Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 56 of 259
Found at i:17860554 original size:49 final size:48
Alignment explanation
Indices: 17860497--17860957 Score: 687
Period size: 49 Copynumber: 9.6 Consensus size: 48
17860487 TTAAACCCAT
17860497 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATA-ATGTGATAAGGCCTAATGGCCGATGTGATGA
17860546 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATA-ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
17860595 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATA-ATGTGATAAGGCCTAATGGCCGATGTGATGA
* **
17860644 ATGTGAAAATGTATATACATGTGATAAGGCCTAATAACCGATGTGATGA
1 ATGTGAAAGTGTATATA-ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
17860693 ATGTGAAAGTGTATATATACGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATA-ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
17860742 ATGTGAAAGTGTATAT-ATGTGATAAGGCCTAATGGCCGATGTGAGGA
1 ATGTGAAAGTGTATATAATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * *
17860789 ATGTGAAACTATATACATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATA-ATGTGATAAGGCCTAATGGCCGATGTGATGA
17860838 ATGTGAAAGTGTATAT-ATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATAATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
17860885 ATGTGAAAGTGTATAT-ATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATAATGTGATAAGGCCTAATGGCCGATGTGATGA
17860932 ATGTGAAAGTGTATA-AATGTGATAAG
1 ATGTGAAAGTGTATATAATGTGATAAG
17860958 TCCCGAAGGG
Statistics
Matches: 379, Mismatches: 30, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
47 135 0.36
49 244 0.64
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (48 bp):
ATGTGAAAGTGTATATAATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:17861132 original size:37 final size:37
Alignment explanation
Indices: 17861076--17861154 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
17861066 CTGAGCTCTA
* * *
17861076 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
17861113 AAGACCTGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
17861150 AAGAC
1 AAGAC
17861155 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:17862770 original size:29 final size:29
Alignment explanation
Indices: 17862728--17862785 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
17862718 TCTGGGATTT
17862728 TTTGGTTTCTTTATGTTTTGTTATTATTA
1 TTTGGTTTCTTTATGTTTTGTTATTATTA
17862757 TTTGGTTTCTTTATGTTTTGTTATTATTA
1 TTTGGTTTCTTTATGTTTTGTTATTATTA
17862786 CTCTTCTGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.14, C:0.03, G:0.14, T:0.69
Consensus pattern (29 bp):
TTTGGTTTCTTTATGTTTTGTTATTATTA
Found at i:17862792 original size:26 final size:28
Alignment explanation
Indices: 17862734--17862792 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
17862724 ATTTTTTGGT
* *
17862734 TTCTTTATGTTTTGTTATTATTATTTGGT
1 TTCTTTATGTTTTGTTATTATTATCT-GC
17862763 TTCTTTATGTTTTGTTATTATTA-CT-C
1 TTCTTTATGTTTTGTTATTATTATCTGC
17862789 TTCT
1 TTCT
17862793 GAGATGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 4 0.14
28 1 0.04
29 23 0.82
ACGTcount: A:0.14, C:0.08, G:0.10, T:0.68
Consensus pattern (28 bp):
TTCTTTATGTTTTGTTATTATTATCTGC
Found at i:17872128 original size:40 final size:39
Alignment explanation
Indices: 17872030--17872252 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
17872020 TCCTCGTTCA
* * * *
17872030 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
17872069 AATACCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
17872108 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
17872148 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
17872188 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
17872229 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
17872253 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 39 0.25
40 104 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:17872195 original size:80 final size:79
Alignment explanation
Indices: 17872028--17872199 Score: 213
Period size: 79 Copynumber: 2.2 Consensus size: 79
17872018 GCTCCTCGTT
* *
17872028 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATACCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAATACCTTCGGGACATAACCCGGA
17872093 TTTAATAACTCGCA
66 TTTAATAACTCGCA
* * * * * *
17872107 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAA-AGGCCTTCGGGGCTTAACCCG
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAATA--CCTTCGGGACATAACCCG
* *
17872171 GAATTT-GTATCTCGCA
64 G-ATTTAATAACTCGCA
17872187 CAAATGCCTTCGG
1 CAAATGCCTTCGG
17872200 ATCTTAGTCC
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 37 0.47
80 37 0.47
81 4 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAATACCTTCGGGACATAACCCGGA
TTTAATAACTCGCA
Found at i:17872212 original size:80 final size:79
Alignment explanation
Indices: 17872028--17872252 Score: 233
Period size: 80 Copynumber: 2.8 Consensus size: 79
17872018 GCTCCTCGTT
* * * *
17872028 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATA-CCTTCGGGACATAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAA-AGCCTTCGGGACTTAACCCGG
17872092 -ATTTAATAACTCGCA
64 AATTTAATAACTCGCA
* * *
17872107 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
17872172 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
17872187 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
17872251 GA
63 GA
17872253 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
78 2 0.02
79 39 0.32
80 68 0.56
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:17872261 original size:41 final size:41
Alignment explanation
Indices: 17872184--17872261 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
17872174 TTTGTATCTC
* * *
17872184 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
17872225 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
17872262 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:17882168 original size:39 final size:39
Alignment explanation
Indices: 17882123--17882282 Score: 284
Period size: 39 Copynumber: 4.1 Consensus size: 39
17882113 AAGCAAGACA
* *
17882123 CTGGAAATGTATCCGGGCTAAAGACTCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
17882162 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
17882201 CTGGAAATGTATCCGGGCTAAAGTCCTGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
17882240 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
17882279 CTGG
1 CTGG
17882283 TAACATAATT
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 116 1.00
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:17888911 original size:39 final size:39
Alignment explanation
Indices: 17888866--17888986 Score: 224
Period size: 39 Copynumber: 3.1 Consensus size: 39
17888856 AAGCAAGACA
*
17888866 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
17888905 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
17888944 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
17888983 CTGG
1 CTGG
17888987 TAACATAATT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.21, C:0.25, G:0.31, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:17892649 original size:20 final size:20
Alignment explanation
Indices: 17892624--17892666 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
17892614 GCTATAAAGC
17892624 TTAGTAAGCTCATATGAATA
1 TTAGTAAGCTCATATGAATA
17892644 TTAGTAAGCTCATATGAATA
1 TTAGTAAGCTCATATGAATA
17892664 TTA
1 TTA
17892667 AACTCATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (20 bp):
TTAGTAAGCTCATATGAATA
Found at i:17892674 original size:17 final size:19
Alignment explanation
Indices: 17892624--17892675 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
17892614 GCTATAAAGC
17892624 TTAGTAAGCTCATATGAATA
1 TTAG-AAGCTCATATGAATA
17892644 TTAGTAAGCTCATATGAATA
1 TTAG-AAGCTCATATGAATA
17892664 TTA-AA-CTCATAT
1 TTAGAAGCTCATAT
17892676 ATCAAATAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.22
18 2 0.06
20 23 0.72
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (19 bp):
TTAGAAGCTCATATGAATA
Found at i:17893367 original size:47 final size:47
Alignment explanation
Indices: 17893296--17893425 Score: 170
Period size: 47 Copynumber: 2.8 Consensus size: 47
17893286 TCAATCGATA
* * * * * *
17893296 AGTACTTATACCATGGTCCGTAGCCAACTTAAGGTAACTTATCCCGG
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCGG
* * *
17893343 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCCTCTCTG
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCGG
*
17893390 AATACCTATACCATGGCCCATAGCCAAATCAAGGTA
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTA
17893426 TTTTTCGCAC
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (47 bp):
AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCGG
Found at i:17897210 original size:19 final size:20
Alignment explanation
Indices: 17897181--17897218 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
17897171 TTCTGAATAA
*
17897181 TTTTAATTTTTTATTTTTAG
1 TTTTAATTTTTCATTTTTAG
17897201 TTTT-ATTTTTCATTTTTA
1 TTTTAATTTTTCATTTTTA
17897219 TCTTTGTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTTAATTTTTCATTTTTAG
Found at i:17897230 original size:25 final size:25
Alignment explanation
Indices: 17897178--17897240 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
17897168 AATTTCTGAA
*
17897178 TAATTTTAATTTTTTATTTTTAGTTT
1 TAATTTTAA-TTTTTATCTTTAGTTT
* *
17897204 TATTTTTCATTTTTATCTTT-GTCTT
1 TAATTTTAATTTTTATCTTTAGT-TT
17897229 TAATTTTAATTT
1 TAATTTTAATTT
17897241 GTTTATGTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 2 0.06
25 22 0.71
26 7 0.23
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (25 bp):
TAATTTTAATTTTTATCTTTAGTTT
Found at i:17898497 original size:15 final size:16
Alignment explanation
Indices: 17898477--17898510 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
17898467 AAGTCGTGTT
*
17898477 TTATTATTTAATTA-A
1 TTATTATATAATTACA
17898492 TTATTATATAATTACA
1 TTATTATATAATTACA
17898508 TTA
1 TTA
17898511 GAGTCGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATTATATAATTACA
Found at i:17899579 original size:40 final size:39
Alignment explanation
