Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 169 of 444
Found at i:46570472 original size:24 final size:25
Alignment explanation
Indices: 46570418--46570479 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
46570408 AAAATATATT
* *
46570418 TTATATACATAAGATTTTAAAAATA
1 TTATATAAATAAGATTTTAAAAAAA
46570443 TGTATATAAAT-AGA-TTTAAAAGAAA
1 T-TATATAAATAAGATTTTAAAA-AAA
*
46570468 TTATATATATAA
1 TTATATAAATAA
46570480 AAATAACATA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 15 0.48
25 8 0.26
26 8 0.26
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (25 bp):
TTATATAAATAAGATTTTAAAAAAA
Found at i:46572405 original size:44 final size:45
Alignment explanation
Indices: 46572294--46572601 Score: 186
Period size: 44 Copynumber: 6.8 Consensus size: 45
46572284 GGATTATGGT
* ** *
46572294 TTCGATATGCTCCACTGCAACTTCACAGAGATAAGATCTGCTATC
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGATATC
* ** * *
46572339 TTC-AGTCTACTCCACTATAACTTTAGGGATATAAGA-CTTGATA-C
1 TTCGA-TCTGCTCCACTGCAACTTCAGGGAGATAAGATC-TGATATC
* * *
46572383 TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTA--
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGATATC
* * ** * *
46572426 -T-GATCTACTCTACTGCAACTTCAGTTAGATCAGATCTATATATTTATAGC
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGATC--T-GA--TAT--C
** * * *
46572476 TTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGAT-TCGCTATC
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GATATC
* * * **
46572521 TTC-AGTCTGCTCCACTACAACTTCAGGGAGATAA-AACTTATGGC
1 TTCGA-TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGATATC
*
46572565 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
1 TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
46572602 TTTCCATGAT
Statistics
Matches: 196, Mismatches: 48, Indels: 38
0.70 0.17 0.13
Matches are distributed among these distances:
41 28 0.14
42 1 0.01
43 1 0.01
44 70 0.36
45 63 0.32
46 2 0.01
47 3 0.02
49 1 0.01
51 1 0.01
52 26 0.13
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (45 bp):
TTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGATATC
Found at i:46572599 original size:89 final size:89
Alignment explanation
Indices: 46572287--46572602 Score: 284
Period size: 89 Copynumber: 3.5 Consensus size: 89
46572277 GAGATAAGGA
* * * **
46572287 TTATGGTTTCGATATGCTCCACTGCAACTTCACAGAGATAAGA-TCTGCTATCTTCAGTCTACTC
1 TTATGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTC-GCTATCTTCAGTCTACTC
* * * *
46572351 CACTATAACTTTAGGGATATAAGAC
65 CACTACAACTTCAGGGAGATAAAAC
* * * * *
46572376 TTGAT-ACTTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTA---TGA-TCTACTC
1 TT-ATGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAGTCTACTC
* * * * *
46572436 TACTGCAACTTCAGTTAGATCAGATCTATATAT
65 CACTACAACTTCAG---G--GAGA--TA-AAAC
* * * * *
46572469 TTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCC
1 TTATGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAGTCTACTCC
46572534 ACTACAACTTCAGGGAGATAAAAC
66 ACTACAACTTCAGGGAGATAAAAC
46572558 TTATGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 TTATGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
46572603 TTCCATGATG
Statistics
Matches: 178, Mismatches: 34, Indels: 30
0.74 0.14 0.12
Matches are distributed among these distances:
85 17 0.10
86 2 0.01
88 1 0.01
89 81 0.46
90 7 0.04
92 7 0.04
93 42 0.24
94 1 0.01
96 2 0.01
97 18 0.10
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.32
Consensus pattern (89 bp):
TTATGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAGTCTACTCC
ACTACAACTTCAGGGAGATAAAAC
Found at i:46580518 original size:83 final size:83
Alignment explanation
Indices: 46580371--46580530 Score: 239
Period size: 83 Copynumber: 1.9 Consensus size: 83
46580361 GCCTGATTGC
* *
46580371 AACGGACGGCCTTCGCATGTGCATCTCAAGTTGCATTTGAGCATTTGTCGGGGTAAAACCAGGGG
1 AACGGACGGCCTTCGCATGTGCATCTCAAGTTGCATTTGAGCATTTGCCAGGGTAAAACCAGGGG
46580436 GTAGAGAGGATCTTCAGT
66 GTAGAGAGGATCTTCAGT
* * * * * *
46580454 AACGGATGGCCTTTGCATGTGCATCTCATGTTGCGTTTGAGCATTTGCCAGGGTGAAACGAGGGG
1 AACGGACGGCCTTCGCATGTGCATCTCAAGTTGCATTTGAGCATTTGCCAGGGTAAAACCAGGGG
*
46580519 GTAGTGAGGATC
66 GTAGAGAGGATC
46580531 ATCATTGTCA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
83 68 1.00
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (83 bp):
AACGGACGGCCTTCGCATGTGCATCTCAAGTTGCATTTGAGCATTTGCCAGGGTAAAACCAGGGG
GTAGAGAGGATCTTCAGT
Found at i:46580877 original size:19 final size:20
Alignment explanation
Indices: 46580855--46580894 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
46580845 CATGAAATTT
*
46580855 AATGCATATG-ATGAAATGA
1 AATGCAAATGAATGAAATGA
*
46580874 AATGCAAATGAATGAAGTGA
1 AATGCAAATGAATGAAATGA
46580894 A
1 A
46580895 TGCGAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.50, C:0.05, G:0.23, T:0.23
Consensus pattern (20 bp):
AATGCAAATGAATGAAATGA
Found at i:46582997 original size:39 final size:39
Alignment explanation
Indices: 46582928--46583200 Score: 332
Period size: 39 Copynumber: 6.7 Consensus size: 39
46582918 ACAAACCCTG
* * ** *
46582928 CGGGACTTTAAGCCTGGATATAATACCAGCAC-AAACCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
46582968 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
*
46583008 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
46583047 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
46583086 CAGGACTTAGCCCAGACTTAGCCCGGATATAACACCAGCATGAATGCCTT
1 C--G-----G----GACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
46583136 CAGGACTTAGCCCGGATATAACACCAACACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
46583175 CGGGACTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCA
46583201 TTATAAAGTC
Statistics
Matches: 209, Mismatches: 12, Indels: 25
0.85 0.05 0.10
Matches are distributed among these distances:
39 151 0.72
40 19 0.09
41 1 0.00
43 1 0.00
46 1 0.00
50 36 0.17
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:46583125 original size:50 final size:50
Alignment explanation
Indices: 46583050--46583148 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 50
46583040 ATGCCTTCGG
46583050 GACTTAGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTTAGCCCA
1 GACTTAGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTTAGCCCA
*
46583100 GACTTAGCCCGGATATAACACCAGCATGAATGCCTTCAGGACTTAGCCC
1 GACTTAGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTTAGCCC
46583149 GGATATAACA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.19
Consensus pattern (50 bp):
GACTTAGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTTAGCCCA
Found at i:46583167 original size:89 final size:89
Alignment explanation
Indices: 46583013--46583187 Score: 314
Period size: 89 Copynumber: 2.0 Consensus size: 89
46583003 GCCTTCGGGG
* *
46583013 CTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
1 CTTAGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAACACCAACACG
46583078 AATGCCTTCAGGACTTAGCCCAGA
66 AATGCCTTCAGGACTTAGCCCAGA
*
46583102 CTTAGCCCGGATATAACACCAGCATGAATGCCTTCAGGACTTAGCCCGGATATAACACCAACACG
1 CTTAGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAACACCAACACG
*
46583167 AATGCCTTCGGGACTTAGCCC
66 AATGCCTTCAGGACTTAGCCC
46583188 GGATATAACA
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
89 82 1.00
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (89 bp):
CTTAGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAACACCAACACG
AATGCCTTCAGGACTTAGCCCAGA
Found at i:46583306 original size:28 final size:28
Alignment explanation
Indices: 46583273--46583354 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
46583263 ATTTAATCAT
* *
46583273 TCAATATTTTGCACACTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* *
46583301 TCAATATCTCGCACATTAAGTGCCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* * *
46583329 TCAATATTTCGTACACTGAGTACCAT
1 TCAATATTTCGCACACTAAGTGCCAT
46583355 ATTTGATTGC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.35
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTGCCATTC
Found at i:46587617 original size:77 final size:77
Alignment explanation
Indices: 46587524--46587685 Score: 281
Period size: 77 Copynumber: 2.1 Consensus size: 77
46587514 GTTAAAACTC
* * *
46587524 TCTTGTTTCAAAGGAATACAGTATCACATCTAGCACGTTAGGACACGATCCTTTAAACCCTCGAA
1 TCTTGATTCAAAGGAATAAAGTATCACATCCAGCACGTTAGGACACGATCCTTTAAACCCTCG-A
46587589 AG-TACGATCAAT
65 AGCTACGATCAAT
46587601 TCTTGATTCAAAGGAATAAAGTATCACATCCAGCACGTTAGGACACGATCCTTTAAACCCTCGAA
1 TCTTGATTCAAAGGAATAAAGTATCACATCCAGCACGTTAGGACACGATCCTTTAAACCCTCGAA
46587666 GCTACGATCAAT
66 GCTACGATCAAT
46587678 TCTTGATT
1 TCTTGATT
46587686 TCCAAAAACC
Statistics
Matches: 81, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
76 3 0.04
77 78 0.96
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (77 bp):
TCTTGATTCAAAGGAATAAAGTATCACATCCAGCACGTTAGGACACGATCCTTTAAACCCTCGAA
GCTACGATCAAT
Found at i:46588385 original size:28 final size:28
Alignment explanation
Indices: 46588330--46588386 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
46588320 AATAATATGC
** *
46588330 AACAATAATATATGAAATAATATAAGAA
1 AACAATAATATACAAAACAATATAAGAA
46588358 AACAATCAATATACAAAACAATAT-AGAA
1 AACAAT-AATATACAAAACAATATAAGAA
46588386 A
1 A
46588387 TTAGGAGTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 11 0.44
29 14 0.56
ACGTcount: A:0.65, C:0.09, G:0.05, T:0.21
Consensus pattern (28 bp):
AACAATAATATACAAAACAATATAAGAA
Found at i:46588738 original size:24 final size:25
Alignment explanation
Indices: 46588684--46588745 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
46588674 AAAATATATT
* *
46588684 TTATATACATAAGATTTTAAAAATA
1 TTATATAAATAAGATTTTAAAAAAA
46588709 TGTATATAAAT-AGA-TTTAAAAGAAA
1 T-TATATAAATAAGATTTTAAAA-AAA
*
46588734 TTATATATATAA
1 TTATATAAATAA
46588746 AAATAACATA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 15 0.48
25 8 0.26
26 8 0.26
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (25 bp):
TTATATAAATAAGATTTTAAAAAAA
Found at i:46591569 original size:27 final size:27
Alignment explanation
Indices: 46590986--46591568 Score: 737
Period size: 27 Copynumber: 21.6 Consensus size: 27
46590976 AAAGTACTCC
* *
46590986 CGATTTATAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
46591013 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
46591040 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
46591067 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
46591094 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
46591121 CGATTTACAGAATTACCGTTTTATCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
46591148 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
46591175 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
46591202 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
46591229 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
46591256 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
46591283 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
46591310 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
46591337 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
46591364 CGATTTATAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
46591390 CTAATTTACATAATTACCATTTTACCC-
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
46591417 CTGATTTACATAATTATCGTTTTACCCT
1 C-GATTTACAGAATTACCGTTTTACCCT
*
46591445 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
46591472 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
46591499 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
46591526 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
46591553 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
46591569 TAAAATACCC
Statistics
Matches: 492, Mismatches: 54, Indels: 20
0.87 0.10 0.04
Matches are distributed among these distances:
26 5 0.01
27 482 0.98
28 5 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:46592837 original size:25 final size:25
Alignment explanation
Indices: 46592809--46592856 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46592799 TTATACCATG
* * *
46592809 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
46592834 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
