Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 203 of 253
Found at i:66713753 original size:32 final size:32
Alignment explanation
Indices: 66713717--66713784 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
66713707 ATAATATGAG
66713717 ATATTAAGTGATGTTGTCATGAAAAAGAGAAA
1 ATATTAAGTGATGTTGTCATGAAAAAGAGAAA
*
66713749 ATATTACGTGATGTTGTCATGAAAAAGAGAAA
1 ATATTAAGTGATGTTGTCATGAAAAAGAGAAA
66713781 ATAT
1 ATAT
66713785 GTGTTGTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.46, C:0.04, G:0.21, T:0.29
Consensus pattern (32 bp):
ATATTAAGTGATGTTGTCATGAAAAAGAGAAA
Found at i:66714211 original size:25 final size:25
Alignment explanation
Indices: 66714178--66714229 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
66714168 TTTTGTTCTC
* *
66714178 TTTATTATTT-ATTTTATAAAAAGTA
1 TTTAATATTTAATTTAATAAAAA-TA
66714203 TTTAATATTTAATTTAATAAAAATA
1 TTTAATATTTAATTTAATAAAAATA
66714228 TT
1 TT
66714230 AATTAAAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
TTTAATATTTAATTTAATAAAAATA
Found at i:66717934 original size:10 final size:9
Alignment explanation
Indices: 66717899--66717935 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
66717889 GGGTTTACCC
66717899 ACAATTAAA
1 ACAATTAAA
66717908 ACAATTAAA
1 ACAATTAAA
*
66717917 AAAATTAAA
1 ACAATTAAA
66717926 ACAACTTAAA
1 ACAA-TTAAA
66717936 CACTAACCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 20 0.80
10 5 0.20
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.22
Consensus pattern (9 bp):
ACAATTAAA
Found at i:66719478 original size:82 final size:82
Alignment explanation
Indices: 66719338--66719540 Score: 325
Period size: 82 Copynumber: 2.5 Consensus size: 82
66719328 TTGAGATGGT
* * * * * *
66719338 TAACATATTTTGTTTGTTTTTTGAAATGACTTGTTGAAATGTTTGGTTAATATTTTACTGTTATA
1 TAACATATTTTGTTTGTTTTTTGAAATGATTTGTTGAAATGGTTGATTAACATCTTACTGCTATA
66719403 GGATCATTTTGTTAGCA
66 GGATCATTTTGTTAGCA
66719420 TAACATATTTTGTTTGTTTTTTGAAATGATTTGTTGAAATGGTTGATTAACATCTTACTGCTATA
1 TAACATATTTTGTTTGTTTTTTGAAATGATTTGTTGAAATGGTTGATTAACATCTTACTGCTATA
*
66719485 GGATCATTTTGTTAGTA
66 GGATCATTTTGTTAGCA
* *
66719502 TAACATATTTTGTTTGTTTTTTAAAACGATTTGTTGAAA
1 TAACATATTTTGTTTGTTTTTTGAAATGATTTGTTGAAA
66719541 GATGTATACC
Statistics
Matches: 112, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 112 1.00
ACGTcount: A:0.27, C:0.06, G:0.16, T:0.50
Consensus pattern (82 bp):
TAACATATTTTGTTTGTTTTTTGAAATGATTTGTTGAAATGGTTGATTAACATCTTACTGCTATA
GGATCATTTTGTTAGCA
Found at i:66719673 original size:79 final size:79
Alignment explanation
Indices: 66719571--66719718 Score: 253
Period size: 79 Copynumber: 1.9 Consensus size: 79
66719561 TAGTAGCTTT
* *
66719571 TTTTTTTTAATATGAAATTGGTGAAAG-CCCATATATGAAAAGAGTGAACATGAAATTGGCAAGT
1 TTTTTTTTAACATGAAATTGGTG-AAGTCCCACATATGAAAAGAGTGAACATGAAATTGGCAAGT
66719635 GTATTTTATAGTAGC
65 GTATTTTATAGTAGC
*
66719650 TTTTTTTTAACATGAAATTGGTGAAGTCCTACATATGAAAAGAGTGAACATGAAATTGGCAAGTG
1 TTTTTTTTAACATGAAATTGGTGAAGTCCCACATATGAAAAGAGTGAACATGAAATTGGCAAGTG
66719715 TATT
66 TATT
66719719 AGATTTTTGT
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
78 3 0.05
79 62 0.95
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.35
Consensus pattern (79 bp):
TTTTTTTTAACATGAAATTGGTGAAGTCCCACATATGAAAAGAGTGAACATGAAATTGGCAAGTG
TATTTTATAGTAGC
Found at i:66720240 original size:18 final size:18
Alignment explanation
Indices: 66720201--66720316 Score: 164
Period size: 18 Copynumber: 6.5 Consensus size: 18
66720191 AATGATATGT
66720201 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
* *
66720218 AATCTTAAATATGATTGC
1 AATCTTAGATATGATTAC
66720236 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
66720253 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
*
66720271 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
*
66720289 AATCTTAAATATGATATAC
1 AATCTTAGATATGAT-TAC
66720308 AATCTTAGA
1 AATCTTAGA
66720317 AGATATGATT
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
17 29 0.33
18 49 0.56
19 10 0.11
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:66720241 original size:35 final size:36
Alignment explanation
Indices: 66720192--66720316 Score: 191
Period size: 35 Copynumber: 3.5 Consensus size: 36
66720182 ATAATCTTCA
*
66720192 ATGATATGTAATCTTAGATATGATACAATCTTAAAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAAAT
*
66720228 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAAAT
*
66720263 ATGAT-TGCAATCTTAGATATGATTGCAATCTTAAAT
1 ATGATATGCAATCTTAGATATGA-TACAATCTTAAAT
*
66720299 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
66720317 AGATATGATT
Statistics
Matches: 82, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
35 50 0.61
36 21 0.26
37 11 0.13
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (36 bp):
ATGATATGCAATCTTAGATATGATACAATCTTAAAT
Found at i:66720291 original size:53 final size:53
Alignment explanation
Indices: 66720201--66720316 Score: 180
Period size: 53 Copynumber: 2.2 Consensus size: 53
66720191 AATGATATGT
*
66720201 AATCTTAGATATGATACAATCTTAAATATGATTGCAATCTTAGATATG-ATAC
1 AATCTTAGATATGATACAATCTTAAATATGATTGCAATCTTAAATATGAATAC
* *
66720253 AATCTTAGATATGATTGCAATCTTAGATATGATTGCAATCTTAAATATGATATAC
1 AATCTTAGATATGA-TACAATCTTAAATATGATTGCAATCTTAAATATGA-ATAC
66720308 AATCTTAGA
1 AATCTTAGA
66720317 AGATATGATT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
52 14 0.24
53 31 0.53
55 13 0.22
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (53 bp):
AATCTTAGATATGATACAATCTTAAATATGATTGCAATCTTAAATATGAATAC
Found at i:66720819 original size:17 final size:16
Alignment explanation
Indices: 66720795--66720849 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
66720785 TAAACCAATA
66720795 TATTTTATATAATTAT
1 TATTTTATATAATTAT
66720811 TATTCTTATA-AATATAT
1 TATT-TTATATAAT-TAT
*
66720828 TTTTATTATAT-ATTA-
1 TATT-TTATATAATTAT
66720843 TATTTTA
1 TATTTTA
66720850 AATTTATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
14 3 0.09
15 3 0.09
16 9 0.27
17 18 0.55
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTTTATATAATTAT
Found at i:66720873 original size:26 final size:25
Alignment explanation
Indices: 66720826--66720874 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
66720816 TTATAAATAT
* * *
66720826 ATTTTTATTATATATTATATTTTAA
1 ATTTTTATTAAATATCACATTTTAA
66720851 ATTTATTATTAAATATCACATTTT
1 ATTT-TTATTAAATATCACATTTT
66720875 TTTATATGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTTTTATTAAATATCACATTTTAA
Found at i:66723853 original size:3 final size:3
Alignment explanation
Indices: 66723845--66723879 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
66723835 ATAATTTTAA
*
66723845 AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
66723880 CATAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:66725713 original size:133 final size:132
Alignment explanation
Indices: 66725559--66725805 Score: 345
Period size: 133 Copynumber: 1.9 Consensus size: 132
66725549 TTTATCTTAC
* * * *
66725559 TCCACTACAACTTTAGAGAGATAAATATTGTGGCTTCGATCCGCTCCACTGCAACTTCAAGGAGA
1 TCCACTACAACTTCAGAGAGATAAAGATTGTAGCTTCGATCCACTCCACTGCAACTTCAAGGAGA
*
66725624 TAA-GATCTGCTATCTTC-AGTCTACTCCACTACAACTTCAGGGAGATAAGACTTGTTATTTCAA
66 TAAGGAT-TG-TAGCTTCGA-TCTACTCCACTACAACTTCAGGGAGATAAGACTTGTTATTTCAA
66725687 CCTGA
128 CCTGA
* * * * *
66725692 TCCACTGCAACTTCAGAGAGATAAGGATTGTAGCTTCGATCTACTCCATTGCAACTTCAGGGAGA
1 TCCACTACAACTTCAGAGAGATAAAGATTGTAGCTTCGATCCACTCCACTGCAACTTCAAGGAGA
* *
66725757 TAAGGATTGTAGCTTCGATCTACTCTACTGCAACTTCAGGGAGATAAGA
66 TAAGGATTGTAGCTTCGATCTACTCCACTACAACTTCAGGGAGATAAGA
66725806 TCTGCTATCT
Statistics
Matches: 100, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
132 35 0.35
133 62 0.62
134 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (132 bp):
TCCACTACAACTTCAGAGAGATAAAGATTGTAGCTTCGATCCACTCCACTGCAACTTCAAGGAGA
TAAGGATTGTAGCTTCGATCTACTCCACTACAACTTCAGGGAGATAAGACTTGTTATTTCAACCT
GA
Found at i:66725787 original size:88 final size:89
Alignment explanation
Indices: 66725556--66725830 Score: 278
Period size: 89 Copynumber: 3.1 Consensus size: 89
66725546 ACTTTTATCT
* * * * **
66725556 TACTCCACTACAACTTTAGAGAGATAAATATTGTGGCTTCGATCCGCTCCACTGCAACTTCA-AG
1 TACTCCACTACAACTTCAGGGAGAT-AAGATTGTAGCTTCGATCTACTCCACTGCAACTTCAGA-
*
66725620 GAGATAA-GATCTGCTATCTTCAGTC
64 GAGATAAGGATCTGCTAGCTTCAGTC
* * *
66725645 TACTCCACTACAACTTCAGGGAGATAAGACTTGTTA-TTTCAACCTGA-TCCACTGCAACTTCAG
1 TACTCCACTACAACTTCAGGGAGATAAGA-TTG-TAGCTTCGATCT-ACTCCACTGCAACTTCAG
66725708 AGAGATAAGGAT-TG-TAGCTTC-GATC
63 AGAGATAAGGATCTGCTAGCTTCAG-TC
* * * *
66725733 TACTCCATTGCAACTTCAGGGAGATAAGGATTGTAGCTTCGATCTACTCTACTGCAACTTCAGGG
1 TACTCCACTACAACTTCAGGGAGATAA-GATTGTAGCTTCGATCTACTCCACTGCAACTTCAGAG
* *
66725798 AGATAA-GATCTGCTATCTTCAGCC
65 AGATAAGGATCTGCTAGCTTCAGTC
*
66725822 TACTTCACT
1 TACTCCACT
66725831 GCTGCTCAGG
Statistics
Matches: 153, Mismatches: 21, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
87 7 0.05
88 69 0.45
89 71 0.46
90 6 0.04
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (89 bp):
TACTCCACTACAACTTCAGGGAGATAAGATTGTAGCTTCGATCTACTCCACTGCAACTTCAGAGA
GATAAGGATCTGCTAGCTTCAGTC
Found at i:66725804 original size:44 final size:44
Alignment explanation
Indices: 66725556--66725804 Score: 256
Period size: 44 Copynumber: 5.6 Consensus size: 44
66725546 ACTTTTATCT
* * * ** *
66725556 TACTCCACTACAACTTTAGAGAGATAAATATTGTGGCTTCGATC
1 TACTCCACTGCAACTTCAGGGAGATAAGGATTGTAGCTTCGATC
** * *
66725600 CGCTCCACTGCAACTTCAAGGAGATAA-GATCTGCTATCTTC-AGTC
1 TACTCCACTGCAACTTCAGGGAGATAAGGAT-TG-TAGCTTCGA-TC
* * * *
66725645 TACTCCACTACAACTTCAGGGAGATAA-GACTTGTTA-TTTCAACC
1 TACTCCACTGCAACTTCAGGGAGATAAGGA-TTG-TAGCTTCGATC
*
66725689 TGA-TCCACTGCAACTTCAGAGAGATAAGGATTGTAGCTTCGATC
1 T-ACTCCACTGCAACTTCAGGGAGATAAGGATTGTAGCTTCGATC
*
66725733 TACTCCATTGCAACTTCAGGGAGATAAGGATTGTAGCTTCGATC
1 TACTCCACTGCAACTTCAGGGAGATAAGGATTGTAGCTTCGATC
*
66725777 TACTCTACTGCAACTTCAGGGAGATAAG
1 TACTCCACTGCAACTTCAGGGAGATAAG
66725805 ATCTGCTATC
Statistics