Indices: 17899524--17899765 Score: 229
Period size: 40 Copynumber: 6.1 Consensus size: 39
17899514 ACAATTATTG
* * *
17899524 CCTGAATGCACATACGTGCGCCTGTTAGTACTTTGATATC
1 CCTGAATGCACATACGTGCCCCTGTTTGTACTTTGGTA-C
*
17899564 CCTGAATGCACATACGTGCCCCTATTTGTACTTTGGTACC
1 CCTGAATGCACATACGTGCCCCTGTTTGTACTTTGGTA-C
* *** *
17899604 CCTGAATG-A-ACA-GTGCTGTTGTTTGTACTCTGGTAC
1 CCTGAATGCACATACGTGCCCCTGTTTGTACTTTGGTAC
* *
17899640 CCTTGAATGCACATATGTGCCCCTGTTTGTACTTCGGTACC
1 CC-TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTA-C
* * * *
17899681 CCTGAATGTACATACATGCCCCTATTTGTACTTTGATAC
1 CCTGAATGCACATACGTGCCCCTGTTTGTACTTTGGTAC
* * * * *
17899720 CTCTGAATGCATATACGTGCTCTTGATTGTACTATGGTAC
1 C-CTGAATGCACATACGTGCCCCTGTTTGTACTTTGGTAC
17899760 CTCTGA
1 C-CTGA
17899766 GAACATCATA
Statistics
Matches: 164, Mismatches: 32, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
36 3 0.02
37 24 0.15
38 3 0.02
39 5 0.03
40 126 0.77
41 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (39 bp):
CCTGAATGCACATACGTGCCCCTGTTTGTACTTTGGTAC
Found at i:17903793 original size:25 final size:25
Alignment explanation
Indices: 17903764--17903811 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17903754 TTATAACATG
* * *
17903764 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
17903789 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
17903812 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:17903875 original size:11 final size:11
Alignment explanation
Indices: 17903859--17903914 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
17903849 CATGGTATGT
17903859 ATGATATGCAC
1 ATGATATGCAC
*
17903870 ATGATATG--T
1 ATGATATGCAC
17903879 ATGATATGCAC
1 ATGATATGCAC
*
17903890 ATGATATG--T
1 ATGATATGCAC
17903899 ATGATATGCAC
1 ATGATATGCAC
17903910 ATGAT
1 ATGAT
17903915 GTAATCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:17903877 original size:20 final size:20
Alignment explanation
Indices: 17903848--17903914 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
17903838 ATTTTGATAA
*
17903848 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
17903868 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
17903888 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
17903908 ACATGAT
1 ACATGAT
17903915 GTAATCATAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:17903882 original size:9 final size:9
Alignment explanation
Indices: 17903854--17903906 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
17903844 ATAAACATGG
17903854 TATGTATGA
1 TATGTATGA
*
17903863 TATGCACATGA
1 TATG--TATGA
17903874 TATGTATGA
1 TATGTATGA
*
17903883 TATGCACATGA
1 TATG--TATGA
17903894 TATGTATGA
1 TATGTATGA
17903903 TATG
1 TATG
17903907 CACATGATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.38
Consensus pattern (9 bp):
TATGTATGA
Found at i:17904043 original size:24 final size:24
Alignment explanation
Indices: 17903963--17904081 Score: 154
Period size: 23 Copynumber: 5.0 Consensus size: 24
17903953 GGAGGAAGTG
* *
17903963 TAAAAGGACATATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
17903987 T-AAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
17904010 T-AAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
17904033 TAAAAGGGCTTTTACCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
17904057 TAAAAGAGGC-TACGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
17904082 ATGATAAAGC
Statistics
Matches: 85, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
23 44 0.52
24 30 0.35
25 11 0.13
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:17904310 original size:31 final size:31
Alignment explanation
Indices: 17904275--17904338 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
17904265 CGTTTACAGT
17904275 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* **
17904306 AAAGGCTTCGGCCTAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
17904337 AA
1 AA
17904339 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:17911880 original size:25 final size:25
Alignment explanation
Indices: 17911851--17911898 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
17911841 TTATAACATG
* *
17911851 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
17911876 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
17911899 GTTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:17911982 original size:11 final size:11
Alignment explanation
Indices: 17911946--17912001 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
17911936 CATGGTATGT
17911946 ATGATATGCAC
1 ATGATATGCAC
* *
17911957 ATGACATG--T
1 ATGATATGCAC
17911966 ATGATATGCAC
1 ATGATATGCAC
*
17911977 ATGATATG--T
1 ATGATATGCAC
17911986 ATGATATGCAC
1 ATGATATGCAC
17911997 ATGAT
1 ATGAT
17912002 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:17912001 original size:20 final size:20
Alignment explanation
Indices: 17911935--17912001 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
17911925 ATTTTGATAA
*
17911935 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
17911955 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
17911975 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
17911995 ACATGAT
1 ACATGAT
17912002 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:17912144 original size:25 final size:24
Alignment explanation
Indices: 17912050--17912144 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
17912040 AGAGGAAGTG
17912050 TAAAAGGG-TTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
17912073 T-AAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
17912096 TAAAAGGGCTTTTGCCCCATTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
17912120 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
17912145 ATGATCAAGA
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
22 6 0.10
23 17 0.27
24 30 0.48
25 10 0.16
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:17912376 original size:31 final size:31
Alignment explanation
Indices: 17912338--17912397 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
17912328 CGTTTACAAT
17912338 AAAGGCTTCGGCCCAGTAATATGAAATATTA
1 AAAGGCTTCGGCCCAGTAATATGAAATATTA
* **
17912369 AAAGGCTTCGGCCTAGTGTTATGAAATAT
1 AAAGGCTTCGGCCCAGTAATATGAAATAT
17912398 GAAATATGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATTA
Found at i:17913682 original size:12 final size:12
Alignment explanation
Indices: 17913665--17913689 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17913655 ATATGGTAAT
17913665 TGATAATTAAAA
1 TGATAATTAAAA
17913677 TGATAATTAAAA
1 TGATAATTAAAA
17913689 T
1 T
17913690 AAGAAAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (12 bp):
TGATAATTAAAA
Found at i:17917604 original size:47 final size:48
Alignment explanation
Indices: 17917539--17917898 Score: 229
Period size: 46 Copynumber: 7.6 Consensus size: 48
17917529 TTTGTATGCT
17917539 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAC-ATTATGAAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CACGATTATGAAAGCC
*
17917585 AGTGTAAGACCATGTCTGGGACATGGCATC-G-AC-ATTGA-GACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCACGATT-ATGA--A-AGCC
* * * *
17917633 AGTGTAAGA-CATGTTTGGGACAT-GCATCAGCTTCGA-GATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGC-ACGATTATGAAAGCC
* * * * * *
17917679 ATTATAAGA-CATGTCTGGGACAT-GCATCAACTACGA-GATG--TGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGC-ACGATTATGAAAGCC
** * *
17917723 AGTGTAAGACCATGTCTGGGACATCACATCAGCACGGATATGTGAAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-GAT-TATGAAAGCC
* * * * *
17917773 AGTGTAAGATCATGTCTGGGACATGGCATTC-GCATCAATTTTGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCA-TCAGCA-CGATTATGAAAGCC
* * *
17917822 AGTGTAAGACCAGGTCTGGGATATGGCATCA--AC--TTAATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCACGATT-AT-GA-AAGCC
* *
17917869 AGTGTAAGACCAGGTCTGGGACATGTCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
17917899 GGTATTATAC
Statistics
Matches: 252, Mismatches: 38, Indels: 47
0.75 0.11 0.14
Matches are distributed among these distances:
44 11 0.04
45 24 0.10
46 64 0.25
47 63 0.25
48 22 0.09
49 33 0.13
50 32 0.13
51 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCACGATTATGAAAGCC
Found at i:17917839 original size:49 final size:47
Alignment explanation
Indices: 17917773--17917898 Score: 130
Period size: 47 Copynumber: 2.6 Consensus size: 47
17917763 TGTGAAAGCT
* * * * *
17917773 AGTGTAAGATCATGTCTGGGACATGGCATTC-GCATCAATTTTGAT-AGTC
1 AGTGTAAGACCAGGTCTGGGACATGGCA-TCAAC-TCAA--TGGATGAGCC
* *
17917822 AGTGTAAGACCAGGTCTGGGATATGGCATCAACTTAATGGATGAGCC
1 AGTGTAAGACCAGGTCTGGGACATGGCATCAACTCAATGGATGAGCC
*
17917869 AGTGTAAGACCAGGTCTGGGACATGTCATC
1 AGTGTAAGACCAGGTCTGGGACATGGCATC
17917899 GGTATTATAC
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
46 4 0.06
47 31 0.47
48 5 0.08
49 26 0.39
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (47 bp):
AGTGTAAGACCAGGTCTGGGACATGGCATCAACTCAATGGATGAGCC
Found at i:17920200 original size:41 final size:40
Alignment explanation
Indices: 17920048--17920217 Score: 152
Period size: 41 Copynumber: 4.2 Consensus size: 40
17920038 GCTAATCGGG
* *
17920048 GTCTAAATCTGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* *
17920089 G-CTAATAGCCGAACTTAGTTTCGAAGGGCTTTTTAGAGCCAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGT
* *
17920132 GTCATAA-CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGT
1 GTC-TAATCCGAG-CTTAGTCT-CGAAGGGCTTTTGAGCCAGT
* *
17920172 AGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCGGT
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
17920213 G-CTAA
1 GTCTAA
17920218 GAGTCAGACT
Statistics
Matches: 106, Mismatches: 11, Indels: 26
0.74 0.08 0.18
Matches are distributed among these distances:
39 7 0.07
40 14 0.13
41 49 0.46
42 23 0.22
43 9 0.08
44 1 0.01
45 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
Found at i:17938239 original size:46 final size:46
Alignment explanation
Indices: 17938189--17938364 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
17938179 TGGTTGAGCA
