Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 52 of 160
Found at i:11152722 original size:19 final size:20
Alignment explanation
Indices: 11152684--11152724 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
11152674 AGTATAAAAA
*
11152684 ATTTATTTATTATCATTATT
1 ATTTATTTATTATCAGTATT
*
11152704 ATTTA-TTATTATCGGTATT
1 ATTTATTTATTATCAGTATT
11152723 AT
1 AT
11152725 CATAGTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (20 bp):
ATTTATTTATTATCAGTATT
Found at i:11152855 original size:3 final size:3
Alignment explanation
Indices: 11152847--11152909 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
11152837 AATTCAAAAT
11152847 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
11152895 TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC
11152910 GGGTTCACAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TAC
Found at i:11153271 original size:84 final size:82
Alignment explanation
Indices: 11153130--11153291 Score: 272
Period size: 84 Copynumber: 2.0 Consensus size: 82
11153120 GAACCAGTTT
*
11153130 TATCTTTTATGGAGCTTTAAAGTCAAGTTGTATAGATTCTCAGCCCGTGATGATGAAGTAGCAGT
1 TATCTTTTACGGAGCTTTAAAGTCAAGTTGTATAGATTCTCAGCCCGTGATGATGAAGTAGCAG-
11153195 TTACATATATATATATATA
65 TT-CATATATATATATATA
*
11153214 TATCTTTTACGGAGTTTTAAAGTCAAGTTGTATAGATTCTCCA-CCCGTGATGATGAAGTAGCAG
1 TATCTTTTACGGAGCTTTAAAGTCAAGTTGTATAGATTCT-CAGCCCGTGATGATGAAGTAGCAG
11153278 TTCATATATATATA
65 TTCATATATATATA
11153292 AGCAGTATTA
Statistics
Matches: 75, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
82 12 0.16
83 2 0.03
84 59 0.79
85 2 0.03
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (82 bp):
TATCTTTTACGGAGCTTTAAAGTCAAGTTGTATAGATTCTCAGCCCGTGATGATGAAGTAGCAGT
TCATATATATATATATA
Found at i:11153441 original size:4 final size:4
Alignment explanation
Indices: 11153423--11153494 Score: 81
Period size: 4 Copynumber: 18.0 Consensus size: 4
11153413 AATAGCAGTT
* * * * * *
11153423 TATA TACA TACA TATA TATA TATA TATA TAAA TAAA TAAA TAAA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
*
11153471 TATA TATA GATA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA
11153495 CTGCATGCGT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 62 1.00
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (4 bp):
TATA
Found at i:11155021 original size:124 final size:124
Alignment explanation
Indices: 11154754--11155021 Score: 358
Period size: 124 Copynumber: 2.2 Consensus size: 124
11154744 TCTCCTAGCT
* * *
11154754 AAAGGGATCAATCTATTTTTCTTCCAATAACTTATCTCATGCAAGTTTTTCAAAAATCAATTAAT
1 AAAGGGATCGATCTATTTTTCTTCCAATAACCTATCTCATGCAAGTTTTTCAAAAATCAATCAAT
* * * *
11154819 CCCCTCCCTGTAGAGATCAATTAGCTAGGTTTTCTAAGTGAACCGATTGATCCCCCTTC
66 CACCTCCCTATAGAGATCAATTAGCTAAGTTTTCTAAGTGAACCGATCGATCCCCCTTC
* * * * *
11154878 AAAAGGATTGATCCATTTTTCTTCCACTAGCCTATCTCATGCAAGTTTTTCAAAAATCAATCAAT
1 AAAGGGATCGATCTATTTTTCTTCCAATAACCTATCTCATGCAAGTTTTTCAAAAATCAATCAAT
* * * * *
11154943 CACCTTCCTATA-AGGATCGATTGGCTAAGTTTTCTAAGTGAACTGATCGATCCCTCTTC
66 CACCTCCCTATAGA-GATCAATTAGCTAAGTTTTCTAAGTGAACCGATCGATCCCCCTTC
*
11155002 AAAGGGATCGATCTGTTTTT
1 AAAGGGATCGATCTATTTTT
11155022 TTATCCAGAA
Statistics
Matches: 122, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
123 1 0.01
124 121 0.99
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.35
Consensus pattern (124 bp):
AAAGGGATCGATCTATTTTTCTTCCAATAACCTATCTCATGCAAGTTTTTCAAAAATCAATCAAT
CACCTCCCTATAGAGATCAATTAGCTAAGTTTTCTAAGTGAACCGATCGATCCCCCTTC
Found at i:11155082 original size:20 final size:20
Alignment explanation
Indices: 11155057--11155107 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
11155047 AAACTTGTAG
11155057 AAGGGATCAATTCCCTACAC
1 AAGGGATCAATTCCCTACAC
11155077 AAGGGATCAATTCCCTACAC
1 AAGGGATCAATTCCCTACAC
11155097 AAGGGATCAAT
1 AAGGGATCAAT
11155108 CACCTGAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAGGGATCAATTCCCTACAC
Found at i:11155846 original size:15 final size:16
Alignment explanation
Indices: 11155806--11155847 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
11155796 TTGTTGTGTT
*
11155806 TATT-TGCTTAGAAAA
1 TATTGTGCTTATAAAA
11155821 TATTG-GCTTATAAAA
1 TATTGTGCTTATAAAA
11155836 T-TTGTGCTTATA
1 TATTGTGCTTATA
11155848 GGATATTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 3 0.12
15 21 0.88
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.45
Consensus pattern (16 bp):
TATTGTGCTTATAAAA
Found at i:11159175 original size:47 final size:47
Alignment explanation
Indices: 11159094--11159205 Score: 116
Period size: 47 Copynumber: 2.4 Consensus size: 47
11159084 GCCTATTTTG
* * * ***
11159094 ACAAATTGCCTTCATAAAGGCCTTGTTTGGTAAAAAAGCTCATCATA
1 ACAAATTACCTTCATAAAGGACTAGTTCAATAAAAAAGCTCATCATA
* * ** *
11159141 ACAAATTACCTTCATAAAGGACTAGTTCAATAAAAGAGCTTATTTTC
1 ACAAATTACCTTCATAAAGGACTAGTTCAATAAAAAAGCTCATCATA
*
11159188 ATAAATTACCTTCATAAA
1 ACAAATTACCTTCATAAA
11159206 AACCTAATTT
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (47 bp):
ACAAATTACCTTCATAAAGGACTAGTTCAATAAAAAAGCTCATCATA
Found at i:11159230 original size:94 final size:94
Alignment explanation
Indices: 11159079--11159251 Score: 204
Period size: 94 Copynumber: 1.8 Consensus size: 94
11159069 TAACTTGTCG
* * ** ** *
11159079 AAAGAGCCTATTTTGACAAATTGCCTTCATAAAGGCCTTGTTTGGTAAAAAAGCTCATCATAACA
1 AAAGAGCCTATTTTCACAAATTACCTTCATAAAAACCTAATTTAGTAAAAAAGCTCATCATAACA
11159144 AATTACCTTCATAAAGGACTAGTTCAATA
66 AATTACCTTCATAAAGGACTAGTTCAATA
* * * * * *
11159173 AAAGAGCTTATTTTCATAAATTACCTTCATAAAAACCTAATTTAGTGAAAGAA-CTCATCTTGAT
1 AAAGAGCCTATTTTCACAAATTACCTTCATAAAAACCTAATTTAGT-AAAAAAGCTCATCATAAC
*
11159237 AAATTACTTTCATAA
65 AAATTACCTTCATAA
11159252 GGGCCCAACT
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
94 59 0.92
95 5 0.08
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (94 bp):
AAAGAGCCTATTTTCACAAATTACCTTCATAAAAACCTAATTTAGTAAAAAAGCTCATCATAACA
AATTACCTTCATAAAGGACTAGTTCAATA
Found at i:11159288 original size:47 final size:47
Alignment explanation
Indices: 11159237--11159352 Score: 146
Period size: 47 Copynumber: 2.5 Consensus size: 47
11159227 TCATCTTGAT
* *
11159237 AAATTACTTTCATAAGGGCCCAACTC-GACAAAATAGCTTAGCTCA-AC
1 AAATTGCTTTCATAAAGGCCCAACTCAG-CAAAATAGCTTAGCT-AGAC
* * * *
11159284 AAATTGCTTTCATAAATGCCTAGCTCAGCAAAATAGTTTAGCTAGAC
1 AAATTGCTTTCATAAAGGCCCAACTCAGCAAAATAGCTTAGCTAGAC
11159331 AAATTGCTTTCATAAAGGCCCA
1 AAATTGCTTTCATAAAGGCCCA
11159353 GATCTGTAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 57 0.97
48 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (47 bp):
AAATTGCTTTCATAAAGGCCCAACTCAGCAAAATAGCTTAGCTAGAC
Found at i:11159376 original size:47 final size:47
Alignment explanation
Indices: 11159282--11159395 Score: 129
Period size: 47 Copynumber: 2.4 Consensus size: 47
11159272 GCTTAGCTCA
* * * * * *
11159282 ACAAATTGCTTTCATAAATGCCTAGCTCAGCAAAATAGTTTAGCTAG
1 ACAAATTGCTTTCATAAAGGCCCAGATCAGCAAAAGAGTTCAACTAG
* * *
11159329 ACAAATTGCTTTCATAAAGGCCCAGATCTGTAAAGGAGTTCAACTAG
1 ACAAATTGCTTTCATAAAGGCCCAGATCAGCAAAAGAGTTCAACTAG
* *
11159376 ACAAATTACCTTCATAAAGG
1 ACAAATTGCTTTCATAAAGG
11159396 TCTAGCTTAG
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (47 bp):
ACAAATTGCTTTCATAAAGGCCCAGATCAGCAAAAGAGTTCAACTAG
Found at i:11159693 original size:30 final size:30
Alignment explanation
Indices: 11159659--11159715 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11159649 TTAACTCAGC
* *
11159659 CAAATTG-CTTTCATGAAGGCTCAACTTGAT
1 CAAATTGCCTTT-ATAAAGGATCAACTTGAT
11159689 CAAATTGCCTTTATAAAGGATCAACTT
1 CAAATTGCCTTTATAAAGGATCAACTT
11159716 AGGCAAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (30 bp):
CAAATTGCCTTTATAAAGGATCAACTTGAT
Found at i:11159873 original size:29 final size:29
Alignment explanation
Indices: 11159799--11159873 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 29
11159789 TCATAAATGC
*
11159799 TTAGCTCGACCAAATTTTCTTTATCAAGGA
1 TTAGCTCAACCAAA-TTTCTTTATCAAGGA
* * * * *
11159829 CTAGCTCACCCGAATTTCTTTCTTAAGGA
1 TTAGCTCAACCAAATTTCTTTATCAAGGA
*
11159858 TTAGCTCAATCAAATT
1 TTAGCTCAACCAAATT
11159874 ACCTCTATAA
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
29 25 0.71
30 10 0.29
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (29 bp):
TTAGCTCAACCAAATTTCTTTATCAAGGA
Found at i:11160433 original size:30 final size:29
Alignment explanation
Indices: 11160399--11160457 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
11160389 AATGTATAGC
* * *
11160399 TTGGCCAAATTTTCTTTATTAAGGATTAGT
1 TTGGCCAAAATTTCTTCA-TAAAGATTAGT
11160429 TTGGCCAAAATTTCTTCATAAAGATTAGT
1 TTGGCCAAAATTTCTTCATAAAGATTAGT
11160458 ACGGCCATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (29 bp):
TTGGCCAAAATTTCTTCATAAAGATTAGT
Found at i:11160464 original size:29 final size:30
Alignment explanation
Indices: 11160401--11160464 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
11160391 TGTATAGCTT
* * * **
11160401 GGCCAAATTTTCTTTATTAAGGATTAGTTT
1 GGCCAAAATTTCTTCATTAAAGATTAGTAC
11160431 GGCCAAAATTTCTTCA-TAAAGATTAGTAC
1 GGCCAAAATTTCTTCATTAAAGATTAGTAC
11160460 GGCCA
1 GGCCA
11160465 TATTGCCCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 15 0.52
30 14 0.48
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (30 bp):
GGCCAAAATTTCTTCATTAAAGATTAGTAC
Found at i:11160575 original size:29 final size:28
Alignment explanation
Indices: 11160501--11160575 Score: 71
Period size: 30 Copynumber: 2.6 Consensus size: 28
11160491 ACCAAATTTC
* *
11160501 TTTT-ATAAATGACCAACTTAGCCAAAA
1 TTTTCATAAAAGATCAACTTAGCCAAAA
** *
11160528 TGCTTTCATAACGGCTCAACTTAGCCAAACA
1 T--TTTCATAAAAGATCAACTTAGCCAAA-A
11160559 TTTTCATAAAAGATCAA
1 TTTTCATAAAAGATCAA
11160576 TTTGACCAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
27 1 0.03
29 16 0.43
30 18 0.49
31 2 0.05
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.29
Consensus pattern (28 bp):
TTTTCATAAAAGATCAACTTAGCCAAAA
Found at i:11160680 original size:30 final size:30
Alignment explanation
Indices: 11160619--11160680 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
11160609 ATTCTTTCAT
* * * **
11160619 AAAGATTAACTTGGCTAAATTTCCTTTATA
1 AAAGATCAACTTGACAAAATTTCCTACATA
11160649 AAAGATCAACTTGACAAAATTTCCTACATA
1 AAAGATCAACTTGACAAAATTTCCTACATA
11160679 AA
1 AA
11160681 GGATTAGCTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (30 bp):
AAAGATCAACTTGACAAAATTTCCTACATA
Found at i:11161058 original size:30 final size:30
Alignment explanation
Indices: 11160635--11161073 Score: 124
Period size: 30 Copynumber: 14.7 Consensus size: 30
11160625 TAACTTGGCT
* * * *
11160635 AAATTTCCTTTATAAAAGATCAACTTGACA
1 AAATTTCCTTCATAAAGGATCAACTCGACC
* * *
11160665 AAATTTCCTACATAAAGGATTAGCTCGACC
1 AAATTTCCTTCATAAAGGATCAACTCGACC
* * * * *
11160695 AAATTTTCTTCACAAATGATCGACT-TAGCC
1 AAATTTCCTTCATAAAGGATCAACTCGA-CC
* * * * *
11160725 AAAATACCTTCA-AAATGGCTCAGCTC-AGC
1 AAATTTCCTTCATAAA-GGATCAACTCGACC
* *** * *
11160754 -AATTGT-CTTTATAAAACTTTAGCTCGACC
1 AAATT-TCCTTCATAAAGGATCAACTCGACC
* * * ** **
11160783 AAATTTCTTTCATAAATGTTCAGTTCGGTC
1 AAATTTCCTTCATAAAGGATCAACTCGACC
** * * * * *
11160813 AAATTTTTTTCATAAAAGTTCAGCTCAATC
1 AAATTTCCTTCATAAAGGATCAACTCGACC
** *
11160843 AAATTTTTTTCATAAAGGATCAACTCTACC
1 AAATTTCCTTCATAAAGGATCAACTCGACC
** * * *
11160873 AAATCACCTTCGT-AAGGCTCAAC-CTGGCC
1 AAATTTCCTTCATAAAGGATCAACTC-GACC
