Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 167 of 427
Found at i:46488248 original size:66 final size:68
Alignment explanation
Indices: 46488119--46488248 Score: 174
Period size: 66 Copynumber: 1.9 Consensus size: 68
46488109 GGGATGTATC
* * *
46488119 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGACAAATGTAGCTAGGTCGCATGAGTGGTGCCAAGTGA
46488184 AGGACA
63 AGGACA
* *
46488190 CCATGTAGACAAGAGAGCTAC-GAGACAAAT-TGGCTAGGTCGCATGAGTGGTGCTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGACAAATGTAGCTAGGTCGCATGAGTGGTGCCAAGTG
46488249 TTCACCATGT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
66 25 0.46
67 8 0.15
71 21 0.39
ACGTcount: A:0.32, C:0.17, G:0.32, T:0.20
Consensus pattern (68 bp):
CCATGTAGACAAGAGAGCTACGGAGACAAATGTAGCTAGGTCGCATGAGTGGTGCCAAGTGAAGG
ACA
Found at i:46493630 original size:17 final size:17
Alignment explanation
Indices: 46493608--46493641 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
46493598 CATCGAATTC
46493608 ATTACTCATGAATTTTG
1 ATTACTCATGAATTTTG
46493625 ATTACTCATGAATTTTG
1 ATTACTCATGAATTTTG
46493642 CGTACATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (17 bp):
ATTACTCATGAATTTTG
Found at i:46495986 original size:28 final size:28
Alignment explanation
Indices: 46495954--46496012 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
46495944 GCGTAGATCA
46495954 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
46495982 CGAAATTACCCCTAAAGAGCATAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
46496010 CGA
1 CGA
46496013 TATGCCCCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.44, C:0.25, G:0.12, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:46497231 original size:48 final size:48
Alignment explanation
Indices: 46497160--46497370 Score: 296
Period size: 48 Copynumber: 4.3 Consensus size: 48
46497150 GGGTGTTACA
* *
46497160 TCCCAGACATGGTCTTATACTGGCTTACATAACGATGCCGATGCCATG
1 TCCCAGACATGGTCTTACACTGGCTCACATAACGATGCCGATGCCATG
46497208 TCCCAGACATGGTCTTACACTGGCTCACATAACGATGCCGATGCCGATGCCATG
1 TCCCAGACATGGTCTTACACTGGCTCACAT-A--A---CGATGCCGATGCCATG
* * *
46497262 TCCTAGACATGGCCTTACACTGGCTCACATAACGATGCCGATGTCATG
1 TCCCAGACATGGTCTTACACTGGCTCACATAACGATGCCGATGCCATG
* *
46497310 TCTCAGACATGGTCTTACACTGGCTAACATAACGATGCCGATGCCATG
1 TCCCAGACATGGTCTTACACTGGCTCACATAACGATGCCGATGCCATG
*
46497358 TCTCAGACATGGT
1 TCCCAGACATGGT
46497371 TTTATACATG
Statistics
Matches: 147, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
48 99 0.67
49 1 0.01
51 2 0.01
53 1 0.01
54 44 0.30
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (48 bp):
TCCCAGACATGGTCTTACACTGGCTCACATAACGATGCCGATGCCATG
Found at i:46497279 original size:54 final size:54
Alignment explanation
Indices: 46497192--46497354 Score: 241
Period size: 54 Copynumber: 3.1 Consensus size: 54
46497182 GCTTACATAA
*
46497192 CGATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGATGC
1 CGATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATAACGATGC
*
46497246 CGATGCCGATGCCATGTCCTAGACATGGCCTTACACTGGCTCACATAACGATGC
1 CGATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATAACGATGC
*
46497300 CGAT---G-T--CATGT-CTCAGACATGGTCTTACACTGGCTAACATAACGATGC
1 CGATGCCGATGCCATGTCCT-AGACATGGTCTTACACTGGCTCACATAACGATGC
46497348 CGATGCC
1 CGATGCC
46497355 ATGTCTCAGA
Statistics
Matches: 101, Mismatches: 4, Indels: 11
0.87 0.03 0.09
Matches are distributed among these distances:
47 2 0.02
48 41 0.41
50 1 0.01
51 1 0.01
54 56 0.55
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (54 bp):
CGATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATAACGATGC
Found at i:46497340 original size:102 final size:102
Alignment explanation
Indices: 46497164--46497354 Score: 328
Period size: 102 Copynumber: 1.9 Consensus size: 102
46497154 GTTACATCCC
* * *
46497164 AGACATGGTCTTATACTGGCTTACATAACGATGCCGATGCCATGTCCCAGACATGGTCTTACACT
1 AGACATGGCCTTACACTGGCTCACATAACGATGCCGATGCCATGTCCCAGACATGGTCTTACACT
*
46497229 GGCTCACATAACGATGCCGATGCCGATGCCATGTCCT
66 GGCTAACATAACGATGCCGATGCCGATGCCATGTCCT
* *
46497266 AGACATGGCCTTACACTGGCTCACATAACGATGCCGATGTCATGTCTCAGACATGGTCTTACACT
1 AGACATGGCCTTACACTGGCTCACATAACGATGCCGATGCCATGTCCCAGACATGGTCTTACACT
46497331 GGCTAACATAACGATGCCGATGCC
66 GGCTAACATAACGATGCCGATGCC
46497355 ATGTCTCAGA
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 83 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (102 bp):
AGACATGGCCTTACACTGGCTCACATAACGATGCCGATGCCATGTCCCAGACATGGTCTTACACT
GGCTAACATAACGATGCCGATGCCGATGCCATGTCCT
Found at i:46499514 original size:43 final size:42
Alignment explanation
Indices: 46499464--46499600 Score: 118
Period size: 43 Copynumber: 3.2 Consensus size: 42
46499454 TCCCAGATGT
*
46499464 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAA
1 GGTCTTACA-GTAATTCAATATCGATGCCTATGTCCCAGACAA
* * * * *
46499507 GGTCTTACAGGAAATCAGATGT-GATGCCGATGTCCCAGACAT
1 GGTCTTACAGTAATTCA-ATATCGATGCCTATGTCCCAGACAA
* * * *
46499549 GGTCTTATACGTAAATCTC-A-ATCGAGGCCTGTGTCCCAGACAC
1 GGTCTTACA-GT-AAT-TCAATATCGATGCCTATGTCCCAGACAA
46499592 GGTCTTACA
1 GGTCTTACA
46499601 CGATGTCTCA
Statistics
Matches: 74, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
42 32 0.43
43 38 0.51
44 2 0.03
45 2 0.03
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (42 bp):
GGTCTTACAGTAATTCAATATCGATGCCTATGTCCCAGACAA
Found at i:46510377 original size:33 final size:33
Alignment explanation
Indices: 46510330--46510393 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
46510320 GCCCACAAGA
* *
46510330 CCCATATTATCCTTGGCCATGTGGATCACACGG
1 CCCATATTAGCCTTGGCCATATGGATCACACGG
* *
46510363 CCCATATTGGCCTTGGCCGTATGGATCACAC
1 CCCATATTAGCCTTGGCCATATGGATCACAC
46510394 AGCCTGTCCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.20, C:0.31, G:0.22, T:0.27
Consensus pattern (33 bp):
CCCATATTAGCCTTGGCCATATGGATCACACGG
Found at i:46512731 original size:20 final size:20
Alignment explanation
Indices: 46512706--46512745 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
46512696 TCATACCAAG
*
46512706 TTCTCAACCTGAGGGTTTAA
1 TTCTCAACCCGAGGGTTTAA
46512726 TTCTCAACCCGAGGGTTTAA
1 TTCTCAACCCGAGGGTTTAA
46512746 GCACATACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (20 bp):
TTCTCAACCCGAGGGTTTAA
Found at i:46513240 original size:86 final size:86
Alignment explanation
Indices: 46513095--46513266 Score: 317
Period size: 86 Copynumber: 2.0 Consensus size: 86
46513085 AACTTAAATA
*
46513095 TCCTAATCTATTCCCAAGGTTCAAACGGGATTTTCCTCAATCACACATCTTTTCCGTCTTCCACG
1 TCCTAATCTATTCCCAAGGTTCAAACGAGATTTTCCTCAATCACACATCTTTTCCGTCTTCCACG
46513160 GAATGTCAGAACCGATACTTG
66 GAATGTCAGAACCGATACTTG
*
46513181 TCCTAATCTATTCCCAAGGTTCAAACGAGATTTTCCTCAATCACACATCTTTTTCGTCTTCCACG
1 TCCTAATCTATTCCCAAGGTTCAAACGAGATTTTCCTCAATCACACATCTTTTCCGTCTTCCACG
*
46513246 GAATGTCGGAACCGATACTTG
66 GAATGTCAGAACCGATACTTG
46513267 GTAGCATTTC
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (86 bp):
TCCTAATCTATTCCCAAGGTTCAAACGAGATTTTCCTCAATCACACATCTTTTCCGTCTTCCACG
GAATGTCAGAACCGATACTTG
Found at i:46515489 original size:30 final size:30
Alignment explanation
Indices: 46515453--46515509 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
46515443 ATTTGTAGGT
46515453 TCAATGTGTGATGTTGTGACATCACACGAA
1 TCAATGTGTGATGTTGTGACATCACACGAA
46515483 TCAATGTGTGATGTTGTGACATCACAC
1 TCAATGTGTGATGTTGTGACATCACAC
46515510 AAATGTCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (30 bp):
TCAATGTGTGATGTTGTGACATCACACGAA
Found at i:46516517 original size:3 final size:3
Alignment explanation
Indices: 46516509--46516552 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
46516499 AAAAGAAACA
46516509 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
46516553 ATGAATAGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:46518880 original size:3 final size:3
Alignment explanation
Indices: 46518866--46518927 Score: 97
Period size: 3 Copynumber: 20.7 Consensus size: 3
46518856 AGGTCAAACC
*
46518866 TCA TCA TAA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
* *
46518914 TCC TCA TCT TCA TC
1 TCA TCA TCA TCA TC
46518928 TTCAATATCA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:46522596 original size:18 final size:17
Alignment explanation
Indices: 46522579--46522627 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
46522569 ATTTACTTTC
46522579 CCTCAAACTTTTATTTT
1 CCTCAAACTTTTATTTT
*
46522596 CC-AAAACTTTTTATTTT
1 CCTCAAAC-TTTTATTTT
46522613 CCTCCTAAACTTTTA
1 CCT-C-AAACTTTTA
46522628 CTTCTCACCC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 4 0.15
17 13 0.50
19 5 0.19
20 4 0.15
ACGTcount: A:0.27, C:0.24, G:0.00, T:0.49
Consensus pattern (17 bp):
CCTCAAACTTTTATTTT
Found at i:46522604 original size:16 final size:17
Alignment explanation
Indices: 46522583--46522614 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
46522573 ACTTTCCCTC
46522583 AAAC-TTTTATTTTCCA
1 AAACTTTTTATTTTCCA
46522599 AAACTTTTTATTTTCC
1 AAACTTTTTATTTTCC
46522615 TCCTAAACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.28, C:0.19, G:0.00, T:0.53
Consensus pattern (17 bp):
AAACTTTTTATTTTCCA
Found at i:46533843 original size:27 final size:27
Alignment explanation
Indices: 46533786--46533845 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
46533776 ATACATCTCA
*
46533786 TAGGGGCATATCAGTCATTTTACCATG
1 TAGGGGCATATCAGTCATTTTACAATG
*
46533813 TAGGGGCATTTCAGTCATTTTATCAAT-
1 TAGGGGCATATCAGTCATTTTA-CAATG
46533840 TAGGGG
1 TAGGGG
46533846 GTCTAGGAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 27 0.90
28 3 0.10
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (27 bp):
TAGGGGCATATCAGTCATTTTACAATG
Found at i:46534888 original size:29 final size:29
Alignment explanation
Indices: 46534855--46534914 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
46534845 AAGGATTCAA
*
46534855 AGATGGGTTTATGGATATAATGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
46534884 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
46534913 AG
1 AG
46534915 GTTCGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.43
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:46535791 original size:12 final size:12
Alignment explanation
Indices: 46535774--46535852 Score: 56
Period size: 12 Copynumber: 6.6 Consensus size: 12
46535764 AGTAAGTTTC
46535774 AAAAAAAAATTG
1 AAAAAAAAATTG