Matches: 171, Mismatches: 25, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
43 5 0.03
44 125 0.73
45 40 0.23
46 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.29
Consensus pattern (44 bp):
TACTCCACTGCAACTTCAGGGAGATAAGGATTGTAGCTTCGATC
Found at i:66725831 original size:133 final size:133
Alignment explanation
Indices: 66725556--66725832 Score: 339
Period size: 133 Copynumber: 2.1 Consensus size: 133
66725546 ACTTTTATCT
* * * * *
66725556 TACTCCACTACAACTTTAGAGAGATAAATATTGTGGCTTCGATCCGCTCCACTGCAACTTCAAGG
1 TACTCCACTGCAACTTCAGAGAGATAAAGATTGTAGCTTCGATCCACTCCACTGCAACTTCAAGG
* *
66725621 AGATAAGATCTGCTATCTTCAGTCTACTCCACTACAACTTCAGGGAGATAAGACTTGTTATTTCA
66 AGATAAGATCTGCTAGCTTCAGTCTACTCCACTACAACTTCAGGGAGATAAGACTTGCTATTTCA
66725686 ACC
131 ACC
* * * *
66725689 TGA-TCCACTGCAACTTCAGAGAGATAAGGATTGTAGCTTCGATCTACTCCATTGCAACTTCAGG
1 T-ACTCCACTGCAACTTCAGAGAGATAAAGATTGTAGCTTCGATCCACTCCACTGCAACTTCAAG
* *
66725753 GAGATAAGGAT-TG-TAGCTTC-GATCTACTCTACTGCAACTTCAGGGAGATAAGA-TCTGCTAT
65 GAGATAA-GATCTGCTAGCTTCAG-TCTACTCCACTACAACTTCAGGGAGATAAGACT-TGCTAT
*
66725814 CTTCAGCC
127 -TTCAACC
*
66725822 TACTTCACTGC
1 TACTCCACTGC
66725833 TGCTCAGGGA
Statistics
Matches: 123, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
131 2 0.02
132 41 0.33
133 76 0.62
134 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (133 bp):
TACTCCACTGCAACTTCAGAGAGATAAAGATTGTAGCTTCGATCCACTCCACTGCAACTTCAAGG
AGATAAGATCTGCTAGCTTCAGTCTACTCCACTACAACTTCAGGGAGATAAGACTTGCTATTTCA
ACC
Found at i:66725840 original size:88 final size:89
Alignment explanation
Indices: 66725556--66725849 Score: 296
Period size: 88 Copynumber: 3.3 Consensus size: 89
66725546 ACTTTTATCT
* * * ** * ** *
66725556 TACTCCACTACAACTTTAGAGAGATAAATATTGTGGCTTCGATCCGCTCCACTGCAACTTCAAGG
1 TACTCCACTGCAACTTCAGGGAGATAAGGATTGTAGCTTCGATCTACTCCACTGCAACTTCAGGG
66725621 AGATAAGATCTGCTATCTTCAGTC
66 AGATAAGATCTGCTATCTTCAGTC
* * * *
66725645 TACTCCACTACAACTTCAGGGAGATAA-GACTTGTTA-TTTCAACCTGA-TCCACTGCAACTTCA
1 TACTCCACTGCAACTTCAGGGAGATAAGGA-TTG-TAGCTTCGATCT-ACTCCACTGCAACTTCA
* *
66725707 GAGAGATAAGGAT-TG-TAGCTTC-GATC
63 GGGAGATAA-GATCTGCTATCTTCAG-TC
* *
66725733 TACTCCATTGCAACTTCAGGGAGATAAGGATTGTAGCTTCGATCTACTCTACTGCAACTTCAGGG
1 TACTCCACTGCAACTTCAGGGAGATAAGGATTGTAGCTTCGATCTACTCCACTGCAACTTCAGGG
*
66725798 AGATAAGATCTGCTATCTTCAGCC
66 AGATAAGATCTGCTATCTTCAGTC
* ** *
66725822 TACTTCACTGCTGC-TCAGGGAGACAAGG
1 TACTCCACTGCAACTTCAGGGAGATAAGG
66725850 CTAGTGGCTT
Statistics
Matches: 168, Mismatches: 26, Indels: 23
0.77 0.12 0.11
Matches are distributed among these distances:
87 7 0.04
88 80 0.48
89 76 0.45
90 5 0.03
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (89 bp):
TACTCCACTGCAACTTCAGGGAGATAAGGATTGTAGCTTCGATCTACTCCACTGCAACTTCAGGG
AGATAAGATCTGCTATCTTCAGTC
Found at i:66725987 original size:90 final size:90
Alignment explanation
Indices: 66725873--66726039 Score: 282
Period size: 90 Copynumber: 1.9 Consensus size: 90
66725863 TATGCTCCTT
66725873 TGCTACCTTAGGGAGATAAAATTCACCGTCTTCGATCTACTCCATTGCTACCTCAT-GGAGATAA
1 TGCTACCTTAGGGAGATAAAATTCACCGTCTTCGATCTACTCCATTGCTACCTCATAGG-GATAA
66725937 GATCTACAATCTTTAGCCTACTTTAC
65 GATCTACAATCTTTAGCCTACTTTAC
* * * *
66725963 TGCTGCCTTAGGGAGATAAGATTCACCGTCTTCGATCTGCTCTATTGCTACCTCATAGGGATAAG
1 TGCTACCTTAGGGAGATAAAATTCACCGTCTTCGATCTACTCCATTGCTACCTCATAGGGATAAG
66726028 ATCTACAATCTT
66 ATCTACAATCTT
66726040 CAGTCTGCTC
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
90 70 0.97
91 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (90 bp):
TGCTACCTTAGGGAGATAAAATTCACCGTCTTCGATCTACTCCATTGCTACCTCATAGGGATAAG
ATCTACAATCTTTAGCCTACTTTAC
Found at i:66726157 original size:45 final size:44
Alignment explanation
Indices: 66725872--66726160 Score: 148
Period size: 45 Copynumber: 6.5 Consensus size: 44
66725862 ATATGCTCCT
* * * * *
66725872 TTGCTACCTTAGGGAGATAAAATTCACCGTCTTCGATCTACTCCA
1 TTGCTACCTCAGGGAGATAAGATTC-TCGTCTTCGATCTGCTCTA
* * * * * *
66725917 TTGCTACCTCATGGAGATAAGA-TCTACAATCTT-TAGCCTACTTTA
1 TTGCTACCTCAGGGAGATAAGATTCT-C-GTCTTCGA-TCTGCTCTA
* * * *
66725962 CTGCTGCCTTAGGGAGATAAGATTCACCGTCTTCGATCTGCTCTA
1 TTGCTACCTCAGGGAGATAAGATTC-TCGTCTTCGATCTGCTCTA
* *
66726007 TTGCTACCTCATAGG-GATAAGA-TCTACAATCTTC-AGTCTGCTCTA
1 TTGCTACCTCA-GGGAGATAAGATTCT-C-GTCTTCGA-TCTGCTCTA
* * * * * *
66726052 CTCCT-GCTCAGGGAGACAAG--GCTAGTAGCTT-GAATCTGCTCCT-
1 TTGCTACCTCAGGGAGATAAGATTCTCGT--CTTCG-ATCTGCT-CTA
* *
66726095 TTGCTACCTTAGTGAGATAAGATTCGTCGTCTTCGATCTGCTCTA
1 TTGCTACCTCAGGGAGATAAGATTC-TCGTCTTCGATCTGCTCTA
*
66726140 TTGCTACCTCATGGAGATAAG
1 TTGCTACCTCAGGGAGATAAG
66726161 GTCTGTGAAT
Statistics
Matches: 178, Mismatches: 44, Indels: 44
0.67 0.17 0.17
Matches are distributed among these distances:
41 1 0.01
43 16 0.09
44 33 0.19
45 117 0.66
46 8 0.04
47 3 0.02
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (44 bp):
TTGCTACCTCAGGGAGATAAGATTCTCGTCTTCGATCTGCTCTA
Found at i:66727026 original size:17 final size:16
Alignment explanation
Indices: 66726987--66727032 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
66726977 TTGCATTGGC
*
66726987 CTCTCTATTTTCTTCTT
1 CTCTCT-TTTTTTTCTT
66727004 CT-TCTTTTTTTTCTCT
1 CTCTCTTTTTTTTCT-T
66727020 CTCTCTTTTTTTT
1 CTCTCTTTTTTTT
66727033 AGTTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 8 0.31
16 6 0.23
17 12 0.46
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (16 bp):
CTCTCTTTTTTTTCTT
Found at i:66734325 original size:12 final size:12
Alignment explanation
Indices: 66734291--66734343 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
66734281 TATTTGCCAA
66734291 CTGTTCTTGCAT
1 CTGTTCTTGCAT
*
66734303 TTGTGTC-TGCAT
1 CTGT-TCTTGCAT
66734315 CTGTTCTTGCAT
1 CTGTTCTTGCAT
* **
66734327 TTCCTCTTGCAT
1 CTGTTCTTGCAT
66734339 CTGTT
1 CTGTT
66734344 TTAATCTTTT
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
11 2 0.06
12 27 0.87
13 2 0.06
ACGTcount: A:0.08, C:0.25, G:0.17, T:0.51
Consensus pattern (12 bp):
CTGTTCTTGCAT
Found at i:66734337 original size:24 final size:24
Alignment explanation
Indices: 66734291--66734343 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
66734281 TATTTGCCAA
* *
66734291 CTGTTCTTGCATTTGTGTCTGCAT
1 CTGTTCTTGCATTTCTCTCTGCAT
66734315 CTGTTCTTGCATTTC-CTCTTGCAT
1 CTGTTCTTGCATTTCTCTC-TGCAT
66734339 CTGTT
1 CTGTT
66734344 TTAATCTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 2 0.08
24 24 0.92
ACGTcount: A:0.08, C:0.25, G:0.17, T:0.51
Consensus pattern (24 bp):
CTGTTCTTGCATTTCTCTCTGCAT
Found at i:66734501 original size:19 final size:20
Alignment explanation
Indices: 66734469--66734523 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 20
66734459 GGGTTCTTTC
* *
66734469 ATGAAATTTAATGCATATG-
1 ATGAAATGTAATGCAAATGA
*
66734488 ATGAAATGTGATGCAAATGA
1 ATGAAATGTAATGCAAATGA
*
66734508 ATGAAGTG-AATGCAAA
1 ATGAAATGTAATGCAAA
66734524 AAGAAGCATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 23 0.77
20 7 0.23
ACGTcount: A:0.45, C:0.05, G:0.22, T:0.27
Consensus pattern (20 bp):
ATGAAATGTAATGCAAATGA
Found at i:66738266 original size:3 final size:3
Alignment explanation
Indices: 66738258--66738289 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
66738248 ATAATTTTAA
*
66738258 AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
66738290 CATAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:66740638 original size:18 final size:18
Alignment explanation
Indices: 66740596--66740643 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
66740586 TTAGTTAGGG
*
66740596 GTTTAAAAT-TTTTTTAA
1 GTTTAAATTATTTTTTAA
*
66740613 CTTT-AATTATTTTTTAA
1 GTTTAAATTATTTTTTAA
66740630 GTTTAAATTCATTT
1 GTTTAAATT-ATTT
66740644 GCTGACATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 3 0.12
17 14 0.56
18 4 0.16
19 4 0.16
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (18 bp):
GTTTAAATTATTTTTTAA
Found at i:66742983 original size:19 final size:19
Alignment explanation
Indices: 66742959--66742995 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
66742949 AGCCGTCCTT
*
66742959 TCCTTTCTTTTTTCTACTC
1 TCCTTTCTCTTTTCTACTC
66742978 TCCTTTCTCTTTTCTACT
1 TCCTTTCTCTTTTCTACT
66742996 TTGATGATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.05, C:0.32, G:0.00, T:0.62
Consensus pattern (19 bp):
TCCTTTCTCTTTTCTACTC
Found at i:66745455 original size:16 final size:18
Alignment explanation
Indices: 66745429--66745461 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
66745419 TTAATTTAAA
66745429 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
66745446 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
66745462 CCTAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:66755201 original size:25 final size:25
Alignment explanation
Indices: 66755172--66755370 Score: 101
Period size: 25 Copynumber: 8.3 Consensus size: 25
66755162 CGTAATGACC
66755172 GATGTGATGAATGTGAAAGTGTATA
1 GATGTGATGAATGTGAAAGTGTATA
* * *** ***
66755197 TATGTGAT-AAGGCCTAA-TG-GCC
1 GATGTGATGAATGTGAAAGTGTATA
66755219 GATGTGATGAATGTGAAAGTGTATA
1 GATGTGATGAATGTGAAAGTGTATA
* * *** ***
66755244 TATGTGAT-AAGGCCTAA-TG-GCC
1 GATGTGATGAATGTGAAAGTGTATA
66755266 GATGTGATGAATGTGAAAGTGTATA
1 GATGTGATGAATGTGAAAGTGTATA
* * *** ***
66755291 TATGTGAT-AAGGCCTAA-TG-GCC
1 GATGTGATGAATGTGAAAGTGTATA
*
66755313 GATGTGATGAATGTGAAAGTGTATC
1 GATGTGATGAATGTGAAAGTGTATA
66755338 GATGTGATGAATGTGAAAGTGTATA
1 GATGTGATGAATGTGAAAGTGTATA
*
66755363 TATGTGAT
1 GATGTGAT
66755371 AAGGCCTAAT
Statistics
Matches: 116, Mismatches: 49, Indels: 18
0.63 0.27 0.10
Matches are distributed among these distances:
22 21 0.18
23 21 0.18
24 21 0.18
25 53 0.46
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.31
Consensus pattern (25 bp):
GATGTGATGAATGTGAAAGTGTATA
Found at i:66755223 original size:47 final size:47
Alignment explanation
Indices: 66755164--66755345 Score: 337
Period size: 47 Copynumber: 3.9 Consensus size: 47
66755154 TAGTATGGCG
*
66755164 TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
