Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 71 of 145
Found at i:23635677 original size:53 final size:53
Alignment explanation
Indices: 23635615--23635774 Score: 198
Period size: 53 Copynumber: 3.0 Consensus size: 53
23635605 CATTTCATCT
*
23635615 CCTA-GGGGTATTTCGGTCATTTTACCCTATTGGGGTATTTCGATCATTTTAC
1 CCTATGGGGTATTTCGGTCATTTTACCCTATTGGGGTATTTCGGTCATTTTAC
* * *
23635667 CCTATGGGGTATTTAGGTCATTCTACCCTA-TGAGGGTATTTCGGTCATTCTAC
1 CCTATGGGGTATTTCGGTCATTTTACCCTATTG-GGGTATTTCGGTCATTTTAC
* * * ** *
23635720 CTTATGGGGGTATTTCGATCATTTTATCCTATAAGGGTATTTTGGTCATTTTAC
1 CCTAT-GGGGTATTTCGGTCATTTTACCCTATTGGGGTATTTCGGTCATTTTAC
23635774 C
1 C
23635775 TATTTTAGGG
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
52 6 0.07
53 45 0.49
54 40 0.44
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (53 bp):
CCTATGGGGTATTTCGGTCATTTTACCCTATTGGGGTATTTCGGTCATTTTAC
Found at i:23635736 original size:80 final size:81
Alignment explanation
Indices: 23635620--23635774 Score: 240
Period size: 80 Copynumber: 1.9 Consensus size: 81
23635610 CATCTCCTAG
* * *
23635620 GGGTATTTCGGTCATTTTACCCTATTGGGGTATTTCGATCATTTTACCCTAT-GGGGTATTTAGG
1 GGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATAAGGGTATTTAGG
23635684 TCATTCTACCCTATGA
66 TCATTCTACCCTATGA
* * *
23635700 GGGTATTTCGGTCATTCTACCTTATGGGGGTATTTCGATCATTTTATCCTATAAGGGTATTTTGG
1 GGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATAAGGGTATTTAGG
*
23635765 TCATTTTACC
66 TCATTCTACC
23635775 TATTTTAGGG
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
80 48 0.72
81 19 0.28
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (81 bp):
GGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATAAGGGTATTTAGG
TCATTCTACCCTATGA
Found at i:23635771 original size:27 final size:27
Alignment explanation
Indices: 23635619--23635774 Score: 197
Period size: 27 Copynumber: 5.8 Consensus size: 27
23635609 TCATCTCCTA
*
23635619 GGGGTATTTCGGTCATTTTACCCTATT
1 GGGGTATTTCGGTCATTTTACCCTATG
*
23635646 GGGGTATTTCGATCATTTTACCCTAT-
1 GGGGTATTTCGGTCATTTTACCCTATG
* *
23635672 GGGGTATTTAGGTCATTCTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
* * *
23635699 AGGGTATTTCGGTCATTCTACCTTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
* * *
23635726 GGGGTATTTCGATCATTTTATCCTATA
1 GGGGTATTTCGGTCATTTTACCCTATG
* *
23635753 AGGGTATTTTGGTCATTTTACC
1 GGGGTATTTCGGTCATTTTACC
23635775 TATTTTAGGG
Statistics
Matches: 111, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 23 0.21
27 88 0.79
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (27 bp):
GGGGTATTTCGGTCATTTTACCCTATG
Found at i:23640531 original size:35 final size:35
Alignment explanation
Indices: 23640491--23640561 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
23640481 TATTTCATTA
*
23640491 AATTTATTAATTTAAATAATTAAACAATTCAATTC
1 AATTTATTAATTTAAATAATAAAACAATTCAATTC
*
23640526 AATTTATTAATTTAAATAATAAAACAATTCATTTC
1 AATTTATTAATTTAAATAATAAAACAATTCAATTC
23640561 A
1 A
23640562 TGCAATTTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.42
Consensus pattern (35 bp):
AATTTATTAATTTAAATAATAAAACAATTCAATTC
Found at i:23643911 original size:50 final size:50
Alignment explanation
Indices: 23643795--23644007 Score: 209
Period size: 50 Copynumber: 4.3 Consensus size: 50
23643785 AATATAACAC
* * ** *
23643795 GCCAAAGCTATGTCCCAGACATAATCTTACATGGGATGTT-TCCTATAC--T
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGGT
* *
23643844 GCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGT
* ** ** * * *
23643894 GCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTTATCTCGGA
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGT
* *
23643944 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-TCTCTCATCTCGAT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGT-TCTCATATCGGT
*
23643994 GCCAACGCCATGTC
1 GCCAATGCCATGTC
23644008 GGACCTCTCA
Statistics
Matches: 135, Mismatches: 25, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
48 4 0.03
49 35 0.26
50 96 0.71
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGT
Found at i:23644066 original size:81 final size:81
Alignment explanation
Indices: 23643927--23644088 Score: 270
Period size: 81 Copynumber: 2.0 Consensus size: 81
23643917 GTCTTACGGG
* *
23643927 GGACCTCTTATCTCGGAGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCG
1 GGACCTCTCATCTCGGAGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
*
23643992 ATGCCAACGCCATGTC
66 ATACCAACGCCATGTC
* *
23644008 GGACCTCTCATCTTGGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
1 GGACCTCTCATCTCGGAGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
*
23644073 GTACCAACGCCATGTC
66 ATACCAACGCCATGTC
23644089 CCAGACATGG
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.20, C:0.33, G:0.21, T:0.26
Consensus pattern (81 bp):
GGACCTCTCATCTCGGAGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
ATACCAACGCCATGTC
Found at i:23644085 original size:50 final size:50
Alignment explanation
Indices: 23644008--23644218 Score: 377
Period size: 50 Copynumber: 4.2 Consensus size: 50
23643998 ACGCCATGTC
* *
23644008 GGACCTCTCATCTTGGTGCCAATGCCATGTCCCAGACATGGTCTTACATG
1 GGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATG
*
23644058 GGACCTCTCATCTCGGTACCAACGCCATGTCCCAGACATGGTCTTACATG
1 GGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATG
*
23644108 GGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAACATGGTCTTACATG
1 GGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATG
*
23644158 GGACCTCTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCTTACATG
1 GGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATG
23644208 GGACCTCTCAT
1 GGACCTCTCAT
23644219 AATTTCAATA
Statistics
Matches: 154, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 154 1.00
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.26
Consensus pattern (50 bp):
GGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATG
Found at i:23644116 original size:131 final size:131
Alignment explanation
Indices: 23643882--23644138 Score: 417
Period size: 131 Copynumber: 2.0 Consensus size: 131
23643872 ACATGGGAGT
* * *
23643882 TCTCATATCGGTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTTATCTCGGAGCC
1 TCTCATATCGGTGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGAGCC
* *
23643947 AATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGATGCCAACGCCATGTCGGAC
66 AACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACGCCATGTCGGAC
23644012 C
131 C
* * *
23644013 TCTCATCTTGGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTA-C
1 TCTCATATCGGTGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG-AGC
*
23644077 CAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
65 CAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACGCCATGTC
23644139 CCAAACATGG
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
131 115 0.99
132 1 0.01
ACGTcount: A:0.20, C:0.33, G:0.22, T:0.26
Consensus pattern (131 bp):
TCTCATATCGGTGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGAGCC
AACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACGCCATGTCGGAC
C
Found at i:23644149 original size:181 final size:181
Alignment explanation
Indices: 23643843--23644188 Score: 539
Period size: 181 Copynumber: 1.9 Consensus size: 181
23643833 TTTCCTATAC
* ** * * *
23643843 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTC
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTACCAACGCCATGTC
* * * *
23643908 CCAGACATGGTCTTACGGGGGACCTCTTATCTCGGAGCCAATGCCATGTCCCAGACATGGTCTTA
66 CCAGACATGGTCTTACAGGGGACCTCTCATCTCGGAGCCAACGCCATGTCCCAAACATGGTCTTA
*
23643973 CATGGGATCTCTCATCTCGATGCCAACGCCATGTCGGACCTCTCATCTTGG
131 CATGGGACCTCTCATCTCGATGCCAACGCCATGTCGGACCTCTCATCTTGG
* *
23644024 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTACCAACGCCATGTC
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTACCAACGCCATGTC
* *
23644089 CCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAACATGGTCTTA
66 CCAGACATGGTCTTACAGGGGACCTCTCATCTCGGAGCCAACGCCATGTCCCAAACATGGTCTTA
* *
23644154 CATGGGACCTCTCATCTCGGTGCCAATGCCATGTC
131 CATGGGACCTCTCATCTCGATGCCAACGCCATGTC
23644189 CCAGACATGG
Statistics
Matches: 148, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
181 148 1.00
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.26
Consensus pattern (181 bp):
TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTACCAACGCCATGTC
CCAGACATGGTCTTACAGGGGACCTCTCATCTCGGAGCCAACGCCATGTCCCAAACATGGTCTTA
CATGGGACCTCTCATCTCGATGCCAACGCCATGTCGGACCTCTCATCTTGG
Found at i:23648095 original size:12 final size:12
Alignment explanation
Indices: 23648078--23648105 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
23648068 AGACTATTGC
23648078 AAAAAAAATTAT
1 AAAAAAAATTAT
23648090 AAAAAAAATTAT
1 AAAAAAAATTAT
23648102 AAAA
1 AAAA
23648106 TGTGAGTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAAAAAATTAT
Found at i:23648434 original size:21 final size:21
Alignment explanation
Indices: 23648394--23648434 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23648384 GATTTATTGA
*
23648394 GGGCTTTGAATAGGGTTGTTG
1 GGGCTTTGAATAGGGGTGTTG
23648415 GGGCTTT-AATAGGAGGTGTT
1 GGGCTTTGAATAGG-GGTGTT
23648435 AGTCGTGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.17, C:0.05, G:0.41, T:0.37
Consensus pattern (21 bp):
GGGCTTTGAATAGGGGTGTTG
Found at i:23658170 original size:63 final size:63
Alignment explanation
Indices: 23658092--23658214 Score: 221
Period size: 63 Copynumber: 2.0 Consensus size: 63
23658082 TGAACATGGG
23658092 TTTAGTAATTCTAAGTTAA-GAAGTGTAATTGAGCTAACATAATTATGTCATCTTGATTAACTA
1 TTTAGTAATTCTAAGTTAAGGAA-TGTAATTGAGCTAACATAATTATGTCATCTTGATTAACTA
*
23658155 TTTAGTAATTCTAAGTTAAGGAATGTAATTGATCTAACATAATTATGTCATCTTGATTAA
1 TTTAGTAATTCTAAGTTAAGGAATGTAATTGAGCTAACATAATTATGTCATCTTGATTAA
23658215 AACTATCTTT
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
63 55 0.95
64 3 0.05
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.41
Consensus pattern (63 bp):
TTTAGTAATTCTAAGTTAAGGAATGTAATTGAGCTAACATAATTATGTCATCTTGATTAACTA
Found at i:23658824 original size:35 final size:35
Alignment explanation
Indices: 23658741--23658816 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 35
23658731 TGGCTGGAAA
* * * *
23658741 AAAAAGATCTATTGGCTCTACAGAGCGACATCATG
1 AAAATGATCTACTAGCTCTACAGAGCGACACCATG
* *
23658776 AAAATGATCTACTAGCTCTACGGAGTGACACCATG
1 AAAATGATCTACTAGCTCTACAGAGCGACACCATG
*
23658811 TAAATG
1 AAAATG
23658817 TTTTACTAAC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (35 bp):
AAAATGATCTACTAGCTCTACAGAGCGACACCATG
Found at i:23659263 original size:23 final size:22
Alignment explanation
Indices: 23659232--23659275 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
23659222 TTTTAAAAGG
23659232 TTATATATTTATTTTTATTTGTT
1 TTATATATTTA-TTTTATTTGTT
*
23659255 TTATTTATTTATTTTATTTGT
1 TTATATATTTATTTTATTTGT
23659276 ATTTTTGTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (22 bp):
TTATATATTTATTTTATTTGTT
Found at i:23659278 original size:19 final size:19
Alignment explanation
Indices: 23659237--23659279 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
23659227 AAAGGTTATA
* *
23659237 TATTTATTTTTATTTGTTT
1 TATTTATTTATATTTATTT
23659256 TATTTATTTAT-TTTATTT
1 TATTTATTTATATTTATTT
23659274 GTATTT
1 -TATTT
23659280 TTGTGGGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.77
Consensus pattern (19 bp):
TATTTATTTATATTTATTT
Found at i:23662875 original size:14 final size:15
Alignment explanation
Indices: 23662851--23662879 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23662841 AGGTTAGATA
23662851 TTTATTTTTATTTGT
1 TTTATTTTTATTTGT
23662866 TTTA-TTTTATTTGT
1 TTTATTTTTATTTGT
23662880 ATTTTTGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (15 bp):
TTTATTTTTATTTGT
Found at i:23663211 original size:21 final size:20
Alignment explanation
Indices: 23663169--23663216 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
23663159 GTTCATTCAA
*
23663169 TTCTGTGAAATTCGGCTTGT
1 TTCTGTGAAATTCGACTTGT
*
23663189 TTCTGTGAAATTTGACGTTGT
1 TTCTGTGAAATTCGAC-TTGT