17938189 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17938235 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
17938280 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
17938328 CCCGAGCTCGTTGTGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17938365 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:17938346 original size:93 final size:93
Alignment explanation
Indices: 17938186--17938357 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
17938176 GGATGGTTGA
* *
17938186 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
17938251 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
17938279 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGTGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
17938344 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
17938358 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:17938908 original size:46 final size:46
Alignment explanation
Indices: 17938856--17938979 Score: 197
Period size: 46 Copynumber: 2.8 Consensus size: 46
17938846 TTTTTGTGTA
17938856 AATGATCTTATGGTATGGTGATGGAATGGTTGAGGAAATGCTTGAT
1 AATGATCTTATGGTATGGTGATGGAATGGTTGAGGAAATGCTTGAT
17938902 AATGATCTTATGGTATGGTGATGGAATGGTTGAGGAAATGCTTGAT
1 AATGATCTTATGGTATGGTGATGGAATGGTTGAGGAAATGCTTGAT
*
17938948 AATGA---TA---AATGGTGATGGAATGGTTGAGGAAA
1 AATGATCTTATGGTATGGTGATGGAATGGTTGAGGAAA
17938980 GGCTCAGTCA
Statistics
Matches: 77, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
40 24 0.31
43 2 0.03
46 51 0.66
ACGTcount: A:0.31, C:0.03, G:0.33, T:0.32
Consensus pattern (46 bp):
AATGATCTTATGGTATGGTGATGGAATGGTTGAGGAAATGCTTGAT
Found at i:17950271 original size:41 final size:39
Alignment explanation
Indices: 17950146--17950282 Score: 130
Period size: 40 Copynumber: 3.4 Consensus size: 39
17950136 CTCGCACAAG
* * * * * *
17950146 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTC-GGACTTAGCCCAGATATAGTCGCTAGCACAAAT
17950186 GCCTTCAGGACTTAGCCCAGATATAGTCGCTAGCACAAAT
1 GCCTTC-GGACTTAGCCCAGATATAGTCGCTAGCACAAAT
* * * * *
17950226 GCCTTCGGATCTTAGTCCGGATGTAGTTGCTTAGCACAAAA
1 GCCTTCGGA-CTTAGCCCAGATATAGTCGC-TAGCACAAAT
17950267 GCCTTCGGGACTTAGC
1 GCCTTC-GGACTTAGC
17950283 TCGGATATCA
Statistics
Matches: 81, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 3 0.04
40 55 0.68
41 20 0.25
42 3 0.04
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
GCCTTCGGACTTAGCCCAGATATAGTCGCTAGCACAAAT
Found at i:17950288 original size:41 final size:39
Alignment explanation
Indices: 17950163--17950290 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 39
17950153 GGTCTTAACC
* * * *
17950163 CGGATATGGTCACTAGCATAAATGCCTTCAGGACTTAGCC
1 CGGATATAGTCGCTAGCACAAATGCCTTC-GGACTTAGCT
*
17950203 CAGATATAGTCGCTAGCACAAATGCCTTCGGATCTTAG-T
1 CGGATATAGTCGCTAGCACAAATGCCTTCGGA-CTTAGCT
* * *
17950242 CCGGATGTAGTTGCTTAGCACAAAAGCCTTCGGGACTTAGCT
1 -CGGATATAGTCGC-TAGCACAAATGCCTTC-GGACTTAGCT
17950284 CGGATAT
1 CGGATAT
17950291 CATTCGAGTA
Statistics
Matches: 73, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
39 3 0.04
40 40 0.55
41 26 0.36
42 4 0.05
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (39 bp):
CGGATATAGTCGCTAGCACAAATGCCTTCGGACTTAGCT
Found at i:17952666 original size:11 final size:11
Alignment explanation
Indices: 17952650--17952675 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17952640 AAATTTGAGG
17952650 TTTTAAAATTA
1 TTTTAAAATTA
17952661 TTTTAAAATTA
1 TTTTAAAATTA
17952672 TTTT
1 TTTT
17952676 TGGTGTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATTA
Found at i:17964300 original size:33 final size:34
Alignment explanation
Indices: 17964246--17964310 Score: 89
Period size: 33 Copynumber: 1.9 Consensus size: 34
17964236 CTATTTCAAC
*
17964246 AAATATTAAAAAATTATAAAAATAAAATTTATTA
1 AAATATTAAAAAATTATAAAAATAAAAATTATTA
*
17964280 AAATTTTAAAAACA-TA-AAAAATAAAAATTAT
1 AAATATTAAAAA-ATTATAAAAATAAAAATTAT
17964311 AGAAAACTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 14 0.50
34 13 0.46
35 1 0.04
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (34 bp):
AAATATTAAAAAATTATAAAAATAAAAATTATTA
Found at i:17964365 original size:16 final size:16
Alignment explanation
Indices: 17964329--17964365 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
17964319 ATATTTTTAA
*
17964329 AAAAAATTAAAATTAT
1 AAAAAATTAAAACTAT
17964345 AAAAAATTAAAACTATT
1 AAAAAATTAAAACTA-T
17964362 AAAA
1 AAAA
17964366 GTTATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAAAATTAAAACTAT
Found at i:17964376 original size:25 final size:25
Alignment explanation
Indices: 17964334--17964381 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
17964324 TTTAAAAAAA
*
17964334 ATTAAAATTATAAAAAATTAAAACT
1 ATTAAAATTATAAAAAATAAAAACT
17964359 ATTAAAAGTTAT-AAAAATAAAAA
1 ATTAAAA-TTATAAAAAATAAAAA
17964382 TCAATCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (25 bp):
ATTAAAATTATAAAAAATAAAAACT
Found at i:17967661 original size:43 final size:43
Alignment explanation
Indices: 17967495--17967659 Score: 172
Period size: 43 Copynumber: 3.8 Consensus size: 43
17967485 ATCTGATATG
* * *
17967495 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAAT-TC
1 TGATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-ATGTC
* *
17967538 TGTTTTACGTGTAAGACCATGTCTGGGACATAGGCATCG-TGTC
1 TG-ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGATGTC
* * * * * * *
17967581 TGATTTCGTGTAAGACCCTGTCTGGGAAACTGACATTGATGTT
1 TGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGATGTC
* *
17967624 TGATTACATGTAAGACCATGTCTGGGACGTTGGCAT
1 TGATTACGTGTAAGACCATGTCTGGGACATTGGCAT
17967660 TGTATATGTT
Statistics
Matches: 98, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
42 29 0.30
43 38 0.39
44 31 0.32
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.32
Consensus pattern (43 bp):
TGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGATGTC
Found at i:17975588 original size:79 final size:80
Alignment explanation
Indices: 17975487--17975735 Score: 367
Period size: 79 Copynumber: 3.1 Consensus size: 80
17975477 TCCTCGTTCA
* * * **
17975487 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCACACGAATGCCTTCGGGACTTAACCCGGAT
17975551 TTAACAACTCGCACG
66 TTAACAACTCGCACG
* *
17975566 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCAGGACTTAACCCGGA-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCACACGAATGCCTTCGGGACTTAACCCGGAT
17975630 TTAACAACTCGCACG
66 TTAACAACTCGCACG
*
17975645 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCACACGAATGCCTTCGGGACTTAACCCGGAT
** * *
17975710 TTAGTATCTCGCACA
66 TTAACAACTCGCACG
*
17975725 AAGGCCTTCGG
1 AATGCCTTCGG
17975736 ATCTTAGTCC
Statistics
Matches: 155, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
79 111 0.72
80 44 0.28
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCACACGAATGCCTTCGGGACTTAACCCGGAT
TTAACAACTCGCACG
Found at i:17975721 original size:119 final size:118
Alignment explanation
Indices: 17975517--17975788 Score: 377
Period size: 119 Copynumber: 2.3 Consensus size: 118
17975507 CGGTTTTAGT
17975517 AACTCACACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
1 AACTCACACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
* *
17975582 AACCCGGATTTAACAACTCGCACGAATGCCTTCAGGA-CTTAACCCGGATTAAC
66 AACCCGGATTTAACAACTCGCACAAAGGCCTTC-GGATCTTAACCCGGATTAAC
*
17975635 AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACT
1 AACTCACAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACT
** * ** *
17975700 TAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGATCTTAGTCCGGATATATTC
65 TAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGATCTTAACCCGGAT-TA-AC
* * *
17975756 -ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AACTCA-CACAATGCCTTCGGGACTTAACCCGGA
17975789 CAGCATTCAA
Statistics
Matches: 136, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
118 11 0.08
119 94 0.69
120 27 0.20
121 4 0.03
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (118 bp):
AACTCACACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
AACCCGGATTTAACAACTCGCACAAAGGCCTTCGGATCTTAACCCGGATTAAC
Found at i:17975749 original size:40 final size:40
Alignment explanation
Indices: 17975487--17975735 Score: 376
Period size: 40 Copynumber: 6.3 Consensus size: 40
17975477 TCCTCGTTCA
* * * ** *
17975487 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
17975526 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
17975566 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
17975606 AATGCCTTCAGGACTTAACCCGGA-TTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
17975645 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
17975685 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
17975725 AAGGCCTTCGG
1 AATGCCTTCGG
17975736 ATCTTAGTCC
Statistics
Matches: 195, Mismatches: 13, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
39 71 0.36
40 124 0.64
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:17975797 original size:41 final size:41
Alignment explanation
Indices: 17975720--17975797 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
17975710 TTAGTATCTC
* * *
17975720 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
17975761 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
17975798 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:17983691 original size:120 final size:119
Alignment explanation
Indices: 17983469--17983731 Score: 316
Period size: 120 Copynumber: 2.2 Consensus size: 119
17983459 TCCTCGTTCA
* * **
17983469 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAACAACTCACACAATGCCTTCGGGACTTAACCCGGATT
* * * *
17983534 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA-ACAAC-TCGCAC
66 TAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATAC-ACTTAGCAC
* *
17983587 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAACAACTCACAC-AATGCCTTCGGGACTTAACCCGGA
** * ** *
17983652 TTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
64 TTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATATACACTTAGCAC
*
17983708 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
