Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 147 of 235
Found at i:49472033 original size:43 final size:43
Alignment explanation
Indices: 49471870--49472042 Score: 145
Period size: 43 Copynumber: 4.0 Consensus size: 43
49471860 ACATAGGATT
* ** * *
49471870 TCGATATGTGATTATGTGTAAGACTACGTCTGGAACATTGGCA
1 TCGATATTTGATTACATGTAAGACCACGTCTGGGACATTGGCA
* * * * *
49471913 TCGAT-TTTAGATTTACGTGTAAGACCATGTATAGGATATTGGCA
1 TCGATATTT-GA-TTACATGTAAGACCACGTCTGGGACATTGGCA
* * *
49471957 TCG-TATTTGATTTCATATAAGACC-CTGTCTGGGACAGTGGCA
1 TCGATATTTGATTACATGTAAGACCAC-GTCTGGGACATTGGCA
* * **
49471999 CCGATATTTGATTACATGTAAGACCACGTTTGGGATGTTGGCA
1 TCGATATTTGATTACATGTAAGACCACGTCTGGGACATTGGCA
49472042 T
1 T
49472043 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 24, Indels: 12
0.74 0.18 0.09
Matches are distributed among these distances:
42 27 0.27
43 41 0.41
44 32 0.32
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (43 bp):
TCGATATTTGATTACATGTAAGACCACGTCTGGGACATTGGCA
Found at i:49482465 original size:125 final size:125
Alignment explanation
Indices: 49482304--49482529 Score: 323
Period size: 127 Copynumber: 1.8 Consensus size: 125
49482294 ATTTTTTTAA
*
49482304 TTTAATAAAAAAATATGATAATTATTAATATATAATTATATCCATTATAA-TATATATTAATTAT
1 TTTAATAAAAAAAGATGATAATTATTAATATATAATTATATCCATTATAATTATATATTAATTAT
*
49482368 TATCAACTTTAG-ATAGAGTTAGGATTAGTGTTAATTTAATCATATTTTATTTGATAAGTT
66 TATCAA-TTTAGCATAGAATTAGGATTAGTGTTAATTTAATCATATTTTATTTGATAAGTT
* * * *
49482428 TTTAATAATAATAAGATGATAATCT-TTGATATGTAATTATATCTATTATAATTTATATATTAAT
1 TTTAATAA-AAAAAGATGATAAT-TATTAATATATAATTATATCCATTATAA-TTATATATTAAT
* *
49482492 TTTTATCAATTTAGCATAGAATTAGGATTAGTTTTAAT
63 TATTATCAATTTAGCATAGAATTAGGATTAGTGTTAAT
49482530 CCTATCTCAT
Statistics
Matches: 89, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
124 8 0.09
125 35 0.39
126 6 0.07
127 40 0.45
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (125 bp):
TTTAATAAAAAAAGATGATAATTATTAATATATAATTATATCCATTATAATTATATATTAATTAT
TATCAATTTAGCATAGAATTAGGATTAGTGTTAATTTAATCATATTTTATTTGATAAGTT
Found at i:49482575 original size:17 final size:18
Alignment explanation
Indices: 49482549--49482582 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
49482539 TTTTTGTTTA
49482549 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
49482566 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
49482583 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:49488630 original size:22 final size:23
Alignment explanation
Indices: 49488605--49488647 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
49488595 TATCCCCACA
*
49488605 TGGAGTGTAG-GGTTGGATGGAG
1 TGGAGTGTAGAGGATGGATGGAG
49488627 TGGAGTGTAGAGGATGGATGG
1 TGGAGTGTAGAGGATGGATGG
49488648 GTAGGATCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.21, C:0.00, G:0.53, T:0.26
Consensus pattern (23 bp):
TGGAGTGTAGAGGATGGATGGAG
Found at i:49490460 original size:28 final size:28
Alignment explanation
Indices: 49490397--49490547 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
49490387 ATATTAAGTC
*
49490397 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
49490424 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
49490452 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
49490480 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
49490508 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
49490537 CGCACACTTAG
1 CGCACACTTAG
49490548 CGCCAATCTC
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 22 0.19
28 77 0.67
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:49497634 original size:14 final size:15
Alignment explanation
Indices: 49497610--49497639 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
49497600 ATAAATAGAT
49497610 AAATAGATAATAATA
1 AAATAGATAATAATA
49497625 AAATAG-TAATAATA
1 AAATAGATAATAATA
49497639 A
1 A
49497640 TGAAGGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (15 bp):
AAATAGATAATAATA
Found at i:49497650 original size:28 final size:27
Alignment explanation
Indices: 49497619--49497686 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
49497609 TAAATAGATA
*
49497619 ATAATAAAATAGTAATAAT-AATGAAGGT
1 ATAATAAAATA--AATAATCAATGAAAGT
*
49497647 ATAAATAAAATAAATAATCGATGAAAGT
1 AT-AATAAAATAAATAATCAATGAAAGT
49497675 A-AATAAAA-AAAT
1 ATAATAAAATAAAT
49497687 TAAAATATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
25 4 0.11
26 7 0.19
27 6 0.17
28 10 0.28
29 9 0.25
ACGTcount: A:0.63, C:0.01, G:0.10, T:0.25
Consensus pattern (27 bp):
ATAATAAAATAAATAATCAATGAAAGT
Found at i:49500847 original size:27 final size:27
Alignment explanation
Indices: 49500779--49500853 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
49500769 TCTCATCCCT
* *
49500779 ATTTTATCCCTGCTAAAA-TTTTAACA
1 ATTTTACCCCTGGTAAAATTTTTAACA
** * * *
49500805 ATTTTACCAATCGTAAAATTTTTGACG
1 ATTTTACCCCTGGTAAAATTTTTAACA
49500832 ATTTTACCCCTGGTAAAATTTT
1 ATTTTACCCCTGGTAAAATTTT
49500854 GAGAAAATAT
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
26 13 0.34
27 25 0.66
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (27 bp):
ATTTTACCCCTGGTAAAATTTTTAACA
Found at i:49508182 original size:99 final size:98
Alignment explanation
Indices: 49507986--49509384 Score: 581
Period size: 100 Copynumber: 14.0 Consensus size: 98
49507976 ATCTGTTTAA
* *
49507986 AATGTCAGGGAAGCGAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGTACCTACTTAGGAA-T
1 AATGTCAGGGAAGTGAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGTATC-ACTT-GGAAGT
** *
49508050 AAGATTTGCCGTTGTGGCCTCAATCTTTTAATTGC
64 AAGATCCGCCGTCGTGGCCTCAATCTTTTAATTGC
* * *
49508085 AATGTCAGGGAAGTGAGATTCGCCATTGTAGCTTCAATCTGTTACGCTGTATTACTTGGAAGTAA
1 AATGTCAGGGAAGTGAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGTATCACTTGGAAGTAA
*
49508150 GATCTGCCGTCGTGGCCTCAATCTTTTAAATTGC
66 GATCCGCCGTCGTGGCCTCAATCTTTT-AATTGC
* * * *
49508184 AATGTCGAGGG-AGTAAGATCCGCCATTGTAGCTTCAATCTGTTCCTCTAG-ATCGCTTGGAAGT
1 AATGTC-AGGGAAGTGAGATTCGCCATTGTAGCTTCAATCTGTTCCACT-GTATCACTTGGAAGT
49508247 AAGATCCGCCGTCGTGGCCTCAATCTTTTAAATTGC
64 AAGATCCGCCGTCGTGGCCTCAATCTTTT-AATTGC
* * ** * * * * * *
49508283 AATGTCGGGGAAGTGAGATTCACTGTTGTAGCTTTAATTTGTTCCACTGCAACGCTAGGAAAGTA
1 AATGTCAGGGAAGTGAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGTATCACTTGG-AAGTA
* * * *
49508348 AGATCCGCTGTTGTAGCTTCAATCTTCTTAATTGC
65 AGATCCGCCGTCGTGGCCTCAATCTT-TTAATTGC
* * * ** ** * * ** *
49508383 AATGTCAGAGAAGTAAGATCCGCTGTTGTAGCTTCAATCT-TCTTAATTGCAATGTC-AGAGAAG
1 AATGTCAGGGAAGTGAGATTCGCCATTGTAGCTTCAATCTGT-TCCACTG-TATCACTTG-GAAG
* * * * ** *
49508446 TAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGC
63 TAAGATCCGCCGTCGTGGCCTCAATCT-TTTAATTGC
* * * ** ** * * ** *
49508483 AATG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT-TCTTAATTGCAATGTC-AGGAAA
1 AATGTC-AGGGAAGTGAGATTCGCCATTGTAGCTTCAATCTGT-TCCACTG-TATCACTTGG-AA
* * * * ** *
49508545 GTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGC
62 GTAAGATCCGCCGTCGTGGCCTCAATCT-TTTAATTGC
* * * ** * * *
49508583 AATG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAAT-GCTAGGAAAG
1 AATGTC-AGGGAAGTGAGATTCGCCATTGTAGCTTCAATCTGTTCCACTG-TATCACTTGG-AAG
* * * * ** *
49508646 TAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGC
63 TAAGATCCGCCGTCGTGGCCTCAATCT-TTTAATTGC
* * * ** * * *
49508683 AATG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAAT-GCTAGGAAAG
1 AATGTC-AGGGAAGTGAGATTCGCCATTGTAGCTTCAATCTGTTCCACTG-TATCACTTGG-AAG
* * * * ** *
49508746 TAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGC
63 TAAGATCCGCCGTCGTGGCCTCAATCT-TTTAATTGC
* * * ** * * *
49508783 AATG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAAT-GCTAGGAAAG
1 AATGTC-AGGGAAGTGAGATTCGCCATTGTAGCTTCAATCTGTTCCACTG-TATCACTTGG-AAG
* * * * ** *
49508846 TAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGC
63 TAAGATCCGCCGTCGTGGCCTCAATCT-TTTAATTGC
* * * ** * * *
49508883 AATG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAAT-GCTAGGAAAG
1 AATGTC-AGGGAAGTGAGATTCGCCATTGTAGCTTCAATCTGTTCCACTG-TATCACTTGG-AAG
* * * * ** *
49508946 TAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGC
63 TAAGATCCGCCGTCGTGGCCTCAATCT-TTTAATTGC
* * * ** * * *
49508983 AATG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAAT-GCTAGGAAAG
1 AATGTC-AGGGAAGTGAGATTCGCCATTGTAGCTTCAATCTGTTCCACTG-TATCACTTGG-AAG
* * * * ** *
49509046 TAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGC
63 TAAGATCCGCCGTCGTGGCCTCAATCT-TTTAATTGC
* * * ** * * *
49509083 AATG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAAT-GCTAGGAAAG
1 AATGTC-AGGGAAGTGAGATTCGCCATTGTAGCTTCAATCTGTTCCACTG-TATCACTTGG-AAG
* * * * ** *
49509146 TAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGC
63 TAAGATCCGCCGTCGTGGCCTCAATCT-TTTAATTGC
* * * ** * * * *
49509183 AATG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGAAAGT
1 AATGTC-AGGGAAGTGAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGTATCACTTGG-AAGT
** * ** * *
49509247 AAGATATGCTGTTTTAGCTTCAATCTTCTTAATTGC
64 AAGATCCGCCGTCGTGGCCTCAATCTT-TTAATTGC
* * ** * * * * *
49509283 AATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATTTGTTCCACTGCAACGCTAGGAAAGTA
1 AATGTCAGGGAAGTGAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGTATCACTTGG-AAGTA
* * * *
49509348 AGATCCGCTGTTGTAGCTTCAATCTTCTTAATTGC
65 AGATCCGCCGTCGTGGCCTCAATCTT-TTAATTGC
49509383 AA
1 AA
49509385 ACTATGGTTT
Statistics
Matches: 1211, Mismatches: 70, Indels: 37
0.92 0.05 0.03
Matches are distributed among these distances:
97 4 0.00
98 36 0.03
99 187 0.15
100 976 0.81
101 8 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (98 bp):
AATGTCAGGGAAGTGAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGTATCACTTGGAAGTAA
GATCCGCCGTCGTGGCCTCAATCTTTTAATTGC
Found at i:49508202 original size:50 final size:49
Alignment explanation
Indices: 49508145--49508555 Score: 147
Period size: 50 Copynumber: 8.2 Consensus size: 49
49508135 ATTACTTGGA
*
49508145 AGTAAGATCTGCCGTCGTGGCCTCAATCTTTTAAATTGCAATGTCGAGGG
1 AGTAAGATCCGCCGTCGTGGCCTCAATCTTTTAAATTGCAATGTCG-GGG
* * * * * * *
49508195 AGTAAGATCCGCCATTGTAGCTTCAATCTGTTCCTCTAGATCGC--T-T--GGA
1 AGTAAGATCCGCCGTCGTGGCCTCAATC--TT--T-TAAATTGCAATGTCGGGG
49508244 AGTAAGATCCGCCGTCGTGGCCTCAATCTTTTAAATTGCAATGTCGGGG
1 AGTAAGATCCGCCGTCGTGGCCTCAATCTTTTAAATTGCAATGTCGGGG
* * * * * * * * ** * * * **
49508293 AAGTGAGATTCACTGTTGTAGCTTTAAT-TTGTTCCACTGCAACGCTAGGAA
1 -AGTAAGATCCGCCGTCGTGGCCTCAATCTT-TTAAATTGCAATG-TCGGGG
* * * * * *
49508344 AGTAAGATCCGCTGTTGTAGCTTCAATCTTCTT-AATTGCAATGTCAGAGA
1 AGTAAGATCCGCCGTCGTGGCCTCAATCTT-TTAAATTGCAATGTC-GGGG
* * * * * *
49508394 AGTAAGATCCGCTGTTGTAGCTTCAATCTTCTT-AATTGCAATGTCAGAGA
1 AGTAAGATCCGCCGTCGTGGCCTCAATCTT-TTAAATTGCAATGTC-GGGG
* * * * * ** * * **
49508444 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
1 AGTAAGATCCGCCGTCGTGGCCTCAATCTTTTAAATTGCAATG-TCGGGG
* * * * **
49508494 AGTAAGATCCGCTGTTGTAGCTTCAATCTTCTT-AATTGCAATGTCAGGAA
1 AGTAAGATCCGCCGTCGTGGCCTCAATCTT-TTAAATTGCAATGTC-GGGG
49508544 AGTAAGATCCGC
1 AGTAAGATCCGC
49508556 TGTTGTAGCT
Statistics
Matches: 291, Mismatches: 51, Indels: 38
0.77 0.13 0.10
Matches are distributed among these distances:
44 6 0.02
45 1 0.00
46 1 0.00
47 3 0.01
49 34 0.12
50 225 0.77
51 10 0.03
52 3 0.01
53 1 0.00
54 1 0.00
55 6 0.02
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (49 bp):
AGTAAGATCCGCCGTCGTGGCCTCAATCTTTTAAATTGCAATGTCGGGG
Found at i:49509384 original size:50 final size:50
Alignment explanation
Indices: 49508195--49509372 Score: 1765
Period size: 50 Copynumber: 23.6 Consensus size: 50
49508185 ATGTCGAGGG
** * *
49508195 AGTAAGATCCGCCATTGTAGCTTCAATCTGTTCCTCT--AGATCGCTTGG-A
1 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCA-AT-GCTAGGAA
* * * * * ** * * *
49508244 AGTAAGATCCGCCGTCGTGGCCTCAATCTTTTAAATTGCAATG-TCGGGGA
1 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCT-AGGAA
* * * * * *
49508294 AGTGAGATTCACTGTTGTAGCTTTAATTTGTTCCACTGCAACGCTAGGAA
1 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
** *
49508344 AGTAAGATCCGCTGTTGTAGCTTCAATCT-TCTTAATTGCAATG-TCA-GAGA
1 AGTAAGATCCGCTGTTGTAGCTTCAATCTGT-TCCACTGCAATGCT-AGGA-A
** *
49508394 AGTAAGATCCGCTGTTGTAGCTTCAATCT-TCTTAATTGCAATG-TCA-GAGA
1 AGTAAGATCCGCTGTTGTAGCTTCAATCTGT-TCCACTGCAATGCT-AGGA-A
49508444 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
1 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
** *
49508494 AGTAAGATCCGCTGTTGTAGCTTCAATCT-TCTTAATTGCAATG-TCAGGAA
1 AGTAAGATCCGCTGTTGTAGCTTCAATCTGT-TCCACTGCAATGCT-AGGAA
49508544 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
1 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
49508594 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
1 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
49508644 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
1 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
49508694 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
1 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
49508744 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
1 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
49508794 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
1 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
