Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2752
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: 500988
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.21
Warning! 175871 characters in sequence are not A, C, G, or T
File 1 of 3
Found at i:7910 original size:28 final size:28
Alignment explanation
Indices: 7849--7930 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
7839 TTTTGGAGAT
*
7849 AATAACGGGGTTGGAGTGTTCCCTCG--GA
1 AATAACGGGGTTGGAGT-ATCCC-CGATGA
*
7877 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGGGGTTGGAGTATCCCCGATGA
* *
7905 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGGGGTTGGAGTATCCCCGAT
7931 TGTGAAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.04
27 4 0.09
28 41 0.87
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (28 bp):
AATAACGGGGTTGGAGTATCCCCGATGA
Found at i:8072 original size:51 final size:51
Alignment explanation
Indices: 7910--8082 Score: 213
Period size: 52 Copynumber: 3.4 Consensus size: 51
7900 GATGAAATAA
* *
7910 CGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAAT
1 CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGGAAATAAAAT
* * * *
7962 CG-GTGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAAT
1 CGAG-GTTGGAGTATCCCCGATT-ATGAAAAATTGGTATTTTGGAAATAAAAT
* *** *
8014 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGT
1 CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAAT
8065 CGAGGTTGGAGTATCCCC
1 CGAGGTTGGAGTATCCCC
8083 TCAGAAATAA
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
51 39 0.38
52 53 0.51
53 11 0.11
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (51 bp):
CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAAT
Found at i:8128 original size:27 final size:28
Alignment explanation
Indices: 8068--8140 Score: 96
Period size: 27 Copynumber: 2.6 Consensus size: 28
8058 ATAAAGTCGA
*
8068 GGTTGGAGTATCCCCTCA-GAAATAACGG
1 GGTTGGAGTATCCCC-GATGAAATAACGG
*
8096 GGTTGGAGTATCCCCGATG-ATTAACGG
1 GGTTGGAGTATCCCCGATGAAATAACGG
*
8123 GGTTGGAGTGTCCCCGAT
1 GGTTGGAGTATCCCCGAT
8141 TGTGAAGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 25 0.61
28 16 0.39
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.25
Consensus pattern (28 bp):
GGTTGGAGTATCCCCGATGAAATAACGG
Found at i:10623 original size:33 final size:33
Alignment explanation
Indices: 10586--10648 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
10576 TTTCCAAATG
***
10586 TATCGATACAAAGATCCATGTATCGATACAATA
1 TATCGATACAAAGAAAAATGTATCGATACAATA
*
10619 TATCGATACACAGAAAAATGTATCGATACA
1 TATCGATACAAAGAAAAATGTATCGATACA
10649 TTTCCTTGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.25
Consensus pattern (33 bp):
TATCGATACAAAGAAAAATGTATCGATACAATA
Found at i:10708 original size:13 final size:13
Alignment explanation
Indices: 10690--10716 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10680 ACAATACTTA
10690 TGTATCGATACAT
1 TGTATCGATACAT
10703 TGTATCGATACAT
1 TGTATCGATACAT
10716 T
1 T
10717 TGGAATTTTT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:11546 original size:55 final size:55
Alignment explanation
Indices: 11462--12859 Score: 2123
Period size: 55 Copynumber: 25.4 Consensus size: 55
11452 ATAAACTGTA
* * * * * *
11462 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
11517 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
11572 TCCTGCTCTTTGGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
11627 TCCTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
11682 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
11737 TCCTGCTCTTTGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
11792 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
** *
11847 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTAGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
11902 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
11957 TCCTGCTCTTTGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
12012 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
12067 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* * *
12122 TCCTACTCTTTGAGGACTGGAAA-ATGCCACCAACTTGGGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
12177 TCCTGCTCTTTG-GGACTGAAAGGTGCAACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
12231 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
12286 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
12341 TCCTGCTCTTTGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
12396 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
12451 TCCTGCTCTTT-AGGTACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGG-ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
12506 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGGGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
12561 TCCTGCTCTTTGGGGACTGAAAGGTGCAACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
12616 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
12671 TCCTGCTCTTTGAGGACTGGAAA-ATGCTACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
12726 TCCTGCTCTTTGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
12781 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
12836 TCCTGCTCTTTGGGGACTCAAAGG
1 TCCTGCTCTTTGAGGACTGAAAGG
12860 CATTAAAAGT
Statistics
Matches: 1251, Mismatches: 64, Indels: 56
0.91 0.05 0.04
Matches are distributed among these distances:
53 6 0.00
54 73 0.06
55 1133 0.91
56 39 0.03
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:11626 original size:29 final size:28
Alignment explanation
Indices: 11536--12835 Score: 146
Period size: 28 Copynumber: 47.2 Consensus size: 28
11526 TTGAGGACTG
11536 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * ** *
11564 GAAAGGTGTCCTGC-TCTT-TG-GGGAATG
1 -AAAGGTG-CCACCAACTTGTGTGGGCTTT
11591 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * **
11619 AAGAGGTGTCCTGC-TCTT-TGAGGACTAG
1 AA-AGGTG-CCACCAACTTGTGTGGGCTTT
*
11647 AAA-ATGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * **
11674 GAAAGGTGTCCTGC-TCTT-TGAGGACTGG
1 -AAAGGTG-CCACCAACTTGTGTGGGCTTT
*
11702 AAA-ATGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * *
11729 AAGAGGTGTCCTGC-TCTT-TGAGGAC-TG
1 AA-AGGTG-CCACCAACTTGTGTGGGCTTT
* *
11756 GAAGGCGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * *
11784 AAGAGGTGTCCTGC-TCTT-TG-GGGAC-TG
1 AA-AGGTG-CCACCAACTTGTGTGGG-CTTT
11811 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * *
11839 AAGAGGTGTCCTGC-TCTT-TGAGGAC-TG
1 AA-AGGTG-CCACCAACTTGTGTGGGCTTT
** *
11866 AAAAATGCCACCAACTTGTGTAGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * **
11894 GAAAGGTGTCCTGC-TCTT-TGAGGACTGG
1 -AAAGGTG-CCACCAACTTGTGTGGGCTTT
