Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 465 of 770
Found at i:143458181 original size:40 final size:40
Alignment explanation
Indices: 143458136--143458302 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
143458126 CGGAATATAA
143458136 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
143458176 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
143458216 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
143458256 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
143458295 CCGGATAT
1 CCGGATAT
143458303 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:143458286 original size:80 final size:79
Alignment explanation
Indices: 143458136--143458302 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
143458126 CGGAATATAA
* *
143458136 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
143458201 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
143458216 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
143458278 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
143458295 CCGGATAT
1 CCGGATAT
143458303 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:143459150 original size:17 final size:19
Alignment explanation
Indices: 143459127--143459172 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
143459117 AAGAAGCATG
143459127 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
143459145 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
143459163 AATCATGCTC
1 AATCATGCTC
143459173 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:143461672 original size:40 final size:39
Alignment explanation
Indices: 143461551--143461704 Score: 209
Period size: 39 Copynumber: 3.9 Consensus size: 39
143461541 TGTGTATGAA
*
143461551 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
143461590 TGTGCAAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
143461629 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
* * * * *
143461669 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGG
143461705 TGTTTGAACA
Statistics
Matches: 103, Mismatches: 11, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 62 0.60
40 41 0.40
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:143461690 original size:79 final size:79
Alignment explanation
Indices: 143461551--143461704 Score: 211
Period size: 79 Copynumber: 1.9 Consensus size: 79
143461541 TGTGTATGAA
* * *
143461551 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGTTGTGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGTTATCATAACCGGGCTAA
143461616 G-CCCGAAGGCAAT
66 GTCCCGAAGGCAAT
* * * **
143461629 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTATCATAACCGGGCTA
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCAAGTTATCATAACCGGGCTA
*
143461694 TGTCCCGAAGG
65 AGTCCCGAAGG
143461705 TGTTTGAACA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
78 25 0.38
79 32 0.49
80 8 0.12
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (79 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGTTATCATAACCGGGCTAA
GTCCCGAAGGCAAT
Found at i:143466688 original size:49 final size:48
Alignment explanation
Indices: 143466617--143466710 Score: 179
Period size: 49 Copynumber: 1.9 Consensus size: 48
143466607 AGTATTAAAT
143466617 AGTGCATTTGTTATTATAAATGAAGAAATACCGAATCTGAACCTAATA
1 AGTGCATTTGTTATTATAAATGAAGAAATACCGAATCTGAACCTAATA
143466665 AGTGCATTTTGTTATTATAAATGAAGAAATACCGAATCTGAACCTA
1 AGTGCA-TTTGTTATTATAAATGAAGAAATACCGAATCTGAACCTA
143466711 GACCAAGGGA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 6 0.13
49 39 0.87
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (48 bp):
AGTGCATTTGTTATTATAAATGAAGAAATACCGAATCTGAACCTAATA
Found at i:143467124 original size:48 final size:47
Alignment explanation
Indices: 143466961--143467227 Score: 139
Period size: 48 Copynumber: 5.6 Consensus size: 47
143466951 TTGTGAACTA
* * * *
143466961 GTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTAT-AAG-AGCTT
1 GTGTAAGACATGTCTGGGACATGCATCGACCTCGA-GATGTAGTAGC-T
* * *
143467007 GTGTAAGACCATGTCTGGGACATGGCATTGACATTGAGATG-AGT-GCT
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGAGATGTAGTAGCT
* **
143467054 AGTGTAAGA-ATTATCTAAGACATGCATCGACCTCGAGATGTAAGTCAG-T
1 -GTGTAAGACA-TGTCTGGGACATGCATCGACCTCGAGATGT-AGT-AGCT
*
143467103 GTGTAAGACATGTCTGGGACATGCATCTG--CTACGAGATGT-GT--CA
1 GTGTAAGACATGTCTGGGACATGCATC-GACCT-CGAGATGTAGTAGCT
* * * *
143467147 GTGTAAGACCATGTCTGGGACACAGCATCAACAC-AGATATGCTAG-AGCTT
1 GTGTAAGA-CATGTCTGGGACA-TGCATCGAC-CTCGAGATG-TAGTAGC-T
*
143467197 GTGTAAGACCATGTCTAGGACATGACATCGA
1 GTGTAAGA-CATGTCTGGGACATG-CATCGA
143467228 TACCTTACCC
Statistics
Matches: 171, Mismatches: 24, Indels: 48
0.70 0.10 0.20
Matches are distributed among these distances:
44 8 0.05
45 13 0.08
46 35 0.20
47 27 0.16
48 55 0.32
49 6 0.04
50 27 0.16
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (47 bp):
GTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATGTAGTAGCT
Found at i:143468305 original size:20 final size:21
Alignment explanation
Indices: 143468267--143468305 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
143468257 GAATTAATTC
*
143468267 CACATGGGCGTGCTGCCCTTA
1 CACACGGGCGTGCTGCCCTTA
143468288 CACACGGGCGTG-TGCCCT
1 CACACGGGCGTGCTGCCCT
143468306 GTTTCAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.13, C:0.36, G:0.31, T:0.21
Consensus pattern (21 bp):
CACACGGGCGTGCTGCCCTTA
Found at i:143470541 original size:45 final size:45
Alignment explanation
Indices: 143470401--143470557 Score: 210
Period size: 45 Copynumber: 3.5 Consensus size: 45
143470391 GCCCCTGATA
* * *
143470401 TGGTCTTACAC-ATAACCACATAGATCGATGCCAATGTCCCAGATG
1 TGGTCTTACACGA-AAACACATATATCGATGCCAATGTCCCAGACG
* * *
143470446 TGGTCTTACACGAAAACAC-TATATTGATGCCAATGTCCTAGACA
1 TGGTCTTACACGAAAACACATATATCGATGCCAATGTCCCAGACG
* * *
143470490 TCGTCTTATACGAAAACACATATATCGATGCCAACGTCCCAGACG
1 TGGTCTTACACGAAAACACATATATCGATGCCAATGTCCCAGACG
143470535 TGGTCTTACACGAAAACACATAT
1 TGGTCTTACACGAAAACACATAT
143470558 TAGAATCTTG
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
44 37 0.39
45 58 0.60
46 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (45 bp):
TGGTCTTACACGAAAACACATATATCGATGCCAATGTCCCAGACG
Found at i:143472409 original size:68 final size:64
Alignment explanation
Indices: 143472286--143472543 Score: 220
Period size: 68 Copynumber: 3.9 Consensus size: 64
143472276 TGGATGATAC
* ** * * *
143472286 AGATAGTATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTA
1 AGATA-TATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTA
143472349 CAAG
63 C--G
* *
143472353 ACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTAC
1 AGA-TAT-ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTAC
143472418 G
64 G
* * * * * * *
143472419 GGATATATGTAGCTAGGTCGTATGCGTGGTTCCAGTGAAGGACACCATGTAGACAAGAGAGCTAC
1 AGATATATGTAGCTAGGTCGCATGGGTGGTACTA-TG-TGTACACCATGTAGACAAGAGAGCTAC
143472484 G
64 G
* * *
143472485 AGATAAAT-TAGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 AGATATATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
143472544 CGAACTATAT
Statistics
Matches: 156, Mismatches: 27, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 24 0.15
65 24 0.15
66 35 0.22
67 4 0.03
68 48 0.31
69 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (64 bp):
AGATATATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACG
Found at i:143476998 original size:22 final size:22
Alignment explanation
Indices: 143476970--143477041 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
143476960 ATGTGTATAT
143476970 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
*
143476992 ATGTGATGAATG-CGAGCAT-G-CA
1 ATGTGAT-AAGGCCGA--ATGGCCA
*
143477014 TGTGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
143477037 ATGTG
1 ATGTG
143477042 GTGAATATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
21 2 0.05
22 20 0.51
23 15 0.38
24 2 0.05
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.22
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:143476999 original size:47 final size:47
Alignment explanation
Indices: 143476945--143477230 Score: 414
Period size: 47 Copynumber: 6.1 Consensus size: 47
143476935 TTAGGATTTT
** *
143476945 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
143476992 ATGTGATGAATGCGAGCATGC--ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
143477037 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
143477084 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
143477131 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
143477178 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
143477225 ATGTGA
1 ATGTGA
143477231 AATATATATA
Statistics
Matches: 212, Mismatches: 25, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
45 40 0.19
47 172 0.81
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:143477186 original size:25 final size:25
Alignment explanation
Indices: 143477111--143477186 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
143477101 ATGCATATAT
143477111 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
143477136 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
143477158 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
143477183 GTGA
1 GTGA
143477187 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:143477218 original size:141 final size:139
Alignment explanation
Indices: 143476944--143477230 Score: 484
Period size: 141 Copynumber: 2.1 Consensus size: 139
143476934 TTTAGGATTT
** *
143476944 TATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGCGAGC
1 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGCGAGC
*
143477009 ATGCATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAGGC
66 ATGCATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAAGC
143477074 CGAATGGCC
131 CGAATGGCC
*
143477083 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGCGAGC
*
143477148 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGGTAAA
66 ATGC--ATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAA
*
143477213 GCCGAATGGTC
129 GCCGAATGGCC
*
143477224 AATGTGA
1 TATGTGA
143477231 AATATATATA
Statistics
Matches: 138, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
139 65 0.47
141 73 0.53
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.27
Consensus pattern (139 bp):
TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGCGAGC
ATGCATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAAGC
CGAATGGCC
Found at i:143477281 original size:94 final size:91
Alignment explanation
Indices: 143476967--143477286 Score: 315
Period size: 94 Copynumber: 3.4 Consensus size: 91
143476957 TGAATGTGTA
* * ** * * *
143476967 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGCGAGCATGC--ATGTGTGATAAGGCCGA
1 TATATGTGGTAAGGCCGAATGGCCTATGTG-TGAATATGAACATGCATATATGTGATAAAGCCGA
* *
143477030 ATGGCCAATGTGGTGAATATGAACATG
65 ATGGCCAATGTGATGAATATGAGCATG
* * *
143477057 CATATATGTGATAAGGCCGAATGGCCTATGTGATGAATGTGAACATGCATATATGTGATAAGGCC
1 --TATATGTGGTAAGGCCGAATGGCCTATGTG-TGAATATGAACATGCATATATGTGATAAAGCC
*
143477122 GAATGGCCAATGTGATGAATGTGAGCATG
63 GAATGGCCAATGTGATGAATATGAGCATG
* * *
143477151 CATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGGTAAAGCC
1 TATATGTG-G-TAAGGCCGAATGGCCTATGT-GTGAATATGAACATGCATATATGTGATAAAGCC
* * *
143477216 GAATGGTCAATGTGAAATATATATATGAGATATG
63 GAATGGCCAATGTG--AT-GA-ATATGAG-CATG
*
143477250 TATATGTGGTAAAGCCGAATGG-CTA-GTGTGAAATATG
1 TATATGTGGTAAGGCCGAATGGCCTATGTGTG-AATATG
143477287 TAGGCGATGT
Statistics
Matches: 197, Mismatches: 20, Indels: 19
0.83 0.08 0.08
Matches are distributed among these distances:
92 50 0.25
94 104 0.53
95 9 0.05
96 4 0.02
97 13 0.07
98 7 0.04
99 10 0.05
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.27
Consensus pattern (91 bp):
TATATGTGGTAAGGCCGAATGGCCTATGTGTGAATATGAACATGCATATATGTGATAAAGCCGAA
TGGCCAATGTGATGAATATGAGCATG
Found at i:143477579 original size:37 final size:37
Alignment explanation
Indices: 143477435--143477578 Score: 209
Period size: 37 Copynumber: 3.9 Consensus size: 37
143477425 GGAAATATAT
* *
143477435 TCCGGGTGAGACCCGATGACTATGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
143477472 T-CGGGTAAGACCCGATGACAACGTGTGGGGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
143477508 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
143477545 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
143477579 TCGTCTGAGC
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
36 31 0.33
37 64 0.67
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:143481958 original size:33 final size:33
Alignment explanation
Indices: 143481921--143481988 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
143481911 TATCAAAACA
143481921 ACCACATAAGTCACATAATAATGCCGAACACTT
1 ACCACATAAGTCACATAATAATGCCGAACACTT
*
143481954 ACCACATAAGTCACATAATAATGCTGAACACTT
1 ACCACATAAGTCACATAATAATGCCGAACACTT
143481987 AC
1 AC
143481989 TTATGCTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.43, C:0.26, G:0.09, T:0.22
Consensus pattern (33 bp):
ACCACATAAGTCACATAATAATGCCGAACACTT
Found at i:143485594 original size:14 final size:14
Alignment explanation
Indices: 143485575--143485601 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
143485565 GAAGTTACAC
143485575 AGGCTTTGGGTATG
1 AGGCTTTGGGTATG
143485589 AGGCTTTGGGTAT
1 AGGCTTTGGGTAT
143485602 AATGTTGGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.07, G:0.41, T:0.37
Consensus pattern (14 bp):
AGGCTTTGGGTATG
Found at i:143487489 original size:40 final size:40
Alignment explanation
Indices: 143487362--143487491 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
143487352 ATGCTGGAAA
* *
143487362 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
143487402 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
143487442 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
143487482 TTATATCCGG
1 TTATATCCGG
143487492 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:143495535 original size:40 final size:40
Alignment explanation
Indices: 143495408--143495537 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
143495398 ATGCTGGAAA
* *
143495408 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
143495448 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
143495488 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
143495528 TTATATCCGG
1 TTATATCCGG
143495538 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:143497848 original size:35 final size:36
Alignment explanation
Indices: 143497792--143497863 Score: 128
Period size: 35 Copynumber: 2.0 Consensus size: 36
143497782 TCCATAAGTA
*
143497792 TGATTTATGCTTATTGTATGGTAGGTAAGATTTGTG
1 TGATTTATGCTTATTGCATGGTAGGTAAGATTTGTG
143497828 TGATTTATGCTTA-TGCATGGTAGGTAAGATTTGTG
1 TGATTTATGCTTATTGCATGGTAGGTAAGATTTGTG
143497863 T
1 T
143497864 TTTGGATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 22 0.63
36 13 0.37
ACGTcount: A:0.22, C:0.04, G:0.28, T:0.46
Consensus pattern (36 bp):
TGATTTATGCTTATTGCATGGTAGGTAAGATTTGTG
Found at i:143498721 original size:40 final size:40
Alignment explanation
Indices: 143498638--143498790 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
143498628 TTGAATGATG
* *
143498638 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
143498678 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
143498718 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
143498759 T-CGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
143498791 CGTTATATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 80 0.85
41 12 0.13
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:143507483 original size:47 final size:48
Alignment explanation
Indices: 143507408--143507550 Score: 209
Period size: 47 Copynumber: 3.0 Consensus size: 48
143507398 GCTTTATCAT
* *
143507408 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
*
143507457 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
* *
143507504 ATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
143507551 GCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
47 45 0.52
48 30 0.34
49 12 0.14
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:143507508 original size:71 final size:72
Alignment explanation
Indices: 143507408--143507549 Score: 216
Period size: 71 Copynumber: 2.0 Consensus size: 72
143507398 GCTTTATCAT
* *
143507408 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAG
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTAGGGCATAAG
143507473 CCCTTTA
66 CCCTTTA
* * *
143507480 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAA
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTAGGGCATAA
143507543 GCCCTTT
65 GCCCTTT
143507550 TGCACTTCCT
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 52 0.81
72 12 0.19
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (72 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTAGGGCATAAG
CCCTTTA
Found at i:143507551 original size:24 final size:24
Alignment explanation
Indices: 143507408--143507550 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
143507398 GCTTTATCAT
*
143507408 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
143507433 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
143507457 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
143507480 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
143507504 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
143507528 ATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
143507551 GCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:143507624 original size:20 final size:20
Alignment explanation
Indices: 143507596--143507666 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
143507586 GCATTTATGA
*
143507596 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
143507616 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
* *
143507636 ATATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
143507656 ACATATCATGT
1 ACATATCATGT
143507667 TTATCAAGAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:143507631 original size:11 final size:11
Alignment explanation
Indices: 143507601--143507655 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
143507591 TATGAACATC
143507601 TCATGTGCATA
1 TCATGTGCATA
*
143507612 TCA--TACATA
1 TCATGTGCATA
143507621 TCATGTGCATA
1 TCATGTGCATA
* *
143507632 TCATAT--ATG
1 TCATGTGCATA
143507641 TCATGTGCATA
1 TCATGTGCATA
143507652 TCAT
1 TCAT
143507656 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:143509311 original size:66 final size:68
Alignment explanation
Indices: 143509235--143509421 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
143509225 TAGTACCACT
*
143509235 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
143509297 CACG
65 CACG
143509301 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
143509366 ATCACG
63 ATCACG
143509372 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
143509422 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:143509346 original size:71 final size:71
Alignment explanation
Indices: 143509258--143509421 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