49508844 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
1 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
49508894 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
1 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
49508944 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
1 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
49508994 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
1 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
49509044 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
1 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
49509094 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
1 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
49509144 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
1 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
**
49509194 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCT-GGAA
1 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATG-CTAGGAA
** * ** * *
49509244 AGTAAGATATGCTGTTTTAGCTTCAATCT-TCTTAATTGCAATG-TCAGGGA
1 AGTAAGATCCGCTGTTGTAGCTTCAATCTGT-TCCACTGCAATGCT-AGGAA
* *
49509294 AGTAAGATCCGCTGTTGTAGCTTCAATTTGTTCCACTGCAACGCTAGGAA
1 AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
49509344 AGTAAGATCCGCTGTTGTAGCTTCAATCT
1 AGTAAGATCCGCTGTTGTAGCTTCAATCT
49509373 TCTTAATTGC
Statistics
Matches: 1043, Mismatches: 65, Indels: 41
0.91 0.06 0.04
Matches are distributed among these distances:
48 2 0.00
49 38 0.04
50 991 0.95
51 12 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (50 bp):
AGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAA
Found at i:49511310 original size:48 final size:48
Alignment explanation
Indices: 49511258--49511356 Score: 153
Period size: 48 Copynumber: 2.1 Consensus size: 48
49511248 TTCAGTCATT
* *
49511258 TTCCCTACAATTTTCTTGATGTTTTTGTTAGCTGCTTCCACGACACCA
1 TTCCCTACAATCTTCTTGATATTTTTGTTAGCTGCTTCCACGACACCA
* * *
49511306 TTCCCTACAATCTTCTTGATATTTTTGTTTGCTGCTTCCACGGCCCCA
1 TTCCCTACAATCTTCTTGATATTTTTGTTAGCTGCTTCCACGACACCA
49511354 TTC
1 TTC
49511357 ATTTTTGAGC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.16, C:0.29, G:0.12, T:0.42
Consensus pattern (48 bp):
TTCCCTACAATCTTCTTGATATTTTTGTTAGCTGCTTCCACGACACCA
Found at i:49516030 original size:44 final size:44
Alignment explanation
Indices: 49515975--49516062 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
49515965 ATTGTTACAT
* *
49515975 TGCAGTCGTAATTCCAAGGAACCTTTTTGCTATCCTTGTAGGGA
1 TGCAATCGTAATTCCAAGGAACCTTTTGGCTATCCTTGTAGGGA
49516019 TGCAATCGTAATTCCAAGGAACCTTTTGGCTATCCTTGTAGGGA
1 TGCAATCGTAATTCCAAGGAACCTTTTGGCTATCCTTGTAGGGA
49516063 AAGGATACAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (44 bp):
TGCAATCGTAATTCCAAGGAACCTTTTGGCTATCCTTGTAGGGA
Found at i:49522149 original size:5 final size:5
Alignment explanation
Indices: 49522139--49522167 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
49522129 AGAAAGATAA
49522139 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
49522168 ACACAAAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:49531277 original size:27 final size:27
Alignment explanation
Indices: 49531247--49531306 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
49531237 TTAGTTTTTG
49531247 TTATATATATACATACATATATTTGAT
1 TTATATATATACATACATATATTTGAT
* * ** *
49531274 TTATACATGTACATATTTATATTTTAT
1 TTATATATATACATACATATATTTGAT
*
49531301 ATATAT
1 TTATAT
49531307 TTCTATAATT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (27 bp):
TTATATATATACATACATATATTTGAT
Found at i:49531318 original size:19 final size:19
Alignment explanation
Indices: 49531283--49531332 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
49531273 TTTATACATG
* *
49531283 TACATATTTATATTTTATA
1 TACATATCTATAATTTATA
* *
49531302 TATATTTCTATAATTTATA
1 TACATATCTATAATTTATA
49531321 TACATATCTATA
1 TACATATCTATA
49531333 TATATCTATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (19 bp):
TACATATCTATAATTTATA
Found at i:49533456 original size:24 final size:25
Alignment explanation
Indices: 49533408--49533457 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
49533398 CGTCTCTTTT
* * *
49533408 TTGCATTCATCTGCATTACATTTCA
1 TTGCATTCATATGCATTAAACTTCA
49533433 TTGCA-TCATATGCATTAAACTTCA
1 TTGCATTCATATGCATTAAACTTCA
49533457 T
1 T
49533458 AAGAAGACCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (25 bp):
TTGCATTCATATGCATTAAACTTCA
Found at i:49536548 original size:7 final size:7
Alignment explanation
Indices: 49536523--49536576 Score: 58
Period size: 7 Copynumber: 7.7 Consensus size: 7
49536513 AAGAATGTTC
*
49536523 AAAAAAC
1 AAAAAAG
*
49536530 AAACAAAA
1 AAA-AAAG
49536538 AAAAAAG
1 AAAAAAG
49536545 AAAAAAG
1 AAAAAAG
49536552 AAAAAAG
1 AAAAAAG
49536559 --AAAAG
1 AAAAAAG
49536564 AAAAGAAG
1 AAAA-AAG
49536572 AAAAA
1 AAAAA
49536577 TAAAGGAGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
5 5 0.12
7 23 0.56
8 13 0.32
ACGTcount: A:0.85, C:0.04, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:49536555 original size:14 final size:14
Alignment explanation
Indices: 49536523--49536576 Score: 58
Period size: 15 Copynumber: 3.9 Consensus size: 14
49536513 AAGAATGTTC
* *
49536523 AAAAAACAAACAAAA
1 AAAAAAGAAA-AAAG
49536538 AAAAAAGAAAAAAG
1 AAAAAAGAAAAAAG
49536552 AAAAAAG--AAAAG
1 AAAAAAGAAAAAAG
49536564 AAAAGAAGAAAAA
1 AAAA-AAGAAAAA
49536577 TAAAGGAGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
12 9 0.26
13 3 0.09
14 10 0.29
15 12 0.35
ACGTcount: A:0.85, C:0.04, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAAG
Found at i:49536562 original size:19 final size:19
Alignment explanation
Indices: 49536534--49536576 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
49536524 AAAAACAAAC
49536534 AAAAAAAAAAGAAAA-AAG
1 AAAAAAAAAAGAAAAGAAG
49536552 AAAAAAGAAAAGAAAAGAAG
1 AAAAAA-AAAAGAAAAGAAG
49536572 AAAAA
1 AAAAA
49536577 TAAAGGAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 6 0.26
19 9 0.39
20 8 0.35
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAGAAAAGAAG
Found at i:49536581 original size:13 final size:12
Alignment explanation
Indices: 49536536--49536581 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
49536526 AAACAAACAA
49536536 AAAAAAAAGAA-
1 AAAAAAAAGAAG
49536547 AAAAGAAAA-AAG
1 AAAA-AAAAGAAG
49536559 AAAAGAAAAGAAG
1 AAAA-AAAAGAAG
49536572 AAAAATAAAG
1 AAAAA-AAAG
49536582 GAGAGGCCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 6 0.19
12 14 0.45
13 11 0.35
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (12 bp):
AAAAAAAAGAAG
Found at i:49537687 original size:49 final size:46
Alignment explanation
Indices: 49537582--49537987 Score: 168
Period size: 45 Copynumber: 8.8 Consensus size: 46
49537572 CTAGTCTGAC
* * *
49537582 CTCCTTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAATCTTAT
1 CTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATAAATCAATCTTAT
* * **
49537628 CTCCCTGAAGTTGCAATGGAGCAGATTGAAGATAGGTTACAAATCTTAT
1 CTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATA-AAT-C-AATCTTAT
* *
49537677 CTCCTTGAAGTTGCAGTGGAGTAGATGGAAGCCATAAA-C---CTTAT
1 CTCCTTGAAGTTGCAGTGGAGCAGATTGAAG--ATAAATCAATCTTAT
* * * * * *
49537721 CCCCCTGAAGTTGCAATGGGGCAGGTTCAA-AT-AA-CAAGTCTTAT
1 CTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATAAATCAA-TCTTAT
* * * * *
49537765 CTCCCTGAAGTTGTAGTGGAGCAGACTGAACAT--AGCGAATCTTAT
1 CTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATAAATC-AATCTTAT
* * * * * * *
49537810 TTCCCTAAAGTTGCAATGGAACAGATTAAAGCTGTAAATTACAGATCTTAT
1 CTCCTTGAAGTTGCAGTGGAGCAGATTGAAG--ATAAA-T-CA-ATCTTAT
*
49537861 CT-CTCTGAAGTTGCAGT--AG-AG--T--AGATCACATCAAATCTTAT
1 CTCCT-TGAAGTTGCAGTGGAGCAGATTGAAGAT-AAATC-AATCTTAT
* * * *
49537902 CTCCCTGAAATTGCAGTGGAGCAGACTGAATAT-AA-CAAATCTTAT
1 CTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATAAATC-AATCTTAT
* * * * *
49537947 C-ACTCTGAATTTGCAGTAGAACAGACTGAAGCTATAAATCA
1 CTCCT-TGAAGTTGCAGTGGAGCAGATTGAAG--ATAAATCA
49537988 CAAACATTAT
Statistics
Matches: 270, Mismatches: 55, Indels: 68
0.69 0.14 0.17
Matches are distributed among these distances:
40 3 0.01
41 23 0.09
42 4 0.01
43 4 0.01
44 61 0.23
45 65 0.24
46 34 0.13
47 4 0.01
48 10 0.04
49 38 0.14
50 2 0.01
51 22 0.08
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (46 bp):
CTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATAAATCAATCTTAT
Found at i:49537947 original size:182 final size:180
Alignment explanation
Indices: 49537620--49537976 Score: 405
Period size: 182 Copynumber: 2.0 Consensus size: 180
49537610 AAAATAAATC
* * * **
49537620 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGATAGGTTACAAATCTTATCTCCTTGA
1 AATCTTATCTCCCTAAAGTTGCAATGGAACAGATTAAAGATAAATTACAAATCTTATCTCCTTGA
* * * **
49537685 AGTTGCAGTGGAGTAGATGGAAGCCATAAACCTTATCCCCCTGAAGTTGCAATGGGGCAGGTTCA
66 AGTTGCAGTAGAGTAGAT-GAA-CCATAAACCTTATCCCCCTGAAATTGCAATGGAGCAGACTCA
* * * * *
49537750 AATAACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAACATAGCG
129 AATAACAAATCTTATCACCCTGAAGTTGCAGTAGAACAGACTGAACATAGCG
* * *
49537802 AATCTTATTTCCCTAAAGTTGCAATGGAACAGATTAAAGCTGTAAATTACAGATCTTATCT-CTC
1 AATCTTATCTCCCTAAAGTTGCAATGGAACAGATTAAAG--ATAAATTACAAATCTTATCTCCT-
* * * *
49537866 TGAAGTTGCAGTAGAGTAGAT-CA-CATCAAATCTTATCTCCCTGAAATTGCAGTGGAGCAGACT
63 TGAAGTTGCAGTAGAGTAGATGAACCAT-AAACCTTATCCCCCTGAAATTGCAATGGAGCAGACT
* * *
49537929 GAATATAACAAATCTTATCACTCTGAATTTGCAGTAGAACAGACTGAA
127 CAA-ATAACAAATCTTATCACCCTGAAGTTGCAGTAGAACAGACTGAA
49537977 GCTATAAATC
Statistics
Matches: 145, Mismatches: 25, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
180 3 0.02
181 31 0.21
182 73 0.50
183 2 0.01
184 36 0.25
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (180 bp):
AATCTTATCTCCCTAAAGTTGCAATGGAACAGATTAAAGATAAATTACAAATCTTATCTCCTTGA
AGTTGCAGTAGAGTAGATGAACCATAAACCTTATCCCCCTGAAATTGCAATGGAGCAGACTCAAA
TAACAAATCTTATCACCCTGAAGTTGCAGTAGAACAGACTGAACATAGCG
Found at i:49537969 original size:137 final size:137
Alignment explanation
Indices: 49537759--49538015 Score: 327
Period size: 137 Copynumber: 1.9 Consensus size: 137
49537749 AAATAACAAG
* * * * **
49537759 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAACATAGCGAATCTTATTTCCCTAAAGTTGC
1 TCTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAACATAACAAATCTTATCACCCTAAAGTTGC
* * * * * *
49537824 AATGGAACAGATTAAAGCTGTAAATTACAGATC-TTATCTCTCTGAAGTTGCAGTAGAGTAGATC
66 AATAGAACAGACTAAAGCTATAAATCACA-AACATTATCTCTCTAAAGTTGCAGTAGAGTAGATC
49537888 ACATCAAA
130 ACATCAAA
* * * *
49537896 TCTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAATATAACAAATCTTATCACTCTGAATTTGC
1 TCTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAACATAACAAATCTTATCACCCTAAAGTTGC
* * *
49537961 AGTAGAACAGACTGAAGCTATAAATCACAAACATTATCTCTCTAAAGTTGTAGTA
66 AATAGAACAGACTAAAGCTATAAATCACAAACATTATCTCTCTAAAGTTGCAGTA
49538016 AAATAGGCTG
Statistics
Matches: 100, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
136 2 0.02
137 98 0.98
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (137 bp):
TCTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAACATAACAAATCTTATCACCCTAAAGTTGC
AATAGAACAGACTAAAGCTATAAATCACAAACATTATCTCTCTAAAGTTGCAGTAGAGTAGATCA
CATCAAA
Found at i:49539955 original size:19 final size:19
Alignment explanation
Indices: 49539905--49539957 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
49539895 TGATTTATAC
* *
49539905 ATGTACATATTTATATTTT
1 ATGTACATATCTATAATTT
* * *
49539924 ATATATATTTCTATAATTT
1 ATGTACATATCTATAATTT
49539943 ATGTACATATCTATA
1 ATGTACATATCTATA
49539958 TATATCTATA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.53
Consensus pattern (19 bp):
ATGTACATATCTATAATTT
Found at i:49543516 original size:7 final size:7
Alignment explanation
Indices: 49543504--49543530 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
49543494 ATTAGTTCCC
49543504 AATATTT
1 AATATTT
49543511 AATATTT
1 AATATTT
49543518 AATATTT
1 AATATTT
49543525 AATATT
1 AATATT
49543531 GTTATAAAAT
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:0.00, T:0.56
Consensus pattern (7 bp):
AATATTT
Found at i:49544294 original size:18 final size:17
Alignment explanation
Indices: 49544268--49544301 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
49544258 CCAAAACGCG
49544268 AAACATTTCCTTATTTTA
1 AAACATTTCCTT-TTTTA
*
49544286 AAACTTTTCCTTTTTT
1 AAACATTTCCTTTTTT
49544302 GAATAATAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.26, C:0.18, G:0.00, T:0.56
Consensus pattern (17 bp):
AAACATTTCCTTTTTTA
Found at i:49548746 original size:66 final size:69
Alignment explanation
Indices: 49548652--49548778 Score: 181
Period size: 66 Copynumber: 1.9 Consensus size: 69
49548642 TGTATATACA
* * *
49548652 ATATAATTTATTAAAAATTAAAATTTAGATTATAAGTACATAT-T-TG-AAAATATTTAAATGTA
1 ATATAATTTATTAAAAACTAAAATTTAGACTATAAATACATATATATGAAAAATATTTAAATGTA
49548714 TAAT
66 TAAT
*
49548718 ATATAATTTATTAAGAAACTAAAA-TTAGACTATAAATATATATATATGAAAAATATTTAAA
1 ATATAATTTATTAA-AAACTAAAATTTAGACTATAAATACATATATATGAAAAATATTTAAA
49548779 AACATAGTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
66 30 0.57
67 9 0.17
68 2 0.04
69 12 0.23
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (69 bp):
ATATAATTTATTAAAAACTAAAATTTAGACTATAAATACATATATATGAAAAATATTTAAATGTA