*
11922 AAA-ATGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * *
11949 AAGAGGTGTCCTGC-TCTT-TGAGGAC-TG
1 AA-AGGTG-CCACCAACTTGTGTGGGCTTT
* *
11976 GAAGGCGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * *
12004 AAGAGGTGTCCTGC-TCTT-TG-GGGAC-TG
1 AA-AGGTG-CCACCAACTTGTGTGGG-CTTT
12031 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * *
12059 AAGAGGTGTCCTGC-TCTT-TG-GGGAC-TG
1 AA-AGGTG-CCACCAACTTGTGTGGG-CTTT
12086 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
* * * **
12114 AAGAGGTGTCCTA-C-TCTT-TGAGGACTGG
1 AA-AGGTG-CC-ACCAACTTGTGTGGGCTTT
* *
12142 AAA-ATGCCACCAACTTGGGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * *
12169 GAAAGGTGTCCTGC-TCTT-TG-GGAC-TG
1 -AAAGGTG-CCACCAACTTGTGTGGGCTTT
*
12195 AAAGGTGCAACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * **
12223 AAGAGGTGTCCTGC-TCTT-TGAGGACTGG
1 AA-AGGTG-CCACCAACTTGTGTGGGCTTT
*
12251 AAA-ATGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * **
12278 GAAAGGTGTCCTGC-TCTT-TGAGGACTGG
1 -AAAGGTG-CCACCAACTTGTGTGGGCTTT
*
12306 AAA-ATGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * *
12333 AAGAGGTGTCCTGC-TCTT-TGAGGAC-TG
1 AA-AGGTG-CCACCAACTTGTGTGGGCTTT
* *
12360 GAAGGCGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * *
12388 AAGAGGTGTCCTGC-TCTT-TG-GGGAC-TG
1 AA-AGGTG-CCACCAACTTGTGTGGG-CTTT
12415 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * ** *
12443 AAGAGGTGTCCTGC-TCTT-TAG-GTAC-TG
1 AA-AGGTG-CCACCAACTTGT-GTGGGCTTT
12470 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * **
12498 AAGAGGTGTCCTGC-TCTT-TGAGGACTGG
1 AA-AGGTG-CCACCAACTTGTGTGGGCTTT
* *
12526 AAA-ATGCCACCAACTTGGGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * *
12553 GAAAGGTGTCCTGC-TCTT-TG-GGGAC-TG
1 -AAAGGTG-CCACCAACTTGTGTGGG-CTTT
*
12580 AAAGGTGCAACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * **
12608 AAGAGGTGTCCTGC-TCTT-TGAGGACTGG
1 AA-AGGTG-CCACCAACTTGTGTGGGCTTT
*
12636 AAA-ATGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * **
12663 GAAAGGTGTCCTGC-TCTT-TGAGGACTGG
1 -AAAGGTG-CCACCAACTTGTGTGGGCTTT
* *
12691 AAA-ATGCTACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * *
12718 AAGAGGTGTCCTGC-TCTT-TGAGGAC-TG
1 AA-AGGTG-CCACCAACTTGTGTGGGCTTT
* *
12745 GAAGGCGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * *
12773 AAGAGGTGTCCTGC-TCTT-TG-GGGAC-TG
1 AA-AGGTG-CCACCAACTTGTGTGGG-CTTT
12800 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
12828 AAGAGGTG
1 AA-AGGTG
12836 TCCTGCTCTT
Statistics
Matches: 825, Mismatches: 314, Indels: 264
0.59 0.22 0.19
Matches are distributed among these distances:
24 3 0.00
25 74 0.09
26 151 0.18
27 182 0.22
28 187 0.23
29 161 0.20
30 66 0.08
31 1 0.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.29
Consensus pattern (28 bp):
AAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:12036 original size:26 final size:26
Alignment explanation
Indices: 12007--12092 Score: 77
Period size: 26 Copynumber: 3.2 Consensus size: 26
11997 GGGCTTTAAG
12007 AGGTGTCCTGCTCTTTGGGGACTGAA
1 AGGTGTCCTGCTCTTTGGGGACTGAA
** * *
12033 AGGTG-CCACCAACTTGTGTGGG-CTTTAA
1 AGGTGTCCTGC-TCTT-TG-GGGAC-TGAA
12061 GAGGTGTCCTGCTCTTTGGGGACTGAA
1 -AGGTGTCCTGCTCTTTGGGGACTGAA
12088 AGGTG
1 AGGTG
12093 CCACCAACTT
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
25 3 0.07
26 13 0.29
27 9 0.20
28 9 0.20
29 8 0.18
30 3 0.07
ACGTcount: A:0.17, C:0.19, G:0.35, T:0.29
Consensus pattern (26 bp):
AGGTGTCCTGCTCTTTGGGGACTGAA
Found at i:12308 original size:27 final size:27
Alignment explanation
Indices: 12226--12308 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
12216 GGGCTTTAAG
12226 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
* ** * * * *
12253 A-ATG-CCACCAACTTGTGTGGGCTTTGAA
1 AGGTGTCCTGC-TCTT-TGAGGAC-TGGAA
12281 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
12308 A
1 A
12309 ATGCCACCAA
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (27 bp):
AGGTGTCCTGCTCTTTGAGGACTGGAA
Found at i:12693 original size:27 final size:27
Alignment explanation
Indices: 12611--12693 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
12601 GGGCTTTAAG
12611 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
* ** * * * *
12638 A-ATG-CCACCAACTTGTGTGGGCTTTGAA
1 AGGTGTCCTGC-TCTT-TGAGGAC-TGGAA
12666 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
12693 A
1 A
12694 ATGCTACCAA
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (27 bp):
AGGTGTCCTGCTCTTTGAGGACTGGAA
Found at i:12805 original size:26 final size:26
Alignment explanation
Indices: 12776--12859 Score: 64
Period size: 26 Copynumber: 3.1 Consensus size: 26
12766 GGGCTTTAAG
*
12776 AGGTGTCCTGCTCTTTGGGGACTGAA
1 AGGTGTCCTGCTCTTTGGGGACTCAA
** * *
12802 AGGTG-CCACCAACTTGTGTGGG-CTTTAA
1 AGGTGTCCTGC-TCTT-TG-GGGAC-TCAA
12830 GAGGTGTCCTGCTCTTTGGGGACTCAA
1 -AGGTGTCCTGCTCTTTGGGGACTCAA
12857 AGG
1 AGG
12860 CATTAAAAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
25 3 0.07
26 11 0.26
27 9 0.21
28 9 0.21
29 8 0.19
30 3 0.07
ACGTcount: A:0.18, C:0.20, G:0.33, T:0.29
Consensus pattern (26 bp):
AGGTGTCCTGCTCTTTGGGGACTCAA
Found at i:13717 original size:1 final size:1
Alignment explanation
Indices: 13713--13771 Score: 55
Period size: 1 Copynumber: 59.0 Consensus size: 1
13703 CTTTTCTCTC
* * * * * **
13713 TTTTTCTTTGTTTTGTTTTTTTGTTTTTTTTTTCTTTTTTTTTTTTTGCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
13772 GAAGAGAAGG
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.88
Consensus pattern (1 bp):
T
Found at i:13737 original size:13 final size:12
Alignment explanation
Indices: 13713--13772 Score: 75
Period size: 13 Copynumber: 4.8 Consensus size: 12
13703 CTTTTCTCTC
*
13713 TTTTTCTTTGTT
1 TTTTTTTTTGTT
13725 TTGTTTTTTTGTT
1 TT-TTTTTTTGTT
*
13738 TTTTTTTTCTTTT
1 TTTTTTTT-TGTT
*
13751 TTTTTTTTTGCT
1 TTTTTTTTTGTT
13763 TTTTTTTTTG
1 TTTTTTTTTG
13773 AAGAGAAGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
12 20 0.48
13 22 0.52
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:13740 original size:38 final size:37
Alignment explanation
Indices: 13698--13772 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 37
13688 TTAGGTAGGT
*
13698 TTTTTCTTTTCTCTCTTTTTCTTTGTTTTGTTTTTTTG
1 TTTTTCTTTTCTCTCTTTTTCTTTGCTTT-TTTTTTTG
* * * *
13736 TTTTTTTTTTCTTTTTTTTTTTTTGCTTTTTTTTTTG
1 TTTTTCTTTTCTCTCTTTTTCTTTGCTTTTTTTTTTG
13773 AAGAGAAGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
37 8 0.25
38 24 0.75
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (37 bp):
TTTTTCTTTTCTCTCTTTTTCTTTGCTTTTTTTTTTG
Found at i:13741 original size:25 final size:25
Alignment explanation
