Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 56 of 322
Found at i:17541052 original size:40 final size:40
Alignment explanation
Indices: 17540998--17541222 Score: 276
Period size: 40 Copynumber: 5.6 Consensus size: 40
17540988 CTTGCACAAG
* * *
17540998 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
17541038 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
17541078 GCCTTC-GGATCTTAGCCTGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
17541118 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * *
17541158 GCCTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAT
17541199 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
17541223 CATTCGAATA
Statistics
Matches: 158, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
39 6 0.04
40 120 0.76
41 29 0.18
42 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:17541111 original size:80 final size:79
Alignment explanation
Indices: 17540962--17541222 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 79
17540952 CTCAAGTAAT
* * * * * * * *
17540962 CTTCAGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGATCTTAG-CCGGATATAGT
*
17541025 CACTAGCACAGATGC
65 CACTAGCACAAATGC
* *
17541040 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGATCTTAGCCTGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGATCTTAGCC-GGATATAG
*
17541104 TCGCTAGCACAAATGC
64 TCACTAGCACAAATGC
* * * *
17541120 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGATCTTAG-CCGGATATAGT
*
17541185 CACCTAGCACAAAAGC
65 CA-CTAGCACAAATGC
17541201 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
17541223 CATTCGAATA
Statistics
Matches: 156, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
78 11 0.07
79 18 0.12
80 92 0.59
81 35 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGATCTTAGCCGGATATAGTC
ACTAGCACAAATGC
Found at i:17543110 original size:30 final size:31
Alignment explanation
Indices: 17543074--17543138 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 31
17543064 ACTTATTTTA
17543074 TTGTTAA-TTTTATTATTATTTTAAAGGCAT
1 TTGTTAATTTTTATTATTATTTTAAAGGCAT
* *
17543104 TTGTTAATTTTTTTTTATTATTTTAGAGGCAT
1 TTGTTAA-TTTTTATTATTATTTTAAAGGCAT
17543136 TTG
1 TTG
17543139 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 7 0.23
32 24 0.77
ACGTcount: A:0.25, C:0.03, G:0.12, T:0.60
Consensus pattern (31 bp):
TTGTTAATTTTTATTATTATTTTAAAGGCAT
Found at i:17550099 original size:27 final size:27
Alignment explanation
Indices: 17550069--17550147 Score: 131
Period size: 27 Copynumber: 2.9 Consensus size: 27
17550059 ACTCCAATAA
* * *
17550069 TGCCTACGACCCTCAGGGTATTGGGAC
1 TGCCCACGACCCTCTGGGTATTAGGAC
17550096 TGCCCACGACCCTCTGGGTATTAGGAC
1 TGCCCACGACCCTCTGGGTATTAGGAC
17550123 TGCCCACGACCCTCTGGGTATTAGG
1 TGCCCACGACCCTCTGGGTATTAGG
17550148 GGCTATCAGT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.18, C:0.32, G:0.28, T:0.23
Consensus pattern (27 bp):
TGCCCACGACCCTCTGGGTATTAGGAC
Found at i:17551358 original size:91 final size:91
Alignment explanation
Indices: 17551203--17551385 Score: 357
Period size: 91 Copynumber: 2.0 Consensus size: 91
17551193 AATCCCTAAA
17551203 CTCACACACCTGTGTGGACTAAGAGACACGGTCGTGTGAGAAACGATAAAATCCCCAAGTTGGCC
1 CTCACACACCTGTGTGGACTAAGAGACACGGTCGTGTGAGAAACGATAAAATCCCCAAGTTGGCC
*
17551268 ACACAGTCGTGTGGCACCCAATTTGG
66 ACACAATCGTGTGGCACCCAATTTGG
17551294 CTCACACACCTGTGTGGACTAAGAGACACGGTCGTGTGAGAAACGATAAAATCCCCAAGTTGGCC
1 CTCACACACCTGTGTGGACTAAGAGACACGGTCGTGTGAGAAACGATAAAATCCCCAAGTTGGCC
17551359 ACACAATCGTGTGGCACCCAATTTGG
66 ACACAATCGTGTGGCACCCAATTTGG
17551385 C
1 C
17551386 CTGAAAACCC
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.29, C:0.27, G:0.25, T:0.20
Consensus pattern (91 bp):
CTCACACACCTGTGTGGACTAAGAGACACGGTCGTGTGAGAAACGATAAAATCCCCAAGTTGGCC
ACACAATCGTGTGGCACCCAATTTGG
Found at i:17553350 original size:49 final size:49
Alignment explanation
Indices: 17553266--17553367 Score: 125
Period size: 49 Copynumber: 2.1 Consensus size: 49
17553256 GTGTGTTAGA
17553266 GTAAAACCTGCCTAGGACATGGCATCGACACCGATAGATGAAAGCCAGT
1 GTAAAACCTGCCTAGGACATGGCATCGACACCGATAGATGAAAGCCAGT
* * * * * * *
17553315 GTAAGACCTGTCTGGGACATGGCATCAGTC-TCGATATATGAAAGTCAGT
1 GTAAAACCTGCCTAGGACATGGCATC-GACACCGATAGATGAAAGCCAGT
17553364 GTAA
1 GTAA
17553368 CACGGCATCG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
49 43 0.96
50 2 0.04
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (49 bp):
GTAAAACCTGCCTAGGACATGGCATCGACACCGATAGATGAAAGCCAGT
Found at i:17557414 original size:50 final size:51
Alignment explanation
Indices: 17557352--17557470 Score: 163
Period size: 50 Copynumber: 2.3 Consensus size: 51
17557342 TTAATAAAAT
* *
17557352 CATGCATCATGTAACTCTC-ATGTTAGTT-AAGTTTGCATCA-TAAATTATG
1 CATGCATTATGTAACTC-CAATGTTAGTTAAAGTTTGCATCATTAAATTAAG
17557401 ACATGCATTATGTAACTCCAATGTTAGTTAAAGTTTGCATCATTAAATTAAG
1 -CATGCATTATGTAACTCCAATGTTAGTTAAAGTTTGCATCATTAAATTAAG
*
17557453 CGATGCATTAAGTAACTC
1 C-ATGCATTATGTAACTC
17557471 ATTTGTTCAT
Statistics
Matches: 62, Mismatches: 3, Indels: 6
0.87 0.04 0.08
Matches are distributed among these distances:
49 1 0.02
50 25 0.40
51 13 0.21
52 23 0.37
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (51 bp):
CATGCATTATGTAACTCCAATGTTAGTTAAAGTTTGCATCATTAAATTAAG
Found at i:17558694 original size:10 final size:9
Alignment explanation
Indices: 17558681--17558706 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
17558671 TCAAAATATC
17558681 AAAAAAATG
1 AAAAAAATG
17558690 AAAAAAATG
1 AAAAAAATG
17558699 AAAAAAAT
1 AAAAAAAT
17558707 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.12
Consensus pattern (9 bp):
AAAAAAATG
Found at i:17559313 original size:21 final size:21
Alignment explanation
Indices: 17559242--17559335 Score: 66
Period size: 21 Copynumber: 4.5 Consensus size: 21
17559232 ACAACGAGGA
*
17559242 CGTTCACCTCCACAATGAGCC
1 CGTTCACCTCCACAATGAGAC
* * ** *
17559263 CATTTACAACCACAATTAAGA-
1 CGTTCACCTCCACAA-TGAGAC
* *
17559284 CATTTACCTCCACAATGAGAC
1 CGTTCACCTCCACAATGAGAC
*
17559305 CGTTCACCTCCAC-CTCGAGAC
1 CGTTCACCTCCACAAT-GAGAC
*
17559326 CGATCACCTC
1 CGTTCACCTC
17559336 ATGTTCCTGA
Statistics
Matches: 57, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
20 5 0.09
21 49 0.86
22 3 0.05
ACGTcount: A:0.30, C:0.38, G:0.11, T:0.21
Consensus pattern (21 bp):
CGTTCACCTCCACAATGAGAC
Found at i:17591677 original size:88 final size:88
Alignment explanation
Indices: 17591527--17591704 Score: 320
Period size: 88 Copynumber: 2.0 Consensus size: 88
17591517 ATAATAAGTT
* *
17591527 TAAAGAGAAGTGTGAGACTGAAATTCAAAGTTCCTAATATGTCAATCTTTGTAATGCCATTGTTT
1 TAAAGAGAAGTATGAGACTGAAATTCAAAGTTCCTAATATGTCAACCTTTGTAATGCCATTGTTT
17591592 AAATGTCAGTACAATTTTTTAGC
66 AAATGTCAGTACAATTTTTTAGC
*
17591615 TAAAGAGAAGTATGAGACTGAAATTCAAAGTTCCTAATATGTCAACCTTTGTAATGCTATTGTTT
1 TAAAGAGAAGTATGAGACTGAAATTCAAAGTTCCTAATATGTCAACCTTTGTAATGCCATTGTTT
*
17591680 AAATGTTAGTACAATTTTTTAGC
66 AAATGTCAGTACAATTTTTTAGC
17591703 TA
1 TA
17591705 TTTGTTTGTT
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 86 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (88 bp):
TAAAGAGAAGTATGAGACTGAAATTCAAAGTTCCTAATATGTCAACCTTTGTAATGCCATTGTTT
AAATGTCAGTACAATTTTTTAGC
Found at i:17600066 original size:51 final size:51
Alignment explanation
Indices: 17600008--17600110 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
17599998 AAAATGAATA
17600008 TAGTGGATGATATGTCAAGAGTTAAAGTAAAAGATACTATGTGTGAGGTTT
1 TAGTGGATGATATGTCAAGAGTTAAAGTAAAAGATACTATGTGTGAGGTTT
*
17600059 TAGTGGATGATATGTCAAGAGTTGAAGTAAAAGATACTATGTGTGAGGTTT
1 TAGTGGATGATATGTCAAGAGTTAAAGTAAAAGATACTATGTGTGAGGTTT
17600110 T
1 T
17600111 CCAGCTTGGT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34
Consensus pattern (51 bp):
TAGTGGATGATATGTCAAGAGTTAAAGTAAAAGATACTATGTGTGAGGTTT
Found at i:17604082 original size:46 final size:46
Alignment explanation
Indices: 17604032--17604157 Score: 198
Period size: 46 Copynumber: 2.7 Consensus size: 46
17604022 TGGTTGAGCA
*
17604032 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
17604078 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
17604124 CCCGAGCTCGTTGAGTTGAGACTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
17604158 GGGGCGGGTT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:17606065 original size:40 final size:40
Alignment explanation
Indices: 17606020--17606230 Score: 268
Period size: 40 Copynumber: 5.3 Consensus size: 40
17606010 CATTTGAATG
* *
17606020 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
17606060 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
17606100 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
17606140 TTATCCGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
17606179 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
17606219 ATATCC-GGCTAA
1 ATATCCGGGCTAA
17606231 ATTCCGAAGA
Statistics
Matches: 146, Mismatches: 20, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
39 42 0.29
40 102 0.70
41 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:17606203 original size:79 final size:80
Alignment explanation
Indices: 17606020--17606230 Score: 336
Period size: 79 Copynumber: 2.7 Consensus size: 80
17606010 CATTTGAATG
*
17606020 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
*
17606085 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGAT
* *
17606100 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGA-CCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
17606164 TTTGTGCGAGTTGAT
66 TTTGTGCGAGTTGAT
* * * *
17606179 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTTATATCC-GGCTAA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAA
17606231 ATTCCGAAGA
Statistics
Matches: 121, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
78 6 0.05
79 63 0.52
80 52 0.43
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGAT
Found at i:17607827 original size:334 final size:334
Alignment explanation
Indices: 17607218--17607885 Score: 1336
Period size: 334 Copynumber: 2.0 Consensus size: 334
17607208 AGATTCCTCT
17607218 TTGAGTCTAGTTTCTATAGAAACAAACGACATCAGTATTGAAGCCCTGTACAGGGAGATATCCAA
1 TTGAGTCTAGTTTCTATAGAAACAAACGACATCAGTATTGAAGCCCTGTACAGGGAGATATCCAA
17607283 GTCGTAATGCGCAAAGGTCAGTGTAGTTGATCCCTGTAACATGGGAGACTTTGACTAATAAACTG
66 GTCGTAATGCGCAAAGGTCAGTGTAGTTGATCCCTGTAACATGGGAGACTTTGACTAATAAACTG
17607348 TACTAATTGGACCAACCAAAAATTCTAGAAAAAAATACGTAGATGGGCATATGAGTCTAGTTTCA
131 TACTAATTGGACCAACCAAAAATTCTAGAAAAAAATACGTAGATGGGCATATGAGTCTAGTTTCA
17607413 GGGAAAATTTACGGAACTGGATTACGAGTTTCTGAACTCAAGATATGACTTTTAAAGCGACTAGT
196 GGGAAAATTTACGGAACTGGATTACGAGTTTCTGAACTCAAGATATGACTTTTAAAGCGACTAGT
17607478 ACGCAGATTGGCAGTGTCTGGGAAATTTTTTTTATAAGTGGTTTACAGTCTGTTAACACCTCGTG