*
46535786 AAAAAAAAAGTTT
1 AAAAAAAAA-TTG
* *
46535799 CAAAAAAAATTC
1 AAAAAAAAATTG
*
46535811 AAAAAAAAGTT-
1 AAAAAAAAATTG
*
46535822 AAAATAATAA--G
1 AAAA-AAAAATTG
*
46535833 AAAAAAAACCTTG
1 AAAAAAAA-ATTG
46535846 AAAAAAA
1 AAAAAAA
46535853 TTTGACCATT
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
10 3 0.06
11 8 0.15
12 23 0.44
13 18 0.35
ACGTcount: A:0.72, C:0.05, G:0.06, T:0.16
Consensus pattern (12 bp):
AAAAAAAAATTG
Found at i:46535803 original size:26 final size:25
Alignment explanation
Indices: 46535767--46535818 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 25
46535757 CTCATCAAGT
*
46535767 AAGTTTCAAAAAAAAATTGAAAAAAA
1 AAGTTTC-AAAAAAAATTCAAAAAAA
46535793 AAGTTTCAAAAAAAATTCAAAAAAA
1 AAGTTTCAAAAAAAATTCAAAAAAA
46535818 A
1 A
46535819 GTTAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (25 bp):
AAGTTTCAAAAAAAATTCAAAAAAA
Found at i:46536893 original size:11 final size:12
Alignment explanation
Indices: 46536877--46536905 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
46536867 AAAGAAATCG
46536877 AAAGAAG-CGAA
1 AAAGAAGTCGAA
46536888 AAAGAAGTCGAA
1 AAAGAAGTCGAA
46536900 AAAGAA
1 AAAGAA
46536906 AAAGAGTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.66, C:0.07, G:0.24, T:0.03
Consensus pattern (12 bp):
AAAGAAGTCGAA
Found at i:46536937 original size:30 final size:29
Alignment explanation
Indices: 46536903--46536965 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
46536893 AGTCGAAAAA
* *
46536903 GAAAAAGAGTGTGTGCAAGAAAGTAAAGT-T
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTGT
46536933 GAAAAAGAGAGTGAGCAAAAAGAAAGTGT
1 GAAAAAGAGAGTGAGCAAAAAGAAAGTGT
46536962 GAAA
1 GAAA
46536966 GAAACGGTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 5 0.17
29 9 0.30
30 16 0.53
ACGTcount: A:0.52, C:0.03, G:0.30, T:0.14
Consensus pattern (29 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTGT
Found at i:46540476 original size:7 final size:7
Alignment explanation
Indices: 46540464--46540490 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
46540454 GAAACCGATT
46540464 GGAAGAG
1 GGAAGAG
46540471 GGAAGAG
1 GGAAGAG
46540478 GGAAGAG
1 GGAAGAG
46540485 GGAAGA
1 GGAAGA
46540491 AGAAGAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (7 bp):
GGAAGAG
Found at i:46542685 original size:16 final size:16
Alignment explanation
Indices: 46542643--46542685 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
46542633 TTAGATCGGC
* *
46542643 AAAACTCGAAATGCTG
1 AAAAGTCGAAATGCAG
46542659 AAAAG-CTGAAATGCAG
1 AAAAGTC-GAAATGCAG
46542675 AAAAGTCGAAA
1 AAAAGTCGAAA
46542686 GTCTGGCTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.04
16 21 0.91
17 1 0.04
ACGTcount: A:0.51, C:0.14, G:0.21, T:0.14
Consensus pattern (16 bp):
AAAAGTCGAAATGCAG
Found at i:46542944 original size:29 final size:30
Alignment explanation
Indices: 46542902--46542992 Score: 120
Period size: 29 Copynumber: 3.2 Consensus size: 30
46542892 ACATGGTTTG
*
46542902 GAAT-TGATTCGGGCC-AGATGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
46542930 GAATGTGATTTGGGCCTA-ATGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
*
46542959 GAATGAGA-TTGGGCCTAG-TGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
*
46542987 GCATGT
1 GAATGT
46542993 ATATAGATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
28 27 0.48
29 28 0.50
30 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.33, T:0.27
Consensus pattern (30 bp):
GAATGTGATTTGGGCCTAGATGGGCCATAT
Found at i:46546664 original size:20 final size:20
Alignment explanation
Indices: 46546639--46546683 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
46546629 GTCAGAACAT
46546639 TCTTAAGCTTCTCAAAACTC
1 TCTTAAGCTTCTCAAAACTC
46546659 TCTTAAGCTTCTCAAAACTC
1 TCTTAAGCTTCTCAAAACTC
46546679 TCTTA
1 TCTTA
46546684 TTGTGTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.29, C:0.29, G:0.04, T:0.38
Consensus pattern (20 bp):
TCTTAAGCTTCTCAAAACTC
Found at i:46555474 original size:49 final size:49
Alignment explanation
Indices: 46555421--46555922 Score: 727
Period size: 47 Copynumber: 10.2 Consensus size: 49
46555411 CATGAAAATT
* *
46555421 TATATGAGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
46555470 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
46555519 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
46555568 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGA--TG-TG-A--TG-AA-TG----TGAAAGTGTATA
*
46555629 TATATGTGATAAGGCCTAATGGCCGATTTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
46555678 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
46555725 TATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG--TA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
46555772 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
46555819 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
** * * *
46555866 TATATGTGATAAGGCAGAGTGGCCGACGTGATGGATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
46555915 -A-ATGTGAT
1 TATATGTGAT
46555923 GAGTCCCGAA
Statistics
Matches: 426, Mismatches: 13, Indels: 30
0.91 0.03 0.06
Matches are distributed among these distances:
47 186 0.44
48 1 0.00
49 180 0.42
51 2 0.00
52 2 0.00
53 3 0.01
54 2 0.00
55 4 0.01
56 2 0.00
57 3 0.01
58 2 0.00
59 1 0.00
61 38 0.09
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:46555622 original size:12 final size:12
Alignment explanation
Indices: 46555605--46555629 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46555595 GTGATGAATG
46555605 TGAAAGTGTATA
1 TGAAAGTGTATA
46555617 TGAAAGTGTATA
1 TGAAAGTGTATA
46555629 T
1 T
46555630 ATATGTGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (12 bp):
TGAAAGTGTATA
Found at i:46555651 original size:61 final size:61
Alignment explanation
Indices: 46555556--46555727 Score: 260
Period size: 61 Copynumber: 3.0 Consensus size: 61
46555546 GTGATGAATG
46555556 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
46555617 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT-T--TG-A--TG-AA-TG----
1 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
46555666 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
46555727 T
1 T
46555728 ATGTGATAAG
Statistics
Matches: 99, Mismatches: 0, Indels: 24
0.80 0.00 0.20
Matches are distributed among these distances:
49 39 0.39
50 1 0.01
52 2 0.02
53 3 0.03
54 2 0.02
55 4 0.04
56 2 0.02
57 3 0.03
58 2 0.02
60 1 0.01
61 40 0.40
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (61 bp):
TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:46562917 original size:28 final size:28
Alignment explanation
Indices: 46562885--46562954 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
46562875 ACAGTAAGTC
46562885 CGCACACTTAGTGCT-TA-ATATTCAAACT
1 CGCACACTTAGTGCTATACA-ATT-AAACT
46562913 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATTAAACT
46562941 CGCACACTTAGTGC
1 CGCACACTTAGTGC
46562955 CAATCTCATT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
28 34 0.85
29 5 0.12
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATTAAACT
Found at i:46576222 original size:40 final size:40
Alignment explanation
Indices: 46576114--46576283 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
46576104 CGGGATTTAA
* * * * *
46576114 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
46576154 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
46576194 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
46576234 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
46576274 CCGGATATAT
1 CCGGATATAT
46576284 TTCCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:46580776 original size:40 final size:40
Alignment explanation
Indices: 46580731--46580898 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
46580721 CGGAATATAA
46580731 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
46580771 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
46580811 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
46580851 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
46580891 CCGGATAT
1 CCGGATAT
46580899 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:46587723 original size:39 final size:40
Alignment explanation
Indices: 46587610--46587801 Score: 306
Period size: 39 Copynumber: 4.9 Consensus size: 40
46587600 TTGAGAGTTA
46587610 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
46587650 TATATCCGGGCTAAGT--CGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
46587688 TATATCCGGGCTAAGTCCCG-AGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
46587727 TATAT-CGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
46587766 TATATCCGGGCTAA-ACCTCGAAG-GCATTCGTGCTGG
1 TATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCTGG
46587802 AATTATGAGG
Statistics
Matches: 143, Mismatches: 4, Indels: 11
0.91 0.03 0.07
Matches are distributed among these distances:
38 52 0.36
39 60 0.42
40 31 0.22
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:46587899 original size:57 final size:57
Alignment explanation
Indices: 46587807--46588080 Score: 415
Period size: 57 Copynumber: 4.8 Consensus size: 57
46587797 GCTGGAATTA
* * * * * ** *
46587807 TGAGGCACTGTGTGTGCAAGCTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGTAAT
* *
46587864 TGAGGCACTATGTGTGCGAGTTCTTCAATCAAGCACTATGCGTGCGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGTAAT
*
46587921 TGAGGCACTATATGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGT-AT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGTAAT
*
46587977 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTGTGTGTGCGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGTAAT
* *
46588034 TGAGGCACTATGTGTGCGAGCTCTTTAATCGAGCACTATGTGTGCGA
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGA
46588081 AATCAGTCAG
Statistics
Matches: 198, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
56 54 0.27
57 144 0.73
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGTAAT
Found at i:46587908 original size:28 final size:27
Alignment explanation
Indices: 46587868--46588080 Score: 165
Period size: 28 Copynumber: 7.6 Consensus size: 27
46587858 AGTAGTTGAG
46587868 GCACTATGTGTGCGAGTTCTTCAATCAA
1 GCACTATGTGTGCGAGTTCTT-AATCAA
* ** * *
46587896 GCACTATGCGTGCGAGATTGGTAATTGAG
1 GCACTATGTGTGCGAG-TTCTTAA-TCAA
