Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold191
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: 842153
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 45129 characters in sequence are not A, C, G, or T
File 4 of 6
Found at i:413118 original size:10 final size:11
Alignment explanation
Indices: 413070--413125 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 11
413060 TTAGTTTTAG
413070 TTTAATTTGAAA
1 TTTAATTT-AAA
413082 TTTAAGATTTAAAAA
1 TTT-A-ATTT--AAA
413097 TTTAATTTAAA
1 TTTAATTTAAA
413108 TTTAA-TTAAA
1 TTTAATTTAAA
*
413118 TTTTATTT
1 TTTAATTT
413126 TTAAATTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
10 9 0.24
11 10 0.26
12 3 0.08
13 5 0.13
14 5 0.13
15 6 0.16
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:414656 original size:31 final size:31
Alignment explanation
Indices: 414610--414685 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
414600 GTTTAGAGGA
* *
414610 AAAATTCAATCAAAAATCAAAATTTATTTGC
1 AAAATTCAATAAAAAATCAAAACTTATTTGC
* *
414641 AACATTCAATAAAAAATCAAAGCTTATTTGC
1 AAAATTCAATAAAAAATCAAAACTTATTTGC
414672 AAAATTCAATAAAA
1 AAAATTCAATAAAA
414686 TAAAAATAGA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.54, C:0.13, G:0.04, T:0.29
Consensus pattern (31 bp):
AAAATTCAATAAAAAATCAAAACTTATTTGC
Found at i:418070 original size:2 final size:2
Alignment explanation
Indices: 418063--418090 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
418053 AAACAAGGTA
418063 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
418091 CTTTAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:418373 original size:2 final size:2
Alignment explanation
Indices: 418366--418406 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
418356 TATGTATGTG
418366 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
418407 TCTTAGCTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:419009 original size:2 final size:2
Alignment explanation
Indices: 418962--418989 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
418952 GACTTTTTAA
418962 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
418990 GAGATATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:419054 original size:31 final size:31
Alignment explanation
Indices: 419019--419081 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
419009 ATGAATAAGC
* *
419019 ACTTATTTGATTTTATTGTTGTTGGCTTTGT
1 ACTTATCTGAATTTATTGTTGTTGGCTTTGT
*
419050 ACTTATCTGAATTTGTTGTTGTTGGCTTTGT
1 ACTTATCTGAATTTATTGTTGTTGGCTTTGT
419081 A
1 A
419082 AATGTATCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.14, C:0.08, G:0.21, T:0.57
Consensus pattern (31 bp):
ACTTATCTGAATTTATTGTTGTTGGCTTTGT
Found at i:420060 original size:15 final size:16
Alignment explanation
Indices: 420022--420061 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
420012 TAGATGGAGA
420022 GATCGAAAGGTATGGG
1 GATCGAAAGGTATGGG
*
420038 GA-CCAAAGGTAT-GG
1 GATCGAAAGGTATGGG
420052 GATCGAAAGG
1 GATCGAAAGG
420062 ACTTCTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 4 0.19
15 15 0.71
16 2 0.10
ACGTcount: A:0.35, C:0.10, G:0.40, T:0.15
Consensus pattern (16 bp):
GATCGAAAGGTATGGG
Found at i:422827 original size:79 final size:79
Alignment explanation
Indices: 422696--423386 Score: 857
Period size: 79 Copynumber: 8.7 Consensus size: 79
422686 ATTTTCGAAA
** * * *
422696 GGATACTCCAACCCCGTTATTT-TCGAGGGGATACTCCAACCTTGGTTTTATTTCCAAAATACTA
1 GGATACTCCAACCCCGTTATTTCT-GAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCA
* *
422760 ATTTTTTATAATCGG
65 ATTTTTCACAATCGG
* * *
422775 GGATACTCCAATCCCGTTATTTCTGAGAGGATACTCCAACCCCGATTTTATTTCCAAGACACCAA
1 GGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
* *
422840 TTCTTCATAATCGG
66 TTTTTCACAATCGG
* * * * * *
422854 GGATACTCCAACCCCGTTATTTCCGAGGGGGTACTCCAACCCCGGTTTTATTTCCAAAATACTAG
1 GGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
422919 TTTTTCACAATCGG
66 TTTTTCACAATCGG
* * *
422933 GGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCTGATTTTATTTTCAAAACACCAG
1 GGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
422998 TTTTTCACAATCGG
66 TTTTTCACAATCGG
* *
423012 GGATACTCCAACCCCGTTATTTTTGAGTGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
1 GGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
423077 TTTTTCACAATCGG
66 TTTTTCACAATCGG
* * * * * *
423091 GAATACTCCAACCCCGTTATTTCCGAGGGGATACTCTAAACCTGATTTTATTTTCAAAACACCAA
1 GGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
* *
423156 TTTTTCATAATCAG
66 TTTTTCACAATCGG
* * *
423170 GGATACTCCAACCCCGTTATTTCTGAAGGGATACTCCAACCCCGGTTTTGTTTCCAAAACACCAA
1 GGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
* *
423235 TTTTTTACAATCGA
66 TTTTTCACAATCGG
* ** * * * * * * * *
423249 GGATATTCCAACTTCATTATTTTTGAGGAGATATTCCAACCCCGATTTTATTTCTAAAATAACGA
1 GGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
* *
423314 TTTTTCACCATTGG
66 TTTTTCACAATCGG
* * * *
423328 AGATACTCTAACCCCGTTATTTCTGAAGGGG-TACTCCGACCCC-ATTTTTATCTCCAAAA
1 GGATACTCCAACCCCGTTATTTCTG-AGGGGATACTCCAACCCCGA-TTTTATTTCCAAAA
423387 TATTAAATTT
Statistics
Matches: 523, Mismatches: 86, Indels: 6
0.85 0.14 0.01
Matches are distributed among these distances:
78 1 0.00
79 517 0.99
80 5 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (79 bp):
GGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
TTTTTCACAATCGG
Found at i:424801 original size:13 final size:13
Alignment explanation
Indices: 424783--424807 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
424773 CATAAAGTGT
424783 TGTATCGATACAA
1 TGTATCGATACAA
424796 TGTATCGATACA
1 TGTATCGATACA
424808 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:424805 original size:33 final size:33
Alignment explanation
Indices: 424763--424829 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
424753 TTCAACGATT
424763 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
424796 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
424829 T
1 T
424830 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:424888 original size:13 final size:13
Alignment explanation
Indices: 424870--424894 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
424860 ATCACTTAAA
424870 TGTATCGATACAT
1 TGTATCGATACAT
424883 TGTATCGATACA
1 TGTATCGATACA
424895 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:424947 original size:52 final size:51
Alignment explanation
Indices: 424883--425031 Score: 244
Period size: 52 Copynumber: 2.9 Consensus size: 51
424873 ATCGATACAT
**
424883 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
424935 TGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT-CAATGTATCGATACATGCAGGCAAATTTGCCCAGA
424987 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTA-TCAATGTATCGATACATGCAGGCAAATTT
425032 TCATATTTCG
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
51 2 0.02
52 88 0.97
53 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (51 bp):
TGTATCGATACACTATCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:429776 original size:20 final size:20
Alignment explanation
Indices: 429748--429822 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
429738 TTTTACCTTG
429748 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
429768 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
429788 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
429808 ATGTATCGATACATT
1 ATGTATCGATACATT
429823 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:429815 original size:40 final size:39
Alignment explanation
Indices: 429748--429825 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
429738 TTTTACCTTG
* *
429748 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
429788 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
429826 TCTTTTTATC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:430791 original size:21 final size:22
Alignment explanation
Indices: 430735--430789 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
430725 AGCCTTTGAC
*
430735 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTAATTATGTTT
430757 CATGCATTTTTTAATTATGTTT
1 CATGCATTTTTTAATTATGTTT
430779 CATGCATTTTT
1 CATGCATTTTT
430790 AACATGTCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.20, C:0.11, G:0.09, T:0.60
Consensus pattern (22 bp):
CATGCATTTTTTAATTATGTTT
Found at i:443823 original size:12 final size:12
Alignment explanation
Indices: 443805--443859 Score: 67
Period size: 12 Copynumber: 4.6 Consensus size: 12
443795 TCCTTTACAC
*
443805 CAAAAAAAAATA
1 CAAAAAAAAAAA
443817 -AAAAAAAAAAA
1 CAAAAAAAAAAA
443828 CAAAAAAAAAAA
1 CAAAAAAAAAAA
* *
443840 CAAGAAAAAATAG
1 CAA-AAAAAAAAA
443853 CAAAAAA
1 CAAAAAA
443860 TAGAAGGGTC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
11 10 0.26
12 18 0.47
13 10 0.26
ACGTcount: A:0.85, C:0.07, G:0.04, T:0.04
Consensus pattern (12 bp):
CAAAAAAAAAAA
Found at i:443824 original size:13 final size:13
Alignment explanation
Indices: 443806--443859 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
443796 CCTTTACACC
*
443806 AAAAAAAAATAAA
1 AAAAAAAAACAAA
443819 AAAAAAAAAC-AA
1 AAAAAAAAACAAA
*
443831 AAAAAAAAACAAG
1 AAAAAAAAACAAA
* *
443844 AAAAAATAGCAAA
1 AAAAAAAAACAAA
443857 AAA
1 AAA
443860 TAGAAGGGTC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
12 12 0.34
13 23 0.66
ACGTcount: A:0.87, C:0.06, G:0.04, T:0.04
Consensus pattern (13 bp):
AAAAAAAAACAAA
Found at i:443859 original size:1 final size:1
Alignment explanation
Indices: 443806--443849 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
443796 CCTTTACACC
* * * *
443806 AAAAAAAAATAAAAAAAAAAAACAAAAAAAAAAACAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
443850 TAGCAAAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.91, C:0.05, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:445119 original size:28 final size:28
Alignment explanation
Indices: 445079--446087 Score: 1199
Period size: 28 Copynumber: 35.0 Consensus size: 28
445069 ATGTTCATCC
445079 CTTTCAAAGCCCACAAGTCAGTGGCACT
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
* *
445107 CTTTCAAAGCCCACAAATTAGTGGCACT
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
*
445135 CTTTCAAAGCCCACAAGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
*
445163 CTTTCAAAGCCCACAAGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
*
445191 CTTTCAAAGCCCACAAGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
445219 CTTTCAACCAGGCCCTCACCAAGTCAGTGGCACT
1 CTTTCAA--A-G-CC-CA-CAAGTCAGTGGCACT
445253 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 C-TTTCAAAGCCCACAAGTCAGTGGCACT
*
445282 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 C-TTTCAAAGCCCACAAGTCAGTGGCACT
*
445311 CTTTTCAAAGCCCACAAGTCAGTGGCACC
1 C-TTTCAAAGCCCACAAGTCAGTGGCACT
445340 CTTTCAAAGCCCACAAGTCAGTGGCACT
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
445368 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 -CTTTCAAAGCCCACAAGTCAGTGGCACT
* *
445397 CTTTTCAAAGCCCACAAATCAATGGCACT
1 C-TTTCAAAGCCCACAAGTCAGTGGCACT
* * *
445426 TTTTCAAAGCCCACAAGTTAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
445454 CTTTTAGAGCCCACAAGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
* *
445482 CTTTCGAAGCCCACAAGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
*
445510 CTTTCGAAGCCCACAAGTCAGTGGCAC-
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
445537 CATTGCGAAGCCCACAATTCAGTGGCACT
1 C-TTTCAAAGCCCACAAGTCAGTGGCACT
*
445566 CTTTCAAAGCCCACAAGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
* *
445594 CTTTTAAAGCCCACACAAGTCAGTGGTACT
1 CTTTCAAAG-CC-CACAAGTCAGTGGCACT
* * *
445624 CCTTTTAAAGCTCACGCAAGTCAGTGGTAC-
1 -CTTTCAAAGC-C-CACAAGTCAGTGGCACT
*
445654 CTTTTCAAAGCCCACGAGTCAGTGGCACT
1 C-TTTCAAAGCCCACAAGTCAGTGGCACT
445683 CTTTCAAAGCCCACAAGTCAGTGGCA-T
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
445710 CCTTTCAAAGCCCACGAGTTAGTGGCACC
1 -CTTTCAAAGCCCACAAGTCAGTGGCACT
445739 CTTTCAAAGCCCACACAAGTCAGTGGCACT
1 CTTTCAAAG-CC-CACAAGTCAGTGGCACT
445769 CCTTTCAAAGCCCACGTAAGTCAGTGGCAC-
1 -CTTTCAAAGCCCAC--AAGTCAGTGGCACT
*
445799 CTTTTCAAAGCCCACGAGTCAGTGGCACT
1 C-TTTCAAAGCCCACAAGTCAGTGGCACT
*
445828 CTTTCAAAGCCCACAAGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
* *
445856 CTTTC-AAGCCCACGAGTCAGTGGTAC-
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
* *
445882 CTTTTCAAAGCCCACGAGGCAGTGGCAC-
1 C-TTTCAAAGCCCACAAGTCAGTGGCACT
445910 CTTTCAAAGCCCACAAGTCAGTGGCACT
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
*
445938 CTTTCAAAGCCCACGAGTCAGTGGCA-T
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
*
445965 CCTTTCAAAGCCCACGCAAGTCAGTGGCACC
1 -CTTTCAAAGCCCA--CAAGTCAGTGGCACT
* **
445996 CTTTTAAAGCCCACGCAAGTCAGTAACACT
