Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 189 of 276
Found at i:62281449 original size:45 final size:45
Alignment explanation
Indices: 62281368--62281934 Score: 233
Period size: 45 Copynumber: 12.2 Consensus size: 45
62281358 AACTTTAGGA
* * * *
62281368 AGATAAGGTTTG-TAGCTTTAATCTGCTCTACTGCAACTTCAGAG
1 AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGAG
* *
62281412 AGATAAGATTTGCTATCTTCAGTCTGCTCCATTGCAACTTCAG-G
1 AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGAG
* * * * * * *
62281456 CAGATAAGGTTCGCGACTTGTAGCTTCAATTTG-TGCCATTCCAGCTTTCA-AGG
1 -AGATAAGATT--TG-C---TATCTTCAATCTGCT-CCACTGCAAC-TTCAGA-G
* * * * ** * *
62281509 AGATGAGATTTACTATCTT-TATGTTGCTCCGTTGCAACTTTAGGG
1 AGATAAGATTTGCTATCTTCAAT-CTGCTCCACTGCAACTTCAGAG
*
62281554 AGATAAGACTCGCAACTTG-TAGCTTCAATCTGCTCCACTGCAACTTCAG-G
1 AGATAAGA-T------TTGCTATCTTCAATCTGCTCCACTGCAACTTCAGAG
** * * * *
62281604 AAGATAAGATTCACCATAATTTTTTGCTTTAATCTGTTCCATTGCAACGTCA-AGG
1 -AGATAAGATT-TGC-T-A-----T-CTTCAATCTGCTCCACTGCAACTTCAGA-G
* *
62281659 AAATAAGATTTGCTATCTTCGATCTGCTCCACTGCAACTTCA-AGG
1 AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGA-G
* * * * * * * *
62281704 AGATAAGATCTAC-AACTTCGATCTACTCTACTGCTACTTCAGGG
1 AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGAG
* * * **
62281748 AGATGAGATTTGCTGTCTTCAGTCTGCTCCACTGTGACTTCATG-G
1 AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCA-GAG
* * * * * *
62281793 AGATAAGACTT-ATAACTTCAACCTGCTCTACTGCAACTTTAGAG
1 AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGAG
* * * * * * *
62281837 AGATAAGGTTT-ATAGCTTTAATCTACTCTACTGCAACTTCAAAG
1 AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGAG
* * *
62281881 AGATAAGATTTTCTATCTTCAATCTACTCCACTGCAACTTCAGGG
1 AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGAG
62281926 AGATAAGAT
1 AGATAAGAT
62281935 CCGTGACTTT
Statistics
Matches: 390, Mismatches: 92, Indels: 81
0.69 0.16 0.14
Matches are distributed among these distances:
43 1 0.00
44 116 0.30
45 147 0.38
46 18 0.05
47 3 0.01
48 2 0.01
49 1 0.00
50 3 0.01
51 48 0.12
52 17 0.04
53 2 0.01
54 31 0.08
55 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (45 bp):
AGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGAG
Found at i:62281743 original size:44 final size:44
Alignment explanation
Indices: 62281641--62281935 Score: 189
Period size: 44 Copynumber: 6.6 Consensus size: 44
62281631 TTTAATCTGT
* * * * * * * *
62281641 TCCATTGCAACGTCAAGGAAATAAGATTTGCTATCTTCGATCTGC
1 TCCACTGCAACTTCAAGGAGATAAGATCTAC-AACTTCAATCTAC
*
62281686 TCCACTGCAACTTCAAGGAGATAAGATCTACAACTTCGATCTAC
1 TCCACTGCAACTTCAAGGAGATAAGATCTACAACTTCAATCTAC
* * * * * * ** * *
62281730 TCTACTGCTACTTCAGGGAGATGAGATTTGCTGTCTTCAGTCTGC
1 TCCACTGCAACTTCAAGGAGATAAGATCTAC-AACTTCAATCTAC
** * * * *
62281775 TCCACTGTGACTTCATGGAGATAAGA-CTTATAACTTCAACCTGC
1 TCCACTGCAACTTCAAGGAGATAAGATC-TACAACTTCAATCTAC
* * * * * * *
62281819 TCTACTGCAACTT-TAGAGAGATAAGGTTTATAGCTTTAATCTAC
1 TCCACTGCAACTTCAAG-GAGATAAGATCTACAACTTCAATCTAC
* * * * *
62281863 TCTACTGCAACTTCAAAGAGATAAGATTTTCTATCTTCAATCTAC
1 TCCACTGCAACTTCAAGGAGATAAGATCTAC-AACTTCAATCTAC
*
62281908 TCCACTGCAACTTCAGGGAGATAAGATC
1 TCCACTGCAACTTCAAGGAGATAAGATC
62281936 CGTGACTTTA
Statistics
Matches: 192, Mismatches: 52, Indels: 12
0.75 0.20 0.05
Matches are distributed among these distances:
43 1 0.01
44 99 0.52
45 92 0.48
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (44 bp):
TCCACTGCAACTTCAAGGAGATAAGATCTACAACTTCAATCTAC
Found at i:62281945 original size:89 final size:89
Alignment explanation
Indices: 62281680--62281956 Score: 281
Period size: 89 Copynumber: 3.1 Consensus size: 89
62281670 GCTATCTTCG
* * * *
62281680 ATCTGCTCCACTGCAACTTCAAGGAGATAAGATCTAC-AACTTCGATCTACTCTACTGCTACTTC
1 ATCTACTCCACTGCAACTTCAAGGAGATAAGATCTTCTAACTTCAATCTACTCTACTGCAACTTC
* * *
62281744 AGGGAGATGAGATTTGCTGTCTTCA
66 AGGGAGATAAGATTTG-TGACTTTA
* * ** * * * * *
62281769 GTCTGCTCCACTGTGACTTCATGGAGATAAGA-CTTATAACTTCAACCTGCTCTACTGCAACTTT
1 ATCTACTCCACTGCAACTTCAAGGAGATAAGATCTTCTAACTTCAATCTACTCTACTGCAACTTC
* * *
62281833 AGAGAGATAAGGTTTAT-AGCTTTA
66 AGGGAGATAAGATTTGTGA-CTTTA
* * * * *
62281857 ATCTACTCTACTGCAACTTCAAAGAGATAAGATTTTCTATCTTCAATCTACTCCACTGCAACTTC
1 ATCTACTCCACTGCAACTTCAAGGAGATAAGATCTTCTAACTTCAATCTACTCTACTGCAACTTC
**
62281922 AGGGAGATAAGATCCGTGACTTTA
66 AGGGAGATAAGATTTGTGACTTTA
62281946 ATCTACTCCAC
1 ATCTACTCCAC
62281957 GATTTTGTTA
Statistics
Matches: 147, Mismatches: 37, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
88 32 0.22
89 114 0.78
90 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (89 bp):
ATCTACTCCACTGCAACTTCAAGGAGATAAGATCTTCTAACTTCAATCTACTCTACTGCAACTTC
AGGGAGATAAGATTTGTGACTTTA
Found at i:62287997 original size:33 final size:33
Alignment explanation
Indices: 62287930--62288000 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
62287920 TGGAAAGGTT
* *
62287930 AGGTATACTTTGTGTATTCCATATGAAAAAGAA
1 AGGTATACTTTGTGTATACCATATCAAAAAGAA
*
62287963 AGGTATACTTTGTGTATACCACT-TCAAAAGGAA
1 AGGTATACTTTGTGTATACCA-TATCAAAAAGAA
62287996 AGGTA
1 AGGTA
62288001 CACTATATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (33 bp):
AGGTATACTTTGTGTATACCATATCAAAAAGAA
Found at i:62288018 original size:32 final size:33
Alignment explanation
Indices: 62287955--62288025 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
62287945 ATTCCATATG
* * * *
62287955 AAAAAGAAAGGTATACTTTGTGTATACCACTTC
1 AAAAGGAAAGGTACACTATATGTATACCACTTC
* *
62287988 AAAAGGAAAGGTACACTATATGTGTA-CACTTG
1 AAAAGGAAAGGTACACTATATGTATACCACTTC
62288020 AAAAGG
1 AAAAGG
62288026 TTATGTGCAC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 11 0.34
33 21 0.66
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (33 bp):
AAAAGGAAAGGTACACTATATGTATACCACTTC
Found at i:62288064 original size:33 final size:32
Alignment explanation
Indices: 62288008--62288124 Score: 130
Period size: 33 Copynumber: 3.6 Consensus size: 32
62287998 GTACACTATA
62288008 TGTGTAC-ACTTGAAAAGGTTATGTGCACCTTG
1 TGTGTACAACTTGAAAAGG-TATGTGCACCTTG
* *
62288040 TGTGTACAAATTGAAAATGGTATGTACA-CTTCG
1 TGTGTACAACTTGAAAA-GGTATGTGCACCTT-G
* * *
62288073 TGTGTACCACTTGAAAAGGGAATGTGCACCTCG
1 TGTGTACAACTTGAAAA-GGTATGTGCACCTTG
*
62288106 GGTGTACAACTTGAAAAGG
1 TGTGTACAACTTGAAAAGG
62288125 AAAGGTCTAT
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
32 12 0.17
33 55 0.77
34 4 0.06
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (32 bp):
TGTGTACAACTTGAAAAGGTATGTGCACCTTG
Found at i:62294296 original size:13 final size:13
Alignment explanation
Indices: 62294278--62294304 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
62294268 ATATTGCATG
62294278 AAAAATTTTATCA
1 AAAAATTTTATCA
62294291 AAAAATTTTATCA
1 AAAAATTTTATCA
62294304 A
1 A
62294305 TTATGTGTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (13 bp):
AAAAATTTTATCA
Found at i:62294599 original size:54 final size:54
Alignment explanation
Indices: 62294532--62294640 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
62294522 ATAAATAATT
*
62294532 AAATAGAATTAAAACTCATTTTATATCTTCTTCTTCTTCATAAAATACATGGAA
1 AAATAGAATTAAAACTCATTTTATATCTTCTTATTCTTCATAAAATACATGGAA
62294586 AAATAGAATTAAAACTCATTTTATATCTTCTTATTCTTCATAAAATACATGGAA
1 AAATAGAATTAAAACTCATTTTATATCTTCTTATTCTTCATAAAATACATGGAA
62294640 A
1 A
62294641 CCCTAAGAGA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.39
Consensus pattern (54 bp):
AAATAGAATTAAAACTCATTTTATATCTTCTTATTCTTCATAAAATACATGGAA
Found at i:62295452 original size:33 final size:33
Alignment explanation
Indices: 62295415--62295625 Score: 146
Period size: 33 Copynumber: 6.5 Consensus size: 33
62295405 TACTCAAATG
* * *
62295415 GTACAACTTGAACAGGTTATGTACACTTTGTGT
1 GTACCACTTGAAAAGGTTAGGTACACTTTGTGT
* *
62295448 GTA-CACTTGAAAAGGTTAGGTATACTTTGTAT
1 GTACCACTTGAAAAGGTTAGGTACACTTTGTGT
* ** *
62295480 AG-ACCA-TATAAAAAGGAAAGGTATACTTTGTGT
1 -GTACCACT-TGAAAAGGTTAGGTACACTTTGTGT
* * * ** * *
62295513 ATGCCACTTGAAAGGGAAAGGTACACTATATGT
1 GTACCACTTGAAAAGGTTAGGTACACTTTGTGT
* * *
62295546 GTA-CACTTGAAAAGGTTATGTGCACCTTGTGT
1 GTACCACTTGAAAAGGTTAGGTACACTTTGTGT
* * * *
62295578 GTACAAATTGAAAATGG-TATGTACACTTCGTGT
1 GTACCACTTGAAAA-GGTTAGGTACACTTTGTGT
62295611 GTACCACTT-AAAAGG
1 GTACCACTTGAAAAGG
62295626 GAATATGCAC
Statistics
Matches: 138, Mismatches: 33, Indels: 16
0.74 0.18 0.09
Matches are distributed among these distances:
31 2 0.01
32 54 0.39
33 79 0.57
34 3 0.02
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.31
Consensus pattern (33 bp):
GTACCACTTGAAAAGGTTAGGTACACTTTGTGT
Found at i:62300564 original size:40 final size:40
Alignment explanation
Indices: 62300509--62300690 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
62300499 TATTCGAATG
62300509 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
62300549 ATATCCGGGATAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
62300589 ATATCCGGGCTAAGTCCTGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * *
62300629 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
* *
62300669 ATATCC-GTCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
62300691 TACTTGGGTT
Statistics
Matches: 127, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 13 0.10
40 111 0.87
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:62303126 original size:42 final size:42
Alignment explanation
Indices: 62303079--62303161 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
62303069 GAAGAAATTT
*
62303079 AGAGATGATTCAGGCCGGTCTAAAGGCTCTTCGGGCTTTTCA
1 AGAGATGATTCAGGCCGGTCTAAAGGCACTTCGGGCTTTTCA
62303121 AGAGATGATTCAGGCCGGTCTAAAGGCACTTCGGGCTTTTC
1 AGAGATGATTCAGGCCGGTCTAAAGGCACTTCGGGCTTTTC
62303162 TAGACGAGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (42 bp):
AGAGATGATTCAGGCCGGTCTAAAGGCACTTCGGGCTTTTCA
Found at i:62308247 original size:38 final size:38
Alignment explanation
Indices: 62308183--62308257 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
62308173 AATCCGACTT
*
62308183 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
62308221 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
62308258 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:62308373 original size:40 final size:40
Alignment explanation
Indices: 62308311--62308484 Score: 190
Period size: 40 Copynumber: 4.3 Consensus size: 40
62308301 AGGTATCGAC
62308311 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
62308350 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * ** * *
62308390 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * *
62308430 GTTATATCCGGGCTAGGTCCC-AAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
62308469 GACGTGTATTCGGGCT
1 GA--TGTATCCGGGCT
62308485 TTCGTACCTA
Statistics
Matches: 114, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 21 0.18
40 83 0.73
41 10 0.09