* *
46587925 GCACTATATGTGCGAGTTCTTCAATCGA
1 GCACTATGTGTGCGAGTTCTT-AATCAA
** * * *
46587953 GCACTATGTGTGCGAGATTGGTATTGAG
1 GCACTATGTGTGCGAG-TTCTTAATCAA
*
46587981 GCACTATGTGTGCGAGTTCTTCAATCGA
1 GCACTATGTGTGCGAGTTCTT-AATCAA
* ** * *
46588009 GCACTGTGTGTGCGAGATTGGTAATTGAG
1 GCACTATGTGTGCGAG-TTCTTAA-TCAA
* *
46588038 GCACTATGTGTGCGAGCTCTTTAATCGA
1 GCACTATGTGTGCGAGTTC-TTAATCAA
46588066 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
46588081 AATCAGTCAG
Statistics
Matches: 139, Mismatches: 38, Indels: 16
0.72 0.20 0.08
Matches are distributed among these distances:
27 3 0.02
28 90 0.65
29 46 0.33
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (27 bp):
GCACTATGTGTGCGAGTTCTTAATCAA
Found at i:46588013 original size:113 final size:114
Alignment explanation
Indices: 46587807--46588108 Score: 439
Period size: 113 Copynumber: 2.7 Consensus size: 114
46587797 GCTGGAATTA
* * * *
46587807 TGAGGCACTGTGTGTGCAAGCTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAGTTGAGGCAC
1 TGAGGCACTATGTGTGCGAGCTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAGTTGAGGCAC
46587872 TATGTGTGCGAGTTCTTCAATCAAGCACTATGCGTGCGAGATTGGTAAT
66 TATGTGTGCGAGTTCTTCAATCAAGCACTATGCGTGCGAGATTGGTAAT
* * **
46587921 TGAGGCACTATATGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGTA-TTGAGGCAC
1 TGAGGCACTATGTGTGCGAGCTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAGTTGAGGCAC
* * *
46587985 TATGTGTGCGAGTTCTTCAATCGAGCACTGTGTGTGCGAGATTGGTAAT
66 TATGTGTGCGAGTTCTTCAATCAAGCACTATGCGTGCGAGATTGGTAAT
* *
46588034 TGAGGCACTATGTGTGCGAGCTCTTTAATCGAGCACTATGTGTGCGAAATCAGTCAG-TG-GGCA
1 TGAGGCACTATGTGTGCGAGCTCTTCAATCGAGCACTATGTGTGCGAGATCAGT-AGTTGAGGCA
* *
46588097 CTGTGTATGCGA
65 CTATGTGTGCGA
46588109 AGTGTGCTTC
Statistics
Matches: 167, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
113 117 0.70
114 50 0.30
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.29
Consensus pattern (114 bp):
TGAGGCACTATGTGTGCGAGCTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAGTTGAGGCAC
TATGTGTGCGAGTTCTTCAATCAAGCACTATGCGTGCGAGATTGGTAAT
Found at i:46598916 original size:28 final size:28
Alignment explanation
Indices: 46598815--46598916 Score: 75
Period size: 28 Copynumber: 3.5 Consensus size: 28
46598805 TCAGAGTTAA
* *
46598815 CTGGGCCTTAGCCCATATCAATATT-AAT
1 CTGGGCCATAGCCCATATCAGT-TTCAAT
* *
46598843 CTGGGCCATAGCCCCTTAT-AGTATCAGGGTAT
1 CTGGGCCATAG-CCCATATCAGTTTCA----AT
*
46598875 ACTGAGCC-TAGCCCATATCAGTTTCAAT
1 -CTGGGCCATAGCCCATATCAGTTTCAAT
46598903 CTGGGCCATAGCCC
1 CTGGGCCATAGCCC
46598917 TATTACAAGT
Statistics
Matches: 57, Mismatches: 8, Indels: 18
0.69 0.10 0.22
Matches are distributed among these distances:
27 7 0.12
28 21 0.37
29 6 0.11
31 6 0.11
32 11 0.19
33 6 0.11
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (28 bp):
CTGGGCCATAGCCCATATCAGTTTCAAT
Found at i:46598970 original size:20 final size:20
Alignment explanation
Indices: 46598945--46598990 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
46598935 GTTGGGTCTT
46598945 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
46598965 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
46598984 GCCCATA
1 GCCCATA
46598991 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:46598999 original size:19 final size:20
Alignment explanation
Indices: 46598957--46599000 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
46598947 CCATATTAAC
** *
46598957 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
46598977 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
46598996 ACAGT
1 ACAGT
46599001 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:46601812 original size:13 final size:13
Alignment explanation
Indices: 46601794--46601822 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
46601784 AAAATTAAAA
46601794 AAATAATAACAGT
1 AAATAATAACAGT
46601807 AAATAATAACAGT
1 AAATAATAACAGT
46601820 AAA
1 AAA
46601823 ATAAATGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AAATAATAACAGT
Found at i:46603374 original size:2 final size:2
Alignment explanation
Indices: 46603330--46603357 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
46603320 TGATTGAATG
46603330 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46603358 TGAGAATCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46605034 original size:14 final size:14
Alignment explanation
Indices: 46605015--46605041 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46605005 CTTGAAGCAC
46605015 TCACAAGTAAGTGT
1 TCACAAGTAAGTGT
46605029 TCACAAGTAAGTG
1 TCACAAGTAAGTG
46605042 GTTTCCACAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (14 bp):
TCACAAGTAAGTGT
Found at i:46605907 original size:45 final size:48
Alignment explanation
Indices: 46605776--46606090 Score: 296
Period size: 46 Copynumber: 6.7 Consensus size: 48
46605766 ATTGTGGGCT
* * * *
46605776 AGTGTAA-AACATGTCTGGGACAT-GCATTGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATGAGAGCC
* * * * *
46605822 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGAGAGCC
*
46605870 AGTGTAAGA-CA-GTCTGGGACAT-GCATCGGCCTCGAGACGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATG-AGAGCC
* * * * *
46605915 AGTGTAAGA-CATGTCTGGGACAT-ACATCAG-CTATGAGAT--GTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGAGAGCC
* * * *
46605959 AGTGTAAGACCATGTCTAGGACATGGCATCGGCAC-GGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGA--TGAGAGCC
*
46606009 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATGAGAGCC
46606058 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
46606091 ACCTTACCCC
Statistics
Matches: 220, Mismatches: 32, Indels: 31
0.78 0.11 0.11
Matches are distributed among these distances:
44 11 0.05
45 43 0.20
46 47 0.21
47 17 0.08
48 24 0.11
49 41 0.19
50 36 0.16
51 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGAGAGCC
Found at i:46606070 original size:99 final size:97
Alignment explanation
Indices: 46605814--46606092 Score: 312
Period size: 99 Copynumber: 2.9 Consensus size: 97
46605804 GGCCACATTA
* *
46605814 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GACGAGTGCTAGTGTAAG
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTGATGA-GA-TGCCAGTGTAAG
46605878 A-CA-GTCTGGGACAT-GCATCGGC-CTCGAGACG
63 ACCATGTCTGGGACATGGCATCGGCACTCGAGACG
* * *
46605909 T-A-AGCCAGTGTAAGA-CATGTCTGGGACAT-ACATCAG-CT-ATGAGATGTGTCAGTGTAAGA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTGATGAGA--TGCCAGTGTAAGA
* * * *
46605968 CCATGTCTAGGACATGGCATCGGCAC-GGATATG
64 CCATGTCTGGGACATGGCATCGGCACTCGAGACG
*
46606001 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATAGCCAGTGTAAG
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-GATGA-GAT-GCCAGTGTAAG
46606066 ACCATGTCTGGGACATGGCATCGGCAC
63 ACCATGTCTGGGACATGGCATCGGCAC
46606093 CTTACCCCAT
Statistics
Matches: 155, Mismatches: 14, Indels: 26
0.79 0.07 0.13
Matches are distributed among these distances:
88 3 0.02
89 15 0.10
90 2 0.01
91 15 0.10
92 27 0.17
93 15 0.10
94 13 0.08
95 15 0.10
96 5 0.03
97 2 0.01
98 1 0.01
99 40 0.26
100 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (97 bp):
TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTGATGAGATGCCAGTGTAAGACC
ATGTCTGGGACATGGCATCGGCACTCGAGACG
Found at i:46613533 original size:46 final size:48
Alignment explanation
Indices: 46613437--46613715 Score: 288
Period size: 46 Copynumber: 5.9 Consensus size: 48
46613427 TGGCCACATT
* *
46613437 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG
* * * *
46613485 ACGAGTGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG
* *
46613531 ACGTA-AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTATGAG
1 ATG-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAG
* * * * * *
46613577 AT--GTGTCAGTGTAAGACCATGTCTAGGACATGGCATTGGCAC-GGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAG
* *
46613623 ATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATG
1 A--TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-G
*
46613674 ATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
46613716 ACCTTACCCC
Statistics
Matches: 190, Mismatches: 28, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
44 11 0.06
45 15 0.08
46 59 0.31
47 14 0.07
48 17 0.09
49 39 0.21
50 34 0.18
51 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (48 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG
Found at i:46618085 original size:19 final size:19
Alignment explanation
Indices: 46618057--46618099 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
46618047 ATGAGCTCGA
*
46618057 GTGCATTTCAATCATTCTC
1 GTGCACTTCAATCATTCTC
46618076 GTGCACTTCAATCATTCTC
1 GTGCACTTCAATCATTCTC
46618095 GTGCA
1 GTGCA
46618100 TGTATCATCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.37
Consensus pattern (19 bp):
GTGCACTTCAATCATTCTC
Found at i:46618934 original size:33 final size:33
Alignment explanation
Indices: 46618892--46618957 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
46618882 GATTTCATAC
46618892 AAAGATTTAAAGAATTCACATAACCATCACAAT
1 AAAGATTTAAAGAATTCACATAACCATCACAAT
*
46618925 AAAGATTTAAAGAATTCGCATAACCATCACAAT
1 AAAGATTTAAAGAATTCACATAACCATCACAAT
46618958 CAAACAAACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.50, C:0.18, G:0.08, T:0.24
Consensus pattern (33 bp):
AAAGATTTAAAGAATTCACATAACCATCACAAT
Found at i:46619932 original size:42 final size:42
Alignment explanation
Indices: 46619873--46619965 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
46619863 TGCAGATACT
* * * *
46619873 CATCAACTTGTGTGAGCAGCATTGTATAACTTACATTTCGAC
1 CATCAACTTCTGTGAGCAGAATCGTATAACTTACATTTCAAC
* *
46619915 CATCATCTTCTGTGAGCAGAATCGTATAGCTTACATTTCAAC
1 CATCAACTTCTGTGAGCAGAATCGTATAACTTACATTTCAAC
*
46619957 CATTAACTT
1 CATCAACTT
46619966 GTATGGGCAG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (42 bp):
CATCAACTTCTGTGAGCAGAATCGTATAACTTACATTTCAAC
Found at i:46620137 original size:49 final size:49
Alignment explanation
Indices: 46620077--46620181 Score: 140
Period size: 49 Copynumber: 2.1 Consensus size: 49
46620067 AATAGGTATG
* * * *
46620077 AAAAAGGAAAGGAAAGGTATGTGTTCA-AATGAACTATGTCATGAAATTAT
1 AAAAA-GAAAGGAAAGATATGTATT-AGAATGAACTACGCCATGAAATTAT
46620127 AAAAAGAAAGGAAAGATATGTATTAGAATGAACTACGCCATGAAATTAT
1 AAAAAGAAAGGAAAGATATGTATTAGAATGAACTACGCCATGAAATTAT
*
46620176 GAAAAG
1 AAAAAG