143509248 CGATTTGTCT
143509258 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
143509323 CTTTCA
66 CTTTCA
143509329 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
143509394 CTTTCA
66 CTTTCA
143509400 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
143509422 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:143509459 original size:71 final size:70
Alignment explanation
Indices: 143509258--143509455 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
143509248 CGATTTGTCT
* * *
143509258 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
143509323 CTTTCA
65 CTTTCA
* * *
143509329 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
143509394 CTTTCA
65 CTTTCA
* *
143509400 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
143509456 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:143516879 original size:66 final size:68
Alignment explanation
Indices: 143516803--143516989 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
143516793 TAGTACCACT
*
143516803 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
143516865 CACG
65 CACG
143516869 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
143516934 ATCACG
63 ATCACG
143516940 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
143516990 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:143516914 original size:71 final size:71
Alignment explanation
Indices: 143516826--143516989 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
143516816 CGATTTGTCT
143516826 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
143516891 CTTTCA
66 CTTTCA
143516897 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
143516962 CTTTCA
66 CTTTCA
143516968 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
143516990 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:143517027 original size:71 final size:70
Alignment explanation
Indices: 143516826--143517023 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
143516816 CGATTTGTCT
* * *
143516826 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
143516891 CTTTCA
65 CTTTCA
* * *
143516897 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
143516962 CTTTCA
65 CTTTCA
* *
143516968 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
143517024 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:143527737 original size:27 final size:26
Alignment explanation
Indices: 143527689--143527748 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
143527679 GCGAGGCTGC
*
143527689 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
143527716 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
143527742 CAGATAT
1 CAGATAT
143527749 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:143527752 original size:2 final size:2
Alignment explanation
Indices: 143527745--143527780 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
143527735 ACCAGAACAG
143527745 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
143527781 GTGGCAAAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:143528950 original size:27 final size:27
Alignment explanation
Indices: 143528851--143528999 Score: 136
Period size: 27 Copynumber: 5.4 Consensus size: 27
143528841 ACCCCGATTT
*
143528851 GTAAAATGATCGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
143528878 ATAAAATGACCGTAATACCCCTATAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
**
143528905 GTAAAATGACTATAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
** * * *
143528932 GTAAAACAACCGTATTACCCCTTCCTTCAAG
1 GTAAAATGACCGTAATACCCC-T--GT-AGG
* * **
143528963 GCAAAATGATCGTAATACCCCTGTATT
1 GTAAAATGACCGTAATACCCCTGTAGG
143528990 GTAAAATGAC
1 GTAAAATGAC
143529000 AATTATGTCG
Statistics
Matches: 94, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
27 72 0.77
28 2 0.02
30 2 0.02
31 18 0.19
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTGTAGG
Found at i:143530972 original size:40 final size:40
Alignment explanation
Indices: 143530917--143531056 Score: 178
Period size: 40 Copynumber: 3.5 Consensus size: 40
143530907 CATTTGAATG
143530917 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* *
143530957 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
143530997 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
143531037 ATAT-C-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
143531057 AAACTTGGGT
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
37 1 0.01
38 12 0.14
39 1 0.01
40 73 0.84
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:143534909 original size:15 final size:15
Alignment explanation
Indices: 143534889--143534919 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
143534879 GGTTAGCTTC
143534889 TTGGGTCATGTGGTA
1 TTGGGTCATGTGGTA
*
143534904 TTGGGTCGTGTGGTA
1 TTGGGTCATGTGGTA
143534919 T
1 T
143534920 CTGCATGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.10, C:0.06, G:0.42, T:0.42
Consensus pattern (15 bp):
TTGGGTCATGTGGTA
Found at i:143538814 original size:40 final size:40
Alignment explanation
Indices: 143538759--143538939 Score: 276
Period size: 40 Copynumber: 4.5 Consensus size: 40
143538749 CATTTGAATG
143538759 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
143538799 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
143538839 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
143538879 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
143538919 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
143538940 AAACTTGGGT
Statistics
Matches: 130, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
38 1 0.01
39 12 0.09
40 117 0.90
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:143540486 original size:33 final size:33
Alignment explanation
Indices: 143540438--143540536 Score: 128
Period size: 33 Copynumber: 3.0 Consensus size: 33
143540428 TTAGGCCCAC
* *
143540438 ACTGCTACTGTATAGGGCTAGGGCCCAGATTGT
1 ACTGATACTGTATAGGGCTAGGGCCCAGACTGT
*
143540471 ACTGATACTGAATAGGGCTTA-GGCCCAGACTGT
1 ACTGATACTGTATAGGGC-TAGGGCCCAGACTGT
* * *
143540504 ATTGATACTGTATAGGGCTTGGGCCCGGACTGT
1 ACTGATACTGTATAGGGCTAGGGCCCAGACTGT
143540537 GTTATTCACT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
32 1 0.02
33 54 0.95
34 2 0.04
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.27
Consensus pattern (33 bp):
ACTGATACTGTATAGGGCTAGGGCCCAGACTGT
Found at i:143542833 original size:12 final size:12
Alignment explanation
Indices: 143542816--143542840 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
143542806 AGTAGTCTCT
143542816 TATTTTGGTTTC
1 TATTTTGGTTTC
143542828 TATTTTGGTTTC
1 TATTTTGGTTTC
143542840 T
1 T
143542841 GGCATTGTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.16, T:0.68
Consensus pattern (12 bp):
TATTTTGGTTTC
Found at i:143545113 original size:27 final size:27
Alignment explanation
Indices: 143545095--143545163 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
143545085 ATAGTGAGTC
143545095 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTATATAATCAGCT
**
143545122 CGCACACTTAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATC-AGCT
*
143545150 CGTACACTTAGTGC
1 CGCACACTTAGTGC
143545164 CAATCTTGTC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 23 0.61
28 15 0.39
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAGCT
Found at i:143545641 original size:2 final size:2
Alignment explanation
Indices: 143545634--143545659 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
143545624 TAATGGCCGA
143545634 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
143545660 GTACAATGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:143552987 original size:28 final size:27
Alignment explanation
Indices: 143552921--143552990 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
143552911 ATAGTGAGTC
*
143552921 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTATATAATCAACT
*
143552948 CGCACACTTAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATC-AACT
143552976 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
143552991 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:143553500 original size:2 final size:2
Alignment explanation
Indices: 143553493--143553524 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
143553483 TAATGGCCGA
143553493 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
143553525 GTACAATGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:143567269 original size:25 final size:25
Alignment explanation
Indices: 143567241--143567288 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
143567231 TAGATATGGT
*
143567241 ATAATAATG-GAAATATAAATATAAG
1 ATAAT-ATGAGAAATAAAAATATAAG
143567266 ATAATATGAGAAATAAAAATATA
1 ATAATATGAGAAATAAAAATATA
143567289 GAAGTGACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.27
Consensus pattern (25 bp):
ATAATATGAGAAATAAAAATATAAG
Found at i:143570695 original size:29 final size:27
Alignment explanation
Indices: 143570661--143570763 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
143570651 TACTCAATCA
*
143570661 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
143570690 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
* *
143570719 CACACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
143570748 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
143570764 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.30, C:0.33, G:0.16, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:143573566 original size:220 final size:220
Alignment explanation
Indices: 143573184--143573650 Score: 765
Period size: 220 Copynumber: 2.1 Consensus size: 220
