Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 131 of 193
Found at i:41388887 original size:3 final size:3
Alignment explanation
Indices: 41388829--41388871 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
41388819 TAGTTATTGT
** *
41388829 TAA TAA GTAA TAA TAA TAA TAA TAA TGG CAA TAA TAA TAA TAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
41388872 ACGGGGTTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:41388915 original size:16 final size:15
Alignment explanation
Indices: 41388882--41388919 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
41388872 ACGGGGTTAA
41388882 TAATAAATATAATAT
1 TAATAAATATAATAT
41388897 TAATATAAT-TAATTAT
1 TAATA-AATATAA-TAT
41388913 TAATAAA
1 TAATAAA
41388920 AAAGGAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATAAATATAATAT
Found at i:41390104 original size:30 final size:31
Alignment explanation
Indices: 41390059--41390340 Score: 143
Period size: 30 Copynumber: 9.5 Consensus size: 31
41390049 CCTAAACTGT
**
41390059 TCAAAAATTGTATTTTGACCCTCG-AAGTTC
1 TCAAAAATTACATTTTGACCCTCGAAAGTTC
* *
41390089 TTC-AAAATTACATTTTGACAC-CGAAACTTC
1 -TCAAAAATTACATTTTGACCCTCGAAAGTTC
** *
41390119 -CAAAAATTACATTTTTGACTAT-GAAACTTC
1 TCAAAAATTACA-TTTTGACCCTCGAAAGTTC
41390149 T-AAAAATTACATTTTGA-CCTCGAAAGTTC
1 TCAAAAATTACATTTTGACCCTCGAAAGTTC
* * *
41390178 -CAAAAATTCCATTTTTGACCC-CAAAACTTC
1 TCAAAAATTACA-TTTTGACCCTCGAAAGTTC
* * * *
41390208 -CAAAAATTACTTTTTTACCC-CCAAACTTC
1 TCAAAAATTACATTTTGACCCTCGAAAGTTC
* * *
41390237 -CAAAAATT-CTATTTTTTACCCT-AAAACTTC
1 TCAAAAATTAC-A-TTTTGACCCTCGAAAGTTC
* ** * *
41390267 -CAAAAATTATATTTTTTCCCCCG-AACTTC
1 TCAAAAATTACATTTTGACCCTCGAAAGTTC
* * *
41390296 -CAAAAATTCCATTTTTGA-CCTCAAAACTTC
1 TCAAAAATTACA-TTTTGACCCTCGAAAGTTC
*
41390326 -CAAAAATTTCATTTT
1 TCAAAAATTACATTTT
41390341 TGATCCAGAA
Statistics
Matches: 206, Mismatches: 29, Indels: 34
0.77 0.11 0.13
Matches are distributed among these distances:
28 3 0.01
29 87 0.42
30 112 0.54
31 4 0.02
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (31 bp):
TCAAAAATTACATTTTGACCCTCGAAAGTTC
Found at i:41390125 original size:29 final size:29
Alignment explanation
Indices: 41390092--41390375 Score: 274
Period size: 29 Copynumber: 9.7 Consensus size: 29
41390082 GAAGTTCTTC
41390092 AAAATTACA-TTTTGACACCGAAACTTCCA
1 AAAATTACATTTTTGAC-CCGAAACTTCCA
** *
41390121 AAAATTACATTTTTGACTATGAAACTTCTA
1 AAAATTACATTTTTGAC-CCGAAACTTCCA
*
41390151 AAAATTACA-TTTTGACCTCGAAAGTTCCA
1 AAAATTACATTTTTGACC-CGAAACTTCCA
* *
41390180 AAAATTCCATTTTTGACCCCAAAACTTCCA
1 AAAATTACATTTTTGA-CCCGAAACTTCCA
* *
41390210 AAAATTAC-TTTTTTACCCCCAAACTTCCA
1 AAAATTACATTTTTGA-CCCGAAACTTCCA
* *
41390239 AAAATT-CTATTTTTTACCCTAAAACTTCCA
1 AAAATTAC-ATTTTTGACCC-GAAACTTCCA
* **
41390269 AAAATTATATTTTTTCCCCCG-AACTTCCA
1 AAAATTACA-TTTTTGACCCGAAACTTCCA
* *
41390298 AAAATTCCATTTTTGACCTCAAAACTTCCA
1 AAAATTACATTTTTGACC-CGAAACTTCCA
* *
41390328 AAAATTTCATTTTTGATCC-AGAACTTCCA
1 AAAATTACATTTTTGACCCGA-AACTTCCA
*
41390357 AAAATTCCATTTTTGACCC
1 AAAATTACATTTTTGACCC
41390376 TGAGACTCTC
Statistics
Matches: 215, Mismatches: 28, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
28 9 0.04
29 102 0.47
30 94 0.44
31 10 0.05
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (29 bp):
AAAATTACATTTTTGACCCGAAACTTCCA
Found at i:41390133 original size:59 final size:59
Alignment explanation
Indices: 41390092--41390378 Score: 262
Period size: 59 Copynumber: 4.9 Consensus size: 59
41390082 GAAGTTCTTC
**
41390092 AAAATTACATTTTGACAC-CGAAACTTCCAAAAATTACATTTTTGACTATGAAACTTCTA
1 AAAATTACATTTTGAC-CTCGAAACTTCCAAAAATTACATTTTTGACCCTGAAACTTCTA
* * ** *
41390151 AAAATTACATTTTGACCTCGAAAGTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCA
1 AAAATTACATTTTGACCTCGAAACTTCCAAAAATTACATTTTTGACCCTGAAACTTCTA
* * * * * * *
41390210 AAAATTACTTTTTTACCCCCAAACTTCCAAAAATT-CTATTTTTTACCCTAAAACTTCCA
1 AAAATTACATTTTGACCTCGAAACTTCCAAAAATTAC-ATTTTTGACCCTGAAACTTCTA
* ** * * * *
41390269 AAAATTATATTTTTTCCCCCG-AACTTCCAAAAATTCCATTTTTGA-CCTCAAAACTTCCA
1 AAAATTACA-TTTTGACCTCGAAACTTCCAAAAATTACATTTTTGACCCT-GAAACTTCTA
* * *
41390328 AAAATTTCATTTTTGA--TCCAGAACTTCCAAAAATTCCATTTTTGACCCTGA
1 AAAATTACA-TTTTGACCTCGA-AACTTCCAAAAATTACATTTTTGACCCTGA
41390379 GACTCTCGAA
Statistics
Matches: 194, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
57 1 0.01
58 5 0.03
59 175 0.90
60 13 0.07
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (59 bp):
AAAATTACATTTTGACCTCGAAACTTCCAAAAATTACATTTTTGACCCTGAAACTTCTA
Found at i:41390341 original size:30 final size:30
Alignment explanation
Indices: 41390092--41390375 Score: 292
Period size: 30 Copynumber: 9.6 Consensus size: 30
41390082 GAAGTTCTTC
* *
41390092 AAAATTACA-TTTTGACACCGAAACTTCCA
1 AAAATTACATTTTTGACCCCAAAACTTCCA
**** *
41390121 AAAATTACATTTTTGACTATGAAACTTCTA
1 AAAATTACATTTTTGACCCCAAAACTTCCA
* * *
41390151 AAAATTACA-TTTTGACCTCGAAAGTTCCA
1 AAAATTACATTTTTGACCCCAAAACTTCCA
*
41390180 AAAATTCCATTTTTGACCCCAAAACTTCCA
1 AAAATTACATTTTTGACCCCAAAACTTCCA
* *
41390210 AAAATTAC-TTTTTTACCCCCAAACTTCCA
1 AAAATTACATTTTTGACCCCAAAACTTCCA
* *
41390239 AAAATT-CTATTTTTTACCCTAAAACTTCCA
1 AAAATTAC-ATTTTTGACCCCAAAACTTCCA
* * **
41390269 AAAATTATATTTTT-TCCCCCGAACTTCCA
1 AAAATTACATTTTTGACCCCAAAACTTCCA
* *
41390298 AAAATTCCATTTTTGACCTCAAAACTTCCA
1 AAAATTACATTTTTGACCCCAAAACTTCCA
* * *
41390328 AAAATTTCATTTTTGA-TCCAGAACTTCCA
1 AAAATTACATTTTTGACCCCAAAACTTCCA
*
41390357 AAAATTCCATTTTTGACCC
1 AAAATTACATTTTTGACCC
41390376 TGAGACTCTC
Statistics
Matches: 213, Mismatches: 35, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
28 1 0.00
29 105 0.49
30 107 0.50
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (30 bp):
AAAATTACATTTTTGACCCCAAAACTTCCA
Found at i:41402499 original size:21 final size:21
Alignment explanation
Indices: 41402474--41402525 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
41402464 TTTAAGGCAT
*
41402474 TGGTAGGGGTAGTAT-CGCTTC
1 TGGTAGGGGTAGTATGAGC-TC
*
41402495 TGGTAGGGGCAGTATGAGCTC
1 TGGTAGGGGTAGTATGAGCTC
41402516 TGGTAGGGGT
1 TGGTAGGGGT
41402526 CGTGGGGTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.15, C:0.12, G:0.44, T:0.29
Consensus pattern (21 bp):
TGGTAGGGGTAGTATGAGCTC
Found at i:41402883 original size:14 final size:16
Alignment explanation
Indices: 41402847--41402884 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
41402837 TTTCCCAGCG
41402847 GATTTGATGGAGCTTC
1 GATTTGATGGAGCTTC
*
41402863 CATTTGAT-GAG-TTC
1 GATTTGATGGAGCTTC
41402877 GATTTGAT
1 GATTTGAT
41402885 ATGGGAATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 10 0.50
15 3 0.15
16 7 0.35
ACGTcount: A:0.21, C:0.11, G:0.26, T:0.42
Consensus pattern (16 bp):
GATTTGATGGAGCTTC
Found at i:41412838 original size:47 final size:47
Alignment explanation
Indices: 41412773--41412866 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
41412763 TGATATTCAA
41412773 GTAAGATCTCCACAATTAGGTTTTCTTAATAAATGTATTAATGATGT
1 GTAAGATCTCCACAATTAGGTTTTCTTAATAAATGTATTAATGATGT
* *
41412820 GTAAGATCTCCACGATTAGGTTTTTTTAATAAATGTATTAATGATGT
1 GTAAGATCTCCACAATTAGGTTTTCTTAATAAATGTATTAATGATGT
41412867 TAATGAAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (47 bp):
GTAAGATCTCCACAATTAGGTTTTCTTAATAAATGTATTAATGATGT
Found at i:41421682 original size:24 final size:24
Alignment explanation
Indices: 41421655--41421729 Score: 114
Period size: 24 Copynumber: 3.1 Consensus size: 24
41421645 AGTTTGACTC
*
41421655 AAACAAATAAATAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
* *
41421679 AAACAAATAAACAGAATTTATTTG
1 AAACAAATAAACAGAGTTTAATTG
*
41421703 AAACAAATAAACAGAGTTTAACTG
1 AAACAAATAAACAGAGTTTAATTG
41421727 AAA
1 AAA
41421730 TATTATTTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.56, C:0.08, G:0.11, T:0.25
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAATTG
Found at i:41424062 original size:79 final size:79
Alignment explanation
Indices: 41423942--41424139 Score: 288
Period size: 79 Copynumber: 2.5 Consensus size: 79
41423932 GAGCTAAACA
* * * * * *
41423942 CACTTTTGCGGTTTATTCGCTATGCATTAGGTGCCAAGATTTGATGGATATTATTGGTTAATCCA
1 CACTTTTGCGGTTTATCCGCTAGGCACTGGGTGCCAGGATTTGACGGATATTATTGGTTAATCCA
**
41424007 ACTAGAGCTGGGCT
66 ACTAGAGCTACGCT
* *
41424021 CACTTTTGCAGTTTATCCGCTAGGCACTGGGTGCCAGGATTTGACGGATATTGTTGGTTAATCCA
1 CACTTTTGCGGTTTATCCGCTAGGCACTGGGTGCCAGGATTTGACGGATATTATTGGTTAATCCA
41424086 ACTAGAGCTACGCT
66 ACTAGAGCTACGCT
* *
41424100 CACTTTTGCGGTTTATCTGCTAGGTACTGGGTGCCAGGAT
1 CACTTTTGCGGTTTATCCGCTAGGCACTGGGTGCCAGGAT
41424140 CATCGGTTTA
Statistics
Matches: 106, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 106 1.00
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (79 bp):
CACTTTTGCGGTTTATCCGCTAGGCACTGGGTGCCAGGATTTGACGGATATTATTGGTTAATCCA
ACTAGAGCTACGCT
Found at i:41427123 original size:24 final size:24
Alignment explanation
Indices: 41427095--41427153 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
41427085 TAGACTAATA
* *
41427095 AGAGTTTGACTCAAACAAATAAAT
1 AGAGTTTAACTCAAACAAATAAAC
* *
41427119 AGAGTTTAATTTAAACAAATAAAC
1 AGAGTTTAACTCAAACAAATAAAC
41427143 AGAGTTTAACT
1 AGAGTTTAACT
41427154 GAAAGATTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (24 bp):
AGAGTTTAACTCAAACAAATAAAC
Found at i:41432931 original size:52 final size:52
Alignment explanation
Indices: 41432853--41433095 Score: 355
Period size: 52 Copynumber: 4.7 Consensus size: 52
41432843 ATTTCATTTC
41432853 ATTCATATACTCACGATGACACATAGCCA-CTGGACCTCATAATCCATAAAGG
1 ATTCATATACTCACGATGACACATAGCCATC-GGACCTCATAATCCATAAAGG
* * * *
41432905 ATTCATATACTCATGATGGCACATAGCCATCGAACTTCATAATCCATAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCATAAAGG
*
41432957 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCATAAAGG
** * *
41433009 ATTCATATACTCACGATGACACATAGCCATTAGACCT-TTAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCATAAAGG
* * *
41433060 ATTCATTTACTCACGATGACACTTAGTCATCGGACC
1 ATTCATATACTCACGATGACACATAGCCATCGGACC
41433096 CTTTCGTTTA
Statistics
Matches: 173, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
51 44 0.25
52 128 0.74
53 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCATAAAGG
Found at i:41437761 original size:24 final size:24
Alignment explanation
Indices: 41437710--41437764 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
41437700 TCTTTCAGTT
* *
41437710 AAACTCTGTTTATTTGTTTAAATT
1 AAACTCTATTTATTTGTTTAAATC
* *
41437734 AAACTCTATTTATTTGTTTGAGTC
1 AAACTCTATTTATTTGTTTAAATC
41437758 AAACTCT
1 AAACTCT
41437765 TATTAGTCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.49
Consensus pattern (24 bp):
AAACTCTATTTATTTGTTTAAATC
Found at i:41440865 original size:79 final size:79
Alignment explanation
Indices: 41440742--41440925 Score: 271
Period size: 79 Copynumber: 2.3 Consensus size: 79
41440732 AGCACCTAGA
* **
41440742 GCCTAGCAGATAAACCGCAAAAGTGAGCCCAGCTCTATTCGGATTAACCAAAAATATCCGTCAAA
1 GCCTAGCGGATAAACCGCAAAAGTGAGCCCAGCTCTATTCGGATTAACCAAAAATATCCACCAAA
41440807 TCCTGGCACCCAAT
66 TCCTGGCACCCAAT
* *
41440821 GCCTAGCGGATAAACCCCAAAAGTGAGCCCAGCTCTAGTT-GGATTAACCAACAATATCCACCAA
1 GCCTAGCGGATAAACCGCAAAAGTGAGCCCAGCTCTA-TTCGGATTAACCAAAAATATCCACCAA
* *
41440885 ATCCTGGCATCCAGT
65 ATCCTGGCACCCAAT
* *
41440900 GCATAGCGGATAAACTGCAAAAGTGA
1 GCCTAGCGGATAAACCGCAAAAGTGA
41440926 ATCTAGCTCT
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
79 92 0.98
80 2 0.02
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.18
Consensus pattern (79 bp):
GCCTAGCGGATAAACCGCAAAAGTGAGCCCAGCTCTATTCGGATTAACCAAAAATATCCACCAAA
TCCTGGCACCCAAT
Found at i:41441473 original size:2 final size:2
Alignment explanation
Indices: 41441468--41441520 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
41441458 ACACCTAACC
41441468 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
41441510 AT AT AT AT AT A
1 AT AT AT AT AT A
41441521 ATTGGATATC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:41443205 original size:24 final size:24
Alignment explanation
Indices: 41443177--41443244 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
41443167 AGAAATAATC
41443177 TTTCAGTTAAACTCTATTAATTTG
1 TTTCAGTTAAACTCTATTAATTTG
* * * *
41443201 TTTCAATTAAATTCTGTTTATTTG
1 TTTCAGTTAAACTCTATTAATTTG
* *
41443225 TTTGAGTCAAACTCTTATTA
1 TTTCAGTTAAACTC-TATTA
41443245 GTCTAGATTA
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
24 30 0.91
25 3 0.09
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.51
Consensus pattern (24 bp):
TTTCAGTTAAACTCTATTAATTTG