Indices: 13713--13772 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
13703 CTTTTCTCTC
*
13713 TTTTTCTTTGTTTTGTTTTTTTG-T
1 TTTTTTTTTGTTTTGTTTTTTTGCT
* *
13737 TTTTTTTTTCTTTTTTTTTTTTTGCT
1 TTTTTTTTT-GTTTTGTTTTTTTGCT
13763 TTTTTTTTTG
1 TTTTTTTTTG
13773 AAGAGAAGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 8 0.27
25 12 0.40
26 10 0.33
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (25 bp):
TTTTTTTTTGTTTTGTTTTTTTGCT
Found at i:13769 original size:15 final size:14
Alignment explanation
Indices: 13697--13771 Score: 80
Period size: 15 Copynumber: 5.2 Consensus size: 14
13687 CTTAGGTAGG
*
13697 TTTTTTCTTTTCTCT
1 TTTTTTCTTTT-TTT
*
13712 CTTTTTCTTTGTTTT
1 TTTTTTCTTT-TTTT
* *
13727 GTTTTT-TTGTTTT
1 TTTTTTCTTTTTTT
13740 TTTTTTCTTTTTTT
1 TTTTTTCTTTTTTT
13754 TTTTTTGCTTTTTTT
1 TTTTTT-CTTTTTTT
13769 TTT
1 TTT
13772 GAAGAGAAGG
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
13 9 0.18
14 14 0.27
15 27 0.53
16 1 0.02
ACGTcount: A:0.00, C:0.09, G:0.05, T:0.85
Consensus pattern (14 bp):
TTTTTTCTTTTTTT
Found at i:18485 original size:79 final size:79
Alignment explanation
Indices: 18380--18635 Score: 320
Period size: 79 Copynumber: 3.2 Consensus size: 79
18370 GAAATAAGGG
* * * * * *
18380 CCGGGGTTGGAGCATTCTCGT-GAAAATAACAGGGTTGGAGTATCTCCGATTGTGAGAAATTGGT
1 CCGGGGTTGGAGTATCCTC-TCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGT
* *
18444 ATCTTGGAACTAAAA
65 ATCTTAGAAATAAAA
* * *
18459 TCGGAGTTGGAGTATCCTCTCGAAAATAACGGGGTTTGAGTATCCCCGATTATGAAAAATT-G-A
1 CCGGGGTTGGAGTATCCTCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTA
18522 TGCTTTAGAAATAAAA
66 T-C-TTAGAAATAAAA
* * * *
18538 CCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATG
1 CCGGGGTTGGAGTATCCTCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTA
*
18603 TTTTAGAAATAAAA
66 TCTTAGAAATAAAA
18617 CCGGGGTTGGAGTATCCTC
1 CCGGGGTTGGAGTATCCTC
18636 GATTATGAAA
Statistics
Matches: 152, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
77 2 0.01
78 3 0.02
79 146 0.96
81 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (79 bp):
CCGGGGTTGGAGTATCCTCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTA
TCTTAGAAATAAAA
Found at i:18573 original size:158 final size:160
Alignment explanation
Indices: 18334--18635 Score: 394
Period size: 158 Copynumber: 1.9 Consensus size: 160
18324 ATCGGGCTTA
** *
18334 GAGTATCCCCGATTATAAAAAAAAATTGATGCTTTAGAAATAAGGGCCGGGGTTGGAGCATTCTC
1 GAGTATCCCCGATTAT--AAAAAAATTGATGCTTTAGAAATAAGAACCGGGGTTGGAGCATTCCC
* * * * * * * * *
18399 GTGAAAATAACAGGGTTGGAGTATCTCCGATTGTGAGAAATTGGTATCTTGGAACTAAAATCGGA
64 CTAAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATTGATATCTTAGAAATAAAACCGGA
18464 GTTGGAGTATCCTCTCGAAAATAACGGGGTTT
129 GTTGGAGTATCCTCTCGAAAATAACGGGGTTT
* *
18496 GAGTATCCCCGATTAT-GAAAAATTGATGCTTTAGAAATAA-AACCGGGGTTGGAGTA-TCCCCT
1 GAGTATCCCCGATTATAAAAAAATTGATGCTTTAGAAATAAGAACCGGGGTTGGAGCATTCCCCT
* * * *
18558 CAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGG
66 -AAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATTGATATCTTAGAAATAAAACCGGAG
18623 TTGGAGTATCCTC
130 TTGGAGTATCCTC
18636 GATTATGAAA
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
157 4 0.03
158 78 0.64
159 23 0.19
162 16 0.13
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (160 bp):
GAGTATCCCCGATTATAAAAAAATTGATGCTTTAGAAATAAGAACCGGGGTTGGAGCATTCCCCT
AAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATTGATATCTTAGAAATAAAACCGGAGT
TGGAGTATCCTCTCGAAAATAACGGGGTTT
Found at i:18639 original size:51 final size:51
Alignment explanation
Indices: 18567--18686 Score: 204
Period size: 51 Copynumber: 2.4 Consensus size: 51
18557 TCAAAAATAA
*
18567 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAAC
* *
18618 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGATATTTTAGAGATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAAC
*
18669 CGGGGTTAGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
18687 TCAGAAATAA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAAC
Found at i:18643 original size:130 final size:130
Alignment explanation
Indices: 18488--18761 Score: 476
Period size: 130 Copynumber: 2.1 Consensus size: 130
18478 TCGAAAATAA
* * *
18488 CGGGGTTTGAGTATCCCCGATTATGAAAAATTGATGCTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATACTTTAGAAATAAAACCGGGGTTAGAGTAT
*
18553 CCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
66 CCCCTCAAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
* * *
18618 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGATATTTTAGAGATAAAACCGGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATACTTTAGAAATAAAACCGGGGTTAGAGTAT
*
18683 CCCCTCAGAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
66 CCCCTCAAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
18748 CGGGGTTGGAGTAT
1 CGGGGTTGGAGTAT
18762 TCCCTTGAAA
Statistics
Matches: 136, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
130 136 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (130 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATACTTTAGAAATAAAACCGGGGTTAGAGTAT
CCCCTCAAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
Found at i:18697 original size:209 final size:210
Alignment explanation
Indices: 18411--18842 Score: 638
Period size: 209 Copynumber: 2.1 Consensus size: 210
18401 GAAAATAACA
* * * * * *
18411 GGGTTGGAGTAT-CTCCGATTGTGAGAAATTGGTATCTTGGAACTAAAATCGGAGTTGGAGTATC
1 GGGTTGGAGTATCCTCCGATTATGAAAAATTGATATCTTAGAACTAAAACCGGAGTTAGAGTATC
* * *
18475 CTCTCGAAAATAACGGGGTTTGAGTATCCCCGATTATGAAAAATTGATGCTTTAGAAATAAAACC
66 CCCTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGCTTTAGAAATAAAACC
*
18540 GGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTT
131 GGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGATGTT
18605 TTAGAAATAAAACCG
196 TTAGAAATAAAACCG
* *
18620 GGGTTGGAGTATCCT-CGATTATGAAAAATTGATATTTTAGAGA-TAAAACCGGGGTTAGAGTAT
1 GGGTTGGAGTATCCTCCGATTATGAAAAATTGATATCTTAGA-ACTAAAACCGGAGTTAGAGTAT
*
18683 CCCCTC-AGAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAA
65 CCCCTCGA-AAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGCTTTAGAAATAAAA
* ** * *
18747 CCGGGGTTGGAGTATTCCCTTGAAAATAACGAGGTTGGGGTATCCTCGATTATGAAAAATTGATG
129 CCGGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGATG
*
18812 TTTTAGAAATAAAATCG
194 TTTTAGAAATAAAACCG
*
18829 GGGTTAGAGTATCC
1 GGGTTGGAGTATCC
18843 CCTCGAAAAT
Statistics
Matches: 200, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
208 1 0.00
209 196 0.98
210 3 0.01
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (210 bp):
GGGTTGGAGTATCCTCCGATTATGAAAAATTGATATCTTAGAACTAAAACCGGAGTTAGAGTATC
CCCTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGCTTTAGAAATAAAACC
GGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGATGTT
TTAGAAATAAAACCG
Found at i:18706 original size:79 final size:79
Alignment explanation
Indices: 18618--19043 Score: 642
Period size: 79 Copynumber: 5.4 Consensus size: 79
18608 GAAATAAAAC
* * * *
18618 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGATATTTTAGAGATAAAACCGGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
18683 CCCCTC-AGAAATAA
66 CCCCTCGA-AAATAA
*
18697 CGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
* *
18762 TCCCTTGAAAATAA
66 CCCCTCGAAAATAA
* * * * *
18776 CGAGGTTGGGGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
18841 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* * * *
18855 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAGAACCAGGG-TGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
18919 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* *
18933 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
18998 CCCCTC-AGAAATAA
66 CCCCTCGA-AAATAA
*
19012 CGGGGTTGGAGTATCCCCGATTGTGAAAAATT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATT
19044 TAGAAAATTA
Statistics
Matches: 312, Mismatches: 32, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
78 72 0.23
79 239 0.77
80 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:18819 original size:288 final size:290
Alignment explanation
Indices: 18280--18922 Score: 805
Period size: 288 Copynumber: 2.2 Consensus size: 290
18270 ACAAAAGGGC
* * * * * *
18280 TAGAGTATCCCCGATTATGGAAAAA-TGGTGTTCTAAAAAATAAAATCGGGCTTAGAGTATCCCC
1 TAGAGTATCCCCGATTAT-GAAAAATTGATGTT-TTAGAAATAAAACCGGGGTTGGAGTATCCCC
* ** * * * *
18344 GATTATAAAAAAAAATTGATGCTTTAGAAATAAGGGCCGGGGTTGGAGCATTCTCGTGAAAATAA
64 GATTAT--AAAAAAATTGATACTTTAGAAATAAGAACCGGGGTTAGAGCATTCCCCTCAAAATAA
* * * * * * *
18409 CAGGGTTGGAGTATCTCCGATTGTGAGAAATTGGTATCTTGGAACTAAAATCGGAGTTGGAGTAT
127 CAGGGTTGGAGTATCCCCGATTATGAAAAATTGATATCTTAGAAATAAAACCGGAGTTGGAGTAT
* *
18474 CCTCTCGAAAATAACGGGGTTTGAGTATCCCCGATTATGAAAAATTGATGCTTTAGAAATAAAAC
192 CCTCTCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGATGCTTTAGAAATAAAAC
*
18539 CGGGGTTGGAGTATCCCCTCAAAAATAACGGGGT
257 CGGGGTTAGAGTATCCCCTCAAAAATAACGGGGT
* *
18573 TGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCTCGA
1 TAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGA
* * * *
18638 TTAT-GAAAAATTGATATTTTAGAGATAA-AACCGGGGTTAGAGTA-TCCCCTCAGAAATAAC-G
66 TTATAAAAAAATTGATACTTTAGAAATAAGAACCGGGGTTAGAGCATTCCCCTCA-AAATAACAG
* * *
18699 GGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATTC
130 GG-TTGGAGTATCCCCGATTATGAAAAATTGATATCTTAGAAATAAAACCGGAGTTGGAGTA-TC
* * * * *
18764 C-CTTGAAAATAACGAGGTTGGGGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAATC
193 CTCTCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGATGCTTTAGAAATAAAACC
*
18828 GGGGTTAGAGTATCCCCTCGAAAATAACGGGGT
258 GGGGTTAGAGTATCCCCTCAAAAATAACGGGGT
* * *
18861 TAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAGAACCAGGG-TGGAGTATCCCC
1 TAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
18923 TCGAAAATAA
Statistics
Matches: 303, Mismatches: 43, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
287 19 0.06
288 201 0.66
289 23 0.08
292 37 0.12
293 23 0.08
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (290 bp):
TAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGA
TTATAAAAAAATTGATACTTTAGAAATAAGAACCGGGGTTAGAGCATTCCCCTCAAAATAACAGG
GTTGGAGTATCCCCGATTATGAAAAATTGATATCTTAGAAATAAAACCGGAGTTGGAGTATCCTC
TCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGATGCTTTAGAAATAAAACCGGG
GTTAGAGTATCCCCTCAAAAATAACGGGGT
Found at i:18983 original size:157 final size:158
Alignment explanation
Indices: 18618--19043 Score: 703
Period size: 157 Copynumber: 2.7 Consensus size: 158
18608 GAAATAAAAC
* * *
18618 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGATATTTTAGAGATAAAACCGGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTAT
*
18683 CCCCTCAGAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
66 CCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
* * *
18748 CGGGGTTGGAGTATTCCCTTGAAAATAA
131 CAGGGTTGGAGTATCCCCTCGAAAATAA
* *
18776 CGAGGTTGGGGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTAT
* * *
18841 CCCCTC-GAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAGAA
66 CCCCTCAG-AAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAA
18905 CCAGGG-TGGAGTATCCCCTCGAAAATAA
130 CCAGGGTTGGAGTATCCCCTCGAAAATAA
*
18933 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTAT
*
18998 CCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATT
66 CCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATT
19044 TAGAAAATTA
Statistics
Matches: 249, Mismatches: 17, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
157 125 0.50
158 124 0.50
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (158 bp):
CGGGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTAT
CCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
CAGGGTTGGAGTATCCCCTCGAAAATAA
Found at i:20493 original size:35 final size:35
Alignment explanation
Indices: 20447--20553 Score: 205
Period size: 35 Copynumber: 3.1 Consensus size: 35
20437 TCCTCTTTTT
20447 CCCATCATTCCATGCCTTCATTTTTATATTCCATG
1 CCCATCATTCCATGCCTTCATTTTTATATTCCATG
*
20482 CCCATCATTCCATGCCTCCATTTTTATATTCCATG
1 CCCATCATTCCATGCCTTCATTTTTATATTCCATG
20517 CCCATCATTCCATGCCTTCATTTTTATATTCCATG
1 CCCATCATTCCATGCCTTCATTTTTATATTCCATG
20552 CC
1 CC
20554 TTCATTTTTA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 70 1.00
ACGTcount: A:0.20, C:0.34, G:0.06, T:0.41
Consensus pattern (35 bp):
CCCATCATTCCATGCCTTCATTTTTATATTCCATG
Found at i:20513 original size:21 final size:21
Alignment explanation
Indices: 20488--20609 Score: 92
Period size: 21 Copynumber: 6.5 Consensus size: 21
20478 CATGCCCATC
20488 ATTCCATGCCTCCATTTTTAT
1 ATTCCATGCCTCCATTTTTAT
*
20509 ATTCCATG-C-CCA----T-C
1 ATTCCATGCCTCCATTTTTAT
*
20523 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTCCATTTTTAT
*
20544 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTCCATTTTTAT
* *
20565 ATTCCACG-C-CCA----T-C
1 ATTCCATGCCTCCATTTTTAT
*
20579 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTCCATTTTTAT
20600 ATTCCATGCC
1 ATTCCATGCC
20610 CATCATTTCA
Statistics
Matches: 78, Mismatches: 9, Indels: 28
0.68 0.08 0.24
Matches are distributed among these distances:
14 15 0.19
15 4 0.05
16 4 0.05
19 5 0.06
20 4 0.05
21 46 0.59
ACGTcount: A:0.20, C:0.31, G:0.06, T:0.43
Consensus pattern (21 bp):
ATTCCATGCCTCCATTTTTAT
Found at i:20548 original size:56 final size:56
Alignment explanation
Indices: 20488--20609 Score: 226