66755211 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
66755258 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
**
66755305 TAATGGCCGATGTGATGAATGTGAAAGTGTATCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
66755346 GAATGTGAAA
Statistics
Matches: 132, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:66755342 original size:72 final size:72
Alignment explanation
Indices: 66755265--66755408 Score: 288
Period size: 72 Copynumber: 2.0 Consensus size: 72
66755255 GCCTAATGGC
66755265 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
66755330 AGTGTAT
66 AGTGTAT
66755337 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
66755402 AGTGTAT
66 AGTGTAT
66755409 ATATATGTGA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.31
Consensus pattern (72 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTAT
Found at i:66755384 original size:119 final size:120
Alignment explanation
Indices: 66755218--66755466 Score: 464
Period size: 119 Copynumber: 2.1 Consensus size: 120
66755208 GCCTAATGGC
66755218 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
66755283 AGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
66 AGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
66755337 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
66755402 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
66 AGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
**
66755458 ATATGTGAT
1 CGATGTGAT
66755467 AAGGCCTAAT
Statistics
Matches: 126, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
119 69 0.55
121 57 0.45
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.31
Consensus pattern (120 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:66755388 original size:47 final size:47
Alignment explanation
Indices: 66755337--66755802 Score: 806
Period size: 47 Copynumber: 9.8 Consensus size: 47
66755327 GAAAGTGTAT
66755337 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
66755384 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
66755433 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
66755480 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
66755527 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
66755576 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
66755625 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
66755672 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
66755719 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
66755766 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
66755803 TCCCGAAGGG
Statistics
Matches: 405, Mismatches: 10, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
47 262 0.65
49 143 0.35
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:66755444 original size:96 final size:96
Alignment explanation
Indices: 66755337--66755802 Score: 809
Period size: 96 Copynumber: 4.9 Consensus size: 96
66755327 GAAAGTGTAT
66755337 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
66755402 AGTGTATATATATGTGATAAGGCCTAATGGC
66 AGTGTATATATATGTGATAAGGCCTAATGGC
66755433 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
66755498 AGTG--TATATATGTGATAAGGCCTAATGGC
66 AGTGTATATATATGTGATAAGGCCTAATGGC
66755527 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
66755592 AAAGTGTATATATATGTGATAAGGCCTAATGGC
64 AAAGTGTATATATATGTGATAAGGCCTAATGGC
66755625 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
66755690 AGTG--TATATATGTGATAAGGCCTAATGGC
66 AGTGTATATATATGTGATAAGGCCTAATGGC
* * * * * * *
66755719 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
66755784 AGTGTATA-A-ATGTGATAAG
66 AGTGTATATATATGTGATAAG
66755803 TCCCGAAGGG
Statistics
Matches: 357, Mismatches: 7, Indels: 14
0.94 0.02 0.04
Matches are distributed among these distances:
94 144 0.40
95 1 0.00
96 165 0.46
98 47 0.13
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATATGTGATAAGGCCTAATGGC
Found at i:66755539 original size:215 final size:213
Alignment explanation
Indices: 66755164--66755551 Score: 749
Period size: 215 Copynumber: 1.8 Consensus size: 213
66755154 TAGTATGGCG
66755164 TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
66755229 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
66 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
66755294 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATCGATGTGATGAATGTGAAAGTG
131 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATCGATGTGATGAATGTGAAAGTG
66755359 TATATATGTGATAAGGCC
196 TATATATGTGATAAGGCC
*
66755377 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGACCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
66755442 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
64 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66755507 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
129 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
66755552 ATATATGTGA
Statistics
Matches: 172, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
213 28 0.16
215 144 0.84
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (213 bp):
TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATCGATGTGATGAATGTGAAAGTG
TATATATGTGATAAGGCC
Found at i:66755977 original size:37 final size:37
Alignment explanation
Indices: 66755921--66755999 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
66755911 CCGAGCTCTA
* * *
66755921 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
66755958 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
66755995 AAGAC
1 AAGAC
66756000 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:66757268 original size:40 final size:40
Alignment explanation
Indices: 66757213--66757402 Score: 256
Period size: 40 Copynumber: 4.8 Consensus size: 40
66757203 GAGAATTGAG
*
66757213 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
66757253 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
66757293 AGTGATGTATCCGGGCTAAGTTCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
66757333 AGTAATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCT
* * * *
66757373 GGTGTTATATCCGGGCTAGGTCTCGAAGAG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAG
66757403 TAATCATGCT
Statistics
Matches: 131, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 129 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:66760863 original size:47 final size:47
Alignment explanation
Indices: 66760804--66761454 Score: 1152
Period size: 47 Copynumber: 13.9 Consensus size: 47
66760794 TAGTATGGCG
*
66760804 TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
66760851 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
66760898 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
66760945 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT-AGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
66760991 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT-AGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
66761039 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
66761086 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
66761133 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT-AGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
66761179 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT-AGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
66761225 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT-AGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
66761271 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
66761318 TAATGGCCGATGTGATGAATGTGAAAGTGTAT-TAATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATAT-ATGTGATAAGGCC
* *
66761365 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
66761412 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
66761455 TTCCCGAAGG
Statistics
Matches: 587, Mismatches: 11, Indels: 12
0.96 0.02 0.02
Matches are distributed among these distances:
46 185 0.32
47 355 0.60
48 47 0.08
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:66761628 original size:36 final size:37
Alignment explanation
Indices: 66761573--66761650 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
66761563 CCGAGCTCTA
* *
66761573 AAGACCCGATGACTACGTGTGG-GATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
66761609 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
66761646 AAGAC
1 AAGAC
66761651 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 20 0.53
37 18 0.47
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:66763276 original size:51 final size:49
Alignment explanation
Indices: 66763197--66763338 Score: 178
Period size: 49 Copynumber: 2.9 Consensus size: 49
66763187 TTATGAGGTC
* *
66763197 GCATGTGTAGTGCTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGAT
1 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TTCGAT
* * * * * *
66763247 -CACGTGTGTAGTACTAAGCGCAGGCTACTACGTGTACCGGATAATTGGTT
1 GCA--TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTCGAT
66763297 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
66763339 GCTTTGGCTA
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
49 37 0.47
50 4 0.05
51 37 0.47
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (49 bp):
GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTCGAT
Found at i:66764656 original size:40 final size:40
Alignment explanation
Indices: 66764608--66764687 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
66764598 ACCTTTGGTT
66764608 TTTCCCTTTTCATTGAGGAATAAGACTAAACAGTGGTTGA
1 TTTCCCTTTTCATTGAGGAATAAGACTAAACAGTGGTTGA
66764648 TTTCCCTTTTCATTGAGGAATAAGACTAAACAGTGGTTGA
1 TTTCCCTTTTCATTGAGGAATAAGACTAAACAGTGGTTGA
66764688 ACTTATTACC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (40 bp):
TTTCCCTTTTCATTGAGGAATAAGACTAAACAGTGGTTGA
Found at i:66764796 original size:19 final size:19
Alignment explanation
Indices: 66764772--66764811 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
66764762 GCTAAAATGG
66764772 CTAAAATGAGGAATGATAT
1 CTAAAATGAGGAATGATAT
66764791 CTAAAATGAGGAATGATAT