46620182 GATTGAAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
48 1 0.02
49 43 0.88
50 5 0.10
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.23
Consensus pattern (49 bp):
AAAAAGAAAGGAAAGATATGTATTAGAATGAACTACGCCATGAAATTAT
Found at i:46622492 original size:15 final size:15
Alignment explanation
Indices: 46622472--46622501 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46622462 TTCTTTTTCA
46622472 ATTTATTTTTCTCTT
1 ATTTATTTTTCTCTT
*
46622487 ATTTATTTTTTTCTT
1 ATTTATTTTTCTCTT
46622502 CTCTCAGATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (15 bp):
ATTTATTTTTCTCTT
Found at i:46623035 original size:137 final size:135
Alignment explanation
Indices: 46622871--46623282 Score: 566
Period size: 137 Copynumber: 3.0 Consensus size: 135
46622861 ATATATATAA
*
46622871 AATTAATATATGAATTTGATTTATACAAAATATTAATTGTATATATTTTACTGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATTAATA
46622936 TAAACAATTATATTAATTAATTTCGATCAAAATAT-AAACAATTGGAAATTAATATCCTTTTGGA
66 TAAACAATTATATTAATTAATTTCGATCAAAATATAAAAC-A-TGGAAATTAATAT-CTTTTGGA
46623000 AAGAATAT
128 AAGAATAT
* *
46623008 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTAAATTTACTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATTAATA
* * * * * * *
46623073 AAAACAGTTATATTAATTAATTTTGGTTAAAATATAAAGGACATAGAAATTAATA--TTCTGGAA
66 TAAACAATTATATTAATTAATTTCGATCAAAATATAAA--ACATGGAAATTAATATCTTTTGGAA
46623136 AGAATAT
129 AGAATAT
*
46623143 AATTAATATATGAATTTAATTCATACAAAATATTAA-T-TATATATTTTAGC-GAATTTATTAAT
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTA-CTGAATTTATTAAT
* * *
46623205 ATAAACAATTATAATAATTAATTTCAATCAAAATATAAAAGACATGGAAATTACTATTCTTTTGG
65 ATAAACAATTATATTAATTAATTTCGATCAAAATAT-AAA-ACATGGAAATTAATA-TCTTTTGG
*
46623270 AAAGAAAAT
127 AAAGAATAT
46623279 AATT
1 AATT
46623283 CGTTTTTTTC
Statistics
Matches: 243, Mismatches: 24, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
133 64 0.26
134 5 0.02
135 49 0.20
136 17 0.07
137 92 0.38
138 13 0.05
139 1 0.00
140 2 0.01
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.40
Consensus pattern (135 bp):
AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATTAATA
TAAACAATTATATTAATTAATTTCGATCAAAATATAAAACATGGAAATTAATATCTTTTGGAAAG
AATAT
Found at i:46624616 original size:82 final size:81
Alignment explanation
Indices: 46624456--46624625 Score: 295
Period size: 82 Copynumber: 2.1 Consensus size: 81
46624446 ATTTTGGAGA
* *
46624456 GTCACACGCCCGTGTGGCTCAGGACATGCTCGTGTCCTCCACCGTGTAACTCTCTGTTTATGACG
1 GTCACACGCCCGTGTGGCTCAGGACATGCCCGTGTCCTCCACCGTGTAACTCTCTGTTTATGACA
46624521 TCATCACCCATTTAGG
66 TCATCACCCATTTAGG
* *
46624537 GTCACACGCTCGTGTGGCTCAGGACATGCCCGTGTCCTCTACCCGTGTAACTCTCTGTTTATGAC
1 GTCACACGCCCGTGTGGCTCAGGACATGCCCGTGTCCTCCA-CCGTGTAACTCTCTGTTTATGAC
46624602 ATCATCACCCATTTAGG
65 ATCATCACCCATTTAGG
46624619 GTCACAC
1 GTCACAC
46624626 AGCCATGTCA
Statistics
Matches: 84, Mismatches: 4, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
81 38 0.45
82 46 0.55
ACGTcount: A:0.18, C:0.32, G:0.21, T:0.28
Consensus pattern (81 bp):
GTCACACGCCCGTGTGGCTCAGGACATGCCCGTGTCCTCCACCGTGTAACTCTCTGTTTATGACA
TCATCACCCATTTAGG
Found at i:46633063 original size:27 final size:27
Alignment explanation
Indices: 46632982--46633071 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
46632972 TTTAGTTTAC
* *
46632982 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACTGAAATA-CCTTCGATTTG
* * *
46633009 TAAAAATACTGAAATACCCTCAATTTG
1 TAAAATTACTGAAATACCTTCGATTTG
*
46633036 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCTTCGATTTG
46633063 TAAAATTAC
1 TAAAATTAC
46633072 CAAAGTACCC
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 3 0.06
27 50 0.94
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (27 bp):
TAAAATTACTGAAATACCTTCGATTTG
Found at i:46633096 original size:27 final size:27
Alignment explanation
Indices: 46633066--46633126 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
46633056 CGACTTGTAA
46633066 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
* **** *
46633093 AATTATCGTTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAG
46633120 AATTACC
1 AATTACC
46633127 GTTTTACCCC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:46633129 original size:27 final size:27
Alignment explanation
Indices: 46633077--46633287 Score: 271
Period size: 27 Copynumber: 7.8 Consensus size: 27
46633067 ATTACCAAAG
* *
46633077 TACCCCCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
46633104 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
46633131 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
*
46633158 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
46633185 TACCCTCGATTTACAGAATTACAGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * **
46633212 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
46633239 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
46633266 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
46633288 TAAATACCCT
Statistics
Matches: 166, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
26 1 0.01
27 164 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:46633323 original size:27 final size:27
Alignment explanation
Indices: 46633266--46633350 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 27
46633256 ATTACTGTTT
* ** *
46633266 TACCCTCGATTTACAAAATTA-CTAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
* * * *
46633292 TACCCTTAGTTTGTGAAATTACCGAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
46633319 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
46633346 TACCC
1 TACCC
46633351 CTGATTTACA
Statistics
Matches: 47, Mismatches: 11, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
26 15 0.32
27 32 0.68
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.31
Consensus pattern (27 bp):
TACCCTCAATTTGTAAAATTACCAAAA
Found at i:46633427 original size:27 final size:26
Alignment explanation
Indices: 46633384--46633439 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
46633374 CCCTTGACTT
46633384 TTTAAAAATTATAGAAATACCATTGG
1 TTTAAAAATTATAGAAATACCATTGG
*
46633410 TTTACAAAATTACT-GAAATACCCTTGG
1 TTTA-AAAATTA-TAGAAATACCATTGG
46633437 TTT
1 TTT
46633440 GTAGATTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.15
27 22 0.81
28 1 0.04
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (26 bp):
TTTAAAAATTATAGAAATACCATTGG
Found at i:46633557 original size:27 final size:27
Alignment explanation
Indices: 46633480--46633557 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
46633470 AAATGACTAA
*
46633480 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTATAT-GGTAAAATGACCGT
* * *
46633507 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTATATGGTAAAATGACCGT
46633534 AATACCCCTATATGGTAAAATGAC
1 AATACCCCTATATGGTAAAATGAC
46633558 GAATATGCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.02
27 39 0.95
28 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (27 bp):
AATACCCCTATATGGTAAAATGACCGT
Found at i:46634740 original size:25 final size:25
Alignment explanation
Indices: 46634711--46634758 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46634701 TTATAATATG
* * *
46634711 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATAACCATTATACCCCTAGGTA
46634736 AAAATAACCATTATACCCCTAGG
1 AAAATAACCATTATACCCCTAGG
46634759 GTTTATATAT
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:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (25 bp):
AAAATAACCATTATACCCCTAGGTA
Found at i:46634846 original size:19 final size:20
Alignment explanation
Indices: 46634795--46634856 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
46634785 ATTTTGATAA
*
46634795 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
46634815 ACATGACATGTATGATATGC
1 ACATGACATGTATGATATGC
46634835 ACATGA-ATGTATGATATGC
1 ACATGACATGTATGATATGC
46634854 ACA
1 ACA
46634857 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
19 16 0.39
20 25 0.61
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (20 bp):
ACATGACATGTATGATATGC
Found at i:46634941 original size:23 final size:23
Alignment explanation
Indices: 46634911--46635053 Score: 223
Period size: 23 Copynumber: 6.1 Consensus size: 23
46634901 AGGAAGTGAA
46634911 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
46634934 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
46634958 AAAGGGCTTATGCCCCAGTTATC
1 AAAGGGCTTATGCCCCAGTTATT
*
46634981 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
46635004 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
46635028 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
46635051 AAA
1 AAA
46635054 AGAGGCTAGG
Statistics
Matches: 110, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
23 67 0.61
24 43 0.39
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:46634979 original size:47 final size:46
Alignment explanation
Indices: 46634910--46635060 Score: 221
Period size: 47 Copynumber: 3.2 Consensus size: 46
46634900 GAGGAAGTGA
*
46634910 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
* *
46634956 CAAAAGGGCTTATGCCCCAGTTATCAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
* *
46635003 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTA-T
46635051 AAAAGAGGCT
1 AAAAG-GGCT
46635061 AGGCCTCTAG
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
46 22 0.23
47 63 0.67
48 5 0.05
49 4 0.04
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
Found at i:46635024 original size:70 final size:70
Alignment explanation
Indices: 46634911--46635049 Score: 251
Period size: 70 Copynumber: 2.0 Consensus size: 70
46634901 AGGAAGTGAA
* *
46634911 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
1 AAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAG
46634976 TTATC
66 TTATC
*
46634981 AAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAG
1 AAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAG
46635046 TTAT
66 TTAT
46635050 TAAAAGAGGC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (70 bp):
AAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAG
TTATC
Found at i:46638174 original size:27 final size:27
Alignment explanation
Indices: 46638098--46638187 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
46638088 TTTAGTTTAC
* *
46638098 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACTGAAATA-CCTTCGATTTG