17983732 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 36 0.30
120 80 0.66
121 6 0.05
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAACAACTCACACAATGCCTTCGGGACTTAACCCGGATT
TAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATACACTTAGCAC
Found at i:17983692 original size:40 final size:40
Alignment explanation
Indices: 17983469--17983678 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
17983459 TCCTCGTTCA
* * * ** *
17983469 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
17983508 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
17983548 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
17983588 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
17983628 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
17983668 AAGGCCTTCGG
1 AATGCCTTCGG
17983679 ATCTTAGTCC
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 33 0.21
40 126 0.79
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:17983715 original size:80 final size:80
Alignment explanation
Indices: 17983472--17983731 Score: 267
Period size: 80 Copynumber: 3.3 Consensus size: 80
17983462 TCGTTCAAAT
* * * ** * * *
17983472 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
17983536 ACAACTCGCACGAAT
66 ACAACTAGCACGAAA
* * *
17983551 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
17983616 ACAACTCGCACGAAT
66 ACAACTAGCACGAAA
** * **
17983631 GCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATAT
*
17983695 ATTC-ACTTAGCAC-AAA
65 A-ACAAC-TAGCACGAAA
*
17983711 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
17983732 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
79 33 0.21
80 120 0.75
81 6 0.04
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
ACAACTAGCACGAAA
Found at i:17983740 original size:41 final size:41
Alignment explanation
Indices: 17983663--17983740 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
17983653 TTAGTATCTC
* * *
17983663 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
17983704 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
17983741 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:17990472 original size:41 final size:41
Alignment explanation
Indices: 17990415--17990536 Score: 190
Period size: 41 Copynumber: 3.0 Consensus size: 41
17990405 AAAGGCACCA
* *
17990415 GTGGATCCACGGTCGTCAAGCCACCATGCGATCCTTAATTG
1 GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATTG
* *
17990456 GTGGATCCACAGTCGTCAAGCAACCATGCGATCCTCAATCG
1 GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATTG
* *
17990497 GTGGATCCATGGTCATCAAGCAACCATGCGATCCTCAATT
1 GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATT
17990537 TCTTCCTCCG
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (41 bp):
GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATTG
Found at i:17990825 original size:27 final size:27
Alignment explanation
Indices: 17990773--17991213 Score: 187
Period size: 27 Copynumber: 16.4 Consensus size: 27
17990763 CTTCACCCTA
* * *
17990773 CAAGGGTGTTTTGGTAAATATACAAAT
1 CAAGGGTATTTCGGTAAATTTACAAAT
* *
17990800 CAAGGGTATTTCGGTAAATTTGCAAAC
1 CAAGGGTATTTCGGTAAATTTACAAAT
* ** *
17990827 CAATGGTATTTCTATAATTTTA-AAAGT
1 CAAGGGTATTTCGGTAAATTTACAAA-T
* * **
17990854 CAAAGGTATTTCTGTAAATTTGTAAAT
1 CAAGGGTATTTCGGTAAATTTACAAAT
* * * * *
17990881 TAGGGGTATTTCTGTAATTTTCCAAAT
1 CAAGGGTATTTCGGTAAATTTACAAAT
* * *
17990908 CAAGGGTGTTTCGGTAATTTTCCAAAT
1 CAAGGGTATTTCGGTAAATTTACAAAT
* * * *
17990935 CAGGGGTATTTTGGTAATTTTAAAAAT
1 CAAGGGTATTTCGGTAAATTTACAAAT
** ** * *
17990962 CAAGGGTATTTTAGTATTTTTATAAGT
1 CAAGGGTATTTCGGTAAATTTACAAAT
* * * * * **
17990989 CGAGGGCATTTCAGTAATTTTATAGGT
1 CAAGGGTATTTCGGTAAATTTACAAAT
* * * *
17991016 CGAGGGTATTTCAGTAATTTTACAAGT
1 CAAGGGTATTTCGGTAAATTTACAAAT
** * * * *
17991043 TGAGTGTA-TTCTAGTAATTTTACAAGT
1 CAAGGGTATTTC-GGTAAATTTACAAAT
17991070 -AGAGGG-ATTTCGGT-AATTTCACAAAT
1 CA-AGGGTATTTCGGTAAATTT-ACAAAT
* * * *
17991096 TAAGGGGATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTCGGTAAATTTACAAAT
* * * * *
17991122 CCAGGGTTATTTTGGTAATTTTGCTAAT
1 CAAGGG-TATTTCGGTAAATTTACAAAT
* * * * *
17991150 CGAGGGTATTTTGGTAATTTTGCAAAC
1 CAAGGGTATTTCGGTAAATTTACAAAT
* * *
17991177 CAAGGGTATTT-AGT-AATTTTCTAAAC
1 CAAGGGTATTTCGGTAAATTTAC-AAAT
17991203 CAAGGGTATTT
1 CAAGGGTATTT
17991214 TAGTAACACT
Statistics
Matches: 338, Mismatches: 64, Indels: 25
0.79 0.15 0.06
Matches are distributed among these distances:
25 9 0.03
26 39 0.12
27 278 0.82
28 12 0.04
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAAATTTACAAAT
Found at i:17990969 original size:81 final size:82
Alignment explanation
Indices: 17990776--17991219 Score: 254
Period size: 81 Copynumber: 5.5 Consensus size: 82
17990766 CACCCTACAA
* * * * * * * * *
17990776 GGGTGTTTTGGTAAATATACAAATCAAGGGTATTTC-GGTAAATTTGCAAACCAATGGTATTTCT
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCTAGTAATTTTACAAATCAAGGGTATTTCG
* * *
17990840 ATAATTTT-AAAAGTCAA
66 GTAATTTTCCAAA-TCAG
* * ** * * * *
17990857 AGGTATTTCT-GTAAATTTGTAAATTAGGGGTATTTCT-GTAATTTTCCAAATCAAGGGTGTTTC
1 GGGTATTT-TGGTAATTTTACAAATCAAGGGTATTTCTAGTAATTTTACAAATCAAGGGTATTTC
17990920 GGTAATTTTCCAAATCAG
65 GGTAATTTTCCAAATCAG
* * * * * * *
17990938 GGGTATTTTGGTAATTTTAAAAATCAAGGGTATTT-TAGTATTTTTATAAGTCGAGGGCATTTCA
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCTAGTAATTTTACAAATCAAGGGTATTTCG
** **
17991002 GTAATTTTATAGGTC-G
66 GTAATTTTCCAAATCAG
** * ** * *
17991018 AGGGTATTTCAGTAATTTTACAAGTTGAGTGTA-TTCTAGTAATTTTACAAGT-AGAGGG-ATTT
1 -GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCTAGTAATTTTACAAATCA-AGGGTATTT
*
17991080 CGGTAA-TTTCACAAATTAAG
64 CGGTAATTTTC-CAAA-TCAG
* * * * * *
17991100 GGG-ATTTTGGTAATTTTACAAA-CCAGGGTTATTT-TGGTAATTTTGCTAATCGAGGGTATTTT
1 GGGTATTTTGGTAATTTTACAAATCAAGGG-TATTTCTAGTAATTTTACAAATCAAGGGTATTTC
* * *
17991162 GGTAATTTTGCAAACCAA
65 GGTAATTTTCCAAATCAG
* *
17991180 GGGTA-TTTAGTAATTTT-CTAAACCAAGGGTATTT-TAGTAA
1 GGGTATTTTGGTAATTTTAC-AAATCAAGGGTATTTCTAGTAA
17991220 CACTACCCTA
Statistics
Matches: 275, Mismatches: 69, Indels: 39
0.72 0.18 0.10
Matches are distributed among these distances:
79 7 0.03
80 77 0.28
81 183 0.67
82 8 0.03
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (82 bp):
GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCTAGTAATTTTACAAATCAAGGGTATTTCG
GTAATTTTCCAAATCAG
Found at i:17991113 original size:53 final size:54
Alignment explanation
Indices: 17991001--17991120 Score: 134
Period size: 53 Copynumber: 2.2 Consensus size: 54
17990991 AGGGCATTTC
* * * * * * * *
17991001 AGTAATTTTATAGGTCGAGGGTATTTCAGTAATTTTACAAGTTGAGTGTATTCT
1 AGTAATTTTACAAGTAGAGGGTATTTCAGTAATTTCACAAATTAAGGGGATTCT
* *
17991055 AGTAATTTTACAAGTAGAGGG-ATTTCGGTAATTTCACAAATTAAGGGGATTTT
1 AGTAATTTTACAAGTAGAGGGTATTTCAGTAATTTCACAAATTAAGGGGATTCT
*
17991108 GGTAATTTTACAA
1 AGTAATTTTACAA
17991121 ACCAGGGTTA
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
53 37 0.67
54 18 0.33
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.39
Consensus pattern (54 bp):
AGTAATTTTACAAGTAGAGGGTATTTCAGTAATTTCACAAATTAAGGGGATTCT
Found at i:17991233 original size:27 final size:27
Alignment explanation
Indices: 17991203--17991313 Score: 132
Period size: 27 Copynumber: 4.1 Consensus size: 27
17991193 TTTTCTAAAC
* *
17991203 CAAGGGTATTTTAGTAACACTACCCTA
1 CAAGGGCATTTCAGTAACACTACCCTA
*
17991230 CAAGGGCATTTCAGTAATACTACCCTA
1 CAAGGGCATTTCAGTAACACTACCCTA
* ** *
17991257 CAGGGGCATTTCAGTAATTCTACCCTG
1 CAAGGGCATTTCAGTAACACTACCCTA
* * *
17991284 CAGGGGCATTTCAGTAACTCTATCCTA
1 CAAGGGCATTTCAGTAACACTACCCTA
17991311 CAA
1 CAA
17991314 ATATGAGATT
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (27 bp):
CAAGGGCATTTCAGTAACACTACCCTA
Found at i:17993464 original size:22 final size:22
Alignment explanation
Indices: 17993439--17993491 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
17993429 GACACACAAT
*
17993439 CATAATCAGGTTGGCACATAGC
1 CATAATCAGGTTGGCACAAAGC
* *
17993461 CAT-ATGTAGGTTGGCGCAAAGC
1 CATAAT-CAGGTTGGCACAAAGC
17993483 CATAATCAG
1 CATAATCAG
17993492 AATAATTGGC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.08
22 21 0.84
23 2 0.08
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.23
Consensus pattern (22 bp):
CATAATCAGGTTGGCACAAAGC
Found at i:17993693 original size:41 final size:41
Alignment explanation
Indices: 17993636--17993714 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
17993626 AAGCCCCCAG
* *
17993636 TGGATCCACGGTCGTCAAGCAACCATTCGATCCTCAATCGA
1 TGGATCCACGGTCGTCAAGCAACCATGCCATCCTCAATCGA
17993677 TGGATCCACGGTCGTCAAGCAACCATGCCATCCTCAAT
1 TGGATCCACGGTCGTCAAGCAACCATGCCATCCTCAAT
17993715 TTCTTCCTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.22
Consensus pattern (41 bp):
TGGATCCACGGTCGTCAAGCAACCATGCCATCCTCAATCGA
Found at i:17994004 original size:27 final size:27
Alignment explanation
Indices: 17993952--17994369 Score: 279
Period size: 27 Copynumber: 15.4 Consensus size: 27
17993942 TTTCACCCTA
* * * * *
17993952 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
17993979 CAAGGGTATTTCAGTAATTTTGCAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* ** *
17994006 CAATGGTATTTTTGTAATTTTGA-AAGT
1 CAAGGGTATTTCGGTAATTTT-ACAAAT
* ** **
17994033 CAAAGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
*
17994060 C-AGGGTATTTCTGTAATTTT-CTAAAT
1 CAAGGGTATTTCGGTAATTTTAC-AAAT
* *
17994086 CAAGGGTATTTCAGTAATTTTCCAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * * *
17994113 CAGGGGTATTTTTGATAATTTTAAAAAT
1 CAAGGGTA-TTTCGGTAATTTTACAAAT
** * *
17994141 TGAGGGTATTTCGGTAATTTTATAAGT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * * **
17994168 TAAGGATATTTTGGTAATTTTACAGGT
1 CAAGGGTATTTCGGTAATTTTACAAAT
** * *
17994195 TGAGGGTATTTCTGTAATTTTACAAGT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
17994222 CGAGGGTATTTCGGTAATTTTACAAGT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
17994249 CGAA-GGTATTTCAGTAATTTCACAAAT
1 C-AAGGGTATTTCGGTAATTTTACAAAT
* *
17994276 CAGGGGTATTTTGGTAATTTTACAAAAT
1 CAAGGGTATTTCGGTAATTTTAC-AAAT
* * *
17994304 -AAGGGGTATTTTGGTAATTTTGCTAAT
1 CAA-GGGTATTTCGGTAATTTTACAAAT