1 CTAAAATGAGGAATGATAT
66764810 CT
1 CT
66764812 CTTGTTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.28
Consensus pattern (19 bp):
CTAAAATGAGGAATGATAT
Found at i:66769989 original size:13 final size:13
Alignment explanation
Indices: 66769971--66769995 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66769961 TAAATCACCA
66769971 CGGCCGTGGAAGG
1 CGGCCGTGGAAGG
66769984 CGGCCGTGGAAG
1 CGGCCGTGGAAG
66769996 TTACATGGTC
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:0.16, C:0.24, G:0.52, T:0.08
Consensus pattern (13 bp):
CGGCCGTGGAAGG
Found at i:66783696 original size:20 final size:21
Alignment explanation
Indices: 66783657--66783696 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
66783647 TCCCTTTTAT
*
66783657 TAAAAAAATTAAAATTAATTC
1 TAAAAAAATTAAAATGAATTC
*
66783678 TAAAAAAA-TAAAGTGAATT
1 TAAAAAAATTAAAATGAATT
66783697 AAATTAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (21 bp):
TAAAAAAATTAAAATGAATTC
Found at i:66783861 original size:19 final size:19
Alignment explanation
Indices: 66783825--66783867 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
66783815 ATTAAAAATA
66783825 TAAAATTAATTTTCCATT-
1 TAAAATTAATTTTCCATTG
* *
66783843 TAAAATTAGGTTTTTCATTG
1 TAAAATTA-ATTTTCCATTG
66783863 TAAAA
1 TAAAA
66783868 ACCCATGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (19 bp):
TAAAATTAATTTTCCATTG
Found at i:66792280 original size:44 final size:42
Alignment explanation
Indices: 66792203--66792362 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 42
66792193 TTCCGATATG
* * * *
66792203 TGATTTCGTGTAAGAACACGTCTGGGACATTAGCATTG-ATT
1 TGATTTCGTGTAAGACCATGTCTAGGACATTAGCATCGTATT
*
66792244 TGAGATTTACGTGTAAGACCATGTCTAGGACGTTAGCATCGTATT
1 T--GATTT-CGTGTAAGACCATGTCTAGGACATTAGCATCGTATT
* * * * * *
66792289 TGATTTTGTGTCAGACCCTGTCTAGGACAGTGGCATCGACATT
1 TGATTTCGTGTAAGACCATGTCTAGGACATTAGCATCG-TATT
* * * *
66792332 TGAATAT-ATGTAAGACCACGTCTGGGACATT
1 TG-ATTTCGTGTAAGACCATGTCTAGGACATT
66792363 GCCATTGTTC
Statistics
Matches: 94, Mismatches: 19, Indels: 10
0.76 0.15 0.08
Matches are distributed among these distances:
41 1 0.01
42 26 0.28
43 33 0.35
44 30 0.32
45 4 0.04
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTCTAGGACATTAGCATCGTATT
Found at i:66792348 original size:43 final size:42
Alignment explanation
Indices: 66792211--66792359 Score: 104
Period size: 44 Copynumber: 3.5 Consensus size: 42
66792201 TGTGATTTCG
* * * * * *
66792211 TGTAAGAACACGTCTGGGACATTAGCATTG-ATTTGAGATTTA
1 TGTAAGACCATGTCTAGGACGTTAGCATCGCATTTGA-ATATA
* * * *
66792253 CGTGTAAGACCATGTCTAGGACGTTAGCATCGTATTTGATTTTG
1 --TGTAAGACCATGTCTAGGACGTTAGCATCGCATTTGAATATA
* * *
66792297 TGTCAGACCCTGTCTAGGACAG-TGGCATCGACATTTGAATATA
1 TGTAAGACCATGTCTAGGAC-GTTAGCATCG-CATTTGAATATA
* *
66792340 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCATGTCTAGGAC
66792360 ATTGCCATTG
Statistics
Matches: 84, Mismatches: 18, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 25 0.30
43 25 0.30
44 28 0.33
45 6 0.07
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACGTTAGCATCGCATTTGAATATA
Found at i:66793374 original size:13 final size:13
Alignment explanation
Indices: 66793356--66793390 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
66793346 TTTCGAAAGG
66793356 TACATGGGCTAGA
1 TACATGGGCTAGA
66793369 TACATGGGCTAGA
1 TACATGGGCTAGA
*
66793382 TATATGGGC
1 TACATGGGC
66793391 GTGTGGTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.26
Consensus pattern (13 bp):
TACATGGGCTAGA
Found at i:66795915 original size:5 final size:5
Alignment explanation
Indices: 66795905--66795968 Score: 128
Period size: 5 Copynumber: 12.8 Consensus size: 5
66795895 AGCATATTAG
66795905 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
66795955 TATAT TATAT TATA
1 TATAT TATAT TATA
66795969 ACTAAACTAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 59 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:66802255 original size:42 final size:43
Alignment explanation
Indices: 66802188--66802287 Score: 132
Period size: 42 Copynumber: 2.3 Consensus size: 43
66802178 GATTTGAGAT
* *
66802188 TTACATGTAAGACCATGTCTGGGACATC-GGCATTG-TATTTGA
1 TTACATGTAAGACCATATCTAGGACA-CAGGCATTGATATTTGA
* * *
66802230 TTTCGTGTAAGACCCTATCTAGGACACAGGCATTGATATTTGA
1 TTACATGTAAGACCATATCTAGGACACAGGCATTGATATTTGA
66802273 TTACATGTAAGACCA
1 TTACATGTAAGACCA
66802288 CGTCTGGGAC
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.02
42 28 0.58
43 19 0.40
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (43 bp):
TTACATGTAAGACCATATCTAGGACACAGGCATTGATATTTGA
Found at i:66802305 original size:43 final size:43
Alignment explanation
Indices: 66802149--66802307 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
66802139 TGTGATTTTG
* * * *
66802149 TGTAAGACCACGTCTGGGACGTTGGAATCGAT-TTGAGATTTACA
1 TGTAAGACCACGTCTGGGACATTGGCATTGATATT-TGA-TTACA
* * * *
66802193 TGTAAGACCATGTCTGGGACATCGGCATTG-TATTTGATTTCG
1 TGTAAGACCACGTCTGGGACATTGGCATTGATATTTGATTACA
* * **
66802235 TGTAAGACC-CTATCTAGGACACAGGCATTGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATTGATATTTGATTACA
*
66802278 TGTAAGACCACGTCTGGGACGTTGGCATTG
1 TGTAAGACCACGTCTGGGACATTGGCATTG
66802308 TACGAGCGTT
Statistics
Matches: 91, Mismatches: 20, Indels: 9
0.76 0.17 0.08
Matches are distributed among these distances:
42 27 0.30
43 36 0.40
44 28 0.31
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATTGATATTTGATTACA
Found at i:66806318 original size:48 final size:48
Alignment explanation
Indices: 66806259--66806575 Score: 343
Period size: 48 Copynumber: 6.6 Consensus size: 48
66806249 ATGTGAGCCG
* * * *
66806259 GTGTAAAACCATCTTTGGAACATGGCATCGACATTGATATGAGAGCTA
1 GTGTAAGACCATGTTTGGAACATGGCATCGACCTCGATATGAGAGCTA
* * * * *
66806307 GTGTAAGACCATGTCTAGG-ACATGGCATTGGCCTCGATATGTGAGCTG
1 GTGTAAGACCATGT-TTGGAACATGGCATCGACCTCGATATGAGAGCTA
* * *
66806355 GTGTAAGACTATGTTTGGAACATGGCATCGACATTGATATGAGAGCTA
1 GTGTAAGACCATGTTTGGAACATGGCATCGACCTCGATATGAGAGCTA
* * * * *
66806403 GTGTAAGACCATGTCTGGGACATGGCATCGACCTCAATATGTGAGCCA
1 GTGTAAGACCATGTTTGGAACATGGCATCGACCTCGATATGAGAGCTA
* * * *
66806451 ATGTAAGACCATGTCT-GAGACATGGCATCGTCCTCGATAT-ATGAGCCA
1 GTGTAAGACCATGTTTGGA-ACATGGCATCGACCTCGATATGA-GAGCTA
* * * * * *
66806499 GTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGGGCTA
1 GTGTAAGACCATGTTTGGAACATGGCATCGACCTCGATATGAGAGCTA
66806547 GTGTAAGACCATGTTTGGAACATGGCATC
1 GTGTAAGACCATGTTTGGAACATGGCATC
66806576 ATGATCACGT
Statistics
Matches: 224, Mismatches: 39, Indels: 12
0.81 0.14 0.04
Matches are distributed among these distances:
47 4 0.02
48 216 0.96
49 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (48 bp):
GTGTAAGACCATGTTTGGAACATGGCATCGACCTCGATATGAGAGCTA
Found at i:66806412 original size:96 final size:96
Alignment explanation
Indices: 66806248--66806575 Score: 462
Period size: 96 Copynumber: 3.4 Consensus size: 96
66806238 ATACTAGGGT
* * *
66806248 TATGTGAGCCGGTGTAAAACCATCTTTGGAACATGGCATCGACATTGATATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGATATGAGAGCTAGTGTAA
* * *
66806313 GACCATGTCTAGGACATGGCATTGGCCTCGA
66 GACCATGTCTGGGACATGGCATCGGCCTCAA
** *
66806344 TATGTGAGCTGGTGTAAGACTATGTTTGGAACATGGCATCGACATTGATATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGATATGAGAGCTAGTGTAA
*
66806409 GACCATGTCTGGGACATGGCATCGACCTCAA
66 GACCATGTCTGGGACATGGCATCGGCCTCAA
* * * * * *
66806440 TATGTGAGCCAATGTAAGACCATGTCT-GAGACATGGCATCGTCCTCGATAT-ATGAGCCAGTGT
1 TATGTGAGCCAGTGTAAGACCATGTTTGGA-ACATGGCATCGACATTGATATGA-GAGCTAGTGT
66806503 AAGACCATGTCTGGGACATGGCATCGGCCTCAA
64 AAGACCATGTCTGGGACATGGCATCGGCCTCAA
* *
66806536 TATGTGGGCTAGTGTAAGACCATGTTTGGAACATGGCATC
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATC
66806576 ATGATCACGT
Statistics
Matches: 207, Mismatches: 22, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
95 3 0.01
96 202 0.98
97 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (96 bp):
TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGATATGAGAGCTAGTGTAA
GACCATGTCTGGGACATGGCATCGGCCTCAA
Found at i:66806522 original size:144 final size:144
Alignment explanation
Indices: 66806259--66806575 Score: 402
Period size: 144 Copynumber: 2.2 Consensus size: 144
66806249 ATGTGAGCCG
* * ** * *
66806259 GTGTAAAACCATCTTTGGAACATGGCATCGACATTGATATGAGAGCTAGTGTAAGACCATGTCTA
1 GTGTAAGACCATGTTTGGAACATGGCATCGACATCAATATGAGAGCCAATGTAAGACCATGTCTA
* * ** * *
66806324 GGACATGGCATTGGCCTCGATATGTGAGCTGGTGTAAGACTATGTTTGGAACATGGCATCGACAT
66 GGACATGGCATCGGCCTCGATATATGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGACAT
**
66806389 TGATATGAGAGCTA
131 CAATATGAGAGCTA
* * * *
66806403 GTGTAAGACCATGTCTGGGACATGGCATCGACCTCAATATGTGAGCCAATGTAAGACCATGTCT-
1 GTGTAAGACCATGTTTGGAACATGGCATCGACATCAATATGAGAGCCAATGTAAGACCATGTCTA
* * * *
66806467 GAGACATGGCATCGTCCTCGATATATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCC
66 G-GACATGGCATCGGCCTCGATATATGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGACA
* *
66806532 TCAATATGTGGGCTA
130 TCAATATGAGAGCTA
66806547 GTGTAAGACCATGTTTGGAACATGGCATC
1 GTGTAAGACCATGTTTGGAACATGGCATC
66806576 ATGATCACGT
Statistics
Matches: 146, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
143 1 0.01
144 145 0.99
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (144 bp):
GTGTAAGACCATGTTTGGAACATGGCATCGACATCAATATGAGAGCCAATGTAAGACCATGTCTA
GGACATGGCATCGGCCTCGATATATGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGACAT
CAATATGAGAGCTA
Found at i:66823022 original size:43 final size:43
Alignment explanation
Indices: 66822867--66823022 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 43
66822857 TGTGATTTTG
* *
66822867 TGTAAGACCACATCTGGGACGTTGGCATCGGT-TTGAGATTTATG
1 TGTAAGACCACATCTGGGACGTTGGCATCGATATT-AGA-TTATA
* ** * * * * *
66822911 TGTAAAACCATGTCT-GGACATCGACATC-ATATTTGATTTTA
1 TGTAAGACCACATCTGGGACGTTGGCATCGATATTAGATTATA
* * *
66822952 TGTAAGACC-CTATCTGGGACAG-AGGCATCGATATTCGATTACA
1 TGTAAGACCAC-ATCTGGGAC-GTTGGCATCGATATTAGATTATA