143573174 TGGTTTCGAC
143573184 AAACACGTGAAAGCCAAATCTGCTATGTCTTCGATCTACTCCTTGTAAACGCAAGGATGCCAAAT
1 AAACACGTGAAAGCCAAATCTGCTATGTCTTCGATCTACTCCTTGTAAACGCAAGGATGCCAAAT
* * *
143573249 CATCTTGGATCTACTTCAATGTGAAAACATCCGAAGGTTAGATCTGTTATGTCTTCGATCTGCTC
66 CATCTTGAATCTACTTCAATGTGAAAACATCCGAAGGTTAGATCTGCTATGTCTTCGATCTGCTA
*
143573314 TCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCA
131 TCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCA
143573379 AATAATCTTAGA-TCTGCTTCAGTGT
196 AATAATCTTAGATTC-GCTTCAGTGT
** *
143573404 AAACACGTGAAAGCCAAATCTGCTATGTCTTCGATCTGTTCCTTGTAAACGCAAGGATGCCCAAT
1 AAACACGTGAAAGCCAAATCTGCTATGTCTTCGATCTACTCCTTGTAAACGCAAGGATGCCAAAT
* *
143573469 CATCTTGAATCTACTTCTATGTGAAAATATCCGAAGGTTAGATCTGCTATGTCTTCGATCTGCTA
66 CATCTTGAATCTACTTCAATGTGAAAACATCCGAAGGTTAGATCTGCTATGTCTTCGATCTGCTA
* **
143573534 TCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGATATGTTA
131 TCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCA
* *
143573599 AATCATCTTGGATTCGCTTCAGTGT
196 AATAATCTTAGATTCGCTTCAGTGT
* * *
143573624 AAACACCTGAAGGTCAAATCTGCTATG
1 AAACACGTGAAAGCCAAATCTGCTATG
143573651 CTTTAGCCTG
Statistics
Matches: 229, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
220 227 0.99
221 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.32
Consensus pattern (220 bp):
AAACACGTGAAAGCCAAATCTGCTATGTCTTCGATCTACTCCTTGTAAACGCAAGGATGCCAAAT
CATCTTGAATCTACTTCAATGTGAAAACATCCGAAGGTTAGATCTGCTATGTCTTCGATCTGCTA
TCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCA
AATAATCTTAGATTCGCTTCAGTGT
Found at i:143575469 original size:49 final size:49
Alignment explanation
Indices: 143575405--143575644 Score: 290
Period size: 49 Copynumber: 4.9 Consensus size: 49
143575395 ACTGTTGCTG
* * *
143575405 TCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTA
1 TCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTA
* **
143575454 TCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCA
1 TCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTA
* * * *
143575504 TCTGATACAC-TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTA
1 TCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTA
* *
143575554 TCAGGT--ACGATAGTAG-CTGCACTTAGTACTACACATGCGACCAATTA
1 TCCGGTACACG-TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTA
* *
143575601 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
143575645 TCACAATAGC
Statistics
Matches: 164, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
47 8 0.05
48 11 0.07
49 122 0.74
50 23 0.14
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
TCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTA
Found at i:143578388 original size:15 final size:15
Alignment explanation
Indices: 143578359--143578397 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
143578349 AACAGAGAAG
143578359 CCAAGAATAAAGAAAT
1 CCAAG-ATAAAGAAAT
143578375 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
143578390 CCATGATA
1 CCAAGATA
143578398 CGAGAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:143581159 original size:49 final size:49
Alignment explanation
Indices: 143581095--143581323 Score: 284
Period size: 49 Copynumber: 4.7 Consensus size: 49
143581085 CTGGTACGCA
*
143581095 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* ** **
143581144 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCAT-CTATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* * * * *
143581193 TAGTAG-CTGCACTTAGTACTACA-ACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACG
* *
143581242 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
*
143581291 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
143581324 TCACAATAGC
Statistics
Matches: 152, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
47 8 0.05
48 20 0.13
49 96 0.63
50 24 0.16
51 4 0.03
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:143582206 original size:14 final size:14
Alignment explanation
Indices: 143582187--143582216 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
143582177 TAAAACCGAG
143582187 TAGCACAAGTTGTC
1 TAGCACAAGTTGTC
143582201 TAGCACAAGTTGTC
1 TAGCACAAGTTGTC
143582215 TA
1 TA
143582217 ACATAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (14 bp):
TAGCACAAGTTGTC
Found at i:143585606 original size:39 final size:39
Alignment explanation
Indices: 143585552--143585667 Score: 196
Period size: 39 Copynumber: 2.9 Consensus size: 39
143585542 TGTGAATGAA
*
143585552 TGTGCGAATTGTGATATCCAGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
143585591 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
143585630 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCA
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCA
143585668 TTTGAGCGGG
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 63 0.86
40 10 0.14
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:143596757 original size:17 final size:17
Alignment explanation
Indices: 143596735--143596767 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
143596725 GATATGATAC
143596735 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
143596752 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
143596768 AATCCGAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:143596768 original size:18 final size:17
Alignment explanation
Indices: 143596735--143596768 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
143596725 GATATGATAC
*
143596735 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
143596752 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
143596769 ATCCGAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:143597067 original size:23 final size:22
Alignment explanation
Indices: 143597024--143597081 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
143597014 AAAAGGTATC
* *
143597024 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
143597045 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
143597068 TGCATATCATATCT
1 TACAAATCATATCT
143597082 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:143597084 original size:19 final size:19
Alignment explanation
Indices: 143597060--143597150 Score: 134
Period size: 19 Copynumber: 4.9 Consensus size: 19
143597050 AATCATATCT
143597060 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
143597079 TCTAAGATTGCA-AGCATA
1 TCTAAGATTGCATATCATA
*
143597097 TCTAAGAGTG--TATCATA
1 TCTAAGATTGCATATCATA
143597114 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
143597133 TTTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
143597151 TGAAGATTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
17 14 0.22
18 14 0.22
19 36 0.56
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:143597113 original size:35 final size:36
Alignment explanation
Indices: 143597072--143597139 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 36
143597062 TAAGATTGCA
143597072 TATCATATCTAAGATTGCA-AGCATATCTAAGAGTG
1 TATCATATCTAAGATTGCATAGCATATCTAAGAGTG
* *
143597107 TATCATATCTAAGATTGCATATCATATTTAAGA
1 TATCATATCTAAGATTGCATAGCATATCTAAGA
143597140 TTGCATATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 19 0.63
36 11 0.37
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (36 bp):
TATCATATCTAAGATTGCATAGCATATCTAAGAGTG
Found at i:143597158 original size:17 final size:18
Alignment explanation
Indices: 143597117--143597158 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
143597107 TATCATATCT
*
143597117 AAGATTGCATATCATATTT
1 AAGATTGCATATCA-ATTG
143597136 AAGATTGCATATC-ATTG
1 AAGATTGCATATCAATTG
143597153 AAGATT
1 AAGATT
143597159 ATATTTCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.41
19 13 0.59
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (18 bp):
AAGATTGCATATCAATTG
Found at i:143597307 original size:21 final size:20
Alignment explanation
Indices: 143597269--143597308 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
143597259 TTGGACTTTG
**
143597269 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
143597289 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
143597309 TCTGGGCCCG
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:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:143599789 original size:40 final size:40
Alignment explanation
Indices: 143599681--143599850 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
143599671 CGGGATTTAA
* * * * *
143599681 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
143599721 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
143599761 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
143599801 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
143599841 CCGGATATAT
1 CCGGATATAT
143599851 TTTCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:143607883 original size:40 final size:40
Alignment explanation
Indices: 143607775--143607984 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
143607765 CGGGATTTAA
* * * * *
143607775 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
143607815 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
143607855 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
143607895 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
143607935 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
143607975 CCGGATATAT
1 CCGGATATAT
143607985 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:143610095 original size:50 final size:48
Alignment explanation
Indices: 143609969--143610116 Score: 230
Period size: 47 Copynumber: 3.1 Consensus size: 48
143609959 CCCTTCGGGA
* *