* * * ** * *
17994331 CTAGGGTATTTTGGAAATTTTGTATAC
1 CAAGGGTATTTCGGTAATTTTACAAAT
17994358 CAAGGGTATTTC
1 CAAGGGTATTTC
17994370 AATAATTCTA
Statistics
Matches: 317, Mismatches: 63, Indels: 22
0.79 0.16 0.05
Matches are distributed among these distances:
26 23 0.07
27 249 0.79
28 45 0.14
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAT
Found at i:17994077 original size:80 final size:82
Alignment explanation
Indices: 17993981--17994341 Score: 242
Period size: 82 Copynumber: 4.4 Consensus size: 82
17993971 CTACAAACCA
* ** *
17993981 AGGGTATTTCAGTAATTTTGC-AAATCAATGGTATTTTTGTAATTTT-GAAAGTCAAAGGTATTT
1 AGGGTATTTCAGTAATTTT-CTAAATCAAGGGTATTTCAGTAATTTTCCAAA-TCAAAGGTATTT
**
17994044 TTG-TAATTTTGTAAA-TC
64 TTGATAATTTTAAAAATTC
* **
17994061 AGGGTATTTCTGTAATTTTCTAAATCAAGGGTATTTCAGTAATTTTCCAAATCAGGGGTATTTTT
1 AGGGTATTTCAGTAATTTTCTAAATCAAGGGTATTTCAGTAATTTTCCAAATCAAAGGTATTTTT
*
17994126 GATAATTTTAAAAATTG
66 GATAATTTTAAAAATTC
* * * * * ** * ** ** * *
17994143 AGGGTATTTCGGTAATTTTATAAGTTAAGGATATTTTGGTAATTTTACAGGTTGAGGGTATTTCT
1 AGGGTATTTCAGTAATTTTCTAAATCAAGGGTATTTCAGTAATTTTCCAAATCAAAGGTATTTTT
* *
17994208 G-TAATTTT-ACAAGTC
66 GATAATTTTAAAAATTC
* * **
17994223 GAGGGTATTTCGGTAATTTTAC-AAGTCGAA-GGTATTTCAGTAA-TTTCACAAATCAGGGGTA-
1 -AGGGTATTTCAGTAATTTT-CTAAATC-AAGGGTATTTCAGTAATTTTC-CAAATCAAAGGTAT
* *
17994284 TTTTGGTAATTTTACAAAA-TA
62 TTTTGATAATTTTA-AAAATTC
** *
17994305 AGGGGTATTTTGGTAATTTTGCT-AATCTAGGGTATTT
1 A-GGGTATTTCAGTAATTTT-CTAAATCAAGGGTATTT
17994342 TGGAAATTTT
Statistics
Matches: 222, Mismatches: 45, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
79 1 0.00
80 64 0.29
81 70 0.32
82 84 0.38
83 3 0.01
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.42
Consensus pattern (82 bp):
AGGGTATTTCAGTAATTTTCTAAATCAAGGGTATTTCAGTAATTTTCCAAATCAAAGGTATTTTT
GATAATTTTAAAAATTC
Found at i:17994395 original size:27 final size:27
Alignment explanation
Indices: 17994365--17994465 Score: 130
Period size: 27 Copynumber: 3.7 Consensus size: 27
17994355 TACCAAGGGT
* * *
17994365 ATTTCAATAATTCTACTCTATAGGGGC
1 ATTTCAGTAATTCTACCCTACAGGGGC
* * *
17994392 ATTTTAGTAATTCTATCCTACAGAGGC
1 ATTTCAGTAATTCTACCCTACAGGGGC
* *
17994419 ATTTCAGTAATTCTACCCTACAAGGAC
1 ATTTCAGTAATTCTACCCTACAGGGGC
17994446 ATTTCAGTAATTCTACCCTA
1 ATTTCAGTAATTCTACCCTA
17994466 TAGATATGAG
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.36
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTACAGGGGC
Found at i:17998810 original size:12 final size:12
Alignment explanation
Indices: 17998793--17998821 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
17998783 CTGTAAAAAG
17998793 AATTATTTATGA
1 AATTATTTATGA
17998805 AATTATTTATGA
1 AATTATTTATGA
17998817 AATTA
1 AATTA
17998822 ATTGTAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
AATTATTTATGA
Found at i:17998996 original size:23 final size:23
Alignment explanation
Indices: 17998970--17999016 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
17998960 ATACTTGTGT
*
17998970 TGGATTAATTACATTTTTTTAAC
1 TGGATTAATTACATTTTCTTAAC
17998993 TGGATTAATTACATTTTCTTAAC
1 TGGATTAATTACATTTTCTTAAC
17999016 T
1 T
17999017 TAGAATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.51
Consensus pattern (23 bp):
TGGATTAATTACATTTTCTTAAC
Found at i:18010525 original size:3 final size:3
Alignment explanation
Indices: 18010517--18010542 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18010507 ATAAAAATAA
18010517 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
18010543 GAGTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:18014302 original size:17 final size:17
Alignment explanation
Indices: 18014280--18014312 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
18014270 CAGTAACATT
18014280 AAAATGCAATGACAATA
1 AAAATGCAATGACAATA
18014297 AAAATGCAATGACAAT
1 AAAATGCAATGACAAT
18014313 GTTCACTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.18
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:18021638 original size:40 final size:39
Alignment explanation
Indices: 18021576--18021756 Score: 222
Period size: 40 Copynumber: 4.6 Consensus size: 39
18021566 TATTCGGATG
*
18021576 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCTAGTTACT
1 ATAA-CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
18021615 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
18021655 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAA-CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
18021695 ATAACTGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAAC-GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* * **
18021735 ATATCCGGCTAAACCCCGAAGG
1 ATAACGGGCTAAGTCCCGAAGG
18021757 TACTTGGTTT
Statistics
Matches: 125, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
39 29 0.23
40 96 0.77
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATAACGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:18029729 original size:40 final size:40
Alignment explanation
Indices: 18029528--18029715 Score: 306
Period size: 40 Copynumber: 4.7 Consensus size: 40
18029518 ATTCGGATTA
*
18029528 ATAACCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
18029567 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
18029607 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
18029647 ATAACCGGGCTATGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
18029687 ATAACAGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
18029716 AGTGAGTAGC
Statistics
Matches: 138, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 13 0.09
40 125 0.91
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:18029729 original size:80 final size:80
Alignment explanation
Indices: 18029528--18029748 Score: 313
Period size: 80 Copynumber: 2.8 Consensus size: 80
18029518 ATTCGGATTA
*
18029528 ATAACCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
18029592 TTTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* * * *
18029607 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
18029672 ATTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* * * **
18029687 ATAACAGGGCTAAGTCCCGAAGGCATTTGAGTGAG-TAGCTATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
18029749 TACTTGGTTT
Statistics
Matches: 125, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
79 28 0.22
80 97 0.78
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGTTACT
Found at i:18031821 original size:43 final size:43
Alignment explanation
Indices: 18031656--18031824 Score: 135
Period size: 43 Copynumber: 4.0 Consensus size: 43
18031646 ATAAGCTTGC
* * * * * *
18031656 ACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCATAA-
1 ACAATGCCAATGTCCCAGACATGATCTTACACGTAATCACAAT
* * * * *
18031697 ATCGATGCCATTGTTCCAGACATGATCTTACACGAAATCATAAT
1 A-CAATGCCAATGTCCCAGACATGATCTTACACGTAATCACAAT
* * * *
18031741 ACGATGCCAATGTCCCAAACATGGTCTTACACATAATCACAAT
1 ACAATGCCAATGTCCCAGACATGATCTTACACGTAATCACAAT
* *** *
18031784 ACAATGCTAATGTTTTAGACATGATCTTACATGTAATCACA
1 ACAATGCCAATGTCCCAGACATGATCTTACACGTAATCACA
18031825 TCTCGATAAC
Statistics
Matches: 100, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
41 1 0.01
42 6 0.06
43 92 0.92
44 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (43 bp):
ACAATGCCAATGTCCCAGACATGATCTTACACGTAATCACAAT
Found at i:18036961 original size:40 final size:38
Alignment explanation
Indices: 18036842--18036975 Score: 223
Period size: 39 Copynumber: 3.4 Consensus size: 38
18036832 AACCCAAGTA
*
18036842 CCTTCGGGAATTAGCCGGATATAGCAACTAGCACAATTG
1 CCTTCGGGACTTAGCCGGATATAG-AACTAGCACAATTG
18036881 CCTTCGGGACTTAGCCTGGATATAGAACTAGCACAATTG
1 CCTTCGGGACTTAGCC-GGATATAGAACTAGCACAATTG
18036920 CCTTCGGGACTTAGGCCGGATATAGTAACTAGCACAATTG
1 CCTTCGGGACTTA-GCCGGATATAG-AACTAGCACAATTG
18036960 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
18036976 CGGTTATCAT
Statistics
Matches: 91, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
39 53 0.58
40 38 0.42
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.25
Consensus pattern (38 bp):
CCTTCGGGACTTAGCCGGATATAGAACTAGCACAATTG
Found at i:18038506 original size:13 final size:13
Alignment explanation
Indices: 18038488--18038513 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18038478 TATTTTATTT
18038488 TTAACATAAAATA
1 TTAACATAAAATA
18038501 TTAACATAAAATA
1 TTAACATAAAATA
18038514 ATTATAATAT
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:18041635 original size:40 final size:40
Alignment explanation
Indices: 18041568--18041747 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
18041558 CGAATGATAC
* * *
18041568 CCGGGCGAAGTCCCGAAGGCTTTTGTGCTAGCGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATAT
* * * * ***
18041608 CTGGACTAAGATCCGAAGGCATTTGTGCGAGTTTCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATAT
18041648 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATAT
* * * *
18041688 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATAT
18041728 CCGGGCTAAGACCCGAAGGC
1 CCGGGCTAAGACCCGAAGGC
18041748 CTTGTGTGAG
Statistics
Matches: 118, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 118 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATAT
Found at i:18058790 original size:10 final size:10
Alignment explanation
Indices: 18058775--18058800 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
18058765 TTCGGGTATG
18058775 CTCTTTCTCT
1 CTCTTTCTCT
18058785 CTCTTTCTCT
1 CTCTTTCTCT
18058795 CTCTTT
1 CTCTTT
18058801 ATCTTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
CTCTTTCTCT
Found at i:18059553 original size:18 final size:18
Alignment explanation
Indices: 18059526--18059571 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
18059516 CTGGGCTACA
18059526 TGGG-CCACATAGGCGTG
1 TGGGCCCACATAGGCGTG
18059543 TGGGCCCACATAGGCGTG
1 TGGGCCCACATAGGCGTG
18059561 TGGGCCCACAT
1 TGGGCCCACAT
18059572 GGGCTCGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 4 0.14
18 24 0.86
ACGTcount: A:0.17, C:0.28, G:0.37, T:0.17
Consensus pattern (18 bp):
TGGGCCCACATAGGCGTG
Found at i:18067143 original size:29 final size:29