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:62315674 original size:40 final size:40
Alignment explanation
Indices: 62315588--62315681 Score: 100
Period size: 40 Copynumber: 2.4 Consensus size: 40
62315578 CGACTATGTT
* **
62315588 TGGCACTTAGTCTGCAATTAGTGATAACTTCGGCTATATA
1 TGGCACTTAGTGTGCAATTAGAAATAACTTCGGCTATATA
** * *
62315628 AAGCACTTAGTGTGCGAATT-GAAATATCTTCGGCTATATG
1 TGGCACTTAGTGTGC-AATTAGAAATAACTTCGGCTATATA
*
62315668 TGGCACTAAGTGTG
1 TGGCACTTAGTGTG
62315682 TGATACTGAG
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
40 39 0.91
41 4 0.09
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCAATTAGAAATAACTTCGGCTATATA
Found at i:62316090 original size:10 final size:10
Alignment explanation
Indices: 62316077--62316109 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
62316067 TCGTTATTTT
*
62316077 ATCGGGGATC
1 ATCGGGAATC
62316087 ATCGGGAATC
1 ATCGGGAATC
62316097 ATCGGGAATC
1 ATCGGGAATC
62316107 ATC
1 ATC
62316110 ATCACATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.21
Consensus pattern (10 bp):
ATCGGGAATC
Found at i:62316123 original size:8 final size:8
Alignment explanation
Indices: 62316110--62316136 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
62316100 GGGAATCATC
62316110 ATCACATT
1 ATCACATT
62316118 ATCACATT
1 ATCACATT
62316126 ATCACATT
1 ATCACATT
62316134 ATC
1 ATC
62316137 GACTACTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (8 bp):
ATCACATT
Found at i:62323481 original size:93 final size:93
Alignment explanation
Indices: 62323368--62323539 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
62323358 CGCCCATAAG
* *
62323368 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
62323433 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
62323461 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
62323526 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
62323540 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:62323536 original size:46 final size:46
Alignment explanation
Indices: 62323361--62323536 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
62323351 TGTAACCCGC
* * *
62323361 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
62323407 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
62323457 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
62323500 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
62323537 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:62336434 original size:16 final size:16
Alignment explanation
Indices: 62336415--62336446 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
62336405 AATTGTTTTA
62336415 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
62336431 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
62336447 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:62336709 original size:50 final size:50
Alignment explanation
Indices: 62336646--62336885 Score: 239
Period size: 50 Copynumber: 4.8 Consensus size: 50
62336636 ACCGAAGCTC
* * *
62336646 TCTGGTACGCGTAGTAGCCTGTACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
* * * * * * *
62336696 TCTGGTGCACGTAGTAGCCTGCGCTTAGTACTATACACGTGACTTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
* * * ** *
62336746 TCTGATACACGTAGTAGCCTGCACTTAGTACTACATACGTGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCTA-TCAA
* **** *
62336798 -CGGGTATGTATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
* *
62336847 TCTAGTACATGTAGTAGCCTGCACTTAGTACTACACACG
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACG
62336886 TGACTCACAA
Statistics
Matches: 149, Mismatches: 38, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
49 3 0.02
50 111 0.74
51 34 0.23
52 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
Found at i:62336861 original size:101 final size:101
Alignment explanation
Indices: 62336707--62336888 Score: 267
Period size: 101 Copynumber: 1.8 Consensus size: 101
62336697 CTGGTGCACG
* * * * *
62336707 TAGTAGCCTGCGCTTAGTACTATACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGATACACGTAGTAGCCTGCACTT
*
62336772 AGTACTACATACGTGATCGAAGTTAACGGGTATGTA
66 AGTACTACACACGTGATCGAAGTTAACGGGTATGTA
* * *
62336808 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCT-AGTACATGTAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGA-TACACGTAGTAGCCTGCACT
62336872 TAGTACTACACACGTGA
65 TAGTACTACACACGTGA
62336889 CTCACAACGA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
100 1 0.01
101 70 0.99
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGATACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCGAAGTTAACGGGTATGTA
Found at i:62342268 original size:28 final size:29
Alignment explanation
Indices: 62342225--62342294 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 29
62342215 CTGAATCTCA
*
62342225 CCATAAAGGCAT-CCTTT-AAGAGGGTTT
1 CCATAAAGGCTTACCTTTCAAGAGGGTTT
* * **
62342252 CCATAAGGGCTTACCTTTCTAGAGTTTTT
1 CCATAAAGGCTTACCTTTCAAGAGGGTTT
62342281 CCATAAAGGCTTAC
1 CCATAAAGGCTTAC
62342295 GCTTCTAGAG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 10 0.29
28 5 0.14
29 20 0.57
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (29 bp):
CCATAAAGGCTTACCTTTCAAGAGGGTTT
Found at i:62342283 original size:29 final size:29
Alignment explanation
Indices: 62342249--62342308 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
62342239 TTTAAGAGGG
*
62342249 TTTCCATAAGGGCTTAC-CTTTCTAGAGTT
1 TTTCCATAAAGGCTTACGC-TTCTAGAGTT
62342278 TTTCCATAAAGGCTTACGCTTCTAGAGTT
1 TTTCCATAAAGGCTTACGCTTCTAGAGTT
62342307 TT
1 TT
62342309 GTCACAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 28 0.97
30 1 0.03
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.42
Consensus pattern (29 bp):
TTTCCATAAAGGCTTACGCTTCTAGAGTT
Found at i:62342317 original size:29 final size:29
Alignment explanation
Indices: 62342249--62342317 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
62342239 TTTAAGAGGG
* *
62342249 TTTCCATAAGGGCTTACCTTTCTAGAGTT
1 TTTCCACAAAGGCTTACCTTTCTAGAGTT
*
62342278 TTTCCATAAAGGCTTACGC-TTCTAGAGTT
1 TTTCCACAAAGGCTTAC-CTTTCTAGAGTT
62342307 TTGT-CACAAAG
1 TT-TCCACAAAG
62342318 ACTTTTATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 34 0.94
30 2 0.06
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (29 bp):
TTTCCACAAAGGCTTACCTTTCTAGAGTT
Found at i:62342530 original size:53 final size:52
Alignment explanation
Indices: 62342441--62342550 Score: 141
Period size: 53 Copynumber: 2.1 Consensus size: 52
62342431 CCTTAAATTT
62342441 TTCCATATGATGCCATAACCCACCAGTTACGATCTTACAAAATATCGTATTC
1 TTCCATATGATGCCATAACCCACCAGTTACGATCTTACAAAATATCGTATTC
* * * * * *
62342493 TTCCTATATGATTCCATAATCCACTAGTTA-GATTCTTACACAATATGGTCTTC
1 TTCC-ATATGATGCCATAACCCACCAGTTACGA-TCTTACAAAATATCGTATTC
62342546 TTCCA
1 TTCCA
62342551 GTGCCATGGA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
52 7 0.14
53 43 0.86
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.35
Consensus pattern (52 bp):
TTCCATATGATGCCATAACCCACCAGTTACGATCTTACAAAATATCGTATTC
Found at i:62348819 original size:28 final size:28
Alignment explanation
Indices: 62348781--62348837 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
62348771 CTTTATGGAT
*
62348781 TTAGTGCTTCAATCAACACAATTCTTGA
1 TTAGTGCTTCAATCAACACAATTCATGA
62348809 TTAGTGCTTCAATCAACACAATTCATGA
1 TTAGTGCTTCAATCAACACAATTCATGA
62348837 T
1 T
62348838 GCTCTTTACC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (28 bp):
TTAGTGCTTCAATCAACACAATTCATGA
Found at i:62349322 original size:23 final size:25
Alignment explanation
Indices: 62349296--62349342 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
62349286 TATCATTCAT
*
62349296 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
62349319 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
62349343 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:62349709 original size:46 final size:46
Alignment explanation
Indices: 62349641--62349811 Score: 252
Period size: 46 Copynumber: 3.9 Consensus size: 46
62349631 ACTCATTCAC
*
62349641 TTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCT
1 TTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCT
62349686 TTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCT
1 TTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCT
62349732 TTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTA--C-
1 TTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCT
* *
62349775 --ACA---CAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTA
62349812 CACACAAGTT
Statistics
Matches: 122, Mismatches: 3, Indels: 9
0.91 0.02 0.07
Matches are distributed among these distances:
38 33 0.27
41 2 0.02
44 1 0.01
45 4 0.03
46 82 0.67
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.41
Consensus pattern (46 bp):
TTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCT
Found at i:62349794 original size:38 final size:38
Alignment explanation
Indices: 62349743--62349823 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 38
62349733 TTCATGTCAC
*
62349743 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAA
62349781 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAA
62349819 GTTGC
1 GTTGC
62349824 NNNNNNNNNN
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (38 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAA
Found at i:62351801 original size:299 final size:298
Alignment explanation
Indices: 62351234--62351820 Score: 1149
Period size: 299 Copynumber: 2.0 Consensus size: 298
62351224 CATTTCTCAT
62351234 CACTTTCTCTTATTTTCTCTTCACTACGAATCAAAAACATAGGACCTTATGTAAGAAAACTCTAC
1 CACTTTCTCTTATTTTCTCTTCACTACGAATCAAAAACATAGGACCTTATGTAAGAAAACTCTAC
62351299 TATAACATTATTTCCATGCTTTGTCAATAATAACAAACTTAAAAACATATTGAAATCTTGATATA
66 TATAACATTATTTCCATGCTTTGTCAATAATAACAAACTTAAAAACATATTGAAATCTTGATATA
62351364 CTTACCTTGTTCTATTGATACTAATCTTTAACTTGATTTTCTCTCTCCTCCAGCTTCTATTTCTT
131 CTTACCTTGTTCTATTGATACTAATCTTTAACTTGATTTTCTCTCTCCTCCAGCTTCTATTTCTT
62351429 GAATCCAACTTGATATTCTAACTCCCCATGCTCTCCTTAACATTTTTGTCTCTTGGTAGCTATGG
196 GAATCCAACTTGATATTCTAACTCCCCATGCTCTCCTTAACATTTTTGTCTCTTGGTAGCTATGG
62351494 AAATTCATTTGATTTTTGGGTGAAAATGCTCTCCTTAA
261 AAATTCATTTGATTTTTGGGTGAAAATGCTCTCCTTAA
62351532 CACTTTCTCTTATTTTCTCTTCACTAAC-ATATCAAAAACATAGGACCTTATGTAAGAAAACTCT
1 CACTTTCTCTTATTTTCTCTTCACT-ACGA-ATCAAAAACATAGGACCTTATGTAAGAAAACTCT
62351596 ACTATAACATTATTTCCATGCTTTGTCAATAATAACAAACTTAAAAACATATTGAAATCTTGATA
64 ACTATAACATTATTTCCATGCTTTGTCAATAATAACAAACTTAAAAACATATTGAAATCTTGATA
62351661 TACTTACCTTGTTCTATTGATACTAATCTTTAACTTGATTTTCTCTCTCCTCCAGCTTCTATTTC
129 TACTTACCTTGTTCTATTGATACTAATCTTTAACTTGATTTTCTCTCTCCTCCAGCTTCTATTTC
62351726 TTGAATCCAACTTGATATTCTAACTCCCCATGCTCTCCTTAACATTTTTGTCTCTTGGTAGCTAT
194 TTGAATCCAACTTGATATTCTAACTCCCCATGCTCTCCTTAACATTTTTGTCTCTTGGTAGCTAT