46592857 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:46592959 original size:20 final size:20
Alignment explanation
Indices: 46592899--46592959 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
46592889 ATAAATATGG
*
46592899 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
46592919 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
46592939 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
46592959 T
1 T
46592960 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:46593036 original size:24 final size:24
Alignment explanation
Indices: 46593009--46593137 Score: 206
Period size: 24 Copynumber: 5.4 Consensus size: 24
46592999 GAGGAAGTGA
46593009 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
46593033 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
46593057 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
46593080 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
46593104 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
46593128 AAAAGAGGCT
1 AAAAG-GGCT
46593138 AGGCCTCCAA
Statistics
Matches: 100, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
23 23 0.23
24 73 0.73
25 4 0.04
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:46593102 original size:47 final size:47
Alignment explanation
Indices: 46593009--46593137 Score: 204
Period size: 47 Copynumber: 2.7 Consensus size: 47
46592999 GAGGAAGTGA
46593009 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
46593057 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* *
46593104 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCT
46593138 AGGCCTCCAA
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
47 43 0.57
48 29 0.38
49 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:46593378 original size:31 final size:31
Alignment explanation
Indices: 46593343--46593437 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
46593333 CGTTTACAGT
46593343 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
46593374 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
46593405 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
46593436 AA
1 AA
46593438 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:46593529 original size:12 final size:12
Alignment explanation
Indices: 46593512--46593537 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46593502 TTATTGTTTT
46593512 GGGCTCTGAAAG
1 GGGCTCTGAAAG
46593524 GGGCTCTGAAAG
1 GGGCTCTGAAAG
46593536 GG
1 GG
46593538 ACTTGTTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.15, G:0.46, T:0.15
Consensus pattern (12 bp):
GGGCTCTGAAAG
Found at i:46604616 original size:40 final size:40
Alignment explanation
Indices: 46604557--46604777 Score: 311
Period size: 40 Copynumber: 5.5 Consensus size: 40
46604547 CATTTGAATG
*
46604557 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * *
46604597 ATATCTGGGTTAAGACCCGAAGGCATTTGTGTGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
46604637 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
46604677 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * * *
46604717 ATGTCCGGGTTAAGACCCGAAAGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
46604757 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
46604778 AAACTTGGGT
Statistics
Matches: 161, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 1 0.01
39 11 0.07
40 149 0.93
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:46614106 original size:46 final size:46
Alignment explanation
Indices: 46614053--46614220 Score: 184
Period size: 46 Copynumber: 3.6 Consensus size: 46
46614043 TATTTGGGCA
46614053 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
46614099 TCCGAACTCGTTGAGTTGAGTTCGAGTT---TGA-GAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* *
46614144 CATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
46614192 TCCAAACTCGTTGAGTTGAGTCTGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
46614221 GAGAGTTGTA
Statistics
Matches: 99, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
42 3 0.03
43 7 0.07
45 1 0.01
46 52 0.53
47 25 0.25
48 1 0.01
50 7 0.07
51 3 0.03
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:46614208 original size:93 final size:93
Alignment explanation
Indices: 46614049--46614256 Score: 355
Period size: 93 Copynumber: 2.2 Consensus size: 93
46614039 AGGATATTTG
* *
46614049 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAG
*
46614114 TTGAGT-TCGAGTTTGAGAGATGTAACTA
66 TTGAGTCT-GAGTTCGAGAGATGTAACTA
*
46614142 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAG
*
46614207 TTGAGTCTGAGTTCGAGAGTTGTAACTA
66 TTGAGTCTGAGTTCGAGAGATGTAACTA
46614235 GGCATCCGAGCTCGTTGAGTTG
1 GGCATCCGAGCTCGTTGAGTTG
46614257 TTTACTTGTG
Statistics
Matches: 108, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
93 107 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAG
TTGAGTCTGAGTTCGAGAGATGTAACTA
Found at i:46614291 original size:85 final size:89
Alignment explanation
Indices: 46614049--46614306 Score: 285
Period size: 93 Copynumber: 2.9 Consensus size: 89
46614039 AGGATATTTG
*
46614049 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTT-AGT-C---TTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
*
46614114 TTGAGT-TCGAGTTTGAGAGATGTAACTA
61 TTGAGTCTCGAGTTCGAGAGATGTAACTA
* *
46614142 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTT-AGT-C---TTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
*
46614207 TTGAGTCT-GAGTTCGAGAGTTGTAACTA
61 TTGAGTCTCGAGTTCGAGAGATGTAACTA
* * * * *
46614235 GGCATCCGAGCTCGTTGAGTT-GT-TT-ACTTGTGGATGCGAACGCCCGAGCTCATTGAGTTGAG
1 GGCATCCGAGCTCGTTGAGTTAGTCTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAG
*
46614297 TC-CAAGTTCG
66 TCTCGAGTTCG
46614307 CTTATGGGCG
Statistics
Matches: 150, Mismatches: 13, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
85 39 0.26
86 2 0.01
91 2 0.01
93 106 0.71
94 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (89 bp):
GGCATCCGAGCTCGTTGAGTTAGTCTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAG
TCTCGAGTTCGAGAGATGTAACTA
Found at i:46617297 original size:15 final size:15
Alignment explanation
Indices: 46617277--46617345 Score: 93
Period size: 15 Copynumber: 4.6 Consensus size: 15
46617267 ATATCTTGGG
46617277 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
46617292 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
46617307 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
*
46617322 TTTCTCTATCCTGGA
1 TTTCTTTATCCTGGA
46617337 TTTCTTTAT
1 TTTCTTTAT
46617346 TCGGTTTTCT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.12, C:0.19, G:0.13, T:0.57
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:46617346 original size:30 final size:30
Alignment explanation
Indices: 46617268--46617355 Score: 97
Period size: 30 Copynumber: 3.0 Consensus size: 30
46617258 CATAGTATCA
* * * * *
46617268 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCCTGGATTTCTTTATTCTGGATTTCTC
* *
46617298 TATTCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCCTGGATTTCTTTATTCTGGATTTCTC
*
46617328 TATCCTGGATTTCTTTATTC-GGTTTTCT
1 TATCCTGGATTTCTTTATTCTGGATTTCT
46617356 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 7 0.14
30 42 0.86
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCCTGGATTTCTTTATTCTGGATTTCTC
Found at i:46619961 original size:49 final size:47
Alignment explanation
Indices: 46619787--46620103 Score: 465
Period size: 47 Copynumber: 6.7 Consensus size: 47
46619777 CCCTTCGGGA
* * * * * *
46619787 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
* *
46619834 CCTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
46619881 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGC
* *
46619928 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
46619977 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATTAGGC
*
46620026 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
46620073 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
46620104 GCGTAAAATC
Statistics
Matches: 248, Mismatches: 16, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
47 158 0.64
48 2 0.01
49 88 0.35
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
Found at i:46619983 original size:96 final size:94
Alignment explanation
Indices: 46619787--46620103 Score: 483
Period size: 96 Copynumber: 3.3 Consensus size: 94
46619777 CCCTTCGGGA
* * * * * *
46619787 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* *
46619852 CTTCACATTCATCACATTGGCCATTCGGC
66 CTTCACATTCATCACATCGGCCATTAGGC
*
46619881 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGCCTTATCACATATATATA
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTCGGCCTTATCAC--ATATATA
*
46619945 CACTTTCACATTCATCACATCGGCCATTAGGC
63 CACCTTCACATTCATCACATCGGCCATTAGGC
46619977 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
46620042 ACCTTCACATTCATCACATCGGCCATTAGGC
64 ACCTTCACATTCATCACATCGGCCATTAGGC
*
46620073 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
46620104 GCGTAAAATC
Statistics
Matches: 204, Mismatches: 13, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
94 58 0.28
95 1 0.00
96 110 0.54
97 2 0.01
98 33 0.16
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
CTTCACATTCATCACATCGGCCATTAGGC
Found at i:46623903 original size:43 final size:43
Alignment explanation
Indices: 46623842--46624190 Score: 601
Period size: 43 Copynumber: 8.1 Consensus size: 43
46623832 CCTTGCTCGA
** * *
46623842 ATCACCGGCATTAAGCCTGCTAAGCACGAAGACCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
46623885 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
* *
46623928 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGACCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
46623971 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCC-AATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
* *
46624013 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGACCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
46624056 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
46624099 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
46624142 ATCACTGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
46624185 ATCACC
1 ATCACC
46624191 AGCATGACTG
Statistics
Matches: 291, Mismatches: 14, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
42 40 0.14
43 251 0.86
ACGTcount: A:0.33, C:0.32, G:0.22, T:0.13
Consensus pattern (43 bp):
ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
Found at i:46624137 original size:171 final size:172
Alignment explanation
Indices: 46623842--46624190 Score: 603
Period size: 171 Copynumber: 2.0 Consensus size: 172
46623832 CCTTGCTCGA
**
46623842 ATCACCGGCATTAAGCCTGCTAAGCACGAAGACCCGAATACATATCACCGGCACAAAGCCTGCTA
1 ATCACCGGCACAAAGCCTGCTAAGCACGAAGACCCGAATACATATCACCGGCACAAAGCCTGCTA
* *
46623907 GGCTCGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCTCGAAGACCCGAATACATA
66 GGCACGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGACCCGAATACATA
46623972 TCACCGGCACAAAGCCTGCTAGGCACGAAGGCCC-AATACAT
131 TCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
* *
46624013 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGA-CCGAATACATATCACCGGCACAAAGCCTGCT
1 ATCACCGGCACAAAGCCTGCTAAGCACGAA-GACCCGAATACATATCACCGGCACAAAGCCTGCT
*
46624077 AGGCACGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
65 AGGCACGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGACCCGAATACAT
*
46624142 ATCACTGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
130 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
46624185 ATCACC
1 ATCACC
46624191 AGCATGACTG
Statistics
Matches: 168, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
171 153 0.91
172 15 0.09
ACGTcount: A:0.33, C:0.32, G:0.22, T:0.13
Consensus pattern (172 bp):
ATCACCGGCACAAAGCCTGCTAAGCACGAAGACCCGAATACATATCACCGGCACAAAGCCTGCTA
GGCACGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGACCCGAATACATA
TCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
Found at i:46624364 original size:42 final size:42
Alignment explanation
Indices: 46624173--46624384 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 42