Alignment explanation
Indices: 18067080--18067187 Score: 128
Period size: 29 Copynumber: 3.8 Consensus size: 29
18067070 TTCACATACC
* * *
18067080 TGTATCTGGCCCACTAAGCCC-AATCATA
1 TGTATATGGCCCATTAAGCCCAAATCACA
* *
18067108 TTTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAAGCCCAAATCACA
* * *
18067137 TGTATATGGTCCTTTAGGCCCAAATCACA
1 TGTATATGGCCCATTAAGCCCAAATCACA
*
18067166 TTTATATGGCCCATTAAGCCCA
1 TGTATATGGCCCATTAAGCCCA
18067188 GTCACATTCA
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 17 0.25
29 50 0.75
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.29
Consensus pattern (29 bp):
TGTATATGGCCCATTAAGCCCAAATCACA
Found at i:18075423 original size:27 final size:28
Alignment explanation
Indices: 18075391--18075632 Score: 216
Period size: 27 Copynumber: 9.0 Consensus size: 28
18075381 CCTTAATCGA
* *
18075391 TAAAATGACTA-CTTTGCCCTTATGAGG
1 TAAAATGACTAGTTTTGCCCTTATGTGG
* *
18075418 TGAAATGAC-AGTTTTGCCCTTATATGG
1 TAAAATGACTAGTTTTGCCCTTATGTGG
*
18075445 TAAAATGAC-AGTTTTGCCCCTA-GTTGG
1 TAAAATGACTAGTTTTGCCCTTATG-TGG
* *
18075472 TGAAATGAC-AGTTTTGCCCTTATGAGG
1 TAAAATGACTAGTTTTGCCCTTATGTGG
* * *
18075499 TGAAATAACT-GTTTTGCTCTTATGTGG
1 TAAAATGACTAGTTTTGCCCTTATGTGG
*
18075526 TAAAATGA-TAGTTTTGCCCCTATGTGG
1 TAAAATGACTAGTTTTGCCCTTATGTGG
* *
18075553 TAAAATGACTA-TTTTTCCTTTATGTGG
1 TAAAATGACTAGTTTTGCCCTTATGTGG
*** ***
18075580 TAAAATGACT-GAAATGCCCTTACAAGG
1 TAAAATGACTAGTTTTGCCCTTATGTGG
* *
18075607 TAAAGTGACT-GTTTTGCCCCTATGTG
1 TAAAATGACTAGTTTTGCCCTTATGTG
18075633 AGGTATTTAT
Statistics
Matches: 172, Mismatches: 36, Indels: 14
0.77 0.16 0.06
Matches are distributed among these distances:
26 2 0.01
27 167 0.97
28 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (28 bp):
TAAAATGACTAGTTTTGCCCTTATGTGG
Found at i:18075528 original size:81 final size:81
Alignment explanation
Indices: 18075403--18075632 Score: 257
Period size: 81 Copynumber: 2.8 Consensus size: 81
18075393 AAATGACTAC
*
18075403 TTTGCCCTTATGAGGTGAAATGACAGTTTTGCCCTTATATGGTAAAATGACAGTTTTGCCCCTA-
1 TTTGCCCTTATGAGGTGAAATAACAGTTTTGCCCTTATATGGTAAAATGACAGTTTTGCCCCTAT
*
18075467 GTTGGTGAAATGACAGT
66 G-TGGTAAAATGACAGT
* * * *
18075484 TTTGCCCTTATGAGGTGAAATAACTGTTTTGCTCTTATGTGGTAAAATGATAGTTTTGCCCCTAT
1 TTTGCCCTTATGAGGTGAAATAACAGTTTTGCCCTTATATGGTAAAATGACAGTTTTGCCCCTAT
18075549 GTGGTAAAATGACTA-T
66 GTGGTAAAATGAC-AGT
* * * * * * *** * * * *
18075565 TTTTCCTTTATGTGGTAAAATGACTGAAATGCCCTTACAAGGTAAAGTGACTGTTTTGCCCCTAT
1 TTTGCCCTTATGAGGTGAAATAACAGTTTTGCCCTTATATGGTAAAATGACAGTTTTGCCCCTAT
18075630 GTG
66 GTG
18075633 AGGTATTTAT
Statistics
Matches: 126, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
81 124 0.98
82 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.37
Consensus pattern (81 bp):
TTTGCCCTTATGAGGTGAAATAACAGTTTTGCCCTTATATGGTAAAATGACAGTTTTGCCCCTAT
GTGGTAAAATGACAGT
Found at i:18076007 original size:18 final size:18
Alignment explanation
Indices: 18075984--18076047 Score: 83
Period size: 18 Copynumber: 3.6 Consensus size: 18
18075974 ATGTTTAAAT
*
18075984 TGTTACTACACTAATTAC
1 TGTTACTACACTGATTAC
*
18076002 TGTTACTGCACTGATTAC
1 TGTTACTACACTGATTAC
* * *
18076020 TGTTACTGCCCTGTTTAC
1 TGTTACTACACTGATTAC
18076038 TGTTACTACA
1 TGTTACTACA
18076048 AGAGGCCAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTACTACACTGATTAC
Found at i:18089258 original size:27 final size:27
Alignment explanation
Indices: 18089194--18089453 Score: 145
Period size: 27 Copynumber: 9.7 Consensus size: 27
18089184 TTAGTTTACC
* * *
18089194 AAATTACCCAAATACCC-TCGATTAG-A
1 AAATTACCAAAATACCCTTAG-TTTGTA
*
18089220 AAATTACCAAAATACCCTTAGTTTGTG
1 AAATTACCAAAATACCCTTAGTTTGTA
*
18089247 AAATTACTAAAATACCCCTTA-TTTGTA
1 AAATTACCAAAATA-CCCTTAGTTTGTA
* * *
18089274 AAATTACC-ATATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
* * *
18089300 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCTTAGTTTGTA
** * **
18089327 AAATTACTGAAATACCC-TCGACCTGTA
1 AAATTACCAAAATACCCTTAG-TTTGTA
*** * **
18089354 AAATTATTGAAATACCCTCAACTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
* *
18089381 AAATTACCAAATTACCCTCTA-TTTATA
1 AAATTACCAAAATACCCT-TAGTTTGTA
* **** * **
18089408 GAATTACCGTTTTACCCTTAATTTACA
1 AAATTACCAAAATACCCTTAGTTTGTA
*
18089435 AAATTACCGAAATACCCTT
1 AAATTACCAAAATACCCTT
18089454 GTAGGGTAGA
Statistics
Matches: 183, Mismatches: 42, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
25 4 0.02
26 40 0.22
27 132 0.72
28 7 0.04
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTAGTTTGTA
Found at i:18089260 original size:53 final size:53
Alignment explanation
Indices: 18089194--18089343 Score: 151
Period size: 53 Copynumber: 2.8 Consensus size: 53
18089184 TTAGTTTACC
* * *
18089194 AAATTACCCAAATA-CCCTCGATTAG-AAAATTACCAAAATACCCTTAGTTTGTG
1 AAATTACCAAAATACCCCT-GATTAGTAAAATTACC-AAATACCCCTAGTTTGTA
* * * * *
18089247 AAATTACTAAAATACCCCTTATTTGTAAAATTACCATATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTAGTAAAATTACCAAATACCCCTAGTTTGTA
* * * *
18089300 AAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCC
1 AAATTACCAAAATACCCCTGATTAGTAAAATTAC-CAAATACCC
18089344 TCGACCTGTA
Statistics
Matches: 81, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
53 61 0.75
54 20 0.25
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (53 bp):
AAATTACCAAAATACCCCTGATTAGTAAAATTACCAAATACCCCTAGTTTGTA
Found at i:18089466 original size:27 final size:27
Alignment explanation
Indices: 18089436--18089578 Score: 151
Period size: 27 Copynumber: 5.3 Consensus size: 27
18089426 TAATTTACAA
18089436 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
18089463 AATTATCAAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
18089490 AATTACTGAAATACCCTTGCAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
18089517 AAATACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * * *
18089544 AATTACCCAGATACCTTTTGTGGGGTAA
1 AATTACCGAAATACC-CTTGTAGGGTAG
18089572 AATTACC
1 AATTACC
18089579 ATTTTTCCCA
Statistics
Matches: 92, Mismatches: 23, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
27 78 0.85
28 14 0.15
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:18089558 original size:54 final size:54
Alignment explanation
Indices: 18089434--18089550 Score: 171
Period size: 54 Copynumber: 2.2 Consensus size: 54
18089424 CTTAATTTAC
* * * *
18089434 AAAATTACCGAAATACCCTTGTAGGGTAGAATTATCAAAATACCCCTGTAGGGT
1 AAAATTACCGAAATACCCTTGCAGGGTAGAAATACCAAAATACCCCTATAGGGT
* *
18089488 AAAATTACTGAAATACCCTTGCAGGGTAGAAATACCGAAATACCCCTATAGGGT
1 AAAATTACCGAAATACCCTTGCAGGGTAGAAATACCAAAATACCCCTATAGGGT
*
18089542 AGAATTACC
1 AAAATTACC
18089551 CAGATACCTT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (54 bp):
AAAATTACCGAAATACCCTTGCAGGGTAGAAATACCAAAATACCCCTATAGGGT
Found at i:18090208 original size:27 final size:27
Alignment explanation
Indices: 18090178--18090285 Score: 121
Period size: 27 Copynumber: 4.0 Consensus size: 27
18090168 ATTCTGTTAA
* *
18090178 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
*
18090205 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
* * *
18090232 GTGGCTCTGTCACAATATCTATATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
18090259 GTGACTCTGTCACAATATCT-TTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
18090285 G
1 G
18090286 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
26 13 0.18
27 51 0.72
28 7 0.10
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:18090410 original size:6 final size:6
Alignment explanation
Indices: 18090399--18090522 Score: 58
Period size: 6 Copynumber: 20.2 Consensus size: 6
18090389 GGGATTGCAT
* * *
18090399 TTCTGA TTCTGA TTCTG- TCATCTGA TACTGA TTCTGA TTCTG- TCACCTAA
1 TTCTGA TTCTGA TTCTGA T--TCTGA TTCTGA TTCTGA TTCTGA T--TCTGA
* * * * * *
18090449 TTTTGA TTCTGA TTTTGA TTCTGA TTTTG- TCACCTGA TTCTGG TTCTAA
1 TTCTGA TTCTGA TTCTGA TTCTGA TTCTGA T--TCTGA TTCTGA TTCTGA
* *
18090498 TTCTCA TTTTGA TTCT-A GTTCTGA T
1 TTCTGA TTCTGA TTCTGA -TTCTGA T
18090523 AATGTTTCTT
Statistics
Matches: 86, Mismatches: 21, Indels: 22
0.67 0.16 0.17
Matches are distributed among these distances:
5 4 0.05
6 70 0.81
7 9 0.10
8 3 0.03
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.50
Consensus pattern (6 bp):
TTCTGA
Found at i:18090435 original size:25 final size:25
Alignment explanation
Indices: 18090401--18090462 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
18090391 GATTGCATTT
* *
18090401 CTGATTCTGATTCTGTCATCTGATA
1 CTGATTCTGATTCTGTCACCTAATA
*
18090426 CTGATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGTCACCTAATA
*
18090451 TTGATTCTGATT
1 CTGATTCTGATT
18090463 TTGATTCTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTAATA
Found at i:18090511 original size:37 final size:37
Alignment explanation
Indices: 18090429--18090513 Score: 98
Period size: 37 Copynumber: 2.3 Consensus size: 37
18090419 TCTGATACTG
* * * *
18090429 ATTCTGATTCTGTCACCTAATTTTGATTCTGATTTTG
1 ATTCTGATTCTGTCACCTAATTCTGATTCTAATTCTC
* * *
18090466 ATTCTGATTTTGTCACCTGATTCTGGTTCTAATTCTC
1 ATTCTGATTCTGTCACCTAATTCTGATTCTAATTCTC
*
18090503 ATTTTGATTCT
1 ATTCTGATTCT
18090514 AGTTCTGATA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.18, C:0.18, G:0.13, T:0.52
Consensus pattern (37 bp):
ATTCTGATTCTGTCACCTAATTCTGATTCTAATTCTC
Found at i:18093695 original size:22 final size:23
Alignment explanation
Indices: 18093653--18093700 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
18093643 TTGCAAGGTA
*
18093653 GAATTTGTGTACCGAAAAATGAT
1 GAATTTGTGTACCAAAAAATGAT
*
18093676 GAATTTGTGTA-TAAAAAATGAT
1 GAATTTGTGTACCAAAAAATGAT
18093698 GAA
1 GAA
18093701 CTTATTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.44, C:0.04, G:0.21, T:0.31
Consensus pattern (23 bp):
GAATTTGTGTACCAAAAAATGAT
Found at i:18106775 original size:45 final size:44
Alignment explanation
Indices: 18106687--18106789 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 44
18106677 CTACTGTTAT
* *
18106687 TGTTACTGTTACTGTTACCGTTCGATACTTTGTGTGTCGAATAC
1 TGTTACTGTTACTGTTACAGTTCGACACTTTGTGTGTCGAATAC
* *
18106731 TGTTACCGTTACTGTTACAGATTC-AGCACTTTGTGTGTTGAATAC
