Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 207 of 226
Found at i:61896841 original size:60 final size:60
Alignment explanation
Indices: 61896763--61896905 Score: 180
Period size: 60 Copynumber: 2.4 Consensus size: 60
61896753 AGTTTTTAAG
* * * * *
61896763 GCGGCACACGACCATGTGGATCGCTCATGCG-AGACACATGGCCGTGTGGACCGCCCGTGC
1 GCGGCACACGCCCGTGTGGACCGCCCATGCGTAGA-ACATGCCCGTGTGGACCGCCCGTGC
* *
61896823 GCGGCACACGCCCGTGTGGACCGCCCTTGCGTGGAACATGCCCGTGTGGACCGCCCGTGC
1 GCGGCACACGCCCGTGTGGACCGCCCATGCGTAGAACATGCCCGTGTGGACCGCCCGTGC
* * *
61896883 ACGGCACACACCCGTATGGACCG
1 GCGGCACACGCCCGTGTGGACCG
61896906 TCCGTGCCCG
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
60 70 0.97
61 2 0.03
ACGTcount: A:0.17, C:0.36, G:0.33, T:0.14
Consensus pattern (60 bp):
GCGGCACACGCCCGTGTGGACCGCCCATGCGTAGAACATGCCCGTGTGGACCGCCCGTGC
Found at i:61896878 original size:13 final size:13
Alignment explanation
Indices: 61896804--61896881 Score: 57
Period size: 13 Copynumber: 5.4 Consensus size: 13
61896794 AGACACATGG
61896804 CCGTGTGGACCGC
1 CCGTGTGGACCGC
*
61896817 CCGTGCGCGGCACACGC
1 CCGT--GTGG-AC-CGC
61896834 CCGTGTGGACCGC
1 CCGTGTGGACCGC
* *
61896847 CCTTGCGTGGAACATGC
1 CC--GTGTGG-AC-CGC
61896864 CCGTGTGGACCGC
1 CCGTGTGGACCGC
61896877 CCGTG
1 CCGTG
61896882 CACGGCACAC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
13 16 0.31
14 4 0.08
15 16 0.31
16 4 0.08
17 11 0.22
ACGTcount: A:0.10, C:0.38, G:0.36, T:0.15
Consensus pattern (13 bp):
CCGTGTGGACCGC
Found at i:61896919 original size:60 final size:60
Alignment explanation
Indices: 61896798--61896919 Score: 172
Period size: 60 Copynumber: 2.0 Consensus size: 60
61896788 CATGCGAGAC
* * * * * **
61896798 ACATGGCCGTGTGGACCGCCCGTGCGCGGCACACGCCCGTGTGGACCGCCCTTGCGTGGA
1 ACATGCCCGTGTGGACCGCCCGTGCACGGCACACACCCGTATGGACCGCCCGTGCCCGGA
*
61896858 ACATGCCCGTGTGGACCGCCCGTGCACGGCACACACCCGTATGGACCGTCCGTGCCCGGA
1 ACATGCCCGTGTGGACCGCCCGTGCACGGCACACACCCGTATGGACCGCCCGTGCCCGGA
61896918 AC
1 AC
61896920 GCTCCCAAGT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.15, C:0.39, G:0.33, T:0.14
Consensus pattern (60 bp):
ACATGCCCGTGTGGACCGCCCGTGCACGGCACACACCCGTATGGACCGCCCGTGCCCGGA
Found at i:61902547 original size:21 final size:21
Alignment explanation
Indices: 61902514--61902561 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
61902504 TTGATTTTTT
* * * *
61902514 TTCGAATCGAGTCGAGTGAAA
1 TTCGAGTCAAGTCAAGTCAAA
61902535 TTCGAGTCAAGTCAAGTCAAA
1 TTCGAGTCAAGTCAAGTCAAA
61902556 TT-GAGT
1 TTCGAGT
61902562 GAAATTGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (21 bp):
TTCGAGTCAAGTCAAGTCAAA
Found at i:61902789 original size:10 final size:10
Alignment explanation
Indices: 61902774--61902809 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
61902764 AAATTTGAAC
61902774 TTTTTATATT
1 TTTTTATATT
* *
61902784 TTTTTAGAAT
1 TTTTTATATT
61902794 TTTTTATATT
1 TTTTTATATT
61902804 TTTTTA
1 TTTTTA
61902810 AATATAAACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (10 bp):
TTTTTATATT
Found at i:61902836 original size:19 final size:19
Alignment explanation
Indices: 61902819--61902866 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
61902809 AAATATAAAC
61902819 TTTTGAAATTTTTATAAATA
1 TTTTG-AATTTTTATAAATA
*
61902839 TTTTGAA-TTTTAAAAATTA
1 TTTTGAATTTTTATAAA-TA
61902858 TTTTGAATT
1 TTTTGAATT
61902867 ATTTTATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 8 0.32
19 11 0.44
20 6 0.24
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (19 bp):
TTTTGAATTTTTATAAATA
Found at i:61908771 original size:63 final size:62
Alignment explanation
Indices: 61908652--61908771 Score: 136
Period size: 63 Copynumber: 1.9 Consensus size: 62
61908642 GGACAAAAAA
* * * * **
61908652 ATCAAATATAAATTTGAAAAAAAACTCAGATACCAAAATGAATATTGAAGCCAAACTTATGT
1 ATCAAATATAAATTTAAAAAAAAACTCAAACACCAAAATGAACATTGAAGAAAAACTTATGT
*
61908714 ATCAAAT-TAAAATTTAAAAAAAAAACTCAAACACCAAATTGAACATTGCAA-AAAAACT
1 ATCAAATAT-AAATTT-AAAAAAAAACTCAAACACCAAAATGAACATTG-AAGAAAAACT
61908772 AGTACCTAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
61 1 0.02
62 13 0.27
63 32 0.67
64 2 0.04
ACGTcount: A:0.56, C:0.14, G:0.07, T:0.23
Consensus pattern (62 bp):
ATCAAATATAAATTTAAAAAAAAACTCAAACACCAAAATGAACATTGAAGAAAAACTTATGT
Found at i:61909278 original size:5 final size:5
Alignment explanation
Indices: 61909270--61909317 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
61909260 TTATAAGAGA
* * *
61909270 GAAAG GAAAG GAAAG GAAAG GAAAATG GAGAG AAAAG GAAGG GAAAG G
1 GAAAG GAAAG GAAAG GAAAG G-AAA-G GAAAG GAAAG GAAAG GAAAG G
61909318 GGGAGAGATT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
5 28 0.80
6 5 0.14
7 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.42, T:0.02
Consensus pattern (5 bp):
GAAAG
Found at i:61909323 original size:21 final size:22
Alignment explanation
Indices: 61909281--61909325 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
61909271 AAAGGAAAGG
*
61909281 AAAGGAAAGGAAAATGGAGAGA
1 AAAGGAAAGGAAAAGGGAGAGA
* *
61909303 AAAGGAAGGGAAAGGGGGAGAGA
1 AAAGGAAAGGAAA-AGGGAGAGA
61909326 TTTTCCACCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.53, C:0.00, G:0.44, T:0.02
Consensus pattern (22 bp):
AAAGGAAAGGAAAAGGGAGAGA
Found at i:61910385 original size:3 final size:3
Alignment explanation
Indices: 61910370--61910404 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
61910360 AAACTATCTC
*
61910370 TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
61910405 CTCGCTAGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:61910639 original size:26 final size:28
Alignment explanation
Indices: 61910610--61910675 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
61910600 GATTTTTAAA
61910610 AAAAAATTATAT-AATTTT-TTTTG-TAC
1 AAAAAATTATATAAATTTTATTTTGCT-C
*
61910636 AAAATATTATATAAATTTTATTTTGCTC
1 AAAAAATTATATAAATTTTATTTTGCTC
61910664 AAAAAATTATAT
1 AAAAAATTATAT
61910676 TGTTGAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 11 0.31
27 6 0.17
28 17 0.49
29 1 0.03
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (28 bp):
AAAAAATTATATAAATTTTATTTTGCTC
Found at i:61912008 original size:19 final size:18
Alignment explanation
Indices: 61911972--61912010 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
61911962 AATTTTAAAA
**
61911972 TATTTTTAAAATTTTTTT
1 TATTTTTAAAATAATTTT
61911990 TATTTTTAAAATAAATTTT
1 TATTTTTAAAAT-AATTTT
61912009 TA
1 TA
61912011 GTGTTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TATTTTTAAAATAATTTT
Found at i:61912765 original size:18 final size:17
Alignment explanation
Indices: 61912737--61912770 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
61912727 ATTCTTTGAA
61912737 TTTTTTAAATTTTAATT
1 TTTTTTAAATTTTAATT
61912754 TTTTTTATAATTTTAAT
1 TTTTTTA-AATTTTAAT
61912771 AATTTAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAAATTTTAATT
Found at i:61920336 original size:6 final size:6
Alignment explanation
Indices: 61920325--61920357 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
61920315 GATTTTCTCA
61920325 AAATGG AAATGG AAATGG AAATGG AAATGG AAA
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAA
61920358 CGATAAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.30, T:0.15
Consensus pattern (6 bp):
AAATGG
Found at i:61937832 original size:45 final size:45
Alignment explanation
Indices: 61937783--61937943 Score: 277
Period size: 45 Copynumber: 3.6 Consensus size: 45
61937773 TCGGCCATGG
* * * * *
61937783 TGCTTCCTCAATTTGTTCCATAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
61937828 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
61937873 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
61937918 TGCTTCCTTAAATTCTTCCATGAATT
1 TGCTTCCTTAAATTCTTCCATGAATT
61937944 CAATGCACAA
Statistics
Matches: 111, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 111 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (45 bp):
TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:61943392 original size:15 final size:15
Alignment explanation
Indices: 61943374--61943412 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
61943364 TTAATTTCGA
61943374 TTTTTTTTTAAACTC
1 TTTTTTTTTAAACTC
**
61943389 TTTTTTTAGAAACTC
1 TTTTTTTTTAAACTC
61943404 TTTTTTTTT
1 TTTTTTTTT
61943413 CAATACCGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.18, C:0.10, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTTTTTTTAAACTC
Found at i:61944202 original size:45 final size:45
Alignment explanation
Indices: 61944145--61944260 Score: 223
Period size: 45 Copynumber: 2.6 Consensus size: 45
61944135 TCGGCCATGG
61944145 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
*
61944190 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
61944235 TGCTTCCTTAAATTCTTCCATGAATT
1 TGCTTCCTTAAATTCTTCCATGAATT
61944261 CAAGGCACAA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.41
Consensus pattern (45 bp):
TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
Found at i:61951982 original size:9 final size:9
