Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 280 of 297
Found at i:95362961 original size:21 final size:22
Alignment explanation
Indices: 95362937--95362979 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
95362927 TTACATGTAA
* *
95362937 TTATTTAG-TAAATTATATTGT
1 TTATGTAGTTAAATAATATTGT
95362958 TTATGTAGTTAAATAATATTGT
1 TTATGTAGTTAAATAATATTGT
95362980 ACTTCGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TTATGTAGTTAAATAATATTGT
Found at i:95366585 original size:23 final size:25
Alignment explanation
Indices: 95366559--95366605 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
95366549 TATCATTCAT
*
95366559 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
95366582 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
95366606 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:95366926 original size:46 final size:46
Alignment explanation
Indices: 95366866--95367039 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
95366856 TTTGACGTGA
* * * * *
95366866 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTT-TTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTC-TTTTCATGTCACGT
*
95366912 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
* * *
95366958 TGCCATGGTATCTTTCAACCATGGTCTTACAC---TCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
* * * *
95367001 TGTCGTGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCAT
95367040 ATCAGAGAGC
Statistics
Matches: 112, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
43 39 0.35
45 4 0.04
46 69 0.62
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
Found at i:95367024 original size:43 final size:43
Alignment explanation
Indices: 95366910--95367032 Score: 165
Period size: 43 Copynumber: 2.8 Consensus size: 43
95366900 TTTTTGTCAT
** *
95366910 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTA--C-ACTCATATCAC
*
95366956 GTTGCCATGGTATCTTTCAACCATGGTCTTACACTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACTCATATCAC
* *
95366999 GTTGTCGTGGTATCTTTCAACCATGGTCTTACAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACAC
95367033 ATTTCATATC
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
43 39 0.55
44 1 0.01
46 31 0.44
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (43 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACTCATATCAC
Found at i:95373043 original size:214 final size:214
Alignment explanation
Indices: 95372667--95373093 Score: 739
Period size: 214 Copynumber: 2.0 Consensus size: 214
95372657 AGCCCTTTTT
* * * *
95372667 GCATAAGTAGCACAATTTATGATAGTGATTAACCATTCCCATGGCCAATCCTTGTCAAGCCTATC
1 GCATAAATAGCACAAATTATGATAGTGATTAACCATTCCCATGGACAATCCTTGTCAAGCATATC
95372732 CACACCTCTCAATAACCATATCCATACCAAATGATTATAACATTACACTCAAACATATATAAGCC
66 CACACCTCTCAATAACCATATCCATACCAAATGATTATAACATTACACTCAAACATATATAAGCC
*
95372797 ATTTTCGCATGGCTATCCAAAATTATACAAGTCCAAAGGGTCCATGACCCACAAC-AAACGGGTA
131 ATTTTCGCATGGCTATCCAAAATTATACAAGTCCAAAGGGTCCATGACCCACAACAAAAAGGGTA
95372861 GTCCTATACATGCCATTTCA
196 GTCCTATA-ATGCCATTTCA
* *
95372881 GCATAAATAGCACAAATTATGATAGTGATTAACCATTCCCATTGACAATCCTTGTTAAGCATATC
1 GCATAAATAGCACAAATTATGATAGTGATTAACCATTCCCATGGACAATCCTTGTCAAGCATATC
* *
95372946 CACACCTCTTAATAACCATATCCATACCAAATGATTATAACATTATACTCAAACATATATAAGCC
66 CACACCTCTCAATAACCATATCCATACCAAATGATTATAACATTACACTCAAACATATATAAGCC
* *
95373011 ATTTTCGCATGGCTATCCAAAATTATACAAGTCCAAAGGGTTCATGACCCCCAACAAAAAGGGTA
131 ATTTTCGCATGGCTATCCAAAATTATACAAGTCCAAAGGGTCCATGACCCACAACAAAAAGGGTA
95373076 GTCCTATAATGCCATTTC
196 GTCCTATAATGCCATTTC
95373094 GAAGTTCAAC
Statistics
Matches: 201, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
214 185 0.92
215 16 0.08
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.27
Consensus pattern (214 bp):
GCATAAATAGCACAAATTATGATAGTGATTAACCATTCCCATGGACAATCCTTGTCAAGCATATC
CACACCTCTCAATAACCATATCCATACCAAATGATTATAACATTACACTCAAACATATATAAGCC
ATTTTCGCATGGCTATCCAAAATTATACAAGTCCAAAGGGTCCATGACCCACAACAAAAAGGGTA
GTCCTATAATGCCATTTCA
Found at i:95373515 original size:177 final size:178
Alignment explanation
Indices: 95373198--95373554 Score: 590
Period size: 177 Copynumber: 2.0 Consensus size: 178
95373188 TCTATAAAAC
* * *
95373198 AGAGAATCAAGGAGACGGAGTAAGCAATTTATGCTTAGTAAGTTTTGAGCAAGGGATTCCAGCAC
1 AGAGAATCAAAGAAACGGAGTAAGCAATTTATGCTTAGTAAGTTTTGAGCAAGGAATTCCAGCAC
* * *
95373263 AACAAAAGTATAGCATTCATGTAGCTAAACGGATAATTTCATATGCACAATTTTTCAATATCATA
66 AACAAAAGTATAGCATTCATATAGCTAAACGAATAATTTCATATGCACAAATTTTCAATATCATA
* *
95373328 CTTACTTCACATTACCAACCCTTTTATTCATACAC-AAAGATCAACTT
131 CTTACTTCACATTACCAACCCTTATATACATACACAAAAGATCAACTT
*
95373375 AGAGGATCAAAGAAACGGAGTAAGCAATTTATGCTTAGTAAGTTTTGAGCAAGGAATTCCAGCAC
1 AGAGAATCAAAGAAACGGAGTAAGCAATTTATGCTTAGTAAGTTTTGAGCAAGGAATTCCAGCAC
* *
95373440 AGCAAAAGTATAGCATTCATATAGCTAAACGAATAATTTCATATGCACAAATTTTCGATATCATA
66 AACAAAAGTATAGCATTCATATAGCTAAACGAATAATTTCATATGCACAAATTTTCAATATCATA
* *
95373505 CTTGCTTCACATTACCAACCCTTATGTACATACACAAAAGATCAACTT
131 CTTACTTCACATTACCAACCCTTATATACATACACAAAAGATCAACTT
95373553 AG
1 AG
95373555 CCAAAGGCCG
Statistics
Matches: 166, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
177 152 0.92
178 14 0.08
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (178 bp):
AGAGAATCAAAGAAACGGAGTAAGCAATTTATGCTTAGTAAGTTTTGAGCAAGGAATTCCAGCAC
AACAAAAGTATAGCATTCATATAGCTAAACGAATAATTTCATATGCACAAATTTTCAATATCATA
CTTACTTCACATTACCAACCCTTATATACATACACAAAAGATCAACTT
Found at i:95374184 original size:40 final size:40
Alignment explanation
Indices: 95374140--95374484 Score: 482
Period size: 40 Copynumber: 8.7 Consensus size: 40
95374130 GCTACTCGTC
* * **
95374140 CAAATGCCTTCGGGACATAGCCCGG-TCACAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAT-TTAGTAACTCGCA
*
95374180 CAAATGCCTTCGGGACTTAACCCGGATTTAGAAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
95374220 CAAATGCCTTCGGGACTTAACCCGGATTTAGAAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
95374260 CAAATGCCTTCGGGACTTAACCCGGATTTAGAAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
95374300 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
95374340 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
95374380 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
95374419 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
95374460 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
95374485 CATCATTCAT
Statistics
Matches: 283, Mismatches: 17, Indels: 10
0.91 0.05 0.03
Matches are distributed among these distances:
38 2 0.01
39 33 0.12
40 236 0.83
41 12 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:95374734 original size:37 final size:37
Alignment explanation
Indices: 95374684--95374762 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
95374674 TTATTACGAA
* *
95374684 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
95374721 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
95374758 GTCTT
1 GTCTT
95374763 TAGAGCTCAG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:95375709 original size:91 final size:91
Alignment explanation
Indices: 95375554--95375736 Score: 357
Period size: 91 Copynumber: 2.0 Consensus size: 91
95375544 TGGGGCCGAT
*
95375554 TGCAACACTTAATACATTCTACAAGTATGGTTACTTGTATTGACTAAACACCATTTTGTTTCAAG
1 TGCAACACTTAATACATTCTACAAGTATGGTCACTTGTATTGACTAAACACCATTTTGTTTCAAG
95375619 TTCAAAACTTGGCTAATACACACATA
66 TTCAAAACTTGGCTAATACACACATA
95375645 TGCAACACTTAATACATTCTACAAGTATGGTCACTTGTATTGACTAAACACCATTTTGTTTCAAG
1 TGCAACACTTAATACATTCTACAAGTATGGTCACTTGTATTGACTAAACACCATTTTGTTTCAAG
95375710 TTCAAAACTTGGCTAATACACACATA
66 TTCAAAACTTGGCTAATACACACATA
95375736 T
1 T
95375737 ATACACTAGT
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (91 bp):
TGCAACACTTAATACATTCTACAAGTATGGTCACTTGTATTGACTAAACACCATTTTGTTTCAAG
TTCAAAACTTGGCTAATACACACATA
Found at i:95382061 original size:60 final size:60
Alignment explanation
Indices: 95381964--95382078 Score: 221
Period size: 60 Copynumber: 1.9 Consensus size: 60
95381954 ATATCTCTTA
95381964 ACATACTGTCCATATGATCGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCG
1 ACATACTGTCCATATGATCGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCG
*
95382024 ACATACTGTCCATATGATCGTTTCGTTACTTTTCTATGAAAATAGATTCATCAAG
1 ACATACTGTCCATATGATCGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAG
95382079 TTTCATTTAC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (60 bp):
ACATACTGTCCATATGATCGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCG
Found at i:95382948 original size:40 final size:40
Alignment explanation
Indices: 95382911--95383294 Score: 282
Period size: 40 Copynumber: 9.6 Consensus size: 40
95382901 GCTACTCGTT
*
95382911 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
95382951 CAAATGCCTTTGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
95382991 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
95383030 CAAATGCCTTCGGATCTTAGTCCACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGG------G---ACTTAGCCCGGTTATAGTAACTCGCA
* *
95383079 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
95383118 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
* *
95383159 CAAA-GCCTTCGGGAC-TA-----ATT-TAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
95383191 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * * *
95383230 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
95383271 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
95383295 ACATCATTCA
Statistics
Matches: 273, Mismatches: 37, Indels: 68
0.72 0.10 0.18
Matches are distributed among these distances:
32 9 0.03
33 16 0.06
34 1 0.00
38 5 0.02
39 87 0.32
40 93 0.34
41 26 0.10
43 1 0.00
45 1 0.00
49 33 0.12
50 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:95383120 original size:88 final size:88
Alignment explanation
Indices: 95382971--95383140 Score: 324
Period size: 88 Copynumber: 1.9 Consensus size: 88
95382961 TGGGACTTAA
95382971 CCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATG
1 CCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATG
95383036 CCTTCGGATCTTAGTCCACATAG
66 CCTTCGGATCTTAGTCCACATAG
95383059 CCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAAT
1 CCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAAT
95383123 GCCTTCGGATCTTAGTCC
65 GCCTTCGGATCTTAGTCC
95383141 GGATATGGTC
Statistics
Matches: 81, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
87 2 0.02
88 79 0.98
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (88 bp):
CCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATG
CCTTCGGATCTTAGTCCACATAG
Found at i:95383264 original size:112 final size:112
Alignment explanation
Indices: 95383067--95383286 Score: 422
