Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 89 of 253
Found at i:27712344 original size:75 final size:75
Alignment explanation
Indices: 27712212--27712407 Score: 288
Period size: 75 Copynumber: 2.6 Consensus size: 75
27712202 GGGGCTGTCA
* * *
27712212 CAGAAATATTAAGAGCAAATTTAACCGAAATTATTAAGAACAAATTTAACCGAAATTATTAAGAA
1 CAGAATTATTAAGAACAAATTTAACCGGAATTATTAAGAACAAATTTAACCGAAATTATTAAGAA
27712277 CAAATTTAAC
66 CAAATTTAAC
* *
27712287 CGGAATTATTAAGAACAAATTTAACCGGAATTATTAAGAGCAAATTTAACC-AGAATTATTAAGA
1 CAGAATTATTAAGAACAAATTTAACCGGAATTATTAAGAACAAATTTAACCGA-AATTATTAAGA
*
27712351 ACAAATTTAAT
65 ACAAATTTAAC
* *
27712362 CAGAATTTTTAAGAGA-AAACTTAACCGGAATTATTAAGAACAAATT
1 CAGAATTATTAAGA-ACAAATTTAACCGGAATTATTAAGAACAAATT
27712408 AACAAGCTTA
Statistics
Matches: 109, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
74 1 0.01
75 107 0.98
76 1 0.01
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.28
Consensus pattern (75 bp):
CAGAATTATTAAGAACAAATTTAACCGGAATTATTAAGAACAAATTTAACCGAAATTATTAAGAA
CAAATTTAAC
Found at i:27716826 original size:52 final size:52
Alignment explanation
Indices: 27716748--27716846 Score: 171
Period size: 52 Copynumber: 1.9 Consensus size: 52
27716738 AACCTTCTAC
*
27716748 ACTAGAGTTGAAACCCTTGCCGCTGCATTTAAAATATTCTTACTTGGTTCCT
1 ACTAGAGTTGAAACCCTTGCCGCTGCATTTAAAATATGCTTACTTGGTTCCT
* *
27716800 ACTAGAGTTGAAATCCTTGCTGCTGCATTTAAAATATGCTTACTTGG
1 ACTAGAGTTGAAACCCTTGCCGCTGCATTTAAAATATGCTTACTTGG
27716847 AAGACAATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.36
Consensus pattern (52 bp):
ACTAGAGTTGAAACCCTTGCCGCTGCATTTAAAATATGCTTACTTGGTTCCT
Found at i:27725713 original size:21 final size:22
Alignment explanation
Indices: 27725689--27725729 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
27725679 TTCTAGTTGC
*
27725689 ATTTTAAGA-TATTGCATTAGT
1 ATTTTAAGAGCATTGCATTAGT
*
27725710 ATTTTTAGAGCATTGCATTA
1 ATTTTAAGAGCATTGCATTA
27725730 AAGAGATTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (22 bp):
ATTTTAAGAGCATTGCATTAGT
Found at i:27728066 original size:47 final size:48
Alignment explanation
Indices: 27727947--27728081 Score: 152
Period size: 48 Copynumber: 2.8 Consensus size: 48
27727937 ATAATCTCAC
* *
27727947 CCATAATGAACTC-AGAACGCAACTCAACGAGCTCGGGTG-TTCGCATCT
1 CCATAATGAACTCGA-AACGCAACTCAACGAGTTCGGATGCTTCGCA-CT
*
27727995 CCATAATGAACTCGAAACACAACTCAACGAGTTCGGATGCTT-GCA-T
1 CCATAATGAACTCGAAACGCAACTCAACGAGTTCGGATGCTTCGCACT
* * * *
27728041 CCATAGGTGAACTCGAAATGCAACTCAACAAGTTCAGATGC
1 CCATA-ATGAACTCGAAACGCAACTCAACGAGTTCGGATGC
27728082 CTCATAATTC
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
46 6 0.08
47 30 0.39
48 37 0.49
49 3 0.04
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (48 bp):
CCATAATGAACTCGAAACGCAACTCAACGAGTTCGGATGCTTCGCACT
Found at i:27732148 original size:40 final size:40
Alignment explanation
Indices: 27732104--27732327 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
27732094 GCTCCTCGTT
* * *
27732104 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
27732144 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
27732184 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* *
27732223 CAAATGCCTTC-GGATCTTAGTCCGGATAT-GTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTCGCA
* * * *
27732262 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
*
27732303 CAAA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27732328 CATCATTCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 71 0.43
40 79 0.48
41 12 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:27732206 original size:79 final size:76
Alignment explanation
Indices: 27732104--27732327 Score: 234
Period size: 79 Copynumber: 2.8 Consensus size: 76
27732094 GCTCCTCGTT
* *
27732104 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCACACAAATGCCTTC-GGACTTAGCCCGG
*
27732169 ATTTAGTAACTCGCA
63 ATAT-GTAACTCGCA
* * * *
27732184 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCACACAAATGCCTTCGGA-CTTAGCCCGGA
*
27732249 TATGTATCTCGCA
64 TATGTAACTCGCA
* * * * *
27732262 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCAGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAACTCA-CACAAATGCCTTC-GGACTTAGCCCG
27732326 GA
62 GA
27732328 CATCATTCAA
Statistics
Matches: 121, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
78 26 0.21
79 71 0.59
80 24 0.20
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (76 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCACACAAATGCCTTCGGACTTAGCCCGGATA
TGTAACTCGCA
Found at i:27733942 original size:40 final size:39
Alignment explanation
Indices: 27733884--27734013 Score: 138
Period size: 40 Copynumber: 3.3 Consensus size: 39
27733874 GGCTGTCACA
*
27733884 TAAAGTACTAACAAGGGCACGTATGTGCTTTCAAGGGTAC
1 TAAAGTAC-AACAGGGGCACGTATGTGCTTTCAAGGGTAC
* *
27733924 TAAAGTACAAGCAGGGGCACGTATGTGCATTCAGGGGTAC
1 TAAAGTACAA-CAGGGGCACGTATGTGCTTTCAAGGGTAC
** * *
27733964 CGAAGTACAACCAGGGGCACGTATATG-TATTC-AGGGGATC
1 TAAAGTACAA-CAGGGGCACGTATGTGCT-TTCAAGGGTA-C
27734004 TAAAGTACAA
1 TAAAGTACAA
27734014 ACAAGGGAAC
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
39 6 0.08
40 69 0.92
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.22
Consensus pattern (39 bp):
TAAAGTACAACAGGGGCACGTATGTGCTTTCAAGGGTAC
Found at i:27733960 original size:20 final size:20
Alignment explanation
Indices: 27733935--27734000 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
27733925 AAAGTACAAG
27733935 CAGGGGCACGTATGTGCATT
1 CAGGGGCACGTATGTGCATT
* * * **
27733955 CAGGGGTACCG-AAGTACAAC
1 CAGGGGCA-CGTATGTGCATT
* *
27733975 CAGGGGCACGTATATGTATT
1 CAGGGGCACGTATGTGCATT
27733995 CAGGGG
1 CAGGGG
27734001 ATCTAAAGTA
Statistics
Matches: 32, Mismatches: 12, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
19 2 0.06
20 28 0.88
21 2 0.06
ACGTcount: A:0.26, C:0.20, G:0.35, T:0.20
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCATT
Found at i:27734050 original size:20 final size:20
Alignment explanation
Indices: 27734022--27734060 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27734012 AAACAAGGGA
27734022 ACATATGTGAATTTAGGGGC
1 ACATATGTGAATTTAGGGGC
* *
27734042 ACATGTGTGCATTTAGGGG
1 ACATATGTGAATTTAGGGG
27734061 TACCGAAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.10, G:0.33, T:0.31
Consensus pattern (20 bp):
ACATATGTGAATTTAGGGGC
Found at i:27734091 original size:40 final size:40
Alignment explanation
Indices: 27734036--27734578 Score: 537
Period size: 40 Copynumber: 13.6 Consensus size: 40
27734026 ATGTGAATTT
* * *
27734036 AGGGGCACATGTGTGCATTTAGGGGTACCGAAGTACAAAC
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
* *
27734076 AGGGGCACATGTGTGCATTCAGGGGTACTAAAGTACAAAC
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
* * * * *
27734116 AAGTGCACGTCTGTGCATTCAGCGATACCAAAGTACAAAC
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
* ** * **
27734156 AGGGGCATGCATGTGCATTCAGTGGTACTGAAGTACAAAC
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
* * * *
27734196 AGGGGCATGTGTGTACATTTAGGGGTACCAAAGTACAAAT
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
* * * * * *
27734236 AGGGGTATGTGTGTGTATTCAGGGGTATCGAAGTACAAAT
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
* * * * *
27734276 AAGGGCACGTGTGTTCATTCAGGGGTACCGAAGTGCAAAT
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
* * * *
27734316 AAGGGCACGTGTGTGCATTTAGGGGTACCGAAGTATAAAC
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
* *
27734356 AGGAGCACGTGTGTGCATTCAGGGGTACCAAAGTACAACC
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
* * * *
27734396 AGGGGCACGTGTATGCATTTAGGGGTATCAAAGTACAAAT
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
* * *
27734436 AGGGGCACGTGTATGCATTTAGGGGTACTAAAGTACAAAC
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
* ** * * *
27734476 AGGTGCGTGTATGTGCATTCAGGGGTATCTAAGTACAAAC
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
* ** * ** * *
27734516 AGGGGCATGCATGTGCATTCAAGGGTACTGAAGTAGAAAT
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
* * *
27734556 AAGGGCATGTATGTGCATTCAGG
1 AGGGGCACGTGTGTGCATTCAGG
27734579 CAATAATTAT
Statistics
Matches: 422, Mismatches: 81, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 422 1.00
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.23
Consensus pattern (40 bp):
AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
Found at i:27734096 original size:100 final size:100
Alignment explanation
Indices: 27733936--27734118 Score: 278
Period size: 100 Copynumber: 1.8 Consensus size: 100
27733926 AAGTACAAGC
* * * *
27733936 AGGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAACCAGGGGCACGTATATGTATTCAGGGG
1 AGGGGCACATATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACATATATGCATTCAGGGG
27734001 -ATCTAAAGTACAAACAAGGGAACATATGTGAATTT
66 TA-CTAAAGTACAAACAAGGGAACATATGTGAATTT
* * * *
27734036 AGGGGCACATGTGTGCATTTAGGGGTACCGAAGTACAAACAGGGGCACATGTGTGCATTCAGGGG
1 AGGGGCACATATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACATATATGCATTCAGGGG
27734101 TACTAAAGTACAAACAAG
66 TACTAAAGTACAAACAAG
27734119 TGCACGTCTG
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
100 73 0.99
101 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (100 bp):
AGGGGCACATATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACATATATGCATTCAGGGG
TACTAAAGTACAAACAAGGGAACATATGTGAATTT
Found at i:27734241 original size:180 final size:180
Alignment explanation
Indices: 27733886--27734242 Score: 398
Period size: 180 Copynumber: 2.0 Consensus size: 180
27733876 CTGTCACATA
* * * * *
27733886 AAGTACTAACAAGGGCACGTATGTGCTTTCAAGGGTACTAAAGTACAAGCAGGGGCACGTATGTG
1 AAGTACAAACAAGGGCACATATGTGCATTCAAGGGTACTAAAGTACAAACAAGGGCACGTATGTG
* * * * * *
27733951 CATTCAGGGGTACCGAAGTACAACCAGGGGCACGTATATGTATTCAGGGGATCTAAAGTACAAAC
66 CATTCAGCGATACCAAAGTACAAACAGGGGCACGCATATGCATTCAGGGGATCTAAAGTACAAAC
** * **
27734016 AAGGGAACATATGTGAATTTAGGGGCACATGTGTGCATTTAGGGGTACCG
131 AAGGGAACATATGTGAATTTAGGGGCACATAAGTACAAATAGGGGTACCG
* * * * *
27734066 AAGTACAAACAGGGGCACATGTGTGCATTCAGGGGTACTAAAGTACAAACAAGTGCACGTCTGTG
1 AAGTACAAACAAGGGCACATATGTGCATTCAAGGGTACTAAAGTACAAACAAGGGCACGTATGTG
* * * *
27734131 CATTCAGCGATACCAAAGTACAAACAGGGGCATGCATGTGCATTCAGTGG-TACTGAAGTACAAA
66 CATTCAGCGATACCAAAGTACAAACAGGGGCACGCATATGCATTCAGGGGAT-CTAAAGTACAAA
* * *
27734195 C-AGGG-GCATGTGTGTACATTTAGGGGTACCA-AAGTACAAATAGGGGTA
130 CAAGGGAACATATGTG-A-ATTTAGGGGCA-CATAAGTACAAATAGGGGTA
27734243 TGTGTGTGTA
Statistics
Matches: 145, Mismatches: 28, Indels: 8
0.80 0.15 0.04
Matches are distributed among these distances:
178 7 0.05
179 6 0.04
180 130 0.90
181 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.22
Consensus pattern (180 bp):
AAGTACAAACAAGGGCACATATGTGCATTCAAGGGTACTAAAGTACAAACAAGGGCACGTATGTG
CATTCAGCGATACCAAAGTACAAACAGGGGCACGCATATGCATTCAGGGGATCTAAAGTACAAAC
AAGGGAACATATGTGAATTTAGGGGCACATAAGTACAAATAGGGGTACCG
