Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 178 of 276
Found at i:58617191 original size:21 final size:21
Alignment explanation
Indices: 58617117--58617191 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 21
58617107 ATTTCTGGGA
*
58617117 GCTTG-CCTACAA-TACTTGTG
1 GCTTGTCC-ACAATTACTAGTG
* * **
58617137 GCTTGTCCACATCTTACTGGCA
1 GCTTGTCCACA-ATTACTAGTG
* *
58617159 GCTTGACTACAATTACTAGTG
1 GCTTGTCCACAATTACTAGTG
58617180 GCTTGTCCACAA
1 GCTTGTCCACAA
58617192 GCTGGTGTGT
Statistics
Matches: 40, Mismatches: 12, Indels: 5
0.70 0.21 0.09
Matches are distributed among these distances:
20 8 0.20
21 18 0.45
22 14 0.35
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.32
Consensus pattern (21 bp):
GCTTGTCCACAATTACTAGTG
Found at i:58627589 original size:40 final size:40
Alignment explanation
Indices: 58627542--58627686 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
58627532 CTCGCACAAG
* * * * *
58627542 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
*
58627582 GCCTTCGGGACTTAGCCCGGATTTAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
58627622 GCCTTC-GAATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
58627663 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
58627687 CATTCGAGTA
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 2 0.02
40 58 0.65
41 27 0.30
42 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:58631526 original size:15 final size:15
Alignment explanation
Indices: 58631474--58631518 Score: 81
Period size: 15 Copynumber: 3.0 Consensus size: 15
58631464 TAGTTTCGGG
*
58631474 CTTATTTATGTATTA
1 CTTATTTATATATTA
58631489 CTTATTTATATATTA
1 CTTATTTATATATTA
58631504 CTTATTTATATATTA
1 CTTATTTATATATTA
58631519 TCTCTTTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (15 bp):
CTTATTTATATATTA
Found at i:58632579 original size:39 final size:39
Alignment explanation
Indices: 58632523--58632701 Score: 288
Period size: 39 Copynumber: 4.6 Consensus size: 39
58632513 ATCGTGATCT
**
58632523 GAAGCCCGAAATCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
58632562 GCAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
58632601 GAAGCCCGGAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
* *
58632640 GAAGCTCGGAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
58632679 GAAGCCCGGAA-GCTAACTGAAGC
1 GAAGCCC-GAAGGCTAACTGAAGC
58632702 TCATCAGAGC
Statistics
Matches: 131, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 129 0.98
40 2 0.02
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:58644028 original size:111 final size:111
Alignment explanation
Indices: 58643834--58644050 Score: 335
Period size: 111 Copynumber: 2.0 Consensus size: 111
58643824 GTGCTGTTAC
* * *
58643834 ATTATGGACTCTTTGGTACACCCATAATTAGTTAGTGTATGAGGGTACACACTAGGGAGTGGGAA
1 ATTATAGACTCTTTGGTACACCAATAATAAGTTAGTGTATGAGGGTACACACTAGGGAGTGGGAA
* *
58643899 AATTGGCGGTCTTCATTCGCAGTTACTGTGTGGAACTAGCAATTGT
66 AATTAGCGGTCTTCATTCGCAGTTACTGTGTAGAACTAGCAATTGT
* * **
58643945 ATTATAGACTCTTTGGTATACCAATAATAAGTTAGTGTATGAGGGTACACATTAGGGAGTGGGGG
1 ATTATAGACTCTTTGGTACACCAATAATAAGTTAGTGTATGAGGGTACACACTAGGGAGTGGGAA
* *
58644010 AATTAGTGGTCTTCATTCGCGGTTACTGTGTAGAACTAGCA
66 AATTAGCGGTCTTCATTCGCAGTTACTGTGTAGAACTAGCA
58644051 GCTTTGACTA
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
111 95 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (111 bp):
ATTATAGACTCTTTGGTACACCAATAATAAGTTAGTGTATGAGGGTACACACTAGGGAGTGGGAA
AATTAGCGGTCTTCATTCGCAGTTACTGTGTAGAACTAGCAATTGT
Found at i:58657568 original size:7 final size:7
Alignment explanation
Indices: 58657558--58657583 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
58657548 TCGAGTTTCA
58657558 AAAATTG
1 AAAATTG
58657565 AAAATTG
1 AAAATTG
58657572 AAAATTG
1 AAAATTG
58657579 AAAAT
1 AAAAT
58657584 CTAATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.27
Consensus pattern (7 bp):
AAAATTG
Found at i:58661323 original size:27 final size:27
Alignment explanation
Indices: 58661293--58661347 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
58661283 GATGAAAATT
*
58661293 TCCCTACATCATTTCCAATGAGTAGAA
1 TCCCTACATCATTCCCAATGAGTAGAA
58661320 TCCCTACATCATTCCCAATGAGTAGAA
1 TCCCTACATCATTCCCAATGAGTAGAA
58661347 T
1 T
58661348 GTTATTGACG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.29
Consensus pattern (27 bp):
TCCCTACATCATTCCCAATGAGTAGAA
Found at i:58662536 original size:155 final size:155
Alignment explanation
Indices: 58662254--58662721 Score: 911
Period size: 155 Copynumber: 3.0 Consensus size: 155
58662244 CCGACTTACC
58662254 ATATTATTTGGACAACTGCGTTCTTTTAACTTGGCTTGTGCAATGTATCTCTCTAAAGAG-ACAT
1 ATATTATTTGGACAACTGCGTTCTTTTAACTTGGCTTGTGCAATGTATCTCTCTAAAGAGTAC-T
*
58662318 CCATTTACATATACCCTCATATGTGGCCTTTGAGCCTAAGATTTGACGAATAGCTTTTAGAACTA
65 CCATTTACATATACCCTCATATGTGGCCTTTGAGCTTAAGATTTGACGAATAGCTTTTAGAACTA
58662383 CTTTATTTCGAAACTGTAGTTGTATG
130 CTTTATTTCGAAACTGTAGTTGTATG
58662409 ATATTATTTGGACAACTGCGTTCTTTTAACTTGGCTTGTGCAATGTATCTCTCTAAAGAGTACTC
1 ATATTATTTGGACAACTGCGTTCTTTTAACTTGGCTTGTGCAATGTATCTCTCTAAAGAGTACTC
58662474 CATTTACATATACCCTCATATGTGGCCTTTGAGCTTAAGATTTGACGAATAGCTTTTAGAACTAC
66 CATTTACATATACCCTCATATGTGGCCTTTGAGCTTAAGATTTGACGAATAGCTTTTAGAACTAC
58662539 TTTATTTCGAAACTGTAGTTGTATG
131 TTTATTTCGAAACTGTAGTTGTATG
58662564 ATATTATTTGGACAACTGCGTTCTTTTAACTTGGCTTGTGCAATGTATCTCTCTAAAGAGTACTC
1 ATATTATTTGGACAACTGCGTTCTTTTAACTTGGCTTGTGCAATGTATCTCTCTAAAGAGTACTC
58662629 CATTTACATATACCCTCATATGTGGCCTTTGAGCTTAAGATTTGACGAATAGCTTTTAGAACTAC
66 CATTTACATATACCCTCATATGTGGCCTTTGAGCTTAAGATTTGACGAATAGCTTTTAGAACTAC
58662694 TTTATTTCGAAACTGTAGTTGTATG
131 TTTATTTCGAAACTGTAGTTGTATG
58662719 ATA
1 ATA
58662722 GCCCACTAGC
Statistics
Matches: 311, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
155 309 0.99
156 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.39
Consensus pattern (155 bp):
ATATTATTTGGACAACTGCGTTCTTTTAACTTGGCTTGTGCAATGTATCTCTCTAAAGAGTACTC
CATTTACATATACCCTCATATGTGGCCTTTGAGCTTAAGATTTGACGAATAGCTTTTAGAACTAC
TTTATTTCGAAACTGTAGTTGTATG
Found at i:58664293 original size:43 final size:43
Alignment explanation
Indices: 58664169--58664316 Score: 160
Period size: 43 Copynumber: 3.4 Consensus size: 43
58664159 TGTGTTATTG
* * *
58664169 TGTAAGACCACGTCTTGGATGTTGGCATTGACT-TATGATTTACG
1 TGTAAGACCACGTCTGGGATGTTGGCATTGA-TATTTGATTT-CA
* * *
58664213 TGTAAGACCACGTCTGGGACGTTGGCA-TCATACTTGATTTCA
1 TGTAAGACCACGTCTGGGATGTTGGCATTGATATTTGATTTCA
*
58664255 TGTAAGACC-CTGTCTGGGATAG-TGGCATTGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAT-GTTGGCATTGATATTTGATTTCA
*
58664298 TGTAAGACCACGTATGGGA
1 TGTAAGACCACGTCTGGGA
58664317 CATTGACATT
Statistics
Matches: 88, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
41 1 0.01
42 24 0.27
43 37 0.42
44 26 0.30
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGATGTTGGCATTGATATTTGATTTCA
Found at i:58669227 original size:40 final size:40
Alignment explanation
Indices: 58669181--58669365 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
58669171 CTTGCACAAG
* * *
58669181 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
58669221 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
58669261 GCCTTCGGGTCTTAGACCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
58669301 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
58669342 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
58669366 CATTCGAATA
Statistics
Matches: 122, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 92 0.75
41 29 0.24
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:58669356 original size:121 final size:118
Alignment explanation
Indices: 58669145--58669365 Score: 300
Period size: 121 Copynumber: 1.8 Consensus size: 118
58669135 CTCAAGAAAT
* * * * *
58669145 CTTCGGGATTTAGCCGGATATAACTACTTGCACAAGGCCTTCGGGTCTTAGCCCGGATGTGGTCA
1 CTTCGGGATTTAGCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGTCA
* *
58669210 CTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
66 CTAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
* * * *
58669263 CTTCGGG-TCTTAGACCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAG
1 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCAC-AAGGCCTTCGGATCTTAGCCCGGATATAG
58669327 TCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
63 TCA-CTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
58669366 CATTCGAATA
Statistics
Matches: 88, Mismatches: 11, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
117 1 0.01
118 11 0.12
119 17 0.19
120 26 0.30
121 33 0.38
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.25
Consensus pattern (118 bp):
CTTCGGGATTTAGCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGTCA
CTAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
Found at i:58676929 original size:40 final size:40
Alignment explanation
Indices: 58676883--58677067 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 40
58676873 CTTGCACAAG
* * *
58676883 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
58676923 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
58676963 GCCTTCGGGTCTTAGACCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * * * *
58677003 GCCTTCAGATCTTAGTCCGGTTGTAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
58677044 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
58677068 CATTCGAATA
Statistics
Matches: 118, Mismatches: 24, Indels: 5
0.80 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 90 0.76
41 27 0.23
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:58677058 original size:121 final size:118
Alignment explanation
Indices: 58676847--58677067 Score: 300
Period size: 121 Copynumber: 1.8 Consensus size: 118
58676837 CTCAAGAAAT
* * * * *
58676847 CTTCGGGATTTAGCCGGATATAACTACTTGCACAAGGCCTTCGGGTCTTAGCCCGGATGTGGTCA
1 CTTCGGGATTTAGCCGGATATAACAACTCGCACAAGGCCTTCAGATCTTAGCCCGGATGTAGTCA
* *
58676912 CTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
66 CTAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
* * * *
58676965 CTTCGGG-TCTTAGACCGGATATAGCAACTCGCACGAATGCCTTCAGATCTTAGTCCGGTTGTAG
1 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCAC-AAGGCCTTCAGATCTTAGCCCGGATGTAG
58677029 TCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
63 TCA-CTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
58677068 CATTCGAATA
Statistics
Matches: 88, Mismatches: 11, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
117 1 0.01
118 11 0.12
119 17 0.19
120 26 0.30
121 33 0.38
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.25
Consensus pattern (118 bp):
CTTCGGGATTTAGCCGGATATAACAACTCGCACAAGGCCTTCAGATCTTAGCCCGGATGTAGTCA
CTAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
Found at i:58678758 original size:21 final size:20
Alignment explanation
Indices: 58678721--58678760 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
58678711 GCTGTCACAC
* *
58678721 AGGGCACACGCCTGTGTGGA
1 AGGGCACACACCCGTGTGGA
58678741 AGGGCAACACACCCGTGTGG
1 AGGGC-ACACACCCGTGTGG
58678761 TCATTTTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.12
Consensus pattern (20 bp):
AGGGCACACACCCGTGTGGA
Found at i:58680371 original size:55 final size:55
Alignment explanation
Indices: 58680302--58680421 Score: 152
Period size: 55 Copynumber: 2.2 Consensus size: 55
58680292 TGCCCTTCAG
* *
58680302 CCGTGGGCAACACTGACTTATCAACACGGCCATGGCACACACCCGTGCT-GCCTGC
1 CCGTGGACAACACTGACTTATCAACACGGCCATGGCACACACCCGTG-TGGCCTAC
* * * * *
58680357 CCGTGGACGACACTGTCTTTTTAACACGGCCATGGCACACGCCCGTGTGGCCTAC
1 CCGTGGACAACACTGACTTATCAACACGGCCATGGCACACACCCGTGTGGCCTAC
*
58680412 CCGTGTACAA
1 CCGTGGACAA
58680422 ATTTGAGCTA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 1 0.02
55 54 0.98
ACGTcount: A:0.21, C:0.36, G:0.24, T:0.19
Consensus pattern (55 bp):
CCGTGGACAACACTGACTTATCAACACGGCCATGGCACACACCCGTGTGGCCTAC
Found at i:58681212 original size:45 final size:45
Alignment explanation
Indices: 58681161--58681250 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
58681151 AACAAAGCAT
58681161 CATGTAATTTATGTAGATGAGATCATCATTCATCATCTTATTGAC
1 CATGTAATTTATGTAGATGAGATCATCATTCATCATCTTATTGAC
*
58681206 CATGTAATTTATGTAGATGAGCTCATCATTCATCATCTTATTGAC
1 CATGTAATTTATGTAGATGAGATCATCATTCATCATCTTATTGAC
58681251 ATACATCATA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (45 bp):
CATGTAATTTATGTAGATGAGATCATCATTCATCATCTTATTGAC
Found at i:58690198 original size:46 final size:46
Alignment explanation
Indices: 58690053--58690221 Score: 139
Period size: 46 Copynumber: 3.6 Consensus size: 46
58690043 AGGCCGACGC
* ** *
58690053 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGT-GCTAATGC
1 CATGTCCCAGACAT-GTCTTACACTAGCT-T-ACATCTC-GTAGCCGAT-A
* * ** * *
58690103 CATGTCCCAAACATGGTCTTACA-TTG-AAACATCTCGTAGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTTACATCTCGTAGCCGATA
*
58690148 CATGTCCCAGACATGTCTTATACTAGCTTACATCTCG-AGGCCGATA
1 CATGTCCCAGACATGTCTTACACTAGCTTACATCTCGTA-GCCGATA
*
58690194 CATGTCCTAGACATGTCTTACACTAGCT
1 CATGTCCCAGACATGTCTTACACTAGCT
58690222 CTCGTCTCAA
Statistics
Matches: 99, Mismatches: 16, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
44 7 0.07
45 18 0.18
46 50 0.51
49 2 0.02
50 22 0.22