46624163 AGGCACGAAG
* * * * * * *
46624173 GCCCGAATACATATCACCAGCATGACTGCTCTTCGGAACCTG
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* * * * *
46624215 GTCCGG--ATACATCACTAGCATGAATGCTCTTCGGGATTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* * *
46624255 GCCCGG--ATATATCACTAGCATGAATGCTCTTCGGGATTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* *
46624295 GCCCGGATGTA-A-CACCAGCACGAATGCTCTACGGGACTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* *
46624335 ACCCGGATATATATCGCCAGCACGAATGCTCTTCGGGACTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
46624377 GCCCGGAT
1 GCCCGGAT
46624385 CATCGTCGAG
Statistics
Matches: 144, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
40 103 0.72
41 2 0.01
42 39 0.27
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (42 bp):
GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
Found at i:46626493 original size:49 final size:47
Alignment explanation
Indices: 46626319--46626635 Score: 465
Period size: 47 Copynumber: 6.7 Consensus size: 47
46626309 CCCTTCGGGA
* * * * * *
46626319 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
* *
46626366 CCTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
46626413 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGC
* *
46626460 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
46626509 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATTAGGC
*
46626558 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
46626605 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
46626636 GCGTAAAATC
Statistics
Matches: 248, Mismatches: 16, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
47 158 0.64
48 2 0.01
49 88 0.35
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
Found at i:46626515 original size:96 final size:94
Alignment explanation
Indices: 46626319--46626635 Score: 483
Period size: 96 Copynumber: 3.3 Consensus size: 94
46626309 CCCTTCGGGA
* * * * * *
46626319 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* *
46626384 CTTCACATTCATCACATTGGCCATTCGGC
66 CTTCACATTCATCACATCGGCCATTAGGC
*
46626413 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGCCTTATCACATATATATA
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTCGGCCTTATCAC--ATATATA
*
46626477 CACTTTCACATTCATCACATCGGCCATTAGGC
63 CACCTTCACATTCATCACATCGGCCATTAGGC
46626509 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
46626574 ACCTTCACATTCATCACATCGGCCATTAGGC
64 ACCTTCACATTCATCACATCGGCCATTAGGC
*
46626605 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
46626636 GCGTAAAATC
Statistics
Matches: 204, Mismatches: 13, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
94 58 0.28
95 1 0.00
96 110 0.54
97 2 0.01
98 33 0.16
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
CTTCACATTCATCACATCGGCCATTAGGC
Found at i:46631331 original size:39 final size:40
Alignment explanation
Indices: 46631212--46631391 Score: 262
Period size: 39 Copynumber: 4.6 Consensus size: 40
46631202 CGAATGATGA
*
46631212 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAT
*
46631252 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-AAT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
46631291 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
46631330 CCGGGCT-AGTCCCGAAGGCATTTGTGCTAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
46631369 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
46631392 CGAACGAGTA
Statistics
Matches: 127, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
38 25 0.20
39 56 0.44
40 38 0.30
41 8 0.06
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:46637432 original size:40 final size:40
Alignment explanation
Indices: 46637359--46637539 Score: 255
Period size: 40 Copynumber: 4.6 Consensus size: 40
46637349 CGAATGATGA
*
46637359 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAT
*
46637399 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-AAT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
46637438 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
46637477 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAT
*
46637517 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
46637540 GAACGAGTAG
Statistics
Matches: 127, Mismatches: 8, Indels: 12
0.86 0.05 0.08
Matches are distributed among these distances:
38 23 0.18
39 24 0.19
40 70 0.55
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:46637493 original size:78 final size:81
Alignment explanation
Indices: 46637358--46637540 Score: 268
Period size: 78 Copynumber: 2.3 Consensus size: 81
46637348 TCGAATGATG
*
46637358 ACCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
1 ACCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
46637422 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
46637437 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 ACCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTTACTAAATCCGGACTAAGAT-CCGAAGGCAT
46637499 TTGTGCGAGTTACTATA
65 TTGTGCGAGTTACTATA
*
46637516 ACCGGGCTATGTCCCGAAGGCATTG
1 ACCGGGCTAAGTCCCGAAGGCATTG
46637541 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
77 1 0.01
78 53 0.57
79 26 0.28
80 13 0.14
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
ACCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:46637562 original size:78 final size:78
Alignment explanation
Indices: 46637358--46637573 Score: 228
Period size: 78 Copynumber: 2.8 Consensus size: 78
46637348 TCGAATGATG
* * **
46637358 ACCGGGCTAAGTCCCGAAGGCTTTGTG--CTAAGTTACTAAATCCGGACTAAGAT-CCGAAGGCA
1 ACCGGGCTAAG-CCCGAAGGCATTG-GAAC-GAGTTACTAAATCCGGGTTAA-ATCCCGAAGGCA
46637420 TTTGTGCGAGTTACTAA
62 TTTGTGCGAGTTACTAA
* ** *
46637437 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 ACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTG
46637502 TGCGAGTTACTATA
66 TGCGAGTTACTA-A
* * *
46637516 ACCGGGCTATGTCCCGAAGGCATT-GAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
46637574 TACGTGATTC
Statistics
Matches: 118, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
77 2 0.02
78 71 0.60
79 33 0.28
80 12 0.10
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
ACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTG
TGCGAGTTACTAA
Found at i:46639698 original size:40 final size:40
Alignment explanation
Indices: 46639613--46639763 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
46639603 AATTGAATGA
* * *
46639613 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
46639653 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
46639694 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
46639733 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
46639764 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:46639777 original size:40 final size:40
Alignment explanation
Indices: 46639650--46639779 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
46639640 ATGCTGGAAA
* * * *
46639650 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
46639690 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
46639730 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
46639770 TTATATCCGG
1 TTATATCCGG
46639780 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:46644616 original size:40 final size:40
Alignment explanation
Indices: 46644531--46644681 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
46644521 AATTGAATGA
* * *
46644531 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
46644571 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
46644612 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
46644651 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
46644682 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:46644695 original size:40 final size:40
Alignment explanation
Indices: 46644568--46644697 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
46644558 ATGCTGGAAA
* * * *
46644568 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
46644608 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
46644648 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
46644688 TTATATCCGG
1 TTATATCCGG
46644698 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:46653579 original size:40 final size:40
Alignment explanation
Indices: 46653506--46653687 Score: 248
Period size: 40 Copynumber: 4.6 Consensus size: 40
46653496 CGAATGATGA
*
46653506 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAT
*
46653546 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-AAT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
46653585 CCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAAT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
46653625 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAT
*
46653665 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
46653688 CGAACGAGTA
Statistics
Matches: 127, Mismatches: 8, Indels: 14
0.85 0.05 0.09
Matches are distributed among these distances:
39 35 0.28
40 82 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:46653641 original size:79 final size:81
Alignment explanation
Indices: 46653505--46653687 Score: 259
Period size: 79 Copynumber: 2.3 Consensus size: 81
46653495 TCGAATGATG
*
46653505 ACCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
1 ACCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
46653569 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
46653584 TCCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -ACCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTTACTAAATCCGGACTAAGAT-CCGAAGGCA
46653646 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
*
46653664 ACCGGGCTATGTCCCGAAGGCATT
1 ACCGGGCTAAGTCCCGAAGGCATT
46653688 CGAACGAGTA
Statistics
Matches: 92, Mismatches: 7, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 62 0.67
80 29 0.32
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
ACCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:46653711 original size:79 final size:79
Alignment explanation
Indices: 46653535--46653722 Score: 222
Period size: 79 Copynumber: 2.4 Consensus size: 79
46653525 CTTTGTGCTA
** *
46653535 AGTTACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATCCCGGGCTAAGCCC
1 AGTTACTAAATCCGGGTTAA-ATCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCC
* **
46653599 GAAGGCATTGGTGCG
65 GAAGGCATTCGAACG
* *
46653614 AGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCC
1 AGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CC
46653678 CGAAGGCATTCGAACG
64 CGAAGGCATTCGAACG
* *
46653694 AG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 AGTTA-CTAAATCCGGGTTAAATCCCGAAGG
46653723 TACGTGATTC
Statistics
Matches: 94, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 67 0.71
80 24 0.26
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
AGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCG
AAGGCATTCGAACG
Found at i:46656208 original size:46 final size:46
Alignment explanation
Indices: 46656155--46656423 Score: 239
Period size: 46 Copynumber: 5.8 Consensus size: 46
46656145 TATTTGGGCA
*
46656155 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
46656201 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGAT-CTAACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
46656246 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *** * *
46656294 TTCGATCTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* *
46656341 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
46656387 CCCTAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46656424 GCGGGTTACA
Statistics
Matches: 180, Mismatches: 25, Indels: 36
0.75 0.10 0.15
Matches are distributed among these distances:
42 4 0.02
43 6 0.03
44 4 0.02
45 2 0.01
46 90 0.50
47 58 0.32
48 2 0.01
49 4 0.02
50 6 0.03
51 4 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:46656270 original size:47 final size:47
Alignment explanation
Indices: 46656201--46656369 Score: 197
Period size: 47 Copynumber: 3.6 Consensus size: 47
46656191 GATGCGAATG
*
46656201 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATCTAACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGAGAGATCTAACTAGGCA
* *
46656248 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAA-T--G--