*
23663210 TTGTGTG
1 TTCTGTG
23663217 CTTTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.15, C:0.10, G:0.27, T:0.48
Consensus pattern (20 bp):
TTCTGTGAAATTCGACTTGT
Found at i:23663571 original size:91 final size:91
Alignment explanation
Indices: 23663424--23663594 Score: 270
Period size: 91 Copynumber: 1.9 Consensus size: 91
23663414 GACCATGTAC
* ** **
23663424 AGTTGAGAATTAGGGTTTTCGGGCAAATTATGGTGCCACACGGTCGTGTGGCTGACTTGGGGATA
1 AGTTGAGAATTAGGGTTTTCAGGCAAATTATGGTGCCACACGACCAAGTGGCTGACTTGGGGATA
23663489 TTGTTGATTTTCACACTGCCGTGTCT
66 TTGTTGATTTTCACACTGCCGTGTCT
* * *
23663515 AGTTGGGAATTAGGGTTTTCAGGCAAATTATGGTGCCACACGACCAAGTGGTTGACTTGGGGATT
1 AGTTGAGAATTAGGGTTTTCAGGCAAATTATGGTGCCACACGACCAAGTGGCTGACTTGGGGATA
23663580 TTGTTGATTTTCACA
66 TTGTTGATTTTCACA
23663595 AGGGCGTGTG
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
91 72 1.00
ACGTcount: A:0.21, C:0.15, G:0.30, T:0.34
Consensus pattern (91 bp):
AGTTGAGAATTAGGGTTTTCAGGCAAATTATGGTGCCACACGACCAAGTGGCTGACTTGGGGATA
TTGTTGATTTTCACACTGCCGTGTCT
Found at i:23666882 original size:24 final size:24
Alignment explanation
Indices: 23666822--23666882 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
23666812 GCCATATAGT
** *
23666822 AACATACATAATATTCCACAAGGC
1 AACATACATAATACACCACAAGGA
* *
23666846 AACATACAAAATACACCACAATGA
1 AACATACATAATACACCACAAGGA
*
23666870 AACATAGATAATA
1 AACATACATAATA
23666883 ACTTGTTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.54, C:0.21, G:0.07, T:0.18
Consensus pattern (24 bp):
AACATACATAATACACCACAAGGA
Found at i:23670924 original size:39 final size:39
Alignment explanation
Indices: 23670870--23670945 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
23670860 AGTAGACTTC
*
23670870 GATTTTCTTAAGGATATCTCTACTGGTTCTCTGAGCTTT
1 GATTTTCTTAAGGATATCTCTACTGATTCTCTGAGCTTT
*
23670909 GATTTTCTTAAGGATATCTCTATTGATTCTCTGAGCT
1 GATTTTCTTAAGGATATCTCTACTGATTCTCTGAGCT
23670946 CTAATGTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.46
Consensus pattern (39 bp):
GATTTTCTTAAGGATATCTCTACTGATTCTCTGAGCTTT
Found at i:23672215 original size:21 final size:22
Alignment explanation
Indices: 23672186--23672226 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
23672176 CATGAAATTC
23672186 AACACATTAC-ATGCCAACTTA
1 AACACATTACAATGCCAACTTA
* *
23672207 AACATATTACAATTCCAACT
1 AACACATTACAATGCCAACT
23672227 AGAACTTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.44, C:0.27, G:0.02, T:0.27
Consensus pattern (22 bp):
AACACATTACAATGCCAACTTA
Found at i:23674372 original size:25 final size:25
Alignment explanation
Indices: 23674344--23674394 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
23674334 CTAGCACGAA
*
23674344 ATGATGATGAAAATGCTTAGATTTC
1 ATGATGAAGAAAATGCTTAGATTTC
*
23674369 ATGATGAAGAAAATGTTTAGATTTC
1 ATGATGAAGAAAATGCTTAGATTTC
23674394 A
1 A
23674395 ATTTATGAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.35
Consensus pattern (25 bp):
ATGATGAAGAAAATGCTTAGATTTC
Found at i:23676365 original size:12 final size:12
Alignment explanation
Indices: 23676348--23676374 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
23676338 CTTGGACAAT
23676348 CCTACCGAAACC
1 CCTACCGAAACC
23676360 CCTACCGAAACC
1 CCTACCGAAACC
23676372 CCT
1 CCT
23676375 GCCAAATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.52, G:0.07, T:0.11
Consensus pattern (12 bp):
CCTACCGAAACC
Found at i:23682975 original size:146 final size:147
Alignment explanation
Indices: 23682711--23683004 Score: 581
Period size: 146 Copynumber: 2.0 Consensus size: 147
23682701 GTACGAGTCT
23682711 AGAAATACATGCCATTATATAACATGTGATAGTGTGATAACTCATGACTTGATTTGAACTATGTT
1 AGAAATACATGCCATTATATAACATGTGATAGTGTGATAACTCATGACTTGATTTGAACTATGTT
23682776 TTCATATAGATAAAATGTCATCCAACCAAGCTGATTCTGATGAAGTAGAAAGTAACGCGCAAGCC
66 TTCATATAGATAAAATGTCATCCAACCAAGCTGATTCTGATGAAGTAGAAAGTAACGCGCAAGCC
23682841 TCCATTC-TGGGGCAGC
131 TCCATTCATGGGGCAGC
23682857 AGAAATACATGCCATTATATAACATGTGATAGTGTGATAACTCATGACTTGATTTGAACTATGTT
1 AGAAATACATGCCATTATATAACATGTGATAGTGTGATAACTCATGACTTGATTTGAACTATGTT
23682922 TTCATATAGATAAAATGTCATCCAACCAAGCTGATTCTGATGAAGTAGAAAGTAACGCGCAAGCC
66 TTCATATAGATAAAATGTCATCCAACCAAGCTGATTCTGATGAAGTAGAAAGTAACGCGCAAGCC
23682987 TCCATTCATGGGGCAGC
131 TCCATTCATGGGGCAGC
23683004 A
1 A
23683005 CCTAGTGGAA
Statistics
Matches: 147, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
146 137 0.93
147 10 0.07
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (147 bp):
AGAAATACATGCCATTATATAACATGTGATAGTGTGATAACTCATGACTTGATTTGAACTATGTT
TTCATATAGATAAAATGTCATCCAACCAAGCTGATTCTGATGAAGTAGAAAGTAACGCGCAAGCC
TCCATTCATGGGGCAGC
Found at i:23692355 original size:42 final size:43
Alignment explanation
Indices: 23692266--23692363 Score: 126
Period size: 42 Copynumber: 2.3 Consensus size: 43
23692256 CTTACACGTG
* ** * *
23692266 GTCTTACATGTAATCAAATAACGATGCCAGTGTCCCAAACAAG
1 GTCTTACACGTAATCAAATAACGACACCAATGTCCCAAACAAC
* *
23692309 GTCTTACACGTAATCATAT-ACGACACCAATGTCCCAAACATC
1 GTCTTACACGTAATCAAATAACGACACCAATGTCCCAAACAAC
23692351 GTCTTACACGTAA
1 GTCTTACACGTAA
23692364 ATTTCAAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 31 0.65
43 17 0.35
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (43 bp):
GTCTTACACGTAATCAAATAACGACACCAATGTCCCAAACAAC
Found at i:23710563 original size:9 final size:9
Alignment explanation
Indices: 23710549--23710585 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
23710539 AAATGCTCGT
23710549 GAAAAAAAA
1 GAAAAAAAA
23710558 GAAAAAAAA
1 GAAAAAAAA
23710567 G--AAAAAA
1 GAAAAAAAA
23710574 GAAAAGAAAA
1 GAAAA-AAAA
23710584 GA
1 GA
23710586 GAGTATATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
7 7 0.28
9 12 0.48
10 6 0.24
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:23710571 original size:16 final size:17
Alignment explanation
Indices: 23710552--23710585 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
23710542 TGCTCGTGAA
23710552 AAAAAAGAAAA-AAAAG
1 AAAAAAGAAAAGAAAAG
23710568 AAAAAAGAAAAGAAAAG
1 AAAAAAGAAAAGAAAAG
23710585 A
1 A
23710586 GAGTATATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAAGAAAAG
Found at i:23725880 original size:29 final size:29
Alignment explanation
Indices: 23725847--23725906 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
23725837 GATAACTACT
23725847 CGTAGTAAAGTGGATAGAACTCGGTTGAC
1 CGTAGTAAAGTGGATAGAACTCGGTTGAC
23725876 CGTAGTAAAGTGGATAGAACTCGGTTGAC
1 CGTAGTAAAGTGGATAGAACTCGGTTGAC
23725905 CG
1 CG
23725907 CCTCCATTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.23
Consensus pattern (29 bp):
CGTAGTAAAGTGGATAGAACTCGGTTGAC
Found at i:23728200 original size:22 final size:23
Alignment explanation
Indices: 23728175--23728221 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
23728165 TTCACTTTTC
*
23728175 TTTTCTTTTTC-AT-TTTCTCTTT
1 TTTTCTTATTCAATCTTT-TCTTT
23728197 TTTTCTTATTCAATCTTTTCTTT
1 TTTTCTTATTCAATCTTTTCTTT
23728220 TT
1 TT
23728222 CTTTCATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 10 0.45
23 9 0.41
24 3 0.14
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTCTTATTCAATCTTTTCTTT
Found at i:23743828 original size:30 final size:27
Alignment explanation
Indices: 23743785--23743867 Score: 103
Period size: 28 Copynumber: 2.9 Consensus size: 27
23743775 CAGTAGCAGT
*
23743785 ACAGTGTGGGCCTTAGCCCATTACATCA
1 ACAGTGTGGGCCTTAGCCCAATACAT-A
*
23743813 ACAGTGTGAGGGCCTTAGCCCAATACCGTA
1 ACAGTGT--GGGCCTTAGCCCAATA-CATA
*
23743843 ACAATGTGGGCCTTAGCCCAATACA
1 ACAGTGTGGGCCTTAGCCCAATACA
23743868 GTTATCATCC
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
27 1 0.02
28 23 0.48
30 22 0.46
31 2 0.04
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.22
Consensus pattern (27 bp):
ACAGTGTGGGCCTTAGCCCAATACATA
Found at i:23743862 original size:28 final size:29
Alignment explanation
Indices: 23743789--23743866 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 29
23743779 AGCAGTACAG
* *
23743789 TGTGGGCCTTAGCCCATTA-CATCAACAG
1 TGTGGGCCTTAGCCCAATACCATCAACAA
*
23743817 TGTGAGGGCCTTAGCCCAATACCGT-AACAA
1 TGT--GGGCCTTAGCCCAATACCATCAACAA
23743847 TGTGGGCCTTAGCCCAATAC
1 TGTGGGCCTTAGCCCAATAC
23743867 AGTTATCATC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
28 20 0.45
30 22 0.50
31 2 0.05
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (29 bp):
TGTGGGCCTTAGCCCAATACCATCAACAA
Found at i:23744033 original size:26 final size:26
Alignment explanation
Indices: 23743960--23744035 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
23743950 CACGAATATC
* * * *
23743960 GCAGCAAAGCTGCGAGTAATAATGAT
1 GCAGCAAAGCTGCCAGTAACAGTAAT
* *
23743986 GCAGCATAGTTGCCAGTAACAGTAAT
1 GCAGCAAAGCTGCCAGTAACAGTAAT
*
23744012 GCAGCAAAGCTGCCACTAACAGTA
1 GCAGCAAAGCTGCCAGTAACAGTA
23744036 TATGTGGCAA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAACAGTAAT
Found at i:23744314 original size:27 final size:27
Alignment explanation
Indices: 23744208--23744434 Score: 226
Period size: 27 Copynumber: 8.4 Consensus size: 27
23744198 AGGGGTATAA
*
23744208 CAGTCATTTTACCCTAT-GGGGGTATTT
1 CAGTCATTTTACCC-ATCGAGGGTATTT
** * *
23744235 TTGTCATTTTACCCTTCGGGGGTATTT
1 CAGTCATTTTACCCATCGAGGGTATTT
** *
23744262 TGGTCATTTTA-CCATTCAAGGGTATTT
1 CAGTCATTTTACCCA-TCGAGGGTATTT
*
23744289 CAGTCATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCATCGAGGGTATTT
** * *
23744316 TGGTCATTTTACCCATCAAGGGTACTT
1 CAGTCATTTTACCCATCGAGGGTATTT
*
23744343 CAGTCATTTTACCCATCAAGGGTATTT
1 CAGTCATTTTACCCATCGAGGGTATTT
*** *
23744370 TTTTTATTTTACCCATCGAGGGTATTT
1 CAGTCATTTTACCCATCGAGGGTATTT
*
23744397 C-GTTCATTTTTACACATCGAGGGTATTT
1 CAG-TCA-TTTTACCCATCGAGGGTATTT
23744425 CAGTCATTTT
1 CAGTCATTTT
23744435 CTCATGAATC
Statistics
Matches: 166, Mismatches: 28, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
26 3 0.02
27 136 0.82
28 26 0.16
29 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.43
Consensus pattern (27 bp):
CAGTCATTTTACCCATCGAGGGTATTT
Found at i:23744322 original size:81 final size:81
Alignment explanation
Indices: 23744208--23744434 Score: 269
Period size: 81 Copynumber: 2.8 Consensus size: 81
23744198 AGGGGTATAA
* * * * **
23744208 CAGTCATTTTACCCTAT-GGGGGTATTTTTGTCATTTTACCCTTCGGGGGTATTTTGGTCATTTT
1 CAGTCATTTTACCCT-TCGAGGGTATTTTGGTCATTTTACCCATCGAGGGTATTTCAGTCATTTT
23744272 A-CCATTCAAGGGTATTT
65 ACCCA-TCAAGGGTATTT
* *
23744289 CAGTCATTTTACCCTTCGAGGGTATTTTGGTCATTTTACCCATCAAGGGTACTTCAGTCATTTTA
1 CAGTCATTTTACCCTTCGAGGGTATTTTGGTCATTTTACCCATCGAGGGTATTTCAGTCATTTTA
23744354 CCCATCAAGGGTATTT
66 CCCATCAAGGGTATTT
*** * * * * *
23744370 TTTTTATTTTACCCATCGAGGGTATTTCGTTCATTTTTACACATCGAGGGTATTTCAGTCATTTT
1 CAGTCATTTTACCCTTCGAGGGTATTTTGGTCA-TTTTACCCATCGAGGGTATTTCAGTCATTTT
23744435 CTCATGAATC
Statistics
Matches: 125, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
80 1 0.01
81 93 0.74
82 31 0.25
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.43
Consensus pattern (81 bp):
CAGTCATTTTACCCTTCGAGGGTATTTTGGTCATTTTACCCATCGAGGGTATTTCAGTCATTTTA
CCCATCAAGGGTATTT
Found at i:23748087 original size:22 final size:23
Alignment explanation
Indices: 23748071--23748114 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
23748061 AAAAATTCTC
*
23748071 CTGTAATATCCCGAAAATTACGA
1 CTGTAATACCCCGAAAATTACGA
23748094 CTGTAATACCCCGAAAATTAC
1 CTGTAATACCCCGAAAATTAC
23748115 TACAGTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.25, G:0.11, T:0.25
Consensus pattern (23 bp):
CTGTAATACCCCGAAAATTACGA
Found at i:23748122 original size:23 final size:23
Alignment explanation
Indices: 23748073--23748122 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
23748063 AAATTCTCCT
* *
23748073 GTAATATCCCGAAAATTACGACT
1 GTAATACCCCGAAAATTACGACA
*
23748096 GTAATACCCCGAAAATTACTACA
1 GTAATACCCCGAAAATTACGACA
23748119 GTAA
1 GTAA
23748123 AAAGTAGGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.24
Consensus pattern (23 bp):
GTAATACCCCGAAAATTACGACA
Found at i:23750783 original size:22 final size:20
Alignment explanation
Indices: 23750755--23750814 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 20
23750745 ACACCACACC