Period size: 112 Copynumber: 2.0 Consensus size: 112
95383057 AGCCCGGTTA
95383067 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGA
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGA
95383132 TCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTAATT
66 TCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTAATT
*
95383179 TAGTAACTTGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGA
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGA
*
95383244 TCTTAGTCTGGATATGGTCACTTAGCACAAAGCCTTCGGGACT
66 TCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACT
95383287 TAGCCCGGAC
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
112 106 1.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (112 bp):
TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGA
TCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTAATT
Found at i:95391233 original size:79 final size:81
Alignment explanation
Indices: 95391133--95391317 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
95391123 GCTCCTAGTT
* *
95391133 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
95391196 GAATTTAGTAACTT-GCA
64 GAATATAGTAACTTAGCA
* ** * *
95391213 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCTGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGA
* *
95391277 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
95391293 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
95391318 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 33 0.36
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGA
ATATAGTAACTTAGCA
Found at i:95391254 original size:39 final size:40
Alignment explanation
Indices: 95391133--95391317 Score: 193
Period size: 40 Copynumber: 4.7 Consensus size: 40
95391123 GCTCCTAGTT
* *
95391133 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
95391173 CAAATGCCTTCGGGACTTAACCC-GAATTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAA-TTAGTAACTCGCA
*
95391213 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * * *
95391252 CAAATGCCTTC-GGATCTTAGTCTGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
95391293 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
95391318 CATCATTCAA
Statistics
Matches: 121, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 75 0.62
41 12 0.10
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:95399203 original size:46 final size:46
Alignment explanation
Indices: 95399153--95399325 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
95399143 TGGTTGAGCA
*
95399153 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
95399199 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
95399246 TCCGAACTCGCTGAGTTGGGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* **
95399292 CCCGTGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
95399326 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 57 0.57
47 26 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:95399309 original size:93 final size:93
Alignment explanation
Indices: 95399150--95399320 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
95399140 GGATGGTTGA
* * *
95399150 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGCTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAGT
95399215 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
95399243 GCATCCGAACTCGCTGAGTTGGGTCCGAGTTCATTTATGGATGCGAACGCCCGTGCTCGTTGAGT
1 GCATCCGAACTCGCTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAGT
95399308 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
95399321 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGCTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:95416535 original size:39 final size:40
Alignment explanation
Indices: 95416442--95416664 Score: 267
Period size: 40 Copynumber: 5.6 Consensus size: 40
95416432 CGGATGATAA
* * *
95416442 CCGGGCTAAGTCCC-AAGAGCATTTGAGCTAG-TGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGCT-ACTATA-T
*
95416482 CCGGGCTAAGTCCCGAAGGCATTCGT-CAAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTATAT
* * *
95416521 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTATAT
* * *
95416561 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTATAT
* *
95416600 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTATAT
*
95416640 CCAGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
95416665 AACTAGTGGC
Statistics
Matches: 165, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 68 0.41
40 94 0.57
41 3 0.02
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTATAT
Found at i:95416663 original size:79 final size:78
Alignment explanation
Indices: 95416441--95416664 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
95416431 TCGGATGATA
* * **
95416441 ACCGGGCTAAGTCCC-AAGAGCATTTGAGCTAGTGGCTA-ATTCCGGGCTAAGTCCCGAAGGCAT
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCAT
*
95416504 TCGTCAAGCTACTAT
64 TTGTCAAGCTACTAT
* * * *
95416519 ATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATATCCGGGCTAAGTCCCGAAGGCATT
1 A-CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
* * *
95416584 TGTGCGAGTTATTAT
65 TGT-CAAGCTACTAT
* *
95416599 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCAGGCTAAGTCCCGAAGGCATTT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
95416664 G
66 G
95416665 AACTAGTGGC
Statistics
Matches: 125, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
79 111 0.89
80 13 0.10
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (78 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
GTCAAGCTACTAT
Found at i:95416686 original size:79 final size:78
Alignment explanation
Indices: 95416485--95416687 Score: 230
Period size: 79 Copynumber: 2.6 Consensus size: 78
95416475 GCTAATTCCG
* * * *
95416485 GGCTAAGTCCCGAAGGCATTCGTCAAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTGTGCG
1 GGCTAAGTCCCGAAGGCATTTGACAAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCA
* * *
95416550 AGCTATTATATCCG
65 AGCTACTATAACCA
* * *
95416564 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTG-ACAAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
*
95416628 AAGTTACTATAACCA
64 AAGCTACTATAACCA
* *
95416643 GGCTAAGTCCCGAAGGCATTTGAACTAGTGGCTATATCC-GGCTAA
1 GGCTAAGTCCCGAAGGCATTTG-ACAAGT-ACTATATCCGGGCTAA
95416688 ACTCCGACGG
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
78 1 0.01
79 93 0.89
80 11 0.10
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (78 bp):
GGCTAAGTCCCGAAGGCATTTGACAAGTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAA
GCTACTATAACCA
Found at i:95428324 original size:11 final size:11
Alignment explanation
Indices: 95428308--95428336 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
95428298 CAGAAAAATT
95428308 TATTTTTCTTA
1 TATTTTTCTTA
95428319 TATTTTTCTTA
1 TATTTTTCTTA
95428330 TATTTTT
1 TATTTTT
95428337 TTGGTCTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (11 bp):
TATTTTTCTTA
Found at i:95436215 original size:96 final size:98
Alignment explanation
Indices: 95436051--95436329 Score: 252
Period size: 96 Copynumber: 2.9 Consensus size: 98
95436041 GTTTATGTGT
* * * * **
95436051 GAGCCAGTGTAAGACTG-TGTTTGGAACATGACA-TCGACATTGTTTTCAGAGCTAGTGTAAGAC
1 GAGCCAGTGTAAGA-TGATGTTTGGAACATGGCATTAGACATTGTTATCAGAGCCAAAGTAAGAC
*
95436114 CATGTCTAGG-ACATGGCATCGGC-CTCAA-TATGC
65 CATGTCT-GGAACATGGCATCGGCAC-CAAGTATGA
** *
95436147 GAGCCAGTGTAAGATGATGTTTGGAACATGGCATTAG-CATTGTTATGTGAGCCAAAGTAAGATC
1 GAGCCAGTGTAAGATGATGTTTGGAACATGGCATTAGACATTGTTATCAGAGCCAAAGTAAGACC
95436211 ATGTCTGGAACATGGCATCGGCACCAATGTATGA
66 ATGTCTGGAACATGGCATCGGCACCAA-GTATGA
* * * * * * ** *
95436245 GAGCCAATGTAAGA-GCATGTCTGGGACATGGCATTGGCACCAATG-TATGAGAGCCAGTGTAAA
1 GAGCCAGTGTAAGATG-ATGTTTGGAACATGGCATTAG-A-CATTGTTATCAGAGCCAAAGTAAG
95436308 ACCATGTCTGTG-ACATGGCATC
63 ACCATGTCTG-GAACATGGCATC
95436330 AGCATTTTAC
Statistics
Matches: 152, Mismatches: 20, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
95 4 0.03
96 71 0.47
97 4 0.03
98 35 0.23
100 33 0.22
101 5 0.03
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (98 bp):
GAGCCAGTGTAAGATGATGTTTGGAACATGGCATTAGACATTGTTATCAGAGCCAAAGTAAGACC
ATGTCTGGAACATGGCATCGGCACCAAGTATGA
Found at i:95436258 original size:50 final size:49
Alignment explanation
Indices: 95436106--95436329 Score: 208
Period size: 50 Copynumber: 4.6 Consensus size: 49
95436096 TCAGAGCTAG
* *
95436106 TGTAAGACCATGTCTAGGACATGGCATCGGC-CTCAA--TATGCGAGCCAG
1 TGTAAGACCATGTCT-GGACATGGCATCGGCAC-CAATGTATGAGAGCCAA
** * * * * *
95436154 TGTAAGATGATGTTTGGAACATGGCAT---TAGCATTGTTATGTGAGCCAA
1 TGTAAGACCATGTCTGG-ACATGGCATCGGCACCAATG-TATGAGAGCCAA
* *
95436202 AGTAAGATCATGTCTGGAACATGGCATCGGCACCAATGTATGAGAGCCAA
1 TGTAAGACCATGTCTGG-ACATGGCATCGGCACCAATGTATGAGAGCCAA
* * *
95436252 TGTAAGAGCATGTCTGGGACATGGCATTGGCACCAATGTATGAGAGCCAG
1 TGTAAGACCATGTCT-GGACATGGCATCGGCACCAATGTATGAGAGCCAA
*
95436302 TGTAAAACCATGTCTGTGACATGGCATC
1 TGTAAGACCATGTCTG-GACATGGCATC
95436330 AGCATTTTAC
Statistics
Matches: 144, Mismatches: 22, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
45 2 0.01
47 2 0.01
48 55 0.38
49 1 0.01
50 77 0.53
51 7 0.05
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (49 bp):
TGTAAGACCATGTCTGGACATGGCATCGGCACCAATGTATGAGAGCCAA
Found at i:95442645 original size:50 final size:49
Alignment explanation
Indices: 95442439--95442716 Score: 253
Period size: 48 Copynumber: 5.7 Consensus size: 49
95442429 GGTTATGTGT
* *
95442439 GAGCCAGTGTAAGACCATG-CTTGGAGCATGGCATCGGCACTG-TTATGG
1 GAGCCAGTGTAAGACCATGTCTAGGA-CATGGCATCGGCACTGATTATGA
* * * * * * * *
95442487 GAGCTAATATAAGACCATGTCTGGGACATGGCATCGAC-CTCAATATGC
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACTGATTATGA
* * * * * * *
95442535 GAGCCAATGTAAGACAATGT-TTGGAACATAGCATCAGCATTG-TTATGT
1 GAGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCACTGATTATGA
**
95442583 GAGCCAGTGTAAGACCATGTCTAGGACATAACATCGGCACTGATGTATGA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACTGAT-TATGA
* * **
95442633 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATTGGCACCAATATATGA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACTGAT-TATGA
*
95442683 GAGCCAGTGTAAGACCATG-CTCAAGACATGGCAT
1 GAGCCAGTGTAAGACCATGTCT-AGGACATGGCAT
95442717 GTAACAGCCT
Statistics
Matches: 187, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
47 5 0.03
48 94 0.50
49 12 0.06
50 76 0.41
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (49 bp):
GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACTGATTATGA
Found at i:95444870 original size:18 final size:18
Alignment explanation
Indices: 95444847--95444949 Score: 64
Period size: 18 Copynumber: 5.4 Consensus size: 18
95444837 CAGCTCTGAT
95444847 GAGCTTCAGTTAGCCTTC