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGA--GA--GAT-CTAACTAGGCA
* * *
46656294 TTCGATCTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGAGAGATCTAACTAGGCA
46656341 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC
46656370 ACTTGTGGAT
Statistics
Matches: 101, Mismatches: 10, Indels: 22
0.76 0.08 0.17
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 28 0.28
47 56 0.55
48 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (47 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGAGAGATCTAACTAGGCA
Found at i:46656310 original size:93 final size:93
Alignment explanation
Indices: 46656151--46656416 Score: 442
Period size: 93 Copynumber: 2.9 Consensus size: 93
46656141 AGGATATTTG
*
46656151 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
46656216 TTGAGTCCGAGTTCGAGAGATCTAACTA
66 TTGAGTCCGAGTTCGAGAGATCTAACTA
* *
46656244 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGATCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
*
46656309 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATCTAACTA
* * * * * *
46656337 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACGCCCTAGCTCATTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
46656402 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
46656417 CTTATGGGCG
Statistics
Matches: 162, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 162 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATCTAACTA
Found at i:46664183 original size:15 final size:15
Alignment explanation
Indices: 46664151--46664179 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
46664141 ATTTTCTTTG
46664151 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
46664166 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
46664180 ATTTTCGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:46665368 original size:43 final size:43
Alignment explanation
Indices: 46665307--46665434 Score: 186
Period size: 43 Copynumber: 3.0 Consensus size: 43
46665297 TAGGATTTCT
46665307 AATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCATC
1 AATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCATC
* * * *
46665350 AATATGTGATTACGTGTAAGATCC-TGTCTGGGATAGTGGCATC
1 AATATGTGATTACATGTAAGA-CCACGTCTGGGACATTGGCATC
* *
46665393 GATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 AATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCAT
46665435 TGTACGATAT
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 2 0.03
43 69 0.95
44 2 0.03
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (43 bp):
AATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCATC
Found at i:46677023 original size:24 final size:24
Alignment explanation
Indices: 46676979--46677024 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
46676969 GAATTATGAG
*
46676979 TTTGTGGAAAGGATTGGGGAGTGA
1 TTTGTGGAAAGGATTGAGGAGTGA
*
46677003 TTTGTGGAGAGGAATT-AGGAGT
1 TTTGTGGAAAGG-ATTGAGGAGT
46677025 TTGATGAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.26, C:0.00, G:0.43, T:0.30
Consensus pattern (24 bp):
TTTGTGGAAAGGATTGAGGAGTGA
Found at i:46678225 original size:27 final size:27
Alignment explanation
Indices: 46678195--46678312 Score: 146
Period size: 27 Copynumber: 4.4 Consensus size: 27
46678185 CCCCATAATA
46678195 GGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
** * *
46678222 GGTAAAATGGTCGTCATGTCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
46678249 GGTAAAATGATCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * * * *
46678276 GGTAAGATAACTGTAATACCCCTGTAT
1 GGTAAAATGACCGTAATGCCCCTGTAG
46678303 GGTAAAATGA
1 GGTAAAATGA
46678313 TGATTATGCC
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTGTAG
Found at i:46682640 original size:47 final size:47
Alignment explanation
Indices: 46682586--46682713 Score: 177
Period size: 47 Copynumber: 2.7 Consensus size: 47
46682576 TGCAAATAAT
*
46682586 CCTTGATTTGGCTACAGGCCATGGTATAGGTATTCAGAGAGGAA-TTA
1 CCTTGATTTGGCTACAGGCCATGGTATAGGTACTCAGAGA-GAAGTTA
* * * *
46682633 CCTTGATTTGGTTACAGGCCATGGTATAGGTACTCCGGGATAAGTTA
1 CCTTGATTTGGCTACAGGCCATGGTATAGGTACTCAGAGAGAAGTTA
* *
46682680 CCTTGATTTGCCTACGGGCCATGGTATAGGTACT
1 CCTTGATTTGGCTACAGGCCATGGTATAGGTACT
46682714 TATCGATTGA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 2 0.03
47 70 0.97
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.31
Consensus pattern (47 bp):
CCTTGATTTGGCTACAGGCCATGGTATAGGTACTCAGAGAGAAGTTA
Found at i:46685852 original size:20 final size:20
Alignment explanation
Indices: 46685827--46685867 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
46685817 TGATGTACAA
46685827 GATAAATATGTATGAGATAT
1 GATAAATATGTATGAGATAT
46685847 GATAAATATGTATGAGATAT
1 GATAAATATGTATGAGATAT
46685867 G
1 G
46685868 TATATGTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.34
Consensus pattern (20 bp):
GATAAATATGTATGAGATAT
Found at i:46685866 original size:11 final size:11
Alignment explanation
Indices: 46685832--46685870 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
46685822 TACAAGATAA
46685832 ATATGTATGAG
1 ATATGTATGAG
*
46685843 ATATG-AT-AA
1 ATATGTATGAG
46685852 ATATGTATGAG
1 ATATGTATGAG
46685863 ATATGTAT
1 ATATGTAT
46685871 ATGTGGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 6 0.25
10 4 0.17
11 14 0.58
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (11 bp):
ATATGTATGAG
Found at i:46685910 original size:48 final size:48
Alignment explanation
Indices: 46685850--46686343 Score: 636
Period size: 48 Copynumber: 10.3 Consensus size: 48
46685840 GAGATATGAT
46685850 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
46685898 AAATATGAATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
46685946 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * *
46685994 AAATATGTATGACATATGTATATGTTGTAAAGCCG-A-----AATATG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * * *
46686036 ---TATG-A-GATATGTATA--TGTGGTAAAGCCGAACGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
46686077 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAACGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
46686125 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAACGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
46686173 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * * *
46686221 AAATATATATGAGATATGTATATGTGGATGTATATGTGGTAAAGTCGAATGGCTAGTGAG
1 --A-A-ATAT--G-TATG-AGA--T--ATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
46686281 AAATATGAATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
46686329 AAATATGTAGGAGAT
1 AAATATGTATGAGAT
46686344 GTGTGTATAT
Statistics
Matches: 397, Mismatches: 24, Indels: 50
0.84 0.05 0.11
Matches are distributed among these distances:
35 12 0.03
36 1 0.00
37 7 0.02
38 1 0.00
39 4 0.01
41 5 0.01
42 5 0.01
44 4 0.01
45 1 0.00
46 7 0.02
47 1 0.00
48 292 0.74
50 2 0.01
51 1 0.00
52 6 0.02
53 3 0.01
54 2 0.01
55 4 0.01
56 6 0.02
57 1 0.00
58 2 0.01
60 30 0.08
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
Found at i:46686035 original size:35 final size:35
Alignment explanation
Indices: 46685993--46686065 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
46685983 TGGCTAATGT
*
46685993 GAAATATGTATGACATATGTATATGTTGTAAAGCC
1 GAAATATGTATGACATATGTATATGTGGTAAAGCC
*
46686028 GAAATATGTATGAGATATGTATATGTGGTAAAGCC
1 GAAATATGTATGACATATGTATATGTGGTAAAGCC
46686063 GAA
1 GAA
46686066 CGGCTAATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.32
Consensus pattern (35 bp):
GAAATATGTATGACATATGTATATGTGGTAAAGCC
Found at i:46686047 original size:131 final size:135
Alignment explanation
Indices: 46685896--46686247 Score: 541
Period size: 131 Copynumber: 2.6 Consensus size: 135
46685886 ATGGCTAATG
*
46685896 TGAAATATGAATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
1 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
* *
46685961 ATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGACATATGTATATGTTGTAAA-
66 ATGTATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGACATATGTATATGTGGTAAAC
46686025 G-C-C
131 GACGC
*
46686028 -GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGAGAT
1 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
*
46686092 ATGTATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
66 ATGTATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGACATATGTATATGTGGTAAA-
46686157 CCGAACGGC
130 -CG-AC-GC
*
46686166 TAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATAT
1 -----TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
46686231 GAGATATGTATATGTGG
61 GAGATATGTATATGTGG
46686248 ATGTATATGT
Statistics
Matches: 200, Mismatches: 7, Indels: 14
0.90 0.03 0.06
Matches are distributed among these distances:
131 123 0.62
134 1 0.00
136 1 0.00
138 1 0.00
144 74 0.37
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (135 bp):
TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
ATGTATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGACATATGTATATGTGGTAAAC
GACGC
Found at i:46686052 original size:83 final size:83
Alignment explanation
Indices: 46685945--46686209 Score: 386
Period size: 83 Copynumber: 3.0 Consensus size: 83
46685935 TGGCTAATGT
* *
46685945 GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGACATA
1 GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGAGATA
*
46686010 TGTATATGTTGTAAAGCC
66 TGTATATGTGGTAAAGCC
46686028 GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGAGATA
1 GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGAGATA
46686093 TGTATATGTGGTAAAGCCGAACGGC
66 TGTATATGTGGTAAA---G--C--C
46686118 TAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTAT
1 ----G--AAATATGTATGAGATATGTATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTAT
46686183 GAGATATGTATATGTGGTAAAGCC
60 GAGATATGTATATGTGGTAAAGCC
46686207 GAA
1 GAA
46686210 TGGCTAATGT
Statistics
Matches: 166, Mismatches: 3, Indels: 26
0.85 0.02 0.13
Matches are distributed among these distances:
83 79 0.48
85 1 0.01
86 1 0.01
88 1 0.01
89 1 0.01
90 1 0.01
91 1 0.01
93 1 0.01
94 1 0.01
96 79 0.48
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (83 bp):
GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGAGATA
TGTATATGTGGTAAAGCC
Found at i:46686150 original size:179 final size:179
Alignment explanation
Indices: 46685850--46686209 Score: 666
Period size: 179 Copynumber: 2.0 Consensus size: 179
46685840 GAGATATGAT
*
46685850 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGAATGAGATAT
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGAATGAGATAT
*
46685915 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
66 GTATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
* *
46685980 GAATGGCTAATGTGAAATATGTATGACATATGTATATGTTGTAAAGCCG
131 GAACGGCTAATGTGAAATATGTATGACATATGTATATGTGGTAAAGCCG
*
46686029 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGAGATAT
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGAATGAGATAT
46686094 GTATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
66 GTATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
*
46686159 GAACGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
131 GAACGGCTAATGTGAAATATGTATGACATATGTATATGTGGTAAAGCCG
46686208 AA
1 AA
46686210 TGGCTAATGT
Statistics
Matches: 175, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
179 175 1.00
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.30
Consensus pattern (179 bp):
AAATATGTATGAGATATGTATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGAATGAGATAT
GTATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
GAACGGCTAATGTGAAATATGTATGACATATGTATATGTGGTAAAGCCG
Found at i:46686259 original size:60 final size:60
Alignment explanation
Indices: 46686188--46686307 Score: 197
Period size: 60 Copynumber: 2.0 Consensus size: 60
46686178 TGTATGAGAT
*
46686188 ATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT-ATATGAGATATGTATATGTGG
1 ATGTATATGTGGTAAAGCCGAATGGCTAATGAGAAATATGA-ATGAGATATGTATATGTGG
* *
46686248 ATGTATATGTGGTAAAGTCGAATGGCTAGTGAGAAATATGAATGAGATATGTATATGTGG
1 ATGTATATGTGGTAAAGCCGAATGGCTAATGAGAAATATGAATGAGATATGTATATGTGG
46686308 TAAAGCCGAA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
60 55 0.98