23750755 AAAGGCATCAAAGATGCATAAT
1 AAAGGCATCAAAG-TGCA-AAT
*
23750777 AAAGGCATCGAAGTGCAAAT
1 AAAGGCATCAAAGTGCAAAT
23750797 AGAA-GCA-CAAATGTGCAA
1 A-AAGGCATCAAA-GTGCAA
23750815 TTAGAGGCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 3 0.09
20 13 0.38
21 6 0.18
22 12 0.35
ACGTcount: A:0.48, C:0.15, G:0.22, T:0.15
Consensus pattern (20 bp):
AAAGGCATCAAAGTGCAAAT
Found at i:23750812 original size:20 final size:20
Alignment explanation
Indices: 23750787--23750854 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
23750777 AAAGGCATCG
23750787 AAGTGCAAATAGAAGCAC-A
1 AAGTGCAAATAGAAGCACTA
* * *
23750806 AATGTGCAATTAGAGGCACTG
1 AA-GTGCAAATAGAAGCACTA
* *
23750827 AAGTGCAAACAGATGCACTA
1 AAGTGCAAATAGAAGCACTA
23750847 AAGTGCAA
1 AAGTGCAA
23750855 TCCCATACAA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.05
20 36 0.90
21 2 0.05
ACGTcount: A:0.44, C:0.16, G:0.24, T:0.16
Consensus pattern (20 bp):
AAGTGCAAATAGAAGCACTA
Found at i:23758207 original size:12 final size:12
Alignment explanation
Indices: 23758190--23758214 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23758180 GCAAGTAGGT
23758190 TAAGGATAGGCC
1 TAAGGATAGGCC
23758202 TAAGGATAGGCC
1 TAAGGATAGGCC
23758214 T
1 T
23758215 GTAACCAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.20
Consensus pattern (12 bp):
TAAGGATAGGCC
Found at i:23763186 original size:22 final size:22
Alignment explanation
Indices: 23763158--23763200 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
23763148 CAGTTAAACC
23763158 TAAGTTTGTGTCTAAATGGTCT
1 TAAGTTTGTGTCTAAATGGTCT
23763180 TAAGTTTGTGTCTAAATGGTC
1 TAAGTTTGTGTCTAAATGGTC
23763201 ATATTTCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.09, G:0.23, T:0.44
Consensus pattern (22 bp):
TAAGTTTGTGTCTAAATGGTCT
Found at i:23769862 original size:25 final size:25
Alignment explanation
Indices: 23769804--23769865 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
23769794 ACGAGCTGTA
23769804 AACGGTAAGCTCCTCCGAGCTAAAT
1 AACGGTAAGCTCCTCCGAGCTAAAT
** *
23769829 AACAATAAGCTCCTCCGAGCTGAAT
1 AACGGTAAGCTCCTCCGAGCTAAAT
*
23769854 AATGGTAAGCTC
1 AACGGTAAGCTC
23769866 ATAGAAGCTG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (25 bp):
AACGGTAAGCTCCTCCGAGCTAAAT
Found at i:23774018 original size:40 final size:40
Alignment explanation
Indices: 23773974--23774096 Score: 165
Period size: 40 Copynumber: 3.1 Consensus size: 40
23773964 TGATTGGGAC
* * * *
23773974 CACCAAAGGGCAAACAGCGGTACATATGTGCATTCAGGGG
1 CACCAAAGTGCAAACAGAGGCACAGATGTGCATTCAGGGG
* *
23774014 CACCAAAGTACAAACAGGGGCACAGATGTGCATTCAGGGG
1 CACCAAAGTGCAAACAGAGGCACAGATGTGCATTCAGGGG
* * *
23774054 CACCAAAGTGCAAACAAAGGCACAGATATGCATTTAGGGG
1 CACCAAAGTGCAAACAGAGGCACAGATGTGCATTCAGGGG
23774094 CAC
1 CAC
23774097 TTTTTCATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.36, C:0.23, G:0.28, T:0.14
Consensus pattern (40 bp):
CACCAAAGTGCAAACAGAGGCACAGATGTGCATTCAGGGG
Found at i:23774033 original size:20 final size:20
Alignment explanation
Indices: 23774008--23774069 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
23773998 TATGTGCATT
*
23774008 CAGGGGCACCAAAGTACAAA
1 CAGGGGCACCAAAGTGCAAA
* **
23774028 CAGGGGCA-CAGATGTGCATT
1 CAGGGGCACCA-AAGTGCAAA
23774048 CAGGGGCACCAAAGTGCAAA
1 CAGGGGCACCAAAGTGCAAA
23774068 CA
1 CA
23774070 AAGGCACAGA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.37, C:0.24, G:0.29, T:0.10
Consensus pattern (20 bp):
CAGGGGCACCAAAGTGCAAA
Found at i:23785854 original size:152 final size:152
Alignment explanation
Indices: 23785578--23785878 Score: 496
Period size: 152 Copynumber: 2.0 Consensus size: 152
23785568 GATAGAGAGA
* *
23785578 TAGAATTTTCAATAGAATTGGAACCCAGAACAGCTTCTATATCGTGGACACCCTATAGGATGGCA
1 TAGAATTTTCAATAGAATTAGAACCCAGAACAGCTCCTATATCGTGGACACCCTATAGGATGGCA
* * * *
23785643 CTGGTAGAACTTAAGGAATTAAAAGAAAATTTGCAGGACATGTTAAGTAAATGTTTCATAAGGCC
66 CCGATAGAACTTAAGGAATTAAAAGAAAATTTGCAGGACACGTTAAGTAAAGGTTTCATAAGGCC
23785708 TAGTATATCTCATTGGGGGTGC
131 TAGTATATCTCATTGGGGGTGC
*
23785730 TAGAATTTTCAATAGAATTAGAACCCGGAACAGCTCCTATATCGTGGACACCCTATAGGATGGCA
1 TAGAATTTTCAATAGAATTAGAACCCAGAACAGCTCCTATATCGTGGACACCCTATAGGATGGCA
* * *
23785795 CCGATAGAACTTAAGGAATTAAAATAACAA-TTGTAGGACACGTTAAGTAAAGGTTTCATAGGGC
66 CCGATAGAACTTAAGGAATTAAAAGAA-AATTTGCAGGACACGTTAAGTAAAGGTTTCATAAGGC
23785859 CTAGTATATCTCATTGGGGG
130 CTAGTATATCTCATTGGGGG
23785879 CGCCAATCTT
Statistics
Matches: 138, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
152 136 0.99
153 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (152 bp):
TAGAATTTTCAATAGAATTAGAACCCAGAACAGCTCCTATATCGTGGACACCCTATAGGATGGCA
CCGATAGAACTTAAGGAATTAAAAGAAAATTTGCAGGACACGTTAAGTAAAGGTTTCATAAGGCC
TAGTATATCTCATTGGGGGTGC
Found at i:23792213 original size:28 final size:27
Alignment explanation
Indices: 23792107--23792227 Score: 113
Period size: 27 Copynumber: 4.4 Consensus size: 27
23792097 AAATGAATAT
* * *
23792107 ATAATTTACATAACTTACATAAATATAT
1 ATAATTTACATAACTCACATAACT-TAC
* * * * *
23792135 ATCATAT-CAAAAATCACATAACTTAT
1 ATAATTTACATAACTCACATAACTTAC
23792161 ATAATTTACATAACTCACATAACTTAC
1 ATAATTTACATAACTCACATAACTTAC
23792188 ATAATTTA-ATAAC-CATATCATAACTTAC
1 ATAATTTACATAACTC--A-CATAACTTAC
23792216 ATAATTTACATA
1 ATAATTTACATA
23792228 CCTTTAAAGA
Statistics
Matches: 77, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
25 1 0.01
26 13 0.17
27 37 0.48
28 23 0.30
29 3 0.04
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.36
Consensus pattern (27 bp):
ATAATTTACATAACTCACATAACTTAC
Found at i:23792362 original size:47 final size:47
Alignment explanation
Indices: 23792296--23792426 Score: 174
Period size: 47 Copynumber: 2.7 Consensus size: 47
23792286 TCATAACTTA
* *
23792296 CATAACTGACAT-ACATACATAACTTAATAACTTAAATATATCATAT
1 CATAACTCACATAACATACATAACTTAATAACTTAAATATATCATAC
* *
23792342 CATAACTCACATAACTTACATAACTTAATAACTTATATATATCATAC
1 CATAACTCACATAACATACATAACTTAATAACTTAAATATATCATAC
* *
23792389 CATAACTTACAAAACAAATACATAACTTACATAACTTA
1 CATAACTCACATAAC--ATACATAACTTA-ATAACTTA
23792427 CATAATACAT
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
46 11 0.15
47 44 0.59
49 11 0.15
50 8 0.11
ACGTcount: A:0.48, C:0.20, G:0.01, T:0.31
Consensus pattern (47 bp):
CATAACTCACATAACATACATAACTTAATAACTTAAATATATCATAC
Found at i:23792421 original size:29 final size:29
Alignment explanation
Indices: 23792350--23792428 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
23792340 ATCATAACTC
* **
23792350 ACATAACTTACATAACTTA-ATAACTTAT
1 ACATAACTTACATAACTTACAAAACAAAT
* * *
23792378 ATATATCATACCATAACTTACAAAACAAAT
1 ACATAACTTA-CATAACTTACAAAACAAAT
23792408 ACATAACTTACATAACTTACA
1 ACATAACTTACATAACTTACA
23792429 TAATACATAA
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
28 7 0.17
29 20 0.50
30 13 0.32
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.30
Consensus pattern (29 bp):
ACATAACTTACATAACTTACAAAACAAAT
Found at i:23792475 original size:165 final size:163
Alignment explanation
Indices: 23792274--23792705 Score: 626
Period size: 165 Copynumber: 2.6 Consensus size: 163
23792264 TTAATAACTT
* *
23792274 ATATATATCAGATCATAACTTACATAACTGACATACATACATAACTTAATAACTTAAATATATCA
1 ATATATATCATATCATAACTTACATAACTCACATACATACATAACTTAATAACTTAAATATATCA
23792339 TATCATAACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTACAAAAC
66 TATCATAACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTACAAAAC
23792404 AAAT-ACATAACTTACATAACTTACATAATACATAA
131 ---TCACATAACTTACATAACTTACATAATACATAA
* * *
23792439 ATATATATCATATCATAACTTACATAACTCACATACATACATAACTTAATGACTTATATGTATCA
1 ATATATATCATATCATAACTTACATAACTCACATACATACATAACTTAATAACTTAAATATATCA
* **
23792504 TATCATAACTCACATAACTTACGTAACTTAATAACTTATATATATCATACCATAACTTACGTAAC
66 TATCATAACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTACAAAAC
23792569 TCACATAACTTACATAACTTACATAATACATAA
131 TCACATAACTTACATAACTTACATAATACATAA
* *
23792602 ATATATATCATATCATAACTTACATAACTTA-AT-TATACTTATAACTTACA-AA---AATATAT
1 ATATATATCATATCATAACTTACATAACTCACATACATAC--ATAACTTA-ATAACTTAA-ATAT
* *
23792661 ATCATATCATAACTTACATAATTTACATAACTTAATTATACTTAT
62 ATCATATCATAACTCACATAACTTACATAACTTAA-TA-ACTTAT
23792706 CCTTAAACCC
Statistics
Matches: 244, Mismatches: 16, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
160 1 0.00
161 39 0.16
162 5 0.02
163 76 0.31
164 1 0.00
165 122 0.50
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.34
Consensus pattern (163 bp):
ATATATATCATATCATAACTTACATAACTCACATACATACATAACTTAATAACTTAAATATATCA
TATCATAACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTACAAAAC
TCACATAACTTACATAACTTACATAATACATAA
Found at i:23792540 original size:8 final size:9
Alignment explanation
Indices: 23792150--23792694 Score: 219
Period size: 9 Copynumber: 59.1 Consensus size: 9
23792140 ATCAAAAATC
23792150 ACATAACTT
1 ACATAACTT
* *
23792159 ATATAATTT
1 ACATAACTT
*
23792168 ACATAACTC
1 ACATAACTT
23792177 ACATAACTT
1 ACATAACTT
*
23792186 ACATAATTT
1 ACATAACTT
*
23792195 A-ATAACCAT
1 ACATAA-CTT
23792204 ATCATAACTT
1 A-CATAACTT
*
23792214 ACATAATTT
1 ACATAACTT
*
23792223 ACATACCTTT
1 ACATAAC-TT
* *
23792233 AAAGAA-TT
1 ACATAACTT
* *
23792241 AAAAAAAAACTTT
1 ---ACATAAC-TT
*
23792254 GGATCTTAACTT
1 --A-CATAACTT
23792266 A-ATAACTT
1 ACATAACTT
* **
23792274 ATATATATCAG
1 ACATA-A-CTT
23792285 ATCATAACTT
1 A-CATAACTT
*
23792295 ACATAACTG
1 ACATAACTT
*
23792304 ACAT-ACAT
1 ACATAACTT
23792312 ACATAACTT
1 ACATAACTT
23792321 A-ATAACTT
1 ACATAACTT
* *
23792329 AAATATATCAT
1 ACATA-A-CTT
*
23792340 ATCATAACTC
1 A-CATAACTT
23792350 ACATAACTT
1 ACATAACTT
23792359 ACATAACTT
1 ACATAACTT
23792368 A-ATAACTT
1 ACATAACTT
* *
23792376 ATATATATCAT
1 ACATA-A-CTT
23792387 ACCATAACTT
1 A-CATAACTT
* *
23792397 ACAAAACAAAT
1 ACATAAC--TT
23792408 ACATAACTT
1 ACATAACTT
23792417 ACATAACTT
1 ACATAACTT
23792426 ACATAA--T
1 ACATAACTT
*
23792433 ACATAA-AT
1 ACATAACTT
* * *
23792441 ATATATCAT
1 ACATAACTT
23792450 ATCATAACTT
1 A-CATAACTT
*
23792460 ACATAACTC
1 ACATAACTT
*
23792469 ACAT-ACAT
1 ACATAACTT
23792477 ACATAACTT
1 ACATAACTT
*
23792486 A-ATGACTT
1 ACATAACTT
* * *
23792494 ATATGTATCAT
1 ACA--TAACTT
*
23792505 ATCATAACTC
1 A-CATAACTT
23792515 ACATAACTT
1 ACATAACTT
*
23792524 ACGTAACTT
1 ACATAACTT
23792533 A-ATAACTT
1 ACATAACTT
* *
23792541 ATATATATCAT
1 ACATA-A-CTT
23792552 ACCATAACTT
1 A-CATAACTT
* *
23792562 ACGTAACTC
1 ACATAACTT
23792571 ACATAACTT
1 ACATAACTT
23792580 ACATAACTT
1 ACATAACTT
23792589 ACATAA--T
1 ACATAACTT
*
23792596 ACATAA-AT
1 ACATAACTT
* * *
23792604 ATATATCAT
1 ACATAACTT
23792613 ATCATAACTT
1 A-CATAACTT
23792623 ACATAACTT
1 ACATAACTT
23792632 A-ATTATACTT
1 ACA-TA-ACTT
23792642 --ATAACTT
1 ACATAACTT
**
23792649 ACA-AAAAT
1 ACATAACTT
* * *
23792657 ATATATCAT
1 ACATAACTT
23792666 ATCATAACTT
1 A-CATAACTT
*
23792676 ACATAATTT
1 ACATAACTT
23792685 ACATAACTT
1 ACATAACTT
23792694 A
1 A
23792695 ATTATACTTA
Statistics
Matches: 404, Mismatches: 86, Indels: 92
0.69 0.15 0.16
Matches are distributed among these distances:
7 18 0.04
8 73 0.18
9 208 0.51
10 49 0.12
11 35 0.09
12 16 0.04
13 5 0.01
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.34
Consensus pattern (9 bp):
ACATAACTT
Found at i:23792541 original size:47 final size:47
Alignment explanation
Indices: 23792409--23792589 Score: 179
Period size: 47 Copynumber: 3.7 Consensus size: 47
23792399 AAAACAAATA
* *
23792409 CATAACTTACATAACTTACATAA--TACATAAATATATATCATATCATAAC
1 CATAACTCACATAACTTACATAACTTA-ATAACT-TATAT-ATATCAT-AC
* * * *
23792458 TTACATAACTCACAT-ACATACATAACTTAATGACTTATATGTATCATAT
1 ---CATAACTCACATAACTTACATAACTTAATAACTTATATATATCATAC
*
23792507 CATAACTCACATAACTTACGTAACTTAATAACTTATATATATCATAC
1 CATAACTCACATAACTTACATAACTTAATAACTTATATATATCATAC
* * *
23792554 CATAACTTACGTAACTCACATAACTTACATAACTTA
1 CATAACTCACATAACTTACATAACTTA-ATAACTTA
23792590 CATAATACAT
Statistics
Matches: 110, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
46 12 0.11
47 52 0.47
48 8 0.07
49 1 0.01
50 6 0.05
51 14 0.13
52 15 0.14
53 2 0.02
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.34
Consensus pattern (47 bp):