Found at i:27734419 original size:20 final size:20
Alignment explanation
Indices: 27734396--27734460 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
27734386 AAGTACAACC
27734396 AGGGGCACGTGTATGCATTT
1 AGGGGCACGTGTATGCATTT
* ** **
27734416 AGGGGTATCAAAGTA--CAAAT
1 AGGGGCA-C-GTGTATGCATTT
27734436 AGGGGCACGTGTATGCATTT
1 AGGGGCACGTGTATGCATTT
27734456 AGGGG
1 AGGGG
27734461 TACTAAAGTA
Statistics
Matches: 31, Mismatches: 10, Indels: 8
0.63 0.20 0.16
Matches are distributed among these distances:
18 3 0.10
19 1 0.03
20 23 0.74
21 1 0.03
22 3 0.10
ACGTcount: A:0.28, C:0.12, G:0.35, T:0.25
Consensus pattern (20 bp):
AGGGGCACGTGTATGCATTT
Found at i:27735119 original size:47 final size:45
Alignment explanation
Indices: 27735038--27735293 Score: 225
Period size: 46 Copynumber: 5.5 Consensus size: 45
27735028 GCCAATGCTG
*
27735038 TGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCATGTCGATGCCA
1 TGTCCCAGACAT-GTCTTACACTGGCT-ATCATCTCATGTCGATG-CA
* * * *
27735085 TGTCCCAGACATGGTCTTACAGTGGCTATCATCTCGTAGCCAATGCA
1 TGTCCCAGACAT-GTCTTACACTGGCTATCATCTCAT-GTCGATGCA
* *
27735132 TGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAGGTCGATACA
1 TGTCCCAGACATGTCTTACACTGGCTAT-CATCTC-ATGTCGATGCA
* * * *
27735178 TGTCCCAGACATGTCTTGCACTAGC-ACTCGTCTCGATGCCGATGCCA
1 TGTCCCAGACATGTCTTACACTGGCTA-TCATCTC-ATGTCGATG-CA
* * *
27735225 TGTCCTAGACATGGTCTTACACTGGCTCTCA--TAATGTGGCTGATGCA
1 TGTCCCAGACAT-GTCTTACACTGGCTATCATCTCATGT--C-GATGCA
27735272 TGTCCCAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
27735294 AGCCCACAAT
Statistics
Matches: 172, Mismatches: 25, Indels: 25
0.77 0.11 0.11
Matches are distributed among these distances:
45 4 0.02
46 73 0.42
47 73 0.42
48 22 0.13
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTGGCTATCATCTCATGTCGATGCA
Found at i:27735165 original size:46 final size:47
Alignment explanation
Indices: 27735038--27735293 Score: 217
Period size: 47 Copynumber: 5.5 Consensus size: 47
27735028 GCCAATGCTG
* * * * *
27735038 TGTCCCAGACATGGTCTTACACTAGCTCATATCTCAT-GTCGATGCCA
1 TGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTAGCCGATG-CA
* *
27735085 TGTCCCAGACATGGTCTTACAGTGGC-TATCATCTCGTAGCCAATGCA
1 TGTCCCAGACATGGTCTTACACTGGCTTA-CATCTCGTAGCCGATGCA
* *
27735132 TGTCCCAGACAT-GTCTTACACTGGCTTACATCTCG-AGGTCGATACA
1 TGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTA-GCCGATGCA
* * * *
27735178 TGTCCCAGACAT-GTCTTGCACTAGCACT-CGTCTCG-ATGCCGATGCCA
1 TGTCCCAGACATGGTCTTACACTGGC-TTACATCTCGTA-GCCGATG-CA
* * * *
27735225 TGTCCTAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCTGATGCA
1 TGTCCCAGACATGGTCTTACACTGGCT-TACAT-CTCGTAGCCGATGCA
27735272 TGTCCCAGACAT-GTCTTACACT
1 TGTCCCAGACATGGTCTTACACT
27735294 AGCCCACAAT
Statistics
Matches: 172, Mismatches: 27, Indels: 21
0.78 0.12 0.10
Matches are distributed among these distances:
45 1 0.01
46 71 0.41
47 73 0.42
48 26 0.15
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (47 bp):
TGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTAGCCGATGCA
Found at i:27735283 original size:94 final size:92
Alignment explanation
Indices: 27735028--27735296 Score: 264
Period size: 94 Copynumber: 2.9 Consensus size: 92
27735018 TGGGTAAGAT
* * * *
27735028 GCCAATGCTGTGTCCCAGACATGGTCTTACACTAGC-T-CATATCTCATGTCGATGCCATGTCCC
1 GCCAATGC-ATGTCCCAGACAT-GTCTTACACTGGCTTACATATC-GAGGTCGATG-CATGTCCC
* *
27735091 AGACATGGTCTTACAGTGGCTATCATCTCGTA
62 AGACAT-GTCTTACACTAGCTATCATCTCGTA
* *
27735123 GCCAATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGTCGATACATGTCCCAGAC
1 GCCAATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGTCGATGCATGTCCCAGAC
* *
27735188 ATGTCTTGCACTAGC-ACTCGTCTCG-A
66 ATGTCTTACACTAGCTA-TCATCTCGTA
* * *
27735214 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCT-CATAAT-GTGG-CTGATGCATGTC
1 -GCCAATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCGAGGTC-GATGCATGTC
27735276 CCAGACATGTCTTACACTAGC
60 CCAGACATGTCTTACACTAGC
27735297 CCACAATAAC
Statistics
Matches: 149, Mismatches: 16, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
91 2 0.01
92 23 0.15
93 40 0.27
94 69 0.46
95 15 0.10
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (92 bp):
GCCAATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGTCGATGCATGTCCCAGAC
ATGTCTTACACTAGCTATCATCTCGTA
Found at i:27735290 original size:140 final size:140
Alignment explanation
Indices: 27735038--27735293 Score: 365
Period size: 140 Copynumber: 1.8 Consensus size: 140
27735028 GCCAATGCTG
* *
27735038 TGTCCCAGACATGGTCTTACACTAGCTCATATCTCATGTCGATGCCATGTCCCAGACATGGTCTT
1 TGTCCCAGACATGGTCTTACACTAGCACATATCTCATGCCGATGCCATGTCCCAGACATGGTCTT
* *
27735103 ACAGTGGCTATCATCTCGTAGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGA
66 ACACTGGCTATCATATCGTAGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGA
27735168 GGTCGATACA
131 GGTCGATACA
* * *
27735178 TGTCCCAGACAT-GTCTTGCACTAGCAC-TCGTCTCGATGCCGATGCCATGTCCTAGACATGGTC
1 TGTCCCAGACATGGTCTTACACTAGCACAT-ATCTC-ATGCCGATGCCATGTCCCAGACATGGTC
* * **
27735241 TTACACTGGCTCTCATAAT-GTGGCTGATGCATGTCCCAGACATGTCTTACACT
64 TTACACTGGCTATCAT-ATCGTAGCCAATGCATGTCCCAGACATGTCTTACACT
27735294 AGCCCACAAT
Statistics
Matches: 102, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
138 1 0.01
139 17 0.17
140 83 0.81
141 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (140 bp):
TGTCCCAGACATGGTCTTACACTAGCACATATCTCATGCCGATGCCATGTCCCAGACATGGTCTT
ACACTGGCTATCATATCGTAGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGA
GGTCGATACA
Found at i:27739236 original size:20 final size:20
Alignment explanation
Indices: 27739211--27739251 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
27739201 AAGTTTGGTT
27739211 TAATGTAATGGCACTAAGTG
1 TAATGTAATGGCACTAAGTG
27739231 TAATGTAATGGCACTAAGTG
1 TAATGTAATGGCACTAAGTG
27739251 T
1 T
27739252 GCGATATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (20 bp):
TAATGTAATGGCACTAAGTG
Found at i:27744579 original size:27 final size:27
Alignment explanation
Indices: 27744503--27744555 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
27744493 GACCCCGGTT
*
27744503 TGTAAAATCACCGA-AATACCCTTGTAG
1 TGTAAAATGACC-ATAATACCCTTGTAG
27744530 TGTAAAATGACCATAATACCCTTGTA
1 TGTAAAATGACCATAATACCCTTGTA
27744556 TGGTAGAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (27 bp):
TGTAAAATGACCATAATACCCTTGTAG
Found at i:27749526 original size:46 final size:46
Alignment explanation
Indices: 27749426--27749611 Score: 133
Period size: 46 Copynumber: 3.8 Consensus size: 46
27749416 ATAGTAAAAC
* ** **
27749426 TATGGTCTTGCAC-ATAGTCACATATCACACACCATAGCCATAGCCCAGC
1 TATGGTCTTACACGA-A-TCACATATCACAC-TGAT-GCCATAGCCCAAA
* *
27749475 CATGGTCTTACACGAATCACATATCACACTGATGCCATATCCCAAA
1 TATGGTCTTACACGAATCACATATCACACTGATGCCATAGCCCAAA
* * * **
27749521 TATGGTCTTATACGGAAGCACGTAATCACATATCTCTGATGCCATAGCCCAGC
1 TATGGTCTTACAC-GAATCACAT-ATCAC--A---CTGATGCCATAGCCCAAA
*
27749574 TATGGTCTTACAC-AGATCACATATCACATTGATGCCAT
1 TATGGTCTTACACGA-ATCACATATCACACTGATGCCAT
27749612 GGTCCAACCA
Statistics
Matches: 110, Mismatches: 18, Indels: 21
0.74 0.12 0.14
Matches are distributed among these distances:
46 30 0.27
47 9 0.08
48 18 0.16
49 13 0.12
50 2 0.02
51 6 0.05
52 5 0.05
53 27 0.25
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (46 bp):
TATGGTCTTACACGAATCACATATCACACTGATGCCATAGCCCAAA
Found at i:27750730 original size:21 final size:21
Alignment explanation
Indices: 27750706--27750787 Score: 92
Period size: 21 Copynumber: 3.8 Consensus size: 21
27750696 CGACACATAA
*
27750706 GTGCCTGAAACGTCACACGAG
1 GTGCCTGAAACGACACACGAG
*
27750727 GTGCTTGAAACGACACACGAG
1 GTGCCTGAAACGACACACGAG
* * *
27750748 GTTCCTGATACGACACACAAG
1 GTGCCTGAAACGACACACGAG
*
27750769 TTGCCTGAAATACGACACA
1 GTGCCTG-AA-ACGACACA
27750788 TAAAGTGCCT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
21 41 0.82
22 1 0.02
23 8 0.16
ACGTcount: A:0.33, C:0.27, G:0.23, T:0.17
Consensus pattern (21 bp):
GTGCCTGAAACGACACACGAG
Found at i:27750796 original size:23 final size:23
Alignment explanation
Indices: 27750755--27750799 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
27750745 GAGGTTCCTG
*
27750755 ATACGACACACAAGTTGCCTGAA
1 ATACGACACAAAAGTTGCCTGAA
27750778 ATACGACACATAAAG-TGCCTGA
1 ATACGACACA-AAAGTTGCCTGA
27750800 TCAGTATAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (23 bp):
ATACGACACAAAAGTTGCCTGAA
Found at i:27751086 original size:29 final size:28
Alignment explanation
Indices: 27751004--27751087 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
27750994 AACACACTAG
* *
27751004 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
* *
27751032 TATAATCCTCCCAAACTCACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
27751060 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
27751088 GCACAAAGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 32 0.65
29 17 0.35
ACGTcount: A:0.45, C:0.31, G:0.04, T:0.20
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:27751661 original size:14 final size:15
Alignment explanation
Indices: 27751635--27751664 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
27751625 AGATCTGACA
27751635 CCTTCTCTTCTTTTT
1 CCTTCTCTTCTTTTT
27751650 CCTTCT-TTCTTTTT
1 CCTTCTCTTCTTTTT
27751664 C
1 C
27751665 TCTCTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (15 bp):
CCTTCTCTTCTTTTT
Found at i:27751959 original size:42 final size:42
Alignment explanation
Indices: 27751851--27752046 Score: 236
Period size: 42 Copynumber: 4.6 Consensus size: 42
27751841 TACCATACCA
* * *
27751851 ATGCTATATCCTAGATATGGTCTTACATGTAA-TCTCGTA-TCG
1 ATGCCATATCCCAGATATGGTCTTACATG-AAGTCTCATACT-G
* * *
27751893 ATGGCAATAGCCCAGGTATGGTCTTACATGAAGTCTCATACTG
1 AT-GCCATATCCCAGATATGGTCTTACATGAAGTCTCATACTG
* *
27751936 ATGCCATATCCCAGATATGGTCTTACACGAGGTCTCATACTG
1 ATGCCATATCCCAGATATGGTCTTACATGAAGTCTCATACTG
* * *
27751978 ATGCCATATCCCAGATATAGTCTTAC-TCAAAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACAT-GAAGTCTCATACTG
27752020 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
27752047 CGTAATCTCA
Statistics
Matches: 133, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
42 100 0.75
43 32 0.24
44 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAGTCTCATACTG
Found at i:27757496 original size:27 final size:28
Alignment explanation
Indices: 27757458--27757532 Score: 91
Period size: 27 Copynumber: 2.7 Consensus size: 28
27757448 GACGTTTCCT
27757458 TTTA-GAGATTTGCCACAAAGGCAT-TC
1 TTTATGAGATTTGCCACAAAGGCATATC
*
27757484 TTTATGAGGTTTGCCACAAAGGCATATC
1 TTTATGAGATTTGCCACAAAGGCATATC
* * *
27757512 TTTCTAGAGTTTTTCCACAAA
1 TTTAT-GAGATTTGCCACAAA
27757533 TGTTTCCTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 4 0.10
27 19 0.45
28 6 0.14
29 13 0.31
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (28 bp):
TTTATGAGATTTGCCACAAAGGCATATC
Found at i:27757920 original size:52 final size:53
Alignment explanation
Indices: 27757838--27758044 Score: 240