143609969 CTTATCACATT-TATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
143610016 CTTATCAC--TATATACACCTTCACATTCATCACATCGGGCCATTAGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATC-GGCCATTAGGC
143610063 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
143610112 CTTAT
1 CTTAT
143610117 GTAACACCCC
Statistics
Matches: 92, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
45 1 0.01
46 23 0.25
47 26 0.28
49 16 0.17
50 26 0.28
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (48 bp):
CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:143611637 original size:80 final size:80
Alignment explanation
Indices: 143611553--143611701 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
143611543 TATGGTAACC
* * * *
143611553 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
143611617 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
143611633 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
143611698 CCGG
66 CCGG
143611702 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:143611643 original size:40 final size:38
Alignment explanation
Indices: 143611594--143611701 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
143611584 ATCACGATTT
*
143611594 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
143611634 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
143611674 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
143611702 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:143619750 original size:80 final size:80
Alignment explanation
Indices: 143619666--143619814 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
143619656 TATGGTAACC
* * * *
143619666 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
143619730 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
143619746 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
143619811 CCGG
66 CCGG
143619815 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:143619756 original size:40 final size:38
Alignment explanation
Indices: 143619707--143619814 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
143619697 ATCACGATTT
*
143619707 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
143619747 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
143619787 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
143619815 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:143627866 original size:80 final size:80
Alignment explanation
Indices: 143627782--143627930 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
143627772 TATGGTAACC
* * * *
143627782 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
143627846 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
143627862 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
143627927 CCGG
66 CCGG
143627931 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:143627872 original size:40 final size:38
Alignment explanation
Indices: 143627823--143627930 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
143627813 ATCACGATTT
*
143627823 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
143627863 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
143627903 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
143627931 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:143629727 original size:47 final size:47
Alignment explanation
Indices: 143629647--143629776 Score: 206
Period size: 49 Copynumber: 2.7 Consensus size: 47
143629637 GGCTGTCACA
*
143629647 CCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTCGG
1 CCTTATCACATATATACAC-C-TTCACATTCATCACATCGGCCATTAGG
143629696 CCTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGG
1 CCTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGG
*
143629743 CCTTATCACATATATATACACTTTCACATTCATC
1 CCTTATCAC--ATATATACACCTTCACATTCATC
143629777 GCGTAAAATC
Statistics
Matches: 77, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
47 35 0.45
48 1 0.01
49 41 0.53
ACGTcount: A:0.30, C:0.32, G:0.06, T:0.32
Consensus pattern (47 bp):
CCTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGG
Found at i:143629758 original size:49 final size:49
Alignment explanation
Indices: 143629647--143629776 Score: 219
Period size: 47 Copynumber: 2.7 Consensus size: 49
143629637 GGCTGTCACA
* *
143629647 CCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTCGG
1 CCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG
*
143629696 CCTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGG
1 CCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG
143629743 CCTTATCACATATATATACACTTTCACATTCATC
1 CCTTATCACATATATATACACTTTCACATTCATC
143629777 GCGTAAAATC
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
47 44 0.59
49 31 0.41
ACGTcount: A:0.30, C:0.32, G:0.06, T:0.32
Consensus pattern (49 bp):
CCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG
Found at i:143633731 original size:43 final size:43
Alignment explanation
Indices: 143633394--143633724 Score: 599
Period size: 43 Copynumber: 7.7 Consensus size: 43
143633384 CACTGGCATT
* *
143633394 AAGCCTGCTAGGCACGAAGACCCGAATACATATCACCGGTACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
*
143633437 AAGCCTGCTAGGCTCGAAGGCCCGAATACATATCACCGGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
*
143633480 AAGCCTGCTAGGCTCGAAGGCCCGAATACATATCACCGGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
143633523 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
*
143633566 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACTGGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
*
143633609 AAGCCTGCTAGGCTCGAAGGCCCGAATACATATCACCGGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
143633652 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
*
143633695 AAGCCTGCTAGGCACGAAGGCCTGAATACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACA
143633725 CGTCACCAGC
Statistics
Matches: 279, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 279 1.00
ACGTcount: A:0.32, C:0.31, G:0.23, T:0.13
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
Found at i:143633873 original size:42 final size:40
Alignment explanation
Indices: 143633728--143633885 Score: 163
Period size: 40 Copynumber: 3.9 Consensus size: 40
143633718 GAATACACGT
* * * * * * *
143633728 CACCAGCATGACTGCTCTTCGGGACCTGGTCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * *
143633768 CACTAGCATGAATGCTCTTCGGGATTTAGCCCGGATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
143633808 CACCAGCACGAATGCTCTACGGGACTTAACCCGGATATATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA-A
* *
143633849 TCGCCAGTACGAATGCTCTTCGGGACTTAGCCCGGAT
1 -CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
143633886 CATCGTCGAG
Statistics
Matches: 97, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
40 64 0.66
41 1 0.01
42 32 0.33
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:143640242 original size:96 final size:96
Alignment explanation
Indices: 143640119--143640390 Score: 426
Period size: 96 Copynumber: 2.8 Consensus size: 96
143640109 CCCTTCGGGA
* *
143640119 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
143640182 ACCTTCACATTCATCACATCGGCCATTAGGC
66 ACCTTCACATTCATCACATCGGCCATTAGGC
*
143640213 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
143640278 ACACTTTCACATTCATCACATCGGCCATTCGGC
66 AC-C-TTCACATTCATCACATCGGCCATTAGGC
*
143640311 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
*
143640374 ACACTTTCACATTCATC
64 ACACCTTCACATTCATC
143640391 GCGTAAAATC
Statistics
Matches: 165, Mismatches: 7, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
94 10 0.06
95 1 0.01
96 109 0.66
97 1 0.01
98 44 0.27
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACCTTCACATTCATCACATCGGCCATTAGGC
Found at i:143640246 original size:49 final size:49
Alignment explanation
Indices: 143640119--143640390 Score: 439
Period size: 49 Copynumber: 5.7 Consensus size: 49
143640109 CCCTTCGGGA
* *
143640119 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
143640166 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
143640213 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
143640262 CTTATCACATATACACACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
143640311 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
143640358 CTTATCACATATATATACACTTTCACATTCATC
1 CTTATCACATATATATACACTTTCACATTCATC
143640391 GCGTAAAATC
Statistics
Matches: 207, Mismatches: 12, Indels: 10
0.90 0.05 0.04
Matches are distributed among these distances:
46 1 0.00
47 92 0.44
49 114 0.55
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:143644343 original size:43 final size:43
Alignment explanation
Indices: 143644006--143644336 Score: 599
Period size: 43 Copynumber: 7.7 Consensus size: 43
143643996 CACTGGCATT
* *
143644006 AAGCCTGCTAGGCACGAAGACCCGAATACATATCACCGGTACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
*
143644049 AAGCCTGCTAGGCTCGAAGGCCCGAATACATATCACCGGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
*
143644092 AAGCCTGCTAGGCTCGAAGGCCCGAATACATATCACCGGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
143644135 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
*
143644178 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACTGGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
*
143644221 AAGCCTGCTAGGCTCGAAGGCCCGAATACATATCACCGGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
143644264 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
*
143644307 AAGCCTGCTAGGCACGAAGGCCTGAATACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACA
143644337 CGTCACCAGC