Found at i:41446536 original size:2 final size:2
Alignment explanation
Indices: 41446531--41446568 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
41446521 ATGTGTGTAC
41446531 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
41446569 TTCTTTATGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41481234 original size:25 final size:25
Alignment explanation
Indices: 41481189--41481236 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
41481179 ATTATAATAA
*
41481189 TTTAATATAATATATTCAATATCAT
1 TTTAATATAATATAATCAATATCAT
*
41481214 TTTAACTATATTATAAT-AATATC
1 TTTAA-TATAATATAATCAATATC
41481237 GAACATGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (25 bp):
TTTAATATAATATAATCAATATCAT
Found at i:41490710 original size:38 final size:38
Alignment explanation
Indices: 41490668--41490949 Score: 246
Period size: 38 Copynumber: 7.3 Consensus size: 38
41490658 TGATAGCTTT
* *
41490668 AATCTGCCCCATGATCGGGGTAAGAGATTGGATATTTC
1 AATCTGCCCCATGATCGAGGTAAGAGATTGGATGTTTC
*
41490706 AATCTGCCCTATGATCGAGGTAAGAGATTGGATCGTCTTC
1 AATCTGCCCCATGATCGAGGTAAGAGATTGGAT-GT-TTC
* * ** * *
41490746 AATCTACCTTC-TGATTAAGGAAAAAGATTGGATGCTTT-
1 AATCTGCC-CCATGATCGAGGTAAGAGATTGGATG-TTTC
* * * *
41490784 AATCTGCCTCATGATCGGGGTAAGAGACTGGATGCTTC
1 AATCTGCCCCATGATCGAGGTAAGAGATTGGATGTTTC
* ** *
41490822 AATCTGCCCCATTATCGAGGTAAGAGATTAAATGCTTC
1 AATCTGCCCCATGATCGAGGTAAGAGATTGGATGTTTC
*
41490860 AATCTGCCCCATGATCGGGGTAAGAGATTGGATTGTCTTC
1 AATCTGCCCCATGATCGAGGTAAGAGATTGGA-TGT-TTC
* * * * * * *
41490900 AATTTTCCTTC-TGATTGAAGTAAAAGATTGGATGCTTC
1 AATCTGCC-CCATGATCGAGGTAAGAGATTGGATGTTTC
*
41490938 AATCTACCCCAT
1 AATCTGCCCCAT
41490950 ATGAGATTGG
Statistics
Matches: 194, Mismatches: 40, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
37 5 0.03
38 125 0.64
39 8 0.04
40 55 0.28
41 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (38 bp):
AATCTGCCCCATGATCGAGGTAAGAGATTGGATGTTTC
Found at i:41490798 original size:78 final size:77
Alignment explanation
Indices: 41490686--41491083 Score: 401
Period size: 78 Copynumber: 5.2 Consensus size: 77
41490676 CCATGATCGG
* ** *
41490686 GGTAAGAGATTGGATATTTCAATCTGCCCTATGATCGAGGTAAGAGATTGGATCGTCTTCAATCT
1 GGTAAAAGATTGGATGCTTCAATCTGCCC-ATGATCGGGGTAAGAGATTGGATCGTCTTCAATCT
41490751 ACCTTCTGATTAA
65 ACCTTCTGATTAA
* * *
41490764 GGAAAAAGATTGGATGCTTTAATCTGCCTCATGATCGGGGTAAGAGACTGGAT-G-CTTCAATCT
1 GGTAAAAGATTGGATGCTTCAATCTGCC-CATGATCGGGGTAAGAGATTGGATCGTCTTCAATCT
* * * **
41490827 GCC-CCATTATCGA
65 ACCTTC-TGATTAA
* ** * *
41490840 GGTAAGAGATTAAATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATTGTCTTCAATTT
1 GGTAAAAGATTGGATGCTTCAATCTG-CCCATGATCGGGGTAAGAGATTGGATCGTCTTCAATCT
*
41490905 TCCTTCTGATTGAA
65 ACCTTCTGATT-AA
* *
41490919 -GTAAAAGATTGGATGCTTCAATCTACCCCAT-A------T--GAGATTGGATCGTATTCAATCT
1 GGTAAAAGATTGGATGCTTCAATCT-GCCCATGATCGGGGTAAGAGATTGGATCGTCTTCAATCT
*
41490974 ACCTTCTTATTAA
65 ACCTTCTGATTAA
* * *
41490987 AGTAAAAGATTGGATGCTTCAATCTGCCCCATGATTGGGGTAAGAGATTGG-TGTGTCTTCAATC
1 GGTAAAAGATTGGATGCTTCAATCTG-CCCATGATCGGGGTAAGAGATTGGAT-CGTCTTCAATC
*
41491051 TGCCTTCTGATTAA
64 TACCTTCTGATTAA
41491065 GGTAAAAGATTGGATGCTT
1 GGTAAAAGATTGGATGCTT
41491084 GATTGTATTA
Statistics
Matches: 261, Mismatches: 39, Indels: 40
0.77 0.11 0.12
Matches are distributed among these distances:
68 2 0.01
69 57 0.22
70 1 0.00
71 1 0.00
75 1 0.00
76 60 0.23
77 6 0.02
78 130 0.50
79 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (77 bp):
GGTAAAAGATTGGATGCTTCAATCTGCCCATGATCGGGGTAAGAGATTGGATCGTCTTCAATCTA
CCTTCTGATTAA
Found at i:41490994 original size:69 final size:69
Alignment explanation
Indices: 41490883--41491018 Score: 209
Period size: 69 Copynumber: 2.0 Consensus size: 69
41490873 ATCGGGGTAA
* * * * *
41490883 GAGATTGGATTGTCTTCAATTTTCCTTCTGATTGAAGTAAAAGATTGGATGCTTCAATCTACCCC
1 GAGATTGGATCGTATTCAATCTACCTTCTGATTAAAGTAAAAGATTGGATGCTTCAATCTACCCC
41490948 ATAT
66 ATAT
* *
41490952 GAGATTGGATCGTATTCAATCTACCTTCTTATTAAAGTAAAAGATTGGATGCTTCAATCTGCCCC
1 GAGATTGGATCGTATTCAATCTACCTTCTGATTAAAGTAAAAGATTGGATGCTTCAATCTACCCC
41491017 AT
66 AT
41491019 GATTGGGGTA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (69 bp):
GAGATTGGATCGTATTCAATCTACCTTCTGATTAAAGTAAAAGATTGGATGCTTCAATCTACCCC
ATAT
Found at i:41491035 original size:38 final size:38
Alignment explanation
Indices: 41490966--41491083 Score: 121
Period size: 40 Copynumber: 3.1 Consensus size: 38
41490956 TTGGATCGTA
* * * *
41490966 TTCAATCTACCTTCTTATTAAAGTAAAAGATTGGATGC
1 TTCAATCTGCCTCCTGATTAAGGTAAAAGATTGGATGC
** * *
41491004 TTCAATCTGCC-CCATGATTGGGGTAAGAGATTGGTGTGTC
1 TTCAATCTGCCTCC-TGATTAAGGTAAAAGATTGG-ATG-C
*
41491044 TTCAATCTGCCTTCTGATTAAGGTAAAAGATTGGATGC
1 TTCAATCTGCCTCCTGATTAAGGTAAAAGATTGGATGC
41491082 TT
1 TT
41491084 GATTGTATTA
Statistics
Matches: 63, Mismatches: 13, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
37 1 0.02
38 28 0.44
39 4 0.06
40 29 0.46
41 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (38 bp):
TTCAATCTGCCTCCTGATTAAGGTAAAAGATTGGATGC
Found at i:41492385 original size:78 final size:78
Alignment explanation
Indices: 41492297--41492490 Score: 300
Period size: 78 Copynumber: 2.5 Consensus size: 78
41492287 ACACTGATCA
* * *
41492297 ATGCTTCAATCTACCCCATGATCGAGCTAAAAGATTGGTGTGTCTTCAATCTGCCTTCTGATTAA
1 ATGCTTCAATCTACCCCATGATCGAGGTAAGAGATTGGTATGTCTTCAATCTGCCTTCTGATTAA
41492362 GGTAAAAGATTGG
66 GGTAAAAGATTGG
* * * *
41492375 ATGCTTCAATCTTCCTCATGATCGAGGTAAGAGATTGATATGTCTTCAATCTGCCTTTTGATTAA
1 ATGCTTCAATCTACCCCATGATCGAGGTAAGAGATTGGTATGTCTTCAATCTGCCTTCTGATTAA
41492440 GGTAAAAGATTGG
66 GGTAAAAGATTGG
*
41492453 ATGCTTCAATC-AGCCCCATGATCGGGGTAAGAGATTGG
1 ATGCTTCAATCTA-CCCCATGATCGAGGTAAGAGATTGG
41492491 CTTTGCTTTA
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
78 104 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (78 bp):
ATGCTTCAATCTACCCCATGATCGAGGTAAGAGATTGGTATGTCTTCAATCTGCCTTCTGATTAA
GGTAAAAGATTGG
Found at i:41492403 original size:38 final size:38
Alignment explanation
Indices: 41492297--41492490 Score: 183
Period size: 40 Copynumber: 5.0 Consensus size: 38
41492287 ACACTGATCA
* * *
41492297 ATGCTTCAATCTACCCCATGATCGAGCTAAAAGATTGG
1 ATGCTTCAATCTGCCTCATGATCGAGGTAAAAGATTGG
* **
41492335 TGTGTCTTCAATCTGCCTTC-TGATTAAGGTAAAAGATTGG
1 -ATG-CTTCAATCTGCC-TCATGATCGAGGTAAAAGATTGG
* * *
41492375 ATGCTTCAATCTTCCTCATGATCGAGGTAAGAGATTGAT
1 ATGCTTCAATCTGCCTCATGATCGAGGTAAAAGATTG-G
** **
41492414 ATGTCTTCAATCTGCCTTTTGATTAAGGTAAAAGATTGG
1 ATG-CTTCAATCTGCCTCATGATCGAGGTAAAAGATTGG
* * * *
41492453 ATGCTTCAATCAGCCCCATGATCGGGGTAAGAGATTGG
1 ATGCTTCAATCTGCCTCATGATCGAGGTAAAAGATTGG
41492491 CTTTGCTTTA
Statistics
Matches: 123, Mismatches: 27, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
37 2 0.02
38 54 0.44
39 10 0.08
40 56 0.46
41 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (38 bp):
ATGCTTCAATCTGCCTCATGATCGAGGTAAAAGATTGG
Found at i:41514313 original size:17 final size:17
Alignment explanation
Indices: 41514288--41514340 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
41514278 TATAATGCCA
* *
41514288 AATGGAAATGTAATGAC
1 AATGAAAATGCAATGAC
* *
41514305 AATGCAAATGCAGTGAC
1 AATGAAAATGCAATGAC
*
41514322 AATTAAAATGCAATGAC
1 AATGAAAATGCAATGAC
41514339 AA
1 AA
41514341 AATAGATGTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.21
Consensus pattern (17 bp):
AATGAAAATGCAATGAC
Found at i:41524628 original size:61 final size:61
Alignment explanation
Indices: 41524533--41524658 Score: 243
Period size: 61 Copynumber: 2.1 Consensus size: 61
41524523 AAGAACAAAT
41524533 GGAGAATACTATTCCTAGGCTACTCGACTTGCTCCCTTACTCTCCTCTCATGTCACACTTA
1 GGAGAATACTATTCCTAGGCTACTCGACTTGCTCCCTTACTCTCCTCTCATGTCACACTTA
*
41524594 GGAGAATACTATTCCTAGGCTACTCGACTTGCTCCCTTACTCTCCTCTCATGTCGCACTTA
1 GGAGAATACTATTCCTAGGCTACTCGACTTGCTCCCTTACTCTCCTCTCATGTCACACTTA
41524655 GGAG
1 GGAG
41524659 CTCCTCGTCA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.21, C:0.32, G:0.16, T:0.32
Consensus pattern (61 bp):
GGAGAATACTATTCCTAGGCTACTCGACTTGCTCCCTTACTCTCCTCTCATGTCACACTTA
Found at i:41526948 original size:20 final size:20
Alignment explanation
Indices: 41526917--41526955 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
41526907 TAAAGTGCTA
41526917 AAAATAAATAATAAATAAAAT
1 AAAATAAATAAT-AATAAAAT
41526938 AAAAT-AATAATAATAAAA
1 AAAATAAATAATAATAAAA
41526956 CAAACAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 6 0.33
21 5 0.28
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAATAAATAATAATAAAAT
Found at i:41534752 original size:21 final size:21
Alignment explanation
Indices: 41534728--41534775 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
41534718 CTTGGTAGAG
41534728 TCCTTCTCTTTATTC-TCTTCT
1 TCCTTCTCTTT-TTCTTCTTCT
*
41534749 TCCTTCTCTTTTTCTTCTTTT
1 TCCTTCTCTTTTTCTTCTTCT
41534770 TCCTTC
1 TCCTTC
41534776 AGCTGGTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (21 bp):
TCCTTCTCTTTTTCTTCTTCT
Found at i:41536318 original size:13 final size:13
Alignment explanation
Indices: 41536300--41536326 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
41536290 AAGGAATATA
41536300 GAGGCAATGAAAG
1 GAGGCAATGAAAG
41536313 GAGGCAATGAAAG
1 GAGGCAATGAAAG
41536326 G
1 G
41536327 GACGAGATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.41, T:0.07
Consensus pattern (13 bp):
GAGGCAATGAAAG
Found at i:41543027 original size:23 final size:23
Alignment explanation
Indices: 41542996--41543042 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
41542986 CATCCATCCT
41542996 TGCTAACTAGACCTTCTAGAAGC
1 TGCTAACTAGACCTTCTAGAAGC
*
41543019 TGCTGACTAGACCTTCTAGAAGC
1 TGCTAACTAGACCTTCTAGAAGC
41543042 T
1 T
41543043 ACTACTGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (23 bp):
TGCTAACTAGACCTTCTAGAAGC
Found at i:41546577 original size:13 final size:14
Alignment explanation
Indices: 41546559--41546587 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
41546549 GTGTGGGGAT
41546559 AAAAAAAA-AAATG
1 AAAAAAAACAAATG
41546572 AAAAAAAACAAATG
1 AAAAAAAACAAATG
41546586 AA
1 AA
41546588 GGGAATTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.83, C:0.03, G:0.07, T:0.07
Consensus pattern (14 bp):
AAAAAAAACAAATG
Found at i:41546758 original size:6 final size:6
Alignment explanation
Indices: 41546749--41546835 Score: 61
Period size: 6 Copynumber: 14.2 Consensus size: 6
41546739 TCTGAAAAGG
* * * *
41546749 AAATAA AAATAA TATTAA TAAATAA AAATTTA AAATAA AAAT-- AAATAG
1 AAATAA AAATAA AAATAA -AAATAA AAA-TAA AAATAA AAATAA AAATAA
* * *
41546797 AAATAG AAATAG AAATAA AATATAA ATAATAG AAATAA A
1 AAATAA AAATAA AAATAA AA-ATAA A-AATAA AAATAA A
41546836 TTAATAATGA
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
4 4 0.06
6 43 0.65
7 18 0.27
8 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (6 bp):
AAATAA
Found at i:41546800 original size:29 final size:28
Alignment explanation
Indices: 41546748--41546824 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 28
41546738 GTCTGAAAAG
*
41546748 GAAATAAAAATAATATTAATAAATAAAAATTTA
1 GAAATAAAAATAA-A-T-AGAAATAAAAA--TA
*
41546781 -AAATAAAAATAAATAGAAATAGAAATA
1 GAAATAAAAATAAATAGAAATAAAAATA
41546808 GAAATAAAATATAAATA
1 GAAATAAAA-ATAAATA
41546825 ATAGAAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
27 2 0.05
28 8 0.20
29 16 0.40
30 1 0.03
31 1 0.03
32 12 0.30
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (28 bp):
GAAATAAAAATAAATAGAAATAAAAATA
Found at i:41546823 original size:11 final size:11
Alignment explanation
Indices: 41546779--41546835 Score: 66
Period size: 11 Copynumber: 5.4 Consensus size: 11
41546769 AATAAAAATT
*
41546779 TAAAATAAAAA
1 TAAAATAGAAA
41546790 T-AAATAGAAA
1 TAAAATAGAAA
41546800 TAGAAATAGAAA
1 TA-AAATAGAAA
*
41546812 TAAAATATAAA
1 TAAAATAGAAA
41546823 T--AATAGAAA
1 TAAAATAGAAA
41546832 TAAA
1 TAAA
41546836 TTAATAATGA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 8 0.21
10 9 0.23
11 11 0.28
12 11 0.28
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (11 bp):
TAAAATAGAAA
Found at i:41546829 original size:20 final size:19
Alignment explanation
Indices: 41546804--41546862 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
41546794 TAGAAATAGA
41546804 AATAGAAATAAAATATAAAT
1 AATAGAAATAAAAT-TAAAT
41546824 AATAGAAAT-AAATT-AAT
1 AATAGAAATAAAATTAAAT
41546841 AAT-GAAGTATAAAATTAAAT
1 AATAGAA--ATAAAATTAAAT
41546861 AA
1 AA
41546863 AATAATTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.09
17 6 0.17
18 3 0.09
19 9 0.26
20 14 0.40
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (19 bp):