* * * ** * *
11160902 AAGTTGCTTTCATAAACAATTAGCTCTG-CC
1 AAATTTCCTTCATAAAGGATCAACTC-GACC
** * ** *
11160932 AAATTTCCTTCATAAAATATTAGTTCAACC
1 AAATTTCCTTCATAAAGGATCAACTCGACC
* * *
11160962 AAATTACCTTTATAAA-GACTCAACTTGACC
1 AAATTTCCTTCATAAAGGA-TCAACTCGACC
** * *
11160992 AAATGCCCTTTATAAAAGATCAACTCGACC
1 AAATTTCCTTCATAAAGGATCAACTCGACC
*
11161022 AAATTTCCTTCATAAAGGATCAACTTTG-CC
1 AAATTTCCTTCATAAAGGATCAAC-TCGACC
* * *
11161052 ATATTTCTTTCATAACGGATCA
1 AAATTTCCTTCATAAAGGATCA
11161074 GCTTGGTTGA
Statistics
Matches: 301, Mismatches: 93, Indels: 30
0.71 0.22 0.07
Matches are distributed among these distances:
28 14 0.05
29 31 0.10
30 249 0.83
31 7 0.02
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.33
Consensus pattern (30 bp):
AAATTTCCTTCATAAAGGATCAACTCGACC
Found at i:11161665 original size:31 final size:31
Alignment explanation
Indices: 11161630--11161834 Score: 101
Period size: 31 Copynumber: 6.6 Consensus size: 31
11161620 CACCTTAGTC
*
11161630 TAAATCACCTTGGTATAAATTCAACTCAATG
1 TAAATCACCTTGGTATAAATTCAACTAAATG
* * * *
11161661 TAAATCA-CTTGGGTACACATTTACCTAAATG
1 TAAATCACCTT-GGTATAAATTCAACTAAATG
* * * * * * ** *
11161692 AAAATCACTTTTGTACAAAATCACCTTGATA
1 TAAATCACCTTGGTATAAATTCAACTAAATG
* * *
11161723 TAAATCACCTT--TATACAAATCCACATTAATG
1 TAAATCACCTTGGTATA-AATTCAAC-TAAATG
* * * * * *
11161754 TAAATCACTTTGATATAGATTCAACTCAGTA
1 TAAATCACCTTGGTATAAATTCAACTAAATG
* * ** *
11161785 TAAAACACCTTTGTATTGATTCATCTAAATG
1 TAAATCACCTTGGTATAAATTCAACTAAATG
*
11161816 AAAATCACCTTGGTATAAA
1 TAAATCACCTTGGTATAAA
11161835 GCACCATAAA
Statistics
Matches: 126, Mismatches: 42, Indels: 12
0.70 0.23 0.07
Matches are distributed among these distances:
29 3 0.02
30 9 0.07
31 103 0.82
32 7 0.06
33 4 0.03
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (31 bp):
TAAATCACCTTGGTATAAATTCAACTAAATG
Found at i:11161729 original size:15 final size:15
Alignment explanation
Indices: 11161709--11161770 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
11161699 CTTTTGTACA
11161709 AAATCACCTTGATAT
1 AAATCACCTTGATAT
* *
11161724 AAATCACCTTTATAC
1 AAATCACCTTGATAT
* * *
11161739 AAATCCACATTAATGT
1 AAAT-CACCTTGATAT
*
11161755 AAATCACTTTGATAT
1 AAATCACCTTGATAT
11161770 A
1 A
11161771 GATTCAACTC
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
15 26 0.70
16 11 0.30
ACGTcount: A:0.42, C:0.19, G:0.05, T:0.34
Consensus pattern (15 bp):
AAATCACCTTGATAT
Found at i:11164108 original size:161 final size:160
Alignment explanation
Indices: 11163758--11165116 Score: 878
Period size: 162 Copynumber: 8.5 Consensus size: 160
11163748 ACTGGACACA
* * * * * *
11163758 TTTAATATAATGTAATAGAAGCTATCTAAATTGTTAAAACAGAACA-ATAATTGTAAATT-TGCA
1 TTTAATATCATGT-ATTGAAGCTATCTAAACTGTTAAAACATAA-ATATAACTGCAAATTAT--A
* * * * * * *
11163821 TTTTTGCCTTTTAA-CGCTATAA-AAAGTCC-TAAACAAACATAAATCGTAA-ACTATTCATACA
62 TTTTTGCCCTTTAATGGC-ATAACAAAGTCCTTAAA-AGATATAAATGGTAACA-TTTTCACACA
* * * *
11163882 TATCAAATCGTGGAAACCAAATTCAATCA-TTCAGACAAG
124 TATCAACT-AT-GAAACCAAGTTCAATCATTTGA-ACAAG
* * * * *
11163921 TTTAATATCATGTATTAAAGCTATCTAAATTATTAAAGCATAAATATAACTTCATAATTATATTT
1 TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAACATAAATATAACTGCA-AATTATATTT
*
11163986 TTGCCCTTTAATGGCATAACAAAGT-CTTAAAAGATATAAACGGTAACATTTTCACACATATCAA
65 TTGCCCTTTAATGGCATAACAAAGTCCTTAAAAGATATAAATGGTAACATTTTCACACATATCAA
* * *
11164050 CTATGACAACCAAGTTTAATTATTTGGACAAG
130 CTATGA-AACCAAGTTCAATCATTTGAACAAG
* * *
11164082 TTTAATATCATGTATTGAAGCTATCTAAATTGTTAAAACATAAATATAAATGCAAAATTATTTTT
1 TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAACATAAATATAACTGC-AAATTATATTT
* * * * * * *
11164147 TTACCCGTTAACGGCATAACAAAGTCCTAAAAAGACATAAATGGTAACATTTTCACATATATTAA
65 TTGCCCTTTAATGGCATAACAAAGTCCTTAAAAGATATAAATGGTAACATTTTCACACATATCAA
** * * * *
11164212 CCGTGAAAATCAAGTTCAGTC-TTTCAGATAAG
130 CTATG-AAACCAAGTTCAATCATTTGA-ACAAG
*
11164244 TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAACAT-AATAATAAAC-ACAAATT-TGCA
1 TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAACATAAAT-AT-AACTGCAAATTAT--A
* * * * * * * ** ** *
11164306 TATTGGCCTTTTAAAGGCAAAAAAAAGTCC-TAAACAAATATAAACAGTAATTTTTTCACATATA
62 TTTTTGCCCTTTAATGGCATAACAAAGTCCTTAAA-AGATATAAATGGTAACATTTTCACACATA
* *
11164370 TCAATCT-TGGAAACCTAGTTCAATCATTTGAAAAAG
126 TCAA-CTAT-GAAACCAAGTTCAATCATTTGAACAAG
* * * * * *
11164406 TTTAATATAATGTATTTAAGCTATCTAAACTATTAAAACATAAAAATAACTGCCAAATGACATTT
1 TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAACATAAATATAACTG-CAAATTATATTT
* * * * * *
11164471 TTACCCTTTAATGGCATAATAAAGTCCTAAAAAGACATAAATGGTAACTTTTTCGCACATATCAA
65 TTGCCCTTTAATGGCATAACAAAGTCCTTAAAAGATATAAATGGTAACATTTTCACACATATCAA
* * * ***
11164536 -TCATAGAAATCAAGTTTAATTATCCAAACAAG
130 CT-AT-GAAACCAAGTTCAATCATTTGAACAAG
* * *
11164568 TTTAATATTATGTATTGAAACTATCTAAACTGTT-AAA-ATAGAATAATAAATGCAAATT-TGCA
1 TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAACATA-AAT-ATAACTGCAAATTAT--A
* * * * * *
11164630 -TTTTGACCTTTTAATAGTACAA-AAAATCC-TAAATAGATATAAA-CGTCAACATTTTCACACA
62 TTTTTG-CCCTTTAATGGCATAACAAAGTCCTTAAA-AGATATAAATGGT-AACATTTTCACACA
* * * * *
11164691 TATCAACCATACAAACTAAGTTCAGTCA-TTCAAGCAAG
124 TATCAACTAT-GAAACCAAGTTCAATCATTTGAA-CAAG
* * * **
11164729 TTTAATATCATTTATTGAAGCTATCTCAACTGTT-AAA-ATGGAATAATAAAAGCAAATT-TCCA
1 TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAACAT-AAAT-ATAACTGCAAATTAT--A
* * * * ** **
11164791 -TTTTGACCTTTTAATAGCATAA-AAAGTGC-TAAATAGACATAAATAATAATTTTTTCACACAT
62 TTTTTG-CCCTTTAATGGCATAACAAAGTCCTTAAA-AGATATAAATGGTAACATTTTCACACAT
* * * *
11164853 A--AACTGTCGAAACCAAGTTTAATCATTCGAATAAG
125 ATCAACTAT-GAAACCAAGTTCAATCATTTGAACAAG
* * *
11164888 -TT--TA--A--TA-T--AGCTATCTAAACTGTTAAAATATAAATATAACTACAAAATTAAATTT
1 TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAACATAAATATAACTGC-AAATTATATTT
* * * *
11164943 TTGCCTTTTAACGGCACAACAAAGTCCTAAAAAGATATAAATGGTAAC-TTTTCACACATATCAA
65 TTGCCCTTTAATGGCATAACAAAGTCCTTAAAAGATATAAATGGTAACATTTTCACACATATCAA
* * *
11165007 CCATGAAAACCACGTTCAATCA-TTCAAGCAAG
130 CTATG-AAACCAAGTTCAATCATTTGAA-CAAG
* * * * * * * * *
11165039 TTTAATATAATATATTGAATCTATCCAAACTATTAAAACAAAAAAATAACTGCATATTTACATTT
1 TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAACATAAATATAACTGCA-AATTATATTT
*
11165104 TTTCCCTTTAATG
65 TTGCCCTTTAATG
11165117 AGACAAAAAG
Statistics
Matches: 941, Mismatches: 193, Indels: 126
0.75 0.15 0.10
Matches are distributed among these distances:
149 46 0.05
150 38 0.04
151 27 0.03
152 4 0.00
154 3 0.00
156 3 0.00
158 4 0.00
159 21 0.02
160 18 0.02
161 331 0.35
162 398 0.42
163 47 0.05
164 1 0.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (160 bp):
TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAACATAAATATAACTGCAAATTATATTTT
TGCCCTTTAATGGCATAACAAAGTCCTTAAAAGATATAAATGGTAACATTTTCACACATATCAAC
TATGAAACCAAGTTCAATCATTTGAACAAG
Found at i:11164409 original size:324 final size:318
Alignment explanation
Indices: 11163758--11165114 Score: 1059
Period size: 324 Copynumber: 4.2 Consensus size: 318
11163748 ACTGGACACA
* * * * * * *
11163758 TTTAATATAATGTAATAGAAGCTATCTAAATTGTTAAAACAGAACAATAATTGTAAATTTGCATT
1 TTTAATATAATGT-ATTGAAGCTATCTAAACTGTTAAAACATAA-AATAAATGCAAAATTACATT
* * * * *
11163823 TTTGCCTTTTAAC-GCTATAAAAAGTCCTAAACAA-ACATAAATCGTAA-ACTATTCATACATAT
64 TTTACCCTTTAACGGC-ATAAAAAGTCCTAAA-AAGACATAAATGGTAACA-TTTTCACACATAT
* * * * *
11163885 CAAATCGTGGAAACCAAATTCAATCATTCAGACAAGTTTAATATCATGTATTAAAGCTATCTAAA
126 -AAATCGTGAAAATCAAGTTCAATCTTTCAGACAAGTTTAATATCATGTATTGAAGCTATCTAAA
* * * * * * * * *
11163950 TTATTAAAGCAT-A-AATATAACTTCATAATTAT--ATTTTTGCCCTTTAATGGCATAACAAAGT
190 CTGTTAAAACATAATAATA-AAC-ACA-AATT-TGCATTTTGGCCTTTTAAAGGCAAAAAAAAGT
* * * *
11164011 CTTAAAAGATATAAACGGTAACATTTTCACACATATCAACTATGACAACCAAGTTTAATTATTTG
251 CCTAAAAGATATAAAC-GTAACATTTTCACACATATCAACT-TGA-AACCTAGTTCAATCATTTG
*
11164076 GACAAG
313 AACAAG
* * **
11164082 TTTAATATCATGTATTGAAGCTATCTAAATTGTTAAAACATAAATATAAATGCAAAATTATTTTT
1 TTTAATATAATGTATTGAAGCTATCTAAACTGTTAAAACATAAA-ATAAATGCAAAATTACATTT
* * *
11164147 TTACCCGTTAACGGCATAACAAAGTCCTAAAAAGACATAAATGGTAACATTTTCACATATATTAA
65 TTACCCTTTAACGGCATAA-AAAGTCCTAAAAAGACATAAATGGTAACATTTTCACACATATAAA
* * *
11164212 CCGTGAAAATCAAGTTCAGTCTTTCAGATAAGTTTAATATCATGTATTGAAGCTATCTAAACTGT
129 TCGTGAAAATCAAGTTCAATCTTTCAGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGT
*
11164277 TAAAACATAATAATAAACACAAATTTGCATATTGGCCTTTTAAAGGCAAAAAAAAGTCCTAAACA
194 TAAAACATAATAATAAACACAAATTTGCATTTTGGCCTTTTAAAGGCAAAAAAAAGTCCTAAA-A
* ** * *
11164342 AATATAAACAGTAATTTTTTCACATATATCAATCTTGGAAACCTAGTTCAATCATTTGAAAAAG
258 GATATAAAC-GTAACATTTTCACACATATCAA-CTT-GAAACCTAGTTCAATCATTTGAACAAG
* * * * *
11164406 TTTAATATAATGTATTTAAGCTATCTAAACTATTAAAACATAAAAATAACTGCCAAATGACATTT
1 TTTAATATAATGTATTGAAGCTATCTAAACTGTTAAAACAT-AAAATAAATGCAAAATTACATTT
* * * *
11164471 TTACCCTTTAATGGCATAATAAAGTCCTAAAAAGACATAAATGGTAACTTTTTCGCACATATCAA
65 TTACCCTTTAACGGCATAA-AAAGTCCTAAAAAGACATAAATGGTAACATTTTCACACATATAAA
* * * * * *
11164536 TCAT-AGAAATCAAGTTTAAT-TATCCAAACAAGTTTAATATTATGTATTGAAACTATCTAAACT
129 TCGTGA-AAATCAAGTTCAATCT-TTCAGACAAGTTTAATATCATGTATTGAAGCTATCTAAACT
* * ** * * *
11164599 GTTAAAATAGAATAATAAATGCAAATTTGCATTTTGACCTTTTAATA-GTACAAAAAA-TCCTAA
192 GTTAAAACATAATAATAAACACAAATTTGCATTTTGGCCTTTTAA-AGGCAAAAAAAAGTCCTAA
* * * *
11164662 ATAGATATAAACGTCAACATTTTCACACATATCAACCAT-ACAAACTAAGTTCAGTCA-TTCAAG
256 A-AGATATAAACGT-AACATTTTCACACATATCAA-CTTGA-AACCT-AGTTCAATCATTTGAA-
11164725 CAAG
315 CAAG
* * * *** * * *
11164729 TTTAATATCATTTATTGAAGCTATCTCAACTGTTAAAATGGAATAATAAAAGCAAATTTCCATTT
1 TTTAATATAATGTATTGAAGCTATCTAAACTGTTAAAACATAA-AATAAATGCAAAATTACATTT
* * ** * * ** ** *
11164794 TGACCTTTTAATAGCATAAAAAGTGCTAAATAGACATAAATAATAATTTTTTCACACATA-AACT
65 TTACCCTTTAACGGCATAAAAAGTCCTAAAAAGACATAAATGGTAACATTTTCACACATATAAAT
* * * *
11164858 -GTCG-AAACCAAGTTTAATCATTC-GAATAAG-TT--TA--A--TA-T--AGCTATCTAAACTG
130 CGT-GAAAATCAAGTTCAATCTTTCAG-ACAAGTTTAATATCATGTATTGAAGCTATCTAAACTG
* * ** * * * *
11164910 TTAAAATAT-A-AATATAACTACAAAATTAAATTTTTGCCTTTTAACGGCACAACAAAGTCCTAA
193 TTAAAACATAATAATA-AAC-ACAAATTTGCATTTTGGCCTTTTAAAGGCAAAAAAAAGTCCT-A
* * *
11164973 AAAGATATAAATGGTAAC-TTTTCACACATATCAACCATGAAAACC-ACGTTCAATCA-TTCAAG
255 AAAGATATAAA-CGTAACATTTTCACACATATCAA-CTTG-AAACCTA-GTTCAATCATTTGAA-
11165035 CAAG
315 CAAG
* * * * * * * *
11165039 TTTAATATAATATATTGAATCTATCCAAACTATTAAAACAAAAAAATAACTGCATATTTACATTT
1 TTTAATATAATGTATTGAAGCTATCTAAACTGTTAAAAC-ATAAAATAAATGCAAAATTACATTT
*
11165104 TTTCCCTTTAA
65 TTACCCTTTAA
11165115 TGAGACAAAA
Statistics
Matches: 846, Mismatches: 152, Indels: 84
0.78 0.14 0.08
Matches are distributed among these distances:
308 4 0.00
309 4 0.00
310 143 0.17
311 21 0.02
312 7 0.01
313 2 0.00
315 1 0.00
317 2 0.00
319 2 0.00
320 20 0.02
321 4 0.00
322 52 0.06
323 264 0.31
324 307 0.36
325 13 0.02
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (318 bp):
TTTAATATAATGTATTGAAGCTATCTAAACTGTTAAAACATAAAATAAATGCAAAATTACATTTT
TACCCTTTAACGGCATAAAAAGTCCTAAAAAGACATAAATGGTAACATTTTCACACATATAAATC
GTGAAAATCAAGTTCAATCTTTCAGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTA
AAACATAATAATAAACACAAATTTGCATTTTGGCCTTTTAAAGGCAAAAAAAAGTCCTAAAAGAT
ATAAACGTAACATTTTCACACATATCAACTTGAAACCTAGTTCAATCATTTGAACAAG
Found at i:11164683 original size:485 final size:476