66822995 TGTAAGACCACATCTGGGACGTTGGCAT
1 TGTAAGACCACATCTGGGACGTTGGCAT
66823023 TGTACAAGCT
Statistics
Matches: 85, Mismatches: 20, Indels: 15
0.71 0.17 0.12
Matches are distributed among these distances:
41 14 0.16
42 13 0.15
43 45 0.53
44 13 0.15
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACATCTGGGACGTTGGCATCGATATTAGATTATA
Found at i:66825848 original size:5 final size:5
Alignment explanation
Indices: 66825838--66825890 Score: 106
Period size: 5 Copynumber: 10.6 Consensus size: 5
66825828 ATAAATAAGA
66825838 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
66825888 ATA
1 ATA
66825891 ACTAAACTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:66826387 original size:17 final size:17
Alignment explanation
Indices: 66826365--66826398 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
66826355 TAGTTAGAGA
66826365 TTAAATTGGTATTTAGG
1 TTAAATTGGTATTTAGG
66826382 TTAAATTGGTATTTAGG
1 TTAAATTGGTATTTAGG
66826399 CAAAAGTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (17 bp):
TTAAATTGGTATTTAGG
Found at i:66834620 original size:16 final size:17
Alignment explanation
Indices: 66834599--66834631 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
66834589 CCCTAGACTG
66834599 TATTCTG-ATGATTGAT
1 TATTCTGTATGATTGAT
*
66834615 TATTCTGTATGTTTGAT
1 TATTCTGTATGATTGAT
66834632 ATCTATGGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.21, C:0.06, G:0.18, T:0.55
Consensus pattern (17 bp):
TATTCTGTATGATTGAT
Found at i:66838287 original size:27 final size:26
Alignment explanation
Indices: 66838239--66838451 Score: 243
Period size: 27 Copynumber: 7.9 Consensus size: 26
66838229 GCGAGGCTGC
* *
66838239 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
*
66838265 ACAGATATTGTGGCAGAGCCACCAGAG
1 -CAGATATTGTGGCAGAGCCACCAGAT
*
66838292 CAGATATACGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
66838319 CAGATAATTGTGGCATAGCCACCAAGA-
1 CAGAT-ATTGTGGCAGAGCCACC-AGAT
*
66838346 CGGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
66838373 CAGATAATTGTGGCATAGCCACCAGGA-
1 CAGAT-ATTGTGGCAGAGCCACCA-GAT
66838400 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
66838427 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
66838452 GACGCTTCCT
Statistics
Matches: 162, Mismatches: 13, Indels: 22
0.82 0.07 0.11
Matches are distributed among these distances:
26 16 0.10
27 134 0.83
28 12 0.07
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:66838452 original size:54 final size:54
Alignment explanation
Indices: 66838257--66838454 Score: 328
Period size: 54 Copynumber: 3.7 Consensus size: 54
66838247 GTGACGAAGT
* *
66838257 CACCAGATACAGAT-ATTGTGGCAGAGCCACCA-GAGCAGATATACGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGA-CAGATATATGTGGCAGAGC
* *
66838311 CACCAGATCAGATAATTGTGGCATAGCCACCAAGACGGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
66838365 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
66838419 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
66838455 GCTTCCTCCA
Statistics
Matches: 137, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
53 5 0.04
54 130 0.95
55 2 0.01
ACGTcount: A:0.33, C:0.24, G:0.26, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:66840307 original size:20 final size:21
Alignment explanation
Indices: 66840278--66840318 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
66840268 TGACAGATAC
*
66840278 GCAGATTCC-ACCCAAACACA
1 GCAGAATCCAACCCAAACACA
66840298 GCAGAATCCAACCCAAACACA
1 GCAGAATCCAACCCAAACACA
66840319 CCCAGAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.44, C:0.39, G:0.10, T:0.07
Consensus pattern (21 bp):
GCAGAATCCAACCCAAACACA
Found at i:66841710 original size:3 final size:3
Alignment explanation
Indices: 66841702--66841757 Score: 62
Period size: 3 Copynumber: 19.0 Consensus size: 3
66841692 AACTTAAAAT
* * *
66841702 TAA TAA TAA TAA TAA TAA T-A TAA GAC T-A TAC TAA TAA TTAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
66841746 TAA TAA TAA TAA
1 TAA TAA TAA TAA
66841758 AATCTTAGAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 3 0.07
3 38 0.86
4 3 0.07
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:66847293 original size:7 final size:7
Alignment explanation
Indices: 66847281--66847310 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
66847271 GTTTAAAAAC
66847281 TTTTTAT
1 TTTTTAT
66847288 TTTTTAT
1 TTTTTAT
66847295 TTTTTA-
1 TTTTTAT
66847301 TTTTTAT
1 TTTTTAT
66847308 TTT
1 TTT
66847311 CACTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTAT
Found at i:66847304 original size:13 final size:14
Alignment explanation
Indices: 66847281--66847310 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
66847271 GTTTAAAAAC
66847281 TTTTTATTTTTTAT
1 TTTTTATTTTTTAT
66847295 TTTTTA-TTTTTAT
1 TTTTTATTTTTTAT
66847308 TTT
1 TTT
66847311 CACTTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTTATTTTTTAT
Found at i:66854656 original size:13 final size:13
Alignment explanation
Indices: 66854635--66854666 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
66854625 AAATTGAAGT
*
66854635 CACATGGCCAAGC
1 CACACGGCCAAGC
66854648 CACACGGCCAAGC
1 CACACGGCCAAGC
66854661 CACACG
1 CACACG
66854667 CCTATGTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.44, G:0.22, T:0.03
Consensus pattern (13 bp):
CACACGGCCAAGC
Found at i:66867992 original size:13 final size:13
Alignment explanation
Indices: 66867974--66868015 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
66867964 TAATCTGTTA
66867974 TTTTTGTATCTAT
1 TTTTTGTATCTAT
* *
66867987 TTTTTGTATTTGT
1 TTTTTGTATCTAT
*
66868000 TTTCTGTATCTAT
1 TTTTTGTATCTAT
66868013 TTT
1 TTT
66868016 GGGGTGGGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.12, C:0.07, G:0.10, T:0.71
Consensus pattern (13 bp):
TTTTTGTATCTAT
Found at i:66871936 original size:49 final size:49
Alignment explanation
Indices: 66871836--66871961 Score: 180
Period size: 49 Copynumber: 2.6 Consensus size: 49
66871826 TGTCTGTCAA
* * *
66871836 TGTAAGACCTGTCAGGGACAACGACATCGACACAGATAAGTGAGAGCCAG
1 TGTAAGACCTGTCTGGGAC-ATGACATCAACACAGATAAGTGAGAGCCAG
* *
66871886 TGTAAGACCTGTCTGGGACATGGCATCAACATAGATAAGTGAGAGCCAG
1 TGTAAGACCTGTCTGGGACATGACATCAACACAGATAAGTGAGAGCCAG
* *
66871935 TGTAAGACCTGTCTAGGACATGTCATC
1 TGTAAGACCTGTCTGGGACATGACATC
66871962 GGCCTCGATG
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
49 51 0.74
50 18 0.26
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.20
Consensus pattern (49 bp):
TGTAAGACCTGTCTGGGACATGACATCAACACAGATAAGTGAGAGCCAG
Found at i:66876576 original size:27 final size:27
Alignment explanation
Indices: 66876538--66876595 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
66876528 GATATATAGC
*
66876538 GAGTGGTAACCTAAACAAGTTCAGAGT
1 GAGTGGTAACCTAAACAAGTTCAGAAT
*
66876565 GAGTGGTAACCTAAATAAGTTCAGAAT
1 GAGTGGTAACCTAAACAAGTTCAGAAT
66876592 GAGT
1 GAGT
66876596 TTACTTTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (27 bp):
GAGTGGTAACCTAAACAAGTTCAGAAT
Found at i:66883111 original size:15 final size:15
Alignment explanation
Indices: 66883093--66883126 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
66883083 TCTTTTATTC
*
66883093 TATTAGGATAATTAA
1 TATTAAGATAATTAA
*
66883108 TATTAAGATAATTAT
1 TATTAAGATAATTAA
66883123 TATT
1 TATT
66883127 CAAATTTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (15 bp):
TATTAAGATAATTAA
Found at i:66889513 original size:6 final size:6
Alignment explanation
Indices: 66889502--66889572 Score: 85
Period size: 6 Copynumber: 11.7 Consensus size: 6
66889492 CCAATCTTTC
66889502 TTTTTA TTTTTA TTTTTA TTTTTA TTTATT- TTTTTA -TTTTA TTATTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA TT-TTTA
66889550 TTATTTTA TTTTTA -TTTTA TTTT
1 -T-TTTTA TTTTTA TTTTTA TTTT
66889573 AGTTAAATAT
Statistics
Matches: 58, Mismatches: 0, Indels: 14
0.81 0.00 0.19
Matches are distributed among these distances:
5 12 0.21
6 33 0.57
7 7 0.12
8 5 0.09
9 1 0.02
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:66889517 original size:5 final size:5
Alignment explanation
Indices: 66889503--66889573 Score: 60
Period size: 5 Copynumber: 14.0 Consensus size: 5
66889493 CAATCTTTCT
66889503 TTTTA TTTTTA TTTTTA TTTT- TATTTA -TTT- TTTTA TTTTA TTATT-
1 TTTTA -TTTTA -TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA TT-TTA
*
66889548 TATTA TTTTA TTTTTA TTTTA TTTTA
1 TTTTA TTTTA -TTTTA TTTTA TTTTA
66889574 GTTAAATATT
Statistics
Matches: 56, Mismatches: 2, Indels: 15
0.77 0.03 0.21
Matches are distributed among these distances:
4 9 0.16
5 29 0.52
6 18 0.32
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:66889584 original size:32 final size:32
Alignment explanation
Indices: 66889521--66889584 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
66889511 TTATTTTTAT
* **
66889521 TTTTATTTATTTTTTTATTTTATTATTTATTA
1 TTTTATTTATTATTTTATTTTATTAAATATTA
66889553 TTTTATTT-TTATTTTATTTTAGTTAAATATTA
1 TTTTATTTATTATTTTATTTTA-TTAAATATTA
66889585 ATAAATTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 12 0.43
32 16 0.57
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (32 bp):
TTTTATTTATTATTTTATTTTATTAAATATTA
Found at i:66890736 original size:117 final size:118
Alignment explanation
Indices: 66890529--66890758 Score: 381
Period size: 117 Copynumber: 2.0 Consensus size: 118
66890519 TGTTTTCCAT
* *
66890529 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
66890594 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
**
66890647 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACC-GGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
****
66890711 CTACTTCGCGTCAAAAGGTTGTGTGACGTGTTGGGTAAAACTCCGCTA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTA
66890759 ACCGGAAATA
Statistics
Matches: 104, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
117 68 0.65
118 36 0.35
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
Found at i:66890890 original size:1 final size:1
Alignment explanation