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTTACATCTCGTAGCCGATA
Found at i:58690238 original size:46 final size:47
Alignment explanation
Indices: 58690144--58690273 Score: 131
Period size: 46 Copynumber: 2.8 Consensus size: 47
58690134 TCTCGTAGCT
* * * *
58690144 GATG-CATGTCCCAGACATGTCTTATACTAGCT-TACATCTCGAGGCC
1 GATGACATGTCCTAGACATGTCTTACACTAGCTCT-CATCTCAAGACC
* *
58690190 GAT-ACATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAATACC
1 GATGACATGTCCTAGACATGTCTTACACTAGCTCTCATCTCAAGACC
* * * *
58690236 GATGCCAAGTCCTAGACATGGTCTTACGCTGGCTCTCA
1 GATGACATGTCCTAGACAT-GTCTTACACTAGCTCTCA
58690274 AATAACCTGA
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
46 40 0.58
47 14 0.20
48 15 0.22
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
GATGACATGTCCTAGACATGTCTTACACTAGCTCTCATCTCAAGACC
Found at i:58693112 original size:47 final size:47
Alignment explanation
Indices: 58693060--58693555 Score: 857
Period size: 47 Copynumber: 10.6 Consensus size: 47
58693050 GATAATTGTG
* * *
58693060 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
58693107 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
58693154 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
58693201 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
58693248 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
58693295 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
*
58693342 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
58693389 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
* *
58693436 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
* * * * * * * *
58693483 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
*
58693530 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
58693556 TCCCGAAGGG
Statistics
Matches: 431, Mismatches: 18, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 431 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
Found at i:58696928 original size:27 final size:27
Alignment explanation
Indices: 58696898--58697136 Score: 250
Period size: 27 Copynumber: 8.9 Consensus size: 27
58696888 TCTAATGGCA
* *
58696898 GAAGTCCG-CTAGGACTACCTAATGTAG
1 GAAGTCCGTC-AGGACTATCTAATGTGG
* * * **
58696925 GAAGTCTGCCAGTAAAATCTAATGTGG
1 GAAGTCCGTCAGGACTATCTAATGTGG
* *
58696952 GAAGTCCATCAGGATTATCTAATGTGG
1 GAAGTCCGTCAGGACTATCTAATGTGG
* *
58696979 GAAGTCCGTCAAGACTATCTAATGTAAG
1 GAAGTCCGTCAGGACTATCTAATGT-GG
* *
58697007 G-AGCCCGTCAAGACTATCTAATGTGG
1 GAAGTCCGTCAGGACTATCTAATGTGG
*
58697033 GAAGTCCGTCAGGACTATCTAATGTAG
1 GAAGTCCGTCAGGACTATCTAATGTGG
58697060 GAAGTCCGTCAGGACTATCTAATGTGG
1 GAAGTCCGTCAGGACTATCTAATGTGG
* * *
58697087 GAAGTCCATCAAGACCATCTTAATGT-G
1 GAAGTCCGTCAGGACTATC-TAATGTGG
** *
58697114 GAAGTCTATCAAGACTATCTAAT
1 GAAGTCCGTCAGGACTATCTAAT
58697137 ATAGGGAAAG
Statistics
Matches: 181, Mismatches: 27, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
26 6 0.03
27 166 0.92
28 9 0.05
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (27 bp):
GAAGTCCGTCAGGACTATCTAATGTGG
Found at i:58696956 original size:54 final size:54
Alignment explanation
Indices: 58696872--58696984 Score: 140
Period size: 54 Copynumber: 2.1 Consensus size: 54
58696862 CTAATATGGA
* *
58696872 AAGTATGCCAGTAAAATCTAATGGCAGAAGTCC-GCTAGGACTACCTAATGTAGG
1 AAGTCTGCCAGTAAAATCTAATGGCAGAAGTCCATC-AGGACTACCTAATGTAGG
* * * *
58696926 AAGTCTGCCAGTAAAATCTAATGTG-GGAAGTCCATCAGGATTATCTAATGTGGG
1 AAGTCTGCCAGTAAAATCTAATG-GCAGAAGTCCATCAGGACTACCTAATGTAGG
58696980 AAGTC
1 AAGTC
58696985 CGTCAAGACT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
54 49 0.96
55 2 0.04
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (54 bp):
AAGTCTGCCAGTAAAATCTAATGGCAGAAGTCCATCAGGACTACCTAATGTAGG
Found at i:58699598 original size:55 final size:55
Alignment explanation
Indices: 58699508--58699614 Score: 155
Period size: 55 Copynumber: 1.9 Consensus size: 55
58699498 AACGATAAGT
* *
58699508 TGTAACACCCCTAACCCGTATCCATCGCCGAAATAGGGTTACGAGGCATTACCGG
1 TGTAACACCCCTAACCCGAATCCATCGCAGAAATAGGGTTACGAGGCATTACCGG
*
58699563 TGTAACACCCCTAACCTGAATCC-TACGTCAG-AATAGGGTTACGAGGCATTAC
1 TGTAACACCCCTAACCCGAATCCAT-CG-CAGAAATAGGGTTACGAGGCATTAC
58699615 TGATCAAATC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
54 1 0.02
55 44 0.94
56 2 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (55 bp):
TGTAACACCCCTAACCCGAATCCATCGCAGAAATAGGGTTACGAGGCATTACCGG
Found at i:58701555 original size:43 final size:43
Alignment explanation
Indices: 58701466--58701622 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
58701456 GTCTCATACA
* * * ** * *
58701466 ATGCC-ATTTCCCAGATATGGTCTTACATGTTATCACATATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACATAACG
* *
58701508 ATGCCGATAG-CCCAG-CTATGGTCTTACACGAAATCATATAACG
1 ATGCCAAT-GTCCCAGAC-ATGGTCTTACACGAAATCACATAACG
* *
58701551 ATGCCAATGTCCTAGACATGGTCTTACAC-ATAATCACATAATG
1 ATGCCAATGTCCCAGACATGGTCTTACACGA-AATCACATAACG
*
58701594 ATCCCAATGTCCCAGACATGGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
58701623 ATAATCTCAT
Statistics
Matches: 95, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
42 7 0.07
43 87 0.92
44 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACATAACG
Found at i:58701623 original size:43 final size:43
Alignment explanation
Indices: 58701525--58701628 Score: 156
Period size: 43 Copynumber: 2.4 Consensus size: 43
58701515 TAGCCCAGCT
* * *
58701525 ATGGTCTTACACGA-AATCATATAACGATGCCAATGTCCTAGAC
1 ATGGTCTTACAC-ATAATCACATAACGATCCCAATGTCCCAGAC
*
58701568 ATGGTCTTACACATAATCACATAATGATCCCAATGTCCCAGAC
1 ATGGTCTTACACATAATCACATAACGATCCCAATGTCCCAGAC
58701611 ATGGTCTTACACATAATC
1 ATGGTCTTACACATAATC
58701629 TCATCTCGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
42 1 0.02
43 55 0.98
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAACGATCCCAATGTCCCAGAC
Found at i:58705867 original size:45 final size:46
Alignment explanation
Indices: 58705779--58705870 Score: 177
Period size: 45 Copynumber: 2.0 Consensus size: 46
58705769 ACACACAAAG
58705779 TAAGCTTTCAAAAGCTTAGTAAGCCATATACAAATAAACTTAACAT
1 TAAGCTTTCAAAAGCTTAGTAAGCCATATACAAATAAACTTAACAT
58705825 TAAGCTTTCAAAAGCTTAGTAAG-CATATACAAATAAACTTAACAT
1 TAAGCTTTCAAAAGCTTAGTAAGCCATATACAAATAAACTTAACAT
58705870 T
1 T
58705871 CAAAACATGA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 23 0.50
46 23 0.50
ACGTcount: A:0.46, C:0.16, G:0.09, T:0.29
Consensus pattern (46 bp):
TAAGCTTTCAAAAGCTTAGTAAGCCATATACAAATAAACTTAACAT
Found at i:58706264 original size:42 final size:42
Alignment explanation
Indices: 58706162--58706326 Score: 190
Period size: 43 Copynumber: 3.9 Consensus size: 42
58706152 CGGAAAGCTC
* * * * * *
58706162 ATACAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAATGTCCCAGACGTGGTCTTACACGAAATAAA
*
58706204 ATATCGATGCCACTGTCCCAGACAG-GGTCTTACACGAAATAAA
1 ATA-CGATGCCAATGTCCCAGAC-GTGGTCTTACACGAAATAAA
*
58706247 ATACGATGCCAATGTCCCAGACGTTGTCTTACACGTAAATCATAA
1 ATACGATGCCAATGTCCCAGACGTGGTCTTACACG-AAAT-A-AA
*
58706292 GT-CGATGCCAATGTCCCAGACGTGGTCTTACACGA
1 ATACGATGCCAATGTCCCAGACGTGGTCTTACACGA
58706327 TAACACATAT
Statistics
Matches: 106, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
41 1 0.01
42 31 0.29
43 38 0.36
44 33 0.31
45 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACGTGGTCTTACACGAAATAAA
Found at i:58706310 original size:44 final size:43
Alignment explanation
Indices: 58706167--58706325 Score: 200
Period size: 44 Copynumber: 3.7 Consensus size: 43
58706157 AGCTCATACA
* * *
58706167 ATGCCAACGTCCTAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCAAA-ATCG
*
58706210 ATGCCACTGTCCCAGACAG-GGTCTTACACG-AAAT-AAAATACG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGTAAATCAAAAT-CG
* *
58706252 ATGCCAATGTCCCAGACGTTGTCTTACACGTAAATCATAAGTCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCA-AAATCG
58706296 ATGCCAATGTCCCAGACGTGGTCTTACACG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG
58706326 ATAACACATA
Statistics
Matches: 101, Mismatches: 8, Indels: 13
0.83 0.07 0.11
Matches are distributed among these distances:
41 3 0.03
42 31 0.31
43 31 0.31
44 33 0.33
45 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCAAAATCG
Found at i:58706311 original size:86 final size:85
Alignment explanation
Indices: 58706162--58706326 Score: 226
Period size: 86 Copynumber: 1.9 Consensus size: 85
58706152 CGGAAAGCTC
* * *
58706162 ATACAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGAC
1 ATACAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAGAC
58706227 AG-GGTCTTACACGAAATAAA
66 -GTGGTCTTACACGAAATAAA
* * * *
58706247 ATACGATGCCAATGTCCCAGACGTTGTCTTACACGTAAATCATAA-GTCGATGCCAATGTCCCAG
1 ATACAATGCCAACGTCCCAGACGTGGTCTTACACGT-AATCA-AATATCGATGCCAATGTCCCAG
58706311 ACGTGGTCTTACACGA
64 ACGTGGTCTTACACGA
58706327 TAACACATAT
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
85 32 0.46
86 36 0.51
87 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (85 bp):
ATACAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAGAC
GTGGTCTTACACGAAATAAA
Found at i:58712176 original size:43 final size:42
Alignment explanation
Indices: 58712113--58712199 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 42
58712103 TCGGGATATC
*
58712113 ACAACTCTTTCCCTTTTAGGGATTTTCGTCCCCGAAAATCTT
1 ACAACTCTTTCCCCTTTAGGGATTTTCGTCCCCGAAAATCTT
58712155 ACNAACTCTTTCCCCTTTAGGGATTTTCGTCCCCGAAAATCTT
1 AC-AACTCTTTCCCCTTTAGGGATTTTCGTCCCCGAAAATCTT
58712198 AC
1 AC
58712200 CGAAAAAGTG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 2 0.05
43 41 0.95
ACGTcount: A:0.22, C:0.30, G:0.11, T:0.36
Consensus pattern (42 bp):
ACAACTCTTTCCCCTTTAGGGATTTTCGTCCCCGAAAATCTT
Found at i:58713233 original size:18 final size:18
Alignment explanation
Indices: 58713212--58713255 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
58713202 TCACACAGAT
*
58713212 TAAACACCCGAGCTGATC
1 TAAACACCCAAGCTGATC
58713230 TAAACACCCAAGCTGATC
1 TAAACACCCAAGCTGATC
58713248 TAAACACC
1 TAAACACC
58713256 GTTGAATGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.39, C:0.34, G:0.11, T:0.16
Consensus pattern (18 bp):
TAAACACCCAAGCTGATC
Found at i:58713681 original size:30 final size:30
Alignment explanation
Indices: 58713647--58713706 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
58713637 CAAGAAAACT
* **
58713647 GAATAAAGAAATCCAAGATTGAGAAACCCA
1 GAATAAAGAAATCCAAAATAAAGAAACCCA
*
58713677 GAATAAAGAAATTCAAAATAAAGAAACCCA
1 GAATAAAGAAATCCAAAATAAAGAAACCCA
58713707 AGATACGATA
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:0.58, C:0.15, G:0.13, T:0.13
Consensus pattern (30 bp):
GAATAAAGAAATCCAAAATAAAGAAACCCA
Found at i:58713686 original size:15 final size:15
Alignment explanation
Indices: 58713648--58713707 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
58713638 AAGAAAACTG
*
58713648 AATAAAGAAATCCAA
1 AATAAAGAAACCCAA
* ** *
58713663 GATTGAGAAACCCAG
1 AATAAAGAAACCCAA
**
58713678 AATAAAGAAATTCAA
1 AATAAAGAAACCCAA
58713693 AATAAAGAAACCCAA
1 AATAAAGAAACCCAA
58713708 GATACGATAC
Statistics
Matches: 32, Mismatches: 13, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.60, C:0.15, G:0.12, T:0.13
Consensus pattern (15 bp):
AATAAAGAAACCCAA
Found at i:58716773 original size:93 final size:93
Alignment explanation
Indices: 58716666--58716838 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
58716656 AGCCCATAAG
* * * *
58716666 CGAACTCGGACTCAACTCAACAAGCTCGGGCGTTTGCATCAATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACGTTCGCAACAATAAGTGAACTCAGACTCAACTCA
58716731 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* * *
58716759 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAACCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACGTTCGCAACAATAAGTGAACTCAGACTCAACTCA
58716824 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
58716839 CAAAAATCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACGTTCGCAACAATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:58716834 original size:46 final size:46
Alignment explanation
Indices: 58716659--58716834 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 46
58716649 TGTAACCAGC
* * * * *
58716659 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGGGCGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTAGCAA
* * * * **
58716705 CAATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACG-TTAGCAA
* *
58716752 -CATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAA
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTAGCAA
* *
58716798 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
58716835 TGCCCAAAAA
Statistics
Matches: 103, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
45 2 0.02
46 65 0.63
47 34 0.33
48 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTAGCAA
Found at i:58720473 original size:64 final size:64
Alignment explanation
Indices: 58720372--58720498 Score: 218
Period size: 64 Copynumber: 2.0 Consensus size: 64
58720362 CTTTAACCTC
* **
58720372 GCAAGCTAAAATACGGATTGGCTTTTGTTTGTAAGTCATATCAGACTGAATCTCTATTTCAGAT
1 GCAAGCTAAAATACGGATTGGCTTTTCTTCATAAGTCATATCAGACTGAATCTCTATTTCAGAT
*
58720436 GCAAGCTAAAATATGGATTGGCTTTTCTTCATAAGTCATATCAGACTGAATCTCTATTTCAGA
1 GCAAGCTAAAATACGGATTGGCTTTTCTTCATAAGTCATATCAGACTGAATCTCTATTTCAGA