Statistics
Matches: 279, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 279 1.00
ACGTcount: A:0.32, C:0.31, G:0.23, T:0.13
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
Found at i:143644485 original size:42 final size:40
Alignment explanation
Indices: 143644340--143644497 Score: 163
Period size: 40 Copynumber: 3.9 Consensus size: 40
143644330 GAATACACGT
* * * * * * *
143644340 CACCAGCATGACTGCTCTTCGGGACCTGGTCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * *
143644380 CACTAGCATGAATGCTCTTCGGGATTTAGCCCGGATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
143644420 CACCAGCACGAATGCTCTACGGGACTTAACCCGGATATATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA-A
* *
143644461 TCGCCAGTACGAATGCTCTTCGGGACTTAGCCCGGAT
1 -CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
143644498 CATCGTCGAG
Statistics
Matches: 97, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
40 64 0.66
41 1 0.01
42 32 0.33
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:143650857 original size:96 final size:96
Alignment explanation
Indices: 143650734--143651054 Score: 565
Period size: 96 Copynumber: 3.3 Consensus size: 96
143650724 CCCTTCGGGA
* *
143650734 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
143650797 ACCTTCACATTCATCACATCGGCCATTAGGC
66 ACCTTCACATTCATCACATCGGCCATTAGGC
143650828 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
*
143650893 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACCTTCACATTCATCACATCGGCCATTAGGC
* *
143650926 CTTATCACATATACACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
143650991 ACCTTCACATTCATCACATCGGCCATTAGGC
66 ACCTTCACATTCATCACATCGGCCATTAGGC
143651022 CTTATCACATATATATACACTTTCACATTCATC
1 CTTATCACATATATATACACTTTCACATTCATC
143651055 GCGTAAAATC
Statistics
Matches: 215, Mismatches: 8, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
94 10 0.05
95 1 0.00
96 111 0.52
98 93 0.43
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACCTTCACATTCATCACATCGGCCATTAGGC
Found at i:143650861 original size:49 final size:49
Alignment explanation
Indices: 143650734--143651054 Score: 546
Period size: 49 Copynumber: 6.7 Consensus size: 49
143650724 CCCTTCGGGA
* *
143650734 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
143650781 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
143650828 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
143650877 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
143650926 CTTATCACATATACACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
143650975 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
143651022 CTTATCACATATATATACACTTTCACATTCATC
1 CTTATCACATATATATACACTTTCACATTCATC
143651055 GCGTAAAATC
Statistics
Matches: 258, Mismatches: 10, Indels: 10
0.93 0.04 0.04
Matches are distributed among these distances:
46 1 0.00
47 93 0.36
49 164 0.64
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:143650998 original size:145 final size:144
Alignment explanation
Indices: 143650734--143651054 Score: 558
Period size: 145 Copynumber: 2.2 Consensus size: 144
143650724 CCCTTCGGGA
* * *
143650734 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACAC
*
143650797 ACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACCTTCACATTCATCA
143650862 CATCGGCCATTAGGC
130 CATCGGCCATTAGGC
143650877 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACAC
143650942 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACCTTCACATTCATC
66 AC-C-TTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACCTTCACATTCATC
143651006 ACATCGGCCATTAGGC
129 ACATCGGCCATTAGGC
143651022 CTTATCACATATATATACACTTTCACATTCATC
1 CTTATCACATATATATACACTTTCACATTCATC
143651055 GCGTAAAATC
Statistics
Matches: 170, Mismatches: 4, Indels: 6
0.94 0.02 0.03
Matches are distributed among these distances:
143 10 0.06
144 1 0.01
145 122 0.72
146 1 0.01
147 36 0.21
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.32
Consensus pattern (144 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACAC
ACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACCTTCACATTCATCAC
ATCGGCCATTAGGC
Found at i:143653199 original size:39 final size:39
Alignment explanation
Indices: 143653118--143653358 Score: 428
Period size: 39 Copynumber: 6.2 Consensus size: 39
143653108 TATGGTAACC
* * *
143653118 CGCACAAATGCCTTCGGGACTTAACCTGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
143653158 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
143653197 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
143653236 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
143653275 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
143653314 AGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
143653353 CGCACA
1 CGCACA
143653359 TTCATACACA
Statistics
Matches: 195, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
39 178 0.91
40 17 0.09
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:143661166 original size:40 final size:40
Alignment explanation
Indices: 143661102--143661212 Score: 116
Period size: 40 Copynumber: 2.8 Consensus size: 40
143661092 GCTACTCGTT
* * * * ***
143661102 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATCACAACCCGCA
*
143661142 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATCACAACCCGCA
* *
143661182 CAATTGCCTTCGGG-CTTAGCCGCGGATATCA
1 CAAATGCCTTCGGGACTTAACC-CGGATATCA
143661213 TCGCACTTGC
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 6 0.10
40 54 0.90
ACGTcount: A:0.25, C:0.32, G:0.23, T:0.21
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATATCACAACCCGCA
Found at i:143661270 original size:36 final size:37
Alignment explanation
Indices: 143661223--143661315 Score: 170
Period size: 38 Copynumber: 2.5 Consensus size: 37
143661213 TCGCACTTGC
143661223 CTTAGCCCGGATATCACAA-GCACAATTGCCTTCGGG
1 CTTAGCCCGGATATCACAACGCACAATTGCCTTCGGG
143661259 CTTAGCCCGGATATCACAACTGCACAATTGCCTTCGGG
1 CTTAGCCCGGATATCACAAC-GCACAATTGCCTTCGGG
143661297 CTTAGCCCGGATATCACAA
1 CTTAGCCCGGATATCACAA
143661316 TTCGCACATT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
36 19 0.35
38 36 0.65
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (37 bp):
CTTAGCCCGGATATCACAACGCACAATTGCCTTCGGG
Found at i:143663948 original size:40 final size:37
Alignment explanation
Indices: 143663843--143663950 Score: 137
Period size: 37 Copynumber: 2.8 Consensus size: 37
143663833 TATCACGATT
143663843 TGCACAAATGCCTTCGGGTCTTAGCCCGGA-TAGAAAC
1 TGCAC-AATGCCTTCGGGTCTTAGCCCGGATTAGAAAC
**
143663880 TGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCAC
1 TGCAC-AATGCCTTCGGGTCTTAGCCCGGAT-TAGAAAC
*
143663919 TAGCACAATTGCCTTCGGGTCTTAACCCGGAT
1 T-GCACAA-TGCCTTCGGGTCTTAGCCCGGAT
143663951 ATAATTTCCA
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
37 29 0.46
39 8 0.13
40 26 0.41
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (37 bp):
TGCACAATGCCTTCGGGTCTTAGCCCGGATTAGAAAC
Found at i:143663969 original size:40 final size:40
Alignment explanation
Indices: 143663844--143663992 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 40
143663834 ATCACGATTT
* * *
143663844 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAA--A-CT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCACCA
* * *
143663881 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACCACCA
* ***
143663921 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCACCA
* * *
143663961 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
143663993 CATTCAATTT
Statistics
Matches: 91, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
37 28 0.31
38 2 0.02
39 3 0.03
40 58 0.64
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCACCA
Found at i:143669941 original size:40 final size:39
Alignment explanation
Indices: 143669896--143670025 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
143669886 CGGAATATAA
143669896 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
143669936 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
143669976 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
143670016 CCGGATATAA
1 CCGGATATAA
143670026 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:143670040 original size:40 final size:40
Alignment explanation
Indices: 143669912--143670063 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
143669902 ATAACCATGT
* * *
143669912 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
143669952 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
143669992 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
143670032 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
143670064 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:143670046 original size:80 final size:80
Alignment explanation
Indices: 143669912--143670061 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
143669902 ATAACCATGT
*
143669912 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
143669976 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
143669992 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
143670055 CCCGGAT
64 CCCGGAT
143670062 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:143674283 original size:93 final size:93
Alignment explanation
Indices: 143674171--143674342 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
143674161 CGCCCATAAG
* *
143674171 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
143674236 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
143674264 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
143674329 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