CATAACTCACATAACTTACATAACTTAATAACTTATATATATCATAC
Found at i:23795365 original size:21 final size:21
Alignment explanation
Indices: 23795338--23795447 Score: 139
Period size: 21 Copynumber: 5.2 Consensus size: 21
23795328 CTACAACTTA
* *
23795338 AAGCAGAGGCAGCAATGAAGG
1 AAGCAGAGGCAGCAGTGAGGG
* * *
23795359 AAACAGAGGCAGTAGCGAGGG
1 AAGCAGAGGCAGCAGTGAGGG
23795380 AAGCAGAGGCAGCAGTGAGGG
1 AAGCAGAGGCAGCAGTGAGGG
* * *
23795401 AAGCAGAGGCAGTAGCGAGAG
1 AAGCAGAGGCAGCAGTGAGGG
*
23795422 AAGCAGAGGCAGCAGCGAGGG
1 AAGCAGAGGCAGCAGTGAGGG
23795443 AAGCA
1 AAGCA
23795448 AAGCAGAGCA
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 76 1.00
ACGTcount: A:0.38, C:0.15, G:0.43, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGTGAGGG
Found at i:23795436 original size:42 final size:42
Alignment explanation
Indices: 23795338--23795447 Score: 175
Period size: 42 Copynumber: 2.6 Consensus size: 42
23795328 CTACAACTTA
* * * *
23795338 AAGCAGAGGCAGCAATGAAGGAAACAGAGGCAGTAGCGAGGG
1 AAGCAGAGGCAGCAGTGAGGGAAGCAGAGGCAGTAGCGAGAG
23795380 AAGCAGAGGCAGCAGTGAGGGAAGCAGAGGCAGTAGCGAGAG
1 AAGCAGAGGCAGCAGTGAGGGAAGCAGAGGCAGTAGCGAGAG
*
23795422 AAGCAGAGGCAGCAGCGAGGGAAGCA
1 AAGCAGAGGCAGCAGTGAGGGAAGCA
23795448 AAGCAGAGCA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.38, C:0.15, G:0.43, T:0.04
Consensus pattern (42 bp):
AAGCAGAGGCAGCAGTGAGGGAAGCAGAGGCAGTAGCGAGAG
Found at i:23795833 original size:43 final size:43
Alignment explanation
Indices: 23795749--23796031 Score: 349
Period size: 42 Copynumber: 6.7 Consensus size: 43
23795739 GTAAAATGCT
* *
23795749 GCTAAAGGTCATG-TTTTTAGCGGCATTTGCTATAAAAGCGCC
1 GCTAAAGGTCATGATCTTTAGCGGCGTTTGCTATAAAAGCGCC
* * * * * * *
23795791 GCTAAATGTTATGTTTTTTAGCGGCGTTTTCTACAAAGGCGCC
1 GCTAAAGGTCATGATCTTTAGCGGCGTTTGCTATAAAAGCGCC
* **
23795834 GCTAAAGGTCATGTTCTTTAGTAGCGTTT-CTATAAAAGCGCC
1 GCTAAAGGTCATGATCTTTAGCGGCGTTTGCTATAAAAGCGCC
* * *
23795876 GCTAAAGGTCATGTTC-TTAGTGGCGTTTTCTATAAAAGCGCC
1 GCTAAAGGTCATGATCTTTAGCGGCGTTTGCTATAAAAGCGCC
* *
23795918 GCTAAAGGTCATGATCTTTAGTGGCG-TTGCTATAAAAGCGTC
1 GCTAAAGGTCATGATCTTTAGCGGCGTTTGCTATAAAAGCGCC
* * *
23795960 GCTAAATGTCATGATCTATAGCGGCGTTTGCTATAAAAGTGCC
1 GCTAAAGGTCATGATCTTTAGCGGCGTTTGCTATAAAAGCGCC
*
23796003 GCTAAAGGTCATGACCTTTAGCGGCGTTT
1 GCTAAAGGTCATGATCTTTAGCGGCGTTT
23796032 ATGTGAAAAA
Statistics
Matches: 212, Mismatches: 25, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
41 11 0.05
42 103 0.49
43 98 0.46
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (43 bp):
GCTAAAGGTCATGATCTTTAGCGGCGTTTGCTATAAAAGCGCC
Found at i:23795871 original size:85 final size:84
Alignment explanation
Indices: 23795724--23796031 Score: 361
Period size: 85 Copynumber: 3.7 Consensus size: 84
23795714 GATGCCAAAG
* * * * *
23795724 TTAGTGGCGTTTT-TAGTAAAA-TGCTGCTAAAGGTCATGTT-TTTAGCGGCATTTGCTATAAAA
1 TTAGCGGCGTTTTCTA-TAAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGGCGTTT-CTATAAAA
*
23795786 GCGCCGCTAAATGTTATGTTTT
64 GCGCCGCTAAATGTCATG-TTT
* * *
23795808 TTAGCGGCGTTTTCTACAAAGGCGCCGCTAAAGGTCATGTTCTTTAGTAGCGTTTCTATAAAAGC
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGGCGTTTCTATAAAAGC
* *
23795873 GCCGCTAAAGGTCATGTTC
66 GCCGCTAAATGTCATGTTT
* * *
23795892 TTAGTGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGATCTTTAGTGGCGTTGCTATAAAAGC
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGGCGTTTCTATAAAAGC
* *
23795957 GTCGCTAAATGTCATGATCT
66 GCCGCTAAATGTCATG-TTT
* * * ** *
23795977 ATAGCGGCGTTTGCTATAAAAGTGCCGCTAAAGGTCATGACCTTTAGCGGCGTTT
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGGCGTTT
23796032 ATGTGAAAAA
Statistics
Matches: 192, Mismatches: 28, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
84 90 0.47
85 92 0.48
86 10 0.05
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (84 bp):
TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGGCGTTTCTATAAAAGC
GCCGCTAAATGTCATGTTT
Found at i:23795994 original size:127 final size:127
Alignment explanation
Indices: 23795749--23796015 Score: 347
Period size: 127 Copynumber: 2.1 Consensus size: 127
23795739 GTAAAATGCT
* * * * *
23795749 GCTAAAGGTCATGTTTTTAGCGGCATTTGCTATAAAAGCGCCGCTAAATGTTATGTTTTTTAGCG
1 GCTAAAGGTCATGTTCTTAGCGGCATTTGCTATAAAAGCGCCGCTAAAGGTCATGATCTTTAGCG
* * * * *
23795814 GCGTTTTCTACAAAGGCGCCGCTAAAGGTCATGTTCTTTAGTAGCGTTTCTATAAAAGCGCC
66 GCGTTTGCTACAAAAGCGCCGCTAAAGGTCATGATCTATAGCAGCGTTTCTATAAAAGCGCC
* * * *
23795876 GCTAAAGGTCATGTTCTTAGTGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGATCTTTAGTG
1 GCTAAAGGTCATGTTCTTAGCGGCATTTGCTATAAAAGCGCCGCTAAAGGTCATGATCTTTAGCG
* * * * *
23795941 GCG-TTGCTATAAAAGCGTCGCTAAATGTCATGATCTATAGCGGCGTTTGCTATAAAAGTGCC
66 GCGTTTGCTACAAAAGCGCCGCTAAAGGTCATGATCTATAGCAGCGTTT-CTATAAAAGCGCC
23796003 GCTAAAGGTCATG
1 GCTAAAGGTCATG
23796016 ACCTTTAGCG
Statistics
Matches: 120, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
126 36 0.30
127 84 0.70
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (127 bp):
GCTAAAGGTCATGTTCTTAGCGGCATTTGCTATAAAAGCGCCGCTAAAGGTCATGATCTTTAGCG
GCGTTTGCTACAAAAGCGCCGCTAAAGGTCATGATCTATAGCAGCGTTTCTATAAAAGCGCC
Found at i:23796525 original size:9 final size:9
Alignment explanation
Indices: 23796511--23796629 Score: 134
Period size: 9 Copynumber: 13.2 Consensus size: 9
23796501 GTAGTGATTC
23796511 AATTCGGTT
1 AATTCGGTT
23796520 AATTCGGTT
1 AATTCGGTT
*
23796529 AATTCGGGT
1 AATTCGGTT
23796538 AATTCGGTT
1 AATTCGGTT
*
23796547 AATTCGGGT
1 AATTCGGTT
23796556 AATTCGGTT
1 AATTCGGTT
*
23796565 AATTCGATT
1 AATTCGGTT
**
23796574 AATTCAATT
1 AATTCGGTT
23796583 AATTCAGG-T
1 AATTC-GGTT
**
23796592 AATTCAATT
1 AATTCGGTT
23796601 AATTCAGG-T
1 AATTC-GGTT
23796610 AATTCGGTT
1 AATTCGGTT
*
23796619 AATTCAGTT
1 AATTCGGTT
23796628 AA
1 AA
23796630 CCGACCGAAT
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
8 2 0.02
9 91 0.98
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.40
Consensus pattern (9 bp):
AATTCGGTT
Found at i:23802577 original size:7 final size:7
Alignment explanation
Indices: 23802567--23802591 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
23802557 TATATTAATG
23802567 ATAAATT
1 ATAAATT
23802574 ATAAATT
1 ATAAATT
23802581 ATAAATT
1 ATAAATT
23802588 ATAA
1 ATAA
23802592 TATATAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
ATAAATT
Found at i:23804087 original size:3 final size:3
Alignment explanation
Indices: 23804079--23804134 Score: 85
Period size: 3 Copynumber: 18.3 Consensus size: 3
23804069 ACAAATTTTA
23804079 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* *
23804125 CAT TGT TAT T
1 TAT TAT TAT T
23804135 CTCATTATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:23804311 original size:16 final size:16
Alignment explanation
Indices: 23804290--23804325 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
23804280 ATACCTTTTT
*
23804290 TATATATGTATATCTA
1 TATATATGTATATATA
23804306 TATATATGTATATATA
1 TATATATGTATATATA
23804322 TATA
1 TATA
23804326 CTTTCCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (16 bp):
TATATATGTATATATA
Found at i:23808346 original size:6 final size:6
Alignment explanation
Indices: 23808315--23808374 Score: 63
Period size: 6 Copynumber: 10.3 Consensus size: 6
23808305 GTTCATACTC
* *
23808315 AAAA-A AAAACA ACAAA-A AAAATA AAAACA AAAACA AAAACA AAAATA
1 AAAACA AAAACA A-AAACA AAAACA AAAACA AAAACA AAAACA AAAACA
*
23808362 AAAA-A AAATCA AA
1 AAAACA AAAACA AA
23808375 GTCAAAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
5 11 0.23
6 34 0.71
7 3 0.06
ACGTcount: A:0.85, C:0.10, G:0.00, T:0.05
Consensus pattern (6 bp):
AAAACA
Found at i:23808358 original size:24 final size:22
Alignment explanation
Indices: 23808315--23808374 Score: 84
Period size: 24 Copynumber: 2.6 Consensus size: 22
23808305 GTTCATACTC
23808315 AAAAAAAAACAACAAAAAAAATA
1 AAAAAAAAACAA-AAAAAAAATA
23808338 AAAACAAAAACAAAAACAAAAATA
1 AAAA-AAAAACAAAAA-AAAAATA
*
23808362 AAAAAAAATCAAA
1 AAAAAAAAACAAA
23808375 GTCAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
23 15 0.44
24 19 0.56
ACGTcount: A:0.85, C:0.10, G:0.00, T:0.05
Consensus pattern (22 bp):
AAAAAAAAACAAAAAAAAAATA
Found at i:23810437 original size:44 final size:44
Alignment explanation
Indices: 23810376--23810836 Score: 260
Period size: 44 Copynumber: 10.7 Consensus size: 44
23810366 AGAATTTCAG
* *
23810376 ATCTTATCTCCCTGAGATTACAGCAGAGCAGATCGATACTAGTA
1 ATCTTATCTCCCTGAGATTACAGTAGAGCAGATCGATACAAGTA
* * * ** *
23810420 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATA-AAG-G
1 ATCTTATCTCCCTGAGATTACAGTAGAGCAGA-T-CGATACAAGTA
* * * *
23810464 ATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCGT-C-AG--
1 ATCTTATCTCCCTGAGATTACAGTAGAGCAGATCG-ATACAAGTA
* * * * *
23810505 GTCTTATCTCCCTGATATTACAGTGGAGCAGA-CGA-AGAATTTCA
1 ATCTTATCTCCCTGAGATTACAGTAGAGCAGATCGATACAA-GT-A
* *
23810549 GATCTTATCTCCCTGAGATTACAGCAGAGCAGATCGATACTAGTA
1 -ATCTTATCTCCCTGAGATTACAGTAGAGCAGATCGATACAAGTA
* * *
23810594 ATCCTATCTCCCTGAGATTACAGTAGAGCGGAT---TA-AAG-G
1 ATCTTATCTCCCTGAGATTACAGTAGAGCAGATCGATACAAGTA
* * * *
23810633 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCG-CACCAG--
1 ATCTTATCTCCCTGAGA-TTACAGTAGAGCAGATCGATACAAGTA
* * * * * * * *
23810674 GTCTCATTTCCCTAAGATTACAGTGGAACAGATCGA-AGAATTTCA
1 ATCTTATCTCCCTGAGATTACAGTAGAGCAGATCGATACAA-GT-A
* ** * * *
23810719 GATCTTATCTCCCTGATATTACAGCGGAGCAAATTGA-AGCTAGTA
1 -ATCTTATCTCCCTGAGATTACAGTAGAGCAGATCGATA-CAAGTA
** * *
23810764 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGA-AGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTAGAGCAGATCGATA-CAAGTA
* *
23810808 ATCCTATCTCCCTGAGATTACAGTGGAGC
1 ATCTTATCTCCCTGAGATTACAGTAGAGC
23810837 GGATTAAAGG
Statistics
Matches: 321, Mismatches: 71, Indels: 50
0.73 0.16 0.11
Matches are distributed among these distances:
38 1 0.00
39 27 0.08
40 5 0.02
41 56 0.17
42 5 0.02
43 2 0.01
44 153 0.48
45 33 0.10
46 36 0.11
47 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCCCTGAGATTACAGTAGAGCAGATCGATACAAGTA
Found at i:23810625 original size:174 final size:169
Alignment explanation
Indices: 23810327--23810786 Score: 706
Period size: 174 Copynumber: 2.7 Consensus size: 169
23810317 GTTCATTATA
*
23810327 CAGGTCTTATTTCCCTGAGATTACAATGGAACAGACAGAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGAC-GAAGAATTTCAGATCTTATCTCCCTGAG
*
23810392 ATTACAGCAGAGCAGATCGATACTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
65 ATTACAGCAGAGCAGATCGATACTAGTAATCCTATCTCCCTGAGATTACAGTAGAGCGGA-T---
* **
23810457 ATAAAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCGT
126 -TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
* * *
23810502 CAGGTCTTATCTCCCTGATATTACAGTGGAGCAGACGAAGAATTTCAGATCTTATCTCCCTGAGA
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACGAAGAATTTCAGATCTTATCTCCCTGAGA
23810567 TTACAGCAGAGCAGATCGATACTAGTAATCCTATCTCCCTGAGATTACAGTAGAGCGGATTAAAG
66 TTACAGCAGAGCAGATCGATACTAGTAATCCTATCTCCCTGAGATTACAGTAGAGCGGATTAAAG
23810632 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
131 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
* * *
23810671 CAGGTCTCATTTCCCTAAGATTACAGTGGAACAGATCGAAGAATTTCAGATCTTATCTCCCTGAT
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGA-CGAAGAATTTCAGATCTTATCTCCCTGAG
* * * *
23810736 ATTACAGCGGAGCAAATTGA-AGCTAGTAATCTTATCTCCCTGAGATTACAG
65 ATTACAGCAGAGCAGATCGATA-CTAGTAATCCTATCTCCCTGAGATTACAG
23810787 CGGAGCAGAT
Statistics
Matches: 265, Mismatches: 18, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
169 72 0.27
170 73 0.28
173 1 0.00
174 87 0.33
175 32 0.12
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (169 bp):
CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACGAAGAATTTCAGATCTTATCTCCCTGAGA
TTACAGCAGAGCAGATCGATACTAGTAATCCTATCTCCCTGAGATTACAGTAGAGCGGATTAAAG
GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
Found at i:23810785 original size:214 final size:216
Alignment explanation
Indices: 23810501--23811339 Score: 843
Period size: 214 Copynumber: 3.9 Consensus size: 216
23810491 GTAGATCGCG
* * * * * *
23810501 TCAGGTCTTATCTCCCTGATATTACAGTGGAGCAGA-CGAAG-AATTTCAGATCTTATCTCCCTG