1 CTTTCAAAGCCCA--CAAGTCAGTGGCACT
* *
446026 CTTTTTAAAGCCCACATGTGTCAGTGGCAACTT
1 C-TTTCAAAGCCCACA--AGTCAGTGGC-AC-T
*
446059 TTTTCAAAGCCTACACAAG-CTAGTGGCAC
1 CTTTCAAAGCC--CACAAGTC-AGTGGCAC
446088 ATTTTTTTTA
Statistics
Matches: 873, Mismatches: 67, Indels: 79
0.86 0.07 0.08
Matches are distributed among these distances:
26 1 0.00
27 50 0.06
28 465 0.53
29 139 0.16
30 95 0.11
31 73 0.08
32 21 0.02
33 4 0.00
34 19 0.02
35 6 0.01
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (28 bp):
CTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:445705 original size:145 final size:140
Alignment explanation
Indices: 445077--446041 Score: 1276
Period size: 145 Copynumber: 6.7 Consensus size: 140
445067 GAATGTTCAT
* *
445077 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAATTAGTGGCACTCTTTCAA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAA
*
445142 AGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
66 AGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
445207 GTCAGTGGCA
131 GTCAGTGGCA
445217 CCCTTTCAACCAGGCCCTCACCAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCCTTTCAA--A-G-CC-CA-CAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACT
* *
445282 CTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
59 C-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTCAGTGGCACCCTTTCAA
445347 AGCCCACAAGTCAGTGGCA
122 AGCCCACAAGTCAGTGGCA
* * *
445366 CTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAATGGCACTTTTTC
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACTCTTTC
* * *
445431 AAAGCCCACAAGTTAGTGGCACCCTTTTAGAGCCCACAAGTCAGTGGCACCCTTTCGAAGCCCAC
64 AAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC
445496 AAGTCAGTGGCA
129 AAGTCAGTGGCA
* * * *
445508 CCCTTTCGAAGCCCACAAGTCAGTGGCAC-CATTGCGAAGCCCACAATTCAGTGGCACTCTTTCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCA
* *
445572 AAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACACAAGTCAGTGGTACTCCTTTTAAAGCTC
65 AAGCCCACAAGTCAGTGGCACCCTTTTAAAG-CC-CACAAGTCAGTGGCAC-CCTTTCAAAGC-C
* *
445637 ACGCAAGTCAGTGGTA
126 -CACAAGTCAGTGGCA
* *
445653 CCTTTTCAAAGCCCACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACT-CTTTCA
* * *
445717 AAGCCCACGAGTTAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCACTCCTTTCAAAGCCC
65 AAGCCCACAAGTCAGTGGCACCCTTTTAAAG-CC-CACAAGTCAGTGGCAC-CCTTTCAAAGCCC
445782 ACGTAAGTCAGTGGCA
127 AC--AAGTCAGTGGCA
* * *
445798 CCTTTTCAAAGCCCACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC-A
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAA
* * * *
445862 AGCCCACGAGTCAGTGGTA-CCTTTTCAAAGCCCACGAGGCAGTGGCA-CCTTTCAAAGCCCACA
66 AGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA
445925 AGTCAGTGGCA
130 AGTCAGTGGCA
* * *
445936 CTCTTTCAAAGCCCACGAGTCAGTGGCA-TCCTTTCAAAGCCCACGCAAGTCAGTGGCACCCTTT
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACT-CTTTCAAAGCCCA--CAAGTCAGTGGCACTCTTT
* ** *
446000 TAAAGCCCACGCAAGTCAGTAACACTCTTTTTAAAGCCCACA
63 CAAAGCCCA--CAAGTCAGTGGCAC-CCTTTTAAAGCCCACA
446042 TGTGTCAGTG
Statistics
Matches: 741, Mismatches: 55, Indels: 54
0.87 0.06 0.06
Matches are distributed among these distances:
137 1 0.00
138 51 0.07
140 101 0.14
141 36 0.05
142 77 0.10
143 57 0.08
144 78 0.11
145 206 0.28
146 19 0.03
147 27 0.04
148 30 0.04
149 50 0.07
150 8 0.01
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (140 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAA
AGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
GTCAGTGGCA
Found at i:446696 original size:20 final size:20
Alignment explanation
Indices: 446650--446700 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
446640 TTTTACCTTG
* *
446650 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATGTATCA
* *
446670 ATATATCGATACATGTATGA
1 ATGTATCGATACATGTATCA
446690 ATGTATCGATA
1 ATGTATCGATA
446701 TATTCTACAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATGTATCA
Found at i:447630 original size:22 final size:22
Alignment explanation
Indices: 447604--447658 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
447594 AGCCTTTGAC
447604 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
447626 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
447648 CATGCATTTTT
1 CATGCATTTTT
447659 AACATGTCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.62
Consensus pattern (22 bp):
CATGCATTTTTTTATTATGTTT
Found at i:447665 original size:20 final size:21
Alignment explanation
Indices: 447604--447665 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
447594 AGCCTTTGAC
**
447604 CATGCATTTTTTTATTATGTTT
1 CATGCA-TTTTTTAACATGTTT
**
447626 CATGCATTTTTTTATTATGTTT
1 CATGCA-TTTTTTAACATGTTT
447648 CATGCA-TTTTTAACATGT
1 CATGCATTTTTTAACATGT
447666 CCAGCATCTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.26
22 28 0.74
ACGTcount: A:0.21, C:0.11, G:0.10, T:0.58
Consensus pattern (21 bp):
CATGCATTTTTTAACATGTTT
Found at i:453521 original size:21 final size:21
Alignment explanation
Indices: 453495--453544 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
453485 AAAGTTGTTG
453495 GGTCAAGAGGAGCATTAAGGA
1 GGTCAAGAGGAGCATTAAGGA
453516 GGTCAAGAGGAGCATTAAGGA
1 GGTCAAGAGGAGCATTAAGGA
*
453537 AGTCAAGA
1 GGTCAAGA
453545 CCCCAATGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.40, C:0.10, G:0.36, T:0.14
Consensus pattern (21 bp):
GGTCAAGAGGAGCATTAAGGA
Found at i:457698 original size:13 final size:13
Alignment explanation
Indices: 457680--457705 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
457670 CAATTTTTTG
457680 TGTATCGATACAT
1 TGTATCGATACAT
457693 TGTATCGATACAT
1 TGTATCGATACAT
457706 ACTTGCTGTA
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:457770 original size:21 final size:21
Alignment explanation
Indices: 457744--457819 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
457734 CTGCCAAGAA
457744 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
457765 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
457785 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
457806 ATGTATCGATACAT
1 ATGTATCGATACAT
457820 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:457789 original size:20 final size:20
Alignment explanation
Indices: 457764--457837 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
457754 ACATCTTTTT
457764 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
457784 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
457805 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
457825 CATGTATCGATAC
1 CATGTATCGATAC
457838 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:457801 original size:41 final size:41
Alignment explanation
Indices: 457744--457837 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
457734 CTGCCAAGAA
457744 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
457785 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
457826 ATGTATCGATAC
1 ATGTATCGATAC
457838 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:460305 original size:13 final size:13
Alignment explanation
Indices: 460287--460325 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
460277 ATAATCACCC
*
460287 TGTATCGATACAG
1 TGTATCGATACAA
460300 TGTATCGATACAA
1 TGTATCGATACAA
460313 TGTATCGATACAA
1 TGTATCGATACAA
460326 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:460336 original size:20 final size:20
Alignment explanation
Indices: 460311--460389 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
460301 GTATCGATAC
460311 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
460331 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
460356 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
460376 CATGTATCGATACA
1 AATGTATCGATACA
460390 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:464267 original size:21 final size:21
Alignment explanation
Indices: 464238--464282 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
464228 AAGTTTTCAT
*
464238 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
464258 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
464280 TTT
1 TTT
464283 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:466514 original size:13 final size:13
Alignment explanation
Indices: 466496--466521 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
466486 CAATTTTTTG
466496 TGTATCGATACAT
1 TGTATCGATACAT
466509 TGTATCGATACAT
1 TGTATCGATACAT
466522 ACTTGCTGTA
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:466586 original size:21 final size:21
Alignment explanation
Indices: 466560--466676 Score: 148
Period size: 21 Copynumber: 5.7 Consensus size: 21
466550 CTGCCAAGAA
466560 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
466581 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
466601 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
466622 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
466642 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
466663 ATGTATCGATACAT
1 ATGTATCGATACAT
466677 TGCAACATGT
Statistics
Matches: 78, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
20 32 0.41
21 46 0.59
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:466605 original size:20 final size:20
Alignment explanation
Indices: 466580--466694 Score: 140
Period size: 20 Copynumber: 5.7 Consensus size: 20
466570 ACATCTTTTT
466580 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
466600 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
466621 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
466641 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
466662 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
466682 CATGTATCGATAC
1 CATGTATCGATAC
466695 TTTGAATTGT
Statistics
Matches: 77, Mismatches: 16, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
20 45 0.58
21 32 0.42
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:466617 original size:41 final size:41
Alignment explanation
Indices: 466560--466694 Score: 270
Period size: 41 Copynumber: 3.3 Consensus size: 41
466550 CTGCCAAGAA
466560 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
466601 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
466642 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
466683 ATGTATCGATAC
1 ATGTATCGATAC
466695 TTTGAATTGT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 94 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:469831 original size:14 final size:13
Alignment explanation
Indices: 469809--469881 Score: 65
Period size: 14 Copynumber: 5.3 Consensus size: 13
469799 CCTTTTTTTC
469809 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
* *
469822 AAACAAAAAAGAAC
1 AAA-AAAAAAAAAG
* *
469836 AACAAAAAAAATG
1 AAAAAAAAAAAAG
469849 ACAAAAAGAAAAAAG
1 A-AAAAA-AAAAAAG
*
469864 AAAAAAAGGAAAAG
1 AAAAAAA-AAAAAG
469878 AAAA
1 AAAA
469882 GAACCTGCTT
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
13 12 0.26
14 28 0.60
15 7 0.15
ACGTcount: A:0.82, C:0.05, G:0.11, T:0.01
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:471019 original size:61 final size:61
Alignment explanation
Indices: 470841--471272 Score: 512
Period size: 61 Copynumber: 7.0 Consensus size: 61
470831 AAACCTTTTA
* * * *
470841 ACCTTTTAGTCCTCAAAGAGCAAGATGCCATTTACTTTTAAAGCCCACACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * * * * * *
470902 ACTTTTTAGTCCTCAAAGAGCAATGCACGTCTTTTCATTTTAAAGCCCACATAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGC-A-GGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * *
470965 ACC-TTCTAGTCTTCAAAGAGCAGGATGTCTTTTCATTTTAAAGCCCACACAAGTTGGTGGC
1 ACCTTTC-AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * *
471026 ACATTTCAGTCC-CTAAACAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAATTTGGTGGC
1 ACCTTTCAGTCCTC-AAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* *
471087 ACCTTTCAGTCCTCAAAGAGCAAGATTCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * ** * *
471148 ATCTTTCAGTCCTCAAAGAACAGGACACCTTTTCCTTTTAAAGCCCACACGAGCTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
** ** *
471209 ACCTTTTCA-TCCTCAAAGAATAGGATG-CTTTCTCCTTGCAAAGCTCACACAAGTTGGTGGC
1 ACC-TTTCAGTCCTCAAAGAGCAGGATGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGC
471270 ACC
1 ACC
471273 AAGAGCAAGA
Statistics
Matches: 321, Mismatches: 42, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
60 5 0.02
61 257 0.80
62 13 0.04
63 46 0.14
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (61 bp):
ACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
Found at i:471355 original size:42 final size:41
Alignment explanation
Indices: 471272--471405 Score: 137
Period size: 42 Copynumber: 3.2 Consensus size: 41