Alignment explanation
Indices: 61951968--61951998 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
61951958 GTTAAACGAA
61951968 TCGAGTTAT
1 TCGAGTTAT
*
61951977 TCGAGTTAA
1 TCGAGTTAT
61951986 TCGAGTTAT
1 TCGAGTTAT
61951995 TCGA
1 TCGA
61951999 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:61952336 original size:30 final size:31
Alignment explanation
Indices: 61952302--61952361 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
61952292 AAACCTTTTA
*
61952302 TTTTCTCCC-AAAATTTTTACTCCC-TCCCAC
1 TTTTC-CCCTAAAACTTTTACTCCCTTCCCAC
*
61952332 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
61952362 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 18 0.69
31 5 0.19
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:61952633 original size:9 final size:9
Alignment explanation
Indices: 61952619--61952647 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
61952609 AATTTCACAT
61952619 TTTATATTA
1 TTTATATTA
61952628 TTTATATTA
1 TTTATATTA
61952637 TTTATATTA
1 TTTATATTA
61952646 TT
1 TT
61952648 GAATTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTATATTA
Found at i:61953138 original size:5 final size:5
Alignment explanation
Indices: 61953128--61953153 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
61953118 CTCGAAAATT
61953128 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
61953154 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:61956742 original size:22 final size:24
Alignment explanation
Indices: 61956698--61956743 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
61956688 GCAACTTATC
*
61956698 TCAAACAGTATCATAGATAACATA
1 TCAAACAGTATCAGAGATAACATA
61956722 TCAAACAGT-TCAGA-ATAACATA
1 TCAAACAGTATCAGAGATAACATA
61956744 GAGAATTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.38
23 4 0.19
24 9 0.43
ACGTcount: A:0.50, C:0.17, G:0.09, T:0.24
Consensus pattern (24 bp):
TCAAACAGTATCAGAGATAACATA
Found at i:61960957 original size:16 final size:19
Alignment explanation
Indices: 61960936--61960972 Score: 53
Period size: 16 Copynumber: 2.1 Consensus size: 19
61960926 TTGTTTTAAG
61960936 AACAAGA-AG-AAAAA-AA
1 AACAAGACAGTAAAAAGAA
61960952 AACAAGACAGTAAAAAGAA
1 AACAAGACAGTAAAAAGAA
61960971 AA
1 AA
61960973 ACGGAACCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 5 0.28
19 4 0.22
ACGTcount: A:0.76, C:0.08, G:0.14, T:0.03
Consensus pattern (19 bp):
AACAAGACAGTAAAAAGAA
Found at i:61961963 original size:45 final size:45
Alignment explanation
Indices: 61961899--61962387 Score: 391
Period size: 45 Copynumber: 11.0 Consensus size: 45
61961889 AGACTTATAA
* *
61961899 CTTCAATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTTT
1 CTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTTT
* * * * *
61961944 CTTCAATCTACTCCACCACCAGTATGGGGAGGCAATATCTG-TTGT
1 CTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTT-T
* * * * *** * *
61961989 ATTTGATCTACTTCA-C-GCTGATACATGAAGACAAGATTTGTTTT
1 CTTCGATCTACTTCACCACCAG-TATGGGAAGACAAGATCTGCTTT
* * * * *
61962033 CTTCGATCTGCTTCGCCACCAATATGGGAAGACAAGATCTGGTAT
1 CTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTTT
* * ***
61962078 CTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGCTTT
1 CTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTTT
* * * * *
61962122 CTTCGATCTGCTTCGCCGCCAGTATGGGAAGGCAAGATCTGCTAT
1 CTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTTT
* * *** **
61962167 CTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTATTTT
1 CTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTTT
* * * *
61962211 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAAATCTTCTAT
1 CTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTTT
* * ***
61962256 CTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTG-TTT
1 CTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTTT
* * * *
61962299 TTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTAT
1 CTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTTT
* * * ***
61962344 CTTTGATCTACTTTA-CGCCAGTACATGAAGACAAGATCTGCTTT
1 CTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTTT
61962388 TCTTTTCAGC
Statistics
Matches: 339, Mismatches: 96, Indels: 19
0.75 0.21 0.04
Matches are distributed among these distances:
43 16 0.05
44 159 0.47
45 163 0.48
46 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (45 bp):
CTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTTT
Found at i:61962019 original size:89 final size:89
Alignment explanation
Indices: 61961926--61962387 Score: 676
Period size: 89 Copynumber: 5.2 Consensus size: 89
61961916 ACCAGTATGG
* * * * * * * * *
61961926 GAAGACAAGATCTGCTTTCTTCAATCTACTCCACCACCAGTATGGGGAGGCAATATCTGTTGTAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCT
*
61961991 TTGATCTACTTCACG-CTGATACAT
66 TTGATCTACTTCACGCCAG-TACAT
* * * *
61962015 GAAGACAAGATTTGTTTTCTTCGATCTGCTTCGCCACCAATATGGGAAGACAAGATCTGGTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCT
61962080 TTGATCTACTTCACGCCAGTACAT
66 TTGATCTACTTCACGCCAGTACAT
* * * *
61962104 GAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCGCCAGTATGGGAAGGCAAGATCTGCTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCT
61962169 TTGATCTACTTCACGCCAGTACAT
66 TTGATCTACTTCACGCCAGTACAT
** * **
61962193 GAAGACAAGATCTATTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAAATCTTCTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCT
61962258 TTGATCTACTTCACGCCAGTACAT
66 TTGATCTACTTCACGCCAGTACAT
*
61962282 GAAGACAAGATCTG-TTTTTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCT
*
61962346 TTGATCTACTTTACGCCAGTACAT
66 TTGATCTACTTCACGCCAGTACAT
61962370 GAAGACAAGATCTGCTTT
1 GAAGACAAGATCTGCTTT
61962388 TCTTTTCAGC
Statistics
Matches: 338, Mismatches: 33, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
88 83 0.25
89 253 0.75
90 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (89 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCT
TTGATCTACTTCACGCCAGTACAT
Found at i:61962115 original size:44 final size:44
Alignment explanation
Indices: 61961990--61962385 Score: 357
Period size: 44 Copynumber: 8.9 Consensus size: 44
61961980 ATCTGTTGTA
* * * *
61961990 TTTGATCTACTTCACG-CTGATACATGAAGACAAGATTTGTTTTC
1 TTTGATCTACTTCACGCCAG-TACATGAAGACAAGATCTGCTATC
* * * * * *** *
61962034 TTCGATCTGCTTCGCCACCAATATGGGAAGACAAGATCTGGTATC
1 TTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTATC
*
61962079 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTC
1 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTATC
* * * *** *
61962123 TTCGATCTGCTTCGCCGCCAGTATGGGAAGGCAAGATCTGCTATC
1 TTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTATC
** *
61962168 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTC
1 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTATC
* * * *** * *
61962212 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAAATCTTCTATC
1 TTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTATC
*
61962257 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG-T-TT
1 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTATC
* * *** *
61962299 TTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATC
1 TTT-GATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTATC
*
61962345 TTTGATCTACTTTACGCCAGTACATGAAGACAAGATCTGCT
1 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCT
61962386 TTTCTTTTCA
Statistics
Matches: 272, Mismatches: 72, Indels: 16
0.76 0.20 0.04
Matches are distributed among these distances:
42 4 0.01
43 11 0.04
44 142 0.52
45 110 0.40
46 5 0.02
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (44 bp):
TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTATC
Found at i:61963734 original size:46 final size:47
Alignment explanation
Indices: 61963660--61963754 Score: 138
Period size: 46 Copynumber: 2.0 Consensus size: 47
61963650 CACTTTAGCC
* * * *
61963660 TCTCTTTTTTTTTACCTCAAGGCTCCCTTTGTAGGGTTTCACCCTGG
1 TCTCTTTTTTTTGACCTCAAAGCGCCCTTTGTAGGCTTTCACCCTGG
*
61963707 TCTCTTTTTTTTGA-CTCAAAGCGCCCTTTGTAGGCTTTCACCTTGG
1 TCTCTTTTTTTTGACCTCAAAGCGCCCTTTGTAGGCTTTCACCCTGG
61963753 TC
1 TC
61963755 CCACATTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
46 30 0.70
47 13 0.30
ACGTcount: A:0.12, C:0.27, G:0.17, T:0.44
Consensus pattern (47 bp):
TCTCTTTTTTTTGACCTCAAAGCGCCCTTTGTAGGCTTTCACCCTGG
Found at i:61963764 original size:47 final size:47
Alignment explanation
Indices: 61963666--61963765 Score: 112
Period size: 46 Copynumber: 2.1 Consensus size: 47
61963656 AGCCTCTCTT
* * * * * **
61963666 TTTTTTTACCTCAAGGCTCCCTTTGTAGGGTTTCACCCTGGTCTCTT
1 TTTTTTGACCTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCCA
*
61963713 TTTTTTGA-CTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTCCCACA
1 TTTTTTGACCTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCC-CA
61963760 TTTTTT
1 TTTTTT
61963766 AAGCAGAGTA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
46 31 0.70
47 13 0.30
ACGTcount: A:0.13, C:0.27, G:0.16, T:0.44
Consensus pattern (47 bp):
TTTTTTGACCTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCCA
Found at i:61969229 original size:16 final size:19
Alignment explanation
Indices: 61969208--61969244 Score: 53
Period size: 16 Copynumber: 2.1 Consensus size: 19
61969198 TTGTTTTAAG
61969208 AACAAGA-AG-AAAAA-AA
1 AACAAGACAGTAAAAAGAA
61969224 AACAAGACAGTAAAAAGAA
1 AACAAGACAGTAAAAAGAA
61969243 AA
1 AA
61969245 ACGAAACCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 5 0.28
19 4 0.22
ACGTcount: A:0.76, C:0.08, G:0.14, T:0.03
Consensus pattern (19 bp):
AACAAGACAGTAAAAAGAA
Found at i:61970051 original size:26 final size:26
Alignment explanation
Indices: 61970015--61970070 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
61970005 TAAACATTTT
61970015 AACTCTCATTCTTTCAATTTTGGTCA
1 AACTCTCATTCTTTCAATTTTGGTCA
61970041 AACTCTCATTCTTTCAATTTTGGTCA
1 AACTCTCATTCTTTCAATTTTGGTCA
61970067 AACT
1 AACT
61970071 GATAATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.07, T:0.45
Consensus pattern (26 bp):
AACTCTCATTCTTTCAATTTTGGTCA
Found at i:61970304 original size:8 final size:8
Alignment explanation
Indices: 61970291--61970318 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
61970281 CATACCTGGA
61970291 AAAAAAAT
1 AAAAAAAT
61970299 AAAAAAAT
1 AAAAAAAT
61970307 AAAAAAAT
1 AAAAAAAT
61970315 AAAA
1 AAAA
61970319 TTAAAAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:61975405 original size:14 final size:13
Alignment explanation
Indices: 61975378--61975425 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
61975368 TAGCTACGAT
*
61975378 AAAAAAAAA-GAA
1 AAAAAAAAACTAA
61975390 AATAAAAGAAAC-AA
1 AA-AAAA-AAACTAA
61975404 AAAAAAAAACTAA
1 AAAAAAAAACTAA
61975417 AAAAAAAAA
1 AAAAAAAAA
61975426 ACTCAACCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
12 6 0.19
13 19 0.59
14 7 0.22
ACGTcount: A:0.88, C:0.04, G:0.04, T:0.04
Consensus pattern (13 bp):
AAAAAAAAACTAA
Found at i:61975408 original size:22 final size:20
Alignment explanation
Indices: 61975378--61975426 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
61975368 TAGCTACGAT
*
61975378 AAAAAAAAAGAAAA-TAAAA
1 AAAAAAAAAAAAAACTAAAA
61975397 GAAACAAAAAAAAAAACTAAAA
1 -AAA-AAAAAAAAAAACTAAAA
61975419 AAAAAAAA
1 AAAAAAAA
61975427 CTCAACCAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 8 0.31
21 13 0.50
22 5 0.19
ACGTcount: A:0.88, C:0.04, G:0.04, T:0.04
Consensus pattern (20 bp):
AAAAAAAAAAAAAACTAAAA
Found at i:61975422 original size:26 final size:26
Alignment explanation
Indices: 61975378--61975427 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
61975368 TAGCTACGAT
*
61975378 AAAAAAAAAGAAAATAAAAGAAACAA
1 AAAAAAAAAGAAAATAAAAAAAACAA
*
61975404 AAAAAAAAACTAAAA-AAAAAAAAC
1 AAAAAAAAA-GAAAATAAAAAAAAC
61975428 TCAACCAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.86, C:0.06, G:0.04, T:0.04
Consensus pattern (26 bp):
AAAAAAAAAGAAAATAAAAAAAACAA
Found at i:61975426 original size:14 final size:14
Alignment explanation
Indices: 61975402--61975428 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
61975392 TAAAAGAAAC
61975402 AAAAAAAAAAACTA
1 AAAAAAAAAAACTA
61975416 AAAAAAAAAAACT
1 AAAAAAAAAAACT
61975429 CAACCAAGTG
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:0.85, C:0.07, G:0.00, T:0.07
Consensus pattern (14 bp):
AAAAAAAAAAACTA
Found at i:61976061 original size:30 final size:30
Alignment explanation
Indices: 61976027--61976084 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
61976017 GTAATTTTTT
61976027 CGTAAATATAATAATCTTATTTCAAATTCA
1 CGTAAATATAATAATCTTATTTCAAATTCA
61976057 CGTAAATATAATAATCTTATTTCAAATT
1 CGTAAATATAATAATCTTATTTCAAATT
61976085 AGTTAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.43, C:0.12, G:0.03, T:0.41
Consensus pattern (30 bp):
CGTAAATATAATAATCTTATTTCAAATTCA
Found at i:61977695 original size:30 final size:30
Alignment explanation
Indices: 61977650--61977707 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
61977640 AAATTGATAG
* *
61977650 AATATAGATTATTAGTTACTGAATTCGTAT
1 AATACAGATGATTAGTTACTGAATTCGTAT
*
61977680 AATACAGATGATTAGTTACTGAGTTCGT
1 AATACAGATGATTAGTTACTGAATTCGT
61977708 TTCAATGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (30 bp):
AATACAGATGATTAGTTACTGAATTCGTAT
Found at i:61987509 original size:20 final size:20
Alignment explanation
Indices: 61987486--61987539 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
61987476 AAGCCATTTT
61987486 AAAATTTAAAAATTATTAAA-
1 AAAATTTAAAAATTA-TAAAC
*
61987506 AAAATCATAAAAATTATAAAC
1 AAAAT-TTAAAAATTATAAAC
*
61987527 AAAATTTATAAAT
1 AAAATTTAAAAAT
61987540 AAAAGGTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATTTAAAAATTATAAAC
Found at i:61987518 original size:21 final size:21
Alignment explanation
Indices: 61987492--61987531 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
61987482 TTTTAAAATT
61987492 TAAAAATTATTAAA-AAAATCA
1 TAAAAATTA-TAAACAAAATCA
61987513 TAAAAATTATAAACAAAAT
1 TAAAAATTATAAACAAAAT
61987532 TTATAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAAAATTATAAACAAAATCA
Found at i:61987728 original size:20 final size:20
Alignment explanation
Indices: 61987685--61987728 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
61987675 AATAAAAAAT
**
61987685 ATAAATTTATAATTTTTCTT
1 ATAAATTTATAATTTTTCAA
61987705 ATAAATTTATAATTATTT-AA
1 ATAAATTTATAATT-TTTCAA
61987725 ATAA
1 ATAA
61987729 TTTTTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
ATAAATTTATAATTTTTCAA
Found at i:61988324 original size:11 final size:12
Alignment explanation
Indices: 61988261--61988325 Score: 68
Period size: 11 Copynumber: 5.8 Consensus size: 12
61988251 AACTAATCCT
61988261 CTCTCAAATTTC
1 CTCTCAAATTTC
61988273 CTCTC-AATTTC
1 CTCTCAAATTTC
*
61988284 CTCTC-AATTTG
1 CTCTCAAATTTC
*
61988295 CTTTCAAA-TTC
1 CTCTCAAATTTC
61988306 CT-TCCAAATTT-
1 CTCT-CAAATTTC
61988317 CTCTCAAAT
1 CTCTCAAAT
61988326 CCATATTTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
10 1 0.02
11 35 0.76
12 10 0.22
ACGTcount: A:0.25, C:0.31, G:0.02, T:0.43
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:61989530 original size:7 final size:7
Alignment explanation
Indices: 61989518--61989543 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
61989508 TAGTCAATTG
61989518 GTATTTA
1 GTATTTA
61989525 GTATTTA
1 GTATTTA
61989532 GTATTTA
1 GTATTTA
61989539 GTATT
1 GTATT
61989544 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:61991022 original size:125 final size:125
Alignment explanation
Indices: 61990796--61991170 Score: 597
Period size: 125 Copynumber: 3.0 Consensus size: 125
61990786 TCCAAACATG
* * * * *
61990796 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGCTTTCACAAATTCTTCTCAAATAGCATACTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTATCAAACAGCATTCTGC
* * * *
61990861 TAGAAGCAATTTTATACTATTTGCTCAGAAATGTCAACTCAAAATTATTTCTTCTAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
*
61990921 CTACTGTAGCAAAAGCGCGTCCATGAGGGCGCGATTTCACAAATTCTTATCAAACAGCATTCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTATCAAACAGCATTCTGC
*
61990986 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * * * *
61991046 CTACTGTAGTAAAAGCGCGTCCACGGGGGTGCGATTTCACAAATTATTATCAAACAACATTCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTATCAAACAGCATTCTGC
*
61991111 TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
61991171 TTAAAACCCT
Statistics
Matches: 231, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
125 231 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTATCAAACAGCATTCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
Found at i:61993209 original size:42 final size:42
Alignment explanation
Indices: 61993108--61993413 Score: 409
Period size: 42 Copynumber: 7.2 Consensus size: 42
61993098 CTAACTTTTT
** * *
61993108 GCGGCGCTTACAGAAAAAAGTGCCGCTAAAGGTCATGATT-TTTG
1 GCGGCGCTT--AGAAAAAAACGCCGCTAAAGATCATG-TTCTTTA
*
61993152 GCGGCGCTTAG-AAAAAACGCCACTAAAGATCATGTTCTTTA
1 GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
*
61993193 GCGGCGCTTAGAAAAAAACGCCGCTAAATATCATGTTCTTTA
1 GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
* *
61993235 GCGGCGCTTGTGCAAAAAACGCCGCTAAAGATCATGTTCTTTA
1 GCGGCGCTT-AGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
* *
61993278 GCGGCGCTAAGAAAAAAACGCCACTAAAGATCATGTTCTTTA
1 GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
* * * * *
61993320 GCGGCGGTAAGAAAAAAACGCCACCAAAGATCGTGTTCTTTA
1 GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
*
61993362 GCGGCGCTTGGGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
1 GCGGCGCTT-AGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
61993405 GCGGCGCTT
1 GCGGCGCTT
61993414 TATCTACAAA
Statistics
Matches: 235, Mismatches: 23, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
40 2 0.01
41 33 0.14
42 115 0.49
43 76 0.32
44 9 0.04
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (42 bp):
GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
Found at i:61993264 original size:85 final size:84