Period size: 52 Copynumber: 3.9 Consensus size: 53
27757828 AAACTTCCCC
* * *
27757838 ATATGATGTCATAACCCACCAGTTATGGTCTTACATG-TATGGTCTTCTTTCT
1 ATATGATGTCATAACCCACCAATTACGGTCTTACACGATATGGTCTTCTTTCT
* * *
27757890 ATATGATGTCATAACCCACTAGTTACGGTCTTACACGATGTGGTCTTCTTTCT
1 ATATGATGTCATAACCCACCAATTACGGTCTTACACGATATGGTCTTCTTTCT
* ** * * *
27757943 ATATGATGCCAT-ACCCACCAATTATAGTCTTACACGATATAGACTT-TTTCCC
1 ATATGATGTCATAACCCACCAATTACGGTCTTACACGATATGGTCTTCTTT-CT
* * * *
27757995 ATATGATGTTATAACCCATCAATTACTGTCTTACAAGATATGGTCTTCTT
1 ATATGATGTCATAACCCACCAATTACGGTCTTACACGATATGGTCTTCTT
27758045 CAGTGCTATG
Statistics
Matches: 130, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
51 3 0.02
52 72 0.55
53 53 0.41
54 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.38
Consensus pattern (53 bp):
ATATGATGTCATAACCCACCAATTACGGTCTTACACGATATGGTCTTCTTTCT
Found at i:27758026 original size:105 final size:105
Alignment explanation
Indices: 27757838--27758044 Score: 258
Period size: 105 Copynumber: 2.0 Consensus size: 105
27757828 AAACTTCCCC
* * * * * * *
27757838 ATATGATGTCATAACCCACCAGTTATGGTCTTACATGTATGGTCTTCTTTCTATATGATGTCATA
1 ATATGATGCCATAACCCACCAATTATAGTCTTACACGTATAGACTTCTTTCCATATGATGTCATA
* * *
27757903 ACCCACTAGTTACGGTCTTACACGATGTGGTCTTCTTTCT
66 ACCCACTAATTACGGTCTTACAAGATATGGTCTTCTTTCT
*
27757943 ATATGATGCCAT-ACCCACCAATTATAGTCTTACACGATATAGACTT-TTTCCCATATGATGTTA
1 ATATGATGCCATAACCCACCAATTATAGTCTTACACG-TATAGACTTCTTT-CCATATGATGTCA
*
27758006 TAACCCA-TCAATTACTGTCTTACAAGATATGGTCTTCTT
64 TAACCCACT-AATTACGGTCTTACAAGATATGGTCTTCTT
27758045 CAGTGCTATG
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
104 25 0.29
105 62 0.71
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.38
Consensus pattern (105 bp):
ATATGATGCCATAACCCACCAATTATAGTCTTACACGTATAGACTTCTTTCCATATGATGTCATA
ACCCACTAATTACGGTCTTACAAGATATGGTCTTCTTTCT
Found at i:27759948 original size:43 final size:44
Alignment explanation
Indices: 27759811--27759982 Score: 178
Period size: 43 Copynumber: 4.0 Consensus size: 44
27759801 CATAGGATTC
* * *
27759811 CGATATGTGATTTCGTGTAAAACCACGTCTGGGA-TGTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCACGTCTGGGACAGTTGGCAT
* * * * *
27759854 CGAT-TTGAGATTTACGTGCAAGACCATGTCTGCGACA-TCGGCAT
1 CGATATT-TGATTT-CGTGTAAGACCACGTCTGGGACAGTTGGCAT
27759898 CG-TATTTGATTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCAT
1 CGATATTTGATTTCGTGTAAGACCAC-GTCTGGGACAGTTGGCAT
* *
27759940 CGATATTTGATTACATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCACGTCTGGGACAGTTGGCAT
27759983 TATATGAGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 28 0.27
43 49 0.47
44 28 0.27
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (44 bp):
CGATATTTGATTTCGTGTAAGACCACGTCTGGGACAGTTGGCAT
Found at i:27770663 original size:43 final size:42
Alignment explanation
Indices: 27770509--27770664 Score: 149
Period size: 43 Copynumber: 3.6 Consensus size: 42
27770499 GTGATTTCGT
* * *
27770509 GTAAAACCACGTCTGGGATGTTGGCATCGAT-TTGAGATTTAC
1 GTAAGACCACGTCTGGGACGTTGGCATCGATATT-TGATTTAC
* * * *
27770551 GTGTAAGACCATGTCTGGGACATCGGCATCG-TATTTGATTTCAT
1 --GTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTT-AC
*
27770595 GTAAGACC-CTGTCTGAGACAG-TGGCATCGATATTTGATTATAC
1 GTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATT-TAC
27770638 GTAAGACCACGTCTGGGACGTTGGCAT
1 GTAAGACCACGTCTGGGACGTTGGCAT
27770665 TGTATGAGTT
Statistics
Matches: 91, Mismatches: 13, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
42 24 0.26
43 38 0.42
44 29 0.32
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (42 bp):
GTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTTAC
Found at i:27771353 original size:23 final size:22
Alignment explanation
Indices: 27771322--27771364 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
27771312 TTGTGAAACA
*
27771322 TATGTTTTGGTATGACTTTGGCT
1 TATGATTTGGTATGA-TTTGGCT
27771345 TATGATTTGGTATGATTTGG
1 TATGATTTGGTATGATTTGG
27771365 TATGAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.16, C:0.05, G:0.28, T:0.51
Consensus pattern (22 bp):
TATGATTTGGTATGATTTGGCT
Found at i:27771360 original size:10 final size:10
Alignment explanation
Indices: 27771322--27771369 Score: 60
Period size: 10 Copynumber: 4.5 Consensus size: 10
27771312 TTGTGAAACA
*
27771322 TATGTTTTGG
1 TATGATTTGG
27771332 TATGACTTTGG
1 TATGA-TTTGG
27771343 CTTATGATTTGG
1 --TATGATTTGG
27771355 TATGATTTGG
1 TATGATTTGG
27771365 TATGA
1 TATGA
27771370 ATTATAAGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
10 19 0.56
11 5 0.15
12 5 0.15
13 5 0.15
ACGTcount: A:0.19, C:0.04, G:0.27, T:0.50
Consensus pattern (10 bp):
TATGATTTGG
Found at i:27779889 original size:6 final size:6
Alignment explanation
Indices: 27779856--27779888 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
27779846 TATTAGAAGA
*
27779856 AGATGG AGATGG AGATGG AGATGG AGAAGG AGA
1 AGATGG AGATGG AGATGG AGATGG AGATGG AGA
27779889 AATGATGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.48, T:0.12
Consensus pattern (6 bp):
AGATGG
Found at i:27781494 original size:28 final size:27
Alignment explanation
Indices: 27781456--27781512 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
27781446 ATATATTCTT
27781456 AATAAATTTATCTAAATAATTATCTAAAC
1 AATAAATTTATCTAAATAATT-T-TAAAC
*
27781485 AATAAA-TTATCTAAGTAATTTTAAAC
1 AATAAATTTATCTAAATAATTTTAAAC
27781511 AA
1 AA
27781513 ATTATCATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 7 0.26
27 1 0.04
28 13 0.48
29 6 0.22
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.37
Consensus pattern (27 bp):
AATAAATTTATCTAAATAATTTTAAAC
Found at i:27782784 original size:12 final size:12
Alignment explanation
Indices: 27782767--27782791 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27782757 TTATTGCAAA
27782767 TAAATAATATTT
1 TAAATAATATTT
27782779 TAAATAATATTT
1 TAAATAATATTT
27782791 T
1 T
27782792 TATTTATTCC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAATAATATTT
Found at i:27783194 original size:10 final size:10
Alignment explanation
Indices: 27783181--27783274 Score: 52
Period size: 10 Copynumber: 9.5 Consensus size: 10
27783171 TTTTAATTAT
27783181 TTTTTTACAA
1 TTTTTTACAA
*
27783191 TTTTTTTTATAA
1 --TTTTTTACAA
27783203 -TTTTTACAA
1 TTTTTTACAA
*
27783212 TATTTTACAA
1 TTTTTTACAA
* *
27783222 -TTTCT--AG
1 TTTTTTACAA
*
27783229 TTTTTTATAA
1 TTTTTTACAA
* *
27783239 TTTTTTGATAG
1 TTTTTT-ACAA
**
27783250 TTTTTTATTA
1 TTTTTTACAA
27783260 TTTTTTACAA
1 TTTTTTACAA
27783270 TTTTT
1 TTTTT
27783275 AAAAATTCTA
Statistics
Matches: 64, Mismatches: 13, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
7 1 0.02
8 4 0.06
9 11 0.17
10 30 0.47
11 9 0.14
12 9 0.14
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (10 bp):
TTTTTTACAA
Found at i:27783194 original size:21 final size:22
Alignment explanation
Indices: 27783170--27783218 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
27783160 ATTTTTTAGT
*
27783170 TTTTTAATTAT-TTTTTTACAA
1 TTTTTAATTATAATTTTTACAA
*
27783191 TTTTT-TTTATAATTTTTACAA
1 TTTTTAATTATAATTTTTACAA
27783212 TATTTTA
1 T-TTTTA
27783219 CAATTTCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 4 0.17
21 15 0.65
22 4 0.17
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTTAATTATAATTTTTACAA
Found at i:27783200 original size:20 final size:20
Alignment explanation
Indices: 27783144--27783217 Score: 58
Period size: 22 Copynumber: 3.4 Consensus size: 20
27783134 TAAGATACAT
*
27783144 CAATTTTTTTTAGTTTATTTTT
1 CAATTTTTTTTA-TTT-TTTTA
* *
27783166 TAGTTTTTTAATTATTTTTTTA
1 CAATTTTTT--TTATTTTTTTA
*
27783188 CAATTTTTTTTATAATTTTTA
1 CAATTTTTTTTAT-TTTTTTA
27783209 CAATATTTT
1 CAAT-TTTT
27783218 ACAATTTCTA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
20 4 0.10
21 10 0.24
22 22 0.52
23 3 0.07
24 3 0.07
ACGTcount: A:0.24, C:0.04, G:0.03, T:0.69
Consensus pattern (20 bp):
CAATTTTTTTTATTTTTTTA
Found at i:27783252 original size:21 final size:21
Alignment explanation
Indices: 27783226--27783265 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
27783216 TTACAATTTC
27783226 TAGTTTTTTATAATTTTTTGA
1 TAGTTTTTTATAATTTTTTGA
*
27783247 TAGTTTTTTATTATTTTTT
1 TAGTTTTTTATAATTTTTT
27783266 ACAATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.72
Consensus pattern (21 bp):
TAGTTTTTTATAATTTTTTGA
Found at i:27783255 original size:48 final size:48
Alignment explanation
Indices: 27783181--27783272 Score: 114
Period size: 48 Copynumber: 1.9 Consensus size: 48
27783171 TTTTAATTAT
*
27783181 TTTTTTACAATTTTTTTTATAATTTTTACAATATTTTACAATTTCTAG
1 TTTTTTACAATTTTTTTGATAATTTTTACAATATTTTACAATTTCTAG
* * ** *
27783229 TTTTTTATAA-TTTTTTGATAGTTTTTTATTATTTTTTACAATTT
1 TTTTTTACAATTTTTTTGATA-ATTTTTACAATATTTTACAATTT
27783273 TTAAAAATTC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
47 9 0.24
48 28 0.76
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.65
Consensus pattern (48 bp):
TTTTTTACAATTTTTTTGATAATTTTTACAATATTTTACAATTTCTAG
Found at i:27783321 original size:29 final size:30
Alignment explanation
Indices: 27783258--27783314 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
27783248 AGTTTTTTAT
* *
27783258 TATTTTTTACAATTTTTAAAAATTCTAACA
1 TATTTTTTACAATTTTCAAAAATTATAACA
27783288 TATTTTTTA-AATTTTCAAACAATTATA
1 TATTTTTTACAATTTTCAAA-AATTATA
27783315 TATATTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (30 bp):
TATTTTTTACAATTTTCAAAAATTATAACA
Found at i:27783912 original size:16 final size:15
Alignment explanation
Indices: 27783879--27783914 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
27783869 AAGTAGAGTT
*
27783879 TAAATAATTATTTAA
1 TAAATAATTATATAA
27783894 TAAATAATATATATAA
1 TAAATAAT-TATATAA
27783910 TAAAT
1 TAAAT
27783915 TACTAGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAATAATTATATAA
Found at i:27784408 original size:19 final size:20
Alignment explanation
Indices: 27784382--27784431 Score: 84
Period size: 19 Copynumber: 2.5 Consensus size: 20
27784372 ATATGTTATA
27784382 TGACAAATTAATTCAGAGTG
1 TGACAAATTAATTCAGAGTG
27784402 T-ACAAATTAATTCAGAGTG
1 TGACAAATTAATTCAGAGTG
27784421 TGACATAATTA
1 TGACA-AATTA
27784432 TCACTAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 19 0.68
20 4 0.14
21 5 0.18
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (20 bp):
TGACAAATTAATTCAGAGTG
Found at i:27785447 original size:9 final size:9
Alignment explanation
Indices: 27785433--27785495 Score: 63
Period size: 9 Copynumber: 6.8 Consensus size: 9
27785423 TTCACATCCT
27785433 TCTCTCAAC
1 TCTCTCAAC
*
27785442 TCTCTCAAT
1 TCTCTCAAC
*
27785451 TCTCTCAAAT
1 TCTCTC-AAC
27785461 TCTCTCAAAC
1 TCTCTC-AAC
* *
27785471 CCTCTCAAG
1 TCTCTCAAC
*
27785480 TCTCTCATC
1 TCTCTCAAC
27785489 TCTCTCA
1 TCTCTCA
27785496 TTTCTAATAA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
9 29 0.63
10 17 0.37
ACGTcount: A:0.22, C:0.40, G:0.02, T:0.37
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:27785483 original size:29 final size:28