471262 TTGGTGGCAC
* **
471272 CAAGAGCAAGACGCGCTTTAATTTCCTTCTTTTCCTTTGTCCT
1 CAAGAGCAAGACGC-ATTTTCTTTCCTT-TTTTCCTTTGTCCT
471315 CAAAGAGCAAGACGCATTTTCTTTCCTTTTTTCCTTTGTCCT
1 C-AAGAGCAAGACGCATTTTCTTTCCTTTTTTCCTTTGTCCT
* * * *
471357 CAAGCAGCATGACCCA-TTTCATT-CTCTTTTCCTTTGTCCTT
1 CAAG-AGCAAGACGCATTTTCTTTCCTTTTTTCCTTTGTCC-T
*
471398 GAAGAGCA
1 CAAGAGCA
471406 TGACATACTC
Statistics
Matches: 80, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
40 19 0.24
41 13 0.16
42 24 0.30
43 11 0.14
44 13 0.16
ACGTcount: A:0.20, C:0.28, G:0.13, T:0.39
Consensus pattern (41 bp):
CAAGAGCAAGACGCATTTTCTTTCCTTTTTTCCTTTGTCCT
Found at i:471423 original size:34 final size:34
Alignment explanation
Indices: 471381--471473 Score: 134
Period size: 34 Copynumber: 2.7 Consensus size: 34
471371 CATTTCATTC
*
471381 TCTTTTCCTTTGTCCTTGAAGAGCATGACATAC-
1 TCTTTTCCTTTGTCCTTGAAGAGCAGGACATACT
* *
471414 TCTTTTTCCTTTGTCCTCGAAGAGCAGGACGTACT
1 TC-TTTTCCTTTGTCCTTGAAGAGCAGGACATACT
*
471449 TCTTTTCCTTTGTCCTTAAAGAGCA
1 TCTTTTCCTTTGTCCTTGAAGAGCA
471474 AAGTACCCCT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
33 2 0.04
34 49 0.92
35 2 0.04
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.40
Consensus pattern (34 bp):
TCTTTTCCTTTGTCCTTGAAGAGCAGGACATACT
Found at i:474603 original size:78 final size:79
Alignment explanation
Indices: 474483--474746 Score: 377
Period size: 79 Copynumber: 3.4 Consensus size: 79
474473 ATTCATGTTT
* * * *
474483 TTATTTTCGAGGGGATACCCCAACCCTGGTTTTATTTCCAAAACACCAATTTTTCACAATTGGGG
1 TTATTTTTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
474548 ATACTCCAACCCCG
66 ATACTCCAACCCCG
* * * * * *
474562 TTATTTTTGAGAGGATACT-CAACCCCGATTTTATTTTCAAAACACAAATTTTCCACAATCGGTG
1 TTATTTTTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
*
474626 ATACTCCAACCCTG
66 ATACTCCAACCCCG
* *
474640 TTATTTTTGAGGCGATACTCCAACCCCGGTTTTATTTCCAAGACACCAATTTTTCACAATCGGGG
1 TTATTTTTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
* *
474705 ATAGTCCAACTCCG
66 ATACTCCAACCCCG
*
474719 TTATTTCTGAGGGGATACTCCAACCCCG
1 TTATTTTTGAGGGGATACTCCAACCCCG
474747 TTATTTCTGA
Statistics
Matches: 160, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
78 68 0.43
79 92 0.57
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (79 bp):
TTATTTTTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
ATACTCCAACCCCG
Found at i:474733 original size:28 final size:28
Alignment explanation
Indices: 474701--474773 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
474691 TTTCACAATC
* *
474701 GGGGATAGTCCAACTCCGTTATTTCTGA
1 GGGGATACTCCAACCCCGTTATTTCTGA
474729 GGGGATACTCCAACCCCGTTATTTCTGA
1 GGGGATACTCCAACCCCGTTATTTCTGA
*
474757 GGGGATACTTCAACCCC
1 GGGGATACTCCAACCCC
474774 TATTTTATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.27
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCTGA
Found at i:474750 original size:107 final size:107
Alignment explanation
Indices: 474625--474853 Score: 336
Period size: 107 Copynumber: 2.1 Consensus size: 107
474615 CACAATCGGT
* * *
474625 GATACTCCAACCCTGTTATTTTTGAGGCGATACTCCAACCCCGGTTTTATTTCCAAGACACCAAT
1 GATACTCCAACCCCGTTATTTCTGAGGCGATACTCCAACCCCGATTTTATTTCCAAGACACCAAT
* * *
474690 TTTTCAC-AATCGGGGATAGTCCAA-CTCCGTTATTTCTGAGGG
66 ATTTCACAAAT-GGGGATACTCCAACCT-CGTTATTTCCGAGGG
* * * *
474732 GATACTCCAACCCCGTTATTTCTGAGGGGATACTTCAACCCCTATTTTATTTGCAAGACACCAAT
1 GATACTCCAACCCCGTTATTTCTGAGGCGATACTCCAACCCCGATTTTATTTCCAAGACACCAAT
474797 ATTTCACAAATGGGGATACTCCAACCTCGTTATTTCCGAGGG
66 ATTTCACAAATGGGGATACTCCAACCTCGTTATTTCCGAGGG
474839 GATACTCCAACCCCG
1 GATACTCCAACCCCG
474854 GTTTTATTTC
Statistics
Matches: 110, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
107 105 0.95
108 5 0.05
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.30
Consensus pattern (107 bp):
GATACTCCAACCCCGTTATTTCTGAGGCGATACTCCAACCCCGATTTTATTTCCAAGACACCAAT
ATTTCACAAATGGGGATACTCCAACCTCGTTATTTCCGAGGG
Found at i:474812 original size:79 final size:79
Alignment explanation
Indices: 474729--475229 Score: 591
Period size: 79 Copynumber: 6.3 Consensus size: 79
474719 TTATTTCTGA
* * * *
474729 GGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTTCAACCCCTATTTTATTTGCAAGACACC
1 GGGGATACTCCAACCTCGTTATTTCTGAGGGGATACTTCAACCCCGATTTTATTTCCAAAACACC
474794 -AATATTTCACAAAT-
66 AAAT-TTTCAC-AATC
* * * * *
474808 GGGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCAAAAATACC
1 GGGGATACTCCAACCTCGTTATTTCTGAGGGGATACTTCAACCCCGATTTTATTTCCAAAACACC
474873 AAATTTTCACAATC
66 AAATTTTCACAATC
* * *
474887 GGGGATACTCCAACC-CGTTATTTTTGAGGGGATACTTTAACCTCGATTTTATTTCCAAAACACC
1 GGGGATACTCCAACCTCGTTATTTCTGAGGGGATACTTCAACCCCGATTTTATTTCCAAAACACC
474951 AAATTTTCACAATC
66 AAATTTTCACAATC
* * * * * *
474965 GGGGATACTTCAACCCCGTTATTTCTGAGGGGATACTCCAACCTCGGTTTTATTTCCAAAATACC
1 GGGGATACTCCAACCTCGTTATTTCTGAGGGGATACTTCAACCCCGATTTTATTTCCAAAACACC
* *
475030 AATTTTTCATAATC
66 AAATTTTCACAATC
* * * * *
475044 GGGAATACTCCAACCTCGTTATTTTTAAGGGGATAC-TCTAACCTCGATTTTATTTCCAAAACAT
1 GGGGATACTCCAACCTCGTTATTTCTGAGGGGATACTTC-AACCCCGATTTTATTTCCAAAACAC
475108 CAAATTTTCACAATC
65 CAAATTTTCACAATC
* * *
475123 GGGAATACTCCAACCTTGTTATTT-TCGTA-GGGATACTTTAACCCCGATTTTATTTCCAAAACA
1 GGGGATACTCCAACCTCGTTATTTCT-G-AGGGGATACTTCAACCCCGATTTTATTTCCAAAACA
* * * * *
475186 TCGATTTTTCACCATT
64 CCAAATTTTCACAATC
*
475202 GGGGATATACTCTAACCTCGTTATTTCT
1 GGGG--ATACTCCAACCTCGTTATTTCT
475230 AAAGGGGTAC
Statistics
Matches: 365, Mismatches: 47, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
78 74 0.20
79 267 0.73
80 5 0.01
81 18 0.05
82 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (79 bp):
GGGGATACTCCAACCTCGTTATTTCTGAGGGGATACTTCAACCCCGATTTTATTTCCAAAACACC
AAATTTTCACAATC
Found at i:474857 original size:186 final size:184
Alignment explanation
Indices: 474544--474922 Score: 548
Period size: 186 Copynumber: 2.0 Consensus size: 184
474534 TTTCACAATT
* *
474544 GGGGATACTCCAACCCCGTTATTTTTGAGAGGATACTCAACCCCGATTTTATTTTCAAAACACAA
1 GGGGATACTCCAACCCCGTTATTTCTGAGAGGATACTCAACCCCGATTTTATTTGCAAAACACAA
* **
474609 ATTTTCCACAATCGGTGATACTCCAACCCTGTTATTTTTGAGGCGATACTCCAACCCCGGTTTTA
66 ATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTCCGAGGCGATACTCCAACCCCGGTTTTA
* * * *
474674 TTTCCAAGACACCAATTTTTCACAATCGGGGATAGTCCAACTCCGTTATTTCTGA
131 TTTCAAAAACACCAAATTTTCACAATCGGGGATACTCCAAC-CCGTTATTTCTGA
* * * *
474729 GGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTTCAACCCCTATTTTATTTGCAAGACACC
1 GGGGATACTCCAACCCCGTTATTTCTGAGAGGATAC-TCAACCCCGATTTTATTTGCAAAACACA
*
474794 AATATTT-CACAAAT-GGGGATACTCCAA-CCTCGTTATTTCCGAGGGGATACTCCAACCCCGGT
65 AAT-TTTCCAC-AATCGGGGATACTCCAACCCT-GTTATTTCCGAGGCGATACTCCAACCCCGGT
* *
474856 TTTATTTCAAAAATACCAAATTTTCACAATCGGGGATACTCCAACCCGTTATTTTTGA
127 TTTATTTCAAAAACACCAAATTTTCACAATCGGGGATACTCCAACCCGTTATTTCTGA
474914 GGGGATACT
1 GGGGATACT
474923 TTAACCTCGA
Statistics
Matches: 174, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
185 58 0.33
186 110 0.63
187 6 0.03
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (184 bp):
GGGGATACTCCAACCCCGTTATTTCTGAGAGGATACTCAACCCCGATTTTATTTGCAAAACACAA
ATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTCCGAGGCGATACTCCAACCCCGGTTTTA
TTTCAAAAACACCAAATTTTCACAATCGGGGATACTCCAACCCGTTATTTCTGA
Found at i:474936 original size:157 final size:157
Alignment explanation
Indices: 474729--475183 Score: 637
Period size: 157 Copynumber: 2.9 Consensus size: 157
474719 TTATTTCTGA
* * * * * *
474729 GGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTTCAACCCCTATTTTATTTGCAAGACACC
1 GGGGATACTCCAA-CCCGTTATTTTTGAGGGGATACTTTAACCTCGATTTTATTTCCAAAACACC
474794 -AATATTTCACAAAT-GGGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
65 AAAT-TTTCAC-AATCGGGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
*
474857 TTATTTCAAAAATACCAAATTTTCACAATC
128 TTATTTCCAAAATACCAAATTTTCACAATC
474887 GGGGATACTCCAACCCGTTATTTTTGAGGGGATACTTTAACCTCGATTTTATTTCCAAAACACCA
1 GGGGATACTCCAACCCGTTATTTTTGAGGGGATACTTTAACCTCGATTTTATTTCCAAAACACCA
* * * *
474952 AATTTTCACAATCGGGGATACTTCAACCCCGTTATTTCTGAGGGGATACTCCAACCTCGGTTTTA
66 AATTTTCACAATCGGGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTA
* *
475017 TTTCCAAAATACCAATTTTTCATAATC
131 TTTCCAAAATACCAAATTTTCACAATC
* * * *
475044 GGGAATACTCCAACCTCGTTATTTTTAAGGGGATACTCTAACCTCGATTTTATTTCCAAAACATC
1 GGGGATACTCCAACC-CGTTATTTTTGAGGGGATACTTTAACCTCGATTTTATTTCCAAAACACC
* * * ** *
475109 AAATTTTCACAATCGGGAATACTCCAACCTTGTTATTTTCGTA-GGGATACTTTAACCCCGATTT
65 AAATTTTCACAATCGGGGATACTCCAACCTCGTTATTTCCG-AGGGGATACTCCAACCCCGGTTT
475173 TATTTCCAAAA
129 TATTTCCAAAA
475184 CATCGATTTT
Statistics
Matches: 266, Mismatches: 27, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
156 3 0.01
157 137 0.52
158 125 0.47
159 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (157 bp):
GGGGATACTCCAACCCGTTATTTTTGAGGGGATACTTTAACCTCGATTTTATTTCCAAAACACCA
AATTTTCACAATCGGGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTA
TTTCCAAAATACCAAATTTTCACAATC
Found at i:474961 original size:264 final size:263
Alignment explanation
Indices: 474487--475007 Score: 753
Period size: 264 Copynumber: 2.0 Consensus size: 263
474477 ATGTTTTTAT
* * *
474487 TTTCGAGGGGATACCCCAACCCTGGTTTTATTTCCAAAACACCAATTTTTCACAATTGGGGATAC
1 TTTCGAGGGGATACCCCAACCCTGATTTTATTTCCAAAACACCAATATTTCACAAATGGGGATAC
**
474552 TCCAACCCCGTTATTTTTGAGAGGATACTCAACCCCGATTTTATTTTCAAAACACAAATTTTCCA
66 TCCAACCCCGTTATTTCCGAGAGGATACTCAACCCCGATTTTATTTTCAAAACACAAATTTTCCA
* * *
474617 CAATCGGTGATACTCCAACCCTGTTATTTTTGAGGCGATACTCCAACCCCGGTTTTATTTCCAAG
131 CAATCGGGGATACTCCAACCCTGTTATTTTTGAGGCGATACTCCAACCCCGATTTTATTTCCAAA
* * *
474682 ACACCAATTTTTCACAATCGGGGATAGTCCAACTCCGTTATTTCTGAGGGGATACTCCAACCCCG
196 ACACCAAATTTTCACAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCG
474747 TTA
261 TTA
** * *
474750 TTTCTGAGGGGATACTTCAACCCCT-ATTTTATTTGCAAGACACCAATATTTCACAAATGGGGAT
1 TTTC-GAGGGGATACCCCAA-CCCTGATTTTATTTCCAAAACACCAATATTTCACAAATGGGGAT
* * * *
474814 ACTCCAACCTCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTA-TTTCAAAAATACCAAATT
64 ACTCCAACCCCGTTATTTCCGAGAGGATACT-CAACCCCGATTTTATTTTC-AAAACA-CAAATT
* ** *
474878 TT-CACAATCGGGGATACTCCAACCC-GTTATTTTTGAGGGGATACTTTAACCTCGATTTTATTT
126 TTCCACAATCGGGGATACTCCAACCCTGTTATTTTTGAGGCGATACTCCAACCCCGATTTTATTT
*
474941 CCAAAACACCAAATTTTCACAATCGGGGATACTTCAACCCCGTTATTTCTGAGGGGATACTCCAA
191 CCAAAACACCAAATTTTCACAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAA
475006 CC
256 CC
475008 TCGGTTTTAT
Statistics
Matches: 229, Mismatches: 24, Indels: 9
0.87 0.09 0.03
Matches are distributed among these distances:
263 4 0.02
264 173 0.76
265 44 0.19
266 8 0.03
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (263 bp):
TTTCGAGGGGATACCCCAACCCTGATTTTATTTCCAAAACACCAATATTTCACAAATGGGGATAC
TCCAACCCCGTTATTTCCGAGAGGATACTCAACCCCGATTTTATTTTCAAAACACAAATTTTCCA
CAATCGGGGATACTCCAACCCTGTTATTTTTGAGGCGATACTCCAACCCCGATTTTATTTCCAAA
ACACCAAATTTTCACAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCG
TTA
Found at i:479121 original size:20 final size:20
Alignment explanation
Indices: 479096--479136 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
479086 TTTAAATATA
*
479096 AATACTGTAAGTATCGATAC
1 AATACTATAAGTATCGATAC
**
479116 AATACTATTTGTATCGATAC
1 AATACTATAAGTATCGATAC
479136 A
1 A
479137 TACGGTTGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (20 bp):
AATACTATAAGTATCGATAC
Found at i:479239 original size:33 final size:33
Alignment explanation
Indices: 479196--479260 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
479186 CACATGAAAA
*
479196 TGTATTGATACACCTTGCAATATATCGATACAT
1 TGTATCGATACACCTTGCAATATATCGATACAT
** *
479229 TGTATCGATACACCTTGTGATGTATCGATACA
1 TGTATCGATACACCTTGCAATATATCGATACA
479261 CCTTGCAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.35
Consensus pattern (33 bp):
TGTATCGATACACCTTGCAATATATCGATACAT
Found at i:479241 original size:53 final size:53
Alignment explanation
Indices: 479178--479278 Score: 132
Period size: 53 Copynumber: 1.9 Consensus size: 53
479168 CCCTTATATC
*
479178 TATCGATACA-CATGAAAATGTATTGATACACCTTGCAATATATCGATACATTG
1 TATCGATACACCATG-AAATGTATCGATACACCTTGCAATATATCGATACATTG
* ** * *
479231 TATCGATACACCTTGTGATGTATCGATACACCTTGCAATGTATTGATA
1 TATCGATACACCATGAAATGTATCGATACACCTTGCAATATATCGATA
479279 TATTATGTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 38 0.93
54 3 0.07
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34
Consensus pattern (53 bp):
TATCGATACACCATGAAATGTATCGATACACCTTGCAATATATCGATACATTG
Found at i:479271 original size:20 final size:20
Alignment explanation
Indices: 479194--479278 Score: 76
Period size: 20 Copynumber: 4.6 Consensus size: 20
479184 TACACATGAA