* *
46638125 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCTTCGATTTG
*
46638152 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCTTCGATTTG
46638179 TAAAATTAC
1 TAAAATTAC
46638188 CAAAGTACCC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.07
27 51 0.93
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
TAAAATTACTGAAATACCTTCGATTTG
Found at i:46638197 original size:54 final size:54
Alignment explanation
Indices: 46638098--46638204 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
46638088 TTTAGTTTAC
* * *
46638098 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
46638152 TAAAATTACTGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
46638205 ACAGAATTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 8 0.18
54 37 0.82
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:46638212 original size:27 final size:27
Alignment explanation
Indices: 46638182--46638242 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
46638172 CGACTTGTAA
46638182 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
* **** *
46638209 AATTATCGTTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAG
46638236 AATTACC
1 AATTACC
46638243 GTTTTACCCC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:46638245 original size:27 final size:27
Alignment explanation
Indices: 46638193--46638403 Score: 223
Period size: 27 Copynumber: 7.8 Consensus size: 27
46638183 ATTACCAAAG
* *
46638193 TACCCCCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
46638220 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
46638247 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
*
46638274 TA-CCTCGACTTACAGAATTA-CGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
46638299 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
46638326 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
46638353 TACCCTTGATTTACAGAA-TACCCTAGTT
1 TACCCTCGATTTACAGAATTACCGT--TT
*
46638381 TACCCTACGATTTACAAAATTAC
1 TACCCT-CGATTTACAGAATTAC
46638404 TAAAAATACC
Statistics
Matches: 161, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
25 7 0.04
26 36 0.22
27 97 0.60
28 8 0.05
29 10 0.06
30 3 0.02
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:46638346 original size:79 final size:81
Alignment explanation
Indices: 46638193--46638405 Score: 220
Period size: 79 Copynumber: 2.6 Consensus size: 81
46638183 ATTACCAAAG
* * * * * **
46638193 TACCCCCGATTTACAGAATTATCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCCTGATT
1 TACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACCCCTGATT
* *
46638258 TACATAATTA-TCGTTT
66 TACAGAATTACT-ATTT
*
46638274 TA-CCTCGACTTACAGAATTA-CGTTTTACCCTCGATTTACAGAATTACTATTTTA-CCCTCGAT
1 TACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACCCCT-GAT
*
46638336 TTATAGAATTACTATTT
65 TTACAGAATTACTATTT
* * *
46638353 TACCCTTGATTTACAGAA-TACCCTAGTTTACCCTACGATTTACAAAATTACTA
1 TACCCTCGACTTACAGAATTACCGT--TTTACCCT-CGATTTACAAAATTACTA
46638406 AAAATACCTT
Statistics
Matches: 112, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
78 4 0.04
79 49 0.44
80 32 0.29
81 2 0.02
82 8 0.07
83 17 0.15
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.38
Consensus pattern (81 bp):
TACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACCCCTGATT
TACAGAATTACTATTT
Found at i:46643483 original size:40 final size:40
Alignment explanation
Indices: 46643417--46643583 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
46643407 AAATTGAATG
* * *
46643417 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
46643456 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
46643496 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
46643536 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
46643576 ATATCCGG
1 ATATCCGG
46643584 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:46651475 original size:40 final size:40
Alignment explanation
Indices: 46651416--46651557 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
46651406 AAATTGAATG
* * *
46651416 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
46651456 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
46651496 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
46651536 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
46651558 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:46651558 original size:40 final size:39
Alignment explanation
Indices: 46651455--46651583 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
46651445 TGCTGGAAAT
* * *
46651455 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
46651495 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
46651535 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
46651575 TATATCCGG
1 TATATCCGG
46651584 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:46654247 original size:31 final size:30
Alignment explanation
Indices: 46654209--46654266 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
46654199 TCTCAAATGT
46654209 AAATAAAATCTAAACCCTAAA-AGAAAATAAA
1 AAATAAAATCTAAA--CTAAATAGAAAATAAA
*
46654240 AAATAAAATTTAAACTAAATAGAAAAT
1 AAATAAAATCTAAACTAAATAGAAAAT
46654267 TATACAAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 5 0.20
30 7 0.28
31 13 0.52
ACGTcount: A:0.67, C:0.09, G:0.03, T:0.21
Consensus pattern (30 bp):
AAATAAAATCTAAACTAAATAGAAAATAAA
Found at i:46655446 original size:39 final size:39
Alignment explanation
Indices: 46655347--46655446 Score: 123
Period size: 39 Copynumber: 2.6 Consensus size: 39
46655337 GAAATCCTTG
* *
46655347 TTATAATTATTGTAATTATAA-TTTACGATCGAATATTA
1 TTATAATTATTGTAATTATAATTTTACGATCAAACATTA
** *
46655385 TTATAATTATTGTAATGGTAATTTTCCTG-TCAAACATTA
1 TTATAATTATTGTAATTATAATTTTAC-GATCAAACATTA
*
46655424 TTATAATTATGGTAATTATAATT
1 TTATAATTATTGTAATTATAATT
46655447 ATTATATTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
38 19 0.37
39 32 0.62
40 1 0.02
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.48
Consensus pattern (39 bp):
TTATAATTATTGTAATTATAATTTTACGATCAAACATTA
Found at i:46657067 original size:53 final size:54
Alignment explanation
Indices: 46656998--46657204 Score: 222
Period size: 54 Copynumber: 3.8 Consensus size: 54
46656988 TTCCTTTTTA
* *
46656998 AACTTACC-ATCGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAAT-GCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
46657051 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATAGG-ATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACAT-GGTATCCTTGCCTTATAG
** * * * * * *
46657105 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
46657160 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
46657205 AAACCCTAAT
Statistics
Matches: 123, Mismatches: 26, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
53 41 0.33
54 42 0.34
55 40 0.33
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.37
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:46664527 original size:53 final size:54
Alignment explanation
Indices: 46664442--46664644 Score: 203
Period size: 53 Copynumber: 3.8 Consensus size: 54
46664432 TTCCTTTTTA
* * *
46664442 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATTCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATTCTTGCCTTATAG
* * ** * *
46664495 AACTCACCATTGCCATGCCTTGGTATGGTCTTACATGGGA-TCTTTGGCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATTC-TTGCCTTATAG
** * * * * * *
46664549 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATTCTTGCCTTATAG
* *
46664604 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTAT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTAT
46664645 CCTTAAACCC
Statistics
Matches: 117, Mismatches: 29, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
52 2 0.02
53 42 0.36
54 34 0.29
55 37 0.32
56 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATTCTTGCCTTATAG
Found at i:46666089 original size:31 final size:31
Alignment explanation
Indices: 46666046--46666104 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
46666036 TATTTATAGA
46666046 CTTAAGATGGCCATCATCCTTAACCCTAGGT
1 CTTAAGATGGCCATCATCCTTAACCCTAGGT
* *
46666077 CTTAGGATGGCCATCGTCCTTAACCCTA
1 CTTAAGATGGCCATCATCCTTAACCCTA
46666105 AGTCAGCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.29
Consensus pattern (31 bp):
CTTAAGATGGCCATCATCCTTAACCCTAGGT
Found at i:46668556 original size:22 final size:22
Alignment explanation
Indices: 46668531--46668583 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
46668521 ATGCTAAATA
*
46668531 TGTGATAAATGTGCTTGTGAAT
1 TGTGATAAATGTGCTCGTGAAT
46668553 TGTGATAAATGTGCTCGTGAAT
1 TGTGATAAATGTGCTCGTGAAT
46668575 TGTGATAAA
1 TGTGATAAA
46668584 GAGAACTAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (22 bp):
TGTGATAAATGTGCTCGTGAAT
Found at i:46669191 original size:259 final size:259
Alignment explanation
Indices: 46668732--46669249 Score: 1027
Period size: 259 Copynumber: 2.0 Consensus size: 259
46668722 CATGTGCGAA
46668732 TAATCAATAAGTAATATATGATGATTGTGTGGGTATTTTGGCCTTGTGATCATATGAGACCGTTG
1 TAATCAATAAGTAATATATGATGATTGTGTGGGTATTTTGGCCTTGTGATCATATGAGACCGTTG
*
46668797 GATATAATTGGCATGCCATAGGATTGTGAGTACTCACTTATATGTGTTGTGATATTTGGGGAGTT
66 GATATAATTGGCATGCCATAGGATTGTGAGTACTCACTTATATGTGTTGTGATATTTGAGGAGTT
46668862 GAGGCCCAGGATAGTTTTTGAAGAAATAAGGGAATGTAAGGTAAGCTTTGTTCATTGGGATATGT
131 GAGGCCCAGGATAGTTTTTGAAGAAATAAGGGAATGTAAGGTAAGCTTTGTTCATTGGGATATGT
46668927 GGGTTTGGTGTGTTGGAGAGTGTACTATAAGCTTCATTTATGGGATATGTACGACTCTAAGAAT
196 GGGTTTGGTGTGTTGGAGAGTGTACTATAAGCTTCATTTATGGGATATGTACGACTCTAAGAAT
46668991 TAATCAATAAGTAATATATGATGATTGTGTGGGTATTTTGGCCTTGTGATCATATGAGACCGTTG
1 TAATCAATAAGTAATATATGATGATTGTGTGGGTATTTTGGCCTTGTGATCATATGAGACCGTTG
46669056 GATATAATTGGCATGCCATAGGATTGTGAGTACTCACTTATATGTGTTGTGATATTTGAGGAGTT
66 GATATAATTGGCATGCCATAGGATTGTGAGTACTCACTTATATGTGTTGTGATATTTGAGGAGTT
46669121 GAGGCCCAGGATAGTTTTTGAAGAAATAAGGGAATGTAAGGTAAGCTTTGTTCATTGGGATATGT
131 GAGGCCCAGGATAGTTTTTGAAGAAATAAGGGAATGTAAGGTAAGCTTTGTTCATTGGGATATGT
46669186 GGGTTTGGTGTGTTGGAGAGTGTACTATAAGCTTCATTTATGGGATATGTACGACTCTAAGAAT
196 GGGTTTGGTGTGTTGGAGAGTGTACTATAAGCTTCATTTATGGGATATGTACGACTCTAAGAAT
46669250 CTATGTGGTG
Statistics
Matches: 258, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
259 258 1.00
ACGTcount: A:0.27, C:0.09, G:0.28, T:0.36