Alignment explanation
Indices: 11163758--11165144 Score: 1387
Period size: 485 Copynumber: 2.9 Consensus size: 476
11163748 ACTGGACACA
* * * * ***
11163758 TTTAATATAATGTAATAGAAGCTATCTAAATTGTTAAAACAGAACAATAATTGTAAATTTGCATT
1 TTTAATATCATGT-ATTGAAGCTATCTAAACTGTTAAAACAGAATAATAA-AACAAATTTGCATT
* * ** * *
11163823 TTTGCCTTTTAACGCTATAAAAAGTCCTAAACAAACATAAATC-GTAAACTATTCATACATATCA
64 TTGGCCTTTTAAAGC-ATAAAAAGTCCTAAACAAACATAAA-CAGTAATTTTTTCACACATATC-
* * * * * * *
11163887 AATCGTGGAAACCAAATTCAATCA-TTCAGACAAGTTTAATATCATGTATTAAAGCTATCTAAAT
126 AATCTTGGAAACCAAGTTCAATCATTTGA-AAAAGTTTAATATAATGTATTTAAGCTATCTAAAC
* * * *
11163951 TATTAAAGCATAAATATAACTTCATAATTATATTTTTGCCCTTTAATGGCATAACAAAGT-CTTA
190 TATTAAAACATAAATATAACTCCA-AATTAAATTTTTGCCCTTTAATGGCATAACAAAGTCCTAA
* ***
11164015 AAAGATATAAACGGTAACATTTTCACACATATCAAC-TATGACAACCAAGTTTAATTATTTGGAC
254 AAAGATATAAATGGTAAC-TTTTCACACATATCAACATA-GA-AACCAAGTTTAATTATTCAAAC
* * * * *
11164079 AAGTTTAATATCATGTATTGAAGCTATCTAAATTGTTAAAACATAAAT-ATAAATGCAAAATTAT
316 AAGTTTAATATAATGTATTGAAACTATCTAAACTGTT-AAA-ATAAATAATAAATGCAAATTTAC
* * ** * * * *
11164143 TTTTTTACCCGTTAACGGCATAACAAAGTCCTAAAAAGACATAAATGGTAACATTTTCACATATA
379 ATTTTTACCCTTTAATAG-ACAA-AAAGTCCTAAAAAGATATAAA-CGTAACATTTTCACACATA
* * * *
11164208 TTAACCGTGA-AAA-TCAAGTTCAGTCTTTC-AGATAAG
441 TCAACCAT-ACAAACT-AAGTTCAGTCATTCAAG-CAAG
* *
11164244 TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAACATAATAATAAACACAAATTTGCATAT
1 TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAACAGAATAATAAA-ACAAATTTGCATTT
* * *
11164309 TGGCCTTTTAAAGGCAAAAAAAAGTCCTAAACAAATATAAACAGTAATTTTTTCACATATATCAA
65 TGGCCTTTTAAA-GC-ATAAAAAGTCCTAAACAAACATAAACAGTAATTTTTTCACACATATCAA
*
11164374 TCTTGGAAACCTAGTTCAATCATTTGAAAAAGTTTAATATAATGTATTTAAGCTATCTAAACTAT
128 TCTTGGAAACCAAGTTCAATCATTTGAAAAAGTTTAATATAATGTATTTAAGCTATCTAAACTAT
* * * * *
11164439 TAAAACATAAAAATAACTGCCAAATGACATTTTTACCCTTTAATGGCATAATAAAGTCCTAAAAA
193 TAAAACATAAATATAACT-CCAAATTAAATTTTTGCCCTTTAATGGCATAACAAAGTCCTAAAAA
* * * *
11164504 GACATAAATGGTAACTTTTTCGCACATATCAATCATAGAAATCAAGTTTAATTATCCAAACAAGT
257 GATATAAATGGTAAC-TTTTCACACATATCAA-CATAGAAACCAAGTTTAATTATTCAAACAAGT
* *
11164569 TTAATATTATGTATTGAAACTATCTAAACTGTTAAAATAGAATAATAAATGCAAATTTGCATTTT
320 TTAATATAATGTATTGAAACTATCTAAACTGTTAAAATA-AATAATAAATGCAAATTTACATTTT
* * * *
11164634 GACCTTTTAATAGTACAAAAAATCCTAAATAGATATAAACGTCAACATTTTCACACATATCAACC
384 TACCCTTTAATAG-ACAAAAAGTCCTAAAAAGATATAAACGT-AACATTTTCACACATATCAACC
11164699 ATACAAACTAAGTTCAGTCATTCAAGCAAG
447 ATACAAACTAAGTTCAGTCATTCAAGCAAG
* * ** *
11164729 TTTAATATCATTTATTGAAGCTATCTCAACTGTTAAAATGGAATAATAAAAGCAAATTTCCATTT
1 TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAACAGAATAATAAAA-CAAATTTGCATTT
* * * * * *
11164794 TGACCTTTTAATAGCATAAAAAGTGCTAAATAGACATAAATAATAATTTTTTCACACATA--AA-
65 TGGCCTTTTAA-AGCATAAAAAGTCCTAAACAAACATAAACAGTAATTTTTTCACACATATCAAT
* * * * *
11164856 CTGTCGAAACCAAGTTTAATCATTCGAATAAG--T--T-TAA--TA--T-AGCTATCTAAACTGT
129 CT-TGGAAACCAAGTTCAATCATTTGAAAAAGTTTAATATAATGTATTTAAGCTATCTAAACTAT
* * * * *
11164911 TAAAATATAAATATAACTACAAAATTAAATTTTTGCCTTTTAACGGCACAACAAAGTCCTAAAAA
193 TAAAACATAAATATAACT-CCAAATTAAATTTTTGCCCTTTAATGGCATAACAAAGTCCTAAAAA
* * * *
11164976 GATATAAATGGTAACTTTTCACACATATCAACCAT-GAAAACCACGTTCAATCATTCAAGCAAGT
257 GATATAAATGGTAACTTTTCACACATATCAA-CATAG-AAACCAAGTTTAATTATTCAAACAAGT
* * * * * * * *
11165040 TTAATATAATATATTGAATCTATCCAAACTATTAAAACAAAAAAATAACTGCATATTTACATTTT
320 TTAATATAATGTATTGAAACTATCTAAACTGTTAAAA-TAAATAATAAATGCAAATTTACATTTT
* * *
11165105 TTCCCTTTAATGAGACAAAAAGTGCTAAACAGATATAAAC
384 TACCCTTTAAT-AGACAAAAAGTCCTAAAAAGATATAAAC
11165145 AACAACTTTC
Statistics
Matches: 756, Mismatches: 125, Indels: 55
0.81 0.13 0.06
Matches are distributed among these distances:
470 1 0.00
471 123 0.16
472 85 0.11
473 1 0.00
475 2 0.00
477 3 0.00
478 1 0.00
480 1 0.00
481 2 0.00
482 26 0.03
484 44 0.06
485 288 0.38
486 174 0.23
487 3 0.00
488 2 0.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (476 bp):
TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAACAGAATAATAAAACAAATTTGCATTTT
GGCCTTTTAAAGCATAAAAAGTCCTAAACAAACATAAACAGTAATTTTTTCACACATATCAATCT
TGGAAACCAAGTTCAATCATTTGAAAAAGTTTAATATAATGTATTTAAGCTATCTAAACTATTAA
AACATAAATATAACTCCAAATTAAATTTTTGCCCTTTAATGGCATAACAAAGTCCTAAAAAGATA
TAAATGGTAACTTTTCACACATATCAACATAGAAACCAAGTTTAATTATTCAAACAAGTTTAATA
TAATGTATTGAAACTATCTAAACTGTTAAAATAAATAATAAATGCAAATTTACATTTTTACCCTT
TAATAGACAAAAAGTCCTAAAAAGATATAAACGTAACATTTTCACACATATCAACCATACAAACT
AAGTTCAGTCATTCAAGCAAG
Found at i:11165581 original size:29 final size:29
Alignment explanation
Indices: 11165539--11165596 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
11165529 TTCTTTCCCA
11165539 ATGACTAAACACAAATGAAGTAGGTAGTT
1 ATGACTAAACACAAATGAAGTAGGTAGTT
*
11165568 ATGACTAAGCACAAATGAAGTAGGTAGTT
1 ATGACTAAACACAAATGAAGTAGGTAGTT
11165597 CAAGTAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.43, C:0.10, G:0.22, T:0.24
Consensus pattern (29 bp):
ATGACTAAACACAAATGAAGTAGGTAGTT
Found at i:11166350 original size:13 final size:13
Alignment explanation
Indices: 11166329--11166361 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
11166319 ATAACCAACT
11166329 ATATATAAAGAAC
1 ATATATAAAGAAC
*
11166342 ATATCTAAAGAAC
1 ATATATAAAGAAC
11166355 ATATATA
1 ATATATA
11166362 GACATTGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.58, C:0.09, G:0.06, T:0.27
Consensus pattern (13 bp):
ATATATAAAGAAC
Found at i:11168609 original size:21 final size:21
Alignment explanation
Indices: 11168585--11168630 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
11168575 TCTTCACACT
*
11168585 TTGAATATCAACATTACCAAC
1 TTGAATATCAACATCACCAAC
* * *
11168606 TTGAGTATTAGCATCACCAAC
1 TTGAATATCAACATCACCAAC
11168627 TTGA
1 TTGA
11168631 GGAATACGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (21 bp):
TTGAATATCAACATCACCAAC
Found at i:11169340 original size:24 final size:24
Alignment explanation
Indices: 11169302--11169349 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
11169292 AAAATGATTT
*
11169302 TCATGCCAAAGAATCAGTAGGATG
1 TCATGCCAAAAAATCAGTAGGATG
*
11169326 TCATGCTAAAAAATCAGTAGGATG
1 TCATGCCAAAAAATCAGTAGGATG
11169350 GCTTAATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (24 bp):
TCATGCCAAAAAATCAGTAGGATG
Found at i:11170834 original size:20 final size:20
Alignment explanation
Indices: 11170765--11170836 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
11170755 TGTTTAAAGA
11170765 ATGCTAATTAATTAATTAGT
1 ATGCTAATTAATTAATTAGT
* **
11170785 AAGCTAATTAAAAGAAAATGTTAGT
1 ATGCTAATT--AA-TTAA--TTAGT
*
11170810 GTGCTAATTAATTAATTAGT
1 ATGCTAATTAATTAATTAGT
11170830 ATGCTAA
1 ATGCTAA
11170837 GCTCAAAGAT
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
20 19 0.49
22 4 0.10
23 4 0.10
25 12 0.31
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.38
Consensus pattern (20 bp):
ATGCTAATTAATTAATTAGT
Found at i:11171193 original size:25 final size:25
Alignment explanation
Indices: 11171140--11171193 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
11171130 TATGTATCCT
* *
11171140 TTTATTGAAATTAAAGAATTATATT
1 TTTATTGAAATTAAAGAATTAAATG
*
11171165 TTTATTGAAATTAAA-AGTTGAAATG
1 TTTATTGAAATTAAAGAATT-AAATG
11171190 TTTA
1 TTTA
11171194 GATACAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 3 0.12
25 22 0.88
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (25 bp):
TTTATTGAAATTAAAGAATTAAATG
Found at i:11171629 original size:83 final size:83
Alignment explanation
Indices: 11171489--11171652 Score: 265
Period size: 83 Copynumber: 2.0 Consensus size: 83
11171479 GTTAAACAAG
* *
11171489 ATAGATTTCTGCAAAGTAAAAGTCATTAAGGTGACAACAAAGTAAAAAACAATTTTTGAATATTC
1 ATAGATTTCTGCAAAGTAAAAGTCATTAAGGTGACAACAAAGTAAAAAACAACTTTTGAATAATC
*
11171554 AAAGTTCTAAATTTTTAT
66 AAAGTTCCAAATTTTTAT
* * * *
11171572 ATAGATTTTTGCAAAGTCAAAGTCATTAAGGTGGCAACAAAGTAAAAATCAACTTTTGAATAATC
1 ATAGATTTCTGCAAAGTAAAAGTCATTAAGGTGACAACAAAGTAAAAAACAACTTTTGAATAATC
11171637 AAAGTTCCAAATTTTT
66 AAAGTTCCAAATTTTT
11171653 GCAAAGATTT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 74 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (83 bp):
ATAGATTTCTGCAAAGTAAAAGTCATTAAGGTGACAACAAAGTAAAAAACAACTTTTGAATAATC
AAAGTTCCAAATTTTTAT
Found at i:11173039 original size:25 final size:25
Alignment explanation
Indices: 11172990--11173040 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
11172980 CCTCTAATAA
* *
11172990 ACTAAATTAGCAATTTTTTAAAAAT
1 ACTAAATTACCAATTTTTAAAAAAT
11173015 ACTAAATTACCAA-TTTTAAATAAAT
1 ACTAAATTACCAATTTTTAAA-AAAT
11173040 A
1 A
11173041 GCTCGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (25 bp):
ACTAAATTACCAATTTTTAAAAAAT
Found at i:11185052 original size:39 final size:39
Alignment explanation
Indices: 11184876--11185105 Score: 207
Period size: 39 Copynumber: 5.9 Consensus size: 39
11184866 ATCATGATTA
* *
11184876 AGGAGCC-TTATTTTTAAAGTTCTGTGCCTCTATTATGG
1 AGGAGCCTTTATTTTTAAAGTTGTGTGCCTCTATTATAG
* * * * * * * *
11184914 ATGAGCCCTCATTTTAAAAATTTTATGTCTCTATTATAG
1 AGGAGCCTTTATTTTTAAAGTTGTGTGCCTCTATTATAG
* * * *
11184953 A-GACTCCCTTATTTTAAAAGTTGTTGTGCCTTTATTATAG
1 AGGA-GCCTTTATTTTTAAAGTTG-TGTGCCTCTATTATAG
* *
11184993 AGGAACCTTTATTTTTAAAGTTGGTGTGCCACTATTATAG
1 AGGAGCCTTTATTTTTAAAGTT-GTGTGCCTCTATTATAG
* * *
11185033 AGG-GCCTTTATTTTTAAAGTTATGCGCCTCTATTATGG
1 AGGAGCCTTTATTTTTAAAGTTGTGTGCCTCTATTATAG
* *
11185071 AGGAG-CTATTATTTTTTAAGTTGTGTGCTTCTATT
1 AGGAGCCT-TTATTTTTAAAGTTGTGTGCCTCTATT
11185106 GTTAATGAGC
Statistics
Matches: 156, Mismatches: 29, Indels: 13
0.79 0.15 0.07
Matches are distributed among these distances:
38 26 0.17
39 81 0.52
40 46 0.29
41 3 0.02
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (39 bp):
AGGAGCCTTTATTTTTAAAGTTGTGTGCCTCTATTATAG
Found at i:11185200 original size:80 final size:79
Alignment explanation
Indices: 11185132--11185324 Score: 212
Period size: 80 Copynumber: 2.4 Consensus size: 79
11185122 ATTTAAAGTT
* * *
11185132 GAGCCTTTATTTTT-AAAGTTGTGTGCCTTTATTA-TGAAGAAGCTCTTATTTTTAAAATTATGT
1 GAGCCTTTATTTTTAAAAGTTGTGTGCCTCTATTATTGAAGAACCT-TTATTTTCAAAATTATGT
11185195 GCCTCTATTATGAAA-
65 GCCTCTATTAT-AAAG
* * * * * *
11185210 GATCTTTTATTTTTAAAAAGTTGTATGCCTCTATTATTGAGGAACCTTTATTTTCAAAGTTGTGT
1 GAGCCTTTATTTTT-AAAAGTTGTGTGCCTCTATTATTGAAGAACCTTTATTTTCAAAATTATGT
* *
11185275 GCCTCTATTGTTAAG
65 GCCTCTATTATAAAG
* *
11185290 AAGCCTTTATTTTTAAAAAGTTATGTGCCTCTATT
1 GAGCCTTTATTTTT-AAAAGTTGTGTGCCTCTATT
11185325 TTTTATGAGC
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
78 12 0.13
79 2 0.02
80 73 0.77
81 8 0.08
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (79 bp):
GAGCCTTTATTTTTAAAAGTTGTGTGCCTCTATTATTGAAGAACCTTTATTTTCAAAATTATGTG
CCTCTATTATAAAG
Found at i:11185226 original size:98 final size:97
Alignment explanation
Indices: 11185036--11185221 Score: 221
Period size: 98 Copynumber: 1.9 Consensus size: 97
11185026 ATTATAGAGG
* * * * * *
11185036 GCCTTTATTTTTAAAGTTATGCGCCTCTATTATGGAGGAGCTATTATTTTTTAAGTTGTGTGCTT
1 GCCTTTATTTTTAAAGTTATGCGCCTCTATTATGAAGAAGCTATTATTTTTAAAATTATGTGCCT
* * *
11185101 CTATTGTTAATGAGCCCTCTTATTTAAAGTTGA
66 CTATTATGAA-GAGACCTCTTATTTAAAGTTGA
* * * *
11185134 GCCTTTATTTTTAAAGTTGTGTGCCTTTATTATGAAGAAGCTCTTATTTTTAAAATTATGTGCCT
1 GCCTTTATTTTTAAAGTTATGCGCCTCTATTATGAAGAAGCTATTATTTTTAAAATTATGTGCCT