*
479194 AATGTATTGATACACCTTGC
1 AATGTATCGATACACCTTGC
*
479214 AATATATCGATACA---T--
1 AATGTATCGATACACCTTGC
*
479229 --TGTATCGATACACCTTGT
1 AATGTATCGATACACCTTGC
*
479247 GATGTATCGATACACCTTGC
1 AATGTATCGATACACCTTGC
*
479267 AATGTATTGATA
1 AATGTATCGATA
479279 TATTATGTGA
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
13 11 0.21
16 1 0.02
17 1 0.02
20 39 0.75
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACACCTTGC
Found at i:479373 original size:21 final size:20
Alignment explanation
Indices: 479331--479406 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 20
479321 CCTTCAAATA
*
479331 TATCGATATACATATAAGAATG
1 TATCGATATA-AT-TCAGAATG
479353 TATCGATATAATTCCAGAATG
1 TATCGATATAATT-CAGAATG
479374 TATC-A-ATACATTCAGAATTG
1 TATCGATATA-ATTCAGAA-TG
*
479394 TATCGATACAATT
1 TATCGATATAATT
479407 AGCCCAATGG
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
19 8 0.17
20 11 0.23
21 16 0.34
22 12 0.26
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (20 bp):
TATCGATATAATTCAGAATG
Found at i:479395 original size:20 final size:19
Alignment explanation
Indices: 479347--479403 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 19
479337 TATACATATA
479347 AGAATGTATCGATATA-ATTCC
1 AGAATGTATC-A-ATACATT-C
479368 AGAATGTATCAATACATTC
1 AGAATGTATCAATACATTC
*
479387 AGAATTGTATCGATACA
1 AGAA-TGTATCAATACA
479404 ATTAGCCCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 8 0.24
20 15 0.45
21 10 0.30
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (19 bp):
AGAATGTATCAATACATTC
Found at i:485377 original size:48 final size:49
Alignment explanation
Indices: 485290--485397 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 49
485280 TATATTCAAA
* * * *
485290 GTATCGATACATTTGGATTTTTCCAAAATGTATTGATACAATGCAACTT
1 GTATCGATACATCTGGAGTTTCCCAAAATGTATTGATACAATGCAACAT
* * **
485339 GTATCGATACATCTGG-GTTTCCCAGATTGTATTGATACAATGCATGAT
1 GTATCGATACATCTGGAGTTTCCCAAAATGTATTGATACAATGCAACAT
485387 GTATCGATACA
1 GTATCGATACA
485398 ATTTTAATAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
48 36 0.71
49 15 0.29
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (49 bp):
GTATCGATACATCTGGAGTTTCCCAAAATGTATTGATACAATGCAACAT
Found at i:487244 original size:16 final size:16
Alignment explanation
Indices: 487219--487258 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
487209 ATGTTCTATG
*
487219 AAATTGTGCTTTTATA
1 AAATTATGCTTTTATA
*
487235 AAATTATGCTTTTATG
1 AAATTATGCTTTTATA
487251 AAATTATG
1 AAATTATG
487259 ATTATGCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.47
Consensus pattern (16 bp):
AAATTATGCTTTTATA
Found at i:487973 original size:32 final size:33
Alignment explanation
Indices: 487937--488002 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
487927 CACATGAAAA
* *
487937 TGTATCGATACATATTGC-ATGTATCTATACAT
1 TGTATCGATACACATTGCAATGTATCGATACAT
*
487969 TGTATCGATACACCTTGCAATGTATCGATACAT
1 TGTATCGATACACATTGCAATGTATCGATACAT
488002 T
1 T
488003 ATGTGAAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (33 bp):
TGTATCGATACACATTGCAATGTATCGATACAT
Found at i:489130 original size:58 final size:58
Alignment explanation
Indices: 489066--489290 Score: 168
Period size: 58 Copynumber: 3.9 Consensus size: 58
489056 TAATAATTTG
* * * *
489066 AAATTGCATGAAAGTT-CTTAAATCATAAAAAATGATCTAAATGACATCACAACTCATA
1 AAATTGCATCAAA-TTACCTAAATCATAAAAAATGACCTAAATGACATCAAAACTCATA
* * ** * *
489124 AAATTGCATCCAATTACCTAAGTCATGGAAAATGACCTAAATGACATCAAAATTTATA
1 AAATTGCATCAAATTACCTAAATCATAAAAAATGACCTAAATGACATCAAAACTCATA
* * * * * * * * *
489182 AAATTACCTCAAAAT-CTTTAGATCACAGAAAATGACCTCAAA-GACATCAACATTCATA
1 AAATTGCATCAAATTAC-CTAAATCATAAAAAATGACCT-AAATGACATCAAAACTCATA
* * * * * * *
489240 AAATTACATCAAAGTCCCTAGATAATGAAAAATAACCTAAATGACATCAAA
1 AAATTGCATCAAATTACCTAAATCATAAAAAATGACCTAAATGACATCAAA
489291 GTCTCTATAT
Statistics
Matches: 132, Mismatches: 30, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
57 6 0.05
58 122 0.92
59 4 0.03
ACGTcount: A:0.48, C:0.18, G:0.08, T:0.25
Consensus pattern (58 bp):
AAATTGCATCAAATTACCTAAATCATAAAAAATGACCTAAATGACATCAAAACTCATA
Found at i:493040 original size:155 final size:153
Alignment explanation
Indices: 492727--493229 Score: 546
Period size: 155 Copynumber: 3.3 Consensus size: 153
492717 AAAATGTTCT
* *
492727 TAGGGGATA-CTTTCGATGTAAAAGTACCCGATAC-CCTTATAGGACTTAAAAAGGTTTGAA-A-
1 TAGGGGATACCTTT-GACGTAAAAGTACCCGATACTCC-TATAGGACTT-AAAAGG-AT-AATAG
* * * * * ** ** * *
492788 TGAGATGAACCTATCCTAACTACCCACATTTGACATAAAAGCAGACTTGACGACAAACTAGGAGT
61 TGAGATGAACCTATCCTAAATACCTACCTTCGGCATAAAAGCAGACCCGGTGACAACCTAGGACT
* *
492853 TGGTTTTAAAAAATTATGAAAATGCCCC
126 CGGTTCTAAAAAATTATGAAAATGCCCC
492881 TAGGGGATACCTTTGACGTAAAAGTACCCGATACTCCTATAGGACTTAGAAAGGATAATAGGTGA
1 TAGGGGATACCTTTGACGTAAAAGTACCCGATACTCCTATAGGACTTA-AAAGGATAATA-GTGA
* *
492946 GATGAACCTATCCTAAATACCTACCTTCGGTATAAAAGCAGACCCGGTGATAACCTAGGACTCGG
64 GATGAACCTATCCTAAATACCTACCTTCGGCATAAAAGCAGACCCGGTGACAACCTAGGACTCGG
* * * *
493011 CTCTAAAAAATTATGAGAATACCCT
129 TTCTAAAAAATTATGAAAATGCCCC
* ** * * * * *
493036 TAGGGAATACCTACGACGTAAAAGTACCTGATACCCCTAAATGATTTAACAAGGATAATAGATGA
1 TAGGGGATACCTTTGACGTAAAAGTACCCGATACTCCTATAGGACTTAA-AAGGATAATAG-TGA
* * * * *
493101 GATGAACCTATCCTAAATATCTACCTTCGGCATAAAAGTAGACCCGGTGACAACATAAGACTCGA
64 GATGAACCTATCCTAAATACCTACCTTCGGCATAAAAGCAGACCCGGTGACAACCTAGGACTCGG
**
493166 TTCTAAAAAATTACAAAAATGCCCC
129 TTCTAAAAAATTATGAAAATGCCCC
* * *
493191 TAAGGGATACCTTTGATGTAAAAGTACCCGGTACTCCTA
1 TAGGGGATACCTTTGACGTAAAAGTACCCGATACTCCTA
493230 AAAGACGTAG
Statistics
Matches: 291, Mismatches: 50, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
152 2 0.01
153 3 0.01
154 45 0.15
155 241 0.83
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.24
Consensus pattern (153 bp):
TAGGGGATACCTTTGACGTAAAAGTACCCGATACTCCTATAGGACTTAAAAGGATAATAGTGAGA
TGAACCTATCCTAAATACCTACCTTCGGCATAAAAGCAGACCCGGTGACAACCTAGGACTCGGTT
CTAAAAAATTATGAAAATGCCCC
Found at i:493891 original size:162 final size:161
Alignment explanation
Indices: 493518--494462 Score: 1321
Period size: 162 Copynumber: 5.8 Consensus size: 161
493508 CGAAAGTATT
* * * *
493518 AATTCAATTTAATTTTATTTATTTTTGAAAATACCATTTCGTACCCTAATAGAAGCCTGAAAGGA
1 AATTTAATTTAATTTTATTTATTTTTGAAAATACCATTTCGTATCCTAATGGAAGCC-GAAAGAA
* **
493583 TACGAAAGGTTTCTGAAATCTTTTATACCCCTATGGATGCCCATAGGAATATAAAAAGATTA-AA
65 TACGAAAGGTTTTTGAAATCTTTTATACCCCTACAGATGCCCATAGGAATA-AAAAAGATTAGAA
* *
493647 AAAATATATATATTAAAATTTATCCCAAGAATATC
129 AAAATA-A-ATATTAGAATTTATCCCAAGAATACC
* * *
493682 AGTTCAATTTAATTTTATTTATTTTTGAAAATACCATTTCTTATCCTAATGGAAGCTCGAAAGAA
1 AATTTAATTTAATTTTATTTATTTTTGAAAATACCATTTCGTATCCTAATGGAAGC-CGAAAGAA
* * ** * * *
493747 TACGAAAGGCTTTTGAAATCTTTTATGCCCCTACAGATGCTTATAAGAATAAAAAAGGTCAGAAA
65 TACGAAAGGTTTTTGAAATCTTTTATACCCCTACAGATGCCCATAGGAATAAAAAAGATTAGAAA
*
493812 AAATAAATATTAGAATTTATCCCAAGAACACC
130 AAATAAATATTAGAATTTATCCCAAGAATACC
* * **
493844 AATTTAATTTAATTTTATTTATTTTCGAAAATACCATTTCGTATCCTAATTGAAGCTAAAAGAAT
1 AATTTAATTTAATTTTATTTATTTTTGAAAATACCATTTCGTATCCTAATGGAAGCCGAAAGAAT
* * ** * * *
493909 GCGAAAGGTTTTTGAAATCTTGTATACTTCTA-AGGATGCCCATA-TAAAAATAAAAGATTGGAA
66 ACGAAAGGTTTTTGAAATCTTTTATACCCCTACA-GATGCCCATAGGAATAA-AAAAGATTAGAA
493972 AAAATAAATATTAGAATTTATCCCAAGAATACC
129 AAAATAAATATTAGAATTTATCCCAAGAATACC
* *
494005 AATTTAATTTAATTTTATTTATTTTCGAAAATACCATTTCGTATCCTAATAGAAGCCCGAAAGAA
1 AATTTAATTTAATTTTATTTATTTTTGAAAATACCATTTCGTATCCTAATGGAAG-CCGAAAGAA
* *
494070 TACGAAAGGTTTTTGAAATCTTTTATACCCCTATAGATGCTCATAGGAATAAGAAAA-ATT-GAA
65 TACGAAAGGTTTTTGAAATCTTTTATACCCCTACAGATGCCCATAGGAATAA-AAAAGATTAG-A
494133 AAAAATAAATATTAGAATTTATCCCAAGAATACC
128 AAAAATAAATATTAGAATTTATCCCAAGAATACC
*
494167 AATTTAATTTAATTTTATTTATTTTTGAAAATACCATTTCATATCCTAATGGAAGCCCGAAAGAA
1 AATTTAATTTAATTTTATTTATTTTTGAAAATACCATTTCGTATCCTAATGGAAG-CCGAAAGAA
* * * *
494232 TACGAAAGGTTTTTGAAATCTTTTATATCCCTACAAATACCCATAGGAATACAAAAGATTAG--A
65 TACGAAAGGTTTTTGAAATCTTTTATACCCCTACAGATGCCCATAGGAATAAAAAAGATTAGAAA
494295 AAATAAATATTAGAATTTATCCCAAGAATACC
130 AAATAAATATTAGAATTTATCCCAAGAATACC
* *
494327 AATTTAATTTAATTTTATTTATTTTTGAAAATACCATTTCATACCCTAATGGAAGCCTGAAAGAA
1 AATTTAATTTAATTTTATTTATTTTTGAAAATACCATTTCGTATCCTAATGGAAGCC-GAAAGAA
* * *
494392 TACGGAAGGTTTTTGAAATCTTTTATACCCCTACAGATG-CCATAGGAATATAGAAGATTAGAAA
65 TACGAAAGGTTTTTGAAATCTTTTATACCCCTACAGATGCCCATAGGAATAAAAAAGATTAGAAA
494456 AAATAAA
130 AAATAAA
494463 CATGGAAATA
Statistics
Matches: 702, Mismatches: 66, Indels: 29
0.88 0.08 0.04
Matches are distributed among these distances:
159 22 0.03
160 134 0.19
161 149 0.21
162 268 0.38
163 19 0.03
164 109 0.16
165 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.34
Consensus pattern (161 bp):
AATTTAATTTAATTTTATTTATTTTTGAAAATACCATTTCGTATCCTAATGGAAGCCGAAAGAAT
ACGAAAGGTTTTTGAAATCTTTTATACCCCTACAGATGCCCATAGGAATAAAAAAGATTAGAAAA
AATAAATATTAGAATTTATCCCAAGAATACC
Found at i:494138 original size:323 final size:322
Alignment explanation
Indices: 493518--494462 Score: 1355
Period size: 323 Copynumber: 2.9 Consensus size: 322
493508 CGAAAGTATT
* * *
493518 AATTCAATTTAATTTTATTTATTTTTGAAAATACCATTTCGTACCCTAATAGAAGCCTGAAAGGA
1 AATTTAATTTAATTTTATTTATTTTTGAAAATACCATTTCGTATCCTAATAGAAGCCTGAAAGAA
* * *
493583 TACGAAAGGTTTCTGAAATCTTTTATACCCCTATGGATGCCCATAGGAATATAAAAAGATTAAAA
66 TACGAAAGGTTTTTGAAATCTTTTATACTCCTAAGGATGCCCATAGGAATAT-AAAAGATT-AAA
* * * *
493648 AAATATATATATTAAAATTTATCCCAAGAATATCAGTTCAATTTAATTTTATTTATTTTTGAAAA
129 AAATA-A-ATATTAGAATTTATCCCAAGAATACCAATTTAATTTAATTTTATTTATTTTTGAAAA
* * * *
493713 TACCATTTCTTATCCTAATGGAAGCTCGAAAGAATACGAAAGGCTTTTGAAATCTTTTATGCCCC
192 TACCATTTCATATCCTAATGGAAGCCCGAAAGAATACGAAAGGTTTTTGAAATCTTTTATACCCC
* * * *
493778 TACAGATGCTTATAAGAATAA-AAAAGGTCAGAAAAAATAAATATTAGAATTTATCCCAAGAACA
257 TACAGATGCTCATAGGAATAAGAAAA-ATTAGAAAAAATAAATATTAGAATTTATCCCAAGAACA
493842 CC
321 CC
* * *
493844 AATTTAATTTAATTTTATTTATTTTCGAAAATACCATTTCGTATCCTAATTGAAG-CTAAAAGAA
1 AATTTAATTTAATTTTATTTATTTTTGAAAATACCATTTCGTATCCTAATAGAAGCCTGAAAGAA
* * * ** *
493908 TGCGAAAGGTTTTTGAAATCTTGTATACTTCTAAGGATGCCCATATAAAAATAAAAGATTGGAAA
66 TACGAAAGGTTTTTGAAATCTTTTATACTCCTAAGGATGCCCATAGGAATATAAAAGATT--AAA
*
493973 AAATAAATATTAGAATTTATCCCAAGAATACCAATTTAATTTAATTTTATTTATTTTCGAAAATA
129 AAATAAATATTAGAATTTATCCCAAGAATACCAATTTAATTTAATTTTATTTATTTTTGAAAATA
* *
494038 CCATTTCGTATCCTAATAGAAGCCCGAAAGAATACGAAAGGTTTTTGAAATCTTTTATACCCCTA
194 CCATTTCATATCCTAATGGAAGCCCGAAAGAATACGAAAGGTTTTTGAAATCTTTTATACCCCTA
* *
494103 TAGATGCTCATAGGAATAAGAAAAATT-GAAAAAAATAAATATTAGAATTTATCCCAAGAATACC
259 CAGATGCTCATAGGAATAAGAAAAATTAG-AAAAAATAAATATTAGAATTTATCCCAAGAACACC
* * *
494167 AATTTAATTTAATTTTATTTATTTTTGAAAATACCATTTCATATCCTAATGGAAGCCCGAAAGAA
1 AATTTAATTTAATTTTATTTATTTTTGAAAATACCATTTCGTATCCTAATAGAAGCCTGAAAGAA
* * * *
494232 TACGAAAGGTTTTTGAAATCTTTTATA-TCCCTACA-AATACCCATAGGAATACAAAAGATTAGA
66 TACGAAAGGTTTTTGAAATCTTTTATACT-CCTA-AGGATGCCCATAGGAATATAAAAGATTAAA
494295 AAATAAATATTAGAATTTATCCCAAGAATACCAATTTAATTTAATTTTATTTATTTTTGAAAATA
129 AAATAAATATTAGAATTTATCCCAAGAATACCAATTTAATTTAATTTTATTTATTTTTGAAAATA
* * *
494360 CCATTTCATACCCTAATGGAAGCCTGAAAGAATACGGAAGGTTTTTGAAATCTTTTATACCCCTA
194 CCATTTCATATCCTAATGGAAGCCCGAAAGAATACGAAAGGTTTTTGAAATCTTTTATACCCCTA
*
494425 CAGATGC-CATAGGAATATAG-AAGATTAGAAAAAATAAA
259 CAGATGCTCATAGGAATA-AGAAAAATTAGAAAAAATAAA
494463 CATGGAAATA
Statistics
Matches: 556, Mismatches: 55, Indels: 21
0.88 0.09 0.03
Matches are distributed among these distances:
321 25 0.04
322 136 0.24
323 218 0.39
324 67 0.12
325 59 0.11
326 51 0.09
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.34
Consensus pattern (322 bp):
AATTTAATTTAATTTTATTTATTTTTGAAAATACCATTTCGTATCCTAATAGAAGCCTGAAAGAA
TACGAAAGGTTTTTGAAATCTTTTATACTCCTAAGGATGCCCATAGGAATATAAAAGATTAAAAA
ATAAATATTAGAATTTATCCCAAGAATACCAATTTAATTTAATTTTATTTATTTTTGAAAATACC
ATTTCATATCCTAATGGAAGCCCGAAAGAATACGAAAGGTTTTTGAAATCTTTTATACCCCTACA
GATGCTCATAGGAATAAGAAAAATTAGAAAAAATAAATATTAGAATTTATCCCAAGAACACC
Found at i:495283 original size:11 final size:11
Alignment explanation
Indices: 495252--495295 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
495242 TTTTTCAACC
495252 TATTTTCTCTCT
1 TATTTT-TCTCT
495264 TA-TTTTCTCT
1 TATTTTTCTCT
495274 T-TTCTTTCTCT
1 TATT-TTTCTCT
495285 TATTTTTCTCT
1 TATTTTTCTCT
495296 CTCTTTTCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 7 0.24
11 18 0.62
12 4 0.14
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (11 bp):
TATTTTTCTCT
Found at i:495300 original size:21 final size:21
Alignment explanation
Indices: 495259--495301 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
495249 ACCTATTTTC
*
495259 TCTCTTATTTTCTCTTTTCTT
1 TCTCTTATTTTCTCTTCTCTT