1 GAGCTTCAGTTAGCCTTC
* *
95444865 GAGCTTCTGTTTAGCACTTGT
1 GAGCTTCAG-TTAGC-CTT-C
*
95444886 GTGCTAT-AGTTAGCCTTC
1 GAGCT-TCAGTTAGCCTTC
* * *
95444904 GGGCTTCCGTTTAGCACTTGT
1 GAGCTTCAG-TTAGC-CTT-C
*
95444925 GTGCTTCAGTTAGCCTTC
1 GAGCTTCAGTTAGCCTTC
*
95444943 GGGCTTC
1 GAGCTTC
95444950 TGTTTAGCAC
Statistics
Matches: 65, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
17 1 0.02
18 19 0.29
19 16 0.25
20 16 0.25
21 12 0.18
22 1 0.02
ACGTcount: A:0.13, C:0.24, G:0.25, T:0.38
Consensus pattern (18 bp):
GAGCTTCAGTTAGCCTTC
Found at i:95444910 original size:39 final size:39
Alignment explanation
Indices: 95444849--95444960 Score: 190
Period size: 39 Copynumber: 2.9 Consensus size: 39
95444839 GCTCTGATGA
*
95444849 GCTTCAGTTAGCCTTCGAGCTTCTGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTGTGT
*
95444888 GCTAT-AGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCT-TCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTGTGT
95444927 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACT
1 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACT
95444961 CTAGACTTCA
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
38 1 0.01
39 66 0.97
40 1 0.01
ACGTcount: A:0.12, C:0.24, G:0.24, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTGTGT
Found at i:95450178 original size:28 final size:28
Alignment explanation
Indices: 95450138--95450246 Score: 116
Period size: 28 Copynumber: 3.9 Consensus size: 28
95450128 CATGACTGTA
95450138 AATGTGATTTGGGCCTAGT-GGCCATATG
1 AATGTGA-TTGGGCCTAGTGGGCCATATG
* * *
95450166 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGA-TTGGGCCTAGTGGGCCATATG
*
95450195 AATGTGAATGGG-CT-GATGGGCCATATG
1 AATGTGATTGGGCCTAG-TGGGCCATATG
* *
95450222 AAAGAGATTGGGCCTAGTGGGCCAT
1 AATGTGATTGGGCCTAGTGGGCCAT
95450247 TTATAGGTAT
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
27 20 0.30
28 32 0.48
29 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.27
Consensus pattern (28 bp):
AATGTGATTGGGCCTAGTGGGCCATATG
Found at i:95450233 original size:27 final size:27
Alignment explanation
Indices: 95450157--95450246 Score: 83
Period size: 27 Copynumber: 3.2 Consensus size: 27
95450147 TGGGCCTAGT
*
95450157 GGCCATATGAATGTGATTTGGGCCTAATG
1 GGCCATATGAAAGTGA-TTGGG-CTAATG
* * *
95450186 GGCCACAT-AAATGTGAATGGGCTGATG
1 GGCCATATGAAA-GTGATTGGGCTAATG
* *
95450213 GGCCATATGAAAGAGATTGGGCCTAGTG
1 GGCCATATGAAAGTGATTGGG-CTAATG
95450241 GGCCAT
1 GGCCAT
95450247 TTATAGGTAT
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
27 19 0.39
28 19 0.39
29 11 0.22
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (27 bp):
GGCCATATGAAAGTGATTGGGCTAATG
Found at i:95452336 original size:23 final size:23
Alignment explanation
Indices: 95452306--95452356 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
95452296 TAAGTATTTA
95452306 TACATTGAAAATTCAACTAAAAG
1 TACATTGAAAATTCAACTAAAAG
95452329 TACATTGAAAATTCAACTAAAAG
1 TACATTGAAAATTCAACTAAAAG
95452352 TACAT
1 TACAT
95452357 CAAAGTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (23 bp):
TACATTGAAAATTCAACTAAAAG
Found at i:95457602 original size:39 final size:39
Alignment explanation
Indices: 95457523--95457728 Score: 288
Period size: 39 Copynumber: 5.3 Consensus size: 39
95457513 CAGGACTTTA
* * *
95457523 AGCCCGGATATAATACCAGCAC-AAAGCCTTAGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
95457561 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
* * * *
95457600 AGCCCGGGTATAACACCAGCATGAATACCTTTGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
* * *
95457639 AGCTCGGTTATAACACCAGCACGAATGCCTTTGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
* * *
95457678 AGCCCGGATATAACACTAGCACAAATGCCTTCGGGAATT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
95457717 AGCCCGGATATA
1 AGCCCGGATATA
95457729 TATCTCACAC
Statistics
Matches: 150, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
38 21 0.14
39 129 0.86
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (39 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
Found at i:95466138 original size:27 final size:27
Alignment explanation
Indices: 95466114--95466291 Score: 230
Period size: 27 Copynumber: 6.6 Consensus size: 27
95466104 GGGCATTATC
*
95466114 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
95466141 GTTATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
95466168 GTCATTATACCCTACAGGGGTATTACA
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
95466195 GTTATTTTACCCTACAAGGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
95466222 GTCATTTTACCCTAAAGGGTTATTACA
1 GTCATTTTACCCTACAGGGGTATTACG
*
95466249 GTCATTTTACACTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
95466276 GTCATTTTATCCTACA
1 GTCATTTTACCCTACA
95466292 AGATTATTAC
Statistics
Matches: 125, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 125 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:95466348 original size:27 final size:27
Alignment explanation
Indices: 95466318--95466774 Score: 320
Period size: 27 Copynumber: 17.0 Consensus size: 27
95466308 TTTGCAAACC
* * *
95466318 GGGGGTATTTCAACAATCTTATAAATA
1 GGGGGTATTTCGATAATCTTACAAATA
* * * *
95466345 GGGGGTATTTCGGTAATTTTACCAATT
1 GGGGGTATTTCGATAATCTTACAAATA
*
95466372 GGGGGTATTTCGATAATCTTACAAATC
1 GGGGGTATTTCGATAATCTTACAAATA
*
95466399 GGGGGTATTTCGATAATCTTACAAATC
1 GGGGGTATTTCGATAATCTTACAAATA
* * *
95466426 GGGGTTATTTCGATAATTTTACAAACA
1 GGGGGTATTTCGATAATCTTACAAATA
* *
95466453 GGGGGTATGTCGATAATCTTAGAAACT-
1 GGGGGTATTTCGATAATCTTACAAA-TA
* * *
95466480 GGGGGTATTT-TAGTAATTTTACAAACCA
1 GGGGGTATTTCGA-TAATCTTACAAA-TA
** * *
95466508 -AAGGTATTTCGTTAATTTTACAAACTA
1 GGGGGTATTTCGATAATCTTACAAA-TA
* * * * **
95466535 -AGGGTATTTCGAAAATTTTATAAACC
1 GGGGGTATTTCGATAATCTTACAAATA
* * **
95466561 GGGGGTATTTCAAAAATCTTACAGACCA
1 GGGGGTATTTCGATAATCTTACA-AATA
* * **
95466589 -GGGGTATTTCAATAATGTTACAAACC
1 GGGGGTATTTCGATAATCTTACAAATA
* * **
95466615 GGGGGTATTTCAATAATGTTACAAACC
1 GGGGGTATTTCGATAATCTTACAAATA
* *
95466642 GGGGGTATTTCGATAATGTTACAAATC
1 GGGGGTATTTCGATAATCTTACAAATA
* *
95466669 GGGGGTATTTCGATAATTTTACGAACTA
1 GGGGGTATTTCGATAATCTTAC-AAATA
*
95466697 -GGGGTATTTCGATAATTTTACAAAT-
1 GGGGGTATTTCGATAATCTTACAAATA
* * * * *
95466722 CGAGGTATTACGGTAATCTTTCAAACT-
1 GGGGGTATTTCGATAATCTTACAAA-TA
* *
95466749 CGGGGTATTTC-AGTAATTTTACAAAT
1 GGGGGTATTTCGA-TAATCTTACAAAT
95466775 TGAGGTCTTA
Statistics
Matches: 357, Mismatches: 62, Indels: 23
0.81 0.14 0.05
Matches are distributed among these distances:
26 26 0.07
27 326 0.91
28 5 0.01
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (27 bp):
GGGGGTATTTCGATAATCTTACAAATA
Found at i:95466407 original size:81 final size:81
Alignment explanation
Indices: 95466312--95466773 Score: 439
Period size: 81 Copynumber: 5.7 Consensus size: 81
95466302 GACCATTTTG
* * * * *
95466312 CAAACCGGGGGTATTTCAACAATCTTATAAATAGGGGGTATTTCGGTAATTTTACCAATTGGGGG
1 CAAACCGGGGGTATTTCAATAATCTTACAAATAGGGGGTATTTCGATAATTTTACAAACTGGGGG
95466377 TATTTCGATAATCTTA
66 TATTTCGATAATCTTA
* * * * *
95466393 CAAATCGGGGGTATTTCGATAATCTTACAAATCGGGGTTATTTCGATAATTTTACAAACAGGGGG
1 CAAACCGGGGGTATTTCAATAATCTTACAAATAGGGGGTATTTCGATAATTTTACAAACTGGGGG
*
95466458 TATGTCGATAATCTTA
66 TATTTCGATAATCTTA
* * * * * * ** * **
95466474 GAAACTGGGGGTATTTTAGTAATTTTACAAACCA-AAGGTATTTCGTTAATTTTACAAACTAAGG
1 CAAACCGGGGGTATTTCAATAATCTTACAAA-TAGGGGGTATTTCGATAATTTTACAAACTGGGG
* *
95466538 GTATTTCGAAAATTTTA
65 GTATTTCGATAATCTTA
* * ** * * *
95466555 TAAACCGGGGGTATTTCAAAAATCTTACAGACCA-GGGGTATTTCAATAATGTTACAAACCGGGG
1 CAAACCGGGGGTATTTCAATAATCTTACA-AATAGGGGGTATTTCGATAATTTTACAAACTGGGG
* *
95466619 GTATTTCAATAATGTTA
65 GTATTTCGATAATCTTA
* * * * *
95466636 CAAACCGGGGGTATTTCGATAATGTTACAAATCGGGGGTATTTCGATAATTTTACGAACTAGGGG
1 CAAACCGGGGGTATTTCAATAATCTTACAAATAGGGGGTATTTCGATAATTTTACAAACTGGGGG
*
95466701 TATTTCGATAATTTTA
66 TATTTCGATAATCTTA
* * * ** * *
95466717 CAAATC-GAGGTATTACGGTAATCTTTCAAACT-CGGGGTATTTC-AGTAATTTTACAAA
1 CAAACCGGGGGTATTTCAATAATCTTACAAA-TAGGGGGTATTTCGA-TAATTTTACAAA
95466774 TTGAGGTCTT
Statistics
Matches: 306, Mismatches: 70, Indels: 11
0.79 0.18 0.03
Matches are distributed among these distances:
79 1 0.00
80 41 0.13
81 263 0.86
82 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (81 bp):
CAAACCGGGGGTATTTCAATAATCTTACAAATAGGGGGTATTTCGATAATTTTACAAACTGGGGG
TATTTCGATAATCTTA
Found at i:95471922 original size:88 final size:88
Alignment explanation
Indices: 95471821--95472007 Score: 338
Period size: 88 Copynumber: 2.1 Consensus size: 88
95471811 ATATGTGGGA
*
95471821 AGCTCACAAAAAGTGTGCTAACATGTGGTCGAAACCATTCCTTTTCATTTTCTTTTACATCGATG
1 AGCTCACACAAAGTGTGCTAACATGTGGTCGAAACCATTCCTTTTCATTTTCTTTTACATCGATG
95471886 CTCACTCGAGCTACAAATGGGTC
66 CTCACTCGAGCTACAAATGGGTC
* *
95471909 AGCTCACACAAAGTGTGCTAACATGTGGTCGAAACCATTCCTTTTCCTTTTCTTTTACATTGATG
1 AGCTCACACAAAGTGTGCTAACATGTGGTCGAAACCATTCCTTTTCATTTTCTTTTACATCGATG
95471974 CTCACTCGAGCTACAAATGGGTC
66 CTCACTCGAGCTACAAATGGGTC
*
95471997 AGCTTACACAA
1 AGCTCACACAA
95472008 GTTGACGGTC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 95 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.32
Consensus pattern (88 bp):
AGCTCACACAAAGTGTGCTAACATGTGGTCGAAACCATTCCTTTTCATTTTCTTTTACATCGATG
CTCACTCGAGCTACAAATGGGTC
Found at i:95472457 original size:16 final size:17
Alignment explanation
Indices: 95472424--95472457 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
95472414 CAATTCAATC
95472424 CAAAATTCATACTTTTG
1 CAAAATTCATACTTTTG
*
95472441 CAAAATT-ATAGTTTTG
1 CAAAATTCATACTTTTG
95472457 C
1 C
95472458 CCCTATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (17 bp):
CAAAATTCATACTTTTG
Found at i:95480928 original size:17 final size:18
Alignment explanation
Indices: 95480908--95480943 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
95480898 TAATCTTGTT
95480908 TTAATAAATTAATA-GCA
1 TTAATAAATTAATATGCA
*
95480925 TTAATAATTTAATATGCA
1 TTAATAAATTAATATGCA
95480943 T
1 T
95480944 ATAGTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (18 bp):
TTAATAAATTAATATGCA
Found at i:95485227 original size:49 final size:49
Alignment explanation
Indices: 95485155--95485326 Score: 195
Period size: 49 Copynumber: 3.4 Consensus size: 49
95485145 TGCGGTCACG
95485155 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-ATTTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTTGGTT-CA
* * * * * *
95485204 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTTGGTTCA
* ** *
95485253 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG-TCA
1 --TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTTGGTTCA
95485303 CGTGTGTAGTACTAAGTGCAGGCT
1 --TGTGTAGTACTAAGTGCAGGCT
95485327 TCTATGCGTA