261 ACGCAGATTGGCAGTGTCTGGGAAATTTTTTTTATAAGTGGTTTACAGTCTGTTAACACCTCGTG
17607543 TTCGACTCC
326 TTCGACTCC
17607552 TTGAGTCTAGTTTCTATAGAAACAAACGACATCAGTATTGAAGCCCTGTACAGGGAGATATCCAA
1 TTGAGTCTAGTTTCTATAGAAACAAACGACATCAGTATTGAAGCCCTGTACAGGGAGATATCCAA
17607617 GTCGTAATGCGCAAAGGTCAGTGTAGTTGATCCCTGTAACATGGGAGACTTTGACTAATAAACTG
66 GTCGTAATGCGCAAAGGTCAGTGTAGTTGATCCCTGTAACATGGGAGACTTTGACTAATAAACTG
17607682 TACTAATTGGACCAACCAAAAATTCTAGAAAAAAATACGTAGATGGGCATATGAGTCTAGTTTCA
131 TACTAATTGGACCAACCAAAAATTCTAGAAAAAAATACGTAGATGGGCATATGAGTCTAGTTTCA
17607747 GGGAAAATTTACGGAACTGGATTACGAGTTTCTGAACTCAAGATATGACTTTTAAAGCGACTAGT
196 GGGAAAATTTACGGAACTGGATTACGAGTTTCTGAACTCAAGATATGACTTTTAAAGCGACTAGT
17607812 ACGCAGATTGGCAGTGTCTGGGAAATTTTTTTTATAAGTGGTTTACAGTCTGTTAACACCTCGTG
261 ACGCAGATTGGCAGTGTCTGGGAAATTTTTTTTATAAGTGGTTTACAGTCTGTTAACACCTCGTG
17607877 TTCGACTCC
326 TTCGACTCC
17607886 GGTGACGGTC
Statistics
Matches: 334, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
334 334 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (334 bp):
TTGAGTCTAGTTTCTATAGAAACAAACGACATCAGTATTGAAGCCCTGTACAGGGAGATATCCAA
GTCGTAATGCGCAAAGGTCAGTGTAGTTGATCCCTGTAACATGGGAGACTTTGACTAATAAACTG
TACTAATTGGACCAACCAAAAATTCTAGAAAAAAATACGTAGATGGGCATATGAGTCTAGTTTCA
GGGAAAATTTACGGAACTGGATTACGAGTTTCTGAACTCAAGATATGACTTTTAAAGCGACTAGT
ACGCAGATTGGCAGTGTCTGGGAAATTTTTTTTATAAGTGGTTTACAGTCTGTTAACACCTCGTG
TTCGACTCC
Found at i:17608033 original size:19 final size:20
Alignment explanation
Indices: 17607996--17608033 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
17607986 ATAAGGTGGT
17607996 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
17608016 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
17608034 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:17617909 original size:49 final size:50
Alignment explanation
Indices: 17617801--17618021 Score: 195
Period size: 49 Copynumber: 4.6 Consensus size: 50
17617791 TTATTTGTGT
* *
17617801 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGT--G-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTACGATATGTGAGA
* *
17617846 TC-AGTGTAAGACCATGTCTAGGACATGGCATC-GC-ACAGATATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTAC-GATATGTGAGA
* *
17617894 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTTCGAT-T-TCGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTACGATATGT-GAGA
* * *
17617943 G-TCAGTGTCAGACCATGTCTTGGACATGGCATC-G--AC-TTGATG-GATGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCAGCTACGAT-ATGTGA-GA
*
17617990 GCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCAT
17618022 TGGTATCATA
Statistics
Matches: 145, Mismatches: 15, Indels: 30
0.76 0.08 0.16
Matches are distributed among these distances:
44 11 0.08
45 23 0.16
46 8 0.06
47 31 0.21
48 4 0.03
49 62 0.43
50 5 0.03
51 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (50 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTACGATATGTGAGA
Found at i:17617968 original size:98 final size:93
Alignment explanation
Indices: 17617801--17618021 Score: 279
Period size: 96 Copynumber: 2.3 Consensus size: 93
17617791 TTATTTGTGT
*
17617801 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGTGTCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTACGAGATGTGTCAGTGTAAGACCATGTC
17617864 TAGGACATGGCATCGCACA-GATATGTGA-GA
66 TAGGACATGGCATCG-ACATG--ATG-GATGA
* ** *
17617894 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTTCGATTTCGATAGTCAGTGTCAGACCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTACGAGAT-G-T-GTCAGTGTAAGACCAT
* *
17617959 GTCTTGGACATGGCATCGACTTGATGGATGA
63 GTCTAGGACATGGCATCGACATGATGGATGA
*
17617990 GCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCAT
17618022 TGGTATCATA
Statistics
Matches: 113, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
93 12 0.11
94 14 0.12
95 14 0.12
96 37 0.33
97 3 0.03
98 33 0.29
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (93 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTACGAGATGTGTCAGTGTAAGACCATGTC
TAGGACATGGCATCGACATGATGGATGA
Found at i:17619212 original size:21 final size:20
Alignment explanation
Indices: 17619186--17619225 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
17619176 GTTATAATGA
*
17619186 CCACACGGGCGTGTTGCCCTT
1 CCACACAGGCGTG-TGCCCTT
17619207 CCACACAGGCGTGTGCCCT
1 CCACACAGGCGTGTGCCCT
17619226 ATTTCAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (20 bp):
CCACACAGGCGTGTGCCCTT
Found at i:17622040 original size:53 final size:53
Alignment explanation
Indices: 17621960--17622065 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
17621950 TGAGAGTAAG
*
17621960 CATGCGGAGCATTTGAGAATGGTTTTACAAACCTTGAGAGATAAGTAGTTATA
1 CATGCAGAGCATTTGAGAATGGTTTTACAAACCTTGAGAGATAAGTAGTTATA
17622013 CATGCAGAGCATTTGAGAATGGTTTTACAAACCTTGAGAGATAAGTAGTTATA
1 CATGCAGAGCATTTGAGAATGGTTTTACAAACCTTGAGAGATAAGTAGTTATA
17622066 TGTCAAGTTC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (53 bp):
CATGCAGAGCATTTGAGAATGGTTTTACAAACCTTGAGAGATAAGTAGTTATA
Found at i:17625628 original size:46 final size:46
Alignment explanation
Indices: 17625484--17625692 Score: 212
Period size: 46 Copynumber: 4.5 Consensus size: 46
17625474 TTTGTGTGCT
* * * *
17625484 AGTGTAAGACATGTCTGGGACATGCATCTGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCAGCCTCGA-GATGAGAGCC
* * * *
17625530 AGTGTAAGACCATGTCTAGGACATGGCATCAGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCAGCCTCGAGATGAGAGCC
*
17625578 AGTGTAAGACATGTCTAGGACAAGCATCAGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTAGGACATGCATCAGCCTCGAGATG-AGAGCC
* * * *
17625624 AGTGTAAGACATGTCTGGGACATGCATC-GGCTACGAGAT-A-TGTC
1 AGTGTAAGACATGTCTAGGACATGCATCAGCCT-CGAGATGAGAGCC
17625668 AGTGTAAGACCATGTCTAGGACATG
1 AGTGTAAGA-CATGTCTAGGACATG
17625693 GCATTGGCAC
Statistics
Matches: 138, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
44 12 0.09
45 17 0.12
46 58 0.42
47 27 0.20
48 23 0.17
49 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGCATCAGCCTCGAGATGAGAGCC
Found at i:17625777 original size:99 final size:97
Alignment explanation
Indices: 17625620--17625846 Score: 285
Period size: 96 Copynumber: 2.4 Consensus size: 97
17625610 TCGAGATGTA
17625620 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTACGA----GATATGTCAGTGTAAGAC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGATTTTGATATGTCAGTGTAAGAC
17625678 CATGTCTAGGACATGGCATTGGCACAAAT-ATGTGA-G
65 CATGTCTAGGACATGGCATT-G-AC--ATGATG-GATG
* * * *
17625714 AGCTAGTGTATGACCATGTTTGGGACATGGCGTCGGCCTCGATTTTGATA-GTCAGTGTAAGACC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTTGATATGTCAGTGTAAGACC
*
17625778 ATGTCTAGGACATGGCATTGACTTGATGGATG
66 ATGTCTAGGACATGGCATTGACATGATGGATG
17625810 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
17625847 ATCATACCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
94 11 0.10
95 16 0.14
96 46 0.40
97 4 0.03
98 1 0.01
99 33 0.29
100 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (97 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTTGATATGTCAGTGTAAGACC
ATGTCTAGGACATGGCATTGACATGATGGATG
Found at i:17639895 original size:40 final size:40
Alignment explanation
Indices: 17639841--17639958 Score: 218
Period size: 40 Copynumber: 3.0 Consensus size: 40
17639831 CGGATGTAAC
* *
17639841 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
17639881 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
17639921 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
17639959 TTTTTTTTCC
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:17648841 original size:84 final size:87
Alignment explanation
Indices: 17648751--17648922 Score: 314
Period size: 84 Copynumber: 2.0 Consensus size: 87
17648741 TTATATGGCT
17648751 TTCTAATTAAATTTCAAAGGTTATTTTTGTAAATGGTGTATTAATATATAATAAAATAAAGT-AA
1 TTCTAATTAAATTTCAAAGGTTATTTTTGTAAATGGTGTATTAATATATAATAAAATAAAGTAAA
*
17648815 A-AAATTGG-CATTATCATTCA
66 ACAAAATGGCCATTATCATTCA
17648835 TTCTAATTAAATTTCAAAGGTTATTTTTGTAAATGGTGTATTAATATATAATAAAATAAAGTAAA
1 TTCTAATTAAATTTCAAAGGTTATTTTTGTAAATGGTGTATTAATATATAATAAAATAAAGTAAA
17648900 ACAAAATGGCCATTATCATTCA
66 ACAAAATGGCCATTATCATTCA
17648922 T
1 T
17648923 CTTTTTGTGG
Statistics
Matches: 84, Mismatches: 1, Indels: 3
0.95 0.01 0.03
Matches are distributed among these distances:
84 62 0.74
85 3 0.04
86 6 0.07
87 13 0.15
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (87 bp):
TTCTAATTAAATTTCAAAGGTTATTTTTGTAAATGGTGTATTAATATATAATAAAATAAAGTAAA
ACAAAATGGCCATTATCATTCA
Found at i:17650308 original size:43 final size:43
Alignment explanation
Indices: 17650247--17650331 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
17650237 TGAATTTGGA
*
17650247 AAGGTTCAGGTACGTATGATACCTATGTGGTAGATGGTATTAG
1 AAGGTTCAGGTACGTATGATACCTATGGGGTAGATGGTATTAG
*
17650290 AAGGTTTAGGTACGTATGATACCTATGGGGTAGATGGTATTA
1 AAGGTTCAGGTACGTATGATACCTATGGGGTAGATGGTATTA
17650332 TTCTTATAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.28, C:0.08, G:0.31, T:0.33
Consensus pattern (43 bp):
AAGGTTCAGGTACGTATGATACCTATGGGGTAGATGGTATTAG
Found at i:17651486 original size:30 final size:31
Alignment explanation
Indices: 17651438--17651495 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
17651428 TTTCTGAGCC
*
17651438 TAGGGGAAAAATCGTAATTCTG-CAAAGGTT
1 TAGGGGAAAAATCATAATTCTGCCAAAGGTT
*
17651468 TAGGGGTAAAAAT-ATAATTTTGCCAAAG
1 TAGGGG-AAAAATCATAATTCTGCCAAAG
17651496 TTTGAGTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.28
Consensus pattern (31 bp):
TAGGGGAAAAATCATAATTCTGCCAAAGGTT
Found at i:17654493 original size:47 final size:47
Alignment explanation
Indices: 17654433--17654554 Score: 190
Period size: 47 Copynumber: 2.6 Consensus size: 47
17654423 GCATTGGCAC
*
17654433 TAAGACAAGGATACCTTGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
17654480 TAAGACAATGATACCATGTAAGACCATGTTTGGAACGTGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* * *
17654527 TAAGATAAGGATATCATGTAAAACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
17654555 CCAAGGCATG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:17654659 original size:55 final size:54
Alignment explanation
Indices: 17654533--17654729 Score: 234
Period size: 55 Copynumber: 3.6 Consensus size: 54
17654523 TTGGTAAGAT
* * * * *
17654533 AAGGATATCATGTAAAACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * * *
17654587 AAGGAAATCATGTAAGACCATGTCAATACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * * *
17654642 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
17654695 AAGGATACCACGTAAGACCATGTCAAGAAATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
17654730 ATGGTAAGTT
Statistics
Matches: 121, Mismatches: 21, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