TAAT
Found at i:49549014 original size:15 final size:15
Alignment explanation
Indices: 49548994--49549038 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
49548984 CCAGCACAAG
*
49548994 ACAGAGCAGAACATA
1 ACAGAGCAGAACAGA
*
49549009 ACAGAGCAGAATAGA
1 ACAGAGCAGAACAGA
*
49549024 ACAGAGCATAACAGA
1 ACAGAGCAGAACAGA
49549039 GTAGAACTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.53, C:0.18, G:0.22, T:0.07
Consensus pattern (15 bp):
ACAGAGCAGAACAGA
Found at i:49549038 original size:20 final size:20
Alignment explanation
Indices: 49549015--49549072 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
49549005 CATAACAGAG
*
49549015 CAGAATAGAACAGAGCATAA
1 CAGAGTAGAACAGAGCATAA
*
49549035 CAGAGTAGAACTA-AACATAA
1 CAGAGTAGAAC-AGAGCATAA
*
49549055 AAGAGTAGAACAGAGCAT
1 CAGAGTAGAACAGAGCAT
49549073 GTATGTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.53, C:0.14, G:0.21, T:0.12
Consensus pattern (20 bp):
CAGAGTAGAACAGAGCATAA
Found at i:49549039 original size:40 final size:40
Alignment explanation
Indices: 49548994--49549072 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
49548984 CCAGCACAAG
**
49548994 ACAGAGCAGAAC-ATAACAGAGCAGAATAGAACAGAGCATA
1 ACAGAGCAGAACTA-AACAGAAAAGAATAGAACAGAGCATA
* * *
49549034 ACAGAGTAGAACTAAACATAAAAGAGTAGAACAGAGCAT
1 ACAGAGCAGAACTAAACAGAAAAGAATAGAACAGAGCAT
49549073 GTATGTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
40 32 0.97
41 1 0.03
ACGTcount: A:0.53, C:0.15, G:0.22, T:0.10
Consensus pattern (40 bp):
ACAGAGCAGAACTAAACAGAAAAGAATAGAACAGAGCATA
Found at i:49558924 original size:6 final size:7
Alignment explanation
Indices: 49558907--49558931 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
49558897 CAGAAGCAAA
49558907 AAAAATC
1 AAAAATC
49558914 AAAAATC
1 AAAAATC
49558921 AAAAATC
1 AAAAATC
49558928 AAAA
1 AAAA
49558932 CAACAGCAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATC
Found at i:49559219 original size:11 final size:11
Alignment explanation
Indices: 49559205--49559252 Score: 53
Period size: 11 Copynumber: 4.2 Consensus size: 11
49559195 AAGAGAGGAG
49559205 AAAGAAAGAAA
1 AAAGAAAGAAA
49559216 AAAGAAAGAAA
1 AAAGAAAGAAA
*
49559227 GGAGAGAAAGAAA
1 --AAAGAAAGAAA
49559240 AGAAGAAA-AAA
1 A-AAGAAAGAAA
49559251 AA
1 AA
49559253 GGGACAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
10 1 0.03
11 16 0.50
12 5 0.16
13 10 0.31
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
AAAGAAAGAAA
Found at i:49559221 original size:26 final size:25
Alignment explanation
Indices: 49559192--49559273 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 25
49559182 GAAATAGAAG
*
49559192 AGAAAGAGAGGAGAAAGAAAGAAAA-A
1 AGAAAGAAAGGAG--AGAAAGAAAAGA
49559218 AGAAAGAAAGGAGAGAAAGAAAAGA
1 AGAAAGAAAGGAGAGAAAGAAAAGA
* *
49559243 AGAAAAAAAAGG-GACAAA-AAAAGA
1 AG-AAAGAAAGGAGAGAAAGAAAAGA
49559267 GAGAAAG
1 -AGAAAG
49559274 CTTTTCGAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
24 19 0.39
25 10 0.20
26 20 0.41
ACGTcount: A:0.70, C:0.01, G:0.29, T:0.00
Consensus pattern (25 bp):
AGAAAGAAAGGAGAGAAAGAAAAGA
Found at i:49559420 original size:7 final size:7
Alignment explanation
Indices: 49559405--49559440 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
49559395 TAGGGTTTTC
*
49559405 GAAAGAA
1 GAAAAAA
49559412 GAAAAAA
1 GAAAAAA
49559419 GAAAAAA
1 GAAAAAA
49559426 GAAAAAGA
1 GAAAAA-A
49559434 GAAAAAA
1 GAAAAAA
49559441 ATTTAAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:49559776 original size:12 final size:12
Alignment explanation
Indices: 49559759--49559785 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
49559749 AAGGGAAGGG
49559759 AAAAAAGAGAAA
1 AAAAAAGAGAAA
49559771 AAAAAAGAGAAA
1 AAAAAAGAGAAA
49559783 AAA
1 AAA
49559786 GAGGAAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAGAGAAA
Found at i:49559784 original size:21 final size:21
Alignment explanation
Indices: 49559758--49559806 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
49559748 GAAGGGAAGG
49559758 GAAAAAAGA-GAAAAAAAAAGA
1 GAAAAAAGAGGAAAAAAAAA-A
* *
49559779 GAAAAAAGAGGAAAGAAGAAA
1 GAAAAAAGAGGAAAAAAAAAA
49559800 GAAAAAA
1 GAAAAAA
49559807 CCCAGTCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (21 bp):
GAAAAAAGAGGAAAAAAAAAA
Found at i:49560223 original size:17 final size:17
Alignment explanation
Indices: 49560201--49560256 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
49560191 GTAATTTACC
49560201 AAAATTTTCGTGTTTCA
1 AAAATTTTCGTGTTTCA
*
49560218 AAAATTTTCATGTTTTCAA
1 AAAATTTTCGTG-TTTC-A
* *
49560237 AAAATTCTCGTGTTTTA
1 AAAATTTTCGTGTTTCA
49560254 AAA
1 AAA
49560257 TAAAATGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 15 0.45
18 7 0.21
19 11 0.33
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.45
Consensus pattern (17 bp):
AAAATTTTCGTGTTTCA
Found at i:49560241 original size:19 final size:19
Alignment explanation
Indices: 49560201--49560256 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
49560191 GTAATTTACC
49560201 AAAATTTTCGTG-TTTC-A
1 AAAATTTTCGTGTTTTCAA
*
49560218 AAAATTTTCATGTTTTCAA
1 AAAATTTTCGTGTTTTCAA
*
49560237 AAAATTCTCGTGTTTT-AA
1 AAAATTTTCGTGTTTTCAA
49560255 AA
1 AA
49560257 TAAAATGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 11 0.32
18 8 0.24
19 15 0.44
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.45
Consensus pattern (19 bp):
AAAATTTTCGTGTTTTCAA
Found at i:49561130 original size:67 final size:67
Alignment explanation
Indices: 49561022--49561192 Score: 324
Period size: 67 Copynumber: 2.6 Consensus size: 67
49561012 AAGTAAACGC
*
49561022 TATGCCTTCGTGAGTTAACTTGTCCCTCCGCACAGGCTAGTGAAATACTTCCAAGTTACATATGA
1 TATGCTTTCGTGAGTTAACTTGTCCCTCCGCACAGGCTAGTGAAATACTTCCAAGTTACATATGA
49561087 CT
66 CT
49561089 TATGCTTTCGTGAGTTAACTTGTCCCTCCGCACAGGCTAGTGAAATACTTCCAAGTTACATATGA
1 TATGCTTTCGTGAGTTAACTTGTCCCTCCGCACAGGCTAGTGAAATACTTCCAAGTTACATATGA
49561154 CT
66 CT
*
49561156 TATGCTTTCGTGAGTTAACTTGTCCCTCCGCATAGGC
1 TATGCTTTCGTGAGTTAACTTGTCCCTCCGCACAGGC
49561193 ATAAGTAAAT
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 102 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (67 bp):
TATGCTTTCGTGAGTTAACTTGTCCCTCCGCACAGGCTAGTGAAATACTTCCAAGTTACATATGA
CT
Found at i:49566475 original size:7 final size:7
Alignment explanation
Indices: 49566458--49566497 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
49566448 TATTATGCCT
49566458 AAAAATAA
1 AAAAAT-A
49566466 AAAAATA
1 AAAAATA
49566473 AAAAAT-
1 AAAAATA
49566479 AAAAATA
1 AAAAATA
*
49566486 AAAAACA
1 AAAAATA
49566493 AAAAA
1 AAAAA
49566498 AAGACAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
6 6 0.20
7 18 0.60
8 6 0.20
ACGTcount: A:0.88, C:0.03, G:0.00, T:0.10
Consensus pattern (7 bp):
AAAAATA
Found at i:49566482 original size:13 final size:13
Alignment explanation
Indices: 49566466--49566496 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
49566456 CTAAAAATAA
*
49566466 AAAAATAAAAAAT
1 AAAAATAAAAAAC
49566479 AAAAATAAAAAAC
1 AAAAATAAAAAAC
49566492 AAAAA
1 AAAAA
49566497 AAAGACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.87, C:0.03, G:0.00, T:0.10
Consensus pattern (13 bp):
AAAAATAAAAAAC
Found at i:49566482 original size:21 final size:22
Alignment explanation
Indices: 49566457--49566499 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
49566447 ATATTATGCC
*
49566457 TAAAAATAAAAAA-ATAAAAAA
1 TAAAAATAAAAAACAAAAAAAA
49566478 TAAAAATAAAAAACAAAAAAAA
1 TAAAAATAAAAAACAAAAAAAA
49566500 GACAAAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.86, C:0.02, G:0.00, T:0.12
Consensus pattern (22 bp):
TAAAAATAAAAAACAAAAAAAA
Found at i:49567632 original size:76 final size:77
Alignment explanation
Indices: 49567375--49568756 Score: 1601
Period size: 75 Copynumber: 18.0 Consensus size: 77
49567365 TGTTTTATTT
* * * *
49567375 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACACCGAGGTATTTTTTAATTTAT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTA-TTTTCAATTTCT
49567440 GTTTTTCAAAAAA
65 GTTTTTCAAAAAA
*
49567453 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTTAATTT-T
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTA-TTTTCAATTTCT
*
49567517 AATTTTTC-AAAAA
65 -GTTTTTCAAAAAA
*
49567530 ATCAACTCATATTGC-AGGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTAATTTCT
1 ATCAACTCATATTGCGA-GAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCT
*
49567594 ATTTTTCAAAAAA
65 GTTTTTCAAAAAA
* *
49567607 ATCAACTCATA-TGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATCTTTTAATTGT-
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTAT-TTTCAATT-TC
49567670 TGTTTTTC--AAAA
64 TGTTTTTCAAAAAA
** * * *
49567682 ATCAACTCATATTGTTAGAGGTGAGTTGAGCCTTGGGTCGCACGCCGAGGTATTTTCAATTTTTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTG
49567747 TTTTTCAAAAAA
66 TTTTTCAAAAAA
* *
49567759 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCAATTTCTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTG
49567824 TTTTTCAAAAAA
66 TTTTTCAAAAAA
* * * * *
49567836 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCTGGTCACATGCCGAGGTATCTTTTAATTTTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTAT-TTTCAATTTCT
49567901 GTTTTTC--AAAA
65 GTTTTTCAAAAAA
* * * * * * *
49567912 ATTAACTCATATTACAATAGGTGAGTTAAGCCTCGGGCCACACGCCGAGGTATTTTCAATTTTTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTG
*
49567977 TTTTTC--ATAA
66 TTTTTCAAAAAA
* * * *
49567987 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGGTCGCATGCCGAGGTATTTTCAATTTCTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTG
49568052 TTTTTCAAAAAAAAAA
66 TTTTTC----AAAAAA
* * * * *
49568068 ATCAACTCATATTGCAAGAGGTGAGTTGAGCCACGGGCCGCACGCCGAGATATTTTCAATTTCTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTG
49568133 TTTTTC--AAAA
66 TTTTTCAAAAAA
* * * * * * * *
49568143 ATCAACTTATAATGCGAGAGGTGAGTTAAGCCTTGGGTCGCACACCGAGGTATTTTCAATTTTTA
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTG
49568208 TTTTTCAAAAAAA
66 TTTTTC-AAAAAA
* * *
49568221 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGGCCGCACGCCGAGGTATTTTCAATTTCTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTG
49568286 TTTTTCAAAAAAAAA
66 TTTTTC---AAAAAA
* *
49568301 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATGCCGAGGTATCTTT-AATTTCT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTAT-TTTCAATTTCT
49568365 GTTTTTC--AAAA
65 GTTTTTCAAAAAA
* * * * * *
49568376 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGG-CTGCATGCCGAGATATTTTCAATTTTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-ACACGCCGAGGTATTTTCAATTTCT
*
49568440 G-TTTTAAAAAAA
65 GTTTTTCAAAAAA
* * *
49568452 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACATGTCGAGGTATCTTT-AATTTCT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTAT-TTTCAATTTCT
* *
49568516 G-TTTTC-CAAAT
65 GTTTTTCAAAAAA
* * * * *
49568527 ATCAACTCATAATGCGAGAGGTGAGTTGAGCATTGGGTCAAATGCCGAGGTACTTTT-AATTTCT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTA-TTTTCAATTTCT
*
49568591 GTTTTTC--AAGA
65 GTTTTTCAAAAAA
* ** * * *
49568602 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTTGCACGCTGGGGTATTTTTCAATTTAT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTA-TTTTCAATTTCT
*
49568667 G-TTTTAAAAAAA
65 GTTTTTCAAAAAA
** * * * * * * * *
49568679 ATCAACTCATGGCT-CGAGAGGTGAATTGAGCTTCGGGTCGCGCGTCAAGCTATTTTCAATCTCT
1 ATCAACTCAT-ATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCT
*
49568743 ATTTTTCAAAAAA
65 GTTTTTCAAAAAA
49568756 A
1 A
49568757 AAGTTTTTTG
Statistics
Matches: 1145, Mismatches: 122, Indels: 75
0.85 0.09 0.06
Matches are distributed among these distances:
74 9 0.01
75 347 0.30
76 225 0.20
77 272 0.24
78 152 0.13
80 70 0.06
81 70 0.06
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (77 bp):
ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTG
TTTTTCAAAAAA
Found at i:49568476 original size:384 final size:378
Alignment explanation
Indices: 49567354--49568688 Score: 1699
Period size: 384 Copynumber: 3.5 Consensus size: 378
49567344 CAAGAATTAT
***
49567354 TTTTCAATTTCTG-TTTT-ATTTATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACA
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACA
* * *
49567417 CACCGAGGTATTTTTTAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
66 CACCGAGGTACTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* *
49567482 GCCTCGGGTCACACGCCGAGGTATTTTTTAATTTTAATTTTTCAAAAAATCAACTCATATTGCAG
131 GCCTCGGGTCACACGCCGAGGTATTTTTCAATTTT-GTTTTTCAAAAAATCAACTCATATTGCA-
*
49567547 GAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTAATTTCTATTTTTCAAAAAAATCAA
194 GAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTA-TTTTAATTTCTGTTTTTC--AAAAATCAA
* * * *
49567612 CTCAT-ATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATCTTTTAATTGTTGTTTT
256 CTCATAATGCGAGAGGTGAGTTGAGCCTTGGGTCGCATGCCGAGGTAT-TTTCAATTTTTGTTTT
** ** *
49567676 -TCAAAAATCAACTCATATTGTTAGAGGTGAGTTGAGCCTTGGGTCGCACGCCGAGGTA
320 AAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTA
* * *
49567734 TTTTCAATTTTTGTTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTCTGTTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCA
** *
49567799 CATGCCGAGGTA-TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTT
64 CACACCGAGGTACTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
* * * *
49567863 GAGCCTCTGGTCACATGCCGAGGTATCTTTT-AATTTTTGTTTTTC-AAAAATTAACTCATATTA
129 GAGCCTCGGGTCACACGCCGAGGTAT-TTTTCAA-TTTTGTTTTTCAAAAAATCAACTCATATTG
* * * * *
49567926 CAATAGGTGAGTTAAGCCTCGGGCCACACGCCGAGGTATTTTCAATTTTTGTTTTTCATAAATCA
192 C-AGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTT-AATTTCTGTTTTTCAAAAATCA
*
49567991 ACTCATAATGCGAGAGGTGAGTTGAGCCTTGGGTCGCATGCCGAGGTATTTTCAATTTCTGTTTT
255 ACTCATAATGCGAGAGGTGAGTTGAGCCTTGGGTCGCATGCCGAGGTATTTTCAATTTTTG-TTT
* * *
49568056 TCAAAAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCACGGGCCGCACGCCGAGATA
319 T----AAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTA
* * * *
49568120 TTTTCAATTTCTGTTTTTCAAAAATCAACTTATAATGCGAGAGGTGAGTTAAGCCTTGGGTCGCA
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACA
* *
49568185 CACCGAGGTA-TTTTCAATTTTTATTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
66 CACCGAGGTACTTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * *
49568249 AGCCTAGGGCCGCACGCCGAGGTA-TTTTCAATTTCTGTTTTTCAAAAAAAAAATCAACTCATAT
130 AGCCTCGGGTCACACGCCGAGGTATTTTTCAATTT-TGTTTTTC----AAAAAATCAACTCATAT
* *
49568313 TGCGAGAGGTGAGTTGAGCCTTGGGTCACATGCCGAGGTATCTTTAATTTCTGTTTTTCAAAAAT
190 TGC-AGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTAT-TTTAATTTCTGTTTTTCAAAAAT
*
49568378 CAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGG-CTGCATGCCGAGATATTTTCAATTTTTGT
253 CAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGGTC-GCATGCCGAGGTATTTTCAATTTTTGT
* * * * *
49568442 TTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACATGTCGAGGTA
317 TTTAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTA
* * * * *
49568504 TCTTT-AATTTCTGTTTTCCAAATATCAACTCATAATGCGAGAGGTGAGTTGAGCATTGGGTCAA
1 T-TTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCAC
** * *
49568568 ATGCCGAGGTACTTTT-AATTTCTGTTTTTC--AAGAATCAACTCATAATGCGAGAGGTGAGTTG
65 ACACCGAGGTACTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
** * * **
49568630 AGCCTCGGGTTGCACGCTGGGGTATTTTTCAATTTATGTTTTAAAAAAAATCAACTCAT
130 AGCCTCGGGTCACACGCCGAGGTATTTTTCAATTT-TGTTTTTCAAAAAATCAACTCAT
49568689 GGCTCGAGAG
Statistics
Matches: 834, Mismatches: 93, Indels: 58
0.85 0.09 0.06
Matches are distributed among these distances:
378 15 0.02
380 34 0.04
381 101 0.12
382 77 0.09
383 89 0.11
384 257 0.31
385 59 0.07
386 68 0.08
388 5 0.01
389 126 0.15
390 3 0.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (378 bp):
TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACA
CACCGAGGTACTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
GCCTCGGGTCACACGCCGAGGTATTTTTCAATTTTGTTTTTCAAAAAATCAACTCATATTGCAGA
GGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTAATTTCTGTTTTTCAAAAATCAACTCAT
AATGCGAGAGGTGAGTTGAGCCTTGGGTCGCATGCCGAGGTATTTTCAATTTTTGTTTTAAAAAA
AATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTA
Found at i:49569726 original size:14 final size:15
Alignment explanation
Indices: 49569698--49569742 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
49569688 AGGAGAAATT
*
49569698 AAGAAAAAAAGAAAA
1 AAGAAAAGAAGAAAA
*
49569713 AAGAAATG-AG-AAA
1 AAGAAAAGAAGAAAA
49569726 AAGAAAAGAAGAAAA
1 AAGAAAAGAAGAAAA
49569741 AA
1 AA
49569743 AGGGACGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
13 10 0.40
14 4 0.16
15 11 0.44
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (15 bp):
AAGAAAAGAAGAAAA
Found at i:49569728 original size:13 final size:14
Alignment explanation
Indices: 49569698--49569741 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
49569688 AGGAGAAATT
*
49569698 AAGAAAAAAAGAAAA
1 AAGAAAAGAAG-AAA
*
49569713 AAGAAATG-AGAAA
1 AAGAAAAGAAGAAA
49569726 AAGAAAAGAAGAAA
1 AAGAAAAGAAGAAA
49569740 AA
1 AA
49569742 AAGGGACGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 10 0.40
14 9 0.36
15 6 0.24
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (14 bp):
AAGAAAAGAAGAAA
Found at i:49569930 original size:6 final size:6
Alignment explanation
Indices: 49569910--49569963 Score: 62
Period size: 6 Copynumber: 9.5 Consensus size: 6
49569900 AGGTTTTTCG
*
49569910 AAAGAA GAA-AA AAAGAA AAAGAA AAAGAA AAAG-- AAAG-A AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
49569954 AAGAGAA AAA
1 AA-AGAA AAA
49569964 AATTTAAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
4 4 0.10
5 8 0.19
6 24 0.57
7 6 0.14
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:49569949 original size:22 final size:21
Alignment explanation
Indices: 49569910--49569965 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 21
49569900 AGGTTTTTCG
49569910 AAAGAAGAAAAAAAGAAAAAGAA
1 AAAGAA-AAAAAAAG-AAAAGAA
*
49569933 AAAGAAAAAGAAAGAAAAGAA
1 AAAGAAAAAAAAAGAAAAGAA
49569954 AAGAGAAAAAAA
1 AA-AGAAAAAAA
49569966 TTTAAAACAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 9 0.30
22 15 0.50
23 6 0.20
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (21 bp):
AAAGAAAAAAAAAGAAAAGAA
Found at i:49570310 original size:22 final size:20
Alignment explanation
Indices: 49570284--49570345 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
49570274 GAAGGGAAGG
49570284 GGAAAAAAAGAAAAAAGAAAA
1 GGAAAAAAAGAAAAAA-AAAA
**
49570305 GAGAAAAAAAGAGGAAAAAAA
1 G-GAAAAAAAGAAAAAAAAAA
49570326 GGAAAAAAA-AAAAGAAAAAA
1 GGAAAAAAAGAAAA-AAAAAA
49570346 CCCGGTCGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 2 0.06
20 14 0.40
21 6 0.17
22 13 0.37
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (20 bp):
GGAAAAAAAGAAAAAAAAAA
Found at i:49570322 original size:33 final size:32
Alignment explanation
Indices: 49570266--49570345 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 32
49570256 GCCCAGCCAG
*** *
49570266 AAAAAAAAGAAGGGAAGGGGAAAAAAA-GAAA
1 AAAAAAAAGAAAAAAAGAGGAAAAAAAGGAAA
49570297 AAAGAAAAGAGAAAAAAAGAGGAAAAAAAGGAAA
1 AAA-AAAA-AGAAAAAAAGAGGAAAAAAAGGAAA
49570331 AAAAAAAAGAAAAAA
1 AAAAAAAAGAAAAAA
49570346 CCCGGTCGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 3 0.07
32 12 0.29
33 20 0.48
34 7 0.17
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (32 bp):
AAAAAAAAGAAAAAAAGAGGAAAAAAAGGAAA
Found at i:49570344 original size:12 final size:12
Alignment explanation
Indices: 49570286--49570345 Score: 61
Period size: 12 Copynumber: 5.2 Consensus size: 12
49570276 AGGGAAGGGG
49570286 AAAAAAAGAAAA
1 AAAAAAAGAAAA
* *
49570298 AAGAAAAG--AG
1 AAAAAAAGAAAA
**
49570308 AAAAAAAGAGGA
1 AAAAAAAGAAAA
*
49570320 AAAAAAGGAAAA
1 AAAAAAAGAAAA
49570332 AAAAAAAGAAAA
1 AAAAAAAGAAAA
49570344 AA
1 AA
49570346 CCCGGTCGTG
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
10 8 0.22
12 29 0.78
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:49570723 original size:17 final size:17
Alignment explanation
Indices: 49570701--49570756 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
49570691 GTAATTTACC
49570701 AAAATTTTCGTGTTTCA
1 AAAATTTTCGTGTTTCA
*
49570718 AAAATTTTAGTGTTTTCAA
1 AAAATTTTCGTG-TTTC-A
* *
49570737 AAAATTCTCGTGTTTTA
1 AAAATTTTCGTGTTTCA
49570754 AAA
1 AAA
49570757 TAAAATGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 15 0.45
18 7 0.21
19 11 0.33
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.45
Consensus pattern (17 bp):
AAAATTTTCGTGTTTCA
Found at i:49570741 original size:19 final size:19
Alignment explanation
Indices: 49570701--49570756 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
49570691 GTAATTTACC
49570701 AAAATTTTCGTG-TTTC-A
1 AAAATTTTCGTGTTTTCAA
*
49570718 AAAATTTTAGTGTTTTCAA
1 AAAATTTTCGTGTTTTCAA
*
49570737 AAAATTCTCGTGTTTT-AA
1 AAAATTTTCGTGTTTTCAA
49570755 AA
1 AA
49570757 TAAAATGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 11 0.32
18 8 0.24
19 15 0.44
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.45
Consensus pattern (19 bp):
AAAATTTTCGTGTTTTCAA
Found at i:49572481 original size:21 final size:20
Alignment explanation
Indices: 49572457--49572498 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
49572447 CAAAACAAAA
49572457 ACAAATTT-CAAGAGTTATATG
1 ACAAATTTACAA-AGTTA-ATG
49572478 ACAAATTTACAAAGTTAATG
1 ACAAATTTACAAAGTTAATG
49572498 A
1 A
49572499 AATTACACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 13 0.65
22 3 0.15
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.31
Consensus pattern (20 bp):
ACAAATTTACAAAGTTAATG
Found at i:49572582 original size:200 final size:200
Alignment explanation
Indices: 49572294--49572693 Score: 800
Period size: 200 Copynumber: 2.0 Consensus size: 200
49572284 ACTACAAGAG
49572294 AATGAAATTACACTTTCATTCAATTACTCTATGCTGTTTAAACACGCTCTCGAAAAAATTGATTG
1 AATGAAATTACACTTTCATTCAATTACTCTATGCTGTTTAAACACGCTCTCGAAAAAATTGATTG
49572359 GAAATTACTGATTTTTCTAAAGTTACCAATCAACCGCGATACATTATCATTTTTGTGGAGAAATG
66 GAAATTACTGATTTTTCTAAAGTTACCAATCAACCGCGATACATTATCATTTTTGTGGAGAAATG
49572424 CGAAGTCCAATTGCGATAATTATCAAAACAAAAACAAATTTCAAGAGTTATATGACAAATTTACA
131 CGAAGTCCAATTGCGATAATTATCAAAACAAAAACAAATTTCAAGAGTTATATGACAAATTTACA
49572489 AAGTT
196 AAGTT
49572494 AATGAAATTACACTTTCATTCAATTACTCTATGCTGTTTAAACACGCTCTCGAAAAAATTGATTG
1 AATGAAATTACACTTTCATTCAATTACTCTATGCTGTTTAAACACGCTCTCGAAAAAATTGATTG
49572559 GAAATTACTGATTTTTCTAAAGTTACCAATCAACCGCGATACATTATCATTTTTGTGGAGAAATG
66 GAAATTACTGATTTTTCTAAAGTTACCAATCAACCGCGATACATTATCATTTTTGTGGAGAAATG
49572624 CGAAGTCCAATTGCGATAATTATCAAAACAAAAACAAATTTCAAGAGTTATATGACAAATTTACA
131 CGAAGTCCAATTGCGATAATTATCAAAACAAAAACAAATTTCAAGAGTTATATGACAAATTTACA
49572689 AAGTT
196 AAGTT
49572694 TCACCCAAAA
Statistics
Matches: 200, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 200 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (200 bp):
AATGAAATTACACTTTCATTCAATTACTCTATGCTGTTTAAACACGCTCTCGAAAAAATTGATTG
GAAATTACTGATTTTTCTAAAGTTACCAATCAACCGCGATACATTATCATTTTTGTGGAGAAATG
CGAAGTCCAATTGCGATAATTATCAAAACAAAAACAAATTTCAAGAGTTATATGACAAATTTACA
AAGTT
Found at i:49576588 original size:25 final size:26
Alignment explanation
Indices: 49576555--49576606 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
49576545 TTGTTTGTGG
*
49576555 TTTATGGGTTTAATG-TTTATGGTTAA
1 TTTATGGGTTTAA-GATCTATGGTTAA
49576581 TTTA-GGGTTTAAGATCTATGGTTAA
1 TTTATGGGTTTAAGATCTATGGTTAA
49576606 T
1 T
49576607 GTCTACGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 1 0.04
25 19 0.79
26 4 0.17
ACGTcount: A:0.25, C:0.02, G:0.23, T:0.50
Consensus pattern (26 bp):
TTTATGGGTTTAAGATCTATGGTTAA
Found at i:49579260 original size:16 final size:16
Alignment explanation
Indices: 49579199--49579512 Score: 77
Period size: 16 Copynumber: 19.0 Consensus size: 16
49579189 ACACATAGCC
* *
49579199 TACATGACTTACTTAA
1 TACATAACTTACATAA
* *
49579215 TACACAACTTAAATAA
1 TACATAACTTACATAA
*
49579231 TTTAAATAACTTACATAA
1 --TACATAACTTACATAA
49579249 TACATAACTTACAT--
1 TACATAACTTACATAA
49579263 T-CATAACTTACATAA
1 TACATAACTTACATAA
49579278 -ACTTATATGTTACCTTACATAA
1 TAC--ATA----A-CTTACATAA
* *
49579300 TACATAACTTATAT-T
1 TACATAACTTACATAA
* ** *
49579315 TATGAT-TTTTATATAAA
1 TA-CATAACTTACAT-AA
49579332 CTTACATAA--TACATAGCA
1 --TACATAACTTACATA--A
49579350 TACATAACTTACATAA
1 TACATAACTTACATAA
*
49579366 TACATAATAACTTACA-ACT
1 TAC---ATAACTTACATA-A
49579385 TACATAACTTACATAA
1 TACATAACTTACATAA
*
49579401 TACATAA-TAAC-T--
1 TACATAACTTACATAA
49579413 TAC--AACTTACATAACA
1 TACATAACTTACAT-A-A
**
49579429 TACATTAA-TTTGATAA
1 TACA-TAACTTACATAA
* * *
49579445 CTTATAGAAGTTACATAA
1 --TACATAACTTACATAA
*
49579463 TACATAACTTACA-ACT
1 TACATAACTTACATA-A
*
49579479 TACATAACATACATTAA
1 TACATAACTTACA-TAA
*
49579496 TATGATAACTTACATAA
1 TA-CATAACTTACATAA
49579513 GTTACATAAT
Statistics
Matches: 219, Mismatches: 35, Indels: 87
0.64 0.10 0.26
Matches are distributed among these distances:
10 2 0.01
11 3 0.01
12 4 0.02
13 12 0.05
14 2 0.01
15 13 0.06
16 88 0.40
17 17 0.08
18 46 0.21
19 17 0.08
21 4 0.02
22 9 0.04
23 2 0.01
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.35
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:49579269 original size:13 final size:15
Alignment explanation
Indices: 49579236--49579276 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
49579226 AATAATTTAA
49579236 ATAACTTACATAATAC
1 ATAACTTACAT-ATAC
49579252 ATAACTTACAT-T-C
1 ATAACTTACATATAC
49579265 ATAACTTACATA
1 ATAACTTACATA
49579277 AACTTATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAACTTACATATAC
Found at i:49579362 original size:9 final size:9
Alignment explanation
Indices: 49579330--49579533 Score: 109
Period size: 9 Copynumber: 23.8 Consensus size: 9
49579320 TTTTTATATA
49579330 AACTTACAT
1 AACTTACAT
49579339 AA--TACAT
1 AACTTACAT
* *
49579346 AGCATACAT
1 AACTTACAT
49579355 AACTTACAT
1 AACTTACAT
*
49579364 AATACATA-AT
1 -A-ACTTACAT
49579374 AACTTAC--
1 AACTTACAT
49579381 AACTTACAT
1 AACTTACAT
49579390 AACTTACAT
1 AACTTACAT
*
49579399 AATACATA-AT
1 -A-ACTTACAT
49579409 AACTTAC--
1 AACTTACAT
49579416 AACTTACAT
1 AACTTACAT
*
49579425 AACATACATT
1 AACTTACA-T
**
49579435 AA-TTTGAT
1 AACTTACAT
* *
49579443 AACTTATAG
1 AACTTACAT
*
49579452 AAGTTACAT
1 AACTTACAT
49579461 AA--TACAT
1 AACTTACAT
49579468 AACTTAC--
1 AACTTACAT
49579475 AACTTACAT
1 AACTTACAT
*
49579484 AACATACATT
1 AACTTACA-T
*
49579494 AA--TATGAT
1 AACTTA-CAT
49579502 AACTTACAT
1 AACTTACAT
*
49579511 AAGTTACAT
1 AACTTACAT
49579520 AA--TACAT
1 AACTTACAT
49579527 AACTTAC