Indices: 66890884--66890926 Score: 59
Period size: 1 Copynumber: 43.0 Consensus size: 1
66890874 AATAAAATTT
* * *
66890884 AAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAGAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
66890927 TAAGTACTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:66890899 original size:12 final size:12
Alignment explanation
Indices: 66890884--66890926 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
66890874 AATAAAATTT
*
66890884 AAAAAAAAAAAA
1 AAAAAAAAAAAG
66890896 AAAAAAAAAAAG
1 AAAAAAAAAAAG
*
66890908 AAAAAAAAGAAG
1 AAAAAAAAAAAG
66890920 AAAAAAA
1 AAAAAAA
66890927 TAAGTACTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:66891518 original size:15 final size:15
Alignment explanation
Indices: 66891500--66891533 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
66891490 TCTTTTATTC
*
66891500 TATTAGGATAATTAA
1 TATTAAGATAATTAA
*
66891515 TATTAAGATAATTAT
1 TATTAAGATAATTAA
66891530 TATT
1 TATT
66891534 CAAATTTAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (15 bp):
TATTAAGATAATTAA
Found at i:66895765 original size:21 final size:20
Alignment explanation
Indices: 66895713--66895765 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
66895703 TTGGAGCATG
**
66895713 AATATCGATACCTTAGGAAA
1 AATATCGATACCTTAAAAAA
* *
66895733 TATATTGATACCTTAAAAAA
1 AATATCGATACCTTAAAAAA
66895753 AAGTATCGATACC
1 AA-TATCGATACC
66895766 AGATCAATAC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.28
Consensus pattern (20 bp):
AATATCGATACCTTAAAAAA
Found at i:66896432 original size:58 final size:57
Alignment explanation
Indices: 66896364--66896473 Score: 141
Period size: 57 Copynumber: 1.9 Consensus size: 57
66896354 CTGAGTACAA
* * **
66896364 TTTAAGTACCAATTTTGA-AAAAAAAACATTTAGGTGTCAAATTGAAAAAACAATATAG
1 TTTAAATACCAATTGTGACAAAAAAAA-A-TTAAATGTCAAATTGAAAAAACAATATAG
* *
66896422 TTTAAATACCACTTGTGACAAAAAAAAATTAAATGTCAATTTGAAAAAACAA
1 TTTAAATACCAATTGTGACAAAAAAAAATTAAATGTCAAATTGAAAAAACAA
66896474 ATAATGATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
57 21 0.47
58 16 0.36
59 8 0.18
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (57 bp):
TTTAAATACCAATTGTGACAAAAAAAAATTAAATGTCAAATTGAAAAAACAATATAG
Found at i:66896874 original size:30 final size:31
Alignment explanation
Indices: 66896839--66896908 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
66896829 ATCATTTCAA
* *
66896839 TAAATTATATCTTTATAATTTT-TAAAGAAT
1 TAAATTATATCTTTATAATTTTCAAAAAAAT
* * *
66896869 TAAATTAAATTTTTATTATTTTCAAAAAAAT
1 TAAATTATATCTTTATAATTTTCAAAAAAAT
*
66896900 TAAAATATA
1 TAAATTATA
66896909 ATTTTATCAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
30 19 0.59
31 13 0.41
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (31 bp):
TAAATTATATCTTTATAATTTTCAAAAAAAT
Found at i:66897077 original size:52 final size:52
Alignment explanation
Indices: 66897002--66897101 Score: 200
Period size: 52 Copynumber: 1.9 Consensus size: 52
66896992 GCAGTTATAG
66897002 TTGATTTAGACACATATCTAAATGTCTTTGAGAGCAGGTTTCTTTTTACTGA
1 TTGATTTAGACACATATCTAAATGTCTTTGAGAGCAGGTTTCTTTTTACTGA
66897054 TTGATTTAGACACATATCTAAATGTCTTTGAGAGCAGGTTTCTTTTTA
1 TTGATTTAGACACATATCTAAATGTCTTTGAGAGCAGGTTTCTTTTTA
66897102 ATATATAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (52 bp):
TTGATTTAGACACATATCTAAATGTCTTTGAGAGCAGGTTTCTTTTTACTGA
Found at i:66900226 original size:20 final size:21
Alignment explanation
Indices: 66900179--66900228 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
66900169 ATGCCACATC
*
66900179 AGTATTCTTATCTTAAATTTTA
1 AGTATT-TTATCCTAAATTTTA
*
66900201 AG-ATTTTATCCTGAATTTT-
1 AGTATTTTATCCTAAATTTTA
66900220 AGTATTTTA
1 AGTATTTTA
66900229 ATTTGGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 2 0.08
20 18 0.72
21 3 0.12
22 2 0.08
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.54
Consensus pattern (21 bp):
AGTATTTTATCCTAAATTTTA
Found at i:66903667 original size:3 final size:3
Alignment explanation
Indices: 66903659--66903684 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
66903649 GATGTTGAAC
66903659 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
66903685 AATGGATAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:66906165 original size:5 final size:5
Alignment explanation
Indices: 66906155--66906331 Score: 333
Period size: 5 Copynumber: 36.0 Consensus size: 5
66906145 TATTACTTAG
66906155 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
66906205 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
66906255 TATTA TATTA TATTA TATTA TATTA TATTA TA-TA TATT- TATTA TA-TA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
66906302 TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA
66906332 GTTTAATAAT
Statistics
Matches: 169, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
4 12 0.07
5 157 0.93
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:66966480 original size:77 final size:77
Alignment explanation
Indices: 66966301--66966477 Score: 295
Period size: 77 Copynumber: 2.3 Consensus size: 77
66966291 TGTATATAAA
* *
66966301 GGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTTT
1 GGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTTT
**
66966366 GAAATGTGAAAG
66 GAAATGAAAAAG
66966378 GGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCTT
1 GGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCTT
66966442 TGAAAT-AAAAAG
65 TGAAATGAAAAAG
66966454 GGGGTTGCTATGTGCTGATTCCCC
1 GGGGTTGCTATGTGCTGATTCCCC
66966478 CGAGGGGTTG
Statistics
Matches: 95, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
76 28 0.29
77 66 0.69
78 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (77 bp):
GGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTTT
GAAATGAAAAAG
Found at i:66971151 original size:16 final size:17
Alignment explanation
Indices: 66971126--66971175 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
66971116 TTTTCTTACT
66971126 TTAT-TAAATTATTATA
1 TTATATAAATTATTATA
*
66971142 TTATAT-AATTATTATT
1 TTATATAAATTATTATA
* *
66971158 TTATTTAAATTATAATA
1 TTATATAAATTATTATA
66971175 T
1 T
66971176 GAATTATAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 18 0.64
17 10 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATATAAATTATTATA
Found at i:66972121 original size:51 final size:51
Alignment explanation
Indices: 66972045--66972165 Score: 163
Period size: 51 Copynumber: 2.4 Consensus size: 51
66972035 AGAACTAAGT
* * *
66972045 TATCCGGATGAAATATGAAGCTCTTGTTGAAACTAGAGCAATAAAGTAATA
1 TATCCGGATGAAATATGAAGCTCTTGTTGAAACCAGAACAACAAAGTAATA
* * *
66972096 TATCCGGATGAAATATGAAGTTCTTGTTGAAGCCAGAATAACAAAGTAATA
1 TATCCGGATGAAATATGAAGCTCTTGTTGAAACCAGAACAACAAAGTAATA
*
66972147 -ATTCCGGATGAAGTATGAA
1 TA-TCCGGATGAAATATGAA
66972166 ATAAGTTTGG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 1 0.02
51 61 0.98
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (51 bp):
TATCCGGATGAAATATGAAGCTCTTGTTGAAACCAGAACAACAAAGTAATA
Found at i:66975774 original size:18 final size:18
Alignment explanation
Indices: 66975732--66975774 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
66975722 TTTAGCCAAT
*
66975732 AATTCTCCCCAAGGGTAC
1 AATTCTTCCCAAGGGTAC
66975750 AATTCTTCCCAAGGGTAC
1 AATTCTTCCCAAGGGTAC
66975768 AATTCTT
1 AATTCTT
66975775 AGAGTACTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (18 bp):
AATTCTTCCCAAGGGTAC
Found at i:66981981 original size:19 final size:20
Alignment explanation
Indices: 66981944--66981982 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
66981934 AAAAAACTTT
66981944 CAAAATATAATTTTATTAAA
1 CAAAATATAATTTTATTAAA
66981964 CAAAA-ATAATATTT-TTAAA
1 CAAAATATAAT-TTTATTAAA
66981983 TAATAAGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
CAAAATATAATTTTATTAAA
Found at i:66984361 original size:46 final size:46
Alignment explanation
Indices: 66984294--66984386 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
66984284 GTAAAATTGA
66984294 TTTGATAAAAATCTCTTTCCTACCTATGGAGAGATTGCGTATGCTT
1 TTTGATAAAAATCTCTTTCCTACCTATGGAGAGATTGCGTATGCTT
66984340 TTTGATAAAAATCTCTTTCCTACCTATGGAGAGATTGCGTATGCTT
1 TTTGATAAAAATCTCTTTCCTACCTATGGAGAGATTGCGTATGCTT
66984386 T
1 T
66984387 ATTCTTTTAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (46 bp):
TTTGATAAAAATCTCTTTCCTACCTATGGAGAGATTGCGTATGCTT
Found at i:66984447 original size:21 final size:21
Alignment explanation
Indices: 66984405--66984448 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
66984395 ACTTTTGTTA
*
66984405 AAAAGTGTTTTTTAATTTTAAC
1 AAAAGTGTTTTTT-ATTGTAAC
66984427 AAAAGTGTTTTTCT-TTGTAAC
1 AAAAGTGTTTTT-TATTGTAAC
66984448 A
1 A
66984449 TCTTGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 7 0.35
22 12 0.60
23 1 0.05
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.48
Consensus pattern (21 bp):
AAAAGTGTTTTTTATTGTAAC
Found at i:67003654 original size:47 final size:44
Alignment explanation
Indices: 67003538--67003708 Score: 141
Period size: 44 Copynumber: 3.8 Consensus size: 44
67003528 ATATATGCGT
*
67003538 GCTGATGCATGTCCCAGACATGTCTTACACTAGCATAACTCTTA
1 GCTGATGCATGTCTCAGACATGTCTTACACTAGCATAACTCTTA
* * *
67003582 GCTGATGCATGT-TCTAGACACGTCTTACACTAGC-TATCTTTGTCGA
1 GCTGATGCATGTCTC-AGACATGTCTTACACTAGCATAACTCT-T--A
* * * * * *
67003628 GGTCGATTCATGTCTCAGACATGTCTTACTCTGGCACTCATAAT-ATA
1 GCT-GATGCATGTCTCAGACATGTCTTACACTAGCA-T-A-ACTCTTA
* *
67003675 GCTGAAGCATGTCCCAGACATGTCTTACACTAGC
1 GCTGATGCATGTCTCAGACATGTCTTACACTAGC
67003709 CCTTGTCTGG
Statistics
Matches: 99, Mismatches: 18, Indels: 18
0.73 0.13 0.13
Matches are distributed among these distances:
43 6 0.06
44 31 0.31
46 29 0.29
47 27 0.27
48 2 0.02
49 2 0.02
50 1 0.01
51 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (44 bp):
GCTGATGCATGTCTCAGACATGTCTTACACTAGCATAACTCTTA
Found at i:67007048 original size:46 final size:46
Alignment explanation
Indices: 67006971--67007067 Score: 167
Period size: 46 Copynumber: 2.1 Consensus size: 46
67006961 GAGAACATAA
*
67006971 TTTCATTAAAATCCCTCATTACTAACCATGGCATTTGACGGCATTC