495280 TCTCTTATTTT-TCTCTCTCTT
1 TCTCTTATTTTCTCT-TCTCTT
495301 T
1 T
495302 TCAGCTGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.70
Consensus pattern (21 bp):
TCTCTTATTTTCTCTTCTCTT
Found at i:496180 original size:164 final size:164
Alignment explanation
Indices: 495947--496391 Score: 490
Period size: 164 Copynumber: 2.7 Consensus size: 164
495937 AAATTTATTG
* * * ** * *
495947 AAATGAATGAATTTTTGAAAATTAAATTAATGT-GAAAAAAATAATAATATTTTATAAATTTTAA
1 AAATGAATGAATTTTTAAAAATT-GATTTAT-TAGAATTAAATAATAATATTTGATGAATTTTAA
*
496011 AAATTAAAAACCAAGAAAAATCCTCTCGAAAAAATTTACGAGAAGAAAACTCCATATTTCAAAAA
64 AAATTAAAAACCAAGAAAAATCCTCTCAAAAAAATTTACGAGAAGAAAACTCCATATTTCAAAAA
* *
496076 CGAGAGAATTTTAA-GAAAAAAAT-AAAAAATGAATGA
129 -GAGAGAAATTTAACGAAAAAAATCAAAAAATCAA-GA
496112 AAATGAATGAATTTTTAAAAATTGATTTATTAGAATTAAATAATAATATTTGATGAATTTTAAAA
1 AAATGAATGAATTTTTAAAAATTGATTTATTAGAATTAAATAATAATATTTGATGAATTTTAAAA
* * * * * **
496177 ATTAAAAACCAAGAAAAAGCCTCCCAAAAAAATTTACGGAGTAA-AAAACTCCGTTTTTTAGGAA
66 ATTAAAAACCAAGAAAAATCCTCTCAAAAAAATTTAC-GAG-AAGAAAACTCCATATTTCAAAAA
* * *
496241 TAGGGAAATTTAACGAAAAAAATCCAAAAACTCAAGA
129 GAGAGAAATTTAACGAAAAAAAT-CAAAAAATCAAGA
* * *
496278 AAATGAAGGAATTTTTGAAAAA-TGTTTTAATATG-ATATAAATAATAATATTTGATGAATTTTA
1 AAATGAATGAATTTTT-AAAAATTGATTTATTA-GAAT-TAAATAATAATATTTGATGAATTTTA
** * *
496341 AAAATTTTAAACCTATG-AAAATCCTTTCAAAAAAATTTACGAAGAAGAAAA
63 AAAATTAAAAACC-AAGAAAAATCCTCTCAAAAAAATTTACG-AGAAGAAAA
496392 TTTCGTAATT
Statistics
Matches: 239, Mismatches: 29, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
163 1 0.00
164 78 0.33
165 49 0.21
166 32 0.13
167 77 0.32
168 2 0.01
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.29
Consensus pattern (164 bp):
AAATGAATGAATTTTTAAAAATTGATTTATTAGAATTAAATAATAATATTTGATGAATTTTAAAA
ATTAAAAACCAAGAAAAATCCTCTCAAAAAAATTTACGAGAAGAAAACTCCATATTTCAAAAAGA
GAGAAATTTAACGAAAAAAATCAAAAAATCAAGA
Found at i:498924 original size:22 final size:22
Alignment explanation
Indices: 498899--498944 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
498889 GTTCTTTTTG
498899 AATTTTGAATACCTTTAAGGCA
1 AATTTTGAATACCTTTAAGGCA
498921 AATTTTGAATACCTTTAAGGCA
1 AATTTTGAATACCTTTAAGGCA
498943 AA
1 AA
498945 GGTATAACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (22 bp):
AATTTTGAATACCTTTAAGGCA
Found at i:499485 original size:13 final size:13
Alignment explanation
Indices: 499469--499493 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
499459 CAATTCATCA
499469 TGTATCGATACAT
1 TGTATCGATACAT
499482 TGTATCGATACA
1 TGTATCGATACA
499494 ATGTGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:499493 original size:33 final size:33
Alignment explanation
Indices: 499449--499513 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
499439 TTAGAAGCAA
499449 TGTATCAATACAAT-T-CATCATGTATCGATACAT
1 TGTATCAATACAATGTGC--CATGTATCGATACAT
*
499482 TGTATCGATACAATGTGCCATGTATCGATACA
1 TGTATCAATACAATGTGCCATGTATCGATACA
499514 AATAGTGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (33 bp):
TGTATCAATACAATGTGCCATGTATCGATACAT
Found at i:499605 original size:32 final size:33
Alignment explanation
Indices: 499564--499628 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
499554 ACAATTGTCC
*
499564 ATGTATCGATACAATGAAT-ATCTATCGATACA
1 ATGTATCGATACAAAGAATAATCTATCGATACA
* *
499596 ATGTATCGATACAAAGCATAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATCTATCGATACA
499629 TCTCGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATCTATCGATACA
Found at i:500002 original size:18 final size:18
Alignment explanation
Indices: 499979--500031 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
499969 AATTATTTAA
499979 AAATTAATTTTATATAAC
1 AAATTAATTTTATATAAC
*
499997 AAATTAATTCTATAT-AC
1 AAATTAATTTTATATAAC
500014 AAATATATATTTTA-ATAA
1 AAAT-TA-ATTTTATATAA
500032 ATAAATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 6 0.20
18 18 0.60
19 6 0.20
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATTAATTTTATATAAC
Found at i:501415 original size:24 final size:24
Alignment explanation
Indices: 501389--501435 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 24
501379 ATTACAAAAC
501389 AAATTGGAGTTGCAAAAA-AATTGCA
1 AAATT-GAG-TGCAAAAATAATTGCA
501414 AAATTGAGTGCAAAAATAATTG
1 AAATTGAGTGCAAAAATAATTG
501436 GATGCCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.38
24 8 0.38
25 5 0.24
ACGTcount: A:0.49, C:0.06, G:0.19, T:0.26
Consensus pattern (24 bp):
AAATTGAGTGCAAAAATAATTGCA
Found at i:501954 original size:13 final size:13
Alignment explanation
Indices: 501936--501960 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
501926 TTTTACAATT
501936 TGTATCGATACAA
1 TGTATCGATACAA
501949 TGTATCGATACA
1 TGTATCGATACA
501961 TTTATCATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:507407 original size:298 final size:296
Alignment explanation
Indices: 506864--507454 Score: 763
Period size: 298 Copynumber: 2.0 Consensus size: 296
506854 CTTCCCATAG
* * * *
506864 CACTATTCATAAATTACTTTCAACTTTTCTTTTGCCTCACATTTGGAAATACACCTCGCTAACAC
1 CACTATTCATAAATTACTTTCAACCTTTCTTTTACCTCACATTTGAAAATACACCTCGCTAACAA
*** * * * * *
506929 TTTACCAACATTTCTATGATATAGTACACCAGGAATCAAAACAAAATATTTTAAACTTAGACTTT
66 GCCACCAACATTTCTATGATATAGTACACAAGGAATCAAAAAAAAATATTTCAAACTTAGAATAT
* * * * *
506994 TGGTAGAAGTAGATTCAAGCAATTGATCAATGATAGGTGCACGCTAGTTTTCATCATTATTATAG
131 TGGTAGAAATAGACTCAAGCAATTGATCAATGATAAGTGCACACTAATTTTCATCATTATTATAG
* * *
507059 TCTAAAGGCCAAAGAAACTTACTAGCTGGGCAAAGTAAATTCCTTCTAACCA-TTGACATAATAA
196 TCTAAAGGCCAAAGAAACTCACTAGCTGAGCAAAGTAAATTCCTTCTAACCACTAG-CATAATAA
*
507123 CATTTTGATTCTCCTCCAGAATATAAATTTTGGACAC
260 CACTTTGATTCTCCTCCAGAATATAAATTTTGGACAC
* * * *
507160 CACTGTTCATAAGTTACTTTCAACCTTTCTTTTACGTCACATTTGAAAATATACCTCGCTAACAA
1 CACTATTCATAAATTACTTTCAACCTTTCTTTTACCTCACATTTGAAAATACACCTCGCTAACAA
* * * *
507225 GCCACCAACATTTCTATTATATATAGTACACAATGAATCAAAAAAAAATGTTTCAAACTTGGAAT
66 GCCACCAACATTTCTA-T-GATATAGTACACAAGGAATCAAAAAAAAATATTTCAAACTTAGAAT
*
507290 ATTGGTAGAAATAGACTCAAGCAATTGGTCAATGATAAGTGCACACTAATTTTCATCATTATTAT
129 ATTGGTAGAAATAGACTCAAGCAATTGATCAATGATAAGTGCACACTAATTTTCATCATTATTAT
* ** * * * * *
507355 AGTTTGGAGGCTAAAGTAACTCACTAGCTGAGCAAGGTAAATT-TTCTCTAACCACTAGCATAGT
194 AGTCTAAAGGCCAAAGAAACTCACTAGCTGAGCAAAGTAAATTCCT-TCTAACCACTAGCATAAT
* * *
507419 TATACTTTGATTCTCCTCTAGAATATAAATTTTGGA
258 AACACTTTGATTCTCCTCCAGAATATAAATTTTGGA
507455 AGCTAAGGTA
Statistics
Matches: 250, Mismatches: 41, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
296 70 0.28
297 2 0.01
298 176 0.70
299 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (296 bp):
CACTATTCATAAATTACTTTCAACCTTTCTTTTACCTCACATTTGAAAATACACCTCGCTAACAA
GCCACCAACATTTCTATGATATAGTACACAAGGAATCAAAAAAAAATATTTCAAACTTAGAATAT
TGGTAGAAATAGACTCAAGCAATTGATCAATGATAAGTGCACACTAATTTTCATCATTATTATAG
TCTAAAGGCCAAAGAAACTCACTAGCTGAGCAAAGTAAATTCCTTCTAACCACTAGCATAATAAC
ACTTTGATTCTCCTCCAGAATATAAATTTTGGACAC
Found at i:509167 original size:161 final size:162
Alignment explanation
Indices: 508827--509201 Score: 420
Period size: 161 Copynumber: 2.3 Consensus size: 162
508817 TGAGTTTAAC
* * * * * *
508827 ATTTTTTAAATTTATCAAATATTATTATTTAATTCATATTAAATCAGTTTTCAGAAATGCCTTCA
1 ATTTTTTAAATTCATCAAATATTATTATTTATTTCATATTAAATTA-TTTTTAAAAATGCATTCA
* * *
508892 TTTTCATGAGTTTTAGAGCCTTTTCCTGAAATTTCCTTGTTTCTACAATACGGAGTTTTCTACTC
65 TTTTCATGAGTTTTACAGCCTTTTCCTAAAATTTCCTTGTTTCTAAAATACGGAGTTTTCTACTC
* * *
508957 CGTAATTCTTTGGGGGAGATTTTTTTGGTTTTA
130 CGAAATTCTTTGCGGGAGATTTTTTTGATTTTA
* * *
508990 A-TGTTTAAATTCATCAAATAATATTATTTATTTCATATTAAATTATTTTTAAAAATTCATTCAT
1 ATTTTTTAAATTCATCAAATATTATTATTTATTTCATATTAAATTATTTTTAAAAATGCATTCAT
* *** * * *
509054 TTTTATGAGTTTT-CATTTTTTTCTTAAAATTCTTCTAT-TTTC-AAAATATGGAGTTTTCTA-T
66 TTTCATGAGTTTTACAGCCTTTTCCTAAAATT-TCCT-TGTTTCTAAAATACGGAGTTTTCTACT
* *
509115 ATCGAAATTTTTTGCGGGAGGATTTTTTT-ATTTTA
129 -CCGAAATTCTTTGCGGGA-GATTTTTTTGATTTTA
* * *
509150 ATTTTTTAAACTCATCAAATATTATGATTTATTTAATATTAAATTATTTTTA
1 ATTTTTTAAATTCATCAAATATTATTATTTATTTCATATTAAATTATTTTTA
509202 TTTCATATTA
Statistics
Matches: 178, Mismatches: 29, Indels: 12
0.81 0.13 0.05
Matches are distributed among these distances:
159 1 0.01
160 48 0.27
161 88 0.49
162 40 0.22
163 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.09, T:0.51
Consensus pattern (162 bp):
ATTTTTTAAATTCATCAAATATTATTATTTATTTCATATTAAATTATTTTTAAAAATGCATTCAT
TTTCATGAGTTTTACAGCCTTTTCCTAAAATTTCCTTGTTTCTAAAATACGGAGTTTTCTACTCC
GAAATTCTTTGCGGGAGATTTTTTTGATTTTA
Found at i:509202 original size:21 final size:21
Alignment explanation
Indices: 509177--509221 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
509167 AATATTATGA
509177 TTTATTTAATATTAAATTATT
1 TTTATTTAATATTAAATTATT
*
509198 TTTATTTCATATTAAATTATT
1 TTTATTTAATATTAAATTATT
509219 TTT
1 TTT
509222 TAAAAATTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTATTTAATATTAAATTATT
Found at i:509511 original size:163 final size:165
Alignment explanation
Indices: 509218--509518 Score: 375
Period size: 164 Copynumber: 1.8 Consensus size: 165
509208 ATTAAATTAT
* * **
509218 TTTTTAAAAATTCATTCATTTTCATGAGTTTTTTCATTTTTTTCCTTGAAATTCTTTTGTTCTGA
1 TTTTCAAAAATTCATTCATTTTCATGAGTTTTCTCATTTTTTTCCTTGAAATTCTTTTGTTCCAA
* ** * **
509283 AATACAGAGTTTTTTACTACTCGTAAATTTTTTTAGGTGATTTTTCTTTGTTTTTAATGTTTTT-
66 AAAACAGAGTTTTCCACTA-TCATAAATTTTTTTAGGTGATTTTTCTTTGTTTAAAATGTTTTTA
509347 AAATTCATTAAATATTATTATTTACTTCTAAATCAG
130 AAATTCATTAAATATTATTATTTACTTCTAAATCAG
*
509383 TTTTCAAAAATTCATTCATTTTACATGAG-TTTCTCA-TTTTTT-CTTGAAATTCTTTTTTATCC
1 TTTTCAAAAATTCATTCATTTT-CATGAGTTTTCTCATTTTTTTCCTTGAAATTCTTTTGT-TCC
*
509445 AAAAAACTGAGTTTTCCACT-TCATAAATTTTTTTGGAGG-GATTTTT-TTTCGATTTAAAAT-T
64 AAAAAACAGAGTTTTCCACTATCATAAATTTTTTT--AGGTGATTTTTCTTT-G-TTTAAAATGT
509506 TTTTAAAATTCAT
125 TTTTAAAATTCAT
509519 CAAACATTGT
Statistics
Matches: 117, Mismatches: 12, Indels: 15
0.81 0.08 0.10
Matches are distributed among these distances:
162 16 0.14
163 28 0.24
164 40 0.34
165 27 0.23
166 6 0.05
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.53
Consensus pattern (165 bp):
TTTTCAAAAATTCATTCATTTTCATGAGTTTTCTCATTTTTTTCCTTGAAATTCTTTTGTTCCAA
AAAACAGAGTTTTCCACTATCATAAATTTTTTTAGGTGATTTTTCTTTGTTTAAAATGTTTTTAA
AATTCATTAAATATTATTATTTACTTCTAAATCAG
Found at i:510048 original size:24 final size:24
Alignment explanation
Indices: 510016--510064 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
510006 TTTAGCTGAT
* * *
510016 AGGAAAAAATAGAGAGAAAAAAGA
1 AGGAAAAAAGAGAAAAAAAAAAGA
510040 AGGAAAAAAGAGAAAAAAAAAAGA
1 AGGAAAAAAGAGAAAAAAAAAAGA
510064 A
1 A
510065 ATTAAGGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (24 bp):
AGGAAAAAAGAGAAAAAAAAAAGA
Found at i:510065 original size:20 final size:20
Alignment explanation
Indices: 510028--510065 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
510018 GAAAAAATAG
* *
510028 AGAGAAAAAAGAAGGAAAAA
1 AGAGAAAAAAAAAAGAAAAA
510048 AGAGAAAAAAAAAAGAAA
1 AGAGAAAAAAAAAAGAAA
510066 TTAAGGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (20 bp):
AGAGAAAAAAAAAAGAAAAA
Found at i:510133 original size:11 final size:11
Alignment explanation
Indices: 510117--510144 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
510107 CCCTTTTGGC
510117 TTTCTTGTTCA
1 TTTCTTGTTCA
510128 TTTCTTGTTCA
1 TTTCTTGTTCA
510139 TTTCTT
1 TTTCTT
510145 TATGAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.07, C:0.18, G:0.07, T:0.68
Consensus pattern (11 bp):
TTTCTTGTTCA
Found at i:555637 original size:13 final size:13
Alignment explanation
Indices: 555621--555690 Score: 51
Period size: 12 Copynumber: 5.8 Consensus size: 13
555611 GATTTTGATC
555621 TTTTTTATATATA
1 TTTTTTATATATA
*
555634 TTTTTT-TA-AAA
1 TTTTTTATATATA
* *
555645 TTTCTTATTTA-A
1 TTTTTTATATATA
*
555657 TTTTTTAAAT-TA
1 TTTTTTATATATA
*
555669 ATTTTTA-ATATA
1 TTTTTTATATATA
*
555681 TTTTTAATAT
1 TTTTTTATAT
555691 TTTTACTTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
11 9 0.21
12 25 0.58
13 9 0.21
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTTTTATATATA
Found at i:555652 original size:24 final size:24
Alignment explanation
Indices: 555622--555685 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
555612 ATTTTGATCT
*
555622 TTTTTATATATATTTTTTTAA-AA
1 TTTTTATATATATTTTTTAAATAA
*
555645 TTTCTTATTTA-ATTTTTTAAATTAA
1 TTT-TTATATATATTTTTTAAA-TAA
555670 TTTTTA-ATATATTTTT
1 TTTTTATATATATTTTT
555686 AATATTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 14 0.41
24 15 0.44
25 5 0.15
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTTTATATATATTTTTTAAATAA
Found at i:555793 original size:22 final size:21
Alignment explanation