61 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.33
Consensus pattern (60 bp):
ATGTATATGTGGTAAAGCCGAATGGCTAATGAGAAATATGAATGAGATATGTATATGTGG
Found at i:46686275 original size:108 final size:108
Alignment explanation
Indices: 46686140--46686343 Score: 336
Period size: 108 Copynumber: 1.9 Consensus size: 108
46686130 TGTATGAGAT
* *
46686140 ATGTATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
1 ATGTATATGTGGTAAAGCCGAACGGCTAATGAGAAATATGAATGAGATATGTATATGTGGTAAAG
*
46686205 CCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGG
66 CCGAATGGCTAATGTGAAATATATAGGAGATATGTATATGTGG
* * *
46686248 ATGTATATGTGGTAAAGTCGAATGGCTAGTGAGAAATATGAATGAGATATGTATATGTGGTAAAG
1 ATGTATATGTGGTAAAGCCGAACGGCTAATGAGAAATATGAATGAGATATGTATATGTGGTAAAG
* *
46686313 CCGAATGGCTAGTGTGAAATATGTAGGAGAT
66 CCGAATGGCTAATGTGAAATATATAGGAGAT
46686344 GTGTGTATAT
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
108 88 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.30
Consensus pattern (108 bp):
ATGTATATGTGGTAAAGCCGAACGGCTAATGAGAAATATGAATGAGATATGTATATGTGGTAAAG
CCGAATGGCTAATGTGAAATATATAGGAGATATGTATATGTGG
Found at i:46686534 original size:37 final size:37
Alignment explanation
Indices: 46686484--46686586 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
46686474 GGAAATATAT
46686484 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
46686521 TCCGGGTAAGACCCGATGACTACGTATGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
46686558 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
46686587 GAACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:46690209 original size:71 final size:71
Alignment explanation
Indices: 46690123--46690286 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
46690113 CGATTTGTCT
46690123 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
46690188 CTTTCA
66 CTTTCA
46690194 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
46690259 CTTTCA
66 CTTTCA
46690265 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
46690287 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:46690324 original size:71 final size:70
Alignment explanation
Indices: 46690123--46690320 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
46690113 CGATTTGTCT
* * * *
46690123 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
46690188 CTTTCA
65 CTTTCA
* * * *
46690194 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
46690259 CTTTCA
65 CTTTCA
* *
46690265 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
46690321 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:46692669 original size:28 final size:28
Alignment explanation
Indices: 46692637--46692735 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
46692627 GCAATAAGCC
*
46692637 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
46692665 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
46692693 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
46692722 CGCACACTTAGTGC
1 CGCACACTTAGTGC
46692736 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:46700344 original size:28 final size:28
Alignment explanation
Indices: 46700312--46700410 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
46700302 GCAATAAGCC
*
46700312 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
46700340 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
46700368 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
46700397 CGCACACTTAGTGC
1 CGCACACTTAGTGC
46700411 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:46705486 original size:44 final size:45
Alignment explanation
Indices: 46705438--46705652 Score: 287
Period size: 44 Copynumber: 4.8 Consensus size: 45
46705428 TATCCATGCT
46705438 GATGCATGTCCCAGACATGTCTTACACTAGCACATCTTGTA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACATCTTGTAGGCC
46705482 GATGCATGTCCCAGACATGTCTTACACTAGCACATCTTGTA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACATCTTGTAGGCC
* *
46705526 GATGCATGTCCTAGACATGTCTTACACTAGCTTACATCTTG-AGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGC--ACATCTTGTAGGCC
* * *
46705572 GATGCATGTCCCAAACATGTCTTACACTAGCTC-TCGTCT-TAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACATC-T-TGT-AGGCC
*
46705618 GATGCCATGTCCCAGAAATGTCTTACACTAGCACA
1 GATG-CATGTCCCAGACATGTCTTACACTAGCACA
46705653 CACACATCGC
Statistics
Matches: 152, Mismatches: 10, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
43 2 0.01
44 76 0.50
45 2 0.01
46 46 0.30
47 26 0.17
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACATCTTGTAGGCC
Found at i:46705580 original size:46 final size:45
Alignment explanation
Indices: 46705393--46705649 Score: 281
Period size: 44 Copynumber: 5.6 Consensus size: 45
46705383 ATGATGATTC
* * * ** *
46705393 CATGTCCTAGACATGGTCTTACACTGGCTCTCACATATCCATGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCT-T-ACATCTTGA-GCCGATG
46705442 CATGTCCCAGACATGTCTTACACTAGC--ACATCTTGTAGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTACATCTTG-AGCCGATG
46705486 CATGTCCCAGACATGTCTTACACTAGC--ACATCTTGTAGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTACATCTTG-AGCCGATG
* *
46705530 CATGTCCTAGACATGTCTTACACTAGCTTACATCTTGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTACATCTTGA-GCCGATG
* * *
46705576 CATGTCCCAAACATGTCTTACACTAGCTCT-CGTCTTAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TACATCTTGA-GCCGATG
*
46705622 CCATGTCCCAGAAATGTCTTACACTAGC
1 -CATGTCCCAGACATGTCTTACACTAGC
46705650 ACACACACAT
Statistics
Matches: 186, Mismatches: 16, Indels: 14
0.86 0.07 0.06
Matches are distributed among these distances:
44 81 0.44
45 2 0.01
46 52 0.28
47 26 0.14
48 12 0.06
49 13 0.07
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTTACATCTTGAGCCGATG
Found at i:46705599 original size:90 final size:90
Alignment explanation
Indices: 46705433--46705652 Score: 297
Period size: 90 Copynumber: 2.4 Consensus size: 90
46705423 TCACATATCC
* *
46705433 ATGCTGATGCATGTCCCAGACATGTCTTACACTAGCACATCTTGTAGCCGATGCATGTCCCAGAC
1 ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTTGTAGCCGATGCATGTCCCAAAC
46705498 ATGTCTTACACTAGCACATC-T-TGT-
66 ATGTCTTACACTAGCAC-TCGTCT-TA
* *
46705522 A-GCCGATGCATGTCCTAGACATGTCTTACACTAGCTTACATCTTG-AGGCTGATGCATGTCCCA
1 ATGCCGATGCATGTCCCAGACATGTCTTACACTAGC--ACATCTTGTA-GCCGATGCATGTCCCA
*
46705585 AACATGTCTTACACTAGCTCTCGTCTTA
63 AACATGTCTTACACTAGCACTCGTCTTA
*
46705613 ATGCCGATGCCATGTCCCAGAAATGTCTTACACTAGCACA
1 ATGCCGATG-CATGTCCCAGACATGTCTTACACTAGCACA
46705653 CACACATCGC
Statistics
Matches: 116, Mismatches: 7, Indels: 14
0.85 0.05 0.10
Matches are distributed among these distances:
88 32 0.28
89 4 0.03
90 43 0.37
91 5 0.04
92 7 0.06
93 25 0.22
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (90 bp):
ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTTGTAGCCGATGCATGTCCCAAAC
ATGTCTTACACTAGCACTCGTCTTA
Found at i:46705641 original size:137 final size:137
Alignment explanation
Indices: 46705393--46705652 Score: 368
Period size: 137 Copynumber: 1.9 Consensus size: 137
46705383 ATGATGATTC
* * *
46705393 CATGTCCTAGACATGGTCTTACACTGGCTCTCACATATCCATGCTGATGCATGTCCCAGACATGT
1 CATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCCAGGCTGATGCATGTCCCAAACATGT
*
46705458 CTTACACTAGCACATCTTGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTTGTA
66 CTTACACTAGCACATCTTGTAGCCGATGCATGTCCCAGAAATGTCTTACACTAGCACATCTTGTA
46705523 GCCGATG
131 GCCGATG
* **
46705530 CATGTCCTAGACAT-GTCTTACACTAGCT-T-ACATCTTGAGGCTGATGCATGTCCCAAACATGT
1 CATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCCAGGCTGATGCATGTCCCAAACATGT
*
46705592 CTTACACTAGCTC-TCGTCT-TAATGCCGATGCCATGTCCCAGAAATGTCTTACACTAGCACA
66 CTTACACTAGCACATC-T-TGT-A-GCCGATG-CATGTCCCAGAAATGTCTTACACTAGCACA
46705653 CACACATCGC
Statistics
Matches: 110, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
133 2 0.02
134 42 0.38
135 3 0.03
136 20 0.18
137 43 0.39
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (137 bp):
CATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCCAGGCTGATGCATGTCCCAAACATGT
CTTACACTAGCACATCTTGTAGCCGATGCATGTCCCAGAAATGTCTTACACTAGCACATCTTGTA
GCCGATG
Found at i:46709629 original size:66 final size:66
Alignment explanation
Indices: 46709523--46709660 Score: 226
Period size: 66 Copynumber: 2.1 Consensus size: 66
46709513 AAAAGACATA
* *
46709523 CCCATTATCCCAACTAACCTAATCCTTATTTAACAGATTTCTTAGACTTCAATTTGAATCCAAAT
1 CCCATTACCCCAACAAACCTAATCCTTATTTAACAGATTTCTTAGACTTCAATTTGAATCCAAAT
46709588 T
66 T
*
46709589 CCCATTACCCCAACAAACCTAATCTTTATTTAGA-AGATTTCTTAGACTTCAATTTGAATCCAAA
1 CCCATTACCCCAACAAACCTAATCCTTATTTA-ACAGATTTCTTAGACTTCAATTTGAATCCAAA
46709653 TT
65 TT
46709655 -CCATTA
1 CCCATTA
46709661 GTTGTAAGAC
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
65 6 0.09
66 61 0.90
67 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (66 bp):
CCCATTACCCCAACAAACCTAATCCTTATTTAACAGATTTCTTAGACTTCAATTTGAATCCAAAT
T
Found at i:46724890 original size:30 final size:30
Alignment explanation
Indices: 46724854--46724915 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
46724844 ATTCTCGAGC
* * *
46724854 TTAGGGGTAAAAGTGTAATTATGCAAAAGT
1 TTAGGGGCAAAAATGTAATTATACAAAAGT
*
46724884 TTAGGGGCAAAAATGTAATTTTACAAAAGT
1 TTAGGGGCAAAAATGTAATTATACAAAAGT
46724914 TT
1 TT
46724916 GTATTAAAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.32
Consensus pattern (30 bp):
TTAGGGGCAAAAATGTAATTATACAAAAGT
Found at i:46727124 original size:47 final size:47
Alignment explanation
Indices: 46727006--46727175 Score: 194
Period size: 47 Copynumber: 3.7 Consensus size: 47
46726996 GGATGGTTGA
*
46727006 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
46727054 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA-T
*
46727097 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-ATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
*
46727146 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
46727176 GCTTATGGGC
Statistics
Matches: 106, Mismatches: 7, Indels: 21
0.79 0.05 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 30 0.28
46 29 0.27
47 32 0.30
48 2 0.02
49 4 0.04
50 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAT
Found at i:46727175 original size:92 final size:93
Alignment explanation
Indices: 46727006--46727176 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
46726996 GGATGGTTGA
* *
46727006 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
46727071 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
46727099 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
46727163 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
46727177 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 41 0.55
93 34 0.45
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:46730150 original size:30 final size:31
Alignment explanation
Indices: 46730072--46730150 Score: 92
Period size: 30 Copynumber: 2.6 Consensus size: 31
46730062 CATAGTATCG
* *
46730072 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCCTGGATCTCTC
* *
46730102 TAT-TCTGGATTTCTTTATTCC-GGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCTGGATCTCTC
46730132 TATCTTGGATTTCTTTATT
1 TATCTTGGATTTCTTTATT
46730151 TGGTTTTCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
29 1 0.02
30 37 0.88
31 4 0.10
ACGTcount: A:0.11, C:0.18, G:0.15, T:0.56
Consensus pattern (31 bp):
TATCTTGGATTTCTTTATTCCTGGATCTCTC
Found at i:46730158 original size:14 final size:15
Alignment explanation
Indices: 46730081--46730160 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
46730071 GTATCTTGGG
*
46730081 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
46730096 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
46730111 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
46730126 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
46730141 TTTCTTTATT-TGGT
1 TTTCTTTATTCTGGA
46730155 TTTCTT
1 TTTCTT
46730161 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 11 0.21
15 41 0.77
16 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.14, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:46732611 original size:46 final size:45
Alignment explanation
Indices: 46732548--46732714 Score: 160