1 TCAGATCTTATCTCCCTGATATTACAGCGGAGCAAATTGAAGCTA-GT-AGATCTTATCTCCCTG
* * * ** * *
23810564 AGATTACAGCAGAGCAGATCGATA-CTAGTAATCCTATCTCCCTG-AGATTACAGTAGAGCGGAT
64 AGATTACAGCGGAGCAGATTGA-AGATACAAATCCTATCTCCCTGAAG-TTACAGTGGAGCGAAT
* * *
23810627 T-AA-A-GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTCTCATTTCCCTAA
127 TAAACACAGATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCA-CAGGTCT-ATTTCCCTAA
23810689 GATTACAGTGGAACAGATCGAAGAATT
190 GATTACAGTGGAACAGATCGAAGAATT
23810716 TCAGATCTTATCTCCCTGATATTACAGCGGAGCAAATTGAAGCTAGTA-ATCTTATCTCCCTGAG
1 TCAGATCTTATCTCCCTGATATTACAGCGGAGCAAATTGAAGCTAGTAGATCTTATCTCCCTGAG
* ** *
23810780 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTG-AGATTACAGTGGAGCGGATTAA
66 ATTACAGCGGAGCAGATTGAAGATACAAATCCTATCTCCCTGAAG-TTACAGTGGAGCGAATTAA
* * * * * * * ***
23810844 AGGATCTTG-TCTCTCTGCTCCCTG-AGATTACAGCGGAGCAGATTG-A-A-G-CTAGTAATC-A
130 A-CA-C-AGATCT-TAT-CTCTCTGAAG-TTACAGCAGAGCAGATCGCACAGGTCTATTTCCCTA
23810902 AGATTACAGTGGAACAGATCGAAGAATT
189 AGATTACAGTGGAACAGATCGAAGAATT
23810930 TCAGATCTTATCTCCCTGATATTACAGCGGAGCAAATTGAAGCTAGTA-ATCTTATCTCCCTGAG
1 TCAGATCTTATCTCCCTGATATTACAGCGGAGCAAATTGAAGCTAGTAGATCTTATCTCCCTGAG
* * * *
23810994 ATTACAGTGGAGCAGGTTGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAA
66 ATTACAGCGGAGCAGATTGAAGATACAAATCCTATCTCCCTGAAGTTACAGTGGAGCGAATT-AA
* * * *
23811059 ACCACAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGG
130 A-CACAGATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCA-CAGGTC-TATTTCCCTAAGA
** * *
23811124 TTACAGTGGAGTAGACCGAATAATT
192 TTACAGTGGAACAGATCGAAGAATT
* * * * * * * * *
23811149 TCAGATCTTGTCTCCCTAACATTATAGTGGAGCAGATTAAAGCCA-AAGATCTTATCTCCCTGAG
1 TCAGATCTTATCTCCCTGATATTACAGCGGAGCAAATTGAAGCTAGTAGATCTTATCTCCCTGAG
* * * *
23811213 ATTACAGTGGAGCAGGTTGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAA
66 ATTACAGCGGAGCAGATTGAAGATACAAATCCTATCTCCCTGAAGTTACAGTGGAGCGAATT-AA
* * *
23811278 ACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCATCAAGTCT-TATCCCTAAG
130 A-CACAGATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCA-CAGGTCTATTTCCCTAAG
23811340 CAGTAGTGGA
Statistics
Matches: 539, Mismatches: 61, Indels: 46
0.83 0.09 0.07
Matches are distributed among these distances:
212 21 0.04
213 7 0.01
214 221 0.41
215 46 0.09
216 8 0.01
217 12 0.02
218 6 0.01
219 192 0.36
220 6 0.01
221 20 0.04
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (216 bp):
TCAGATCTTATCTCCCTGATATTACAGCGGAGCAAATTGAAGCTAGTAGATCTTATCTCCCTGAG
ATTACAGCGGAGCAGATTGAAGATACAAATCCTATCTCCCTGAAGTTACAGTGGAGCGAATTAAA
CACAGATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCACAGGTCTATTTCCCTAAGATTAC
AGTGGAACAGATCGAAGAATT
Found at i:23810865 original size:90 final size:89
Alignment explanation
Indices: 23810764--23811008 Score: 289
Period size: 80 Copynumber: 2.8 Consensus size: 89
23810754 GAAGCTAGTA
23810764 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
* * *
23810829 AGTGGAGCGGATTAAAGGATCTT-G
66 AGTGGAGCAGATCAAAGAAT-TTAG
*
23810853 -TCTCTCTGCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAAT-C-A--------AGATT
1 ATCT-TAT-CTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
* *
23810907 ACAGTGGAACAGATCGAAGAATTTCAG
64 ACAGTGGAGCAGATCAAAGAATTT-AG
* * *
23810934 ATCTTATCTCCCTGATATTACAGCGGAGCAAATTGAAGCTAGTAATCTTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
23810999 AGTGGAGCAG
66 AGTGGAGCAG
23811009 GTTGAAGATA
Statistics
Matches: 130, Mismatches: 11, Indels: 29
0.76 0.06 0.17
Matches are distributed among these distances:
79 2 0.02
80 59 0.45
81 3 0.02
82 4 0.03
88 4 0.03
89 3 0.02
90 55 0.42
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (89 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
AGTGGAGCAGATCAAAGAATTTAG
Found at i:23811214 original size:219 final size:219
Alignment explanation
Indices: 23810632--23811333 Score: 879
Period size: 219 Copynumber: 3.2 Consensus size: 219
23810622 CGGATTAAAG
* * * * *
23810632 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTCTCATTTCCCTAAGATTACAG
1 GATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCATCAGGTCTTATCTCCCTAAGATTACAG
23810697 TGGAACAGATCGAAGAATTTCAGATCTTATCTCCCTGATATTACAGCGGAGCAAATTGAAGCTAG
66 TGGAACAGATCGAAGAATTTCAGATCTTATCTCCCTGATATTACAGCGGAGCAAATTGAAGCTAG
* * * ** *
23810762 TAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTG-AGAT
131 TAATCTTATCTCCCTGAGATTACAGTGGAGCAGGTTGAAGATACAAATCTTATCTCCCTGAAG-T
* * * **
23810826 TACAGTGGAGCGGATTAAAGGATC-TT
195 TGCAGTGGAGCGAATTAAA--ACCACA
* * * * * ** *
23810852 G-TCTCTCTGCTCCCTG-AGATTACAGCGGAGCAGATTG-A--AGCTAGTA-AT--C-AAGATTA
1 GATCT-TAT-CTCTCTGAAG-TTACAGCAGAGCAGATCGCATCAGGTCTTATCTCCCTAAGATTA
23810908 CAGTGGAACAGATCGAAGAATTTCAGATCTTATCTCCCTGATATTACAGCGGAGCAAATTGAAGC
63 CAGTGGAACAGATCGAAGAATTTCAGATCTTATCTCCCTGATATTACAGCGGAGCAAATTGAAGC
23810973 TAGTAATCTTATCTCCCTGAGATTACAGTGGAGCAGGTTGAAGATACAAATCTTATCTCCCTGAA
128 TAGTAATCTTATCTCCCTGAGATTACAGTGGAGCAGGTTGAAGATACAAATCTTATCTCCCTGAA
23811038 GTTGCAGTGGAGCGAATTAAAACCACA
193 GTTGCAGTGGAGCGAATTAAAACCACA
* * *
23811065 GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
1 GATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCATCAGGTCTTATCTCCCTAAGATTACAG
** * * * * * * * * * *
23811130 TGGAGTAGACCGAATAATTTCAGATCTTGTCTCCCTAACATTATAGTGGAGCAGATTAAAGCCA-
66 TGGAACAGATCGAAGAATTTCAGATCTTATCTCCCTGATATTACAGCGGAGCAAATTGAAGCTAG
*
23811194 AAGATCTTATCTCCCTGAGATTACAGTGGAGCAGGTTGAAGATACAAATCTTATCTCCCTGAAGT
131 TA-ATCTTATCTCCCTGAGATTACAGTGGAGCAGGTTGAAGATACAAATCTTATCTCCCTGAAGT
23811259 TGCAGTGGAGCGAATTAAAACCACA
195 TGCAGTGGAGCGAATTAAAACCACA
* *
23811284 GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCATCAAGTCTTATC
1 GATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCATCAGGTCTTATC
23811334 CCTAAGCAGT
Statistics
Matches: 418, Mismatches: 49, Indels: 31
0.84 0.10 0.06
Matches are distributed among these distances:
212 23 0.06
213 6 0.01
214 150 0.36
215 8 0.02
216 1 0.00
217 1 0.00
218 6 0.01
219 197 0.47
220 6 0.01
221 20 0.05
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (219 bp):
GATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCATCAGGTCTTATCTCCCTAAGATTACAG
TGGAACAGATCGAAGAATTTCAGATCTTATCTCCCTGATATTACAGCGGAGCAAATTGAAGCTAG
TAATCTTATCTCCCTGAGATTACAGTGGAGCAGGTTGAAGATACAAATCTTATCTCCCTGAAGTT
GCAGTGGAGCGAATTAAAACCACA
Found at i:23811265 original size:44 final size:44
Alignment explanation
Indices: 23810905--23811317 Score: 247
Period size: 44 Copynumber: 9.4 Consensus size: 44
23810895 GTAATCAAGA
* * * *
23810905 TTACAGTGGAACAGATCGAAGAATTTCAGATCTTATCTCCCTGATA-
1 TTACAGTGGAGCAGATTGAAG-A-TACAAATCTTATCTCCCTGA-AG
* * * **
23810951 TTACAGCGGAGCAAATTGAAGCTAGTAATCTTATCTCCCTG-AG
1 TTACAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAG
*
23810994 ATTACAGTGGAGCAGGTTGAAGATACAAATCTTATCTCCCTGAAG
1 -TTACAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAG
* * * * *
23811039 TTGCAGTGGAGC-GAATT-AAAACCACAGATCTTATCTCTCTGAAG
1 TTACAGTGGAGCAG-ATTGAAGA-TACAAATCTTATCTCCCTGAAG
** * * * ** *
23811083 TTACAGCAGAGTAGATCG--CAT-CAGGTCTTATCTCCCTGAGG
1 TTACAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAG
* ** * * * * *
23811124 TTACAGTGGAGTAGACCGAATAATTTCAGATCTTGTCTCCCT-AACA
1 TTACAGTGGAGCAGATTGAA-GA-TACAAATCTTATCTCCCTGAA-G
* * **
23811170 TTATAGTGGAGCAGATTAAAGCCA-AAGATCTTATCTCCCTG-AG
1 TTACAGTGGAGCAGATTGAAGATACAA-ATCTTATCTCCCTGAAG
*
23811213 ATTACAGTGGAGCAGGTTGAAGATACAAATCTTATCTCCCTGAAG
1 -TTACAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAG
* * * * *
23811258 TTGCAGTGGAGC-GAATT-AAAACCACAGATCTTATCTCTCTGAAG
1 TTACAGTGGAGCAG-ATTGAAGA-TACAAATCTTATCTCCCTGAAG
*
23811302 TTACAGTAGAGCAGAT
1 TTACAGTGGAGCAGAT
23811318 CGCATCAAGT
Statistics
Matches: 282, Mismatches: 64, Indels: 44
0.72 0.16 0.11
Matches are distributed among these distances:
41 32 0.11
42 1 0.00
43 10 0.04
44 183 0.65
45 10 0.04
46 46 0.16
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (44 bp):
TTACAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAG
Found at i:23815922 original size:4 final size:4
Alignment explanation
Indices: 23815908--23815938 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
23815898 CTTCACTTCG
*
23815908 TATT CATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TAT
23815939 ATGTCCATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:23815953 original size:3 final size:3
Alignment explanation
Indices: 23815945--23816192 Score: 496
Period size: 3 Copynumber: 82.7 Consensus size: 3
23815935 TTATATGTCC
23815945 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
23815993 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
23816041 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
23816089 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
23816137 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
23816185 ATT ATT AT
1 ATT ATT AT
23816193 GCTTTAGTTT
Statistics
Matches: 245, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 245 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:23817397 original size:27 final size:27
Alignment explanation
Indices: 23817366--23817420 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
23817356 TTAAGAAGGA
23817366 TAAGCACGAAGTTTGAAAAATTAATTT
1 TAAGCACGAAGTTTGAAAAATTAATTT
**
23817393 TAAGCACGAAGTTTGAAATTTTAATTT
1 TAAGCACGAAGTTTGAAAAATTAATTT
23817420 T
1 T
23817421 CATAAATAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (27 bp):
TAAGCACGAAGTTTGAAAAATTAATTT
Found at i:23818982 original size:33 final size:33
Alignment explanation
Indices: 23818919--23818984 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
23818909 GTAGTTTCTT
* *
23818919 AAATAATTTTAAAACATTATAGAAATTTTTAAA
1 AAATAATTATAAAACATTATAGAAAATTTTAAA
23818952 AAATAATTATAAGAA-ATTATA-AATAATTTTAAA
1 AAATAATTATAA-AACATTATAGAA-AATTTTAAA
23818985 TTTTATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 2 0.07
33 25 0.86
34 2 0.07
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (33 bp):
AAATAATTATAAAACATTATAGAAAATTTTAAA
Found at i:23819611 original size:27 final size:25
Alignment explanation
Indices: 23819581--23819665 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 25
23819571 AAAGTTAGAA
23819581 AAATTTTATCAAAAATTAGAAATTATT
1 AAATTTTAT-AAAAATTA-AAATTATT
*
23819608 AAATATTTAAAAAATATTAAAATTGATAT
1 AAAT-TTTATAAAA-ATTAAAATT-AT-T
23819637 AAA-TTTATAAAAATTATAAA-TATT
1 AAATTTTATAAAAATTA-AAATTATT
23819661 AAATT
1 AAATT
23819666 CGCACTCAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
24 4 0.08
25 3 0.06
26 5 0.10
27 24 0.48
28 10 0.20
29 4 0.08
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.40
Consensus pattern (25 bp):
AAATTTTATAAAAATTAAAATTATT
Found at i:23819655 original size:9 final size:9
Alignment explanation
Indices: 23819554--23819661 Score: 51
Period size: 9 Copynumber: 11.4 Consensus size: 9
23819544 TAATATTTTT
23819554 ATTATAAAA
1 ATTATAAAA
*
23819563 ATGATTAAAA
1 ATTA-TAAAA
*
23819573 AGTTAGAAAA
1 A-TTATAAAA
23819583 ATTTTATCAAAA
1 A--TTAT-AAAA
*
23819595 A-T-TAGAA
1 ATTATAAAA
*
23819602 ATTATTAAAT
1 ATTA-TAAAA
23819612 ATT-TAAAA
1 ATTATAAAA
* *
23819620 AATATTAAA
1 ATTATAAAA
23819629 ATTGATATAAA
1 ATT-ATA-AAA
*
23819640 TTTATAAAA
1 ATTATAAAA
*
23819649 ATTATAAAT
1 ATTATAAAA
23819658 ATTA
1 ATTA
23819662 AATTCGCACT
Statistics
Matches: 73, Mismatches: 16, Indels: 20
0.67 0.15 0.18
Matches are distributed among these distances:
7 4 0.05
8 8 0.11
9 24 0.33
10 22 0.30
11 10 0.14
12 5 0.07
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.37
Consensus pattern (9 bp):
ATTATAAAA
Found at i:23819827 original size:17 final size:18
Alignment explanation
Indices: 23819795--23819830 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
23819785 ATAAAAATGT
*
23819795 ATTAAAATTCTATAAAAA
1 ATTAAAAATCTATAAAAA
23819813 ATTAAAAAT-TATAAAAA
1 ATTAAAAATCTATAAAAA
23819830 A
1 A
23819831 AATATAGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
ATTAAAAATCTATAAAAA
Found at i:23820189 original size:19 final size:19
Alignment explanation