Consensus pattern (259 bp):
TAATCAATAAGTAATATATGATGATTGTGTGGGTATTTTGGCCTTGTGATCATATGAGACCGTTG
GATATAATTGGCATGCCATAGGATTGTGAGTACTCACTTATATGTGTTGTGATATTTGAGGAGTT
GAGGCCCAGGATAGTTTTTGAAGAAATAAGGGAATGTAAGGTAAGCTTTGTTCATTGGGATATGT
GGGTTTGGTGTGTTGGAGAGTGTACTATAAGCTTCATTTATGGGATATGTACGACTCTAAGAAT
Found at i:46670038 original size:20 final size:21
Alignment explanation
Indices: 46669991--46670040 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
46669981 CTTATCCCTA
*
46669991 GTATCGATACTTGTGGTAAGT
1 GTATCGATACTTGTGGAAAGT
*
46670012 TTATCGATACCTTGT-GAAAG-
1 GTATCGATA-CTTGTGGAAAGT
46670032 GTATCGATA
1 GTATCGATA
46670041 ATTTTTTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 8 0.32
21 12 0.48
22 5 0.20
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (21 bp):
GTATCGATACTTGTGGAAAGT
Found at i:46671279 original size:2 final size:2
Alignment explanation
Indices: 46671272--46671302 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
46671262 AAAGCTTAGC
46671272 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
46671303 AGTCGACACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46675440 original size:27 final size:27
Alignment explanation
Indices: 46675410--46675522 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 27
46675400 TACTGAAATG
** *
46675410 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * * *
46675437 CCCTCGATTTATAGAATTAGCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
46675464 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
** *
46675491 CCCTTAATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
46675518 CCCTC
1 CCCTC
46675523 AATTGTGAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCATTTTA
Found at i:46675482 original size:54 final size:54
Alignment explanation
Indices: 46675410--46675522 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
46675400 TACTGAAATG
** * * * * *
46675410 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTAGCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAAAATTACCGTTTTA
*
46675464 CCCTCGATTTACAAAATTACCATTTTACCCTTAATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAAAATTACCGTTTTA
46675518 CCCTC
1 CCCTC
46675523 AATTGTGAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (54 bp):
CCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAAAATTACCGTTTTA
Found at i:46675569 original size:27 final size:26
Alignment explanation
Indices: 46675525--46675681 Score: 152
Period size: 27 Copynumber: 5.8 Consensus size: 26
46675515 TTACCCTCAA
* **
46675525 TTGTGAAATTACTGAAATACCCCTGT
1 TTGTAAAATTACCAAAATACCCCTGT
** * *
46675551 AGGATAGAATTACCAAAATATCCCCGGT
1 TTG-TAAAATTACCAAAATA-CCCCTGT
46675579 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCT-GT
*
46675606 TTGTAAAATTACCAAAATACCACTAGT
1 TTGTAAAATTACCAAAATACCCCT-GT
* * * **
46675633 TTGTGAAATTATCGAAATACCCTCAAT
1 TTGTAAAATTACCAAAATACCC-CTGT
46675660 TTGTAAAATTACCAAAATACCC
1 TTGTAAAATTACCAAAATACCC
46675682 TTGATTTACA
Statistics
Matches: 106, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
26 5 0.05
27 93 0.88
28 8 0.08
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.29
Consensus pattern (26 bp):
TTGTAAAATTACCAAAATACCCCTGT
Found at i:46675682 original size:27 final size:27
Alignment explanation
Indices: 46675558--46675682 Score: 157
Period size: 27 Copynumber: 4.6 Consensus size: 27
46675548 TGTAGGATAG
*
46675558 AATTACCAAAATATCCC-CGGTTTGTAA
1 AATTACCAAAATA-CCCTCAGTTTGTAA
46675585 AATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTC-AGTTTGTAA
*
46675612 AATTACCAAAATACCACT-AGTTTGTGA
1 AATTACCAAAATACC-CTCAGTTTGTAA
* * *
46675639 AATTATCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCTCAGTTTGTAA
46675666 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
46675683 TGATTTACAA
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.07
27 79 0.92
28 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAGTTTGTAA
Found at i:46675688 original size:27 final size:27
Alignment explanation
Indices: 46675558--46675794 Score: 153
Period size: 27 Copynumber: 8.7 Consensus size: 27
46675548 TGTAGGATAG
* *
46675558 AATTACCAAAATATCCC-CGGTTTGTAA
1 AATTACCAAAATA-CCCTTGATTTGTAA
*
46675585 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
* *
46675612 AATTACCAAAATACCACTAG-TTTGTGA
1 AATTACCAAAATACC-CTTGATTTGTAA
* * **
46675639 AATTATCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
**
46675666 AATTACCAAAATACCCTTGATTTACAA
1 AATTACCAAAATACCCTTGATTTGTAA
* *
46675693 AATTA-TAGAAATACCCTTGACTTTCTAAA
1 AATTACCA-AAATACCCTTGA-TTTGT-AA
* * * **
46675722 AATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCA-AAATACCCTTGATTTGTAA
** *
46675749 AATTACTGAAATACCCTT-AGTTTGTAG
1 AATTACCAAAATACCCTTGA-TTTGTAA
* *
46675776 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
46675795 TAGGGTGAAA
Statistics
Matches: 166, Mismatches: 33, Indels: 21
0.75 0.15 0.10
Matches are distributed among these distances:
26 6 0.04
27 132 0.80
28 8 0.05
29 20 0.12
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:46675696 original size:54 final size:53
Alignment explanation
Indices: 46675558--46675795 Score: 185
Period size: 54 Copynumber: 4.4 Consensus size: 53
46675548 TGTAGGATAG
** ** * *
46675558 AATTACCAAAATATCCCCGGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATA-CCCTTGTTTACAAAATTATCGAAATACCCTC-AGTTTGTAA
* *** *
46675612 AATTACCAAAATACCACTAGTTTGTGAAATTATCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACC-CTTGTTTACAAAATTATCGAAATACCCTCAGTTTGTAA
* * * *
46675666 AATTACCAAAATACCCTTGATTTACAAAATTATAGAAATACCCTTGACTTTCTAAA
1 AATTACCAAAATACCCTTG-TTTACAAAATTATCGAAATACCC-TCAGTTTGT-AA
* * * *
46675722 AATTA-TAGAAATACCATTGGTTTACAAAATTA-CTGAAATACCCTTAGTTTGTAG
1 AATTACCA-AAATACCCTT-GTTTACAAAATTATC-GAAATACCCTCAGTTTGTAA
* *
46675776 ATTTACCAAAACACCCTTGT
1 AATTACCAAAATACCCTTGT
46675796 AGGGTGAAAT
Statistics
Matches: 150, Mismatches: 25, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
53 7 0.05
54 90 0.60
55 15 0.10
56 37 0.25
57 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (53 bp):
AATTACCAAAATACCCTTGTTTACAAAATTATCGAAATACCCTCAGTTTGTAA
Found at i:46675889 original size:27 final size:27
Alignment explanation
Indices: 46675783--46675889 Score: 94
Period size: 27 Copynumber: 3.9 Consensus size: 27
46675773 TAGATTTACC
*
46675783 AAAACACCCTTGTAGGGTGAAATGA-C-T
1 AAAAC-CCC-TGTAGGGTAAAATGACCGT
* *
46675810 AAAATACCCCTATTA-GGTAAAAAGACCGT
1 -AAA-ACCCCT-GTAGGGTAAAATGACCGT
* *
46675839 AAAGCCCCTGTAGGGTAAAGTGACCGT
1 AAAACCCCTGTAGGGTAAAATGACCGT
*
46675866 AAAACCCCTGTATGGTAAAATGAC
1 AAAACCCCTGTAGGGTAAAATGAC
46675890 GAATATGCCC
Statistics
Matches: 64, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
26 2 0.03
27 47 0.73
28 12 0.19
29 3 0.05
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (27 bp):
AAAACCCCTGTAGGGTAAAATGACCGT
Found at i:46676804 original size:24 final size:25
Alignment explanation
Indices: 46676698--46676791 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
46676688 AGGAAGTGCT
*
46676698 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
46676723 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
46676748 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
46676772 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
46676792 ATTAAAAGAG
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
24 20 0.30
25 47 0.70
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:46677045 original size:31 final size:31
Alignment explanation
Indices: 46677010--46677217 Score: 303
Period size: 31 Copynumber: 6.7 Consensus size: 31
46677000 CGTTTACAGT
*
46677010 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
**
46677041 AAAGGCTTCGGCCCAGAAATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* * *
46677072 TAAGGCTTCGGCCTAGTGGTATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* * *
46677103 TAAGGCTTCAGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
46677134 TAAA-GCTTCGGCCTAGTGATATGATTTATGA
1 -AAAGGCTTCGGCCCAGTGATATGATTTATGA
46677165 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
46677196 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
46677218 TCGAGACTGA
Statistics
Matches: 162, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
30 8 0.05
31 152 0.94
32 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:46680386 original size:41 final size:41
Alignment explanation
Indices: 46680341--46680458 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
46680331 TGAAAGATAA
46680341 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
46680382 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
46680412 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
46680453 ATGTAG
1 ATGTAG
46680459 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:46680397 original size:71 final size:71
Alignment explanation
Indices: 46680309--46680472 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
46680299 GAGATGTATC
46680309 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
46680374 AGGACA
66 AGGACA
46680380 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
46680445 AGGACA
66 AGGACA
46680451 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
46680473 AGACAAATCG
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:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:46687964 original size:41 final size:41
Alignment explanation
Indices: 46687919--46688036 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
46687909 TGAAAGATAA
46687919 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
46687960 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
46687990 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
46688031 ATGTAG
1 ATGTAG
46688037 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:46687975 original size:71 final size:71
Alignment explanation
Indices: 46687887--46688050 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
46687877 GAGATGTATC
46687887 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
46687952 AGGACA
66 AGGACA
46687958 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
46688023 AGGACA
66 AGGACA
46688029 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
46688051 AGACAAATCG