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
49 37 0.35
50 32 0.30
51 36 0.34
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTTGGTTCA
Found at i:95487640 original size:27 final size:27
Alignment explanation
Indices: 95487610--95487787 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
95487600 ATATTGAGTC
* *
95487610 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
95487637 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
95487664 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** **
95487692 CGCACACTTAGTGCCGCATGGTCATTT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
95487719 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
95487746 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
95487773 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
95487788 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:95491403 original size:19 final size:19
Alignment explanation
Indices: 95491375--95491418 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
95491365 CTCATTCACA
*
95491375 TCTCTTCTCTTACAATTCT
1 TCTCTCCTCTTACAATTCT
* * *
95491394 TCTCTCCTCTTTCATTTTT
1 TCTCTCCTCTTACAATTCT
95491413 TCTCTC
1 TCTCTC
95491419 ATTTTCCTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.09, C:0.34, G:0.00, T:0.57
Consensus pattern (19 bp):
TCTCTCCTCTTACAATTCT
Found at i:95494663 original size:5 final size:5
Alignment explanation
Indices: 95494653--95494679 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
95494643 TTTTTTAATA
95494653 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
95494680 CCCCAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:95495909 original size:29 final size:30
Alignment explanation
Indices: 95495862--95495929 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
95495852 TGGCCCAAGA
* *
95495862 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
95495892 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
95495922 GCAAATAT
1 GTAAATAT
95495930 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:95498321 original size:46 final size:46
Alignment explanation
Indices: 95498269--95498450 Score: 276
Period size: 46 Copynumber: 4.0 Consensus size: 46
95498259 AGTGTGCTCT
*
95498269 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCAAGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
95498315 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
95498361 GTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
95498407 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
95498451 TCATGTCAAA
Statistics
Matches: 127, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.01
46 126 0.99
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:95499908 original size:29 final size:29
Alignment explanation
Indices: 95499789--95499905 Score: 153
Period size: 29 Copynumber: 4.0 Consensus size: 29
95499779 TGGCCCATCT
*
95499789 CATTCATATGGCCCATTAGGCCCAATTCA
1 CATTCATATGGCCCATTAGGCCCAAATCA
* *
95499818 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATTAGGCCCAAATCA
* * *
95499847 TATTCATATTGCCTATTAGGCCCAAATCA
1 CATTCATATGGCCCATTAGGCCCAAATCA
* * *
95499876 CCTTTATATGGCCCGTTAGGCCCAAATCA
1 CATTCATATGGCCCATTAGGCCCAAATCA
95499905 C
1 C
95499906 CTTATATTCA
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 76 1.00
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.28
Consensus pattern (29 bp):
CATTCATATGGCCCATTAGGCCCAAATCA
Found at i:95500149 original size:16 final size:16
Alignment explanation
Indices: 95500124--95500170 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
95500114 GCAGCCAAAC
* *
95500124 TTTTGGCTTTTTGGCA
1 TTTTGACTTTTCGGCA
95500140 TTTTGACTTTTCGGCA
1 TTTTGACTTTTCGGCA
95500156 TTTT-AGCTTTTCGGC
1 TTTTGA-CTTTTCGGC
95500171 TTCTTCCGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 1 0.04
16 27 0.96
ACGTcount: A:0.09, C:0.17, G:0.21, T:0.53
Consensus pattern (16 bp):
TTTTGACTTTTCGGCA
Found at i:95503141 original size:17 final size:18
Alignment explanation
Indices: 95503119--95503152 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
95503109 TACATTGAAG
95503119 TGTTTT-AATGAAAACCA
1 TGTTTTCAATGAAAACCA
*
95503136 TGTTTTCATTGAAAACC
1 TGTTTTCAATGAAAACC
95503153 CTTCTTAAAC
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:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (18 bp):
TGTTTTCAATGAAAACCA
Found at i:95504276 original size:29 final size:29
Alignment explanation
Indices: 95504209--95504325 Score: 117
Period size: 29 Copynumber: 4.0 Consensus size: 29
95504199 TGGCCCATCT
* *
95504209 CATTCATATAGCCCATCAGGCTCAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
95504238 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
* * * * *
95504267 TATTCATATGGGCTATTAGGCCCAAATCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
* * * * * *
95504296 CCTTTATATGTCCCGTTAGGCCCAAATCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
95504325 C
1 C
95504326 CTTATATTCA
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (29 bp):
CATTCATATGGCCCATCAGGCCCAATTCA
Found at i:95505725 original size:31 final size:31
Alignment explanation
Indices: 95505687--95505755 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
95505677 GGCCAAGTTG
* *
95505687 GGCGTGTGGACCCACACGGGCAGTCCATACA
1 GGCGTGTGGACCCACACGAGCAGTCCACACA
* *
95505718 GGCGTGTGGGCCCACACGAGCAGTCCACACG
1 GGCGTGTGGACCCACACGAGCAGTCCACACA
95505749 GGCGTGT
1 GGCGTGT
95505756 TGGTATTTGG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.19, C:0.32, G:0.36, T:0.13
Consensus pattern (31 bp):
GGCGTGTGGACCCACACGAGCAGTCCACACA
Found at i:95508546 original size:73 final size:73
Alignment explanation
Indices: 95508461--95508611 Score: 239
Period size: 73 Copynumber: 2.1 Consensus size: 73
95508451 ATATAAAGAT
** * * *
95508461 AATAATTAGTGAATATTTATTATTTTTCTGTTCAAATATGTCTCTTACTCCTCTTATTAGCATTC
1 AATAATTAGTGAATATTTATTATTTTTCAATTCAAATATGCCTCCTACTCATCTTATTAGCATTC
95508526 TTACTGAG
66 TTACTGAG
* *
95508534 AATAATTAGTGAATCTTTATTGTTTTTCAATTCAAATATGCCTCCTACTCATCTTATTAGCATTC
1 AATAATTAGTGAATATTTATTATTTTTCAATTCAAATATGCCTCCTACTCATCTTATTAGCATTC
95508599 TTACTGAG
66 TTACTGAG
95508607 AATAA
1 AATAA
95508612 ATTTAACGAG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.45
Consensus pattern (73 bp):
AATAATTAGTGAATATTTATTATTTTTCAATTCAAATATGCCTCCTACTCATCTTATTAGCATTC
TTACTGAG
Found at i:95510093 original size:36 final size:36
Alignment explanation
Indices: 95510046--95510119 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
95510036 TTAAGATTAT
*
95510046 TACGTGACTTTCATCGATGATTATTCTTGATAATAA
1 TACGTGACTTTCATCAATGATTATTCTTGATAATAA
*
95510082 TACGTGACTTTCATCAATGATTATTCTTGATAGTAA
1 TACGTGACTTTCATCAATGATTATTCTTGATAATAA
95510118 TA
1 TA
95510120 TGTTTATCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (36 bp):
TACGTGACTTTCATCAATGATTATTCTTGATAATAA
Found at i:95533829 original size:29 final size:29
Alignment explanation
Indices: 95533787--95533844 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
95533777 CACGACCGTG
95533787 TGGTCTACCCGTGTAAGAAAGTCCAGGCC
1 TGGTCTACCCGTGTAAGAAAGTCCAGGCC
* *
95533816 TGGTCTACCCGTGTAGGTAAGTCCAGGCC
1 TGGTCTACCCGTGTAAGAAAGTCCAGGCC
95533845 GTGTTGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.21, C:0.28, G:0.29, T:0.22
Consensus pattern (29 bp):
TGGTCTACCCGTGTAAGAAAGTCCAGGCC
Found at i:95535766 original size:11 final size:11
Alignment explanation
Indices: 95535750--95535786 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
95535740 CCTAAGGATG
*
95535750 AAATAAAATTA
1 AAATAAAATAA
*
95535761 AAATAAAAGAA
1 AAATAAAATAA
95535772 AAATAAAATAA
1 AAATAAAATAA
95535783 AAAT
1 AAAT
95535787 TAGTTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:95535778 original size:16 final size:16
Alignment explanation
Indices: 95535754--95535784 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95535744 AGGATGAAAT
*
95535754 AAAATTAAAATAAAAG
1 AAAAATAAAATAAAAG
95535770 AAAAATAAAATAAAA
1 AAAAATAAAATAAAA
95535785 ATTAGTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (16 bp):
AAAAATAAAATAAAAG
Found at i:95539922 original size:47 final size:47
Alignment explanation
Indices: 95539809--95539931 Score: 142
Period size: 47 Copynumber: 2.6 Consensus size: 47
95539799 ATAGCTCAGC
* * *
95539809 CATGGTCTTACACGG-ATCACATATCACACTGATGCCATATCCCAAA
1 CATGGTCTTATACGGAAGCACATATCACACTGATGCAATATCCCAAA
* * * *
95539855 CATGGTCTTATGC-AATAGCACATATCACGCTGATGCAATATCCCAGA
1 CATGGTCTTATACGGA-AGCACATATCACACTGATGCAATATCCCAAA
*
95539902 TATGGTCTTATACGGAAGCACATAATCACA
1 CATGGTCTTATACGGAAGCACAT-ATCACA
95539932 TCTCTCTGAC
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
46 11 0.18
47 45 0.73
48 6 0.10
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.25
Consensus pattern (47 bp):
CATGGTCTTATACGGAAGCACATATCACACTGATGCAATATCCCAAA
Found at i:95540002 original size:54 final size:52
Alignment explanation
Indices: 95539886--95540037 Score: 171
Period size: 54 Copynumber: 2.9 Consensus size: 52
95539876 ATATCACGCT
* * * * * * * *
95539886 GATGCAATATCCCAGATATGGTCTTATACGGAAGCACATAATCACATCTCTCT
1 GATGCCATAGCCCAGCTATGGTCTTATAC-GAATCACATGATCACATCACACC
* *
95539939 GACGTCATAGCCCAGCTATGGTCTTATACGAAAATCACATGATCACATCACACC
1 GATGCCATAGCCCAGCTATGGTCTTATACG--AATCACATGATCACATCACACC
*
95539993 GATGCCATAGCCCAGCTATGGTCTTATACGGATCACATG-TCACAT
1 GATGCCATAGCCCAGCTATGGTCTTATACGAATCACATGATCACAT
95540038 GTTGTCATGA
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
51 6 0.07
52 9 0.11
53 24 0.29
54 45 0.54
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (52 bp):
GATGCCATAGCCCAGCTATGGTCTTATACGAATCACATGATCACATCACACC
Found at i:95542596 original size:72 final size:72
Alignment explanation
Indices: 95542428--95543025 Score: 476
Period size: 72 Copynumber: 8.3 Consensus size: 72
95542418 TCAATGAAAA
* * * ** * * * *
95542428 CCCAAATAGTTAACAATAGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCGTAAGTTCAATACT
1 CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAGTTGTCATCATTAAGGCTCGTAGGTTTAAAACT
*
95542493 ACAA-CC
66 GCAACCC
* *
95542499 CCCAAATAATTAGCGAGAGTTAAAAGC-CCCTAGTTGTTATCATTAAGGCTCGTAGGTTTAAAAC
1 CCCAAATAGTTAGCGAGAGTTAAAAGCTCCC-AGTTGTCATCATTAAGGCTCGTAGGTTTAAAAC
95542563 TGCAACCC
65 TGCAACCC
* * * * *
95542571 CCCAAATAGTTAGCGAGAGATAAAAGCTCCCAGCTATCATAATTAAGGCTTGTAGGTTTAAAACT
1 CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAGTTGTCATCATTAAGGCTCGTAGGTTTAAAACT
* *
95542636 GTATCCC
66 GCAACCC
** * ** *
95542643 TTCAAATAGTTAGTGAGAGTTAAAAGCTCCCAACTGTCATCATTAAGGCTCATAGGTTTAAAAC-
1 CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAGTTGTCATCATTAAGGCTCGTAGGTTTAAAACT
*
95542707 -CATAGCCT