58720499 CGGAGGAATC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (64 bp):
GCAAGCTAAAATACGGATTGGCTTTTCTTCATAAGTCATATCAGACTGAATCTCTATTTCAGAT
Found at i:58733076 original size:40 final size:40
Alignment explanation
Indices: 58732967--58733187 Score: 270
Period size: 40 Copynumber: 5.6 Consensus size: 40
58732957 AATTCGGATG
* *
58732967 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
58733007 A-ATTCCGGGCTAAG-CCCGAAGGCAATTGTGTGAGTTATT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
58733046 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
58733086 ATAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
58733126 ATAACCGGGTTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
58733166 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
58733188 TTCTTGGTTT
Statistics
Matches: 161, Mismatches: 16, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
39 48 0.30
40 113 0.70
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:58733184 original size:119 final size:119
Alignment explanation
Indices: 58732967--58733187 Score: 295
Period size: 119 Copynumber: 1.9 Consensus size: 119
58732957 AATTCGGATG
* *
58732967 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAA
* * * **
58733032 TTGTGTGAGTTATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT
66 TTGAGCGAGTTACTATATCCGGGCTAAACCCCGAAGGCATTTGTGCGAGTTATT
* * *
58733086 ATAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGTTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
*
58733150 ATTTGAGCGAG-TAGCTATATCC-GGCTAAACCCCGAAGG
64 AATTGAGCGAGTTA-CTATATCCGGGCTAAACCCCGAAGG
58733188 TTCTTGGTTT
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
118 2 0.02
119 62 0.70
120 24 0.27
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAA
TTGAGCGAGTTACTATATCCGGGCTAAACCCCGAAGGCATTTGTGCGAGTTATT
Found at i:58741265 original size:40 final size:40
Alignment explanation
Indices: 58741160--58741938 Score: 873
Period size: 40 Copynumber: 19.5 Consensus size: 40
58741150 CGGATGATAA
* * **
58741160 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACGA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-T
* *
58741200 CCGGCCTAAG-CCCGAAGGCAATTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
* *
58741239 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
* * *
58741279 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
* * *
58741319 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-T
* *
58741359 CCGGGCTAAG-CCCGAAGGCAATTGTGTGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
* *
58741398 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
* ** * * *
58741438 CCGGGCTAAGTCTCGAAGGCA--TG-GATAATTCGGATGATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT---ATTATAT
* * **
58741478 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACGA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-T
* *
58741518 CCGGCCTAAG-CCCGAAGGCAATTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
* *
58741557 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
* *
58741597 CCGGGCTAAGTCTAAGCCCGAAGGCAATTGTGTGAGTTATTATAT
1 CCGGGCTAAG--T---CCCGAAGGCATTTGTGCGAGTTATTATAT
* *
58741642 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
* * *
58741682 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
* * *
58741722 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-T
* *
58741762 CCGGGCTAAG-CCCGAAGGCAATTGTGTGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
* *
58741801 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
* * *
58741841 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
* *
58741881 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TTATAT
**
58741921 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
58741939 TACTTGGTTT
Statistics
Matches: 636, Mismatches: 80, Indels: 47
0.83 0.10 0.06
Matches are distributed among these distances:
37 4 0.01
38 2 0.00
39 145 0.23
40 442 0.69
42 3 0.00
43 5 0.01
45 35 0.06
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
Found at i:58741445 original size:159 final size:159
Alignment explanation
Indices: 58741156--58741912 Score: 974
Period size: 159 Copynumber: 4.7 Consensus size: 159
58741146 AATTCGGATG
* *
58741156 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACGAATTCCGGCCTAAGCCCGAAGGCAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAA
58741221 TTGTGCGAGTTATTATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTATTATAACCGGGCT
66 TTGTGCGAGTTATTATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTATTATAACCGGGCT
* *
58741286 AAGTCTCGAAGGCATTTGTGCGAGTTACT
131 AAGTCTCGAAGGCAATTGTGTGAGTTACT
58741315 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAA
*
58741380 TTGTGTGAGTTATTATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTATTATAACCGGGCT
66 TTGTGCGAGTTATTATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTATTATAACCGGGCT
*
58741445 AAGTCTCGAAGGC-A-TG-GAT-AATT-CGGAT
131 AAGTCTCGAAGGCAATTGTG-TGAGTTAC---T
* *
58741473 GATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACGAATTCCGGCCTAAGCCCGAAGGCA
1 -ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCA
58741538 ATTGTGCGAGTTATTATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTATTATAACCGGGC
65 ATTGTGCGAGTTATTATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTATTATAACCGGGC
*
58741603 TAAGTCTAAGCCCGAAGGCAATTGTGTGAGTTATT
130 TAAGTCT-----CGAAGGCAATTGTGTGAGTTACT
* * * * * * *
58741638 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTA-TTATAACCGGGCTAAGTCTCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCCGGGCTAAG-CCCGAAGGC
* * * * * * * *
58741702 ATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGG
64 AATTGTGCGAGTTATTATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTATTATA-ACCGG
* *
58741766 GCTAAG-CCCGAAGGCAATTGTGTGAGTTATT
128 GCTAAGTCTCGAAGGCAATTGTGTGAGTTACT
* * * * * * *
58741797 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTA-TTATAACCGGGCTAAGTCTCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCCGGGCTAAG-CCCGAAGGC
* * * * *
58741861 ATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
64 AATTGTGCGAGTTATTATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGT
58741913 AGCTATATCC
Statistics
Matches: 549, Mismatches: 31, Indels: 36
0.89 0.05 0.06
Matches are distributed among these distances:
155 1 0.00
156 4 0.01
157 2 0.00
158 1 0.00
159 410 0.75
163 2 0.00
164 52 0.09
165 70 0.13
166 3 0.01
167 4 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (159 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAA
TTGTGCGAGTTATTATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTATTATAACCGGGCT
AAGTCTCGAAGGCAATTGTGTGAGTTACT
Found at i:58745624 original size:30 final size:29
Alignment explanation
Indices: 58745590--58745653 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
58745580 ATGAATTGGA
58745590 AGCTTTGGCACTAAGTGTACGATTTAAACT
1 AGCTTTGGCACTAAGTGTACGATTT-AACT
*
58745620 AGCTTTGGCACTAAGTGTGCGATTTAACT
1 AGCTTTGGCACTAAGTGTACGATTTAACT
58745649 AGCTT
1 AGCTT
58745654 CGATTACTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.27
30 24 0.73
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTACGATTTAACT
Found at i:58747988 original size:65 final size:65
Alignment explanation
Indices: 58747897--58748047 Score: 196
Period size: 65 Copynumber: 2.3 Consensus size: 65
58747887 GCAGACTACT
* * * * *
58747897 GTAGCTCTTTCTGAGTGTCCTGTTATATGATCGGTTGTGATCCT-GTATATATTGCGGACACAAA
1 GTAGCTCTTTGTGAGTGTCTTATTATATGATCAGTTGTGATCCTAG-ATATATTGCAGACACAAA
58747961 C
65 C
* * * *
58747962 GTAGCTCTTTGTGAGCGTCTTATTATATGATCAGTTGTGATCCTAGATATGTTGTAGACACAAAT
1 GTAGCTCTTTGTGAGTGTCTTATTATATGATCAGTTGTGATCCTAGATATATTGCAGACACAAAC
*
58748027 GTAGCTCTTTGTCAGTGTCTT
1 GTAGCTCTTTGTGAGTGTCTT
58748048 GATATGGCTC
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
65 73 0.99
66 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.39
Consensus pattern (65 bp):
GTAGCTCTTTGTGAGTGTCTTATTATATGATCAGTTGTGATCCTAGATATATTGCAGACACAAAC
Found at i:58749956 original size:39 final size:40
Alignment explanation
Indices: 58749893--58750000 Score: 166
Period size: 39 Copynumber: 2.7 Consensus size: 40
58749883 TATTCGGATG
*
58749893 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
58749933 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
58749972 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
58750001 AGCAAGTAGC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
39 35 0.57
40 26 0.43
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:58750022 original size:39 final size:40
Alignment explanation
Indices: 58749897--58750023 Score: 156
Period size: 39 Copynumber: 3.2 Consensus size: 40
58749887 CGGATGATAA
*
58749897 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CTATA-T
* *
58749937 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-CTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATAT
*
58749976 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATAT
58750016 CC-GGCTAA
1 CCGGGCTAA
58750024 ATTCTGAAGG
Statistics
Matches: 77, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
39 40 0.52
40 37 0.48
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATAT
Found at i:58750528 original size:40 final size:40
Alignment explanation
Indices: 58750371--58750514 Score: 261
Period size: 40 Copynumber: 3.6 Consensus size: 40
58750361 TGACCAATTT
58750371 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
*
58750411 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
*
58750451 CGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
*
58750491 CGGGCTAAGTCCCAAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
58750515 AGCAAGTAGC
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
Found at i:58750528 original size:80 final size:80
Alignment explanation
Indices: 58750371--58750537 Score: 257
Period size: 80 Copynumber: 2.1 Consensus size: 80
58750361 TGACCAATTT
* * *
58750371 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGTTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCAAAGGCATTTGA
*
58750436 GCGAGTTACTATAAC
66 GCAAGTTACTATAAC
*
58750451 CGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTACTATAACCGGGCTAAGTCCCAAAGGCATTTGA
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCAAAGGCATTTGA
*
58750516 GCAAG-TAGCTATATC
66 GCAAGTTA-CTATAAC
58750531 C-GGCTAA
1 CGGGCTAA
58750538 ATTCCAAAGG
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
79 8 0.10
80 72 0.90
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCAAAGGCATTTGA
GCAAGTTACTATAAC
Found at i:58756323 original size:45 final size:45
Alignment explanation
Indices: 58756259--58756351 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
58756249 AGCGTGCCTC
58756259 TGACCGTTTCCGATTTCCGAGCTGGCTTGTCAACACTACAAGGAA
1 TGACCGTTTCCGATTTCCGAGCTGGCTTGTCAACACTACAAGGAA
58756304 TGACCGTTTCCGATTTCCGAGCTGGCTTGTCAACACTACAAGGAA
1 TGACCGTTTCCGATTTCCGAGCTGGCTTGTCAACACTACAAGGAA
58756349 TGA
1 TGA
58756352 AAAGGAGGGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (45 bp):
TGACCGTTTCCGATTTCCGAGCTGGCTTGTCAACACTACAAGGAA
Found at i:58756869 original size:46 final size:46
Alignment explanation
Indices: 58756704--58756876 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
58756694 TGTAACCCGC
* * * * * *
58756704 CCATAAGTGAACTCGGACTCAGCTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
** * * * *
58756750 CCACGAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GAC-ATTTGCAT
* *
58756800 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
58756843 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
58756877 GGATGCTCAA
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 3 0.03
46 55 0.55
47 25 0.25
48 1 0.01
49 3 0.03
50 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
Found at i:58756871 original size:93 final size:93
Alignment explanation
Indices: 58756712--58756882 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
58756702 GCCCATAAGT
* * * * *
58756712 GAACTCGGACTCAGCTCAACGAGCTCGGGCGTTCGCATCCACGAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCACAAGTGAACTCAGACTCAACTCAA
58756777 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
58756805 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCACAAGTGAACTCAGACTCAACTCAA
58756870 CGAGTTCGGATGC
66 CGAGTTCGGATGC
58756883 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCACAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:58756898 original size:46 final size:45
Alignment explanation
Indices: 58756709--58756898 Score: 122
Period size: 46 Copynumber: 4.1 Consensus size: 45
58756699 CCCGCCCATA
* * * * * * *
58756709 AGTGAACTCGGACTCAGCTCAACGAGCTCGGGCGTTCGCATCCA-CG
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCTCAACCATCT
*
58756755 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * * *
58756802 CA-CGAACTCGGACTCAACTCAACGAGTTCAGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCT-CAACCATCT
58756848 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
58756894 AGTGA
1 AGTGA
58756899 CATGTCACTT
Statistics
Matches: 111, Mismatches: 18, Indels: 30
0.70 0.11 0.19
Matches are distributed among these distances:
43 1 0.01
44 11 0.10
45 5 0.05
46 59 0.53
47 29 0.26