Indices: 555756--555799 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
555746 TAATATTATG
*
555756 TTATATTATATTTTTAATATT
1 TTATATTATATTTTTAAAATT
555777 TTATATT-TATTTATTTAAAATT
1 TTATATTATA-TT-TTTAAAATT
555799 T
1 T
555800 AAAAATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 2 0.10
21 9 0.45
22 9 0.45
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TTATATTATATTTTTAAAATT
Found at i:558396 original size:11 final size:11
Alignment explanation
Indices: 558380--558405 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
558370 ACCACCGACT
558380 TTTTTTTAAAA
1 TTTTTTTAAAA
558391 TTTTTTTAAAA
1 TTTTTTTAAAA
558402 TTTT
1 TTTT
558406 GGGAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTTTTAAAA
Found at i:564196 original size:3 final size:3
Alignment explanation
Indices: 564185--564223 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
564175 AAAAAAATGC
*
564185 TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
564224 ATAGTAACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:565747 original size:2 final size:2
Alignment explanation
Indices: 565740--565765 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
565730 CTGAGAATGT
565740 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
565766 ATCATCTACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:571188 original size:16 final size:16
Alignment explanation
Indices: 571148--571189 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
571138 ATATAAATAT
*
571148 ATATATTAAAATTTTTA
1 ATATATT-AAATTATTA
*
571165 TTAT-TTAAATTATTA
1 ATATATTAAATTATTA
571180 ATATATTAAA
1 ATATATTAAA
571190 ATTTATATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 11 0.52
16 7 0.33
17 3 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATATTAAATTATTA
Found at i:571222 original size:27 final size:27
Alignment explanation
Indices: 571163--571222 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
571153 TTAAAATTTT
*
571163 TATTATTTAAATTATTAATATATTAAA
1 TATTATATAAATTATTAATATATTAAA
*
571190 -ATTTATATAAA-TATATAATATTTTAAA
1 TA-TTATATAAATTAT-TAATATATTAAA
571217 TATTAT
1 TATTAT
571223 TATGTTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
26 4 0.14
27 23 0.82
28 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TATTATATAAATTATTAATATATTAAA
Found at i:571991 original size:2 final size:2
Alignment explanation
Indices: 571979--572013 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
571969 GAAAATATGC
*
571979 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
572014 GAAAAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:572610 original size:2 final size:2
Alignment explanation
Indices: 572603--572634 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
572593 CTGTGATTAC
572603 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
572635 CTAGCATAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:577681 original size:2 final size:2
Alignment explanation
Indices: 577674--577706 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
577664 TTATGATTAC
577674 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
577707 ACATAGAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:583144 original size:12 final size:12
Alignment explanation
Indices: 583129--583155 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
583119 ATTAAAATAA
583129 ATATAAGCAAAT
1 ATATAAGCAAAT
583141 ATATAAGCAAAT
1 ATATAAGCAAAT
583153 ATA
1 ATA
583156 GCTCTTGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.26
Consensus pattern (12 bp):
ATATAAGCAAAT
Found at i:585095 original size:2 final size:2
Alignment explanation
Indices: 585088--585119 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
585078 GTTTATCATG
585088 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
585120 TATTTTTTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:586363 original size:43 final size:43
Alignment explanation
Indices: 586302--586387 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
586292 TATATGTTTT
*
586302 TGTTGATAGATGTATGTATATGATTGATAATATGCCATATAGA
1 TGTTGATAGATGTATGTATATGATTAATAATATGCCATATAGA
* * *
586345 TGTTGATGGATGTATGTATATGATTAATAGTATGCCTTATAGA
1 TGTTGATAGATGTATGTATATGATTAATAATATGCCATATAGA
586388 ATAGATGGTG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.41
Consensus pattern (43 bp):
TGTTGATAGATGTATGTATATGATTAATAATATGCCATATAGA
Found at i:593184 original size:107 final size:108
Alignment explanation
Indices: 593048--593242 Score: 304
Period size: 107 Copynumber: 1.8 Consensus size: 108
593038 ACTCTGAGGG
* *
593048 GATACTCTAACCTTGTTCCTAAAAAAAAAACTCAAATTTTTTC-TTGTTCCTAAATATTTT-AAA
1 GATACTCTAACCTCGTTCCTAAAAAAAAAACTCAAATTTTCTCTTTGTTCCTAAATATTTTCAAA
*
593111 ATTTTTTTGATTTTGGGAAAACTCTAATCCCATTACTCCAAAAA
66 AATTTTTT-ATTTTGGGAAAACTCTAATCCCATTACTCCAAAAA
** * *
593155 GATACTCTAACCTCGTTTTTCATAAAAAAACTCAAATTTTCTCTTTGTTCCTAAATATTTTCAAA
1 GATACTCTAACCTCGTTCCTAAAAAAAAAACTCAAATTTTCTCTTTGTTCCTAAATATTTTCAAA
593220 AATTTTTTATTTTGGGAAAACTC
66 AATTTTTTATTTTGGGAAAACTC
593243 CAAGCTCACT
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
107 37 0.47
108 32 0.41
109 10 0.13
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.41
Consensus pattern (108 bp):
GATACTCTAACCTCGTTCCTAAAAAAAAAACTCAAATTTTCTCTTTGTTCCTAAATATTTTCAAA
AATTTTTTATTTTGGGAAAACTCTAATCCCATTACTCCAAAAA
Found at i:593291 original size:108 final size:107
Alignment explanation
Indices: 593048--593257 Score: 296
Period size: 108 Copynumber: 2.0 Consensus size: 107
593038 ACTCTGAGGG
* * * * * *
593048 GATACTCTAACCTTGTTCCTAAAAAAAAAACTCAAATTTTTTCTTGTTCCTAAATATTTTAAAAT
1 GATACTCTAACCTCGTTCTTCATAAAAAAACTCAAATTTTCTCTTGTTCCTAAATATTTTAAAAA
* * *
593113 TTTTTTGATTTTGGGAAAACTCTAATCCCATTACTCCAAAAA
66 TTTTTTGATTTTGGGAAAACTCCAAGCCCACTACTCCAAAAA
*
593155 GATACTCTAACCTCGTTTTTCATAAAAAAACTCAAATTTTCTCTTTGTTCCTAAATATTTTCAAA
1 GATACTCTAACCTCGTTCTTCATAAAAAAACTCAAATTTTCTC-TTGTTCCTAAATATTTT-AAA
*
593220 AATTTTTT-ATTTTGGGAAAACTCCAAGCTCACTACTCC
64 AATTTTTTGATTTTGGGAAAACTCCAAGCCCACTACTCC
593258 GAGAGAATAT
Statistics
Matches: 90, Mismatches: 11, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
107 37 0.41
108 43 0.48
109 10 0.11
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.40
Consensus pattern (107 bp):
GATACTCTAACCTCGTTCTTCATAAAAAAACTCAAATTTTCTCTTGTTCCTAAATATTTTAAAAA
TTTTTTGATTTTGGGAAAACTCCAAGCCCACTACTCCAAAAA
Found at i:599032 original size:20 final size:20
Alignment explanation
Indices: 599007--599059 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
598997 GCCAAGGAAA
599007 TGTATCGATACATTGATCTT
1 TGTATCGATACATTGATCTT
599027 TGTATCGATACATTGATCTT
1 TGTATCGATACATTGATCTT
599047 TGTATCGATACAT
1 TGTATCGATACAT
599060 CTGAGAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTGATCTT
Found at i:612148 original size:4 final size:4
Alignment explanation
Indices: 612139--612171 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
612129 ACAAGGAAAA
*
612139 AAAC AAAC AAAC AAAC AAAC AAA- AAAA AAAC AA
1 AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AA
612172 CAACAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:612154 original size:12 final size:11
Alignment explanation
Indices: 612136--612171 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
612126 GAGACAAGGA
612136 AAAAAACAAAC
1 AAAAAACAAAC
612147 AAACAAACAAAC
1 AAA-AAACAAAC
*
612159 AAAAAAAAAAC
1 AAAAAACAAAC
612170 AA
1 AA
612172 CAACAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAACAAAC
Found at i:613483 original size:29 final size:29
Alignment explanation
Indices: 613444--613642 Score: 242
Period size: 29 Copynumber: 6.9 Consensus size: 29
613434 TCACCCTTCA
* *
613444 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTC
*
613473 AAAGCCCACAAGTCAGTGGCAACC--TTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTC
* * *
613500 AAAAGCCCCCAAGTCGGTGGCACCCCTTTC
1 -AAAGCCCACAAGTCAGTGGCACCCTTTTC
* * *
613530 AAAGCCCATAAGTCGGTGGCACCCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTC
* *
613559 AAAGCCCACAAGTTAGTGGTACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTC
*
613588 AAAGCCCACAAGTCAGTGGCA-TCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTC
*
613616 AAAAGCCCACAAGTCAGTGGCAACCTT
1 -AAAGCCCACAAGTCAGTGGCACCCTT
613643 CAAAAACACA
Statistics
Matches: 149, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
27 3 0.02
28 27 0.18
29 113 0.76
30 6 0.04
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.21
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTTC
Found at i:613591 original size:58 final size:58
Alignment explanation
Indices: 613435--613682 Score: 274
Period size: 57 Copynumber: 4.3 Consensus size: 58
613425 AGACATTCCT
* *
613435 CACCC-TTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGG
1 CACCCTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGG
* * * * * *
613492 CAACC-TTCAAAAGCCCCCAAGTCGGTGGCACCCCTTTCAAAGCCCATAAGTCGGTGG
1 CACCCTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGG
* *
613549 CACCCCTTTC-AAAGCCCACAAGTTAGTGGTACCCTTTTCAAAGCCCACAAGTCAGTGG
1 CA-CCCTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGG
* * * * * * **
613607 CATCTTTTCAAAAGCCCACAAGTCAGTGGCAACC--TTCAAAAACACATAAGTTGGT-G
1 CACCCTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTC-AAAGCCCACAAGTCAGTGG
613663 CACCCTTTCAAAAGCCCACA
1 CACCCTTTCAAAAGCCCACA
613683 CAAGTTGGTG
Statistics
Matches: 159, Mismatches: 28, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
56 22 0.14
57 68 0.43
58 66 0.42
59 3 0.02
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (58 bp):
CACCCTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGG
Found at i:613648 original size:29 final size:28
Alignment explanation
Indices: 613435--613682 Score: 218
Period size: 29 Copynumber: 8.7 Consensus size: 28
613425 AGACATTCCT
613435 CACCCTTCAAAAGCCCACAAGTCAGTGG
1 CACCCTTCAAAAGCCCACAAGTCAGTGG
**
613463 CATCTTTTTC-AAAGCCCACAAGTCAGTGG
1 CA-C-CCTTCAAAAGCCCACAAGTCAGTGG
* * *
613492 CAACCTTCAAAAGCCCCCAAGTCGGTGG
1 CACCCTTCAAAAGCCCACAAGTCAGTGG
* *
613520 CACCCCTTTC-AAAGCCCATAAGTCGGTGG
1 CA-CCC-TTCAAAAGCCCACAAGTCAGTGG
*
613549 CACCCCTTTC-AAAGCCCACAAGTTAGTGG
1 CA-CCC-TTCAAAAGCCCACAAGTCAGTGG
*
613578 TACCCTTTTC-AAAGCCCACAAGTCAGTGG
1 CACCC--TTCAAAAGCCCACAAGTCAGTGG
**
613607 CATCTTTTCAAAAGCCCACAAGTCAGTGG
1 CA-CCCTTCAAAAGCCCACAAGTCAGTGG
* * * * **
613636 CAACCTTCAAAAACACATAAGTTGGT-G
1 CACCCTTCAAAAGCCCACAAGTCAGTGG
613663 CACCCTTTCAAAAGCCCACA
1 CACCC-TTCAAAAGCCCACA
613683 CAAGTTGGTG
Statistics
Matches: 181, Mismatches: 30, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
27 8 0.04
28 54 0.30
29 112 0.62
30 7 0.04
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (28 bp):
CACCCTTCAAAAGCCCACAAGTCAGTGG
Found at i:613746 original size:21 final size:21
Alignment explanation
Indices: 613722--613789 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
613712 ATATCGCTGG
613722 CCTTGAATCAGTATATTGGCA
1 CCTTGAATCAGTATATTGGCA
* * **
613743 CCTTTAAGTCCAATATCGCTGG--
1 CCTTGAA-T-CAGTAT-ATTGGCA
*
613765 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGTATATTGGCA
613786 CCTT
1 CCTT
613790 TAAGTCCAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 11 0.33
22 7 0.21
23 5 0.15
24 3 0.09
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (21 bp):
CCTTGAATCAGTATATTGGCA
Found at i:613758 original size:43 final size:43
Alignment explanation
Indices: 613704--614053 Score: 425
Period size: 43 Copynumber: 7.9 Consensus size: 43
613694 CATCTTCTTC
* *
613704 TAAGTCTAATATCGCTGGCCTTGAATCAGTATATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
613747 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * *
613790 TAAGTCCAATGTCACCGGCCTTGAATCAGCACATTGGCATCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA----C--CTT
* *
613839 TAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
613882 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * *
613925 TAAGTCCAATGTCG-TCGGCCTTGAATTAGCACATTGGCATCTTCATCTT
1 TAAGTCCAATATCGCT-GGCCTTGAATCAGCATATTGGCA----C--CTT
613974 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
* ** *
614017 TAAGTCTAACGTTG-TCGGCCTTGAATCAGCATATTGG
1 TAAGTCCAATATCGCT-GGCCTTGAATCAGCATATTGG
614054 TATCTTCATC
Statistics
Matches: 270, Mismatches: 22, Indels: 30
0.84 0.07 0.09
Matches are distributed among these distances:
42 2 0.01
43 188 0.70
45 1 0.00
47 2 0.01
49 76 0.28
50 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (43 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
Found at i:613946 original size:135 final size:135
Alignment explanation
Indices: 613691--614053 Score: 588
Period size: 135 Copynumber: 2.7 Consensus size: 135
613681 CACAAGTTGG
* * *