* *
11185199 CTATTATGAA-AGATCTTTTATTT
66 CTATTATGAAGAGACCTCTTATTT
11185222 TTAAAAAGTT
Statistics
Matches: 73, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
96 10 0.14
98 63 0.86
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.47
Consensus pattern (97 bp):
GCCTTTATTTTTAAAGTTATGCGCCTCTATTATGAAGAAGCTATTATTTTTAAAATTATGTGCCT
CTATTATGAAGAGACCTCTTATTTAAAGTTGA
Found at i:11185260 original size:41 final size:39
Alignment explanation
Indices: 11185135--11185324 Score: 206
Period size: 39 Copynumber: 4.8 Consensus size: 39
11185125 TAAAGTTGAG
*
11185135 CCTTTATTTTT-AAAGTTGTGTGCCTTTATTATGAAGAA
1 CCTTTATTTTTAAAAGTTGTGTGCCTCTATTATGAAGAA
* * *
11185173 GCTCTTATTTTTAAAA-TTATGTGCCTCTATTATGAAAGAT
1 CCT-TTATTTTTAAAAGTTGTGTGCCTCTATTATG-AAGAA
* * *
11185213 CTTTTATTTTTAAAAAGTTGTATGCCTCTATTATTGAGGAA
1 CCTTTATTTTT-AAAAGTTGTGTGCCTCTATTA-TGAAGAA
* * *
11185254 CCTTTA-TTTTCAAAGTTGTGTGCCTCTATTGTTAAGAA
1 CCTTTATTTTTAAAAGTTGTGTGCCTCTATTATGAAGAA
*
11185292 GCCTTTATTTTTAAAAAGTTATGTGCCTCTATT
1 -CCTTTATTTTT-AAAAGTTGTGTGCCTCTATT
11185325 TTTTATGAGC
Statistics
Matches: 125, Mismatches: 18, Indels: 15
0.79 0.11 0.09
Matches are distributed among these distances:
38 7 0.06
39 56 0.45
40 20 0.16
41 40 0.32
42 2 0.02
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.46
Consensus pattern (39 bp):
CCTTTATTTTTAAAAGTTGTGTGCCTCTATTATGAAGAA
Found at i:11185261 original size:137 final size:139
Alignment explanation
Indices: 11184998--11185271 Score: 310
Period size: 137 Copynumber: 2.0 Consensus size: 139
11184988 TATAGAGGAA
* *
11184998 CCTTTATTTTTAAAGTTGGTGTGCCACTATTATAGAGGGCCTTTATTTTTAAAGTTATGCGCCTC
1 CCTTTATTTTTAAAGTTGGTGTGCCACTATTATAGAGAGCCTTTATTTTTAAAATTATGCGCCTC
* * * * * * * *
11185063 TATTATGGAGGAGCTATTATTTTTTAAGTTGTGTGCTTCTATTGTTAATGAGCCCTCTTA-TTT-
66 TATTATGAAAGAGCTATTATTTTTAAAGTTGTATGCCTCTATTATTAAGGAGACCTCTTATTTTC
11185126 AAAGTTGAG
131 AAAGTTGAG
** *
11185135 CCTTTATTTTTAAAGTT-GTGTGCCTTTATTAT-GAAGAAG-CTCTTATTTTTAAAATTATGTGC
1 CCTTTATTTTTAAAGTTGGTGTGCCACTATTATAG-AG-AGCCT-TTATTTTTAAAATTATGCGC
* * *
11185197 CTCTATTATGAAAGATCTTTTATTTTTAAAAAGTTGTATGCCTCTATTATTGAGGA-ACCT-TTA
63 CTCTATTATGAAAGAGCTATTATTTTT--AAAGTTGTATGCCTCTATTATTAAGGAGACCTCTTA
11185260 TTTTCAAAGTTG
126 TTTTCAAAGTTG
11185272 TGTGCCTCTA
Statistics
Matches: 114, Mismatches: 16, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
135 1 0.01
136 17 0.15
137 62 0.54
138 6 0.05
139 28 0.25
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (139 bp):
CCTTTATTTTTAAAGTTGGTGTGCCACTATTATAGAGAGCCTTTATTTTTAAAATTATGCGCCTC
TATTATGAAAGAGCTATTATTTTTAAAGTTGTATGCCTCTATTATTAAGGAGACCTCTTATTTTC
AAAGTTGAG
Found at i:11185284 original size:178 final size:177
Alignment explanation
Indices: 11184961--11185288 Score: 421
Period size: 178 Copynumber: 1.8 Consensus size: 177
11184951 AGAGACTCCC
* * *
11184961 TTATTTTAAAAGTTGTTGTGCCTTTATTATAGAGGAACCTTTATTTTTAAAGTTGGTGTGCCACT
1 TTATTTTAAAAGTTGTTGTGCCTTTATTATAGAAGAACCTTTATTTTTAAAATTGATGTGCCACT
* * * * **
11185026 ATTATAGAGGGCCTTTATTTTTAAAGTTATGCGCCTCTATTATGGAGGAGCTATTATTTTTTAAG
66 ATTATAAAGAGCCTTTATTTTTAAAGTTATACGCCTCTATTATGGAGGACCTATTATTTTCAAAG
*
11185091 TTGTGTGCTTCTATTGTTAATGAGCCCTCTTATTTAAAGTTGAGCCT
131 TTGTGTGCCTCTATTGTTAATGAGCCCTCTTATTTAAAGTTGAGCCT
* * *
11185138 TTATTTTTAAAGTTG-TGTGCCTTTATTAT-GAAGAAGCTCTTATTTTTAAAATT-ATGTGCCTC
1 TTATTTTAAAAGTTGTTGTGCCTTTATTATAGAAGAACCT-TTATTTTTAAAATTGATGTGCCAC
* * * * *
11185200 TATTATGAAAGATCTTTTATTTTTAAAAAGTTGTATGCCTCTATTATTGAGGAACCT-TTATTTT
65 TATTAT-AAAGAGCCTTTATTTTT--AAAGTTATACGCCTCTATTATGGAGG-ACCTATTATTTT
11185264 CAAAGTTGTGTGCCTCTATTGTTAA
126 CAAAGTTGTGTGCCTCTATTGTTAA
11185289 GAAGCCTTTA
Statistics
Matches: 128, Mismatches: 18, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
175 20 0.16
176 40 0.31
177 14 0.11
178 51 0.40
179 3 0.02
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (177 bp):
TTATTTTAAAAGTTGTTGTGCCTTTATTATAGAAGAACCTTTATTTTTAAAATTGATGTGCCACT
ATTATAAAGAGCCTTTATTTTTAAAGTTATACGCCTCTATTATGGAGGACCTATTATTTTCAAAG
TTGTGTGCCTCTATTGTTAATGAGCCCTCTTATTTAAAGTTGAGCCT
Found at i:11185766 original size:39 final size:39
Alignment explanation
Indices: 11185703--11186080 Score: 332
Period size: 39 Copynumber: 9.6 Consensus size: 39
11185693 ATTAATGAGT
* * *
11185703 CTTATTTTTAAAGTTCTGTGCCTCTATTATGAATGAGCT
1 CTTATTTTTAAAGTTGTGTGCCTCTATTATGAAAGAGCC
* * * *
11185742 CTCATTTTAAAAGTTGTGTTCCTCTATTATG-AAGAATCC
1 CTTATTTTTAAAGTTGTGTGCCTCTATTATGAAAG-AGCC
* * * * *
11185781 CTTATTTTAAAAGTCGTTGTGCCTTTATTATAAAAGAACC
1 CTTATTTTTAAAGTTG-TGTGCCTCTATTATGAAAGAGCC
* * *
11185821 CTTATTTTTAAAATTCGTGTGCTTTTATTATGAAAG-GCC
1 CTTATTTTTAAAGTT-GTGTGCCTCTATTATGAAAGAGCC
*
11185860 CTTATTTTTAAAGTTGATGTGCCTCTATTATGAAAGAGCT
1 CTTATTTTTAAAGTTG-TGTGCCTCTATTATGAAAGAGCC
* * * * *
11185900 CTTATTTTTTAAGTTATGTGCTTCTATTATTAAGGAGCC
1 CTTATTTTTAAAGTTGTGTGCCTCTATTATGAAAGAGCC
** * * *
11185939 CTTATTTTTAAAGTTGTGTGATTTTATTATGAAAAAGCT
1 CTTATTTTTAAAGTTGTGTGCCTCTATTATGAAAGAGCC
* *
11185978 CTTATTTTTTAAA-TTGTGTGCCTTTATTATG-AAGAATCC
1 CTTA-TTTTTAAAGTTGTGTGCCTCTATTATGAAAG-AGCC
* * * * *
11186017 TTTATTTTTAAAAGATTGTGTGCCTATATTATTAAGGAACC
1 CTTATTTTT-AAAG-TTGTGTGCCTCTATTATGAAAGAGCC
* * *
11186058 TTTATGTTCAAAGTTGTGTGCCT
1 CTTATTTTTAAAGTTGTGTGCCT
11186081 TAATTGTTAG
Statistics
Matches: 278, Mismatches: 49, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
38 10 0.04
39 164 0.59
40 72 0.26
41 30 0.11
42 2 0.01
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (39 bp):
CTTATTTTTAAAGTTGTGTGCCTCTATTATGAAAGAGCC
Found at i:11185978 original size:78 final size:78
Alignment explanation
Indices: 11185703--11186048 Score: 349
Period size: 79 Copynumber: 4.4 Consensus size: 78
11185693 ATTAATGAGT
* ** * * *
11185703 CTTATTTTTAAAGTTCTGTGCCTCTATTATGAATGAGCTCTCA-TTTTAAAAGTTGTGTTCCTCT
1 CTTATTTTTAAAGTTGTGTGCCTCTATTATGAAAAAGCTCTTATTTTTAAAA-TTGTGTGCTTCT
*
11185767 ATTATGAAGAATCC
65 ATTATGAAGAAGCC
* * * * *
11185781 CTTATTTTAAAAGTCGTTGTGCCTTTATTAT-AAAAGAACCCTTATTTTTAAAATTCGTGTGCTT
1 CTTATTTTTAAAGTTG-TGTGCCTCTATTATGAAAA-AGCTCTTATTTTTAAAATT-GTGTGCTT
* *
11185845 TTATTATGAA-AGGCC
63 CTATTATGAAGAAGCC
* * * *
11185860 CTTATTTTTAAAGTTGATGTGCCTCTATTATGAAAGAGCTCTTATTTTTTAAGTTATGTGCTTCT
1 CTTATTTTTAAAGTTG-TGTGCCTCTATTATGAAAAAGCTCTTATTTTTAAAATTGTGTGCTTCT
* *
11185925 ATTATTAAGGAGCC
65 ATTATGAAGAAGCC
** * *
11185939 CTTATTTTTAAAGTTGTGTGATTTTATTATGAAAAAGCTCTTATTTTTTAAATTGTGTGCCTT-T
1 CTTATTTTTAAAGTTGTGTGCCTCTATTATGAAAAAGCTCTTATTTTTAAAATTGTGTG-CTTCT
*
11186003 ATTATGAAGAATCC
65 ATTATGAAGAAGCC
* *
11186017 TTTATTTTTAAAAGATTGTGTGCCTATATTAT
1 CTTATTTTT-AAAG-TTGTGTGCCTCTATTAT
11186049 TAAGGAACCT
Statistics
Matches: 218, Mismatches: 41, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
78 87 0.40
79 91 0.42
80 40 0.18
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.46
Consensus pattern (78 bp):
CTTATTTTTAAAGTTGTGTGCCTCTATTATGAAAAAGCTCTTATTTTTAAAATTGTGTGCTTCTA
TTATGAAGAAGCC
Found at i:11185990 original size:158 final size:156
Alignment explanation
Indices: 11185703--11186048 Score: 410
Period size: 158 Copynumber: 2.2 Consensus size: 156
11185693 ATTAATGAGT
* * * *
11185703 CTTATTTTTAAAGTTCTGTGCCTCTATTATGAATGAGCTCTCATTTTAAAAGTTGTGTTCCTCTA
1 CTTATTTTTAAAGTTGTGTGCCTCTATTATGAAAGAGCTCTCATTTTAAAAGTTATGTGCCTCTA
* *
11185768 TTATGAAGAATCCCTTATTTTAAAAGTCGTTGTGCCTTTATTATAAAAGAACCCTTATTTTTAAA
66 TTATGAAGAAGCCCTTATTTTAAAAGTCGTTGTGACTTTATTATAAAAGAACCCTTATTTTT-AA
* *
11185833 ATTCGTGTGCTTTTATTATGAA-AGGCC
130 ATT-GTGTGCCTTTATTATGAAGAAGCC
* ** *
11185860 CTTATTTTTAAAGTTGATGTGCCTCTATTATGAAAGAGCTCTTATTTTTTAAGTTATGTGCTTCT
1 CTTATTTTTAAAGTTG-TGTGCCTCTATTATGAAAGAGCTCTCATTTTAAAAGTTATGTGCCTCT
* * * * * * *
11185925 ATTATTAAGGAGCCCTTATTTTTAAAGTTG-TGTGATTTTATTATGAAAA-AGCTCTTATTTTTT
65 ATTATGAAGAAGCCCTTATTTTAAAAGTCGTTGTGACTTTATTAT-AAAAGAACCCTTA-TTTTT
*
11185988 AAATTGTGTGCCTTTATTATGAAGAATCC
128 AAATTGTGTGCCTTTATTATGAAGAAGCC
* *
11186017 TTTATTTTTAAAAGATTGTGTGCCTATATTAT
1 CTTATTTTT-AAAG-TTGTGTGCCTCTATTAT
11186049 TAAGGAACCT
Statistics
Matches: 161, Mismatches: 22, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
156 17 0.11
157 49 0.30
158 92 0.57
159 3 0.02
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.46
Consensus pattern (156 bp):
CTTATTTTTAAAGTTGTGTGCCTCTATTATGAAAGAGCTCTCATTTTAAAAGTTATGTGCCTCTA
TTATGAAGAAGCCCTTATTTTAAAAGTCGTTGTGACTTTATTATAAAAGAACCCTTATTTTTAAA
TTGTGTGCCTTTATTATGAAGAAGCC
Found at i:11186295 original size:15 final size:15
Alignment explanation
Indices: 11186275--11186319 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
11186265 CTATTTGATC
*
11186275 TGGGCCCAAACCAAT
1 TGGGCCAAAACCAAT
11186290 TGGGCCAAAACCAAT
1 TGGGCCAAAACCAAT
* * *
11186305 CGAGCCTAAACCAAT
1 TGGGCCAAAACCAAT
11186320 CCAAGCCTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.38, C:0.31, G:0.18, T:0.13
Consensus pattern (15 bp):
TGGGCCAAAACCAAT
Found at i:11186473 original size:4 final size:4
Alignment explanation
Indices: 11186443--11186511 Score: 84
Period size: 4 Copynumber: 17.2 Consensus size: 4
11186433 CTTACTTTGA
* * * * **
11186443 TTAT TCAT TTAT TCAT TTAT CTAT TTAT TTAT TTGT TTAT TTAT TTGC
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
11186491 TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT T
11186512 ATTATTATTA
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 53 1.00
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.70
Consensus pattern (4 bp):
TTAT
Found at i:11186568 original size:21 final size:21
Alignment explanation
Indices: 11186542--11186599 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
11186532 TTTTTCTTTA
11186542 TCTAATTTTTATTTACTTATC
1 TCTAATTTTTATTTACTTATC
*
11186563 TCTAATTTTTATTTATTTATC
1 TCTAATTTTTATTTACTTATC
*
11186584 TTTAAATATTTTATTT
1 TCT-AAT-TTTTATTT
11186600 TATCTGATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 22 0.67
22 3 0.09
23 8 0.24
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (21 bp):
TCTAATTTTTATTTACTTATC
Found at i:11190287 original size:2 final size:2
Alignment explanation
Indices: 11190280--11190330 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
11190270 CAGGTTCTTC
11190280 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
11190322 CT CT CT CT C
1 CT CT CT CT C
11190331 CTCATTTTGG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:11190888 original size:40 final size:40
Alignment explanation
Indices: 11190844--11190923 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
11190834 CTAATGAGAC
*
11190844 TCTTTCTGAAGTATTTCTTTTCAATTCTACTTATGTATAT
1 TCTTTCTGAAGTATTTCTTTTCAATTCTACTTATATATAT
* * *
11190884 TCTTTCTGAAGTATTTCTTTTCGATTTTTCTTATATATAT
1 TCTTTCTGAAGTATTTCTTTTCAATTCTACTTATATATAT
11190924 GTGTGTATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.57
Consensus pattern (40 bp):
TCTTTCTGAAGTATTTCTTTTCAATTCTACTTATATATAT
Found at i:11193577 original size:16 final size:17
Alignment explanation
Indices: 11193558--11193591 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
11193548 AAATCATATG
*
11193558 AAAATTTT-CAAATAAA
1 AAAATTTTAAAAATAAA
11193574 AAAATTTTAAAAATAAA
1 AAAATTTTAAAAATAAA
11193591 A
1 A
11193592 GCAAATGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAATTTTAAAAATAAA
Found at i:11198743 original size:42 final size:42