53 36 0.30
54 40 0.33
55 45 0.37
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:17654741 original size:53 final size:54
Alignment explanation
Indices: 17654533--17654740 Score: 229
Period size: 53 Copynumber: 3.9 Consensus size: 54
17654523 TTGGTAAGAT
* * * *
17654533 AAGGATATCATGTAAAACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * * *
17654587 AAGGAAATCATGTAAGACCATGTCAATACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC
* * * * *
17654642 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * * *
17654695 AAGGATACCACGTAAGACCATGTCAAGAAATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
17654741 AAAAAGGAAA
Statistics
Matches: 130, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
53 45 0.35
54 40 0.31
55 45 0.35
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:17661747 original size:45 final size:45
Alignment explanation
Indices: 17661697--17661855 Score: 176
Period size: 45 Copynumber: 3.5 Consensus size: 45
17661687 ATACAAGAAA
* * *
17661697 CGAGTAAGACCATGACTGAAAGATGTTATGACATCACGATTCTAT
1 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACAATTCTAT
* * *
17661742 TGAGTAAGACCATGATTGAAAGACGTTATGGCAACACAATTCTAT
1 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACAATTCTAT
* * * * *
17661787 CGAGTAAAACCAATG-CTGAAAGACGCTATGGCATCACAAATCAAA
1 CGAGTAAGACC-ATGACTGAAAGACGTTATGGCATCACAATTCTAT
* **
17661832 CGAATAAGACCATGGTTGAAAGAC
1 CGAGTAAGACCATGACTGAAAGAC
17661856 ACTGTGGCAT
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
44 3 0.03
45 89 0.94
46 3 0.03
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (45 bp):
CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACAATTCTAT
Found at i:17690568 original size:43 final size:42
Alignment explanation
Indices: 17690403--17690569 Score: 149
Period size: 43 Copynumber: 3.9 Consensus size: 42
17690393 CATAAGCTCG
* * * *
17690403 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTAT-TATA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTA-A
* * * * * ** * *
17690444 TATCGATGCCACTGTCCCGGATAGGGTCTTACACAAAATCGAT
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTAA
*
17690487 TAACAATGCCAATGTCCCAGACATAGTCTTACACGTAATCTCAA
1 T-ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCT-AA
*
17690531 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATC
17690570 ACATCTAGAT
Statistics
Matches: 98, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
41 2 0.02
42 6 0.06
43 86 0.88
44 4 0.04
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.29
Consensus pattern (42 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTAA
Found at i:17693349 original size:24 final size:24
Alignment explanation
Indices: 17693322--17693389 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
17693312 GCAAAGATTT
* *
17693322 TTATACTAATTAATG-TCAAATATA
1 TTATACTAATAAATGCT-AAACATA
*
17693346 TTATGCTAATAAATGCTAAACATA
1 TTATACTAATAAATGCTAAACATA
*
17693370 TTATACTAATAAATACTAAA
1 TTATACTAATAAATGCTAAA
17693390 TCTTTTAGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
24 37 0.97
25 1 0.03
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
TTATACTAATAAATGCTAAACATA
Found at i:17696177 original size:41 final size:41
Alignment explanation
Indices: 17696120--17696201 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
17696110 TTTGCCACTT
17696120 CACTTAGTTCAGTTCTCAAACATGGTACATTATAATCAACG
1 CACTTAGTTCAGTTCTCAAACATGGTACATTATAATCAACG
17696161 CACTTAGTTCAGTTCTCAAACATGGTACATTATAATCAACG
1 CACTTAGTTCAGTTCTCAAACATGGTACATTATAATCAACG
17696202 GCATTCTTGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (41 bp):
CACTTAGTTCAGTTCTCAAACATGGTACATTATAATCAACG
Found at i:17699496 original size:10 final size:10
Alignment explanation
Indices: 17699481--17699505 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
17699471 TTGGATTTAG
17699481 TCACAAGCCA
1 TCACAAGCCA
17699491 TCACAAGCCA
1 TCACAAGCCA
17699501 TCACA
1 TCACA
17699506 TGACATAGGA
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:0.40, C:0.40, G:0.08, T:0.12
Consensus pattern (10 bp):
TCACAAGCCA
Found at i:17708714 original size:21 final size:20
Alignment explanation
Indices: 17708672--17708715 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
17708662 AAAAATTACA
*
17708672 TTTACGGACCTTAAAACGAG
1 TTTACGGACCTTAAAAAGAG
* *
17708692 TTTACGGGGCCTTAAAAATAG
1 TTTAC-GGACCTTAAAAAGAG
17708713 TTT
1 TTT
17708716 GGGATGAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (20 bp):
TTTACGGACCTTAAAAAGAG
Found at i:17712529 original size:14 final size:14
Alignment explanation
Indices: 17712510--17712545 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
17712500 TTGTTTGATT
17712510 GAAAATGGTTTCTG
1 GAAAATGGTTTCTG
*
17712524 GAAAATGATTTCTG
1 GAAAATGGTTTCTG
17712538 GAAAATGG
1 GAAAATGG
17712546 CTTACTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.31
Consensus pattern (14 bp):
GAAAATGGTTTCTG
Found at i:17719753 original size:22 final size:22
Alignment explanation
Indices: 17719726--17719771 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
17719716 TGTAAACAAT
*
17719726 ATAAAAATTATAAAAAATAGAA
1 ATAAAAATTATAAAAAATAAAA
*
17719748 ATAAAAATTTTAAAAAATAAAA
1 ATAAAAATTATAAAAAATAAAA
17719770 AT
1 AT
17719772 TACTTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (22 bp):
ATAAAAATTATAAAAAATAAAA
Found at i:17720295 original size:9 final size:9
Alignment explanation
Indices: 17720274--17720316 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
17720264 TTATTTCTAT
17720274 TTTTTAAAA
1 TTTTTAAAA
17720283 -TTTTAAAA
1 TTTTTAAAA
17720291 TTTTTAAAA
1 TTTTTAAAA
17720300 TTTTTAATAA
1 TTTTTAA-AA
*
17720310 TTATTAA
1 TTTTTAA
17720317 TTAGTTCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
8 8 0.26
9 15 0.48
10 8 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:17722086 original size:30 final size:31
Alignment explanation
Indices: 17722047--17722106 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
17722037 GGAGGTGAGA
*
17722047 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
17722078 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
17722107 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:17722272 original size:27 final size:27
Alignment explanation
Indices: 17722222--17722273 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
17722212 GGATGGAAGG
** * *
17722222 GGAGTAAAAGTTTTGGGGGGAAAGTGA
1 GGAGTAAAAGTTTTAAGAGAAAAGTGA
17722249 GGAGTAAAAGTTTTAAGAGAAAAGT
1 GGAGTAAAAGTTTTAAGAGAAAAGT
17722274 AAAAATGTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.37, T:0.23
Consensus pattern (27 bp):
GGAGTAAAAGTTTTAAGAGAAAAGTGA
Found at i:17723456 original size:16 final size:16
Alignment explanation
Indices: 17723435--17723518 Score: 150
Period size: 16 Copynumber: 5.2 Consensus size: 16
17723425 TTTGGTTCGC
17723435 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
17723451 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
17723467 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
*
17723483 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
17723499 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
17723515 TGTA
1 TGTA
17723519 ATAGCAAATC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 66 1.00
ACGTcount: A:0.27, C:0.00, G:0.37, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:17723772 original size:16 final size:16
Alignment explanation
Indices: 17723735--17723776 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
17723725 TTAATCATAT
*
17723735 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
17723751 TT-AAATATATTATAA
1 TTAAAATATATTATAA
17723766 TTAAAATATAT
1 TTAAAATATAT
17723777 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:17723783 original size:14 final size:15
Alignment explanation
Indices: 17723744--17723785 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
17723734 TTTAAACATA
*
17723744 ATTATTATTAAATAT
1 ATTATAATTAAATAT
17723759 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
17723773 A-TATAATTTAATA
1 ATTATAATTAAATA
17723786 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:17723881 original size:120 final size:120
Alignment explanation
Indices: 17723738--17724219 Score: 752
Period size: 120 Copynumber: 4.0 Consensus size: 120
17723728 ATCATATTTA
* *
17723738 AACATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
1 AACATAATTATTATTAAATATAATT-TAATAAAAATATATAATTTAATAAAATTCTTAATAATAA
* * *
17723802 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
65 ATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
* * * *
17723858 AACATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAATATTATTAATAATCA
1 AACATAATTATTATTAAATATAATT-TAATAAAAATATATAATTTAATAAAATTCTTAATAATAA
* * * *
17723922 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTT
65 ATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
*
17723978 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAA
1 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAA
* *
17724043 TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAATTT
66 TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
* *
17724098 AAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAA
1 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAA
* *
17724163 TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAGATT
66 TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
17724218 AA
1 AA
17724220 TAATGTAGAT
Statistics
Matches: 346, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
120 343 0.99
121 3 0.01
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAA
TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
Found at i:17723882 original size:15 final size:15
Alignment explanation
Indices: 17723854--17723912 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
17723844 ATAAAATATA
17723854 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
17723869 TATTAAATATATTAT
1 AATTAAATATATTAT
17723884 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
17723897 AATTTAATAATATTAT
1 AATTAAAT-ATATTAT
17723913 TAATAATCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 9 0.24
14 6 0.16
15 19 0.51
16 3 0.08
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:17723913 original size:44 final size:43
Alignment explanation
Indices: 17723831--17723915 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
17723821 CTCAAATCAT
* *
17723831 AATATATGATACTATAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATATAAAATATAAATTAAAATAATTATTATTA
* *
17723874 AATATATTATAAT-TAAAATATATAATT-TAATAA-TATTATTA
1 AATATATGATAATATAAAATATA-AATTAAAATAATTATTATTA
17723915 A
1 A
17723916 TAATCAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 9 0.24