Alignment explanation
Indices: 27785432--27785486 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
27785422 TTTCACATCC
* *
27785432 TTCTCTCAACTCTCTCAATTCTCTCAAA
1 TTCTCTCAACCCTCTCAAGTCTCTCAAA
27785460 TTCTCTCAAACCCTCTCAAGTCTCTCA
1 TTCTCTC-AACCCTCTCAAGTCTCTCA
27785487 TCTCTCTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.24, C:0.38, G:0.02, T:0.36
Consensus pattern (28 bp):
TTCTCTCAACCCTCTCAAGTCTCTCAAA
Found at i:27785698 original size:6 final size:6
Alignment explanation
Indices: 27785689--27785717 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
27785679 ATTTTATTTT
27785689 TAATTA TAATTA TAATTA TAATTA TAATT
1 TAATTA TAATTA TAATTA TAATTA TAATT
27785718 TTTTTTGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAATTA
Found at i:27796050 original size:24 final size:24
Alignment explanation
Indices: 27796015--27796063 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
27796005 AATAAAAACC
27796015 ATAATAAAAAAAACCCTAACCTTA
1 ATAATAAAAAAAACCCTAACCTTA
27796039 ATAA-AAATAAAAACCCTAACCTTA
1 ATAATAAA-AAAAACCCTAACCTTA
27796063 A
1 A
27796064 GAGAGAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 3 0.12
24 21 0.88
ACGTcount: A:0.59, C:0.20, G:0.00, T:0.20
Consensus pattern (24 bp):
ATAATAAAAAAAACCCTAACCTTA
Found at i:27800857 original size:46 final size:46
Alignment explanation
Indices: 27800697--27800865 Score: 162
Period size: 46 Copynumber: 3.7 Consensus size: 46
27800687 CGAGGTCAAT
* * * * *
27800697 GCATGTCCCGGACATGTCTTACTCTGGCACTTATAATATGGCTGAA
1 GCATGTCCCAGACATGTCTTACACTGGCACTCATAATGTGGCCGAA
* * * * * * *
27800743 GTATGTCCCAAACATGTCTTACACTAGCCCTCGT-CTG-GATGCCGAT
1 GCATGTCCCAGACATGTCTTACACTGGCACTCATAATGTG--GCCGAA
* * *
27800789 GCCATGTCTCAGACATGGCTTACACTGGCTCTCATAATGTGGCCGAA
1 G-CATGTCCCAGACATGTCTTACACTGGCACTCATAATGTGGCCGAA
27800836 GCATGTCCCAGACATGTCTTACACTGGCAC
1 GCATGTCCCAGACATGTCTTACACTGGCAC
27800866 ACAAATCACC
Statistics
Matches: 94, Mismatches: 24, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 57 0.61
47 32 0.34
48 2 0.02
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.27
Consensus pattern (46 bp):
GCATGTCCCAGACATGTCTTACACTGGCACTCATAATGTGGCCGAA
Found at i:27803618 original size:67 final size:67
Alignment explanation
Indices: 27803536--27803672 Score: 265
Period size: 67 Copynumber: 2.0 Consensus size: 67
27803526 ATAAGAAAAG
27803536 ATTGCTCAAAGGAAATGTTTTGGTTCAAAAAATAAATTGAACCGAAGAAAAGAAAATTCATTTTC
1 ATTGCTCAAAGGAAATGTTTTGGTTCAAAAAATAAATTGAACCGAAGAAAAGAAAATTCATTTTC
27803601 TA
66 TA
*
27803603 ATTGCTCAAAGGAAATGTTTTGGTTCAAAAAATAAATTGGACCGAAGAAAAGAAAATTCATTTTC
1 ATTGCTCAAAGGAAATGTTTTGGTTCAAAAAATAAATTGAACCGAAGAAAAGAAAATTCATTTTC
27803668 TA
66 TA
27803670 ATT
1 ATT
27803673 CACGCCAAAA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (67 bp):
ATTGCTCAAAGGAAATGTTTTGGTTCAAAAAATAAATTGAACCGAAGAAAAGAAAATTCATTTTC
TA
Found at i:27806014 original size:29 final size:28
Alignment explanation
Indices: 27805965--27806035 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
27805955 ACAATGATAT
* * *
27805965 TAGTGAATCATAATGTTAACATGCATAA-A
1 TAGT-AATAATAATGTGAACACG-ATAATA
27805994 TAGTAATAATAATGATGAACACGATAATA
1 TAGTAATAATAATG-TGAACACGATAATA
*
27806023 TAATAATAATAAT
1 TAGTAATAATAAT
27806036 AATAATGAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 13 0.36
29 23 0.64
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (28 bp):
TAGTAATAATAATGTGAACACGATAATA
Found at i:27808021 original size:44 final size:44
Alignment explanation
Indices: 27807966--27808504 Score: 241
Period size: 44 Copynumber: 11.9 Consensus size: 44
27807956 CTCGCATCTA
* * *
27807966 CAATCTGCTCCACTGTAACCTCAGGGAGATGAGATTTGTAACTT
1 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTT
* * * ***
27808010 CAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGTTTT
1 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-AACTT
* * * * **
27808055 C-ATCTACTCCACTGTAACTTTAGGGAGATAAGATTAGTGGCTT
1 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTT
* * **
27808098 CAATTTGCTCTACTATAACTTCAGGGAGATAAGATTTGCTATA-TT
1 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TA-ACTT
* * * * *
27808143 CGATATGCTCCACTGCAACTTCAGGGAGATGAGACTTGTACCTT
1 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTT
* **
27808187 CAA-CTTGCTCCATTGCAACTTCAGGGAGATAA-AGTTTGCTATTTT
1 CAATC-TGCTCCACTGCAACTTCAGGGAGATAAGA-TTTG-TAACTT
* * * *
27808232 CAATTTATTCTACACT--AACTTTAGGGAGATAAGATTTGTAGCTCGTAGCTT
1 CAA--TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTA------A-CTT
* * ** * * * * *
27808283 TAGTCTATTCTACTGTAACTTCAGGGAGATAATACTTGCTATAGTGGAT
1 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TA-ACT---T
* * * **
27808332 CTAATCCGAC-CCACTGTAACTTCAGAGG-TATAAGATTTGTCGCTT
1 C-AATCTG-CTCCACTGCAACTTCAG-GGAGATAAGATTTGTAACTT
* * * **
27808377 CAATCTGCTGCACTACAACTTCAGGGAGATAAGGTTTGCTATTTT
1 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAACTT
* * * * * *
27808422 CAATCTGCTCCATTGTAACTTTAGGGAGATGAGACTTGTATCTT
1 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTT
* * * * *
27808466 CAATC-GTCTTCACTACAACTTTAGGAAGATAAAATTTGT
1 CAATCTG-CTCCACTGCAACTTCAGGGAGATAAGATTTGT
27808505 GGTTTGTATC
Statistics
Matches: 368, Mismatches: 95, Indels: 64
0.70 0.18 0.12
Matches are distributed among these distances:
43 9 0.02
44 191 0.52
45 98 0.27
46 2 0.01
47 8 0.02
48 1 0.00
49 8 0.02
50 25 0.07
51 24 0.07
52 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (44 bp):
CAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTT
Found at i:27808482 original size:89 final size:90
Alignment explanation
Indices: 27807966--27808497 Score: 357
Period size: 89 Copynumber: 5.9 Consensus size: 90
27807956 CTCGCATCTA
* * * * * * *
27807966 CAATCTGCTCCACTGTAACCTCAGGGAGATGAGATTTGTAACTTCAA-CCTACTCCACTGCAACT
1 CAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAGCTTCAATCGTGCTTCACTACAACT
*
27808030 TCAGGGAGATAAGGTTTG-TGGTTTT
66 TCAGGGAGATAAGGTTTGCT-ATTTT
* * * * * *
27808055 C-ATCTACTCCACTGTAACTTTAGGGAGATAAGATTAGTGGCTTCAAT-TTGC-TCTACTATAAC
1 CAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAGCTTCAATCGTGCTTC-ACTACAAC
* *
27808117 TTCAGGGAGATAAGATTTGCTATATT
65 TTCAGGGAGATAAGGTTTGCTATTTT
* * * * * * * * * *
27808143 CGATATGCTCCACTGCAACTTCAGGGAGATGAGACTTGTACCTTCAA-CTTGCTCCATTGCAACT
1 CAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAGCTTCAATCGTGCTTCACTACAACT
*
27808207 TCAGGGAGATAAAGTTTGCTATTTT
66 TCAGGGAGATAAGGTTTGCTATTTT
* ** * ** * * * *
27808232 CAATTTATTCTACACTAACTTTAGGGAGATAAGATTTGTAGC-TCGTAGCTTTAGTCTATTCTAC
1 CAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAGCTTC-AATC-GT-G-C--TTC-AC
** *** *
27808296 TGTAACTTCAGGGAGATAATACTTGCTATAGTGGAT
59 TACAACTTCAGGGAGATAAGGTTTGCTAT--T--TT
* * * *
27808332 CTAATCCGAC-CCACTGTAACTTCAGAGG-TATAAGATTTGTCGCTTCAATC-TGCTGCACTACA
1 C-AATCTG-CTCCACTGTAACTTCAG-GGAGATAAGATTTGTAGCTTCAATCGTGCTTCACTACA
27808394 ACTTCAGGGAGATAAGGTTTGCTATTTT
63 ACTTCAGGGAGATAAGGTTTGCTATTTT
* * * * *
27808422 CAATCTGCTCCATTGTAACTTTAGGGAGATGAGACTTGTATCTTCAATCGT-CTTCACTACAACT
1 CAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAGCTTCAATCGTGCTTCACTACAACT
* *
27808486 TTAGGAAGATAA
66 TCAGGGAGATAA
27808498 AATTTGTGGT
Statistics
Matches: 337, Mismatches: 81, Indels: 50
0.72 0.17 0.11
Matches are distributed among these distances:
87 1 0.00
88 73 0.22
89 158 0.47
90 5 0.01
91 2 0.01
92 2 0.01
93 1 0.00
94 26 0.08
95 4 0.01
96 26 0.08
97 1 0.00
98 2 0.01
99 1 0.00
100 2 0.01
101 29 0.09
102 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (90 bp):
CAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAGCTTCAATCGTGCTTCACTACAACT
TCAGGGAGATAAGGTTTGCTATTTT
Found at i:27808701 original size:44 final size:45
Alignment explanation
Indices: 27808634--27808849 Score: 177
Period size: 44 Copynumber: 4.8 Consensus size: 45
27808624 TAATTTGTAG
** ** *
27808634 CTTTAATCTATTCCACTAAAACTTCAGGGAAATAAGA-TCGCTAT
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTAT
* * * * *
27808678 CTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAAACTTGTTGTAA
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCG--CTAT
* * * ** *
27808725 CTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGCTAT
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTAT
* * *
27808770 -TTTCAATCTGCTTCATTGCAACTTCAGGGAGATGAGACTCG-TAT
1 CTTT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTAT
* * * *
27808814 TTTTAATCTTCTTCACTGCAACTTCAGGAAGATAAG
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
27808850 CTTTGTGGTT
Statistics
Matches: 135, Mismatches: 32, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
44 63 0.47
45 36 0.27
47 36 0.27
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (45 bp):
CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTAT
Found at i:27808858 original size:351 final size:351
Alignment explanation
Indices: 27808374--27809076 Score: 1066
Period size: 351 Copynumber: 2.0 Consensus size: 351
27808364 AGATTTGTCG
* * *
27808374 CTTCAATCTGCTGCACTACAACTTCAGGGAGATAAGGTTTGCTATTTTCAATCTGCTCCATTGTA
1 CTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGCTATTTTCAATCTGCTCCATTGCA
* * *
27808439 ACTTTAGGGAGATGAGACTTGTATCTTCAATCGTCTTCACTACAACTTTAGGAAGATAAAATTTG
66 ACTTCAGGGAGATGAGACTCGTATCTTCAATCGTCTTCACTACAACTTCAGGAAGATAAAATTTG
* * *
27808504 TGGTTTGTATCTTTAATCTGTTCCACTGTAACTTTAGAGAAATAAGATTCGCTATCTTCAAAGAG
131 TGGTTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGAGAAATAAGATTCGCTATCTTCAAAGAG
* *
27808569 ATAAGATTTGCTTTCTTCAATCTACTCCATTGCAACTTCAGAGAGATCAGATTTGTAATTTGTAG
196 ATAA-ATTTGCTTTCTTCAATCTACTCCACTGCAACTTCAGAGAGATCAGATTTGTAATTTATAG
** *
27808634 CTTTAATCTATTCCACTAAAACTTCAGGGAAATAAGAT-CGCTATCTTTAGTCTGCTCCACTGCA
260 CTTTAATCTATTCCACTAAAACTTCAAAGAAATAAGATCCGCTATCTTCAGTCTGCTCCACTGCA
*
27808698 ACTTCAGGGAGATAAAACTTGTTGTAA
325 AATTCAGGGAGATAAAACTTGTTGTAA
*
27808725 CTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGCTATTTTCAATCTGCTTCATTGCA
1 CTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGCTATTTTCAATCTGCTCCATTGCA
* * * * **
27808790 ACTTCAGGGAGATGAGACTCGTATTTTTAATCTTCTTCACTGCAACTTCAGGAAGATAAGCTTTG
66 ACTTCAGGGAGATGAGACTCGTATCTTCAATCGTCTTCACTACAACTTCAGGAAGATAAAATTTG
* * *
27808855 TGGTTTGTAGCTTTAATCTGTTCTATTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAAAGAG
131 TGGTTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGAGAAATAAGATTCGCTATCTTCAAAGAG
* * * * *
27808920 ATAAATTTTCTTTCTTCAATCTACTCTACTGCAACTTTAGGGAGATCAGATTTGTATTTTATAGC
196 ATAAATTTGCTTTCTTCAATCTACTCCACTGCAACTTCAGAGAGATCAGATTTGTAATTTATAGC
* * * * *
27808985 TTTAATTTGTTCCACTGAAACTTTAAAGAAATAAGATCCGCTATCTTCAGTCTGCTCCATTGCAA
261 TTTAATCTATTCCACTAAAACTTCAAAGAAATAAGATCCGCTATCTTCAGTCTGCTCCACTGCAA
*
27809050 ATTCAGGGAGATAAGACTTGTTGTAA
326 ATTCAGGGAGATAAAACTTGTTGTAA
27809076 C
1 C
27809077 AATACCCACC
Statistics