Period size: 56 Copynumber: 2.2 Consensus size: 56
20478 CATGCCCATC
*
20488 ATTCCATGCCTCCATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTCCATTTTTATATTCCACGCCCATCATTCCATGCCTTCATTTTTAT
*
20544 ATTCCATGCCTTCATTTTTATATTCCACGCCCATCATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTCCATTTTTATATTCCACGCCCATCATTCCATGCCTTCATTTTTAT
20600 ATTCCATGCC
1 ATTCCATGCC
20610 CATCATTTCA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.20, C:0.31, G:0.06, T:0.43
Consensus pattern (56 bp):
ATTCCATGCCTCCATTTTTATATTCCACGCCCATCATTCCATGCCTTCATTTTTAT
Found at i:20577 original size:27 final size:21
Alignment explanation
Indices: 20523--20570 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
20513 CATGCCCATC
20523 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTTCATTTTTAT
20544 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTTCATTTTTAT
20565 ATTCCA
1 ATTCCA
20571 CGCCCATCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.25, G:0.04, T:0.50
Consensus pattern (21 bp):
ATTCCATGCCTTCATTTTTAT
Found at i:20583 original size:35 final size:35
Alignment explanation
Indices: 20544--20634 Score: 164
Period size: 35 Copynumber: 2.6 Consensus size: 35
20534 TCATTTTTAT
20544 ATTCCATGCCTTCATTTTTATATTCCACGCCCATC
1 ATTCCATGCCTTCATTTTTATATTCCACGCCCATC
*
20579 ATTCCATGCCTTCATTTTTATATTCCATGCCCATC
1 ATTCCATGCCTTCATTTTTATATTCCACGCCCATC
*
20614 ATTTCATGCCTTCATTTTTAT
1 ATTCCATGCCTTCATTTTTAT
20635 TATTTTTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.20, C:0.30, G:0.05, T:0.45
Consensus pattern (35 bp):
ATTCCATGCCTTCATTTTTATATTCCACGCCCATC
Found at i:20583 original size:70 final size:70
Alignment explanation
Indices: 20447--20588 Score: 162
Period size: 70 Copynumber: 2.0 Consensus size: 70
20437 TCCTCTTTTT
* *****
20447 CCCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTCCATTTTTATATT
1 CCCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGACTCCACGCCCATATT
20512 CCATG
66 CCATG
* ** *
20517 CCCATCATTCCATGCCTTCATTTTTATATTCCATG-CCTTCATTTTTAT-ATTCCACGCCCATCA
1 CCCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCA-TTCCATGACTCCACGCCCAT-A
20580 TTCCATG
64 TTCCATG
20587 CC
1 CC
20589 TTCATTTTTA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
69 11 0.18
70 49 0.82
ACGTcount: A:0.20, C:0.34, G:0.06, T:0.41
Consensus pattern (70 bp):
CCCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGACTCCACGCCCATATT
CCATG
Found at i:20608 original size:91 final size:91
Alignment explanation
Indices: 20453--20634 Score: 337
Period size: 91 Copynumber: 2.0 Consensus size: 91
20443 TTTTCCCATC
*
20453 ATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTCCATTTTTATATTCCATGC
1 ATTCCATGCCTTCATTTTTATATTCCACGCCCATCATTCCATGCCTCCATTTTTATATTCCATGC
20518 CCATCATTCCATGCCTTCATTTTTAT
66 CCATCATTCCATGCCTTCATTTTTAT
*
20544 ATTCCATGCCTTCATTTTTATATTCCACGCCCATCATTCCATGCCTTCATTTTTATATTCCATGC
1 ATTCCATGCCTTCATTTTTATATTCCACGCCCATCATTCCATGCCTCCATTTTTATATTCCATGC
*
20609 CCATCATTTCATGCCTTCATTTTTAT
66 CCATCATTCCATGCCTTCATTTTTAT
20635 TATTTTTTTT
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 88 1.00
ACGTcount: A:0.20, C:0.30, G:0.05, T:0.45
Consensus pattern (91 bp):
ATTCCATGCCTTCATTTTTATATTCCACGCCCATCATTCCATGCCTCCATTTTTATATTCCATGC
CCATCATTCCATGCCTTCATTTTTAT
Found at i:20686 original size:7 final size:7
Alignment explanation
Indices: 20640--20687 Score: 52
Period size: 6 Copynumber: 7.6 Consensus size: 7
20630 TTTATTATTT
20640 TTTTTAA
1 TTTTTAA
20647 -TTTTAA
1 TTTTTAA
20653 -TTTTAA
1 TTTTTAA
20659 -TTTTAA
1 TTTTTAA
20665 -TTTTAA
1 TTTTTAA
20671 -TTTTAA
1 TTTTTAA
*
20677 TTTTTGA
1 TTTTTAA
20684 TTTT
1 TTTT
20688 CACTTATTAC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
6 30 0.77
7 9 0.23
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (7 bp):
TTTTTAA
Found at i:20687 original size:6 final size:6
Alignment explanation
Indices: 20641--20680 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
20631 TTATTATTTT
20641 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
20681 TGATTTTCAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTTAA
Found at i:26377 original size:3 final size:3
Alignment explanation
Indices: 26369--26404 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
26359 TCCGAGTCAC
* *
26369 CAT CAT CAT CAT CAT CAT CAT CAT CTT CAT CGT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
26405 TAATAGTTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (3 bp):
CAT
Found at i:28569 original size:24 final size:25
Alignment explanation
Indices: 28530--28592 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
28520 AATTAATCCT
* *
28530 CTCTTTTTTTTCTTCTCTTA-TTTTT
1 CTCTTTTCTTT-TTCTCTTACTTTTC
* *
28555 TTCTTTTCTTTTTCTTTTACTTTTC
1 CTCTTTTCTTTTTCTCTTACTTTTC
28580 CTCTTTCTCTTTT
1 CTCTTT-TCTTTT
28593 ATGTTAAGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 7 0.23
25 18 0.58
26 6 0.19
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (25 bp):
CTCTTTTCTTTTTCTCTTACTTTTC
Found at i:28572 original size:16 final size:15
Alignment explanation
Indices: 28533--28579 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 15
28523 TAATCCTCTC
*
28533 TTTTTTTTCTTCTCT
1 TTTTTTTTCTTTTCT
28548 TATTTTTTTCTTTTCT
1 T-TTTTTTTCTTTTCT
28564 TTTTCTTTTACTTTTC
1 TTTT-TTTT-CTTTTC
28580 CTCTTTCTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 4 0.14
16 18 0.64
17 6 0.21
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTTTTCTTTTCT
Found at i:29021 original size:23 final size:23
Alignment explanation
Indices: 28963--29014 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
28953 TCCGTACCCA
** *
28963 AAATGACTCGAGTAATTAACCTG
1 AAATGACTCGAACAATTAACATG
*
28986 AAATGACTTGAACAATTAACATG
1 AAATGACTCGAACAATTAACATG
29009 AAATGA
1 AAATGA
29015 TCCGAACTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.25
Consensus pattern (23 bp):
AAATGACTCGAACAATTAACATG
Found at i:29870 original size:32 final size:31
Alignment explanation
Indices: 29833--29935 Score: 93
Period size: 32 Copynumber: 3.3 Consensus size: 31
29823 CCCGAATCTG
*
29833 AAATGACTAAAACCTAAAACAATCTGAACCCA
1 AAATGACTAAAACCTAAAATAATCT-AACCCA
* *
29865 AAATGA-TCCAAACCTAAAATAATCCAAACCCAA
1 AAATGACT-AAAACCTAAAATAAT-CTAACCC-A
** * *
29898 AAAT-TTTAAAACCCAAAATAATCTAACTCA
1 AAATGACTAAAACCTAAAATAATCTAACCCA
29928 AAATGACT
1 AAATGACT
29936 TAACCCGAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
30 5 0.09
31 7 0.12
32 37 0.66
33 7 0.12
ACGTcount: A:0.53, C:0.23, G:0.04, T:0.19
Consensus pattern (31 bp):
AAATGACTAAAACCTAAAATAATCTAACCCA
Found at i:29878 original size:16 final size:16
Alignment explanation