66 GCA-A-CCC
* * * * * * **
95542715 CCAAAATAGTTAGCGAGATTTAAAAGCTCCCAATTGTCATTATTAAGGCTCGCAAGAATAAAACT
1 CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAGTTGTCATCATTAAGGCTCGTAGGTTTAAAACT
** *
95542780 ATAGCCC
66 GCAACCC
* * * *
95542787 CCCAAATAGTTAACGAGAGTTAAAAGCTTCCAGTTGTCATTATTAAGGCTCGTAGGTTTACAACT
1 CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAGTTGTCATCATTAAGGCTCGTAGGTTTAAAACT
* **
95542852 GCATCAT
66 GCAACCC
* * * * * * * * *
95542859 CTCAAATAGTTAGTGAGAGTTAAAAGCTCTCAGTTGTC-TTATTAAGGCTTGCAAGTTCAATAC-
1 CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAGTTGTCATCATTAAGGCTCGTAGGTTTAAAACT
95542922 -CATAGCCC
66 GCA-A-CCC
* * * * ** * * * *
95542930 CCCAAACAGTTGGCAAGATTTAAAAGCTCCCAACTATCATTATTAAGACTCATAGGTTTAAAA-T
1 CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAGTTGTCATCATTAAGGCTCGTAGGTTTAAAACT
*
95542994 -CACAACC
66 GCA-ACCC
* * *
95543001 CCCAAATAGTCAACGATAGTTAAAA
1 CCCAAATAGTTAGCGAGAGTTAAAA
95543026 ACCCTCAGAT
Statistics
Matches: 413, Mismatches: 103, Indels: 22
0.77 0.19 0.04
Matches are distributed among these distances:
69 2 0.00
70 4 0.01
71 121 0.29
72 282 0.68
73 3 0.01
74 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (72 bp):
CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAGTTGTCATCATTAAGGCTCGTAGGTTTAAAACT
GCAACCC
Found at i:95542699 original size:144 final size:144
Alignment explanation
Indices: 95542428--95543025 Score: 557
Period size: 144 Copynumber: 4.2 Consensus size: 144
95542418 TCAATGAAAA
* * * * *
95542428 CCCAAATAGTTAACAATAGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCGTAAGTTCAATACT
1 CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCGCAAGTTCAAAACT
* * * ** * *
95542493 ACA-ACCCCCAAATAATTAGCGAGAGTTAAAAGC-CCCTAGTTGTTATCATTAAGGCTCGTAGGT
66 ATAGCCCCCCAAATAGTTAGCGAGAGTTAAAAGCTCCC-AACTGTCATCATTAAGGCTCATAGGT
95542556 TTAAAACTGCA-ACCC
130 TTAAAACT-CACACCC
* * * * * * * *
95542571 CCCAAATAGTTAGCGAGAGATAAAAGCTCCCAGCTATCATAATTAAGGCTTGTAGGTTTAAAACT
1 CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCGCAAGTTCAAAACT
* * ** *
95542636 GTATCCCTTCAAATAGTTAGTGAGAGTTAAAAGCTCCCAACTGTCATCATTAAGGCTCATAGGTT
66 ATAGCCCCCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCATCATTAAGGCTCATAGGTT
* *
95542701 TAAAAC-CATAGCCT
131 TAAAACTCACA-CCC
* * * *
95542715 CCAAAATAGTTAGCGAGATTTAAAAGCTCCCAATTGTCATTATTAAGGCTCGCAAGAAT-AAAAC
1 CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCGCAAG-TTCAAAAC
* * ** * *
95542779 TATAGCCCCCCAAATAGTTAACGAGAGTTAAAAGCTTCCAGTTGTCATTATTAAGGCTCGTAGGT
65 TATAGCCCCCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCATCATTAAGGCTCATAGGT
* *
95542844 TTACAACTGCATCA--T
130 TTAAAACT-CA-CACCC
* * * ** * * *
95542859 CTCAAATAGTTAGTGAGAGTTAAAAGCTCTCAGTTGTC-TTATTAAGGCTTGCAAGTTCAATACC
1 CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCGCAAGTTCAAAACT
* * * * * * *
95542923 ATAGCCCCCCAAACAGTTGGCAAGATTTAAAAGCTCCCAACTATCATTATTAAGACTCATAGGTT
66 ATAGCCCCCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCATCATTAAGGCTCATAGGTT
*
95542988 TAAAA-TCACAACC
131 TAAAACTCACACCC
* * *
95543001 CCCAAATAGTCAACGATAGTTAAAA
1 CCCAAATAGTTAGCGAGAGTTAAAA
95543026 ACCCTCAGAT
Statistics
Matches: 369, Mismatches: 75, Indels: 23
0.79 0.16 0.05
Matches are distributed among these distances:
140 2 0.01
141 2 0.01
142 24 0.07
143 134 0.36
144 200 0.54
145 4 0.01
146 2 0.01
147 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (144 bp):
CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCGCAAGTTCAAAACT
ATAGCCCCCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCATCATTAAGGCTCATAGGTT
TAAAACTCACACCC
Found at i:95542813 original size:216 final size:214
Alignment explanation
Indices: 95542445--95542976 Score: 622
Period size: 216 Copynumber: 2.5 Consensus size: 214
95542435 AGTTAACAAT
* * * * *
95542445 AGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCGTAAGTTCAATACTACAACCCCCAAATAATT
1 AGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCAT-AGTTCAATACCATAGCCCCCAAATAGTT
* * * * * * ** *
95542510 AGCGAGAGTTAAAAGC-CCCTAGTTGTTATCATTAAGGCTCGTAGGTTTAAAACTGCAACCCCCC
65 AGCGAGATTTAAAAGCTCCC-AATTGTCATTATTAAGGCTCGCAAGAATAAAACTACAACCCCCC
* * *
95542574 AAATAGTTAGCGAGAGATAAAAGCTCCCAGCTATCATAATTAAGGCTTGTAGGTTTAAAACTGTA
129 AAATAGTTAACGAGAGATAAAAGCTCCCAGCTATCATAATTAAGGCTCGTAGGTTTAAAACTGCA
*
95542639 TC-CCTTCAAATAGTTAGTGAG
194 TCATC-TCAAATAGTTAGTGAG
* * * *
95542660 AGTTAAAAGCTCCCAACTGTCATCATTAAGGCTCATAGGTTTAAAACCATAGCCTCCAAAATAGT
1 AGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCATA-GTTCAATACCATAGCC-CCCAAATAGT
* *
95542725 TAGCGAGATTTAAAAGCTCCCAATTGTCATTATTAAGGCTCGCAAGAATAAAACTATAGCCCCCC
64 TAGCGAGATTTAAAAGCTCCCAATTGTCATTATTAAGGCTCGCAAGAATAAAACTACAACCCCCC
* * * * * *
95542790 AAATAGTTAACGAGAGTTAAAAGCTTCCAGTTGTCATTATTAAGGCTCGTAGGTTTACAACTGCA
129 AAATAGTTAACGAGAGATAAAAGCTCCCAGCTATCATAATTAAGGCTCGTAGGTTTAAAACTGCA
95542855 TCATCTCAAATAGTTAGTGAG
194 TCATCTCAAATAGTTAGTGAG
* ** *
95542876 AGTTAAAAGCTCTCAGTTGTC-TTATTAAGGCTTGCA-AGTTCAATACCATAGCCCCCCAAACAG
1 AGTTAAAAGCTCCCAACTGTCATTATTAAGGC-T-CATAGTTCAATACCATAG-CCCCCAAATAG
* * * *
95542939 TTGGCAAGATTTAAAAGCTCCCAACTATCATTATTAAG
63 TTAGCGAGATTTAAAAGCTCCCAATTGTCATTATTAAG
95542977 ACTCATAGGT
Statistics
Matches: 268, Mismatches: 42, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
214 1 0.00
215 107 0.40
216 154 0.57
217 6 0.02
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (214 bp):
AGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCATAGTTCAATACCATAGCCCCCAAATAGTTA
GCGAGATTTAAAAGCTCCCAATTGTCATTATTAAGGCTCGCAAGAATAAAACTACAACCCCCCAA
ATAGTTAACGAGAGATAAAAGCTCCCAGCTATCATAATTAAGGCTCGTAGGTTTAAAACTGCATC
ATCTCAAATAGTTAGTGAG
Found at i:95543443 original size:27 final size:27
Alignment explanation
Indices: 95543404--95543462 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
95543394 CCATATTCTT
** *
95543404 ATTCTCAGTAGGAAGGGTCACATTATC
1 ATTCTCAACAGGAAGGGCCACATTATC
* * *
95543431 ATTCTCAACAGGAGGGGCCATATTGTC
1 ATTCTCAACAGGAAGGGCCACATTATC
95543458 ATTCT
1 ATTCT
95543463 TGATAAGAGG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (27 bp):
ATTCTCAACAGGAAGGGCCACATTATC
Found at i:95549070 original size:18 final size:19
Alignment explanation
Indices: 95549044--95549086 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
95549034 TTTCCCAAAA
95549044 TAAATATT-ATTTACTAAAT
1 TAAATATTAATTTACT-AAT
*
95549063 TAAA-ATTAATTTTCTAAT
1 TAAATATTAATTTACTAAT
95549081 TAAATA
1 TAAATA
95549087 ATTTTCTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
TAAATATTAATTTACTAAT
Found at i:95551855 original size:13 final size:13
Alignment explanation
Indices: 95551837--95551864 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
95551827 TTTCTGACAA
95551837 TTCTTTTCTCTTC
1 TTCTTTTCTCTTC
95551850 TTCTTTTCTCTTC
1 TTCTTTTCTCTTC
95551863 TT
1 TT
95551865 TTCATCTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (13 bp):
TTCTTTTCTCTTC
Found at i:95551861 original size:10 final size:10
Alignment explanation
Indices: 95551848--95551889 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
95551838 TCTTTTCTCT
95551848 TCTTCTTTTC
1 TCTTCTTTTC
95551858 TCTTCTTTTC
1 TCTTCTTTTC
*
95551868 ATC-TATTTTC
1 -TCTTCTTTTC
95551878 TCTTCTTCTTC
1 TCTTCTT-TTC
95551889 T
1 T
95551890 TTCCCTCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 2 0.07
10 19 0.70
11 6 0.22
ACGTcount: A:0.05, C:0.29, G:0.00, T:0.67
Consensus pattern (10 bp):
TCTTCTTTTC
Found at i:95551863 original size:18 final size:18
Alignment explanation
Indices: 95551837--95551890 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
95551827 TTTCTGACAA
* *
95551837 TTCTTTTCTCTTCTTCTT
1 TTCTCTTCTCTTCTTATT
*
95551855 TTCTCTTCTTTTCATCTATT
1 TTCTCTTCTCTTC-T-TATT
95551875 TTCTCTTCTTCTTCTT
1 TTCTCTTC-TCTTCTT
95551891 TCCCTCTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
18 11 0.38
19 2 0.07
20 12 0.41
21 4 0.14
ACGTcount: A:0.04, C:0.28, G:0.00, T:0.69
Consensus pattern (18 bp):
TTCTCTTCTCTTCTTATT
Found at i:95551898 original size:26 final size:25
Alignment explanation
Indices: 95551850--95551899 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
95551840 TTTTCTCTTC
* *
95551850 TTCTTTTCTCTTCTTTTCATCTATT
1 TTCTCTTCTCTTCTTTCCATCTATT
*
95551875 TTCTCTTCTTCTTCTTTCCCTCTAT
1 TTCTCTTC-TCTTCTTTCCATCTAT
95551900 AGCCGAATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.06, C:0.30, G:0.00, T:0.64
Consensus pattern (25 bp):
TTCTCTTCTCTTCTTTCCATCTATT
Found at i:95552977 original size:27 final size:25
Alignment explanation
Indices: 95552943--95553001 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 25
95552933 ATTTACTAAA
*
95552943 ATACCCTAAGTATG-AAAATTACCATT
1 ATACCCTAAG--TGCAAAATAACCATT
95552969 ATACTCCTAAGTGCAAAATAACCATT
1 ATAC-CCTAAGTGCAAAATAACCATT
95552995 ATACCCT
1 ATACCCT
95553002 TAGGGTTGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 5 0.17
26 19 0.63
27 6 0.20
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.29
Consensus pattern (25 bp):
ATACCCTAAGTGCAAAATAACCATT
Found at i:95553182 original size:28 final size:27
Alignment explanation
Indices: 95553109--95553190 Score: 92
Period size: 28 Copynumber: 3.0 Consensus size: 27
95553099 GAGGAAGCGT
* *
95553109 TCTGGTGGCTCTGCCACAAATGTCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
* *
95553137 TCTGGTGGCCCTACCACAATTATCTGTA
1 TCTGGTGGCTCTGCCACAA-TATCTGTA
* *
95553165 TCTGGTGACTCTGTCACAATATCTGT
1 TCTGGTGGCTCTGCCACAATATCTGT
95553191 TCTAGCAGTC
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
27 9 0.20
28 36 0.80
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:95560870 original size:26 final size:25
Alignment explanation
Indices: 95560841--95560899 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
95560831 ATTTACTAAA
*
95560841 ATACCCTAAGTATG-AAAATTACCATT
1 ATACCCT-AG-ATGCAAAATGACCATT
*
95560867 ATACCCCTAGGTGCAAAATGACCATT
1 ATA-CCCTAGATGCAAAATGACCATT
95560893 ATACCCT
1 ATACCCT
95560900 TAGGGTTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 6 0.21
26 19 0.66
27 4 0.14
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.27
Consensus pattern (25 bp):
ATACCCTAGATGCAAAATGACCATT
Found at i:95561046 original size:28 final size:28
Alignment explanation
Indices: 95561006--95561117 Score: 154
Period size: 28 Copynumber: 4.0 Consensus size: 28
95560996 GGAGGAAGCG
*
95561006 TTCTGGTGGCTCTGTCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
*
95561034 TTCTGGTGGCTCTGCCACAAATGTCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
95561062 TTCTGGTGGCCCTGCCACAATTATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
95561090 ATCTGGTGACTCTGTCAC-AATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