1 TGTTACTGTTACTGTTACAG-TTCGA-CACTTTGTGTGTCGAATAC
18106776 TGTTACTGTTACTG
1 TGTTACTGTTACTG
18106790 CTACTGCTAC
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
44 19 0.37
45 33 0.63
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.43
Consensus pattern (44 bp):
TGTTACTGTTACTGTTACAGTTCGACACTTTGTGTGTCGAATAC
Found at i:18110433 original size:8 final size:8
Alignment explanation
Indices: 18110420--18110451 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
18110410 AAAGCAGAAT
18110420 TGCCGAAA
1 TGCCGAAA
18110428 TGCCGAAA
1 TGCCGAAA
*
18110436 TGCCAAAA
1 TGCCGAAA
18110444 TGCCGAAA
1 TGCCGAAA
18110452 AGTCGAAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.41, C:0.25, G:0.22, T:0.12
Consensus pattern (8 bp):
TGCCGAAA
Found at i:18110729 original size:29 final size:29
Alignment explanation
Indices: 18110692--18110768 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
18110682 TGGGCTTAAC
* *
18110692 GGGCCATATAAATGTGATTTAGGCCTAGT
1 GGGCTATATAAATGTGATTTAGGCCTAAT
*
18110721 GGGCTATATACAA-GTGATTTCGGCCTAAT
1 GGGCTATATA-AATGTGATTTAGGCCTAAT
* * *
18110750 GGGCTGTATGAATATGATT
1 GGGCTATATAAATGTGATT
18110769 GGGCATAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
28 2 0.05
29 36 0.90
30 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.32
Consensus pattern (29 bp):
GGGCTATATAAATGTGATTTAGGCCTAAT
Found at i:18112315 original size:49 final size:49
Alignment explanation
Indices: 18112243--18112340 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
18112233 TTCTTCCATG
18112243 GAGATACTTTCAAAAATACTTTTTCGCCAACTTCAAATTCAATGTCTTT
1 GAGATACTTTCAAAAATACTTTTTCGCCAACTTCAAATTCAATGTCTTT
18112292 GAGATACTTTCAAAAATACTTTTTCGCCAACTTCAAATTCAATGTCTTT
1 GAGATACTTTCAAAAATACTTTTTCGCCAACTTCAAATTCAATGTCTTT
18112341 ATGTTTCAAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (49 bp):
GAGATACTTTCAAAAATACTTTTTCGCCAACTTCAAATTCAATGTCTTT
Found at i:18117079 original size:12 final size:12
Alignment explanation
Indices: 18117062--18117087 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18117052 CACACGCTCG
18117062 TGTGCTAGGCCA
1 TGTGCTAGGCCA
18117074 TGTGCTAGGCCA
1 TGTGCTAGGCCA
18117086 TG
1 TG
18117088 CCAAACCTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.23, G:0.35, T:0.27
Consensus pattern (12 bp):
TGTGCTAGGCCA
Found at i:18125112 original size:64 final size:64
Alignment explanation
Indices: 18125033--18125163 Score: 244
Period size: 64 Copynumber: 2.0 Consensus size: 64
18125023 GAGATTATGA
18125033 ACTCGTTTAGATTATTTACAGAAGTAAATTGTCTTTCTCGCAATGTAAACATTCTTACAGTGAC
1 ACTCGTTTAGATTATTTACAGAAGTAAATTGTCTTTCTCGCAATGTAAACATTCTTACAGTGAC
* *
18125097 ACTCGTTTAGATTATTTACCGAAGTAAATTGTCTTTCTTGCAATGTAAACATTCTTACAGTGAC
1 ACTCGTTTAGATTATTTACAGAAGTAAATTGTCTTTCTCGCAATGTAAACATTCTTACAGTGAC
18125161 ACT
1 ACT
18125164 TATCATCAGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.38
Consensus pattern (64 bp):
ACTCGTTTAGATTATTTACAGAAGTAAATTGTCTTTCTCGCAATGTAAACATTCTTACAGTGAC
Found at i:18128379 original size:27 final size:27
Alignment explanation
Indices: 18128349--18128400 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
18128339 ATCACATAGT
18128349 GGCAAAATAGTCATCTTACCATATAAG
1 GGCAAAATAGTCATCTTACCATATAAG
* *
18128376 GGCAAAATAGTCATTTTATCATATA
1 GGCAAAATAGTCATCTTACCATATA
18128401 TGAGGGGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (27 bp):
GGCAAAATAGTCATCTTACCATATAAG
Found at i:18130488 original size:66 final size:66
Alignment explanation
Indices: 18130376--18130500 Score: 157
Period size: 66 Copynumber: 1.9 Consensus size: 66
18130366 TGTGAGAAAA
* *
18130376 TGATTTGTACTAATTTTTGAGCATTACACAACTGTTGTGAGTTGTGATTG-CTAGGAACTGAGGA
1 TGATTTGTAATAATTTTTGAGCATTACACAACTGTTGTGAGCTGTGATTGAC-AGGAACTGAGGA
18130440 AT
65 AT
* * *
18130442 TGATTTGTAAT-ATTGTTTGATCATTACTC-ACTTGTTGTGCGCTGTGATTGACAGGAACT
1 TGATTTGTAATAATT-TTTGAGCATTACACAAC-TGTTGTGAGCTGTGATTGACAGGAACT
18130501 CTATTAGTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
65 5 0.10
66 45 0.88
67 1 0.02
ACGTcount: A:0.25, C:0.12, G:0.23, T:0.40
Consensus pattern (66 bp):
TGATTTGTAATAATTTTTGAGCATTACACAACTGTTGTGAGCTGTGATTGACAGGAACTGAGGAA
T
Found at i:18131244 original size:18 final size:18
Alignment explanation
Indices: 18131213--18131247 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18131203 ACTTAGTCAG
* *
18131213 TTTCTTCTTTCCCTTAGC
1 TTTCTACTTCCCCTTAGC
18131231 TTTCTACTTCCCCTTAG
1 TTTCTACTTCCCCTTAG
18131248 AGGACGAGGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.34, G:0.06, T:0.51
Consensus pattern (18 bp):
TTTCTACTTCCCCTTAGC
Found at i:18133092 original size:23 final size:21
Alignment explanation
Indices: 18133059--18133126 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
18133049 TATCACGAAC
18133059 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
* * **
18133080 TCAGATGTCACAATATC-ATGAAC
1 TCAGA--CCACAA-CTCAATGAGT
18133103 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
18133124 TCA
1 TCA
18133127 TATCACATAA
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
20 2 0.06
21 17 0.49
23 14 0.40
24 2 0.06
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.22
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:18133133 original size:21 final size:21
Alignment explanation
Indices: 18133065--18133133 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
18133055 GAACTCAGAC
*
18133065 CACAACTCAATGAGTTCAGATGT
1 CACAACTCAATGAGTTC--ATAT
* ** * *
18133088 CACAATATC-ATGAACTCAGAC
1 CACAA-CTCAATGAGTTCATAT
18133109 CACAACTCAATGAGTTCATAT
1 CACAACTCAATGAGTTCATAT
18133130 CACA
1 CACA
18133134 TAATTCCTAG
Statistics
Matches: 33, Mismatches: 11, Indels: 6
0.66 0.22 0.12
Matches are distributed among these distances:
20 2 0.06
21 18 0.55
23 11 0.33
24 2 0.06
ACGTcount: A:0.39, C:0.26, G:0.12, T:0.23
Consensus pattern (21 bp):
CACAACTCAATGAGTTCATAT
Found at i:18135693 original size:27 final size:27
Alignment explanation
Indices: 18135663--18135810 Score: 181
Period size: 27 Copynumber: 5.5 Consensus size: 27
18135653 AATTGTACAA
* *
18135663 CACTAAGTGTGCGATTTGACTATGTTG
1 CACTAAGTGTGCGAATTGACTATGTAG
* *
18135690 CACTAAGTGTGCGAAATGAATATG-ATG
1 CACTAAGTGTGCGAATTGACTATGTA-G
*
18135717 CACTAAGTGTGCGAATTGACCATGTAG
1 CACTAAGTGTGCGAATTGACTATGTAG
* *
18135744 CACTAAGTGTGCGATTTGATTATGTAG
1 CACTAAGTGTGCGAATTGACTATGTAG
* * *
18135771 CACTAAGTGTGCGAGTTGATTATATAG
1 CACTAAGTGTGCGAATTGACTATGTAG
*
18135798 CACTGAGTGTGCG
1 CACTAAGTGTGCG
18135811 GACTCGATAT
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
27 105 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (27 bp):
CACTAAGTGTGCGAATTGACTATGTAG
Found at i:18138738 original size:43 final size:43
Alignment explanation
Indices: 18138649--18138750 Score: 114
Period size: 43 Copynumber: 2.4 Consensus size: 43
18138639 AGATATAGCG
* * * **
18138649 GACACATGACCGTGTCGCCTGACTATTTGTCGCACAAGGCTAA
1 GACACATGCCCGTGTCGCCTGACCATGTGTAACACAAGGCTAA
* * *
18138692 GACACATGCCCGTGTCGCTTGACCATGTGTAACACACGGCTGA
1 GACACATGCCCGTGTCGCCTGACCATGTGTAACACAAGGCTAA
* *
18138735 GACACACGCCCATGTC
1 GACACATGCCCGTGTC
18138751 TTTAGCCGTA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.21
Consensus pattern (43 bp):
GACACATGCCCGTGTCGCCTGACCATGTGTAACACAAGGCTAA
Found at i:18153501 original size:30 final size:30
Alignment explanation
Indices: 18153465--18153525 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
18153455 TTCCTAACTC
18153465 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
18153495 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
18153525 A
1 A
18153526 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:18159119 original size:40 final size:40
Alignment explanation
Indices: 18159021--18159323 Score: 387
Period size: 40 Copynumber: 7.6 Consensus size: 40
18159011 TCCTCGTTCA
* * * * *
18159021 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
18159060 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
18159100 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
18159140 AATGCCTTCGGGACTTAACCTGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
18159180 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
18159220 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
18159260 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
18159300 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
18159324 CAGCATTCAA
Statistics
Matches: 238, Mismatches: 22, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 37 0.16
40 193 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:18167106 original size:40 final size:40
Alignment explanation
Indices: 18167008--18167270 Score: 379
Period size: 40 Copynumber: 6.6 Consensus size: 40
18166998 TCCTCGTTCA
* * * * *
18167008 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
18167047 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
18167087 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
18167127 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
18167167 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
18167207 AATGCCTTC-GGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
18167246 AAGGCCTTC-GGATCTTAATCCGGAT
1 AATGCCTTCGGGA-CTTAACCCGGAT
18167271 ATATTCACTT
Statistics
Matches: 210, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
39 72 0.34
40 138 0.66
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:18167269 original size:79 final size:79
Alignment explanation
Indices: 18167008--18167308 Score: 374
Period size: 79 Copynumber: 3.8 Consensus size: 79
18166998 TCCTCGTTCA
* * * * * *
18167008 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
*
18167073 TAACAACTCGCACG
66 TAATAACTCGCACG
*
18167087 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC-AATGCCTTCGGGACTTAACCCGGAT
18167152 TTAATAACTCGCACG
65 TTAATAACTCGCACG
18167167 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTC-GGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC-AATGCCTTCGGGACTTAACCCGGAT
* * *
18167231 TTAGTATCTCGCACA
65 TTAATAACTCGCACG
* * * * * * * *