62351791 GGAAATTCATTTGATTTTTGGGTGAAAATG
259 GGAAATTCATTTGATTTTTGGGTGAAAATG
62351821 GTGAATTTTT
Statistics
Matches: 287, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
298 26 0.09
299 261 0.91
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.40
Consensus pattern (298 bp):
CACTTTCTCTTATTTTCTCTTCACTACGAATCAAAAACATAGGACCTTATGTAAGAAAACTCTAC
TATAACATTATTTCCATGCTTTGTCAATAATAACAAACTTAAAAACATATTGAAATCTTGATATA
CTTACCTTGTTCTATTGATACTAATCTTTAACTTGATTTTCTCTCTCCTCCAGCTTCTATTTCTT
GAATCCAACTTGATATTCTAACTCCCCATGCTCTCCTTAACATTTTTGTCTCTTGGTAGCTATGG
AAATTCATTTGATTTTTGGGTGAAAATGCTCTCCTTAA
Found at i:62358535 original size:3 final size:3
Alignment explanation
Indices: 62358527--62358555 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
62358517 TTTTCGTAAA
62358527 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
62358556 TTTATAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:62360019 original size:51 final size:51
Alignment explanation
Indices: 62359943--62360062 Score: 170
Period size: 51 Copynumber: 2.4 Consensus size: 51
62359933 TCCCAAACTT
* * * *
62359943 ACTTCATACTTCATCCGGAATTATTACTTTGTTGTTCTGGCTTCAACAAGA
1 ACTTCATATTTCATCCGGAATTATTACTTTATTGCTCTAGCTTCAACAAGA
*
62359994 ACTTCATATTTCATCCGG-ATATATTACTTTATTGCTCTAGTTTCAACAAGA
1 ACTTCATATTTCATCCGGAAT-TATTACTTTATTGCTCTAGCTTCAACAAGA
*
62360045 GCTTCATATTTCATCCGG
1 ACTTCATATTTCATCCGG
62360063 TGTGAAAAAC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 2 0.03
51 60 0.97
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.40
Consensus pattern (51 bp):
ACTTCATATTTCATCCGGAATTATTACTTTATTGCTCTAGCTTCAACAAGA
Found at i:62360938 original size:16 final size:16
Alignment explanation
Indices: 62360900--62360949 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
62360890 TCTATAATTC
*
62360900 ATATTATAATTTAAATA
1 ATATAATAA-TTAAATA
* *
62360917 AAATAATAATTATATA
1 ATATAATAATTAAATA
*
62360933 ATATAATAATTTAATA
1 ATATAATAATTAAATA
62360949 A
1 A
62360950 AGTAAGAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 20 0.74
17 7 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAATAATTAAATA
Found at i:62366240 original size:3 final size:3
Alignment explanation
Indices: 62366232--62366257 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
62366222 TTTTCGTAAA
62366232 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
62366258 TTTTATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:62367718 original size:51 final size:50
Alignment explanation
Indices: 62367642--62367760 Score: 159
Period size: 51 Copynumber: 2.3 Consensus size: 50
62367632 TCCCAAACTT
* * *
62367642 ACTTCATACTTCATCCAGAATTATTACTTTGTTG-TTCTGGCTTCAACAAGA
1 ACTTCATATTTCATCC-GAATTATTACTTTATTGCTT-TAGCTTCAACAAGA
*
62367693 ACTTCATATTTCATCCGAATATATTACTTTATTGCTTTAGTTTCAACAAGA
1 ACTTCATATTTCATCCGAAT-TATTACTTTATTGCTTTAGCTTCAACAAGA
*
62367744 GCTTCATATTTCATCCG
1 ACTTCATATTTCATCCG
62367761 GATAACTTAG
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
50 4 0.07
51 55 0.90
52 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (50 bp):
ACTTCATATTTCATCCGAATTATTACTTTATTGCTTTAGCTTCAACAAGA
Found at i:62368655 original size:16 final size:16
Alignment explanation
Indices: 62368617--62368666 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
62368607 TCTATAATTC
*
62368617 ATATTATAATTTAAATA
1 ATATAATAA-TTAAATA
* *
62368634 AAATAATAATTATATA
1 ATATAATAATTAAATA
*
62368650 ATATAATAATTTAATA
1 ATATAATAATTAAATA
62368666 A
1 A
62368667 AGTAAGAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 20 0.74
17 7 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAATAATTAAATA
Found at i:62379098 original size:33 final size:33
Alignment explanation
Indices: 62379053--62379120 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
62379043 ATATTGTGAT
62379053 TGTCTTCAAAATGATATGTGATATGTGTATAGA
1 TGTCTTCAAAATGATATGTGATATGTGTATAGA
* *
62379086 TGTCTTCGAAATGGTATGTGATATGTGTATAGA
1 TGTCTTCAAAATGATATGTGATATGTGTATAGA
62379119 TG
1 TG
62379121 AAACCATGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.29, C:0.06, G:0.25, T:0.40
Consensus pattern (33 bp):
TGTCTTCAAAATGATATGTGATATGTGTATAGA
Found at i:62389578 original size:32 final size:32
Alignment explanation
Indices: 62389542--62389615 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
62389532 TGGCATAAAA
* *
62389542 CCATCAGTAATTGTAATA-AATTCGGTACATAG
1 CCATCAGTAATGGTAATATAA-TCGGCACATAG
**
62389574 CCATCAGCGATGGTAATATAATCGGCACATAG
1 CCATCAGTAATGGTAATATAATCGGCACATAG
*
62389606 CCATAAGTAA
1 CCATCAGTAA
62389616 ATATGATCGA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
32 32 0.94
33 2 0.06
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.26
Consensus pattern (32 bp):
CCATCAGTAATGGTAATATAATCGGCACATAG
Found at i:62391036 original size:40 final size:40
Alignment explanation
Indices: 62390963--62391146 Score: 255
Period size: 40 Copynumber: 4.5 Consensus size: 40
62390953 ACCCAAGTAT
* *
62390963 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
*
62391002 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
*
62391042 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTA---GCACAAATGC
* *
62391085 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
*
62391125 CTTCGAGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
62391147 CATCCGAATA
Statistics
Matches: 130, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
39 12 0.09
40 80 0.62
41 1 0.01
43 37 0.28
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:62391098 original size:83 final size:80
Alignment explanation
Indices: 62390963--62391146 Score: 280
Period size: 83 Copynumber: 2.3 Consensus size: 80
62390953 ACCCAAGTAT
* *
62390963 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
62391027 CACTAGCACAAATGC
66 AACTAGCACAAATGC
*
62391042 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGC-A--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
*
62391107 AGTAACTTGCACAAATGC
63 AGTAACTAGCACAAATGC
*
62391125 CTTCGAGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
62391147 CATCCGAATA
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
79 12 0.13
80 10 0.11
81 1 0.01
83 71 0.76
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTAGCACAAATGC
Found at i:62396168 original size:27 final size:27
Alignment explanation
Indices: 62396130--62396245 Score: 101
Period size: 27 Copynumber: 4.3 Consensus size: 27
62396120 CAAAACAGTC
* * *
62396130 ATTTTACCCTATAGGGGTGTTTCGGAA
1 ATTTTACACTATAGGGGTATTTCGGTA
* *
62396157 ATTTTACACTATAAGGGTATTTTGGTA
1 ATTTTACACTATAGGGGTATTTCGGTA
* *
62396184 ATTTTACA-AATCAGGGATATTTCGGTA
1 ATTTTACACTAT-AGGGGTATTTCGGTA
* * * *
62396211 ATTTTACA-AATTGGGGGTATTTTGATA
1 ATTTTACACTA-TAGGGGTATTTCGGTA
62396238 ATTTTACA
1 ATTTTACA
62396246 AACTGGGGTT
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
26 2 0.03
27 71 0.96
28 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
ATTTTACACTATAGGGGTATTTCGGTA
Found at i:62396246 original size:27 final size:27
Alignment explanation
Indices: 62396171--62396253 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 27
62396161 TACACTATAA
**
62396171 GGGTATTTTGGTAATTTTACAAATCAG
1 GGGTATTTTGGTAATTTTACAAATTGG
* *
62396198 GGATATTTCGGTAATTTTACAAATTGG
1 GGGTATTTTGGTAATTTTACAAATTGG
* *
62396225 GGGTATTTTGATAATTTTACAAACTGG
1 GGGTATTTTGGTAATTTTACAAATTGG
62396252 GG
1 GG
62396254 TTTTAACGAC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATTGG
Found at i:62399238 original size:13 final size:13
Alignment explanation
Indices: 62399222--62399247 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
62399212 GGAATGATTT
62399222 CTTGAAAATTTTG
1 CTTGAAAATTTTG
62399235 CTTGAAAATTTTG
1 CTTGAAAATTTTG
62399248 ACGTTTGGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
CTTGAAAATTTTG
Found at i:62400322 original size:27 final size:26
Alignment explanation
Indices: 62400274--62400333 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
62400264 GCGAGGCTGC
*
62400274 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
62400301 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
62400327 CAGATAT
1 CAGATAT
62400334 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:62400372 original size:55 final size:54
Alignment explanation
Indices: 62400308--62400416 Score: 191
Period size: 55 Copynumber: 2.0 Consensus size: 54
62400298 ATACAGATAT
* *
62400308 TGTGGCTAGGCCACCAGAACAGATATATATATATGTGGCGAAGCCACTAGATTG
1 TGTGGCTAGGCCACCAGAACAGATATATATATATGTGGCAAAGCCACCAGATTG
62400362 NTGTGGCTAGGCCACCAGAACAGATATATATATATGTGGCAAAGCCACCAGATTG
1 -TGTGGCTAGGCCACCAGAACAGATATATATATATGTGGCAAAGCCACCAGATTG
62400417 CAGCGAGGCT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.23
Consensus pattern (54 bp):
TGTGGCTAGGCCACCAGAACAGATATATATATATGTGGCAAAGCCACCAGATTG
Found at i:62402558 original size:42 final size:42
Alignment explanation
Indices: 62402499--62402606 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 42
62402489 TAAGATAACG
* *
62402499 TGTAAGACCATATCTGGGATATGGTATCAATATGAGACTTCA
1 TGTAAGACCATATCTGGGATATGGCATCAATACGAGACTTCA
* * *
62402541 TGTAAGACCATAGCTGGGCA-ATTGGCATCGATACGAGATTTCA
1 TGTAAGACCATATCTGGG-ATA-TGGCATCAATACGAGACTTCA
*
62402584 TGTAAGACCATATCTAGGATATG
1 TGTAAGACCATATCTGGGATATG
62402607 ACATTGGTAC
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
42 21 0.38
43 35 0.62
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCAATACGAGACTTCA
Found at i:62405135 original size:60 final size:60
Alignment explanation
Indices: 62405042--62405241 Score: 400
Period size: 60 Copynumber: 3.3 Consensus size: 60
62405032 TGATGTCGGG
62405042 ATTACCAGTCCAGGCTAAATCCTTTATAGTGACAAACACCCTTAATGAGTTCGGATCTGA
1 ATTACCAGTCCAGGCTAAATCCTTTATAGTGACAAACACCCTTAATGAGTTCGGATCTGA
62405102 ATTACCAGTCCAGGCTAAATCCTTTATAGTGACAAACACCCTTAATGAGTTCGGATCTGA
1 ATTACCAGTCCAGGCTAAATCCTTTATAGTGACAAACACCCTTAATGAGTTCGGATCTGA
62405162 ATTACCAGTCCAGGCTAAATCCTTTATAGTGACAAACACCCTTAATGAGTTCGGATCTGA
1 ATTACCAGTCCAGGCTAAATCCTTTATAGTGACAAACACCCTTAATGAGTTCGGATCTGA
62405222 ATTACCAGTCCAGGCTAAAT
1 ATTACCAGTCCAGGCTAAAT
62405242 TCAGACCCAA
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 140 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (60 bp):
ATTACCAGTCCAGGCTAAATCCTTTATAGTGACAAACACCCTTAATGAGTTCGGATCTGA
Found at i:62415943 original size:37 final size:37
Alignment explanation
Indices: 62415887--62415965 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
62415877 CCGAGCTCTA
* * *
62415887 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
62415924 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
62415961 AAGAC
1 AAGAC
62415966 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:62419723 original size:5 final size:6
Alignment explanation
Indices: 62419705--62419731 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