Matches: 315, Mismatches: 36, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
350 85 0.27
351 230 0.73
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (351 bp):
CTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGCTATTTTCAATCTGCTCCATTGCA
ACTTCAGGGAGATGAGACTCGTATCTTCAATCGTCTTCACTACAACTTCAGGAAGATAAAATTTG
TGGTTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGAGAAATAAGATTCGCTATCTTCAAAGAG
ATAAATTTGCTTTCTTCAATCTACTCCACTGCAACTTCAGAGAGATCAGATTTGTAATTTATAGC
TTTAATCTATTCCACTAAAACTTCAAAGAAATAAGATCCGCTATCTTCAGTCTGCTCCACTGCAA
ATTCAGGGAGATAAAACTTGTTGTAA
Found at i:27810800 original size:12 final size:12
Alignment explanation
Indices: 27810785--27810816 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
27810775 TTAAAAATGT
27810785 TTTATTTAATTA
1 TTTATTTAATTA
27810797 TTTATTTAATTA
1 TTTATTTAATTA
27810809 TTTATTTA
1 TTTATTTA
27810817 TTTTCAATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTATTTAATTA
Found at i:27810801 original size:4 final size:4
Alignment explanation
Indices: 27810785--27810819 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
27810775 TTAAAAATGT
* *
27810785 TTTA TTTA ATTA TTTA TTTA ATTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
27810820 TCAATCGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:27811027 original size:3 final size:3
Alignment explanation
Indices: 27810978--27811007 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
27810968 CAAACTTTAG
27810978 ATT ATT CATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT AT
27811008 CGTGTTCATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:27813762 original size:17 final size:17
Alignment explanation
Indices: 27813706--27813763 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
27813696 CTTTCACCAT
*
27813706 ATTAATGAAAAA-TAAA
1 ATTAATAAAAAATTAAA
* *
27813722 ATTATATAATAAATT--T
1 ATTA-ATAAAAAATTAAA
*
27813738 ATTTATAAAAAATTAAA
1 ATTAATAAAAAATTAAA
27813755 ATTAATAAA
1 ATTAATAAA
27813764 TAAAGTTTTG
Statistics
Matches: 31, Mismatches: 7, Indels: 7
0.69 0.16 0.16
Matches are distributed among these distances:
15 9 0.29
16 7 0.23
17 14 0.45
18 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
ATTAATAAAAAATTAAA
Found at i:27814065 original size:14 final size:14
Alignment explanation
Indices: 27814055--27814084 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
27814045 TGAAAATGTC
27814055 TTTC-GGAAAATGA
1 TTTCTGGAAAATGA
27814068 TTTCTGGAAAATGA
1 TTTCTGGAAAATGA
27814082 TTT
1 TTT
27814085 ATTTTTCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (14 bp):
TTTCTGGAAAATGA
Found at i:27814593 original size:15 final size:15
Alignment explanation
Indices: 27814538--27814594 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
27814528 TTTATGCTAA
27814538 AAAATATTTATTATT
1 AAAATATTTATTATT
* * *
27814553 AATAGATTTATAATTGT
1 AAAATATTTATTA-T-T
27814570 AATAAATATTTATTATT
1 -A-AAATATTTATTATT
27814587 AAAATATT
1 AAAATATT
27814595 AATATTGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 17 0.53
16 2 0.06
17 2 0.06
18 2 0.06
19 9 0.28
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:27814644 original size:15 final size:16
Alignment explanation
Indices: 27814624--27814653 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
27814614 AATAAAATTA
27814624 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
27814639 TTTAAAATTTATTAT
1 TTTAAAATTTATTAT
27814654 GAAAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:27815673 original size:22 final size:23
Alignment explanation
Indices: 27815648--27815692 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
27815638 TTAAGAAGTA
*
27815648 TATTTTTTAATTA-TTTTAATTT
1 TATTTTTTAAATATTTTTAATTT
27815670 TATTTTTTAAATATTTTTAATTT
1 TATTTTTTAAATATTTTTAATTT
27815693 ACTTTTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (23 bp):
TATTTTTTAAATATTTTTAATTT
Found at i:27815698 original size:22 final size:22
Alignment explanation
Indices: 27815651--27815699 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
27815641 AGAAGTATAT
* *
27815651 TTTTTAATTATTTTAATTTTAT
1 TTTTTAAATATTTTAATTTTAC
27815673 TTTTTAAATATTTTTAA-TTTAC
1 TTTTTAAATA-TTTTAATTTTAC
27815695 TTTTT
1 TTTTT
27815700 CTTTTACATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTAAATATTTTAATTTTAC
Found at i:27821791 original size:35 final size:35
Alignment explanation
Indices: 27821745--27821814 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
27821735 ATCTGAACTT
*
27821745 AAATGAGTAAACTAAGTGTTACTTCAAATGGTGAA
1 AAATGAGTAAACTAAATGTTACTTCAAATGGTGAA
27821780 AAATGAGTAAACTAAATGTTACTTCAAATGGTGAA
1 AAATGAGTAAACTAAATGTTACTTCAAATGGTGAA
27821815 GTGTTGTCCG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.29
Consensus pattern (35 bp):
AAATGAGTAAACTAAATGTTACTTCAAATGGTGAA
Found at i:27823744 original size:13 final size:13
Alignment explanation
Indices: 27823726--27823751 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27823716 GCATTTCAAA
27823726 TGCTTAGTAAGTT
1 TGCTTAGTAAGTT
27823739 TGCTTAGTAAGTT
1 TGCTTAGTAAGTT
27823752 CGTATAACAA
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:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
TGCTTAGTAAGTT
Found at i:27824590 original size:20 final size:20
Alignment explanation
Indices: 27824541--27824590 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
27824531 TAAAAATTAA
27824541 ATTATAGCTGAATTAAATTT
1 ATTATAGCTGAATTAAATTT
* * *
27824561 GTCATAGCTGAATTAAGTTT
1 ATTATAGCTGAATTAAATTT
*
27824581 ATTATGGCTG
1 ATTATAGCTG
27824591 CCGAATTTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (20 bp):
ATTATAGCTGAATTAAATTT
Found at i:27828004 original size:93 final size:93
Alignment explanation
Indices: 27827890--27828060 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
27827880 GCCCATAAGA
* *
27827890 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
27827955 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
27827983 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
27828048 CGAGTTCGGATGC
66 CGAGTTCGGATGC
27828061 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:27828057 original size:46 final size:46
Alignment explanation
Indices: 27827882--27828057 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
27827872 TGTAACCCGC
* * * * *
27827882 CCATAAGAGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
27827928 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
27827978 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
27828021 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
27828058 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:27828076 original size:46 final size:46
Alignment explanation
Indices: 27827931--27828069 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 46
27827921 TTCGCATCCA
27827931 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
27827979 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
27828024 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
27828070 CTAGTGACAT
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.37
47 30 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:27833039 original size:47 final size:44
Alignment explanation
Indices: 27832943--27833039 Score: 106
Period size: 47 Copynumber: 2.1 Consensus size: 44
27832933 AAAATGTAAA
*
27832943 AGAAAAGAAAAGTGAGAAAAAAGAGGAAAAACAATAAAAGAGAG
1 AGAAAAGAAAAGTGAGAAAAAAGAGGAAAAACAACAAAAGAGAG
* * * *
27832987 TGAAAAGAAAA-TGAGAAAAGAAAAGGGTGAAAAAGAACAAAAGAGTG
1 AGAAAAGAAAAGTGAG--AA-AAAAGAG-GAAAAACAACAAAAGAGAG
27833034 AGAAAA
1 AGAAAA
27833040 TGAGTGTGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
43 4 0.09
44 10 0.23
45 2 0.05
46 6 0.14
47 21 0.49
ACGTcount: A:0.66, C:0.02, G:0.26, T:0.06
Consensus pattern (44 bp):
AGAAAAGAAAAGTGAGAAAAAAGAGGAAAAACAACAAAAGAGAG
Found at i:27842520 original size:47 final size:47
Alignment explanation
Indices: 27842466--27842656 Score: 265
Period size: 47 Copynumber: 4.1 Consensus size: 47
27842456 TTAGGATTTT
** * *
27842466 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
27842513 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
27842560 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
27842607 ATGTGGTGAATATGAACATGTATATATGTGGTAAAGCTGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
27842654 ATG
1 ATG
27842657 CGAAATATGT
Statistics
Matches: 129, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 129 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:27842566 original size:22 final size:22
Alignment explanation
Indices: 27842495--27842566 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
27842485 GTATATATGA
27842495 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
27842517 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
27842542 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
27842564 GAT
1 GAT
27842567 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:27842615 original size:25 final size:25
Alignment explanation
Indices: 27842540--27842615 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
27842530 ATGCATATAT
27842540 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
27842565 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
27842587 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
27842612 GTGA
1 GTGA
27842616 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:27842794 original size:98 final size:96
Alignment explanation
Indices: 27842630--27842813 Score: 289
Period size: 98 Copynumber: 1.9 Consensus size: 96
27842620 GAACATGTAT
* * *
27842630 ATATGTGGTAAAGCTGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAGTCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
27842695 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
*
27842726 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGCG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
*
27842790 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
27842814 GGCGATGTGC
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
95 1 0.01
96 25 0.31
97 2 0.03
98 52 0.65
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:27842829 original size:50 final size:48
Alignment explanation
Indices: 27842629--27842813 Score: 282
Period size: 48 Copynumber: 3.8 Consensus size: 48
27842619 TGAACATGTA
* *
27842629 TATATGTGGTAAAGCTGAATGGCTAATGCGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
27842677 TATATGTGGTAAAGTCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
27842725 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
27842775 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
27842814 GGCGATGTGC
Statistics
Matches: 124, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
47 1 0.01
48 77 0.62
49 4 0.03
50 41 0.33
51 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:27843068 original size:37 final size:37
Alignment explanation
Indices: 27842960--27843068 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
