTCTCTTCGCGTCAAA
AGGTTCAATATATTCCTAAGTAAAAATAAAAA
Found at i:14112714 original size:10 final size:10
Alignment explanation
Indices: 14112687--14112735 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
14112677 TAAATTTAGG
*
14112687 ATTTATTTTT
1 ATTTATCTTT
14112697 ATTT-TCTTT
1 ATTTATCTTT
*
14112706 AATTATCTTT
1 ATTTATCTTT
14112716 ATTTAT-TTGT
1 ATTTATCTT-T
14112726 ATTTATCTTT
1 ATTTATCTTT
14112736 TAGAATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 9 0.27
10 22 0.67
11 2 0.06
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.71
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:14117557 original size:24 final size:24
Alignment explanation
Indices: 14117524--14117580 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
14117514 TGAAATAGTA
*
14117524 AAAGAAATATATAACAAATAACAT
1 AAAGATATATATAACAAATAACAT
* **
14117548 AAAGATATATGTATGAAATAACAT
1 AAAGATATATATAACAAATAACAT
*
14117572 AAAAATATA
1 AAAGATATA
14117581 CGAATAGCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.25
Consensus pattern (24 bp):
AAAGATATATATAACAAATAACAT
Found at i:14117751 original size:15 final size:18
Alignment explanation
Indices: 14117708--14117754 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
14117698 ATATATGTAC
*
14117708 TAATATTAATAATAAATA
1 TAATAGTAATAATAAATA
*
14117726 TAATAGAAATAA-AAATA
1 TAATAGTAATAATAAATA
14117743 -AATA-TAATAATA
1 TAATAGTAATAATA
14117755 TATACTCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 5 0.20
16 5 0.20
17 5 0.20
18 10 0.40
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
TAATAGTAATAATAAATA
Found at i:14118046 original size:26 final size:25
Alignment explanation
Indices: 14118000--14118052 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
14117990 ATATGCATAA
**
14118000 AATATTATAAAATATTTATAACTAAC
1 AATATTATAAAATATACATAAC-AAC
14118026 AATATTA-AAATATATACATAACAAC
1 AATATTATAAA-ATATACATAACAAC
14118051 AA
1 AA
14118053 AAGTATGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.32
Consensus pattern (25 bp):
AATATTATAAAATATACATAACAAC
Found at i:14118328 original size:25 final size:24
Alignment explanation
Indices: 14118294--14118341 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
14118284 AGGAATAATA
*
14118294 AAAAAAACAATAATAATATAGAAAT
1 AAAAAAACAAAAATAATAT-GAAAT
* *
14118319 AAAATAACAAAAATGATATGAAA
1 AAAAAAACAAAAATAATATGAAA
14118342 ATGAACTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.19
Consensus pattern (24 bp):
AAAAAAACAAAAATAATATGAAAT
Found at i:14118764 original size:16 final size:16
Alignment explanation
Indices: 14118745--14118792 Score: 78
Period size: 16 Copynumber: 3.0 Consensus size: 16
14118735 GAAAAAAAAA
*
14118745 GAAAAAAGAGAGAGGG
1 GAAAAAGGAGAGAGGG
14118761 GAAAAAGGAGAGAGGG
1 GAAAAAGGAGAGAGGG
*
14118777 GAGAAAGGAGAGAGGG
1 GAAAAAGGAGAGAGGG
14118793 ATTCCGGCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (16 bp):
GAAAAAGGAGAGAGGG
Found at i:14121171 original size:14 final size:15
Alignment explanation
Indices: 14121144--14121173 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
14121134 TAGAATTTTG
14121144 TGTTTGATTATGGGT
1 TGTTTGATTATGGGT
14121159 TGTTTGA-TATGGGT
1 TGTTTGATTATGGGT
14121173 T
1 T
14121174 ACAAAGGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.13, C:0.00, G:0.33, T:0.53
Consensus pattern (15 bp):
TGTTTGATTATGGGT
Found at i:14131381 original size:22 final size:23
Alignment explanation
Indices: 14131353--14131399 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
14131343 TAAGTGACTA
14131353 AAAT-AAAAA-TATAATAAAAATT
1 AAATAAAAAATTATAA-AAAAATT
14131375 AAATAAAAAATTATAAAAAAATT
1 AAATAAAAAATTATAAAAAAATT
14131398 AA
1 AA
14131400 TTTTGTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.17
23 14 0.61
24 5 0.22
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (23 bp):
AAATAAAAAATTATAAAAAAATT
Found at i:14131394 original size:11 final size:11
Alignment explanation
Indices: 14131357--14131398 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
14131347 TGACTAAAAT
14131357 AAAAA-TATAA
1 AAAAATTATAA
*
14131367 TAAAAATTAAATA
1 -AAAAATTATA-A
14131380 AAAAATTATAA
1 AAAAATTATAA
14131391 AAAAATTA
1 AAAAATTA
14131399 ATTTTGTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 14 0.52
12 12 0.44
13 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:14136081 original size:35 final size:35
Alignment explanation
Indices: 14136042--14136112 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
14136032 CACTTGCCTC
*
14136042 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
*
14136077 TTCCCATTCTCCCATGCTGTCTGCCACCAACACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
14136112 T
1 T
14136113 CACACACTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.18, C:0.46, G:0.10, T:0.25
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
Found at i:14136660 original size:11 final size:11
Alignment explanation
Indices: 14136627--14136661 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
14136617 CGGATTCCCC
14136627 TCCCT-TCTCT
1 TCCCTCTCTCT
14136637 CTCCCTCTCTCT
1 -TCCCTCTCTCT
14136649 TCCCTCTCTCT
1 TCCCTCTCTCT
14136660 TC
1 TC
14136662 TTTTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 18 0.78
12 5 0.22
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
TCCCTCTCTCT
Found at i:14137193 original size:2 final size:2
Alignment explanation
Indices: 14137181--14137332 Score: 88
Period size: 2 Copynumber: 79.0 Consensus size: 2
14137171 ATCATTTCTA
* * *
14137181 AT AT GT AT AT AT AT AT AT AT AT AT AT AT -T AT GT GT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * **
14137221 AT AT AT AT AT AT AT -T AT GT AC AT AT GCC AT -T AGT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT A-T AT AT AT AT
* * * * * *
14137262 TT CT -T AT GT AT AT AT -T CT -T AA AT ACT AT -T AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
*
14137301 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14137333 TTTAAATTCC
Statistics
Matches: 116, Mismatches: 22, Indels: 24
0.72 0.14 0.15
Matches are distributed among these distances:
1 9 0.08
2 104 0.90
3 3 0.03
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14137438 original size:2 final size:2
Alignment explanation
Indices: 14137421--14137455 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
14137411 GTGTATATTT
* *
14137421 TA TA TA CA TA TG 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 TA TA TA TA TA T
14137456 TTGCACATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:14149744 original size:71 final size:72
Alignment explanation
Indices: 14149604--14150049 Score: 491
Period size: 71 Copynumber: 6.0 Consensus size: 72
14149594 AATTCTGTTC
*
14149604 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGTTGAGGTAATTTTAATTTCTG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGTTGAGGTAATTTCAATTTCTG
14149669 -TTTCAA
66 TTTTCAA
* *
14149675 AAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTCAGCTCACG-CGAGGT-ATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-ACACGTTGAGGTAATTTCAATTTCT
14149737 GTTTTTCAA
65 G-TTTTCAA
14149746 TTTCTGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-ACGTTGAGGTAAT
1 ----------AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACACGTTGAGGTAAT
* **
14149810 TTTAATTTCT-TCATC-A
55 TTCAATTTCTGTTTTCAA
* *
14149826 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACACGCTGAGGT-A-TTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG---ACACGTTGAGGTAATTTCAATTT
14149889 CTGTTTTCAA
63 CTGTTTTCAA
14149899 TTTTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAA
1 -----------AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACGTTGAGGTAA
14149964 TTTCAATTTCTGTTTTC--
54 TTTCAATTTCTGTTTTCAA
14149981 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGTTGAGGTAATTTCAATTTCTG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGTTGAGGTAATTTCAATTTCTG
14150046 TTTT
66 TTTT
14150050 TCAATTTCTG
Statistics
Matches: 323, Mismatches: 15, Indels: 75
0.78 0.04 0.18
Matches are distributed among these distances:
69 13 0.04
70 79 0.24
71 89 0.28
72 5 0.02
73 10 0.03
80 1 0.00
81 39 0.12
82 20 0.06
83 13 0.04
84 52 0.16
85 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (72 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGTTGAGGTAATTTCAATTTCTG
TTTTCAA
Found at i:14149745 original size:14 final size:14
Alignment explanation
Indices: 14149726--14149754 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14149716 ACGCGAGGTA
14149726 TTTCAATTTCTGTT
1 TTTCAATTTCTGTT
14149740 TTTCAATTTCTGTT
1 TTTCAATTTCTGTT
14149754 T
1 T
14149755 CAAAATCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTCAATTTCTGTT
Found at i:14149801 original size:152 final size:153
Alignment explanation
Indices: 14149521--14150124 Score: 915
Period size: 152 Copynumber: 3.9 Consensus size: 153
14149511 GTTCTACCAA
14149521 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCA--CGCTGAGGTATTTCAATTT
14149586 CTGTTTTCAA-TTCTG-TTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACACG
64 CTGTTTTCAATTTCTGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
14149648 TTGAGGTAATTTTAATTTCTGTTTC
129 TTGAGGTAATTTTAATTTCTGTTTC
14149673 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTCAGCTCACGC-GAGGTATTTCAATTTC
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCTGAGGTATTTCAATTTC
14149736 TGTTTTTCAATTTCTGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-ACG
65 TG-TTTTCAATTTCTGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
*
14149800 TTGAGGTAATTTTAATTTCT-TCATC
129 TTGAGGTAATTTTAATTTCTGT-TTC
*
14149825 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACACGCTGAGGTA-TTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCT--CACGCTGAGGTATTTCAATTT
*
14149889 CTGTTTTCAATTT-TGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
64 CTGTTTTCAATTTCTGTT--TCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
14149953 CGTTGAGGTAATTTCAATTTCTGTTTTC
127 CGTTGAGGTAATTTTAATTTCTG-TTTC
* *
14149981 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-ACACGTTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCTGAGGT-ATTTCAATTTC
14150044 TGTTTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
65 TG-TTTTCAATTTCTG--TTTC--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
* *
14150109 CATGATGAGGTAATTT
125 CACGTTGAGGTAATTT
14150125 CTGTAACACC
Statistics
Matches: 419, Mismatches: 10, Indels: 39
0.90 0.02 0.08
Matches are distributed among these distances:
149 18 0.04
150 10 0.02
151 40 0.10
152 96 0.23
153 47 0.11
154 69 0.16
155 76 0.18
156 6 0.01
157 1 0.00
158 56 0.13
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (153 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCTGAGGTATTTCAATTTCT
GTTTTCAATTTCTGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTT
GAGGTAATTTTAATTTCTGTTTC
Found at i:14149969 original size:84 final size:82
Alignment explanation
Indices: 14149826--14149982 Score: 244
Period size: 84 Copynumber: 1.9 Consensus size: 82
14149816 TTCTTCATCA
*
14149826 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACACGCTGAGGTATTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--CACACGCTGAGGTATTCAATTTCT
14149891 GTTTTCAATTTTGTTCGTC
64 GTTTTCAATTTTGTTCGTC
*
14149910 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACACGTTGAGGTAATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGCACACGCTGAGGT-A-TTCAATTTC
14149974 TGTTTTCAA
63 TGTTTTCAA
14149983 AATCAACTCA
Statistics
Matches: 68, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
82 11 0.16
83 1 0.01
84 54 0.79
85 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (82 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTCAATTTCTGT
TTTCAATTTTGTTCGTC
Found at i:14150053 original size:14 final size:14
Alignment explanation
Indices: 14150034--14150067 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
14150024 GTTGAGGTAA
*
14150034 TTTCAATTTCTGTT
1 TTTCAATTTCTGTC
14150048 TTTCAATTTCTGTC
1 TTTCAATTTCTGTC
14150062 TTTCAA
1 TTTCAA
14150068 AAAATCAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.59
Consensus pattern (14 bp):
TTTCAATTTCTGTC
Found at i:14150083 original size:87 final size:85
Alignment explanation
Indices: 14149964--14150125 Score: 272
Period size: 87 Copynumber: 1.9 Consensus size: 85
14149954 GTTGAGGTAA
*
14149964 TTTCAATTTCTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACACGTTG
1 TTTCAATTTCTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATG
14150028 AGGTAATTTCAATTTCTGTT
66 AGGTAATTTCAATTTCTGTT
*
14150048 TTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATG
1 TTTCAATTTCTGT-TTTC--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
14150113 ATGAGGTAATTTC
63 ATGAGGTAATTTC
14150126 TGTAACACCC
Statistics
Matches: 72, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
84 13 0.18
85 4 0.06
87 38 0.53
88 17 0.24
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (85 bp):
TTTCAATTTCTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATG
AGGTAATTTCAATTTCTGTT
Found at i:14151508 original size:40 final size:40
Alignment explanation
Indices: 14151463--14151630 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
14151453 CGGAATATAA
14151463 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
14151503 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
14151543 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
14151583 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
14151623 CCGGATAT
1 CCGGATAT
14151631 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:14159491 original size:40 final size:40
Alignment explanation
Indices: 14159446--14159612 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
14159436 CGGAATATAA
14159446 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
14159486 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
14159526 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
14159566 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
14159605 CCGGATAT
1 CCGGATAT
14159613 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:14171257 original size:31 final size:29
Alignment explanation
Indices: 14171212--14171280 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
14171202 AACTTTAAAA
14171212 TAGTCACTTTTGTTT-ATCTAATGTTACATTT
1 TAGTCACTTTTGTTTGA---AATGTTACATTT
*
14171243 TAGTCA-TTTATGTTTGAAATGTTACGTTT
1 TAGTCACTTT-TGTTTGAAATGTTACATTT
14171272 TAGTCACTT
1 TAGTCACTT
14171281 ACATTAACGT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
29 17 0.50
30 5 0.15
31 11 0.32
32 1 0.03
ACGTcount: A:0.23, C:0.12, G:0.13, T:0.52
Consensus pattern (29 bp):
TAGTCACTTTTGTTTGAAATGTTACATTT
Found at i:14171884 original size:22 final size:23
Alignment explanation
Indices: 14171837--14171888 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
14171827 CATGTGATTT
* *
14171837 TATATTTTTAATTTATTAAATAA
1 TATATTTTTAAATTATCAAATAA
14171860 TATATTTTTACAATT-TCAAAT-A
1 TATATTTTTA-AATTATCAAATAA
14171882 TATATTT
1 TATATTT
14171889 ACGCTAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 8 0.31
23 15 0.58
24 3 0.12
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (23 bp):
TATATTTTTAAATTATCAAATAA
Found at i:14172676 original size:19 final size:18
Alignment explanation
Indices: 14172637--14172687 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
14172627 AATAATGTCA
*
14172637 AAATTAAATTATAA-T-T
1 AAATTAAATAATAATTGT
*
14172653 AAATTTAACTAATAATTGT
1 AAA-TTAAATAATAATTGT
14172672 AAATTAAATAATAATT
1 AAATTAAATAATAATT
14172688 ATAATTATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 3 0.10
17 9 0.31
18 13 0.45
19 4 0.14
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (18 bp):
AAATTAAATAATAATTGT
Found at i:14176338 original size:33 final size:34
Alignment explanation
Indices: 14176296--14176366 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
14176286 GCATGACTGC
14176296 TACTGATACTATGATGGG-CAAGGCCCTAATGCA
1 TACTGATACTATGATGGGTCAAGGCCCTAATGCA
* *
14176329 TACTGATACTGTGATGGGTTAAGGCCCTAATGCA
1 TACTGATACTATGATGGGTCAAGGCCCTAATGCA
14176363 TACT
1 TACT
14176367 AGTACTGAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 17 0.49
34 18 0.51
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (34 bp):
TACTGATACTATGATGGGTCAAGGCCCTAATGCA
Found at i:14176358 original size:34 final size:33
Alignment explanation
Indices: 14176296--14176388 Score: 116
Period size: 34 Copynumber: 2.8 Consensus size: 33
14176286 GCATGACTGC
* *
14176296 TACTGATACTATGATGGGCAAGGCCCTAATGCA
1 TACTGATACTGTGATGGGTAAGGCCCTAATGCA
14176329 TACTGATACTGTGATGGGTTAAGGCCCTAATGCA