Alignment explanation
Indices: 61993108--61993413 Score: 420
Period size: 85 Copynumber: 3.6 Consensus size: 84
61993098 CTAACTTTTT
** * *
61993108 GCGGCGCTTACAGAAAAAAGTGCCGCTAAAGGTCATGATT-TTTGGCGGCGCTTAGAAAAAACGC
1 GCGGCGCTTA-AGAAAAAAACGCCGCTAAAGATCATG-TTCTTTAGCGGCGCTTAGAAAAAACGC
61993172 CACTAAAGATCATGTTCTTTA
64 CACTAAAGATCATGTTCTTTA
* *
61993193 GCGGCGCTT-AGAAAAAAACGCCGCTAAATATCATGTTCTTTAGCGGCGCTTGTGCAAAAAACGC
1 GCGGCGCTTAAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-AG-AAAAAACGC
*
61993257 CGCTAAAGATCATGTTCTTTA
64 CACTAAAGATCATGTTCTTTA
* * *
61993278 GCGGCGC-TAAGAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGGTAAGAAAAAAACGCC
1 GCGGCGCTTAAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG-AAAAAACGCC
* *
61993342 ACCAAAGATCGTGTTCTTTA
65 ACTAAAGATCATGTTCTTTA
**
61993362 GCGGCGCTTGGGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
1 GCGGCGCTTAAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
61993414 TATCTACAAA
Statistics
Matches: 195, Mismatches: 21, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
82 2 0.01
83 34 0.17
84 37 0.19
85 122 0.63
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (84 bp):
GCGGCGCTTAAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCA
CTAAAGATCATGTTCTTTA
Found at i:61993310 original size:127 final size:126
Alignment explanation
Indices: 61993120--61993412 Score: 444
Period size: 127 Copynumber: 2.3 Consensus size: 126
61993110 GGCGCTTACA
** * * *
61993120 GAAAAAAGTGCCGCTAAAGGTCATGATT-TTTGGCGGCGCTTAGAAAAAACGCCACTAAAGATCA
1 GAAAAAAACGCCGCTAAAGATCATG-TTCTTTAGCGGCGCTAAGAAAAAACGCCACTAAAGATCA
* * * * *
61993184 TGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAATATCATGTTCTTTAGCGGCGCTTGT
65 TGTTCTTTAGCGGCGCTAAGAAAAAAACGCCACCAAAGATCATGTTCTTTAGCGGCGCTTGG
*
61993246 GCAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGAAAAAAACGCCACTAAAGATCA
1 GAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAG-AAAAAACGCCACTAAAGATCA
* *
61993311 TGTTCTTTAGCGGCGGTAAGAAAAAAACGCCACCAAAGATCGTGTTCTTTAGCGGCGCTTGG
65 TGTTCTTTAGCGGCGCTAAGAAAAAAACGCCACCAAAGATCATGTTCTTTAGCGGCGCTTGG
61993373 GAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCT
1 GAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCT
61993413 TTATCTACAA
Statistics
Matches: 151, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
125 2 0.01
126 34 0.23
127 115 0.76
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (126 bp):
GAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGAAAAAACGCCACTAAAGATCAT
GTTCTTTAGCGGCGCTAAGAAAAAAACGCCACCAAAGATCATGTTCTTTAGCGGCGCTTGG
Found at i:61993909 original size:12 final size:12
Alignment explanation
Indices: 61993892--61993919 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
61993882 TTTTGAACCT
61993892 CTGCTTCTCTCG
1 CTGCTTCTCTCG
61993904 CTGCTTCTCTCG
1 CTGCTTCTCTCG
61993916 CTGC
1 CTGC
61993920 GGCATCTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.43, G:0.18, T:0.39
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:61993928 original size:21 final size:21
Alignment explanation
Indices: 61993904--61993961 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
61993894 GCTTCTCTCG
61993904 CTGCTTCTCTCGCTGC-GGCAT
1 CTGCTTCTCTCGCTGCAGGC-T
* *
61993925 CTGCTTCTCTCGTTGCAGTCT
1 CTGCTTCTCTCGCTGCAGGCT
*
61993946 CTGCTTCCCTCGCTGC
1 CTGCTTCTCTCGCTGC
61993962 TGCCTTTGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.03, C:0.40, G:0.21, T:0.36
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGGCT
Found at i:61999481 original size:9 final size:9
Alignment explanation
Indices: 61999467--61999621 Score: 110
Period size: 9 Copynumber: 17.8 Consensus size: 9
61999457 TTTTTATGTA
61999467 TTATGTAAG
1 TTATGTAAG
*
61999476 TTATGTAAC
1 TTATGTAAG
*
61999485 TTACGTAAG
1 TTATGTAAG
** *
61999494 TTA-CCAAA
1 TTATGTAAG
*
61999502 TTAATGTATG
1 TT-ATGTAAG
61999512 TTATGTAAG
1 TTATGTAAG
61999521 -T-TGTAAG
1 TTATGTAAG
*
61999528 TTAT-TATG
1 TTATGTAAG
61999536 TATTATGTAAG
1 --TTATGTAAG
61999547 TTATGT-A-
1 TTATGTAAG
*
61999554 TTATGTAGG
1 TTATGTAAG
61999563 TTATGTAAG
1 TTATGTAAG
*
61999572 TTGTGTAAG
1 TTATGTAAG
* *
61999581 ATATTTAAG
1 TTATGTAAG
61999590 TTATGTAAG
1 TTATGTAAG
* *
61999599 TTTTG-CAG
1 TTATGTAAG
61999607 -TATGTAAG
1 TTATGTAAG
61999615 TTATGTA
1 TTATGTA
61999622 TGCTATGTAT
Statistics
Matches: 110, Mismatches: 25, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
7 15 0.14
8 14 0.13
9 71 0.65
10 7 0.06
11 3 0.03
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:61999481 original size:16 final size:16
Alignment explanation
Indices: 61999460--61999688 Score: 102
Period size: 16 Copynumber: 14.1 Consensus size: 16
61999450 TGATATATTT
61999460 TTATGTATTATGTAAG
1 TTATGTATTATGTAAG
*
61999476 TTATGTAACTTACGTAAG
1 TTATGT-A-TTATGTAAG
*** *
61999494 TTACCAAATTAATGTATG
1 TTA-TGTATT-ATGTAAG
*
61999512 TTATGTAAGT-TGTAAG
1 TTATGT-ATTATGTAAG
61999528 TTATTATGTATTATGTAAG
1 ---TTATGTATTATGTAAG
*
61999547 TTATGTATTATGTAGG
1 TTATGTATTATGTAAG
*
61999563 TTATGTAAGTTGTGTAAG
1 TTATGT-A-TTATGTAAG
* *
61999581 ATATTTAAGTTATGTAAG
1 TTATGT-A-TTATGTAAG
* * *
61999599 TTTTGCAGTATGTAAG
1 TTATGTATTATGTAAG
61999615 TTATGTATGCTATGT-A-
1 TTATGTAT--TATGTAAG
* *
61999631 TAATGTA--A-GT-TG
1 TTATGTATTATGTAAG
*
61999643 TTATGTATAATGTAAG
1 TTATGTATTATGTAAG
61999659 TTA---A-TATGTAAG
1 TTATGTATTATGTAAG
*
61999671 TAATGTATTATGTAAG
1 TTATGTATTATGTAAG
61999687 TT
1 TT
61999689 TATATAAAAA
Statistics
Matches: 158, Mismatches: 33, Indels: 44
0.67 0.14 0.19
Matches are distributed among these distances:
11 2 0.01
12 16 0.10
13 1 0.01
14 1 0.01
15 3 0.02
16 64 0.41
17 6 0.04
18 53 0.34
19 12 0.08
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.45
Consensus pattern (16 bp):
TTATGTATTATGTAAG
Found at i:61999536 original size:19 final size:19
Alignment explanation
Indices: 61999512--61999550 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
61999502 TTAATGTATG
61999512 TTATGTAAGT-TGTAAGTTA
1 TTATGT-AGTATGTAAGTTA
*
61999531 TTATGTATTATGTAAGTTA
1 TTATGTAGTATGTAAGTTA
61999550 T
1 T
61999551 GTATTATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (19 bp):
TTATGTAGTATGTAAGTTA
Found at i:61999572 original size:25 final size:24
Alignment explanation
Indices: 61999532--61999637 Score: 79
Period size: 25 Copynumber: 4.2 Consensus size: 24
61999522 TGTAAGTTAT
61999532 TATGTA-TTATGTAAGTTATGTAT
1 TATGTAGTTATGTAAGTTATGTAT
* *
61999555 TATGTAGGTTATGTAAGTTGTGTAAGA
1 TATGTA-GTTATGTAAGTTATGT-A-T
* * * *
61999582 TATTTAAGTTATGTAAGTTTTGCAG
1 TATGT-AGTTATGTAAGTTATGTAT
* *
61999607 TATGTAAGTTATGTATGCTATGTAT
1 TATGT-AGTTATGTAAGTTATGTAT
*
61999632 AATGTA
1 TATGTA
61999638 AGTTGTTATG
Statistics
Matches: 65, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
23 6 0.09
24 1 0.02
25 37 0.57
26 2 0.03
27 18 0.28
28 1 0.02
ACGTcount: A:0.30, C:0.02, G:0.22, T:0.46
Consensus pattern (24 bp):
TATGTAGTTATGTAAGTTATGTAT
Found at i:61999598 original size:27 final size:25
Alignment explanation
Indices: 61999505--61999621 Score: 94
Period size: 25 Copynumber: 4.6 Consensus size: 25
61999495 TACCAAATTA
*
61999505 ATGTATGTTATGTAAGTTGT-AAGTT
1 ATGTAAGTTATGTAAGTTGTGAAG-T
* * * *
61999530 AT-TATGTATTATGTAAGTTATGTATT
1 ATGTAAG--TTATGTAAGTTGTGAAGT
*
61999556 ATGTAGGTTATGTAAGTTGTGTAAGAT
1 ATGTAAGTTATGTAAGTTGTG-AAG-T
* * *
61999583 ATTTAAGTTATGTAAGTTTTGCAGT
1 ATGTAAGTTATGTAAGTTGTGAAGT
61999608 ATGTAAGTTATGTA
1 ATGTAAGTTATGTA
61999622 TGCTATGTAT
Statistics
Matches: 74, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
24 4 0.05
25 29 0.39
26 18 0.24
27 23 0.31
ACGTcount: A:0.30, C:0.01, G:0.22, T:0.47
Consensus pattern (25 bp):
ATGTAAGTTATGTAAGTTGTGAAGT
Found at i:61999666 original size:19 final size:19
Alignment explanation
Indices: 61999625--61999668 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
61999615 TTATGTATGC
**
61999625 TATGTATAATGTAAGTTGT
1 TATGTATAATGTAAGTTAA
61999644 TATGTATAATGTAAGTTAA
1 TATGTATAATGTAAGTTAA
61999663 TATGTA
1 TATGTA
61999669 AGTAATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (19 bp):
TATGTATAATGTAAGTTAA
Found at i:61999759 original size:13 final size:13
Alignment explanation
Indices: 61999741--61999786 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
61999731 ATATAAGTTT
61999741 ATGTAAGTTATGA
1 ATGTAAGTTATGA
61999754 ATGTAAG-T-T--
1 ATGTAAGTTATGA
61999763 ATGTAAGTTATGA
1 ATGTAAGTTATGA
61999776 ATGTAAGTTAT
1 ATGTAAGTTAT
61999787 TTAAATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
9 7 0.24
10 1 0.03
11 2 0.07
12 1 0.03
13 18 0.62
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (13 bp):
ATGTAAGTTATGA
Found at i:61999764 original size:22 final size:22
Alignment explanation
Indices: 61999734--61999795 Score: 97
Period size: 22 Copynumber: 2.8 Consensus size: 22
61999724 AGGTAACATA
61999734 TAAGTTTATGTAAGTTATGAATG
1 TAAG-TTATGTAAGTTATGAATG
61999757 TAAGTTATGTAAGTTATGAATG
1 TAAGTTATGTAAGTTATGAATG
* *
61999779 TAAGTTATTTAAATTAT