Period size: 46 Copynumber: 3.6 Consensus size: 45
46732538 TGGTTGAGCA
*
46732548 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAA-G
* * *** * *
46732594 TCCAAACTCATTGAGTTGAGTCCGAGTTCGTGATATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACCTATG-GA-T-GCGAAG
*
46732641 TCTGAACTCGTTGAGTTGAGT-CGAGTTCACCTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAA-G
* *
46732686 CCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
46732715 GCTTATGGGC
Statistics
Matches: 94, Mismatches: 19, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 1 0.01
45 22 0.23
46 40 0.43
47 22 0.23
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAAG
Found at i:46732703 original size:92 final size:93
Alignment explanation
Indices: 46732545--46732715 Score: 272
Period size: 92 Copynumber: 1.8 Consensus size: 93
46732535 GGATGGTTGA
* * *
46732545 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCAAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCAAACTCATTGAGT
46732610 TGAGTCCGAGTTCGTGATATGTAACTAG
66 TGAGTCCGAGTTCGTGATATGTAACTAG
* * * *
46732638 GCATCTGAACTCGTTGAGTTGAGT-CGAGTTCACCTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCAAACTCATTGAGT
46732702 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
46732716 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 49 0.69
93 22 0.31
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCAAACTCATTGAGT
TGAGTCCGAGTTCGTGATATGTAACTAG
Found at i:46737403 original size:20 final size:20
Alignment explanation
Indices: 46737373--46737417 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
46737363 CTGTTTTATT
46737373 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
46737392 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
46737412 ATGGGC
1 ATGGGC
46737418 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:46737558 original size:27 final size:28
Alignment explanation
Indices: 46737506--46737558 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
46737496 TTACTGTAAG
* *
46737506 GGGCTATGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
*
46737534 GGGCTAAGGCCTAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
46737559 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:46742878 original size:20 final size:20
Alignment explanation
Indices: 46742848--46742892 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
46742838 CTGTTTTATT
46742848 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
46742867 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
46742887 ATGGGC
1 ATGGGC
46742893 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:46743033 original size:27 final size:28
Alignment explanation
Indices: 46742981--46743033 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
46742971 TTACTGTAAG
* *
46742981 GGGCTATGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
*
46743009 GGGCTAAGGCCTAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
46743034 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:46747703 original size:45 final size:46
Alignment explanation
Indices: 46747635--46747728 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 46
46747625 TTTCATATAA
* *
46747635 ACATCAAGAAAAACATACATGAGCTTAATAATATTCAAATTCTCAT
1 ACATCAAGAAAAACATACATGAGCTCAACAATATTCAAATTCTCAT
* *
46747681 ACATCAAGAAACACA-ATATGAGCTCAACAATATTCAAATTCTCAT
1 ACATCAAGAAAAACATACATGAGCTCAACAATATTCAAATTCTCAT
46747726 ACA
1 ACA
46747729 CATATGTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 30 0.68
46 14 0.32
ACGTcount: A:0.48, C:0.20, G:0.06, T:0.26
Consensus pattern (46 bp):
ACATCAAGAAAAACATACATGAGCTCAACAATATTCAAATTCTCAT
Found at i:46753064 original size:15 final size:15
Alignment explanation
Indices: 46753040--46753081 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
46753030 TGATGATTGA
*
46753040 ACAA-AAAATACAAT
1 ACAATAAAATAAAAT
46753054 ACAATAAAATAAAAT
1 ACAATAAAATAAAAT
46753069 A-AATAGAAATAAA
1 ACAATA-AAATAAA
46753082 CAAAAGAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (15 bp):
ACAATAAAATAAAAT
Found at i:46753167 original size:75 final size:75
Alignment explanation
Indices: 46753065--46753335 Score: 377
Period size: 75 Copynumber: 3.6 Consensus size: 75
46753055 CAATAAAATA
* * * *
46753065 AAATAAATAGAAATAAACAAAAGAAAGAAAAGGGATTTGATGGAAAAACAGAGGTAATGATGACA
1 AAATAAACAG-AATAAACAAAACAAAGAAAAGGAAATTGATGGAAAAACAGAGGTAATGATGACA
46753130 ATTAAACAATC
65 ATTAAACAATC
* * *
46753141 AAATAAACAGAATAAACAAAACAAAGAAAAGGAAATTGATGGCAAAACAAAGGTAATGATGACGA
1 AAATAAACAGAATAAACAAAACAAAGAAAAGGAAATTGATGGAAAAACAGAGGTAATGATGACAA
46753206 TTAAACAATC
66 TTAAACAATC
* * *
46753216 AAATAAACAGAATAAACAAAACAAAGAAAAGGGAATTGATGGCAAAACAGAGGCAATGATGACAA
1 AAATAAACAGAATAAACAAAACAAAGAAAAGGAAATTGATGGAAAAACAGAGGTAATGATGACAA
*
46753281 TTAAATAATC
66 TTAAACAATC
* * *
46753291 AAATTAACA-AA-AAA-AACACAAAGACAAGGAAATTGATGGCAAAAA
1 AAATAAACAGAATAAACAAAACAAAGAAAAGGAAATTGATGG-AAAAA
46753336 AATATGATAA
Statistics
Matches: 177, Mismatches: 17, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
72 22 0.12
73 7 0.04
74 2 0.01
75 137 0.77
76 9 0.05
ACGTcount: A:0.59, C:0.10, G:0.17, T:0.15
Consensus pattern (75 bp):
AAATAAACAGAATAAACAAAACAAAGAAAAGGAAATTGATGGAAAAACAGAGGTAATGATGACAA
TTAAACAATC
Found at i:46753243 original size:150 final size:148
Alignment explanation
Indices: 46753065--46753334 Score: 425
Period size: 150 Copynumber: 1.8 Consensus size: 148
46753055 CAATAAAATA
* * * *
46753065 AAATAAATAGAAATAAACAAAAGAAAGAAAAGGGATTTGATGGAAAAACAGAGGTAATGATGACA
1 AAATAAACAGAAATAAACAAAACAAAGAAAAGGGAATTGATGGAAAAACAGAGGCAATGATGACA
46753130 ATTAAACAATCAAATAAACAGAATAAACAAAACAAAGAAAAGGAAATTGATGGCAAAACAAAGGT
66 ATTAAACAATCAAATAAACA-AA-AAA-AAAACAAAGAAAAGGAAATTGATGGCAAAACAAAGGT
46753195 AATGATGACGATTAAACAATC
128 AATGATGACGATTAAACAATC
*
46753216 AAATAAACAG-AATAAACAAAACAAAGAAAAGGGAATTGATGGCAAAACAGAGGCAATGATGACA
1 AAATAAACAGAAATAAACAAAACAAAGAAAAGGGAATTGATGGAAAAACAGAGGCAATGATGACA
* * * *
46753280 ATTAAATAATCAAATTAACAAAAAAAACACAAAGACAAGGAAATTGATGGCAAAA
66 ATTAAACAATCAAATAAACAAAAAAAAAACAAAGAAAAGGAAATTGATGGCAAAA
46753335 AAATATGATA
Statistics
Matches: 110, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
147 28 0.25
148 3 0.03
149 2 0.02
150 68 0.62
151 9 0.08
ACGTcount: A:0.59, C:0.10, G:0.17, T:0.15
Consensus pattern (148 bp):
AAATAAACAGAAATAAACAAAACAAAGAAAAGGGAATTGATGGAAAAACAGAGGCAATGATGACA
ATTAAACAATCAAATAAACAAAAAAAAAACAAAGAAAAGGAAATTGATGGCAAAACAAAGGTAAT
GATGACGATTAAACAATC
Found at i:46769183 original size:3 final size:3
Alignment explanation
Indices: 46769175--46769207 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
46769165 TATTAATACC
46769175 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
46769208 ACATGGATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:46769823 original size:22 final size:21
Alignment explanation
Indices: 46769762--46769825 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
46769752 AGGTAAAAAA
*
46769762 ATTTTATTTTTTTTATATTTT
1 ATTTTATTTTTTATATATTTT
* *
46769783 ATTTTATGTTTTAAAATATTATT
1 ATTTTAT-TTTTTATATATT-TT
46769806 A-TTTATTTATTTATATATTT
1 ATTTTATTT-TTTATATATTT
46769826 ATGGGTGTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 10 0.29
22 22 0.63
23 3 0.09
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
ATTTTATTTTTTATATATTTT
Found at i:46770851 original size:43 final size:43
Alignment explanation
Indices: 46770787--46770889 Score: 188
Period size: 43 Copynumber: 2.4 Consensus size: 43
46770777 TCCTCGATCA
46770787 GCTTCACTGCAACTTCAGGGAGACCAGACTTGCAGCTTTGACCT
1 GCTTCACTGC-ACTTCAGGGAGACCAGACTTGCAGCTTTGACCT
46770831 GCTTCACTGCACTTCAGGGAGACCAGACTTGCAGCTTTGACCT
1 GCTTCACTGCACTTCAGGGAGACCAGACTTGCAGCTTTGACCT
*
46770874 GTTTCACTGCACTTCA
1 GCTTCACTGCACTTCA
46770890 TGGTATCCAA
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
43 48 0.83
44 10 0.17
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.27
Consensus pattern (43 bp):
GCTTCACTGCACTTCAGGGAGACCAGACTTGCAGCTTTGACCT
Found at i:46771214 original size:54 final size:51
Alignment explanation
Indices: 46771086--46771232 Score: 174
Period size: 54 Copynumber: 2.9 Consensus size: 51
46771076 GTGTGGCTTG
* * *
46771086 AGGCTCGACTCACCTCTCGCAACATGAGTTGATTTTTG-AAAA-AACAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAAAA
* * * *
46771135 AGG-TATAACTCAACTCTCACAATATGAGTTGCTTTTTGAAAAACAGAAATTAAA
1 AGGCT-CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA-AAA--AAA
46771189 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
46771233 CGGAATTGGA
Statistics
Matches: 80, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
48 1 0.01
49 30 0.38
50 4 0.05
51 1 0.01
52 2 0.03
54 41 0.51
55 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (51 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAAAA
Found at i:46771371 original size:88 final size:86
Alignment explanation
Indices: 46771189--46771399 Score: 237
Period size: 88 Copynumber: 2.4 Consensus size: 86
46771179 AGAAATTAAA
* * *
46771189 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACCGGAATTGGAAAGTAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAACCAGAATTGGAAAATAGAAATT
* * *
46771254 GAAGATACCTCAATGTGTCCC
66 GAAAATACCTCAACGTGACCC
* * * *
46771275 ATGACTCAACTCGCTTCTCGCAATATGAGTTGATTCTTTCAAAAA-CATAATAAT-GAAAATAGA
1 A-GGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTCAAAAACCAGAAT--TGGAAAATAGA
** *
46771338 AATTGAAAATACCTCGGCGTGACCTT
62 AATTGAAAATACCTCAACGTGACC-C
*
46771364 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
46771400 GAAAAAGTAG
Statistics
Matches: 103, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
86 1 0.01
87 36 0.35
88 64 0.62
89 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (86 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAACCAGAATTGGAAAATAGAAATT
GAAAATACCTCAACGTGACCC
Found at i:46771586 original size:71 final size:71
Alignment explanation
Indices: 46771458--46771595 Score: 208
Period size: 71 Copynumber: 1.9 Consensus size: 71
46771448 GATTTTTTTG
* * *
46771458 AAAAACAAAAATTAAAATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTT
1 AAAAACAAAAATTAAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTAGCAATATGAGTT
46771523 GAAATT
66 GAAATT
*
46771529 AAAACACAAAAATTGAAAA-TACCTCAGCGTG-CCCGAGGCTCAACTCACTTCTAGCAATATGAG
1 AAAA-ACAAAAATT-AAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTAGCAATATGAG
46771592 TTGA
64 TTGA
46771596 TTTTGAAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
71 37 0.61
72 20 0.33
73 4 0.07
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (71 bp):
AAAAACAAAAATTAAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTAGCAATATGAGTT
GAAATT
Found at i:46771728 original size:54 final size:55
Alignment explanation
Indices: 46771608--46771777 Score: 229
Period size: 54 Copynumber: 3.1 Consensus size: 55
46771598 TTGAAAAAAC
* *
46771608 AAAAGGTAT-AACTCATCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATA-TAAGTT
1 AAAAGGT-TCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAATAGGAA-TT
* *
46771665 GAAAGGTTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGGAATT
1 AAAAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGGAATT
* *
46771719 AAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGTAGGAATT
1 AAAAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGGAATT
46771774 AAAA
1 AAAA
46771778 AGCAGAAATT
Statistics
Matches: 102, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
54 47 0.46
55 23 0.23
56 1 0.01
57 31 0.30
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.32
Consensus pattern (55 bp):
AAAAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGGAATT
Found at i:46772101 original size:74 final size:71
Alignment explanation
Indices: 46771867--46772217 Score: 347
Period size: 74 Copynumber: 4.9 Consensus size: 71
46771857 AGAAATTAAA
* * * * *
46771867 AGGCTTAACTCACCTTTCGCAAGATGAG-TCAATTTTCT-AAACATAAACTAAAAATACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGCT-GATTTT-TGAAACATAAATTAAAAATACCTCAGC
*
46771930 GTGCCCTG
64 GTGACCTG
* * * * *
46771938 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGGAACATAAATTGAAATTACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAACATAAATTAAAAATACCTCAGCGT