AATAGAAATAAAATTAAAT
Found at i:41553392 original size:23 final size:23
Alignment explanation
Indices: 41553366--41553419 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
41553356 CGTCTATCCT
41553366 TGCTGACTAGACCTTCTAGAAGC
1 TGCTGACTAGACCTTCTAGAAGC
*
41553389 TGCTGACTTGACCTTCTAGAAGC
1 TGCTGACTAGACCTTCTAGAAGC
41553412 TGCTGACT
1 TGCTGACT
41553420 GGATGCCACG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (23 bp):
TGCTGACTAGACCTTCTAGAAGC
Found at i:41553861 original size:27 final size:28
Alignment explanation
Indices: 41553805--41553868 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 28
41553795 TATATTATTA
*
41553805 ATTGCTTGTGGCAGCACTAGAGGAATATC
1 ATTG-TTGTGGCAGCAATAGAGGAATATC
41553834 ATT-TTGTGGCAGCAAT-GATGGTAA-ATC
1 ATTGTTGTGGCAGCAATAGA-GG-AATATC
41553861 ATTGTTGT
1 ATTGTTGT
41553869 TTCAAGCTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
26 2 0.06
27 20 0.65
28 6 0.19
29 3 0.10
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
ATTGTTGTGGCAGCAATAGAGGAATATC
Found at i:41554102 original size:58 final size:58
Alignment explanation
Indices: 41554039--41554150 Score: 206
Period size: 58 Copynumber: 1.9 Consensus size: 58
41554029 GGAGTTAAGT
41554039 AAGTAGAATTAATTGCAACAACAAAAGTAAACATCAAACAAACGCCAGTTCCCCCGGC
1 AAGTAGAATTAATTGCAACAACAAAAGTAAACATCAAACAAACGCCAGTTCCCCCGGC
* *
41554097 AAGTAGAATTAATTGCAACAACAACAGTAAACATCAAACAAACGCCGGTTCCCC
1 AAGTAGAATTAATTGCAACAACAAAAGTAAACATCAAACAAACGCCAGTTCCCC
41554151 TGTCAACGGT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.45, C:0.26, G:0.13, T:0.16
Consensus pattern (58 bp):
AAGTAGAATTAATTGCAACAACAAAAGTAAACATCAAACAAACGCCAGTTCCCCCGGC
Found at i:41558791 original size:72 final size:72
Alignment explanation
Indices: 41558674--41558816 Score: 259
Period size: 72 Copynumber: 2.0 Consensus size: 72
41558664 CAAGTTGATG
* * *
41558674 TTCCTACATTTTGTTGTGAGATTTGCGGTGACAACCATAGTTATGAAGACTGTCCACAATATGTA
1 TTCCTACATTTTATTGTAAGATTTGCGGTGACAACCATAGTTATGAAGACTGTCCACAACATGTA
41558739 GAGAATA
66 GAGAATA
41558746 TTCCTACATTTTATTGTAAGATTTGCGGTGACAACCATAGTTATGAAGACTGTCCACAACATGTA
1 TTCCTACATTTTATTGTAAGATTTGCGGTGACAACCATAGTTATGAAGACTGTCCACAACATGTA
41558811 GAGAAT
66 GAGAAT
41558817 GCCTTCTATG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (72 bp):
TTCCTACATTTTATTGTAAGATTTGCGGTGACAACCATAGTTATGAAGACTGTCCACAACATGTA
GAGAATA
Found at i:41565009 original size:21 final size:20
Alignment explanation
Indices: 41564985--41565052 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 20
41564975 AATTACGTGA
*
41564985 TGCCCTTGAATTGCACTAGGG
1 TGCCCTTGAA-TGCACTACGG
*
41565006 TGCCCCTGACATGCACTACGG
1 TGCCCTTGA-ATGCACTACGG
* *
41565027 TGCCCTTGAAAAGAACTACGG
1 TGCCCTTG-AATGCACTACGG
41565048 TGCCC
1 TGCCC
41565053 CGATAATGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
21 38 0.95
22 2 0.05
ACGTcount: A:0.22, C:0.31, G:0.25, T:0.22
Consensus pattern (20 bp):
TGCCCTTGAATGCACTACGG
Found at i:41576254 original size:21 final size:21
Alignment explanation
Indices: 41576230--41576312 Score: 107
Period size: 21 Copynumber: 4.0 Consensus size: 21
41576220 GTGATACCCC
41576230 TGAATTGCACTACGGTGCCCT
1 TGAATTGCACTACGGTGCCCT
** *
41576251 TGAATTGCACTATAGTGACCT
1 TGAATTGCACTACGGTGCCCT
41576272 T-AGATTAG-ACTACGGTGCCCT
1 TGA-ATT-GCACTACGGTGCCCT
41576293 TGAATTGCACTACGGTGCCC
1 TGAATTGCACTACGGTGCCC
41576313 CTGTAATGTG
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
20 2 0.04
21 48 0.92
22 2 0.04
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (21 bp):
TGAATTGCACTACGGTGCCCT
Found at i:41578730 original size:50 final size:50
Alignment explanation
Indices: 41578676--41579483 Score: 506
Period size: 50 Copynumber: 16.1 Consensus size: 50
41578666 CCAATTCCTG
* * *
41578676 AGAAGATGTGATGGGAAAGGTTGAGGCCGCAATGGTGAACTCGGTACCTA
1 AGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGATACCTA
** * *
41578726 AGAAGATGTGAAGGGAAAGGTTGAGGCCGCAATTGCGAAC-CTGGTACCTA
1 AGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTC-GATACCTA
** * * *
41578776 AGAAGATGTGATTGGAAAGGTTAAGGCCGCAACGGTGAAC-CCAGTATCATGA
1 AGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGA-TA-CCT-A
** * * * * *
41578828 AG-AGATGACAAGGG--AGGATTGAGGCTGTAACAG-CAAATCTGATACCTTA
1 AGAAGATGTGAAGGGAAAGG-TTGAGGCCGCAACGGTGAACTC-GATACC-TA
* * * ** * *
41578877 AAAAGATGTAAAGGGAAACGTTGAGGTTGCAATGGTGAAC-CTGGTACCTA
1 AGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTC-GATACCTA
* * *
41578927 AGAAGATGTGAGGGGAAAGGTTGAGGCTGCAACGGTGAAC-CCAGTACC-A
1 AGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGA-TACCTA
* * * ** *
41578976 TGAAGA-GATGACAGGG-GAGGATTGAGGTCGCAACGGCAAATTCGATACCTTA
1 AGAAGATG-TGA-AGGGAAAGG-TTGAGGCCGCAACGGTGAACTCGATACC-TA
* * *
41579028 AAAAGATGTAAAGGGAAAGGTTGAGGCCACAACGGCT-AACTCGATACCTA
1 AGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGG-TGAACTCGATACCTA
* * * * * ** * * *
41579078 AAAAGATGCGAAGGGAAAGGTTGAGACCTCAATGACGAACCCAACACC-A
1 AGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGATACCTA
* * * * * * *
41579127 TGAAGA-GTTAACAGGG-GAGGATTGAGGCTGCAACAGCGAATTCGATACCTTA
1 AGAAGATG-TGA-AGGGAAAGG-TTGAGGCCGCAACGGTGAACTCGATACC-TA
* * * ** *
41579179 AAAAGATGTAAAGGGAAAGGTTGAGGCCGCAATGGCAAACTCGCTACCTA
1 AGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGATACCTA
* *
41579229 AGAAGATGTGAAGGGAAAGGTTGAGGCCACAACGGTGAACTCGGTACCTA
1 AGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGATACCTA
* * * * * *
41579279 AGAAGATGCGATGGG-AAGGATTGAGGCTGCAACGGTGAATTTGATACCTT
1 AGAAGATGTGAAGGGAAAGG-TTGAGGCCGCAACGGTGAACTCGATACCTA
* * * ** ** *
41579329 A-AAGATGTAAAGGGAAAGTTTAAGGCCATAACGGCAAACCCGATACCTA
1 AGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGATACCTA
* * * *
41579378 AAAAGATATGAAGGGAAAGGTTGAGGCCGTAACGGTGAACTCGGTACCTA
1 AGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGATACCTA
* * *
41579428 AGAAGATGCGATGGG-AAGGATTGAGGTCC-CAATGGTGAA-TCCGATACC-A
1 AGAAGATGTGAAGGGAAAGG-TTGAGG-CCGCAACGGTGAACT-CGATACCTA
*
41579477 TGAAGAT
1 AGAAGAT
41579484 AAAAAGGAAA
Statistics
Matches: 582, Mismatches: 140, Indels: 73
0.73 0.18 0.09
Matches are distributed among these distances:
48 2 0.00
49 77 0.13
50 387 0.66
51 86 0.15
52 28 0.05
53 2 0.00
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.18
Consensus pattern (50 bp):
AGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGATACCTA
Found at i:41578909 original size:151 final size:152
Alignment explanation
Indices: 41578720--41579417 Score: 792
Period size: 151 Copynumber: 4.6 Consensus size: 152
41578710 GTGAACTCGG
* * *
41578720 TACC-TAAGAAGATGTGAAGGGAAAGGTTGAGGCCGCAATTGCGAACCT-GGTACCTAAGAAGAT
1 TACCTTAAAAAGATGTAAAGGGAAAGGTTGAGGCCGCAATGGCGAACCTCGGTACCTAAGAAGAT
** * * *
41578783 GTGATTGGAAAGGTTAAGGCCGCAACGGTGAACCCAGTATCATGAAGAGATGACAAGGGAGGATT
66 GTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCAGTACCATGAAGAGATGACAGGGGAGGATT
*
41578848 GAGGCTGTAACAGCAAA-TCTGA
131 GAGGCTGCAACAGCAAATTC-GA
* ** *
41578870 TACCTTAAAAAGATGTAAAGGGAAACGTTGAGGTTGCAATGGTGAACCT-GGTACCTAAGAAGAT
1 TACCTTAAAAAGATGTAAAGGGAAAGGTTGAGGCCGCAATGGCGAACCTCGGTACCTAAGAAGAT
* *
41578934 GTGAGGGGAAAGGTTGAGGCTGCAACGGTGAACCCAGTACCATGAAGAGATGACAGGGGAGGATT
66 GTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCAGTACCATGAAGAGATGACAGGGGAGGATT
*
41578999 GAGG-TCGCAACGGCAAATTCGA
131 GAGGCT-GCAACAGCAAATTCGA
* * * * *
41579021 TACCTTAAAAAGATGTAAAGGGAAAGGTTGAGGCCACAACGGCTAA-CTCGATACCTAAAAAGAT
1 TACCTTAAAAAGATGTAAAGGGAAAGGTTGAGGCCGCAATGGCGAACCTCGGTACCTAAGAAGAT
* * * * ** ** * *
41579085 GCGAAGGGAAAGGTTGAGACCTCAATGACGAACCCAACACCATGAAGAGTTAACAGGGGAGGATT
66 GTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCAGTACCATGAAGAGATGACAGGGGAGGATT
*
41579150 GAGGCTGCAACAGCGAATTCGA
131 GAGGCTGCAACAGCAAATTCGA
* *
41579172 TACCTTAAAAAGATGTAAAGGGAAAGGTTGAGGCCGCAATGGC-AAACTCGCTACCTAAGAAGAT
1 TACCTTAAAAAGATGTAAAGGGAAAGGTTGAGGCCGCAATGGCGAACCTCGGTACCTAAGAAGAT
* * * *
41579236 GTGAAGGGAAAGGTTGAGGCCACAACGGTGAACTCGGTACC-T-AAGAAGATG-CGATGGGAAGG
66 GTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCAGTACCATGAAG-AGATGAC-A-GGGGAGG
* ** *
41579298 ATTGAGGCTGCAACGGTGAATTTGA
128 ATTGAGGCTGCAACAGCAAATTCGA
* * ** * * * *
41579323 TACCTT--AAAGATGTAAAGGGAAAGTTTAAGGCCATAACGGCAAACC-CGATACCTAAAAAGAT
1 TACCTTAAAAAGATGTAAAGGGAAAGGTTGAGGCCGCAATGGCGAACCTCGGTACCTAAGAAGAT
* *
41579385 ATGAAGGGAAAGGTTGAGGCCGTAACGGTGAAC
66 GTGAAGGGAAAGGTTGAGGCCGCAACGGTGAAC
41579418 TCGGTACCTA
Statistics
Matches: 469, Mismatches: 69, Indels: 21
0.84 0.12 0.04
Matches are distributed among these distances:
149 78 0.17
150 17 0.04
151 371 0.79
152 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.30, T:0.18
Consensus pattern (152 bp):
TACCTTAAAAAGATGTAAAGGGAAAGGTTGAGGCCGCAATGGCGAACCTCGGTACCTAAGAAGAT
GTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCAGTACCATGAAGAGATGACAGGGGAGGATT
GAGGCTGCAACAGCAAATTCGA
Found at i:41579426 original size:99 final size:100
Alignment explanation
Indices: 41578678--41579435 Score: 457
Period size: 101 Copynumber: 7.6 Consensus size: 100
41578668 AATTCCTGAG
* * * *
41578678 AAGATGTGATGGGAAAGGTTGAGGCCGCAATGGTGAACTCGGTACCTAAGAAGATGTGAAGGGAA
1 AAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGATACCTAAGAAGATGTAAAGGGAA
* * ** * * * *
41578743 AGGTTGAGGCCGCAATTGCGAACCTGGTACCTAAG
66 AGGTTAAGGCCACAACGGCAAACCCGATACCTAAA
** * * *
41578778 AAGATGTGATTGGAAAGGTTAAGGCCGCAACGGTGAAC-CCAGTATCATGAAG-AGATG-ACAAG
1 AAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGA-TA-CCT-AAGAAGATGTA-AAG
* *** * * *
41578840 GG--AGGATTGAGGCTGTAACAGCAAATCTGATACCTTAAA
62 GGAAAGG-TTAAGGCCACAACGGCAAACCCGATACC-TAAA
* * ** * * * *
41578879 AAGATGTAAAGGGAAACGTTGAGGTTGCAATGGTGAAC-CTGGTACCTAAGAAGATGTGAGGGGA
1 AAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTC-GATACCTAAGAAGATGTAAAGGGA
* ** ** **
41578943 AAGGTTGAGGCTGCAACGGTGAACCC-AGTACC-ATG
65 AAGGTTAAGGCCACAACGGCAAACCCGA-TACCTAAA
* * ** * *
41578978 AAGA-GATGACAGGG-GAGGATTGAGGTCGCAACGGCAAATTCGATACCTTAAAAAGATGTAAAG
1 AAGATG-TGA-AGGGAAAGG-TTGAGGCCGCAACGGTGAACTCGATACC-TAAGAAGATGTAAAG
* * *
41579041 GGAAAGGTTGAGGCCACAACGGCTAACTCGATACCTAAA
62 GGAAAGGTTAAGGCCACAACGGCAAACCCGATACCTAAA
* * * * ** * * * *
41579080 AAGATGCGAAGGGAAAGGTTGAGACCTCAATGACGAACCCAACACC-ATGAAGA-GTTAACAGGG
1 AAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGATACCTAAGAAGATG-TAA-AGGG
* * ** * * **
41579143 -GAGGATTGAGGCTGCAACAGCGAATTCGATACCTTAAA
64 AAAGG-TTAAGGCCACAACGGCAAACCCGATACC-TAAA
* * ** * *
41579181 AAGATGTAAAGGGAAAGGTTGAGGCCGCAATGGCAAACTCGCTACCTAAGAAGATGTGAAGGGAA
1 AAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGATACCTAAGAAGATGTAAAGGGAA
* ** * * *
41579246 AGGTTGAGGCCACAACGGTGAACTCGGTACCTAAG
66 AGGTTAAGGCCACAACGGCAAACCCGATACCTAAA
* * * * * *
41579281 AAGATGCGATGGG-AAGGATTGAGGCTGCAACGGTGAATTTGATACCTTA-AAGATGTAAAGGGA
1 AAGATGTGAAGGGAAAGG-TTGAGGCCGCAACGGTGAACTCGATACCTAAGAAGATGTAAAGGGA
* *
41579344 AAGTTTAAGGCCATAACGGCAAACCCGATACCTAAA
65 AAGGTTAAGGCCACAACGGCAAACCCGATACCTAAA
* * *
41579380 AAGATATGAAGGGAAAGGTTGAGGCCGTAACGGTGAACTCGGTACCTAAGAAGATG
1 AAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGATACCTAAGAAGATG
41579436 CGATGGGAAG
Statistics
Matches: 503, Mismatches: 124, Indels: 62
0.73 0.18 0.09
Matches are distributed among these distances:
98 2 0.00
99 107 0.21
100 167 0.33
101 197 0.39
102 28 0.06
103 2 0.00
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.18
Consensus pattern (100 bp):
AAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCGATACCTAAGAAGATGTAAAGGGAA
AGGTTAAGGCCACAACGGCAAACCCGATACCTAAA
Found at i:41579827 original size:41 final size:42
Alignment explanation
Indices: 41579749--41579831 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 42
41579739 CATCATCATT
* *
41579749 CAGTCTTTTACCCTTTAGTCAAGAAGGATAGATTGAAGATTC
1 CAGTCTTTTACCCTTTAATCAAGAAGGATAGAATGAAGATTC
* * *
41579791 CAGTCTTTTATCC-TTAATCAAGAGGGGTAGAATGAAGATTC
1 CAGTCTTTTACCCTTTAATCAAGAAGGATAGAATGAAGATTC
41579832 TGATCTCTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 24 0.67
42 12 0.33
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (42 bp):
CAGTCTTTTACCCTTTAATCAAGAAGGATAGAATGAAGATTC
Found at i:41580238 original size:172 final size:171
Alignment explanation
Indices: 41579947--41580341 Score: 605
Period size: 172 Copynumber: 2.3 Consensus size: 171
41579937 TGTAGTTATC
** *
41579947 CGAAGCAATAAAATGGTCAACTTCCTGATGAGATACAGAGAAGTGAATCAAAACAACGAGGCAGT
1 CGAAGCAATAAAATGGTCGTCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAACGAGGCAGT
*
41580012 CATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATGTGAGTGAAA
66 CATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAA
* *
41580077 CTTCGAACCCTAGCTTCCTAATAAGATACTGAGAAGTAGGT
131 CTTCGAACCCTAGCTTCCTAATAAGATACTGAGAAGCAAGT
* ** * *
41580118 CGAAGTAATAAAATGGTCGTCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAAGTGATGC-G
1 CGAAGCAATAAAATGGTCGTCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAA-CGAGGCAG
*
41580182 ATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAATAAAGCTCAATGTGAGCGA
65 -TCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATGTGAGCGA
*
41580247 AACTTCGAACCCTAGCTTCCTGATAAGATACTGAGAAGCAAGT
129 AACTTCGAACCCTAGCTTCCTAATAAGATACTGAGAAGCAAGT
* * *
41580290 CGAAGCAATAAAATGGTCAGT-TTCCTGAGGAGATATAGAGAAGTGGACCAAA
1 CGAAGCAATAAAATGGTC-GTCTTCCTGATGAGATACAGAGAAGTGGATCAAA
41580342 TCCAGCTTCC
Statistics
Matches: 202, Mismatches: 19, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
171 51 0.25
172 149 0.74
173 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.22
Consensus pattern (171 bp):
CGAAGCAATAAAATGGTCGTCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAACGAGGCAGT
CATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAA
CTTCGAACCCTAGCTTCCTAATAAGATACTGAGAAGCAAGT
Found at i:41580408 original size:85 final size:85
Alignment explanation
Indices: 41580260--41580428 Score: 205
Period size: 85 Copynumber: 2.0 Consensus size: 85
41580250 TTCGAACCCT
* * ** *
41580260 AGCTTCCTGATAAGATACTGAGAAGCAAGTCGAAGCAATAAAATGGTCAGTTTCCTGAGGAGATA
1 AGCTTCCTGATAAGATACTAAGAAGCAAGTCGAAGCAATAAAACGGTCACCTTCCTAAGGAGAT-
*
41580325 T-AGAGAAGTGGACCAAATCC
65 TCAGAGAAGTAGACCAAATCC
* * * * * *
41580345 AGCTTCCTGATAAGATACTAAGAAGTAGGTCGAAGCAATTAAGCGGTTACCTTCCTAATGAGATT
1 AGCTTCCTGATAAGATACTAAGAAGCAAGTCGAAGCAATAAAACGGTCACCTTCCTAAGGAGATT
*
41580410 CTGAGAAGTAGACCAAATC
66 CAGAGAAGTAGACCAAATC
41580429 AATGAAACCA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
84 1 0.01
85 69 0.99
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (85 bp):
AGCTTCCTGATAAGATACTAAGAAGCAAGTCGAAGCAATAAAACGGTCACCTTCCTAAGGAGATT
CAGAGAAGTAGACCAAATCC
Found at i:41580686 original size:209 final size:209
Alignment explanation
Indices: 41580135--41581157 Score: 1213
Period size: 208 Copynumber: 4.9 Consensus size: 209
41580125 ATAAAATGGT
*
41580135 CGTCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAAGTGATGC-GATCATCTTCCTGATGAG
1 CGTCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAAGTGAGGCAG-TCATCTTCCTGATGAG
* * * *
41580199 ATACTGAGAAGTAGACCAAATCAATGAAATAAAGCTCAATGTGAGCGAAA-CTTCGAACCCTAGC
65 ATACTGAGAAGTAGACCAAATCAATGAAACAAGGCTCAATATGAGC-AAATCTTCGAACCCCAGC
* * * * * *
41580263 TTCCTGATAAGATACTGAGAAGCAAGTCGAAGCAATAAAATGGTCAGTTTCCTGAGGAGATATAG
129 TTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCTTGATGAGATACAG
*
41580328 AGAAGTGGACCAAATC
194 AGAAGTGAACCAAATC
* * * * * * * * *
41580344 CAG-CTTCCTGATAAGATACTA-AGAAGTAGG-TCGAAGCAA-TTAAGCGGTTACCTTCCTAATG
1 C-GTCTTCCTGATGAGATAC-AGAGAAGT-GGATTGAAACAAGTGAGGCAGTCATCTTCCTGATG
* * * *
41580405 AGATTCTGAGAAGTAGACCAAATCAATGAAACCAGGCTCAA-AGTGAGCAAATC-TCAAAACTCC
63 AGATACTGAGAAGTAGACCAAATCAATGAAACAAGGCTCAATA-TGAGCAAATCTTC-GAACCCC
* * ** * * *
41580468 AGCTTCCTGATGAGATACTGAGAAGCAGGACGAAGCAGTAAAGCGATTACCTTCTTGATGAGATA
126 AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCTTGATGAGATA
**
41580533 CAGAGAAGTGAACCAGGTC
191 CAGAGAAGTGAACCAAATC
* * ** * * * *
41580552 CGTCTTCCTGATGAGACATAGAGAAGTGGATCAAAACAAGTGATGCAGTCTTTTTCTTGATGAGA
1 CGTCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAAGTGAGGCAGTCATCTTCCTGATGAGA
* * *
41580617 TACTGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATATGAGAAAAACTTCGAACCCCAGCTT
66 TACTGAGAAGTAGACCAAATCAATGAAACAAGGCTCAATATGAGCAAATCTTCGAACCCCAGCTT
* * * *
41580682 CCTGATGAGATACTGAGAAGTACGTCGAAGCAATAAAATGGTTAGCTTCTTGATGAGATACTGAG
131 CCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCTTGATGAGATACAGAG
* *
41580747 AAGTGGACCAAATT
196 AAGTGAACCAAATC
* * *
41580761 CGTCTTCCTAATGAGATACAGAGAAGCGGATTGAAACAAGTGAGGCGGTCATCTTCCTGATGAGA
1 CGTCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAAGTGAGGCAGTCATCTTCCTGATGAGA
* *
41580826 TACTGAGAAGTAGACCAAATCAATAAAACAAGGCTCAATATGAGCAAATCTTCGAACCCTAGCTT
66 TACTGAGAAGTAGACCAAATCAATGAAACAAGGCTCAATATGAGCAAATCTTCGAACCCCAGCTT
* * * * * * *
41580891 CTTGATGAGATACTGAGAAGAAGGTCGAAGCAAT-AAGTGGTCATCTTCTTTACGAGATGCAGAG
131 CCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCTTGATGAGATACAGAG
41580955 AAGTGAACCAAATC
196 AAGTGAACCAAATC
* ** * *
41580969 CGTCATCCTGATGAGATACAGAGAAGCAGATTAAAACATA-TGAGGCAGTCATTTTCCTGATGAG
1 CGTCTTCCTGATGAGATACAGAGAAGTGGATTGAAACA-AGTGAGGCAGTCATCTTCCTGATGAG
* *
41581033 ATACTGAGAAGTATACCAAATCAATGAAACAAGGCTCAATATGAGCAAATCTTCGAACCTCAGCT
65 ATACTGAGAAGTAGACCAAATCAATGAAACAAGGCTCAATATGAGCAAATCTTCGAACCCCAGCT
* * * * *
41581098 TCCTGATGAGATACTTAGAAGTAGGTTGAAGAAATAAAATGGTC-GTCTTCCTGATGAGAT
130 TCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCAG-CTTCTTGATGAGAT
41581158 TCAAAAAAGT
Statistics
Matches: 684, Mismatches: 114, Indels: 32
0.82 0.14 0.04
Matches are distributed among these distances:
207 9 0.01
208 339 0.50
209 329 0.48
210 7 0.01
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (209 bp):
CGTCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAAGTGAGGCAGTCATCTTCCTGATGAGA
TACTGAGAAGTAGACCAAATCAATGAAACAAGGCTCAATATGAGCAAATCTTCGAACCCCAGCTT
CCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCTTGATGAGATACAGAG
AAGTGAACCAAATC
Found at i:41580956 original size:417 final size:417
Alignment explanation
Indices: 41580135--41581157 Score: 1330
Period size: 417 Copynumber: 2.5 Consensus size: 417
41580125 ATAAAATGGT
* *
41580135 CGTCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAAGTGATGC-GATCATCTTCCTGATGAG
1 CGTCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAAGTGATGCAG-TCATTTTCCTGATGAG
* * * *
41580199 ATACTGAGAAGTAGACCAAATCAATGAAATAAAGCTCAATGTGAGCGAAACTTCGAACCCTAGCT
65 ATACTGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATATGAGCAAAACTTCGAACCCCAGCT
* * * * *
41580264 TCCTGATAAGATACTGAGAAGCAAGTCGAAGCAATAAAATGGTCAGTTTCCTGAGGAGATATAGA
130 TCCTGATGAGATACTGAGAAGTAAGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATATAGA
* * * *
41580329 GAAGTGGACCAAATCCAGCTTCCTGATAAGATACTAAGAAGTAGGTCGAAGCAATTAAGCGGTTA
195 GAAGTGGACCAAATCCAGCTTCCTAATAAGATACTAAGAAGTAGGTCGAAACAATGAAGCGGTCA
* * *
41580394 CCTTCCTAATGAGATTCTGAGAAGTAGACCAAATCAATGAAACCAGGCTCAAAGTGAGCAAATCT
260 CCTTCCTAATGAGATACTGAGAAGTAGACCAAATCAATAAAACAAGGCTCAAAGTGAGCAAATCT
* * *
41580459 CAAAACTCCAGCTTCCTGATGAGATACTGAGAAGCAGGACGAAGCAGTAAAGCGATTACCTTCTT
325 CAAAACTCCAGCTTCCTGATGAGATACTGAGAAGAAGGACGAAGCAATAAAGCGATCACCTTCTT
* **
41580524 GATGAGATACAGAGAAGTGAACCAGGTC
390 GACGAGATACAGAGAAGTGAACCAAATC
* * * * *
41580552 CGTCTTCCTGATGAGACATAGAGAAGTGGATCAAAACAAGTGATGCAGTCTTTTTCTTGATGAGA
1 CGTCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAAGTGATGCAGTCATTTTCCTGATGAGA
*
41580617 TACTGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATATGAGAAAAACTTCGAACCCCAGCTT
66 TACTGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATATGAGCAAAACTTCGAACCCCAGCTT
* *
41580682 CCTGATGAGATACTGAGAAGTACGTCGAAGCAATAAAATGGTTAGCTTCTTGATGAGATACT-GA
131 CCTGATGAGATACTGAGAAGTAAGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATA-TAGA
* * * * *
41580746 GAAGTGGACCAAATTC-GTCTTCCTAATGAGATAC-AGAGAAG-CGGATTGAAACAAGTGAGGCG
195 GAAGTGGACCAAATCCAG-CTTCCTAATAAGATACTA-AGAAGTAGG-TCGAAACAA-TGAAGCG
* *
41580808 GTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATAAAACAAGGCTCAATA-TGAGCA
256 GTCACCTTCCTAATGAGATACTGAGAAGTAGACCAAATCAATAAAACAAGGCTCAA-AGTGAGCA
* * * * *
41580872 AATCTTC-GAAC-CCTAGCTTCTTGATGAGATACTGAGAAGAAGGTCGAAGCAAT-AAGTGGTCA
320 AATC-TCAAAACTCC-AGCTTCCTGATGAGATACTGAGAAGAAGGACGAAGCAATAAAGCGATCA
* * *
41580934 TCTTCTTTACGAGATGCAGAGAAGTGAACCAAATC
383 CCTTCTTGACGAGATACAGAGAAGTGAACCAAATC
* ** *
41580969 CGTCATCCTGATGAGATACAGAGAAGCAGATTAAAACATA-TGAGGCAGTCATTTTCCTGATGAG
1 CGTCTTCCTGATGAGATACAGAGAAGTGGATTAAAACA-AGTGATGCAGTCATTTTCCTGATGAG
* * * *
41581033 ATACTGAGAAGTATACCAAATCAATGAAACAAGGCTCAATATGAGCAAATCTTCGAACCTCAGCT
65 ATACTGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATATGAGCAAAACTTCGAACCCCAGCT
* * * * *
41581098 TCCTGATGAGATACTTAGAAGTAGGTTGAAGAAATAAAATGG-TCGTCTTCCTGATGAGAT
130 TCCTGATGAGATACTGAGAAGTAAGTCGAAGCAATAAAATGGTTAG-CTTCCTGATGAGAT
41581158 TCAAAAAAGT
Statistics
Matches: 528, Mismatches: 67, Indels: 22
0.86 0.11 0.04
Matches are distributed among these distances:
416 6 0.01
417 413 0.78
418 106 0.20
419 3 0.01
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (417 bp):
CGTCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAAGTGATGCAGTCATTTTCCTGATGAGA
TACTGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATATGAGCAAAACTTCGAACCCCAGCTT
CCTGATGAGATACTGAGAAGTAAGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATATAGAG
AAGTGGACCAAATCCAGCTTCCTAATAAGATACTAAGAAGTAGGTCGAAACAATGAAGCGGTCAC
CTTCCTAATGAGATACTGAGAAGTAGACCAAATCAATAAAACAAGGCTCAAAGTGAGCAAATCTC
AAAACTCCAGCTTCCTGATGAGATACTGAGAAGAAGGACGAAGCAATAAAGCGATCACCTTCTTG
ACGAGATACAGAGAAGTGAACCAAATC
Found at i:41581342 original size:172 final size:172
Alignment explanation
Indices: 41581016--41581329 Score: 488
Period size: 172 Copynumber: 1.8 Consensus size: 172
41581006 ATATGAGGCA
* * *
41581016 GTCATTTTCCTGATGAGATACTGAGAAGTATACCAAATCAATGAAACAAGGCTCAATATGAGCAA
1 GTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATATGAGCAA
* * * * *
41581081 ATCTTCGAACCTCAGCTTCCTGATGAGATACTTAGAAGTAGGTTGAAGAAATAAAATGGTCGTCT
66 AACTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGAAATAAAATGGTCATCT
*
41581146 TCCTGATGAGATTCAAAAAAGTGGATTGAAACAAGTAGTGCG
131 TCCTGAGGAGATTCAAAAAAGTGGATTGAAACAAGTAGTGCG
* *
41581188 GTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAATAAAGCTCAATGTGAGCAA
1 GTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATATGAGCAA
*
41581253 AACTTCGAACC-CTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCAAT
66 AACTTCGAACCTC-AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGAAATAAAATGGTC-AT
41581317 -TTCCTGAGGAGAT
129 CTTCCTGAGGAGAT
41581330 ATAGAGAAGT
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
171 1 0.01
172 126 0.98
173 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (172 bp):
GTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATATGAGCAA
AACTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGAAATAAAATGGTCATCT
TCCTGAGGAGATTCAAAAAAGTGGATTGAAACAAGTAGTGCG
Found at i:41581551 original size:381 final size:380
Alignment explanation
Indices: 41580760--41581551 Score: 1128
Period size: 381 Copynumber: 2.1 Consensus size: 380
41580750 TGGACCAAAT
* * *
41580760 TCGTCTTCCTAATGAGATACAGAGAAGCGGATTGAAACAAGTGAGGCGGTCATCTTCCTGATGAG
1 TCGTCTTCCTGATAAGATACAGAGAAGTGGATTGAAACAAGTGAGGCGGTCATCTTCCTGATGAG
* *
41580825 ATACTGAGAAGTAGACCAAATCAATAAAACAAGGCTCAATATGAGCAAATCTTCGAACCCTAGCT
66 ATACTGAGAAGTAGACCAAATCAATAAAACAAAGCTCAATATGAGCAAAACTTCGAACCCTAGCT
* * * * *
41580890 TCTTGATGAGATACTGAGAAGAAGGTCGAAGCAATAAGTGGTCATCTTCTTTACGAGATGCAGAG
131 TCCTGATGAGATACTGAGAAGAAGGTCGAAGCAATAAATGGTCATCTTCCTGACGAGATACAGAG
41580955 AAGTGAACCAAATCCGTCATCCTGATGAGATACAGAGAAGCAGATTAAAACATATGAGGCAGTCA
196 AAGTGAACCAAATCCGTCATCCTGATGAGATACAGAGAAGCAGATTAAAACATATGAGGCAGTCA
* * ** *
41581020 TTTTCCTGATGAGATACTGAGAAGTATACCAAATCAATGAAACAAGGCTCAATATGAGCAAATCT
261 TCTTCCTAATGAGATAAAGAGAAGTATACCAAATCAATGAAACAAAGCTCAATATGAGCAAATCT
* * * *
41581085 TCGAACCTCAGCTTCCTGATGAGATACTTAGAAGTAGGTTGAAGAAATAAAATGG
326 TCGAACCCCAACTTCCTGATGAGATACTGAGAAGTAGGTAGAAGAAATAAAATGG
* * * *
41581140 TCGTCTTCCTGATGAGATTCAAAAAAGTGGATTGAAACAAGT-AGTGCGGTCATCTTCCTGATGA
1 TCGTCTTCCTGATAAGATACAGAGAAGTGGATTGAAACAAGTGAG-GCGGTCATCTTCCTGATGA
* * *
41581204 GATACTGAGAAGTAGACCAAATCAATGAAATAAAGCTCAATGTGAGCAAAACTTCGAACCCTAGC
65 GATACTGAGAAGTAGACCAAATCAATAAAACAAAGCTCAATATGAGCAAAACTTCGAACCCTAGC
* * *
41581269 TTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCAAT-TTCCTGAGGAGATATA
130 TTCCTGATGAGATACTGAGAAGAAGGTCGAAGCAAT-AAATGGTC-ATCTTCCTGACGAGATACA
* * * * * *
41581333 GAGAAGTGGACCAAATCCGTCTTCCTGATGGGATACAGAGAAGTAGATTAAAACA-AGTTAGGCG
193 GAGAAGTGAACCAAATCCGTCATCCTGATGAGATACAGAGAAGCAGATTAAAACATA-TGAGGCA
* *
41581397 GTCATCTTCCTAATGAGTTAAAGAGAAGTATACCAAATCAATGAAACAAAGCTCAATGTGA-CTG
257 GTCATCTTCCTAATGAGATAAAGAGAAGTATACCAAATCAATGAAACAAAGCTCAATATGAGC--