1 TTTCATTAAAATCCCTCATTACTAACCATGGCATTTGACAGCATTC
* *
67007017 TTTCATTAAAATCCCTCATTATTAACTATGGCATTTGACAGCATTC
1 TTTCATTAAAATCCCTCATTACTAACCATGGCATTTGACAGCATTC
67007063 TTTCA
1 TTTCA
67007068 CTCTTCTCAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (46 bp):
TTTCATTAAAATCCCTCATTACTAACCATGGCATTTGACAGCATTC
Found at i:67009131 original size:16 final size:15
Alignment explanation
Indices: 67009106--67009137 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
67009096 ATGATATATT
67009106 AAAAAAATATAAAAG
1 AAAAAAATATAAAAG
67009121 AAAAAATATATAAAAG
1 AAAAAA-ATATAAAAG
67009137 A
1 A
67009138 TTGGAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (15 bp):
AAAAAAATATAAAAG
Found at i:67019342 original size:119 final size:120
Alignment explanation
Indices: 67019160--67019382 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
67019150 TCCTCGTTCA
*
67019160 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
67019225 TTAGTAAC-TCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGAATTAACCCGGATTTAGTAACTCGCACC
* * * **
67019280 AATGCCTTCGGG-CTTGGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * * *
67019342 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGAATTAACCCGGA
67019383 CATTATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 4 0.05
119 64 0.73
120 20 0.23
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCACC
Found at i:67019382 original size:40 final size:40
Alignment explanation
Indices: 67019158--67019382 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
67019148 GCTCCTCGTT
* *
67019158 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
67019198 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
67019238 CAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
67019278 CCAATGCCTTCGGG-CTTGGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
67019317 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
67019358 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
67019383 CATTATTCAA
Statistics
Matches: 160, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
38 2 0.01
39 29 0.18
40 117 0.73
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:67027221 original size:40 final size:40
Alignment explanation
Indices: 67027177--67027400 Score: 217
Period size: 40 Copynumber: 5.6 Consensus size: 40
67027167 GCTCCTCGTT
*
67027177 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
67027217 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * * * *
67027257 CAAATGCCATCGGGAATTGACCCCGATT-TAGTAACTTGCA
1 CAAATGCCTTCGGGACTT-AGCCCGGTTATAGTAACTCGCA
* * * *
67027297 CCAATGCCTTCGGG-CTTGGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
67027336 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTCAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAACTC-GCA
67027377 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
67027401 ACATTATTCA
Statistics
Matches: 149, Mismatches: 26, Indels: 18
0.77 0.13 0.09
Matches are distributed among these distances:
38 6 0.04
39 22 0.15
40 103 0.69
41 18 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:67037356 original size:17 final size:18
Alignment explanation
Indices: 67037325--67037358 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
67037315 TCCTAACCCC
*
67037325 GTTTTTGATGTTCTTTAT
1 GTTTTTGATGATCTTTAT
67037343 GTTTTTGA-GATCTTTA
1 GTTTTTGATGATCTTTA
67037359 AAGCATGATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.15, C:0.06, G:0.18, T:0.62
Consensus pattern (18 bp):
GTTTTTGATGATCTTTAT
Found at i:67042212 original size:25 final size:25
Alignment explanation
Indices: 67042175--67042241 Score: 116
Period size: 25 Copynumber: 2.7 Consensus size: 25
67042165 GAGGAAGTGC
*
67042175 AAAAGGGCCTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
67042200 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
67042225 AAAAGGGCTTTGCCCCA
1 AAAAGGGCTTTGCCCCA
67042242 ATTATTAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.22
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:67042514 original size:31 final size:31
Alignment explanation
Indices: 67042476--67042609 Score: 225
Period size: 31 Copynumber: 4.4 Consensus size: 31
67042466 AGTCTTCAGA
67042476 CCAGTGATATGAATAATGAAAAGGCTTCGGC
1 CCAGTGATATGAATAATGAAAAGGCTTCGGC
*
67042507 CCAGTGATATGAATAATGAAAAGGCTTTGGC
1 CCAGTGATATGAATAATGAAAAGGCTTCGGC
67042538 CCAGTGATATGAATAATGAAAAGGCTTCGGC
1 CCAGTGATATGAATAATGAAAAGGCTTCGGC
* * *
67042569 CCAGTGACATGGATAATGTAAAGGCTTCGGC
1 CCAGTGATATGAATAATGAAAAGGCTTCGGC
67042600 CCAGT-ATATG
1 CCAGTGATATG
67042610 CTGAGATTGA
Statistics
Matches: 97, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 4 0.04
31 93 0.96
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (31 bp):
CCAGTGATATGAATAATGAAAAGGCTTCGGC
Found at i:67044063 original size:40 final size:40
Alignment explanation
Indices: 67043998--67044184 Score: 151
Period size: 40 Copynumber: 4.5 Consensus size: 40
67043988 AACTATGTTC
*
67043998 GGCACTAAGTGTGCGATTTGAAATAGCTTCGGCTATAAGTA
1 GGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAAG-A
* *
67044039 -GCACTAAGTGTGCGAATTGGAATAGCTTCGGCTATATGA
1 GGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAAGA
* ** * ** *
67044078 GGCACTAAGTGTGTGATACCGAGATAGCTTCGATTTAATGAGA
1 GGCACTAAGTGTGCGA-ATTGAAATAGCTTCG-GCT-ATAAGA
** * *
67044121 TGGCACTAAGTGTGCGAGATTGTTACAGCTTCGGCTATTCATTGA
1 -GGCACTAAGTGTGCGA-ATTGAAATAGCTTCGGCTA-T-A-AGA
*
67044166 TGCACTAAGTGTGCGAATT
1 GGCACTAAGTGTGCGAATT
67044185 CTTAAATAAT
Statistics
Matches: 114, Mismatches: 24, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
39 1 0.01
40 49 0.43
41 11 0.10
42 2 0.02
43 9 0.08
44 40 0.35
45 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (40 bp):
GGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAAGA
Found at i:67045495 original size:11 final size:12
Alignment explanation
Indices: 67045476--67045505 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
67045466 TGAATTGGTC
67045476 ATGAGAGTTTGA
1 ATGAGAGTTTGA
67045488 AT-AGAGTTTGA
1 ATGAGAGTTTGA
67045499 ATGAGAG
1 ATGAGAG
67045506 GTTGGAGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (12 bp):
ATGAGAGTTTGA
Found at i:67047058 original size:27 final size:27
Alignment explanation
Indices: 67047027--67047422 Score: 173
Period size: 27 Copynumber: 14.7 Consensus size: 27
67047017 TTAGCTTACC
*
67047027 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
67047054 AAATTAC-CAAAGTACCCTCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
** * *
67047081 AAATTACCCAAATATCCTCGATTCGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
67047108 AAATTA-TCGAAATACCCTC-AGTTTGCA
1 AAATTACT-GAAATACCCTCGA-TTTGTA
* *
67047135 AAATTATTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * ***
67047162 AACTTACTGAAATACTCCTGGAAGAG-A
1 AAATTACTGAAATAC-CCTCGATTTGTA
* * ** *
67047189 GAATTAC-CATTTTACCCTCGATTTATA
1 AAATTACTGA-AATACCCTCGATTTGTA
* * *** * * *
67047216 GAATTACCGTCTTATCCTCGATTTATG
1 AAATTACTGAAATACCCTCGATTTGTA
* * ** **
67047243 GAATTAC-CATTTTACCCTCGATTTACA
1 AAATTACTGA-AATACCCTCGATTTGTA
* ** **
67047270 AAATTAC-CATTTTACCCTCGATTTACA
1 AAATTACTGA-AATACCCTCGATTTGTA
* * **
67047297 AAATTACTGAAATACCCTTGGTTTACA
1 AAATTACTGAAATACCCTCGATTTGTA
** * *
67047324 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACTGAAATACCCTC-GATTTGTA
* *
67047351 AAATTA-TCGAAATACCCTTGGTTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
**
67047378 AAATTACCAAAATACCC-CTGATTTGTA
1 AAATTACTGAAATACCCTC-GATTTGTA
67047405 AAATTACTGAAATACCCT
1 AAATTACTGAAATACCCT
67047423 TGTAGGGTAG
Statistics
Matches: 284, Mismatches: 67, Indels: 35
0.74 0.17 0.09
Matches are distributed among these distances:
26 10 0.04
27 261 0.92
28 13 0.05
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:67047340 original size:54 final size:54
Alignment explanation
Indices: 67047255--67047424 Score: 209
Period size: 54 Copynumber: 3.1 Consensus size: 54
67047245 ATTACCATTT
* * *** **
67047255 TACCCTCGATTTACAAAATTACCATTTTA-CCCTCGATTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCCT-GATTTGTAAAATTACTGAAA
* *
67047309 TACCCTTGGTTTACAAAATTACCAAAATACCCCTAATTTGTGAAATTA-TCGAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACT-GAAA
**
67047363 TACCCTTGGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACTGAAA
67047417 TACCCTTG
1 TACCCTTG
67047425 TAGGGTAGAA
Statistics
Matches: 100, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
53 1 0.01
54 94 0.94
55 5 0.05
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.33
Consensus pattern (54 bp):
TACCCTTGGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACTGAAA
Found at i:67047436 original size:27 final size:27
Alignment explanation
Indices: 67047406--67047546 Score: 192
Period size: 27 Copynumber: 5.2 Consensus size: 27
67047396 TGATTTGTAA
67047406 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
67047433 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
*
67047460 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * *
67047487 AAATACTGAAGTACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * * *
67047514 AATTACTGAGATAGCCTTGTGGGGTAA
1 AATTACTGAAATACCCTTGTAGGGTAG
67047541 AATTAC
1 AATTAC
67047547 CATTTTGCCC
Statistics
Matches: 98, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 98 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:67047437 original size:54 final size:54
Alignment explanation
Indices: 67047296--67047548 Score: 205
Period size: 54 Copynumber: 4.7 Consensus size: 54
67047286 CTCGATTTAC
** * **
67047296 AAAATTACTGAAATACCCTTG--GTTTACAAAATTACCAAAATACCCCT-AATTTGT
1 AAAATTACTGAAATACCCTTGTAGGGT--AAAATTACCAAAATACCCCTGTA-GGGT
* ** **
67047350 GAAATTA-TCGAAATACCCTTGGT-TTGTAAAATTACCAAAATACCCCTG-ATTTGT
1 AAAATTACT-GAAATACCCTT-GTAGGGTAAAATTACCAAAATACCCCTGTA-GGGT
* *
67047404 AAAATTACTGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTGAAATACCCTTGTAGGGTAAAATTACCAAAATACCCCTGTAGGGT
* * ** *