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:58761021 original size:40 final size:40
Alignment explanation
Indices: 58760962--58761070 Score: 166
Period size: 40 Copynumber: 2.7 Consensus size: 40
58760952 TATTTGGATG
*
58760962 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CA
* * *
58761003 AT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACA
58761042 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
58761071 AGCAAGTAGC
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.05
40 57 0.92
41 2 0.03
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACA
Found at i:58761103 original size:39 final size:39
Alignment explanation
Indices: 58760966--58761103 Score: 163
Period size: 40 Copynumber: 3.5 Consensus size: 39
58760956 TGGATGATAA
* *
58760966 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACCA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ACTATA-T
* *
58761006 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TACTATAT
*
58761046 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-CTATAT
* *
58761086 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
58761104 TACTTGGTTT
Statistics
Matches: 87, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
39 16 0.18
40 69 0.79
41 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTACTATAT
Found at i:58765812 original size:48 final size:48
Alignment explanation
Indices: 58765739--58765919 Score: 195
Period size: 48 Copynumber: 3.8 Consensus size: 48
58765729 CATTAGGGGA
* *
58765739 TACTTTGATTTGGCTTCCGGCCATGATATCGGCACTTCGGGTGCGAGT
1 TACTTTGATTTGGCTTCGGGCCATGATATCGGCACTTCGAGTGCGAGT
* * *
58765787 TACTTTGATTTGGCTTCGGGTCATGATATCGACACTTTGAGTGCGAGCT
1 TACTTTGATTTGGCTTCGGGCCATGATATCGGCACTTCGAGTGCGAG-T
** * ** * * *
58765836 T-CAATGATTTGGCTACGGGCCATGATATTAGCACTTCGCGTGTGAGA
1 TACTTTGATTTGGCTTCGGGCCATGATATCGGCACTTCGAGTGCGAGT
* *
58765883 TA-TATTGAGTTGGCTTCGGGCCATGATATTGGCACTT
1 TACT-TTGATTTGGCTTCGGGCCATGATATCGGCACTT
58765920 AGTGTGTGAG
Statistics
Matches: 109, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
47 1 0.01
48 106 0.97
49 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (48 bp):
TACTTTGATTTGGCTTCGGGCCATGATATCGGCACTTCGAGTGCGAGT
Found at i:58769279 original size:12 final size:12
Alignment explanation
Indices: 58769259--58769290 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
58769249 TTTATCATTA
*
58769259 TCAAGCATTTCC
1 TCAACCATTTCC
58769271 TCAACCATTTCC
1 TCAACCATTTCC
58769283 TCAACCAT
1 TCAACCAT
58769291 ACCATTACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.28, C:0.38, G:0.03, T:0.31
Consensus pattern (12 bp):
TCAACCATTTCC
Found at i:58769909 original size:47 final size:47
Alignment explanation
Indices: 58769841--58770671 Score: 1662
Period size: 47 Copynumber: 17.7 Consensus size: 47
58769831 ATCCATAACT
58769841 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
58769888 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
58769935 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
58769982 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
58770029 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
58770076 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
58770123 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
58770170 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
58770217 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
58770264 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
58770311 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
58770358 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
58770405 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
58770452 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
58770499 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
58770546 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
58770593 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
58770640 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
58770672 TCAACCATCC
Statistics
Matches: 784, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 784 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:58777175 original size:46 final size:46
Alignment explanation
Indices: 58777104--58777276 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
58777094 CTAGGCATCT
*
58777104 GAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCC
1 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
* *
58777150 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
* * *** * * * *
58777196 AAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-TAGGCATCC
1 GAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAACGC--CC
58777243 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58777277 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
45 2 0.02
46 72 0.69
47 31 0.30
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (46 bp):
GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
Found at i:58801611 original size:25 final size:25
Alignment explanation
Indices: 58801583--58801639 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
58801573 CAGTAAACAG
* *
58801583 TAAGCTCCTTTGAGTTGAATAACGA
1 TAAGCTCCTCTGAGCTGAATAACGA
*
58801608 TAAGCTCCTCTGAGCTGAATAACGG
1 TAAGCTCCTCTGAGCTGAATAACGA
58801633 TAAGCTC
1 TAAGCTC
58801640 ATACGCGCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (25 bp):
TAAGCTCCTCTGAGCTGAATAACGA
Found at i:58801649 original size:25 final size:25
Alignment explanation
Indices: 58801598--58801676 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 25
58801588 TCCTTTGAGT
* *
58801598 TGAATAACGATAAGCTCCT-CTGAGC
1 TGAATAACGGTAAGCTCATAC-GAGC
*
58801623 TGAATAACGGTAAGCTCATACGCGC
1 TGAATAACGGTAAGCTCATACGAGC
** * * *
58801648 TGGGTATCAGTAAGCTCATAAGAGC
1 TGAATAACGGTAAGCTCATACGAGC
58801673 TGAA
1 TGAA
58801677 ATCGATAACC
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
25 41 0.98
26 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (25 bp):
TGAATAACGGTAAGCTCATACGAGC
Found at i:58804188 original size:40 final size:40
Alignment explanation
Indices: 58804126--58804384 Score: 346
Period size: 40 Copynumber: 6.5 Consensus size: 40
58804116 AAGCCAAGTA
* * *
58804126 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
58804165 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
58804205 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
58804245 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
58804285 CCTTTGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
58804325 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
58804366 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
58804385 TTATCATCCA
Statistics
Matches: 197, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 12 0.06
40 157 0.80
41 24 0.12
42 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:58812576 original size:6 final size:6
Alignment explanation
Indices: 58812565--58812589 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
58812555 CCTTGTCTTA
58812565 GCCCGT GCCCGT GCCCGT GCCCGT G
1 GCCCGT GCCCGT GCCCGT GCCCGT G
58812590 TAACTCTCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.48, G:0.36, T:0.16
Consensus pattern (6 bp):
GCCCGT
Found at i:58818423 original size:66 final size:67
Alignment explanation
Indices: 58818317--58818452 Score: 265
Period size: 66 Copynumber: 2.0 Consensus size: 67
58818307 GGCCTTAGGG
58818317 AGGTTGGGCCGACTGCTTTAGTTGATATTAGGGTTAGGTTTTTTTC-TTTTTCTGTCTTGGAGGA
1 AGGTTGGGCCGACTGCTTTAGTTGATATTAGGGTTAGGTTTTTTTCTTTTTTCTGTCTTGGAGGA
58818381 TT
66 TT
58818383 AGGTTGGGCCGACTGCTTTAGTTGATATTAGGGTTAGGTTTTTTTCTTTTTTCTGTCTTGGAGGA
1 AGGTTGGGCCGACTGCTTTAGTTGATATTAGGGTTAGGTTTTTTTCTTTTTTCTGTCTTGGAGGA
58818448 TT
66 TT
58818450 AGG
1 AGG
58818453 GTTAGCCATC
Statistics
Matches: 69, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
66 46 0.67
67 23 0.33
ACGTcount: A:0.14, C:0.10, G:0.29, T:0.46
Consensus pattern (67 bp):
AGGTTGGGCCGACTGCTTTAGTTGATATTAGGGTTAGGTTTTTTTCTTTTTTCTGTCTTGGAGGA
TT
Found at i:58820223 original size:41 final size:41
Alignment explanation
Indices: 58820177--58820259 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 41
58820167 ACTGAGTTTT
58820177 CCAAACTCA-ACCCTTTCTCTTCCATCCTTGCAGGTAAGCC
1 CCAAACTCACACCCTTTCTCTTCCATCCTTGCAGGTAAGCC
* *
58820217 CNCAAACTCACCCCCTTTCTCTTCCATCCTTGCAGGTGAGCC
1 C-CAAACTCACACCCTTTCTCTTCCATCCTTGCAGGTAAGCC
58820259 C
1 C
58820260 TAGTTAGTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
40 1 0.03
41 8 0.21
42 30 0.77
ACGTcount: A:0.19, C:0.42, G:0.11, T:0.27
Consensus pattern (41 bp):
CCAAACTCACACCCTTTCTCTTCCATCCTTGCAGGTAAGCC
Found at i:58824398 original size:26 final size:26
Alignment explanation
Indices: 58824351--58824400 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
58824341 TTCGCACACG
* **
58824351 GGCCATTGGACATGCCTGTGTACCCA
1 GGCCATTGGACATACCCATGTACCCA
58824377 GGCCATTGGACATACCCATGTACC
1 GGCCATTGGACATACCCATGTACC
58824401 TGGGCCGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.22, C:0.32, G:0.24, T:0.22
Consensus pattern (26 bp):
GGCCATTGGACATACCCATGTACCCA
Found at i:58824406 original size:26 final size:26
Alignment explanation
Indices: 58824349--58824406 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
58824339 AGTTCGCACA
* **
58824349 CGGGCCATTGGACATGCCTGTGTACC
1 CGGGCCATTGGACATACCCATGTACC
*
58824375 CAGGCCATTGGACATACCCATGTACC
1 CGGGCCATTGGACATACCCATGTACC
*
58824401 TGGGCC
1 CGGGCC
58824407 GTGTGGTGCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.33, G:0.28, T:0.21
Consensus pattern (26 bp):
CGGGCCATTGGACATACCCATGTACC
Found at i:58836780 original size:627 final size:621
Alignment explanation
Indices: 58835793--58837038 Score: 1892
Period size: 627 Copynumber: 2.0 Consensus size: 621
58835783 ACTAAAACTA
* ** *
58835793 GAGCCTCAGTAAAAAATGCCTTTAATTTCTGAAAACTCTACTGGCATTTTTCTGTCCATTCGAAC
1 GAGCCTCAGTAAAAAATGCCTTTAATTTCTCAAAACTCTACTGGCATTTTTCAATCCATTCAAAC
58835858 TTGACATCTTTCTATAACAACCTCGTCATTCGAGTAGCAATCATGGAGAATCCTTTAACAAACTG
66 TTGACATCTTTCTATAACAACCTCGTCATTCGAGTAGCAATCATGGAGAATCCTTTAACAAACTG
* *
58835923 TCTGTAATAACTGACCAAGCCTAGAAAGCTTCTAACCTTAGTTACATTTCTCCGCAATTTCCATT
131 TCTGTAATAACTGACCAAGCCTAGAAAGCTTCTAACCTCAGTAACATTTCTCCGCAATTTCCATT
* *
58835988 CAATAATAGCCGAGATCTTACTCGGGTCAATACTAATACCATCACCTTAAACAATGTGCCCAAAA
196 CAATAATAACCGAGATCTTACTCGGGTCAATACTAATACCATCACCTGAAACAATGTGCCCAAAA
* * * *
58836053 ATCCAATTTCTCGAAGCCAAAACTCACTTTTACTAAACTTGGCATACAACTATTTATCTTTCAAA
261 ATCAAACTTCTCGAAGCCAAAACTCACTTTTACTAAACTTGGCATACAACTATTCATCTCTCAAA
*
58836118 GTCTACAAAATAGTTCTTAAGTGTTCGGCATGCTTTGCCTCATCTATCGAATAAATCAAAATATC
326 GTCTACAAAATAGTTCTCAAGTGTTCGGCATGCTTTGCCTCATCTATCGAATAAATCAAAATATC
*
58836183 ATCAATAAACACAACTACAAACTTGTCCAAATATGGCCGAGATATTCGATTCATTAAATCCATAA
391 ATCAATAAACAC-A--AC---CTTGTCCAAATATGGCCGAAATATTCGATTCATTAAATCCATAA
* **
58836248 ACACAGAAGGTGCGTTCGTCAACCCAAATGGCATAACAAGAAATTCATAGTGGCCATACATTGTT
450 ACACAGAAGGTGCATTCGTCAACCCAAATGGCATAACAAGAAATTCATAGTGGCCATACATCATT
* *
58836313 CTAAAAGTAGTTTTAGGTACATCCGACTCTTTAACTCGCAACTGATAGTAGCCGGACCTCAAGTT
515 CTAAAAGTAGTTTTAGGTACATCCGACTCTTTAACTCGCAACTAATAGTAGCCGGACCTCAAGTC
* *
58836378 TATTTTAGAAAACCATGTCATTCCTTTTAATTGATCAAACCG
580 TATTTTAGAAAACCATGTCACTCCTTTCAATTGATCAAACCG
* * * * *
58836420 GAGCCTCAGTCAACAATGCCTTTAATTTCTCAAAACTTTGCTGGCATTTTTCAATCCGTTCAAAC
1 GAGCCTCAGTAAAAAATGCCTTTAATTTCTCAAAACTCTACTGGCATTTTTCAATCCATTCAAAC
*
58836485 TTGACATCTTTCTGTAACAACCTCGTCA-TCGGAGTAGCAATCATGGAGAATCCTTTAACAAACC
66 TTGACATCTTTCTATAACAACCTCGTCATTC-GAGTAGCAATCATGGAGAATCCTTTAACAAA-C
* * * **
58836549 T-TTTGTAATAA-TCGGCCAAGCCTAGAAAGCTTTTAACCTCAGTAACATTTCT-CGACGGTTTC
129 TGTCTGTAATAACT-GACCAAGCCTAGAAAGCTTCTAACCTCAGTAACATTTCTCCG-CAATTTC
* *
58836611 CGTTCAATAATAACTGAGATCTTACTCGGGTCAACT-CTAATACCATCA-CTCGAAACAATGTGC
192 CATTCAATAATAACCGAGATCTTACTCGGGTCAA-TACTAATACCATCACCT-GAAACAATGTGC
* * *
58836674 CCAAAAATCAAACTTCTCGAAGCCAAAGCTCACTTTTACTGAACTTGGCATACAACTGTTCATCT
255 CCAAAAATCAAACTTCTCGAAGCCAAAACTCACTTTTACTAAACTTGGCATACAACTATTCATCT
* * * * * *
58836739 CTCAAAGTCTGCAAAATAGTTCTCAAGTGTTTGGTATGCTTTGCCTCATTTCTCGAATAAATCAG
320 CTCAAAGTCTACAAAATAGTTCTCAAGTGTTCGGCATGCTTTGCCTCATCTATCGAATAAATCAA
* *
58836804 AATATCATCAATAAACACAACCTTGTCCAAATATGGCCTAAATATTTGATTCATTAAATCCATAA
385 AATATCATCAATAAACACAACCTTGTCCAAATATGGCCGAAATATTCGATTCATTAAATCCATAA
* * *
58836869 ACACAGTAGGTGCATTCGTTAACCCAAATGGCATAACAAGAAATTCATAGTGGCCATACCTCATT
450 ACACAGAAGGTGCATTCGTCAACCCAAATGGCATAACAAGAAATTCATAGTGGCCATACATCATT
*
58836934 CTAAAAGTAGTTTTAGGTACATCTGACTCTTTAACTCGCAACTAATAGTAGCCGGACCTCAAGTC
515 CTAAAAGTAGTTTTAGGTACATCCGACTCTTTAACTCGCAACTAATAGTAGCCGGACCTCAAGTC
*
58836999 TATTTTTGAAAACCATGTCACTCCTTTCAATTGATCAAAC
580 TATTTTAGAAAACCATGTCACTCCTTTCAATTGATCAAAC
58837039 AGGTCATCAT
Statistics
Matches: 563, Mismatches: 50, Indels: 18
0.89 0.08 0.03
Matches are distributed among these distances:
621 199 0.35
624 2 0.00
626 8 0.01
627 351 0.62
628 3 0.01
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.30
Consensus pattern (621 bp):
GAGCCTCAGTAAAAAATGCCTTTAATTTCTCAAAACTCTACTGGCATTTTTCAATCCATTCAAAC
TTGACATCTTTCTATAACAACCTCGTCATTCGAGTAGCAATCATGGAGAATCCTTTAACAAACTG