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:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:46689812 original size:39 final size:39
Alignment explanation
Indices: 46689749--46689915 Score: 235
Period size: 39 Copynumber: 4.3 Consensus size: 39
46689739 GGGATTTTAC
* * * * *
46689749 CCGGACATATTTCCAGCACGTAGCCTGCAGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
* * *
46689788 CCGGTTATAATTCTAGCACATAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
46689827 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
* *
46689866 CCAGATATAATTCCAGCATATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
46689905 CCGAATATAAT
1 CCGGATATAAT
46689916 CATCACTGAA
Statistics
Matches: 115, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 115 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:46692331 original size:15 final size:15
Alignment explanation
Indices: 46692293--46692368 Score: 55
Period size: 15 Copynumber: 5.0 Consensus size: 15
46692283 TAAAAATGAC
* *
46692293 AAGAAAACCAA-ATA
1 AAGAAATCCAAGACA
*
46692307 AAGAAGTCCAAGACA
1 AAGAAATCCAAGACA
* *
46692322 GAGAAATCCAAGATA
1 AAGAAATCCAAGACA
**
46692337 AAGAAACTCCTAAGATT
1 AAGAAA-TCC-AAGACA
*
46692354 CAGAAATCCAAGACA
1 AAGAAATCCAAGACA
46692369 CAATACCATA
Statistics
Matches: 48, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
14 9 0.19
15 23 0.48
16 6 0.12
17 10 0.21
ACGTcount: A:0.55, C:0.18, G:0.14, T:0.12
Consensus pattern (15 bp):
AAGAAATCCAAGACA
Found at i:46699262 original size:43 final size:43
Alignment explanation
Indices: 46699201--46699373 Score: 301
Period size: 43 Copynumber: 4.0 Consensus size: 43
46699191 CTAGCATTAC
46699201 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
46699244 GCCTGCTAGGCATGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
46699287 GCCTGCTAGGCACGAAGGCCTGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
46699330 GCCTGCTAGGCACGAAGGCTCGAATGCACATCACCGACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
46699373 G
1 G
46699374 GCCCGAATAC
Statistics
Matches: 123, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 123 1.00
ACGTcount: A:0.30, C:0.33, G:0.26, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:46699370 original size:27 final size:27
Alignment explanation
Indices: 46699339--46699400 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
46699329 AGCCTGCTAG
* *
46699339 GCACGAAGGCTCGAATGCACATCACC-
1 GCACGAAGGCCCGAATACACATCACCA
46699365 GACACGAAGGCCCGAATACACATCACCA
1 G-CACGAAGGCCCGAATACACATCACCA
46699393 GCACGAAG
1 GCACGAAG
46699401 CCTGCTAGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 1 0.03
27 30 0.94
28 1 0.03
ACGTcount: A:0.35, C:0.34, G:0.23, T:0.08
Consensus pattern (27 bp):
GCACGAAGGCCCGAATACACATCACCA
Found at i:46699414 original size:43 final size:41
Alignment explanation
Indices: 46699367--46699484 Score: 107
Period size: 38 Copynumber: 2.9 Consensus size: 41
46699357 ACATCACCGA
46699367 CACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTAGG
1 CACGAAGGCCCGAATACA-AT-ACCAGCACGAAGCCTGCTAGG
* * * *
46699410 CACGAAGGCCGGAATATAATACCAGCACTAGGCCTGC-AGG
1 CACGAAGGCCCGAATACAATACCAGCACGAAGCCTGCTAGG
*** * * *
46699450 -ATTTA-TCCCGGATATAATACCAGCACGAAGCCTGC
1 CACGAAGGCCCGAATACAATACCAGCACGAAGCCTGC
46699485 AGGATTTAAC
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
38 25 0.40
39 2 0.03
40 3 0.05
41 15 0.24
42 2 0.03
43 16 0.25
ACGTcount: A:0.32, C:0.31, G:0.23, T:0.14
Consensus pattern (41 bp):
CACGAAGGCCCGAATACAATACCAGCACGAAGCCTGCTAGG
Found at i:46699446 original size:41 final size:43
Alignment explanation
Indices: 46699367--46699446 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
46699357 ACATCACCGA
46699367 CACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTAGG
1 CACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTAGG
* * * *
46699410 CACGAAGGCCGGAATATA-AT-ACCAGCACTAGGCCTGC
1 CACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGC
46699447 AGGATTTATC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 15 0.45
42 2 0.06
43 16 0.48
ACGTcount: A:0.33, C:0.33, G:0.24, T:0.11
Consensus pattern (43 bp):
CACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTAGG
Found at i:46699474 original size:38 final size:38
Alignment explanation
Indices: 46699418--46699525 Score: 144
Period size: 38 Copynumber: 2.8 Consensus size: 38
46699408 GGCACGAAGG
* * *
46699418 CCGGAATATAATACCAGCACTAGGCCTGCAGGATTTATC
1 CCGG-ATATAATACCAGCACGAAGCCTGCAGGATTTAAC
46699457 CCGGATATAATACCAGCACGAAGCCTGCAGGATTTAAC
1 CCGGATATAATACCAGCACGAAGCCTGCAGGATTTAAC
* ** *
46699495 TCGGATATTTTACCAGCAAGAAGCCTGCAGG
1 CCGGATATAATACCAGCACGAAGCCTGCAGG
46699526 TCTTTAAGCC
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
38 58 0.94
39 4 0.06
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.21
Consensus pattern (38 bp):
CCGGATATAATACCAGCACGAAGCCTGCAGGATTTAAC
Found at i:46703975 original size:45 final size:45
Alignment explanation
Indices: 46703908--46704030 Score: 149
Period size: 45 Copynumber: 2.7 Consensus size: 45
46703898 CTAGGAATTT
* * * *
46703908 AGAAATCTGAGCTCGTTGAGTTGGTCCGAGTTCGTGGTATATGTG
1 AGAAATCTGAACTCGTTAAGTTGGTCCAAGTTCGTGATATATGTG
*
46703953 AGAAATCTGAACTTGTTAAGTTGGTCCAAGTTCGTGATATATGTG
1 AGAAATCTGAACTCGTTAAGTTGGTCCAAGTTCGTGATATATGTG
* * * *
46703998 A-AGCATCTGAGCTCGCTGAGTTGGTCCAAGTTC
1 AGA-AATCTGAACTCGTTAAGTTGGTCCAAGTTC
46704031 ATTATGGATG
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
44 1 0.01
45 66 0.99
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (45 bp):
AGAAATCTGAACTCGTTAAGTTGGTCCAAGTTCGTGATATATGTG
Found at i:46704062 original size:44 final size:45
Alignment explanation
Indices: 46703971--46704136 Score: 163
Period size: 44 Copynumber: 3.6 Consensus size: 45
46703961 GAACTTGTTA
* * ** * ** *
46703971 AGTTGGTCCAAGTTCGTGATATATGTGAAGCATCTGAGCTCGCTG
1 AGTTGGTCCAAGTTCATTATGGATGCGAAGCATCCAAGCTCGTTG
46704016 AGTTGGTCCAAGTTCATTATGGATGCG-AGCATCCAAGCTCGTTG
1 AGTTGGTCCAAGTTCATTATGGATGCGAAGCATCCAAGCTCGTTG
* * *
46704060 AGTTGGTTCGAGTTCATTATGGATGCGATGCATGTGACATCCAAGCTCATTG
1 AGTTGGTCCAAGTTCATTATGGATGCGA---A---G-CATCCAAGCTCGTTG
46704112 AGTTGGTCCAAGTTCATTATGGATG
1 AGTTGGTCCAAGTTCATTATGGATG
46704137 TATACATGTT
Statistics
Matches: 100, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
44 39 0.39
45 22 0.22
48 1 0.01
51 1 0.01
52 37 0.37
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (45 bp):
AGTTGGTCCAAGTTCATTATGGATGCGAAGCATCCAAGCTCGTTG
Found at i:46715347 original size:2 final size:2
Alignment explanation
Indices: 46715340--46715369 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
46715330 ACATTCGGCC
46715340 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46715370 GCATGTGTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46715885 original size:29 final size:29
Alignment explanation
Indices: 46715824--46715922 Score: 168
Period size: 28 Copynumber: 3.5 Consensus size: 29
46715814 AATGAGACTG
46715824 GCACTAAGTGTGCGAGTTT-AATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
46715852 GCACTAAGTGTGCGAGTTTGAATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
46715881 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
1 GCACTAAGTGTGCGAGTTTGAAT-TGTATA
46715909 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
46715923 GACTTACTGT
Statistics
Matches: 69, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
28 34 0.49
29 34 0.49
30 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.32
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTGAATTGTATA
Found at i:46718297 original size:40 final size:40
Alignment explanation
Indices: 46718195--46718378 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
46718185 AAATTGAATG
* * * * *
46718195 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
46718235 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
46718275 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
46718315 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
46718355 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
46718379 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:46726459 original size:40 final size:40
Alignment explanation
Indices: 46726351--46726460 Score: 157
Period size: 40 Copynumber: 2.8 Consensus size: 40
46726341 GAAAATTATA
* * * *
46726351 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGCTAAAT
* * *
46726391 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGCTAAAT
46726431 CCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAA
46726461 ATCGTGATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGCTAAAT
Found at i:46726473 original size:40 final size:38
Alignment explanation
Indices: 46726305--46726490 Score: 155
Period size: 40 Copynumber: 4.8 Consensus size: 38
46726295 TGAGAAATTG
* *
46726305 AATG-ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGAA
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
46726344 AAT-TATA-CCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
46726380 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
46726420 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* * *
46726460 AATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 AAT-GT-ATATCCGGGCTAAGACCCGAAGGC
46726491 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 19, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
36 4 0.03
37 2 0.02
38 11 0.09
39 20 0.17
40 81 0.68
41 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:46741170 original size:47 final size:47
Alignment explanation
Indices: 46741094--46741264 Score: 158
Period size: 46 Copynumber: 3.7 Consensus size: 47
46741084 AGGGTAAGGT
** *
46741094 GCCGATGCCATGTCTTAGACACGGTCTTACACTAGCTCAT-ATCTC-AA
1 GCCGAT-CCATGTCCCAGACATGGTCTTACACTAGCT-ATCATCTCGAA
* *
46741141 GTC-ATTTCCATGTCCCAGACATGGTCTTACACT-GACTATCATCTCGTA
1 GCCGA--TCCATGTCCCAGACATGGTCTTACACTAG-CTATCATCTCGAA
* * *
46741189 GCCGATGCATGTCCCAGACAT-GTCTTACACTAGCT-TACGTCTCGAG
1 GCCGATCCATGTCCCAGACATGGTCTTACACTAGCTAT-CATCTCGAA
*
46741235 GCCGATGCATGTCCCAGACAT-GTCTTACAC
1 GCCGATCCATGTCCCAGACATGGTCTTACAC
46741265 CAGCCCTTGT
Statistics
Matches: 106, Mismatches: 10, Indels: 17
0.80 0.08 0.13
Matches are distributed among these distances:
45 1 0.01
46 52 0.49
47 48 0.45
48 4 0.04
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