27842950 GGAAATATAT
*
27842960 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
27842997 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
27843034 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
27843069 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:27847930 original size:20 final size:20
Alignment explanation
Indices: 27847902--27847940 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27847892 CATGAACATT
27847902 ACTAAGTCACAAACATATTC
1 ACTAAGTCACAAACATATTC
* *
27847922 ACTAGGTCACAAATATATT
1 ACTAAGTCACAAACATATT
27847941 TCACATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.28
Consensus pattern (20 bp):
ACTAAGTCACAAACATATTC
Found at i:27852375 original size:25 final size:25
Alignment explanation
Indices: 27852347--27852396 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
27852337 TAAAGGGGGG
*
27852347 TAAGGCATTTCAC-ATGAATTTTTAA
1 TAAGCCATTTC-CTATGAATTTTTAA
27852372 TAAGCCATTTCCTATGAATTTTTAA
1 TAAGCCATTTCCTATGAATTTTTAA
27852397 AGTATGTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.04
25 22 0.96
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (25 bp):
TAAGCCATTTCCTATGAATTTTTAA
Found at i:27853725 original size:8 final size:8
Alignment explanation
Indices: 27853696--27853755 Score: 65
Period size: 7 Copynumber: 8.0 Consensus size: 8
27853686 TTAGGATGTC
27853696 TAGGG-TT
1 TAGGGTTT
*
27853703 TAGCG-TT
1 TAGGGTTT
27853710 TAGGGTTT
1 TAGGGTTT
*
27853718 TAGAGTTT
1 TAGGGTTT
27853726 TAGGGTTT
1 TAGGGTTT
27853734 TA-GGTTT
1 TAGGGTTT
*
27853741 TAAGG-TT
1 TAGGGTTT
27853748 TAGGGTTT
1 TAGGGTTT
27853756 AATGTTGCCT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
7 23 0.51
8 22 0.49
ACGTcount: A:0.17, C:0.02, G:0.33, T:0.48
Consensus pattern (8 bp):
TAGGGTTT
Found at i:27853741 original size:15 final size:16
Alignment explanation
Indices: 27853696--27853748 Score: 67
Period size: 15 Copynumber: 3.5 Consensus size: 16
27853686 TTAGGATGTC
*
27853696 TAGGG-TTTAGCG-TT
1 TAGGGTTTTAGAGTTT
27853710 TAGGGTTTTAGAGTTT
1 TAGGGTTTTAGAGTTT
27853726 TAGGGTTTTAG-GTTT
1 TAGGGTTTTAGAGTTT
*
27853741 TAAGGTTT
1 TAGGGTTT
27853749 AGGGTTTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
14 5 0.14
15 17 0.49
16 13 0.37
ACGTcount: A:0.17, C:0.02, G:0.32, T:0.49
Consensus pattern (16 bp):
TAGGGTTTTAGAGTTT
Found at i:27853754 original size:15 final size:16
Alignment explanation
Indices: 27853708--27853755 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
27853698 GGGTTTAGCG
* *
27853708 TTTAGGGTTTTAGAGT
1 TTTAAGGTTTTAGGGT
*
27853724 TTTAGGGTTTTA-GGT
1 TTTAAGGTTTTAGGGT
27853739 TTTAAGG-TTTAGGGT
1 TTTAAGGTTTTAGGGT
27853754 TT
1 TT
27853756 AATGTTGCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 4 0.14
15 13 0.45
16 12 0.41
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.52
Consensus pattern (16 bp):
TTTAAGGTTTTAGGGT
Found at i:27854439 original size:25 final size:25
Alignment explanation
Indices: 27854411--27854460 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
27854401 TAAAGGGGGG
*
27854411 TAAGGCATTTCACATGAATTTTTAA
1 TAAGCCATTTCACATGAATTTTTAA
*
27854436 TAAGCCATTTCCCATGAATTTTTAA
1 TAAGCCATTTCACATGAATTTTTAA
27854461 AGAATGTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (25 bp):
TAAGCCATTTCACATGAATTTTTAA
Found at i:27855780 original size:8 final size:7
Alignment explanation
Indices: 27855758--27855811 Score: 63
Period size: 7 Copynumber: 7.3 Consensus size: 7
27855748 TTAGCATGTC
*
27855758 TAGGGTT
1 TAGGTTT
27855765 TAGGGTTT
1 TA-GGTTT
27855773 TAGAGTTT
1 TAG-GTTT
27855781 TAGGGTTT
1 TA-GGTTT
27855789 TAGGTTT
1 TAGGTTT
*
27855796 TAGGGTT
1 TAGGTTT
27855803 TAGGTTT
1 TAGGTTT
27855810 TA
1 TA
27855812 ATGTTGCCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
7 22 0.54
8 18 0.44
9 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (7 bp):
TAGGTTT
Found at i:27855795 original size:15 final size:15
Alignment explanation
Indices: 27855758--27855811 Score: 83
Period size: 16 Copynumber: 3.6 Consensus size: 15
27855748 TTAGCATGTC
*
27855758 TAGGGTTTAGGGTTT
1 TAGGTTTTAGGGTTT
27855773 TAGAGTTTTAGGGTTT
1 TAG-GTTTTAGGGTTT
27855789 TAGGTTTTAGGG-TT
1 TAGGTTTTAGGGTTT
27855803 TAGGTTTTA
1 TAGGTTTTA
27855812 ATGTTGCCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
14 11 0.30
15 12 0.32
16 14 0.38
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (15 bp):
TAGGTTTTAGGGTTT
Found at i:27856640 original size:6 final size:6
Alignment explanation
Indices: 27856629--27856795 Score: 166
Period size: 6 Copynumber: 27.7 Consensus size: 6
27856619 ACCAAAATGC
* *
27856629 GAATCA GAATCA AAATCA GTAA-CA GAATCA GAATCA GAATCA -ATATTA
1 GAATCA GAATCA GAATCA G-AATCA GAATCA GAATCA GAATCA GA-ATCA
*
27856677 GTAA-CA GAATCA GAATCA GAATCA TAATCA GAATCA GTAA-CA GAATCA
1 G-AATCA GAATCA GAATCA GAATCA GAATCA GAATCA G-AATCA GAATCA
* * *
27856725 GAATCA GAATCA GTATTA GTAA-CA GAATCA GAATCA GAATCA GAATTA
1 GAATCA GAATCA GAATCA G-AATCA GAATCA GAATCA GAATCA GAATCA
*
27856773 CGTGA-CA GAATCA GAATCA GAAT
1 -G-AATCA GAATCA GAATCA GAAT
27856796 GTGAATGCAA
Statistics
Matches: 134, Mismatches: 14, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
5 10 0.07
6 114 0.85
7 8 0.06
8 2 0.01
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (6 bp):
GAATCA
Found at i:27856665 original size:30 final size:30
Alignment explanation
Indices: 27856629--27856795 Score: 208
Period size: 30 Copynumber: 5.3 Consensus size: 30
27856619 ACCAAAATGC
*
27856629 GAATCAGAATCAAAATCAGTAACAGAATCA
1 GAATCAGAATCAAAATTAGTAACAGAATCA
*
27856659 GAATCAGAATCAATATTAGTAACAGAATCA
1 GAATCAGAATCAAAATTAGTAACAGAATCA
*
27856689 GAATCAGAATCATAATCAGAATCAGTAACAGAATCA
1 GAATCAGAATC---A--A-AATTAGTAACAGAATCA
**
27856725 GAATCAGAATCAGTATTAGTAACAGAATCA
1 GAATCAGAATCAAAATTAGTAACAGAATCA
* *
27856755 GAATCAGAATCAGAATTACGTGACAGAATCA
1 GAATCAGAATCAAAATTA-GTAACAGAATCA
27856786 GAATCAGAAT
1 GAATCAGAAT
27856796 GTGAATGCAA
Statistics
Matches: 121, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
30 71 0.59
31 21 0.17
33 2 0.02
35 1 0.01
36 26 0.21
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (30 bp):
GAATCAGAATCAAAATTAGTAACAGAATCA
Found at i:27856950 original size:27 final size:26
Alignment explanation
Indices: 27856913--27856978 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
27856903 AGCATGGCTG
*
27856913 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* **
27856939 CCAGATACAGATATTGTGGTAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
27856966 CCAGAATCAGATA
1 CCAGAA-CAGATA
27856979 ATGTGGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:27856983 original size:27 final size:27
Alignment explanation
Indices: 27856932--27856984 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
27856922 ATATCGTGAC
* *
27856932 AGAGTCACCAGATACAGATATTGTGGT
1 AGAGCCACCAGATACAGATAATGTGGT
27856959 AGAGCCACCAGA-ATCAGATAATGTGG
1 AGAGCCACCAGATA-CAGATAATGTGG
27856985 CAAACCCACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (27 bp):
AGAGCCACCAGATACAGATAATGTGGT
Found at i:27856993 original size:27 final size:27
Alignment explanation
Indices: 27856937--27856994 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
27856927 GTGACAGAGT
* * * *
27856937 CACCAGATACAGATATTGTGGTAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
27856964 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
27856991 CACC
1 CACC
27856995 TAACAGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:27857199 original size:22 final size:22
Alignment explanation
Indices: 27857151--27857209 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
27857141 GTAAATAAGT
*
27857151 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
27857173 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
27857195 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
27857210 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:27857376 original size:27 final size:26
Alignment explanation
Indices: 27857297--27857379 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
27857287 TCGATCGGTC
* * * *
27857297 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCACAGCCACCAG
27857323 ATACAGATATTGTGGCACAGCCACCAG
1 A-ACAGATATTGTGGCACAGCCACCAG
*
27857350 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCACAGCCACCAG
27857377 AAC
1 AAC
27857380 GCTTCCTCCG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.16
27 42 0.84
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCACAGCCACCAG
Found at i:27857608 original size:27 final size:27
Alignment explanation
Indices: 27857578--27857766 Score: 243
Period size: 27 Copynumber: 7.0 Consensus size: 27
27857568 GGGGCAAAAT
* * *
27857578 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
27857605 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
27857632 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
27857659 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
27857686 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
27857713 AGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
27857740 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
27857767 AATAATTTCA
Statistics
Matches: 141, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 141 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:27857825 original size:27 final size:27
Alignment explanation
Indices: 27857785--27858024 Score: 213
Period size: 27 Copynumber: 8.9 Consensus size: 27
27857775 CACAGTCAAT
*
27857785 GGTAAAACGGTAATTCTGTAAATCGAG
1 GGTAAAACGATAATTCTGTAAATCGAG
* * *
27857812 GGTAGACCGATAATTTTGTAAA-CTGAG
1 GGTAAAACGATAATTCTGTAAATC-GAG
* * *
27857839 GAT-AAACCAGTAATTCTGTAAATCAAG
1 GGTAAAACGA-TAATTCTGTAAATCGAG
* * ** * *
27857866 GGTAAAACGGTAATTTTACAAATCAAT
1 GGTAAAACGATAATTCTGTAAATCGAG
* * *
27857893 GGTAAAACGGTAATTCTATAAATTGAG
1 GGTAAAACGATAATTCTGTAAATCGAG
27857920 GGTAAAAC-AGTAATTCTGTAAA-CTGAG
1 GGTAAAACGA-TAATTCTGTAAATC-GAG
27857947 GGTAAAACGATAATTCTGTAAATCGAG
1 GGTAAAACGATAATTCTGTAAATCGAG
*
27857974 GGTAAAA-TAGTAATTCTGTAAA-CTGAG
1 GGTAAAACGA-TAATTCTGTAAATC-GAG
* *
27858001 GGTAAAACGGTAATTCTATAAATC
1 GGTAAAACGATAATTCTGTAAATC
27858025 AGGAGTACTT
Statistics
Matches: 172, Mismatches: 29, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
26 6 0.03
27 158 0.92
28 8 0.05
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (27 bp):
GGTAAAACGATAATTCTGTAAATCGAG
Found at i:27857859 original size:54 final size:55
Alignment explanation
Indices: 27857785--27858024 Score: 285
Period size: 54 Copynumber: 4.4 Consensus size: 55
27857775 CACAGTCAAT
* * *
27857785 GGTAAAACGGTAATTCTGTAAATCGAGGGTAGACCGA-TAATTTTGTAAACTGAG
1 GGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGAGTAATTCTGTAAACTGAG
* * * * * * *
27857839 GATAAACCAGTAATTCTGTAAATCAAGGGTAAAACG-GTAATT-T-TACAAATCAAT
1 GGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGAGTAATTCTGTA-AACT-GAG