TCTGTAATAACTGACCAAGCCTAGAAAGCTTCTAACCTCAGTAACATTTCTCCGCAATTTCCATT
CAATAATAACCGAGATCTTACTCGGGTCAATACTAATACCATCACCTGAAACAATGTGCCCAAAA
ATCAAACTTCTCGAAGCCAAAACTCACTTTTACTAAACTTGGCATACAACTATTCATCTCTCAAA
GTCTACAAAATAGTTCTCAAGTGTTCGGCATGCTTTGCCTCATCTATCGAATAAATCAAAATATC
ATCAATAAACACAACCTTGTCCAAATATGGCCGAAATATTCGATTCATTAAATCCATAAACACAG
AAGGTGCATTCGTCAACCCAAATGGCATAACAAGAAATTCATAGTGGCCATACATCATTCTAAAA
GTAGTTTTAGGTACATCCGACTCTTTAACTCGCAACTAATAGTAGCCGGACCTCAAGTCTATTTT
AGAAAACCATGTCACTCCTTTCAATTGATCAAACCG
Found at i:58838568 original size:13 final size:13
Alignment explanation
Indices: 58838550--58838574 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58838540 CCGAAACTAG
58838550 AAAGAAAAAAAAC
1 AAAGAAAAAAAAC
58838563 AAAGAAAAAAAA
1 AAAGAAAAAAAA
58838575 ATGCTCATCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAC
Found at i:58839155 original size:74 final size:74
Alignment explanation
Indices: 58839031--58839179 Score: 262
Period size: 74 Copynumber: 2.0 Consensus size: 74
58839021 GAATATAACT
* *
58839031 TTTGCATGTTAATGAGCAATGCATGTGTTAAATTGATGGAAAGGGAGAGGATGCTTTACTAGTGT
1 TTTGCATGTTAATGAGCAATGCATGTGTTAAATCGATGAAAAGGGAGAGGATGCTTTACTAGTGT
58839096 GTATATGTG
66 GTATATGTG
* *
58839105 TTTGCATGTTGATGAGCAATGCATGTGTTAAATCGATGAAAAGGGGGAGGATGCTTTACTAGTGT
1 TTTGCATGTTAATGAGCAATGCATGTGTTAAATCGATGAAAAGGGAGAGGATGCTTTACTAGTGT
58839170 GTATATGTG
66 GTATATGTG
58839179 T
1 T
58839180 GTATTAGCCA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.28, C:0.07, G:0.30, T:0.35
Consensus pattern (74 bp):
TTTGCATGTTAATGAGCAATGCATGTGTTAAATCGATGAAAAGGGAGAGGATGCTTTACTAGTGT
GTATATGTG
Found at i:58839959 original size:40 final size:39
Alignment explanation
Indices: 58839779--58839988 Score: 298
Period size: 39 Copynumber: 5.3 Consensus size: 39
58839769 GGACTAAGAT
58839779 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
58839818 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* *
58839857 CCAAAGGCATTTGTACGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* * *
58839896 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
* * *
58839936 CCGAAGGCATTTGTGC-AAATTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-C
58839976 CCGAAGGCATTTG
1 CCGAAGGCATTTG
58839989 AATGAGGAGC
Statistics
Matches: 155, Mismatches: 13, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 111 0.72
40 44 0.28
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:58842250 original size:10 final size:10
Alignment explanation
Indices: 58842235--58842277 Score: 86
Period size: 10 Copynumber: 4.3 Consensus size: 10
58842225 GAGAAGGAGG
58842235 TAAGCATTTA
1 TAAGCATTTA
58842245 TAAGCATTTA
1 TAAGCATTTA
58842255 TAAGCATTTA
1 TAAGCATTTA
58842265 TAAGCATTTA
1 TAAGCATTTA
58842275 TAA
1 TAA
58842278 CCATATTTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (10 bp):
TAAGCATTTA
Found at i:58847224 original size:51 final size:51
Alignment explanation
Indices: 58847148--58847250 Score: 138
Period size: 51 Copynumber: 2.0 Consensus size: 51
58847138 AAGGTAAAAA
* * *
58847148 ACACCCGTTTAAAACGTTATTTTGATGAGATTAAT-AGCAGGAATTAGGAGT
1 ACACCCATTTAAAACGCTATTTTGATGAGATTAATGA-CAGGAATGAGGAGT
*
58847199 ACACCCATTTAAAATC-CTATTTTGATGAGATTGATGACAGGAATGAGGAGT
1 ACACCCATTTAAAA-CGCTATTTTGATGAGATTAATGACAGGAATGAGGAGT
58847250 A
1 A
58847251 TAAACTCCTC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
51 44 0.96
52 2 0.04
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (51 bp):
ACACCCATTTAAAACGCTATTTTGATGAGATTAATGACAGGAATGAGGAGT
Found at i:58853085 original size:37 final size:37
Alignment explanation
Indices: 58853024--58853097 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
58853014 GGTCAATTCC
*
58853024 TTAGCTTTACAAGCCTGACTAATGAGCACAACAAATT
1 TTAGCTTTACAAGCCCGACTAATGAGCACAACAAATT
*
58853061 TTAGGTTTACAAGCCCGA-TCAATGAGCACAACAAATT
1 TTAGCTTTACAAGCCCGACT-AATGAGCACAACAAATT
58853098 CCTTCAGCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 1 0.03
37 33 0.97
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.26
Consensus pattern (37 bp):
TTAGCTTTACAAGCCCGACTAATGAGCACAACAAATT
Found at i:58855147 original size:43 final size:42
Alignment explanation
Indices: 58855094--58855236 Score: 137
Period size: 42 Copynumber: 3.3 Consensus size: 42
58855084 CGACGTCTCT
*
58855094 GACATGGTCTTACATGTAATTCAGTATCGATGCCTCTGTCCCA
1 GACATGGTCTTACATGTAATTCAG-ATCGATGCCTATGTCCCA
* * *
58855137 GACAGGGTCTTACATG-AAATCAGATACAATG-CTGATGTCCCA
1 GACATGGTCTTACATGTAATTCAGAT-CGATGCCT-ATGTCCCA
* * * * *
58855179 GACATGGTCTTCCACGTAAATCTCAAATCGAGGCCTGTGTCCCA
1 GACATGGTCTTACATGT-AAT-TCAGATCGATGCCTATGTCCCA
*
58855223 GACACGGTCTTACA
1 GACATGGTCTTACA
58855237 CGATATCTCT
Statistics
Matches: 80, Mismatches: 14, Indels: 11
0.76 0.13 0.10
Matches are distributed among these distances:
41 4 0.05
42 30 0.38
43 15 0.19
44 24 0.30
45 7 0.09
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (42 bp):
GACATGGTCTTACATGTAATTCAGATCGATGCCTATGTCCCA
Found at i:58855182 original size:42 final size:43
Alignment explanation
Indices: 58855068--58855200 Score: 130
Period size: 42 Copynumber: 3.1 Consensus size: 43
58855058 CAGACACTTA
* * * *
58855068 TAAA-CAGATACAATGCCGACGTCTCTGACATGGTCTTACATG
1 TAAATCAGATACAATGCTGATGTCCCAGACATGGTCTTACATG
* * * *
58855110 TAATTCAG-TATCGATGCCT-CTGTCCCAGACAGGGTCTTACATG
1 TAAATCAGATA-CAATG-CTGATGTCCCAGACATGGTCTTACATG
* *
58855153 -AAATCAGATACAATGCTGATGTCCCAGACATGGTCTTCCACG
1 TAAATCAGATACAATGCTGATGTCCCAGACATGGTCTTACATG
58855195 TAAATC
1 TAAATC
58855201 TCAAATCGAG
Statistics
Matches: 71, Mismatches: 14, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
41 2 0.03
42 35 0.49
43 33 0.46
44 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (43 bp):
TAAATCAGATACAATGCTGATGTCCCAGACATGGTCTTACATG
Found at i:58855234 original size:86 final size:85
Alignment explanation
Indices: 58855072--58855236 Score: 215
Period size: 85 Copynumber: 1.9 Consensus size: 85
58855062 CACTTATAAA
* * * * *
58855072 CAGATACAATGCCGACGTCTCTGACATGGTCTTACATGTAATTCAGTATCGATGCCTCTGTCCCA
1 CAGATACAATGCCGACGTCCCAGACATGGTCTTACACGTAATTCAGAATCGAGGCCTCTGTCCCA
*
58855137 GACAGGGTCTTACATGAAAT
66 GACACGGTCTTACATGAAAT
* * * *
58855157 CAGATACAATGCTGATGTCCCAGACATGGTCTTCCACGTAAATCTCA-AATCGAGGCCTGTGTCC
1 CAGATACAATGCCGACGTCCCAGACATGGTCTTACACGT-AAT-TCAGAATCGAGGCCTCTGTCC
58855221 CAGACACGGTCTTACA
64 CAGACACGGTCTTACA
58855237 CGATATCTCT
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
85 33 0.49
86 32 0.47
87 3 0.04
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (85 bp):
CAGATACAATGCCGACGTCCCAGACATGGTCTTACACGTAATTCAGAATCGAGGCCTCTGTCCCA
GACACGGTCTTACATGAAAT
Found at i:58858119 original size:53 final size:53
Alignment explanation
Indices: 58858021--58858127 Score: 160
Period size: 53 Copynumber: 2.0 Consensus size: 53
58858011 TCCACACTTA
* * *
58858021 AGATGTACATTGCCCTCAATCTACAAAGATAGATGTTAGAGAATAAAAATAAG
1 AGATGTACATTGCCCTCAATCTACAAAGATAGATATAAGAAAATAAAAATAAG
* * *
58858074 AGATGTACATTGCCCTCAATGTACAAAGATAGGTATAATAAAATAAAAATAAG
1 AGATGTACATTGCCCTCAATCTACAAAGATAGATATAAGAAAATAAAAATAAG
58858127 A
1 A
58858128 TAGGGAAAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (53 bp):
AGATGTACATTGCCCTCAATCTACAAAGATAGATATAAGAAAATAAAAATAAG
Found at i:58862073 original size:29 final size:28
Alignment explanation
Indices: 58862030--58862085 Score: 94
Period size: 29 Copynumber: 2.0 Consensus size: 28
58862020 TCGAATTACT
*
58862030 GATATTATGGTCCGAAGCCAAATCAGTC
1 GATATTATGGCCCGAAGCCAAATCAGTC
58862058 GATATTTATGGCCCGAAGCCAAATCAGT
1 GATA-TTATGGCCCGAAGCCAAATCAGT
58862086 ATAACTCACA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (28 bp):
GATATTATGGCCCGAAGCCAAATCAGTC
Found at i:58869591 original size:43 final size:43
Alignment explanation
Indices: 58869429--58869591 Score: 120
Period size: 43 Copynumber: 3.8 Consensus size: 43
58869419 TGTGTTATCG
* * * *
58869429 TGTACGACCACGTCTGGGACGTTGGCATCG-ACT-TATGATTTACA
1 TGTAAGACCACATCTGGGACATTGGCAT-GTA-TATTTGA-TTACA
** * * * *
58869473 TGTAAGACCATGTCTGGGACATCGGCAT-CATATTTGATTTCT
1 TGTAAGACCACATCTGGGACATTGGCATGTATATTTGATTACA
* * * *
58869515 TGTAAAACC-CTATTTGGGACAGTGGCATATATATTTGATTACA
1 TGTAAGACCAC-ATCTGGGACATTGGCATGTATATTTGATTACA
58869558 TGTAAGACCACATCTGGGAC-TTGGCATTGTATAT
1 TGTAAGACCACATCTGGGACATTGGCA-TGTATAT
58869592 GCTTTCCGAG
Statistics
Matches: 93, Mismatches: 20, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
42 30 0.32
43 38 0.41
44 25 0.27
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (43 bp):
TGTAAGACCACATCTGGGACATTGGCATGTATATTTGATTACA
Found at i:58870618 original size:26 final size:26
Alignment explanation
Indices: 58870547--58870669 Score: 160
Period size: 26 Copynumber: 4.8 Consensus size: 26
58870537 CCTCTTTAAT
* **
58870547 AACTGGGGTA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
58870572 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* **
58870597 AACTGGGGCATAAGCTCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
58870623 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
58870649 AACTCAGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
58870670 GGACTTCCTC
Statistics
Matches: 86, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
25 32 0.37
26 54 0.63
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:58870659 original size:52 final size:51
Alignment explanation
Indices: 58870557--58870669 Score: 190
Period size: 52 Copynumber: 2.2 Consensus size: 51
58870547 AACTGGGGTA
**
58870557 AAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCAT
1 AAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATAAACTCAGGCAT
*
58870608 AAGCTCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACTCAGGCAT
1 AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATAAACTCAGGCAT
58870660 AAGCCCTTTT
1 AAGCCCTTTT
58870670 GGACTTCCTC
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 24 0.42
52 33 0.58
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (51 bp):
AAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATAAACTCAGGCAT
Found at i:58870744 original size:20 final size:20
Alignment explanation
Indices: 58870719--58871513 Score: 1551
Period size: 20 Copynumber: 39.9 Consensus size: 20
58870709 TTATGAATTC
58870719 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58870739 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58870759 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58870779 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58870799 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58870819 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58870839 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58870859 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58870879 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58870899 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58870919 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58870939 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58870959 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58870979 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58870999 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58871019 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58871039 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58871059 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58871079 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58871099 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58871119 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58871139 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58871159 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58871179 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58871199 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58871219 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58871239 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58871259 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58871279 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58871299 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58871319 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58871339 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58871359 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58871379 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58871399 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58871419 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58871439 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58871459 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
58871479 ATCATGTGCATAACATATCA-
1 ATCATGTGCATATCATA-CAT
58871499 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
58871514 TCCCACGTAT
Statistics
Matches: 772, Mismatches: 2, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
18 7 0.01
20 763 0.99
21 2 0.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:58874795 original size:40 final size:40
Alignment explanation
Indices: 58874749--58874973 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
58874739 CTTGCACAAG
* * *
58874749 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