62419695 GATTGTTTAA
62419705 TTATTT TTATTT TTATTT TTATTT TTA
1 TTATTT TTATTT TTATTT TTATTT TTA
62419732 CAGAATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTATTT
Found at i:62423397 original size:14 final size:14
Alignment explanation
Indices: 62423378--62423407 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
62423368 TTATTCTTGA
62423378 ATATATCACTGCGG
1 ATATATCACTGCGG
*
62423392 ATATATCAGTGCGG
1 ATATATCACTGCGG
62423406 AT
1 AT
62423408 TTAGACTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (14 bp):
ATATATCACTGCGG
Found at i:62425912 original size:23 final size:23
Alignment explanation
Indices: 62425886--62425931 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
62425876 GATGAATATG
62425886 CTGAAAATTTGAAATTTATGGAA
1 CTGAAAATTTGAAATTTATGGAA
62425909 CTGAAAATTTGAAATTTATGGAA
1 CTGAAAATTTGAAATTTATGGAA
62425932 GAAAATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.35
Consensus pattern (23 bp):
CTGAAAATTTGAAATTTATGGAA
Found at i:62432219 original size:348 final size:348
Alignment explanation
Indices: 62431582--62432261 Score: 1288
Period size: 348 Copynumber: 2.0 Consensus size: 348
62431572 CGTAAGCCAA
62431582 GTACGCCTCACACCCTTTCTAAACCAATTTCTCAGCCACAAGAGCGAAAATCACATTAGACAAGT
1 GTACGCCTCACACCCTTTCTAAACCAATTTCTCAGCCACAAGAGCGAAAATCACATTAGACAAGT
62431647 AATCTAGATGCTCGCCAATCACAACCACCTCCTTATCATCTTCAGTCCTTAAAACGAACCTTTTA
66 AATCTAGATGCTCGCCAATCACAACCACCTCCTTATCATCTTCAGTCCTTAAAACGAACCTTTTA
* *
62431712 GTCATACAGTCCAAACTAACTCAGTGCTTGACCAACCAATCCATGCCAAGAATTAAGTCGAACTC
131 GTCATACAGTCCAAACTAACTCAGTACTTGACCAACCAATCCATGCCAAGAATTAAGTCAAACTC
* *
62431777 CCCAAACGAAAGCTCTATCAGATCTTCCAGAAAAATAGTGCCTTGCACCTCTAATGGAACATCCC
196 CCCAAACGAAAGCTCCATCAGATCTACCAGAAAAATAGTGCCTTGCACCTCTAATGGAACATCCC
62431842 TACAGAGTTTACTAACCTAGACAAACTGCCCCAACGGACTCAGTACAATTATCTCACTAGAAGTG
261 TACAGAGTTTACTAACCTAGACAAACTGCCCCAACGGACTCAGTACAATTATCTCACTAGAAGTG
62431907 CTCTCAAGAGCAAAGTACGCCTT
326 CTCTCAAGAGCAAAGTACGCCTT
*
62431930 GTACGCCTCACACCTTTTCTAAACCAATTTCTCAGCCACAAGAGCGAAAATCACATTAGACAAGT
1 GTACGCCTCACACCCTTTCTAAACCAATTTCTCAGCCACAAGAGCGAAAATCACATTAGACAAGT
*
62431995 AATCTAGATGCTCGCCAATCACAACCACCTCCTTATCATCTTCAGTCCTTAAAACGACCCTTTTA
66 AATCTAGATGCTCGCCAATCACAACCACCTCCTTATCATCTTCAGTCCTTAAAACGAACCTTTTA
*
62432060 GTCATACAGTCCAAACTAACTCAGTACTTGACCAACCAATCCATGCCCAGAATTAAGTCAAACTC
131 GTCATACAGTCCAAACTAACTCAGTACTTGACCAACCAATCCATGCCAAGAATTAAGTCAAACTC
62432125 CCCAAACGAAAGCTCCATCAGATCTACCAGAAAAATAGTGCCTTGCACCTCTAATGGAACATCCC
196 CCCAAACGAAAGCTCCATCAGATCTACCAGAAAAATAGTGCCTTGCACCTCTAATGGAACATCCC
*
62432190 TACAGAGTTTACTAACCTGGACAAACTGCCCCAACGGACTCAGTACAATTATCTCACTAGAAGTG
261 TACAGAGTTTACTAACCTAGACAAACTGCCCCAACGGACTCAGTACAATTATCTCACTAGAAGTG
62432255 CTCTCAA
326 CTCTCAA
62432262 CAATTACTCC
Statistics
Matches: 324, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
348 324 1.00
ACGTcount: A:0.34, C:0.30, G:0.12, T:0.23
Consensus pattern (348 bp):
GTACGCCTCACACCCTTTCTAAACCAATTTCTCAGCCACAAGAGCGAAAATCACATTAGACAAGT
AATCTAGATGCTCGCCAATCACAACCACCTCCTTATCATCTTCAGTCCTTAAAACGAACCTTTTA
GTCATACAGTCCAAACTAACTCAGTACTTGACCAACCAATCCATGCCAAGAATTAAGTCAAACTC
CCCAAACGAAAGCTCCATCAGATCTACCAGAAAAATAGTGCCTTGCACCTCTAATGGAACATCCC
TACAGAGTTTACTAACCTAGACAAACTGCCCCAACGGACTCAGTACAATTATCTCACTAGAAGTG
CTCTCAAGAGCAAAGTACGCCTT
Found at i:62434922 original size:31 final size:31
Alignment explanation
Indices: 62434884--62434961 Score: 138
Period size: 31 Copynumber: 2.5 Consensus size: 31
62434874 TGGCCAACAA
62434884 CCCACACACCTGTGTGAAACACCCGTATGGG
1 CCCACACACCTGTGTGAAACACCCGTATGGG
*
62434915 CCCACACACCCGTGTGAAACACCCGTATGGG
1 CCCACACACCTGTGTGAAACACCCGTATGGG
*
62434946 CCCACACGCCTGTGTG
1 CCCACACACCTGTGTG
62434962 GCCCACAAGC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.23, C:0.38, G:0.23, T:0.15
Consensus pattern (31 bp):
CCCACACACCTGTGTGAAACACCCGTATGGG
Found at i:62441076 original size:36 final size:36
Alignment explanation
Indices: 62441029--62441100 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
62441019 AGAGTAAGTC
*
62441029 TGTTGGATTTGGTAAATCAATAAGATGAAGATATAA
1 TGTTGGATTTGGTAAATCAATAAAATGAAGATATAA
62441065 TGTTGGATTTGGTAAATCAATAAAATGAAGATATAA
1 TGTTGGATTTGGTAAATCAATAAAATGAAGATATAA
62441101 GGTCTTTCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.43, C:0.03, G:0.21, T:0.33
Consensus pattern (36 bp):
TGTTGGATTTGGTAAATCAATAAAATGAAGATATAA
Found at i:62445787 original size:89 final size:88
Alignment explanation
Indices: 62445636--62445904 Score: 474
Period size: 84 Copynumber: 3.1 Consensus size: 88
62445626 TTTCATCATT
*
62445636 CATTTACATAATTTTTCATCTACTTCATACTTAACATCATTAACCACATAGGTTTCGTACATACC
1 CATTTACATAATTTTTCATCTACTTCATACTTAACATCATTAAGCACATAGGTTTCGTACATACC
62445701 TGTACCATTATGTTCTTTCTATCA
66 TGTACCA-TATGTTCTTTCTATCA
62445725 CATTTACATAATTTTTCATCTACTTCATACTTAACATCATTAAGCACATAGGTTTCGTACATACC
1 CATTTACATAATTTTTCATCTACTTCATACTTAACATCATTAAGCACATAGGTTTCGTACATACC
62445790 TGTACC--A--TTCTTTCTATCA
66 TGTACCATATGTTCTTTCTATCA
62445809 CATTTACATAATTTTTCATCTACTTCATACTTAACATCATTAAGCACATAGGTTTCGTACATACC
1 CATTTACATAATTTTTCATCTACTTCATACTTAACATCATTAAGCACATAGGTTTCGTACATACC
62445874 TGTACCACTATGTTCTTATCTATCA
66 TGTACCA-TATGTTCTT-TCTATCA
62445899 CATTTA
1 CATTTA
62445905 TCACTCCAAT
Statistics
Matches: 173, Mismatches: 1, Indels: 11
0.94 0.01 0.06
Matches are distributed among these distances:
84 83 0.48
86 1 0.01
87 1 0.01
89 75 0.43
90 13 0.08
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.41
Consensus pattern (88 bp):
CATTTACATAATTTTTCATCTACTTCATACTTAACATCATTAAGCACATAGGTTTCGTACATACC
TGTACCATATGTTCTTTCTATCA
Found at i:62446011 original size:43 final size:42
Alignment explanation
Indices: 62445964--62446149 Score: 237
Period size: 43 Copynumber: 4.3 Consensus size: 42
62445954 AACGAACTCG
* *
62445964 CACACTTAGTGTCAATTAATTAGCTGAAGCTATAATTATATCA
1 CACACTTAGTGCCAATTAATTAGCCGAAGCTATAATT-TATCA
* * *
62446007 CACACTTAGTTCCAATTAATTAGCCGAGGCTATAATTTTATCG
1 CACACTTAGTGCCAATTAATTAGCCGAAGCTATAA-TTTATCA
*
62446050 CACACTTAGTGCCAATTAATTAGCCGAGGCTATAATTGTATCA
1 CACACTTAGTGCCAATTAATTAGCCGAAGCTATAATT-TATCA
* * * *
62446093 CACATTTAGTGCCAATTAATTAGCCGTAGCTATTTCATTTATCG
1 CACACTTAGTGCCAATTAATTAGCCGAAGCTA--TAATTTATCA
62446137 CACACTTAGTGCC
1 CACACTTAGTGCC
62446150 TCAAATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
42 2 0.02
43 102 0.81
44 18 0.14
45 4 0.03
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (42 bp):
CACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTTATCA
Found at i:62446069 original size:86 final size:86
Alignment explanation
Indices: 62445961--62446149 Score: 274
Period size: 86 Copynumber: 2.2 Consensus size: 86
62445951 TTCAACGAAC
* * *
62445961 TCGCACACTTAGTGTCAATTAATTAGCTGAAGCTATAATTATATCACACACTTAGTTCCAATTAA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTATATCACACACTTAGTGCCAATTAA
62446026 TTAGCCG-AGGCTATA-ATTTTA
66 TTAGCCGTA-GCTATATA-TTTA
* * *
62446047 TCGCACACTTAGTGCCAATTAATTAGCCGAGGCTATAATTGTATCACACATTTAGTGCCAATTAA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTATATCACACACTTAGTGCCAATTAA
*
62446112 TTAGCCGTAGCTATTTCATTTA
66 TTAGCCGTAGCTATAT-ATTTA
62446134 TCGCACACTTAGTGCC
1 TCGCACACTTAGTGCC
62446150 TCAAATTCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
86 71 0.76
87 21 0.23
88 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (86 bp):
TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTATATCACACACTTAGTGCCAATTAA
TTAGCCGTAGCTATATATTTA
Found at i:62451631 original size:46 final size:46
Alignment explanation
Indices: 62451564--62451692 Score: 158
Period size: 46 Copynumber: 2.8 Consensus size: 46
62451554 TATATCTCGA
* *
62451564 GGCCAATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTC-TCAA-T
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT--TCAT-AAGT
*
62451611 -GCCGATGCATGTCCCTGACATGTCTTACACTGGCT-TTCATAATGT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTTCATAA-GT
*
62451656 GGCCGATGCATGTCCGAGACATGTCTTACACTGGCTC
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTC
62451693 ACATACCACC
Statistics
Matches: 72, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
43 4 0.06
44 1 0.01
45 2 0.03
46 65 0.90
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (46 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTTCATAAGT
Found at i:62458529 original size:28 final size:29
Alignment explanation
Indices: 62458489--62458560 Score: 67
Period size: 28 Copynumber: 2.5 Consensus size: 29
62458479 GCTAGAGAGT
* * *
62458489 TGGAAGTCGTTGTGGCAATCTATG-AAAA
1 TGGAAGCCTTTGTGGCAATATATGAAAAA
* **
62458517 TGGAAGCCTTTGTAGTGATATATGAAAAA
1 TGGAAGCCTTTGTGGCAATATATGAAAAA
62458546 T-GAATGCCTTTGTGG
1 TGGAA-GCCTTTGTGG
62458561 TGCGCTCTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
28 21 0.60
29 14 0.40
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.32
Consensus pattern (29 bp):
TGGAAGCCTTTGTGGCAATATATGAAAAA
Found at i:62466608 original size:10 final size:10
Alignment explanation
Indices: 62466593--62466637 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
62466583 ATTGAAACAT
62466593 TTTAATATAA
1 TTTAATATAA
62466603 TTTAATAT-A
1 TTTAATATAA
62466612 --TAATAT--
1 TTTAATATAA
62466618 TTTAATATAA
1 TTTAATATAA
62466628 TTTAATATAA
1 TTTAATATAA
62466638 AAATAATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
7 6 0.19
8 6 0.19
9 1 0.03
10 18 0.58
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
TTTAATATAA
Found at i:62466708 original size:32 final size:31
Alignment explanation
Indices: 62466672--62466756 Score: 83
Period size: 27 Copynumber: 2.8 Consensus size: 31
62466662 TAAATTATAT
62466672 TATTTTTATTAAATTATATTTAATAA--TA-
1 TATTTTTATTAAATTATATTTAATAATTTAC
* *
62466700 -A-TTATATTTAAA-TATGATTAAATAATTTAC
1 TATTTTTA-TTAAATTAT-ATTTAATAATTTAC
62466730 TATTTTTTATTAAATTATATTTAATAA
1 TA-TTTTTATTAAATTATATTTAATAA
62466757 CAATCCTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
26 7 0.16
27 14 0.32
29 2 0.05
31 1 0.02
32 13 0.30
33 7 0.16
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (31 bp):
TATTTTTATTAAATTATATTTAATAATTTAC
Found at i:62471325 original size:30 final size:30
Alignment explanation
Indices: 62471291--62471351 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
62471281 TCCTTAACTC
62471291 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
62471321 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
62471351 A
1 A
62471352 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:62473591 original size:25 final size:25
Alignment explanation
Indices: 62473513--62473588 Score: 107
Period size: 25 Copynumber: 3.0 Consensus size: 25
62473503 GCGCTCTCTG
*
62473513 ATTATTAGCACATTGGTGCTATCTA
1 ATTATTAGCACGTTGGTGCTATCTA
* *
62473538 ATTATTAGCACGTTGGTGCTCTCTG