42 13 0.35
43 15 0.41
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (43 bp):
AATATATGATAATATAAAATATAAATTAAAATAATTATTATTA
Found at i:17724059 original size:38 final size:37
Alignment explanation
Indices: 17724012--17724195 Score: 140
Period size: 37 Copynumber: 4.7 Consensus size: 37
17724002 TTAATAAAAA
*
17724012 TATATAATTTAATAAAATTCTTAATATTAAATATTCT
1 TATATAATTTAATAAAATTCTTAATATTAAATATTAT
*
17724049 TATATGAATTTAATAAAA-TCATAATA-TATAATACTATAT
1 TATAT-AATTTAATAAAATTCTTAATATTA-AATA-T-TAT
* * * * ** *
17724088 AATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAA
1 TATATAATTT--AATAA-AATTCTT--A-AT-ATTAAATATTAT
*
17724132 TATATAATTTAATAAAATTCTTAATATTAAATATTCT
1 TATATAATTTAATAAAATTCTTAATATTAAATATTAT
*
17724169 TATATGAATTTAATAAAA-TCATAATAT
1 TATAT-AATTTAATAAAATTCTTAATAT
17724196 ATAATACTAT
Statistics
Matches: 114, Mismatches: 19, Indels: 28
0.71 0.12 0.17
Matches are distributed among these distances:
36 2 0.02
37 36 0.32
38 32 0.28
39 7 0.06
40 5 0.04
41 6 0.05
42 7 0.06
44 11 0.10
45 2 0.02
46 5 0.04
47 1 0.01
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (37 bp):
TATATAATTTAATAAAATTCTTAATATTAAATATTAT
Found at i:17724161 original size:18 final size:18
Alignment explanation
Indices: 17723995--17724148 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
17723985 TTATTATTAA
17723995 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
17724013 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
* ****
17724031 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAAAT
17724050 ATATGAATTTAAT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * * *
17724068 -CATAATAT-ATAATACT
1 ATATAATTTAATAAAAAT
* *
17724084 ATATAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
17724103 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
17724115 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
17724133 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
17724149 TTCTTAATAT
Statistics
Matches: 99, Mismatches: 23, Indels: 28
0.66 0.15 0.19
Matches are distributed among these distances:
12 1 0.01
13 5 0.05
14 2 0.02
15 5 0.05
16 8 0.08
17 16 0.16
18 41 0.41
19 15 0.15
20 3 0.03
21 3 0.03
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:17731086 original size:15 final size:15
Alignment explanation
Indices: 17731060--17731115 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
17731050 CAAGGAAACC
17731060 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
17731075 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
17731090 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
17731105 GAATAAAGAAA
1 GAATAAAGAAA
17731116 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:17734181 original size:46 final size:46
Alignment explanation
Indices: 17734061--17734185 Score: 198
Period size: 46 Copynumber: 2.7 Consensus size: 46
17734051 TGTAACCCGC
* * *
17734061 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAGCATTCGCAT
17734107 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG-GACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAG-CATTCGCAT
*
17734153 CCATAAGTGAACTCAGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
17734186 TTGATGCTCA
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
45 1 0.01
46 73 0.99
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAGCATTCGCAT
Found at i:17739172 original size:30 final size:30
Alignment explanation
Indices: 17739138--17739198 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17739128 TCCTTAACTC
17739138 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
17739168 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
17739198 A
1 A
17739199 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:17752467 original size:30 final size:30
Alignment explanation
Indices: 17752433--17752493 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
17752423 CACTTAATAC
*
17752433 AAACTTTGGAAAAATTACATTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
17752463 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
17752493 A
1 A
17752494 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:17755660 original size:39 final size:39
Alignment explanation
Indices: 17755558--17755742 Score: 182
Period size: 40 Copynumber: 4.7 Consensus size: 39
17755548 TCAAATGATG
*
17755558 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGT-ACTAAT
*
17755597 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAG-TACTAAT
* * *
17755638 TCCGGGCTAAG-CTCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TACTAAT
* *
17755677 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTACTAAT
* *
17755716 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
17755743 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
39 34 0.28
40 76 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTACTAAT
Found at i:17755694 original size:79 final size:80
Alignment explanation
Indices: 17755558--17755742 Score: 200
Period size: 79 Copynumber: 2.3 Consensus size: 80
17755548 TCAAATGATG
*
17755558 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
17755623 GTGCAAGATACTAAT
66 GTGCAAGATACTAAT
* * * * **
17755638 TCCGGGCTAAG-CTCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
17755700 TTGTGCGAA-TTACT-AT
64 TTGTGC-AAGATACTAAT
* *
17755716 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGC-TTTG
17755743 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
78 3 0.03
79 53 0.60
80 33 0.37
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCAAGATACTAAT
Found at i:17755764 original size:79 final size:79
Alignment explanation
Indices: 17755611--17755775 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
17755601 GGACTAAGAT
* * **
17755611 CCGAAGGCATTTGTGCAAGATACTAATTCCGGGCTAAGCTCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
17755676 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
17755690 CCGAAGGCATTTGTGCGAA-TTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAG
1 CCGAAGGCATTTGTGC-AAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-
* *
17755752 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
17755769 CCGAAGG
1 CCGAAGG
17755776 TACGTGATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
78 2 0.03
79 45 0.62
80 26 0.36
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:17758778 original size:25 final size:25
Alignment explanation
Indices: 17758750--17758873 Score: 75
Period size: 25 Copynumber: 5.2 Consensus size: 25
17758740 AATTGTGATT
17758750 GAATGTGCATATATGTGATAAGGCC
1 GAATGTGCATATATGTGATAAGGCC
* * *
17758775 GAATG-GC-CA-ATGTGATGAATG-T
1 GAATGTGCATATATGTGAT-AAGGCC
**
17758797 GAACATGCATATATGTGATAAGGCC
1 GAATGTGCATATATGTGATAAGGCC
* * *
17758822 GAATG-GC-CA-ATGTGATGAATG-T
1 GAATGTGCATATATGTGAT-AAGGCC
***
17758844 GAGCATGCATATATGTGATAAGGCC
1 GAATGTGCATATATGTGATAAGGCC
17758869 GAATG
1 GAATG
17758874 GCCAATGTGA
Statistics
Matches: 67, Mismatches: 22, Indels: 20
0.61 0.20 0.18
Matches are distributed among these distances:
22 19 0.28
23 12 0.18
24 12 0.18
25 24 0.36
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (25 bp):
GAATGTGCATATATGTGATAAGGCC
Found at i:17758977 original size:47 final size:47
Alignment explanation
Indices: 17758755--17758968 Score: 374
Period size: 47 Copynumber: 4.6 Consensus size: 47
17758745 TGATTGAATG
17758755 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
17758802 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
1 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
17758849 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
1 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
17758896 TGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
1 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
17758943 TGCATATATGTGGTAAAGCCGAATGG
1 TGCATATATGTGATAAGGCCGAATGG
17758969 ATAGTGTGAA
Statistics
Matches: 160, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 160 1.00
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.26
Consensus pattern (47 bp):
TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
Found at i:17759187 original size:37 final size:37
Alignment explanation
Indices: 17759134--17759244 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
17759124 AAATATATTT
* * *
17759134 CGGGTAAGACCTGATGACTACGTGTGAAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
17759171 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
* *
17759208 CGGGTAAGACCCGATAACTTCGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
17759245 TGAGCTAAAG
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
Found at i:17765143 original size:21 final size:21
Alignment explanation
Indices: 17765119--17765160 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17765109 TCATCAGATC
*
17765119 TACACCTTGAGGCATCGAGGG
1 TACACCTTGAGGAATCGAGGG
**
17765140 TACAGGTTGAGGAATCGAGGG
1 TACACCTTGAGGAATCGAGGG
17765161 AGGTGGGGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.17, G:0.38, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGAGGG
Found at i:17776456 original size:68 final size:66
Alignment explanation
Indices: 17776384--17776523 Score: 199
Period size: 57 Copynumber: 2.2 Consensus size: 66
17776374 CCGTATCACG
17776384 CATGTGACCTAGCTACTACATAGTATCTCGTAGCTTTCTTGTACACATGATGTGCACTCAGCACC
1 CATGTGACCTAGCTA--ACATAGTATCTCGTAGCTTTCTTGTACACATGATGTGCACTCAGCACC
17776449 ATA
64 ATA
17776452 CA--TG---T-G---ACATAGTATCTCGTAGCTTTCTTGTACACATGATGTGCACTCAGCACCAT
1 CATGTGACCTAGCTAACATAGTATCTCGTAGCTTTCTTGTACACATGATGTGCACTCAGCACCAT
17776508 A
66 A
17776509 CATGTGACCTAGCTA
1 CATGTGACCTAGCTA
17776524 TGCTCCATCT
Statistics
Matches: 63, Mismatches: 0, Indels: 20
0.76 0.00 0.24
Matches are distributed among these distances:
57 53 0.84
59 2 0.03
62 2 0.03
63 2 0.03
66 2 0.03
68 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (66 bp):
CATGTGACCTAGCTAACATAGTATCTCGTAGCTTTCTTGTACACATGATGTGCACTCAGCACCAT
A
Found at i:17776489 original size:57 final size:57
Alignment explanation
Indices: 17776401--17776516 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
17776391 CCTAGCTACT
17776401 ACATAGTATCTCGTAGCTTTCTTGTACACATGATGTGCACTCAGCACCATACATGTG
1 ACATAGTATCTCGTAGCTTTCTTGTACACATGATGTGCACTCAGCACCATACATGTG
17776458 ACATAGTATCTCGTAGCTTTCTTGTACACATGATGTGCACTCAGCACCATACATGTG
1 ACATAGTATCTCGTAGCTTTCTTGTACACATGATGTGCACTCAGCACCATACATGTG
17776515 AC
1 AC
17776517 CTAGCTATGC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (57 bp):
ACATAGTATCTCGTAGCTTTCTTGTACACATGATGTGCACTCAGCACCATACATGTG
Found at i:17778619 original size:49 final size:49
Alignment explanation
Indices: 17778542--17778786 Score: 310