58874789 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
58874829 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
58874869 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
58874909 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
* *
58874950 GCCTTCGAGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
58874974 CATTCGAATA
Statistics
Matches: 158, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 129 0.82
41 28 0.18
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:58874844 original size:80 final size:80
Alignment explanation
Indices: 58874713--58874973 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 80
58874703 CTCAAGAAAT
* * * * * * *
58874713 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
58874776 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* * *
58874791 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
58874855 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
58874871 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
58874936 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
*
58874952 CTTCGAGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
58874974 CATTCGAATA
Statistics
Matches: 154, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
78 12 0.08
79 16 0.10
80 94 0.61
81 32 0.21
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:58881772 original size:25 final size:26
Alignment explanation
Indices: 58881730--58881843 Score: 149
Period size: 26 Copynumber: 4.4 Consensus size: 26
58881720 AACTAGGGTA
**
58881730 AAGCCCTTTTTCGGTAAACTGGGGCA-
1 AAGCCC-TTTTCAATAAACTGGGGCAT
*
58881756 AAGCCCCTTTCAATAAACTGGGGCAT
1 AAGCCCTTTTCAATAAACTGGGGCAT
**
58881782 AAGCCCTTTTCGGTAAACTGGGGCAT
1 AAGCCCTTTTCAATAAACTGGGGCAT
* *
58881808 AAGCCTTTTTCAATAAACTCGGGCAT
1 AAGCCCTTTTCAATAAACTGGGGCAT
58881834 AAGCCCTTTT
1 AAGCCCTTTT
58881844 GCACTTCCTC
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
25 16 0.21
26 60 0.79
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (26 bp):
AAGCCCTTTTCAATAAACTGGGGCAT
Found at i:58881819 original size:52 final size:51
Alignment explanation
Indices: 58881730--58881843 Score: 183
Period size: 52 Copynumber: 2.2 Consensus size: 51
58881720 AACTAGGGTA
*
58881730 AAGCCCTTTTTCGGTAAACTGGGGCAAAGCCCCTTTCAATAAACTGGGGCAT
1 AAGCCC-TTTTCGGTAAACTGGGGCAAAGCCCCTTTCAATAAACTCGGGCAT
**
58881782 AAGCCCTTTTCGGTAAACTGGGGCATAAGCCTTTTTCAATAAACTCGGGCAT
1 AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCCTTTCAATAAACTCGGGCAT
58881834 AAGCCCTTTT
1 AAGCCCTTTT
58881844 GCACTTCCTC
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 19 0.33
52 39 0.67
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (51 bp):
AAGCCCTTTTCGGTAAACTGGGGCAAAGCCCCTTTCAATAAACTCGGGCAT
Found at i:58881918 original size:20 final size:20
Alignment explanation
Indices: 58881893--58882707 Score: 1591
Period size: 20 Copynumber: 40.9 Consensus size: 20
58881883 TTATGAATTC
58881893 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58881913 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58881933 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58881953 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58881973 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58881993 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882013 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882033 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882053 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882073 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882093 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882113 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882133 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882153 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882173 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882193 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882213 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882233 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882253 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882273 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882293 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882313 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882333 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882353 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882373 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882393 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882413 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882433 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882453 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882473 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882493 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882513 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882533 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882553 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882573 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882593 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882613 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882633 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58882653 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
58882673 ATCATGTGCATAACATATCA-
1 ATCATGTGCATATCATA-CAT
58882693 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
58882708 TCCCACGTAT
Statistics
Matches: 792, Mismatches: 2, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
18 7 0.01
20 783 0.99
21 2 0.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:58903362 original size:79 final size:81
Alignment explanation
Indices: 58903226--58903410 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
58903216 TTGAATGATG
*
58903226 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
58903290 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
58903305 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
58903367 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
58903385 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
58903411 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:58903424 original size:40 final size:40
Alignment explanation
Indices: 58903227--58903410 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
58903217 TGAATGATGT
* * * *
58903227 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
58903267 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
58903307 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
58903345 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
58903386 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
58903411 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:58903432 original size:79 final size:79
Alignment explanation
Indices: 58903279--58903443 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
58903269 GGACTAAGAT
* **
58903279 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
58903344 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
58903358 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
58903421 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
58903437 CCGAAGG
1 CCGAAGG
58903444 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:58918674 original size:101 final size:100
Alignment explanation
Indices: 58918545--58918732 Score: 295
Period size: 101 Copynumber: 1.9 Consensus size: 100
58918535 GGTTTTAGGA
*
58918545 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTTGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT-GGTCGCATGTGTAGTACT
* *
58918610 AAGTGCAGGCTACCATGCGTACCCGACAACTTCAAT
65 AACTGCAGGCTACCATGCATACCCGACAACTTCAAT
* * * *
58918646 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATTGTTGGTCGTATGTGTAGTACTA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTGGTCGCATGTGTAGTACTA
*
58918711 ACTGCAGGCTACTATGCATACC
66 ACTGCAGGCTACCATGCATACC
58918733 AGATAGCTTC
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
100 36 0.46
101 43 0.54
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.29
Consensus pattern (100 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTGGTCGCATGTGTAGTACTA
ACTGCAGGCTACCATGCATACCCGACAACTTCAAT
Found at i:58918683 original size:51 final size:50
Alignment explanation
Indices: 58918545--58918683 Score: 154
Period size: 51 Copynumber: 2.8 Consensus size: 50
58918535 GGTTTTAGGA
* * *
58918545 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAAACTTAGAT
** * * * * *
58918595 TGCATGTGTAGTACTAAGTGCAGGCTACCATGCGTACCCGACAACTTCA-AT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-AACTT-AGAT
*
58918646 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACC
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC
58918684 GGATTGTTGG
Statistics
Matches: 70, Mismatches: 17, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
50 34 0.49
51 35 0.50
52 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (50 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAAACTTAGAT
Found at i:58919351 original size:51 final size:50
Alignment explanation
Indices: 58919216--58919351 Score: 148
Period size: 51 Copynumber: 2.7 Consensus size: 50
58919206 ATAATTATGG
* * * **
58919216 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTTGC
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAAACTTAGATCAC
* * * * *
58919266 ATGTGTAGTACTAAGTGCAGGCTACCATGCGTACCCGACAACTTCA-ATCAC
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-AACTT-AGATCAC
*
58919317 GTGTGTAGTACTAAGTGTAGGCTACTACGTGTACC
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC
58919352 GGATTGTTGG
Statistics
Matches: 69, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
50 33 0.48
51 35 0.51
52 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (50 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAAACTTAGATCAC
Found at i:58919822 original size:668 final size:668
Alignment explanation
Indices: 58918548--58919885 Score: 2676
Period size: 668 Copynumber: 2.0 Consensus size: 668
58918538 TTTAGGACAC
58918548 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTTGCATGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTTGCATGTGTAGTACTAAG
58918613 TGCAGGCTACCATGCGTACCCGACAACTTCAATCACGTGTGTAGTACTAAGTGTAGGCTACTACG
66 TGCAGGCTACCATGCGTACCCGACAACTTCAATCACGTGTGTAGTACTAAGTGTAGGCTACTACG
58918678 TGTACCGGATTGTTGGTCGTATGTGTAGTACTAACTGCAGGCTACTATGCATACCAGATAGCTTC
131 TGTACCGGATTGTTGGTCGTATGTGTAGTACTAACTGCAGGCTACTATGCATACCAGATAGCTTC
58918743 GGTTACAAGGGTGGTAATATGTGCAGCCAACTGTGAATCTATTATTATTTCGATGAGTTCAACGA
196 GGTTACAAGGGTGGTAATATGTGCAGCCAACTGTGAATCTATTATTATTTCGATGAGTTCAACGA
58918808 GAAATCGACTAAGTGAAAATACATGTGAACATGACCATGTGATGAATAAGTTCAGGTATATGATT
261 GAAATCGACTAAGTGAAAATACATGTGAACATGACCATGTGATGAATAAGTTCAGGTATATGATT
58918873 GTGGAAATTTATGAGCAATGTGCTTGATAGTTGAGCGAACTTTCGGTAAGATGGAATGGAGTAGG
326 GTGGAAATTTATGAGCAATGTGCTTGATAGTTGAGCGAACTTTCGGTAAGATGGAATGGAGTAGG
58918938 TGAAATTATGTAAGAGTGAAATTTGTCATAAAAGAGTTTTGGACAACAGCAGTTGTGTAAGTTTG
391 TGAAATTATGTAAGAGTGAAATTTGTCATAAAAGAGTTTTGGACAACAGCAGTTGTGTAAGTTTG
58919003 AAAAATCACCAAAAATCTTGGAAATTGAATTAAAGGATGAATAATATATGAAATTAAAGCTTTTG
456 AAAAATCACCAAAAATCTTGGAAATTGAATTAAAGGATGAATAATATATGAAATTAAAGCTTTTG
58919068 AGTCTATTTTCATATAAAGGAAACGGTGTAAGCAAAAGAATTTTATACTATAAGATATTTGAATT
521 AGTCTATTTTCATATAAAGGAAACGGTGTAAGCAAAAGAATTTTATACTATAAGATATTTGAATT
58919133 TTTGTGAGACAAAGTTAGAATAATTTTGGAATCCTTTGTTCTAATTTAGGAAAACATTAAAAATT
586 TTTGTGAGACAAAGTTAGAATAATTTTGGAATCCTTTGTTCTAATTTAGGAAAACATTAAAAATT
58919198 GTACAAAAATAATTATGG
651 GTACAAAAATAATTATGG
58919216 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTTGCATGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTTGCATGTGTAGTACTAAG
58919281 TGCAGGCTACCATGCGTACCCGACAACTTCAATCACGTGTGTAGTACTAAGTGTAGGCTACTACG
66 TGCAGGCTACCATGCGTACCCGACAACTTCAATCACGTGTGTAGTACTAAGTGTAGGCTACTACG
58919346 TGTACCGGATTGTTGGTCGTATGTGTAGTACTAACTGCAGGCTACTATGCATACCAGATAGCTTC
131 TGTACCGGATTGTTGGTCGTATGTGTAGTACTAACTGCAGGCTACTATGCATACCAGATAGCTTC
58919411 GGTTACAAGGGTGGTAATATGTGCAGCCAACTGTGAATCTATTATTATTTCGATGAGTTCAACGA
196 GGTTACAAGGGTGGTAATATGTGCAGCCAACTGTGAATCTATTATTATTTCGATGAGTTCAACGA
58919476 GAAATCGACTAAGTGAAAATACATGTGAACATGACCATGTGATGAATAAGTTCAGGTATATGATT
261 GAAATCGACTAAGTGAAAATACATGTGAACATGACCATGTGATGAATAAGTTCAGGTATATGATT
58919541 GTGGAAATTTATGAGCAATGTGCTTGATAGTTGAGCGAACTTTCGGTAAGATGGAATGGAGTAGG
326 GTGGAAATTTATGAGCAATGTGCTTGATAGTTGAGCGAACTTTCGGTAAGATGGAATGGAGTAGG
58919606 TGAAATTATGTAAGAGTGAAATTTGTCATAAAAGAGTTTTGGACAACAGCAGTTGTGTAAGTTTG
391 TGAAATTATGTAAGAGTGAAATTTGTCATAAAAGAGTTTTGGACAACAGCAGTTGTGTAAGTTTG
58919671 AAAAATCACCAAAAATCTTGGAAATTGAATTAAAGGATGAATAATATATGAAATTAAAGCTTTTG
456 AAAAATCACCAAAAATCTTGGAAATTGAATTAAAGGATGAATAATATATGAAATTAAAGCTTTTG
58919736 AGTCTATTTTCATATAAAGGAAACGGTGTAAGCAAAAGAATTTTATACTATAAGATATTTGAATT
521 AGTCTATTTTCATATAAAGGAAACGGTGTAAGCAAAAGAATTTTATACTATAAGATATTTGAATT
58919801 TTTGTGAGACAAAGTTAGAATAATTTTGGAATCCTTTGTTCTAATTTAGGAAAACATTAAAAATT
586 TTTGTGAGACAAAGTTAGAATAATTTTGGAATCCTTTGTTCTAATTTAGGAAAACATTAAAAATT
58919866 GTACAAAAATAATTATGG
651 GTACAAAAATAATTATGG
58919884 GT