1 ATTATTAGCACGTTGGTGCTATCTA
*
62473563 ATTATTAGCACGTTAGTGCTTATCTA
1 ATTATTAGCACGTTGGTGC-TATCTA
62473589 TTAGCACATT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
25 40 0.91
26 4 0.09
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (25 bp):
ATTATTAGCACGTTGGTGCTATCTA
Found at i:62491371 original size:51 final size:51
Alignment explanation
Indices: 62491316--62491565 Score: 448
Period size: 51 Copynumber: 4.9 Consensus size: 51
62491306 TGAACCTTAG
* *
62491316 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCGCTTTGT
1 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
62491367 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
62491418 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
62491469 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
62491520 GAATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCAC
1 GAATATAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
62491566 CGGGTATCCG
Statistics
Matches: 194, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
50 1 0.01
51 193 0.99
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (51 bp):
GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:62494460 original size:22 final size:23
Alignment explanation
Indices: 62494410--62494463 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
62494400 CATGGGAAGT
*
62494410 ATGTCTCGAGGCATGAACAACCTA
1 ATGTCTCGAGCCATGAAC-ACCTA
*
62494434 A--TCTCGAGCCATGTAC-CCTA
1 ATGTCTCGAGCCATGAACACCTA
62494454 ATGTCTCGAG
1 ATGTCTCGAG
62494464 ACCTGTCAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 5 0.19
22 20 0.77
24 1 0.04
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (23 bp):
ATGTCTCGAGCCATGAACACCTA
Found at i:62496657 original size:22 final size:22
Alignment explanation
Indices: 62496613--62496658 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
62496603 CTATGCTTAT
* * *
62496613 TTTTAACAAAATTATTTTTAAA
1 TTTTAACAAAATAAATTTAAAA
*
62496635 TTTTAAGAAAATAAATTTAAAA
1 TTTTAACAAAATAAATTTAAAA
62496657 TT
1 TT
62496659 AAAATGAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
TTTTAACAAAATAAATTTAAAA
Found at i:62501067 original size:27 final size:28
Alignment explanation
Indices: 62501037--62501089 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
62501027 AAATCTATAT
62501037 TTTAATAATAGT-AAAAAAAATAACAAA
1 TTTAATAATAGTGAAAAAAAATAACAAA
* * *
62501064 TTTAATATTATTGCAAAAAAATAACA
1 TTTAATAATAGTGAAAAAAAATAACA
62501090 TAAAAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (28 bp):
TTTAATAATAGTGAAAAAAAATAACAAA
Found at i:62502781 original size:27 final size:27
Alignment explanation
Indices: 62502743--62502796 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
62502733 AATATTCGGG
*
62502743 AATCATATATATAAAGTTATAAATAAA
1 AATCATATATATAAAGTTACAAATAAA
62502770 AATCATATATATAAAGTTACAAATAAA
1 AATCATATATATAAAGTTACAAATAAA
62502797 GGTGGATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.31
Consensus pattern (27 bp):
AATCATATATATAAAGTTACAAATAAA
Found at i:62508884 original size:25 final size:25
Alignment explanation
Indices: 62508836--62508884 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
62508826 CATAATTGAA
* * *
62508836 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
62508861 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
62508885 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:62509327 original size:43 final size:43
Alignment explanation
Indices: 62509280--62509408 Score: 188
Period size: 43 Copynumber: 3.0 Consensus size: 43
62509270 TATGTAATTG
* * *
62509280 ATATTGAAATGGAAAAGATGAAAAATGAATATGAGATGAGAAA
1 ATATTGAAATGGAAAATATGAGAAATGATTATGAGATGAGAAA
62509323 ATATTGAAATGGAAAATATGAGAAATGATTATGAGATGAGAAA
1 ATATTGAAATGGAAAATATGAGAAATGATTATGAGATGAGAAA
* * *
62509366 ATATTAAAAT-GACAAATATGAGGAATGATTTTGAGATGAGAAA
1 ATATTGAAATGGA-AAATATGAGAAATGATTATGAGATGAGAAA
62509409 TGAAAAATGA
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
42 2 0.03
43 77 0.97
ACGTcount: A:0.52, C:0.01, G:0.22, T:0.25
Consensus pattern (43 bp):
ATATTGAAATGGAAAATATGAGAAATGATTATGAGATGAGAAA
Found at i:62509349 original size:16 final size:16
Alignment explanation
Indices: 62509285--62509349 Score: 52
Period size: 15 Copynumber: 4.4 Consensus size: 16
62509275 AATTGATATT
*
62509285 GAAATGGAAAAGATGA
1 GAAATGGAAAATATGA
*
62509301 AAAAT-G--AATATGA
1 GAAATGGAAAATATGA
*
62509314 G--ATGAGAAAATAT-T
1 GAAATG-GAAAATATGA
62509328 GAAATGGAAAATATGA
1 GAAATGGAAAATATGA
62509344 GAAATG
1 GAAATG
62509350 ATTATGAGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 14
0.66 0.09 0.25
Matches are distributed among these distances:
11 2 0.05
13 7 0.19
14 1 0.03
15 14 0.38
16 13 0.35
ACGTcount: A:0.55, C:0.00, G:0.25, T:0.20
Consensus pattern (16 bp):
GAAATGGAAAATATGA
Found at i:62514313 original size:42 final size:42
Alignment explanation
Indices: 62514254--62514375 Score: 145
Period size: 43 Copynumber: 2.9 Consensus size: 42
62514244 TTAAGGTCAC
* *
62514254 TGAGATTACGTGTAAGACCATATCTGGGGTATGGCATCTATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
* * * * *
62514296 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTAGTATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATA-TGGCATCGATA
** *
62514339 CAAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCAT
62514376 TGGTACGGTA
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 32 0.49
43 33 0.51
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:62522043 original size:51 final size:51
Alignment explanation
Indices: 62521973--62522085 Score: 149
Period size: 51 Copynumber: 2.2 Consensus size: 51
62521963 ACTTAATTGT
*
62521973 TTTCAAATCTGACGT-TTTTAAATAAATATAAATATTTGTTTAAT-TTGTTTTA
1 TTTCAAATCTG--GTGTTTTAAATAAATATAAATATTT-TTTAATATTATTTTA
* * *
62522025 TTTTAAATCTGGTGTTTTACATAAATATAAATATTTTTTTATATTATTTTA
1 TTTCAAATCTGGTGTTTTAAATAAATATAAATATTTTTTAATATTATTTTA
62522076 TTTCAAATCT
1 TTTCAAATCT
62522086 TGTCTATAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
50 7 0.13
51 37 0.69
52 10 0.19
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (51 bp):
TTTCAAATCTGGTGTTTTAAATAAATATAAATATTTTTTAATATTATTTTA
Found at i:62522337 original size:82 final size:80
Alignment explanation
Indices: 62522237--62522434 Score: 245
Period size: 82 Copynumber: 2.5 Consensus size: 80
62522227 AATTGAATAA
*
62522237 AATTTGTTTC-AGAATTTATTCCTACCGTTCAACAGATTTTATTCCATTTTGATTTTGTTTCCAA
1 AATTTTTTTCGAG-ATTTATTCCTACCGTTCAACAGATTTTATTCCATTTTGATTTTGTTTCCAA
*
62522301 ACGAGAATTAACTGAAT
65 AC-AGAATTAACTAAAT
* * * * * *
62522318 AATTTTGTTTTGGGATTTATTCCCACCGTTTAATAGATTTTATTCGATTTTGATTTTGTTTCCAA
1 AATTTT-TTTCGAGATTTATTCCTACCGTTCAACAGATTTTATTCCATTTTGATTTTGTTTCCAA
* *
62522383 ACAGATTTAATTAAAT
65 ACAGAATTAACTAAAT
* * *
62522399 AATTTTTTTCGAGATTTAATCCTGCAGTTCAACAGA
1 AATTTTTTTCGAGATTTATTCCTACCGTTCAACAGA
62522435 ATTGATTTTG
Statistics
Matches: 97, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
80 22 0.23
81 22 0.23
82 52 0.54
83 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (80 bp):
AATTTTTTTCGAGATTTATTCCTACCGTTCAACAGATTTTATTCCATTTTGATTTTGTTTCCAAA
CAGAATTAACTAAAT
Found at i:62527473 original size:6 final size:6
Alignment explanation
Indices: 62527456--62527485 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
62527446 TCAGATCTTG
62527456 TATTTAA TATTTA TATTTA TATTTA TATTT
1 TATTT-A TATTTA TATTTA TATTTA TATTT
62527486 GTTCACTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATTTA
Found at i:62532279 original size:5 final size:5
Alignment explanation
Indices: 62532269--62532296 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
62532259 AGTATTAGAA
62532269 CGAGT CGAGT CGAGT CGAGT CGAGT CGA
1 CGAGT CGAGT CGAGT CGAGT CGAGT CGA
62532297 ATTAAGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.21, G:0.39, T:0.18
Consensus pattern (5 bp):
CGAGT
Found at i:62539858 original size:25 final size:25
Alignment explanation
Indices: 62539822--62539905 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 25
62539812 TGGACACACC
*
62539822 ACAGCTCATATGAGCTTCCCGATTT
1 ACAGCTCGTATGAGCTTCCCGATTT
* *
62539847 GCAGCTCGTATGAGCTTCTCGATTT
1 ACAGCTCGTATGAGCTTCCCGATTT
* * * *
62539872 ATAGCTCGTATGAGCTTACCGGTTC
1 ACAGCTCGTATGAGCTTCCCGATTT
62539897 ACAGCTCGT
1 ACAGCTCGT
62539906 GAGAGCATAC
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.32
Consensus pattern (25 bp):
ACAGCTCGTATGAGCTTCCCGATTT
Found at i:62539911 original size:25 final size:25
Alignment explanation
Indices: 62539821--62539940 Score: 91
Period size: 25 Copynumber: 4.8 Consensus size: 25
62539811 GTGGACACAC
* * *
62539821 CACAGCTCATATGAGCTTCCCGATT
1 CACAGCTCGTATGAGCATACCGATT
** *
62539846 TGCAGCTCGTATGAGC-TTCTCGATT
1 CACAGCTCGTATGAGCATAC-CGATT
* * * *
62539871 TATAGCTCGTATGAGCTTACCGGTT
1 CACAGCTCGTATGAGCATACCGATT
62539896 CACAGCTCGTGA-GAGCATACCGATT
1 CACAGCTCGT-ATGAGCATACCGATT
* **
62539921 CATAGCTCACATGAGCATAC
1 CACAGCTCGTATGAGCATAC
62539941 ATGTACATGA
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
24 3 0.04
25 70 0.92
26 3 0.04
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (25 bp):
CACAGCTCGTATGAGCATACCGATT
Found at i:62542356 original size:57 final size:58
Alignment explanation
Indices: 62542263--62542386 Score: 144
Period size: 57 Copynumber: 2.2 Consensus size: 58
62542253 AGCTTGGATG
* * * *
62542263 GGTAATCCTGATATAATCTCTCTCGAGCATATGTTACGATTA-GGGTTTAGCCTAGACT
1 GGTAATCCTAATATAATCTCTCTCGAGCATACGTTAC-ATAATGGATTTAGCCTAGACT
* * * * *
62542321 GGTAATCCTAAT-TGATCTCTTTTGAGCATACGTTACATAATGGATTTAGCCTGGATT
1 GGTAATCCTAATATAATCTCTCTCGAGCATACGTTACATAATGGATTTAGCCTAGACT
62542378 GGTAATCCT
1 GGTAATCCT
62542387 GTAATATGAT
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
56 3 0.05
57 42 0.75
58 11 0.20
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (58 bp):
GGTAATCCTAATATAATCTCTCTCGAGCATACGTTACATAATGGATTTAGCCTAGACT
Found at i:62554050 original size:24 final size:24
Alignment explanation
Indices: 62554022--62554073 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
62554012 TTTCTAGAAG
*
62554022 ATTTATTATTTATTA-CTATAATAT
1 ATTTAGTATTTATTAGC-ATAATAT
62554046 ATTTAGTATTTATTAGCATAATAT
1 ATTTAGTATTTATTAGCATAATAT
62554070 ATTT
1 ATTT
62554074 GACATTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (24 bp):
ATTTAGTATTTATTAGCATAATAT
Found at i:62554080 original size:24 final size:25
Alignment explanation
Indices: 62554029--62554085 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
62554019 AAGATTTATT
*
62554029 ATTTATTA-CTATAATATATTTAGT
1 ATTTATTAGCTATAATATATTTAGC
62554053 ATTTATTAGC-ATAATATATTT-GAC
1 ATTTATTAGCTATAATATATTTAG-C
62554077 ATTTATTAG
1 ATTTATTAG
62554086 AATTAGGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 1 0.03
24 28 0.93
25 1 0.03