Period size: 49 Copynumber: 4.9 Consensus size: 49
17778532 TAGCCGAAGC
* * *
17778542 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
17778591 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* ** * *
17778641 CATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * *
17778692 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
17778741 TATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
17778787 TCACAATAGC
Statistics
Matches: 166, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 82 0.49
50 47 0.28
51 37 0.22
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:17778728 original size:101 final size:98
Alignment explanation
Indices: 17778555--17778786 Score: 320
Period size: 100 Copynumber: 2.3 Consensus size: 98
17778545 CTGGTACGCA
* * * *
17778555 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
*
17778620 GTACTACACACGTGACCTAACCATCTAATACACG
66 GTACTACACACGCGACC-AACCATCTAATACACG
* *
17778654 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACT
* ** **
17778719 TAGTACTACACATGCGACCAATTATCTGGTACACG
64 TAGTACTACACACGCGACCAACCATCTAATACACG
*
17778754 TAGTAGCCTACACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
17778787 TCACAATAGC
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
99 30 0.26
100 45 0.38
101 42 0.36
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATCTAATACACG
Found at i:17780632 original size:30 final size:30
Alignment explanation
Indices: 17780598--17780658 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
17780588 CACTTAATAC
*
17780598 AAACTT-TGGAAAAATTACATTTTTGCCCCT
1 AAACTTGT-GAAAAATTACACTTTTGCCCCT
* *
17780628 AAACTTGTGCATAATTACACTTTTGCCCCT
1 AAACTTGTGAAAAATTACACTTTTGCCCCT
17780658 A
1 A
17780659 GGCTCGAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (30 bp):
AAACTTGTGAAAAATTACACTTTTGCCCCT
Found at i:17789426 original size:22 final size:22
Alignment explanation
Indices: 17789381--17789426 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
17789371 ATAATTCATA
**
17789381 ATTATAATAAAGCATTTATCAC
1 ATTATAATAAAGCATTTAGAAC
*
17789403 ATTATATTAAAGCATTTAGAAC
1 ATTATAATAAAGCATTTAGAAC
17789425 AT
1 AT
17789427 ACTACCATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (22 bp):
ATTATAATAAAGCATTTAGAAC
Found at i:17791107 original size:30 final size:30
Alignment explanation
Indices: 17791050--17791108 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
17791040 CATAAATCAT
* *
17791050 ACTTTTACAAATTTATATTTTGACCCCTAA
1 ACTTTCACAAATTTATATTTAGACCCCTAA
*
17791080 ACTTTCACATATTTATAATTTAG-CCCCTA
1 ACTTTCACAAATTTAT-ATTTAGACCCCTA
17791109 GGCTCGTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.42
Consensus pattern (30 bp):
ACTTTCACAAATTTATATTTAGACCCCTAA
Found at i:17797873 original size:19 final size:18
Alignment explanation
Indices: 17797836--17797870 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
17797826 AATCTTTTGT
17797836 ATAATAAATTAACACTTA
1 ATAATAAATTAACACTTA
17797854 ATAATTAAA-TAACACTT
1 ATAA-TAAATTAACACTT
17797871 TAAAATCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATAAATTAACACTTA
Found at i:17810944 original size:14 final size:14
Alignment explanation
Indices: 17810927--17810955 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
17810917 TTAATTTCAA
17810927 TTTATTTAATAATT
1 TTTATTTAATAATT
17810941 TTTATTTAATAATT
1 TTTATTTAATAATT
17810955 T
1 T
17810956 AATCCAAGGA
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTATTTAATAATT
Found at i:17812382 original size:27 final size:27
Alignment explanation
Indices: 17812340--17812393 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
17812330 AATGGAAGAG
* *
17812340 AAAGGAAGAGGAAGAAGATAGGAGAAA
1 AAAGGAAGAGGAAGAAGAAAAGAGAAA
17812367 AAAGTGAAGAGG-AGAAGAAAAGAGAAA
1 AAAG-GAAGAGGAAGAAGAAAAGAGAAA
17812394 GAGAAGGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.61, C:0.00, G:0.35, T:0.04
Consensus pattern (27 bp):
AAAGGAAGAGGAAGAAGAAAAGAGAAA
Found at i:17812396 original size:19 final size:17
Alignment explanation
Indices: 17812359--17812392 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
17812349 GGAAGAAGAT
*
17812359 AGGAGAAAAAAGTGAAG
1 AGGAGAAAAAAGAGAAG
17812376 AGGAGAAGAAAAGAGAA
1 AGGAGAA-AAAAGAGAA
17812393 AGAGAAGGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.62, C:0.00, G:0.35, T:0.03
Consensus pattern (17 bp):
AGGAGAAAAAAGAGAAG
Found at i:17812675 original size:29 final size:29
Alignment explanation
Indices: 17812633--17812692 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
17812623 TTTTCAATTT
17812633 TATCAAGTTAATCCTAGAAAAATTACACA
1 TATCAAGTTAATCCTAGAAAAATTACACA
17812662 TATCAAGTTAATCCTAGAAAAATTACACA
1 TATCAAGTTAATCCTAGAAAAATTACACA
17812691 TA
1 TA
17812693 CTTTGGGACG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.48, C:0.17, G:0.07, T:0.28
Consensus pattern (29 bp):
TATCAAGTTAATCCTAGAAAAATTACACA
Found at i:17821959 original size:52 final size:52
Alignment explanation
Indices: 17821871--17821978 Score: 139
Period size: 52 Copynumber: 2.1 Consensus size: 52
17821861 ATAGAGAAAC
** * *
17821871 TGTCTTCATGCATTTGAAAATTATCCATTCCTATGTATTTG-AATGAAAAAAA
1 TGTCTTCATGCATTTGAAAACCATACATGCCTATGTATTTGAAATG-AAAAAA
*
17821923 TGTCTTCATGCATTTGAAAACCGTACATG-CTCATGTATTTGAAATGAAAAAA
1 TGTCTTCATGCATTTGAAAACCATACATGCCT-ATGTATTTGAAATGAAAAAA
17821975 TGTC
1 TGTC
17821979 CCTATACATT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
51 2 0.04
52 43 0.88
53 4 0.08
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (52 bp):
TGTCTTCATGCATTTGAAAACCATACATGCCTATGTATTTGAAATGAAAAAA
Found at i:17826410 original size:41 final size:40
Alignment explanation
Indices: 17826359--17826463 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 40
17826349 CGCTGACTCA
*
17826359 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTC-GATTATGACACTGGCCC
* * * * * * * *
17826400 GAAGGCCCTTCGAAACTAGGTTCGGTTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGATTATGACACTGGCCC
17826440 AAAAGCCCTTCGAGACCAAGCTCG
1 AAAAGCCCTTCGAGACCAAGCTCG
17826464 GATTTAAACC
Statistics
Matches: 49, Mismatches: 15, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
40 32 0.65
41 17 0.35
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.20
Consensus pattern (40 bp):
AAAAGCCCTTCGAGACCAAGCTCGATTATGACACTGGCCC
Found at i:17848120 original size:49 final size:49
Alignment explanation
Indices: 17848069--17848363 Score: 328
Period size: 49 Copynumber: 5.9 Consensus size: 49
17848059 CTAGGTCGCA
* * *
17848069 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTTGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TTTGGTCA-G
* * * * *
17848120 TGTGTAGTACTAAGTGCAGGCTATTACGTGTATCAGATAGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTTGGTCA-G
* *
17848170 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TTGGTC-G
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTTGGTCAG
* * *
17848217 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTTGATCATG
1 --TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TTTGGTCA-G
* *
17848270 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TTGGTC-G
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTTGGTCAG
* *
17848317 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTTTGG
1 --TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTTGG
17848364 CTACGTATGT
Statistics
Matches: 209, Mismatches: 26, Indels: 19
0.82 0.10 0.07
Matches are distributed among these distances:
47 2 0.01
49 83 0.40
50 47 0.22
51 76 0.36
53 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTTGGTCAG
Found at i:17848387 original size:100 final size:99
Alignment explanation
Indices: 17848069--17848363 Score: 419
Period size: 100 Copynumber: 2.9 Consensus size: 99
17848059 CTAGGTCGCA
* * * * ***
17848069 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTTGATCATGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA--TTGGTCGCATGTGTAGTACTAAG
* * * * *
17848134 TGCAGGCTATTACGTGTATCAGATAGTTAGGTCACG
64 TGCAGGCTACTATGCGTACCAGATAGTTTGGTCACG
17848170 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGTG
* * * *
17848235 CAGGCTACTATGCGTACCCGATAACTTTGATCATG
66 CAGGCTACTATGCGTACCAGAT-AGTTTGGTCACG
17848270 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGTG
17848335 CAGGCTACTATGCGTACCAGATAGTTTGG
66 CAGGCTACTATGCGTACCAGATAGTTTGG
17848364 CTACGTATGT
Statistics
Matches: 174, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
99 43 0.25
100 94 0.54
101 37 0.21
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (99 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGTG
CAGGCTACTATGCGTACCAGATAGTTTGGTCACG
Found at i:17852811 original size:101 final size:99
Alignment explanation
Indices: 17852687--17852880 Score: 255
Period size: 99 Copynumber: 1.9 Consensus size: 99
17852677 AGCTAGGTTG
* * * **
17852687 CGTGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGATAACTTCGATCATGTGTGTAGTACTA
1 CGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TT-GATCACATGTGTAGTACTA
* *
17852752 AGT-ACAGGCTACTACGTGTATCAGATAGTTAGGTCA
64 AGTGA-AGGCTACTACGCGTACCAGATAGTTAGGTCA
* * *
17852788 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAG
1 CGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGATCACATGTGTAGTACTAAG
*
17852853 TGAAGGCTACTATGCGTACCAGATAGTT
66 TGAAGGCTACTACGCGTACCAGATAGTT
17852881 TGGCTATATA
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
99 40 0.49
100 3 0.04
101 38 0.47
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (99 bp):
CGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGATCACATGTGTAGTACTAAG
TGAAGGCTACTACGCGTACCAGATAGTTAGGTCA
Found at i:17852861 original size:49 final size:50
Alignment explanation
Indices: 17852687--17852877 Score: 224
Period size: 50 Copynumber: 3.8 Consensus size: 50
17852677 AGCTAGGTTG
* * * * *
17852687 CGTGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGATAACTTCGATCA
1 CGTGTGTAGTACTAAGTGAAGGCTACTACGCGTACCAGATAA-TTAGGTCA
* * * *
17852738 TGTGTGTAGTACTAAGT-ACAGGCTACTACGTGTATCAGATAGTTAGGTCA
1 CGTGTGTAGTACTAAGTGA-AGGCTACTACGCGTACCAGATAATTAGGTCA
* * *
17852788 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCG
1 CGTGTGTAGTACTAAGTGAAGGCTACTACGCGTACCAGATAATTAGGTCA
* *
17852837 CATGTGTAGTACTAAGTGAAGGCTACTATGCGTACCAGATA
1 CGTGTGTAGTACTAAGTGAAGGCTACTACGCGTACCAGATA
17852878 GTTTGGCTAT
Statistics
Matches: 120, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
49 41 0.34
50 45 0.38
51 34 0.28
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
CGTGTGTAGTACTAAGTGAAGGCTACTACGCGTACCAGATAATTAGGTCA
Found at i:17859062 original size:56 final size:56
Alignment explanation
Indices: 17858995--17859114 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
17858985 TATTAGTTTA