Alignment explanation
Indices: 11198678--11198771 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 42
11198668 CATGAAGAAC
*
11198678 AGTCGACTACTATCAAGTTAGTAGCATTGTGGAATCCAGAGA
1 AGTCGACTACTATCAAGTCAGTAGCATTGTGGAATCCAGAGA
* * * * *
11198720 AGTCTACTGCTATCAGGTCAGTAGCATTGTGGAATCTAGGGA
1 AGTCGACTACTATCAAGTCAGTAGCATTGTGGAATCCAGAGA
11198762 AGTCGACTAC
1 AGTCGACTAC
11198772 CTTATGGCAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (42 bp):
AGTCGACTACTATCAAGTCAGTAGCATTGTGGAATCCAGAGA
Found at i:11202620 original size:10 final size:10
Alignment explanation
Indices: 11202605--11202644 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
11202595 GAGGATTAAG
11202605 TTTTTTGGAT
1 TTTTTTGGAT
*
11202615 TTTTTTGCATT
1 TTTTTTGGA-T
*
11202626 TTTTTTGGAA
1 TTTTTTGGAT
11202636 TTTTTTGGA
1 TTTTTTGGA
11202645 AATTTCAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.12, C:0.03, G:0.17, T:0.68
Consensus pattern (10 bp):
TTTTTTGGAT
Found at i:11203150 original size:22 final size:23
Alignment explanation
Indices: 11203125--11203183 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
11203115 TTGCTTATGT
11203125 ATTTA-TTGATTCAATTAAA-ATC
1 ATTTACTT-ATTCAATTAAACATC
* *
11203147 ATTTACTTATTTAATTAAACATT
1 ATTTACTTATTCAATTAAACATC
*
11203170 ATTTAATT-TTCAAT
1 ATTTACTTATTCAAT
11203184 GATTTCCTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 20 0.65
23 11 0.35
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (23 bp):
ATTTACTTATTCAATTAAACATC
Found at i:11203352 original size:60 final size:60
Alignment explanation
Indices: 11203186--11203439 Score: 299
Period size: 60 Copynumber: 4.3 Consensus size: 60
11203176 TTTTCAATGA
* *
11203186 TTTCCTGAAAATAAAATTTTC--AAAAAATATTTTTGAAG-AAAAGTTGAAAGTATTAATT
1 TTTCTTGAAAATAAAATTTTCAAAAAAAATATTTTT-AAGAAAAAGTTGAAAGTATCAATT
* * * * *
11203244 TTCCTTG---A-AAAATTTTCAAAAAAACA-AGCATTTTAAGGAAAAGTTGAAAATGTCAATT
1 TTTCTTGAAAATAAAATTTTCAAAAAAA-ATA--TTTTTAAGAAAAAGTTGAAAGTATCAATT
* *
11203302 TTTCTTAAAAATAAAATTTTCAAAAAAAATATTTTTCAGAAAAAGTTGAAAGTATCAATT
1 TTTCTTGAAAATAAAATTTTCAAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATT
* * *
11203362 TTTCTTGAAAATAAAATTTTCAAGAAAAATATTTTTAAGAAAAAATTGAAAGTATCAAAT
1 TTTCTTGAAAATAAAATTTTCAAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATT
11203422 TTTCTTGAAAATAGAAAT
1 TTTCTTGAAAATA-AAAT
11203440 GTTAAAATAC
Statistics
Matches: 166, Mismatches: 18, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
54 9 0.05
55 1 0.01
56 6 0.04
57 4 0.02
58 31 0.19
60 92 0.55
61 6 0.04
62 17 0.10
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.35
Consensus pattern (60 bp):
TTTCTTGAAAATAAAATTTTCAAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATT
Found at i:11203468 original size:55 final size:56
Alignment explanation
Indices: 11203276--11203474 Score: 168
Period size: 60 Copynumber: 3.4 Consensus size: 56
11203266 AACAAGCATT
* * * * * * **
11203276 TTAAGGAAAAGTTGAAAATGTCAATTTTTCTTAAAAATAAAATTTTCAAAAAAAATATTT
1 TTAAGAAAAAGTTGAAAGTATCAAATTTTCTTGAAAATAAAATGTT----AAAAATATCC
* * * **
11203336 TTCAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTCAAGAAAAATATTT
1 TTAAGAAAAAGTTGAAAGTATCAAATTTTCTTGAAAATAAAATGTT----AAAAATATCC
*
11203396 TTAAGAAAAAATTGAAAGTATCAAATTTTCTTGAAAATAGAAATGTT-AAAATA-CC
1 TTAAGAAAAAGTTGAAAGTATCAAATTTTCTTGAAAATA-AAATGTTAAAAATATCC
*
11203451 TTAAGGAAAAGTTGAAAGTATCAA
1 TTAAGAAAAAGTTGAAAGTATCAA
11203475 TCTTCATTCT
Statistics
Matches: 124, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
55 22 0.18
56 6 0.05
60 90 0.73
61 6 0.05
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (56 bp):
TTAAGAAAAAGTTGAAAGTATCAAATTTTCTTGAAAATAAAATGTTAAAAATATCC
Found at i:11204567 original size:15 final size:16
Alignment explanation
Indices: 11204542--11204572 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
11204532 TTGATTTTTT
11204542 TTTTCTCTTTCATTTA
1 TTTTCTCTTTCATTTA
11204558 TTTT-TCTTTCATTTA
1 TTTTCTCTTTCATTTA
11204573 AAGCAAGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTCTCTTTCATTTA
Found at i:11206970 original size:13 final size:13
Alignment explanation
Indices: 11206954--11206999 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
11206944 AAATAGAAAG
11206954 AAAAAATAAAGAA
1 AAAAAATAAAGAA
11206967 AAAAAATAAAGAA
1 AAAAAATAAAGAA
*
11206980 AGAAGAA-AAAGAA
1 A-AAAAATAAAGAA
*
11206993 GAAAAAT
1 AAAAAAT
11207000 GAATGCCACA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 4 0.14
13 20 0.71
14 4 0.14
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (13 bp):
AAAAAATAAAGAA
Found at i:11207408 original size:24 final size:25
Alignment explanation
Indices: 11207377--11207430 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
11207367 ATAGTAGAAA
*
11207377 AAAGAGAAAAAAAATGAGA-AAAGG
1 AAAGAGAAAAAAAATGAGAGAAAAG
**
11207401 AAAGAGAAAATGAATGAGAGAAAAG
1 AAAGAGAAAAAAAATGAGAGAAAAG
11207426 AAAGA
1 AAAGA
11207431 CTCAAATTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.69, C:0.00, G:0.26, T:0.06
Consensus pattern (25 bp):
AAAGAGAAAAAAAATGAGAGAAAAG
Found at i:11208689 original size:17 final size:17
Alignment explanation
Indices: 11208669--11208912 Score: 62
Period size: 17 Copynumber: 14.2 Consensus size: 17
11208659 AAAATTTTGT
11208669 GAATCTCCAATTCTTGC
1 GAATCTCCAATTCTTGC
** * *
11208686 GAATCTGAAAGTTTTTGT
1 GAATCTCCAA-TTCTTGC
* * *
11208704 TAATCTTCATTTCTTGC
1 GAATCTCCAATTCTTGC
* ** *
11208721 GAATCT-GAAAACTCTAC
1 GAATCTCCAATTCT-TGC
11208738 GAATCTCCAATTCTTGC
1 GAATCTCCAATTCTTGC
* * ** * *
11208755 AAATATAAAATTTTTGT
1 GAATCTCCAATTCTTGC
* **
11208772 AAATCTTTAATTCTTGC
1 GAATCTCCAATTCTTGC
* * ** *
11208789 AAATTTGAAAGTTTTTGC
1 GAATCTCCAA-TTCTTGC
* * *
11208807 GAATTTTCATTTCTTGC
1 GAATCTCCAATTCTTGC
** **
11208824 GAATCTGAAAGCCTTGC
1 GAATCTCCAATTCTTGC
*
11208841 GAATCTCCAATTCTTAC
1 GAATCTCCAATTCTTGC
* **
11208858 AAAT-TTGAATGTCTTGC
1 GAATCTCCAAT-TCTTGC
* * *
11208875 AAATCT-AAATGTCTTAC
1 GAATCTCCAAT-TCTTGC
*
11208892 GAATCTCCAATTCTTGT
1 GAATCTCCAATTCTTGC
11208909 GAAT
1 GAAT
11208913 ATGAAAATCT
Statistics
Matches: 159, Mismatches: 61, Indels: 14
0.68 0.26 0.06
Matches are distributed among these distances:
16 7 0.04
17 121 0.76
18 31 0.19
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (17 bp):
GAATCTCCAATTCTTGC
Found at i:11208784 original size:103 final size:103
Alignment explanation
Indices: 11208658--11208861 Score: 284
Period size: 103 Copynumber: 2.0 Consensus size: 103
11208648 TTACGAATCC
* * **
11208658 AAAAATTTTGTGAATCTCCAATTCTTGCGAATCTGAAAGTTTTTGTTAATCTTCATTTCTTGCGA
1 AAAAATTTTGTAAATCTCCAATTCTTGCAAATCTGAAAGTTTTTGCGAATCTTCATTTCTTGCGA
*
11208723 ATCTGAAAA-CTCTACGAATCTCCAATTCTTGCAAATAT
66 ATCTGAAAACCT-TACGAATCTCCAATTCTTACAAATAT
* ** * *
11208761 AAAATTTTTGTAAATCTTTAATTCTTGCAAATTTGAAAGTTTTTGCGAATTTTCATTTCTTGCGA
1 AAAAATTTTGTAAATCTCCAATTCTTGCAAATCTGAAAGTTTTTGCGAATCTTCATTTCTTGCGA
* *
11208826 ATCTGAAAGCCTTGCGAATCTCCAATTCTTACAAAT
66 ATCTGAAAACCTTACGAATCTCCAATTCTTACAAAT
11208862 TTGAATGTCT
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
103 86 0.98
104 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (103 bp):
AAAAATTTTGTAAATCTCCAATTCTTGCAAATCTGAAAGTTTTTGCGAATCTTCATTTCTTGCGA
ATCTGAAAACCTTACGAATCTCCAATTCTTACAAATAT
Found at i:11208874 original size:34 final size:34
Alignment explanation
Indices: 11208669--11208880 Score: 129
Period size: 34 Copynumber: 6.2 Consensus size: 34
11208659 AAAATTTTGT
* * * *
11208669 GAATCTCCAATTCTTGCGAATCTGAAAGTTTTTGT
1 GAATCTCCAATTCTTGCAAATTTGAAAG-TCTTGC
* * * * * * *
11208704 TAATCTTCATTTCTTGCGAATCTGAAA-ACTCTAC
1 GAATCTCCAATTCTTGCAAATTTGAAAGTCT-TGC
* * * * *
11208738 GAATCTCCAATTCTTGCAAATATAAAATTTTTGT
1 GAATCTCCAATTCTTGCAAATTTGAAAGTCTTGC
* ** *
11208772 AAATCTTTAATTCTTGCAAATTTGAAAGTTTTTGC
1 GAATCTCCAATTCTTGCAAATTTGAAAG-TCTTGC
* * * * * *
11208807 GAATTTTCATTTCTTGCGAATCTGAAAGCCTTGC
1 GAATCTCCAATTCTTGCAAATTTGAAAGTCTTGC
* *
11208841 GAATCTCCAATTCTTACAAATTTGAATGTCTTGC
1 GAATCTCCAATTCTTGCAAATTTGAAAGTCTTGC
*
11208875 AAATCT
1 GAATCT
11208881 AAATGTCTTA
Statistics
Matches: 133, Mismatches: 41, Indels: 7
0.73 0.23 0.04
Matches are distributed among these distances:
33 1 0.01
34 80 0.60
35 52 0.39
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (34 bp):
GAATCTCCAATTCTTGCAAATTTGAAAGTCTTGC
Found at i:11209304 original size:85 final size:85
Alignment explanation
Indices: 11209108--11209304 Score: 229
Period size: 85 Copynumber: 2.3 Consensus size: 85
11209098 TACTATAAAG
* * * * * * *
11209108 TCAGACTTCAGTTCCACCCAAGTCATTTTGTTTTGGATTTCAGCTTATGCTAGATCTTTCTTTGG
1 TCAGACTTCAATTCCATCCAGGTCATTTTGTTTTGAAATTCAGCCTATGCCAGATCTTTCTTTGG
*
11209173 TTCAATCCAAGTTAATTATT
66 CTCAATCCAAGTTAATTATT
* *
11209193 TCAGACTTCAATT-CAGTCCAGATCATTTTGTTTT-AAATTCAGACCTATGCCAGATTTTTCTTT
1 TCAGACTTCAATTCCA-TCCAGGTCATTTTGTTTTGAAATTCAG-CCTATGCCAGATCTTTCTTT
*
11209256 GGCTCAATCCAAGTTATTTATCT
64 GGCTCAATCCAAGTTAATTAT-T
**
11209279 T-AGACTTTGATTCCATCCAGGTCATT
1 TCAGACTTCAATTCCATCCAGGTCATT
11209305 ATTTTGAATT
Statistics
Matches: 94, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
84 8 0.09
85 82 0.87
86 4 0.04
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (85 bp):
TCAGACTTCAATTCCATCCAGGTCATTTTGTTTTGAAATTCAGCCTATGCCAGATCTTTCTTTGG
CTCAATCCAAGTTAATTATT
Found at i:11210672 original size:58 final size:58
Alignment explanation
Indices: 11210601--11210983 Score: 419
Period size: 58 Copynumber: 6.5 Consensus size: 58
11210591 TATATTTTTG
* * *
11210601 AGTATCAAGTTTTCTTGAAAATAAAATTTTTAAAAAATATTTTTGAGGAAAAGTTGAA
1 AGTATCAATTTTTCTTGAAAATAAAATTTTAAAAAAATATTTTTGAGAAAAAGTTGAA
* * *
11210659 AGTATCAATTTTTCTTGAAAACAAAAATTTCAAAAAATA-TTTTGAGAAAAAGTTGAA
1 AGTATCAATTTTTCTTGAAAATAAAATTTTAAAAAAATATTTTTGAGAAAAAGTTGAA
* * * * *
11210716 AGTATCAATTTTCCTTAAAAATAAAATTTTCAAAAAATATTTTTCAGGAAAAGTTGAA
1 AGTATCAATTTTTCTTGAAAATAAAATTTTAAAAAAATATTTTTGAGAAAAAGTTGAA
* * **** * * *
11210774 AGTATTAATTTTCCTTGAAAATTTTTTTTTAAAAAAAAAGCATTTTAAGAAAAAGTTGAA
1 AGTATCAATTTTTCTTGAAAATAAAATTTTAAAAAAATA--TTTTTGAGAAAAAGTTGAA
* * * * *
11210834 AATGTCAATTTTTCTTAAAAATAAAATTTTCAAAAAAAAAGTAATTTTGAAAAAAAGTTGAA
1 AGTATCAATTTTTCTTGAAAATAAAATTTT---AAAAAAA-TATTTTTGAGAAAAAGTTGAA
* *
11210896 AGTATCAATTTTTCTTGAAAATAAAATTTTCAAGAAAAACATTTTT-AAAGAAAAGTTGAA
1 AGTATCAATTTTTCTTGAAAATAAAATTTT-AA-AAAAATATTTTTGAGA-AAAAGTTGAA
11210956 AGTATCAATTTTTCTTGAAAATAGAAAT
1 AGTATCAATTTTTCTTGAAAATA-AAAT
11210984 GTCAAAATAC
Statistics
Matches: 275, Mismatches: 40, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
57 52 0.19
58 82 0.30
59 3 0.01
60 77 0.28
61 9 0.03
62 44 0.16
63 7 0.03
64 1 0.00
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (58 bp):
AGTATCAATTTTTCTTGAAAATAAAATTTTAAAAAAATATTTTTGAGAAAAAGTTGAA
Found at i:11211011 original size:55 final size:58
Alignment explanation
Indices: 11210601--11211019 Score: 259
Period size: 60 Copynumber: 7.2 Consensus size: 58
11210591 TATATTTTTG
* * * * * * *
11210601 AGTATCAAGTTTTCTTGAAAATAAAATTTTTAA-AAAATATTTTTGAGGAAAAGTTGAA
1 AGTATCAATTTTTCTTGAAAATAAAATTGTCAAGAAAA-ACTCTTAAAGAAAAGTTGAA
* **
11210659 AGTATCAATTTTTCTTGAAAACAAAAATT-TCAA-AAAATA-T-TTTGAGAAAAAGTTGAA
1 AGTATCAATTTTTCTTGAAAA-TAAAATTGTCAAGAAAA-ACTCTTAAAG-AAAAGTTGAA
* * * * * * *
11210716 AGTATCAATTTTCCTTAAAAATAAAATTTTCAA-AAAATATTTTTCAGGAAAAGTTGAA