Indices: 29859--29899 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
29849 AAACAATCTG
*
29859 AACCCAAAATGATCCA
1 AACCCAAAATAATCCA
*
29875 AACCTAAAATAATCCA
1 AACCCAAAATAATCCA
29891 AACCCAAAA
1 AACCCAAAA
29900 ATTTTAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.56, C:0.29, G:0.02, T:0.12
Consensus pattern (16 bp):
AACCCAAAATAATCCA
Found at i:35951 original size:5 final size:5
Alignment explanation
Indices: 35943--35980 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
35933 CAGCCAAGCC
*
35943 AAGGT AAGGA AAGGA AAGGA AAGGA AAGGA AAGGA AAG
1 AAGGA AAGGA AAGGA AAGGA AAGGA AAGGA AAGGA AAG
35981 CAGTGAAGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.58, C:0.00, G:0.39, T:0.03
Consensus pattern (5 bp):
AAGGA
Found at i:37985 original size:2 final size:2
Alignment explanation
Indices: 37978--38029 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
37968 TGAATTCTTA
37978 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
38020 CT CT CT CT CT
1 CT CT CT CT CT
38030 ATATATATAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:38034 original size:2 final size:2
Alignment explanation
Indices: 38029--38073 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
38019 TCTCTCTCTC
38029 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
38071 TA T
1 TA T
38074 GCAAATTGGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:40391 original size:3 final size:3
Alignment explanation
Indices: 40383--40427 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
40373 GCTGAAAATA
40383 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
40428 ATAGCTTAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:41577 original size:17 final size:15
Alignment explanation
Indices: 41555--41602 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 15
41545 ATCCTTATTG
41555 ATATTTATAATCTTATA
1 ATATTTAT-ATC-TATA
41572 ATATTTATATCTAT-
1 ATATTTATATCTATA
41586 A-ATTTATATCTATA
1 ATATTTATATCTATA
41600 ATA
1 ATA
41603 ATACATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 12 0.41
14 2 0.07
15 4 0.14
16 3 0.10
17 8 0.28
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATTTATATCTATA
Found at i:41581 original size:23 final size:22
Alignment explanation
Indices: 41550--41593 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
41540 TTTGAATCCT
*
41550 TATTGATATTTATAATCTTATAA
1 TATTGATATCTATAAT-TTATAA
*
41573 TATTTATATCTATAATTTATA
1 TATTGATATCTATAATTTATA
41594 TCTATAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (22 bp):
TATTGATATCTATAATTTATAA
Found at i:41697 original size:19 final size:19
Alignment explanation
Indices: 41675--41713 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
41665 GTGAATTTTT
41675 TATTTTCTCTTAT-TTTATG
1 TATTTT-TCTTATATTTATG
*
41694 TATTTTTGTTATATTTATG
1 TATTTTTCTTATATTTATG
41713 T
1 T
41714 TATATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.18, C:0.05, G:0.08, T:0.69
Consensus pattern (19 bp):
TATTTTTCTTATATTTATG
Found at i:43053 original size:158 final size:163
Alignment explanation
Indices: 42843--43169 Score: 459
Period size: 165 Copynumber: 2.0 Consensus size: 163
42833 ATGGTATTTA
*
42843 AAATGAGCATTTCATATTAAACAAAAAAATATAACCCAAAACCATTTCAAACTAAGCCTTTTTAT
1 AAATGAGCATTTCATATTAAACAAAAAAATATAACCCAAAACCAGTTCAAACTAAGCCTTTTTAT
* * *
42908 TTTTGACATATTAAACATA-TTT-T-A-ACATATTGAACAAGCATGTCATAAAAAAATTAATAAT
66 TTTTGACATATTAAACATATTTTATAATACATATTAAACAAGCATGCCATAAAAAAATTAATAAA
*
42969 ATTAAAAATCTCAAACAACATCAAGAGACATCT
131 ATCAAAAATCTCAAACAACATCAAGAGACATCT
* *
43002 AAATGAGCATTTCATATTAAAC-AAAAAATATAACCTAAAACCACGTT-AAACTAAGTCTTTTTA
1 AAATGAGCATTTCATATTAAACAAAAAAATATAACCCAAAACCA-GTTCAAACTAAGCCTTTTTA
43065 TTTTTGACATATTAAACATATTTTGATAAATTACATATTAAACAAGCATGCCATAAAAAAATTAA
65 TTTTTGACATATTAAACATATTTT-AT-AA-TACATATTAAACAAGCATGCCATAAAAAAATTAA
** * * * *
43130 TAAAATCATGAATGTCAAACAACATTAAGAGGCATTT
127 TAAAATCAAAAATCTCAAACAACATCAAGAGACATCT
43167 AAA
1 AAA
43170 CGAGTATTGG
Statistics
Matches: 147, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
158 55 0.37
159 27 0.18
161 1 0.01
163 1 0.01
165 63 0.43
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (163 bp):
AAATGAGCATTTCATATTAAACAAAAAAATATAACCCAAAACCAGTTCAAACTAAGCCTTTTTAT
TTTTGACATATTAAACATATTTTATAATACATATTAAACAAGCATGCCATAAAAAAATTAATAAA
ATCAAAAATCTCAAACAACATCAAGAGACATCT
Found at i:43526 original size:74 final size:74
Alignment explanation
Indices: 43389--43549 Score: 200
Period size: 74 Copynumber: 2.2 Consensus size: 74
43379 CTACTATGCC
* * * *
43389 TAAAAGTTTAAACTTGTATAATCAAACCAAAAAATAAAATCCTAAATTTTTATAAATAAAAATAA
1 TAAAAATTTAAACTTATATAAGCAAACCAAAAAATAAAATCCTAAATTTCTATAAATAAAAATAA
43454 ATTACACTA
66 ATTACACTA
* * * *
43463 TCAAAAATTTAAACTTATATAAGCAAACCTAAGAAAT-ACAT-TTAAATTTCTATAAATCAAAAT
1 T-AAAAATTTAAACTTATATAAGCAAACC-AAAAAATAAAATCCTAAATTTCTATAAATAAAAAT
* *
43526 AAATTATATTA
64 AAATTACACTA
43537 TAAAAATTTAAAC
1 TAAAAATTTAAAC
43550 CCACATAATA
Statistics
Matches: 75, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
73 12 0.16
74 30 0.40
75 27 0.36
76 6 0.08
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (74 bp):
TAAAAATTTAAACTTATATAAGCAAACCAAAAAATAAAATCCTAAATTTCTATAAATAAAAATAA
ATTACACTA
Found at i:43987 original size:23 final size:22
Alignment explanation
Indices: 43945--43987 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
43935 TGATCTTTAC
**
43945 TTTTTATTTTTTAATTAATTTT
1 TTTTTATTTTTTAAAAAATTTT
43967 TTTTTATTTTATTAAAAAATT
1 TTTTTATTTT-TTAAAAAATT
43988 AATAATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTTATTTTTTAAAAAATTTT
Found at i:44084 original size:76 final size:72
Alignment explanation
Indices: 43954--44120 Score: 194
Period size: 71 Copynumber: 2.3 Consensus size: 72
43944 CTTTTTATTT
* ** *
43954 TTTAATT-AATTTTTTTTTATTTTATTAAAAAATTAATAATTAATATTTTAATTTTTAATATAGT
1 TTTAATTAAATTTTATTTTATTTTATT-AAAAATTAATAATTAATACATTAA-TTTTAACATA--
*
44018 TTTTTTTTTCAAA
62 ATTTTTTTT--AA
* * *
44031 TTTAATTAAAATTTATTTTATTTTATT-ACAATTAATAATTAATACATTGATTTTAACATAATTT
1 TTTAATTAAATTTTATTTTATTTTATTAAAAATTAATAATTAATACATTAATTTTAACATAATTT
44095 TTTTTAA
66 TTTTTAA
44102 TTTAATTAAATTTTATTTT
1 TTTAATTAAATTTTATTTT
44121 TTAATTTTCT
Statistics
Matches: 80, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
71 20 0.25
73 8 0.10
75 9 0.11
76 19 0.24
77 7 0.09
78 17 0.21
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.59
Consensus pattern (72 bp):
TTTAATTAAATTTTATTTTATTTTATTAAAAATTAATAATTAATACATTAATTTTAACATAATTT
TTTTTAA
Found at i:44375 original size:3 final size:3
Alignment explanation
Indices: 44291--44355 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
44281 AATTAAAACA
*