1 AACTTAC
49579534 CACTGAACAA
Statistics
Matches: 150, Mismatches: 21, Indels: 48
0.68 0.10 0.22
Matches are distributed among these distances:
7 41 0.27
8 16 0.11
9 71 0.47
10 14 0.09
11 8 0.05
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:49579377 original size:19 final size:20
Alignment explanation
Indices: 49579348--49579416 Score: 87
Period size: 19 Copynumber: 3.8 Consensus size: 20
49579338 TAATACATAG
49579348 CATACATAACTTACATAATA
1 CATACATAACTTACATAATA
49579368 CATA-ATAACTTAC---A-A
1 CATACATAACTTACATAATA
*
49579383 CTTACATAACTTACATAATA
1 CATACATAACTTACATAATA
49579403 CATA-ATAACTTACA
1 CATACATAACTTACA
49579417 ACTTACATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
15 4 0.10
16 10 0.24
19 20 0.48
20 8 0.19
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.30
Consensus pattern (20 bp):
CATACATAACTTACATAATA
Found at i:49579393 original size:35 final size:35
Alignment explanation
Indices: 49579350--49579433 Score: 159
Period size: 35 Copynumber: 2.4 Consensus size: 35
49579340 ATACATAGCA
49579350 TACATAACTTACATAATACATAATAACTTACAACT
1 TACATAACTTACATAATACATAATAACTTACAACT
49579385 TACATAACTTACATAATACATAATAACTTACAACT
1 TACATAACTTACATAATACATAATAACTTACAACT
*
49579420 TACATAACATACAT
1 TACATAACTTACAT
49579434 TAATTTGATA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (35 bp):
TACATAACTTACATAATACATAATAACTTACAACT
Found at i:49579479 original size:59 final size:59
Alignment explanation
Indices: 49579333--49579533 Score: 246
Period size: 59 Copynumber: 3.3 Consensus size: 59
49579323 TTATATAAAC
* * * * *
49579333 TTACATAATACATAGCATACATAACTTACAT-A-ATACATAATAACTT-ACAACTTACATAAC
1 TTACATAATACATAACTTAC--AACTTACATAACATACAT--TAATTTGATAACTTACATAAG
* *
49579393 TTACATAATACATAATAACTTACAACTTACATAACATACATTAATTTGATAACTTATAGAAG
1 TTACATAATAC---ATAACTTACAACTTACATAACATACATTAATTTGATAACTTACATAAG
*
49579455 TTACATAATACATAACTTACAACTTACATAACATACATTAATATGATAACTTACATAAG
1 TTACATAATACATAACTTACAACTTACATAACATACATTAATTTGATAACTTACATAAG
49579514 TTACATAATACATAACTTAC
1 TTACATAATACATAACTTAC
49579534 CACTGAACAA
Statistics
Matches: 125, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
59 65 0.52
60 11 0.09
61 14 0.11
62 22 0.18
63 13 0.10
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.32
Consensus pattern (59 bp):
TTACATAATACATAACTTACAACTTACATAACATACATTAATTTGATAACTTACATAAG
Found at i:49585031 original size:21 final size:21
Alignment explanation
Indices: 49585007--49585057 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
49584997 CTACAACTTA
* *
49585007 AAGCAGATGCGGCAACGAGAG
1 AAGCAGAGGCAGCAACGAGAG
*
49585028 AAGCAGAGGCAGCAGCGAGAG
1 AAGCAGAGGCAGCAACGAGAG
*
49585049 AAGCTGAGG
1 AAGCAGAGG
49585058 TTCAACGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.37, C:0.18, G:0.41, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCAGCAACGAGAG
Found at i:49585052 original size:87 final size:87
Alignment explanation
Indices: 49584941--49585133 Score: 282
Period size: 87 Copynumber: 2.2 Consensus size: 87
49584931 ACACAACTAA
* * *
49584941 AAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAGCTA-CAAC
1 AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCAGC-AGCAAC
*
49585004 TTAAAGCAGATGCGGCAACGAGAG
64 TTAAAGCAGATGCAGCAACGAGAG
* *
49585028 AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCAGCAGCAGCTT
1 AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGCAGCAACTT
*
49585093 AAAGCAGATGCAGCAGCGAGAG
66 AAAGCAGATGCAGCAACGAGAG
*
49585115 AAGCAGAGGCTGCAGCGAG
1 AAGCAGAGGCAGCAGCGAG
49585134 GGAATCAAAG
Statistics
Matches: 96, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
86 1 0.01
87 91 0.95
88 4 0.04
ACGTcount: A:0.39, C:0.19, G:0.31, T:0.11
Consensus pattern (87 bp):
AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGCAGCAACTT
AAAGCAGATGCAGCAACGAGAG
Found at i:49585120 original size:21 final size:21
Alignment explanation
Indices: 49585094--49585133 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
49585084 CAGCAGCTTA
*
49585094 AAGCAGATGCAGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
*
49585115 AAGCAGAGGCTGCAGCGAG
1 AAGCAGAGGCAGCAGCGAG
49585134 GGAATCAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.20, G:0.40, T:0.05
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGAG
Found at i:49585145 original size:21 final size:21
Alignment explanation
Indices: 49585105--49585146 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
49585095 AGCAGATGCA
*
49585105 GCAGCGAGAGAAGCAGAGGCT
1 GCAGCGAGAGAAGCAAAGGCT
* *
49585126 GCAGCGAGGGAATCAAAGGCT
1 GCAGCGAGAGAAGCAAAGGCT
49585147 AAAATGAGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.19, G:0.40, T:0.07
Consensus pattern (21 bp):
GCAGCGAGAGAAGCAAAGGCT
Found at i:49585165 original size:87 final size:87
Alignment explanation
Indices: 49584985--49585150 Score: 199
Period size: 87 Copynumber: 1.9 Consensus size: 87
49584975 AAAAAGATAT
*
49584985 GAAGAACTCCAGCTACAACTTAAAGCAGATGCGGCAACGAGAGAAGCAGAGGCAGCAGCGAGAGA
1 GAAGAACTCCAGCTACAACTTAAAGCAGATGCAGCAACGAGAGAAGCAGAGGCAGCAGCGAGAGA
** ** * *
49585050 AGCTGAGGTTCAACGAAAGTAT
66 AGCAAAGGTAAAACGAAAGGAA
* * * *
49585072 GAAGAACTCCAGC-AGCAGCTTAAAGCAGATGCAGCAGCGAGAGAAGCAGAGGCTGCAGCGAGGG
1 GAAGAACTCCAGCTA-CAACTTAAAGCAGATGCAGCAACGAGAGAAGCAGAGGCAGCAGCGAGAG
*
49585136 AATCAAAGGCTAAAA
65 AAGCAAAGG-TAAAA
49585151 TGAGGGAAGC
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
86 1 0.01
87 63 0.94
88 3 0.04
ACGTcount: A:0.39, C:0.20, G:0.31, T:0.10
Consensus pattern (87 bp):
GAAGAACTCCAGCTACAACTTAAAGCAGATGCAGCAACGAGAGAAGCAGAGGCAGCAGCGAGAGA
AGCAAAGGTAAAACGAAAGGAA
Found at i:49585615 original size:43 final size:43
Alignment explanation
Indices: 49585506--49585882 Score: 257
Period size: 43 Copynumber: 8.9 Consensus size: 43
49585496 AGAACCCCGC
* * ** * * *
49585506 CTATAGTGGCGTTTTCTGTCCAAGCGCCGCAAAAAACTCCAAT
1 CTATAGTGGCATTTTTTGTATAAGCGCCGCGAAAGACGCCAAT
** *
49585549 CTATAGTGGCATTTTTTCAATAAGCTCCGCGAAAGACGCCAAT
1 CTATAGTGGCATTTTTTGTATAAGCGCCGCGAAAGACGCCAAT
* ** * * *
49585592 CTATAGTGGCGTTTCCTGTATAAGCGTCGCTAAAGA-GCCATCT
1 CTATAGTGGCATTTTTTGTATAAGCGCCGCGAAAGACGCCA-AT
* * * * * *
49585635 CTCTCGTGGCATTTCTT-TATAAGCGCCGCTATAGAC-CC-GT
1 CTATAGTGGCATTTTTTGTATAAGCGCCGCGAAAGACGCCAAT
* ** * * *
49585675 GCTATCGTGGCATTTTTTGTATAAGTTCCGGGAAAGCCG-CTAT
1 -CTATAGTGGCATTTTTTGTATAAGCGCCGCGAAAGACGCCAAT
* * * * * *
49585718 CTATAGTGGCATTTTCTGTACAAACACCGGGAAAGATC-CCTAT
1 CTATAGTGGCATTTTTTGTATAAGCGCCGCGAAAGA-CGCCAAT
* * *
49585761 CTATAGTGGCATTTTTTGTATAAGCGCCGCTAGAGAAC-CCGAT
1 CTATAGTGGCATTTTTTGTATAAGCGCCGCGAAAG-ACGCCAAT
* * * * *
49585804 CTATAGTGGCGTTTTTTGTATAAGCGCCGAGAAAGACTCCCAC
1 CTATAGTGGCATTTTTTGTATAAGCGCCGCGAAAGACGCCAAT
* * *
49585847 CTATAGTGGC-GTTTTTGTGTAAGCGCCGCTAAAGAC
1 CTATAGTGGCATTTTTTGTATAAGCGCCGCGAAAGAC
49585883 AGTAGTCTAT
Statistics
Matches: 264, Mismatches: 60, Indels: 21
0.77 0.17 0.06
Matches are distributed among these distances:
40 1 0.00
41 15 0.06
42 89 0.34
43 158 0.60
44 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (43 bp):
CTATAGTGGCATTTTTTGTATAAGCGCCGCGAAAGACGCCAAT
Found at i:49585838 original size:86 final size:85
Alignment explanation
Indices: 49585482--49585898 Score: 290
Period size: 86 Copynumber: 4.9 Consensus size: 85
49585472 CGTTTCTTGG
* ** * * ** *
49585482 ATAAGCGCCGCTAAAGAACCCCGCCTATAGTGGCGTTTTCTGTCCAAGCGCCGC-AAAAAACTCC
1 ATAAGCGCCGCGAAAG-ACCCTACCTATAGTGGCATTTTTTGTATAAGCGCCGCTAAAGAAC-CC
* **
49585546 AATCTATAGTGGCATTTTTTCA
64 TATCTATAGTGGCATTTTTTGT
* * * * ** * * *
49585568 ATAAGCTCCGCGAAAGACGCCAATCTATAGTGGCGTTTCCTGTATAAGCGTCGCTAAAGAGCCAT
1 ATAAGCGCCGCGAAAGAC-CCTACCTATAGTGGCATTTTTTGTATAAGCGCCGCTAAAGAACCCT
* * * *
49585633 CTCTCTCGTGGCATTTCTT-T
65 ATCTATAGTGGCATTTTTTGT
* * * * ** **
49585653 ATAAGCGCCGCTATAGACCCGT-GCTATCGTGGCATTTTTTGTATAAGTTCCGGGAAAG--CCGC
1 ATAAGCGCCGCGAAAGACCC-TACCTATAGTGGCATTTTTTGTATAAGCGCCGCTAAAGAACC-C
*
49585715 TATCTATAGTGGCATTTTCTGT
64 TATCTATAGTGGCATTTTTTGT
* * * * * * *
49585737 ACAAACACCGGGAAAGATCCCTATCTATAGTGGCATTTTTTGTATAAGCGCCGCTAGAGAACCCG
1 ATAAGCGCCGCGAAAGA-CCCTACCTATAGTGGCATTTTTTGTATAAGCGCCGCTAAAGAACCCT
*
49585802 ATCTATAGTGGCGTTTTTTGT
65 ATCTATAGTGGCATTTTTTGT
* * * * **
49585823 ATAAGCGCCGAGAAAGACTCCCACCTATAGTGGC-GTTTTTGTGTAAGCGCCGCTAAAG-ACAGT
1 ATAAGCGCCGCGAAAGAC-CCTACCTATAGTGGCATTTTTTGTATAAGCGCCGCTAAAGAACCCT
49585886 AGTCTATAGTGGC
65 A-TCTATAGTGGC
49585899 GCGGTAAAAG
Statistics
Matches: 254, Mismatches: 66, Indels: 23
0.74 0.19 0.07
Matches are distributed among these distances:
82 2 0.01
83 15 0.06
84 44 0.17
85 82 0.32
86 104 0.41
87 7 0.03
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (85 bp):
ATAAGCGCCGCGAAAGACCCTACCTATAGTGGCATTTTTTGTATAAGCGCCGCTAAAGAACCCTA
TCTATAGTGGCATTTTTTGT
Found at i:49590148 original size:12 final size:12
Alignment explanation
Indices: 49590127--49590185 Score: 70
Period size: 12 Copynumber: 5.1 Consensus size: 12
49590117 TCTTTTAATC
*
49590127 TTATTATTATTA
1 TTATTGTTATTA
49590139 TTATTGTTATTA
1 TTATTGTTATTA
*
49590151 TTATTGTTATTG
1 TTATTGTTATTA
49590163 TTATTAGTT-TT-
1 TTATT-GTTATTA
49590174 TT-TTGTTATTA
1 TTATTGTTATTA
49590185 T
1 T
49590186 CATTTTTACT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
9 3 0.07
10 4 0.10
11 3 0.07
12 29 0.69
13 3 0.07
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (12 bp):
TTATTGTTATTA
Found at i:49590185 original size:3 final size:3
Alignment explanation
Indices: 49590127--49590168 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
49590117 TCTTTTAATC
* * *
49590127 TTA TTA TTA TTA TTA TTG TTA TTA TTA TTG TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
49590169 GTTTTTTTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:49599003 original size:15 final size:15
Alignment explanation
Indices: 49598983--49599021 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
49598973 ATCGTTAAAA
49598983 TTATTATCATTGTAT
1 TTATTATCATTGTAT
49598998 TTATTA-CTATTGTAT
1 TTATTATC-ATTGTAT
*
49599013 TTGTTATCA
1 TTATTATCA
49599022 CAATATTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.05
15 19 0.90
16 1 0.05
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.59
Consensus pattern (15 bp):
TTATTATCATTGTAT
Found at i:49602756 original size:24 final size:24
Alignment explanation
Indices: 49602729--49602774 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
49602719 AGAACAGTCC
* *
49602729 CAAAAGGAAATGTAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
49602753 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
49602775 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.15, G:0.26, T:0.13
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:49611029 original size:44 final size:45
Alignment explanation
Indices: 49610966--49611691 Score: 260
Period size: 44 Copynumber: 16.7 Consensus size: 45
49610956 GATTGCATCT
*
49610966 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCT-AAGTAAGG-A
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-AAGGCA
* * *
49611010 AGTCTTATC-CTCCTCAAGTTGCAGT-GAGGTAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTGAAGAAGGCA
* * * ** **
49611055 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGGCA
* * * *
49611100 A-TCCTATCTCCCTGAAGTTGCAGTGGAGCGGA-TTAA-AA-TCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGGCA
* * * * * *
49611141 CAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCA-TCT
1 -AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGGCA
* * * *
49611183 ATTCTTATCTCCTTGAAGTTGTAGTGGAGCA-A-GGTAAGTAA-GCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG-AAG-AAGGCA
* ** **
49611227 AGTCTTATC-CTCCTGAAGTTGCAGTGAAGCAGACTGAAGGTGAAA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACTGAAGAAGGCA
* * * ** **
49611272 AATC-T-TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGGCA
* * **
49611315 A-TCCTATCTCCCTGAAGTTGCAGTGGAG-AGGA-T-TA-AACTCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCA-GACTGAAGAAGGCA
* * * * * *
49611356 CAGCTCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCA-TCT
1 -AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGGCA
* * *
49611398 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAAACT-AAGTAA-ACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-AAGGCA
*
49611442 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGACAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGACTGAAGAAGGCA
* * * * * * ** *
49611487 AATCTTATCTTCCTAAAGTTGCAGTGGTGCAGATTAAAGCCGACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGGCA
* * ** * * * *
49611532 A-TCCTATCTCTCTGAAGCAGCAGTGGAACGGA-TTAA-AA-TCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGGCA
* ** * * * *
49611573 CAGATCTTATCTCTCTGAAGTTGCA-AAGAGCAGA-T--CGCA-TCT
1 -AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGGCA
* * * *
49611615 AGTCTTATCTTCCTGAAGTTGCAATGGAGCAGACT-AAGTAGGAA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGGCA
* ** *
49611659 AATCTTATCTTTCTGAAGTTGTAGTGGAGCAGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
49611692 TTAAAGCCGA
Statistics
Matches: 514, Mismatches: 122, Indels: 92
0.71 0.17 0.13
Matches are distributed among these distances:
40 59 0.11
41 27 0.05
42 16 0.03
43 72 0.14
44 252 0.49
45 82 0.16