95561117 T
1 T
95561118 CTAGCAGCCA
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
27 8 0.11
28 65 0.89
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:95571163 original size:27 final size:27
Alignment explanation
Indices: 95571105--95571164 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
95571095 CCCTGTTTCG
* ** *
95571105 ACGTCAGATACGGGGTAGGGGTGTTGC
1 ACGTCAAATACGGGGTAGGAATGTTAC
*
95571132 GCGTCAAATACGGGGTAGGAATGTTAC
1 ACGTCAAATACGGGGTAGGAATGTTAC
95571159 ACGTCA
1 ACGTCA
95571165 CAAGTGAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.17, G:0.37, T:0.22
Consensus pattern (27 bp):
ACGTCAAATACGGGGTAGGAATGTTAC
Found at i:95574344 original size:21 final size:21
Alignment explanation
Indices: 95574320--95574424 Score: 95
Period size: 21 Copynumber: 5.0 Consensus size: 21
95574310 GAAGTAGTAT
95574320 ACGACACATAAAGTGCCTGAA
1 ACGACACATAAAGTGCCTGAA
* * * *
95574341 ACGACACACAAGGTGCTTGAT
1 ACGACACATAAAGTGCCTGAA
** *
95574362 ACGACACA-CGAGCTGCCTAAA
1 ACGACACATAAAG-TGCCTGAA
*
95574383 ACAACACATAAAGTGCCTGAA
1 ACGACACATAAAGTGCCTGAA
* *
95574404 TCTGACACATAAAGTGTCTGA
1 AC-GACACATAAAGTGCCTGA
95574425 TCGGCAATGC
Statistics
Matches: 64, Mismatches: 17, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 45 0.70
22 18 0.28
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.17
Consensus pattern (21 bp):
ACGACACATAAAGTGCCTGAA
Found at i:95575822 original size:32 final size:30
Alignment explanation
Indices: 95575785--95575866 Score: 85
Period size: 32 Copynumber: 2.6 Consensus size: 30
95575775 ATTAGTTAAT
*
95575785 TAATAAATATCT-TTTAACTGAATAATAATAAG
1 TAATAAATATCTATTT-ACT-AA-AATAAAAAG
*
95575817 TAATAAATATCTATTTACTTAAATAAAAAG
1 TAATAAATATCTATTTACTAAAATAAAAAG
*
95575847 TAATTAAATATTTATGTTAC
1 TAA-TAAATATCTAT-TTAC
95575867 AATTGTATAC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
30 11 0.25
31 11 0.25
32 19 0.43
33 3 0.07
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (30 bp):
TAATAAATATCTATTTACTAAAATAAAAAG
Found at i:95578105 original size:43 final size:43
Alignment explanation
Indices: 95578037--95578164 Score: 127
Period size: 44 Copynumber: 3.0 Consensus size: 43
95578027 CTCGTACAAC
* * * *
95578037 ACCAACATCCCAAACGTGGTCTTACATGTAATCACATATCGAT
1 ACCAACGTCCCAGATGTGGTCTTACACGTAATCACATATCGAT
* *
95578080 GCC-ACTGTCCCAGATAG-GGTCTTACACGTAAATCACA-ATTCAAT
1 ACCAAC-GTCCCAGAT-GTGGTCTTACACGT-AATCACATA-TCGAT
* *
95578124 ACCAACGTCCCAGATGTGGTCTTACAGGAAATCACATATCG
1 ACCAACGTCCCAGATGTGGTCTTACACGTAATCACATATCG
95578165 GAATCCTATG
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.03
43 30 0.44
44 34 0.50
45 2 0.03
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
ACCAACGTCCCAGATGTGGTCTTACACGTAATCACATATCGAT
Found at i:95581077 original size:48 final size:49
Alignment explanation
Indices: 95580997--95581142 Score: 161
Period size: 50 Copynumber: 3.0 Consensus size: 49
95580987 TCACATAATA
* * * * *
95580997 TGATGCCAACGCCATATCCCAGATATGGTCTTATATGGGATCACCA-CT-
1 TGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC-CCATATG
* * *
95581045 TGATGCCAATGCCATGTCCCAAACATGATCTTACATGGGATCTCATATG
1 TGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCCCATATG
* * *
95581094 TCGATGTCAATGCCATGTCCCAGACATGGTCTTACATGAGATCTCATAT
1 T-GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCCCATAT
95581143 CAACGCCATA
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
47 2 0.02
48 37 0.45
49 1 0.01
50 43 0.52
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (49 bp):
TGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCCCATATG
Found at i:95582649 original size:20 final size:19
Alignment explanation
Indices: 95582586--95582645 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 19
95582576 TAATTTTAAT
* *
95582586 TAAAATAT-AAAAAAAATA
1 TAAAATATCATAAAAATTA
*
95582604 TAAAA-ATCATAAAATTTA
1 TAAAATATCATAAAAATTA
*
95582622 TAGAATATCATAAAAATTA
1 TAAAATATCATAAAAATTA
95582641 TAAAA
1 TAAAA
95582646 ATATTTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
17 2 0.06
18 16 0.47
19 16 0.47
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (19 bp):
TAAAATATCATAAAAATTA
Found at i:95582813 original size:20 final size:21
Alignment explanation
Indices: 95582788--95582846 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 21
95582778 CTATGAAAAA
95582788 TAAAAAATTATGAAA-ATATT
1 TAAAAAATTATGAAATATATT
* *
95582808 TAAAAATTTA-GAAATTTATT
1 TAAAAAATTATGAAATATATT
*
95582828 TAAAATATTAT-AAATATAT
1 TAAAAAATTATGAAATATAT
95582847 ATAGAAAAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
19 4 0.12
20 28 0.88
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (21 bp):
TAAAAAATTATGAAATATATT
Found at i:95582814 original size:19 final size:21
Alignment explanation
Indices: 95582790--95582848 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 21
95582780 ATGAAAAATA
95582790 AAAAATTAT-GAAA-ATATTT
1 AAAAATTATAGAAATATATTT
*
95582809 AAAAATT-TAGAAATTTATTT
1 AAAAATTATAGAAATATATTT
95582829 AAAATATTATA-AATATATAT
1 AAAA-ATTATAGAA-ATATAT
95582849 AGAAAAGTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
18 1 0.03
19 11 0.33
20 9 0.27
21 5 0.15
22 7 0.21
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (21 bp):
AAAAATTATAGAAATATATTT
Found at i:95582936 original size:20 final size:21
Alignment explanation
Indices: 95582911--95582949 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
95582901 TATTCAAAAA
*
95582911 ATATAAAAT-TACAAAAATAT
1 ATATAAAATATAAAAAAATAT
95582931 ATATAAAATATAAAAAAAT
1 ATATAAAATATAAAAAAAT
95582950 GTCTATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (21 bp):
ATATAAAATATAAAAAAATAT
Found at i:95583224 original size:9 final size:9
Alignment explanation
Indices: 95583210--95583334 Score: 54
Period size: 10 Copynumber: 13.1 Consensus size: 9
95583200 TTTTCAAATA
95583210 TTTTTAATT
1 TTTTTAATT
95583219 TTTTTAAATT
1 TTTTT-AATT
* **
95583229 TTTATGCTT
1 TTTTTAATT
* **
95583238 TTTATGTTT
1 TTTTTAATT
95583247 TTTTATAATAT
1 TTTT-TAAT-T
95583258 TTTGTTAATT
1 TTT-TTAATT
* **
95583268 TTATTAAAA
1 TTTTTAATT
*
95583277 TTTTTAATA
1 TTTTTAATT
*
95583286 ATTTTAA-T
1 TTTTTAATT
*
95583294 TTTTTATACT
1 TTTTTA-ATT
*
95583304 TTTTTACAAT
1 TTTTTA-ATT
95583314 TTTTTATATT
1 TTTTTA-ATT
95583324 TTTTATAATT
1 TTTT-TAATT
95583334 T
1 T
95583335 ATATTTATTT
Statistics
Matches: 90, Mismatches: 19, Indels: 13
0.74 0.16 0.11
Matches are distributed among these distances:
8 5 0.06
9 36 0.40
10 38 0.42
11 10 0.11
12 1 0.01
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (9 bp):
TTTTTAATT
Found at i:95583316 original size:20 final size:19
Alignment explanation
Indices: 95583291--95583334 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
95583281 TAATAATTTT
95583291 AATTTTTTATACTTTTTTAC
1 AATTTTTTATA-TTTTTTAC
*
95583311 AATTTTTTATATTTTTTAT
1 AATTTTTTATATTTTTTAC
95583330 AATTT
1 AATTT
95583335 ATATTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (19 bp):
AATTTTTTATATTTTTTAC
Found at i:95583333 original size:45 final size:45
Alignment explanation
Indices: 95583276--95583479 Score: 161
Period size: 45 Copynumber: 4.5 Consensus size: 45
95583266 TTTTATTAAA
* *
95583276 ATTTTTAATAATTTTA-ATTTTTTATACTTTTTTACAATTTTTTAT
1 ATTTTTTATAATTTTATATTTTTTATACTTTTATA-AATTTTTTAT
* * *
95583321 ATTTTTTATAA-TTTATATTTATTTATA-TTTTTTGTAATTTTTAAT
1 ATTTTTTATAATTTTATATTT-TTTATACTTTTAT-AAATTTTTTAT
*** * **
95583366 AAAATTTATAATTTATATATTTTTT-TCAATTTTAATAAATTTTACA-
1 ATTTTTTATAATTT-TATATTTTTTAT-ACTTTT-ATAAATTTTTTAT
* * * *
95583412 ATTTTCTAT-ATTTTATAATTTTTGTAC-TTTATAATTTTTTTAT
1 ATTTTTTATAATTTTATATTTTTTATACTTTTATAAATTTTTTAT
95583455 ATTTTTTATAATTTCTATATTTTTT
1 ATTTTTTATAATTT-TATATTTTTT
95583480 TATGATTTTA
Statistics
Matches: 126, Mismatches: 21, Indels: 24
0.74 0.12 0.14
Matches are distributed among these distances:
42 9 0.07
43 11 0.09
44 18 0.14
45 52 0.41
46 17 0.13
47 18 0.14
48 1 0.01
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (45 bp):
ATTTTTTATAATTTTATATTTTTTATACTTTTATAAATTTTTTAT
Found at i:95583335 original size:26 final size:26
Alignment explanation
Indices: 95583306--95583360 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
95583296 TTTATACTTT
95583306 TTTACAATTT-TTTATATTTTTTATAA
1 TTTA-AATTTATTTATATTTTTTATAA
* *
95583332 TTTATATTTATTTATATTTTTTGTAA
1 TTTAAATTTATTTATATTTTTTATAA
95583358 TTT
1 TTT
95583361 TTAATAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (26 bp):
TTTAAATTTATTTATATTTTTTATAA
Found at i:95583337 original size:16 final size:17
Alignment explanation
Indices: 95583316--95583347 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
95583306 TTTACAATTT
95583316 TTTATATTT-TTTATAA
1 TTTATATTTATTTATAA
95583332 TTTATATTTATTTATA
1 TTTATATTTATTTATA
95583348 TTTTTTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTATATTTATTTATAA
Found at i:95583409 original size:81 final size:81
Alignment explanation
Indices: 95583275--95583464 Score: 181
Period size: 81 Copynumber: 2.3 Consensus size: 81
95583265 ATTTTATTAA
* * ** *
95583275 AATTTTTAATAATTTTAATTTTTTATACTTTTTTACAATTTTTTATATTTTTTATAA-TTTATAT
1 AATTTTTAATAATTTTAATTTTATATACTTTTTTACAATTTTTAATAAATTTTACAATTTTATAT
* *
95583339 TTATTTATATTTTTTGT
66 AT-TTTATAATTTTTGT
* *
95583356 AATTTTTAATAAAATTTATAA-TTTATATA-TTTTTTTCAA-TTTTAATAAATTTTACAATTTTC
1 AATTTTTAAT--AATTT-TAATTTTATATACTTTTTTACAATTTTTAATAAATTTTACAATTTTA
95583418 TATATTTTATAATTTTTGT
63 TATATTTTATAATTTTTGT
* * ** *
95583437 ACTTTATAATTTTTTTATATTTTTTATA
1 AATTTTTAATAATTTTA-ATTTTATATA
95583465 ATTTCTATAT
Statistics
Matches: 89, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
78 2 0.02
79 4 0.04
80 7 0.08
81 45 0.51
82 16 0.18
83 12 0.13
84 3 0.03
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (81 bp):
AATTTTTAATAATTTTAATTTTATATACTTTTTTACAATTTTTAATAAATTTTACAATTTTATAT
ATTTTATAATTTTTGT
Found at i:95583434 original size:9 final size:9
Alignment explanation
Indices: 95583189--95583478 Score: 109
Period size: 9 Copynumber: 31.6 Consensus size: 9
95583179 AAAATAGTTT
95583189 TTTTTATAA
1 TTTTTATAA
95583198 CTTTTTCA-AA
1 -TTTTT-ATAA
95583208 TATTTT-TAA
1 T-TTTTATAA
*
95583217 TTTTTTTAAA
1 TTTTTAT-AA
**
95583227 TTTTTATGC
1 TTTTTATAA
**
95583236 TTTTTATGTT
1 TTTTTAT-AA
95583246 TTTTTATAA
1 TTTTTATAA
*
95583255 TATTTTGTTAA
1 T-TTTT-ATAA
*
95583266 TTTTATTAAAA
1 -TTT-TTATAA
95583277 TTTTTAATAA
1 TTTTT-ATAA
*
95583287 -TTTTA-AT
1 TTTTTATAA
*
95583294 TTTTTATACT
1 TTTTTATA-A
*
95583304 TTTTTACAA
1 TTTTTATAA
*
95583313 TTTTTTATAT
1 -TTTTTATAA
95583323 TTTTTATAA
1 TTTTTATAA
*
95583332 --TTTATAT
1 TTTTTATAA
*
95583339 TTATTTATAT
1 TT-TTTATAA
*
95583349 TTTTTGTAA
1 TTTTTATAA