1 AGTATCAATTTTTCTTGAAAATAAAATTGTCAAGAAAA-ACTCTTAAAGAAAAGTTGAA
* * **** * * * *
11210774 AGTATTAATTTTCCTTGAAAATTTTTTTTTAAAAAAAAAGCAT-TTTAAGAAAAAGTTGAA
1 AGTATCAATTTTTCTTGAAAATAAAATTGTCAAGAAAAA-C-TCTTAAAG-AAAAGTTGAA
* * * * * * *
11210834 AATGTCAATTTTTCTTAAAAATAAAATTTTCAAAAAAAAAGTAATTTTGAAA-AAAAGTTGAA
1 AGTATCAATTTTTCTTGAAAATAAAATTGTC--AAGAAAA--ACTCTT-AAAGAAAAGTTGAA
* *
11210896 AGTATCAATTTTTCTTGAAAATAAAATTTTCAAGAAAAACATTTTTAAAGAAAAGTTGAA
1 AGTATCAATTTTTCTTGAAAATAAAATTGTCAAGAAAAAC--TCTTAAAGAAAAGTTGAA
* *
11210956 AGTATCAATTTTTCTTGAAAATAGAAA-TGTC-A-AAATAC-CTTAAGGAAAAGTTGAA
1 AGTATCAATTTTTCTTGAAAATA-AAATTGTCAAGAAAAACTCTTAAAGAAAAGTTGAA
*
11211011 AATATCAAT
1 AGTATCAAT
11211020 CCTTCTATAA
Statistics
Matches: 298, Mismatches: 44, Indels: 41
0.78 0.11 0.11
Matches are distributed among these distances:
55 23 0.08
56 9 0.03
57 40 0.13
58 73 0.24
59 21 0.07
60 78 0.26
61 3 0.01
62 46 0.15
63 2 0.01
64 3 0.01
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (58 bp):
AGTATCAATTTTTCTTGAAAATAAAATTGTCAAGAAAAACTCTTAAAGAAAAGTTGAA
Found at i:11211388 original size:36 final size:36
Alignment explanation
Indices: 11211341--11211412 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
11211331 TCGATGGGCG
11211341 TTGTGACGGTGCTATAATCTTCCTCACACACATAAT
1 TTGTGACGGTGCTATAATCTTCCTCACACACATAAT
*
11211377 TTGTGACGGTGCTATAGTCTTCCTCACACACATAAT
1 TTGTGACGGTGCTATAATCTTCCTCACACACATAAT
11211413 CATACTCCTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.33
Consensus pattern (36 bp):
TTGTGACGGTGCTATAATCTTCCTCACACACATAAT
Found at i:11216774 original size:20 final size:20
Alignment explanation
Indices: 11216738--11216788 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 20
11216728 CTTGAAATTA
11216738 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTT-AAAT
11216760 ATAAAATATTATTTTT-AAT
1 ATAAAATATTATTTTTAAAT
11216779 ATAAATATAT
1 ATAAA-ATAT
11216789 ATAAATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.29
20 4 0.14
21 5 0.18
22 11 0.39
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATAAAATATTATTTTTAAAT
Found at i:11226160 original size:18 final size:19
Alignment explanation
Indices: 11226123--11226162 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
11226113 AAAATATGCC
11226123 AAAAATATTAAAAATTTAAA
1 AAAAATATTAAAAA-TTAAA
*
11226143 AAAAATTTTAAAAA-TAAA
1 AAAAATATTAAAAATTAAA
11226161 AA
1 AA
11226163 TTTTAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
20 13 0.68
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAAATATTAAAAATTAAA
Found at i:11226163 original size:15 final size:16
Alignment explanation
Indices: 11226143--11226184 Score: 68
Period size: 15 Copynumber: 2.7 Consensus size: 16
11226133 AAAATTTAAA
11226143 AAAAATTTTAAAAA-T
1 AAAAATTTTAAAAATT
11226158 AAAAATTTTAAAAATT
1 AAAAATTTTAAAAATT
*
11226174 TAAAATTTTAA
1 AAAAATTTTAA
11226185 TAAAAAATCC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAAATTTTAAAAATT
Found at i:11226268 original size:17 final size:17
Alignment explanation
Indices: 11226229--11226261 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11226219 AATATATCAA
*
11226229 AATTTTAAAAAAATTAC
1 AATTTTAAAAAAAATAC
11226246 AATTTTAAAAAAAATA
1 AATTTTAAAAAAAATA
11226262 GATTTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
AATTTTAAAAAAAATAC
Found at i:11226271 original size:20 final size:20
Alignment explanation
Indices: 11226248--11226288 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
11226238 AAAATTACAA
11226248 TTTTAAAAAAAATAGATTTT
1 TTTTAAAAAAAATAGATTTT
* *
11226268 TTTTAAAAAAATTATATTTT
1 TTTTAAAAAAAATAGATTTT
11226288 T
1 T
11226289 ATTATTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTTAAAAAAAATAGATTTT
Found at i:11226287 original size:17 final size:18
Alignment explanation
Indices: 11226231--11226289 Score: 57
Period size: 19 Copynumber: 3.3 Consensus size: 18
11226221 TATATCAAAA
*
11226231 TTTTAAAAAAATTACAAT
1 TTTTAAAAAAATTACTAT
* * * *
11226249 TTTAAAAAAAATAGATTTT
1 TTTTAAAAAAAT-TACTAT
11226268 TTTTAAAAAAATTA-TAT
1 TTTTAAAAAAATTACTAT
11226285 TTTTA
1 TTTTA
11226290 TTATTTTCAA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
17 7 0.22
18 12 0.38
19 13 0.41
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (18 bp):
TTTTAAAAAAATTACTAT
Found at i:11226287 original size:18 final size:18
Alignment explanation
Indices: 11226231--11226288 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
11226221 TATATCAAAA
* *
11226231 TTTTAAAAAAATTACAAT
1 TTTTAAAAAAATTATATT
* * *
11226249 TTTAAAAAAAATAGATTTT
1 TTTTAAAAAAAT-TATATT
11226268 TTTTAAAAAAATTATATT
1 TTTTAAAAAAATTATATT
11226286 TTT
1 TTT
11226289 ATTATTTTCA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
18 18 0.58
19 13 0.42
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (18 bp):
TTTTAAAAAAATTATATT
Found at i:11226423 original size:9 final size:8
Alignment explanation
Indices: 11226411--11226495 Score: 64
Period size: 9 Copynumber: 9.8 Consensus size: 8
11226401 TTTTGAGCAT
11226411 TTTTTTAA
1 TTTTTTAA
11226419 GTTTTTTAA
1 -TTTTTTAA
11226428 GTTTTTTAAA
1 -TTTTTT-AA
*
11226438 TTTTCATATA
1 TTTT-TTA-A
11226448 TTTTTTAAA
1 TTTTTT-AA
11226457 TTTTTTAA
1 TTTTTTAA
*
11226465 TATTTT-A
1 TTTTTTAA
*
11226472 GTTTTTAA
1 TTTTTTAA
11226480 TATTTTATAA
1 T-TTTT-TAA
11226490 TTTTTT
1 TTTTTT
11226496 TAAATATTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
7 5 0.08
8 9 0.14
9 36 0.57
10 13 0.21
ACGTcount: A:0.27, C:0.01, G:0.04, T:0.68
Consensus pattern (8 bp):
TTTTTTAA
Found at i:11226467 original size:19 final size:19
Alignment explanation
Indices: 11226411--11226514 Score: 78
Period size: 18 Copynumber: 5.8 Consensus size: 19
11226401 TTTTGAGCAT
* *
11226411 TTTTTTAAGTTTTTTAA-G
1 TTTTTTAAATTTTTTAATA
*
11226429 TTTTTTAAA-TTTTCATATA
1 TTTTTTAAATTTTTTA-ATA
11226448 TTTTTTAAATTTTTTAATA
1 TTTTTTAAATTTTTTAATA
*
11226467 --TTTT--AGTTTTTAATA
1 TTTTTTAAATTTTTTAATA
* *
11226482 TTTTATAATTTTTTTAA-A
1 TTTTTTAAATTTTTTAATA
* *
11226500 TATTTCAAATTTTTT
1 TTTTTTAAATTTTTT
11226515 TAATTTAAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
15 10 0.15
17 12 0.18
18 21 0.31
19 19 0.28
20 5 0.07
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTTTAAATTTTTTAATA
Found at i:11226478 original size:15 final size:15
Alignment explanation
Indices: 11226458--11226486 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11226448 TTTTTTAAAT
11226458 TTTTTAATATTTTAG
1 TTTTTAATATTTTAG
11226473 TTTTTAATATTTTA
1 TTTTTAATATTTTA
11226487 TAATTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTTTAATATTTTAG
Found at i:11226492 original size:23 final size:24
Alignment explanation
Indices: 11226449--11226495 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
11226439 TTTCATATAT
*
11226449 TTTTTAAATTTTTTAATATTTTAG
1 TTTTTAAATTTTATAATATTTTAG
*
11226473 TTTTTAATATTTTATAATTTTTT
1 TTTTTAA-ATTTTATAATATTTT
11226496 TAAATATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTTTAAATTTTATAATATTTTAG
Found at i:11226515 original size:19 final size:19
Alignment explanation
Indices: 11226429--11226517 Score: 72
Period size: 19 Copynumber: 4.4 Consensus size: 19
11226419 GTTTTTTAAG
*
11226429 TTTTTTAAAT-TTTCATAT
1 TTTTTTAAATATTTCAAAT
* *
11226447 ATTTTTTAAATTTTTTAATATT
1 -TTTTTTAAATATTTCAA-A-T
* *
11226469 TTAGTTTTTAATATTTTATAAT
1 TT--TTTTAAATATTTCA-AAT
11226491 TTTTTTAAATATTTCAAAT
1 TTTTTTAAATATTTCAAAT
11226510 TTTTTTAA
1 TTTTTTAA
11226518 TTTAAAATTT
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
19 21 0.36
20 16 0.28
21 3 0.05
22 4 0.07
23 13 0.22
24 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.65
Consensus pattern (19 bp):
TTTTTTAAATATTTCAAAT
Found at i:11226519 original size:9 final size:9
Alignment explanation
Indices: 11226409--11226520 Score: 61
Period size: 9 Copynumber: 12.4 Consensus size: 9
11226399 AATTTTGAGC
11226409 ATTTTTTTA
1 ATTTTTTTA
*
11226418 AGTTTTTTA
1 ATTTTTTTA
*
11226427 AGTTTTTTA
1 ATTTTTTTA
* *
11226436 A-ATTTTCA
1 ATTTTTTTA
11226444 TATATTTTTTA
1 -AT-TTTTTTA
*
11226455 AATTTTTTA
1 ATTTTTTTA
*
11226464 A-TATTTT-
1 ATTTTTTTA
*
11226471 A-GTTTTTA
1 ATTTTTTTA
*
11226479 ATATTTTATA
1 AT-TTTTTTA
11226489 ATTTTTTTAA
1 ATTTTTTT-A
* **
11226499 ATATTTCAA
1 ATTTTTTTA
11226508 ATTTTTTTA
1 ATTTTTTTA
11226517 ATTT
1 ATTT
11226521 AAAATTTTTT
Statistics
Matches: 78, Mismatches: 18, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
7 5 0.06
8 11 0.14
9 43 0.55
10 14 0.18
11 5 0.06
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:11226520 original size:16 final size:16
Alignment explanation
Indices: 11226501--11226531 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11226491 TTTTTTAAAT
*
11226501 ATTTCAAATTTTTTTA
1 ATTTAAAATTTTTTTA
11226517 ATTTAAAATTTTTTT
1 ATTTAAAATTTTTTT
11226532 TTTTGAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTAAAATTTTTTTA
Found at i:11226533 original size:21 final size:23
Alignment explanation
Indices: 11226509--11226555 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
11226499 ATATTTCAAA
11226509 TTTTTTT-AA-TTT-AAAATTTT
1 TTTTTTTGAATTTTGAAAATTTT
11226529 TTTTTTTGAATTTTTGAAAATTTT
1 TTTTTTTGAA-TTTTGAAAATTTT
11226553 TTT
1 TTT
11226556 AGAAATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.30
21 2 0.09
23 3 0.13
24 11 0.48
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (23 bp):
TTTTTTTGAATTTTGAAAATTTT
Found at i:11226906 original size:12 final size:12
Alignment explanation
Indices: 11226889--11226920 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
11226879 AAACATCTTT
11226889 ATAATTTACCAA
1 ATAATTTACCAA
*
11226901 ATAATTTATCAA
1 ATAATTTACCAA
11226913 ATAATTTA
1 ATAATTTA
11226921 ATTATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (12 bp):
ATAATTTACCAA
Found at i:11227572 original size:7 final size:7
Alignment explanation
Indices: 11227562--11227613 Score: 68
Period size: 7 Copynumber: 7.1 Consensus size: 7
11227552 TTAAAATAAT
*
11227562 AAATTAA
1 AAATCAA
*
11227569 AAATTAAA
1 AAATCA-A
11227577 AAAATCAA
1 AAA-TCAA
11227585 AAATCAA
1 AAATCAA
11227592 AAATCAA
1 AAATCAA
11227599 AAATCAA
1 AAATCAA
11227606 AAATCAA
1 AAATCAA
11227613 A
1 A
11227614 GAAGAAACTT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
7 32 0.76
8 8 0.19
9 2 0.05
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (7 bp):
AAATCAA
Found at i:11227595 original size:14 final size:14
Alignment explanation
Indices: 11227576--11227613 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
11227566 TAAAAATTAA
11227576 AAAAATCAAAAATC
1 AAAAATCAAAAATC
11227590 AAAAATCAAAAATC
1 AAAAATCAAAAATC
11227604 AAAAATCAAA
1 AAAAATCAAA
11227614 GAAGAAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAATCAAAAATC
Found at i:11228639 original size:6 final size:6
Alignment explanation
Indices: 11228628--11228698 Score: 70
Period size: 6 Copynumber: 11.7 Consensus size: 6
11228618 GACTAAACAT
** * * *
11228628 AATTAA AATTAA AATTAAA AACCAA AATTAA AATCAA AATTAA GACTAA
1 AATTAA AATTAA AATT-AA AATTAA AATTAA AATTAA AATTAA AATTAA
**
11228677 AATTAA AACCAA AATTAA AATT
1 AATTAA AATTAA AATTAA AATT
11228699 TTTAGGCTTT
Statistics
Matches: 50, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
6 46 0.92
7 4 0.08
ACGTcount: A:0.65, C:0.08, G:0.01, T:0.25