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (25 bp):
ATTTATTAGCTATAATATATTTAGC
Found at i:62555097 original size:32 final size:32
Alignment explanation
Indices: 62555056--62555117 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
62555046 AAGAAAGGGC
62555056 ACATTAAGTCTGAGTGCTATAAGTTGCAGAGA
1 ACATTAAGTCTGAGTGCTATAAGTTGCAGAGA
62555088 ACATTAAGTCTGAGTGCTATAAGTTGCAGA
1 ACATTAAGTCTGAGTGCTATAAGTTGCAGA
62555118 ATAAGATCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (32 bp):
ACATTAAGTCTGAGTGCTATAAGTTGCAGAGA
Found at i:62557144 original size:40 final size:40
Alignment explanation
Indices: 62557053--62557146 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
62557043 CCCACTCCGT
* *
62557053 CCAACCCAACACACC--ATGTGGGGATAAAATCGACCCAC
1 CCAACCCTACACACCAAATATGGGGATAAAATCGACCCAC
* * *
62557091 CCATCCCTGCACACCAAATATGGGGATAAAATCGACCCAT
1 CCAACCCTACACACCAAATATGGGGATAAAATCGACCCAC
*
62557131 CCAACCGTACACACCA
1 CCAACCCTACACACCA
62557147 TAAAGTATCG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
38 12 0.26
40 34 0.74
ACGTcount: A:0.36, C:0.37, G:0.14, T:0.13
Consensus pattern (40 bp):
CCAACCCTACACACCAAATATGGGGATAAAATCGACCCAC
Found at i:62557527 original size:17 final size:18
Alignment explanation
Indices: 62557505--62557548 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
62557495 TGCCCGTTTG
*
62557505 GGCCCACACGCCT-GTGT
1 GGCCCACACGACTCGTGT
62557522 GGCCCACAC-ACTCGTGT
1 GGCCCACACGACTCGTGT
62557539 GGCCCACACG
1 GGCCCACACG
62557549 GCTCAAATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 2 0.08
17 22 0.92
ACGTcount: A:0.16, C:0.43, G:0.27, T:0.14
Consensus pattern (18 bp):
GGCCCACACGACTCGTGT
Found at i:62561742 original size:57 final size:57
Alignment explanation
Indices: 62561654--62561768 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
62561644 CCTGAGCAAC
* *
62561654 AGTCACTAAATTATTTATAACTGGAGCTACGAAACTCCAAATCAATTGATGTTAATT
1 AGTCACTAAATCATTTATAACTGGAGCTACGAAACTCCAAATCAAGTGATGTTAATT
62561711 AGTCACTAAATCATTTATAACTGGAGCTACGAAACTCCAAATCAAGTGATGTTAATT
1 AGTCACTAAATCATTTATAACTGGAGCTACGAAACTCCAAATCAAGTGATGTTAATT
62561768 A
1 A
62561769 TCCCTGAAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (57 bp):
AGTCACTAAATCATTTATAACTGGAGCTACGAAACTCCAAATCAAGTGATGTTAATT
Found at i:62561992 original size:27 final size:27
Alignment explanation
Indices: 62561954--62562005 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
62561944 GATTTCATTT
*
62561954 GAAACTAGACTCATTAAGGAGTCTAAG
1 GAAACTAGACTCATAAAGGAGTCTAAG
*
62561981 GAAACTAGACTCATAAATGAGTCTA
1 GAAACTAGACTCATAAAGGAGTCTA
62562006 GTCATATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.23
Consensus pattern (27 bp):
GAAACTAGACTCATAAAGGAGTCTAAG
Found at i:62562763 original size:43 final size:43
Alignment explanation
Indices: 62562696--62562875 Score: 175
Period size: 43 Copynumber: 4.0 Consensus size: 43
62562686 TCTGAATTCA
* *
62562696 TTCACCGACATT-TTGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGACATTATAGCCTGCTAGGCTCGAAGCCCGATATCAT
* * *
62562738 TTCACCGGCATTATAGCCTGTTAGGCCTGAGGCCCGATAGGCCCGATATTAT
1 TTCACCGACATTATAGCC---T--G-CT-AGGCTCGA-A-GCCCGATATCAT
*
62562790 CTCACCGACATTATAGCCTGCTAGGGC-CGAAGCCCGATATCAT
1 TTCACCGACATTATAGCCTGCTA-GGCTCGAAGCCCGATATCAT
* *
62562833 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGCTCGTATATCA
1 TTCACCGACATTATAGCCTGCTAGGCTCGAAGCCCG-ATATCA
62562876 CATTTCGATA
Statistics
Matches: 114, Mismatches: 11, Indels: 24
0.77 0.07 0.16
Matches are distributed among these distances:
42 14 0.12
43 44 0.39
44 7 0.06
45 4 0.04
46 6 0.05
47 1 0.01
48 1 0.01
49 3 0.03
50 6 0.05
51 1 0.01
52 27 0.24
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.27
Consensus pattern (43 bp):
TTCACCGACATTATAGCCTGCTAGGCTCGAAGCCCGATATCAT
Found at i:62562795 original size:52 final size:52
Alignment explanation
Indices: 62562726--62562828 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 52
62562716 TAGGCTTGAA
* * * *
62562726 GCCCGATATCATTTCACCGGCATTATAGCCTGTTA-GGCCTGAGGCCCGATAG
1 GCCCGATATCATCTCACCGACATTATAGCCTGCTAGGGCC-GAAGCCCGATAG
*
62562778 GCCCGATATTATCTCACCGACATTATAGCCTGCTAGGGCCGAAGCCCGATA
1 GCCCGATATCATCTCACCGACATTATAGCCTGCTAGGGCCGAAGCCCGATA
62562829 TCATTTCACC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
52 41 0.91
53 4 0.09
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.23
Consensus pattern (52 bp):
GCCCGATATCATCTCACCGACATTATAGCCTGCTAGGGCCGAAGCCCGATAG
Found at i:62570791 original size:23 final size:23
Alignment explanation
Indices: 62570761--62570807 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
62570751 AGCAGTTTTG
62570761 ACAATTGTGTTTATTTTAAGAAA
1 ACAATTGTGTTTATTTTAAGAAA
62570784 ACAATTGTGTTTATTTTAAGAAA
1 ACAATTGTGTTTATTTTAAGAAA
62570807 A
1 A
62570808 ACAGTTATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.43
Consensus pattern (23 bp):
ACAATTGTGTTTATTTTAAGAAA
Found at i:62570824 original size:24 final size:23
Alignment explanation
Indices: 62570761--62570825 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
62570751 AGCAGTTTTG
* *
62570761 ACAATTGTGTTTATTTTAAGAAA
1 ACAATTATGGTTATTTTAAGAAA
* *
62570784 ACAATTGTGTTTATTTTAAGAAAA
1 ACAATTATGGTTATTTTAAG-AAA
* *
62570808 ACAGTTATGGTTCTTTTA
1 ACAATTATGGTTATTTTA
62570826 TGTATCTACT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 20 0.54
24 17 0.46
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.45
Consensus pattern (23 bp):
ACAATTATGGTTATTTTAAGAAA
Found at i:62574912 original size:24 final size:24
Alignment explanation
Indices: 62574855--62574906 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
62574845 CTTTTAGAAG
* *
62574855 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
62574879 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
62574903 ATTT
1 ATTT
62574907 GACATTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:62574917 original size:24 final size:24
Alignment explanation
Indices: 62574855--62574918 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
62574845 CTTTTAGAAG
* * *
62574855 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTGATTAGCATAATAT
*
62574879 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTGATTAGCATAATAT
62574903 ATTT-GACATTGATTAG
1 ATTTAG-CATTGATTAG
62574919 AATTAGGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 1 0.03
24 35 0.97
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.48
Consensus pattern (24 bp):
ATTTAGCATTGATTAGCATAATAT
Found at i:62575884 original size:29 final size:27
Alignment explanation
Indices: 62575848--62575913 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 27
62575838 TATTAAATGC
*
62575848 TTTTTAAAAAAATAAAAAATAAAAACTA
1 TTTTTAAAAAAAT-AAAAATAAAAAATA
*
62575876 TTTTCTAAAAAAATGAAAATAAAAAATA
1 TTTT-TAAAAAAATAAAAATAAAAAATA
62575904 TTTTTAAAAA
1 TTTTTAAAAA
62575914 TCAAACGACA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
27 6 0.17
28 20 0.57
29 9 0.26
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.32
Consensus pattern (27 bp):
TTTTTAAAAAAATAAAAATAAAAAATA
Found at i:62583983 original size:12 final size:12
Alignment explanation
Indices: 62583966--62583990 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62583956 CCTACACCAA
62583966 ACAAAATGGCAC
1 ACAAAATGGCAC
62583978 ACAAAATGGCAC
1 ACAAAATGGCAC
62583990 A
1 A
62583991 AATAGGCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.24, G:0.16, T:0.08
Consensus pattern (12 bp):
ACAAAATGGCAC
Found at i:62588703 original size:19 final size:20
Alignment explanation
Indices: 62588679--62588719 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
62588669 TTGTTCACTT
62588679 TCTTTTCTTTGTTT-TTCTC
1 TCTTTTCTTTGTTTGTTCTC
62588698 TCTTTTCTTTGTTTGTTCTC
1 TCTTTTCTTTGTTTGTTCTC
62588718 TC
1 TC
62588720 AATTTCATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.00, C:0.22, G:0.07, T:0.71
Consensus pattern (20 bp):
TCTTTTCTTTGTTTGTTCTC
Found at i:62588801 original size:17 final size:16
Alignment explanation
Indices: 62588771--62588805 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
62588761 CTTGCCTCTC
*
62588771 TTTTCTTTTGATCTTT
1 TTTTCTTTTCATCTTT
62588787 TTTTGCTTTTCATCTTT
1 TTTT-CTTTTCATCTTT
62588804 TT
1 TT
62588806 CTTTTCTCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.74
Consensus pattern (16 bp):
TTTTCTTTTCATCTTT
Found at i:62590346 original size:24 final size:24
Alignment explanation
Indices: 62590301--62590346 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
62590291 AAGAAACAAT
* *
62590301 AATGAAAGTTCAACAACCTTTACA
1 AATGAAAGTTAAACAACATTTACA
62590325 AATGAAAG-TAAACAACTATTTA
1 AATGAAAGTTAAACAAC-ATTTA
62590347 TAGCCTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (24 bp):
AATGAAAGTTAAACAACATTTACA
Found at i:62593635 original size:39 final size:39
Alignment explanation
Indices: 62593573--62593755 Score: 190
Period size: 39 Copynumber: 4.7 Consensus size: 39
62593563 TTATTTCACG
* **
62593573 TAATCAGTGGATATGGCTCGTTTGAGCATGCATTCAGTA
1 TAATCAGTGGATATCGCTCGTTTGAGCAAACATTCAGTA
* *
62593612 TAATCATTGGATATCGCTTGTTTGAGCAAACATTCAGTA
1 TAATCAGTGGATATCGCTCGTTTGAGCAAACATTCAGTA
* * *
62593651 TAATCAGTGGGTATTGCTCATTTGAGCAAACATTCAGTA
1 TAATCAGTGGATATCGCTCGTTTGAGCAAACATTCAGTA
* * *
62593690 TAATCAATGGATAT-TCTCATTTGAGC-AACTATTCAGTA
1 TAATCAGTGGATATCGCTCGTTTGAGCAAAC-ATTCAGTA
* * * ** *
62593728 GAACCAATAAATATTGCTCGTTTGAGCA
1 TAATCAGTGGATATCGCTCGTTTGAGCA
62593756 CTTCAGTAGA
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
37 3 0.02
38 29 0.24
39 90 0.74
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (39 bp):
TAATCAGTGGATATCGCTCGTTTGAGCAAACATTCAGTA
Found at i:62593864 original size:109 final size:109
Alignment explanation
Indices: 62593621--62595077 Score: 1732
Period size: 109 Copynumber: 13.3 Consensus size: 109
62593611 ATAATCATTG
* * * * ** *
62593621 GATATCGCTTGTTTGAGCAAACATTCAGTATAATCAGTGGGTATTGCTCATTTGAGCAAACATTC
1 GATATTGCTCGTTTGAGC--AC-TTCAGTAGAATCAGTAGACATTGCTCGTTTGAGC--ACATTC
** * *
62593686 AGTATAATCAATGGATATT-CTCATTTGAGCAACTATTCAGTAGAACCAATA
61 AGTAGGATCAATAGATATTGCTC-GTTGAGC-ACT-TTCAGTAGAACCAATA
* * * *
62593737 AATATTGCTCGTTTGAGCACTTCAGTAGAATCATTAAACATTGCTCGTTTGGGCACATTCAGTAG
1 GATATTGCTCGTTTGAGCACTTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTAG
* * * *
62593802 GATCAATAGATATTGATTGTTGAGCACTTTCGGTAGAATCAATA
66 GATCAATAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAATA
* *
62593846 GATATTGCTCGTTTGAGCACTTCAGTAGAACCAGTAGACATTGCT-GATTTGAGCACATTTAGTA
1 GATATTGCTCGTTTGAGCACTTCAGTAGAATCAGTAGACATTGCTCG-TTTGAGCACATTCAGTA
* * *
62593910 GGATTAATAGATATTGCTCGTTGAGCACTTTTAATAGAACCAATA
65 GGATCAATAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAATA
* * *
62593955 GATATTGCTCGTTTAAGCACTTTCACTAGAATCAGTAGACATTGCTCGTTTGAGTACATTCAGTA