* *
27857893 GGTAAAACGGTAATTCTATAAATTGAGGGTAAAAC-AGTAATTCTGTAAACTGAG
1 GGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGAGTAATTCTGTAAACTGAG
* *
27857947 GGTAAAACGATAATTCTGTAAATCGAGGGTAAAA-TAGTAATTCTGTAAACTGAG
1 GGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGAGTAATTCTGTAAACTGAG
*
27858001 GGTAAAACGGTAATTCTATAAATC
1 GGTAAAACGGTAATTCTGTAAATC
27858025 AGGAGTACTT
Statistics
Matches: 156, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
52 2 0.01
53 4 0.03
54 144 0.92
55 4 0.03
56 2 0.01
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (55 bp):
GGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGAGTAATTCTGTAAACTGAG
Found at i:27858042 original size:81 final size:80
Alignment explanation
Indices: 27857785--27858027 Score: 290
Period size: 81 Copynumber: 3.0 Consensus size: 80
27857775 CACAGTCAAT
* * * * *
27857785 GGTAAAACGGTAATTCTGTAAATCGAGGGT-AGACCGATAATTTTGTAAACTGAGGATAAACCAG
1 GGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTGTAAACTGAGGGTAAAACAG
27857849 TAATTCTGTAAATCAAG
65 TAATTCTGTAAATC-AG
* ** * * * * *
27857866 GGTAAAACGGTAATTTTACAAATCAATGGTAAAACGGTAATTCTATAAATTGAGGGTAAAACAGT
1 GGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACAGT
*
27857931 AATTCTGTAAACTGAG
66 AATTCTGTAAA-TCAG
* * *
27857947 GGTAAAACGATAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGGT
1 GGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACAGT
*
27858012 AATTCTATAAATCAG
66 AATTCTGTAAATCAG
27858027 G
1 G
27858028 AGTACTTTGG
Statistics
Matches: 134, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
80 4 0.03
81 125 0.93
82 5 0.04
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (80 bp):
GGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACAGT
AATTCTGTAAATCAG
Found at i:27858054 original size:81 final size:79
Alignment explanation
Indices: 27857785--27858056 Score: 262
Period size: 81 Copynumber: 3.4 Consensus size: 79
27857775 CACAGTCAAT
* * * * *
27857785 GGTAAAACGGTAATTCTGTA-AATCGAGGGT-AGACCGATAATTTTGTAAACTGAGGATAAACCA
1 GGTAAAACGGTAATT-T-TACAATCGAGGGTAAAACAG-TAATTCTGTAAACTGAGGGTAAAACA
27857848 GTAATTCTGTAAATCAAG
63 GTAATTCTGTAAATC-AG
* * * * *
27857866 GGTAAAACGGTAATTTTACAAATCAATGGTAAAACGGTAATTCTATAAATTGAGGGTAAAACAGT
1 GGTAAAACGGTAATTTTAC-AATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACAGT
*
27857931 AATTCTGTAAACTGAG
65 AATTCTGTAAA-TCAG
* * *
27857947 GGTAAAACGATAATTCTGTA-AATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
1 GGTAAAACGGTAATT-T-TACAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACAG
*
27858011 TAATTCTATAAATCAG
64 TAATTCTGTAAATCAG
****
27858027 GAGTACTTTGGTAATTTTACAAGTCGAGGG
1 G-GTAAAACGGTAATTTTACAA-TCGAGGG
27858057 CATTTCAGTA
Statistics
Matches: 157, Mismatches: 25, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
79 4 0.03
80 8 0.05
81 137 0.87
82 6 0.04
83 2 0.01
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (79 bp):
GGTAAAACGGTAATTTTACAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACAGTA
ATTCTGTAAATCAG
Found at i:27859449 original size:25 final size:25
Alignment explanation
Indices: 27859421--27859470 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
27859411 TAAAGGGGGG
*
27859421 TAAGGCATTTCACATGAATTTTTAA
1 TAAGCCATTTCACATGAATTTTTAA
*
27859446 TAAGCCATTTCCCATGAATTTTTAA
1 TAAGCCATTTCACATGAATTTTTAA
27859471 AGTATGTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (25 bp):
TAAGCCATTTCACATGAATTTTTAA
Found at i:27860793 original size:8 final size:8
Alignment explanation
Indices: 27860768--27860836 Score: 103
Period size: 8 Copynumber: 9.2 Consensus size: 8
27860758 TTAGCATGTC
27860768 TAGGG-TT
1 TAGGGTTT
27860775 TAGGG-TT
1 TAGGGTTT
27860782 TAGGGTTT
1 TAGGGTTT
27860790 TAGGGTTT
1 TAGGGTTT
27860798 TAGGGTTT
1 TAGGGTTT
27860806 TAGGGTTT
1 TAGGGTTT
27860814 TA-GGTTT
1 TAGGGTTT
27860821 TAGGG-TT
1 TAGGGTTT
27860828 TA-GGTTT
1 TAGGGTTT
27860835 TA
1 TA
27860837 CTGTTGCCTT
Statistics
Matches: 59, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
6 2 0.03
7 27 0.46
8 30 0.51
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.49
Consensus pattern (8 bp):
TAGGGTTT
Found at i:27863207 original size:487 final size:487
Alignment explanation
Indices: 27862294--27863244 Score: 1643
Period size: 487 Copynumber: 2.0 Consensus size: 487
27862284 GACTTGAACA
27862294 TACACCATTTCATAAAACCAGGCAACAAAATTTCATTTAAATTAAAAATATTCAATCACATGCAT
1 TACACCATTTCATAAAACCAGGCAACAAAATTTCATTTAAATTAAAAATATTCAATCACATGCAT
* *
27862359 AATGTCCCTTACACGAGCTACTGTGGCTCTAAACATGCATTAAAGGAGGGTTGGGACTAAACCGA
66 AATGTCCCTTACACGAGATACCGTGGCTCTAAACATGCATTAAAGGAGGGTTGGGACTAAACCGA
*
27862424 GAACTTTGGAAAGTTCTGGGAAAACTTAGAAATTGTTCTCATAAAACAAGGTCACACACCCGTGT
131 GAACTTTGGAAAGTTCTGGGAAAACTTAGAAATTGTTCTCATAAAACAAAGTCACACACCCGTGT
* * * * * * *
27862489 GGACACAAGGGCACACCTGTGTCCTTAGGCTGTGTAACTCTCTATTTATGACGTGAGCACACAAT
196 GGACACAAAGGCACACCCGTGTCCTCAGGATGTATAAATCTCTATTTATGACGTCAGCACACAAT
*
27862554 TTGAACCACACGGCCAGGCCACACGCCCATGTCACCAAGCCGTGTCCCTCACAAGGTTGAGACAC
261 TTGAACCACACGGCCAGGCCACACGCCCATGTCACCAAGCCGTGTCCATCACAAGGTTGAGACAC
** * * *
27862619 ACGGTCGTGTCTGGAACGACGAAAAATGTGCAAGTGTACACAATCGCAATAAGTAATAAAGTGAC
326 ACGACCATGTCTAGAACGACGAAAAATGTGCAAGTGTACACAATCGCAACAAGTAATAAAGTGAC
27862684 AAGTAAATGTCGAGTTATCATACCTACAGGGACTGTAAAAGAATTATTTATGAAATTAATTGTAA
391 AAGTAAATGTCGAGTTATCATACCTACAGGGACTGTAAAAGAATTATTTATGAAATTAATTGTAA
27862749 AACACTTTGTTAAGGAGGGTTGGGACTAAACG
456 AACACTTTGTTAAGGAGGGTTGGGACTAAACG
* *
27862781 TACACCATTTCATAAAACCAGGTAATAAAATTTCATTTAAATTAAAAATATTCAATCACATGCAT
1 TACACCATTTCATAAAACCAGGCAACAAAATTTCATTTAAATTAAAAATATTCAATCACATGCAT
27862846 AATGTCCCTTACACGAGATACCGTGGCTCTAAACATGCATTAAAGGAGGGTTGGGACTAAACCGA
66 AATGTCCCTTACACGAGATACCGTGGCTCTAAACATGCATTAAAGGAGGGTTGGGACTAAACCGA
* * * *
27862911 GAACTTTGGAAAGTTTTGGGAAAACTTAGAATTTTTTCTCATAAAACAAAGTCACACGCCCGTGT
131 GAACTTTGGAAAGTTCTGGGAAAACTTAGAAATTGTTCTCATAAAACAAAGTCACACACCCGTGT
* * *
27862976 GGACACAAAGGCACGCCCGTGTCCTCAGGATGTATAAATCTCTGTTTATGATGTCAGCACACAAT
196 GGACACAAAGGCACACCCGTGTCCTCAGGATGTATAAATCTCTATTTATGACGTCAGCACACAAT
*
27863041 TTGAACCACACGGCCAGGCCACACGCCCATGTCACCAAGCCGTGTCCATCACAAGGTTGAGACGC
261 TTGAACCACACGGCCAGGCCACACGCCCATGTCACCAAGCCGTGTCCATCACAAGGTTGAGACAC
*
27863106 ACGACCATGTCTAGAACGATGGAAAAAT-TGCAAGTGTACACAATCGCAACAAGTAATAAAGTGA
326 ACGACCATGTCTAGAACGA-CGAAAAATGTGCAAGTGTACACAATCGCAACAAGTAATAAAGTGA
27863170 CAAGTAAATGTCGAGTTATCATACCTACAGGGACTGTAAAAGAATTATTTATGAAATTAATTGTA
390 CAAGTAAATGTCGAGTTATCATACCTACAGGGACTGTAAAAGAATTATTTATGAAATTAATTGTA
27863235 AAACACTTTG
455 AAACACTTTG
27863245 GTGAGGTAAA
Statistics
Matches: 436, Mismatches: 27, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
487 429 0.98
488 7 0.02
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (487 bp):
TACACCATTTCATAAAACCAGGCAACAAAATTTCATTTAAATTAAAAATATTCAATCACATGCAT
AATGTCCCTTACACGAGATACCGTGGCTCTAAACATGCATTAAAGGAGGGTTGGGACTAAACCGA
GAACTTTGGAAAGTTCTGGGAAAACTTAGAAATTGTTCTCATAAAACAAAGTCACACACCCGTGT
GGACACAAAGGCACACCCGTGTCCTCAGGATGTATAAATCTCTATTTATGACGTCAGCACACAAT
TTGAACCACACGGCCAGGCCACACGCCCATGTCACCAAGCCGTGTCCATCACAAGGTTGAGACAC
ACGACCATGTCTAGAACGACGAAAAATGTGCAAGTGTACACAATCGCAACAAGTAATAAAGTGAC
AAGTAAATGTCGAGTTATCATACCTACAGGGACTGTAAAAGAATTATTTATGAAATTAATTGTAA
AACACTTTGTTAAGGAGGGTTGGGACTAAACG
Found at i:27865123 original size:17 final size:18
Alignment explanation
Indices: 27865086--27865130 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
27865076 TTTTCTCAAA
27865086 AATTTAA-AAATTATTAAT
1 AATTTAATAAATTA-TAAT
27865104 AATTTAATAAATTA-AAT
1 AATTTAATAAATTATAAT
*
27865121 AATTAAATAA
1 AATTTAATAA
27865131 TAAAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 12 0.48
18 7 0.28
19 6 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATTTAATAAATTATAAT
Found at i:27866055 original size:29 final size:29
Alignment explanation
Indices: 27866000--27866056 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
27865990 CTTTTGAAAA
* * **
27866000 TATTTACAAAAAGAGCATCTAGTTTTTAT
1 TATTTACAAAAAGAGCAACCAAATTTTAT
*
27866029 TATTTACGAAAAGAGCAACCAAATTTTA
1 TATTTACAAAAAGAGCAACCAAATTTTA
27866057 AATCCCTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (29 bp):
TATTTACAAAAAGAGCAACCAAATTTTAT
Found at i:27870353 original size:39 final size:39
Alignment explanation
Indices: 27870299--27870559 Score: 282
Period size: 39 Copynumber: 6.7 Consensus size: 39
27870289 TATCTGAACA
*
27870299 TAGAGTCCACAGGCTATGTGCTGGAATTATATCCGGACT
1 TAGAGTCCGCAGGCTATGTGCTGGAATTATATCCGGACT
27870338 TAGAGTCCGCAGGCTATGTGCTGGAATTATATCCGGACT
1 TAGAGTCCGCAGGCTATGTGCTGGAATTATATCCGGACT
* **
27870377 AAGAGTCCGCAGGCTATGTATTGGAATTATATCCGGACT
1 TAGAGTCCGCAGGCTATGTGCTGGAATTATATCCGGACT
* *
27870416 TA-AGGTCTGCAGGCTATGTGCTGGAATTATAACCGGACT
1 TAGA-GTCCGCAGGCTATGTGCTGGAATTATATCCGGACT
* * *
27870455 TA-AGGTCCGCAGGCTACGTGCTGGAAATATGTCCAGG-C-
1 TAGA-GTCCGCAGGCTATGTGCTGGAATTATATCC-GGACT
* * * * **
27870493 TAAAGTCCCGCAGGCTTTGAGCTGGTATTATA-CCGGGTT
1 TAGAGT-CCGCAGGCTATGTGCTGGAATTATATCCGGACT
* *
27870532 TAAATTCCGCAGGCT-TGTGCTGGTAATT
1 TAGAGTCCGCAGGCTATGTGCTGG-AATT
27870560 GGTTTCAAGT
Statistics
Matches: 191, Mismatches: 24, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
37 9 0.05
38 19 0.10
39 161 0.84
40 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
TAGAGTCCGCAGGCTATGTGCTGGAATTATATCCGGACT
Found at i:27878684 original size:79 final size:78
Alignment explanation
Indices: 27878582--27878745 Score: 204
Period size: 79 Copynumber: 2.1 Consensus size: 78
27878572 CAGTGATGTT
* * ** * *
27878582 TATCCGGACTTAGAGTCCGCAGGCTATGTGTTGGAATTATATTCGGACTTAAGAGTCTGTAGGCT
1 TATCCGGACTTAGAGTCCACAGGCTATGTGCTGGAATTATAACCGGACTTAAG-GTCCGCAGGCT
* *
27878647 ATGTACTGGAATTA
65 ACGTACTGGAAATA
*
27878661 TATCCGGACTTA-AGGTCCACAGGCTATGTGCTGGAGTTATAACCGGACTTAAGGTCCGCAGGCT
1 TATCCGGACTTAGA-GTCCACAGGCTATGTGCTGGAATTATAACCGGACTTAAGGTCCGCAGGCT
*
27878725 ACGTGCTGGAAATA
65 ACGTACTGGAAATA
*
27878739 TGTCCGG
1 TATCCGG
27878746 GCTAAAGTCC
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
78 27 0.37
79 46 0.63
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (78 bp):
TATCCGGACTTAGAGTCCACAGGCTATGTGCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTA
CGTACTGGAAATA
Found at i:27878701 original size:39 final size:40
Alignment explanation
Indices: 27878582--27878745 Score: 208
Period size: 39 Copynumber: 4.2 Consensus size: 40
27878572 CAGTGATGTT
*
27878582 TATCCGGACTT-AGAGTCCGCAGGCTATGTGTTGGAATTA
1 TATCCGGACTTAAGAGTCCGCAGGCTATGTGCTGGAATTA
* * * *
27878621 TATTCGGACTTAAGAGTCTGTAGGCTATGTACTGGAATTA
1 TATCCGGACTTAAGAGTCCGCAGGCTATGTGCTGGAATTA
* *
27878661 TATCCGGACTTAAG-GTCCACAGGCTATGTGCTGGAGTTA
1 TATCCGGACTTAAGAGTCCGCAGGCTATGTGCTGGAATTA
* * *
27878700 TAACCGGACTTAAG-GTCCGCAGGCTACGTGCTGGAAATA
1 TATCCGGACTTAAGAGTCCGCAGGCTATGTGCTGGAATTA
*
27878739 TGTCCGG
1 TATCCGG
27878746 GCTAAAGTCC
Statistics