1 TACTGATACTGTGATGGG-TAAGGCCCTAATGCA
* *
14176363 TACT-AGTACTGAGATGGACTAAGGCC
1 TACTGA-TACTGTGATGG-GTAAGGCC
14176389 AAACTGTTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
33 18 0.34
34 35 0.66
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (33 bp):
TACTGATACTGTGATGGGTAAGGCCCTAATGCA
Found at i:14188310 original size:16 final size:18
Alignment explanation
Indices: 14188283--14188317 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
14188273 CATTACCTCA
14188283 AAATTAATAAGATT-TGG
1 AAATTAATAAGATTATGG
14188300 AAATT-ATAAGATTATGG
1 AAATTAATAAGATTATGG
14188317 A
1 A
14188318 TATCACGAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (18 bp):
AAATTAATAAGATTATGG
Found at i:14203152 original size:15 final size:15
Alignment explanation
Indices: 14203132--14203183 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
14203122 ACTACAAAAC
14203132 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
14203147 ATTTATAATTTTAATAAAT
1 ATTTAT--TATTAAT--AT
*
14203166 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
14203181 ATT
1 ATT
14203184 AATATTATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 11 0.37
17 11 0.37
19 8 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:14203789 original size:20 final size:20
Alignment explanation
Indices: 14203752--14203789 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14203742 ATGGAAAAAA
*
14203752 TAAAGAAAAAAAAGGAAAGT
1 TAAAGAAAAAAAAAGAAAGT
14203772 TAAA-AAAAATAAAAGAAA
1 TAAAGAAAAA-AAAAGAAA
14203790 ATAATTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (20 bp):
TAAAGAAAAAAAAAGAAAGT
Found at i:14204503 original size:53 final size:52
Alignment explanation
Indices: 14204440--14204549 Score: 157
Period size: 53 Copynumber: 2.1 Consensus size: 52
14204430 GTCGAGCAAG
* * *
14204440 CAAATAATGAAGTTTAAAAATAAATTAATTGCTAGCACTCAACCTTAGGAGAA
1 CAAATAATGAAGTTTAAAAACAAATTAATTACTAGCAC-CAACCATAGGAGAA
* * *
14204493 CAAATGATGAAGTTTGAAAACAAATTAATTACTAGCACCAACCATAGGAGGA
1 CAAATAATGAAGTTTAAAAACAAATTAATTACTAGCACCAACCATAGGAGAA
14204545 CAAAT
1 CAAAT
14204550 TTCAAGCATT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 17 0.33
53 34 0.67
ACGTcount: A:0.47, C:0.15, G:0.15, T:0.24
Consensus pattern (52 bp):
CAAATAATGAAGTTTAAAAACAAATTAATTACTAGCACCAACCATAGGAGAA
Found at i:14205337 original size:28 final size:29
Alignment explanation
Indices: 14205304--14205373 Score: 90
Period size: 27 Copynumber: 2.5 Consensus size: 29
14205294 AAATTCAAAA
*
14205304 TAAAAATTATTTTTAAAAATAAAAATCAT
1 TAAAAATTATTTTTAAAAATAAAAAACAT
* *
14205333 T-AAAATTA-TTTCAAAAGTAAAAAACAT
1 TAAAAATTATTTTTAAAAATAAAAAACAT
*
14205360 TAAAAACTATTTTT
1 TAAAAATTATTTTT
14205374 TAATATTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
27 17 0.50
28 13 0.38
29 4 0.12
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.37
Consensus pattern (29 bp):
TAAAAATTATTTTTAAAAATAAAAAACAT
Found at i:14208507 original size:412 final size:412
Alignment explanation
Indices: 14207743--14208568 Score: 1544
Period size: 412 Copynumber: 2.0 Consensus size: 412
14207733 TTGGCCAAAA
*
14207743 TATACAAAATCTATCGAAATAATTGCTGGTTAGTGTGATAGGTCTTCGACGAGCTTCCAATTGAT
1 TATACAAAATCTATCGAAATAATTGCTGGTTAGTGTGATAGGTCTTCGACGAGCTTCCAACTGAT
*
14207808 CAAGCTCCCGATAATCTATAAAACAAAAGAAAGTAACTACATAAGCAACAGGTGCTTAGTAAGCT
66 CAAGCTCCCAATAATCTATAAAACAAAAGAAAGTAACTACATAAGCAACAGGTGCTTAGTAAGCT
*
14207873 AGTATAAACTTAAATATAACTTACCATTTCATTAATATAATTTATAGATTAAGCATAAAACATTA
131 AGTATAAACTTAAATATAACTTACCATTTCATTAATATAATTCATAGATTAAGCATAAAACATTA
*
14207938 CCAATGCCATAAACATAGTATAAGCCTATAAAACATAATCAAACTCACAAGTTAGTACACTTGTT
196 CCAATGCAATAAACATAGTATAAGCCTATAAAACATAATCAAACTCACAAGTTAGTACACTTGTT
14208003 CATGATACAAATGAATTCAACCATAAGATAAGTAGATTTCTATATGTAAATACATCATTTAGCTC
261 CATGATACAAATGAATTCAACCATAAGATAAGTAGATTTCTATATGTAAATACATCATTTAGCTC
14208068 ATAAATTCTTTCATAAGATCATGATTCATTCCATTTGCATACTTACCTCTTTCATTTCCTTTTCT
326 ATAAATTCTTTCATAAGATCATGATTCATTCCATTTGCATACTTACCTCTTTCATTTCCTTTTCT
14208133 AACCCGTTGAATCAACTAGAAT
391 AACCCGTTGAATCAACTAGAAT
14208155 TATACAAAATCTATCGAAATAATTGCTGGTTAGTGTGATAGGTCTTCGACGAGCTTCCAACTGAT
1 TATACAAAATCTATCGAAATAATTGCTGGTTAGTGTGATAGGTCTTCGACGAGCTTCCAACTGAT
* * *
14208220 CAAGCTCCTAATAATCTATAAAATAAAAGAAAGTAACTACATAAGCAACGGGTGCTTAGTAAGCT
66 CAAGCTCCCAATAATCTATAAAACAAAAGAAAGTAACTACATAAGCAACAGGTGCTTAGTAAGCT
*
14208285 AGTATAAACTTAAATATAACTTACCATTTCATTAATATAATTCATAGATTAAGCATAAAATATTA
131 AGTATAAACTTAAATATAACTTACCATTTCATTAATATAATTCATAGATTAAGCATAAAACATTA
*
14208350 CCGATGCAATAAACATAGTATAAGCCTATAAAACATAATCAAACTCACAAGTTAGTACACTTGTT
196 CCAATGCAATAAACATAGTATAAGCCTATAAAACATAATCAAACTCACAAGTTAGTACACTTGTT
14208415 CATGATACAAATGAATTCAACCATAAGATAAGTAGATTTCTATATGTAAATACATCATTTAGCTC
261 CATGATACAAATGAATTCAACCATAAGATAAGTAGATTTCTATATGTAAATACATCATTTAGCTC
*
14208480 ATAAATTCTTTCATAAGATCATGATTCATTCCATTTGCATGCTTACCTCTTTCATTTCCTTTTCT
326 ATAAATTCTTTCATAAGATCATGATTCATTCCATTTGCATACTTACCTCTTTCATTTCCTTTTCT
* *
14208545 TACCCGTTGAATCATCTAGAAT
391 AACCCGTTGAATCAACTAGAAT
14208567 TA
1 TA
14208569 CATCGGATAC
Statistics
Matches: 402, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
412 402 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (412 bp):
TATACAAAATCTATCGAAATAATTGCTGGTTAGTGTGATAGGTCTTCGACGAGCTTCCAACTGAT
CAAGCTCCCAATAATCTATAAAACAAAAGAAAGTAACTACATAAGCAACAGGTGCTTAGTAAGCT
AGTATAAACTTAAATATAACTTACCATTTCATTAATATAATTCATAGATTAAGCATAAAACATTA
CCAATGCAATAAACATAGTATAAGCCTATAAAACATAATCAAACTCACAAGTTAGTACACTTGTT
CATGATACAAATGAATTCAACCATAAGATAAGTAGATTTCTATATGTAAATACATCATTTAGCTC
ATAAATTCTTTCATAAGATCATGATTCATTCCATTTGCATACTTACCTCTTTCATTTCCTTTTCT
AACCCGTTGAATCAACTAGAAT
Found at i:14209672 original size:22 final size:22
Alignment explanation
Indices: 14209644--14209689 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
14209634 TCAATAAAAC
14209644 CTTGTCCATAACTATCCACTAA
1 CTTGTCCATAACTATCCACTAA
14209666 CTTGTCCATAACTATCCACTAA
1 CTTGTCCATAACTATCCACTAA
14209688 CT
1 CT
14209690 CATTAAACGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.33, G:0.04, T:0.33
Consensus pattern (22 bp):
CTTGTCCATAACTATCCACTAA
Found at i:14213435 original size:27 final size:26
Alignment explanation
Indices: 14213387--14213457 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 26
14213377 ACGAGGCTGC
* *
14213387 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGA-A
14213414 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
14213440 AAGGTATATGTGGCAGAG
1 CAGATAT-TGTGGCAGAG
14213458 TCATAATCGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 6 0.16
27 31 0.82
28 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:14213496 original size:27 final size:27
Alignment explanation
Indices: 14213460--14213535 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 27
14213450 TGGCAGAGTC
*
14213460 ATAATCGTGGCATAGCCACCAGAACAG
1 ATAATTGTGGCATAGCCACCAGAACAG
* *
14213487 AT-ATATGTGGCAAAGCCACCAGATCAG
1 ATAAT-TGTGGCATAGCCACCAGAACAG
14213514 ATAATTGTGGCATAGCCACCAG
1 ATAATTGTGGCATAGCCACCAG
14213536 GACGCTTCCT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 2 0.05
27 39 0.91
28 2 0.05
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (27 bp):
ATAATTGTGGCATAGCCACCAGAACAG
Found at i:14215182 original size:26 final size:26
Alignment explanation
Indices: 14215146--14215255 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
14215136 CATGAAATTC
*
14215146 TTATCGTGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
14215172 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
14215198 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
14215224 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
14215250 TTATCA
1 TTATCA
14215256 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:14215266 original size:10 final size:10
Alignment explanation
Indices: 14215251--14215275 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14215241 CCTAACCTAT
14215251 TATCAATTTG
1 TATCAATTTG
14215261 TATCAATTTG
1 TATCAATTTG
14215271 TATCA
1 TATCA
14215276 TAAATTATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (10 bp):
TATCAATTTG
Found at i:14218496 original size:11 final size:11
Alignment explanation
Indices: 14218482--14218508 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
14218472 GATGTTTTGG
14218482 AATAGTTTAGT
1 AATAGTTTAGT