613691 TGGCATCTTC-T-TCTAAGTCTAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTTAAGTCC
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCC
613754 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCACCGGCCTTGAATCAG
66 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCACCGGCCTTGAATCAG
613819 CACAT
131 CACAT
* *
613824 TGGCATCTTCATCTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCATCTTTAAGTCC
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCC
** *
613889 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCGTCGGCCTTGAATTAG
66 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCACCGGCCTTGAATCAG
613954 CACAT
131 CACAT
*
613959 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCT
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCC
** *
614024 AACGTTG-TCGGCCTTGAATCAGCATATTGG
66 AATATCGCT-GGCCTTGAATCAGCATATTGG
614054 TATCTTCATC
Statistics
Matches: 213, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
133 10 0.05
134 2 0.01
135 201 0.94
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (135 bp):
TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCC
AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCACCGGCCTTGAATCAG
CACAT
Found at i:614059 original size:92 final size:91
Alignment explanation
Indices: 613855--614111 Score: 353
Period size: 92 Copynumber: 2.9 Consensus size: 91
613845 CAATATCACT
613855 GGCCTTGAATCAGCATATTGG-----CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
1 GGCCTTGAATCAGCATATTGGATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
*
613915 TTGGCACCTTTAAGTCCAATGTCGTC
66 TTGGCACCTTTAAGTCCAACGTCGTC
* *
613941 GGCCTTGAATTAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
1 GGCCTTGAATCAGCATATTGG-ATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
* *
614006 ATTGGCACCTTTAAGTCTAACGTTGTC
65 ATTGGCACCTTTAAGTCCAACGTCGTC
*** * *
614033 GGCCTTGAATCAGCATATTGGTATCTTCATCTTTAAGTTTGATATCGTTGGCTTTGAATCAGCAT
1 GGCCTTGAATCAGCATATTGG-ATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
* *
614098 ATTGACATCTTTAA
65 ATTGGCACCTTTAA
614112 CATTCCTAAG
Statistics
Matches: 150, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
86 19 0.13
92 131 0.87
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.35
Consensus pattern (91 bp):
GGCCTTGAATCAGCATATTGGATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
TTGGCACCTTTAAGTCCAACGTCGTC
Found at i:619713 original size:17 final size:17
Alignment explanation
Indices: 619693--619728 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
619683 AAGGAAGATG
* *
619693 AAGAAGAAAGAAAGAAA
1 AAGAAAAAAAAAAGAAA
619710 AAGAAAAAAAAAAGAAA
1 AAGAAAAAAAAAAGAAA
619727 AA
1 AA
619729 ATATGAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAAAAGAAA
Found at i:620105 original size:2 final size:2
Alignment explanation
Indices: 620092--620122 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
620082 TTATTTTATT
*
620092 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
620123 TTTGAAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:626180 original size:30 final size:35
Alignment explanation
Indices: 626146--626217 Score: 84
Period size: 36 Copynumber: 2.2 Consensus size: 35
626136 AAGTTCCCTT
626146 CAAAATG-AC-AAAA-AAAA-AAAAAGT-CAAAAG
1 CAAAATGCACAAAAAGAAAAGAAAAAGTGCAAAAG
626176 CAAAA-GCACAAAAAATGAAAAGAAAAAGTGCAAAAG
1 CAAAATGCAC-AAAAA-GAAAAGAAAAAGTGCAAAAG
626212 CAAAAT
1 CAAAAT
626218 AAAAAAGGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
29 1 0.03
30 7 0.21
32 4 0.12
34 4 0.12
35 7 0.21
36 11 0.32
ACGTcount: A:0.69, C:0.11, G:0.12, T:0.07
Consensus pattern (35 bp):
CAAAATGCACAAAAAGAAAAGAAAAAGTGCAAAAG
Found at i:626511 original size:15 final size:15
Alignment explanation
Indices: 626491--626520 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
626481 AATCCTAAAA
626491 AAAAAAAAAAAAACC
1 AAAAAAAAAAAAACC
626506 AAAAAAAAAAAAACC
1 AAAAAAAAAAAAACC
626521 TTTTCACCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAACC
Found at i:627615 original size:27 final size:27
Alignment explanation
Indices: 627572--628390 Score: 1253
Period size: 27 Copynumber: 29.9 Consensus size: 27
627562 GTGGCATTTT
* *
627572 CTTTTAAAGTCCACAACTCTGTGGCATC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
627600 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
627627 CTTTTAAAGTCCACAACTCCGTGGTACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
627655 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
627682 CTTTTAAAATCCACAACTCCGTGGTACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
627710 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
627737 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
627764 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
627791 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
627818 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
627845 CTTTTAAGTCCACAACTCCGTGGCATTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
627873 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
627900 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
627927 CTTTTAAGTCCACAACTCTGTGGCATTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
627955 CTTTTAA-TACCACAACTCCGTGGCACC
1 CTTTTAAGT-CCACAACTCCGTGGCACC
627982 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
628009 CTTTTAAGTCCACAACTCCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
628036 CTTTTAAGTCCATAACTCCATGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
628064 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
628091 CTTTTAAGACCACAACTCCGTAGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
628118 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
628145 CTTTTAAGTCCATAACTCTGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
628173 TTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
628200 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
628228 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
628255 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
628283 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
628311 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
628338 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* * * *
628366 CTTTTAAATTCACAAATCGGTGGCA
1 CTTTTAAGTCCACAACTCCGTGGCA
628391 ACCCATTCCA
Statistics
Matches: 734, Mismatches: 46, Indels: 22
0.92 0.06 0.03
Matches are distributed among these distances:
27 478 0.65
28 256 0.35
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:627640 original size:55 final size:54
Alignment explanation
Indices: 627572--628390 Score: 1253
Period size: 55 Copynumber: 15.0 Consensus size: 54
627562 GTGGCATTTT
* * *
627572 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
627627 CTTTTAAAGTCCACAACTCCGTGGTACCCTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * * *
627682 CTTTTAAAATCCACAACTCCGTGGTACCCTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
627737 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
627791 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
627845 CTTTTAAGTCCACAACTCCGTGGCATTCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* *
627900 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
627955 CTTTTAA-TACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGT-CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
628009 CTTTTAAGTCCACAACTCCGTGGCACTCTTTTAAGTCCATAACTCCATGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* *
628064 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTAGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
628118 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCTGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* *
628173 TTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
* *
628228 CTTTTTAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
628283 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* * * *
628338 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAATTCACAAATCGGTGGCA
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCA
628391 ACCCATTCCA
Statistics
Matches: 712, Mismatches: 43, Indels: 18
0.92 0.06 0.02
Matches are distributed among these distances:
54 266 0.37
55 401 0.56
56 45 0.06
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (54 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:627672 original size:82 final size:81
Alignment explanation
Indices: 627572--628390 Score: 1253
Period size: 82 Copynumber: 10.0 Consensus size: 81
627562 GTGGCATTTT
* * *
627572 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGT
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
*
627637 CCACAACTCCGTGGTACC
64 CCACAACTCCGTGGCACC
* * * *
627655 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAATCCACAACTCCGTGGTACCCTTTTTAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
627720 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
* *
627737 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
627802 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
*
627818 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATTCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
627883 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* *
627900 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATTCCTTTTAA-TA
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGT-
627964 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
*
627982 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* *
628047 ATAACTCCATGGCATCC
66 ACAACTCCGTGGCA-CC
* *
628064 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTAGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
628129 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
* * ** *
628145 CTTTTAAGTCCATAACTCTGTGGCATCTTTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
628210 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
* *
628228 CTTTTTAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
628293 CACAACTCCGTGGCATCC
65 CACAACTCCGTGGCA-CC
* *
628311 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAATT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
* *
628376 CACAAATCGGTGGCA
65 CACAACTCCGTGGCA
628391 ACCCATTCCA
Statistics
Matches: 683, Mismatches: 44, Indels: 18
0.92 0.06 0.02
Matches are distributed among these distances:
81 141 0.21
82 385 0.56
83 157 0.23
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACC
Found at i:628418 original size:32 final size:32
Alignment explanation
Indices: 628376--628818 Score: 735
Period size: 32 Copynumber: 13.8 Consensus size: 32
628366 CTTTTAAATT
* *
628376 CACAAATCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
628408 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
628440 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
628472 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
628504 TACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
628536 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
628568 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
628600 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
628632 CACAAGTCGGTGGCAACCCA-TTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
*
628664 CACAAGTAGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** *
628696 CACAAGTCGGTGGCAACCTTTTTCAAAGCCCC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
628728 CAGAAGTTGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
628760 CGCAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
628792 CACAAGTCAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
628819 TCACCATTTT
Statistics
Matches: 387, Mismatches: 22, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
31 3 0.01
32 381 0.98
33 3 0.01
ACGTcount: A:0.32, C:0.33, G:0.19, T:0.16
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:630091 original size:12 final size:13
Alignment explanation
Indices: 630063--630097 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
630053 GAAGATGAAG
630063 AAGAAAGAAAGAAA
1 AAGAAA-AAAGAAA
630077 AAGAAAAAA-AAA
1 AAGAAAAAAGAAA
630089 AAGAAAAAA
1 AAGAAAAAA
630098 TATGAAATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.57
13 3 0.14
14 6 0.29
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAGAAA
Found at i:635286 original size:13 final size:13
Alignment explanation
Indices: 635268--635294 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
635258 TACAAAGATT
635268 AATGTATCGATAC
1 AATGTATCGATAC
635281 AATGTATCGATAC
1 AATGTATCGATAC
635294 A
1 A
635295 TTGAGTAATG
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:635354 original size:13 final size:13
Alignment explanation