143674343 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:143674339 original size:46 final size:46
Alignment explanation
Indices: 143674164--143674339 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
143674154 TGTAACCCGC
* * *
143674164 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
143674210 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
143674260 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
143674303 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
143674340 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:143681889 original size:40 final size:40
Alignment explanation
Indices: 143681834--143682050 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
143681824 TGGATGATAA
* * *
143681834 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* *
143681874 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
143681914 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
143681954 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
143681994 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
143682033 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
143682051 TACTTGGCTT
Statistics
Matches: 161, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
38 15 0.09
39 15 0.09
40 131 0.81
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:143684892 original size:27 final size:31
Alignment explanation
Indices: 143684839--143684901 Score: 98
Period size: 27 Copynumber: 2.2 Consensus size: 31
143684829 AGCCAAACTA
143684839 AACTTCATACAATGAGAACTTAACAATCAAC
1 AACTTCATACAATGAGAACTTAACAATCAAC
143684870 AACTT-ATACAATG-G-A-TTAACAATCAAC
1 AACTTCATACAATGAGAACTTAACAATCAAC
143684897 AACTT
1 AACTT
143684902 GGATTTGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
27 17 0.53
28 1 0.03
29 1 0.03
30 8 0.25
31 5 0.16
ACGTcount: A:0.48, C:0.21, G:0.06, T:0.25
Consensus pattern (31 bp):
AACTTCATACAATGAGAACTTAACAATCAAC
Found at i:143685818 original size:16 final size:17
Alignment explanation
Indices: 143685797--143685829 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
143685787 TAAGCAATAG
143685797 TTAACA-ATACAGATCA
1 TTAACACATACAGATCA
143685813 TTAACATCATACAGATC
1 TTAACA-CATACAGATC
143685830 TTATTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.45, C:0.21, G:0.06, T:0.27
Consensus pattern (17 bp):
TTAACACATACAGATCA
Found at i:143688576 original size:53 final size:54
Alignment explanation
Indices: 143688508--143688707 Score: 224
Period size: 53 Copynumber: 3.7 Consensus size: 54
143688498 TTTCCTTTTT
* * * *
143688508 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* *
143688561 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATA
* * * * * *
143688615 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCATATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * *
143688670 GAACTTATCAATGCCATGCCTCGGCATGGTCTTACATG
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATG
143688708 AAATCCTTAT
Statistics
Matches: 125, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.02
53 44 0.35
54 34 0.27
55 44 0.35
56 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:143688644 original size:55 final size:55
Alignment explanation
Indices: 143688519--143688707 Score: 217
Period size: 55 Copynumber: 3.5 Consensus size: 55
143688509 AACTTACCAT
* * * *
143688519 TGCCATGTCTTGACATGGTCTTACGTGGTATCC-TTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGGATCCTTTGCCTTATAGAACTCATCAA
*
143688572 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGGATCCTTTGCCTTATAG-AACTCATCAA
* ** * *
143688627 TGCCATGTCTTGACATGGTCTTACAT--GATTTTCTTGCCATATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGGATCCT-TTGCCTTATAGAACTCATCAA
* *
143688681 TGCCATGCCTCGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
143688708 AAATCCTTAT
Statistics
Matches: 116, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
52 2 0.02
53 37 0.32
54 34 0.29
55 43 0.37
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (55 bp):
TGCCATGCCTTGACATGGTCTTACATGGGATCCTTTGCCTTATAGAACTCATCAA
Found at i:143688761 original size:47 final size:47
Alignment explanation
Indices: 143688694--143688815 Score: 190
Period size: 47 Copynumber: 2.6 Consensus size: 47
143688684 CATGCCTCGG
* ** *
143688694 CATGGTCTTACATGAAATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGATCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
143688741 CATGATCTTACGTGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGATCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
143688788 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGATCTTACATGGTATCCTTGTCTTA
143688816 GTGCCAATGC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (47 bp):
CATGATCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:143689019 original size:44 final size:44
Alignment explanation
Indices: 143688952--143689036 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
143688942 ATCCTTAACT
* * *
143688952 ATCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCC
1 ATCAATTCCTCCTTAAATACCATGGTA-CAACCATGGACTTTTCC
* *
143688996 ATCAATTCTTCCTTAATTACCATGGTACAACCATGGACTTT
1 ATCAATTCCTCCTTAAATACCATGGTACAACCATGGACTTT
143689037 GAGATATCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (44 bp):
ATCAATTCCTCCTTAAATACCATGGTACAACCATGGACTTTTCC
Found at i:143692051 original size:50 final size:51
Alignment explanation
Indices: 143691957--143692093 Score: 138
Period size: 50 Copynumber: 2.7 Consensus size: 51
143691947 ATGTGTCAGT
* * *
143691957 GTAAGACCATGTCTGGGACATTGCATCGG-TACGA-AAAGAGGAGAGCCGGA
1 GTAAGACCATGTCTGGGACATAGCATCGGCT-CGATATAGAGGAGAGCCAGA
* * *
143692007 GTAAGACCATGTCTGGGATATAGCATCGGCCTCGATATA-A-GAGAGTCAGT
1 GTAAGACCATGTCTGGGACATAGCATCGG-CTCGATATAGAGGAGAGCCAGA
* * * *
143692057 GTAAGATCATGTCTGAGACATGGCATCGACTCGATAT
1 GTAAGACCATGTCTGGGACATAGCATCGGCTCGATAT
143692094 GTGATTAAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
49 8 0.11
50 58 0.79
51 4 0.05
52 3 0.04
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.22
Consensus pattern (51 bp):
GTAAGACCATGTCTGGGACATAGCATCGGCTCGATATAGAGGAGAGCCAGA
Found at i:143692193 original size:43 final size:43
Alignment explanation
Indices: 143692087--143692199 Score: 113
Period size: 43 Copynumber: 2.6 Consensus size: 43
143692077 TGGCATCGAC
* *
143692087 TCGATATGTGATTAA-ATGTAAGACCATGTCTAGGACATTGGCA
1 TCGATATGTGA-TAACATGTAAGACCATGTATAGGACAGTGGCA
* * ** * * *
143692130 TTG-TATTTTGATTTCGTGTAAGACCTTGTATGGGACAGTGGCA
1 TCGATA-TGTGATAACATGTAAGACCATGTATAGGACAGTGGCA
143692173 TCGATATGTGATAACATGTAAGACCAT
1 TCGATATGTGATAACATGTAAGACCAT
143692200 ATCTAGGATA
Statistics
Matches: 52, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
42 3 0.06
43 47 0.90
44 2 0.04
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (43 bp):
TCGATATGTGATAACATGTAAGACCATGTATAGGACAGTGGCA
Found at i:143694925 original size:24 final size:24
Alignment explanation
Indices: 143694893--143694939 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
143694883 CTGTCAGGAG
**
143694893 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCAGATAAGGGAT
143694917 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGCAGATAAGGGA
143694940 GGAAATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.38, T:0.23
Consensus pattern (24 bp):
AGGATTTAGGAGCAGATAAGGGAT
Found at i:143696381 original size:27 final size:27
Alignment explanation
Indices: 143696350--143696458 Score: 132
Period size: 27 Copynumber: 4.0 Consensus size: 27
143696340 AAGCATCCTA
*
143696350 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCACAATTATCTGATCTG
*
143696377 GTGGCTCTGCCACATATT-TCTGTTCTG
1 GTGGCTCTGCCACA-ATTATCTGATCTG
*
143696404 GTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCACAATTATCTG-ATCTG
* * *
143696432 GTGACTCTGTCAC-ATTATCTGTTCTG
1 GTGGCTCTGCCACAATTATCTGATCTG
143696458 G
1 G
143696459 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 46 0.64
28 18 0.25
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
GTGGCTCTGCCACAATTATCTGATCTG
Found at i:143696415 original size:54 final size:54
Alignment explanation
Indices: 143696350--143696458 Score: 157
Period size: 54 Copynumber: 2.0 Consensus size: 54
143696340 AAGCATCCTA
* *
143696350 GTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATTTCTGTTCTG
1 GTGGCTATGCCACAATTATCTGTATCTGGTGACTCTGCCACAT-TATCTGTTCTG
* * *
143696404 GTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTATGCCACAATTATCTGTATCTGGTGACTCTGCCACATTATCTGTTCTG
143696458 G
1 G
143696459 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
54 31 0.63
55 18 0.37
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
GTGGCTATGCCACAATTATCTGTATCTGGTGACTCTGCCACATTATCTGTTCTG
Found at i:143698289 original size:6 final size:6
Alignment explanation
Indices: 143698278--143698302 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
143698268 GGTAGGGGCA
143698278 GAAATG GAAATG GAAATG GAAATG G
1 GAAATG GAAATG GAAATG GAAATG G
143698303 TCGAGGTCGA
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:0.48, C:0.00, G:0.36, T:0.16
Consensus pattern (6 bp):
GAAATG
Found at i:143700446 original size:69 final size:70
Alignment explanation
Indices: 143700314--143700446 Score: 223
Period size: 69 Copynumber: 1.9 Consensus size: 70
143700304 TAGTTTATTA
* * * *
143700314 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTA
143700379 CTTAG
66 CTTAG
143700384 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
143700447 GTTATGTGCT
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
69 36 0.61
70 23 0.39