14218493 AATAGTTTAGT
1 AATAGTTTAGT
14218504 AATAG
1 AATAG
14218509 ATGTAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (11 bp):
AATAGTTTAGT
Found at i:14218616 original size:14 final size:14
Alignment explanation
Indices: 14218589--14218672 Score: 59
Period size: 14 Copynumber: 5.9 Consensus size: 14
14218579 AAAAACTAAT
14218589 AAAATATT-TTTTA
1 AAAATATTATTTTA
14218602 AAAATATTATTTTA
1 AAAATATTATTTTA
*
14218616 AAAA-ATAAATTTAATA
1 AAAATAT-TATTT--TA
* *
14218632 ATATATATTATTTTT
1 A-AAATATTATTTTA
14218647 AAAATCATT-TTTCTA
1 AAAAT-ATTATTT-TA
14218662 AAAATA-TATTT
1 AAAATATTATTT
14218673 ACAAAAAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
13 11 0.20
14 23 0.41
15 11 0.20
16 3 0.05
17 6 0.11
18 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
AAAATATTATTTTA
Found at i:14218651 original size:45 final size:42
Alignment explanation
Indices: 14218585--14218673 Score: 101
Period size: 45 Copynumber: 2.0 Consensus size: 42
14218575 TTTTAAAAAC
14218585 TAATAAAATATTTTTTAAAAAT-ATTATTT-TAAAAAATAAATT
1 TAATAAAATATTTTTTAAAAATCATT-TTTCT-AAAAATAAATT
* *
14218627 TAATAATATATATTATTTTTAAAATCATTTTTCTAAAAATATATT
1 TAATAA-A-ATATT-TTTTAAAAATCATTTTTCTAAAAATAAATT
14218672 TA
1 TA
14218674 CAAAAAATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
42 6 0.15
43 1 0.03
44 5 0.12
45 24 0.60
46 4 0.10
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (42 bp):
TAATAAAATATTTTTTAAAAATCATTTTTCTAAAAATAAATT
Found at i:14218946 original size:19 final size:19
Alignment explanation
Indices: 14218917--14218961 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
14218907 CGAAAAATAA
14218917 TTTCTTGAAAATGATTTACT
1 TTTC-TGAAAATGATTTACT
*
14218937 TTTCTGAAAATGATTTATT
1 TTTCTGAAAATGATTTACT
14218956 TTTCTG
1 TTTCTG
14218962 GTGTTTGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.27, C:0.09, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTCTGAAAATGATTTACT
Found at i:14221547 original size:6 final size:6
Alignment explanation
Indices: 14221529--14221615 Score: 88
Period size: 6 Copynumber: 14.5 Consensus size: 6
14221519 GAAAATGATG
* *
14221529 GGGGAA GGAGAA GGGGAA GGGGAA GGGGAA -GGGAA -GGGAA GGGAAAA
1 GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GGG-GAA
* * * *
14221576 GGGAAAA GGGAAA AGGGAA GGGGAA GGGGAA GGGAAA GGG
1 GGG-GAA GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GGG
14221616 AAGATCGTAT
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
5 10 0.14
6 50 0.69
7 12 0.17
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (6 bp):
GGGGAA
Found at i:14221579 original size:7 final size:7
Alignment explanation
Indices: 14221567--14221594 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
14221557 AAGGGAAGGG
14221567 AAGGGAA
1 AAGGGAA
14221574 AAGGGAA
1 AAGGGAA
14221581 AAGGGAA
1 AAGGGAA
14221588 AAGGGAA
1 AAGGGAA
14221595 GGGGAAGGGG
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:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (7 bp):
AAGGGAA
Found at i:14231978 original size:26 final size:26
Alignment explanation
Indices: 14231942--14232042 Score: 168
Period size: 26 Copynumber: 3.9 Consensus size: 26
14231932 ATGTGAATTC
14231942 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
14231968 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
14231994 TTATCATGGAACATTTACCTAA-CTA
1 TTATCATGAAACATTTACCTAACCCA
*
14232019 TTATCATGGAACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
14232043 TTTTATCAAT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
25 24 0.33
26 48 0.67
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:14232050 original size:51 final size:52
Alignment explanation
Indices: 14231942--14232042 Score: 168
Period size: 51 Copynumber: 2.0 Consensus size: 52
14231932 ATGTGAATTC
14231942 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
* * *
14231994 TTATCATGGAACATTTACCTAA-CTATTATCATGGAACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACC
14232043 TTTTATCAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 25 0.54
52 21 0.46
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.33
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
Found at i:14232519 original size:27 final size:28
Alignment explanation
Indices: 14232463--14232532 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
14232453 AAACTTGTAC
14232463 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
14232491 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
14232518 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
14232533 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:14232543 original size:27 final size:27
Alignment explanation
Indices: 14232463--14232544 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
14232453 AAACTTGTAC
* *
14232463 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
14232491 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
14232518 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
14232545 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:14240531 original size:27 final size:28
Alignment explanation
Indices: 14240475--14240544 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
14240465 AAACTTGTAC
*
14240475 AGCACTAAGTGTGCAAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
14240503 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
14240530 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
14240545 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 24 0.60
28 16 0.40
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:14240555 original size:27 final size:27
Alignment explanation
Indices: 14240499--14240556 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
14240489 AAGTTTGATC
* * *
14240499 ATATAGCACTAAGTGTGCGAGTTGATT
1 ATATAGCACTAAGTGTGCGAGCTCACT
14240526 ATATAGCACTAAGTGTGCG-GACTCACT
1 ATATAGCACTAAGTGTGCGAG-CTCACT
14240553 ATAT
1 ATAT
14240557 GCTTTTGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (27 bp):
ATATAGCACTAAGTGTGCGAGCTCACT
Found at i:14251010 original size:46 final size:44
Alignment explanation
Indices: 14250908--14251031 Score: 115
Period size: 46 Copynumber: 2.7 Consensus size: 44
14250898 TGATATGTGC
* *
14250908 GCTAGTGTAAGACATGTCTGGGACATGTATCGGCCACATAGTGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-C-CATAGAGAAA
* * * *
14250954 GCCAGAGTAAGATATGTCTGGGACATGCATCGG-CATTGAGACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATAGAGA-AA
* * *
14250998 GTGCTAGTGTAAGACGTGTCTAGGACACGCATCG
1 --GCTAGTGTAAGACATGTCTGGGACATGCATCG
14251032 ACCTCGATGA
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
43 6 0.10
44 2 0.03
46 55 0.87
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATAGAGAAA
Found at i:14251103 original size:47 final size:45
Alignment explanation
Indices: 14251052--14251170 Score: 168
Period size: 47 Copynumber: 2.6 Consensus size: 45
14251042 TGATAGTCAA
* *
14251052 TGTAAGACCATGTTTGGGACATGGCATCCACTTGAGATGTGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCCACTTGACATGTG-GC-AG
* * *
14251099 TGTAAGACCATGTCTGTGACATGGCATCTACTTGACATGTGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCCACTTGACATGTGGCAG
14251144 TGTAAGACC-TGTCTGGGACATGGCATC
1 TGTAAGACCATGTCTGGGACATGGCATC
14251171 GACACAGATG
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
44 17 0.26
45 11 0.17
46 1 0.02
47 37 0.56
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (45 bp):
TGTAAGACCATGTCTGGGACATGGCATCCACTTGACATGTGGCAG
Found at i:14264033 original size:42 final size:42
Alignment explanation
Indices: 14263979--14264118 Score: 165
Period size: 42 Copynumber: 3.3 Consensus size: 42
14263969 ATGGGTGCTA
* * * *
14263979 AACAGAATCCCATAAGGGTTGAACGGAAGCTCATAAGAGCTG
1 AACAGAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTG
* *
14264021 AAC-GAAAACCCATAAGGGTTAAACAGAAGCTTAAAAGAGTTG
1 AACAG-AAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTG
* * *
14264063 AACAGAAACCCATTAGGGTTAAACAAAAGCTCAAAAGAGCTT
1 AACAGAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTG
* *
14264105 AATAGAAACTCATA
1 AACAGAAACCCATA
14264119 TGAATTAAAT
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 1 0.01
42 80 0.98
43 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (42 bp):
AACAGAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTG
Found at i:14264087 original size:21 final size:21
Alignment explanation
Indices: 14263977--14264087 Score: 71
Period size: 21 Copynumber: 5.3 Consensus size: 21
14263967 ACATGGGTGC
*
14263977 TAAACAGAATCCCATAAGGGT
1 TAAACAGAAACCCATAAGGGT
* * * * * *
14263998 TGAACGGAAGCTCATAAGAGC
1 TAAACAGAAACCCATAAGGGT
*
14264019 TGAAC-GAAAACCCATAAGGGT
1 TAAACAG-AAACCCATAAGGGT
* ** * *
14264040 TAAACAGAAGCTTAAAAGAGT
1 TAAACAGAAACCCATAAGGGT
* *
14264061 TGAACAGAAACCCATTAGGGT
1 TAAACAGAAACCCATAAGGGT
14264082 TAAACA
1 TAAACA
14264088 AAAGCTCAAA
Statistics
Matches: 64, Mismatches: 24, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
20 1 0.02
21 62 0.97
22 1 0.02
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (21 bp):
TAAACAGAAACCCATAAGGGT
Found at i:14266955 original size:25 final size:25
Alignment explanation
Indices: 14266927--14266982 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
14266917 AAGTTCTTTC
*
14266927 GAGCCATA-TAAAGGGAAGCTCATGA
1 GAGCCA-AGTAAAGGGAAGCTCATAA
* *
14266952 GAGCCAAGTAACGGGAAGCTTATAA
1 GAGCCAAGTAAAGGGAAGCTCATAA
14266977 GAGCCA
1 GAGCCA
14266983 GTTATTGGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.39, C:0.18, G:0.29, T:0.14
Consensus pattern (25 bp):
GAGCCAAGTAAAGGGAAGCTCATAA
Found at i:14266981 original size:50 final size:50
Alignment explanation
Indices: 14266927--14267034 Score: 114
Period size: 50 Copynumber: 2.2 Consensus size: 50
14266917 AAGTTCTTTC
* *
14266927 GAGCCATATAAAGGGAAGCT-CATGAGAGCCAAGTAACGGGAAGCTTAT-AA
1 GAGCCATATAAAGGGAAGCTGCA-AAGAGCAAAGTAACGGGAAGCTT-TGAA
** * *
14266977 GAGCCAGT-TATTGGGAAGCTGCAAAGAGCAAATTATCGGGAAGCTTTGAA
1 GAGCCA-TATAAAGGGAAGCTGCAAAGAGCAAAGTAACGGGAAGCTTTGAA
14267027 GAGCCATA
1 GAGCCATA
14267035 AATGGAAAGC
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
49 2 0.04
50 43 0.90
51 3 0.06
ACGTcount: A:0.37, C:0.16, G:0.29, T:0.19
Consensus pattern (50 bp):
GAGCCATATAAAGGGAAGCTGCAAAGAGCAAAGTAACGGGAAGCTTTGAA
Found at i:14266992 original size:25 final size:25
Alignment explanation
Indices: 14266939--14267032 Score: 84
Period size: 25 Copynumber: 3.8 Consensus size: 25
14266929 GCCATATAAA
* * * *
14266939 GGGAAGCTCATGAGAGCCAAGTAAC
1 GGGAAGCTTATAAGAGCCAATTATC
* *
14266964 GGGAAGCTTATAAGAGCCAGTTATT
1 GGGAAGCTTATAAGAGCCAATTATC
* *
14266989 GGGAAGCTGCA-AAGAGCAAATTATC
1 GGGAAGCT-TATAAGAGCCAATTATC
14267014 GGGAAGCTT-TGAAGAGCCA
1 GGGAAGCTTAT-AAGAGCCA
14267033 TAAATGGAAA
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
25 53 0.98
26 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.18
Consensus pattern (25 bp):
GGGAAGCTTATAAGAGCCAATTATC
Found at i:14271052 original size:42 final size:41
Alignment explanation
Indices: 14270996--14271122 Score: 155
Period size: 42 Copynumber: 3.0 Consensus size: 41
14270986 TTAGGGTTAC
14270996 TGAGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGA-TTCATGTAAGACCATATCTGGGATATGGCATCGATA
* * * * *
14271038 TGAGACTTCGTGTAAGACCATAGCTAGGCTATTGCCATCGATA
1 TGAGA-TTCATGTAAGACCATATCTGGGATA-TGGCATCGATA
* *
14271081 TGAGATTACATGTAAGGCCATATCTGGGATATGGCATTGATA
1 TGAGATT-CATGTAAGACCATATCTGGGATATGGCATCGATA
14271123 CGATATTGTG
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 37 0.53
43 33 0.47
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (41 bp):
TGAGATTCATGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:14279494 original size:26 final size:27
Alignment explanation
Indices: 14279430--14279495 Score: 82
Period size: 26 Copynumber: 2.4 Consensus size: 27
14279420 TTTAAACAAA
14279430 AAAATACAAAAATTTTAAAAAAATATTT
1 AAAATACAAAAA-TTTAAAAAAATATTT
* *
14279458 AAAATTA-AAAAA-TTAAAAATATTTTT
1 AAAA-TACAAAAATTTAAAAAAATATTT
14279484 AAAATACAAAAA
1 AAAATACAAAAA
14279496 AAAATTCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 2 0.06
26 21 0.62
28 9 0.26
29 2 0.06
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (27 bp):
AAAATACAAAAATTTAAAAAAATATTT
Found at i:14279499 original size:24 final size:22
Alignment explanation
Indices: 14279446--14279500 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
14279436 CAAAAATTTT
14279446 AAAAAAATATTTAAAATTAAAA
1 AAAAAAATATTTAAAATTAAAA
*
14279468 AATTAAAAATATTTTTAAAA-TACAA
1 AA--AAAAATA--TTTAAAATTAAAA
14279493 AAAAAAAT
1 AAAAAAAT
14279501 TCAAAATTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 2 0.07
23 6 0.21
24 7 0.25
25 6 0.21
26 7 0.25
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAAAATATTTAAAATTAAAA
Found at i:14279619 original size:14 final size:14
Alignment explanation
Indices: 14279600--14279628 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14279590 GCTTGCGAAC
14279600 TAGTAAGAAATAGT
1 TAGTAAGAAATAGT
14279614 TAGTAAGAAATAGT
1 TAGTAAGAAATAGT
14279628 T
1 T
14279629 GAACTGGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.31
Consensus pattern (14 bp):
TAGTAAGAAATAGT
Found at i:14279963 original size:27 final size:28
Alignment explanation
Indices: 14279903--14279963 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
14279893 ATAACATTGA
* *
14279903 ATTTTTAATTTTTTATATTTTAAAAATG
1 ATTTTTAATATTTTAAATTTTAAAAATG
14279931 ATTTTT-ATATTTTAAATTTTAAAGAAT-
1 ATTTTTAATATTTTAAATTTTAAA-AATG
14279958 ATTTTT
1 ATTTTT
14279964 CATAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 21 0.70
28 9 0.30
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (28 bp):
ATTTTTAATATTTTAAATTTTAAAAATG
Found at i:14280541 original size:15 final size:15
Alignment explanation
Indices: 14280523--14280552 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
14280513 AAATTTTAAT
14280523 TTTTTATAATTTATA
1 TTTTTATAATTTATA
14280538 TTTTTATAATTTATA
1 TTTTTATAATTTATA
14280553 AATGATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:14280589 original size:29 final size:30
Alignment explanation
Indices: 14280537--14280603 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 30
14280527 TATAATTTAT
* *
14280537 ATTTTTATAATTTATAAATGATTAAATTAA
1 ATTTTTATAATTTATAAAGGATTAAAGTAA
**
14280567 ATTTTTATAATTT-TAGGGGATTAAAGTAA
1 ATTTTTATAATTTATAAAGGATTAAAGTAA
*
14280596 AATTTTAT
1 ATTTTTAT
14280604 CTTTATTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 19 0.59
30 13 0.41
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (30 bp):
ATTTTTATAATTTATAAAGGATTAAAGTAA
Found at i:14280599 original size:30 final size:30
Alignment explanation
Indices: 14280537--14280601 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
14280527 TATAATTTAT
* *
14280537 ATTTTTATAATTTATAAATGATTAAATTAA
1 ATTTTTATAATTTATAAAGGATTAAATAAA
**
14280567 ATTTTTATAATTT-TAGGGGATTAAAGTAAA
1 ATTTTTATAATTTATAAAGGATTAAA-TAAA
14280597 ATTTT
1 ATTTT
14280602 ATCTTTATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (30 bp):
ATTTTTATAATTTATAAAGGATTAAATAAA
Found at i:14281119 original size:11 final size:10
Alignment explanation
Indices: 14281098--14281127 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
14281088 AAACCTTTCG
14281098 ATTTTTTTTT
1 ATTTTTTTTT
14281108 ATTTTTTATTT
1 ATTTTTT-TTT
14281119 ATTTTTTTT
1 ATTTTTTTT
14281128 GGTTATAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (10 bp):
ATTTTTTTTT
Found at i:14285187 original size:4 final size:4
Alignment explanation
Indices: 14285178--14285203 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
14285168 TTAATTCATG
14285178 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
14285204 ACATGTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:14290590 original size:79 final size:80
Alignment explanation
Indices: 14290448--14290650 Score: 281
Period size: 79 Copynumber: 2.6 Consensus size: 80
14290438 TATTCGGATG
* * * *
14290448 ATAACCGGGCTAAGTCCCGAAGG--TTTGTGCTAGTGACTA-ATTCCGGGCTAAGCCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCAGGCCAAGCCCCGAAGGC
*
14290510 ATTTGTGCTAGTTACT
65 ATTTGTGCGAGTTACT
* *
14290526 AT-ATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCCAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCCAAGCCCCGAAGGCA
14290590 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
*
14290605 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
14290651 GGATAAATCC
Statistics
Matches: 111, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
77 19 0.17
78 2 0.02
79 51 0.46
80 39 0.35