*
41581461 AAA-CTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGTAGGTAGAAGCAATAAAATGG
320 AAATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGTAGGTAGAAGAAATAAAATGG
*
41581521 TCAG-CTTTCTGATAAGATACAGAGAAGTGGA
1 TC-GTCTTCCTGATAAGATACAGAGAAGTGGA
41581552 CCAAATCTAT
Statistics
Matches: 364, Mismatches: 41, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
379 2 0.01
380 152 0.42
381 204 0.56
382 6 0.02
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.23
Consensus pattern (380 bp):
TCGTCTTCCTGATAAGATACAGAGAAGTGGATTGAAACAAGTGAGGCGGTCATCTTCCTGATGAG
ATACTGAGAAGTAGACCAAATCAATAAAACAAAGCTCAATATGAGCAAAACTTCGAACCCTAGCT
TCCTGATGAGATACTGAGAAGAAGGTCGAAGCAATAAATGGTCATCTTCCTGACGAGATACAGAG
AAGTGAACCAAATCCGTCATCCTGATGAGATACAGAGAAGCAGATTAAAACATATGAGGCAGTCA
TCTTCCTAATGAGATAAAGAGAAGTATACCAAATCAATGAAACAAAGCTCAATATGAGCAAATCT
TCGAACCCCAACTTCCTGATGAGATACTGAGAAGTAGGTAGAAGAAATAAAATGG
Found at i:41581576 original size:37 final size:37
Alignment explanation
Indices: 41581525--41581621 Score: 126
Period size: 37 Copynumber: 2.6 Consensus size: 37
41581515 AAATGGTCAG
*
41581525 CTTTCTGATAAGATACAGAGAAG-TGGACCAAAT-CTAT
1 CTTTCTGATGAGATACAGAGAAGAT-GACCAAATCCT-T
* *
41581562 CTTTTTGATGAGATATAGAGAAGATGACCAAATCCTT
1 CTTTCTGATGAGATACAGAGAAGATGACCAAATCCTT
*
41581599 CTTCCTGATGAGATACAGAGAAG
1 CTTTCTGATGAGATACAGAGAAG
41581622 CGGATTAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
37 49 0.94
38 3 0.06
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (37 bp):
CTTTCTGATGAGATACAGAGAAGATGACCAAATCCTT
Found at i:41581584 original size:209 final size:209
Alignment explanation
Indices: 41581143--41581584 Score: 602
Period size: 209 Copynumber: 2.1 Consensus size: 209
41581133 AAAATGGTCG
* * * * * *
41581143 TCTTCCTGATGAGATTCAAAAAAGTGGATTGAAACAAGTAGTGCGGTCATCTTCCTGATGAGATA
1 TCTTCCTGATGAGATACAGAGAAGTAGATTAAAACAAGTAGTGCGGTCATCTTCCTAATGAGATA
** * * *
41581208 CTGAGAAGTAGACCAAATCAATGAAATAAAGCTCAATGTGAGCAAAACTTCGAACCCTAGCTTCC
66 AAGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACTTCGAACCCCAACTTCC
* * *
41581273 TGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCAATTTCCTGAGGAGATATAGAGAA
131 TGATGAGATACTGAGAAGCAGGTAGAAGCAATAAAATGGTCAATTTCCTGAGAAGATACAGAGAA
*
41581338 GTGGACCAAATCCG
196 GTGGACCAAATCCA
* *
41581352 TCTTCCTGATGGGATACAGAGAAGTAGATTAAAACAAGTTAG-GCGGTCATCTTCCTAATGAGTT
1 TCTTCCTGATGAGATACAGAGAAGTAGATTAAAACAAG-TAGTGCGGTCATCTTCCTAATGAGAT
* *
41581416 AAAGAGAAGTATACCAAATCAATGAAACAAAGCTCAATGTGA-CTGAAACTTCGAACCCCAACTT
65 AAAGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATGTGAGC-AAAACTTCGAACCCCAACTT
* * *
41581480 CCTGATGAGATACTGAGAAGTAGGTAGAAGCAATAAAATGGTCAGCTTT-CTGATAAGATACAGA
129 CCTGATGAGATACTGAGAAGCAGGTAGAAGCAATAAAATGGTCA-ATTTCCTGAGAAGATACAGA
*
41581544 GAAGTGGACCAAATCTA
193 GAAGTGGACCAAATCCA
** *
41581561 TCTTTTTGATGAGATATAGAGAAG
1 TCTTCCTGATGAGATACAGAGAAG
41581585 ATGACCAAAT
Statistics
Matches: 203, Mismatches: 27, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
208 1 0.00
209 196 0.97
210 6 0.03
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (209 bp):
TCTTCCTGATGAGATACAGAGAAGTAGATTAAAACAAGTAGTGCGGTCATCTTCCTAATGAGATA
AAGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACTTCGAACCCCAACTTCC
TGATGAGATACTGAGAAGCAGGTAGAAGCAATAAAATGGTCAATTTCCTGAGAAGATACAGAGAA
GTGGACCAAATCCA
Found at i:41581670 original size:49 final size:49
Alignment explanation
Indices: 41581598--41581719 Score: 183
Period size: 49 Copynumber: 2.5 Consensus size: 49
41581588 ACCAAATCCT
*
41581598 TCTTCCTGATGAGATACAGAGAAGCGGATTAAAACAAGTGATGCG-ATCA
1 TCTTCCTGATGAGATACAGAGAAGCGAATTAAAACAAGTGATG-GAATCA
* *
41581647 TCTTCCTAATGAGATACAGAGAAGCGAATTAAAATAAGTGATGGAATCA
1 TCTTCCTGATGAGATACAGAGAAGCGAATTAAAACAAGTGATGGAATCA
* *
41581696 TCTTCTTGATGAGATATAGAGAAG
1 TCTTCCTGATGAGATACAGAGAAG
41581720 TATACCAAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
48 1 0.02
49 65 0.98
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (49 bp):
TCTTCCTGATGAGATACAGAGAAGCGAATTAAAACAAGTGATGGAATCA
Found at i:41583743 original size:29 final size:29
Alignment explanation
Indices: 41583545--41583743 Score: 129
Period size: 29 Copynumber: 6.8 Consensus size: 29
41583535 AAGAAATTAT
* * *
41583545 ATTTTAACCCCCAAATATCCACAAATTA-C
1 ATTTT-ACCCCCGAACATCCAAAAATTACC
* *
41583574 ATTTTTTA-CCCCGAAC-TCTCCAAAATCACC
1 A--TTTTACCCCCGAACATC-CAAAAATTACC
* * *
41583604 ATTTTACACCTGAACATCCAAAAATTATC
1 ATTTTACCCCCGAACATCCAAAAATTACC
*
41583633 ATTTTACCCCTGAACATCCAAAAATTACC
1 ATTTTACCCCCGAACATCCAAAAATTACC
* * ***
41583662 ATTTTGCCCTCGAGTGTCCAAAAATTACC
1 ATTTTACCCCCGAACATCCAAAAATTACC
* * * *
41583691 ATTTTGCCCTC-AAAATGTCC-AAAATTATC
1 ATTTTACCCCCGAACA--TCCAAAAATTACC
* *
41583720 GTTTTACCCCCGAGCATCCAAAAA
1 ATTTTACCCCCGAACATCCAAAAA
41583744 ATGCATTTTT
Statistics
Matches: 133, Mismatches: 27, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
28 11 0.08
29 108 0.81
30 10 0.08
31 4 0.03
ACGTcount: A:0.35, C:0.30, G:0.06, T:0.29
Consensus pattern (29 bp):
ATTTTACCCCCGAACATCCAAAAATTACC
Found at i:41583824 original size:17 final size:15
Alignment explanation
Indices: 41583804--41583846 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
41583794 ACTTAGATTT
41583804 TATTTTTTATTCTTTCG
1 TATTTTTTATTC--TCG
* *
41583821 TATTTTATATTCTCT
1 TATTTTTTATTCTCG
41583836 TATTTTTTATT
1 TATTTTTTATT
41583847 TTTGTGTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 12 0.52
17 11 0.48
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.72
Consensus pattern (15 bp):
TATTTTTTATTCTCG
Found at i:41584106 original size:97 final size:97
Alignment explanation
Indices: 41583973--41584160 Score: 288
Period size: 97 Copynumber: 1.9 Consensus size: 97
41583963 TCTAAAATTG
*
41583973 AGGCAATATTCCTTTATCTCGAGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCGATTTTTCT
1 AGGCAATATTCCTTTATCTCGAGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCGACTTTTCT
41584038 TCAAACCGGGATAATCGAATACCCTTAAATCT
66 TCAAACCGGGATAATCGAATACCCTTAAATCT
* * * * * *
41584070 AGGCAATGTTTCTTTATCTCTG-GTTTTGAAAATTTGTGCCTTAACTTTCTTGTCGTGACTTTTC
1 AGGCAATATTCCTTTATCTC-GAGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCGACTTTTC
*
41584134 TTCAAATCGGGATAATCGAATACCCTT
65 TTCAAACCGGGATAATCGAATACCCTT
41584161 TTCCAAGGTT
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
97 81 0.99
98 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (97 bp):
AGGCAATATTCCTTTATCTCGAGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCGACTTTTCT
TCAAACCGGGATAATCGAATACCCTTAAATCT
Found at i:41591191 original size:31 final size:31
Alignment explanation
Indices: 41591132--41591192 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
41591122 AAAAAAATCG
*
41591132 CAAAAATTGCATAATTAAAAGGTAAAAATAA
1 CAAAAATTGCATAATTAAAAGGGAAAAATAA
* *
41591163 CAAAAATTGCATAATTTAAAGGGGAAAATA
1 CAAAAATTGCATAATTAAAAGGGAAAAATA
41591193 TAAATATCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.57, C:0.07, G:0.13, T:0.23
Consensus pattern (31 bp):
CAAAAATTGCATAATTAAAAGGGAAAAATAA
Found at i:41591237 original size:11 final size:12
Alignment explanation
Indices: 41591216--41591266 Score: 56
Period size: 11 Copynumber: 4.5 Consensus size: 12
41591206 TTTAAAGTGC
41591216 TAAAAAT-A-AA
1 TAAAAATAATAA
41591226 TAAAAATAA-AA
1 TAAAAATAATAA
*
41591237 TAAAAAACAATAA
1 T-AAAAATAATAA
41591250 TAAAAA-AATAA
1 TAAAAATAATAA
41591261 TAAAAA
1 TAAAAA
41591267 GTAGAGTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
10 7 0.19
11 15 0.41
12 12 0.32
13 3 0.08
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (12 bp):
TAAAAATAATAA
Found at i:41591238 original size:15 final size:15
Alignment explanation
Indices: 41591218--41591265 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
41591208 TAAAGTGCTA
41591218 AAAATAAATAAA-AAT
1 AAAATAAA-AAACAAT
41591233 AAAATAAAAAACAAT
1 AAAATAAAAAACAAT
* *
41591248 AATA-AAAAAATAAT
1 AAAATAAAAAACAAT
41591262 AAAA
1 AAAA
41591266 AGTAGAGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 15 0.52
15 14 0.48
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAATAAAAAACAAT
Found at i:41592963 original size:25 final size:27
Alignment explanation
Indices: 41592934--41592991 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 27
41592924 TATTTTATTT
* * *
41592934 CAATAATATCACCTAATAAAGAC-TAA
1 CAATAATATAAACAAATAAAGACTTAA
*
41592960 -AATATTATAAACAAATAAAGACTTAA
1 CAATAATATAAACAAATAAAGACTTAA
41592986 CAATAA
1 CAATAA
41592992 AATATATCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
25 18 0.72
26 3 0.12
27 4 0.16
ACGTcount: A:0.59, C:0.14, G:0.03, T:0.24
Consensus pattern (27 bp):
CAATAATATAAACAAATAAAGACTTAA
Found at i:41594278 original size:156 final size:156
Alignment explanation
Indices: 41593994--41594306 Score: 626
Period size: 156 Copynumber: 2.0 Consensus size: 156
41593984 CAAAAACTGC
41593994 GAATGATACATTGTAATCAAGAGACAATATTTTCTTACATAATTCAGTTTTCATACATGTGTAGA
1 GAATGATACATTGTAATCAAGAGACAATATTTTCTTACATAATTCAGTTTTCATACATGTGTAGA
41594059 GCAGAGCTCAACGAGATGAATCCACTATCCTTAAAGAAAATACAACAAGCAATTGTAATTCTAAC
66 GCAGAGCTCAACGAGATGAATCCACTATCCTTAAAGAAAATACAACAAGCAATTGTAATTCTAAC
41594124 ATAGCCCAATGGTGGATCCTTATGAT
131 ATAGCCCAATGGTGGATCCTTATGAT
41594150 GAATGATACATTGTAATCAAGAGACAATATTTTCTTACATAATTCAGTTTTCATACATGTGTAGA
1 GAATGATACATTGTAATCAAGAGACAATATTTTCTTACATAATTCAGTTTTCATACATGTGTAGA
41594215 GCAGAGCTCAACGAGATGAATCCACTATCCTTAAAGAAAATACAACAAGCAATTGTAATTCTAAC
66 GCAGAGCTCAACGAGATGAATCCACTATCCTTAAAGAAAATACAACAAGCAATTGTAATTCTAAC
41594280 ATAGCCCAATGGTGGATCCTTATGAT
131 ATAGCCCAATGGTGGATCCTTATGAT
41594306 G
1 G
41594307 TGTCACGAAC
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
156 157 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (156 bp):
GAATGATACATTGTAATCAAGAGACAATATTTTCTTACATAATTCAGTTTTCATACATGTGTAGA
GCAGAGCTCAACGAGATGAATCCACTATCCTTAAAGAAAATACAACAAGCAATTGTAATTCTAAC
ATAGCCCAATGGTGGATCCTTATGAT
Found at i:41608434 original size:12 final size:12
Alignment explanation
Indices: 41608417--41608446 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
41608407 ATAGTCAATT
*
41608417 ACACGGTCTATC
1 ACACGGTCTACC
41608429 ACACGGTCTACC
1 ACACGGTCTACC
41608441 ACACGG
1 ACACGG
41608447 CTGTGTGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.37, G:0.20, T:0.17
Consensus pattern (12 bp):
ACACGGTCTACC
Found at i:41614290 original size:13 final size:13
Alignment explanation
Indices: 41614272--41614296 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41614262 AAGGTTTAAG
41614272 GGACACACGGGCT
1 GGACACACGGGCT
41614285 GGACACACGGGC
1 GGACACACGGGC
41614297 GTGTGTTGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.32, G:0.40, T:0.04
Consensus pattern (13 bp):
GGACACACGGGCT
Found at i:41616520 original size:12 final size:13
Alignment explanation
Indices: 41616494--41616526 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
41616484 GATATGCATG
41616494 AAAACTAAAACTA
1 AAAACTAAAACTA
*
41616507 AAAACTGAAA-TA
1 AAAACTAAAACTA
41616519 AAAACTAA
1 AAAACTAA
41616527 CTCAATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.70, C:0.12, G:0.03, T:0.15
Consensus pattern (13 bp):
AAAACTAAAACTA
Found at i:41631605 original size:17 final size:17
Alignment explanation
Indices: 41631583--41631644 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 17
41631573 CACACTTTTG
41631583 TCTTTTTCTTTTTCTTT
1 TCTTTTTCTTTTTCTTT
*
41631600 TCTTTTTCTCAATTTTCTCT
1 TCTTTTTCT---TTTTCTTT
41631620 T-TTTTTCAATTTTTCTTT
1 TCTTTTTC--TTTTTCTTT
41631638 TCTTTTT
1 TCTTTTT
41631645 TTCTTTTCCT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 9 0.24
18 8 0.22
19 11 0.30
20 8 0.22
21 1 0.03
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (17 bp):
TCTTTTTCTTTTTCTTT
Found at i:41631643 original size:21 final size:21
Alignment explanation
Indices: 41631591--41631647 Score: 77
Period size: 17 Copynumber: 2.9 Consensus size: 21
41631581 TGTCTTTTTC
*
41631591 TTTTTCTTTTCTTTTTCTCAA
1 TTTTTCTTTTCTTTTTTTCAA
41631612 -TTTTC---TCTTTTTTTCAA
1 TTTTTCTTTTCTTTTTTTCAA
41631629 TTTTTCTTTTCTTTTTTTC
1 TTTTTCTTTTCTTTTTTTC
41631648 TTTTCCTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
17 11 0.35
18 5 0.16
20 5 0.16
21 10 0.32
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTTCTTTTCTTTTTTTCAA
Found at i:41632597 original size:6 final size:6
Alignment explanation
Indices: 41632582--41632620 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
41632572 GTGCATAATT
* *