18167246 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCACAAAGCCTTC-GGACTTAGCCCGGA
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACAATGCCTTCGGGACTTAACCCGGA
18167309 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
78 3 0.02
79 105 0.53
80 91 0.46
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
TAATAACTCGCACG
Found at i:18167317 original size:40 final size:41
Alignment explanation
Indices: 18167241--18167317 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 41
18167231 TTAGTATCTC
* * *
18167241 GCACAAAGGCCTTCGGATCTTAATCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAACCCGGACACATTCACTTA
*
18167282 GCACAAA-GCCTTCGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTCGGATCTTAACCCGGACA-CATTCA
18167318 ATTATCATGC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
39 10 0.32
40 14 0.45
41 7 0.23
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAACCCGGACACATTCACTTA
Found at i:18180602 original size:42 final size:42
Alignment explanation
Indices: 18180496--18180657 Score: 144
Period size: 43 Copynumber: 3.8 Consensus size: 42
18180486 TGTGTTATCA
* * * *
18180496 TGTAAGACCATGTCTAGGACGTTGGCATTGGATTATGATTTACG
1 TGTAAGACCATGTCTAGGACATTGGCATCGTACT-TGATTT-CG
* *
18180540 TGTAAGACCATCTCTAGGACATTGGCATCGTACTTCATTTCG
1 TGTAAGACCATGTCTAGGACATTGGCATCGTACTTGATTTCG
* * ** * * *
18180582 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTAGGACATTGGCATCG-TACTTGATTTCG
* * * *
18180625 TGTAAGACCACGTCTGGGACGTTGGCATTGTAC
1 TGTAAGACCATGTCTAGGACATTGGCATCGTAC
18180658 GAGCTTTTCG
Statistics
Matches: 95, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
42 29 0.31
43 37 0.39
44 29 0.31
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACATTGGCATCGTACTTGATTTCG
Found at i:18182680 original size:19 final size:20
Alignment explanation
Indices: 18182656--18182693 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
18182646 GGTACCACCA
18182656 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCACCATCTTT
18182675 AAACATCATTCACCATCTT
1 AAACATCATTCACCATCTT
18182694 ACCACCTTAT
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:0.39, C:0.26, G:0.00, T:0.34
Consensus pattern (20 bp):
AAACATCATTCACCATCTTT
Found at i:18183082 original size:93 final size:93
Alignment explanation
Indices: 18182923--18183093 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
18182913 GGCCCTAAGT
*
18182923 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
18182988 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
18183016 GAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCATAAGTGAAGTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAATGAACTCGGACTCAACTCA
18183080 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
18183094 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:18183088 original size:46 final size:46
Alignment explanation
Indices: 18182918--18183090 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
18182908 AACCCGGCCC
* * *
18182918 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCA
* * *
18182964 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
18183012 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
18183057 TAAGTGAAGTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
18183091 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 57 0.54
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:18183547 original size:31 final size:30
Alignment explanation
Indices: 18183512--18183572 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
18183502 ATTTAATACG
18183512 AACTTTAAAAAAAATTACACTTTTGCCCCTA
1 AACTTT-AAAAAAATTACACTTTTGCCCCTA
*** *
18183543 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
18183573 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:18184544 original size:55 final size:55
Alignment explanation
Indices: 18184428--18184545 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 55
18184418 CCCTAAGATT
* * * * *
18184428 TTAAGTCAGTCTTGAGCACGTCCGAGGCACACGGGCATGTGGTTAGCCGTGTGAC
1 TTAAGTCAGTCTCGACCACGGCCAAGGCACACAGGCATGTGGTTAGCCGTGTGAC
** ** *
18184483 CCAAGTCAGTCTCGACCACGGCCAAGGCACACAGGCATGTCTTTTGGCCGTGTGA-
1 TTAAGTCAGTCTCGACCACGGCCAAGGCACACAGGCATGT-GGTTAGCCGTGTGAC
18184538 TTAAGTCA
1 TTAAGTCA
18184546 ATATGTATGC
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
55 39 0.78
56 11 0.22
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.23
Consensus pattern (55 bp):
TTAAGTCAGTCTCGACCACGGCCAAGGCACACAGGCATGTGGTTAGCCGTGTGAC
Found at i:18185281 original size:18 final size:18
Alignment explanation
Indices: 18185258--18185300 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
18185248 GGCCCATTAT
18185258 AGTAACAGTAAACAG-AGC
1 AGTAACAGTAAACAGTA-C
*
18185276 AGTAACAGTAATCAGTAC
1 AGTAACAGTAAACAGTAC
18185294 AGTAACA
1 AGTAACA
18185301 ATTTAAACAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 22 0.96
19 1 0.04
ACGTcount: A:0.49, C:0.16, G:0.19, T:0.16
Consensus pattern (18 bp):
AGTAACAGTAAACAGTAC
Found at i:18185741 original size:27 final size:27
Alignment explanation
Indices: 18185640--18185800 Score: 135
Period size: 27 Copynumber: 6.0 Consensus size: 27
18185630 ATAAATACCT
* * **
18185640 CACATAGGGGCAAAACAGTTAACTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
** ***
18185667 CATGTAAGGGCATTTCAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* **
18185694 CACAT-AGAGGCAGAATTGTCATTTTAC
1 CACATAAG-GGCAAAACAGTCATTTTAC
*
18185721 CACATAAGGGCAAAACAGTCATTTCAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
18185748 CTCATAAGGGAAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
18185775 CTCAAAAGGGCAAAATAGTCATTTTA
1 CACATAAGGGCAAAACAGTCATTTTA
18185801 TCGATTAAGG
Statistics
Matches: 106, Mismatches: 26, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
26 2 0.02
27 102 0.96
28 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:18190120 original size:29 final size:28
Alignment explanation
Indices: 18190057--18190157 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
18190047 TACATGTATC
* *
18190057 TGGCCCATTAAGCCC-AATCA-TATCATA
1 TGGCCCATTAGGCCCAAATCACT-TTATA
18190084 TGGCCCATTAGGCCCAAATCACTTGTATA
1 TGGCCCATTAGGCCCAAATCACTT-TATA
18190113 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCAC-TTTATA
* **
18190142 TTGCCTGTTAGGCCCA
1 TGGCCCATTAGGCCCA
18190158 GTCACATTCA
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
27 14 0.22
28 6 0.09
29 43 0.66
30 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAAATCACTTTATA
Found at i:18190413 original size:16 final size:16
Alignment explanation
Indices: 18190394--18190431 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
18190384 GGCTTTTTGA
*
18190394 CATTTTGACTTTTCGG
1 CATTTTGACATTTCGG
*
18190410 CATTTCGACATTTCGG
1 CATTTTGACATTTCGG
18190426 C-TTTTG
1 CATTTTG
18190432 CCGATTCATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.13, C:0.21, G:0.18, T:0.47
Consensus pattern (16 bp):
CATTTTGACATTTCGG
Found at i:18190429 original size:24 final size:24
Alignment explanation
Indices: 18190381--18190430 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
18190371 TAGCCAAACA
* * *
18190381 TTCGGCTTTTTGACATTTTGACTT
1 TTCGGCATTTCGACATTTCGACTT
*
18190405 TTCGGCATTTCGACATTTCGGCTT
1 TTCGGCATTTCGACATTTCGACTT
18190429 TT
1 TT
18190431 GCCGATTCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.12, C:0.20, G:0.18, T:0.50
Consensus pattern (24 bp):
TTCGGCATTTCGACATTTCGACTT
Found at i:18193486 original size:17 final size:18
Alignment explanation
Indices: 18193464--18193497 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18193454 TCACATTGAA
18193464 GTGTTTT-AGTGAAAACT
1 GTGTTTTCAGTGAAAACT
*
18193481 GTGTTTTCATTGAAAAC
1 GTGTTTTCAGTGAAAAC
18193498 CCTTCTTAAA
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:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACT
Found at i:18194626 original size:29 final size:29
Alignment explanation
Indices: 18194564--18194670 Score: 101
Period size: 29 Copynumber: 3.7 Consensus size: 29
18194554 TCTCATACCT
* * *
18194564 GTATTTGGCCCATTAAGCCC-AATCA-TA
1 GTATATGGCCCATTAGGCCCAAATCACAA
* * *
18194591 TTCATATGGTCTATTAGGCCCAAATCACAA
1 GT-ATATGGCCCATTAGGCCCAAATCACAA
* *
18194621 GTATATGGCCCATTGGGCCCAAATCACAT
1 GTATATGGCCCATTAGGCCCAAATCACAA
* *
18194650 TTATATGGCCCGTTAGGCCCA
1 GTATATGGCCCATTAGGCCCA
18194671 TTCACATTCA
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
27 1 0.02
28 14 0.22
29 46 0.73
30 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (29 bp):
GTATATGGCCCATTAGGCCCAAATCACAA
Found at i:18194919 original size:16 final size:16
Alignment explanation
Indices: 18194895--18194935 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
18194885 TAGCCAAACA
*
18194895 TTCAGCTTTTTGGCAT
1 TTCAGCTTTTCGGCAT
*
18194911 TTCAACTTTTCGGCAT
1 TTCAGCTTTTCGGCAT
18194927 TTCAGCTTT
1 TTCAGCTTT
18194936 GGTCGATTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.15, C:0.22, G:0.15, T:0.49
Consensus pattern (16 bp):
TTCAGCTTTTCGGCAT
Found at i:18195616 original size:16 final size:16
Alignment explanation
Indices: 18195595--18195628 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
18195585 GCAAAGGGTG
*
18195595 TTCGGCATTTCGGCTT
1 TTCGGCATTTCAGCTT
18195611 TTCGGCATTTCAGCTT
1 TTCGGCATTTCAGCTT
18195627 TT
1 TT
18195629 GTCGATTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (16 bp):
TTCGGCATTTCAGCTT
Found at i:18201721 original size:49 final size:51
Alignment explanation
Indices: 18201649--18201751 Score: 147
Period size: 55 Copynumber: 2.0 Consensus size: 51
18201639 TAGACACTAA
*
18201649 AATGGGCTAAGGCGTAAATGAAA-T-AGGCCCACACTGATACTGATACTGT
1 AATGGGCTAAGGCCTAAATGAAAGTAAGGCCCACACTGATACTGATACTGT
18201698 AATGGGCTAAGGCCTAAATGAAATGGGCTAAGGCCCACACTGATACTGATACTG
1 AATGGGCTAAGGCCTAAATGAAA---G-TAAGGCCCACACTGATACTGATACTG
18201752 AGACCGTTTG
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
49 22 0.47
54 1 0.02
55 24 0.51
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.21
Consensus pattern (51 bp):
AATGGGCTAAGGCCTAAATGAAAGTAAGGCCCACACTGATACTGATACTGT
Done.