*
17858995 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTCCATGACATGTT
*
17859051 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTCCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTCCATGACATGTT
17859107 TTGCCCAT
1 TTGCCCAT
17859115 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTCCATGACATGTT
Found at i:17866596 original size:56 final size:56
Alignment explanation
Indices: 17866529--17866704 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
17866519 TATTAGTTTA
*
17866529 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
17866585 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
17866641 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
17866697 TTGCCCAT
1 TTGCCCAT
17866705 CATCCCTTGT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:17868795 original size:27 final size:26
Alignment explanation
Indices: 17868761--17868879 Score: 77
Period size: 27 Copynumber: 4.7 Consensus size: 26
17868751 TTGTTTTTGA
17868761 CTTACTCACTTTCTTTTTCTTTTCTCT
1 CTTACTCACTTTCTTTTTCTTTT-TCT
* * * **
17868788 CTTGCTCATTTTC-TCTTGATTTT-T
1 CTTACTCACTTTCTTTTTCTTTTTCT
* * **
17868812 -TTACATCAC--TCTATTTGTTTTTGA
1 CTTAC-TCACTTTCTTTTTCTTTTTCT
17868836 CTTACTCACTTTCTTTTTCTTTTCTCT
1 CTTACTCACTTTCTTTTTCTTTT-TCT
* *
17868863 CTTGCTCATTTTCTTTT
1 CTTACTCACTTTCTTTT
17868880 GATTTTTTTA
Statistics
Matches: 68, Mismatches: 17, Indels: 14
0.69 0.17 0.14
Matches are distributed among these distances:
22 2 0.03
23 10 0.15
24 8 0.12
25 5 0.07
26 16 0.24
27 27 0.40
ACGTcount: A:0.10, C:0.24, G:0.04, T:0.61
Consensus pattern (26 bp):
CTTACTCACTTTCTTTTTCTTTTTCT
Found at i:17868947 original size:75 final size:75
Alignment explanation
Indices: 17868695--17868930 Score: 420
Period size: 75 Copynumber: 3.1 Consensus size: 75
17868685 ACTTTTTCTT
17868695 TTTCTTTTTCTTTTCTCTCTTGCTCATTTTCTCTTGATTTTTTTACATCACTCTATTTGTTTTTG
1 TTTCTTTTTCTTTTCTCTCTTGCTCATTTTCTCTTGATTTTTTTACATCACTCTATTTGTTTTTG
17868760 ACTTACTCAC
66 ACTTACTCAC
17868770 TTTCTTTTTCTTTTCTCTCTTGCTCATTTTCTCTTGATTTTTTTACATCACTCTATTTGTTTTTG
1 TTTCTTTTTCTTTTCTCTCTTGCTCATTTTCTCTTGATTTTTTTACATCACTCTATTTGTTTTTG
17868835 ACTTACTCAC
66 ACTTACTCAC
* * *
17868845 TTTCTTTTTCTTTTCTCTCTTGCTCATTTTCTTTTGATTTTTTTACCTCACTCTCTTTGTTTTTG
1 TTTCTTTTTCTTTTCTCTCTTGCTCATTTTCTCTTGATTTTTTTACATCACTCTATTTGTTTTTG
17868910 AC-TAGCTCAC
66 ACTTA-CTCAC
17868920 TTTCTTCTTTC
1 TTTCTT-TTTC
17868931 AAATGAATAT
Statistics
Matches: 156, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
74 2 0.01
75 150 0.96
76 4 0.03
ACGTcount: A:0.11, C:0.23, G:0.06, T:0.61
Consensus pattern (75 bp):
TTTCTTTTTCTTTTCTCTCTTGCTCATTTTCTCTTGATTTTTTTACATCACTCTATTTGTTTTTG
ACTTACTCAC
Found at i:17874519 original size:15 final size:14
Alignment explanation
Indices: 17874484--17874519 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
17874474 ATTGTATGCA
17874484 TTGTAATGAATTAT
1 TTGTAATGAATTAT
*
17874498 ATGTAATGAATTATT
1 TTGTAATGAATTA-T
17874513 TTGTAAT
1 TTGTAAT
17874520 ATTTTCCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (14 bp):
TTGTAATGAATTAT
Found at i:17877605 original size:38 final size:40
Alignment explanation
Indices: 17877552--17877628 Score: 131
Period size: 38 Copynumber: 2.0 Consensus size: 40
17877542 AATATGATAT
17877552 CCGGGCTTAAAATCCCGCAGGCTTCGTGCTGGTAATATAA
1 CCGGGCTTAAAATCCCGCAGGCTTCGTGCTGGTAATATAA
*
17877592 CCGGG-TT-AAATCCCGCAGGCTTCGTGCTGGTATTATA
1 CCGGGCTTAAAATCCCGCAGGCTTCGTGCTGGTAATATA
17877629 TTTGGGCCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
38 29 0.81
39 2 0.06
40 5 0.14
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGGGCTTAAAATCCCGCAGGCTTCGTGCTGGTAATATAA
Found at i:17877726 original size:45 final size:46
Alignment explanation
Indices: 17877632--17877739 Score: 136
Period size: 46 Copynumber: 2.4 Consensus size: 46
17877622 TATTATATTT
* *
17877632 GGGCCTTT-GAGCCTAGCAGGCTATTATGCCGGTGAGACATTATTA
1 GGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAGACATGATTA
* *
17877677 GGGCCTTTCGAGCCTAGTAGGCTATAATGCCGGTGA-A-ATGATATC
1 GGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAGACATGAT-TA
17877722 GGGCC--TCGAGCCTAGCAG
1 GGGCCTTTCGAGCCTAGCAG
17877740 ACGAAATGCC
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
43 12 0.21
44 4 0.07
45 15 0.27
46 25 0.45
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (46 bp):
GGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAGACATGATTA
Found at i:17879130 original size:26 final size:26
Alignment explanation
Indices: 17879087--17879152 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
17879077 AGTGTAGTTT
* * *
17879087 TCACAATACTACATTGAAGTGCACAA
1 TCACAATATTGCACTGAAGTGCACAA
**
17879113 TCACAACT-TTGCACTGAAGTTTACAA
1 TCACAA-TATTGCACTGAAGTGCACAA
17879139 TCACAATATTGCAC
1 TCACAATATTGCAC
17879153 CAAAGTGCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
25 1 0.03
26 31 0.94
27 1 0.03
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (26 bp):
TCACAATATTGCACTGAAGTGCACAA
Found at i:17879158 original size:26 final size:26
Alignment explanation
Indices: 17879109--17879158 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
17879099 ATTGAAGTGC
**
17879109 ACAATCACAACTTTGCACTGAAGTTT
1 ACAATCACAACTTTGCACCAAAGTTT
17879135 ACAATCACAA-TATTGCACCAAAGT
1 ACAATCACAACT-TTGCACCAAAGT
17879159 GCTTAATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 20 0.95
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.26
Consensus pattern (26 bp):
ACAATCACAACTTTGCACCAAAGTTT
Found at i:17879206 original size:26 final size:26
Alignment explanation
Indices: 17879177--17879241 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
17879167 CACATATCGT
*
17879177 ACCGAAGTGCTCAGAT-ACAGTTTAAC
1 ACCGAAGTGCTCAG-TCACAGTATAAC
* * * *
17879203 ACCGAAATGCTTAGTCTCAGTATCAC
1 ACCGAAGTGCTCAGTCACAGTATAAC
17879229 ACCGAAGTGCTCA
1 ACCGAAGTGCTCA
17879242 ATTCATAGTA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
25 1 0.03
26 30 0.97
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.23
Consensus pattern (26 bp):
ACCGAAGTGCTCAGTCACAGTATAAC
Found at i:17882740 original size:600 final size:601
Alignment explanation
Indices: 17881599--17882799 Score: 2287
Period size: 600 Copynumber: 2.0 Consensus size: 601
17881589 ACACAAAGTG
* * *
17881599 AGTGTTTTGCCATACATGCCACATTCAAAATACACAAGCCATTTTACCAATTTAGGCCTTCGGAT
1 AGTGTTTTCCCATACATGCCACATTCAAAATACACAAGCCATTTTACCAATTTAAGCCTTCAGAT
*
17881664 AGTGTGGACGAATCTTCGACCTATCCCAATTCTCAAGCCGGCTTGTCAACAACTACAATGAAAGA
66 AGTGTGAACGAATCTTCGACCTATCCCAATTCTCAAGCCGGCTTGTCAACAACTACAATGAAAGA
17881729 AAAGGAGGGAGTAAGCACAAATTCTGAGTAAGTTCACATGCAAATAGCAAGTAACATAATCACAT
131 AAAGGAGGGAGTAAGCACAAATTCTGAGTAAGTTCACATGCAAATAGCAAGTAACATAATCACAT
17881794 AATCTCACATAAAACATCATTTGCATAAACAACACCAAGACATTCATGTTTCATTTACATTTAAT
196 AATCTCACATAAAACATCATTTGCATAAACAACACCAAGACATTCATGTTTCATTTACATTTAAT
17881859 ATCTTTCTACGATTTCATCATACCAAGTTTTCAACTTGAGGGTTTAAGCACATACCTATCAAATT
261 ATCTTTCTACGATTTCATCATACCAAGTTTTCAACTTGAGGGTTTAAGCACATACCTATCAAATT
17881924 TTCTCATTTACCACACTTACCAACATGTCACCTTCATTTTAGGCCTTCTTCTTATTCACTTAAGA
326 TTCTCATTTACCACACTTACCAACATGTCACCTTCATTTTAGGCCTTCTTCTTATTCACTTAAGA
17881989 TTCACCCATTGAACACATCGAAATATAATTCGAATACACGGATTTCATGAACGTAAGTGTCATAC
391 TTCACCCATTGAACACATCGAAATATAATTCGAATACACGGATTTCATGAACGTAAGTGTCATAC
* *
17882054 CCGCAGCTAGACAAACTCAATAGCCTGTGAAACTTATGTAGCCAAGCTACCATGTAACCCGCCCA
456 CCGCAGCTAGACAAACTCAATAACCTGCGAAACTTATGTAGCCAAGCTACCATGTAACCCGCCCA
17882119 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTAAGACTCAA
521 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTAAGACTCAA
17882184 CTCAACGAGCTCGGAT
586 CTCAACGAGCTCGGAT
17882200 AGTGTTTTCCCATACATGCCACATTCAAAATACACAAGCCATTTTACCAATTTAAGCCTTCAGAT
1 AGTGTTTTCCCATACATGCCACATTCAAAATACACAAGCCATTTTACCAATTTAAGCCTTCAGAT
* *
17882265 AGTGTGAACGAGTCTTCGACCTATCCCGATTCTCAAGCCGGCTTGTCAA-AACTACAATGAAAGA
66 AGTGTGAACGAATCTTCGACCTATCCCAATTCTCAAGCCGGCTTGTCAACAACTACAATGAAAGA
17882329 AAAGGAGGGAGTAAGCACAAATTCTGAGTAAGTTCACATGCAAATAGCAAGTAACATAATCACAT
131 AAAGGAGGGAGTAAGCACAAATTCTGAGTAAGTTCACATGCAAATAGCAAGTAACATAATCACAT
17882394 AATCTCACATAAAACATCATTTGCATAAACAACACCAAGACATTCATGTTTCATTTACATTTAAT
196 AATCTCACATAAAACATCATTTGCATAAACAACACCAAGACATTCATGTTTCATTTACATTTAAT
17882459 ATCTTTCTACGATTTCATCATACCAAGTTTTCAACTTGAGGGTTTAAGCACATACCTATCAAATT
261 ATCTTTCTACGATTTCATCATACCAAGTTTTCAACTTGAGGGTTTAAGCACATACCTATCAAATT
17882524 TTCTCATTTACCACACTTACCAACATGTCACCTTCATTTTAGGCCTTCTTCTTATTCACTTAAGA
326 TTCTCATTTACCACACTTACCAACATGTCACCTTCATTTTAGGCCTTCTTCTTATTCACTTAAGA
*
17882589 TTCACCCATTGAACACATCGGAATATAATTCGAATACACGGATTTCATGAACGTAAGTGTCATAC
391 TTCACCCATTGAACACATCGAAATATAATTCGAATACACGGATTTCATGAACGTAAGTGTCATAC
* *
17882654 CCGTAGCTAGACAAACTCAATAACCTGCGGAACTTATGTAGCCAAGCTACCATGTAACCCGCCCA
456 CCGCAGCTAGACAAACTCAATAACCTGCGAAACTTATGTAGCCAAGCTACCATGTAACCCGCCCA
*
17882719 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTAAGACTCAA
521 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTAAGACTCAA
17882784 CTCAACGAGCTCGGAT
586 CTCAACGAGCTCGGAT
17882800 GCCTAGTTAC
Statistics
Matches: 588, Mismatches: 12, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
600 480 0.82
601 108 0.18
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.27
Consensus pattern (601 bp):
AGTGTTTTCCCATACATGCCACATTCAAAATACACAAGCCATTTTACCAATTTAAGCCTTCAGAT
AGTGTGAACGAATCTTCGACCTATCCCAATTCTCAAGCCGGCTTGTCAACAACTACAATGAAAGA
AAAGGAGGGAGTAAGCACAAATTCTGAGTAAGTTCACATGCAAATAGCAAGTAACATAATCACAT
AATCTCACATAAAACATCATTTGCATAAACAACACCAAGACATTCATGTTTCATTTACATTTAAT
ATCTTTCTACGATTTCATCATACCAAGTTTTCAACTTGAGGGTTTAAGCACATACCTATCAAATT
TTCTCATTTACCACACTTACCAACATGTCACCTTCATTTTAGGCCTTCTTCTTATTCACTTAAGA
TTCACCCATTGAACACATCGAAATATAATTCGAATACACGGATTTCATGAACGTAAGTGTCATAC
CCGCAGCTAGACAAACTCAATAACCTGCGAAACTTATGTAGCCAAGCTACCATGTAACCCGCCCA
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTAAGACTCAA
CTCAACGAGCTCGGAT
Found at i:17883316 original size:30 final size:30
Alignment explanation
Indices: 17883271--17883330 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
17883261 ATTTAATACG
*
17883271 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
17883301 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
17883331 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:17900400 original size:15 final size:15
Alignment explanation
Indices: 17900380--17900424 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
17900370 CCATAATAGT
17900380 CACATATCATATAAA
1 CACATATCATATAAA
* *
17900395 CACATATCACATCACA
1 CACATATCATAT-AAA
17900411 CACATATTCATATA
1 CACATA-TCATATA
17900425 TTATGATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 11 0.44
16 9 0.36
17 5 0.20