Indices: 23820161--23820200 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
23820151 TATATACTAA
* *
23820161 TAGTTGGATAATAAAATTT
1 TAGTTGGATAAAAAAAATT
*
23820180 TAGTTTGATAAAAAAAATT
1 TAGTTGGATAAAAAAAATT
23820199 TA
1 TA
23820201 AAAATAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.40
Consensus pattern (19 bp):
TAGTTGGATAAAAAAAATT
Found at i:23822351 original size:24 final size:25
Alignment explanation
Indices: 23822308--23822370 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
23822298 AATTTATGTA
*
23822308 TTTTTTTTAATTCGGCACTT-AAGT
1 TTTTTTTTAATTCAGCACTTGAAGT
* * *
23822332 TTTTTTTTAATTTAGTACTTGAATT
1 TTTTTTTTAATTCAGCACTTGAAGT
23822357 TAATTTTTTTAATT
1 T--TTTTTTTAATT
23822371 GAATTTGACA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 17 0.53
25 4 0.12
27 11 0.34
ACGTcount: A:0.24, C:0.06, G:0.08, T:0.62
Consensus pattern (25 bp):
TTTTTTTTAATTCAGCACTTGAAGT
Found at i:23823239 original size:10 final size:10
Alignment explanation
Indices: 23823224--23823249 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
23823214 ATTTATAACA
23823224 ATCCATTTTC
1 ATCCATTTTC
23823234 ATCCATTTTC
1 ATCCATTTTC
23823244 ATCCAT
1 ATCCAT
23823250 ATACAACTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (10 bp):
ATCCATTTTC
Found at i:23823836 original size:3 final size:3
Alignment explanation
Indices: 23823828--23823858 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
23823818 CTATGGAGAA
*
23823828 ATG ATG ATG ATG ATG ATG ATG ACG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
23823859 GAGAGAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.03, G:0.32, T:0.29
Consensus pattern (3 bp):
ATG
Found at i:23831393 original size:37 final size:37
Alignment explanation
Indices: 23831343--23831416 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
23831333 TGCTGAGACC
23831343 GGGTATCAGACTTTGATAGCTGAGGATGATGCACTAT
1 GGGTATCAGACTTTGATAGCTGAGGATGATGCACTAT
*
23831380 GGGTATCAGACTTTGATAGCTGAGGATGGTGCACTAT
1 GGGTATCAGACTTTGATAGCTGAGGATGATGCACTAT
23831417 CTCAAGCTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.30
Consensus pattern (37 bp):
GGGTATCAGACTTTGATAGCTGAGGATGATGCACTAT
Found at i:23838204 original size:14 final size:15
Alignment explanation
Indices: 23838179--23838207 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23838169 ATTGAATTAC
23838179 TTTTAGTTTTATTTA
1 TTTTAGTTTTATTTA
23838194 TTTTA-TTTTATTTA
1 TTTTAGTTTTATTTA
23838208 ACATAATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTTAGTTTTATTTA
Found at i:23847047 original size:20 final size:20
Alignment explanation
Indices: 23847022--23847063 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
23847012 TTGTTGCTAA
23847022 ATGGTTGGCAAATATCTATC
1 ATGGTTGGCAAATATCTATC
23847042 ATGGTTGGCAAATATCTATC
1 ATGGTTGGCAAATATCTATC
23847062 AT
1 AT
23847064 TACATTATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (20 bp):
ATGGTTGGCAAATATCTATC
Found at i:23849297 original size:18 final size:17
Alignment explanation
Indices: 23849264--23849302 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
23849254 TTTTATAAAT
23849264 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
23849282 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
23849299 TGTG
1 TGTG
23849303 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:23849554 original size:23 final size:23
Alignment explanation
Indices: 23849528--23849718 Score: 238
Period size: 23 Copynumber: 8.3 Consensus size: 23
23849518 AGTGTTATTG
*
23849528 ATCAGTGGTAGCTACGGCTATAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
23849551 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
23849574 TTCAGTGGTAGCTACGGCTATAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
23849597 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
23849620 TTCAGTGGTAGCTACGGCTATAT
1 ATCAGTGGTAGCTACGGCTACAT
** *
23849643 ATCAGTGGTAGCTTTGACTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* * *
23849666 TTCAGTGGTAGCTACTGCTACGT
1 ATCAGTGGTAGCTACGGCTACAT
*
23849689 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
23849712 ATCAGTG
1 ATCAGTG
23849719 TGGCACTTAT
Statistics
Matches: 138, Mismatches: 30, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 138 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:23849582 original size:46 final size:46
Alignment explanation
Indices: 23849529--23849718 Score: 310
Period size: 46 Copynumber: 4.1 Consensus size: 46
23849519 GTGTTATTGA
23849529 TCAGTGGTAGCTACGGCTATATATCAGTGGTAGCTTCAGCTACATT
1 TCAGTGGTAGCTACGGCTATATATCAGTGGTAGCTTCAGCTACATT
23849575 TCAGTGGTAGCTACGGCTATATATCAGTGGTAGCTTCAGCTACATT
1 TCAGTGGTAGCTACGGCTATATATCAGTGGTAGCTTCAGCTACATT
*
23849621 TCAGTGGTAGCTACGGCTATATATCAGTGGTAGCTT-TGACTACATT
1 TCAGTGGTAGCTACGGCTATATATCAGTGGTAGCTTCAG-CTACATT
* ** * *
23849667 TCAGTGGTAGCTACTGCTACGTATCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTACGGCTATATATCAGTGGTAGCTTCAGCTACATT
23849713 TCAGTG
1 TCAGTG
23849719 TGGCACTTAT
Statistics
Matches: 136, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
45 1 0.01
46 134 0.99
47 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (46 bp):
TCAGTGGTAGCTACGGCTATATATCAGTGGTAGCTTCAGCTACATT
Found at i:23851524 original size:42 final size:43
Alignment explanation
Indices: 23851477--23851683 Score: 233
Period size: 42 Copynumber: 4.9 Consensus size: 43
23851467 TGACCTTTAG
* * * *
23851477 CATGACTTTTAGCGGCGCTTTT-ACAAAAACGCTGCTAAAGGT
1 CATGACTTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGAT
* * * * *
23851519 CATGACTTTTAACGACACTTAT-ACAACAAATGCCGCTATAGAT
1 CATGACTTTTAGCGGCGCTTTTCAC-ACAAACGCCGCTATAGAT
* * **
23851562 TATGAC-TTTAGCGGCGCTTTTCCCACAAACGATGCTATAGAT
1 CATGACTTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGAT
* *
23851604 CATGACTTTTAGCGGCGATTTTCCCACAAACGCCGCTATAG-T
1 CATGACTTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGAT
*
23851646 CATGACTTTTAGCGGCACTTTTCACACAAACGCCGCTA
1 CATGACTTTTAGCGGCGCTTTTCACACAAACGCCGCTA
23851684 AAAACATATC
Statistics
Matches: 137, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
42 87 0.64
43 50 0.36
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (43 bp):
CATGACTTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGAT
Found at i:23851633 original size:85 final size:85
Alignment explanation
Indices: 23851477--23851677 Score: 246
Period size: 85 Copynumber: 2.4 Consensus size: 85
23851467 TGACCTTTAG
* * *
23851477 CATGACTTTTAGCGGCGCTTTT-ACAAAAACGCTGCTAAAGGTCATGACTTTTAACGACACTTAT
1 CATGACTTTTAGCGGCGCTTTTCACACAAACGATGCTAAAGATCATGACTTTTAACGACACTTAT
*
23851541 ACAACAAATGCCGCTATAGAT
66 ACAACAAACGCCGCTATAG-T
* * * * * *
23851562 TATGAC-TTTAGCGGCGCTTTTCCCACAAACGATGCTATAGATCATGACTTTTAGCGGCGA-TTT
1 CATGACTTTTAGCGGCGCTTTTCACACAAACGATGCTAAAGATCATGACTTTTAACGAC-ACTTA
* *
23851625 TCCCACAAACGCCGCTATAGT
65 TACAACAAACGCCGCTATAGT
*
23851646 CATGACTTTTAGCGGCACTTTTCACACAAACG
1 CATGACTTTTAGCGGCGCTTTTCACACAAACG
23851678 CCGCTAAAAA
Statistics
Matches: 98, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
84 21 0.21
85 76 0.78
86 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (85 bp):
CATGACTTTTAGCGGCGCTTTTCACACAAACGATGCTAAAGATCATGACTTTTAACGACACTTAT
ACAACAAACGCCGCTATAGT
Found at i:23855321 original size:3 final size:3
Alignment explanation
Indices: 23855315--23855356 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
23855305 TTTTAACTGT
23855315 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23855357 NNNNNNNNNN
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:23857987 original size:4 final size:4
Alignment explanation
Indices: 23857978--23858006 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
23857968 AAAAAAATAA
23857978 AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
23858007 GGGGAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:23858816 original size:14 final size:14
Alignment explanation
Indices: 23858798--23858993 Score: 128
Period size: 14 Copynumber: 13.8 Consensus size: 14
23858788 CCCCTAACTT
* *
23858798 CTAAACCCTAAATC
1 CTAAACCATAAACC
* *
23858812 ATAAAACATAAACC
1 CTAAACCATAAACC
* *
23858826 CTAAACCCTTAACCC
1 CTAAA-CCATAAACC
23858841 CTAAACCATAAA-C
1 CTAAACCATAAACC
* *
23858854 CTCAACCCTTAAACC
1 CT-AAACCATAAACC
*
23858869 ATAAACCATAAACC
1 CTAAACCATAAACC
* *
23858883 ATAAACCATAATCC
1 CTAAACCATAAACC
*
23858897 CTAAACCCATAATCC
1 CTAAA-CCATAAACC
* *
23858912 ATAATCCATAAA-C
1 CTAAACCATAAACC
* *
23858925 CTTAA-GATAGTAACTC
1 CTAAACCATA--AAC-C
**
23858941 CTAAACTTTAAACC
1 CTAAACCATAAACC
* *
23858955 CTAAACTATATACC
1 CTAAACCATAAACC
23858969 CTAAACCATAAACC
1 CTAAACCATAAACC
*
23858983 CTAAACTATAA
1 CTAAACCATAA
23858994 TAATAATTAA
Statistics
Matches: 141, Mismatches: 32, Indels: 18
0.74 0.17 0.09
Matches are distributed among these distances:
12 3 0.02
13 6 0.04
14 97 0.69
15 28 0.20
16 5 0.04
17 2 0.01
ACGTcount: A:0.46, C:0.31, G:0.01, T:0.21
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:23858847 original size:8 final size:7
Alignment explanation
Indices: 23858769--23858988 Score: 95
Period size: 7 Copynumber: 30.9 Consensus size: 7
23858759 ACTAATTAAT
23858769 CTAAACC
1 CTAAACC
23858776 CTAAACC
1 CTAAACC
* *
23858783 TTTAACCC
1 -CTAAACC
*
23858791 CT-AACTT
1 CTAAAC-C
23858798 CTAAACC
1 CTAAACC
*
23858805 CTAAATC
1 CTAAACC
* *
23858812 ATAAAAC
1 CTAAACC
*
23858819 ATAAACC
1 CTAAACC
23858826 CTAAACC
1 CTAAACC
*
23858833 CTTAACCC
1 C-TAAACC
23858841 CTAAACC
1 CTAAACC
*
23858848 ATAAA-C
1 CTAAACC
*
23858854 CTCAACC
1 CTAAACC
23858861 CTTAAACC
1 C-TAAACC
*
23858869 ATAAACC
1 CTAAACC
*
23858876 ATAAACC
1 CTAAACC
*
23858883 ATAAACC
1 CTAAACC
* *
23858890 ATAATCC
1 CTAAACC
23858897 CTAAACC
1 CTAAACC
*
23858904 CATAATCC
1 C-TAAACC
* *
23858912 ATAATCC
1 CTAAACC
*
23858919 ATAAACC
1 CTAAACC
* **
23858926 TTAAGATA
1 CTAA-ACC
*
23858934 GT-AACTC
1 CTAAAC-C
*
23858941 CTAAACT
1 CTAAACC
*
23858948 TTAAACC
1 CTAAACC
*
23858955 CTAAACT
1 CTAAACC
* *
23858962 ATATACC
1 CTAAACC
23858969 CTAAACC
1 CTAAACC
*
23858976 ATAAACC
1 CTAAACC
23858983 CTAAAC
1 CTAAAC
23858989 TATAATAATA
Statistics
Matches: 160, Mismatches: 43, Indels: 20
0.72 0.19 0.09
Matches are distributed among these distances:
6 7 0.04
7 124 0.77
8 29 0.18
ACGTcount: A:0.45, C:0.33, G:0.01, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:23859167 original size:7 final size:7
Alignment explanation
Indices: 23859124--23859172 Score: 71
Period size: 7 Copynumber: 6.7 Consensus size: 7
23859114 ACCTAGCCTT
23859124 TAAACCA
1 TAAACCA
23859131 TAAACCA
1 TAAACCA
23859138 TAAACCA
1 TAAACCA
23859145 TAAACCA
1 TAAACCA
23859152 TAAACCCA
1 TAAA-CCA
*
23859160 TAATCCA
1 TAAACCA
23859167 TGAAAC
1 T-AAAC
23859173 TTTAAAATAG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
7 29 0.76
8 9 0.24
ACGTcount: A:0.53, C:0.29, G:0.02, T:0.16
Consensus pattern (7 bp):
TAAACCA
Found at i:23859774 original size:41 final size:41
Alignment explanation
Indices: 23859543--23859777 Score: 242
Period size: 41 Copynumber: 5.7 Consensus size: 41
23859533 TTTTTGCGGT
* * * *
23859543 GCTTTTTCAAAAATGCCGCTAAAGCCCCCGAGCATTAGCTGC
1 GCTTTTTTAAAAACGCCGCTAAAG-CCTCGAGCATTAGCAGC
* *** ** * *
23859585 GCTTATTGGCAAACGCCGCTAAA-AATAGAGCATTAGCGGC
1 GCTTTTTTAAAAACGCCGCTAAAGCCTCGAGCATTAGCAGC
**
23859625 GCTTTCCTAAAAACGCCGCTAAAGTCC-CGAGCATTAGCAGC
1 GCTTTTTTAAAAACGCCGCTAAAG-CCTCGAGCATTAGCAGC
* * * *
23859666 GCTTTCTGAAAAACGCCGCTAAAGCCCCGAGCATTAGC-GAT
1 GCTTTTTTAAAAACGCCGCTAAAGCCTCGAGCATTAGCAG-C
* *
23859707 GCTTTTTTAAAAACGCCGTTAAAGCCTTGAGCATTAGCAGC
1 GCTTTTTTAAAAACGCCGCTAAAGCCTCGAGCATTAGCAGC
23859748 GCTTTTTTAAAAACGCCGCTAAAGCCTCGA
1 GCTTTTTTAAAAACGCCGCTAAAGCCTCGA
23859778 AAGCTCGGAG
Statistics
Matches: 157, Mismatches: 31, Indels: 11
0.79 0.16 0.06
Matches are distributed among these distances:
40 32 0.20
41 106 0.68
42 19 0.12
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (41 bp):
GCTTTTTTAAAAACGCCGCTAAAGCCTCGAGCATTAGCAGC
Found at i:23859838 original size:39 final size:40
Alignment explanation