46 6 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGGCA
Found at i:49611263 original size:217 final size:216
Alignment explanation
Indices: 49610882--49611691 Score: 1185
Period size: 217 Copynumber: 3.7 Consensus size: 216
49610872 CGTAGCTGAC
* * * * *
49610882 AATCCTATCTTCCTAAAGTTGCAATGGAGCGAATTAAAATCATAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTG
* *
49610947 CAGAGAGCAGATTGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGGAAG
66 CAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA-GCTAAGTAAGCAAG
* * *
49611012 TCTTATCCTCCTCAAGTTGCAGTGAGGTAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGC
130 TCTTATCCTCCTGAAGTTGCAGTGAAGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGC
49611077 AGTGGAGCAGATTAAAGCCGAT
195 AGTGGAGCAGATTAAAGCCGAT
49611099 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTG
* * * *
49611164 CAGAGAGCAGATCGCATCTATTCTTATCTCCTTGAAGTTGTAGTGGAGCAAGGTAAGTAAGCAAG
66 CAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGC-AGCTAAGTAAGCAAG
* **
49611229 TCTTATCCTCCTGAAGTTGCAGTGAAGCAGACTGAAGGTGAAAAATC-T-TCTCCCTGAAGTTGC
130 TCTTATCCTCCTGAAGTTGCAGTGAAGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGC
49611292 AGTGGAGCAGATTAAAGCCGAT
195 AGTGGAGCAGATTAAAGCCGAT
* * *
49611314 AATCCTATCTCCCTGAAGTTGCAGTGGAGAGGATTAAACTCACAGCTCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTG
* * *
49611379 CAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAAACTAAGTAAACAAG
66 CAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGC-AGCTAAGTAAGCAAG
* *
49611444 TCTTATCCTCCTGAAGTTGCAGTG-AGACAGACTGAAGATGGCAAATCTTATCTTCCTAAAGTTG
130 TCTTATCCTCCTGAAGTTGCAGTGAAG-CAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTG
* *
49611508 CAGTGGTGCAGATTAAAGCCGAC
194 CAGTGGAGCAGATTAAAGCCGAT
* ** *
49611531 AATCCTATCTCTCTGAAGCAGCAGTGGAACGGATTAAAATCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTG
* * * * * *
49611596 CAAAGAGCAGATCGCATCTAGTCTTATCTTCCTGAAGTTGCAATGGAGCAGACTAAGTAGGAAAA
66 CAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG-CTAAGTAAGCAAG
* * * *
49611661 TCTTATCTTTCTGAAGTTGTAGTGGAGCAGA
130 TCTTATCCTCCTGAAGTTGCAGTGAAGCAGA
49611692 TTAAAGCCGA
Statistics
Matches: 534, Mismatches: 53, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
214 2 0.00
215 198 0.37
216 3 0.01
217 328 0.61
218 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (216 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTG
CAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGCTAAGTAAGCAAGT
CTTATCCTCCTGAAGTTGCAGTGAAGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCA
GTGGAGCAGATTAAAGCCGAT
Found at i:49611288 original size:43 final size:44
Alignment explanation
Indices: 49611238--49611339 Score: 127
Period size: 43 Copynumber: 2.3 Consensus size: 44
49611228 GTCTTATCCT
* **
49611238 CCTGAAGTTGCAGTGAAGCAGACTGAAGGTGAAAAAT-CT-TCTC
1 CCTGAAGTTGCAGTGAAGCAGACTAAAGCCG-AAAATCCTATCTC
* * *
49611281 CCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTC
1 CCTGAAGTTGCAGTGAAGCAGACTAAAGCCGAAAATCCTATCTC
49611325 CCTGAAGTTGCAGTG
1 CCTGAAGTTGCAGTG
49611340 GAGAGGATTA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
42 4 0.08
43 28 0.55
44 19 0.37
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (44 bp):
CCTGAAGTTGCAGTGAAGCAGACTAAAGCCGAAAATCCTATCTC
Found at i:49611712 original size:44 final size:43
Alignment explanation
Indices: 49611620--49611741 Score: 120
Period size: 44 Copynumber: 2.8 Consensus size: 43
49611610 CATCTAGTCT
* * *
49611620 TATCTTCCTGAAGTTGCAATGGAGCAGACTAAGTAGGAAAATCT
1 TATCTTCCTGAAGTTGTAGTGGAGCAGACTAAG-AGGAAAATCC
* * *
49611664 TATCTTTCTGAAGTTGTAGTGGAGCAGATTAA-AGCCGATAATCC
1 TATCTTCCTGAAGTTGTAGTGGAGCAGACTAAGAG--GAAAATCC
* * **
49611708 TATCTCCCTGAAGTCGTAGTGGAATAGACTAAGA
1 TATCTTCCTGAAGTTGTAGTGGAGCAGACTAAGA
49611742 TAGCAAATAT
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
42 2 0.03
44 60 0.95
45 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (43 bp):
TATCTTCCTGAAGTTGTAGTGGAGCAGACTAAGAGGAAAATCC
Found at i:49613596 original size:15 final size:15
Alignment explanation
Indices: 49613576--49613614 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
49613566 ATCGTTAAAA
49613576 TTATTATCATTGTAT
1 TTATTATCATTGTAT
49613591 TTATTA-CTATTGTAT
1 TTATTATC-ATTGTAT
*
49613606 TTGTTATCA
1 TTATTATCA
49613615 CAATATTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.05
15 19 0.90
16 1 0.05
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.59
Consensus pattern (15 bp):
TTATTATCATTGTAT
Found at i:49619944 original size:28 final size:28
Alignment explanation
Indices: 49619911--49619968 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
49619901 CAGAGGAGAA
49619911 GATAATTTTATTATAATGGCAAGAAAAC
1 GATAATTTTATTATAATGGCAAGAAAAC
49619939 GATAATTTTATTATAATGGCAAGAAAAC
1 GATAATTTTATTATAATGGCAAGAAAAC
49619967 GA
1 GA
49619969 AGAGTACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.31
Consensus pattern (28 bp):
GATAATTTTATTATAATGGCAAGAAAAC
Found at i:49627400 original size:50 final size:50
Alignment explanation
Indices: 49627337--49627718 Score: 539
Period size: 50 Copynumber: 7.6 Consensus size: 50
49627327 CAATGTCATA
* ** * * * *
49627337 TCCCAGATATGGTCTTACATGGGAATTCTCATATCGTTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
**
49627387 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* *
49627437 TCCCAGACATGATCTTACATGGGACCTCTCATCTCAGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* *
49627487 TCCCAGACATGGTATTACATGGGACCTCTCATCTCGGTGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* *
49627537 TCCCAGACTTGATCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* * *
49627587 TCCCAGACATTGCCTTACATGGGACCTCTCATCTCGGTGCCAACGTCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* * * * *
49627637 TCCCAAACATGGTCTTACATGGGACCTCTCATCTCGATGTCAATGCCATA
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* *
49627687 TCCTAGACATGGTCTTACATGGGACTTCTCAT
1 TCCCAGACATGGTCTTACATGGGACCTCTCAT
49627719 AATTTCAATA
Statistics
Matches: 295, Mismatches: 37, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 295 1.00
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
Found at i:49627826 original size:48 final size:48
Alignment explanation
Indices: 49627735--49627828 Score: 116
Period size: 48 Copynumber: 2.0 Consensus size: 48
49627725 AATAATGCCA
* * * *
49627735 ATGCCATGTCTCAGACATGGTCTTACACTAGCTCACATATCGATGTAG
1 ATGCCATGTCCCAGACATGGTCTTACACGAGATCACACATCGATGTAG
* * * *
49627783 ATGCCATGTCCCAGACATGGTCTTATACGATATCGCACGTCGATGT
1 ATGCCATGTCCCAGACATGGTCTTACACGAGATCACACATCGATGT
49627829 CATATCCCAG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAGATCACACATCGATGTAG
Found at i:49628802 original size:194 final size:194
Alignment explanation
Indices: 49628473--49628861 Score: 778
Period size: 194 Copynumber: 2.0 Consensus size: 194
49628463 AGTAATAATA
49628473 TGACATGTATAGCTAAACTTACAAACGCTATGTTAGTCCGAGAGCCGACTAAACCATAGCTCTGA
1 TGACATGTATAGCTAAACTTACAAACGCTATGTTAGTCCGAGAGCCGACTAAACCATAGCTCTGA
49628538 TACCACTAAATGTAACACCCCAAACCCGGTCTAAACGTTATGACCGAATCAGGCGATGTCACATT
66 TACCACTAAATGTAACACCCCAAACCCGGTCTAAACGTTATGACCGAATCAGGCGATGTCACATT
49628603 GTAACACCCCCTACCCGTATTTGACGCCGGAATAGGGTACGAGGCATTACTAGAAGACATACAT
131 GTAACACCCCCTACCCGTATTTGACGCCGGAATAGGGTACGAGGCATTACTAGAAGACATACAT
49628667 TGACATGTATAGCTAAACTTACAAACGCTATGTTAGTCCGAGAGCCGACTAAACCATAGCTCTGA
1 TGACATGTATAGCTAAACTTACAAACGCTATGTTAGTCCGAGAGCCGACTAAACCATAGCTCTGA
49628732 TACCACTAAATGTAACACCCCAAACCCGGTCTAAACGTTATGACCGAATCAGGCGATGTCACATT
66 TACCACTAAATGTAACACCCCAAACCCGGTCTAAACGTTATGACCGAATCAGGCGATGTCACATT
49628797 GTAACACCCCCTACCCGTATTTGACGCCGGAATAGGGTACGAGGCATTACTAGAAGACATACAT
131 GTAACACCCCCTACCCGTATTTGACGCCGGAATAGGGTACGAGGCATTACTAGAAGACATACAT
49628861 T
1 T
49628862 TGCATACGTA
Statistics
Matches: 195, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
194 195 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (194 bp):
TGACATGTATAGCTAAACTTACAAACGCTATGTTAGTCCGAGAGCCGACTAAACCATAGCTCTGA
TACCACTAAATGTAACACCCCAAACCCGGTCTAAACGTTATGACCGAATCAGGCGATGTCACATT
GTAACACCCCCTACCCGTATTTGACGCCGGAATAGGGTACGAGGCATTACTAGAAGACATACAT
Found at i:49630596 original size:17 final size:17
Alignment explanation
Indices: 49630570--49630603 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
49630560 TATCAAGTAT
49630570 ATTATCTTACTTTCTTA
1 ATTATCTTACTTTCTTA
*
49630587 ATTATTTTACTTTCTTA
1 ATTATCTTACTTTCTTA
49630604 CTGTAGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTATCTTACTTTCTTA
Found at i:49635815 original size:326 final size:326
Alignment explanation
Indices: 49635200--49635847 Score: 1010
Period size: 326 Copynumber: 2.0 Consensus size: 326
49635190 ATTCAAATAT
* *
49635200 ATATAAATCATGCCTAAAACATTTACTTATCAAATTGATCAAAAACATTTATAATACTATATAAA
1 ATATAAATCATGCATAAAACATTTACTTATCAAATTGATCAAAAACATTCATAATACTATATAAA
* *
49635265 GGTTAACTAATAAACTTCGTTCATTTCATTTCAATTTTAGTACCAAATTAACCCAAAAGTATATT
66 GGTTAACTAATAAACTTCGTTCATTTCATTTCAATTTTAGTACCAAACTAACCCAAAAGTATATC
*
49635330 AATTTAACTTACTATAACCATCAATTCATCTTAAGTTCAAACATGCATTTTCTCTACACTTAAAC
131 AATTTAACTTACTATAACCATCAATTCATCTTAAGTTCAAACATGCATTTTCTCAACACTTAAAC
* * * * *
49635395 AACTAATTCATACGGCCAAATACATACCAACCTTTAAAAGCTAAATCTCATGGCTAATATTATAA
196 AACCAATTCATACGGCCAAATACACACCAACATTTAAAAGCCAAATCTCATGGCTAATATCATAA
* * * * * *
49635460 TTCAAAATATGCTAAGATGACACTAGCCTATACATGCCATT-TATCATAAATATACAATTCAATC
261 CTCAAAACATACCAAGATGACACTAGCCTATACATGCC-TTATACCATAAACATACAATTCAATC
49635524 AC
325 AC
*
49635526 ATATAAATCATGCATAAAACATTTACTTATCAAATTGATCAACAACATTCATAATACTATATAAA
1 ATATAAATCATGCATAAAACATTTACTTATCAAATTGATCAAAAACATTCATAATACTATATAAA
* *
49635591 TGTTAACTAATAAACTTCGTTCATTTCATTTCAATTTTAGTACCAAACTAACTCAAAAGTATATC
66 GGTTAACTAATAAACTTCGTTCATTTCATTTCAATTTTAGTACCAAACTAACCCAAAAGTATATC
* *
49635656 AATTTAACTTACTATGACCATCAATTCATCTTAAGTTCAAACATGCATTTTCTCAACACTTAAAT
131 AATTTAACTTACTATAACCATCAATTCATCTTAAGTTCAAACATGCATTTTCTCAACACTTAAAC
* * * ** * *
49635721 AGCCAATTCATATGGCTAAATACACATTAGCATTTAAAAGCCAAATCTCATGGTTAATATCATAA
196 AACCAATTCATACGGCCAAATACACACCAACATTTAAAAGCCAAATCTCATGGCTAATATCATAA
* *
49635786 CTCAAAACATACCAATATGACATTAGCCTATACATGCCTTATACCATAAACATACAATTCAA
261 CTCAAAACATACCAAGATGACACTAGCCTATACATGCCTTATACCATAAACATACAATTCAA
49635848 AAGTACCAAC
Statistics
Matches: 291, Mismatches: 30, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
325 2 0.01
326 289 0.99
ACGTcount: A:0.42, C:0.20, G:0.06, T:0.33
Consensus pattern (326 bp):
ATATAAATCATGCATAAAACATTTACTTATCAAATTGATCAAAAACATTCATAATACTATATAAA
GGTTAACTAATAAACTTCGTTCATTTCATTTCAATTTTAGTACCAAACTAACCCAAAAGTATATC
AATTTAACTTACTATAACCATCAATTCATCTTAAGTTCAAACATGCATTTTCTCAACACTTAAAC
AACCAATTCATACGGCCAAATACACACCAACATTTAAAAGCCAAATCTCATGGCTAATATCATAA
CTCAAAACATACCAAGATGACACTAGCCTATACATGCCTTATACCATAAACATACAATTCAATCA
C
Found at i:49636803 original size:31 final size:31
Alignment explanation
Indices: 49636663--49636796 Score: 191
Period size: 31 Copynumber: 4.4 Consensus size: 31
49636653 ATGCAATGCT
49636663 CAAATC-AATTCGACAATATATATCCATATA
1 CAAATCAAATTCGACAATATATATCCATATA
* * **
49636693 CGAATCAAATTCGACAATGTATATCTTTATA
1 CAAATCAAATTCGACAATATATATCCATATA
49636724 CAAATCAAATTCGACAATGA-ATATCCATATA
1 CAAATCAAATTCGACAAT-ATATATCCATATA
* *
49636755 CAAATCAAATTCGGCAATATATATCTATATA
1 CAAATCAAATTCGACAATATATATCCATATA
49636786 CAAATCAAATT
1 CAAATCAAATT
49636797 GGGCAATGTA
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
30 6 0.07
31 85 0.93
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.31
Consensus pattern (31 bp):
CAAATCAAATTCGACAATATATATCCATATA
Found at i:49636827 original size:62 final size:62
Alignment explanation
Indices: 49636663--49636819 Score: 183
Period size: 62 Copynumber: 2.5 Consensus size: 62
49636653 ATGCAATGCT
** * * *
49636663 CAAATC-AATTCGACAAT-ATATATCCATATACGAATCAAATTCGACAATGTATATCTTTATA
1 CAAATCAAATTCGACAATGA-ATAAACATATACAAATCAAATTCGACAATATATATCTATATA
** *
49636724 CAAATCAAATTCGACAATGAATATCCATATACAAATCAAATTCGGCAATATATATCTATATA
1 CAAATCAAATTCGACAATGAATAAACATATACAAATCAAATTCGACAATATATATCTATATA
* * *
49636786 CAAATCAAATTGGGCAATGTATAAAACATATACA
1 CAAATCAAATTCGACAATGAAT-AAACATATACA
49636820 TTTAAATTAA
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
61 6 0.07
62 68 0.81
63 10 0.12
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.29
Consensus pattern (62 bp):
CAAATCAAATTCGACAATGAATAAACATATACAAATCAAATTCGACAATATATATCTATATA
Found at i:49637397 original size:10 final size:11
Alignment explanation
Indices: 49637382--49637410 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
49637372 CACAAAAACA
49637382 TAAAAATA-AT
1 TAAAAATAGAT
49637392 TAAAAATAGAT
1 TAAAAATAGAT
49637403 TAAAAATA
1 TAAAAATA
49637411 CATACCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.44
11 10 0.56
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
TAAAAATAGAT
Found at i:49637672 original size:18 final size:17
Alignment explanation
Indices: 49637649--49637690 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
49637639 AGGACTTCCA
49637649 ATTTAAAACCCTATAGCT
1 ATTTAAAA-CCTATAGCT
* *
49637667 ATTTAATACCTTTAGCT
1 ATTTAAAACCTATAGCT
49637684 A-TTAAAA
1 ATTTAAAA
49637691 TTCAACTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 5 0.24