1 GT
58919886 TATAATTTTT
Statistics
Matches: 670, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
668 670 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (668 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTTGCATGTGTAGTACTAAG
TGCAGGCTACCATGCGTACCCGACAACTTCAATCACGTGTGTAGTACTAAGTGTAGGCTACTACG
TGTACCGGATTGTTGGTCGTATGTGTAGTACTAACTGCAGGCTACTATGCATACCAGATAGCTTC
GGTTACAAGGGTGGTAATATGTGCAGCCAACTGTGAATCTATTATTATTTCGATGAGTTCAACGA
GAAATCGACTAAGTGAAAATACATGTGAACATGACCATGTGATGAATAAGTTCAGGTATATGATT
GTGGAAATTTATGAGCAATGTGCTTGATAGTTGAGCGAACTTTCGGTAAGATGGAATGGAGTAGG
TGAAATTATGTAAGAGTGAAATTTGTCATAAAAGAGTTTTGGACAACAGCAGTTGTGTAAGTTTG
AAAAATCACCAAAAATCTTGGAAATTGAATTAAAGGATGAATAATATATGAAATTAAAGCTTTTG
AGTCTATTTTCATATAAAGGAAACGGTGTAAGCAAAAGAATTTTATACTATAAGATATTTGAATT
TTTGTGAGACAAAGTTAGAATAATTTTGGAATCCTTTGTTCTAATTTAGGAAAACATTAAAAATT
GTACAAAAATAATTATGG
Found at i:58921984 original size:29 final size:30
Alignment explanation
Indices: 58921952--58922012 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
58921942 TTTTACGAGC
**
58921952 TTAGGGGTAAAAGTGTAA-TTTTTGAAAAT
1 TTAGGGGTAAAAGTGTAAGTTTTCCAAAAT
*
58921981 TTAGGGGTAAAATTGTAAGTTTTCCAAAAT
1 TTAGGGGTAAAAGTGTAAGTTTTCCAAAAT
58922011 TT
1 TT
58922013 GATATGTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.39
Consensus pattern (30 bp):
TTAGGGGTAAAAGTGTAAGTTTTCCAAAAT
Found at i:58922510 original size:23 final size:23
Alignment explanation
Indices: 58922473--58922602 Score: 145
Period size: 23 Copynumber: 5.7 Consensus size: 23
58922463 GGAATCTATA
*
58922473 GGCTACAATATAGTGGTAGCTTC
1 GGCTACAATACAGTGGTAGCTTC
* *
58922496 GGCTAC-ATCTCAGTGGTAGCTTA
1 GGCTACAAT-ACAGTGGTAGCTTC
*
58922519 GGCTACAATACAGTGGTAGCTTT
1 GGCTACAATACAGTGGTAGCTTC
58922542 GGCTACAATACAGTGGTAGCTTC
1 GGCTACAATACAGTGGTAGCTTC
* ** * *
58922565 AGCTACGTTACAATGATAGCTTC
1 GGCTACAATACAGTGGTAGCTTC
* *
58922588 GGCTATATTACAGTG
1 GGCTACAATACAGTG
58922603 TGGCACTTTG
Statistics
Matches: 90, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
22 2 0.02
23 86 0.96
24 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (23 bp):
GGCTACAATACAGTGGTAGCTTC
Found at i:58922585 original size:69 final size:69
Alignment explanation
Indices: 58922473--58922602 Score: 172
Period size: 69 Copynumber: 1.9 Consensus size: 69
58922463 GGAATCTATA
* * * *
58922473 GGCTACAATATAGTGGTAGCTTCGGCTACATCTCAGTGGTAGCTTAGGCTACAATACAGTGGTAG
1 GGCTACAATACAGTGGTAGCTTCAGCTACATCTCAATGATAGCTTAGGCTACAATACAGTGGTAG
58922538 CTTT
66 CTTT
* * * *
58922542 GGCTACAATACAGTGGTAGCTTCAGCTACGT-TACAATGATAGCTTCGGCTATATTACAGTG
1 GGCTACAATACAGTGGTAGCTTCAGCTACATCT-CAATGATAGCTTAGGCTACAATACAGTG
58922603 TGGCACTTTG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
68 1 0.02
69 51 0.98
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (69 bp):
GGCTACAATACAGTGGTAGCTTCAGCTACATCTCAATGATAGCTTAGGCTACAATACAGTGGTAG
CTTT
Found at i:58932338 original size:15 final size:15
Alignment explanation
Indices: 58932318--58932348 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
58932308 ATGAGCTTTG
58932318 TTTTGTGTCTTTTAT
1 TTTTGTGTCTTTTAT
58932333 TTTTGTGTCTTTTAT
1 TTTTGTGTCTTTTAT
58932348 T
1 T
58932349 CTGATATTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.06, G:0.13, T:0.74
Consensus pattern (15 bp):
TTTTGTGTCTTTTAT
Found at i:58935418 original size:49 final size:48
Alignment explanation
Indices: 58935355--58935548 Score: 167
Period size: 49 Copynumber: 3.9 Consensus size: 48
58935345 TTAGGTCACG
*
58935355 TGTGTAGTACTAAGTGCAGGCTACTACGTTTACCAAATAGTTAGGTCGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTA-GTCGA
* * * * * *
58935404 TGTGTAGTACTAAGTGCAGGCTACTATGGGTACTTGACA-ACTTCAATC-A
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC--CAAATAGTT-AGTCGA
* *** *
58935453 CGTGTGTAGTACTAAGTGAAGGCTACTACGTGTATTGAATTGTTAGTCGCA
1 --TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTAGTCG-A
* * *
58935504 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAG-TTAG
58935549 GTTACAAGGG
Statistics
Matches: 111, Mismatches: 25, Indels: 17
0.73 0.16 0.11
Matches are distributed among these distances:
49 67 0.60
50 11 0.10
51 33 0.30
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTAGTCGA
Found at i:58935477 original size:100 final size:100
Alignment explanation
Indices: 58935350--58935536 Score: 295
Period size: 100 Copynumber: 1.9 Consensus size: 100
58935340 TGATTTTAGG
* *
58935350 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTTTACCAAATAGTTAGGTCG-ATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTACCAAATAGTTA-GTCGCATGTGTAGTAC
*
58935414 TAAGTGCAGGCTACTATGGGTACTTGACAACTTCAA
65 TAAGTGCAGGCTACTATGCGTACTTGACAACTTCAA
*** *
58935450 TCACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTATTGAATTGTTAGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTACCAAATAGTTAGTCGCATGTGTAGTACT
58935515 AAGTGCAGGCTACTATGCGTAC
66 AAGTGCAGGCTACTATGCGTAC
58935537 CAGATAGCTT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
99 4 0.05
100 75 0.95
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTACCAAATAGTTAGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACTTGACAACTTCAA
Found at i:58935770 original size:15 final size:16
Alignment explanation
Indices: 58935741--58935770 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58935731 AATGGAGTAA
58935741 GTGAAATTATGTAATG
1 GTGAAATTATGTAATG
58935757 GTGAAATT-TGTAAT
1 GTGAAATTATGTAAT
58935771 AAAATAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (16 bp):
GTGAAATTATGTAATG
Found at i:58941976 original size:47 final size:47
Alignment explanation
Indices: 58941907--58942001 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 47
58941897 GATCGATGAG
58941907 ATTGTGTATTGATTACCATCAGCTCAACAAGGTTACAGCCAAGAATA
1 ATTGTGTATTGATTACCATCAGCTCAACAAGGTTACAGCCAAGAATA
* * *
58941954 ATTGTGTATTGATTACCGTCAGCTCAATAAGGTTACAGTCAAGAATA
1 ATTGTGTATTGATTACCATCAGCTCAACAAGGTTACAGCCAAGAATA
58942001 A
1 A
58942002 ATATCCACTG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (47 bp):
ATTGTGTATTGATTACCATCAGCTCAACAAGGTTACAGCCAAGAATA
Found at i:58947270 original size:42 final size:43
Alignment explanation
Indices: 58947213--58947331 Score: 129
Period size: 43 Copynumber: 2.8 Consensus size: 43
58947203 AAACATCGAC
* * *
58947213 GCCACTGTCCCAGACAGT-GTCTTACACGAAATCAGA-TACGAT
1 GCCAATGTCCCAGACAGTGGTCTTACACGAAATCAAAGT-CAAT
**
58947255 GCCAATGTCCCAGACA-TGGTCTTACACGTAAAAAAAAGTCAAT
1 GCCAATGTCCCAGACAGTGGTCTTACACG-AAATCAAAGTCAAT
* *
58947298 GCCAACGTCCCAGAC-GTGGTCTTACACGATATCA
1 GCCAATGTCCCAGACAGTGGTCTTACACGAAATCA
58947332 CATATCGGAA
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
41 1 0.02
42 28 0.44
43 34 0.53
44 1 0.02
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (43 bp):
GCCAATGTCCCAGACAGTGGTCTTACACGAAATCAAAGTCAAT
Found at i:58947780 original size:70 final size:69
Alignment explanation
Indices: 58947690--58947826 Score: 195
Period size: 70 Copynumber: 2.0 Consensus size: 69
58947680 TTGATCTATA
* *
58947690 ACAACACATTTTAATTAGCTAAACACCAT-GATTTTGTCCTAATTTGGACAGCCAATAATTTACA
1 ACAACACATATTAATTAGCTAAACACCATAAATTTT-TCCTAATTTGGACAGCCAATAATTTACA
58947754 GTACT
65 GTACT
* * * *
58947759 ACAACAGCATATTAATTAGCTAAGCACCATAAATTTTTCCTAATTTGGATAGCCTATAATTTATA
1 ACAACA-CATATTAATTAGCTAAACACCATAAATTTTTCCTAATTTGGACAGCCAATAATTTACA
58947824 GTA
65 GTA
58947827 TTTGTGACAC
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
69 6 0.10
70 49 0.82
71 5 0.08
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.34
Consensus pattern (69 bp):
ACAACACATATTAATTAGCTAAACACCATAAATTTTTCCTAATTTGGACAGCCAATAATTTACAG
TACT
Found at i:58950028 original size:49 final size:50
Alignment explanation
Indices: 58949940--58950038 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 50
58949930 TGAATTTGTT
*
58949940 TAATTAAGCTCAAGGACAAAAAAGGGGCACAAATTTCGGATAAGGGAAAG
1 TAATTAAGCTCAAGGACAAAAAAGGGGCACAAATTTCGGATAAAGGAAAG
58949990 TAATTAAGCTCAAGGAC-AAAAAGGGGCACAAATTTCGGATAAAGGAAAG
1 TAATTAAGCTCAAGGACAAAAAAGGGGCACAAATTTCGGATAAAGGAAAG
58950039 AGGAAGTAGC
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 31 0.65
50 17 0.35
ACGTcount: A:0.46, C:0.12, G:0.25, T:0.16
Consensus pattern (50 bp):
TAATTAAGCTCAAGGACAAAAAAGGGGCACAAATTTCGGATAAAGGAAAG
Found at i:58951111 original size:47 final size:47
Alignment explanation
Indices: 58951032--58951389 Score: 599
Period size: 47 Copynumber: 7.6 Consensus size: 47
58951022 TATTTGAATA
58951032 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
58951081 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
58951128 AATGTGAAAGTGTATACATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
58951175 AATGTGAAAGTGTATATATGTGACAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
58951222 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58951269 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
58951316 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
58951363 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
58951390 TCCCGAAGGG
Statistics
Matches: 293, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
47 281 0.96
49 12 0.04
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:58952890 original size:29 final size:29
Alignment explanation
Indices: 58952855--58952928 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
58952845 GTTGTGAGAT
* *
58952855 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
58952884 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
58952913 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
58952929 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:58953361 original size:40 final size:40
Alignment explanation
Indices: 58953239--58953461 Score: 184
Period size: 40 Copynumber: 5.6 Consensus size: 40
58953229 TCGAATGATG
* * * *
58953239 TCCGGGCTAAGTCCCGAAG-GC-TTTGTTCTAAGTGACCATA
1 TCCGGGCTAAGTCCCAAAGAGCATTCGTGCT-AGTGA-TATA
* * * * *
58953279 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTATA
1 TCCGGGCTAAG-TCCCAAAGAGCATTCGTGCTAGTGA-TATA
* * *
58953319 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCAAAGAGCATTCGTGCTAGTGATATA
**
58953359 TCCGGGCTAAGTTTCAAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCAAAGAGCATTCGTGCTAGTGATATA
* ** * * * *
58953399 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATG
1 TCCGGGCTAAGTCCCAAAGAGCATTCGTGCTAGTGATATA
*
58953439 TCCGGGCTAGGTCCCAAAGAGCA
1 TCCGGGCTAAGTCCCAAAGAGCA
58953462 ATGATGCTGG
Statistics
Matches: 148, Mismatches: 31, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
39 1 0.01
40 129 0.87
41 18 0.12
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCAAAGAGCATTCGTGCTAGTGATATA
Found at i:58957148 original size:47 final size:47
Alignment explanation
Indices: 58957068--58957284 Score: 326
Period size: 47 Copynumber: 4.6 Consensus size: 47
58957058 TATTTGAATA
58957068 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
58957117 AATGTGAAAGTGTATATATGTTATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58957164 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
58957211 AATGTGAAAGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
58957258 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
58957285 TCCCGAAGGG
Statistics
Matches: 154, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
47 142 0.92
49 12 0.08
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:58964486 original size:33 final size:33
Alignment explanation
Indices: 58964444--58964506 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
58964434 CCCTCTCTAA
58964444 CTACCACTTACATTTCCCGTATCTCTGGGAGGT
1 CTACCACTTACATTTCCCGTATCTCTGGGAGGT
58964477 CTACCACTTACATTTCCCGTATCTCTGGGA
1 CTACCACTTACATTTCCCGTATCTCTGGGA
58964507 CATCTGAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.19, C:0.32, G:0.16, T:0.33
Consensus pattern (33 bp):
CTACCACTTACATTTCCCGTATCTCTGGGAGGT
Found at i:58968658 original size:13 final size:16
Alignment explanation
Indices: 58968625--58968657 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
58968615 AAAATCAAAT
58968625 AAAATTACATTATAAA
1 AAAATTACATTATAAA
58968641 AAAATTACATTA-AAA
1 AAAATTACATTATAAA
58968656 AA
1 AA
58968658 TCATAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAATTACATTATAAA
Found at i:58969352 original size:13 final size:13
Alignment explanation
Indices: 58969334--58969361 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
58969324 CTTTTGTTCT
58969334 TTTCCTTTCTCTC
1 TTTCCTTTCTCTC
58969347 TTTCCTTTCTCTC
1 TTTCCTTTCTCTC
58969360 TT
1 TT
58969362 CTGGTGGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTCCTTTCTCTC
Found at i:58970366 original size:30 final size:30
Alignment explanation
Indices: 58970320--58970381 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
58970310 ATCTATTTTA
*
58970320 TTGTCAATTTTTTTATTATTTTAAAGGCAT
1 TTGTCAATTTTGTTATTATTTTAAAGGCAT
* *
58970350 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTCAATTTTGTTATTATTTTAAAGGCAT
58970380 TT
1 TT
58970382 TCTTATTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.24, C:0.05, G:0.13, T:0.58
Consensus pattern (30 bp):
TTGTCAATTTTGTTATTATTTTAAAGGCAT
Found at i:58972848 original size:588 final size:589
Alignment explanation