41632582 AAAATAA AAAATA AAACTA AAAATA AAAATG AAAATA AA
1 AAAAT-A AAAATA AAAATA AAAATA AAAATA AAAATA AA
41632621 TATGCTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:41633950 original size:10 final size:10
Alignment explanation
Indices: 41633937--41633981 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
41633927 CAAAAGGTTC
41633937 AAAAAGAAAA
1 AAAAAGAAAA
41633947 AAAAAGAAAA
1 AAAAAGAAAA
*
41633957 AAAGGAGAAAA
1 AAA-AAGAAAA
* *
41633968 AGAAGGAAAA
1 AAAAAGAAAA
41633978 AAAA
1 AAAA
41633982 CATGGTTTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
10 21 0.72
11 8 0.28
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:41633965 original size:21 final size:21
Alignment explanation
Indices: 41633941--41633980 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
41633931 AGGTTCAAAA
41633941 AGAAAAAAAAAGAAAAAAAGG
1 AGAAAAAAAAAGAAAAAAAGG
* *
41633962 AGAAAAAGAAGGAAAAAAA
1 AGAAAAAAAAAGAAAAAAA
41633981 ACATGGTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (21 bp):
AGAAAAAAAAAGAAAAAAAGG
Found at i:41634463 original size:35 final size:36
Alignment explanation
Indices: 41634418--41634492 Score: 134
Period size: 35 Copynumber: 2.1 Consensus size: 36
41634408 GGTTATCTTA
41634418 GATGAATTGTGAAATGAAGGATGAAACTTGAATTTT
1 GATGAATTGTGAAATGAAGGATGAAACTTGAATTTT
*
41634454 GATG-ATTGTGAAATGAAGGATGGAACTTGAATTTT
1 GATGAATTGTGAAATGAAGGATGAAACTTGAATTTT
41634489 GATG
1 GATG
41634493 TATTAGTTGA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 34 0.89
36 4 0.11
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.33
Consensus pattern (36 bp):
GATGAATTGTGAAATGAAGGATGAAACTTGAATTTT
Found at i:41636091 original size:5 final size:5
Alignment explanation
Indices: 41636081--41636142 Score: 56
Period size: 5 Copynumber: 12.0 Consensus size: 5
41636071 TTTTTTATTA
*
41636081 TTTAT TTTAT TTTATT TTTATT TTTCAT TATTAA TTTAT TTTA- TTTA-
1 TTTAT TTTAT TTTA-T TTTA-T TTT-AT T-TTAT TTTAT TTTAT TTTAT
*
41636128 TTTAT ATTAT TTTAT
1 TTTAT TTTAT TTTAT
41636143 CTTTGATTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
4 8 0.16
5 24 0.49
6 14 0.29
7 3 0.06
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:41636098 original size:23 final size:23
Alignment explanation
Indices: 41636072--41636154 Score: 89
Period size: 23 Copynumber: 3.5 Consensus size: 23
41636062 ATCTATTGTT
41636072 TTTTTATTATTTATTTTATTTTA
1 TTTTTATTATTTATTTTATTTTA
*
41636095 TTTTTATT-TTTCATTATTAATTTA
1 TTTTTATTATTT-ATT-TTATTTTA
*
41636119 -TTTTATTTATTTATATTATTTTA
1 TTTTTA-TTATTTATTTTATTTTA
*
41636142 TCTTTGATTATTT
1 T-TTTTATTATTT
41636155 TTATCTTTGG
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
22 3 0.06
23 23 0.46
24 17 0.34
25 7 0.14
ACGTcount: A:0.23, C:0.02, G:0.01, T:0.73
Consensus pattern (23 bp):
TTTTTATTATTTATTTTATTTTA
Found at i:41636130 original size:13 final size:13
Alignment explanation
Indices: 41636073--41636139 Score: 56
Period size: 13 Copynumber: 5.6 Consensus size: 13
41636063 TCTATTGTTT
41636073 TTTTA-TTATTTA
1 TTTTATTTATTTA
*
41636085 TTTTATTT-TAT-
1 TTTTATTTATTTA
*
41636096 TTTTATTT-TTCA
1 TTTTATTTATTTA
*
41636108 --TTATTAATTTA
1 TTTTATTTATTTA
41636119 TTTTATTTATTTA
1 TTTTATTTATTTA
*
41636132 TATTATTT
1 TTTTATTT
41636140 TATCTTTGAT
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
10 5 0.12
11 12 0.28
12 7 0.16
13 19 0.44
ACGTcount: A:0.24, C:0.01, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:41636151 original size:15 final size:16
Alignment explanation
Indices: 41636133--41636163 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
41636123 ATTTATTTAT
41636133 ATTA-TTTTATCTTTG
1 ATTATTTTTATCTTTG
41636148 ATTATTTTTATCTTTG
1 ATTATTTTTATCTTTG
41636164 GTATTTTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.68
Consensus pattern (16 bp):
ATTATTTTTATCTTTG
Found at i:41636168 original size:15 final size:16
Alignment explanation
Indices: 41636137--41636170 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
41636127 ATTTATATTA
*
41636137 TTTTATCTTTGATTAT
1 TTTTATCTTTGAGTAT
41636153 TTTTATCTTTG-GTAT
1 TTTTATCTTTGAGTAT
41636168 TTT
1 TTT
41636171 AGGTACGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.15, C:0.06, G:0.09, T:0.71
Consensus pattern (16 bp):
TTTTATCTTTGAGTAT
Found at i:41642864 original size:17 final size:17
Alignment explanation
Indices: 41642819--41642875 Score: 78
Period size: 17 Copynumber: 3.3 Consensus size: 17
41642809 TTTGTTTCAG
* *
41642819 ATTTATCTTAAGTTTGA
1 ATTTATTTTAAGTTTAA
*
41642836 ATTTGTTTTTAAGTTTAA
1 ATTT-ATTTTAAGTTTAA
41642854 ATTTATTTTAAGTTTAA
1 ATTTATTTTAAGTTTAA
41642871 ATTTA
1 ATTTA
41642876 AATTTATCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 21 0.60
18 14 0.40
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.58
Consensus pattern (17 bp):
ATTTATTTTAAGTTTAA
Found at i:41642869 original size:23 final size:23
Alignment explanation
Indices: 41642843--41642896 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
41642833 TGAATTTGTT
* *
41642843 TTTAAGTTTAAATTTATTTTAAG
1 TTTAAATTTAAATTTATCTTAAG
*
41642866 TTTAAATTTAAATTTATCTTAAA
1 TTTAAATTTAAATTTATCTTAAG
*
41642889 TATAAATT
1 TTTAAATT
41642897 AATAAAGCCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (23 bp):
TTTAAATTTAAATTTATCTTAAG
Found at i:41644609 original size:59 final size:60
Alignment explanation
Indices: 41644513--41644884 Score: 396
Period size: 59 Copynumber: 6.3 Consensus size: 60
41644503 CCCTAAATTG
* * * *
41644513 TCCAAAAATTA-CATTTTTACGCCT-AAACT-TCCAAAAATTCCATTTTTGACCCCAAAATCT
1 TCCAAAAATTACCA-TTTTAC-CCTCAAA-TGTCTAAAAATTCCATTTTTAACCCCTAAACCT
* * *
41644573 T-CAAAAATTA-CATTTTTACCC-CTAAATTTTCT-AAAATTCCATTCTTGA-CCCTAAA-CT
1 TCCAAAAATTACCA-TTTTACCCTC-AAA-TGTCTAAAAATTCCATTTTTAACCCCTAAACCT
* *
41644630 TCCTAAAAATTA-CATTTTTACCCTCAAACT-TCTAAAAATTCCATTTTTGA-CCCTGAACCT
1 TCC-AAAAATTACCA-TTTTACCCTCAAA-TGTCTAAAAATTCCATTTTTAACCCCTAAACCT
* * * * *
41644690 TCCAAAAAATACCATTTTACCCTCGAATGTCTAAAACTTCTATTTTTAACCCCT-AACTT
1 TCCAAAAATTACCATTTTACCCTCAAATGTCTAAAAATTCCATTTTTAACCCCTAAACCT
* *
41644749 TCCAAAAATTACCATTTTACCCTCGAATGTCTAAAAATTCCATTTTTAACCTC-AAACCT
1 TCCAAAAATTACCATTTTACCCTCAAATGTCTAAAAATTCCATTTTTAACCCCTAAACCT
* *
41644808 TCCAAAAATTACCATTTTACCCTCGAATGTCTAAAAATTCCATTTTTAACCCC-GAACCT
1 TCCAAAAATTACCATTTTACCCTCAAATGTCTAAAAATTCCATTTTTAACCCCTAAACCT
41644867 TCCAAAAATTACCATTTT
1 TCCAAAAATTACCATTTT
41644885 GCCCCTAAGT
Statistics
Matches: 280, Mismatches: 20, Indels: 25
0.86 0.06 0.08
Matches are distributed among these distances:
57 3 0.01
58 13 0.05
59 249 0.89
60 15 0.05
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (60 bp):
TCCAAAAATTACCATTTTACCCTCAAATGTCTAAAAATTCCATTTTTAACCCCTAAACCT
Found at i:41644889 original size:29 final size:30
Alignment explanation
Indices: 41644513--41644884 Score: 241
Period size: 29 Copynumber: 12.6 Consensus size: 30
41644503 CCCTAAATTG
* *
41644513 TCCAAAAATTA-CATTTTTACGCCTAAACT
1 TCCAAAAATTACCATTTTTACCCCGAAACT
*
41644542 TCCAAAAATT-CCATTTTTGACCCCAAAATCT
1 TCCAAAAATTACCATTTTT-ACCCCGAAA-CT
* *
41644573 T-CAAAAATTA-CATTTTTACCCCTAAATT
1 TCCAAAAATTACCATTTTTACCCCGAAACT
* * * *
41644601 TTCTAAAATT-CCATTCTTGA-CCCTAAACT
1 TCCAAAAATTACCATT-TTTACCCCGAAACT
41644630 TCCTAAAAATTA-CATTTTTACCCTC-AAACT
1 TCC-AAAAATTACCATTTTTACCC-CGAAACT
* * *
41644660 TCTAAAAATT-CCATTTTTGACCCTGAACCT
1 TCCAAAAATTACCATTTTT-ACCCCGAAACT
*
41644690 TCCAAAAAATACCA-TTTTACCCTCG-AA-T
1 TCCAAAAATTACCATTTTTACCC-CGAAACT
* * * *
41644718 GTCTAAAACTT-CTATTTTTAACCCC-TAACTT
1 -TCCAAAAATTACCATTTTT-ACCCCGAAAC-T
41644749 TCCAAAAATTACCA-TTTTACCCTCG-AA-T
1 TCCAAAAATTACCATTTTTACCC-CGAAACT
* *
41644777 GTCTAAAAATT-CCATTTTTAACCTC-AAACCT
1 -TCCAAAAATTACCATTTTT-ACCCCGAAA-CT
41644808 TCCAAAAATTACCA-TTTTACCCTCG-AA-T
1 TCCAAAAATTACCATTTTTACCC-CGAAACT
* *
41644836 GTCTAAAAATT-CCATTTTTAACCCCGAACCT
1 -TCCAAAAATTACCATTTTT-ACCCCGAAACT
41644867 TCCAAAAATTACCATTTT
1 TCCAAAAATTACCATTTT
41644885 GCCCCTAAGT
Statistics
Matches: 272, Mismatches: 31, Indels: 78
0.71 0.08 0.20
Matches are distributed among these distances:
28 13 0.05
29 120 0.44
30 117 0.43
31 22 0.08
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (30 bp):
TCCAAAAATTACCATTTTTACCCCGAAACT
Found at i:41644912 original size:28 final size:28
Alignment explanation
Indices: 41644871--41644939 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 28
41644861 GAACCTTCCA
* * **
41644871 AAAATTACCATTTTGCCCCTAAGTGTCC
1 AAAATTACCATTTTACCCCCAAGCATCC
* *
41644899 AAAATTATCGTTTTACCCCCAAGCATCC
1 AAAATTACCATTTTACCCCCAAGCATCC
*
41644927 AAAATCA-CATTTT
1 AAAATTACCATTTT
41644940 GACTCCGTCT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
27 5 0.15
28 28 0.85
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.32
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCCAAGCATCC
Found at i:41650173 original size:17 final size:17
Alignment explanation
Indices: 41650151--41650200 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
41650141 AAAAATAAAT
*
41650151 AAAAAAAAAGAGAAAGA
1 AAAAAAAAAGAAAAAGA
* *
41650168 AAAAAATAGGAAAAAGA
1 AAAAAAAAAGAAAAAGA
41650185 AAAAAAAATAGAAAAA
1 AAAAAAAA-AGAAAAA
41650201 AGAGAGAGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 21 0.78
18 6 0.22
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAGA
Found at i:41650189 original size:19 final size:19
Alignment explanation
Indices: 41650167--41650203 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
41650157 AAAGAGAAAG
*
41650167 AAAAAAATAGGAAAAAGAA
1 AAAAAAATAGAAAAAAGAA
41650186 AAAAAAATAGAAAAAAGA
1 AAAAAAATAGAAAAAAGA
41650204 GAGAGGTCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (19 bp):
AAAAAAATAGAAAAAAGAA
Found at i:41651347 original size:98 final size:98
Alignment explanation
Indices: 41651226--41651950 Score: 1101
Period size: 98 Copynumber: 7.4 Consensus size: 98
41651216 GGCCACAATA
* *
41651226 GCGAATCCAGTACCACGAAGATATAGAGGGAAAGGTTTAAGTCGCAACGGGGAACCTTGTACCTC
1 GCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTC
41651291 AGAAGCATGAAGGGAAAGATTTAAGCCGCAACG
66 AGAAGCATGAAGGGAAAGATTTAAGCCGCAACG
* * *
41651324 GCGAATCCAGTACCACGAGGATATGGAGGGAAAGGTTTAAGTCGTAACGGCGAACCTTGTACTTC
1 GCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTC
*
41651389 AGAAGCATGAAGGGAAAGATTTAAGCTGCAACG
66 AGAAGCATGAAGGGAAAGATTTAAGCCGCAACG
* *
41651422 GCGAATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACTTC
1 GCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTC
*
41651487 AGAAGCATGAAGGGAAAGACTTAAGCCGCAACG
66 AGAAGCATGAAGGGAAAGATTTAAGCCGCAACG
* * *
41651520 GCGAATCCAGTACCATGAAGATATGGAGGGAAAGGTTTAAGTTGCAATGGCGAACCTTGTACCTC
1 GCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTC
*
41651585 AGAAGCATGAAGGGAAAGATATAAGCCGCAACG
66 AGAAGCATGAAGGGAAAGATTTAAGCCGCAACG
*
41651618 GTGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTC
1 GCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTC
41651683 AGAAGCATGAAGGGAAAGATTTAAGCCGCAACG
66 AGAAGCATGAAGGGAAAGATTTAAGCCGCAACG
* * *
41651716 ACGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGACGAACCTAGTACCTC
1 GCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTC
* *
41651781 AGAAGCATGAAAGGAAAGATTTAAGCCGCAATG
66 AGAAGCATGAAGGGAAAGATTTAAGCCGCAACG
* * * * *** * * * *
41651814 ACGAAACTAGTACCACGAAGACACAAAGGGAAAGGATTAAGTCGCAATGGGGAACCTTATACCTC
1 GCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTC
* *
41651879 AG-AGACATGAATGTAAAGATTTAAGCCGCAACG
66 AGAAG-CATGAAGGGAAAGATTTAAGCCGCAACG
* * ***
41651912 GCGAATCTAGTACCACGAAGACACCAAGGGAAAGGTTTA
1 GCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTA
41651951 TGACGAACCT
Statistics
Matches: 578, Mismatches: 48, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
97 2 0.00
98 576 1.00
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.17
Consensus pattern (98 bp):
GCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTC
AGAAGCATGAAGGGAAAGATTTAAGCCGCAACG
Found at i:41652375 original size:39 final size:39
Alignment explanation
Indices: 41652286--41652376 Score: 128
Period size: 39 Copynumber: 2.3 Consensus size: 39
41652276 AGCCAACCTC
* * * *
41652286 TTACCCCGAGCCTGAGGCAGATTGTAACCATTCAATCTT
1 TTACCCCGAGCTTGAGGAAGATTGCAACCATCCAATCTT
*
41652325 TTACCCCGAGCTTGAGGAAGATTGCAGCCATCCAATCTT
1 TTACCCCGAGCTTGAGGAAGATTGCAACCATCCAATCTT
*
41652364 TTACCTCGAGCTT
1 TTACCCCGAGCTT
41652377 AGGGCAAATC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (39 bp):
TTACCCCGAGCTTGAGGAAGATTGCAACCATCCAATCTT
Found at i:41652687 original size:86 final size:85