1 GATATTGCTCGTTTGAGCAC-TTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTA
* * * *
62594020 GGACCAGTAGGTATTGCTCATTGAGCACTTTCAGTAGAACCAATA
65 GGATCAATAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAATA
* * * * *
62594065 GATATTGCTC-ATTGAGAACTTCAGTAGAATCAATAGACATTTCTCGTTTGAGCATATTCAGTAG
1 GATATTGCTCGTTTGAGCACTTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTAG
* ** * ** *
62594129 GATCAGA-AGCTATAACTCGTTGAGCAC-TTCAATAGAATTAGTA
66 GATCA-ATAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAATA
* * * *
62594172 GATATTGCTCATTTGAGCATTTTCAGTAGAATCAGTAGACATTACTCGTTTGAGCACATTTAGTA
1 GATATTGCTCGTTTGAGCA-CTTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTA
* * *
62594237 GGATCAATAGATATTGCTAGTTAAGCACTTTCAGTAGAACCAGTA
65 GGATCAATAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAATA
* * *
62594282 GATATTGTTTG-TTGAGCACTTTCAGTAGAATCAGTAGACATTTCTCGTTTGAGCACATTCAGTA
1 GATATTGCTCGTTTGAGCAC-TTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTA
* * * * *
62594346 GGATCAGTAGATATTGCTCGTTGAGCATTTTCAGTGGTATCAATA
65 GGATCAATAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAATA
* * *
62594391 GATATTGCTCGTTTGAGCACTTCAGTAGAACCAGTAGACATTGCTGGTTTGAGCACATTTAGTAG
1 GATATTGCTCGTTTGAGCACTTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTAG
* *
62594456 GATTAATAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAGTA
66 GATCAATAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAATA
* * * *
62594500 GATATTGCTCGTTTGAGCACTTTCACTAGAATCAGTAGACATTACTCGTTTAAGCACATTCAATA
1 GATATTGCTCGTTTGAGCAC-TTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTA
* * *
62594565 GGATCAGTAAATATTGCTCATTGAGCACTTTCAGTAGAACCAATA
65 GGATCAATAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAATA
* * * * *
62594610 GATATTGCTC-ATTGACCACTTCAGTAGAATCAATAGACATTTCTCGTTTAAGCACATTCAGTAG
1 GATATTGCTCGTTTGAGCACTTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTAG
* ** *
62594674 GATCAGA-AGATATTGCTCGTTGAGCAC-TTCAATAGAATTAGTA
66 GATCA-ATAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAATA
* *
62594717 GATATTGCTCATTTGAGCACTTTCAGTAGAATCAGTAGACATTACTCGTTTGAGCACATTCAGTA
1 GATATTGCTCGTTTGAGCAC-TTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTA
* *
62594782 GGATCAGTAGATATTG-TCCGTTAAGCACTTTCAGTAGAACCAATA
65 GGATCAATAGATATTGCT-CGTTGAGCACTTTCAGTAGAACCAATA
*
62594827 GATATTGCTCG-TTGAGCACTTTCAGTAGAATCAGTAGACATTACTCGTTTGAGCACATTCAGTA
1 GATATTGCTCGTTTGAGCAC-TTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTA
* * * * * *
62594891 GGATCAGTAGATATTGCTCGTTGAGCATTTTCAGTGGTATCAGTA
65 GGATCAATAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAATA
* * * * * *
62594936 GATATTGTTTGTTTGAGAACTTTAAGTAGAATCAATAGACATTGCTCGTTTGAGCACATTTAGTA
1 GATATTGCTCGTTTGAGCAC-TTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTA
* * * * *
62595001 GGATCAGTAGATATTGCTCGTTAAGCACTTTCAGTAGTATCAGTA
65 GGATCAATAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAATA
* *
62595046 GATATTGCTC-ATTGAGTACTTCAGTAGAATCA
1 GATATTGCTCGTTTGAGCACTTCAGTAGAATCA
62595078 ATATTCAGGT
Statistics
Matches: 1159, Mismatches: 162, Indels: 48
0.85 0.12 0.04
Matches are distributed among these distances:
107 44 0.04
108 152 0.13
109 564 0.49
110 326 0.28
111 29 0.03
112 1 0.00
113 26 0.02
114 2 0.00
116 15 0.01
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (109 bp):
GATATTGCTCGTTTGAGCACTTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTAG
GATCAATAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAATA
Found at i:62594750 original size:545 final size:545
Alignment explanation
Indices: 62593644--62595077 Score: 2174
Period size: 545 Copynumber: 2.6 Consensus size: 545
62593634 TGAGCAAACA
* * ** * * ** * *
62593644 TTCAGTATAATCAGTGGGTATTGCTCATTTGAGCAAACATTCAGTATAATCAATGGATATTCTCA
1 TTCAGTAGAATCAGTAGACATTACTCGTTTGAGC--ACATTCAGTAGGATCAATAGATATTGTCA
* * * *
62593709 TTTGAGCAACTATTCAGTAGAACCAATAAATATTGCTCGTTTGAGCAC-TTCAGTAGAATCATTA
64 GTTAAGC-ACT-TTCAGTAGAACCAATAGATATTGCTCG-TTGAGCACTTTCAGTAGAATCAGTA
* * * * * * * * *
62593773 AACATTGCTCGTTTGGGCACATTCAGTAGGATCAATAGATATTGATTGTTGAGCACTTTCGGTAG
126 GACATTACTCGTTTGAGCACATTCAGTAGGATCAGTAGATATTGCTCGTTGAGCATTTTCAGTGG
* *
62593838 AATCAATAGATATTGCTCGTTTGAGCACTTCAGTAGAACCAGTAGACATTGCTGATTTGAGCACA
191 TATCAATAGATATTGCTCGTTTGAGCACTTCAGTAGAACCAGTAGACATTGCTGGTTTGAGCACA
* * *
62593903 TTTAGTAGGATTAATAGATATTGCTCGTTGAGCACTTTTAATAGAACCAATAGATATTGCTCGTT
256 TTTAGTAGGATTAATAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAGTAGATATTGCTCGTT
* * * * * **
62593968 TAAGCACTTTCACTAGAATCAGTAGACATTGCTCGTTTGAGTACATTCAGTAGGACCAGTAGGTA
321 TGAGCACTTTCACTAGAATCAGTAGACATTACTCGTTTAAGCACATTCAATAGGACCAGTAAATA
*
62594033 TTGCTCATTGAGCACTTTCAGTAGAACCAATAGATATTGCTCATTGAGAACTTCAGTAGAATCAA
386 TTGCTCATTGAGCACTTTCAGTAGAACCAATAGATATTGCTCATTGACAACTTCAGTAGAATCAA
* * *
62594098 TAGACATTTCTCGTTTGAGCATATTCAGTAGGATCAGAAGCTATAACTCGTTGAGCACTTCAATA
451 TAGACATTTCTCGTTTAAGCACATTCAGTAGGATCAGAAGATATAACTCGTTGAGCACTTCAATA
*
62594163 GAATTAGTAGATATTGCTCATTTGAGCATT
516 GAATTAGTAGATATTGCTCATTTGAGCACT
*
62594193 TTCAGTAGAATCAGTAGACATTACTCGTTTGAGCACATTTAGTAGGATCAATAGATATTG-CTAG
1 TTCAGTAGAATCAGTAGACATTACTCGTTTGAGCACATTCAGTAGGATCAATAGATATTGTC-AG
* * *
62594257 TTAAGCACTTTCAGTAGAACCAGTAGATATTGTTTGTTGAGCACTTTCAGTAGAATCAGTAGACA
65 TTAAGCACTTTCAGTAGAACCAATAGATATTGCTCGTTGAGCACTTTCAGTAGAATCAGTAGACA
*
62594322 TTTCTCGTTTGAGCACATTCAGTAGGATCAGTAGATATTGCTCGTTGAGCATTTTCAGTGGTATC
130 TTACTCGTTTGAGCACATTCAGTAGGATCAGTAGATATTGCTCGTTGAGCATTTTCAGTGGTATC
62594387 AATAGATATTGCTCGTTTGAGCACTTCAGTAGAACCAGTAGACATTGCTGGTTTGAGCACATTTA
195 AATAGATATTGCTCGTTTGAGCACTTCAGTAGAACCAGTAGACATTGCTGGTTTGAGCACATTTA
62594452 GTAGGATTAATAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAGTAGATATTGCTCGTTTGAG
260 GTAGGATTAATAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAGTAGATATTGCTCGTTTGAG
*
62594517 CACTTTCACTAGAATCAGTAGACATTACTCGTTTAAGCACATTCAATAGGATCAGTAAATATTGC
325 CACTTTCACTAGAATCAGTAGACATTACTCGTTTAAGCACATTCAATAGGACCAGTAAATATTGC
*
62594582 TCATTGAGCACTTTCAGTAGAACCAATAGATATTGCTCATTGACCACTTCAGTAGAATCAATAGA
390 TCATTGAGCACTTTCAGTAGAACCAATAGATATTGCTCATTGACAACTTCAGTAGAATCAATAGA
**
62594647 CATTTCTCGTTTAAGCACATTCAGTAGGATCAGAAGATATTGCTCGTTGAGCACTTCAATAGAAT
455 CATTTCTCGTTTAAGCACATTCAGTAGGATCAGAAGATATAACTCGTTGAGCACTTCAATAGAAT
62594712 TAGTAGATATTGCTCATTTGAGCACT
520 TAGTAGATATTGCTCATTTGAGCACT
* *
62594738 TTCAGTAGAATCAGTAGACATTACTCGTTTGAGCACATTCAGTAGGATCAGTAGATATTGTCCGT
1 TTCAGTAGAATCAGTAGACATTACTCGTTTGAGCACATTCAGTAGGATCAATAGATATTGTCAGT
62594803 TAAGCACTTTCAGTAGAACCAATAGATATTGCTCGTTGAGCACTTTCAGTAGAATCAGTAGACAT
66 TAAGCACTTTCAGTAGAACCAATAGATATTGCTCGTTGAGCACTTTCAGTAGAATCAGTAGACAT
62594868 TACTCGTTTGAGCACATTCAGTAGGATCAGTAGATATTGCTCGTTGAGCATTTTCAGTGGTATCA
131 TACTCGTTTGAGCACATTCAGTAGGATCAGTAGATATTGCTCGTTGAGCATTTTCAGTGGTATCA
* * * * * * * *
62594933 GTAGATATTGTTTGTTTGAGAACTTTAAGTAGAATCAATAGACATTGCTCGTTTGAGCACATTTA
196 ATAGATATTGCTCGTTTGAGCAC-TTCAGTAGAACCAGTAGACATTGCTGGTTTGAGCACATTTA
* * * * * *
62594998 GTAGGATCAGTAGATATTGCTCGTTAAGCACTTTCAGTAGTATCAGTAGATATTGCTC-ATTGAG
260 GTAGGATTAATAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAGTAGATATTGCTCGTTTGAG
* *
62595062 TAC-TTCAGTAGAATCA
325 CACTTTCACTAGAATCA
62595078 ATATTCAGGT
Statistics
Matches: 810, Mismatches: 71, Indels: 13
0.91 0.08 0.01
Matches are distributed among these distances:
544 20 0.02
545 640 0.79
546 95 0.12
547 27 0.03
549 28 0.03
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (545 bp):
TTCAGTAGAATCAGTAGACATTACTCGTTTGAGCACATTCAGTAGGATCAATAGATATTGTCAGT
TAAGCACTTTCAGTAGAACCAATAGATATTGCTCGTTGAGCACTTTCAGTAGAATCAGTAGACAT
TACTCGTTTGAGCACATTCAGTAGGATCAGTAGATATTGCTCGTTGAGCATTTTCAGTGGTATCA
ATAGATATTGCTCGTTTGAGCACTTCAGTAGAACCAGTAGACATTGCTGGTTTGAGCACATTTAG
TAGGATTAATAGATATTGCTCGTTGAGCACTTTCAGTAGAACCAGTAGATATTGCTCGTTTGAGC
ACTTTCACTAGAATCAGTAGACATTACTCGTTTAAGCACATTCAATAGGACCAGTAAATATTGCT
CATTGAGCACTTTCAGTAGAACCAATAGATATTGCTCATTGACAACTTCAGTAGAATCAATAGAC
ATTTCTCGTTTAAGCACATTCAGTAGGATCAGAAGATATAACTCGTTGAGCACTTCAATAGAATT
AGTAGATATTGCTCATTTGAGCACT
Found at i:62596843 original size:19 final size:20
Alignment explanation
Indices: 62596821--62596859 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
62596811 TTTAGTCATA
* *
62596821 TAAT-AATTTTTTATTATTT
1 TAATAAATTATTTAATATTT
62596840 TAATAAATTATTTAATATTT
1 TAATAAATTATTTAATATTT
62596860 CAATTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TAATAAATTATTTAATATTT
Found at i:62596907 original size:16 final size:15
Alignment explanation
Indices: 62596867--62596907 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
62596857 TTTCAATTTT
62596867 ATTTT-AATAAT-AA
1 ATTTTAAATAATAAA
62596880 ATTTTAAA-AATAAGA
1 ATTTTAAATAATAA-A
62596895 ATTTTAAATAATA
1 ATTTTAAATAATA
62596908 TTCTTCATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 8 0.33
14 3 0.12
15 9 0.38
16 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (15 bp):
ATTTTAAATAATAAA
Found at i:62599012 original size:31 final size:31
Alignment explanation
Indices: 62598976--62599038 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
62598966 TAAAATAATT
*
62598976 ATTAAATTATTT-AAAATTTTTCATTTAAATC
1 ATTAAATTATTTGAAAATTTTT-ATTCAAATC
*
62599007 ATTAAATTATTTGAAAGTTTTTATTCAAATC
1 ATTAAATTATTTGAAAATTTTTATTCAAATC
62599038 A
1 A
62599039 CTGGATGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 21 0.72
32 8 0.28
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.49
Consensus pattern (31 bp):
ATTAAATTATTTGAAAATTTTTATTCAAATC
Found at i:62603410 original size:39 final size:39
Alignment explanation
Indices: 62603316--62603410 Score: 92
Period size: 39 Copynumber: 2.5 Consensus size: 39
62603306 GATATTTTTG
* *
62603316 ATATAAAAT-ATATATTATATATTATATTAACTTAATAT
1 ATATAATATAATATATAATATATTATATTAACTTAATAT
*
62603354 -T-TAAGTATTAATTTATAATATATTATATT-A-TTATATTAT
1 ATATAA-TA-TAATATATAATATATTATATTAACTTA-A-TAT
62603393 ATATAATATAATATATAA
1 ATATAATATAATATATAA
62603411 AACATAAAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
36 3 0.07
37 5 0.11
38 3 0.07
39 29 0.63
40 3 0.07
41 3 0.07
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (39 bp):
ATATAATATAATATATAATATATTATATTAACTTAATAT
Found at i:62604145 original size:22 final size:22
Alignment explanation
Indices: 62604116--62604172 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
62604106 TAGCACGTTA
62604116 AGTGCTCTCTGTTTAGCACATCT
1 AGTGCTCTCTGTTTAGCAC-TCT
* *
62604139 -GTGCTCTCTGTATAGCACTTT
1 AGTGCTCTCTGTTTAGCACTCT
62604160 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
62604173 CGTTTGTGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (22 bp):
AGTGCTCTCTGTTTAGCACTCT
Found at i:62620081 original size:12 final size:12
Alignment explanation
Indices: 62620064--62620125 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