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCCAAGCCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:14290591 original size:40 final size:40
Alignment explanation
Indices: 14290452--14290652 Score: 277
Period size: 40 Copynumber: 5.1 Consensus size: 40
14290442 CGGATGATAA
* *
14290452 CCGGGCTAAGTCCCGAAGG--TTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
14290490 CCGGGCTAAGCCCCGAAGGCATTTGTGCTAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
14290530 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
14290569 CCAGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
14290609 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
14290649 CCGG
1 CCGG
14290653 ATAAATCCCA
Statistics
Matches: 147, Mismatches: 11, Indels: 8
0.89 0.07 0.05
Matches are distributed among these distances:
38 18 0.12
39 39 0.27
40 89 0.61
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:14298553 original size:40 final size:40
Alignment explanation
Indices: 14298498--14298713 Score: 240
Period size: 40 Copynumber: 5.4 Consensus size: 40
14298488 GATGATAACC
* * *
14298498 GGGCTAAGTCCCGAAGGCGTTTGTGCTAGTGCCTA-ATTCA
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCA
* * *
14298538 GGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCA
* *
14298578 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCA
* * * * *
14298618 GGGCCAAGTCCTGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCA
*
14298658 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCTATATC-
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATATCA
* * *
14298697 CGGCTAAATCCCAAAGG
1 GGGCTAAGTCCCGAAGG
14298714 TACTTGGTTT
Statistics
Matches: 157, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 15 0.10
40 141 0.90
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCA
Found at i:14298634 original size:80 final size:80
Alignment explanation
Indices: 14298492--14298699 Score: 294
Period size: 80 Copynumber: 2.6 Consensus size: 80
14298482 TATTCGGATG
* * ** * *
14298492 ATAACCGGGCTAAGTCCCGAAGGCGTTTGTGCTAGTGCCTA-ATTCAGGGCTAAGCCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCCAAGCCCCGAAGGC
14298556 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTACT
* * *
14298572 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCCAAGTCCTGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCCAAGCCCCGAAGGCA
14298637 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
*
14298652 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCCGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
14298700 CTAAATCCCA
Statistics
Matches: 115, Mismatches: 11, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
79 2 0.02
80 112 0.97
81 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCCAAGCCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:14300604 original size:16 final size:16
Alignment explanation
Indices: 14300580--14300611 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14300570 TCAATTATCC
14300580 AAATCGTTTTAAATTT
1 AAATCGTTTTAAATTT
*
14300596 AAATGGTTTTAAATTT
1 AAATCGTTTTAAATTT
14300612 TGGTTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (16 bp):
AAATCGTTTTAAATTT
Found at i:14301186 original size:16 final size:15
Alignment explanation
Indices: 14301161--14301191 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
14301151 AATATGAATC
14301161 AAAAAAAAAAAAGAA
1 AAAAAAAAAAAAGAA
14301176 AAAAGAAAAAAAAGAA
1 AAAA-AAAAAAAAGAA
14301192 CCAAGTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAGAA
Found at i:14301514 original size:21 final size:21
Alignment explanation
Indices: 14301489--14301533 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
14301479 ACAATATGAC
* *
14301489 TAAATTCCAAGTTAAAAAACA
1 TAAATACCAAGTAAAAAAACA
* *
14301510 TAAATACCACGTAAAAAAAGA
1 TAAATACCAAGTAAAAAAACA
14301531 TAA
1 TAA
14301534 TCAATATGAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (21 bp):
TAAATACCAAGTAAAAAAACA
Found at i:14303578 original size:24 final size:24
Alignment explanation
Indices: 14303551--14303599 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
14303541 AGCTTCATCG
14303551 TCCTGTGTTGCAACACGACTTCCT
1 TCCTGTGTTGCAACACGACTTCCT
14303575 TCCTGTGTTGCAACACGACTTCCT
1 TCCTGTGTTGCAACACGACTTCCT
14303599 T
1 T
14303600 TCTTTCGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.33, G:0.16, T:0.35
Consensus pattern (24 bp):
TCCTGTGTTGCAACACGACTTCCT
Found at i:14315117 original size:31 final size:30
Alignment explanation
Indices: 14315069--14315152 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 30
14315059 TTAGTGATTT
* *
14315069 ATTACTTTAAATATAATTTATCCTATT-ATTA
1 ATTATTTTAAATTTAATTTAT-C-ATTAATTA
14315100 ATTATTTTAAATTTAATTTATCATTCAATTA
1 ATTATTTTAAATTTAATTTATCATT-AATTA
14315131 ATTATTTCT-AATTTAAATTTAT
1 ATTATTT-TAAATTT-AATTTAT
14315153 TGCTTTAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
29 3 0.06
30 1 0.02
31 35 0.74
32 8 0.17
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (30 bp):
ATTATTTTAAATTTAATTTATCATTAATTA
Found at i:14315211 original size:51 final size:51
Alignment explanation
Indices: 14315100--14315211 Score: 122
Period size: 51 Copynumber: 2.2 Consensus size: 51
14315090 CCTATTATTA
*
14315100 ATTATTTTAAATTTAATTTATCATTCAATTAATTATTTCTAATTTAAATTT
1 ATTATTTTAAATATAATTTATCATTCAATTAATTATTTCTAATTTAAATTT
** * * *
14315151 ATTGCTTTAAATATAATTTATCCTAT-ACTTAATTATTT-TTATTTAAATAATT
1 ATTATTTTAAATATAATTTATCAT-TCAATTAATTATTTCTAATTTAAAT--TT
14315203 -TTATTTTAA
1 ATTATTTTAA
14315212 TTGAAATTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
50 9 0.18
51 38 0.76
52 3 0.06
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.56
Consensus pattern (51 bp):
ATTATTTTAAATATAATTTATCATTCAATTAATTATTTCTAATTTAAATTT
Found at i:14315219 original size:70 final size:72
Alignment explanation
Indices: 14315065--14315269 Score: 225
Period size: 70 Copynumber: 2.7 Consensus size: 72
14315055 TAATTTAGTG
* * * *
14315065 ATTTATTACTTTAAATATAATTTATCCTATTATTAATTATTTTAAATTTAATTTATCATTCAATT
1 ATTTATTGCTTTAAATATAATTTATCATATAATTAATTA--TT---TTTAATTTA--AAT-AATT
*
14315130 AATTATTTCTAATTTAA
58 --TTATTTCTAATTGAA
* *
14315147 ATTTATTGCTTTAAATATAATTTATCCTATACTTAATTATTTTT-ATTTAAATAATTTTATTT-T
1 ATTTATTGCTTTAAATATAATTTATCATATAATTAATTATTTTTAATTTAAATAATTTTATTTCT
14315210 AATTGAA
66 AATTGAA
* *
14315217 ATTTATTGTTTTAAATATAATTTATCATTTAATTAATTATTTTTAATTTAAAT
1 ATTTATTGCTTTAAATATAATTTATCATATAATTAATTATTTTTAATTTAAAT
14315270 TTATTGCTTT
Statistics
Matches: 113, Mismatches: 9, Indels: 13
0.84 0.07 0.10
Matches are distributed among these distances:
70 47 0.42
71 14 0.12
73 4 0.04
74 2 0.02
76 5 0.04
77 3 0.03
80 2 0.02
82 36 0.32
ACGTcount: A:0.37, C:0.05, G:0.01, T:0.56
Consensus pattern (72 bp):
ATTTATTGCTTTAAATATAATTTATCATATAATTAATTATTTTTAATTTAAATAATTTTATTTCT
AATTGAA
Found at i:14315238 original size:121 final size:119
Alignment explanation
Indices: 14315104--14315433 Score: 554
Period size: 121 Copynumber: 2.8 Consensus size: 119
14315094 TTATTAATTA
* * *
14315104 TTTTAAATTTAATTTATCATTCAATTAATTATTTCTAATTTAAATTTATTGCTTTAAATATAATT
1 TTTTAAATATAATTTATCATTTAATTAATTATTTTTAATTTAAATTTATTGCTTTAAATATAATT
14315169 TATCCTATACTTAATTATTTTTATTTAAATAATTTTATTTTAATTGAAATTTATT
66 TATCCTATACTTAATTATTTTTATTTAAATAATTTTATTTTAATTGAAATTTA-T
14315224 GTTTTAAATATAATTTATCATTTAATTAATTATTTTTAATTTAAATTTATTGCTTTAAATATAAT
1 -TTTTAAATATAATTTATCATTTAATTAATTATTTTTAATTTAAATTTATTGCTTTAAATATAAT
*
14315289 TTATCCTATACTTAATTATTTTTATTTAAATTATTTTATTTTAATTGAAATTTAT
65 TTATCCTATACTTAATTATTTTTATTTAAATAATTTTATTTTAATTGAAATTTAT
* *
14315344 TTTTAAATATAATTTATCATTTAATTAATTATTTTTAATTCAAATTTATTGTTTTAAATATAATT
1 TTTTAAATATAATTTATCATTTAATTAATTATTTTTAATTTAAATTTATTGCTTTAAATATAATT
* **
14315409 TATCCTTTAAGTAATTA-TTTTATTT
66 TATCCTATACTTAATTATTTTTATTT
14315434 TAATTACTGT
Statistics
Matches: 200, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
118 8 0.04
119 77 0.38
120 1 0.00
121 114 0.57
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (119 bp):
TTTTAAATATAATTTATCATTTAATTAATTATTTTTAATTTAAATTTATTGCTTTAAATATAATT
TATCCTATACTTAATTATTTTTATTTAAATAATTTTATTTTAATTGAAATTTAT
Found at i:14315257 original size:34 final size:34
Alignment explanation
Indices: 14315149--14315257 Score: 98
Period size: 34 Copynumber: 3.1 Consensus size: 34
14315139 TAATTTAAAT
* * * *