Alignment explanation
Indices: 41652531--41652687 Score: 217
Period size: 85 Copynumber: 1.8 Consensus size: 85
41652521 CGAACCCCAG
* * *
41652531 CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACT
1 CTTCCTGATGAGATACAGAGAAGCAGGTCGAAACAATAAAATGGTCAGCTTCCTGATGAGATACT
41652596 GAGAAGTGGACCAAATTCGT
66 GAGAAGTGGACCAAATTCGT
* * * * *
41652616 CTTCCTGATGAGATACAGAGAAGC-GGATTGAAACAAGTGATATGGTCATCTTCTTGATGAGATA
1 CTTCCTGATGAGATACAGAGAAGCAGG-TCGAAACAA-TAAAATGGTCAGCTTCCTGATGAGATA
41652680 CTGAGAAG
64 CTGAGAAG
41652688 AAGACAAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
84 2 0.03
85 30 0.48
86 30 0.48
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.25
Consensus pattern (85 bp):
CTTCCTGATGAGATACAGAGAAGCAGGTCGAAACAATAAAATGGTCAGCTTCCTGATGAGATACT
GAGAAGTGGACCAAATTCGT
Found at i:41652698 original size:86 final size:85
Alignment explanation
Indices: 41652531--41652698 Score: 212
Period size: 86 Copynumber: 2.0 Consensus size: 85
41652521 CGAACCCCAG
* * *
41652531 CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACT
1 CTTCCTGATGAGATACAGAGAAGCAGGTCGAAACAATAAAATGGTCAGCTTCCTGATGAGATACT
** *
41652596 GAGAAGTGGACCAAATTCGT
66 GAGAAGAAGACAAAATTCGT
* * * * *
41652616 CTTCCTGATGAGATACAGAGAAGC-GGATTGAAACAAGTGATATGGTCATCTTCTTGATGAGATA
1 CTTCCTGATGAGATACAGAGAAGCAGG-TCGAAACAA-TAAAATGGTCAGCTTCCTGATGAGATA
41652680 CTGAGAAGAAGACAAAATT
64 CTGAGAAGAAGACAAAATT
41652699 AATGAAACCA
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
84 2 0.03
85 30 0.43
86 38 0.54
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (85 bp):
CTTCCTGATGAGATACAGAGAAGCAGGTCGAAACAATAAAATGGTCAGCTTCCTGATGAGATACT
GAGAAGAAGACAAAATTCGT
Found at i:41654932 original size:29 final size:29
Alignment explanation
Indices: 41654902--41655268 Score: 224
Period size: 29 Copynumber: 12.5 Consensus size: 29
41654892 TAAACTGTCC
* *
41654902 AAAAATTACATTTTTACCCTCGAGCTTCC
1 AAAAATTACATTTTTACCCTCGAACTTCT
* *
41654931 AAAAATTCCATTTTTAACCTCGAAATCTT-T
1 AAAAATTACATTTTTACCCTCG-AA-CTTCT
* * *
41654961 AAAAATTACATTTTTACCC-CTAAATTTT
1 AAAAATTACATTTTTACCCTCGAACTTCT
* * *
41654989 CCAAAATTCCATTTTTCACCCT--AAGCTTCCC
1 -AAAAATTACATTTTT-ACCCTCGAA-CTT-CT
*
41655020 AAAAATTACATTTTTACCCTCAAACTTCT
1 AAAAATTACATTTTTACCCTCGAACTTCT
**
41655049 AAAAATTTGATTTTTGACCC-CGAACCTTC-
1 AAAAATTACATTTTT-ACCCTCGAA-CTTCT
*
41655078 CAAAATTACCA-TTTTACCCTCGAA-TGTCT
1 AAAAATTA-CATTTTTACCCTCGAACT-TCT
* * * * *
41655107 AAAAATTATATTTTCAACCTCAAACTTTCC
1 AAAAATTACATTTTTACCCTCGAAC-TTCT
* *
41655137 AAAAATTACCA-TTTTACCGT-TAGA-TGTCT
1 AAAAATTA-CATTTTTACCCTCGA-ACT-TCT
* *
41655166 AAAAATTCCATTTTTAACCTCGAACCTTCT
1 AAAAATTACATTTTTACCCTCGAA-CTTCT
*
41655196 AAAAATTACCA-TTTT-CCCTCGTA-TGTCT
1 AAAAATTA-CATTTTTACCCTCGAACT-TCT
*
41655224 AAAAATTCCATTTTTGA-CCTCGAACTTTCT
1 AAAAATTACATTTTT-ACCCTCGAAC-TTCT
*
41655254 AAAAATTACAATTTT
1 AAAAATTACATTTTT
41655269 GCCCCCAAGT
Statistics
Matches: 260, Mismatches: 45, Indels: 65
0.70 0.12 0.18
Matches are distributed among these distances:
27 6 0.02
28 27 0.10
29 119 0.46
30 97 0.37
31 11 0.04
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (29 bp):
AAAAATTACATTTTTACCCTCGAACTTCT
Found at i:41655167 original size:117 final size:117
Alignment explanation
Indices: 41654893--41655268 Score: 327
Period size: 117 Copynumber: 3.2 Consensus size: 117
41654883 AGAGGTCCCT
* * * * * * * *
41654893 AAACTGTCCAAAAATTACATTTTTACCCTCGAGCT-TCCAAAAATTCCATTTTTAACCTCGAAAT
1 AAACTTTCCAAAAATTACAATTTTACCGT-TAGATGTCTAAAAATTCCATTTTTAACCCCG-AAC
* * * * *
41654957 CTT-TAAAAATTA-CATTTTTACCC-CTAAAT-TTTCCAAAATTCCATTTTTCACCCT-
64 CTTCTAAAAATTACCA-TTTT-CCCTC-GAATGTCT-AAAAATTACA-TTTTCAACCTC
* * * * * * ** *
41655011 AAGCTTCCCAAAAATTACATTTTTACCCTCAAACT-TCTAAAAATTTGATTTTTGACCCCGAACC
1 AAACTTTCCAAAAATTACAATTTTACCGTTAGA-TGTCTAAAAATTCCATTTTTAACCCCGAACC
* *
41655075 TTC-CAAAATTACCATTTTACCCTCGAATGTCTAAAAATTATATTTTCAACCTC
65 TTCTAAAAATTACCATTTT-CCCTCGAATGTCTAAAAATTACATTTTCAACCTC
* *
41655128 AAACTTTCCAAAAATTACCATTTTACCGTTAGATGTCTAAAAATTCCATTTTTAACCTCGAACCT
1 AAACTTTCCAAAAATTACAATTTTACCGTTAGATGTCTAAAAATTCCATTTTTAACCCCGAACCT
* * **
41655193 TCTAAAAATTACCATTTTCCCTCGTATGTCTAAAAATTCCATTTTTGACCTC
66 TCTAAAAATTACCATTTTCCCTCGAATGTCTAAAAATTACATTTTCAACCTC
* *
41655245 GAACTTTCTAAAAATTACAATTTT
1 AAACTTTCCAAAAATTACAATTTT
41655269 GCCCCCAAGT
Statistics
Matches: 211, Mismatches: 39, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
116 10 0.05
117 135 0.64
118 66 0.31
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (117 bp):
AAACTTTCCAAAAATTACAATTTTACCGTTAGATGTCTAAAAATTCCATTTTTAACCCCGAACCT
TCTAAAAATTACCATTTTCCCTCGAATGTCTAAAAATTACATTTTCAACCTC
Found at i:41655288 original size:58 final size:59
Alignment explanation
Indices: 41654902--41655286 Score: 309
Period size: 59 Copynumber: 6.6 Consensus size: 59
41654892 TAAACTGTCC
* ** * *
41654902 AAAAATTACATTTTTACCCTCGAGCT-TCCAAAAATTCCATTTTTAACCTCGAAATCTT-T
1 AAAAATTACAATTTTACCCTC-AAATGTCTAAAAATTCCATTTTTAACCTCGAACT-TTCT
* * * * * * *
41654961 AAAAATTACATTTTTACCC-CTAAAT-TTTCCAAAATTCCATTTTTCACC-CTAAGCTTCCC
1 AAAAATTACAATTTTACCCTC-AAATGTCT-AAAAATTCCATTTTTAACCTCGAA-CTTTCT
* ** * * *
41655020 AAAAATTACATTTTTACCCTCAAACT-TCTAAAAATTTGATTTTTGACCCCGAACCTTC-
1 AAAAATTACAATTTTACCCTCAAA-TGTCTAAAAATTCCATTTTTAACCTCGAACTTTCT
* * * ** * * *
41655078 CAAAATTACCATTTTACCCTCGAATGTCTAAAAATTATATTTTCAACCTCAAACTTTCC
1 AAAAATTACAATTTTACCCTCAAATGTCTAAAAATTCCATTTTTAACCTCGAACTTTCT
* * * * *
41655137 AAAAATTACCATTTTACCGTTAGATGTCTAAAAATTCCATTTTTAACCTCGAACCTTCT
1 AAAAATTACAATTTTACCCTCAAATGTCTAAAAATTCCATTTTTAACCTCGAACTTTCT
* ** *
41655196 AAAAATTACCATTTT-CCCTCGTATGTCTAAAAATTCCATTTTTGACCTCGAACTTTCT
1 AAAAATTACAATTTTACCCTCAAATGTCTAAAAATTCCATTTTTAACCTCGAACTTTCT
* * * *
41655254 AAAAATTACAATTTTGCCCCCAAGTGTCCAAAA
1 AAAAATTACAATTTTACCCTCAAATGTCTAAAA
41655287 TTATTGTTTT
Statistics
Matches: 264, Mismatches: 53, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
57 1 0.00
58 104 0.39
59 152 0.58
60 7 0.03
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (59 bp):
AAAAATTACAATTTTACCCTCAAATGTCTAAAAATTCCATTTTTAACCTCGAACTTTCT
Found at i:41669891 original size:2 final size:2
Alignment explanation
Indices: 41669886--41669922 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
41669876 ATTATGTGTG
41669886 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
41669923 CAATTTTTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:41670362 original size:30 final size:30
Alignment explanation
Indices: 41670325--41670414 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 30
41670315 TTGAGTCTCA
* *
41670325 AAAAAGTTTAGGGGTCAAAATACAATTTTG
1 AAAAAGTTTAGGGGTCAAAATATAATTTTC
* * ** * *
41670355 GAAAAGTTCGAGGCTTAAAAATGTAATTTTC
1 AAAAAGTT-TAGGGGTCAAAATATAATTTTC
*
41670386 AAAAAGTTTAGGGGTCTAAATATAATTTT
1 AAAAAGTTTAGGGGTCAAAATATAATTTT
41670415 TAAATAAAAT
Statistics
Matches: 44, Mismatches: 15, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
30 22 0.50
31 22 0.50
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (30 bp):
AAAAAGTTTAGGGGTCAAAATATAATTTTC
Found at i:41671407 original size:19 final size:19
Alignment explanation
Indices: 41671383--41671419 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
41671373 ACCTTAACCT
*
41671383 TTATTTTACATTTATTTAC
1 TTATTTAACATTTATTTAC
*
41671402 TTATTTAATATTTATTTA
1 TTATTTAACATTTATTTA
41671420 TTTAAAAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (19 bp):
TTATTTAACATTTATTTAC
Found at i:41671413 original size:15 final size:15
Alignment explanation
Indices: 41671395--41671424 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
41671385 ATTTTACATT
41671395 TATTTACTTATTTAA
1 TATTTACTTATTTAA
*
41671410 TATTTATTTATTTAA
1 TATTTACTTATTTAA
41671425 AAAACATTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTTACTTATTTAA
Found at i:41672547 original size:37 final size:38
Alignment explanation
Indices: 41672497--41672594 Score: 157
Period size: 37 Copynumber: 2.7 Consensus size: 38
41672487 GATTTAATGC
41672497 ACTTCTTTGTATCTCATCAGA-AAGGCGAATTTGGTCT
1 ACTTCTTTGTATCTCATCAGAGAAGGCGAATTTGGTCT
*
41672534 ACTTCTCTGTATCTCATCA-AGAAGGCGAATTTGGTCT
1 ACTTCTTTGTATCTCATCAGAGAAGGCGAATTTGGTCT
*
41672571 ACTTTTTTGTATCTCATCAG-GAAG
1 ACTTCTTTGTATCTCATCAGAGAAG
41672595 ATGACCGCTT
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
36 1 0.02
37 55 0.98
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.38
Consensus pattern (38 bp):
ACTTCTTTGTATCTCATCAGAGAAGGCGAATTTGGTCT
Found at i:41672596 original size:122 final size:122
Alignment explanation
Indices: 41672440--41672672 Score: 342
Period size: 122 Copynumber: 1.9 Consensus size: 122
41672430 CACTTCATTG
* * * *
41672440 ATTTGGTCTACTTCTCTGTATCTTATCAGAAAGATGATCG-TTTCATTGATTTAATGCACTTCTT
1 ATTTGGTCTACTTCTCTGTATCTCATCAGAAAGATGACCGCTTT-ATTGATTCAATCCACTTCTT
* * *
41672504 TGTATCTCATCAGAAAGGCGAATTTGGTCTACTTCTCTGTATCTCATCAAGAAGGCGA
65 TGTATCTCATCAGAAAGACGAATTTGGTCCACTTCTCTATATCTCATCAAGAAGGCGA
* * *
41672562 ATTTGGTCTACTTTTTTGTATCTCATCAGGAAGATGACCGCTTTATTGATTCAATCCACTTCTTT
1 ATTTGGTCTACTTCTCTGTATCTCATCAGAAAGATGACCGCTTTATTGATTCAATCCACTTCTTT
* *
41672627 GTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTATATCTCAT
66 GTATCTCATCAGAAAGACGAATTTGGTCCACTTCTCTATATCTCAT
41672673 TAGAAAGATG
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
122 95 0.97
123 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.39
Consensus pattern (122 bp):
ATTTGGTCTACTTCTCTGTATCTCATCAGAAAGATGACCGCTTTATTGATTCAATCCACTTCTTT
GTATCTCATCAGAAAGACGAATTTGGTCCACTTCTCTATATCTCATCAAGAAGGCGA
Found at i:41672630 original size:85 final size:85
Alignment explanation
Indices: 41672534--41672813 Score: 323
Period size: 85 Copynumber: 3.3 Consensus size: 85
41672524 AATTTGGTCT
* * *
41672534 ACTTCTCTGTATCTCATCAAGAAGGCGAATTTGGTCTACTTTTTTGTATCTCATCAGGAAGATGA
1 ACTTCTCTGTATCTCATCAAGAAGACGGATTTGGTCTACTTCTTTGTATCTCATCAGGAAGATGA
*
41672599 CCGCTTTATTGATTCAATCC
66 CAGCTTTATTGATTCAATCC
* * * * * * *
41672619 ACTTCTTTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTATATCTCATTAGAAAGATGA
1 ACTTCTCTGTATCTCATCAAGAAGACGGATTTGGTCTACTTCTTTGTATCTCATCAGGAAGATGA
* *
41672684 CTA-CTTTATTGTTTTAATCC
66 C-AGCTTTATTGATTCAATCC
* * * * *
41672704 ACTTCTCTGTATCTCATCAAGAAGATGGATTTGGT-TCACTCCTTTGCATCTCGTCAGGAAAATG
1 ACTTCTCTGTATCTCATCAAGAAGACGGATTTGGTCT-ACTTCTTTGTATCTCATCAGGAAGATG
* *
41672768 AACAG-TTTATTGGTTCAACCC
65 -ACAGCTTTATTGATTCAATCC
*
41672789 ACTTCTATGTATCTCATCAAGAAGA
1 ACTTCTCTGTATCTCATCAAGAAGA
41672814 TGGGATTTTG
Statistics
Matches: 162, Mismatches: 29, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
85 160 0.99
86 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (85 bp):
ACTTCTCTGTATCTCATCAAGAAGACGGATTTGGTCTACTTCTTTGTATCTCATCAGGAAGATGA
CAGCTTTATTGATTCAATCC
Found at i:41672914 original size:161 final size:160
Alignment explanation
Indices: 41672704--41673049 Score: 440
Period size: 161 Copynumber: 2.2 Consensus size: 160
41672694 GTTTTAATCC
* ** * *
41672704 ACTTCTCTGTATCTCATCAAGAAGATGGATTTGGTTCACTCCTTTGCATCTCGTCAGGAAAATGA
1 ACTTCTCTGTATCTCACCAAGAAGACAGATTTGGTTCACTCCATTGCATCTCGTCAAGAAAATGA
** *
41672769 ACAGTTTATTGGTTCAACCCACTTCTATGTATCTCATCAAGAAGATGGGATTTTGAAGTTTCACT
66 ACAGTTTATTACTTCAACCCACTTCTATGTATCTCATCAAGAAGATGGG-TTTGGAAGTTTCACT
41672834 CACATTGAGCTTCATTTCATTGAATTGGTCT
130 CACATTGAGCTTCATTTCATTGAATTGGTCT
* * *
41672865 ACTTCTCTGTATCTCACCAGGAAGACAGATTTGGTTCACTTCATTGCATCTCGTCAAGAAGATGA
1 ACTTCTCTGTATCTCACCAAGAAGACAGATTTGGTTCACTCCATTGCATCTCGTCAAGAAAATGA
* * * * * * *
41672930 CCATTTTATTACTTCGACCCACTTCTCTTTATCTCATCAGGAATATGGGTTTGGAAGTTTCACTC
66 ACAGTTTATTACTTCAACCCACTTCTATGTATCTCATCAAGAAGATGGGTTTGGAAGTTTCACTC
** * ** *
41672995 ACATTGAGCTTCGCTTCAATGTTTTGGTTT
131 ACATTGAGCTTCATTTCATTGAATTGGTCT
* * *
41673025 GCTTCTCTATATCTCATCAAGAAGA
1 ACTTCTCTGTATCTCACCAAGAAGA
41673050 TGACCTTTTG
Statistics
Matches: 157, Mismatches: 28, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
160 60 0.38
161 97 0.62
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (160 bp):
ACTTCTCTGTATCTCACCAAGAAGACAGATTTGGTTCACTCCATTGCATCTCGTCAAGAAAATGA
ACAGTTTATTACTTCAACCCACTTCTATGTATCTCATCAAGAAGATGGGTTTGGAAGTTTCACTC
ACATTGAGCTTCATTTCATTGAATTGGTCT
Found at i:41674496 original size:206 final size:206
Alignment explanation
Indices: 41674142--41674555 Score: 747
Period size: 206 Copynumber: 2.0 Consensus size: 206
41674132 GTGAAATATT
* * *
41674142 TTTTCACTCAATTTGAGTTGACGAGGTTGTGTAGATCTTTATTGTTCATCTCTGTTAGAATAAGA