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:143701820 original size:47 final size:47
Alignment explanation
Indices: 143701769--143702063 Score: 464
Period size: 47 Copynumber: 6.3 Consensus size: 47
143701759 ACAAGATATG
*
143701769 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAATATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
* *
143701816 TATATGTGATAAGGCCGAGTGGCCAATATGATGAATGTGAAAGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
*
143701863 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAATATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
* * *
143701910 TATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGGAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
*
143701957 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
* * * * *
143702004 TATATGAGATAAGACCTAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
*
143702051 TAAATGTGATAAG
1 TATATGTGATAAG
143702064 TCCCGAAGGG
Statistics
Matches: 230, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 230 1.00
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
Found at i:143701941 original size:22 final size:22
Alignment explanation
Indices: 143701913--143701988 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
143701903 AAATATATAT
143701913 ATGTGATAAGGCCGAGTGGCCA
1 ATGTGATAAGGCCGAGTGGCCA
* ** ***
143701935 ATGTGATGAATGTGGAAGTGTATA
1 ATGTGAT-AAGGCCG-AGTGGCCA
*
143701959 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAGTGGCCA
143701982 ATGTGAT
1 ATGTGAT
143701989 GAATGTGAAA
Statistics
Matches: 38, Mismatches: 13, Indels: 6
0.67 0.23 0.11
Matches are distributed among these distances:
22 14 0.37
23 8 0.21
24 9 0.24
25 7 0.18
ACGTcount: A:0.30, C:0.11, G:0.33, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAGTGGCCA
Found at i:143705267 original size:55 final size:55
Alignment explanation
Indices: 143705200--143705310 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 55
143705190 CCATCGAAGA
*
143705200 AAGACTCGGTATGGGTGATTGTGGATAGGTTGACCAAATCAGCCCATTTCATACT
1 AAGACTCAGTATGGGTGATTGTGGATAGGTTGACCAAATCAGCCCATTTCATACT
*
143705255 AAGACTCAGTATGGGTGATTGTGGATAGGTTGACCAAATCGGCCCATTTCATACT
1 AAGACTCAGTATGGGTGATTGTGGATAGGTTGACCAAATCAGCCCATTTCATACT
143705310 A
1 A
143705311 GTACGTATTG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (55 bp):
AAGACTCAGTATGGGTGATTGTGGATAGGTTGACCAAATCAGCCCATTTCATACT
Found at i:143706712 original size:24 final size:24
Alignment explanation
Indices: 143706680--143706726 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
143706670 CTGTCAGGAG
**
143706680 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCAGATAAGGGAT
143706704 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGCAGATAAGGGA
143706727 GGAAATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.38, T:0.23
Consensus pattern (24 bp):
AGGATTTAGGAGCAGATAAGGGAT
Found at i:143708239 original size:27 final size:26
Alignment explanation
Indices: 143708134--143708245 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
143708124 AGGAAGTGTC
* **
143708134 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
143708161 CTGGTGGCTCTACCACATATTTCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
143708188 CTCGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
143708216 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
143708242 CTGG
1 CTGG
143708246 CAGTCATGCT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 7 0.10
27 48 0.68
28 16 0.23
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:143708240 original size:54 final size:54
Alignment explanation
Indices: 143708137--143708243 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
143708127 AAGTGTCCTG
* *
143708137 GTGGCTATGCCACAATTATCTAATCTGGTGGCTCTACCACATATTTCTGTTCTC
1 GTGGCTATGCCACAATTATCTAATCTGGTGACTCTACCACATATATCTGTTCTC
* * * **
143708191 GTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTCT
1 GTGGCTATGCCACAATTATCT-AATCTGGTGACTCTACCACATATATCTGTTCT
143708244 GGCAGTCATG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
54 28 0.62
55 17 0.38
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.38
Consensus pattern (54 bp):
GTGGCTATGCCACAATTATCTAATCTGGTGACTCTACCACATATATCTGTTCTC
Found at i:143713114 original size:18 final size:18
Alignment explanation
Indices: 143713080--143713152 Score: 60
Period size: 18 Copynumber: 4.0 Consensus size: 18
143713070 CACTTCTTCC
*
143713080 TTTCTTTTTCTCGTTTTCT
1 TTTCTTTTT-TCTTTTTCT
143713099 TTTCTTTTTTCTTTTTC-
1 TTTCTTTTTTCTTTTTCT
** *
143713116 AATCTTTTTTTCTTGTTCT
1 TTTC-TTTTTTCTTTTTCT
*
143713135 TTT-TCTTTTGCTTTTTCT
1 TTTCT-TTTTTCTTTTTCT
143713153 ACAGATTCTT
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
17 3 0.07
18 30 0.70
19 10 0.23
ACGTcount: A:0.03, C:0.18, G:0.04, T:0.75
Consensus pattern (18 bp):
TTTCTTTTTTCTTTTTCT
Found at i:143713122 original size:36 final size:36
Alignment explanation
Indices: 143713082--143713151 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
143713072 CTTCTTCCTT
*
143713082 TCTTTTTCTCGTT-TTC-TTTTCTTTTTTCTTTTTCAA
1 TCTTTTTCTC-TTGTTCTTTTTC-TTTTGCTTTTTCAA
*
143713118 TCTTTTTTTCTTGTTCTTTTTCTTTTGCTTTTTC
1 TCTTTTTCTCTTGTTCTTTTTCTTTTGCTTTTTC
143713152 TACAGATTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 2 0.07
36 23 0.77
37 5 0.17
ACGTcount: A:0.03, C:0.19, G:0.04, T:0.74
Consensus pattern (36 bp):
TCTTTTTCTCTTGTTCTTTTTCTTTTGCTTTTTCAA
Found at i:143720968 original size:20 final size:21
Alignment explanation
Indices: 143720902--143720970 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
143720892 TCACTTCGTT
143720902 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
143720923 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
* * *
143720944 TCTTTTTGTCTAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
143720965 -CTTTTT
1 TCTTTTT
143720971 TCTTTGTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.12, C:0.25, G:0.09, T:0.55
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:143723369 original size:18 final size:18
Alignment explanation
Indices: 143723336--143723429 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
143723326 AAGGTTTTCT
143723336 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
143723351 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
*
143723369 TATTGATGCTAGTGACGA
1 TATTGATGATAGTGACGA
* *
143723387 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
*
143723405 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACGA
143723423 TATTGAT
1 TATTGAT
143723430 CGTGACCTTG
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:143731697 original size:14 final size:14
Alignment explanation
Indices: 143731678--143731705 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
143731668 TATATTAGTA
143731678 TTTTCTATTCTATT
1 TTTTCTATTCTATT
143731692 TTTTCTATTCTATT
1 TTTTCTATTCTATT
143731706 AGTATTAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:143731713 original size:6 final size:6
Alignment explanation
Indices: 143731702--143731780 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
143731692 TTTTCTATTC
* *
143731702 TATTAG TATTAGAG TATTAG -ATTAG TATT-C TATT-C TATTAG TATTAG
1 TATTAG TATT--AG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
143731749 -ATTAG TATTAG --TTAG -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG T
143731781 TAGTGATCCC
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
4 4 0.06
5 28 0.44
6 26 0.41
8 6 0.09
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (6 bp):
TATTAG
Found at i:143731728 original size:11 final size:11
Alignment explanation
Indices: 143731703--143731784 Score: 50
Period size: 11 Copynumber: 7.5 Consensus size: 11
143731693 TTTCTATTCT
143731703 ATTAGTATTAG
1 ATTAGTATTAG
143731714 ---AGTATTAG
1 ATTAGTATTAG
**
143731722 ATTAGTATTCT
1 ATTAGTATTAG
*
143731733 ATT-CTATTAG
1 ATTAGTATTAG
143731743 TATTAG-ATTAG
1 -ATTAGTATTAG
143731754 TATTAGTTAGATTAG
1 -ATTAG-T--ATTAG
143731769 ATTAGTATTAG
1 ATTAGTATTAG
143731780 -TTAGT
1 ATTAGT
143731785 GATCCCGGCT
Statistics
Matches: 56, Mismatches: 6, Indels: 19
0.69 0.07 0.23
Matches are distributed among these distances:
8 8 0.14
10 9 0.16
11 28 0.50
13 1 0.02
14 5 0.09
15 5 0.09
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (11 bp):
ATTAGTATTAG
Found at i:143731769 original size:20 final size:21
Alignment explanation
Indices: 143731739--143731784 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
143731729 TTCTATTCTA
143731739 TTAGTATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
143731760 TTAG-ATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
143731780 TTAGT
1 TTAGT
143731785 GATCCCGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (21 bp):
TTAGTATTAGATTAGTATTAG
Found at i:143739997 original size:32 final size:32
Alignment explanation
Indices: 143739956--143740017 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
143739946 CATCTATTTT
143739956 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
143739988 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
143740018 ACCAAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:143747326 original size:13 final size:13
Alignment explanation
Indices: 143747308--143747335 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
143747298 TGAAAATTCG
143747308 TTAATGGTACATT
1 TTAATGGTACATT
143747321 TTAATGGTACATT
1 TTAATGGTACATT
143747334 TT
1 TT
143747336 CCCCTATATT
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:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (13 bp):
TTAATGGTACATT
Done.