Indices: 635332--635389 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
635322 GTGAGTAGCT
*
635332 TTGTAGCGATACA
1 TTGTATCGATACA
635345 TTGTATCGATACAACA
1 TTGTATCGAT---ACA
635361 CTTATGTATCGATACA
1 --T-TGTATCGATACA
635377 TTGTATCGATACA
1 TTGTATCGATACA
635390 AAACTTATGC
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:635379 original size:32 final size:32
Alignment explanation
Indices: 635333--635398 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
635323 TGAGTAGCTT
*
635333 TGTAGCGATACATTGTATCGATACAACACTTA
1 TGTAGCGATACATTGTATCGATACAAAACTTA
*
635365 TGTATCGATACATTGTATCGATACAAAACTTA
1 TGTAGCGATACATTGTATCGATACAAAACTTA
635397 TG
1 TG
635399 CATAGATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (32 bp):
TGTAGCGATACATTGTATCGATACAAAACTTA
Found at i:636322 original size:48 final size:48
Alignment explanation
Indices: 636108--636829 Score: 286
Period size: 49 Copynumber: 15.6 Consensus size: 48
636098 CGAAGAAAGA
* ** * *
636108 CAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAA-G--AAGAATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATT-GGGTTTAACGACAAG-GTGC
** * * ** * *
636155 CAATGTGCTGAGACAAGGCCAACGACATTGGGCTTAGGAATATTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTA--ACGA--CAAGGTGC
** * * *** * *
636207 CAATACGCTGATTCAAGGCCAACGATATTGAACTTAAGGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTAACGA-CAAGGTGC
* * *
636256 CAATGTGCTAATTTAAGGCCAGCGGCATTGGGTTTAACGACAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTAACGACAAGGTGC
* * * * **
636304 TAATATGCTGATTCAAGGCCAGCGATA-TCGG----AC--TTA--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTAACGACAAGGTGC
** * *
636343 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTAACGA-CAAGGTGC
* * *
636392 CAATGTGCTGATTCAAGACCAGCGACATTGGTTTTAATGACAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTAACGACAAGGTGC
* * * * *
636440 CAATATGCTGATTCACGGCTAGCGATATTGGGCTT-------A--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTAACGACAAGGTGC
* * * * * *
636479 C-ATGTGCTAATTCAAGGCCACCGATATTGGATTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTAACGA-CAAGGTGC
* * * * * *
636527 CAATGTGCTGTTTCAAAGCCAGTGATATTAGGCTT-------A--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTAACGACAAGGTGC
* * ** * * *
636566 CAAGGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTAACGA-CAAGGTGC
* *
636615 CAATGTGCTGATTCAAGGCCAGCAACATT-GGTCTTAAAGACAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGT-TTAACGACAAGGTGC
* * **
636663 CAATATGCTGATTCAAGGCCAGCG--A-T--ATTT---GAC-TTGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTAACGACAAGGTGC
* * * ** * * * *
636702 CAATGTGCTGATTCAAGGCGAGTGACATTAGACTTAAAGATGAAGATAC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTAACGA-CAAGGTGC
* *
636751 CAATGTGCTGATTCAAGGCCAGCAACATT-GGTCTTAAAGACAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGGT-TTAACGACAAGGTGC
* * * *
636799 TAATATGCTGATTCAAGGTCAGCGATATTGG
1 CAATGTGCTGATTCAAGGCCAGCGACATTGG
636830 ACTTGTGCCA
Statistics
Matches: 506, Mismatches: 118, Indels: 100
0.70 0.16 0.14
Matches are distributed among these distances:
38 26 0.05
39 86 0.17
40 5 0.01
41 4 0.01
42 1 0.00
43 4 0.01
44 5 0.01
45 1 0.00
46 5 0.01
47 32 0.06
48 127 0.25
49 172 0.34
50 2 0.00
52 33 0.07
53 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTAACGACAAGGTGC
Found at i:636397 original size:49 final size:48
Alignment explanation
Indices: 636340--637049 Score: 413
Period size: 49 Copynumber: 15.9 Consensus size: 48
636330 ATCGGACTTA
636340 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-AAGG
* ** * *
636389 TGCCAATGTGCTGATTCAAGACCAGCGACATTGGTTTTAATGACAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAGG
* * * * *
636437 TGCCAATATGCTGATTCACGGCTAGCGATATTGGGC-T-----T-A--
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAGG
* * * *
636476 TGCC-ATGTGCTAATTCAAGGCCACCGATATTGGATTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-AAGG
* * * *
636524 TGCCAATGTGCTGTTTCAAAGCCAGTGATATTAGG-C-T-----T-A--
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATAAGG
* * *
636563 TGCCAAGGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-AAGG
* * *
636612 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAGG
* * *
636660 TGCCAATATGCTGATTCAAGGCCAGCGATATTTGAC-T-----T---G
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAGG
* * * *
636699 TGCCAATGTGCTGATTCAAGGCGAGTGACATTAGACTTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-AAGG
* * * *
636748 TACCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAGG
* * * *
636796 TGCTAATATGCTGATTCAAGGTCAGCGATATTGGAC-T-----T---G
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAGG
* * *
636835 TGCCAATGTGCTAATTCAAGGCCAGCAACATTGG--TT-----T--TG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAGG
* * * ** *
636874 TGACAATGTGCTGATTCAAGGCCAGCGACGTTGGTCTT-GTGACAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAGG
* * * * *
636921 TGCCAATATGTTAATTCAAGGCCA-CGATATTGGGC-T-----T---G
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAGG
* * *
636959 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGACAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAGG
* * * *
637007 TACCAATATACTGATTCAAGG-CAGCGATATTGGACTTAGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA-AAGA
637050 AGATGCCACC
Statistics
Matches: 512, Mismatches: 95, Indels: 109
0.72 0.13 0.15
Matches are distributed among these distances:
38 50 0.10
39 134 0.26
40 3 0.01
41 4 0.01
43 1 0.00
44 1 0.00
45 3 0.01
46 9 0.02
47 41 0.08
48 127 0.25
49 137 0.27
50 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (48 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAGG
Found at i:636447 original size:136 final size:136
Alignment explanation
Indices: 636203--636542 Score: 484
Period size: 136 Copynumber: 2.5 Consensus size: 136
636193 AATATTAAAG
** * * *
636203 ATGCCAATACGCTGATTCAAGGCCAACGATATTGAACTTAAGGATGAAGGTGCCAATGTGCTAAT
1 ATGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAT
* * * *
636268 TTAAGGCCAGCGGCATTGGGTTTAACGACAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATC
66 TCAAGACCAGCGACATTGGGTTTAACGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATC
636333 GGACTT
131 GGACTT
* *
636339 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAT
1 ATGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAT
* * * * *
636404 TCAAGACCAGCGACATTGGTTTTAATGACAAGGTGCCAATATGCTGATTCACGGCTAGCGATATT
66 TCAAGACCAGCGACATTGGGTTTAACGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATC
*
636469 GGGCTT
131 GGACTT
* * * *
636475 ATGCC-ATGTGCTAATTCAAGGCCACCGATATTGGATTTAAAGATGAAGGTGCCAATGTGCTGTT
1 ATGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAT
636539 TCAA
66 TCAA
636543 AGCCAGTGAT
Statistics
Matches: 182, Mismatches: 22, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
135 58 0.32
136 124 0.68
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (136 bp):
ATGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAT
TCAAGACCAGCGACATTGGGTTTAACGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATC
GGACTT
Found at i:636602 original size:223 final size:224
Alignment explanation
Indices: 636253--636773 Score: 715
Period size: 223 Copynumber: 2.3 Consensus size: 224
636243 AGGATGAAGG
* * * * * * *
636253 TGCCAATGTGCTAATTTAAGGCCAGCGGCATTGGGTTTAACGA-CAAGGTGCTAATATGCTGATT
1 TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGATTTAAAGATGAAGGTGCCAATGTGCTGATT
* *
636317 CAAGGCCAGCGATATCGGACTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
66 CAAGGCCAGCGATATAGGACTTATGCCAAGGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
* * * * *
636382 ATGAAGGTGCCAATGTGCTGATTCAAGACCAGCGACATTGGTTTTAATGACAAGGTGCCAATATG
131 ATAAAGATGCCAATGTGCTGATTCAAGACCAGCAACATTGGTCTTAAAGACAAGGTGCCAATATG
* * *
636447 CTGATTCACGGCTAGCGATATTGGGCTTA
196 CTGATTCAAGGCCAGCGATATTGGACTTA
* * *
636476 TGCC-ATGTGCTAATTCAAGGCCACCGATATTGGATTTAAAGATGAAGGTGCCAATGTGCTGTTT
1 TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGATTTAAAGATGAAGGTGCCAATGTGCTGATT
* * *
636540 CAAAGCCAGTGATATTAGG-CTTATGCCAAGGTGTTGATTCAAGGCCAGCGACATTGGACTTAAA
66 CAAGGCCAGCGATA-TAGGACTTATGCCAAGGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA
*
636604 GATAAAGATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAGGTGCCAATAT
130 GATAAAGATGCCAATGTGCTGATTCAAGACCAGCAACATTGGTCTTAAAGACAAGGTGCCAATAT
* *
636669 GCTGATTCAAGGCCAGCGATATTTGACTTG
195 GCTGATTCAAGGCCAGCGATATTGGACTTA
* * * * * * *
636699 TGCCAATGTGCTGATTCAAGGCGAGTGACATTAGACTTAAAGATGAAGATACCAATGTGCTGATT
1 TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGATTTAAAGATGAAGGTGCCAATGTGCTGATT
636764 CAAGGCCAGC
66 CAAGGCCAGC
636774 AACATTGGTC
Statistics
Matches: 257, Mismatches: 38, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
222 32 0.12
223 164 0.64
224 61 0.24
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (224 bp):
TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGATTTAAAGATGAAGGTGCCAATGTGCTGATT
CAAGGCCAGCGATATAGGACTTATGCCAAGGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
ATAAAGATGCCAATGTGCTGATTCAAGACCAGCAACATTGGTCTTAAAGACAAGGTGCCAATATG
CTGATTCAAGGCCAGCGATATTGGACTTA
Found at i:636617 original size:88 final size:88
Alignment explanation
Indices: 636389--636868 Score: 319
Period size: 87 Copynumber: 5.4 Consensus size: 88
636379 AAGATGAAGG
* * * * *
636389 TGCCAATGTGCTGATTCAAGACCAGCGACATTGGTTTTAATGA-CAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGATTTAAAGATAAAGGTGCCAATGTGCTGATT
* * *
636453 CACGGCTAGCGATATTGGGCTTA
66 CAAGGCCAGCGATATTAGGCTTA
* * * * *
636476 TGCC-ATGTGCTAATTCAAGGCCACCGATATTGGATTTAAAGATGAAGGTGCCAATGTGCTGTTT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGATTTAAAGATAAAGGTGCCAATGTGCTGATT
* *
636540 CAAAGCCAGTGATATTAGGCTTA
66 CAAGGCCAGCGATATTAGGCTTA
* * * *
636563 TGCCAAGGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGATGCCAATGTGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGATTTAAAGATAAAGGTGCCAATGTGCTGATT
* *
636628 CAAGGCCAGCAACATT-GGTCTTAAAGACAA
66 CAAGGCCAGCGATATTAGG-CTT-------A
* *
636658 GGTGCCAATATGCTGATTCAAGGCCAGCG--A-T--ATTT---GACT---TGTGCCAATGTGCTG
1 --TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGATTTAAAGA-TAAAGGTGCCAATGTGCTG
* * * *
636712 ATTCAAGGCGAGTGACATTAGACTTAAAGA
63 ATTCAAGGCCAGCGATATTAGGCTT----A
* * * *
636742 TGAAGATACCAATGTGCTGATTCAAGGCCAGCAACATTGG-TCTTAAAGA-CAAGGTGCTAATAT
1 T---G---CCAATGTGCTGATTCAAGGCCAGCGACATTGGAT-TTAAAGATAAAGGTGCCAATGT
* *
636805 GCTGATTCAAGGTCAGCGATATT-GGACTTG
59 GCTGATTCAAGGCCAGCGATATTAGG-CTTA
* *
636835 TGCCAATGTGCTAATTCAAGGCCAGCAACATTGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
636869 TTTTGTGACA
Statistics
Matches: 308, Mismatches: 52, Indels: 66
0.72 0.12 0.15
Matches are distributed among these distances:
82 1 0.00
84 2 0.01
85 1 0.00
86 32 0.10
87 109 0.35
88 90 0.29
89 2 0.01
90 3 0.01
91 1 0.00
92 4 0.01
93 3 0.01
94 1 0.00
95 2 0.01
96 3 0.01
97 54 0.18
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (88 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGATTTAAAGATAAAGGTGCCAATGTGCTGATT
CAAGGCCAGCGATATTAGGCTTA
Found at i:636713 original size:39 final size:39
Alignment explanation
Indices: 636659--636992 Score: 202
Period size: 39 Copynumber: 7.9 Consensus size: 39
636649 TAAAGACAAG
* *
636659 GTGCCAATATGCTGATTCAAGGCCAGCGATATTTGACTT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
* * * *
636698 GTGCCAATGTGCTGATTCAAGGCGAGTGACATTAGACTT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
636737 AAAGATGAAGATACCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTT
1 ---G-T---G---CCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
636786 AAAGACAAGGTGCTAATATGCTGATTCAAGGTCAGCGATATTGGACTT
1 ---------GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
* * * **
636834 GTGCCAATGTGCTAATTCAAGGCCAGCAACATTGGTTTT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
* ** *
636873 GTGACAATGTGCTGATTCAAGGCCAGCGACGTTGGTCTT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
636912 GTGACAAGGTGCCAATATGTTAATTCAAGGCCA-CGATATTGGGCTT
1 GTGCCAATGTG-C----TG---ATTCAAGGCCAGCGATATTGGACTT
636958 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGG
1 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGG
636993 TCTTAAAGAC
Statistics
Matches: 234, Mismatches: 36, Indels: 50
0.73 0.11 0.16
Matches are distributed among these distances:
38 11 0.05
39 118 0.50
40 1 0.00
41 2 0.01
42 1 0.00
43 1 0.00
44 2 0.01
45 1 0.00
46 20 0.09
47 11 0.05
48 30 0.13
49 31 0.13
51 1 0.00
54 1 0.00
55 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (39 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
Done.