*
46772002 --CTTG
66 GACCTG
*
46772006 AGGCTCAACTCACTTCTCGCAATATGAGCTGATTTTTGAAACA-ACGGGAATTAAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAACATA----AATTAAAAATACCTCA
46772070 GCGTGACCTG
62 GCGTGACCTG
** * *
46772080 AGGCTTGACTCACCTCTCGCAATATGAGTCAAT-TTTTTTGAAACATAAACTAAAAATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAG-C--TGATTTTTGAAACATAAATTAAAAATACCTCAG
46772144 CGTGTGACCTG
63 C--GTGACCTG
** * * *
46772155 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAACATGAATTAAAGATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG-AAACATAAATTAAAAATACCTCAG
46772218 AGTACCCAAA
Statistics
Matches: 232, Mismatches: 31, Indels: 31
0.79 0.11 0.11
Matches are distributed among these distances:
68 34 0.15
69 10 0.04
70 25 0.11
71 26 0.11
72 19 0.08
73 23 0.10
74 49 0.21
75 33 0.14
76 11 0.05
77 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAACATAAATTAAAAATACCTCAGCGT
GACCTG
Found at i:46773069 original size:17 final size:17
Alignment explanation
Indices: 46773043--46773076 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
46773033 TTCGCTCTGA
46773043 TCCCCTTTTTTCTTTTTT
1 TCCCCTTTTTT-TTTTTT
46773061 TCCCCTTTTTTTTTTT
1 TCCCCTTTTTTTTTTT
46773077 AGATGCCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (17 bp):
TCCCCTTTTTTTTTTTT
Found at i:46785049 original size:3 final size:3
Alignment explanation
Indices: 46785041--46785082 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
46785031 TATTAATACC
46785041 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
46785083 ACATGGATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:46786946 original size:12 final size:12
Alignment explanation
Indices: 46786923--46786956 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
46786913 ATTAACCGCT
46786923 TAATTA-AA-TA
1 TAATTACAATTA
46786933 TAATTACAATTA
1 TAATTACAATTA
46786945 TAATTACAATTA
1 TAATTACAATTA
46786957 CAAGATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 6 0.27
11 2 0.09
12 14 0.64
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (12 bp):
TAATTACAATTA
Found at i:46788577 original size:23 final size:22
Alignment explanation
Indices: 46788551--46788595 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
46788541 ATTAGATGAT
46788551 TTTAAATT-TCATAAATGGTTTTA
1 TTTAAATTATCA-AAAT-GTTTTA
46788574 TTTAAATTATCAAAATGTTTTA
1 TTTAAATTATCAAAATGTTTTA
46788596 AATTCGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.29
23 12 0.57
24 3 0.14
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (22 bp):
TTTAAATTATCAAAATGTTTTA
Found at i:46798154 original size:40 final size:40
Alignment explanation
Indices: 46798101--46798285 Score: 309
Period size: 40 Copynumber: 4.6 Consensus size: 40
46798091 ACTACTTGCT
*
46798101 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
46798141 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
46798181 CAAATGCCTTCGGCACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
46798221 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
*
46798261 CAAATGCCTTTGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
46798286 TTATCATCCG
Statistics
Matches: 138, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 1 0.01
40 137 0.99
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:46798684 original size:22 final size:22
Alignment explanation
Indices: 46798656--46798699 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
46798646 TCATATGGCC
46798656 ACCTTTAGCTCAAATACAAAAT
1 ACCTTTAGCTCAAATACAAAAT
46798678 ACCTTTAGCTCAAATACAAAAT
1 ACCTTTAGCTCAAATACAAAAT
46798700 GGTCATACGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.23, G:0.05, T:0.27
Consensus pattern (22 bp):
ACCTTTAGCTCAAATACAAAAT
Found at i:46806356 original size:39 final size:40
Alignment explanation
Indices: 46806185--46806368 Score: 300
Period size: 40 Copynumber: 4.6 Consensus size: 40
46806175 ACTACTTGCT
*
46806185 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
**
46806225 CAAATGCCTTAAGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
46806265 CAAATGCCTTCGGGATTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
46806305 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGT-ACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
46806344 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
46806369 TTATCATCCG
Statistics
Matches: 135, Mismatches: 8, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
39 32 0.24
40 103 0.76
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:46807607 original size:11 final size:11
Alignment explanation
Indices: 46807591--46807615 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
46807581 AGGATGAAGC
46807591 CTTTTTTTTTT
1 CTTTTTTTTTT
46807602 CTTTTTTTTTT
1 CTTTTTTTTTT
46807613 CTT
1 CTT
46807616 CTAGGTACGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:46808338 original size:15 final size:15
Alignment explanation
Indices: 46808318--46808361 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
46808308 TAGATACATT
46808318 ATTTTTAATTCTTTA
1 ATTTTTAATTCTTTA
46808333 ATTTTTAATT-TTCTA
1 ATTTTTAATTCTT-TA
46808348 ATTTATT-ATTCTTT
1 ATTT-TTAATTCTTT
46808362 GTTTAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 2 0.08
15 20 0.77
16 4 0.15
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTTAATTCTTTA
Found at i:46808341 original size:7 final size:7
Alignment explanation
Indices: 46808318--46808351 Score: 50
Period size: 8 Copynumber: 4.6 Consensus size: 7
46808308 TAGATACATT
46808318 ATTTTTA
1 ATTTTTA
46808325 ATTCTTTA
1 ATT-TTTA
46808333 ATTTTTA
1 ATTTTTA
46808340 ATTTTCTA
1 ATTTT-TA
46808348 ATTT
1 ATTT
46808352 ATTATTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 12 0.48
8 13 0.52
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (7 bp):
ATTTTTA
Found at i:46819946 original size:45 final size:46
Alignment explanation
Indices: 46819897--46820088 Score: 200
Period size: 45 Copynumber: 4.3 Consensus size: 46
46819887 TCAGCCACGA
46819897 TCTTATTTC-TTTCCGACATGATGCCATAGTGTCTTTCAACTATGG
1 TCTTATTTCATTTCCGACATGATGCCATAGTGTCTTTCAACTATGG
* * *
46819942 TCTTA-TTCATTTCC-ATCATGTTGCCATAGTGTATTTAAACTATGG
1 TCTTATTTCATTTCCGA-CATGATGCCATAGTGTCTTTCAACTATGG
**** * * * *
46819987 TCTTATTT-ATTTTTTTCATGTTGCCATAATGTTTTTCAACTATGA
1 TCTTATTTCATTTCCGACATGATGCCATAGTGTCTTTCAACTATGG
* *
46820032 TCTTA-TTCATTTCTGATAT-AGTGCCATAGTGTCTTTCAACTATGG
1 TCTTATTTCATTTCCGACATGA-TGCCATAGTGTCTTTCAACTATGG
46820077 TCTTA-TTCATTT
1 TCTTATTTCATTT
46820089 TTAACGCCAA
Statistics
Matches: 123, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
44 6 0.05
45 115 0.93
46 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.48
Consensus pattern (46 bp):
TCTTATTTCATTTCCGACATGATGCCATAGTGTCTTTCAACTATGG
Found at i:46820026 original size:90 final size:90
Alignment explanation
Indices: 46819913--46820090 Score: 252
Period size: 90 Copynumber: 2.0 Consensus size: 90
46819903 TTCTTTCCGA
* *
46819913 CATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTC-CATCAT-GTTGCCATAGTGTAT
1 CATGATGCCATAATGTCTTTCAACTATGATCTTATTCATTTCTCAT-ATAG-TGCCATAGTGTAT
*
46819976 TTAAACTATGGTCTTATTTATTTTTTT
64 TTAAACTATGGTCTTATTCATTTTTTT
* * * *
46820003 CATGTTGCCATAATGTTTTTCAACTATGATCTTATTCATTTCTGATATAGTGCCATAGTGTCTTT
1 CATGATGCCATAATGTCTTTCAACTATGATCTTATTCATTTCTCATATAGTGCCATAGTGTATTT
*
46820068 CAACTATGGTCTTATTCATTTTT
66 AAACTATGGTCTTATTCATTTTT
46820091 AACGCCAATG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
90 75 0.96
91 3 0.04
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (90 bp):
CATGATGCCATAATGTCTTTCAACTATGATCTTATTCATTTCTCATATAGTGCCATAGTGTATTT
AAACTATGGTCTTATTCATTTTTTT
Found at i:46822843 original size:42 final size:42
Alignment explanation
Indices: 46822784--46822885 Score: 152
Period size: 42 Copynumber: 2.4 Consensus size: 42
46822774 ATTTAGAGAT
*
46822784 CTCACACAGCCATGTCTGGTGGGCACAC-GGACGTGTGAGACC
1 CTCACACAGCCATGTCTGGTGGGCACACAAG-CGTGTGAGACC
* *
46822826 CTCACACGGTCATGTCTGGTGGGCACACAAGCGTGTGAGACC
1 CTCACACAGCCATGTCTGGTGGGCACACAAGCGTGTGAGACC
*
46822868 CTCACACAGCCGTGTCTG
1 CTCACACAGCCATGTCTG
46822886 CCCTGTACCC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 52 0.98
43 1 0.02
ACGTcount: A:0.21, C:0.31, G:0.29, T:0.19
Consensus pattern (42 bp):
CTCACACAGCCATGTCTGGTGGGCACACAAGCGTGTGAGACC
Found at i:46825484 original size:40 final size:40
Alignment explanation
Indices: 46825440--46825577 Score: 152
Period size: 40 Copynumber: 3.5 Consensus size: 40
46825430 CAATTATTTA
* * * * *
46825440 TGTTTGCA-AATCTGTGCCCCTGCTTGCATATCGGTGCCCT
1 TGTTTGCACATTC-GTGCCCCTGTTTGCACATCAGTGCCCC
*
46825480 TGTTTGCACATTCGTGCCCCTATTTGCACATCAGTGCCCC
1 TGTTTGCACATTCGTGCCCCTGTTTGCACATCAGTGCCCC
* ** *
46825520 TGCTTGCACATTCGTGCCCCTGTTTGCACATTTGTGCGCC
1 TGTTTGCACATTCGTGCCCCTGTTTGCACATCAGTGCCCC
* *
46825560 TGTTTGCACTTTGGTGCC
1 TGTTTGCACATTCGTGCC
46825578 ATAACTGCAC
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 80 0.96
41 3 0.04
ACGTcount: A:0.12, C:0.31, G:0.22, T:0.36
Consensus pattern (40 bp):
TGTTTGCACATTCGTGCCCCTGTTTGCACATCAGTGCCCC
Found at i:46825576 original size:20 final size:20
Alignment explanation
Indices: 46825440--46825568 Score: 138
Period size: 20 Copynumber: 6.5 Consensus size: 20
46825430 CAATTATTTA
*
46825440 TGTTTGCA-AATCTGTGCCCC
1 TGTTTGCACATTC-GTGCCCC
* * *
46825460 TGCTTGCATA-TCGGTGCCCT
1 TGTTTGCACATTC-GTGCCCC
46825480 TGTTTGCACATTCGTGCCCC
1 TGTTTGCACATTCGTGCCCC
*
46825500 TATTTGCACA-TCAGTGCCCC
1 TGTTTGCACATTC-GTGCCCC
*
46825520 TGCTTGCACATTCGTGCCCC
1 TGTTTGCACATTCGTGCCCC
* *
46825540 TGTTTGCACATTTGTGCGCC
1 TGTTTGCACATTCGTGCCCC
46825560 TGTTTGCAC
1 TGTTTGCAC
46825569 TTTGGTGCCA
Statistics
Matches: 93, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
19 2 0.02
20 86 0.92
21 5 0.05
ACGTcount: A:0.12, C:0.32, G:0.21, T:0.35
Consensus pattern (20 bp):
TGTTTGCACATTCGTGCCCC
Found at i:46825577 original size:60 final size:60
Alignment explanation
Indices: 46825442--46825568 Score: 175
Period size: 60 Copynumber: 2.1 Consensus size: 60
46825432 ATTATTTATG
* * * *
46825442 TTTGCAAATCTGTGCCCCTGCTTGCATATCGGTGCCCTTGTTTGCACATTCGTGCCCCTA
1 TTTGCACATCAGTGCCCCTGCTTGCACATCGGTGCCCCTGTTTGCACATTCGTGCCCCTA
* * *
46825502 TTTGCACATCAGTGCCCCTGCTTGCACATTC-GTGCCCCTGTTTGCACATTTGTGCGCCTG
1 TTTGCACATCAGTGCCCCTGCTTGCACA-TCGGTGCCCCTGTTTGCACATTCGTGCCCCTA
46825562 TTTGCAC
1 TTTGCAC
46825569 TTTGGTGCCA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 57 0.97
61 2 0.03
ACGTcount: A:0.13, C:0.32, G:0.20, T:0.35
Consensus pattern (60 bp):
TTTGCACATCAGTGCCCCTGCTTGCACATCGGTGCCCCTGTTTGCACATTCGTGCCCCTA
Found at i:46833353 original size:71 final size:71
Alignment explanation
Indices: 46833265--46833428 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
46833255 GAGATGTATC
*
46833265 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGATCGCATGCGTGATTCCAAGTGA
46833330 AGGACA
66 AGGACA
46833336 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGATCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGATCGCATGCGTGATTCCAAGTGA
46833401 AGGACA
66 AGGACA
46833407 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
46833429 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGATCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:46837937 original size:15 final size:15
Alignment explanation
Indices: 46837917--46837946 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
46837907 TCTATGTAAA
46837917 ACTAGACTCAATAAG
1 ACTAGACTCAATAAG
46837932 ACTAGACTCAATAAG
1 ACTAGACTCAATAAG
46837947 CTTTCATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (15 bp):
ACTAGACTCAATAAG
Found at i:46840921 original size:48 final size:48
Alignment explanation
Indices: 46840863--46841564 Score: 1125
Period size: 48 Copynumber: 14.4 Consensus size: 48
46840853 ATATACACAC
* *
46840863 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
46840911 ATCTCATACATATTTCACATTAACCATTTGGCTTTACCACATATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACAT
* *
46840961 TTCTCATACATATTTCACATTAGCCATTCGGCTTTACCGCATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
46841009 ATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