1 TAAGTTATGTAAGTTAT
61999796 TTAAGTTGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
22 33 0.89
23 4 0.11
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (22 bp):
TAAGTTATGTAAGTTATGAATG
Found at i:62001323 original size:19 final size:19
Alignment explanation
Indices: 62001299--62001340 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
62001289 AAATTGAATT
62001299 TTCTGTTTTCATTTGCATC
1 TTCTGTTTTCATTTGCATC
62001318 TTCTGTTTTCATTTGCATC
1 TTCTGTTTTCATTTGCATC
62001337 TTCT
1 TTCT
62001341 AATTTCTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.10, C:0.21, G:0.10, T:0.60
Consensus pattern (19 bp):
TTCTGTTTTCATTTGCATC
Found at i:62001346 original size:19 final size:19
Alignment explanation
Indices: 62001305--62001346 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
62001295 AATTTTCTGT
**
62001305 TTTCATTTGCATCTTCTGT
1 TTTCATTTGCATCTTCTAA
62001324 TTTCATTTGCATCTTCTAA
1 TTTCATTTGCATCTTCTAA
62001343 TTTC
1 TTTC
62001347 TAATTTCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (19 bp):
TTTCATTTGCATCTTCTAA
Found at i:62003182 original size:7 final size:7
Alignment explanation
Indices: 62003170--62003293 Score: 56
Period size: 7 Copynumber: 17.0 Consensus size: 7
62003160 CTTAATTGAC
62003170 ACCCTAA
1 ACCCTAA
62003177 ACCCTAA
1 ACCCTAA
*
62003184 ATCC-ATA
1 ACCCTA-A
62003191 ACCCTTAA
1 ACCC-TAA
*
62003199 CCCCTAA
1 ACCCTAA
*
62003206 ATCTCCTAG
1 A-C-CCTAA
*
62003215 CCCCTAA
1 ACCCTAA
*
62003222 ATTCCTAA
1 A-CCCTAA
*
62003230 CCCCT-A
1 ACCCTAA
62003236 ACTCCTAA
1 AC-CCTAA
*
62003244 CCCCTAA
1 ACCCTAA
62003251 ATCCCTAA
1 A-CCCTAA
*
62003259 CCCCTAA
1 ACCCTAA
*
62003266 CCCCTAA
1 ACCCTAA
*
62003273 ACCTTATA
1 ACCCTA-A
*
62003281 TCCC-AA
1 ACCCTAA
62003287 ACCCTAA
1 ACCCTAA
62003294 TAATCATATA
Statistics
Matches: 86, Mismatches: 20, Indels: 22
0.67 0.16 0.17
Matches are distributed among these distances:
6 7 0.08
7 52 0.60
8 22 0.26
9 5 0.06
ACGTcount: A:0.34, C:0.44, G:0.01, T:0.22
Consensus pattern (7 bp):
ACCCTAA
Found at i:62003206 original size:22 final size:21
Alignment explanation
Indices: 62003170--62003273 Score: 93
Period size: 22 Copynumber: 4.7 Consensus size: 21
62003160 CTTAATTGAC
* *
62003170 ACCCTAAACCCTAAATCCATA
1 ACCCTAACCCCTAAATCCCTA
62003191 ACCCTTAACCCCTAAATCTCCTA
1 ACCC-TAACCCCTAAATC-CCTA
* ** *
62003214 GCCCCTAAATTCCT-AACCCCTA
1 -ACCCT-AACCCCTAAATCCCTA
62003236 ACTCCTAACCCCTAAATCCCTA
1 AC-CCTAACCCCTAAATCCCTA
62003258 ACCCCTAACCCCTAAA
1 A-CCCTAACCCCTAAA
62003274 CCTTATATCC
Statistics
Matches: 66, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
21 10 0.15
22 40 0.61
23 8 0.12
24 8 0.12
ACGTcount: A:0.34, C:0.44, G:0.01, T:0.21
Consensus pattern (21 bp):
ACCCTAACCCCTAAATCCCTA
Found at i:62003233 original size:15 final size:15
Alignment explanation
Indices: 62003196--62003265 Score: 97
Period size: 15 Copynumber: 4.7 Consensus size: 15
62003186 CCATAACCCT
62003196 TAACCCCTAAATCTCC
1 TAACCCCTAAAT-TCC
*
62003212 TAGCCCCTAAATTCC
1 TAACCCCTAAATTCC
*
62003227 TAACCCCT-AACTCC
1 TAACCCCTAAATTCC
*
62003241 TAACCCCTAAATCCC
1 TAACCCCTAAATTCC
62003256 TAACCCCTAA
1 TAACCCCTAA
62003266 CCCCTAAACC
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
14 13 0.27
15 24 0.50
16 11 0.23
ACGTcount: A:0.31, C:0.44, G:0.01, T:0.23
Consensus pattern (15 bp):
TAACCCCTAAATTCC
Found at i:62003247 original size:29 final size:29
Alignment explanation
Indices: 62003196--62003290 Score: 109
Period size: 29 Copynumber: 3.2 Consensus size: 29
62003186 CCATAACCCT
* *
62003196 TAACCCCTAAATCTCCTAGCCCCTAAATTCC
1 TAACCCCT-AA-CTCCTAACCCCTAAATCCC
62003227 TAACCCCTAACTCCTAACCCCTAAATCCC
1 TAACCCCTAACTCCTAACCCCTAAATCCC
* * * *
62003256 TAACCCCTAACCCCTAAACCTTATATCCC
1 TAACCCCTAACTCCTAACCCCTAAATCCC
*
62003285 AAACCC
1 TAACCC
62003291 TAATAATCAT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
29 47 0.82
30 2 0.04
31 8 0.14
ACGTcount: A:0.32, C:0.45, G:0.01, T:0.22
Consensus pattern (29 bp):
TAACCCCTAACTCCTAACCCCTAAATCCC
Found at i:62003275 original size:15 final size:15
Alignment explanation
Indices: 62003190--62003272 Score: 80
Period size: 15 Copynumber: 5.6 Consensus size: 15
62003180 CTAAATCCAT
*
62003190 AACCCTTAACCCCTA
1 AACCCCTAACCCCTA
* *
62003205 AATCTCCTAGCCCCTA
1 AA-CCCCTAACCCCTA
**
62003221 AATTCCTAACCCCT-
1 AACCCCTAACCCCTA
*
62003235 AACTCCTAACCCCTA
1 AACCCCTAACCCCTA
*
62003250 AATCCCTAACCCCT-
1 AACCCCTAACCCCTA
62003264 AACCCCTAA
1 AACCCCTAA
62003273 ACCTTATATC
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
14 21 0.37
15 24 0.42
16 12 0.21
ACGTcount: A:0.31, C:0.46, G:0.01, T:0.22
Consensus pattern (15 bp):
AACCCCTAACCCCTA
Found at i:62003289 original size:22 final size:22
Alignment explanation
Indices: 62003170--62003290 Score: 77
Period size: 22 Copynumber: 5.5 Consensus size: 22
62003160 CTTAATTGAC
* *
62003170 ACCCTAAA-CCCTAAATCCATA
1 ACCCCAAACCCCTAAATCCCTA
**
62003191 ACCCTTAACCCCTAAATCTCCTA
1 ACCCCAAACCCCTAAATC-CCTA
* ** *
62003214 GCCCCTAAATTCCT-AACCCCTA
1 ACCCC-AAACCCCTAAATCCCTA
* *
62003236 ACTCCTAACCCCTAAATCCCTA
1 ACCCCAAACCCCTAAATCCCTA
* *
62003258 ACCCCTAACCCCTAAA-CCTTA
1 ACCCCAAACCCCTAAATCCCTA
*
62003279 TATCCCAAACCC
1 -ACCCCAAACCC
62003291 TAATAATCAT
Statistics
Matches: 77, Mismatches: 18, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
21 16 0.21
22 47 0.61
23 9 0.12
24 5 0.06
ACGTcount: A:0.33, C:0.45, G:0.01, T:0.21
Consensus pattern (22 bp):
ACCCCAAACCCCTAAATCCCTA
Found at i:62004103 original size:41 final size:41
Alignment explanation
Indices: 62004044--62004254 Score: 121
Period size: 41 Copynumber: 5.1 Consensus size: 41
62004034 ATGTTTTTTT
* *
62004044 GCGGCGCTT-CAACAAAAACTCCAC-AAAAACCTTAACATTA
1 GCGGCGCTTAC-ATAAAAACGCCACTAAAAACCTTAACATTA
* * * *
62004084 GCGGCGTTTATCATAAAAACGCCGCTAAAAATCTTAACTTTA
1 GCGGCGCTTA-CATAAAAACGCCACTAAAAACCTTAACATTA
* * * * * *
62004126 GCGTCGCTTACATAAAAACGCCGGCT-AAGACC-AAATATTC
1 GCGGCGCTTACATAAAAACGCC-ACTAAAAACCTTAACATTA
* * * *
62004166 GCTGCGCTT-CA-AAGAAATCGCCGCTAAATACCTTAACTTTA
1 GCGGCGCTTACATAA-AAA-CGCCACTAAAAACCTTAACATTA
* * * * *
62004207 GCGGCGGTTGA-TTAAAAACGCCACTAAAACCCTCGACCATTA
1 GCGGCGCTT-ACATAAAAACGCCACTAAAAACCT-TAACATTA
62004249 GCGGCG
1 GCGGCG
62004255 AGATCCTAAA
Statistics
Matches: 129, Mismatches: 30, Indels: 22
0.71 0.17 0.12
Matches are distributed among these distances:
38 2 0.02
39 8 0.06
40 28 0.22
41 49 0.38
42 40 0.31
43 2 0.02
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.22
Consensus pattern (41 bp):
GCGGCGCTTACATAAAAACGCCACTAAAAACCTTAACATTA
Found at i:62004120 original size:42 final size:42
Alignment explanation
Indices: 62004068--62004212 Score: 122
Period size: 41 Copynumber: 3.5 Consensus size: 42
62004058 AAAACTCCAC
*
62004068 AAAAACCTTAACATTAGCGGCGTTTATCATAAAAACGCC-GCT
1 AAAAACCTTAACATTAGCGGCGCTTA-CATAAAAACGCCGGCT
* * *
62004110 AAAAATCTTAACTTTAGCGTCGCTTACATAAAAACGCCGGCT
1 AAAAACCTTAACATTAGCGGCGCTTACATAAAAACGCCGGCT
* * * * *
62004152 -AAGACC-AAATATTCGCTGCGCTT-CA-AAGAAATCGCC-GCT
1 AAAAACCTTAACATTAGCGGCGCTTACATAA-AAA-CGCCGGCT
* *
62004191 AAATACCTTAACTTTAGCGGCG
1 AAAAACCTTAACATTAGCGGCG
62004213 GTTGATTAAA
Statistics
Matches: 80, Mismatches: 18, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
38 2 0.03
39 8 0.10
40 20 0.25
41 25 0.31
42 25 0.31
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (42 bp):
AAAAACCTTAACATTAGCGGCGCTTACATAAAAACGCCGGCT
Found at i:62007578 original size:13 final size:13
Alignment explanation
Indices: 62007546--62007570 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62007536 ATAAAATATT
62007546 TTTATAATTTGTG
1 TTTATAATTTGTG
62007559 TTTATAATTTGT
1 TTTATAATTTGT
62007571 TTATATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (13 bp):
TTTATAATTTGTG
Found at i:62012881 original size:13 final size:13
Alignment explanation
Indices: 62012863--62012888 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
62012853 TTAGGTTAGC
62012863 AATTTATTTGTAT
1 AATTTATTTGTAT
62012876 AATTTATTTGTAT
1 AATTTATTTGTAT
62012889 TCACAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
AATTTATTTGTAT
Found at i:62015674 original size:59 final size:59
Alignment explanation
Indices: 62015609--62015796 Score: 150
Period size: 59 Copynumber: 3.2 Consensus size: 59
62015599 ATTTTATTAA
62015609 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
* * ** * * * ** * * * *
62015668 ATCATATATTATGATTTTAGTA-AATTCATA-TAAGAATATTGATTATTAGAATTTTATTA-A
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCA-AATTA-TATTTTA-TAGT
* * * *
62015728 ATTATATATTTTAATTAAAATATATTTAATAATT-ATTATTTTAATTTATATTTTACAGT
1 ATCATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTCAAATTATATTTTATAGT
62015787 ATCATATATT
1 ATCATATATT
62015797 ATGATTTGAG
Statistics
Matches: 91, Mismatches: 30, Indels: 16
0.66 0.22 0.12
Matches are distributed among these distances:
57 5 0.05
58 10 0.11
59 36 0.40
60 25 0.27
61 10 0.11
62 4 0.04
63 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (59 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