Matches: 106, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 69 0.65
40 37 0.35
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (40 bp):
TATCCGGACTTAAGAGTCCGCAGGCTATGTGCTGGAATTA
Found at i:27886536 original size:37 final size:37
Alignment explanation
Indices: 27886486--27886564 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
27886476 TTATTACGAA
* *
27886486 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
27886523 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
27886560 GTCTT
1 GTCTT
27886565 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:27886760 original size:47 final size:47
Alignment explanation
Indices: 27886683--27887170 Score: 823
Period size: 47 Copynumber: 10.4 Consensus size: 47
27886673 CCTTCGAGAG
* * * * * * *
27886683 TTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
* *
27886730 CTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
27886777 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
* *
27886824 TTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
* *
27886871 TAATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
27886918 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
27886965 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
**
27887012 TTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
27887059 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
27887106 TTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
27887153 TTATCACATATATACACT
1 TTATCACATATATACACT
27887171 GTCTTGGCTG
Statistics
Matches: 414, Mismatches: 27, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 414 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
Found at i:27890766 original size:40 final size:40
Alignment explanation
Indices: 27890709--27890931 Score: 229
Period size: 40 Copynumber: 5.6 Consensus size: 40
27890699 CCAGCATGAT
* *
27890709 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
27890749 TGCTCTTCGGGACTTAGCCCAGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
27890789 TGCTCTTCGAGACTTAGCCCGGATACATCGCTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
27890829 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* * *
27890870 TGC-CTTC-AGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
27890910 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
27890932 CATCATTCGA
Statistics
Matches: 153, Mismatches: 25, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
39 2 0.01
40 133 0.87
41 18 0.12
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:27891257 original size:29 final size:29
Alignment explanation
Indices: 27891215--27891289 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
27891205 TATAGTGGGT
*
27891215 TCGCACACTTAGTGCCATGTACTTT-AAAC
1 TCGCACACTTAGTGCCATGCA-TTTCAAAC
*
27891244 TCGCACACTTAGTGCCATGCATTTCAAGC
1 TCGCACACTTAGTGCCATGCATTTCAAAC
*
27891273 CCGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
27891290 ATCTCACAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 3 0.07
29 39 0.93
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATGCATTTCAAAC
Found at i:27893240 original size:36 final size:37
Alignment explanation
Indices: 27893193--27893271 Score: 108
Period size: 36 Copynumber: 2.2 Consensus size: 37
27893183 TTATTACGAA
* *
27893193 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATC-G
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
27893229 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
27893266 GTCTTA
1 GTCTTA
27893272 GAGCTCGGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 29 0.76
37 9 0.24
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:27893466 original size:47 final size:47
Alignment explanation
Indices: 27893388--27893925 Score: 882
Period size: 47 Copynumber: 11.4 Consensus size: 47
27893378 CCCTTCGGGA
* * * * * * *
27893388 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27893435 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27893482 CTTATCACATATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27893528 CTTATTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27893576 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27893623 CTTATCACCATATATACACTTTCACATTCATCACATCGGCCTATTAGGC
1 CTTATCA-CATATATACACTTTCACATTCATCACATCGGCC-ATTAGGC
*
27893672 CTTATCACATATATTACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATA-TACACTTTCACATTCATCACATCGGCCATTAGGC
*
27893720 CTTATCAC-CATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27893766 CTTATCACATATATACACATTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27893813 CTTATCACATATATACACTTTTACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27893860 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27893907 CTTATCACATATATACACT
1 CTTATCACATATATACACT
27893926 GTCTTGGCTG
Statistics
Matches: 460, Mismatches: 25, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
46 73 0.16
47 262 0.57
48 85 0.18
49 40 0.09
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27896684 original size:20 final size:18
Alignment explanation
Indices: 27896659--27896704 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
27896649 ACCATGTTCA
27896659 TATTTTTTACATGACTTAAT
1 TATTTTTTA-AT-ACTTAAT
* *
27896679 TATTTTATAATATTTAAT
1 TATTTTTTAATACTTAAT
27896697 TATTTTTT
1 TATTTTTT
27896705 GACAAGAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 13 0.57
19 2 0.09
20 8 0.35
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (18 bp):
TATTTTTTAATACTTAAT
Found at i:27898246 original size:18 final size:18
Alignment explanation
Indices: 27898219--27898263 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
27898209 TGCACTCTTA
*
27898219 TCACAAGTCCATTTCATT
1 TCACATGTCCATTTCATT
27898237 TCACATGTCCATTTCATT
1 TCACATGTCCATTTCATT
27898255 TCACATGTC
1 TCACATGTC
27898264 AAACACACAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.24, C:0.29, G:0.07, T:0.40
Consensus pattern (18 bp):
TCACATGTCCATTTCATT
Found at i:27904657 original size:26 final size:26
Alignment explanation
Indices: 27904626--27904757 Score: 73
Period size: 26 Copynumber: 5.2 Consensus size: 26
27904616 AGCTCTCTAG
27904626 TACACATAGTAGCTTGCACTTAGTAC
1 TACACATAGTAGCTTGCACTTAGTAC
* * ** * *
27904652 TACACAT-GCGACCTAACAATCTGGT--
1 TACACATAG-TAGCTTGCACT-TAGTAC
27904677 -ACACATAGTAGCTTGCACTTAGTAC
1 TACACATAGTAGCTTGCACTTAGTAC
* * **
27904702 TACACA-CGTGACCTAAC-CATTAG-A-
1 TACACATAGT-AGCTTGCAC-TTAGTAC
*
27904726 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCTTGCACTTAGTAC
27904752 TACACA
1 TACACA
27904758 CATGATCGAA
Statistics
Matches: 73, Mismatches: 21, Indels: 24
0.62 0.18 0.20
Matches are distributed among these distances:
23 3 0.04
24 25 0.34
25 10 0.14
26 32 0.44
27 3 0.04
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (26 bp):
TACACATAGTAGCTTGCACTTAGTAC
Found at i:27904700 original size:50 final size:50
Alignment explanation
Indices: 27904625--27904758 Score: 207
Period size: 50 Copynumber: 2.7 Consensus size: 50
27904615 AAGCTCTCTA
*
27904625 GTACACATAGTAGCTTGCACTTAGTACTACACATGCGACCTAACAATCT-G
1 GTACACATAGTAGCTTGCACTTAGTACTACACACGCGACCTAACAAT-TAG
* *
27904675 GTACACATAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATTAG
1 GTACACATAGTAGCTTGCACTTAGTACTACACACGCGACCTAACAATTAG
* *
27904725 ATACACATAGTAGCCTGCACTTAGTACTACACAC
1 GTACACATAGTAGCTTGCACTTAGTACTACACAC
27904759 ATGATCGAAG
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
49 1 0.01
50 77 0.99
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (50 bp):
GTACACATAGTAGCTTGCACTTAGTACTACACACGCGACCTAACAATTAG
Found at i:27912033 original size:30 final size:30
Alignment explanation
Indices: 27911988--27912047 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
27911978 ATTTAATACG
* *
27911988 AACTTTGGCAAAATTATATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
27912018 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
27912048 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:27916497 original size:65 final size:65
Alignment explanation
Indices: 27916393--27916523 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
27916383 CCGCTAGGGT
27916393 TAAGGTTGACCTGAATACATGTTTGACTGTTACTATTTACTACATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATACATGTTTGACTGTTACTATTTACTACATGCCATGTTATTATTATCTGA
*
27916458 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATACATGTTTGACTGTTACTATTTACTACATGCCATGTTATTATTATCTGA
27916523 T
1 T
27916524 GCATGGGACT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (65 bp):
TAAGGTTGACCTGAATACATGTTTGACTGTTACTATTTACTACATGCCATGTTATTATTATCTGA
Found at i:27920076 original size:24 final size:23
Alignment explanation
Indices: 27920041--27920085 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
27920031 ATGTTCCCCT
27920041 GCTTTAATTCAAGAAACTCTTTGC
1 GCTTTAATTCAAGAAA-TCTTTGC
*
27920065 GCTTCTAA-TCAATAAATCTTT
1 GCTT-TAATTCAAGAAATCTTT
27920086 CACAGATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 11 0.58
25 3 0.16
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (23 bp):
GCTTTAATTCAAGAAATCTTTGC
Found at i:27922689 original size:30 final size:30
Alignment explanation
Indices: 27922644--27922703 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
27922634 ATTTAATACG
27922644 AACTTTGGCAAAATTACA-TTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTT-CCCCTA
* *
27922674 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTTCCCCTA
27922704 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTTCCCCTA
Found at i:27926210 original size:40 final size:40
Alignment explanation
Indices: 27926149--27926372 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
27926139 CATTTGAATG
* * * *
27926149 ATATCCGGGCTAAGTCTCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
27926189 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
27926229 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * * *
27926269 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
* * *
27926309 TTATCCAGGCTAAGACCCGAAGTCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
27926349 ATATCCGGGCTAAGACCCAAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
27926373 TGTAACACCC
Statistics
Matches: 158, Mismatches: 23, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
39 2 0.01
40 150 0.95
41 6 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:27927865 original size:79 final size:82
Alignment explanation
Indices: 27927754--27927938 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
27927744 GCTACTCGTT
* *
27927754 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
27927817 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
27927834 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
27927897 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
27927914 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27927939 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Done.