46841057 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
46841105 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
46841153 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACAT
* * *
46841203 TTCTCATGCATATTTCACATTAGCCATTCGGCTTTAGCACATATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTA-C-CACATATACAT
*
46841253 TTCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
46841301 ATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
46841349 ATCTCATGCATATTTCACATTAGCCATTCGGCTTTACCACATATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACAT
* * *
46841399 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTGCCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
46841447 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTGCCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
46841495 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACAT
* *
46841545 TTCTCATACATATCTCACAT
1 ATCTCATACATATTTCACAT
46841565 ATTCACTACA
Statistics
Matches: 614, Mismatches: 30, Indels: 18
0.93 0.05 0.03
Matches are distributed among these distances:
48 411 0.67
49 1 0.00
50 199 0.32
51 1 0.00
52 2 0.00
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:46840985 original size:98 final size:96
Alignment explanation
Indices: 46840863--46841564 Score: 1125
Period size: 98 Copynumber: 7.2 Consensus size: 96
46840853 ATATACACAC
* *
46840863 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
46840928 CATTAACCATTTGGCTTTACCACATATATACAT
66 CATTAGCCATTCGGCTTTACCAC--ATATACAT
* *
46840961 TTCTCATACATATTTCACATTAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
46841026 CAGTAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
46841057 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
46841122 CATTAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
* *
46841153 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTCTCATGCATATTT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACATATCTCATACATATTT
*
46841218 CACATTAGCCATTCGGCTTTAGCACATATATACAT
64 CACATTAGCCATTCGGCTTTA-C-CACATATACAT
*
46841253 TTCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
46841318 CAGTAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
* *
46841349 ATCTCATGCATATTTCACATTAGCCATTCGGCTTTACCACATATATACATATCTCATATATATTT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACATATCTCATACATATTT
* *
46841414 CACAGTAGCCATTCGGCTTTGCCACATATACAT
64 CACATTAGCCATTCGGCTTTACCACATATACAT
* * *
46841447 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTGCCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
46841512 CATTAGCCATTCGGCTTTACCACATATATACAT
66 CATTAGCCATTCGGCTTTACCAC--ATATACAT
* *
46841545 TTCTCATACATATCTCACAT
1 ATCTCATACATATTTCACAT
46841565 ATTCACTACA
Statistics
Matches: 563, Mismatches: 33, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
96 234 0.42
97 1 0.00
98 278 0.49
99 1 0.00
100 49 0.09
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.36
Consensus pattern (96 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CATTAGCCATTCGGCTTTACCACATATACAT
Found at i:46841033 original size:146 final size:146
Alignment explanation
Indices: 46840863--46841564 Score: 1210
Period size: 146 Copynumber: 4.8 Consensus size: 146
46840853 ATATACACAC
* *
46840863 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
46840928 CATTAACCATTTGGCTTTACCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGC
66 CATTAGCCATTCGGCTTTACCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGC
*
46840993 TTTACCGCATATACAT
131 TTTACCACATATACAT
46841009 ATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
46841074 CATTAGCCATTCGGCTTTACCAC--ATATACATATCTCATACATATTTCACATTAGCCATTCGGC
66 CATTAGCCATTCGGCTTTACCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGC
46841137 TTTACCACATATACAT
131 TTTACCACATATACAT
* * *
46841153 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTCTCATGCATATTT
1 ATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCAC--ATATACATATCTCATACATATTT
*
46841218 CACATTAGCCATTCGGCTTTAGCACATATATACATTTCTCATACATATTTCACATTAGCCATTCG
64 CACATTAGCCATTCGGCTTTACCACATATATACATTTCTCATACATATTTCACATTAGCCATTCG
46841283 GCTTTACCACATATACAT
129 GCTTTACCACATATACAT
*
46841301 ATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATGCATATTTCA
1 ATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* * *
46841366 CATTAGCCATTCGGCTTTACCACATATATACATATCTCATATATATTTCACAGTAGCCATTCGGC
66 CATTAGCCATTCGGCTTTACCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGC
*
46841431 TTTGCCACATATACAT
131 TTTACCACATATACAT
* *
46841447 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTGCCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
46841512 CATTAGCCATTCGGCTTTACCACATATATACATTTCTCATACATATCTCACAT
66 CATTAGCCATTCGGCTTTACCACATATATACATTTCTCATACATATTTCACAT
46841565 ATTCACTACA
Statistics
Matches: 527, Mismatches: 25, Indels: 8
0.94 0.04 0.01
Matches are distributed among these distances:
144 93 0.18
146 340 0.65
148 94 0.18
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.36
Consensus pattern (146 bp):
ATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CATTAGCCATTCGGCTTTACCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGC
TTTACCACATATACAT
Found at i:46844833 original size:29 final size:28
Alignment explanation
Indices: 46844787--46844882 Score: 97
Period size: 28 Copynumber: 3.4 Consensus size: 28
46844777 CTGATTTCGT
*
46844787 ACACATAGCGCTCAATTAAAGAACTCGC
1 ACACATAGTGCTCAATTAAAGAACTCGC
* *
46844815 ACACATAGTGCCTCAATTACTA-ATCTCGC
1 ACACATAGTG-CTCAATTA-AAGAACTCGC
* *
46844844 ACACATAGTGCTCAGTTGAAGAACAT-GC
1 ACACATAGTGCTCAATTAAAGAAC-TCGC
*
46844872 ACACACAGTGC
1 ACACATAGTGC
46844883 CTCATAACTC
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
27 1 0.02
28 29 0.52
29 25 0.45
30 1 0.02
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (28 bp):
ACACATAGTGCTCAATTAAAGAACTCGC
Found at i:46844958 original size:40 final size:40
Alignment explanation
Indices: 46844914--46845242 Score: 421
Period size: 40 Copynumber: 8.2 Consensus size: 40
46844904 CCTTCGAGGT
* *
46844914 TTAGCCTGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
46844954 TTAGCCCGGATACATTACTAGCACGAATGCTCTTTGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
46844994 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* * * *
46845034 TTAGCCCGGATACATTACTAGCATGAATTCTCTTTGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* * *
46845074 TTAGCCCGGATATAACA-TCAGCACGAATACTCTTCGGAAC
1 TTAGCCCGGATACATCACT-AGCACGAATGCTCTTCGGAAC
*
46845114 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* * *
46845154 TTAGCCCGGATATAACA-TCAGCATGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACT-AGCACGAATGCTCTTCGGAAC
* * * * *
46845194 TTAGCCCGGCTATAACA-TCAGCACAAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACT-AGCACGAATGCTCTTCGGAAC
*
46845234 TTACCCCGG
1 TTAGCCCGG
46845243 CTATATAACT
Statistics
Matches: 257, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 254 0.99
41 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
Found at i:46845047 original size:80 final size:80
Alignment explanation
Indices: 46844914--46845202 Score: 465
Period size: 80 Copynumber: 3.6 Consensus size: 80
46844904 CCTTCGAGGT
* *
46844914 TTAGCCTGGATATATCA-CTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATTACTAGCAC
1 TTAGCCCGGATATAACATC-AGCACGAATGCTCTTCGGAACTTAGCCCGGATACATTACTAGCAC
46844978 GAATGCTCTTTGGAAC
65 GAATGCTCTTTGGAAC
* * *
46844994 TTAGCCCGGATACATCA-CTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATTACTAGCAT
1 TTAGCCCGGATATAACATC-AGCACGAATGCTCTTCGGAACTTAGCCCGGATACATTACTAGCAC
*
46845058 GAATTCTCTTTGGAAC
65 GAATGCTCTTTGGAAC
*
46845074 TTAGCCCGGATATAACATCAGCACGAATACTCTTCGGAACTTAGCCCGGATACATTACTAGCACG
1 TTAGCCCGGATATAACATCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATTACTAGCACG
*
46845139 AATGCTCTTCGGAAC
66 AATGCTCTTTGGAAC
*
46845154 TTAGCCCGGATATAACATCAGCATGAATGCTCTTCGGAACTTAGCCCGG
1 TTAGCCCGGATATAACATCAGCACGAATGCTCTTCGGAACTTAGCCCGG
46845203 CTATAACATC
Statistics
Matches: 196, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
80 195 0.99
81 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (80 bp):
TTAGCCCGGATATAACATCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATTACTAGCACG
AATGCTCTTTGGAAC
Found at i:46848397 original size:40 final size:40
Alignment explanation
Indices: 46848341--46848638 Score: 447
Period size: 40 Copynumber: 7.5 Consensus size: 40
46848331 CGGATGATAA
* * *
46848341 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
46848381 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
46848421 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTGTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
46848461 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
46848501 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTGTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
46848541 CCGGGCTAAGTTCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
46848581 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
46848621 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
46848639 TACCTGGCTT
Statistics
Matches: 237, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
39 14 0.06
40 222 0.94
41 1 0.00
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:46855946 original size:40 final size:40
Alignment explanation
Indices: 46855890--46856187 Score: 438
Period size: 40 Copynumber: 7.5 Consensus size: 40
46855880 CGGATGATAA
* * *
46855890 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
46855930 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
46855970 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTCACTGTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
46856010 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
46856050 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTGTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
46856090 CCGGGCTAAGTTCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
46856130 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
46856170 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
46856188 TACCTGGCTT
Statistics
Matches: 235, Mismatches: 22, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
39 14 0.06
40 220 0.94
41 1 0.00
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:46857786 original size:48 final size:48
Alignment explanation
Indices: 46857728--46858381 Score: 1011
Period size: 48 Copynumber: 13.4 Consensus size: 48
46857718 ATATACACAC
* * *
46857728 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACGACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
46857776 ATCTCATACATATTTCACATTAACCATTCGGCTTTACCACATATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACAT
* *
46857826 TTCTCATACATATTTCACATTAGCCATTCGGCTTTACCGCATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
46857874 ATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCGCATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
46857922 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
46857970 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACAT
* *
46858020 TTCTCATGCATATTTCACATTAGCCATTCGGCTTTACCACATATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACAT
* * *
46858070 TTCTCATGCATATTTCACATTAGCCATTCGGCTTTACCACAAATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
46858118 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
46858166 ATCTCATGCATATTTCACATTAGCCATTCGGCTTTACCACATATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACAT
* * *
46858216 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTGCCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
46858264 ATCTCATACATATTTCACAGTAGCCATTCGGCTTTGCCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
46858312 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACAT
*
46858362 TTCTCATACATATTTCACAT
1 ATCTCATACATATTTCACAT
46858382 ATTCACTACA
Statistics
Matches: 566, Mismatches: 32, Indels: 14
0.92 0.05 0.02
Matches are distributed among these distances:
48 355 0.63
50 211 0.37
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Done.