62620054 TATATTACTC
*
62620064 TTTTATTTTTAT
1 TTTTATTATTAT
62620076 TTTTATT-TT-T
1 TTTTATTATTAT
*
62620086 TTCTTGTTACTTA-
1 TT-TTATTA-TTAT
62620099 TTTTATTATTAT
1 TTTTATTATTAT
*
62620111 TATTATTATTAT
1 TTTTATTATTAT
62620123 TTT
1 TTT
62620126 ATACTTTCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 3 0.07
11 9 0.22
12 25 0.61
13 4 0.10
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:62620109 original size:3 final size:3
Alignment explanation
Indices: 62620096--62620127 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
62620086 TTCTTGTTAC
62620096 TTA TT- TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
62620128 ACTTTCATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:62621570 original size:16 final size:16
Alignment explanation
Indices: 62621551--62621581 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62621541 ATTTTAATAT
*
62621551 TATTTAATCTTAAAAA
1 TATTTAATATTAAAAA
62621567 TATTTAATATTAAAA
1 TATTTAATATTAAAA
62621582 CAATACACTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TATTTAATATTAAAAA
Found at i:62621743 original size:41 final size:41
Alignment explanation
Indices: 62621666--62621876 Score: 246
Period size: 41 Copynumber: 5.2 Consensus size: 41
62621656 AATAGCAGCG
* * * *
62621666 GCTAAAAA-TAGAGCAATAGCGGCATTTTACTG-AAAACGCC
1 GCTAAAAACCAGAGCATTAGCGGCACTTT-CGGTAAAACGCC
*
62621706 GCTAAAAACCAGAGCATTAGCTGCACTTTCGGTAAAACGCC
1 GCTAAAAACCAGAGCATTAGCGGCACTTTCGGTAAAACGCC
* *
62621747 GCTAAAAACCAGAGCATTAGAGGCGCTTTCGGTAAAACGCC
1 GCTAAAAACCAGAGCATTAGCGGCACTTTCGGTAAAACGCC
* **
62621788 GCTAAAAACTAGAGCATTAGCGGCACTTTCAATAAAACGCC
1 GCTAAAAACCAGAGCATTAGCGGCACTTTCGGTAAAACGCC
* * * * * *
62621829 GCTAAATACCAGAGCATTAGTGGCGCTTTTGCTAAAATGCC
1 GCTAAAAACCAGAGCATTAGCGGCACTTTCGGTAAAACGCC
*
62621870 ACTAAAA
1 GCTAAAA
62621877 GTCATATAAC
Statistics
Matches: 146, Mismatches: 23, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
40 10 0.07
41 136 0.93
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (41 bp):
GCTAAAAACCAGAGCATTAGCGGCACTTTCGGTAAAACGCC
Found at i:62622189 original size:7 final size:7
Alignment explanation
Indices: 62622179--62622244 Score: 53
Period size: 7 Copynumber: 9.1 Consensus size: 7
62622169 AAAGTGTAAA
*
62622179 GGTTTGG
1 GGTTTAG
*
62622186 GGTTAAG
1 GGTTTAG
62622193 GGTTTAG
1 GGTTTAG
62622200 GGTTTAG
1 GGTTTAG
62622207 GGTTTATG
1 GGTTTA-G
*
62622215 GG-ATAGG
1 GGTTTA-G
*
62622222 GGTTAAG
1 GGTTTAG
*
62622229 AGGTTTAA
1 -GGTTTAG
62622237 GGTTTAG
1 GGTTTAG
62622244 G
1 G
62622245 TTAATTAGTA
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
7 37 0.80
8 9 0.20
ACGTcount: A:0.20, C:0.00, G:0.44, T:0.36
Consensus pattern (7 bp):
GGTTTAG
Found at i:62626187 original size:22 final size:22
Alignment explanation
Indices: 62626155--62626198 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
62626145 GATTAATATT
*
62626155 TTATATTTAATATTTATAAATA
1 TTATATATAATATTTATAAATA
* *
62626177 TTATATATAATTTTTTTAAATA
1 TTATATATAATATTTATAAATA
62626199 ACAATAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATATATAATATTTATAAATA
Found at i:62627355 original size:19 final size:18
Alignment explanation
Indices: 62627333--62627371 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
62627323 TTTTCATAAC
*
62627333 TTTTTTAATATTTTATTAT
1 TTTTTTAA-ATTTTATGAT
62627352 TTTTTTAAATTTTATGAT
1 TTTTTTAAATTTTATGAT
62627370 TT
1 TT
62627372 AGCGGCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTTTAAATTTTATGAT
Found at i:62627364 original size:28 final size:29
Alignment explanation
Indices: 62627305--62627364 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
62627295 TGATAATGAA
*
62627305 TTTTAAAATTTTTTATATTTTTCATAACTT
1 TTTTAAAATTTTTTATATTTTT-ATAAATT
*
62627335 TTTTAATATTTTATTAT-TTTTT-TAAATT
1 TTTTAAAATTTT-TTATATTTTTATAAATT
62627363 TT
1 TT
62627365 ATGATTTAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 7 0.26
30 16 0.59
31 4 0.15
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.68
Consensus pattern (29 bp):
TTTTAAAATTTTTTATATTTTTATAAATT
Found at i:62633687 original size:188 final size:185
Alignment explanation
Indices: 62633359--62633707 Score: 538
Period size: 188 Copynumber: 1.9 Consensus size: 185
62633349 TCGAAATAAT
* *
62633359 AAACTTTAGGTCCAGTTTTGGGGTAAATTTCGATTGGTGCCGTTCATACCAGTTGATTTTATCAA
1 AAACTTTAGGTCCAGTTTTGGGGTAAATTTCGATTGGTACCGTTCATACCAATTGATTTTATCAA
* *
62633424 TATTGATTGAAATATGGCGTATCGGTTGGTACCAAAGAAATTGAAAGTGTAGATACTAATATAAT
66 TATTGATTGAAATATGGCGTATCGATTGGTACCAAAGAAATTGAAAGTGTAGATACTAATATAAC
*
62633489 TATATTCAAAATAGAAGTACCATATTAAAAGATTGTTCTGGTAGTAAATCAGAACAAC
131 CATATTCAAAAT---AGTACCATATTAAAAGATTGTTCTGGTAGTAAATCAGAACAAC
* * * *
62633547 AAACTTTAGGTTCAGTTTTGGTGTAAATTTCGATTGGTACCGTTCATACCAATTGATTTTGTCAG
1 AAACTTTAGGTCCAGTTTTGGGGTAAATTTCGATTGGTACCGTTCATACCAATTGATTTTATCAA
* *
62633612 TATTGATTGAAATATGGTC-TATTGATTGGTACCAAATAAATTGAAAGTGTAGATACTAATATAA
66 TATTGATTGAAATATGG-CGTATCGATTGGTACCAAAGAAATTGAAAGTGTAGATACTAATATAA
* *
62633676 CCATTTTCAAAATAGTACCATATTAAGAGATT
130 CCATATTCAAAATAGTACCATATTAAAAGATT
62633708 TCATAACAGA
Statistics
Matches: 147, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
185 18 0.12
188 128 0.87
189 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (185 bp):
AAACTTTAGGTCCAGTTTTGGGGTAAATTTCGATTGGTACCGTTCATACCAATTGATTTTATCAA
TATTGATTGAAATATGGCGTATCGATTGGTACCAAAGAAATTGAAAGTGTAGATACTAATATAAC
CATATTCAAAATAGTACCATATTAAAAGATTGTTCTGGTAGTAAATCAGAACAAC
Found at i:62637586 original size:20 final size:21
Alignment explanation
Indices: 62637545--62637587 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
62637535 AAACAAAAAC
*
62637545 AAAAGAAAAAGTAAAGAAGAA
1 AAAAGAAAAAGTAAAAAAGAA
62637566 AAAAG-AAAAG-AAAAAATGAA
1 AAAAGAAAAAGTAAAAAA-GAA
62637586 AA
1 AA
62637588 CCTAAGCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 5 0.25
20 10 0.50
21 5 0.25
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (21 bp):
AAAAGAAAAAGTAAAAAAGAA
Found at i:62638218 original size:213 final size:213
Alignment explanation
Indices: 62637795--62638432 Score: 965
Period size: 213 Copynumber: 3.0 Consensus size: 213
62637785 ACCTAGACTT
* * * *
62637795 CGGTGTCATGACACCTTTGATAGTGGTGCACTCGTGGTTTTGAGGGTTTTCAGTGTCGCGGCATC
1 CGGTGTCATGACACCTTTGATAGTGGTGCACTCGTGGTTTTGGGGGTTATCGGTGTCGCGACATC
* *
62637860 ACTTGTGGTGACCACAATTTCTTCACTTCAACA-TATTAGGGTTATCACGACCTCAAAGGCTCAA
66 ACTTGTGGTGACCACAATTTCTTCACTTCAACACTATTAGGGATATCACGACCTCAGAGGCTCAA
* * * * *
62637924 TGTCGCGACTTCGAGCTTGGTGTCACGACTCTCTCGATAGTAGGCTACAAGTTGATTTCTTGTTG
131 TATCGTGACTTCGGGCTTGGTGTCAAGACTTTCTCGATAGTAGGCTACAAGTTGATTTCTTGTTG
62637989 TAGTGTTGCATCTTTGAG
196 TAGTGTTGCATCTTTGAG
* *
62638007 CGGTGTCACGACACCTTTGATAGTTGTGCACTCGTGGTTTTGGGGGTTATCGGTGTCGCGACATC
1 CGGTGTCATGACACCTTTGATAGTGGTGCACTCGTGGTTTTGGGGGTTATCGGTGTCGCGACATC
* * *
62638072 ACTTGTGGTGACCAAAATTTCTTCACTTCAACACTATAAGGGATATCACGACCTTAGAGGCTCAA
66 ACTTGTGGTGACCACAATTTCTTCACTTCAACACTATTAGGGATATCACGACCTCAGAGGCTCAA
*
62638137 TATCGTGACTTCGGGCTTGGTGTCAAGACTTTCTCGATAGTAGGCTACAAGTTGATTTCTTATTG
131 TATCGTGACTTCGGGCTTGGTGTCAAGACTTTCTCGATAGTAGGCTACAAGTTGATTTCTTGTTG
*
62638202 TAGTGTTGCTTCTTTGAG
196 TAGTGTTGCATCTTTGAG
* * * * * *
62638220 AGATGTCATGACACCTTTGATAATGGTACACTCATGGTTTTGGGGGTTCTCGGTGTCGCGACATC
1 CGGTGTCATGACACCTTTGATAGTGGTGCACTCGTGGTTTTGGGGGTTATCGGTGTCGCGACATC
* * *
62638285 ACTTGTGGTGACCACAATTTCTTCACTTCAACACCATTAGGAATATCATGACCTCAGAGGCTCAA
66 ACTTGTGGTGACCACAATTTCTTCACTTCAACACTATTAGGGATATCACGACCTCAGAGGCTCAA
* * *
62638350 TATTGTGACTTCGGGCTTGGTGTCATGACTCTT-TCGATAGTAGGCTACAAATTGATTTCTTGTT
131 TATCGTGACTTCGGGCTTGGTGTCAAGACT-TTCTCGATAGTAGGCTACAAGTTGATTTCTTGTT
* *
62638414 GTAGTATTTCATCTTTGAG
195 GTAGTGTTGCATCTTTGAG
62638433 GCAAAGGGAC
Statistics
Matches: 385, Mismatches: 39, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
212 91 0.24
213 292 0.76
214 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.34
Consensus pattern (213 bp):
CGGTGTCATGACACCTTTGATAGTGGTGCACTCGTGGTTTTGGGGGTTATCGGTGTCGCGACATC
ACTTGTGGTGACCACAATTTCTTCACTTCAACACTATTAGGGATATCACGACCTCAGAGGCTCAA
TATCGTGACTTCGGGCTTGGTGTCAAGACTTTCTCGATAGTAGGCTACAAGTTGATTTCTTGTTG
TAGTGTTGCATCTTTGAG
Found at i:62640694 original size:40 final size:39
Alignment explanation
Indices: 62640657--62640748 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
62640647 GCTACTCGTT
*
62640657 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
62640697 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
62640736 CAAATGCCTTCGG
1 CAAATGCCTTCGG
62640749 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:62640728 original size:39 final size:40
Alignment explanation
Indices: 62640638--62640801 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
62640628 CGGAATTTAA
** *
62640638 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
62640678 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
62640717 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
62640757 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
62640797 CCGGA
1 CCGGA
62640802 CATCATTCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.30
40 58 0.55
41 12 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:62647333 original size:91 final size:91
Alignment explanation
Indices: 62647175--62647407 Score: 270
Period size: 91 Copynumber: 2.6 Consensus size: 91
62647165 GGGTAACCAT
* * * * * * *
62647175 CCGATAACATGCCAATTTGCTCATAAGAGTTATTCCAACTGATAATACGCCAGATGCACATAATG
1 CCGATAACACGTCAAATTACTCATAAGAGCT-TTCCAACCGATAACACGCCAGATGCACATAATG
* *
62647240 CAAATACCGTAGGCTAAATATTCTCCA
65 CAAAGACCATAGGCTAAATATTCTCCA
* * ** * * *
62647267 CTGATAACATGTCAAATTACTCATAAGAGCTTTGTAATCGATAACACGCCAGATGCATATAGTGC
1 CCGATAACACGTCAAATTACTCATAAGAGCTTTCCAACCGATAACACGCCAGATGCACATAATGC
* *
62647332 AAAGCCCATAGGCTAAATATTCTCCC
66 AAAGACCATAGGCTAAATATTCTCCA
* *
62647358 CCGATAACACGTCATATTGCTCATAAGAGCTTTCCAACCGATAACA-GCCA
1 CCGATAACACGTCAAATTACTCATAAGAGCTTTCCAACCGATAACACGCCA
62647408 TAATCTCTGA
Statistics
Matches: 118, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
90 4 0.03
91 88 0.75
92 26 0.22
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (91 bp):
CCGATAACACGTCAAATTACTCATAAGAGCTTTCCAACCGATAACACGCCAGATGCACATAATGC
AAAGACCATAGGCTAAATATTCTCCA
Found at i:62649191 original size:38 final size:38
Alignment explanation
Indices: 62649144--62649216 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
62649134 AATATTATTG
62649144 TTATATTTTTAGGAGTTACTTTAGAAATGAATTGATTA
1 TTATATTTTTAGGAGTTACTTTAGAAATGAATTGATTA
*
62649182 TTATATTTTTGGGAGTTACTTTAGAAATGAATTGA
1 TTATATTTTTAGGAGTTACTTTAGAAATGAATTGA
62649217 ACATTAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.47
Consensus pattern (38 bp):
TTATATTTTTAGGAGTTACTTTAGAAATGAATTGATTA
Done.