Indices: 23859794--23859877 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
23859784 GGAGCTTAGG
* **
23859794 TTTTTTGCGGCACTTCTTGGAAAA-CGCCGCTAATGCTCTA
1 TTTTTAGCGG-ACTTCTTCAAAAAGCGCCGCTAATGCTCTA
** *
23859834 TTTTTAGCGGTGTTTTTCAAAAAGCGCCGCTAATGCTCTA
1 TTTTTAGCGGACTTCTTCAAAAAGCGCCGCTAATGCTCTA
23859874 TTTT
1 TTTT
23859878 AGCAGCGTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 8 0.22
40 29 0.78
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.39
Consensus pattern (40 bp):
TTTTTAGCGGACTTCTTCAAAAAGCGCCGCTAATGCTCTA
Found at i:23859889 original size:39 final size:39
Alignment explanation
Indices: 23859814--23859929 Score: 155
Period size: 39 Copynumber: 2.9 Consensus size: 39
23859804 CACTTCTTGG
*
23859814 AAAACGCCGCTAATGCTCTATTTTTAGCGGTGTTTTTCA-
1 AAAACGCCGCTAATGCTCTATTTTTAGCGGCGTTTTT-AT
*
23859853 AAAAGCGCCGCTAATGCTCTA-TTTTAGCAGCGTTTTTAT
1 AAAA-CGCCGCTAATGCTCTATTTTTAGCGGCGTTTTTAT
* *
23859892 AAATATGCCGCTAATGCTCGATTTTTAGCGGCGTTTTT
1 AAA-ACGCCGCTAATGCTCTATTTTTAGCGGCGTTTTT
23859930 GTTCAAACGC
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
38 1 0.01
39 35 0.51
40 32 0.47
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (39 bp):
AAAACGCCGCTAATGCTCTATTTTTAGCGGCGTTTTTAT
Found at i:23878486 original size:16 final size:16
Alignment explanation
Indices: 23878467--23878498 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23878457 AACAATTATG
*
23878467 AATATAAATAATTAAT
1 AATATAAAGAATTAAT
23878483 AATATAAAGAATTAAT
1 AATATAAAGAATTAAT
23878499 TTTTTAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (16 bp):
AATATAAAGAATTAAT
Found at i:23885622 original size:39 final size:39
Alignment explanation
Indices: 23885562--23885681 Score: 195
Period size: 39 Copynumber: 3.1 Consensus size: 39
23885552 ATTTTCAATA
* * *
23885562 CACCGGCACATAGCTTGCTAGGCACATAGCCTGAATAAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAAT
*
23885601 CACCGGCACAAAGCCTACTAGGCACATAGCCCGAATAAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAAT
*
23885640 CACCGGCACACAGCCTGCTAGGCACATAGCCCGAATAAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAAT
23885679 CAC
1 CAC
23885682 TAGATTTCTA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.33, C:0.33, G:0.19, T:0.15
Consensus pattern (39 bp):
CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAAT
Found at i:23890295 original size:27 final size:26
Alignment explanation
Indices: 23890228--23890296 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 26
23890218 AGATTTTTAA
*
23890228 TGAAATTGTCAAATATGGGCTAAATTG
1 TGAAATTGTGAAAT-TGGGCTAAATTG
* * *
23890255 AGAAA-TGTGAAAATTGTGTTAAATGTG
1 TGAAATTGTG-AAATTGGGCTAAAT-TG
23890282 TGAAATTGTGAAATT
1 TGAAATTGTGAAATT
23890297 CATGGTTGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
26 11 0.32
27 19 0.56
28 4 0.12
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (26 bp):
TGAAATTGTGAAATTGGGCTAAATTG
Found at i:23895052 original size:27 final size:27
Alignment explanation
Indices: 23895013--23895072 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
23895003 ATTCTTAGTG
*
23895013 GTTGTGCTTGTAGATATGTTTTGGCGA
1 GTTGTGCTCGTAGATATGTTTTGGCGA
23895040 GTTGTGCTCGTAGATATGTTTTGGCGA
1 GTTGTGCTCGTAGATATGTTTTGGCGA
23895067 GTTGTG
1 GTTGTG
23895073 TTCATAGGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.13, C:0.08, G:0.35, T:0.43
Consensus pattern (27 bp):
GTTGTGCTCGTAGATATGTTTTGGCGA
Found at i:23900734 original size:43 final size:43
Alignment explanation
Indices: 23900685--23900921 Score: 357
Period size: 43 Copynumber: 5.5 Consensus size: 43
23900675 AGATAAGCGT
* * *
23900685 CGCTAAAGGTCATGTTCTTTAGCGGTGCTTCTATAGAAAAGGC
1 CGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTATAGCAAACGC
*
23900728 CGCTAAAGGTCATGTTCTTTAGCGGAGCTTCTATAGCAAACGC
1 CGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTATAGCAAACGC
* * *
23900771 CGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATATCAAACAC
1 CGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTATAGCAAACGC
* * *
23900814 CGCTAAAGGTCATGTTCTTTAGCGGTGCTTCTATAGAAAATGC
1 CGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTATAGCAAACGC
*
23900857 CGCTAAATGTCATGTTCTTTAGCGGCGCTTCTATAGCAAACGC
1 CGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTATAGCAAACGC
* *
23900900 CGTTAAAGGTCACGTTCTTTAG
1 CGCTAAAGGTCATGTTCTTTAG
23900922 TGACACTTTT
Statistics
Matches: 174, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 174 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (43 bp):
CGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTATAGCAAACGC
Found at i:23900869 original size:129 final size:128
Alignment explanation
Indices: 23900685--23900938 Score: 427
Period size: 129 Copynumber: 2.0 Consensus size: 128
23900675 AGATAAGCGT
23900685 CGCTAAAGGTCATGTTCTTTAGCGGTGCTTCTATAGAAAAGGCCGCTAAAGGTCATGTTCTTTAG
1 CGCTAAAGGTCATGTTCTTTAGCGGTGCTTCTATAGAAAAGGCCGCTAAAGGTCATGTTCTTTAG
* * *
23900750 CGGAGCTTCTATAGCAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATATCAAACAC
66 CGGAGCTTCTATAGCAAACGCCGCTAAAGGTCACGTTCTTTAGCGACACTTTT-TATCAAACAC
* *
23900814 CGCTAAAGGTCATGTTCTTTAGCGGTGCTTCTATAGAAAATGCCGCTAAATGTCATGTTCTTTAG
1 CGCTAAAGGTCATGTTCTTTAGCGGTGCTTCTATAGAAAAGGCCGCTAAAGGTCATGTTCTTTAG
* * *
23900879 CGGCGCTTCTATAGCAAACGCCGTTAAAGGTCACGTTCTTTAGTGACACTTTTTATCAAA
66 CGGAGCTTCTATAGCAAACGCCGCTAAAGGTCACGTTCTTTAGCGACACTTTTTATCAAA
23900939 AACGCCGCTA
Statistics
Matches: 117, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
128 7 0.06
129 110 0.94
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (128 bp):
CGCTAAAGGTCATGTTCTTTAGCGGTGCTTCTATAGAAAAGGCCGCTAAAGGTCATGTTCTTTAG
CGGAGCTTCTATAGCAAACGCCGCTAAAGGTCACGTTCTTTAGCGACACTTTTTATCAAACAC
Found at i:23900982 original size:129 final size:129
Alignment explanation
Indices: 23900685--23900968 Score: 392
Period size: 129 Copynumber: 2.2 Consensus size: 129
23900675 AGATAAGCGT
* * *
23900685 CGCTAAAGGTCATGTTCTTTAGCGGTGCTTCTATAGAAAAGGCCGCTAAAGGTCATGTTCTTTAG
1 CGCTAAAAGTCACGTTCTTTAGCGGTGCTTCTACAGAAAAGGCCGCTAAAGGTCATGTTCTTTAG
* * *
23900750 CGGAGCTTCTATAGCAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATATCAAACAC
66 CGGAGCTTCTATAGCAAACGCCGCTAAAGGTCACGTTCTTTAGCGACACTTTTATATCAAACAC
* * * * *
23900814 CGCTAAAGGTCATGTTCTTTAGCGGTGCTTCTATAGAAAATGCCGCTAAATGTCATGTTCTTTAG
1 CGCTAAAAGTCACGTTCTTTAGCGGTGCTTCTACAGAAAAGGCCGCTAAAGGTCATGTTCTTTAG
* * * *
23900879 CGGCGCTTCTATAGCAAACGCCGTTAAAGGTCACGTTCTTTAGTGACACTTTT-TATCAAAAACG
66 CGGAGCTTCTATAGCAAACGCCGCTAAAGGTCACGTTCTTTAGCGACACTTTTATATC--AAACA
23900943 C
129 C
23900944 CGCTAAAAG-CACCGTTCTTTAGCGG
1 CGCTAAAAGTCA-CGTTCTTTAGCGG
23900969 CATTTTACGG
Statistics
Matches: 141, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
128 4 0.03
129 112 0.79
130 25 0.18
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (129 bp):
CGCTAAAAGTCACGTTCTTTAGCGGTGCTTCTACAGAAAAGGCCGCTAAAGGTCATGTTCTTTAG
CGGAGCTTCTATAGCAAACGCCGCTAAAGGTCACGTTCTTTAGCGACACTTTTATATCAAACAC
Found at i:23914112 original size:83 final size:83
Alignment explanation
Indices: 23913953--23914473 Score: 524
Period size: 84 Copynumber: 6.2 Consensus size: 83
23913943 CTATTGCTTT
* * * *
23913953 CATAGTTGCGGCGTTTTCCGCAAAAAACGCTAATACAAAATTAAATTCCTGTACTGAAACGACGC
1 CATAGTTGCGGCGTTTTCCG-AAAAAACGCCACTA-AAAATTAAATTCCTGTAGTGAAACGGCGC
*
23914018 CGTTTTAAGAAACTTTAATA
64 CGTTTTGAGAAACTTTAATA
* * * * * * *
23914038 TATAGTTGCGGCGTTTTCCGTAAAAATGCCACTAAAAATTAAATTCCTGAAGAGAAATGGCGACG
1 CATAGTTGCGGCGTTTTCCGAAAAAACGCCACTAAAAATTAAATTCCTGTAGTGAAACGGCGCCG
*
23914103 TTTTGAGAAACATTAATA
66 TTTTGAGAAACTTTAATA
** ** * * *
23914121 CATTTTTGTAGCGTTTTCAAC-AAAAAACACCACTAAAAGATTACATTCCTGTAGTGAAACGGAG
1 CATAGTTGCGGCGTTTTC--CGAAAAAACGCCACTAAAA-ATTAAATTCCTGTAGTGAAACGGCG
* *
23914185 CCGTTTTGATAAATTTTAATA
63 CCGTTTTGAGAAACTTTAATA
* * ** **
23914206 CATATTTACGGCGTTTTCCGAAAAAACGCCACTAAAAATTTAAATTCCTAAACAGAAACGGCGCC
1 CATAGTTGCGGCGTTTTCCGAAAAAACGCCACTAAAAA-TTAAATTCCTGTAGTGAAACGGCGCC
* * *
23914271 GTTTAGAAAAACTTGAATA
65 GTTTTGAGAAACTTTAATA
* * * * * * *
23914290 CATAGTTCCGGCATTTTCAGTAAAAACGCCACTAAAAAATTTAATTCTTGTGGTGAAACGGCGCC
1 CATAGTTGCGGCGTTTTCCGAAAAAACGCCACT-AAAAATTAAATTCCTGTAGTGAAACGGCGCC
*
23914355 GTTTTGAGAAATTTTAATA
65 GTTTTGAGAAACTTTAATA
* ** * * *
23914374 CATAGTTGCGGCATTTT-TAAAAAAACGCCACTAAGAAATTAAATTCTTGTAGCGAAACGGCGCT
1 CATAGTTGCGGCGTTTTCCGAAAAAACGCCACTAA-AAATTAAATTCCTGTAGTGAAACGGCGCC
* * *
23914438 GTTTTGGGGAATTTTAATA
65 GTTTTGAGAAACTTTAATA
23914457 CATAGTTGCGGCGTTTT
1 CATAGTTGCGGCGTTTT
23914474 TTTCTAAAAA
Statistics
Matches: 357, Mismatches: 72, Indels: 16
0.80 0.16 0.04
Matches are distributed among these distances:
82 2 0.01
83 126 0.35
84 153 0.43
85 76 0.21
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (83 bp):
CATAGTTGCGGCGTTTTCCGAAAAAACGCCACTAAAAATTAAATTCCTGTAGTGAAACGGCGCCG
TTTTGAGAAACTTTAATA
Found at i:23915267 original size:19 final size:19
Alignment explanation
Indices: 23915243--23915303 Score: 54
Period size: 19 Copynumber: 3.1 Consensus size: 19
23915233 CCGCTAATGC
23915243 TTGATATATAGCGGCATTT
1 TTGATATATAGCGGCATTT
*
23915262 TTGATA-A-AGCGCCGCTAATAT
1 TTGATATATAGCG--GC--ATTT
*
23915283 TCGATATATAGCGGCATTT
1 TTGATATATAGCGGCATTT
23915302 TT
1 TT
23915304 TATGAAGCGC
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
17 4 0.12
18 1 0.03
19 12 0.38
21 10 0.31
22 1 0.03
23 4 0.12
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.38
Consensus pattern (19 bp):
TTGATATATAGCGGCATTT
Found at i:23915274 original size:40 final size:41
Alignment explanation
Indices: 23915214--23915323 Score: 143
Period size: 40 Copynumber: 2.7 Consensus size: 41
23915204 ATGTTTTTTA
* *
23915214 CGGCGTTTTTGACAAAGCGCCGCTAATGCTT-GATATATAG
1 CGGCATTTTTGATAAAGCGCCGCTAATGCTTCGATATATAG
*
23915254 CGGCATTTTTGATAAAGCGCCGCTAAT-ATTCGATATATAG
1 CGGCATTTTTGATAAAGCGCCGCTAATGCTTCGATATATAG
* * *
23915294 CGGCATTTTTTATGAAGCGCCAACTAATGC
1 CGGCATTTTTGATAAAGCGCC-GCTAATGC
23915324 CACTAAAGCT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
39 2 0.03
40 53 0.88
41 5 0.08
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (41 bp):
CGGCATTTTTGATAAAGCGCCGCTAATGCTTCGATATATAG
Found at i:23915435 original size:40 final size:39
Alignment explanation
Indices: 23915380--23915495 Score: 151
Period size: 40 Copynumber: 2.9 Consensus size: 39
23915370 GGCATTTTTT
* *
23915380 AAAAAGTGCCGCTAATACTCGATCTATAGCGGCGTTTGTC
1 AAAAAGTGCCGCTAAT-CTCAATCTATAGCGGCGTTTCTC
* * *
23915420 AAAAAGTGCCGCTAATGTCAATCTTTAGCGGCATTTCTC
1 AAAAAGTGCCGCTAATCTCAATCTATAGCGGCGTTTCTC
* *
23915459 AAAATGCGCCGCTAATGCTCAATCTATAGCGGCGTTT
1 AAAAAGTGCCGCTAAT-CTCAATCTATAGCGGCGTTT
23915496 TTTATCCAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
39 32 0.49
40 33 0.51
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (39 bp):
AAAAAGTGCCGCTAATCTCAATCTATAGCGGCGTTTCTC
Found at i:23917871 original size:12 final size:11
Alignment explanation
Indices: 23917856--23917906 Score: 57
Period size: 12 Copynumber: 4.4 Consensus size: 11
23917846 TTAGTGATTA
23917856 AAAACTTGATGG
1 AAAACTTGAT-G
*
23917868 AAAACTTGATT
1 AAAACTTGATG
*
23917879 AATGACTTGATG
1 AA-AACTTGATG
23917891 AAAGACTTGATG
1 AAA-ACTTGATG
23917903 AAAA
1 AAAA
23917907 AAACAATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
11 3 0.09
12 30 0.91
ACGTcount: A:0.45, C:0.08, G:0.20, T:0.27
Consensus pattern (11 bp):
AAAACTTGATG
Found at i:23917877 original size:24 final size:24
Alignment explanation
Indices: 23917850--23917907 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
23917840 AAAAACTTAG
23917850 TGATTAAAAACTTGATGGAAA-ACT
1 TGATTAAAAACTTGAT-GAAAGACT
**
23917874 TGATTAATGACTTGATGAAAGACT
1 TGATTAAAAACTTGATGAAAGACT
*
23917898 TGATGAAAAA
1 TGATTAAAAA
23917908 AACAATTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 4 0.14
24 24 0.86
ACGTcount: A:0.45, C:0.07, G:0.19, T:0.29
Consensus pattern (24 bp):
TGATTAAAAACTTGATGAAAGACT
Found at i:23917930 original size:12 final size:12
Alignment explanation
Indices: 23917913--23917938 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23917903 AAAAAAACAA