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (15 bp):
CACATATCATATAAA
Found at i:17909493 original size:39 final size:39
Alignment explanation
Indices: 17909439--17909556 Score: 175
Period size: 39 Copynumber: 3.0 Consensus size: 39
17909429 GAAATGTGTA
17909439 TGGAAATGTATCCGGGCTAAAGACCCGCAGGCCTTGTGC
1 TGGAAATGTATCCGGGCTAAAGACCCGCAGGCCTTGTGC
*
17909478 TGGAAATATATCCGGGCTAAAGACCCGCAGG-CTTCGTGC
1 TGGAAATGTATCCGGGCTAAAGACCCGCAGGCCTT-GTGC
* * * *
17909517 TGGAAATGTATCCGGGTTAAAGTCCCACAGGCTTTGTGC
1 TGGAAATGTATCCGGGCTAAAGACCCGCAGGCCTTGTGC
17909556 T
1 T
17909557 AATAATATAA
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
38 3 0.04
39 66 0.93
40 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (39 bp):
TGGAAATGTATCCGGGCTAAAGACCCGCAGGCCTTGTGC
Found at i:17913176 original size:79 final size:82
Alignment explanation
Indices: 17913065--17913249 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 82
17913055 GCTACTCGTT
* *
17913065 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
* *
17913127 CGGATTTAGTAAC-TCGCA
64 CGGATATAGTAACTTAGCA
* **
17913145 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTTGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTATCTCGCACAAATGCCTTCGGATCTTAACCCG
* *
17913208 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
17913225 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
17913250 CATCATTCGA
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 5 0.05
79 52 0.57
80 34 0.37
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTATCTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:17913249 original size:40 final size:40
Alignment explanation
Indices: 17913046--17913249 Score: 215
Period size: 40 Copynumber: 5.1 Consensus size: 40
17913036 CGGAATTTAA
** *
17913046 CCGGATATAGCTAC-TCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TACTTCGCACAAATGCCTTCGGGACTTAGC
* * *
17913086 CCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTACTTCGCACAAATGCCTTCGGGACTTAGC
*
17913126 CCGGATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGT-ACTTCGCACAAATGCCTTCGGGACTTAGC
*
17913165 CCGGA-ATTAGTATCTT-GCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTA-CTTCGCACAAATGCCTTCGGGA-CTTAGC
* *
17913205 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGT-ACTTCGCACAAATGCCTTCGGGACTTAGC
17913245 CCGGA
1 CCGGA
17913250 CATCATTCGA
Statistics
Matches: 139, Mismatches: 14, Indels: 22
0.79 0.08 0.13
Matches are distributed among these distances:
38 3 0.02
39 31 0.22
40 92 0.66
41 13 0.09
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTACTTCGCACAAATGCCTTCGGGACTTAGC
Found at i:17918390 original size:15 final size:17
Alignment explanation
Indices: 17918370--17918402 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
17918360 AACACCGGTC
17918370 TGTTAAG-TC-ATTTAT
1 TGTTAAGTTCAATTTAT
17918385 TGTTAAGTTCAATTTAT
1 TGTTAAGTTCAATTTAT
17918402 T
1 T
17918403 AAAAGGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 2 0.12
17 7 0.44
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.55
Consensus pattern (17 bp):
TGTTAAGTTCAATTTAT
Found at i:17924121 original size:23 final size:24
Alignment explanation
Indices: 17924095--17924139 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
17924085 CAAAAGATAA
17924095 TTGTTAGTTTAA-TTAGATATGCT
1 TTGTTAGTTTAACTTAGATATGCT
*
17924118 TTGTTAGTTTAACTTATATATG
1 TTGTTAGTTTAACTTAGATATG
17924140 TATATGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.27, C:0.04, G:0.16, T:0.53
Consensus pattern (24 bp):
TTGTTAGTTTAACTTAGATATGCT
Found at i:17934741 original size:34 final size:35
Alignment explanation
Indices: 17934690--17934756 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 35
17934680 ATTCTATAGT
*
17934690 TAGGGTAATACTGAAACTGTAGAA-ACTGAGACAA
1 TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAA
*
17934724 TAGGG-AAAACTGAAAACTTTAGAAGACTGAGAC
1 TAGGGTAAAACTG-AAACTGTAGAAGACTGAGAC
17934757 TGTAGCTAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 6 0.21
34 15 0.52
35 8 0.28
ACGTcount: A:0.45, C:0.12, G:0.24, T:0.19
Consensus pattern (35 bp):
TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAA
Found at i:17949622 original size:43 final size:42
Alignment explanation
Indices: 17949540--17949686 Score: 129
Period size: 43 Copynumber: 3.4 Consensus size: 42
17949530 TGAGATATCG
* * * * *
17949540 TGTAAGACCGTGACTGGGACACAGGCCTCGAT-TGAGATTTACG
1 TGTAAGACC-TGTCTGGGACAGAGGCATCGATAT-TGATTTACA
* **
17949583 TATAAGACCATGTCTGGGACATCGGCATCG-TATCTGATTT-CA
1 TGTAAGACC-TGTCTGGGACAGAGGCATCGATAT-TGATTTACA
* *
17949625 TGTAAGACCCTGTCTGGGATAGAGGCATCGATATTGAATTACA
1 TGTAAGA-CCTGTCTGGGACAGAGGCATCGATATTGATTTACA
17949668 TGTAAGACCTCGTCTGGGA
1 TGTAAGACCT-GTCTGGGA
17949687 TGTCGGTGTT
Statistics
Matches: 85, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
42 33 0.39
43 52 0.61
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (42 bp):
TGTAAGACCTGTCTGGGACAGAGGCATCGATATTGATTTACA
Found at i:17949687 original size:43 final size:42
Alignment explanation
Indices: 17949585--17949687 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 42
17949575 GATTTACGTA
* * ** *
17949585 TAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTCATG
1 TAAGACCCTGTCTGGGATAGAGGCATCGTATCTGATTACATG
17949627 TAAGACCCTGTCTGGGATAGAGGCATCGATAT-TGAATTACATG
1 TAAGACCCTGTCTGGGATAGAGGCATCG-TATCTG-ATTACATG
17949670 TAAGA-CCTCGTCTGGGAT
1 TAAGACCCT-GTCTGGGAT
17949688 GTCGGTGTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
42 29 0.55
43 24 0.45
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (42 bp):
TAAGACCCTGTCTGGGATAGAGGCATCGTATCTGATTACATG
Found at i:17965472 original size:37 final size:37
Alignment explanation
Indices: 17965430--17965503 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
17965420 TAAGGGCATT
*
17965430 TTGGTCATTTGGTAAATAAAAGAATAAAGAGGGAAAG
1 TTGGTCATTTGGTAAATAAAAGAATAAAAAGGGAAAG
17965467 TTGGTCATTTGGTAAATAAAAGAATAAAAAGGGAAAG
1 TTGGTCATTTGGTAAATAAAAGAATAAAAAGGGAAAG
17965504 AGAAAGCAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.47, C:0.03, G:0.26, T:0.24
Consensus pattern (37 bp):
TTGGTCATTTGGTAAATAAAAGAATAAAAAGGGAAAG
Found at i:17965948 original size:26 final size:26
Alignment explanation
Indices: 17965917--17965966 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
17965907 TGGGTAACAA
17965917 AGAAAATGCATGCATTTCATTTTATG
1 AGAAAATGCATGCATTTCATTTTATG
17965943 AGAAAATGCATGCATTTCATTTTA
1 AGAAAATGCATGCATTTCATTTTA
17965967 CGAGCCTGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (26 bp):
AGAAAATGCATGCATTTCATTTTATG
Found at i:17967017 original size:21 final size:23
Alignment explanation
Indices: 17966977--17967018 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
17966967 TATCCTTGTG
*
17966977 AGTTATGGTGTAGGAAAATGATA
1 AGTTATGGTGTAGAAAAATGATA
17967000 AGTTATGG-GT-GAAAAATGA
1 AGTTATGGTGTAGAAAAATGA
17967019 GGCTAGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 2 0.11
23 8 0.44
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (23 bp):
AGTTATGGTGTAGAAAAATGATA
Found at i:17969700 original size:18 final size:18
Alignment explanation
Indices: 17969662--17969700 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
17969652 GACATAGGAA
**
17969662 TAGGAGTAGGATTAGAAT
1 TAGGAGTAGGAGCAGAAT
*
17969680 TAGGAGTAGGAGCAGAGT
1 TAGGAGTAGGAGCAGAAT
17969698 TAG
1 TAG
17969701 ATGTAGAGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.36, C:0.03, G:0.38, T:0.23
Consensus pattern (18 bp):
TAGGAGTAGGAGCAGAAT
Found at i:17972224 original size:22 final size:22
Alignment explanation
Indices: 17972199--17972240 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
17972189 AAGACTATGA
*
17972199 GTATCATGATACCCAAGCTTAG
1 GTATCATGATACCAAAGCTTAG
**
17972221 GTATGGTGATACCAAAGCTT
1 GTATCATGATACCAAAGCTT
17972241 GATAAGTGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (22 bp):
GTATCATGATACCAAAGCTTAG
Found at i:17972446 original size:17 final size:17
Alignment explanation
Indices: 17972425--17972458 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
17972415 TTAAGTTAGG
*
17972425 TTTTTTTTTCTCTTTTCC
1 TTTTCTTTTC-CTTTTCC
17972443 TTTTCTTTTCCTTTTC
1 TTTTCTTTTCCTTTTC
17972459 AATTTTAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTCTTTTCCTTTTCC
Found at i:17977537 original size:22 final size:22
Alignment explanation
Indices: 17977507--17977548 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
17977497 CTATTAGTCC
17977507 TTGTAGCGCA-TCTTGTTGGCCA
1 TTGTAGCGCATTC-TGTTGGCCA
*
17977529 TTGTGGCGCATTCTGTTGGC
1 TTGTAGCGCATTCTGTTGGC
17977549 ATTTATGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.10, C:0.21, G:0.31, T:0.38
Consensus pattern (22 bp):
TTGTAGCGCATTCTGTTGGCCA
Found at i:17977573 original size:22 final size:22
Alignment explanation
Indices: 17977532--17977574 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
17977522 TTGGCCATTG
* **
17977532 TGGCGCATTCTGTTGGCATTTA
1 TGGCACATTCTGTTAACATTTA
17977554 TGGCACATTCTGTTAACATTT
1 TGGCACATTCTGTTAACATTT
17977575 GTGGAATTAT
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:0.19, C:0.19, G:0.21, T:0.42
Consensus pattern (22 bp):
TGGCACATTCTGTTAACATTTA
Found at i:18000110 original size:28 final size:28
Alignment explanation
Indices: 18000047--18000168 Score: 210
Period size: 28 Copynumber: 4.4 Consensus size: 28
18000037 ATATTAAGTC
* *
18000047 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
18000074 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
18000102 CGCACACTTAGTGCTACATAACCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
18000130 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
18000158 CGCACACTTAG
1 CGCACACTTAG
18000169 GGCCAATCTC
Statistics
Matches: 90, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 21 0.23
28 69 0.77
ACGTcount: A:0.34, C:0.30, G:0.11, T:0.24
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:18005381 original size:40 final size:40
Alignment explanation
Indices: 18005319--18005536 Score: 300
Period size: 40 Copynumber: 5.5 Consensus size: 40
18005309 AAACCAAGTA
* *
18005319 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCACTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCACACAAATG
* *
18005358 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
*
18005398 CCTTCGGGACTTAGCCCGGATATAGTAACTCCCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
* **
18005438 CCTTCGGGACTTAGCCCAGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
*
18005478 CCTTCGGGACTTAGCCCGGA-ATTAGTCACT-AGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCA-CACAAATG
18005518 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
18005537 TTACCATCCG
Statistics