17 9 0.43
18 7 0.33
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (17 bp):
ATTTAAAACCTATAGCT
Found at i:49641877 original size:11 final size:11
Alignment explanation
Indices: 49641863--49641942 Score: 60
Period size: 11 Copynumber: 7.4 Consensus size: 11
49641853 ATGTTTTTAA
49641863 TTTTAAAATAT
1 TTTTAAAATAT
49641874 TTTTAAAATACT
1 TTTTAAAATA-T
****
49641886 TTTTTTTTTAAT
1 TTTTAAAAT-AT
*
49641898 TTTT-TAAT--
1 TTTTAAAATAT
49641906 TTT-AAAATAT
1 TTTTAAAATAT
49641916 TTTTAAAATAT
1 TTTTAAAATAT
49641927 TTTTAAAATACT
1 TTTTAAAATA-T
49641939 TTTT
1 TTTT
49641943 TTAATTTTTA
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
8 6 0.11
10 3 0.05
11 29 0.53
12 16 0.29
13 1 0.02
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:49641902 original size:42 final size:42
Alignment explanation
Indices: 49641833--49641930 Score: 153
Period size: 42 Copynumber: 2.3 Consensus size: 42
49641823 CCCGATATAA
49641833 TAAATATATTTATTTTTTAAATGTTTTTAATTTTAAAATATTTT
1 TAAA-ATATTT-TTTTTTAAATGTTTTTAATTTTAAAATATTTT
*
49641877 TAAAATACTTTTTTTTTTAAT-TTTTTAATTTTAAAATATTTT
1 TAAAATA-TTTTTTTTTAAATGTTTTTAATTTTAAAATATTTT
49641919 TAAAATATTTTT
1 TAAAATATTTTT
49641931 AAAATACTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 5
0.90 0.02 0.09
Matches are distributed among these distances:
41 5 0.10
42 28 0.54
43 12 0.23
44 7 0.13
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (42 bp):
TAAAATATTTTTTTTTAAATGTTTTTAATTTTAAAATATTTT
Found at i:49641921 original size:17 final size:17
Alignment explanation
Indices: 49641834--49641879 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
49641824 CCGATATAAT
* * *
49641834 AAATATATTTATTTTTT
1 AAATATTTTTAATTTTA
*
49641851 AAATGTTTTTAATTTTA
1 AAATATTTTTAATTTTA
49641868 AAATATTTTTAA
1 AAATATTTTTAA
49641880 AATACTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:49641943 original size:42 final size:42
Alignment explanation
Indices: 49641856--49641957 Score: 134
Period size: 42 Copynumber: 2.4 Consensus size: 42
49641846 TTTTTAAATG
****
49641856 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTTTAAT
1 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTAAAATAAT
*
49641898 TTTTTAATTTTAAAATATTTTTAAAATA-TTTTTAAAATACTT
1 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTAAAATA-AT
49641940 TTTTTAATTTTTAAAATA
1 TTTTTAA-TTTTAAAATA
49641958 AATTTTTCTT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
41 7 0.13
42 36 0.68
43 10 0.19
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (42 bp):
TTTTTAATTTTAAAATATTTTTAAAATACTTTTTAAAATAAT
Found at i:49641949 original size:21 final size:20
Alignment explanation
Indices: 49641897--49641957 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
49641887 TTTTTTTTAA
49641897 TTTTTTAA-TTTTAAAATAT
1 TTTTTTAATTTTTAAAATAT
**
49641916 TTTTAAAATATTTTTAAAATACT
1 TTTT-TTA-ATTTTTAAAATA-T
49641939 TTTTTTAATTTTTAAAATA
1 TTTTTTAATTTTTAAAATA
49641958 AATTTTTCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 4 0.12
20 1 0.03
21 13 0.38
22 11 0.32
23 5 0.15
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTTAATTTTTAAAATAT
Found at i:49641963 original size:21 final size:22
Alignment explanation
Indices: 49641895--49641982 Score: 62
Period size: 22 Copynumber: 4.1 Consensus size: 22
49641885 TTTTTTTTTT
49641895 AATTTTT-TAA-TTTTAAAAT-
1 AATTTTTATAATTTTTAAAATA
*
49641914 -ATTTTTAAAATATTTTTAAAAT-
1 AATTTTT-ATA-ATTTTTAAAATA
* *
49641936 ACTTTTTTTAATTTTTAAAATA
1 AATTTTTATAATTTTTAAAATA
* *
49641958 AATTTTTCTTATTTATTAAAA-A
1 AATTTTTATAATTT-TTAAAATA
49641980 AAT
1 AAT
49641983 GGGCCGGGCC
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
18 6 0.11
20 1 0.02
21 12 0.22
22 25 0.45
23 11 0.20
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
AATTTTTATAATTTTTAAAATA
Found at i:49641963 original size:22 final size:22
Alignment explanation
Indices: 49641924--49641982 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
49641914 ATTTTTAAAA
*
49641924 TATTTTTAAAAT-ACTTTTT-T
1 TATTTTTAAAATAAATTTTTCT
49641944 TAATTTTTAAAATAAATTTTTCT
1 T-ATTTTTAAAATAAATTTTTCT
49641967 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
49641983 GGGCCGGGCC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.32
22 14 0.41
23 8 0.24
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (22 bp):
TATTTTTAAAATAAATTTTTCT
Found at i:49642572 original size:13 final size:13
Alignment explanation
Indices: 49642554--49642579 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49642544 AGCTAATAGG
49642554 TTAAAAATATTAA
1 TTAAAAATATTAA
49642567 TTAAAAATATTAA
1 TTAAAAATATTAA
49642580 AAGTTTAAAA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAAAAATATTAA
Found at i:49644069 original size:8 final size:8
Alignment explanation
Indices: 49644056--49644083 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
49644046 ATGATATAAA
49644056 AAAATTTT
1 AAAATTTT
49644064 AAAATTTT
1 AAAATTTT
49644072 AAAATTTT
1 AAAATTTT
49644080 AAAA
1 AAAA
49644084 AATAGCCATG
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
AAAATTTT
Found at i:49647076 original size:20 final size:20
Alignment explanation
Indices: 49647039--49647076 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
49647029 TTAATGGTTA
*
49647039 TAGTTTTATTTATTATTTAT
1 TAGTTTTATTTATAATTTAT
49647059 TAGTTTTCATTTA-AATTT
1 TAGTTTT-ATTTATAATTT
49647077 TTTAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (20 bp):
TAGTTTTATTTATAATTTAT
Found at i:49652247 original size:235 final size:235
Alignment explanation
Indices: 49651836--49652305 Score: 922
Period size: 235 Copynumber: 2.0 Consensus size: 235
49651826 GCTCACTTCT
49651836 TGTCCCGATTTCTCCAAGCTAAAATCATTCAGTTATTTTTGTTCTTTTTGATCAAATTTCATCTT
1 TGTCCCGATTTCTCCAAGCTAAAATCATTCAGTTATTTTTGTTCTTTTTGATCAAATTTCATCTT
49651901 CTCTAAACCCTTAGTATCTATCAGCAACATTACTTCAAAGTTATAGCCTCAAATCGTCATCTTCT
66 CTCTAAACCCTTAGTATCTATCAGCAACATTACTTCAAAGTTATAGCCTCAAATCGTCATCTTCT
*
49651966 TCATCACTTAAAAAGCCGAAATACCATAGATTTAGGGACTTATAGCTGAAACTTCAGATCTCCTG
131 TCATCACTTAAAAAGCCGAAAGACCATAGATTTAGGGACTTATAGCTGAAACTTCAGATCTCCTG
*
49652031 GATTCGAGTTCTACTATTGTTTAGAGGATAGATCTGCATC
196 GATTCAAGTTCTACTATTGTTTAGAGGATAGATCTGCATC
49652071 TGTCCCGATTTCTCCAAGCTAAAATCATTCAGTTATTTTTGTTCTTTTTGATCAAATTTCATCTT
1 TGTCCCGATTTCTCCAAGCTAAAATCATTCAGTTATTTTTGTTCTTTTTGATCAAATTTCATCTT
49652136 CTCTAAACCCTTAGTATCTATCAGCAACATTACTTCAAAGTTATAGCCTCAAATCGTCATCTTCT
66 CTCTAAACCCTTAGTATCTATCAGCAACATTACTTCAAAGTTATAGCCTCAAATCGTCATCTTCT
49652201 TCATCACTTAAAAAGCCGAAAGACCATAGATTTAGGGACTTATAGCTGAAACTTCAGATCTCCTG
131 TCATCACTTAAAAAGCCGAAAGACCATAGATTTAGGGACTTATAGCTGAAACTTCAGATCTCCTG
49652266 GATTCAAGTTCTACTATTGTTTAGAGGATAGATCTGCATC
196 GATTCAAGTTCTACTATTGTTTAGAGGATAGATCTGCATC
49652306 AGATCTGTGT
Statistics
Matches: 233, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
235 233 1.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (235 bp):
TGTCCCGATTTCTCCAAGCTAAAATCATTCAGTTATTTTTGTTCTTTTTGATCAAATTTCATCTT
CTCTAAACCCTTAGTATCTATCAGCAACATTACTTCAAAGTTATAGCCTCAAATCGTCATCTTCT
TCATCACTTAAAAAGCCGAAAGACCATAGATTTAGGGACTTATAGCTGAAACTTCAGATCTCCTG
GATTCAAGTTCTACTATTGTTTAGAGGATAGATCTGCATC
Found at i:49652689 original size:167 final size:167
Alignment explanation
Indices: 49652413--49652745 Score: 621
Period size: 167 Copynumber: 2.0 Consensus size: 167
49652403 CTAGGGAGGT
49652413 TGTTGATTTGGGCATAGGGCTTTAAGGGTCTTTAACCGATGATTTATTTTAGTGATTAGTGTCTT
1 TGTTGATTTGGGCATAGGGCTTTAAGGGTCTTTAACCGATGATTTATTTTAGTGATTAGTGTCTT
*
49652478 CTAGAGGTTTGATCAAAGGCTTGGATATTTGGAGCAACTAGACTTGGACCTAGCCATCGGTTTTT
66 CTAGAGGTTTGATCAAAGGCTTGGATATTTGGAGCAACTAGACTTGGACCTAGCCATCAGTTTTT
49652543 GGCAAAAAGATAAAATTCTAAAGGCTTTAGGGGCATA
131 GGCAAAAAGATAAAATTCTAAAGGCTTTAGGGGCATA
*
49652580 TGTTGATTTGGGCATAGGGCTTTAAGGGTCTTTAACCGATGATTTCTTTTAGTGATTAGTGTCTT
1 TGTTGATTTGGGCATAGGGCTTTAAGGGTCTTTAACCGATGATTTATTTTAGTGATTAGTGTCTT
*
49652645 CTAGAGGTTTGATCAAAGGCTTGGGTATTTGGAGCAACTAGACTTGGACCTAGCCATCAGTTTTT
66 CTAGAGGTTTGATCAAAGGCTTGGATATTTGGAGCAACTAGACTTGGACCTAGCCATCAGTTTTT
* *
49652710 GGCAAAAAGGTAAGATTCTAAAGGCTTTAGGGGCAT
131 GGCAAAAAGATAAAATTCTAAAGGCTTTAGGGGCAT
49652746 GGTTCGAATA
Statistics
Matches: 161, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
167 161 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (167 bp):
TGTTGATTTGGGCATAGGGCTTTAAGGGTCTTTAACCGATGATTTATTTTAGTGATTAGTGTCTT
CTAGAGGTTTGATCAAAGGCTTGGATATTTGGAGCAACTAGACTTGGACCTAGCCATCAGTTTTT
GGCAAAAAGATAAAATTCTAAAGGCTTTAGGGGCATA
Found at i:49653262 original size:308 final size:308
Alignment explanation
Indices: 49652704--49653321 Score: 1146
Period size: 308 Copynumber: 2.0 Consensus size: 308
49652694 CTAGCCATCA
* * *
49652704 GTTTTTGGCAAAAAGGTAAGATTCTAAAGGCTTTAGGGGCATGGTTCGAATATGGGTAGGTGAAT
1 GTTTTTGGCAAAAAGATAAAATTCTAAAGGCTTTAGGGGCATAGTTCGAATATGGGTAGGTGAAT
*
49652769 ATTGGGATTGGTTATTGTGGGTTGCAATCTAAGAATTGTGGTAATCAATTGTAGGACATCATAAG
66 ATTGGGATTGGTTATTGTGGGTTGCAATCTAAGAATTGTGGTAATCAATTGTAGGACATCATAAA
*
49652834 GGATCTCAGTAGCAGTCGTCACGAAACAGGTGTGTATCGAACACCCTCTCGTAGTTCAATTCGGT
131 GGATCTCAGTAGCAGTCGTCACGAAACAGGTGTGTATCGAACACCCTCTCGTAGTTCAATTCGGC
49652899 AAAAGCCAAAATGCCAAAATTTCGGCATTTCTTGGGCTTGTGAGTGTGCGAGTGCTCACAAGATG
196 AAAAGCCAAAATGCCAAAATTTCGGCATTTCTTGGGCTTGTGAGTGTGCGAGTGCTCACAAGATG
*
49652964 TTTAGAAATCATTAGATCTGAAATTGCAAAGTGGTAAGTTAGTCGTGT
261 TTTAGAAATCATTAGATCTGAAATTACAAAGTGGTAAGTTAGTCGTGT
49653012 GTTTTTGGCAAAAAGATAAAATTCTAAAGGCTTTAGGGGCATAGTTCGAATATGGGTAGGTGAAT
1 GTTTTTGGCAAAAAGATAAAATTCTAAAGGCTTTAGGGGCATAGTTCGAATATGGGTAGGTGAAT
*
49653077 ATTGGGATTGGTTATTGTGGGTTGCAATCTAAGAATTGTGGTAATCAATTGTAGGACATCGTAAA
66 ATTGGGATTGGTTATTGTGGGTTGCAATCTAAGAATTGTGGTAATCAATTGTAGGACATCATAAA
* *
49653142 GGATCTCAGTAGCAGTCTTCGCGAAACAGGTGTGTATCGAACACCCTCTCGTAGTTCAATTCGGC
131 GGATCTCAGTAGCAGTCGTCACGAAACAGGTGTGTATCGAACACCCTCTCGTAGTTCAATTCGGC
*
49653207 AAAAGCCAAAATGCCGAAATTTCGGCATTTCTTGGGCTTGTGAGTGTGCGAGTGCTCACAAGATG
196 AAAAGCCAAAATGCCAAAATTTCGGCATTTCTTGGGCTTGTGAGTGTGCGAGTGCTCACAAGATG
49653272 TTTAGAAATCATTAGATCTGAAATTACAAAGTGGTAAGTTAGTCGTGT
261 TTTAGAAATCATTAGATCTGAAATTACAAAGTGGTAAGTTAGTCGTGT
49653320 GT
1 GT
49653322 GAAATTTCGT
Statistics
Matches: 300, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
308 300 1.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.31
Consensus pattern (308 bp):
GTTTTTGGCAAAAAGATAAAATTCTAAAGGCTTTAGGGGCATAGTTCGAATATGGGTAGGTGAAT
ATTGGGATTGGTTATTGTGGGTTGCAATCTAAGAATTGTGGTAATCAATTGTAGGACATCATAAA
GGATCTCAGTAGCAGTCGTCACGAAACAGGTGTGTATCGAACACCCTCTCGTAGTTCAATTCGGC
AAAAGCCAAAATGCCAAAATTTCGGCATTTCTTGGGCTTGTGAGTGTGCGAGTGCTCACAAGATG
TTTAGAAATCATTAGATCTGAAATTACAAAGTGGTAAGTTAGTCGTGT
Found at i:49654068 original size:324 final size:324
Alignment explanation
Indices: 49653479--49654125 Score: 1222
Period size: 324 Copynumber: 2.0 Consensus size: 324
49653469 GCTTAAACCA
49653479 GTAAACTGGTCATAAAACTCGAATTAAATGGGCTTAAATTGCTAATGGACACTGTAGGGCCCATT
1 GTAAACTGGTCATAAAACTCGAATTAAATGGGCTTAAATTGCTAATGGACACTGTAGGGCCCATT
*
49653544 AGGGGTTTTAGGGCCCAATGGCTAGTAAGAACTGTAACATTAATGAGAACCCTTAAAACTGATAA
66 AGGGGTTTTAGGGCCCAATGGCTAGTAAGAACCGTAACATTAATGAGAACCCTTAAAACTGATAA
*
49653609 AATTACTGAAATACCTTTATAGGTGGAAAATTTACAGATTTACCCCAAGGAGCAAAATTACTGAT
131 AATTACTGAAATACCTTTATAGGTGGAAAATTTACAGATTTACCCCAAGGAGAAAAATTACTGAT
49653674 ATACCCATAGGGTTAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATACCATGT
196 ATACCCATAGGGTTAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATACCATGT
49653739 TATTATTATCTGATGCATGGGACTGGATTATTGACGGAAAAAGTACTGAAAGTGGCTTGACGAC
261 TATTATTATCTGATGCATGGGACTGGATTATTGACGGAAAAAGTACTGAAAGTGGCTTGACGAC
49653803 GTAAACTGGTCATAAAACTCGAATTAAATGGGCTTAAATTGCTAATGGACACTGTAGGGCCCATT
1 GTAAACTGGTCATAAAACTCGAATTAAATGGGCTTAAATTGCTAATGGACACTGTAGGGCCCATT
* *
49653868 AGGGGTTTTAGGGCCCAATGGCTAGTAAGGACCGTAACATTCATGAGAACCCTTAAAACTGATAA
66 AGGGGTTTTAGGGCCCAATGGCTAGTAAGAACCGTAACATTAATGAGAACCCTTAAAACTGATAA
*
49653933 AATTACTGAAATACCTTTATAGGTGGAAAATTTACAGATTTACCCGAAGGAGAAAAATTACTGAT
131 AATTACTGAAATACCTTTATAGGTGGAAAATTTACAGATTTACCCCAAGGAGAAAAATTACTGAT
49653998 ATACCCATAGGGTTAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATACCATGT
196 ATACCCATAGGGTTAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATACCATGT
* * *
49654063 TATTATTATCTGATGCATGGGACTGGGTTATTGACGGAAGAAGTACTGAAGGTGGCTTGACGA
261 TATTATTATCTGATGCATGGGACTGGATTATTGACGGAAAAAGTACTGAAAGTGGCTTGACGA
49654126 TGTACTGGAG
Statistics
Matches: 315, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
324 315 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (324 bp):
GTAAACTGGTCATAAAACTCGAATTAAATGGGCTTAAATTGCTAATGGACACTGTAGGGCCCATT
AGGGGTTTTAGGGCCCAATGGCTAGTAAGAACCGTAACATTAATGAGAACCCTTAAAACTGATAA
AATTACTGAAATACCTTTATAGGTGGAAAATTTACAGATTTACCCCAAGGAGAAAAATTACTGAT
ATACCCATAGGGTTAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATACCATGT
TATTATTATCTGATGCATGGGACTGGATTATTGACGGAAAAAGTACTGAAAGTGGCTTGACGAC
Found at i:49654728 original size:334 final size:334
Alignment explanation
Indices: 49654119--49654788 Score: 1288
Period size: 334 Copynumber: 2.0 Consensus size: 334
49654109 TGAAGGTGGC
49654119 TTGACGATGTACTGGAGGCTTTTCCTCAACTTACTGATATCTGAGCAGCAATGCTGCAACTGTGG