1 TTTTCACCCAATTTAAGTTGACGAGGTTGTGTAGATCTTTATTCTTCATCTCTGTTAGAATAAGA
* * * *
41674207 GCTTCCCTTGAGAATGCTTTCTTTATCACATAAGGCCCTTCCTAATTGGGCATCCATTTCCCTCG
66 GCTTCCCTTGACAATGCTTTCTTTATCACATAAGGCCCTTCCAAATTAGACATCCATTTCCCTCG
*
41674272 GAAGTCTTTATGTATGGGGAGTATCATTTTCAGAACTGGATCTCCCTCATGGAATTCTCTAGGGT
131 GAAGTCTTTATGTATGGGGAGTATCATTTTCAGAACTAGATCTCCCTCATGGAATTCTCTAGGGT
41674337 GGACATTTTTG
196 GGACATTTTTG
*
41674348 TTTTCACCCAATTTAAGTTGATGAGGTTGTGTAGATCTTTATTCTTCATCTCTGTTAGAATAAGA
1 TTTTCACCCAATTTAAGTTGACGAGGTTGTGTAGATCTTTATTCTTCATCTCTGTTAGAATAAGA
41674413 GCTTCCCTTGACAATGCTTTCTTTATCACATAAGGCCCTTCCAAATTAGACATCCATTTCCCTCG
66 GCTTCCCTTGACAATGCTTTCTTTATCACATAAGGCCCTTCCAAATTAGACATCCATTTCCCTCG
41674478 GAAGTCTTTATGTATGGGGAGTATCATTTTCAGAACTAGATCTCCCTCATGGAATTCTCTAGGGT
131 GAAGTCTTTATGTATGGGGAGTATCATTTTCAGAACTAGATCTCCCTCATGGAATTCTCTAGGGT
41674543 GGACATTTTTG
196 GGACATTTTTG
41674554 TT
1 TT
41674556 GTAAGCTCGC
Statistics
Matches: 199, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
206 199 1.00
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (206 bp):
TTTTCACCCAATTTAAGTTGACGAGGTTGTGTAGATCTTTATTCTTCATCTCTGTTAGAATAAGA
GCTTCCCTTGACAATGCTTTCTTTATCACATAAGGCCCTTCCAAATTAGACATCCATTTCCCTCG
GAAGTCTTTATGTATGGGGAGTATCATTTTCAGAACTAGATCTCCCTCATGGAATTCTCTAGGGT
GGACATTTTTG
Found at i:41686281 original size:35 final size:35
Alignment explanation
Indices: 41686235--41686305 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
41686225 TTGAGAGAAG
41686235 TTTAAATACGATCCTTAAATGCATGATTTATTCAA
1 TTTAAATACGATCCTTAAATGCATGATTTATTCAA
41686270 TTTAAATACGATCCTTAAATGCATGATTTATTCAA
1 TTTAAATACGATCCTTAAATGCATGATTTATTCAA
41686305 T
1 T
41686306 GTATGCGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (35 bp):
TTTAAATACGATCCTTAAATGCATGATTTATTCAA
Found at i:41686880 original size:29 final size:30
Alignment explanation
Indices: 41686839--41687069 Score: 125
Period size: 30 Copynumber: 7.8 Consensus size: 30
41686829 AAATAGGGTC
* *
41686839 AAAATG-AAGTTTTTGAGAATTTTGA-GGTA
1 AAAATGTAA-TTTTGGAGAAGTTTGATGGTA
* *
41686868 AAAATGTAATTTTGGGGAAGTTTGATGGTC
1 AAAATGTAATTTTGGAGAAGTTTGATGGTA
* * *
41686898 AAAATGTAATTTTGG-GAAAGATT-AGGGGTT
1 AAAATGTAATTTTGGAG-AAGTTTGA-TGGTA
* * * * * *
41686928 AAAAGGTTATTTTGG-GAAATTTTAGGGGTC
1 AAAATGTAATTTTGGAGAAGTTTGA-TGGTA
* * * *
41686958 AAAATGTGATTTTGGAAAAGTTAGATGGTT
1 AAAATGTAATTTTGGAGAAGTTTGATGGTA
* * * *
41686988 AAAATGTAATTTT-GAAAAGTTTAAGGGTT
1 AAAATGTAATTTTGGAGAAGTTTGATGGTA
* * * *
41687017 AAAATATAATTTTGGAAAAGTTT-AGGGGTT
1 AAAATGTAATTTTGGAGAAGTTTGA-TGGTA
* *
41687047 AAAATGTAATTTTAGAAAAGTTT
1 AAAATGTAATTTTGGAGAAGTTT
41687070 AAGGCTTAGA
Statistics
Matches: 167, Mismatches: 27, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
29 51 0.31
30 111 0.66
31 5 0.03
ACGTcount: A:0.37, C:0.01, G:0.25, T:0.37
Consensus pattern (30 bp):
AAAATGTAATTTTGGAGAAGTTTGATGGTA
Found at i:41686940 original size:30 final size:30
Alignment explanation
Indices: 41686868--41687121 Score: 244
Period size: 30 Copynumber: 8.4 Consensus size: 30
41686858 TTTTGAGGTA
** * *
41686868 AAAATGTAATTTTGGGGAAGTTT-GATGGTC
1 AAAATGTAATTTTGGAAAAGTTTAG-GGGTT
* *
41686898 AAAATGTAATTTTGGGAAAGATTAGGGGTT
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
* * * * *
41686928 AAAAGGTTATTTTGGGAAATTTTAGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
* *
41686958 AAAATGTGATTTTGGAAAAG-TTAGATGGTT
1 AAAATGTAATTTTGGAAAAGTTTAG-GGGTT
*
41686988 AAAATGTAATTTT-GAAAAGTTTAAGGGTT
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
*
41687017 AAAATATAATTTTGGAAAAGTTTAGGGGTT
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
* * *
41687047 AAAATGTAATTTTAGAAAAGTTTAAGGCTT
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
* * ** *
41687077 AGAAATGCAATGTTCAAAAAGTTTAGGGGGTC
1 A-AAATGTAATTTTGGAAAAGTTTA-GGGGTT
41687109 AAAATGTAATTTT
1 AAAATGTAATTTT
41687122 TAAATAAAAA
Statistics
Matches: 185, Mismatches: 33, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
29 26 0.14
30 125 0.68
31 30 0.16
32 4 0.02
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.35
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTAGGGGTT
Found at i:41686945 original size:59 final size:58
Alignment explanation
Indices: 41686833--41687121 Score: 229
Period size: 60 Copynumber: 4.8 Consensus size: 58
41686823 GAGAAAAAAT
* * * * * * *
41686833 AGGGTCAAAATG-AAGTTTTTGAGAATTTTGAGGTAAAAATGTAATTTTGGGGAAGTTTG
1 AGGGTCAAAATGTAA-TTTTGGAAAAGTTAGGGGTTAAAATGTAATTTT-GGGAAGTTTA
* * * * *
41686892 ATGGTCAAAATGTAATTTTGGGAAAGATTAGGGGTTAAAAGGTTATTTTGGGAAATTTTA
1 AGGGTCAAAATGTAATTTTGGAAAAG-TTAGGGGTTAAAATGTAATTTTGGG-AAGTTTA
* * * **
41686952 GGGGTCAAAATGTGATTTTGGAAAAGTTAGATGGTTAAAATGTAATTTTGAAAAGTTTA
1 AGGGTCAAAATGTAATTTTGGAAAAGTTAG-GGGTTAAAATGTAATTTTGGGAAGTTTA
* * **
41687011 AGGGTTAAAATATAATTTTGGAAAAGTTTAGGGGTTAAAATGTAATTTTAGAAAAGTTTA
1 AGGGTCAAAATGTAATTTTGGAAAAG-TTAGGGGTTAAAATGTAATTTT-GGGAAGTTTA
* * * * ** *
41687071 AGGCTTAGAAATGCAATGTTCAAAAAGTTTAGGGGGTCAAAATGTAATTTT
1 AGGGTCA-AAATGTAATTTTGGAAAAG-TTA-GGGGTTAAAATGTAATTTT
41687122 TAAATAAAAA
Statistics
Matches: 188, Mismatches: 34, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
59 70 0.37
60 82 0.44
61 18 0.10
62 18 0.10
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.35
Consensus pattern (58 bp):
AGGGTCAAAATGTAATTTTGGAAAAGTTAGGGGTTAAAATGTAATTTTGGGAAGTTTA
Found at i:41692044 original size:20 final size:20
Alignment explanation
Indices: 41691964--41692047 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
41691954 TAAATCCCAA
* * *
41691964 GATTCAAGGCTTATGTTTAG
1 GATTCAAGGTTTAGGTTCAG
* * *
41691984 GATTTAAGATTTAGGGATCAG
1 GATTCAAGGTTTA-GGTTCAG
* *
41692005 G-TTCGA-GTTTTGGATTCAG
1 GATTCAAGGTTTAGG-TTCAG
41692024 GATTCAAGGTTTAGGTTCAG
1 GATTCAAGGTTTAGGTTCAG
41692044 GATT
1 GATT
41692048 TATAGTTTTG
Statistics
Matches: 47, Mismatches: 13, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
18 2 0.04
19 8 0.17
20 26 0.55
21 11 0.23
ACGTcount: A:0.25, C:0.08, G:0.29, T:0.38
Consensus pattern (20 bp):
GATTCAAGGTTTAGGTTCAG
Found at i:41692800 original size:23 final size:23
Alignment explanation
Indices: 41692754--41692802 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
41692744 CGTGGCATCC
* *
41692754 AGTCAGCAGCTTCTAGAAGATCT
1 AGTCAGCAGCTTCCAAAAGATCT
* *
41692777 AGTCAGTAGCTTCCAAAAGGTCT
1 AGTCAGCAGCTTCCAAAAGATCT
41692800 AGT
1 AGT
41692803 TAGGAAGGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (23 bp):
AGTCAGCAGCTTCCAAAAGATCT
Found at i:41700110 original size:17 final size:17
Alignment explanation
Indices: 41700080--41700118 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
41700070 AGGTGGAGAA
* * *
41700080 CTTGTTCGTTGAGAGTT
1 CTTGTCCGTAGAGAATT
41700097 CTTGTCCGTAGAGAATT
1 CTTGTCCGTAGAGAATT
41700114 CTTGT
1 CTTGT
41700119 TAAGGTGGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.15, C:0.15, G:0.26, T:0.44
Consensus pattern (17 bp):
CTTGTCCGTAGAGAATT
Found at i:41711845 original size:2 final size:2
Alignment explanation
Indices: 41711840--41711868 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
41711830 TGTGTGTGTG
41711840 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
41711869 CAATCTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:41715439 original size:17 final size:17
Alignment explanation
Indices: 41715417--41715455 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
41715407 AGGTGGAGAA
* * *
41715417 CTTGTTTGTTGAGAGTT
1 CTTGTTCGTAGAGAATT
41715434 CTTGTTCGTAGAGAATT
1 CTTGTTCGTAGAGAATT
41715451 CTTGT
1 CTTGT
41715456 CAAGGTGGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.15, C:0.10, G:0.26, T:0.49
Consensus pattern (17 bp):
CTTGTTCGTAGAGAATT
Found at i:41716315 original size:18 final size:17
Alignment explanation
Indices: 41716289--41716326 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
41716279 ATTAAAGACG
*
41716289 ATAACATAATTTAATAAT
1 ATAAAATAATTTAA-AAT
41716307 ATAAAATAATTTAAAAT
1 ATAAAATAATTTAAAAT
41716324 ATA
1 ATA
41716327 TATTAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (17 bp):
ATAAAATAATTTAAAAT
Found at i:41718677 original size:18 final size:17
Alignment explanation
Indices: 41718651--41718688 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
41718641 ATGAAAGACA
*
41718651 ATAACATAATTTAATAAT
1 ATAAAATAATTTAA-AAT
41718669 ATAAAATAATTTAAAAT
1 ATAAAATAATTTAAAAT
41718686 ATA
1 ATA
41718689 TATTAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (17 bp):
ATAAAATAATTTAAAAT
Found at i:41721016 original size:18 final size:17
Alignment explanation
Indices: 41720995--41721032 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
41720985 TATAAAGACG
*
41720995 ATAATATAATTTAATAAT
1 ATAATACAATTTAA-AAT
41721013 ATAATACAATTTAAAAT
1 ATAATACAATTTAAAAT
41721030 ATA
1 ATA
41721033 TATTAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
ATAATACAATTTAAAAT
Found at i:41723446 original size:16 final size:18
Alignment explanation
Indices: 41723410--41723446 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
41723400 ATTAAAGACG
41723410 ATAACATAATTTAATAAT
1 ATAACATAATTTAATAAT
41723428 ATAA-ATAATTTAA-AAT
1 ATAACATAATTTAATAAT
41723444 ATA
1 ATA
41723447 TGTTAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 9 0.47
18 4 0.21
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAACATAATTTAATAAT
Found at i:41723447 original size:18 final size:18
Alignment explanation
Indices: 41723410--41723446 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
41723400 ATTAAAGACG
*
41723410 ATAACATAATTTAATAAT
1 ATAACATAATTTAAAAAT
41723428 ATAA-ATAATTT-AAAAT
1 ATAACATAATTTAAAAAT
41723444 ATA
1 ATA
41723447 TGTTAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 7 0.39
18 4 0.22
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAACATAATTTAAAAAT
Found at i:41726294 original size:16 final size:18
Alignment explanation
Indices: 41726258--41726294 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
41726248 ATTAAAGACG
41726258 ATAACATAATTTAATAAT
1 ATAACATAATTTAATAAT
41726276 ATAA-ATAATTTAA-AAT
1 ATAACATAATTTAATAAT
41726292 ATA
1 ATA
41726295 TGTTAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 9 0.47
18 4 0.21
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAACATAATTTAATAAT
Found at i:41726295 original size:18 final size:18
Alignment explanation
Indices: 41726258--41726294 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
41726248 ATTAAAGACG
*
41726258 ATAACATAATTTAATAAT
1 ATAACATAATTTAAAAAT
41726276 ATAA-ATAATTT-AAAAT
1 ATAACATAATTTAAAAAT
41726292 ATA
1 ATA
41726295 TGTTAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 7 0.39
18 4 0.22
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAACATAATTTAAAAAT
Found at i:41737338 original size:16 final size:18
Alignment explanation
Indices: 41737302--41737338 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
41737292 ATTAAAGACG
*
41737302 ATAACATAATTTAATAAT
1 ATAACATAATTTAAGAAT
41737320 ATAA-ATAATTT-AGAAT
1 ATAACATAATTTAAGAAT
41737336 ATA
1 ATA
41737339 TATTAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 7 0.39
18 4 0.22
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
ATAACATAATTTAAGAAT
Found at i:41743010 original size:18 final size:18
Alignment explanation
Indices: 41742984--41743026 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
41742974 TTAAAAGATG
* *
41742984 ATAAGATAACATAATTTA
1 ATAATATAAAATAATTTA
*
41743002 ATAATATAAAATCATTTA
1 ATAATATAAAATAATTTA
41743020 A-AATATA
1 ATAATATA
41743027 TATTAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (18 bp):
ATAATATAAAATAATTTA
Found at i:41745197 original size:11 final size:10
Alignment explanation
Indices: 41745181--41745220 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 10
41745171 ATATAAATAT
41745181 TTTTCTTTTTC
1 TTTT-TTTTTC
*
41745192 TTTTCTTTTCC
1 TTTT-TTTTTC
41745203 TTTTTTTTTC
1 TTTTTTTTTC
41745213 TTTTTTTT
1 TTTTTTTT
41745221 ATATGACTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 13 0.48
11 14 0.52
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:41745206 original size:16 final size:16
Alignment explanation
Indices: 41745181--41745216 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
41745171 ATATAAATAT
*
41745181 TTTTCTTTTTCTTTTC
1 TTTTCCTTTTCTTTTC
*
41745197 TTTTCCTTTTTTTTTC
1 TTTTCCTTTTCTTTTC
41745213 TTTT
1 TTTT
41745217 TTTTATATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTCCTTTTCTTTTC
Done.