95583358 TTTTTAATAA
1 TTTTT-ATAA
**
95583368 AATTTATAA
1 TTTTTATAA
*
95583377 TTTATAT-A
1 TTTTTATAA
*
95583385 TTTTTTTCAA
1 TTTTTAT-AA
*
95583395 TTTTAATAA
1 TTTTTATAA
* *
95583404 ATTTTACAA
1 TTTTTATAA
95583413 TTTTCTAT-A
1 TTTT-TATAA
95583422 -TTTTATAA
1 TTTTTATAA
*
95583430 TTTTTGT-A
1 TTTTTATAA
*
95583438 -CTTTATAA
1 TTTTTATAA
*
95583446 TTTTTTTATAT
1 --TTTTTATAA
95583457 TTTTTATAA
1 TTTTTATAA
*
95583466 TTTCTAT-A
1 TTTTTATAA
95583474 TTTTT
1 TTTTT
95583479 TTATGATTTT
Statistics
Matches: 209, Mismatches: 43, Indels: 58
0.67 0.14 0.19
Matches are distributed among these distances:
7 14 0.07
8 27 0.13
9 77 0.37
10 74 0.35
11 14 0.07
12 3 0.01
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:95583452 original size:27 final size:28
Alignment explanation
Indices: 95583422--95583488 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
95583412 ATTTTCTATA
* *
95583422 TTTTATAATTTTTGTACTTTATA-ATTT
1 TTTTATAATTTTTATAATTTATATATTT
* *
95583449 TTTTATATTTTTTATAATTTCTATATTT
1 TTTTATAATTTTTATAATTTATATATTT
*
95583477 TTTTATGATTTT
1 TTTTATAATTTT
95583489 ACTTTAAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 19 0.58
28 14 0.42
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (28 bp):
TTTTATAATTTTTATAATTTATATATTT
Found at i:95583455 original size:11 final size:10
Alignment explanation
Indices: 95583439--95583488 Score: 50
Period size: 9 Copynumber: 5.0 Consensus size: 10
95583429 ATTTTTGTAC
95583439 TTTATAATTTT
1 TTTAT-ATTTT
95583450 TTTATA-TTT
1 TTTATATTTT
*
95583459 TTTATA-ATT
1 TTTATATTTT
*
95583468 TCTATATTTT
1 TTTATATTTT
95583478 TTTATGATTTT
1 TTTAT-ATTTT
95583489 ACTTTAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 16 0.48
10 7 0.21
11 10 0.30
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (10 bp):
TTTATATTTT
Found at i:95583464 original size:20 final size:19
Alignment explanation
Indices: 95583439--95583488 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
95583429 ATTTTTGTAC
*
95583439 TTTATAATTTTTTTATATTT
1 TTTATAATTTTTATAT-TTT
*
95583459 TTTATAATTTCTATATTTT
1 TTTATAATTTTTATATTTT
*
95583478 TTTATGATTTT
1 TTTATAATTTT
95583489 ACTTTAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTATAATTTTTATATTTT
Found at i:95584957 original size:14 final size:15
Alignment explanation
Indices: 95584940--95584968 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
95584930 GAGTATGGTA
95584940 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
95584954 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
95584969 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:95585395 original size:26 final size:26
Alignment explanation
Indices: 95585333--95585395 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
95585323 ATTTGAGTGC
* *
95585333 CAAATACTCACCATTTATTTATTAAT
1 CAAACACTCATCATTTATTTATTAAT
*
95585359 CAAATACTCATCATTTATTTATTAAT
1 CAAACACTCATCATTTATTTATTAAT
*
95585385 CAAACATTCAT
1 CAAACACTCAT
95585396 AATATAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.41
Consensus pattern (26 bp):
CAAACACTCATCATTTATTTATTAAT
Found at i:95593597 original size:48 final size:48
Alignment explanation
Indices: 95593512--95593745 Score: 270
Period size: 48 Copynumber: 4.8 Consensus size: 48
95593502 ATACTAGGGG
* * * *
95593512 TATGCGAGCCAGTGTAAGACCATGTTTGGAACATGGCACCGGCATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCATTTA
* * *
95593560 TATGAGAGCTAGTATAAGACCATGTTTGGAACATGGCATCGGCATTTG
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCATTTA
* * * **
95593608 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCATTTA
* ** *
95593656 TATGTGAGCTAAAGTAAGACCATGTTTGGAACATGGCATCAGCATCAATA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCAT--TTA
* * * *
95593706 TATGAGAGCTTGTGTAAAACCATGTCTGGGACATGGCATC
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATC
95593746 GACATCTTAC
Statistics
Matches: 156, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
48 122 0.78
50 34 0.22
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCATTTA
Found at i:95601199 original size:48 final size:48
Alignment explanation
Indices: 95601145--95601417 Score: 287
Period size: 48 Copynumber: 5.6 Consensus size: 48
95601135 TATGTAAGCC
* *
95601145 AGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGACCTCTATATGAGAGCT
* * * *
95601193 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCGATATGTGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGACCTCTATATGAGAGCT
* * * *
95601241 AGTGCAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGACCTCTATATGAGAGCT
* * * * *
95601289 AGTGTAAGACTATGTCTGGGACATGGCATCGACCTCAATATGTGAGCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGACCTCTATATGAGAGCT
* * * * ** * *
95601337 AGAGTAAGGCAATGTTTAGAACATGGCATCGGCACCGGTATCTGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATC-G-ACCTCTATATGAGAGCT
* *
95601387 AGTGTAAGACTATGTCTAGG-ACATGGCATCG
1 AGTGTAAGACCATGT-TTGGAACATGGCATCG
95601418 GCATCTTACC
Statistics
Matches: 184, Mismatches: 38, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
48 147 0.80
49 2 0.01
50 33 0.18
51 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGACCTCTATATGAGAGCT
Found at i:95601313 original size:96 final size:96
Alignment explanation
Indices: 95601135--95601419 Score: 390
Period size: 96 Copynumber: 2.9 Consensus size: 96
95601125 ATACTAGGGT
* *
95601135 TATGTAAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
* * * *
95601200 GACCATGTTTGGAACATGGCATCGGCCTCGA
66 GACTATGTCTGGGACATGGCATCGGCCTCAA
*
95601231 TATGTGAGCCAGTGCAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
*
95601296 GACTATGTCTGGGACATGGCATCGACCTCAA
66 GACTATGTCTGGGACATGGCATCGGCCTCAA
* * * * * ** * *
95601327 TATGTGAGCTAGAGTAAGGCAATGTTTAGAACATGGCATCGGCACCGGTATCTGAGAGCCAGTGT
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCA--TTTATATGAGAGCTAGTGT
*
95601392 AAGACTATGTCTAGGACATGGCATCGGC
64 AAGACTATGTCTGGGACATGGCATCGGC
95601420 ATCTTACCCT
Statistics
Matches: 167, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
96 126 0.75
98 41 0.25
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (96 bp):
TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
GACTATGTCTGGGACATGGCATCGGCCTCAA
Found at i:95608120 original size:28 final size:28
Alignment explanation
Indices: 95608080--95608140 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
95608070 CCATCAAAGA
95608080 TAGATGAAAGATCATCTTAATTGATGAT
1 TAGATGAAAGATCATCTTAATTGATGAT
95608108 TAGATGAAAGATCATCTTAATTGATGAT
1 TAGATGAAAGATCATCTTAATTGATGAT
*
95608136 GAGAT
1 TAGAT
95608141 AAAATTATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (28 bp):
TAGATGAAAGATCATCTTAATTGATGAT
Found at i:95608432 original size:12 final size:12
Alignment explanation
Indices: 95608415--95608440 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
95608405 TAACTTCAAA
95608415 ATAATTAATTAT
1 ATAATTAATTAT
95608427 ATAATTAATTAT
1 ATAATTAATTAT
95608439 AT
1 AT
95608441 CAGAGGTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATAATTAATTAT
Found at i:95608483 original size:25 final size:25
Alignment explanation
Indices: 95608454--95608501 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
95608444 AGGTCATTAT
95608454 AATATA-CTTTTTTAAACATTGTATA
1 AATATAGCTTTTTTAAA-ATTGTATA
*
95608479 AATATAGTTTTTTTAAAATTGTA
1 AATATAGCTTTTTTAAAATTGTA
95608502 CAATAACTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (25 bp):
AATATAGCTTTTTTAAAATTGTATA
Found at i:95612720 original size:6 final size:6
Alignment explanation
Indices: 95612711--95612752 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
95612701 TAATTTAGCC
* *
95612711 ATTTTT ATTTTT ATTTTT A--TTT ATTTTT AGTTTA ATTTTT AT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT AT
95612753 ATTCTAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
4 4 0.13
6 26 0.87
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:95612736 original size:22 final size:22
Alignment explanation
Indices: 95612711--95612752 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
95612701 TAATTTAGCC
* *
95612711 ATTTTTATTTTTATTTTTATTT
1 ATTTTTAGTTTAATTTTTATTT
95612733 ATTTTTAGTTTAATTTTTAT
1 ATTTTTAGTTTAATTTTTAT
95612753 ATTCTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (22 bp):
ATTTTTAGTTTAATTTTTATTT
Found at i:95612748 original size:16 final size:16
Alignment explanation
Indices: 95612714--95612748 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
95612704 TTTAGCCATT
* *
95612714 TTTATTTTTATTTTTA
1 TTTATTTTTAGTTTAA
95612730 TTTATTTTTAGTTTAA
1 TTTATTTTTAGTTTAA
95612746 TTT
1 TTT
95612749 TTATATTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTATTTTTAGTTTAA
Found at i:95618442 original size:46 final size:46
Alignment explanation
Indices: 95618378--95618545 Score: 239
Period size: 46 Copynumber: 3.7 Consensus size: 46
95618368 CAACCTGTGT
* * *
95618378 GTAAGACCATGGTTGAAAGATACCATGGCAACTTGATATGAAATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
* *
95618424 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
*
95618470 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGA
* * *
95618516 GTAAGACCATAGTTGAAAGACACTATGGCA
1 GTAAGACCATGGTTGAAAGATACCATGGCA
95618546 TCACGTCAAA
Statistics
Matches: 110, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 109 0.99
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
Found at i:95618851 original size:23 final size:25
Alignment explanation
Indices: 95618806--95618852 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
95618796 AATAAATATA
*
95618806 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
95618831 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
95618853 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:95623734 original size:45 final size:43
Alignment explanation
Indices: 95623647--95623739 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 43
95623637 NNNNNNNNNN
*
95623647 CCTGCTAGGCTCGAAGCCCGATATCATTTCACCGGCATTATAG
1 CCTGCTAGGCTCGAAGCCCGATATCATCTCACCGGCATTATAG
95623690 CCTGCTAGGCTCGAAAGCCCGAATAGT-ATCTCACCGGCATTATAG
1 CCTGCTAGGCTCG-AAGCCCG-ATA-TCATCTCACCGGCATTATAG
95623735 CCTGC
1 CCTGC
95623740 ATTATAGCCT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
43 13 0.28
44 7 0.15
45 25 0.54
46 1 0.02
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.24
Consensus pattern (43 bp):
CCTGCTAGGCTCGAAGCCCGATATCATCTCACCGGCATTATAG
Found at i:95623743 original size:12 final size:12
Alignment explanation
Indices: 95623726--95623751 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
95623716 TATCTCACCG
95623726 GCATTATAGCCT
1 GCATTATAGCCT
95623738 GCATTATAGCCT
1 GCATTATAGCCT
95623750 GC
1 GC