1 TTGACGATGTACTGGAGGCTTTTCCTCAACTTACTGATATCTGAGCAGCAATGCTGCAACTGTGG
49654184 AGTGTAGGGCTGGGTGGGTTGAGCTATTCCCCACATAGAGTGTAGGGCTGGTACGAGTGGAGTGT
66 AGTGTAGGGCTGGGTGGGTTGAGCTATTCCCCACATAGAGTGTAGGGCTGGTACGAGTGGAGTGT
49654249 AGCGGTTGGTTATAGGCTGGGTTGGGCTTGCATACACGAATATGTCTGTTCTATTCTGGAATGGG
131 AGCGGTTGGTTATAGGCTGGGTTGGGCTTGCATACACGAATATGTCTGTTCTATTCTGGAATGGG
*
49654314 CCTATGGGCCATACTGTTATCTAAAATGGGGCTAAGGCCCAGTTTACTGTATTTTGAAAAGGGCT
196 CCTATAGGCCATACTGTTATCTAAAATGGGGCTAAGGCCCAGTTTACTGTATTTTGAAAAGGGCT
49654379 TCGGCCTACTACCCACTATTATCTGAATAGGGCTTAGGCCTAATGGGCTTGAGCTGACTTGGGTT
261 TCGGCCTACTACCCACTATTATCTGAATAGGGCTTAGGCCTAATGGGCTTGAGCTGACTTGGGTT
49654444 TTGGATGGA
326 TTGGATGGA
49654453 TTGACGATGTACTGGAGGCTTTTCCTCAACTTACTGATATCTGAGCAGCAATGCTGCAACTGTGG
1 TTGACGATGTACTGGAGGCTTTTCCTCAACTTACTGATATCTGAGCAGCAATGCTGCAACTGTGG
49654518 AGTGTAGGGCTGGGTGGGTTGAGCTATTCCCCACATAGAGTGTAGGGCTGGTACGAGTGGAGTGT
66 AGTGTAGGGCTGGGTGGGTTGAGCTATTCCCCACATAGAGTGTAGGGCTGGTACGAGTGGAGTGT
*
49654583 AGCGGTTGGTTATAGGCTGGGTTGGGCTTGCATACACGAATATGTCTGTTCTGTTCTGGAATGGG
131 AGCGGTTGGTTATAGGCTGGGTTGGGCTTGCATACACGAATATGTCTGTTCTATTCTGGAATGGG
* *
49654648 CCTGTAGGCCATACTGTTATCTGAAAA-GGGGCTCAGGCCCAGTTTACTGTATTTTGAAAAGGGC
196 CCTATAGGCCATACTGTTATCT-AAAATGGGGCTAAGGCCCAGTTTACTGTATTTTGAAAAGGGC
49654712 TTCGGCCTACTACCCACTATTATCTGAATAGGGCTTAGGCCTAATGGGCTTGAGCTGACTTGGGT
260 TTCGGCCTACTACCCACTATTATCTGAATAGGGCTTAGGCCTAATGGGCTTGAGCTGACTTGGGT
49654777 TTTGGATGGA
325 TTTGGATGGA
49654787 TT
1 TT
49654789 TTCCATACAC
Statistics
Matches: 331, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
334 327 0.99
335 4 0.01
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.31
Consensus pattern (334 bp):
TTGACGATGTACTGGAGGCTTTTCCTCAACTTACTGATATCTGAGCAGCAATGCTGCAACTGTGG
AGTGTAGGGCTGGGTGGGTTGAGCTATTCCCCACATAGAGTGTAGGGCTGGTACGAGTGGAGTGT
AGCGGTTGGTTATAGGCTGGGTTGGGCTTGCATACACGAATATGTCTGTTCTATTCTGGAATGGG
CCTATAGGCCATACTGTTATCTAAAATGGGGCTAAGGCCCAGTTTACTGTATTTTGAAAAGGGCT
TCGGCCTACTACCCACTATTATCTGAATAGGGCTTAGGCCTAATGGGCTTGAGCTGACTTGGGTT
TTGGATGGA
Found at i:49655058 original size:53 final size:53
Alignment explanation
Indices: 49655001--49655105 Score: 192
Period size: 53 Copynumber: 2.0 Consensus size: 53
49654991 AGGCGGCTCT
*
49655001 ATTATTTTTATTTTGGGTTTTTAAATTGGTTAGCTTTAGGGCGCGTTTTATAG
1 ATTATTTTTATTTTGGGTTTTTAAATTGGTTAGCTCTAGGGCGCGTTTTATAG
*
49655054 ATTATTTTTATTTTGGGTTTTTAAATTGGTTAGCTCTAGGGTGCGTTTTATA
1 ATTATTTTTATTTTGGGTTTTTAAATTGGTTAGCTCTAGGGCGCGTTTTATA
49655106 AAAGTTACTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.19, C:0.06, G:0.22, T:0.53
Consensus pattern (53 bp):
ATTATTTTTATTTTGGGTTTTTAAATTGGTTAGCTCTAGGGCGCGTTTTATAG
Found at i:49655118 original size:53 final size:52
Alignment explanation
Indices: 49655008--49655120 Score: 156
Period size: 53 Copynumber: 2.1 Consensus size: 52
49654998 TCTATTATTT
* * *
49655008 TTATTTTGGGTTTTTAAATTGGTTAGCTTTAGGGCGCGTTTTATAGATTATTT
1 TTATTTTGGGTTTTTAAATTGGTTAGCTCTAGGGCGCGTTTTATAAATTA-TC
*
49655061 TTATTTTGGGTTTTTAAATTGGTTAGCTCTAGGGTGCGTTTTATAAAAGTTA-C
1 TTATTTTGGGTTTTTAAATTGGTTAGCTCTAGGGCGCGTTTTAT-AAA-TTATC
49655114 TTATTTT
1 TTATTTT
49655121 CAAAATATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
53 49 0.91
54 2 0.04
55 3 0.06
ACGTcount: A:0.20, C:0.06, G:0.21, T:0.52
Consensus pattern (52 bp):
TTATTTTGGGTTTTTAAATTGGTTAGCTCTAGGGCGCGTTTTATAAATTATC
Found at i:49661567 original size:26 final size:27
Alignment explanation
Indices: 49661496--49661575 Score: 81
Period size: 26 Copynumber: 2.9 Consensus size: 27
49661486 TAAAACTGAT
* **
49661496 AAAATTACTGAAATACCTTTATAGGTGA
1 AAAATTACTGATATACCCCTAT-GGTGA
* * *
49661524 AAAATTTACAGATTTACCCCTATGG-GC
1 AAAA-TTACTGATATACCCCTATGGTGA
49661551 AAAATTACTGATATACCCCTATGGT
1 AAAATTACTGATATACCCCTATGGT
49661576 TAAGGTTGAC
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
26 18 0.43
27 5 0.12
28 6 0.14
29 13 0.31
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (27 bp):
AAAATTACTGATATACCCCTATGGTGA
Found at i:49661680 original size:65 final size:65
Alignment explanation
Indices: 49661576--49661706 Score: 235
Period size: 65 Copynumber: 2.0 Consensus size: 65
49661566 CCCCTATGGT
* *
49661576 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTAAATGCATGTTTGACTGTTACTATTTACTGCATGCAATGTTATTATTATCTGA
*
49661641 TAAGGTTGACCTAAATGCATGTTTGACTGTTACTATTTACTGCTTGCAATGTTATTATTATCTGA
1 TAAGGTTGACCTAAATGCATGTTTGACTGTTACTATTTACTGCATGCAATGTTATTATTATCTGA
49661706 T
1 T
49661707 GCATGGGACT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.43
Consensus pattern (65 bp):
TAAGGTTGACCTAAATGCATGTTTGACTGTTACTATTTACTGCATGCAATGTTATTATTATCTGA
Found at i:49663171 original size:46 final size:44
Alignment explanation
Indices: 49663121--49663294 Score: 179
Period size: 46 Copynumber: 3.8 Consensus size: 44
49663111 TATCTCGTAA
*
49663121 CCGATGCATGTCCCAGATATGTCTTACACTAGCTTACATCTCAGGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTT-C-TCTCAGGG
* * **
49663167 CCGATGCATGTCCCAGATATGTCTTACACTAGCACTCGTCTCATTG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGC-TTC-TCTCAGGG
* * *
49663213 CCGATGCCATGTCCCGGACATGGTCTTACACTGGC-TCTCGTAATGTGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTCTC-TCA-G-GG
*
49663261 CCTATGCATGTCCCAGACATGTCTTACACTAGCT
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCT
49663295 CACACAAGTG
Statistics
Matches: 108, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
45 2 0.02
46 62 0.57
47 26 0.24
48 18 0.17
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (44 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCTTCTCTCAGGG
Found at i:49663240 original size:94 final size:92
Alignment explanation
Indices: 49663032--49663293 Score: 239
Period size: 94 Copynumber: 2.8 Consensus size: 92
49663022 ACATCGACGC
* * * * *
49663032 CATGTCCCAAACATGGTCTTACACAAGTTCTAGTATATCTGTGCCGATGCCATGTCCCAGATATT
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTA-ATGTG-GCCGATG-CATGTCCCAGATA-T
* *
49663097 GCCTTACACT-G-ACATATCTCGTAACCGATG
61 GTCTTACACTAGCACATATCTCATAACCGATG
* *
49663127 CATGTCCCAGATATGTCTTACACTAGCTTACATC-TCA-G-GGCCGATGCATGTCCCAGATATGT
1 CATGTCCCAGACATGTCTTACACTAGC-T-C-TCGTAATGTGGCCGATGCATGTCCCAGATATGT
* **
49663189 CTTACACTAGCAC-TCGTCTCATTGCCGATG
63 CTTACACTAGCACAT-ATCTCATAACCGATG
* * * *
49663219 CCATGTCCCGGACATGGTCTTACACTGGCTCTCGTAATGTGGCCTATGCATGTCCCAGACATGTC
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTAATGTGGCCGATGCATGTCCCAGATATGTC
49663284 TTACACTAGC
64 TTACACTAGC
49663294 TCACACAAGT
Statistics
Matches: 138, Mismatches: 18, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
90 10 0.07
91 17 0.12
92 23 0.17
93 15 0.11
94 56 0.41
95 14 0.10
96 2 0.01
97 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCGTAATGTGGCCGATGCATGTCCCAGATATGTCTT
ACACTAGCACATATCTCATAACCGATG
Found at i:49669509 original size:43 final size:44
Alignment explanation
Indices: 49669389--49669545 Score: 144
Period size: 43 Copynumber: 3.6 Consensus size: 44
49669379 AGCTCGTACA
** *
49669389 ATGCCAACGTCCCAGATGTGGTCTTACATGT-AATCAAATATTG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCAAATATCG
* ** *
49669432 ATGCC-ACTATCTTAGACAGGGTCTTACATG-AAATCAAATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGTAAATCAAATATCG
* * *
49669474 ATACCAATGTCCCAGACATGGTCTTACACGTAAATCTAAA-ATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAAATC-AAATATCG
* **
49669518 ATGCCAACGTCCTAGATTTGGTCTTACA
1 ATGCCAACGTCCCAGACATGGTCTTACA
49669546 AAAAATGAAA
Statistics
Matches: 89, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
42 24 0.27
43 37 0.42
44 28 0.31
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCAAATATCG
Found at i:49680590 original size:26 final size:27
Alignment explanation
Indices: 49680554--49680620 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
49680544 CTTAGCTTTT
49680554 ATGAGCATCCCGATTAAA-GGCTCTTC
1 ATGAGCATCCCGATTAAATGGCTCTTC
*
49680580 ATGAGCATCCCG-TTAAATTGGCTCTTT
1 ATGAGCATCCCGATTAAA-TGGCTCTTC
* *
49680607 GTGAGCTTCCCGAT
1 ATGAGCATCCCGAT
49680621 AGTGCTTGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.14
26 12 0.34
27 17 0.49
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.31
Consensus pattern (27 bp):
ATGAGCATCCCGATTAAATGGCTCTTC
Found at i:49691922 original size:39 final size:40
Alignment explanation
Indices: 49691827--49692049 Score: 273
Period size: 39 Copynumber: 5.7 Consensus size: 40
49691817 TTGAATGATG
*
49691827 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
49691865 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
49691906 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
49691945 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
49691984 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
49692023 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
49692050 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 93 0.56
40 61 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:49692013 original size:79 final size:81
Alignment explanation
Indices: 49691827--49692049 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
49691817 TTGAATGATG
* * *
49691827 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
49691888 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
49691906 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
49691968 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
49691984 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
49692048 TG
66 TG
49692050 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:49692071 original size:79 final size:79
Alignment explanation
Indices: 49691827--49692082 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
49691817 TTGAATGATG
* * * *
49691827 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
49691888 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
49691906 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
49691970 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
49691984 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
49692048 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
49692064 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
49692083 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.29
79 70 0.46
80 36 0.24
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:49694003 original size:57 final size:57
Alignment explanation
Indices: 49693907--49694054 Score: 147
Period size: 57 Copynumber: 2.6 Consensus size: 57
49693897 TGTATACGAG
* * * * * *
49693907 AGGATTACCAGTCCAGGCTAAATCCTTTTTATGATATATGCTCTAAA-GAGCTT-GATC
1 AGGATTACCCGTCCGGGCTAAATCC-TTTCATAACATATGCTCGAAAGGA-CTTAGATC
* * * * *
49693964 TGGATTACCCGTCCGGGCTAAATCCAATTCATAACATATGCTCGAGAGGATTTATATC
1 AGGATTACCCGTCCGGGCTAAATCC-TTTCATAACATATGCTCGAAAGGACTTAGATC
*
49694022 AGGATTACCCGTTCGGGCTAAATCCTTTCATAA
1 AGGATTACCCGTCCGGGCTAAATCCTTTCATAA
49694055 ATGAGGTCGA
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
57 46 0.62
58 28 0.38
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (57 bp):
AGGATTACCCGTCCGGGCTAAATCCTTTCATAACATATGCTCGAAAGGACTTAGATC
Found at i:49695055 original size:15 final size:16
Alignment explanation
Indices: 49695016--49695055 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
49695006 ATTGTTTTCT
49695016 TTTTCATTTAATTAAA
1 TTTTCATTTAATTAAA
* *
49695032 TTGTCATTTAA-TAAC
1 TTTTCATTTAATTAAA
49695047 TTTTCATTT
1 TTTTCATTT
49695056 TTTCAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.30, C:0.10, G:0.03, T:0.57
Consensus pattern (16 bp):
TTTTCATTTAATTAAA
Found at i:49718965 original size:55 final size:55
Alignment explanation
Indices: 49718861--49718975 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 55
49718851 CAAAGTTGTA
* * *
49718861 CACGGGTAGGCCACACGGGCGTGTGCCATGGCCGTGTTTAAATGACAGTGTCGTC
1 CACGGATAGGCCACACGGGCGTGTGCCATGGCCGTGTTTAAAAGACAGTGTCGCC
* * *
49718916 CACGGATAGG-CAGCACGGGTGTGTGTCC-TGGCCGTG-TTAATAAGTCAGTGTTGCC
1 CACGGATAGGCCA-CACGGGCGTGTG-CCATGGCCGTGTTTAA-AAGACAGTGTCGCC
49718971 CACGG
1 CACGG
49718976 TTGAAGGGCA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
54 6 0.12
55 43 0.84
56 2 0.04
ACGTcount: A:0.18, C:0.24, G:0.35, T:0.23
Consensus pattern (55 bp):
CACGGATAGGCCACACGGGCGTGTGCCATGGCCGTGTTTAAAAGACAGTGTCGCC
Found at i:49719525 original size:34 final size:34
Alignment explanation
Indices: 49719481--49719548 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
49719471 GCACGGTTGA
* *
49719481 ACAGTCTTGGGCCTAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTA-CAGTG
*
49719516 ACAGT-TTGGGCCTTAGCCCATCTCAGTACAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
49719549 TCAAAAATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (34 bp):
ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
Found at i:49726215 original size:15 final size:16
Alignment explanation
Indices: 49726195--49726233 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
49726185 AAGATGACAA
49726195 GAAATCCAAAATA-AG
1 GAAATCCAAAATAGAG
*
49726210 GAAATCCGAAATAGAG
1 GAAATCCAAAATAGAG
49726226 G-AATCCAA
1 GAAATCCAA
49726234 GATACCATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 18 0.86
16 3 0.14
ACGTcount: A:0.54, C:0.15, G:0.18, T:0.13
Consensus pattern (16 bp):
GAAATCCAAAATAGAG
Done.