Indices: 58971493--58973083 Score: 1887
Period size: 588 Copynumber: 2.6 Consensus size: 589
58971483 ATGGATATGT
* * *
58971493 AAGTGAAAA-AAACATAGTA-TTGTCAG--TCAACATTGTTCATACTAGGATGGTTAAGATTGTA
1 AAGTGAAAACAACCATAGTATTTGTCGGCTTCAACATTGTTTATACTAGGATGGTTAAGATTGTA
* *
58971554 CATAAACAAGAAAAAAAAAACTAGTGCATCACAGAGGCACTGAAATAAGGAATGAAAAATTTCCC
66 CATAAACAAG--AAAAAAAACTAGTGCATCAGAGAGGCACTGAAATAAGCAATGAAAAATTT-CC
*
58971619 CAATTTTTAGGTTCTTATTCATTTATAGAT-AAATGAATGAAGTGACTAAAATGATCATTATTTA
128 CAATTTTTAGGTTCTTATTCATTTATAGATAAAAT-AATGAAGTGACTAATATGAT-A-TA-TTA
* * *
58971683 GTTGTGTGTATAATAATGACATGGAAATTACAATACTAGGTGGAAAGTCAAAATTTACAATAAAT
189 ------TGTATAATAATGACATGGAAATTACATTACTAGGTGGAAAGACAAAATTTACAACAAAT
*
58971748 TCCAAGTGTGTTTTTCGTTACCTATTTCAACTGGAGTGACCAAAATGAAAATATTGTAACATCAA
248 TCC-AG-G-G-TTTTCGTTACC-ATTTCAAC-GGAGTGACCAAAATGAAAATATTGTAACATCGA
* **
58971813 TGCCTATTTTACAACTTTTTCCTTCTAGTTATCTAAAATAAAAATTTATAAAAGTTGGGTGACCA
307 TGCCTATTTTACAAC-TTTT-CTTCTAGATATCTAAAATAAAAATTTATAAAAGTTGAATGACCA
* * *
58971878 ATTGTGTAGTTTACCTTTATTTCTTTTCTAATTAAAATTAAACTAATTTTGAAGAAAATCAAATA
370 ACTGTGTAGTTTACCCTTATTTCTTTTCTAATTAAAATTAAACTAATTTTGAACAAAATCAAATA
* * *
58971943 GTTTAAGAGTTTTCAAAACATATCTGAACGAGTTTGTAGGGTTGCAACAGGATTAATAATATAAT
435 GTTAAAGAGTTTTCAAAACATATCTGAACGAGTTTGTACGGTAGCAACAGGATTAATAATATAAT
58972008 TATAATGACATATATATATTTTTGACTAAAATATGACTTTTTGATCAGGAGCAACAAAATAGAAT
500 TATAATGACATATATATATTTTTGACTAAAATATGACTTTTTGATCAGGAGCAACAAAATAGAAT
* * *
58972073 TTAAAGTAAAACTAAAAGCGACTAA
565 TTAAAGTAAAACCAAAAGCAAATAA
* * * * *
58972098 AAGTGAAAACAACTATAGTATTTGTTGGCTTCAACATT-ATTATACTAGGATAGTTAAGATTGAA
1 AAGTGAAAACAACCATAGTATTTGTCGGCTTCAACATTGTTTATACTAGGATGGTTAAGATTGTA
* * *
58972162 CAAAAACAAGAAGAAAAAACTAGTGCATCAGAGAGGTACTGAAATAAGCAATGAAGAATTTCCCA
66 CATAAACAAGAA-AAAAAACTAGTGCATCAGAGAGGCACTGAAATAAGCAATGAAAAATTTCCCA
*
58972227 ATTTTTAGGTTTTTATTCATTTATAGATAAAATAATGAAGTGACTAATATGATA-A-TATGTATA
130 ATTTTTAGGTTCTTATTCATTTATAGATAAAATAATGAAGTGACTAATATGATATATTATGTATA
* *
58972290 ATAATGACATGGAAATTACATTACTAGGTAGAAAGACAAAATTTACAACAAACT-C-GGGTTTTC
195 ATAATGACATGGAAATTACATTACTAGGTGGAAAGACAAAATTTACAACAAATTCCAGGGTTTTC
* ** *
58972353 GTTATTCATTTCAACGGAAGTGATTAAAATGAAAATACTGTAACATCGATG-CTAATTTTA-AGA
260 GTTA-CCATTTCAACGG-AGTGACCAAAATGAAAATATTGTAACATCGATGCCT-ATTTTACA-A
* *
58972416 -TTTT-TTCTAGATATTTGAAATAAAAATTTATAAAAGTTGAATGACCAACTGTGTAGTTTACCC
321 CTTTTCTTCTAGATATCTAAAATAAAAATTTATAAAAGTTGAATGACCAACTGTGTAGTTTACCC
* *
58972479 TTATTTC-TTTCTAATT-AAATTAAACTATTTTTTAACAAAATCAAATAGTTAAAGAGTTTTCGA
386 TTATTTCTTTTCTAATTAAAATTAAACTAATTTTGAACAAAATCAAATAGTTAAAGAGTTTTC-A
*
58972542 AACACA-AT-TGAACGAGTTTGTACGGTAGCCGA-AGGATTAATAATATAATTATAATGACATAT
450 AA-ACATATCTGAACGAGTTTGTACGGTAG-CAACAGGATTAATAATATAATTATAATGACATAT
*** ** * * *
58972604 ATAT-TTTTT-ACTTTCATATGGTTTTCATTGATGTGGTTAGGAGCTACAAAATAGAATTTAAAT
513 ATATATTTTTGACTAAAATATGACTTT--TTGA-----TCAGGAGCAACAAAATAGAATTTAAAG
*
58972667 TAAAACCAAAAGCAAATGA
571 TAAAACCAAAAGCAAATAA
* * *
58972686 AAGTGAAAACAACCATGGTATTTGTCGTCTTCAACATTGTTTGTACTAGGATGGTTAAGATTGTA
1 AAGTGAAAACAACCATAGTATTTGTCGGCTTCAACATTGTTTATACTAGGATGGTTAAGATTGTA
* *
58972751 CATAAACAAGAAAAAAAA-TAGTGCATCAGAAAGGCACTGAAATAAGCAATGAAAAATTTCTCTA
66 CATAAACAAGAAAAAAAACTAGTGCATCAGAGAGGCACTGAAATAAGCAATGAAAAATTTC-CCA
* *
58972815 ATTTTTAGGTTCTTATTCATTTATAGATAAAATATTGAAGTGACTAAAATGATAATATTTAGTTG
130 ATTTTTAGGTTCTTATTCATTTATAGATAAAATAATGAAGTGACT--AAT-ATGATA--TA--T-
* *
58972880 TATGTATAATAATGACATGGAAATTACATTACTAGATGGAAA-ATTAAAATTTACAACAAATTCC
187 TATGTATAATAATGACATGGAAATTACATTACTAGGTGGAAAGA-CAAAATTTACAACAAATTCC
* * *
58972944 GAGTGGGTTTTCCATTACCCATTTCAACGGGAGTGACCAAAATGAAAATATTGTAACATCGGTGT
251 -A--GGGTTTT-CGTTA-CCATTTCAAC-GGAGTGACCAAAATGAAAATATTGTAACATCGATGC
* * * * * * **
58973009 CAATTTTACAACCTTTTTCTTTTAGATATCTAAAATGAAATTTTGTAAAACTTGGGTGACCAACT
310 CTATTTTACAA-C-TTTTCTTCTAGATATCTAAAATAAAAATTTATAAAAGTTGAATGACCAACT
*
58973074 ATGTAGTTTA
373 GTGTAGTTTA
58973084 GCCAAACGAT
Statistics
Matches: 851, Mismatches: 89, Indels: 89
0.83 0.09 0.09
Matches are distributed among these distances:
581 11 0.01
582 5 0.01
583 97 0.11
584 16 0.02
585 62 0.07
587 43 0.05
588 129 0.15
589 86 0.10
590 5 0.01
591 6 0.01
592 1 0.00
594 2 0.00
595 55 0.06
597 1 0.00
598 56 0.07
599 1 0.00
601 2 0.00
603 8 0.01
604 49 0.06
605 14 0.02
606 60 0.07
607 57 0.07
608 77 0.09
609 8 0.01
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (589 bp):
AAGTGAAAACAACCATAGTATTTGTCGGCTTCAACATTGTTTATACTAGGATGGTTAAGATTGTA
CATAAACAAGAAAAAAAACTAGTGCATCAGAGAGGCACTGAAATAAGCAATGAAAAATTTCCCAA
TTTTTAGGTTCTTATTCATTTATAGATAAAATAATGAAGTGACTAATATGATATATTATGTATAA
TAATGACATGGAAATTACATTACTAGGTGGAAAGACAAAATTTACAACAAATTCCAGGGTTTTCG
TTACCATTTCAACGGAGTGACCAAAATGAAAATATTGTAACATCGATGCCTATTTTACAACTTTT
CTTCTAGATATCTAAAATAAAAATTTATAAAAGTTGAATGACCAACTGTGTAGTTTACCCTTATT
TCTTTTCTAATTAAAATTAAACTAATTTTGAACAAAATCAAATAGTTAAAGAGTTTTCAAAACAT
ATCTGAACGAGTTTGTACGGTAGCAACAGGATTAATAATATAATTATAATGACATATATATATTT
TTGACTAAAATATGACTTTTTGATCAGGAGCAACAAAATAGAATTTAAAGTAAAACCAAAAGCAA
ATAA
Found at i:58973249 original size:23 final size:23
Alignment explanation
Indices: 58973209--58973252 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
58973199 AAAAGTCACA
***
58973209 CCAACAACACATTGAAAGATAAT
1 CCAACAACACACCAAAAGATAAT
58973232 CCAACAACACACCAAAAGATA
1 CCAACAACACACCAAAAGATA
58973253 GAGCAAACAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.55, C:0.27, G:0.07, T:0.11
Consensus pattern (23 bp):
CCAACAACACACCAAAAGATAAT
Found at i:58976515 original size:50 final size:49
Alignment explanation
Indices: 58976385--58976625 Score: 240
Period size: 50 Copynumber: 4.8 Consensus size: 49
58976375 AGTCGAAGCT
* * * * *
58976385 ATCTGATACGCATAGTAGCTTGCACTTAGTACTACACATGCGA-TCAAC
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACTCATC
* *
58976433 AATC-CAGTACACATAGTAGCTTGCACTTAGTACTACACACGTGACCTCATC
1 -ATCTGA-TACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CTCATC
*
58976484 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-TCGAAGTC
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACTC--A-TC
* * *
58976535 AT-TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACT-ATAC
1 ATCTGA-TACACATAGTAGCCTGCACTTAGTACTACACACGTGACTCAT-C
* * *
58976584 AGTATGATACACGTAGTAGCCTACACTTAGTACTACACACGT
1 A-TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGT
58976626 ATATTCACAA
Statistics
Matches: 163, Mismatches: 17, Indels: 23
0.80 0.08 0.11
Matches are distributed among these distances:
48 4 0.02
49 40 0.25
50 73 0.45
51 45 0.28
52 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (49 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACTCATC
Found at i:58976592 original size:101 final size:99
Alignment explanation
Indices: 58976388--58976625 Score: 293
Period size: 101 Copynumber: 2.4 Consensus size: 99
58976378 CGAAGCTATC
* * * * *
58976388 TGATACGCATAGTAGCTTGCACTTAGTACTACACATGCGATCAACAATCCAGTACACATAGTAGC
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAACAATCCAGTACACATAGTAGC
* * *
58976453 TTGCACTTAGTACTACACACGTGACCTCATCATC
66 CTGCACTTAGTACTACACACGCGACCTCATCATA
** *
58976487 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC-ATTGAGTACGCATAGT
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-AA--CAATCCAGTACACATAGT
*
58976551 AGCCTGCACTTAGTACTACACATGCGA-CT-ATACAGTA
63 AGCCTGCACTTAGTACTACACACGCGACCTCAT-CA-TA
*
58976588 TGATACACGTAGTAGCCTACACTTAGTACTACACACGT
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGT
58976626 ATATTCACAA
Statistics
Matches: 121, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
99 39 0.32
100 6 0.05
101 75 0.62
102 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (99 bp):
TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAACAATCCAGTACACATAGTAGC
CTGCACTTAGTACTACACACGCGACCTCATCATA
Found at i:58986693 original size:49 final size:48
Alignment explanation
Indices: 58986621--58986847 Score: 201
Period size: 49 Copynumber: 4.6 Consensus size: 48
58986611 CTAATACGCA
*
58986621 TAGTAGCCTGCACTTAGTACTACACATGCGATCAACAATCCAG-TACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGATCAAC-AT-CAGATACACG
* * *
58986670 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCATCATCTGATACA-G
1 TAGTAGCCTGCACTTAGTACTACACACGCGA--TCAACATCAGATACACG
* * * * * *
58986719 TAATAGCCTGCATTTAGTACTACACACGTGATCGAAGTCAT-TGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGATC-AA--CATCAGA-TACACG
* * *
58986770 TAGTAGCCTGCACTTCGTACTACACATGCGAATTAACAGT-ATGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCG-ATCAACA-TCA-GATACACG
*
58986820 TAGTAGCCTACACTTAGTACTACACACG
1 TAGTAGCCTGCACTTAGTACTACACACG
58986848 TGTATTCACA
Statistics
Matches: 146, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
47 2 0.01
48 1 0.01
49 66 0.45
50 42 0.29
51 33 0.23
52 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGATCAACATCAGATACACG
Found at i:58989526 original size:43 final size:43
Alignment explanation
Indices: 58989436--58989548 Score: 111
Period size: 43 Copynumber: 2.6 Consensus size: 43
58989426 TACCGAGAGG
* * * * * *
58989436 TGATTACATGTAATACCATGTCTAGGACATTGGCATTGTATTG
1 TGATTACGTGTAAAACCCTATCTAGGACATTGGCATCGTATTA
*
58989479 TGATTACGTGTAAAACCCTATCTGGGACATTGGCATCGT-TATA
1 TGATTACGTGTAAAACCCTATCTAGGACATTGGCATCGTAT-TA
* * * *
58989522 TGATTTCGTATAAGACCCTGTCTAGGA
1 TGATTACGTGTAAAACCCTATCTAGGA
58989549 TAATGACATC
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 1 0.02
43 56 0.98
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (43 bp):
TGATTACGTGTAAAACCCTATCTAGGACATTGGCATCGTATTA
Found at i:58995110 original size:6 final size:6
Alignment explanation
Indices: 58995080--58995272 Score: 155
Period size: 6 Copynumber: 31.3 Consensus size: 6
58995070 AAGAAACATT
* * *
58995080 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATTAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
58995127 GTGACAGA ATCAAA ATCAGA ATCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * *
58995178 ATCAGT ATCAGGTA A-CAGA ATCAGA ACCAGA ATCAGA ATTAGGTA A-CAGA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
*
58995228 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA AT
58995273 GTGAATGCAA
Statistics
Matches: 150, Mismatches: 20, Indels: 34
0.74 0.10 0.17
Matches are distributed among these distances:
5 10 0.07
6 119 0.79
7 14 0.09
8 7 0.05
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:58995110 original size:18 final size:18
Alignment explanation
Indices: 58995080--58995272 Score: 83
Period size: 19 Copynumber: 10.4 Consensus size: 18
58995070 AAGAAACATT
58995080 ATCAGAA-CTAGAATCAAA
1 ATCAGAATC-AGAATCAAA
* * *
58995098 ATGAGAATCAGAATTAGA
1 ATCAGAATCAGAATCAAA
* *
58995116 ATCAGAATCAG-GTGACAGA
1 ATCAGAATCAGAAT--CAAA
* *
58995135 ATCAAAATCAGAATCAGA
1 ATCAGAATCAGAATCAAA
* *
58995153 ATCAGAATTAGGTAA-CAGA
1 ATCAGAATCA-G-AATCAAA
* *
58995172 ATCAGAATCAGTATCAGGTA
1 ATCAGAATCAGAATCA--AA
* *
58995192 A-CAGAATCAGAACCAGA
1 ATCAGAATCAGAATCAAA
* *
58995209 ATCAGAATTAGGTAA-CAGA
1 ATCAGAATCA-G-AATCAAA
* *
58995228 ATCAGAATCAGTATCAGGTA
1 ATCAGAATCAGAATCA--AA
*
58995248 A-CAGAATCAGAATCAGA
1 ATCAGAATCAGAATCAAA
58995265 ATCAGAAT
1 ATCAGAAT
58995273 GTGAATGCAA
Statistics
Matches: 137, Mismatches: 22, Indels: 32
0.72 0.12 0.17
Matches are distributed among these distances:
17 7 0.05
18 54 0.39
19 67 0.49
20 9 0.07
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (18 bp):
ATCAGAATCAGAATCAAA
Found at i:58995146 original size:37 final size:37
Alignment explanation
Indices: 58995103--58995272 Score: 166
Period size: 37 Copynumber: 4.4 Consensus size: 37
58995093 TCAAAATGAG
* *
58995103 AATCAGAATTAGAATCAGAATCAGGTGACAGAATCAA
1 AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
* *
58995140 AATCAGAATCAGAATCAGAATTAGGTAACAGAATCAG
1 AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
*
58995177 AATCAGTATCAGGTAA-CAGAATCA-G-AACCAGAATCAGA
1 AATCAGAATCA-G-AATCAGAATCAGGTAA-CAGAATCA-A
* *
58995215 ATTAGGTAACAGAATCAGAATCAGTATCAGGTAACAGAATCAG
1 A--A--T--CAGAATCAGAATCAGAATCAGGTAACAGAATCAA
58995258 AATCAGAATCAGAAT
1 AATCAGAATCAGAAT
58995273 GTGAATGCAA
Statistics
Matches: 110, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
36 2 0.02
37 64 0.58
38 9 0.08
39 3 0.03
40 1 0.01
41 1 0.01
42 3 0.03
43 9 0.08
44 16 0.15
45 2 0.02
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (37 bp):
AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
Found at i:58995171 original size:25 final size:25
Alignment explanation
Indices: 58995143--58995269 Score: 164
Period size: 25 Copynumber: 4.8 Consensus size: 25
58995133 GAATCAAAAT
*
58995143 CAGAATCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
58995168 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
58995193 CAGAATCAGAACCAGAATCAGAATTAGGTAA
1 CAGAAT------CAGAATCAGAATCAGGTAA
*
58995224 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
58995249 CAGAATCAGAATCAGAATCAG
1 CAGAATCAGAATCAGAATCAG
58995270 AATGTGAATG
Statistics
Matches: 89, Mismatches: 7, Indels: 12
0.82 0.06 0.11
Matches are distributed among these distances:
25 66 0.74
31 23 0.26
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Done.