95623752 TAGGCTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (12 bp):
GCATTATAGCCT
Found at i:95625261 original size:27 final size:27
Alignment explanation
Indices: 95625231--95625309 Score: 76
Period size: 27 Copynumber: 3.1 Consensus size: 27
95625221 TAATTAATTT
95625231 TTATTTCATAATTTAAGCCATTAACTA
1 TTATTTCATAATTTAAGCCATTAACTA
* *** * *
95625258 TTA--TAAT-A-TTAATTAATTAATTT
1 TTATTTCATAATTTAAGCCATTAACTA
95625281 TTATTTCATAATTTAAGCCATTAACTA
1 TTATTTCATAATTTAAGCCATTAACTA
95625308 TT
1 TT
95625310 GTAATATTAA
Statistics
Matches: 36, Mismatches: 12, Indels: 8
0.64 0.21 0.14
Matches are distributed among these distances:
23 13 0.36
24 1 0.03
25 6 0.17
26 1 0.03
27 15 0.42
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (27 bp):
TTATTTCATAATTTAAGCCATTAACTA
Found at i:95625291 original size:50 final size:50
Alignment explanation
Indices: 95625220--95625320 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
95625210 TTTTCTTATT
95625220 TTAATTAATTTTTATTTCATAATTTAAGCCATTAACTATTATAATATTAA
1 TTAATTAATTTTTATTTCATAATTTAAGCCATTAACTATTATAATATTAA
*
95625270 TTAATTAATTTTTATTTCATAATTTAAGCCATTAACTATTGTAATATTAA
1 TTAATTAATTTTTATTTCATAATTTAAGCCATTAACTATTATAATATTAA
95625320 T
1 T
95625321 ATATAATGCA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (50 bp):
TTAATTAATTTTTATTTCATAATTTAAGCCATTAACTATTATAATATTAA
Found at i:95625296 original size:23 final size:23
Alignment explanation
Indices: 95625219--95625296 Score: 61
Period size: 23 Copynumber: 3.2 Consensus size: 23
95625209 CTTTTCTTAT
95625219 TTTAATTAATTTTTATTTCATAA
1 TTTAATTAATTTTTATTTCATAA
* * *
95625242 TTTAAGCCATTAACTATTATAAT-ATTAA
1 TTT-A---ATTAATTTTTAT-TTCA-TAA
95625270 -TTAATTAATTTTTATTTCATAA
1 TTTAATTAATTTTTATTTCATAA
95625292 TTTAA
1 TTTAA
95625297 GCCATTAACT
Statistics
Matches: 41, Mismatches: 6, Indels: 16
0.65 0.10 0.25
Matches are distributed among these distances:
22 4 0.10
23 18 0.44
24 1 0.02
26 1 0.02
27 13 0.32
28 4 0.10
ACGTcount: A:0.38, C:0.06, G:0.01, T:0.54
Consensus pattern (23 bp):
TTTAATTAATTTTTATTTCATAA
Found at i:95627197 original size:47 final size:47
Alignment explanation
Indices: 95627143--95627276 Score: 169
Period size: 47 Copynumber: 2.9 Consensus size: 47
95627133 TATCTGCTCG
* *
95627143 ACCAGTGGTTTATCCACAATGTATTTTAGTCGGCAGTCACCTGCTTA
1 ACCAGTGGTTTATCCACAACGTATTTTAGTCGGCAGTCACCTCCTTA
* * * * * *
95627190 ACTAGTGGTTTATCCACAACGTATCTTAGTCGACAATCATCTCCTTG
1 ACCAGTGGTTTATCCACAACGTATTTTAGTCGGCAGTCACCTCCTTA
* * *
95627237 ACCAATGGTTTATCCACAACGTATTTTAGTCAGTAGTCAC
1 ACCAGTGGTTTATCCACAACGTATTTTAGTCGGCAGTCAC
95627277 TTGATCGAGT
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (47 bp):
ACCAGTGGTTTATCCACAACGTATTTTAGTCGGCAGTCACCTCCTTA
Found at i:95629227 original size:57 final size:57
Alignment explanation
Indices: 95629139--95629254 Score: 146
Period size: 57 Copynumber: 2.0 Consensus size: 57
95629129 ATTGACCTCA
** * *
95629139 TTATAGAAAGGATTTAGTCTGGACTGGTAATCC-AATATAAGCCCTCT-TGAGCATATG
1 TTATAGAAAGGATTTAACCCGGACGGGTAATCCTAAT-TAAGCCCT-TATGAGCATATG
* *
95629196 TTATAGATAGGATTTAACCCGGACGGGTAATCCTAATTAAGCTCTTATGAGCATATG
1 TTATAGAAAGGATTTAACCCGGACGGGTAATCCTAATTAAGCCCTTATGAGCATATG
95629253 TT
1 TT
95629255 GGAAACAGGA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
56 1 0.02
57 47 0.92
58 3 0.06
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.33
Consensus pattern (57 bp):
TTATAGAAAGGATTTAACCCGGACGGGTAATCCTAATTAAGCCCTTATGAGCATATG
Found at i:95629265 original size:57 final size:57
Alignment explanation
Indices: 95629159--95629268 Score: 134
Period size: 57 Copynumber: 1.9 Consensus size: 57
95629149 GATTTAGTCT
* * * *
95629159 GGACTGGTAATCCAATATAAGCCCTCTTGAGCATATGTTATAGATAGGATTTAACCC
1 GGACGGGTAATCCAATATAAGCCCTCTTGAGCATATGTTAGAAACAGGATTTAACCC
* *
95629216 GGACGGGTAATCCTAAT-TAAGCTCT-TATGAGCATATGTTGGAAACAGGATTTA
1 GGACGGGTAATCC-AATATAAGCCCTCT-TGAGCATATGTTAGAAACAGGATTTA
95629269 GCTTGGACAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
56 1 0.02
57 41 0.91
58 3 0.07
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (57 bp):
GGACGGGTAATCCAATATAAGCCCTCTTGAGCATATGTTAGAAACAGGATTTAACCC
Found at i:95631502 original size:14 final size:14
Alignment explanation
Indices: 95631483--95631516 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
95631473 TCTTTCATAT
95631483 TATTTCAAAATCCA
1 TATTTCAAAATCCA
95631497 TATTTCAAAATCCA
1 TATTTCAAAATCCA
*
95631511 AATTTC
1 TATTTC
95631517 TTTCCGAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (14 bp):
TATTTCAAAATCCA
Found at i:95636171 original size:9 final size:9
Alignment explanation
Indices: 95636157--95636182 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
95636147 GTCCTTAATT
95636157 CACAAAATA
1 CACAAAATA
95636166 CACAAAATA
1 CACAAAATA
95636175 CACAAAAT
1 CACAAAAT
95636183 CTACTTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.23, G:0.00, T:0.12
Consensus pattern (9 bp):
CACAAAATA
Found at i:95646260 original size:25 final size:25
Alignment explanation
Indices: 95646231--95646278 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
95646221 TTATAACATG
* * *
95646231 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
95646256 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
95646279 GCTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:95646362 original size:11 final size:11
Alignment explanation
Indices: 95646326--95646381 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
95646316 CATGGTATGT
95646326 ATGATATGCAC
1 ATGATATGCAC
* *
95646337 ATGACATG--T
1 ATGATATGCAC
95646346 ATGATATGCAC
1 ATGATATGCAC
*
95646357 ATGATATG--T
1 ATGATATGCAC
95646366 ATGATATGCAC
1 ATGATATGCAC
95646377 ATGAT
1 ATGAT
95646382 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:95646381 original size:20 final size:20
Alignment explanation
Indices: 95646315--95646381 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
95646305 ATTTTGATAA
*
95646315 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
95646335 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
95646355 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
95646375 ACATGAT
1 ACATGAT
95646382 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:95646522 original size:25 final size:24
Alignment explanation
Indices: 95646430--95646526 Score: 128
Period size: 23 Copynumber: 4.0 Consensus size: 24
95646420 GGAGGAAGTG
95646430 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
95646454 T-AAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
95646477 TAAAAAAGGGCTT-TGCCCCAGTTAT
1 T--AAAAGGGCTTATGCCCCAGTTAT
*
95646502 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
95646527 ATGATAAAGT
Statistics
Matches: 66, Mismatches: 1, Indels: 11
0.85 0.01 0.14
Matches are distributed among these distances:
23 29 0.44
24 7 0.11
25 21 0.32
26 9 0.14
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:95646755 original size:31 final size:31
Alignment explanation
Indices: 95646720--95646783 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
95646710 CGTTTACAGT
*
95646720 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
95646751 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
95646782 AA
1 AA
95646784 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:95652880 original size:11 final size:11
Alignment explanation
Indices: 95652844--95652899 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
95652834 CATGGTATGT
95652844 ATGATATGCAC
1 ATGATATGCAC
* *
95652855 ATGACATG--T
1 ATGATATGCAC
95652864 ATGATATGCAC
1 ATGATATGCAC
*
95652875 ATGATATG--T
1 ATGATATGCAC
95652884 ATGATATGCAC
1 ATGATATGCAC
95652895 ATGAT
1 ATGAT
95652900 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:95652899 original size:20 final size:20
Alignment explanation
Indices: 95652833--95652899 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
95652823 ATTTTGATAG
*
95652833 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
95652853 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
95652873 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
95652893 ACATGAT
1 ACATGAT
95652900 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:95652980 original size:23 final size:23
Alignment explanation
Indices: 95652950--95653067 Score: 211
Period size: 23 Copynumber: 5.1 Consensus size: 23
95652940 AGGAAGTGAA
95652950 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
95652973 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
95652997 AAAGGGCTTATGCCCCAGTTA-T
1 AAAGGGCTTATGCCCCAGTTATT
95653019 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
95653042 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
95653065 AAA
1 AAA
95653068 NNNNNNNNTA
Statistics
Matches: 91, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
22 21 0.23
23 49 0.54
24 21 0.23
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:95653127 original size:31 final size:31
Alignment explanation
Indices: 95653089--95653152 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
95653079 CGTTTACAGT
** *
95653089 AAAGGCTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCAACCCAGTAATATGAAATATGA
**
95653120 AAAGGCTTCAACCCAGTGTTATGAAATATGA
1 AAAGGCTTCAACCCAGTAATATGAAATATGA
95653151 AA
1 AA
95653153 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAACCCAGTAATATGAAATATGA
Found at i:95654225 original size:39 final size:39
Alignment explanation
Indices: 95654162--95654254 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 39
95654152 TTATCTCAGT
95654162 ATCGCACACTTAGTGCCTCATATAGCCAAAGCT-ATTCA
1 ATCGCACACTTAGTGCCTCATATAGCCAAAGCTGATTCA
* * *
95654200 ACTCGCACACTTAGTG-CT-ATTTATAGCCGAAGCTGTTTGA
1 A-TCGCACACTTAGTGCCTCA--TATAGCCAAAGCTGATTCA
95654240 ATCGCACACTTAGTG
1 ATCGCACACTTAGTG
95654255 TCGAACATAG
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
37 1 0.02
38 3 0.06
39 40 0.83
40 4 0.08
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (39 bp):
ATCGCACACTTAGTGCCTCATATAGCCAAAGCTGATTCA
Found at i:95662128 original size:27 final size:27
Alignment explanation
Indices: 95662097--95662274 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
95662087 TAAATTGTAC
95662097 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
95662124 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
95662150 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
95662178 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
95662206 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
95662233 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
95662260 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
95662275 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Done.