Consensus pattern (6 bp):
AATTAA
Found at i:11228645 original size:12 final size:12
Alignment explanation
Indices: 11228628--11228696 Score: 84
Period size: 12 Copynumber: 5.7 Consensus size: 12
11228618 GACTAAACAT
**
11228628 AATTAAAATTAA
1 AATTAAAACCAA
11228640 AATTAAAAACCAA
1 AATT-AAAACCAA
*
11228653 AATTAAAATCAA
1 AATTAAAACCAA
* *
11228665 AATTAAGACTAA
1 AATTAAAACCAA
11228677 AATTAAAACCAA
1 AATTAAAACCAA
11228689 AATTAAAA
1 AATTAAAA
11228697 TTTTTAGGCT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
12 38 0.79
13 10 0.21
ACGTcount: A:0.67, C:0.09, G:0.01, T:0.23
Consensus pattern (12 bp):
AATTAAAACCAA
Found at i:11229170 original size:18 final size:18
Alignment explanation
Indices: 11229120--11229305 Score: 73
Period size: 18 Copynumber: 10.4 Consensus size: 18
11229110 TCAAGTTTCG
* *
11229120 TAAAGATTCCAAAAGTTCA
1 TAAAGATTCTAAGA-TTCA
*
11229139 TAAACGATTC-AAGATTCT
1 TAAA-GATTCTAAGATTCA
*
11229157 TAAAGATTCTAAGAATCA
1 TAAAGATTCTAAGATTCA
* * * *
11229175 TAAAGGTTTTATGA-TCT
1 TAAAGATTCTAAGATTCA
* *
11229192 TAAAGGTTCTAAAATTCA
1 TAAAGATTCTAAGATTCA
* *
11229210 TAAAAATT-TCAAGATTCG
1 TAAAGATTCT-AAGATTCA
* *
11229228 CAAAAATT-TCAAGATTC-
1 TAAAGATTCT-AAGATTCA
*
11229245 TCAAAGGTT-TCAA-ATTCA
1 T-AAAGATTCT-AAGATTCA
* * * * *
11229263 AAAAAATTTTAAGTTTTA
1 TAAAGATTCTAAGATTCA
*
11229281 TAGAGATTCTAA-ATTCA
1 TAAAGATTCTAAGATTCA
11229298 TAAAGATT
1 TAAAGATT
11229306 TTAGATTTGC
Statistics
Matches: 127, Mismatches: 32, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
17 40 0.31
18 75 0.59
19 7 0.06
20 5 0.04
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (18 bp):
TAAAGATTCTAAGATTCA
Found at i:11229355 original size:17 final size:17
Alignment explanation
Indices: 11229303--11229358 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
11229293 ATTCATAAAG
11229303 ATTTTAGATTTGCA-AAGA
1 ATTTTAGA-TT-CACAAGA
*
11229321 TTTTTAGATTCACAAGA
1 ATTTTAGATTCACAAGA
*
11229338 ATTTTAGGTTCACAAGA
1 ATTTTAGATTCACAAGA
11229355 ATTT
1 ATTT
11229359 CAAGTTCGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
16 2 0.06
17 25 0.74
18 7 0.21
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (17 bp):
ATTTTAGATTCACAAGA
Found at i:11229365 original size:17 final size:17
Alignment explanation
Indices: 11229329--11229426 Score: 58
Period size: 17 Copynumber: 5.8 Consensus size: 17
11229319 GATTTTTAGA
* *
11229329 TTCACAAGAATTTTAGG
1 TTCACAAGAATTTCAAG
11229346 TTCACAAGAATTTCAAG
1 TTCACAAGAATTTCAAG
** *
11229363 TTCGTAAAAATTTC-AG
1 TTCACAAGAATTTCAAG
** *
11229379 TTTTGCAAGACTTTCAAG
1 -TTCACAAGAATTTCAAG
**
11229397 TTTGCAA-AACTTTC-AG
1 TTCACAAGAA-TTTCAAG
11229413 ATTCACAAGAATTT
1 -TTCACAAGAATTT
11229427 AGATTCGTAA
Statistics
Matches: 64, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
16 5 0.08
17 55 0.86
18 4 0.06
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (17 bp):
TTCACAAGAATTTCAAG
Found at i:11229388 original size:34 final size:34
Alignment explanation
Indices: 11229337--11229426 Score: 99
Period size: 34 Copynumber: 2.6 Consensus size: 34
11229327 GATTCACAAG
* * *
11229337 AATTTTAGGTTCACAAGAATTTCAAGTTCGTAAA
1 AATTTCAGATTCACAAGAATTTCAAGTTCGCAAA
* ** * *
11229371 AATTTCAGTTTTGCAAGACTTTCAAGTTTGCAAA
1 AATTTCAGATTCACAAGAATTTCAAGTTCGCAAA
*
11229405 ACTTTCAGATTCACAAGAATTT
1 AATTTCAGATTCACAAGAATTT
11229427 AGATTCGTAA
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (34 bp):
AATTTCAGATTCACAAGAATTTCAAGTTCGCAAA
Found at i:11229491 original size:33 final size:33
Alignment explanation
Indices: 11229454--11229529 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
11229444 GATCTACAAA
* *
11229454 AATTTTAGATTAATAAAAACTCATATTTGCAAG
1 AATTTTAGATTAATAAAAACTCAAATTCGCAAG
* * * *
11229487 AATTTTAGATTCATAAATACTTAAATTCGTAAG
1 AATTTTAGATTAATAAAAACTCAAATTCGCAAG
11229520 AA-TTTAGATT
1 AATTTTAGATT
11229530 TGCAAAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 8 0.22
33 29 0.78
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.39
Consensus pattern (33 bp):
AATTTTAGATTAATAAAAACTCAAATTCGCAAG
Found at i:11229563 original size:16 final size:16
Alignment explanation
Indices: 11229491--11229566 Score: 62
Period size: 16 Copynumber: 4.7 Consensus size: 16
11229481 TGCAAGAATT
* *
11229491 TTAGATTCATAAATAC
1 TTAGATTCGTAAAAAC
* * *
11229507 TTAAATTCGTAAGAAT
1 TTAGATTCGTAAAAAC
* * *
11229523 TTAGATTTGCAAAAATT
1 TTAGATTCGTAAAAA-C
*
11229540 TTAAATTCGTAAAAAC
1 TTAGATTCGTAAAAAC
11229556 TTAGATTCGTA
1 TTAGATTCGTA
11229567 GGAATTCAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
16 32 0.71
17 13 0.29
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (16 bp):
TTAGATTCGTAAAAAC
Found at i:11229591 original size:49 final size:48
Alignment explanation
Indices: 11229478--11229589 Score: 143
Period size: 49 Copynumber: 2.3 Consensus size: 48
11229468 AAAAACTCAT
* * * *
11229478 ATTTGCAAGAATTTTAGATTCATAAATACTTAAATTCGTAAGAATTTAG
1 ATTTGCAA-AATTTTAAATTCATAAAAACTTAAATTCGTAAGAATTCAA
* * *
11229527 ATTTGCAAAAATTTTAAATTCGTAAAAACTTAGATTCGTAGGAATTCAA
1 ATTTGC-AAAATTTTAAATTCATAAAAACTTAAATTCGTAAGAATTCAA
11229576 ATTTGCAAAATTTT
1 ATTTGCAAAATTTT
11229590 TAGTTTCACC
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
48 8 0.15
49 45 0.82
50 2 0.04
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (48 bp):
ATTTGCAAAATTTTAAATTCATAAAAACTTAAATTCGTAAGAATTCAA
Found at i:11229837 original size:22 final size:22
Alignment explanation
Indices: 11229812--11229873 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 22
11229802 ATTTTGGGGT
11229812 TTCACATTTAAAATTTTAAAGA
1 TTCACATTTAAAATTTTAAAGA
* *
11229834 TTCACATTTGATAAACTTTAGAGA
1 TTCACATTT-A-AAATTTTAAAGA
* *
11229858 TTCACAATCAAAATTT
1 TTCACATTTAAAATTT
11229874 CAAATATTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 14 0.42
23 2 0.06
24 17 0.52
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (22 bp):
TTCACATTTAAAATTTTAAAGA
Found at i:11231425 original size:19 final size:20
Alignment explanation
Indices: 11231384--11231427 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
11231374 TTTTTTCTTC
* **
11231384 TTTTTTCATTCTTTCTTTTT
1 TTTTTTCATTCTTTATTAAT
11231404 TTTTTTCATT-TTTATTAAT
1 TTTTTTCATTCTTTATTAAT
11231423 TTTTT
1 TTTTT
11231428 ATTTCACACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTTCATTCTTTATTAAT
Found at i:11231425 original size:20 final size:20
Alignment explanation
Indices: 11231384--11231427 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
11231374 TTTTTTCTTC
* *
11231384 TTTTTTCATTCTTTCTTTTT
1 TTTTTTCATTCTTTATTATT
11231404 TTTTTTCATT-TTTATTAATT
1 TTTTTTCATTCTTTATT-ATT
11231424 TTTT
1 TTTT
11231428 ATTTCACACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTTCATTCTTTATTATT
Found at i:11237098 original size:15 final size:16
Alignment explanation
Indices: 11237080--11237111 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
11237070 CTTATTCTAT
11237080 TTTTTTACT-TTTGAC
1 TTTTTTACTCTTTGAC
11237095 TTTTTTACTCTTTGAC
1 TTTTTTACTCTTTGAC
11237111 T
1 T
11237112 AAAAATAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.12, C:0.16, G:0.06, T:0.66
Consensus pattern (16 bp):
TTTTTTACTCTTTGAC
Found at i:11237154 original size:6 final size:6
Alignment explanation
Indices: 11237128--11237217 Score: 63
Period size: 6 Copynumber: 15.0 Consensus size: 6
11237118 AATGAAAACC
* * * ** *
11237128 AAAATC AAAATT AAGACT AAAATT AAAACC AAAATT AAAATT AAAACT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
** ** * * *
11237176 AAAATT AAAACC AGGATT AAAACT AAAACT AAAATT ATAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
11237218 TTCGAGCTTT
Statistics
Matches: 62, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.24
Consensus pattern (6 bp):
AAAATT
Found at i:11237155 original size:18 final size:18
Alignment explanation
Indices: 11237145--11237185 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
11237135 AAATTAAGAC
11237145 TAAAATTAAAACCAAAAT
1 TAAAATTAAAACCAAAAT
*
11237163 TAAAATTAAAACTAAAAT
1 TAAAATTAAAACCAAAAT
11237181 TAAAA
1 TAAAA
11237186 CCAGGATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.24
Consensus pattern (18 bp):
TAAAATTAAAACCAAAAT
Found at i:11237156 original size:30 final size:30
Alignment explanation
Indices: 11237122--11237212 Score: 137
Period size: 30 Copynumber: 3.0 Consensus size: 30
11237112 AAAAATAATG
* *
11237122 AAAACCAAAATCAAAATTAAGACTAAAATT
1 AAAACCAAAATTAAAATTAAAACTAAAATT
11237152 AAAACCAAAATTAAAATTAAAACTAAAATT
1 AAAACCAAAATTAAAATTAAAACTAAAATT
** *
11237182 AAAACCAGGATTAAAACTAAAACTAAAATT
1 AAAACCAAAATTAAAATTAAAACTAAAATT
11237212 A
1 A
11237213 TAATTTTCGA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.64, C:0.12, G:0.03, T:0.21
Consensus pattern (30 bp):
AAAACCAAAATTAAAATTAAAACTAAAATT
Found at i:11242633 original size:2 final size:2
Alignment explanation
Indices: 11242567--11242617 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
11242557 ATGCAAGCTA
*
11242567 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11242608 AT AT AT AT AT
1 AT AT AT AT AT
11242618 TAAGTTGTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11247831 original size:12 final size:12
Alignment explanation
Indices: 11247810--11247913 Score: 103
Period size: 12 Copynumber: 9.2 Consensus size: 12
11247800 CATGTCTATG
11247810 TGCATG-ATGTA
1 TGCATGTATGTA
11247821 TGCATGTATGTA
1 TGCATGTATGTA
*
11247833 T--A--TACGTA
1 TGCATGTATGTA
*
11247841 TGCATGCATGTA
1 TGCATGTATGTA
*
11247853 TGTATGTATGTA
1 TGCATGTATGTA
* *
11247865 TGCATGTCTGTC
1 TGCATGTATGTA
*
11247877 TGCGTG-ATGTA
1 TGCATGTATGTA
11247888 TGCATGTATGTA
1 TGCATGTATGTA
*
11247900 TGTATGTATGTA
1 TGCATGTATGTA
11247912 TG
1 TG
11247914 TTCTAATCCA
Statistics
Matches: 74, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
8 6 0.08
10 2 0.03
11 14 0.19
12 52 0.70
ACGTcount: A:0.23, C:0.10, G:0.26, T:0.41
Consensus pattern (12 bp):
TGCATGTATGTA
Found at i:11247833 original size:4 final size:4
Alignment explanation
Indices: 11247816--11247914 Score: 92
Period size: 4 Copynumber: 25.0 Consensus size: 4
11247806 TATGTGCATG
* * * * *
11247816 ATGT ATGC ATGT ATGT ATAT ACGT ATGC ATGC ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * *
11247864 ATGC ATGT CTGT CTGC GTG- ATGT ATGC ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
11247911 ATGT
1 ATGT
11247915 TCTAATCCAA
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
3 2 0.03
4 76 0.97
ACGTcount: A:0.23, C:0.09, G:0.25, T:0.42
Consensus pattern (4 bp):
ATGT
Found at i:11249746 original size:2 final size:2
Alignment explanation
Indices: 11249739--11249764 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11249729 TATTCTAAAT
11249739 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
11249765 ATAGTTACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11258062 original size:13 final size:13
Alignment explanation
Indices: 11258046--11258070 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11258036 TCAGTATTGG
11258046 AATTAATTATTAA
1 AATTAATTATTAA
11258059 AATTAATTATTA
1 AATTAATTATTA
11258071 TATTATTCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATTAATTATTAA
Found at i:11265073 original size:2 final size:2
Alignment explanation
Indices: 11265066--11265094 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11265056 TTCAACATCA