GCCGATCCATGTCCCAGACATGGTCTTACACTAGCTATCATCTCGAA
Found at i:46741232 original size:46 final size:46
Alignment explanation
Indices: 46741149--46741355 Score: 167
Period size: 46 Copynumber: 4.4 Consensus size: 46
46741139 AAGTCATTTC
46741149 CATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCG-AGGCCGATG
*
46741196 CATGTCCCAGACATGTCTTACACT-AGCT-TACGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGA-CTAT-CATCTCGAGGCCGATG
* * * * *
46741242 CATGTCCCAGACATGTCTTACACCAGCCCT-T-GTCT-GAATGTCGATG
1 CATGTCCCAGACATGTCTTACA-CTG-ACTATCATCTCG-AGGCCGATG
* * * * * *
46741288 ACATGTCCCAGATATGGTCTTGCACTGACTCTCATAAT-GTGGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGACTATCAT-CTCGAGGCCGATG
46741336 CATGTCCCAGACATGTCTTA
1 CATGTCCCAGACATGTCTTA
46741356 AACTAGCTCA
Statistics
Matches: 131, Mismatches: 17, Indels: 25
0.76 0.10 0.14
Matches are distributed among these distances:
45 4 0.03
46 65 0.50
47 44 0.34
48 16 0.12
49 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTATCATCTCGAGGCCGATG
Found at i:46745206 original size:93 final size:93
Alignment explanation
Indices: 46745094--46745265 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
46745084 GCCCATAAGT
* * *
46745094 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGAACTCAACTCAA
46745159 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
46745187 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGAACTCAACTCAA
46745252 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
46745266 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:46745261 original size:46 final size:46
Alignment explanation
Indices: 46745086--46745261 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
46745076 TGTAACCCGC
* * *
46745086 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
46745132 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
46745182 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
46745225 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
46745262 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 67 0.60
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:46749400 original size:39 final size:40
Alignment explanation
Indices: 46749299--46749483 Score: 173
Period size: 40 Copynumber: 4.7 Consensus size: 40
46749289 TCGAATGATG
* * *
46749299 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
46749338 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * * * * *
46749379 TCCGGGCTACG-CCCAAAGGCATTGGTGTGAGATACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
46749418 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
46749457 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
46749484 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
39 31 0.26
40 77 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:46749505 original size:79 final size:79
Alignment explanation
Indices: 46749352--46749506 Score: 181
Period size: 79 Copynumber: 2.0 Consensus size: 79
46749342 GGACTAAGAT
* ***
46749352 CCGAAGGCATTTGTGCAAGTTACTAATTCCGGGCTACGCCCAAAGGCATTGGTGTGAGATACTAA
1 CCGAAGGCATTTGTGCAAGTTACTAATACCGGGCTACGCCCAAAGGCATTGGAACGAGATACTAA
46749417 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * * *
46749431 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCAAGTTACTAAT-ACCGGGCTACG-CCCAAAGGCATTGGAACGAGATA-C
*
46749494 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
46749507 ACTCCGAAGG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.62
80 22 0.34
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCAAGTTACTAATACCGGGCTACGCCCAAAGGCATTGGAACGAGATACTAA
ATCCGGGTTAAGTC
Found at i:46757376 original size:40 final size:40
Alignment explanation
Indices: 46757292--46757475 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
46757282 TCGAATGATG
* *
46757292 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
46757331 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
46757372 TCCGGGCTAAG--CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
46757410 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
46757449 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
46757476 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
38 35 0.28
39 1 0.01
40 80 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:46757427 original size:78 final size:80
Alignment explanation
Indices: 46757292--46757473 Score: 221
Period size: 78 Copynumber: 2.3 Consensus size: 80
46757282 TCGAATGATG
* *
46757292 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
46757356 TGTGCGAGTTACTA-A
65 TGTGCGAGTTACTATA
* * **
46757371 TTCCGGGCTAAG-CCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
46757433 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* *
46757450 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATT
46757474 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
77 1 0.01
78 59 0.66
79 7 0.08
80 22 0.25
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:46764462 original size:68 final size:65
Alignment explanation
Indices: 46764247--46764500 Score: 205
Period size: 68 Copynumber: 3.9 Consensus size: 65
46764237 CATATAGTTC
* * * * *
46764247 AGCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCA-ATTTA-TCTCG
1 AGCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATTCTCG
46764309 T
65 T
* * * * * * *
46764310 AGCTCTCTTATCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACATATA-TCC
1 AGCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACATATATTCT
46764374 CGT
63 CGT
*
46764377 AGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCT
1 AGCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT-AT-AT-TCT
*
46764442 TGT
63 CGT
* * * ** *
46764445 AGCTCTCTTGTAC-ACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACATA
1 AGCTCTCTTGT-CTACATGGTGTACACAT-AGTACCACCCATGCGACCTAGCTACATA
46764501 CTATCTCTAT
Statistics
Matches: 153, Mismatches: 27, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.12
64 28 0.18
65 2 0.01
66 24 0.16
67 31 0.20
68 48 0.31
69 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (65 bp):
AGCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATTCTCGT
Found at i:46765198 original size:30 final size:30
Alignment explanation
Indices: 46765164--46765224 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
46765154 TCCTTAACTC
46765164 AAACTTTAGAAAAATTACAATTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
* * * * *
46765194 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
46765224 A
1 A
46765225 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTAGAAAAATTACAATTTTGCCCCT
Found at i:46765405 original size:18 final size:18
Alignment explanation
Indices: 46765382--46765416 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
46765372 ACTCAAAATC
46765382 GAGTAGCACAAGTTGTCT
1 GAGTAGCACAAGTTGTCT
46765400 GAGTAGCACAAGTTGTC
1 GAGTAGCACAAGTTGTC
46765417 AAACATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.26
Consensus pattern (18 bp):
GAGTAGCACAAGTTGTCT
Found at i:46766399 original size:18 final size:19
Alignment explanation
Indices: 46766364--46766400 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
46766354 TGAGTTGGCC
46766364 AAATGGGCCAGAATGGGCT
1 AAATGGGCCAGAATGGGCT
*
46766383 AAATGGGCCCG-ATGGGCT
1 AAATGGGCCAGAATGGGCT
46766401 GTTGGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.27, C:0.19, G:0.38, T:0.16
Consensus pattern (19 bp):
AAATGGGCCAGAATGGGCT
Found at i:46768757 original size:27 final size:27
Alignment explanation
Indices: 46768741--46769016 Score: 417
Period size: 27 Copynumber: 10.2 Consensus size: 27
46768731 CAATTTGTAA
* *
46768741 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
*
46768768 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
*
46768795 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
* *
46768822 AATTACCATTTTACCCTCAATTTACAA
1 AATTACCATTTTACCCTCGATTTACAG
46768849 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
* *
46768876 AATTATCGTTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
* *
46768903 AATTACCATTTTACCCTCAATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
*
46768930 AATTACCATTTTATCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
* *
46768957 AATTACCATTTTACCTTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
* *
46768984 AATTACCGTTTTACCCTCGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAG
46769011 AATTAC
1 AATTAC
46769017 TAAAATACCC
Statistics
Matches: 225, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 225 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAG
Found at i:46769025 original size:27 final size:27
Alignment explanation
Indices: 46768752--46769194 Score: 169
Period size: 27 Copynumber: 16.4 Consensus size: 27
46768742 ATTACCGTTT
* * ***
46768752 TACCCTCAATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * ***
46768779 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * ***
46768806 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* ***
46768833 TACCCTCAATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * ****
46768860 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCAAAA
* ***
46768887 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * * ***
46768914 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * ***
46768941 TATCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * * ****
46768968 TACCTTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCAAAA
*
46768995 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
46769022 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* * **
46769049 TACCCTC-AATAAGTAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* ** *
46769075 TACCC-CTAGTTTGTAAAATTACTAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* ** *
46769102 TACCCGT-GGTTTGTAAAATTAGCAAAA
1 TACCC-TCGATTTACAAAATTACCAAAA
* *
46769129 TACCCCTAGCTTGT--AAAATTACCAAAA
1 TA-CCCTCGATT-TACAAAATTACCAAAA
*** * *
46769156 TACCACT-GATTTGTGAAATTATCGAAA
1 TACC-CTCGATTTACAAAATTACCAAAA
*
46769183 TACTCTCGATTT
1 TACCCTCGATTT
46769195 GTAAAATATC
Statistics
Matches: 351, Mismatches: 54, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
25 2 0.01
26 27 0.08
27 315 0.90
28 6 0.02
29 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.36
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Done.