14315149 TTATTGCTTTAAATATAATTTATCCTATACTTAA
1 TTATTGTTTTAAATATAATTTATCATTTAATTAA
* *
14315183 TTATTTTTATTTAA-ATAATTT-T-ATTTTAATTGAAA
1 TTATTGTT-TTAAATATAATTTATCA-TTTAATT--AA
14315218 TTTATTGTTTTAAATATAATTTATCATTTAATTAA
1 -TTATTGTTTTAAATATAATTTATCATTTAATTAA
14315253 TTATT
1 TTATT
14315258 TTTAATTTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
33 6 0.10
34 18 0.31
35 12 0.20
36 14 0.24
37 8 0.14
38 1 0.02
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.57
Consensus pattern (34 bp):
TTATTGTTTTAAATATAATTTATCATTTAATTAA
Found at i:14315261 original size:51 final size:51
Alignment explanation
Indices: 14315191--14315320 Score: 181
Period size: 51 Copynumber: 2.5 Consensus size: 51
14315181 AATTATTTTT
* * * *
14315191 ATTTAAATAATTTTATTTTAATTGAAATTTATTGTTTTAAATATAATTTATC
1 ATTTAATTAATTAT-TTTTAATTTAAATTTATTGCTTTAAATATAATTTATC
14315243 ATTTAATTAATTATTTTTAATTTAAATTTATTGCTTTAAATATAATTTATC
1 ATTTAATTAATTATTTTTAATTTAAATTTATTGCTTTAAATATAATTTATC
* * *
14315294 CTATACTTAATTATTTTT-ATTTAAATT
1 ATTTAATTAATTATTTTTAATTTAAATT
14315321 ATTTTATTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 9 0.13
51 50 0.70
52 12 0.17
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (51 bp):
ATTTAATTAATTATTTTTAATTTAAATTTATTGCTTTAAATATAATTTATC
Found at i:14315263 original size:14 final size:15
Alignment explanation
Indices: 14315179--14315429 Score: 79
Period size: 19 Copynumber: 15.1 Consensus size: 15
14315169 TATCCTATAC
14315179 TTAATT-ATTT-TTAT
1 TTAATTAATTTATT-T
*
14315193 TTAAATAATTT-TATT
1 TTAATTAATTTAT-TT
14315208 TTAATTGAAATTTATTGTT
1 TTAATT--AATTTA-T-TT
*
14315227 TTAAATATAATTTATCAT
1 TT-AAT-TAATTTAT-TT
14315245 TTAATTAA-TTATTT
1 TTAATTAATTTATTT
14315259 TTAATTTAAATTTATTGCT
1 TTAA-TT-AATTTATT--T
14315278 TTAAATATAATTTATCCTAT
1 TT-AAT-TAATTTAT--T-T
14315298 ACTTAATT-ATTT-TTAT
1 --TTAATTAATTTATT-T
*
14315314 TTAAATTATTTTA-TT
1 TT-AATTAATTTATTT
14315329 TTAATTGAAATTTATTT
1 TTAATT--AATTTATTT
*
14315346 TTAAATATAATTTATCAT
1 TT-AAT-TAATTTAT-TT
14315364 TTAATTAA-TTATTT
1 TTAATTAATTTATTT
14315378 TTAATTCAAATTTATTGTT
1 TTAATT--AATTTA-T-TT
*
14315397 TTAAATATAATTTATCCT
1 TT-AAT-TAATTTAT-TT
*
14315415 TTAAGTAA-TTATTT
1 TTAATTAATTTATTT
14315429 T
1 T
14315430 ATTTTAATTA
Statistics
Matches: 187, Mismatches: 15, Indels: 70
0.69 0.06 0.26
Matches are distributed among these distances:
14 25 0.13
15 32 0.17
16 26 0.14
17 32 0.17
18 16 0.09
19 37 0.20
20 11 0.06
21 6 0.03
22 2 0.01
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (15 bp):
TTAATTAATTTATTT
Found at i:14315290 original size:70 final size:69
Alignment explanation
Indices: 14315145--14315292 Score: 183
Period size: 70 Copynumber: 2.1 Consensus size: 69
14315135 TTTCTAATTT
* * *
14315145 AAATTTATTGCTTTAAATATAATTTATCCTATACTTAATTATTTTTATTTAAATAATTTTATTTT
1 AAATTTATTGCTTTAAATATAATTTATCATATAATTAATTATTTTTATTTAAAT-ATTTTACTTT
*
14315210 AATTG
65 AAATG
* * *
14315215 AAATTTATTGTTTTAAATATAATTTATCATTTAATTAATTATTTTTAATTTAAAT-TTATTGCTT
1 AAATTTATTGCTTTAAATATAATTTATCATATAATTAATTATTTTT-ATTTAAATATT-TTACTT
14315279 TAAAT-
64 TAAATG
14315284 ATAATTTAT
1 A-AATTTAT
14315293 CCTATACTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
69 3 0.04
70 57 0.84
71 8 0.12
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (69 bp):
AAATTTATTGCTTTAAATATAATTTATCATATAATTAATTATTTTTATTTAAATATTTTACTTTA
AATG
Found at i:14315318 original size:36 final size:35
Alignment explanation
Indices: 14315277--14315380 Score: 110
Period size: 35 Copynumber: 3.0 Consensus size: 35
14315267 AATTTATTGC
* *
14315277 TTTAAATATAATTTATCCTATACTTAATTATTTTTA
1 TTTAAATATAATTTAT-CTTTAATTAATTATTTTTA
*
14315313 TTTAAAT-TATTTTAT-TTTAATTGAA--ATTTATT-
1 TTTAAATATAATTTATCTTTAATT-AATTATTT-TTA
14315345 TTTAAATATAATTTATCATTTAATTAATTATTTTTA
1 TTTAAATATAATTTATC-TTTAATTAATTATTTTTA
14315381 ATTCAAATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
32 11 0.20
33 14 0.25
34 4 0.07
35 16 0.29
36 11 0.20
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.59
Consensus pattern (35 bp):
TTTAAATATAATTTATCTTTAATTAATTATTTTTA
Found at i:14315329 original size:20 final size:21
Alignment explanation
Indices: 14315304--14315346 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
14315294 CTATACTTAA
* *
14315304 TTATTTTTATTTAAA-TTATT
1 TTATTTTAATTGAAATTTATT
14315324 TTATTTTAATTGAAATTTATT
1 TTATTTTAATTGAAATTTATT
14315345 TT
1 TT
14315347 TAAATATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TTATTTTAATTGAAATTTATT
Found at i:14315399 original size:68 final size:69
Alignment explanation
Indices: 14315247--14315418 Score: 199
Period size: 68 Copynumber: 2.5 Consensus size: 69
14315237 TTTATCATTT
* * *
14315247 AATTA-ATTATTTTTAATTTAAATTTATTGCTTTAAATATAATTTATCCTATACTTAATTATTTT
1 AATTATATTA-TTTTAATTGAAATTTATT-CTTTAAATATAATTTATCATATAATTAATTATTTT
*
14315311 TATTTA
64 TATTCA
* *
14315317 AATTATTTTATTTTAATTGAAATTTATT-TTTAAATATAATTTATCATTTAATTAATTATTTTTA
1 AATTATATTATTTTAATTGAAATTTATTCTTTAAATATAATTTATCATATAATTAATTATTTTT-
14315381 ATTCA
65 ATTCA
* * *
14315386 AATT-TATTGTTTTAAAT-ATAATTTATCCTTTAA
1 AATTATATTATTTTAATTGA-AATTTATTCTTTAA
14315419 GTAATTATTT
Statistics
Matches: 88, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
67 1 0.01
68 49 0.56
69 13 0.15
70 22 0.25
71 3 0.03
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.57
Consensus pattern (69 bp):
AATTATATTATTTTAATTGAAATTTATTCTTTAAATATAATTTATCATATAATTAATTATTTTTA
TTCA
Found at i:14315418 original size:51 final size:49
Alignment explanation
Indices: 14315327--14315429 Score: 161
Period size: 51 Copynumber: 2.1 Consensus size: 49
14315317 AATTATTTTA
* *
14315327 TTTTAATTGAAATTTATTTTTAAATATAATTTATCATTTAATTAATTAT
1 TTTTAATTCAAATTTATTTTTAAATATAATTTATCATTTAAGTAATTAT
*
14315376 TTTTAATTCAAATTTATTGTTTTAAATATAATTTATCCTTTAAGTAATTAT
1 TTTTAATTCAAATTTA-T-TTTTAAATATAATTTATCATTTAAGTAATTAT
14315427 TTT
1 TTT
14315430 ATTTTAATTA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
49 15 0.31
50 1 0.02
51 33 0.67
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (49 bp):
TTTTAATTCAAATTTATTTTTAAATATAATTTATCATTTAAGTAATTAT
Found at i:14317555 original size:18 final size:18
Alignment explanation
Indices: 14317534--14317633 Score: 110
Period size: 18 Copynumber: 5.6 Consensus size: 18
14317524 TAACATTCAA
*
14317534 TTATTCAGTAGCAATTAG
1 TTATTCAGTAGCAATCAG
*
14317552 TTATTCAGTAGCAATCAT
1 TTATTCAGTAGCAATCAG
**
14317570 TTGCTCAGTAGCAATCAG
1 TTATTCAGTAGCAATCAG
* * *
14317588 TTATTCAGTAACGATCAA
1 TTATTCAGTAGCAATCAG
* *
14317606 TTATTCAGTAACAGTCAG
1 TTATTCAGTAGCAATCAG
*
14317624 TCATTCAGTA
1 TTATTCAGTA
14317634 CTTTTATTTA
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAGCAATCAG
Found at i:14317614 original size:36 final size:35
Alignment explanation
Indices: 14317522--14317633 Score: 125
Period size: 36 Copynumber: 3.1 Consensus size: 35
14317512 AGTTTCATTT
*
14317522 AGTAACATTCAATTATTCAGTAGCAATTAGTTATTC
1 AGTAACA-TCAATTATTCAGTAGCAATCAGTTATTC
* * **
14317558 AGTAGCAATCATTTGCTCAGTAGCAATCAGTTATTC
1 AGTAAC-ATCAATTATTCAGTAGCAATCAGTTATTC
* * *
14317594 AGTAACGATCAATTATTCAGTAACAGTCAGTCATTC
1 AGTAAC-ATCAATTATTCAGTAGCAATCAGTTATTC
14317630 AGTA
1 AGTA
14317634 CTTTTATTTA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
36 61 0.98
37 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (35 bp):
AGTAACATCAATTATTCAGTAGCAATCAGTTATTC
Found at i:14319106 original size:19 final size:19
Alignment explanation
Indices: 14319060--14319106 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
14319050 TATTTTGCTA
14319060 CTTTGTTTCTTTTCTATTT
1 CTTTGTTTCTTTTCTATTT
*
14319079 CTTTATTTCTTTT-TATTT
1 CTTTGTTTCTTTTCTATTT
14319097 CATTTGTTTC
1 C-TTTGTTTC
14319107 ATTTGTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.09, C:0.15, G:0.04, T:0.72
Consensus pattern (19 bp):
CTTTGTTTCTTTTCTATTT
Found at i:14319270 original size:5 final size:5
Alignment explanation
Indices: 14319260--14319292 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
14319250 ATATTACATA
14319260 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
14319293 TTTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:14319308 original size:20 final size:22
Alignment explanation
Indices: 14319260--14319315 Score: 75
Period size: 20 Copynumber: 2.7 Consensus size: 22
14319250 ATATTACATA
*