Matches: 163, Mismatches: 12, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
39 14 0.09
40 149 0.91
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
Found at i:18009782 original size:40 final size:40
Alignment explanation
Indices: 18009725--18010046 Score: 590
Period size: 40 Copynumber: 8.0 Consensus size: 40
18009715 NNNNNNATAG
*
18009725 CAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAT
1 CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
* *
18009765 CAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATAT
1 CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
18009805 CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
1 CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
18009845 CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
1 CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
18009885 CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATAT
1 CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGG--ATATAT
*
18009927 CAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATAT
1 CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
18009967 CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
1 CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
18010007 CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
1 CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
18010047 TCCAATGCTC
Statistics
Matches: 273, Mismatches: 7, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
40 234 0.86
42 39 0.14
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (40 bp):
CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
Found at i:18009988 original size:122 final size:122
Alignment explanation
Indices: 18009725--18010046 Score: 594
Period size: 122 Copynumber: 2.7 Consensus size: 122
18009715 NNNNNNATAG
* * *
18009725 CAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAATTGCCTTCGGGTC
1 CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
*
18009790 TTAGCCCGG--ATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
66 TTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATAT
18009845 CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
18009910 TTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATAT
66 TTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATAT
18009967 CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
18010032 TTAGCCCGGATATAT
66 TTAGCCCGGATATAT
18010047 TCCAATGCTC
Statistics
Matches: 196, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
120 71 0.36
122 125 0.64
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (122 bp):
CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
TTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATAT
Found at i:18014912 original size:61 final size:61
Alignment explanation
Indices: 18014838--18014960 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
18014828 GCCTCGGATC
18014838 TGGTCGTAGCATCTCTAGATCCTCTCTGACCACCACTAGCATTGCCCGTATTTCTAGATGG
1 TGGTCGTAGCATCTCTAGATCCTCTCTGACCACCACTAGCATTGCCCGTATTTCTAGATGG
18014899 TGGTCGTAGCATCTCTAGATCCTCTCTGACCACCACTAGCATTGCCCGTATTTCTAGATGG
1 TGGTCGTAGCATCTCTAGATCCTCTCTGACCACCACTAGCATTGCCCGTATTTCTAGATGG
18014960 T
1 T
18014961 CTACCTCGAG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.32
Consensus pattern (61 bp):
TGGTCGTAGCATCTCTAGATCCTCTCTGACCACCACTAGCATTGCCCGTATTTCTAGATGG
Found at i:18024086 original size:44 final size:44
Alignment explanation
Indices: 18024036--18024122 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
18024026 AGGTTGGTTT
*
18024036 AGCCAGTTAAAA-TTCTATTTTGGAAATGGGAAAGAGTGACTATC
1 AGCCAGTTAAAATTTC-ACTTTGGAAATGGGAAAGAGTGACTATC
*
18024080 AGCCAGTTAAAATTTCACTTTGGAAGTGGGAAAGAGTGACTAT
1 AGCCAGTTAAAATTTCACTTTGGAAATGGGAAAGAGTGACTAT
18024123 GGACTTCGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 37 0.93
45 3 0.08
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (44 bp):
AGCCAGTTAAAATTTCACTTTGGAAATGGGAAAGAGTGACTATC
Found at i:18026713 original size:17 final size:17
Alignment explanation
Indices: 18026691--18026738 Score: 87
Period size: 17 Copynumber: 2.8 Consensus size: 17
18026681 GCATTGGGTT
18026691 GTGTGGGCCCCACAGGC
1 GTGTGGGCCCCACAGGC
18026708 GTGTGGGCCCCACAGGC
1 GTGTGGGCCCCACAGGC
*
18026725 ATGTGGGCCCCACA
1 GTGTGGGCCCCACA
18026739 TAGGTAAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.15, C:0.35, G:0.38, T:0.12
Consensus pattern (17 bp):
GTGTGGGCCCCACAGGC
Found at i:18027228 original size:57 final size:57
Alignment explanation
Indices: 18027140--18027999 Score: 1720
Period size: 57 Copynumber: 15.1 Consensus size: 57
18027130 TATAATGCAA
18027140 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
1 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
18027197 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
1 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
18027254 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
1 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
18027311 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
1 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
18027368 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
1 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
18027425 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
1 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
18027482 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
1 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
18027539 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
1 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
18027596 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
1 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
18027653 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
1 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
18027710 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
1 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
18027767 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
1 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
18027824 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
1 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
18027881 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
1 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
18027938 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
1 TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
18027995 TTATA
1 TTATA
18028000 TATGTAAATT
Statistics
Matches: 803, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 803 1.00
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.51
Consensus pattern (57 bp):
TTATACCATTGGTTTTATAGGCATATATTATATAGTTTTTATATTATTTCATTAAGG
Found at i:18033971 original size:21 final size:22
Alignment explanation
Indices: 18033932--18033978 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
18033922 AGGGCTATAG
18033932 TCCAATAACAGCAACAGGGGCC
1 TCCAATAACAGCAACAGGGGCC
*
18033954 TCCAGTAACAGC-ACAGGGGCC
1 TCCAATAACAGCAACAGGGGCC
18033975 -CCAA
1 TCCAA
18033979 CTCTGAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 3 0.13
21 9 0.39
22 11 0.48
ACGTcount: A:0.34, C:0.34, G:0.23, T:0.09
Consensus pattern (22 bp):
TCCAATAACAGCAACAGGGGCC
Found at i:18036000 original size:35 final size:35
Alignment explanation
Indices: 18035925--18036000 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
18035915 ACAGATATGC
*
18035925 AATCAATAAATCCTACCCAACCAGCCTCTAGACTC
1 AATCAATAAATCCTACCCAACCAGCCTCTAGACTA
* *
18035960 TATCAATAAATCCTACCCAACCAGCCTTTAGA-TAA
1 AATCAATAAATCCTACCCAACCAGCCTCTAGACT-A
18035995 AATCAA
1 AATCAA
18036001 CCTACCCATC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
34 1 0.03
35 35 0.97
ACGTcount: A:0.41, C:0.32, G:0.05, T:0.22
Consensus pattern (35 bp):
AATCAATAAATCCTACCCAACCAGCCTCTAGACTA
Found at i:18039144 original size:13 final size:13
Alignment explanation
Indices: 18039126--18039151 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18039116 CTGTGCATTC
18039126 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
18039139 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
18039152 AACAAATCCC
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:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:18043682 original size:40 final size:40
Alignment explanation
Indices: 18043575--18043777 Score: 261
Period size: 40 Copynumber: 5.1 Consensus size: 40
18043565 CGGATGATAA
* * *
18043575 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-T
** *
18043615 TTGGGCTAAG-CCCGAAGGCAATT-GTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATAT
18043654 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
18043694 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
18043734 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
18043774 CCGG
1 CCGG
18043778 TTGAATTCCG
Statistics
Matches: 144, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
39 33 0.23
40 111 0.77
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:18050301 original size:27 final size:27
Alignment explanation
Indices: 18050082--18050310 Score: 182
Period size: 27 Copynumber: 8.7 Consensus size: 27
18050072 AATCTCATAT
* * *
18050082 CTGTAGGCTAGCATTACTGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
*
18050109 CTGTAGGGTAGAATTACCGAGATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* ** * ** *
18050136 TTGCGGGGTAAAATTACC-ATTTTGCCC
1 CTGTAGGGTAGAATTACCGA-AATACCC
**
18050163 C--TAGGGT-G--TTACTAAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* * *
18050185 CTATAGGGTAGAGTTACTGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
*
18050212 CTGTAGGGTAGAATTACTGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* *
18050239 CTGTAGGGTAGAAATATCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* *
18050266 CTATAGGGTAGAATTACCGAGATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* ** *
18050293 TTGCGGGGTAAAATTACC
1 CTGTAGGGTAGAATTACC
18050311 ATTTTGTCCC
Statistics
Matches: 161, Mismatches: 34, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
22 9 0.06
23 1 0.01
24 6 0.04
25 5 0.03
26 1 0.01
27 139 0.86
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACCGAAATACCC
Found at i:18050876 original size:22 final size:22
Alignment explanation
Indices: 18050828--18050886 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
18050818 ATTATTCTGA
18050828 TTATGGCTTTGTGCCAACCTAC
1 TTATGGCTTTGTGCCAACCTAC
* **
18050850 ATATGGCTTTGTGCCAACCTGT
1 TTATGGCTTTGTGCCAACCTAC
*
18050872 TTATGGCTGTGTGCC
1 TTATGGCTTTGTGCC
18050887 GTTATTGTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (22 bp):
TTATGGCTTTGTGCCAACCTAC
Done.