Found at i:62015723 original size:119 final size:120
Alignment explanation
Indices: 62015598--62015886 Score: 492
Period size: 119 Copynumber: 2.4 Consensus size: 120
62015588 AATTATTTTA
*
62015598 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
* * *
62015663 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
62015717 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATT-ATTATTTTAATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTCAAATTATATTT
62015781 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
62015837 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT
62015887 GTTTAAATAT
Statistics
Matches: 160, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
119 109 0.68
120 51 0.32
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:62015744 original size:18 final size:18
Alignment explanation
Indices: 62015718--62015773 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 18
62015708 GATTATTAGA
62015718 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
62015735 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
62015751 A-TTTAA-T-AATTAT-T
1 ATTTTAATTAAATTATAT
62015765 ATTTTAATT
1 ATTTTAATT
62015774 TATATTTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
13 2 0.06
14 3 0.09
15 12 0.35
16 6 0.18
17 5 0.15
18 6 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:62015854 original size:59 final size:58
Alignment explanation
Indices: 62015672--62015854 Score: 146
Period size: 56 Copynumber: 3.1 Consensus size: 58
62015662 TATAGTATCA
*
62015672 TATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AGAATTTTATTAAAT
1 TATATTATGATTTAAGTAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
* * * * * *
62015730 TATA-TAT--TTTAATTAAAATAT-ATTTAATAATTATTATT-TTAATTTATATTTTA-CAGTAT
1 TATATTATGATTTAAGT-AAAT-TCATATAAGAA-TATTATTATTAA--GA-ATTTTATTA-AAT
*
62015789 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
62015850 TATAT
1 TATAT
62015855 ATTTTAATTA
Statistics
Matches: 94, Mismatches: 14, Indels: 33
0.67 0.10 0.23
Matches are distributed among these distances:
55 7 0.07
56 15 0.16
57 8 0.09
58 6 0.06
59 13 0.14
61 12 0.13
62 10 0.11
63 14 0.15
64 9 0.10
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (58 bp):
TATATTATGATTTAAGTAAATTCATATAAGAATATTATTATTAAGAATTTTATTAAAT
Found at i:62015866 original size:18 final size:17
Alignment explanation
Indices: 62015838--62015872 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62015828 ATTATTAAGA
*
62015838 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
62015855 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
62015873 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:62015980 original size:147 final size:149
Alignment explanation
Indices: 62015826--62016100 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
62015816 ATAAGAATAT
*
62015826 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
62015891 AAATATGAGTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
62015954 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
62015973 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
* *
62016038 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
62016101 CAATAATCAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 90 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:62016013 original size:18 final size:17
Alignment explanation
Indices: 62015985--62016019 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62015975 ATTATTAAGA
*
62015985 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
62016002 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
62016020 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:62016271 original size:45 final size:44
Alignment explanation
Indices: 62016181--62016275 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
62016171 TTACACCTCT
* * *
62016181 ATTACATTCAACCAAACACAGTTTTACTATTACGCCTATATTCC
1 ATTACATTCAACCAAACACAGATTTACTATTACACATATATTCC
** * *
62016225 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACA-CAGATTTACTATTACACATATATTCC
62016270 ATTACA
1 ATTACA
62016276 CCTCTAATCC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 18 0.42
45 25 0.58
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGATTTACTATTACACATATATTCC
Found at i:62018509 original size:20 final size:18
Alignment explanation
Indices: 62018474--62018514 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
62018464 GTATCTTTAC
*
62018474 ATACATATTTTAATACGT
1 ATACATATTTTAATACAT
62018492 ATACATATTTTATAATACAT
1 ATACATA-TTT-TAATACAT
62018512 ATA
1 ATA
62018515 TACACATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 3 0.15
20 10 0.50
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (18 bp):
ATACATATTTTAATACAT
Found at i:62019755 original size:30 final size:32
Alignment explanation
Indices: 62019694--62019755 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
62019684 CTATAATTTA
62019694 ATGTGTAATTATTATATACATAAACTTTGATT
1 ATGTGTAATTATTATATACATAAACTTTGATT
* *
62019726 ATGTGTAATT-TTATATATAT-AATTTTGATT
1 ATGTGTAATTATTATATACATAAACTTTGATT
62019756 TGATCTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 9 0.32
31 9 0.32
32 10 0.36
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.52
Consensus pattern (32 bp):
ATGTGTAATTATTATATACATAAACTTTGATT
Found at i:62019765 original size:30 final size:32
Alignment explanation
Indices: 62019694--62019765 Score: 78
Period size: 30 Copynumber: 2.3 Consensus size: 32
62019684 CTATAATTTA
*
62019694 ATGTGTAATTATTATATACATAAACTTTGATT
1 ATGTCTAATTATTATATACATAAACTTTGATT
* * *
62019726 ATGTGTAATT-TTATATATAT-AATTTTGATT
1 ATGTCTAATTATTATATACATAAACTTTGATT
62019756 -TGATCTAATT
1 ATG-TCTAATT
62019766 CTTGTAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 2 0.06
30 15 0.42
31 9 0.25
32 10 0.28
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.51
Consensus pattern (32 bp):
ATGTCTAATTATTATATACATAAACTTTGATT
Found at i:62023935 original size:13 final size:13
Alignment explanation
Indices: 62023903--62023927 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62023893 ATAAAATATT
62023903 TTTATAATTTGTG
1 TTTATAATTTGTG
62023916 TTTATAATTTGT
1 TTTATAATTTGT
62023928 TTATATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (13 bp):
TTTATAATTTGTG
Found at i:62026886 original size:29 final size:30
Alignment explanation
Indices: 62026853--62026912 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
62026843 TATAATTTAA
62026853 TGTGTAATTATATACATA-AACTTTGATTT
1 TGTGTAATTATATACATATAACTTTGATTT
* * *
62026882 TGTGTAATTTTATATATATAATTTTGATTT
1 TGTGTAATTATATACATATAACTTTGATTT
62026912 T
1 T
62026913 ATCTAATTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.55
Consensus pattern (30 bp):
TGTGTAATTATATACATATAACTTTGATTT
Found at i:62026920 original size:30 final size:31
Alignment explanation
Indices: 62026860--62026920 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
62026850 TAATGTGTAA
* *
62026860 TTATATACATAAACTTTGATTTTGTGTAATT
1 TTATATACATAAACTTTGATTTTATCTAATT
* *
62026891 TTATATATAT-AATTTTGATTTTATCTAATT
1 TTATATACATAAACTTTGATTTTATCTAATT
62026921 CTTGTAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.56
Consensus pattern (31 bp):
TTATATACATAAACTTTGATTTTATCTAATT
Found at i:62029004 original size:20 final size:20
Alignment explanation
Indices: 62028972--62029039 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
62028962 TCAATTAAAA
*
62028972 AAATATTGTTATTGTATTAG
1 AAATATTGATATTGTATTAG
* *
62028992 AAATTTTGATATT-TATTAAA
1 AAATATTGATATTGTATT-AG
**
62029012 AAATATTGATATTGCGTTAG
1 AAATATTGATATTGTATTAG
62029032 AAATATTG
1 AAATATTG
62029040 GTGCTGCATT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 4 0.10
20 33 0.85
21 2 0.05
ACGTcount: A:0.40, C:0.01, G:0.13, T:0.46
Consensus pattern (20 bp):
AAATATTGATATTGTATTAG
Found at i:62033777 original size:15 final size:16
Alignment explanation
Indices: 62033740--62033769 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62033730 ATTTTTTATG
62033740 AATTTTAAGAATAATT
1 AATTTTAAGAATAATT
62033756 AATTTTAA-AATAAT
1 AATTTTAAGAATAAT
62033770 AATATTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (16 bp):
AATTTTAAGAATAATT
Found at i:62038439 original size:31 final size:30
Alignment explanation
Indices: 62038404--62038480 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 30
62038394 TTTAAAATTT
62038404 TAAAATTATTAAAAATTCATAAAATTATAAA
1 TAAAATTATTAAAAATT-ATAAAATTATAAA
* *
62038435 TAAAATGT-TATAAAAGTTTTAAAATTATAAA
1 TAAAAT-TAT-TAAAAATTATAAAATTATAAA
* *
62038466 -ATATTTATTAAAAAT
1 TAAAATTATTAAAAAT
62038481 AAGAATACCA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
29 7 0.18
30 4 0.11
31 19 0.50
32 8 0.21
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (30 bp):
TAAAATTATTAAAAATTATAAAATTATAAA
Found at i:62052577 original size:34 final size:34
Alignment explanation
Indices: 62052534--62052601 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