14319260 ATAATATAATATA--ATATAAT
1 ATAATATAATATATTTTATAAT
14319280 ATAATATAATATATTTTATAAT
1 ATAATATAATATATTTTATAAT
14319302 -TAA-ATAATATATTT
1 ATAATATAATATATTT
14319316 AAAACATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 24 0.73
21 3 0.09
22 6 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAATATAATATATTTTATAAT
Found at i:14319486 original size:20 final size:20
Alignment explanation
Indices: 14319463--14319500 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14319453 CCTAATTAAC
*
14319463 CTTAATTTAAGCTAAATTCA
1 CTTAATTAAAGCTAAATTCA
*
14319483 CTTAATTAAAGCTTAATT
1 CTTAATTAAAGCTAAATT
14319501 AACCACTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.05, T:0.42
Consensus pattern (20 bp):
CTTAATTAAAGCTAAATTCA
Found at i:14320999 original size:52 final size:52
Alignment explanation
Indices: 14320937--14321039 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 52
14320927 ACAGACATGC
14320937 ACGGTTGTTCATATGTCGCAAGACCATCGAAAGTTGGATGCAAAAATCATAA
1 ACGGTTGTTCATATGTCGCAAGACCATCGAAAGTTGGATGCAAAAATCATAA
* *
14320989 ACGGTTGTTCATATGTTGCAAGACCATCGAAAGTTGGATGTAAAAATCATA
1 ACGGTTGTTCATATGTCGCAAGACCATCGAAAGTTGGATGCAAAAATCATA
14321040 TGCAACTGCA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (52 bp):
ACGGTTGTTCATATGTCGCAAGACCATCGAAAGTTGGATGCAAAAATCATAA
Found at i:14323082 original size:6 final size:6
Alignment explanation
Indices: 14323079--14323134 Score: 87
Period size: 6 Copynumber: 9.3 Consensus size: 6
14323069 CTAAAAAAAC
*
14323079 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAATA AAAAGA AAAA-A
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
14323126 GAAAAGA AA
1 -AAAAGA AA
14323135 TAAACTCAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
5 1 0.02
6 44 0.96
7 1 0.02
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:14323282 original size:30 final size:26
Alignment explanation
Indices: 14323238--14323315 Score: 84
Period size: 30 Copynumber: 2.7 Consensus size: 26
14323228 GCATAAATAA
14323238 AAATAAAATAAAATAATAAGAAAACAAAT
1 AAAT-AAAT-AAATAATAA-AAAACAAAT
*
14323267 CAAATATATATAAATAATATAAAAATAAAT
1 -AAATA-A-ATAAATAATA-AAAAACAAAT
14323297 AAATAAATAAATAATAAAA
1 AAATAAATAAATAATAAAA
14323316 TAAAGGGTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
26 3 0.07
27 10 0.23
28 1 0.02
29 6 0.14
30 21 0.48
31 3 0.07
ACGTcount: A:0.73, C:0.03, G:0.01, T:0.23
Consensus pattern (26 bp):
AAATAAATAAATAATAAAAAACAAAT
Found at i:14323283 original size:4 final size:4
Alignment explanation
Indices: 14323230--14323319 Score: 50
Period size: 4 Copynumber: 22.2 Consensus size: 4
14323220 AAATCTAAGC
*
14323230 ATAA AT-A A-AA ATAAA ATAA A-ATA ATAA GA-AA ACAA ATCAA ATATA
1 ATAA ATAA ATAA AT-AA ATAA ATA-A ATAA -ATAA ATAA AT-AA ATA-A
14323275 TATAA AT-A ATATA A-AA ATAA ATAA ATAA ATAA AT-A ATAAA ATAA A
1 -ATAA ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA A
14323320 GGGTAAAAGG
Statistics
Matches: 70, Mismatches: 1, Indels: 30
0.69 0.01 0.30
Matches are distributed among these distances:
3 14 0.20
4 36 0.51
5 17 0.24
6 3 0.04
ACGTcount: A:0.73, C:0.02, G:0.01, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:14324272 original size:39 final size:39
Alignment explanation
Indices: 14324218--14324296 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
14324208 TTCATCTAGT
* * *
14324218 TCATCAATTTGTAACATTCGTTCATCATAAATTTTTATG
1 TCATCAAATTGTAACATTCATTCATCATAAATTGTTATG
14324257 TCATCAAATTGTAACATTCATTCATCATAAATTGTTATG
1 TCATCAAATTGTAACATTCATTCATCATAAATTGTTATG
14324296 T
1 T
14324297 TTCTGTCACA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (39 bp):
TCATCAAATTGTAACATTCATTCATCATAAATTGTTATG
Found at i:14332665 original size:586 final size:585
Alignment explanation
Indices: 14331554--14332723 Score: 1989
Period size: 586 Copynumber: 2.0 Consensus size: 585
14331544 GTGACCTTAT
* *** *
14331554 TGATGCGTGATATTCGTAACAGGTTTTAAAAATTTATACATGAATTTTTCTTGAGACTAGCTTAT
1 TGATGCGTGATATTCGTAACAGGTTTTAAAAATTTATAAATGAAACATTCTTGAGACTAACTTAT
* ***
14331619 TATCACGATTAAGGCAAATGAACCTATCGAACAGTAGTATAGTTTAGCAAGACCGGATTGTTGAA
66 TATCACGATTAAGGCAAATGAACCTATCGAACAGTAGTATAGTTCAGCAAGACCGGATTGCCAAA
*
14331684 CCCAAAGGAACTATGAGTACTAGTATTTACTTCCTTTTTATTATCTAGCCTAAAAATTAAGAGGT
131 CCCAAAGGAACTATAAGTACTAGTATTTACTTCCTTTTTATTATCTAGCCTAAAAATTAAGAGGT
*
14331749 TTGGTTATCTAAACTAATTACTAACTAAGAATGTACAGAAAGAAAACTTGGGAAAATACTTTTGG
196 TTGGTTATCTAAACTAATTACTAACTAAGAATGCACAGAAAGAAAACTTGGGAAAATACTTTTGG
*
14331814 GAAAATTTGATTGATTGAGACAATACCTAAGGAAAAATCCACCTAGACTTCACTTGTTATTTGAC
261 GAAAATTCGATTGATTGAGACAATACCTAAGGAAAAATCCACCTAGACTTCACTTGTTATTTGAC
* *
14331879 TCTGAATCAAACAATTTATTCATTTGACTTGATCCGTAGAAATCCTTAAGTTATATTATTATCTC
326 TCTGAATCAAACAATTTATTCATTTGACTTGATCCATAGAAATCCCTAAGTTATATTATTATCTC
* * *
14331944 TCTCGAGACTAATAATGTCTAATCCTAGGTTGAATAATTGAAATCTCTTTCTAATTAACACCCTA
391 ACTCGAGACTAATAACGTCTAACCCTAGGTTGAATAATTGAAATCTCTTTCTAATTAACACCCTA
14332009 GAATTGCATTAACTCGATCTATGGATTCCCCTATTAGGTTTCACCCTAATCCGACAAAATCTTGT
456 GAATTGCATTAACTCGATCTATGGATTCCCCTATTAGGTTTCACCCTAATCCGACAAAATCTTGT
* *
14332074 CACCCTATCTCTAGGCGCGCAATCAACTCCACTCAATTACGACAAATTTACTCTTAGACAGGGTC
521 CACCCTATCTCTAGACGCGCAATCAACTCCACTCAATTACGACAAATTTACTCTTAGAAAGGGTC
* * *
14332139 TGATGCGTGGTATTCGTAATAGGTTTTAAAGATTTATAAATGAAACATTCTTGAGACTAACTTAT
1 TGATGCGTGATATTCGTAACAGGTTTTAAAAATTTATAAATGAAACATTCTTGAGACTAACTTAT
* * * *
14332204 TCTCACGATTAATGCAAGTGTACCTATCGAACAGTAGTATAGTTCAGCAAGACCGGATTGCCAAA
66 TATCACGATTAAGGCAAATGAACCTATCGAACAGTAGTATAGTTCAGCAAGACCGGATTGCCAAA
* *
14332269 CCCAAAGGAACTATAAGTACTAGTATTTACTTCCTTTTTATTATCTAGCCTAAAATTTAAGAGTT
131 CCCAAAGGAACTATAAGTACTAGTATTTACTTCCTTTTTATTATCTAGCCTAAAAATTAAGAGGT
*
14332334 TTGGTTGTCTAAACTAATTACTAACTAAGAATGCACAGAAAGAAAAACTTGGGAAAATACTTTTG
196 TTGGTTATCTAAACTAATTACTAACTAAGAATGCACAGAAAG-AAAACTTGGGAAAATACTTTTG
* *
14332399 GGAAAATTCGATTGATTGAGACAATACCTAAGGACAGATCCACCTAGACTTCACTTGTTATTTGA
260 GGAAAATTCGATTGATTGAGACAATACCTAAGGAAAAATCCACCTAGACTTCACTTGTTATTTGA
*
14332464 CTCTGAATCAAACGATTTATTCATTTGACTTGATCCATAGAAATCCCTAAGTTATATTATTATCT
325 CTCTGAATCAAACAATTTATTCATTTGACTTGATCCATAGAAATCCCTAAGTTATATTATTATCT
14332529 CACTCGAGACTAATAACGTCTAACCCTAGGTTGAATAATTGAAATCTCTTTCTAATTAACACCCT
390 CACTCGAGACTAATAACGTCTAACCCTAGGTTGAATAATTGAAATCTCTTTCTAATTAACACCCT
* **
14332594 AGAATTGCATTAACTCGATCTATGGATTCCCTTATTAGGTTTCACCCTAATCCGGTAAAATCTTG
455 AGAATTGCATTAACTCGATCTATGGATTCCCCTATTAGGTTTCACCCTAATCCGACAAAATCTTG
* * *
14332659 TCACCCTATCTCTAGACGCGCAATCAACTCCGCTTAATTATGACAAATTTACTCTTAGAAAGGGT
520 TCACCCTATCTCTAGACGCGCAATCAACTCCACTCAATTACGACAAATTTACTCTTAGAAAGGGT
14332724 GTATTCCTCA
Statistics
Matches: 546, Mismatches: 38, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
585 216 0.40
586 330 0.60
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.33
Consensus pattern (585 bp):
TGATGCGTGATATTCGTAACAGGTTTTAAAAATTTATAAATGAAACATTCTTGAGACTAACTTAT
TATCACGATTAAGGCAAATGAACCTATCGAACAGTAGTATAGTTCAGCAAGACCGGATTGCCAAA
CCCAAAGGAACTATAAGTACTAGTATTTACTTCCTTTTTATTATCTAGCCTAAAAATTAAGAGGT
TTGGTTATCTAAACTAATTACTAACTAAGAATGCACAGAAAGAAAACTTGGGAAAATACTTTTGG
GAAAATTCGATTGATTGAGACAATACCTAAGGAAAAATCCACCTAGACTTCACTTGTTATTTGAC
TCTGAATCAAACAATTTATTCATTTGACTTGATCCATAGAAATCCCTAAGTTATATTATTATCTC
ACTCGAGACTAATAACGTCTAACCCTAGGTTGAATAATTGAAATCTCTTTCTAATTAACACCCTA
GAATTGCATTAACTCGATCTATGGATTCCCCTATTAGGTTTCACCCTAATCCGACAAAATCTTGT
CACCCTATCTCTAGACGCGCAATCAACTCCACTCAATTACGACAAATTTACTCTTAGAAAGGGTC
Found at i:14332800 original size:14 final size:13
Alignment explanation
Indices: 14332777--14332808 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
14332767 GGAATATCAA
14332777 AACAATAATTAAG
1 AACAATAATTAAG
14332790 AACACATAATTAAG
1 AACA-ATAATTAAG
14332804 AACAA
1 AACAA
14332809 GTCAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:14350289 original size:30 final size:30
Alignment explanation
Indices: 14350232--14350289 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
14350222 CACAGCCATG
* * *
14350232 ACACACGGGCGTGTGGCCTGCCTGTGTGTC
1 ACACACGGGAGTGTGGCCTACCCGTGTGTC
**
14350262 ACACACGGGAGTGTGGTTTACCCGTGTG
1 ACACACGGGAGTGTGGCCTACCCGTGTG
14350290 AAAATTCTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.14, C:0.26, G:0.36, T:0.24
Consensus pattern (30 bp):
ACACACGGGAGTGTGGCCTACCCGTGTGTC
Done.