67047458 AGAATTACCGAAATACCCTTGTAGGGTAGAAA-TACTGAAGTACCCCTGTAGGGT
1 AAAATTACTGAAATACCCTTGTAGGGTA-AAATTACCAAAATACCCCTGTAGGGT
* * * *
67047512 AGAATTACTGAGATAGCCTTGTGGGGTAAAATTACCA
1 AAAATTACTGAAATACCCTTGTAGGGTAAAATTACCA
67047549 TTTTGCCCCT
Statistics
Matches: 169, Mismatches: 21, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
53 6 0.04
54 156 0.92
55 5 0.03
56 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (54 bp):
AAAATTACTGAAATACCCTTGTAGGGTAAAATTACCAAAATACCCCTGTAGGGT
Found at i:67047445 original size:81 final size:81
Alignment explanation
Indices: 67047375--67047548 Score: 208
Period size: 81 Copynumber: 2.1 Consensus size: 81
67047365 CCCTTGGTTT
** *
67047375 GTAAAATTACCAAAATACCCCTG-ATTTGTA-AAATTACTGAAATACCCTTGTAGGGTAGAATTA
1 GTAAAATTACCAAAATACCCCTGTA-GGGTAGAAA-TACTGAAATACCCCTGTAGGGTAGAATTA
67047438 CTAAAATACCCCTGTAGG
64 CTAAAATACCCCTGTAGG
* * * *
67047456 GTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAGTACCCCTGTAGGGTAGAATTACT
1 GTAAAATTACCAAAATACCCCTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACT
* * * * *
67047521 GAGATAGCCTTGTGGG
66 AAAATACCCCTGTAGG
67047537 GTAAAATTACCA
1 GTAAAATTACCA
67047549 TTTTGCCCCT
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
81 73 0.95
82 4 0.05
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (81 bp):
GTAAAATTACCAAAATACCCCTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACT
AAAATACCCCTGTAGG
Found at i:67047974 original size:31 final size:31
Alignment explanation
Indices: 67047951--67048011 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
67047941 TCTGATTTTG
*
67047951 ATTCTGTTACCTGATACTGATTCTAATTCTA
1 ATTCTGTCACCTGATACTGATTCTAATTCTA
* *
67047982 ATTCTGTCACCTGATTCTGATTCTACTTCT
1 ATTCTGTCACCTGATACTGATTCTAATTCT
67048012 GATAATGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.21, C:0.23, G:0.10, T:0.46
Consensus pattern (31 bp):
ATTCTGTCACCTGATACTGATTCTAATTCTA
Found at i:67049626 original size:27 final size:27
Alignment explanation
Indices: 67049587--67049645 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
67049577 GAAGTGTATT
*
67049587 ATACTGGTGGCTTCGCCACATATACTG
1 ATACTAGTGGCTTCGCCACATATACTG
* *
67049614 TTACTAGTGGCTTTGCCACATATACTG
1 ATACTAGTGGCTTCGCCACATATACTG
67049641 ATACT
1 ATACT
67049646 GACAGCTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (27 bp):
ATACTAGTGGCTTCGCCACATATACTG
Found at i:67049653 original size:27 final size:27
Alignment explanation
Indices: 67049596--67049656 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
67049586 TATACTGGTG
* * **
67049596 GCTTCGCCACATATACTGTTACTAGTG
1 GCTTTGCCACATATACTGATACTAGCA
67049623 GCTTTGCCACATATACTGATACT-GACA
1 GCTTTGCCACATATACTGATACTAG-CA
67049650 GCTTTGC
1 GCTTTGC
67049657 TGCGATGCTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (27 bp):
GCTTTGCCACATATACTGATACTAGCA
Found at i:67064997 original size:33 final size:33
Alignment explanation
Indices: 67064960--67065035 Score: 120
Period size: 33 Copynumber: 2.3 Consensus size: 33
67064950 TAATAAAATA
67064960 AAATATATAAATCCAAAAAA-ATAAAAAATATAT
1 AAATATATAAATCCAAAAAATATAAAAAATA-AT
*
67064993 AAATATATAAATCCAAAAAATATAAAAATTAAT
1 AAATATATAAATCCAAAAAATATAAAAAATAAT
67065026 AAATA-ATAAA
1 AAATATATAAA
67065036 AATAAAATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
32 5 0.12
33 27 0.66
34 9 0.22
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (33 bp):
AAATATATAAATCCAAAAAATATAAAAAATAAT
Found at i:67065010 original size:25 final size:25
Alignment explanation
Indices: 67064982--67065029 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
67064972 CCAAAAAAAT
*
67064982 AAAAAATATATAAA-TATATAAATCC
1 AAAAAATATAAAAATTA-ATAAATCC
67065007 AAAAAATATAAAAATTAATAAAT
1 AAAAAATATAAAAATTAATAAAT
67065030 AATAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (25 bp):
AAAAAATATAAAAATTAATAAATCC
Found at i:67065019 original size:8 final size:8
Alignment explanation
Indices: 67064976--67065039 Score: 53
Period size: 8 Copynumber: 7.9 Consensus size: 8
67064966 ATAAATCCAA
67064976 AAAAATA-
1 AAAAATAT
67064983 AAAAATAT
1 AAAAATAT
*
67064991 ATAAATAT
1 AAAAATAT
*
67064999 ATAAATCCA-
1 AAAAAT--AT
67065008 AAAAATAT
1 AAAAATAT
67065016 AAAAAT-T
1 AAAAATAT
67065023 AATAAATAAT
1 AA-AAAT-AT
67065033 AAAAATA
1 AAAAATA
67065040 AAATTAAGAC
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
7 11 0.23
8 24 0.50
9 9 0.19
10 4 0.08
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (8 bp):
AAAAATAT
Found at i:67065034 original size:17 final size:16
Alignment explanation
Indices: 67064980--67065038 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 16
67064970 ATCCAAAAAA
*
67064980 ATAAAAAATATATAAAT
1 ATAAAAATTA-ATAAAT
* * *
67064997 ATATAAATCCAAAAAAT
1 ATAAAAAT-TAATAAAT
67065014 ATAAAAATTAATAAAT
1 ATAAAAATTAATAAAT
67065030 AATAAAAAT
1 -ATAAAAAT
67065039 AAAATTAAGA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
16 6 0.18
17 26 0.79
18 1 0.03
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAAATTAATAAAT
Found at i:67065036 original size:25 final size:25
Alignment explanation
Indices: 67064982--67065039 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
67064972 CCAAAAAAAT
* *
67064982 AAAAAATATATAAATATATAAATCC
1 AAAAAATATAAAAATATATAAATCA
67065007 AAAAAATATAAAAAT-TAATAAAT-A
1 AAAAAATATAAAAATAT-ATAAATCA
67065031 ATAAAAATA
1 A-AAAAATA
67065040 AAATTAAGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 2 0.07
25 27 0.93
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (25 bp):
AAAAAATATAAAAATATATAAATCA
Found at i:67070273 original size:35 final size:35
Alignment explanation
Indices: 67070234--67070348 Score: 90
Period size: 35 Copynumber: 3.1 Consensus size: 35
67070224 CCGACTAGTA
67070234 CTGGGTGCAAATATTGTTGGTTTATCCAACTAGAG
1 CTGGGTGCAAATATTGTTGGTTTATCCAACTAGAG
* * * **
67070269 CTGGGCT-CACAATTATTATCGTTAGTATACCCGGCTAGCA-
1 CTGGG-TGCA-AA-TA-T-T-GTTGGTTTATCCAACTAG-AG
* *
67070309 CTAGGTGCAAATATTCTTGGTTTATCCAACTAGAG
1 CTGGGTGCAAATATTGTTGGTTTATCCAACTAGAG
67070344 CTGGG
1 CTGGG
67070349 CTCACATTCA
Statistics
Matches: 58, Mismatches: 13, Indels: 18
0.65 0.15 0.20
Matches are distributed among these distances:
34 1 0.02
35 23 0.40
36 4 0.07
37 3 0.05
38 3 0.05
39 4 0.07
40 19 0.33
41 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.32
Consensus pattern (35 bp):
CTGGGTGCAAATATTGTTGGTTTATCCAACTAGAG
Found at i:67070297 original size:75 final size:75
Alignment explanation
Indices: 67070174--67070354 Score: 299
Period size: 75 Copynumber: 2.4 Consensus size: 75
67070164 CGCAATAACC
* * * * *
67070174 GTTGGTTCATCCAACTAGAGCTAGGCTCACAATTATTATCTTTAGTATACCCGACTAGTACTGGG
1 GTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTATCGTTAGTATACCCGACTAGCACTAGG
67070239 TGCAAATATT
66 TGCAAATATT
*
67070249 GTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTATCGTTAGTATACCCGGCTAGCACTAGG
1 GTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTATCGTTAGTATACCCGACTAGCACTAGG
67070314 TGCAAATATT
66 TGCAAATATT
*
67070324 CTTGGTTTATCCAACTAGAGCTGGGCTCACA
1 GTTGGTTTATCCAACTAGAGCTGGGCTCACA
67070355 TTCAATACTA
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 99 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (75 bp):
GTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTATCGTTAGTATACCCGACTAGCACTAGG
TGCAAATATT
Found at i:67070658 original size:13 final size:13
Alignment explanation
Indices: 67070640--67070664 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67070630 GAATTAGTAT
67070640 GTGTGAAAATTTC
1 GTGTGAAAATTTC
67070653 GTGTGAAAATTT
1 GTGTGAAAATTT
67070665 TATCGTTTGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:67072467 original size:23 final size:24
Alignment explanation
Indices: 67072441--67072486 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
67072431 TGCCATGTGA
*
67072441 TATGGCTTGGTTTTGGT-TATGAT
1 TATGGCTTGATTTTGGTATATGAT
*
67072464 TATGGTTTGATTTTGGTATATGA
1 TATGGCTTGATTTTGGTATATGA
67072487 AATGTGATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.17, C:0.02, G:0.28, T:0.52
Consensus pattern (24 bp):
TATGGCTTGATTTTGGTATATGAT
Found at i:67083436 original size:21 final size:21
Alignment explanation
Indices: 67083412--67083459 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
67083402 TAAAAATAAT
67083412 AATTGAAGATGG-AGAATTGAG
1 AATTGAAGATGGAAG-ATTGAG
* *
67083433 AATTTAAGATTGAAGATTGAG
1 AATTGAAGATGGAAGATTGAG
*
67083454 TATTGA
1 AATTGA
67083460 GTATTGAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (21 bp):
AATTGAAGATGGAAGATTGAG
Found at i:67089864 original size:29 final size:29
Alignment explanation
Indices: 67089815--67089887 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
67089805 TGCTTCCCAG
67089815 CAATTCTATTTTTGTCTAAGGAGATCTATA
1 CAATTCTA-TTTTGTCTAAGGAGATCTATA
67089845 CAATTCTATTTTGTCTAAGGAGATCTATA
1 CAATTCTATTTTGTCTAAGGAGATCTATA
67089874 CAATTCTATTTTGT
1 CAATTCTATTTTGT
67089888 TTTATCTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 35 0.81
30 8 0.19
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (29 bp):
CAATTCTATTTTGTCTAAGGAGATCTATA
Found at i:67094475 original size:36 final size:36
Alignment explanation
Indices: 67094428--67094499 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
67094418 ATTGAAAGAG
*
67094428 AAAAGAAAATAATTCAATCCCAAATGGAAATAGGAA
1 AAAAGAAAATAATCCAATCCCAAATGGAAATAGGAA
* * * * *
67094464 AAAAGAGAATAATCCAATTCTAAATTGAAGTAGGAA
1 AAAAGAAAATAATCCAATCCCAAATGGAAATAGGAA
67094500 TACAAAAGTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.19
Consensus pattern (36 bp):
AAAAGAAAATAATCCAATCCCAAATGGAAATAGGAA
Found at i:67095341 original size:15 final size:16
Alignment explanation
Indices: 67095321--67095350 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
67095311 AAGTTCTTAT
67095321 AATCATAA-CTTACTC
1 AATCATAACCTTACTC
67095336 AATCATAACCTTACT
1 AATCATAACCTTACT
67095351 GAGGGTTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (16 bp):
AATCATAACCTTACTC
Done.