44291 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT CTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
44339 ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
44356 AACAAAAAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:44772 original size:13 final size:13
Alignment explanation
Indices: 44754--44778 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44744 ATTTTGCTAA
44754 GTATCGATACATT
1 GTATCGATACATT
44767 GTATCGATACAT
1 GTATCGATACAT
44779 AGCATTGGCA
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):
GTATCGATACATT
Found at i:44841 original size:22 final size:22
Alignment explanation
Indices: 44816--44888 Score: 105
Period size: 22 Copynumber: 3.4 Consensus size: 22
44806 TTCACTGTTT
44816 ATCACTGTTCATGTATCGATAC
1 ATCACTGTTCATGTATCGATAC
* * *
44838 ATCACTGTTCAT-CA-CTATTC
1 ATCACTGTTCATGTATCGATAC
44858 ATCACTGTTCATGTATCGATAC
1 ATCACTGTTCATGTATCGATAC
44880 ATCACTGTT
1 ATCACTGTT
44889 TATCACTGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
20 16 0.37
21 2 0.05
22 25 0.58
ACGTcount: A:0.26, C:0.25, G:0.11, T:0.38
Consensus pattern (22 bp):
ATCACTGTTCATGTATCGATAC
Found at i:44852 original size:10 final size:10
Alignment explanation
Indices: 44837--44869 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
44827 TGTATCGATA
44837 CATCACTGTT
1 CATCACTGTT
*
44847 CATCACTATT
1 CATCACTGTT
44857 CATCACTGTT
1 CATCACTGTT
44867 CAT
1 CAT
44870 GTATCGATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.24, C:0.30, G:0.06, T:0.39
Consensus pattern (10 bp):
CATCACTGTT
Found at i:44866 original size:42 final size:42
Alignment explanation
Indices: 44807--44895 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
44797 ATCTCATTTT
* *
44807 TCACTGTTTATCACTGTTCATGTATCGATACATCACTGTTCA
1 TCACTATTCATCACTGTTCATGTATCGATACATCACTGTTCA
*
44849 TCACTATTCATCACTGTTCATGTATCGATACATCACTGTTTA
1 TCACTATTCATCACTGTTCATGTATCGATACATCACTGTTCA
44891 TCACT
1 TCACT
44896 GTATATTGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.40
Consensus pattern (42 bp):
TCACTATTCATCACTGTTCATGTATCGATACATCACTGTTCA
Found at i:44976 original size:22 final size:22
Alignment explanation
Indices: 44948--44990 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
44938 ATTCATCACA
44948 GTATCGATACATCACTGTTCAT
1 GTATCGATACATCACTGTTCAT
44970 GTATCGATACATCACTGTTCA
1 GTATCGATACATCACTGTTCA
44991 CACTATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (22 bp):
GTATCGATACATCACTGTTCAT
Found at i:45494 original size:34 final size:35
Alignment explanation
Indices: 45431--45497 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
45421 CTAAGTGATT
45431 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
45467 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
45498 TGTTGTAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:46043 original size:26 final size:26
Alignment explanation
Indices: 45966--46052 Score: 71
Period size: 26 Copynumber: 3.5 Consensus size: 26
45956 TTTCTTTACT
45966 TTTTAATTATTATGTATATATTTTTA
1 TTTTAATTATTATGTATATATTTTTA
*
45992 TTTCTACA--ATT-T-T-T-TATTTACT-
1 TTT-TA-ATTATTATGTATATATTT-TTA
46014 TTTTAATTATTATGTATATATTTTTA
1 TTTTAATTATTATGTATATATTTTTA
* *
46040 TTTTTATAATTAT
1 TTTTAATTATTAT
46053 TTAATCAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 20
0.66 0.06 0.28
Matches are distributed among these distances:
20 1 0.02
21 2 0.04
22 11 0.23
23 3 0.06
24 2 0.04
25 3 0.06
26 22 0.47
27 2 0.04
28 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (26 bp):
TTTTAATTATTATGTATATATTTTTA
Found at i:46469 original size:16 final size:16
Alignment explanation
Indices: 46443--46605 Score: 96
Period size: 16 Copynumber: 10.2 Consensus size: 16
46433 TTCAGGTTAT
*
46443 TTTTGAGTTCGAGTCA
1 TTTTGGGTTCGAGTCA
* * *
46459 TTTTAGATTCGGGTCA
1 TTTTGGGTTCGAGTCA
46475 TTTTGGGTTC-AGGTCA
1 TTTTGGGTTCGA-GTCA
*
46491 TTTTGGGTTCGGGTCA
1 TTTTGGGTTCGAGTCA
*
46507 TTTCGGGTTC-AGGTCA
1 TTTTGGGTTCGA-GTCA
* * * *
46523 CTTTAGATTCGGGTCA
1 TTTTGGGTTCGAGTCA
* * **
46539 TTTCGAGTTCGAGTTG
1 TTTTGGGTTCGAGTCA
* * *
46555 TTTCGGGTTTGGGTCA
1 TTTTGGGTTCGAGTCA
** *
46571 TTTCAGGTTCGGGTCA
1 TTTTGGGTTCGAGTCA
* *
46587 CTTTGGATTCGAGTCA
1 TTTTGGGTTCGAGTCA
46603 TTT
1 TTT
46606 CGAGTTCGGG
Statistics
Matches: 107, Mismatches: 36, Indels: 8
0.71 0.24 0.05
Matches are distributed among these distances:
16 107 1.00
ACGTcount: A:0.13, C:0.15, G:0.29, T:0.42
Consensus pattern (16 bp):
TTTTGGGTTCGAGTCA
Found at i:46532 original size:64 final size:64
Alignment explanation
Indices: 46455--46644 Score: 211
Period size: 64 Copynumber: 3.0 Consensus size: 64
46445 TTGAGTTCGA
* * * * *
46455 GTCATTTTAGATTCGGGTCATTTTGGGTTC-AGGTCATTTTGGGTTCGGGTCATTTCGGGTTCAG
1 GTCACTTTAGATTCGGGTCATTTCGAGTTCGA-GTCATTTCGGGTTCGGGTCATTTCAGGTTCAG
** * *
46519 GTCACTTTAGATTCGGGTCATTTCGAGTTCGAGTTGTTTCGGGTTTGGGTCATTTCAGGTTCGG
1 GTCACTTTAGATTCGGGTCATTTCGAGTTCGAGTCATTTCGGGTTCGGGTCATTTCAGGTTCAG
* * * ** * **
46583 GTCACTTTGGATTCGAGTCATTTCGAGTTCGGGTTGTTTCAGGTTTAGGTCATTTCAGGTTC
1 GTCACTTTAGATTCGGGTCATTTCGAGTTCGAGTCATTTCGGGTTCGGGTCATTTCAGGTTC
46645 GAGTCAATCG
Statistics
Matches: 111, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
64 110 0.99
65 1 0.01
ACGTcount: A:0.13, C:0.15, G:0.30, T:0.42
Consensus pattern (64 bp):
GTCACTTTAGATTCGGGTCATTTCGAGTTCGAGTCATTTCGGGTTCGGGTCATTTCAGGTTCAG
Found at i:46613 original size:32 final size:32
Alignment explanation
Indices: 46447--46616 Score: 155
Period size: 32 Copynumber: 5.3 Consensus size: 32
46437 GGTTATTTTT
* * * *
46447 GAGTTCGAGTCATTTTAGATTCGGGTCATTTT
1 GAGTTCGGGTCACTTTGGATTCGGGTCATTTC
* * * *
46479 GGGTTCAGGTCATTTTGGGTTCGGGTCATTTC
1 GAGTTCGGGTCACTTTGGATTCGGGTCATTTC
* * *
46511 GGGTTCAGGTCACTTTAGATTCGGGTCATTTC
1 GAGTTCGGGTCACTTTGGATTCGGGTCATTTC
* ** * *
46543 GAGTTCGAGT-TGTTTCGGGTTTGGGTCATTTC
1 GAGTTCGGGTCACTTT-GGATTCGGGTCATTTC
*
46575 -AGGTTCGGGTCACTTTGGATTCGAGTCATTTC
1 GA-GTTCGGGTCACTTTGGATTCGGGTCATTTC
46607 GAGTTCGGGT
1 GAGTTCGGGT
46617 TGTTTCAGGT
Statistics
Matches: 111, Mismatches: 23, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
31 4 0.04
32 103 0.93
33 4 0.04
ACGTcount: A:0.14, C:0.15, G:0.31, T:0.40
Consensus pattern (32 bp):
GAGTTCGGGTCACTTTGGATTCGGGTCATTTC
Found at i:46645 original size:32 final size:31
Alignment explanation
Indices: 46534--46638 Score: 97
Period size: 32 Copynumber: 3.3 Consensus size: 31
46524 TTTAGATTCG
* *
46534 GGTCATTTCGAGTTCGAGTTGTTTCGGGTTTG
1 GGTCATTTCGAGTTCGGGTTGTTTC-GGTTTA
** * *
46566 GGTCATTTC-AGGTTCGGGTCACTTT-GGATTC
1 GGTCATTTCGA-GTTCGGGT-TGTTTCGGTTTA
46597 GAGTCATTTCGAGTTCGGGTTGTTTCAGGTTTA
1 G-GTCATTTCGAGTTCGGGTTGTTTC-GGTTTA
46630 GGTCATTTC
1 GGTCATTTC