23917913 TTAATGAATGAC
1 TTAATGAATGAC
23917925 TTAATGAATGAC
1 TTAATGAATGAC
23917937 TT
1 TT
23917939 GATCCAAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (12 bp):
TTAATGAATGAC
Found at i:23918492 original size:26 final size:27
Alignment explanation
Indices: 23918438--23918494 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
23918428 AATTTTAAAA
* * *
23918438 TATTTTTAAAATACATTTTTTTATTTT
1 TATTTTTAAAATACAATTTTTGATGTT
*
23918465 TATTTTTAAAATA-AATTTTTGGTGTT
1 TATTTTTAAAATACAATTTTTGATGTT
23918491 TATT
1 TATT
23918495 AAAAAAAGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (27 bp):
TATTTTTAAAATACAATTTTTGATGTT
Found at i:23921038 original size:81 final size:80
Alignment explanation
Indices: 23920948--23921103 Score: 208
Period size: 81 Copynumber: 1.9 Consensus size: 80
23920938 AGTGTTTTGT
* *
23920948 GTTTTGTGATTTATTAGTAATGTAAATTCTTTTTTTAAAAAT-GT-TATAGTTATTTTGTTAGTA
1 GTTTTGTGATTTATTAGTAAT-TAAA-T-TTTTTTTAAAAATAGTGTATAATTATGTTGTTAGTA
23921011 ATTTATGATTAGTTTAGG
63 ATTTATGATTAGTTTAGG
* * *
23921029 GTTTTGTGATTTTTTAGTAATTTAATTTTTTTTAAAAATAATTGTATAATTATGTTGTTAGTAAT
1 GTTTTGTGATTTATTAGTAATTAAATTTTTTTTAAAAAT-AGTGTATAATTATGTTGTTAGTAAT
*
23921094 TTATGGTTAG
65 TTATGATTAG
23921104 GTTATATAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 13 0.20
79 1 0.02
80 4 0.06
81 48 0.73
ACGTcount: A:0.29, C:0.01, G:0.15, T:0.55
Consensus pattern (80 bp):
GTTTTGTGATTTATTAGTAATTAAATTTTTTTTAAAAATAGTGTATAATTATGTTGTTAGTAATT
TATGATTAGTTTAGG
Found at i:23921129 original size:181 final size:181
Alignment explanation
Indices: 23920862--23921421 Score: 641
Period size: 198 Copynumber: 3.0 Consensus size: 181
23920852 TTTTATGAAG
* *
23920862 TTTTAGTAATGTAAATTCTTTTT-AAAAAATGTTATAGTTATTTTGTTAGTAATTTATGATTA-G
1 TTTTAGTAAT-TTAATTTTTTTTAAAAAAATG-TATAGTTATTTTGTTAGTAATTTATGATTAGG
*
23920925 TT-TATAATTTGTTAGTGTTTTGTGTTTTGTGATTTATTAGTAATGTAAATTCTTTTTTTAAAAA
64 TTATATAAATTGTTAGTGTTTTGTGTTTTGTGATTTATTAGTAATGTAAATTCTTTTTTTAAAAA
***
23920989 TGTTATAGTTATTTTGTTAGTAATTTATGATTAGTTTA-GGGTT-TT-GTGATT
129 TGTTATAGTTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTG-TT
* * *
23921040 TTTTAGTAATTTAATTTTTTTTAAAAATAATTGTATAATTATGTTGTTAGTAATTTATGGTTAGG
1 TTTTAGTAATTTAATTTTTTTTAAAAA-AA-TGTATAGTTATTTTGTTAGTAATTTATGATTAGG
23921105 TTATATAAATTGTTAGTGTTTTGTGTTTTGTGATTTATTAGTAATGTAAATTCTTTTTTTAAAAA
64 TTATATAAATTGTTAGTGTTTTGTGTTTTGTGATTTATTAGTAATGTAAATTCTTTTTTTAAAAA
*
23921170 TGTTATAGTTATTTTGTTAGTAATTTATAATTAGTTTATAAATTGTTAGTGTT
129 TGTTATAGTTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTT
* * *
23921223 TAGTTTAGGATTTTGTGAATTTTTAGTAATGTAATTTAAAAGAAAAAT-TATAGTTGTTTTGTTA
1 T--TTTAGTA-ATT-T-AA---TT--T--T-T--TTT--AA-AAAAATGTATAGTTATTTTGTTA
* **
23921287 GTAAGTTATGATTAGGTTATATAAATTGAAAAGTGTTTTGTGTTTTGTGATTTATTAGTAATGT-
48 GTAATTTATGATTAGGTTATATAAATTG-TTAGTGTTTTGTGTTTTGTGATTTATTAGTAATGTA
*** * * * *
23921351 AATTCTTTTAAAAAAAATGTTATAATTATTTTTTTACTAATTTATGATTAGTTTATAAATTATTA
112 AATTCTTTTTTTAAAAATGTTATAGTTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTA
23921416 GTGTT
177 GTGTT
23921421 T
1 T
23921422 AGTTTAGGGT
Statistics
Matches: 328, Mismatches: 27, Indels: 34
0.84 0.07 0.09
Matches are distributed among these distances:
177 10 0.03
178 14 0.04
179 29 0.09
180 5 0.02
181 98 0.30
182 2 0.01
183 5 0.02
184 3 0.01
185 6 0.02
186 2 0.01
187 1 0.00
188 2 0.01
191 2 0.01
193 1 0.00
195 1 0.00
196 1 0.00
198 105 0.32
199 34 0.10
200 4 0.01
201 3 0.01
ACGTcount: A:0.31, C:0.01, G:0.15, T:0.54
Consensus pattern (181 bp):
TTTTAGTAATTTAATTTTTTTTAAAAAAATGTATAGTTATTTTGTTAGTAATTTATGATTAGGTT
ATATAAATTGTTAGTGTTTTGTGTTTTGTGATTTATTAGTAATGTAAATTCTTTTTTTAAAAATG
TTATAGTTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTT
Found at i:23921209 original size:100 final size:96
Alignment explanation
Indices: 23921029--23921567 Score: 469
Period size: 100 Copynumber: 5.3 Consensus size: 96
23921019 TTAGTTTAGG
* * * *
23921029 GTTTTGTGATTTTTTAGTAATTTAATTTTTTTTAAAAATAAT-TGTATAATTATGTTGTTAGTAA
1 GTTTTGTGATTTTTTAGTAATGTAA---TTTTTAAAAAAAATGT-TATAGTTATTTTGTTAGTAA
*
23921093 TTTATGGTTAGGTTATATAAATTGTTAGTGTTTTGT
62 TTTATGATTA-GTTATATAAATTGTTAGTGTTTTGT
* ***
23921129 GTTTTGTGATTTATTAGTAATGTAAATTCTTTTTTTAAAAATGTTATAGTTATTTTGTTAGTAAT
1 GTTTTGTGATTTTTTAGTAATGT-AA-T-TTTTAAAAAAAATGTTATAGTTATTTTGTTAGTAAT
* *
23921194 TTATAATTAGTT-TATAAATTGTTAGTGTTTAGTTT
63 TTATGATTAGTTATATAAATTGTTAGTGTTT--TGT
* * *
23921229 AGGATTTTGTGAATTTTTAGTAATGTAA--TTTAAAAGAAAA-ATTATAGTTGTTTTGTTAGTAA
1 --G-TTTTGTGATTTTTTAGTAATGTAATTTTTAAAA-AAAATGTTATAGTTATTTTGTTAGTAA
* **
23921291 GTTATGATTAGGTTATATAAATTGAAAAGTGTTTTGT
62 TTTATGATTA-GTTATATAAATTG-TTAGTGTTTTGT
* * * *
23921328 GTTTTGTGATTTATTAGTAATGTAATTCTTTTAAAAAAAATGTTATAATTATTTTTTTACTAATT
1 GTTTTGTGATTTTTTAGTAATGTAA-T-TTTTAAAAAAAATGTTATAGTTATTTTGTTAGTAATT
* *
23921393 TATGATTAGTT-TATAAATTATTAGTGTTTAGTTTAGG
64 TATGATTAGTTATATAAATTGTTAGTG--T--TTT-GT
* *
23921430 GTTTTGTGATTTTTTAGTAATGTAATTTTAAAAAAATATATAACTTTATAGTTATTTTGTTAGTA
1 GTTTTGTGATTTTTTAGTAATGTAATTTTTAAAAAA-A-AT---GTTATAGTTATTTTGTTAGTA
*
23921495 ATTTATGATTAAGTTATATAAACTGTTAGTGTTTAGTTTAGT
61 ATTTATGATT-AGTTATATAAATTGTTAGTG--T--TTT-GT
* *
23921537 GTTTTGTAATTTTTTATTAATGTAAATTTTT
1 GTTTTGTGATTTTTTAGTAATGT-AATTTTT
23921568 TATAATATAA
Statistics
Matches: 362, Mismatches: 47, Indels: 52
0.79 0.10 0.11
Matches are distributed among these distances:
96 22 0.06
97 5 0.01
98 58 0.16
99 22 0.06
100 109 0.30
101 15 0.04
102 30 0.08
103 20 0.06
105 27 0.07
106 4 0.01
107 44 0.12
108 6 0.02
ACGTcount: A:0.31, C:0.01, G:0.15, T:0.53
Consensus pattern (96 bp):
GTTTTGTGATTTTTTAGTAATGTAATTTTTAAAAAAAATGTTATAGTTATTTTGTTAGTAATTTA
TGATTAGTTATATAAATTGTTAGTGTTTTGT
Found at i:23921369 original size:198 final size:204
Alignment explanation
Indices: 23921019--23921569 Score: 663
Period size: 198 Copynumber: 2.7 Consensus size: 204
23921009 TAATTTATGA
* * * **** * *
23921019 TTAGTTTAGGGTTTTGTGATTTTTTAGTAATTTAATTTTTTTTAAA-A-ATAATTGTATAATTAT
1 TTAGTTTAGGATTTTGTGAATTTTTAGTAATGTAATTTTAAAAAAATATATAACT-TATAGTTAT
* * **
23921082 GTTGTTAGTAATTTATGGTTAGGTTATATAAATTGTTAGTGTTTTGTGTTTTGTGATTTATTAGT
65 TTTGTTAGTAATTTATGATTAGGTTATATAAATTGAAAGTGTTTTGTGTTTTGTGATTTATTAGT
*** * *
23921147 AATGTAAATTCTTTTTTTAAAAATGTTATAGTTATTTTGTTAGTAATTTATAATTAGTTTATAAA
130 AATGTAAATTCTTTTAAAAAAAATGTTATAATTATTTTGTTACTAATTTATAATTAGTTTATAAA
*
23921212 TTGTTAGTGT
195 TTATTAGTGT
* *
23921222 TTAGTTTAGGATTTTGTGAATTTTTAGTAATGTAA-TTT-AAAAGA-A-A-AA-TTATAGTTGTT
1 TTAGTTTAGGATTTTGTGAATTTTTAGTAATGTAATTTTAAAAAAATATATAACTTATAGTTATT
*
23921281 TTGTTAGTAAGTTATGATTAGGTTATATAAATTGAAAAGTGTTTTGTGTTTTGTGATTTATTAGT
66 TTGTTAGTAATTTATGATTAGGTTATATAAATTG-AAAGTGTTTTGTGTTTTGTGATTTATTAGT
* *
23921346 AATGT-AATTCTTTTAAAAAAAATGTTATAATTATTTTTTTACTAATTTATGATTAGTTTATAAA
130 AATGTAAATTCTTTTAAAAAAAATGTTATAATTATTTTGTTACTAATTTATAATTAGTTTATAAA
23921410 TTATTAGTGT
195 TTATTAGTGT
* *
23921420 TTAGTTTAGGGTTTTGTGATTTTTTAGTAATGTAATTTTAAAAAAATATATAACTTTATAGTTAT
1 TTAGTTTAGGATTTTGTGAATTTTTAGTAATGTAATTTTAAAAAAATATATAAC-TTATAGTTAT
* * ** * *
23921485 TTTGTTAGTAATTTATGATTAAGTTATATAAACTGTTAGTGTTTAGTTTAGTGTTTTGTAATTTT
65 TTTGTTAGTAATTTATGATTAGGTTATATAAATTGAAAGTG--T--TTT-GTGTTTTGTGATTTA
*
23921550 TTATTAATGTAAATT-TTTTA
125 TTAGTAATGTAAATTCTTTTA
23921570 TAATATAATT
Statistics
Matches: 300, Mismatches: 34, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
198 133 0.44
199 37 0.12
200 7 0.02
201 5 0.02
202 4 0.01
203 34 0.11
204 4 0.01
205 41 0.14
206 1 0.00
208 3 0.01
209 27 0.09
210 4 0.01
ACGTcount: A:0.31, C:0.01, G:0.15, T:0.53
Consensus pattern (204 bp):
TTAGTTTAGGATTTTGTGAATTTTTAGTAATGTAATTTTAAAAAAATATATAACTTATAGTTATT
TTGTTAGTAATTTATGATTAGGTTATATAAATTGAAAGTGTTTTGTGTTTTGTGATTTATTAGTA
ATGTAAATTCTTTTAAAAAAAATGTTATAATTATTTTGTTACTAATTTATAATTAGTTTATAAAT
TATTAGTGT
Found at i:23926722 original size:41 final size:41
Alignment explanation
Indices: 23926656--23926787 Score: 219
Period size: 41 Copynumber: 3.2 Consensus size: 41
23926646 TTTTTCAAGA
23926656 GCGTTTTTCAAGAAGCGCCGCTAATGCGCAGACCTTTAGCG
1 GCGTTTTTCAAGAAGCGCCGCTAATGCGCAGACCTTTAGCG
* * *
23926697 GCGCTTTTAAAGAAGCGCCGTTAATGCGCAGACCTTTAGCG
1 GCGTTTTTCAAGAAGCGCCGCTAATGCGCAGACCTTTAGCG
*
23926738 GCGTTTTTTCAAGACGCGCCGCTAATGCGCAGACCTTTAGCG
1 GCG-TTTTTCAAGAAGCGCCGCTAATGCGCAGACCTTTAGCG
23926780 GCGTTTTT
1 GCGTTTTT
23926788 GGTGAAGCGC
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
41 46 0.55
42 37 0.45
ACGTcount: A:0.20, C:0.26, G:0.27, T:0.27
Consensus pattern (41 bp):
GCGTTTTTCAAGAAGCGCCGCTAATGCGCAGACCTTTAGCG
Found at i:23926770 original size:42 final size:42
Alignment explanation
Indices: 23926659--23926787 Score: 215
Period size: 42 Copynumber: 3.1 Consensus size: 42
23926649 TTCAAGAGCG
23926659 TTTTTCAAGAAGCGCCGCTAATGCGCAGACCTTTAGCGGCG-
1 TTTTTCAAGAAGCGCCGCTAATGCGCAGACCTTTAGCGGCGT
* * *
23926700 CTTTTAAAGAAGCGCCGTTAATGCGCAGACCTTTAGCGGCGT
1 TTTTTCAAGAAGCGCCGCTAATGCGCAGACCTTTAGCGGCGT
*
23926742 TTTTTCAAGACGCGCCGCTAATGCGCAGACCTTTAGCGGCGT
1 TTTTTCAAGAAGCGCCGCTAATGCGCAGACCTTTAGCGGCGT
23926784 TTTT
1 TTTT
23926788 GGTGAAGCGC
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 38 0.47
42 42 0.52
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.28
Consensus pattern (42 bp):
TTTTTCAAGAAGCGCCGCTAATGCGCAGACCTTTAGCGGCGT
Found at i:23927435 original size:14 final size:15
Alignment explanation
Indices: 23927409--23927438 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
23927399 TGTTAAATAA
23927409 GGTTCAGGGGTTAGG
1 GGTTCAGGGGTTAGG
23927424 GGTTCA-GGGTTAGG
1 GGTTCAGGGGTTAGG
23927438 G
1 G
23927439 ACTGGGGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.13, C:0.07, G:0.53, T:0.27
Consensus pattern (15 bp):
GGTTCAGGGGTTAGG
Found at i:23928453 original size:12 final size:12
Alignment explanation
Indices: 23928436--23928468 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
23928426 CGTGATTTAA
23928436 AATTTTAAAATG
1 AATTTTAAAATG
23928448 AATTTTAAAA-G
1 AATTTTAAAATG
23928459 -ATTTTAAAAT
1 AATTTTAAAAT
23928469 TTTTAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.45
11 1 0.05
12 10 0.50
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (12 bp):
AATTTTAAAATG
Found at i:23928462 original size:29 final size:29
Alignment explanation
Indices: 23928431--23928501 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
23928421 TTTTACGTGA
*
23928431 TTTAAAATTTTAAAATGAATTT-TAAAAGAT
1 TTTAAAATTTTAAAA--AATTTAAAAAAGAT
*
23928461 TTTAAAATTTTTAAAAATTTAAAAAAGAT
1 TTTAAAATTTTAAAAAATTTAAAAAAGAT
*
23928490 TTTAAACTTTTA
1 TTTAAAATTTTA
23928502 TTTTTATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 5 0.14
29 17 0.47
30 14 0.39
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (29 bp):
TTTAAAATTTTAAAAAATTTAAAAAAGAT
Found at i:23928464 original size:10 final size:10
Alignment explanation
Indices: 23928437--23928495 Score: 59
Period size: 10 Copynumber: 5.8 Consensus size: 10
23928427 GTGATTTAAA
23928437 ATTTTAAAATG
1 ATTTTAAAA-G
23928448 AATTTTAAAAG
1 -ATTTTAAAAG
23928459 ATTTTAAAA-
1 ATTTTAAAAG
*
23928468 TTTTTAAAA-
1 ATTTTAAAAG
*
23928477 ATTTAAAAAAG
1 ATTT-TAAAAG
23928488 ATTTTAAA
1 ATTTTAAA
23928496 CTTTTATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 11 0.27
10 16 0.39
11 5 0.12
12 9 0.22
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (10 bp):
ATTTTAAAAG
Found at i:23930107 original size:57 final size:58
Alignment explanation
Indices: 23930019--23930135 Score: 227
Period size: 57 Copynumber: 2.0 Consensus size: 58
23930009 TTTTGAATGT
23930019 CTCATAGCTTTTTCTCCTCATTAGTTGTGC-TTTTTTTTATAACTACTATAATTGGCA
1 CTCATAGCTTTTTCTCCTCATTAGTTGTGCTTTTTTTTTATAACTACTATAATTGGCA
23930076 CTCATAGCTTTTTCTCCTCATTAGTTGTGCTTTTTTTTTATAACTACTATAATTGGCA
1 CTCATAGCTTTTTCTCCTCATTAGTTGTGCTTTTTTTTTATAACTACTATAATTGGCA
23930134 CT
1 CT
23930136 TTTTAGATTA
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 30 0.51
58 29 0.49
ACGTcount: A:0.21, C:0.20, G:0.10, T:0.50
Consensus pattern (58 bp):
CTCATAGCTTTTTCTCCTCATTAGTTGTGCTTTTTTTTTATAACTACTATAATTGGCA
Done.