62052524 CTAGGGTTGA
62052534 TTCTACTTTGTTCGTTGTTCTCGTCTTATTCAAT
1 TTCTACTTTGTTCGTTGTTCTCGTCTTATTCAAT
* *
62052568 TTCTACTTTGTTTGTTGTTCTCGTCTTGTTCAAT
1 TTCTACTTTGTTCGTTGTTCTCGTCTTATTCAAT
62052602 CTTTAGAGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.10, C:0.19, G:0.13, T:0.57
Consensus pattern (34 bp):
TTCTACTTTGTTCGTTGTTCTCGTCTTATTCAAT
Found at i:62056245 original size:45 final size:47
Alignment explanation
Indices: 62056188--62056277 Score: 114
Period size: 49 Copynumber: 1.9 Consensus size: 47
62056178 ATATAACTAC
* *
62056188 ACTTCATTTATTT-TATT-TTAGAATAAGGTTTTTGAACCTTATTAT
1 ACTTCATTTATTTATATTATTAGAATAAGGTGTTTCAACCTTATTAT
62056233 ACTTC-TTCTATTTGATATTGATTAGAATAAGGTGTTTCAACCTTA
1 ACTTCATT-TATTT-ATATT-ATTAGAATAAGGTGTTTCAACCTTA
62056278 ATACACTCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 2 0.05
45 10 0.26
47 4 0.11
49 22 0.58
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (47 bp):
ACTTCATTTATTTATATTATTAGAATAAGGTGTTTCAACCTTATTAT
Found at i:62067335 original size:13 final size:13
Alignment explanation
Indices: 62067319--62067382 Score: 83
Period size: 13 Copynumber: 4.9 Consensus size: 13
62067309 TTTAAACCAA
62067319 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
62067332 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* *
62067345 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
* *
62067358 ACTTTTTAAAAAC
1 ACTTTTCAAAAGC
62067371 ACTTTTCAAAAG
1 ACTTTTCAAAAG
62067383 TATTGCTAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:62068219 original size:20 final size:20
Alignment explanation
Indices: 62068190--62068227 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
62068180 ATAAACAAAA
62068190 TATAAATTTATAATTTTTCT
1 TATAAATTTATAATTTTTCT
*
62068210 TATAATTTTATAATTTTT
1 TATAAATTTATAATTTTT
62068228 TAAATAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (20 bp):
TATAAATTTATAATTTTTCT
Found at i:62068234 original size:20 final size:20
Alignment explanation
Indices: 62068191--62068238 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
62068181 TAAACAAAAT
* *
62068191 ATAAATTTATAATTTTTCTT
1 ATAATTTTATAATTTTTCTA
62068211 ATAATTTTATAATTTTT-TAA
1 ATAATTTTATAATTTTTCT-A
62068231 ATAATTTT
1 ATAATTTT
62068239 TAAATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
ATAATTTTATAATTTTTCTA
Found at i:62070772 original size:98 final size:98
Alignment explanation
Indices: 62070598--62070790 Score: 332
Period size: 98 Copynumber: 2.0 Consensus size: 98
62070588 ATAAAACTTT
* *
62070598 AAAAGAACATCCACTTATCCAATATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCCTCT
1 AAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACGATTCCTCT
62070663 AAAATCCCAAACTCGGAATATGTCCTTTATTTC
66 AAAATCCCAAACTCGGAATATGTCCTTTATTTC
* *
62070696 AAAAGAACATCCACTTATCTAAGATTTAAGAAATCACACCCAATACATTAGGGCACGATTCCTTT
1 AAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACGATTCCTCT
* *
62070761 AAAATCTCAAACTCGGAATATTTCCTTTAT
66 AAAATCCCAAACTCGGAATATGTCCTTTAT
62070791 GATTTTTAAA
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 89 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (98 bp):
AAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACGATTCCTCT
AAAATCCCAAACTCGGAATATGTCCTTTATTTC
Found at i:62071510 original size:108 final size:108
Alignment explanation
Indices: 62071316--62071517 Score: 264
Period size: 108 Copynumber: 1.9 Consensus size: 108
62071306 TAAAGAAAAA
* *
62071316 TATATATAGAAATTATAAAAATATGGGTAGAAAGTATAATATATATATACATACATATATATGTA
1 TATATATAGAAATTATAAAAATATGGATAGAAAGTATAATATATATATA-ATACATATATATATA
* * * *
62071381 AGTTAATAAATATAGACCATAAAGATAATGACTGCATATATGTG
65 AGGTAACAAATATACACCATAAACATAATGACTGCATATATGTG
* * * *
62071425 TATATATATAAATTAT-AAAATATGTATAGAAAGTATAGTATATATAT-GTACATATATATATAA
1 TATATATAGAAATTATAAAAATATGGATAGAAAGTATAATATATATATAATACATATATATATAA
*
62071488 GGTAACAAATAGATACATCATAAACATAAT
66 GGTAACAAAT--ATACACCATAAACATAAT
62071518 AATTACGCAT
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
106 22 0.28
108 43 0.54
109 15 0.19
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (108 bp):
TATATATAGAAATTATAAAAATATGGATAGAAAGTATAATATATATATAATACATATATATATAA
GGTAACAAATATACACCATAAACATAATGACTGCATATATGTG
Found at i:62074702 original size:35 final size:37
Alignment explanation
Indices: 62074629--62074702 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
62074619 CACATGTGCT
* *
62074629 ACAATCTGGAGTTGACTTAAATGTATTTAGTGGGGCCC
1 ACAATCTCGAGTTGACTTAAA-GTATTTAGTGGAGCCC
*
62074667 ACAATCTCGAGTTGATTTAAA-T-TTTAGTGGAGCCC
1 ACAATCTCGAGTTGACTTAAAGTATTTAGTGGAGCCC
62074702 A
1 A
62074703 TCGTTCTCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 13 0.39
36 1 0.03
38 19 0.58
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.32
Consensus pattern (37 bp):
ACAATCTCGAGTTGACTTAAAGTATTTAGTGGAGCCC
Found at i:62080446 original size:29 final size:30
Alignment explanation
Indices: 62080414--62080472 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
62080404 TTGCATGCAT
* *
62080414 AATTGCAC-TAATTTAAAGTTCATGTATAC
1 AATTGCACATAAATTAAAATTCATGTATAC
62080443 AATTGCACATTAAATTAAAATTCATGTATA
1 AATTGCACA-TAAATTAAAATTCATGTATA
62080473 ATTTTAAGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
31 18 0.69
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.37
Consensus pattern (30 bp):
AATTGCACATAAATTAAAATTCATGTATAC
Found at i:62080475 original size:29 final size:27
Alignment explanation
Indices: 62080407--62080475 Score: 75
Period size: 31 Copynumber: 2.4 Consensus size: 27
62080397 TATAGTTTTG
* * *
62080407 CATGCATAATTGCACTAATTTAAAGTT
1 CATGTATAATTGCACTAAATTAAAATT
62080434 CATGTATACAATTGCACATTAAATTAAAATT
1 CATGTAT--AATTGCAC--TAAATTAAAATT
62080465 CATGTATAATT
1 CATGTATAATT
62080476 TTAAGACTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 6 0.17
29 12 0.34
31 17 0.49
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.38
Consensus pattern (27 bp):
CATGTATAATTGCACTAAATTAAAATT
Found at i:62086196 original size:14 final size:14
Alignment explanation
Indices: 62086176--62086213 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
62086166 ATGATTTGAA
62086176 AATTTTATATT-AT
1 AATTTTATATTAAT
*
62086189 AATATTTAAATTAAT
1 AAT-TTTATATTAAT
62086204 AATTTTATAT
1 AATTTTATAT
62086214 ATTTTAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 3 0.14
14 13 0.62
15 5 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTTATATTAAT
Found at i:62089800 original size:26 final size:26
Alignment explanation
Indices: 62089771--62089831 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 26
62089761 GCAAATAATT
**
62089771 AATTTTTAATATTTTTAAAAAT-TAAA
1 AATTTTTAA-ATTAATAAAAATATAAA
*
62089797 AATTATTGAAATTAATAAAAATATAAA
1 AATT-TTTAAATTAATAAAAATATAAA
62089824 AATATTTT
1 AAT-TTTT
62089832 TAGAAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
26 14 0.50
27 13 0.46
28 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (26 bp):
AATTTTTAAATTAATAAAAATATAAA
Found at i:62091643 original size:21 final size:20
Alignment explanation
Indices: 62091606--62091675 Score: 58
Period size: 19 Copynumber: 3.5 Consensus size: 20
62091596 CAATTAAGCC
*
62091606 ATTTTAAAATT-TAAAAATT
1 ATTTAAAAATTATAAAAATT
62091625 ATTTAAAAATTCATAAAAA--
1 ATTTAAAAATT-ATAAAAATT
*
62091644 AGTTTTAAAATTATAAAATATT
1 A-TTTAAAAATTATAAAA-ATT
62091666 -TATTAAAAAT
1 AT-TTAAAAAT
62091676 AAGAATGCCA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
19 17 0.41
20 11 0.27
21 13 0.32
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (20 bp):
ATTTAAAAATTATAAAAATT
Found at i:62091661 original size:19 final size:19
Alignment explanation
Indices: 62091606--62091666 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
62091596 CAATTAAGCC
62091606 ATTTTAAAATT-TAAAAATT
1 ATTTTAAAATTATAAAAA-T
*
62091625 ATTTAAAAATTCATAAAAA-
1 ATTTTAAAATT-ATAAAAAT
62091644 AGTTTTAAAATTAT-AAAAT
1 A-TTTTAAAATTATAAAAAT
62091663 ATTT
1 ATTT
62091667 ATTAAAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
18 7 0.19
19 14 0.39
20 9 0.25
21 6 0.17
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
ATTTTAAAATTATAAAAAT
Found at i:62091671 original size:20 final size:18
Alignment explanation
Indices: 62091609--62091673 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 18
62091599 TTAAGCCATT
62091609 TTAAAATT-TAAAAATTA
1 TTAAAATTATAAAAATTA
62091626 TTTAAAAATTCATAAAAAAGTT-
1 -TT-AAAATT-AT-AAAAA-TTA
62091648 TTAAAATTATAAAATATTTA
1 TTAAAATTATAAAA-A-TTA
62091668 TTAAAA
1 TTAAAA
62091674 ATAAGAATGC
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
18 6 0.15
19 11 0.28
20 12 0.31
21 3 0.08
22 5 0.13
23 2 0.05
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (18 bp):
TTAAAATTATAAAAATTA
Found at i:62094264 original size:10 final size:10
Alignment explanation
Indices: 62094249--62094273 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
62094239 AAGCAAGGAA
62094249 AGAAAGTAAC
1 AGAAAGTAAC
62094259 AGAAAGTAAC
1 AGAAAGTAAC
62094269 AGAAA
1 AGAAA