11265066 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11265095 AAAAGGAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11270893 original size:16 final size:16
Alignment explanation
Indices: 11270872--11270906 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
11270862 ATGCCTTCTC
11270872 AAGTCCAAAAATTTCA
1 AAGTCCAAAAATTTCA
11270888 AAGTCCAAAAATTTCA
1 AAGTCCAAAAATTTCA
11270904 AAG
1 AAG
11270907 CCCTAGCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.17, G:0.09, T:0.23
Consensus pattern (16 bp):
AAGTCCAAAAATTTCA
Found at i:11276029 original size:79 final size:80
Alignment explanation
Indices: 11275917--11276070 Score: 238
Period size: 79 Copynumber: 1.9 Consensus size: 80
11275907 ACTATGAGGA
* * *
11275917 AAATATTTTTTGAGGAAAAGTACCACGAGTCCAAGCTTACATTAATCTCCGTCTATCTTGGTCAA
1 AAATATTTTTTGAGGAAAAGTACCACGAATCCAAGCTTACATTAATCTCCATCTATCTTCGTCAA
11275982 ACAATAGCAATGTTT
66 ACAATAGCAATGTTT
* * * *
11275997 AAAT-TTTTTTTAGGAAAAGTACCATGAATCCAAGCTTACATTACTCTCTATCTATCTTCGTCAA
1 AAATATTTTTTGAGGAAAAGTACCACGAATCCAAGCTTACATTAATCTCCATCTATCTTCGTCAA
11276061 ACAATAGCAA
66 ACAATAGCAA
11276071 AAGTTAAATC
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
79 63 0.94
80 4 0.06
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.33
Consensus pattern (80 bp):
AAATATTTTTTGAGGAAAAGTACCACGAATCCAAGCTTACATTAATCTCCATCTATCTTCGTCAA
ACAATAGCAATGTTT
Found at i:11283553 original size:24 final size:24
Alignment explanation
Indices: 11283517--11283562 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
11283507 TTGTTCTTTG
* * *
11283517 TTTTCTTTTTTTTAAATTTTTACT
1 TTTTCTCTATTTTAAATATTTACT
*
11283541 TTTTCTCTATTTTTAATATTTA
1 TTTTCTCTATTTTAAATATTTA
11283563 ATAAATATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTTCTCTATTTTAAATATTTACT
Found at i:11284480 original size:19 final size:19
Alignment explanation
Indices: 11284451--11284499 Score: 89
Period size: 19 Copynumber: 2.5 Consensus size: 19
11284441 ATTTTATTAT
11284451 TTTTTTAATTTTTAACTTTA
1 TTTTTT-ATTTTTAACTTTA
11284471 TTTTTTATTTTTAACTTTA
1 TTTTTTATTTTTAACTTTA
11284490 TTTTTTATTT
1 TTTTTTATTT
11284500 ATATGTATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 23 0.79
20 6 0.21
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTATTTTTAACTTTA
Found at i:11285416 original size:7 final size:7
Alignment explanation
Indices: 11285399--11285445 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
11285389 TCAATAATAT
11285399 TTTTTTCA
1 TTTTTT-A
11285407 TTTTTTA
1 TTTTTTA
11285414 TTTTTTA
1 TTTTTTA
**
11285421 -TTACT-
1 TTTTTTA
11285426 TTTTTTA
1 TTTTTTA
11285433 TTTTTTA
1 TTTTTTA
11285440 TTTTTT
1 TTTTTT
11285446 TATTAATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
6 6 0.18
7 21 0.64
8 6 0.18
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTA
Found at i:11285428 original size:26 final size:27
Alignment explanation
Indices: 11285399--11285450 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
11285389 TCAATAATAT
11285399 TTTTTTCATTTTTTA-TTTTTTATTAC
1 TTTTTTCATTTTTTATTTTTTTATTAC
*
11285425 TTTTTTTATTTTTTATTTTTTTATTA
1 TTTTTTCATTTTTTATTTTTTTATTA
11285451 ATAAAGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (27 bp):
TTTTTTCATTTTTTATTTTTTTATTAC
Found at i:11285444 original size:27 final size:27
Alignment explanation
Indices: 11285398--11285450 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
11285388 TTCAATAATA
11285398 TTTTTTTCATTTTTTATTTTTTATTAC
1 TTTTTTTCATTTTTTATTTTTTATTAC
11285425 TTTTTTT-ATTTTTTATTTTTTTATTA
1 TTTTTTTCATTTTTTA-TTTTTTATTA
11285451 ATAAAGTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (27 bp):
TTTTTTTCATTTTTTATTTTTTATTAC
Found at i:11289490 original size:18 final size:19
Alignment explanation
Indices: 11289447--11289492 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
11289437 CCCTTTATGA
*
11289447 GTTACTTTTTTCATTTTTC
1 GTTATTTTTTTCATTTTTC
* *
11289466 ATT-TTTTTTTCGTTTTT-
1 GTTATTTTTTTCATTTTTC
11289483 GTTATTTTTT
1 GTTATTTTTT
11289493 ACTTTTTACA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
17 2 0.09
18 18 0.82
19 2 0.09
ACGTcount: A:0.09, C:0.09, G:0.07, T:0.76
Consensus pattern (19 bp):
GTTATTTTTTTCATTTTTC
Found at i:11292073 original size:13 final size:13
Alignment explanation
Indices: 11292055--11292111 Score: 80
Period size: 14 Copynumber: 4.2 Consensus size: 13
11292045 CAAATAAAGT
11292055 AAATACAAAAATA
1 AAATACAAAAATA
11292068 AAATACAAAAATAA
1 AAATACAAAAAT-A
11292082 AAATACAAAATGATA
1 AAATACAAAA--ATA
11292097 AAAT-CAAAAATA
1 AAATACAAAAATA
11292109 AAA
1 AAA
11292112 ATAATAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.15
13 12 0.29
14 16 0.39
15 5 0.12
16 2 0.05
ACGTcount: A:0.75, C:0.07, G:0.02, T:0.16
Consensus pattern (13 bp):
AAATACAAAAATA
Found at i:11292080 original size:21 final size:20
Alignment explanation
Indices: 11292055--11292132 Score: 63
Period size: 21 Copynumber: 3.8 Consensus size: 20
11292045 CAAATAAAGT
11292055 AAATACAAAAATAAAATACAA
1 AAATACAAAAATAAAATA-AA
* *
11292076 AAATA-AAAATACAAAATGATA
1 AAATACAAAA-ATAAAAT-AAA
11292097 AAAT-CAAAAATAAAAATAATA
1 AAATACAAAAAT-AAAATAA-A
*
11292118 AAATAGAAAAA-AAAA
1 AAATACAAAAATAAAA
11292133 CTTGCAACCG
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
20 10 0.22
21 30 0.65
22 6 0.13
ACGTcount: A:0.77, C:0.05, G:0.03, T:0.15
Consensus pattern (20 bp):
AAATACAAAAATAAAATAAA
Found at i:11292084 original size:14 final size:14
Alignment explanation
Indices: 11292055--11292127 Score: 82
Period size: 13 Copynumber: 5.2 Consensus size: 14
11292045 CAAATAAAGT
11292055 AAATACAAAAAT-A
1 AAATACAAAAATAA
11292068 AAATACAAAAATAA
1 AAATACAAAAATAA
11292082 AAATAC-AAAATGATA
1 AAATACAAAAAT-A-A
11292097 AAAT-CAAAAATAA
1 AAATACAAAAATAA
11292110 AAATA-ATAAAATAGA
1 AAATACA-AAAATA-A
11292125 AAA
1 AAA
11292128 AAAAACTTGC
Statistics
Matches: 53, Mismatches: 0, Indels: 12
0.82 0.00 0.18
Matches are distributed among these distances:
13 23 0.43
14 16 0.30
15 14 0.26
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.16
Consensus pattern (14 bp):
AAATACAAAAATAA
Found at i:11292099 original size:8 final size:6
Alignment explanation
Indices: 11292061--11292115 Score: 56
Period size: 6 Copynumber: 8.3 Consensus size: 6
11292051 AAGTAAATAC
*
11292061 AAAAAT AAAATAC AAAAAT AAAAAT ACAAAAT GATAAAAT CAAAAAT AAAAAT
1 AAAAAT AAAA-AT AAAAAT AAAAAT A-AAAAT -A-AAAAT -AAAAAT AAAAAT
11292114 AA
1 AA
11292116 TAAAATAGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
6 20 0.48
7 15 0.36
8 7 0.17
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:11292127 original size:28 final size:29
Alignment explanation
Indices: 11292055--11292127 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 29
11292045 CAAATAAAGT
*
11292055 AAATACAAAA--ATAAAATACAAAAATAA
1 AAATACAAAATGAGAAAATACAAAAATAA
*
11292082 AAATACAAAATGATAAAAT-CAAAAATAA
1 AAATACAAAATGAGAAAATACAAAAATAA
*
11292110 AAATAATAAAAT-AGAAAA
1 AAAT-ACAAAATGAGAAAA
11292128 AAAAACTTGC
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
27 10 0.24
28 18 0.44
29 13 0.32
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.16
Consensus pattern (29 bp):
AAATACAAAATGAGAAAATACAAAAATAA
Found at i:11292971 original size:13 final size:13
Alignment explanation
Indices: 11292955--11293027 Score: 112
Period size: 13 Copynumber: 5.5 Consensus size: 13
11292945 TAATAATAAT
*
11292955 ATAATATGATATA
1 ATAATATAATATA
11292968 ATAATAATAATGATA
1 ATAAT-ATAAT-ATA
11292983 AT-ATATAATATA
1 ATAATATAATATA
11292995 ATAATATAATATA
1 ATAATATAATATA
11293008 ATAATATAATATA
1 ATAATATAATATA
11293021 ATAATAT
1 ATAATAT
11293028 TATAATATAT
Statistics
Matches: 56, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
12 5 0.09
13 40 0.71
14 6 0.11
15 5 0.09
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (13 bp):
ATAATATAATATA
Found at i:11293036 original size:5 final size:5
Alignment explanation
Indices: 11292944--11293036 Score: 79
Period size: 5 Copynumber: 18.6 Consensus size: 5
11292934 AAAATAAAAA
* *
11292944 ATAAT AATAAT ATAAT ATGAT ATAAT AATAAT AATGAT A-ATAT ATAAT
1 ATAAT -ATAAT ATAAT ATAAT ATAAT -ATAAT -ATAAT ATA-AT ATAAT
*
11292992 AT-A- ATAAT ATAAT AT-A- ATAAT ATAAT ATAAT AATATT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATA
11293037 TCGTACTATA
Statistics
Matches: 73, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
3 4 0.05
4 4 0.05
5 45 0.62
6 20 0.27
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:11293076 original size:17 final size:17
Alignment explanation
Indices: 11293054--11293113 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
11293044 ATACTATACT
11293054 AATAATAACAATAATAA
1 AATAATAACAATAATAA
11293071 AATAATAAC-A-AATAA
1 AATAATAACAATAATAA
** *
11293086 AACTAATATTAATAACAA
1 AA-TAATAACAATAATAA
11293104 AATAATAACA
1 AATAATAACA
11293114 GCAATAGTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 7 0.20
16 6 0.17
17 16 0.46
18 6 0.17
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.23
Consensus pattern (17 bp):
AATAATAACAATAATAA
Found at i:11293112 original size:11 final size:11
Alignment explanation
Indices: 11293063--11293113 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
11293053 TAATAATAAC
*
11293063 AATAATAAAAT
1 AATAACAAAAT
11293074 AATAAC-AAAT
1 AATAACAAAAT
*
11293084 AA-AACTAATATT
1 AATAAC-AA-AAT
11293096 AATAACAAAAT
1 AATAACAAAAT
11293107 AATAACA
1 AATAACA
11293114 GCAATAGTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
9 3 0.09
10 6 0.18
11 15 0.45
12 6 0.18
13 3 0.09
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.24
Consensus pattern (11 bp):
AATAACAAAAT
Found at i:11293129 original size:3 final size:3
Alignment explanation
Indices: 11292930--11293111 Score: 99
Period size: 3 Copynumber: 64.7 Consensus size: 3
11292920 AAACAAGAAA
* *
11292930 AAT AAA AAT AA- AA- AAT AAT AAT AAT -AT AAT -AT GAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
11292973 AAT AAT GAT AAT ATAT AAT -AT AAT AAT -AT AAT -AT AAT AAT -AT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** * * *
11293015 AAT -AT AAT AAT -AT TAT AAT ATAT CGT ACT -AT ACT -AT ACT AAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
* * * *
11293057 AAT AAC AAT AAT AA- AAT AAT AACA AAT AA- AACT AAT ATT AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AA-T AAT AAT AAT AAT
11293102 AA- AAT AAT AA
1 AAT AAT AAT AA
11293112 CAGCAATAGT
Statistics
Matches: 139, Mismatches: 21, Indels: 38
0.70 0.11 0.19
Matches are distributed among these distances:
2 30 0.22
3 100 0.72
4 9 0.06
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11307969 original size:54 final size:53
Alignment explanation
Indices: 11307883--11307988 Score: 167
Period size: 54 Copynumber: 2.0 Consensus size: 53
11307873 TTGATCTTTT
* * *
11307883 TTTTTTTGGGTTTTCGAACTGGGGAACATTTTGTCTGAGTAACCGATCGATCA
1 TTTTTTTGGGTTTTCAAACTGGGAAACATTTTGTCTGAGCAACCGATCGATCA
*
11307936 TTTTTTTGGGTTTTCAAACTTGGGAAACATTTTGTCTGAGCAATCGATCGATC
1 TTTTTTTGGGTTTTCAAAC-TGGGAAACATTTTGTCTGAGCAACCGATCGATC
11307989 CTTTACCTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
53 18 0.38
54 30 0.62
ACGTcount: A:0.22, C:0.15, G:0.23, T:0.41
Consensus pattern (53 bp):
TTTTTTTGGGTTTTCAAACTGGGAAACATTTTGTCTGAGCAACCGATCGATCA
Done.