62094274 AATAACTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.08, G:0.20, T:0.08
Consensus pattern (10 bp):
AGAAAGTAAC
Found at i:62098591 original size:10 final size:10
Alignment explanation
Indices: 62098576--62098600 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
62098566 AAGCAAGGAA
62098576 AGAAAGTAAC
1 AGAAAGTAAC
62098586 AGAAAGTAAC
1 AGAAAGTAAC
62098596 AGAAA
1 AGAAA
62098601 AATAACTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.08, G:0.20, T:0.08
Consensus pattern (10 bp):
AGAAAGTAAC
Found at i:62100249 original size:21 final size:21
Alignment explanation
Indices: 62100223--62100274 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 21
62100213 CCTAAATCTA
*
62100223 TAATAAATAAAATATAATTCT
1 TAATAAATAAAATATAATTAT
*
62100244 TAAT-AATATAAT-TAATTAT
1 TAATAAATAAAATATAATTAT
62100263 T--TAAATAAAATA
1 TAATAAATAAAATA
62100275 GTTCAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 1 0.04
18 7 0.27
19 7 0.27
20 7 0.27
21 4 0.15
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
TAATAAATAAAATATAATTAT
Found at i:62105150 original size:20 final size:20
Alignment explanation
Indices: 62105117--62105172 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
62105107 ATCATTATTC
*
62105117 TTTTTTTGTCTTTTTCATTTG
1 TTTTTTT-TTTTTTTCATTTG
* *
62105138 TTTTTTTTTTTTTGCTTTTG
1 TTTTTTTTTTTTTTCATTTG
* *
62105158 TTTGTTTATTTTTTC
1 TTTTTTTTTTTTTTC
62105173 CTGCCATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
20 22 0.76
21 7 0.24
ACGTcount: A:0.04, C:0.07, G:0.09, T:0.80
Consensus pattern (20 bp):
TTTTTTTTTTTTTTCATTTG
Found at i:62105514 original size:14 final size:15
Alignment explanation
Indices: 62105495--62105527 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
62105485 ATAAATATAT
*
62105495 TTTTTTTATTTTT-A
1 TTTTTTAATTTTTAA
62105509 TTTTTTAATTTTTAA
1 TTTTTTAATTTTTAA
62105524 TTTT
1 TTTT
62105528 AAAATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTAATTTTTAA
Found at i:62108870 original size:12 final size:12
Alignment explanation
Indices: 62108832--62108886 Score: 55
Period size: 11 Copynumber: 4.8 Consensus size: 12
62108822 AGGGTTGAGT
*
62108832 AGAAAATCAGTAA
1 AGAAACTCAGT-A
62108845 AGAAACT-AGTA
1 AGAAACTCAGTA
62108856 AG-AACTCAGTAA
1 AGAAACTCAGT-A
62108868 AGAAACT-AGTA
1 AGAAACTCAGTA
62108879 AG-AACTCA
1 AGAAACTCA
62108887 CATGATGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
10 8 0.22
11 10 0.27
12 9 0.24
13 10 0.27
ACGTcount: A:0.55, C:0.13, G:0.16, T:0.16
Consensus pattern (12 bp):
AGAAACTCAGTA
Found at i:62108883 original size:23 final size:23
Alignment explanation
Indices: 62108838--62108886 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
62108828 GAGTAGAAAA
62108838 TCAGTAAAGAAACTAGTAAGAAC
1 TCAGTAAAGAAACTAGTAAGAAC
62108861 TCAGTAAAGAAACTAGTAAGAAC
1 TCAGTAAAGAAACTAGTAAGAAC
62108884 TCA
1 TCA
62108887 CATGATGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.18
Consensus pattern (23 bp):
TCAGTAAAGAAACTAGTAAGAAC
Found at i:62109215 original size:24 final size:25
Alignment explanation
Indices: 62109183--62109230 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
62109173 CTTGGCAAAT
62109183 AGGGAAACCA-ATCTTAGAAGATTG
1 AGGGAAACCATATCTTAGAAGATTG
* * *
62109207 AGGGGAACCATGTCTTATAAGATT
1 AGGGAAACCATATCTTAGAAGATT
62109231 AGGTTTGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (25 bp):
AGGGAAACCATATCTTAGAAGATTG
Found at i:62132458 original size:2 final size:2
Alignment explanation
Indices: 62132451--62132487 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
62132441 AATTAAAGTG
62132451 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
62132488 AATATAAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:62133905 original size:65 final size:65
Alignment explanation
Indices: 62133823--62133948 Score: 225
Period size: 65 Copynumber: 1.9 Consensus size: 65
62133813 CAAGCCATTC
* *
62133823 ACTACAATAATATCTATATAAACAAATATAATCAAATTTTATTAATTTTTAACAAGTAAAAGAAA
1 ACTACAATAATACCTATATAAACAAATATAATCAAATTTTATTAATTTATAACAAGTAAAAGAAA
*
62133888 ACTACAATAATACCTATATAAACAAATATAATCAAATTTTATTAATTTATAATAAGTAAAA
1 ACTACAATAATACCTATATAAACAAATATAATCAAATTTTATTAATTTATAACAAGTAAAA
62133949 AAATATATCA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (65 bp):
ACTACAATAATACCTATATAAACAAATATAATCAAATTTTATTAATTTATAACAAGTAAAAGAAA
Found at i:62139563 original size:17 final size:17
Alignment explanation
Indices: 62139542--62139576 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
62139532 TAAAAAATAT
62139542 TTTTTATAATTGTTTAAA
1 TTTTTA-AATTGTTTAAA
*
62139560 TTTTTAAATTTTTTAAA
1 TTTTTAAATTGTTTAAA
62139577 ATTAATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (17 bp):
TTTTTAAATTGTTTAAA
Found at i:62144382 original size:14 final size:15
Alignment explanation
Indices: 62144352--62144382 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
62144342 TTCATTATAG
62144352 AACTCCAATCGGCGC
1 AACTCCAATCGGCGC
62144367 AACTCCAATC-GCGC
1 AACTCCAATCGGCGC
62144381 AA
1 AA
62144383 TATATGTTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.32, C:0.39, G:0.16, T:0.13
Consensus pattern (15 bp):
AACTCCAATCGGCGC
Found at i:62149069 original size:16 final size:16
Alignment explanation
Indices: 62149040--62149082 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
62149030 GTGGCTGGAG
62149040 CTCTC-CCCTT-TCCC
1 CTCTCTCCCTTCTCCC
*
62149054 CTCTCTTCCTTCTCCC
1 CTCTCTCCCTTCTCCC
62149070 CTCTCTCCCTTCT
1 CTCTCTCCCTTCT
62149083 TTCCTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 5 0.20
15 4 0.16
16 16 0.64
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (16 bp):
CTCTCTCCCTTCTCCC
Found at i:62149071 original size:23 final size:24
Alignment explanation
Indices: 62149041--62149088 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
62149031 TGGCTGGAGC
*
62149041 TCTCCCCT-T-TCCCCTCTCTTCCT
1 TCTCCCCTCTCTCCCTTCT-TTCCT
62149064 TCTCCCCTCTCTCCCTTCTTTCCT
1 TCTCCCCTCTCTCCCTTCTTTCCT
62149088 T
1 T
62149089 TTTTTCTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 8 0.36
24 7 0.32
25 7 0.32
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (24 bp):
TCTCCCCTCTCTCCCTTCTTTCCT
Found at i:62150042 original size:15 final size:14
Alignment explanation
Indices: 62150013--62150046 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
62150003 TTGATATTAG
*
62150013 TATATGTTTATATA
1 TATATCTTTATATA
62150027 TATATCTTTAATATA
1 TATATCTTT-ATATA
62150042 TATAT
1 TATAT
62150047 AGGTATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (14 bp):
TATATCTTTATATA
Found at i:62156255 original size:12 final size:12
Alignment explanation
Indices: 62156238--62156267 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
62156228 ACAAAATCCA
62156238 AATTTAATTTCC
1 AATTTAATTTCC
*
62156250 AATTTAATTTCT
1 AATTTAATTTCC
62156262 AATTTA
1 AATTTA
62156268 TTTAATCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTTAATTTCC
Found at i:62158675 original size:26 final size:25
Alignment explanation
Indices: 62158639--62158688 Score: 91
Period size: 26 Copynumber: 2.0 Consensus size: 25
62158629 ATTGGGAGAA
62158639 AGTAAATTAGACTTTAGTCAATTAAG
1 AGTAAATTAGACTTTAGTC-ATTAAG
62158665 AGTAAATTAGACTTTAGTCATTAA
1 AGTAAATTAGACTTTAGTCATTAA
62158689 TTATATCGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (25 bp):
AGTAAATTAGACTTTAGTCATTAAG
Found at i:62162207 original size:21 final size:21
Alignment explanation
Indices: 62162178--62162304 Score: 209
Period size: 21 Copynumber: 6.0 Consensus size: 21
62162168 GTACATCGTT
62162178 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
*
62162199 AATAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
62162220 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
62162241 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
*
62162262 AACAGAAGCTCGTAAAAGCTG
1 AACAGAAGCTCGTAAGAGCTG
* * *
62162283 AATAAAAGCTCATAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
62162304 A
1 A
62162305 TCCACCCAAT
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 99 1.00
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:62165548 original size:18 final size:18
Alignment explanation
Indices: 62165525--62165575 Score: 75
Period size: 18 Copynumber: 2.7 Consensus size: 18
62165515 GAGAAGTCAA
62165525 AGATGAGAAATGAATATG
1 AGATGAGAAATGAATATG
62165543 AGATGAGAAATGAAATATG
1 AGATGAGAAATG-AATATG
*
62165562 AAATGATGAAATGA
1 AGATGA-GAAATGA
62165576 GATGTGAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 12 0.40
19 12 0.40
20 6 0.20
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.22
Consensus pattern (18 bp):
AGATGAGAAATGAATATG
Found at i:62167568 original size:10 final size:11
Alignment explanation
Indices: 62167548--62167577 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
62167538 TAGATCATAA
62167548 TTTTCTTTTTC
1 TTTTCTTTTTC
62167559 TTTT-TTTTTC
1 TTTTCTTTTTC
62167569 TTTTCTTTT
1 TTTTCTTTT
62167578 ACAGGATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTCTTTTTC
Done.