46639 AGGTTCGAGT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
31 9 0.16
32 40 0.69
33 9 0.16
ACGTcount: A:0.12, C:0.15, G:0.30, T:0.42
Consensus pattern (31 bp):
GGTCATTTCGAGTTCGGGTTGTTTCGGTTTA
Found at i:46645 original size:64 final size:64
Alignment explanation
Indices: 46502--46650 Score: 226
Period size: 64 Copynumber: 2.3 Consensus size: 64
46492 TTTGGGTTCG
* * * * *
46502 GGTCATTTCGGGTTCAGGTCACTTTAGATTCGGGTCATTTCGAGTTCGAGTTGTTTCGGGTTTG
1 GGTCATTTCAGGTTCGGGTCACTTTAGATTCGAGTCATTTCGAGTTCGAGTTGTTTCAGGTTTA
* *
46566 GGTCATTTCAGGTTCGGGTCACTTTGGATTCGAGTCATTTCGAGTTCGGGTTGTTTCAGGTTTA
1 GGTCATTTCAGGTTCGGGTCACTTTAGATTCGAGTCATTTCGAGTTCGAGTTGTTTCAGGTTTA
*
46630 GGTCATTTCAGGTTCGAGTCA
1 GGTCATTTCAGGTTCGGGTCA
46651 ATCGAGTTTA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 77 1.00
ACGTcount: A:0.14, C:0.16, G:0.30, T:0.40
Consensus pattern (64 bp):
GGTCATTTCAGGTTCGGGTCACTTTAGATTCGAGTCATTTCGAGTTCGAGTTGTTTCAGGTTTA
Found at i:46650 original size:16 final size:16
Alignment explanation
Indices: 46449--46650 Score: 87
Period size: 16 Copynumber: 12.6 Consensus size: 16
46439 TTATTTTTGA
*
46449 GTTCGAGTCATTTTAG
1 GTTCGAGTCATTTCAG
* * **
46465 ATTCGGGTCATTTTGG
1 GTTCGAGTCATTTCAG
**
46481 GTTC-AGGTCATTTTGG
1 GTTCGA-GTCATTTCAG
* *
46497 GTTCGGGTCATTTCGG
1 GTTCGAGTCATTTCAG
46513 GTTC-AGGTCACTTT-AG
1 GTTCGA-GTCA-TTTCAG
* *
46529 ATTCGGGTCATTTC-G
1 GTTCGAGTCATTTCAG
** *
46544 AGTTCGAGTTGTTTCGG
1 -GTTCGAGTCATTTCAG
* *
46561 GTTTGGGTCATTTCAG
1 GTTCGAGTCATTTCAG
*
46577 GTTCGGGTCACTTT--G
1 GTTCGAGTCA-TTTCAG
46592 GATTCGAGTCATTTC-G
1 G-TTCGAGTCATTTCAG
* **
46608 AGTTCGGGTTGTTTCAG
1 -GTTCGAGTCATTTCAG
*
46625 GTT-TAGGTCATTTCAG
1 GTTCGA-GTCATTTCAG
46641 GTTCGAGTCA
1 GTTCGAGTCA
46651 ATCGAGTTTA
Statistics
Matches: 141, Mismatches: 30, Indels: 30
0.70 0.15 0.15
Matches are distributed among these distances:
15 9 0.06
16 122 0.87
17 10 0.07
ACGTcount: A:0.14, C:0.15, G:0.30, T:0.41
Consensus pattern (16 bp):
GTTCGAGTCATTTCAG
Found at i:46685 original size:15 final size:16
Alignment explanation
Indices: 46665--46706 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
46655 AGTTTAACAC
46665 TCGGGTTAATC-AGAT
1 TCGGGTTAATCTAGAT
* * *
46680 TCGGGTCATTCTGGAT
1 TCGGGTTAATCTAGAT
46696 TCGGGTTAATC
1 TCGGGTTAATC
46707 CGGTTTAACA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.19, C:0.17, G:0.29, T:0.36
Consensus pattern (16 bp):
TCGGGTTAATCTAGAT
Found at i:47719 original size:15 final size:15
Alignment explanation
Indices: 47699--47728 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
47689 GGGTTAATTA
47699 TTCGGGTCATTTTGG
1 TTCGGGTCATTTTGG
47714 TTCGGGTCATTTTGG
1 TTCGGGTCATTTTGG
47729 GTTAATTATT
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:0.07, C:0.13, G:0.33, T:0.47
Consensus pattern (15 bp):
TTCGGGTCATTTTGG
Found at i:47749 original size:38 final size:38
Alignment explanation
Indices: 47675--47765 Score: 110
Period size: 38 Copynumber: 2.4 Consensus size: 38
47665 TTTAATTTAA
**
47675 GTTCGGATCATTTCGGGTTAATTATTCGGGTCATTTTG
1 GTTCGGATCATTTCGGGTTAATTATTCAAGTCATTTTG
* * *
47713 GTTCGGGTCATTTTGGGTTAATTATTCAAGTTATTTTG
1 GTTCGGATCATTTCGGGTTAATTATTCAAGTCATTTTG
* *
47751 AATTCAGATCATTTC
1 -GTTCGGATCATTTC
47766 AGATTCGAGT
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
38 33 0.77
39 10 0.23
ACGTcount: A:0.20, C:0.12, G:0.22, T:0.46
Consensus pattern (38 bp):
GTTCGGATCATTTCGGGTTAATTATTCAAGTCATTTTG
Found at i:47771 original size:16 final size:16
Alignment explanation
Indices: 47752--47851 Score: 71
Period size: 16 Copynumber: 6.2 Consensus size: 16
47742 GTTATTTTGA
*
47752 ATTCAGATCATTTCAG
1 ATTCGGATCATTTCAG
**
47768 ATTC-GAGTCATTTTGG
1 ATTCGGA-TCATTTCAG
*
47784 GTTCGGATCA-TTCTAG
1 ATTCGGATCATTTC-AG
* *
47800 ATTTGGATCATTTCGG
1 ATTCGGATCATTTCAG
* * *
47816 ATTTGAATCATTTCAA
1 ATTCGGATCATTTCAG
47832 ATTCGGATCAATTT-AG
1 ATTCGGATC-ATTTCAG
47848 ATTC
1 ATTC
47852 AGATTATTAA
Statistics
Matches: 65, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
15 4 0.06
16 52 0.80
17 9 0.14
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (16 bp):
ATTCGGATCATTTCAG
Found at i:60062 original size:5 final size:5
Alignment explanation
Indices: 60052--60080 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
60042 TATTGTTCGG
60052 GGATT GGATT GGATT GGATT GGATT GGAT
1 GGATT GGATT GGATT GGATT GGATT GGAT
60081 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (5 bp):
GGATT
Found at i:61166 original size:18 final size:18
Alignment explanation
Indices: 61138--61179 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
61128 TACTTTAAAT
*
61138 ATATGAAAAAAATAATATA
1 ATATAAAAAAAATAAT-TA
61157 ATATAAAAAAAATAATTA
1 ATATAAAAAAAATAATTA
61175 ATATA
1 ATATA
61180 TAGCATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (18 bp):
ATATAAAAAAAATAATTA
Found at i:61345 original size:18 final size:18
Alignment explanation
Indices: 61322--61356 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
61312 AGTGCACAAA
61322 TTTTTC-TCTTTCTTTTCG
1 TTTTTCTTCTTT-TTTTCG
61340 TTTTTCTTCTTTTTTTC
1 TTTTTCTTCTTTTTTTC
61357 TTTCCTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTTTCTTCTTTTTTTCG
Found at i:62125 original size:2 final size:2
Alignment explanation
Indices: 62118--62153 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
62108 CTTACCGATC
62118 AT AT 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 AT AT
62154 TCTACTTACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62302 original size:21 final size:21
Alignment explanation
Indices: 62273--62344 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 21
62263 AAATATAAAT
* *
62273 TTTAAATTTTGTTTAAATTTA
1 TTTATATTTTGTTTAAATTAA
62294 TTTATA-TTTG--TAAATAGATAA
1 TTTATATTTTGTTTAAAT---TAA
*
62315 TTTA-AATTTGTTTAAATTAA
1 TTTATATTTTGTTTAAATTAA
62335 TTTATATTTT
1 TTTATATTTT
62345 ATTCTTTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
18 5 0.12
20 12 0.29
21 19 0.46
23 5 0.12
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (21 bp):
TTTATATTTTGTTTAAATTAA
Found at i:62581 original size:13 final size:13
Alignment explanation
Indices: 62565--62597 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
62555 TTTTTAAATA
62565 AAATTT-TTTATTT
1 AAATTTATTT-TTT
62578 AAATTTATTTTTT
1 AAATTTATTTTTT
62591 AAATTTA
1 AAATTTA
62598 ATATTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 16 0.84
14 3 0.16
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
AAATTTATTTTTT
Found at i:62590 original size:31 final size:32
Alignment explanation
Indices: 62548--62612 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 32
62538 ATTAAAGTAT
62548 AATTTAGTTTTTAAATAAAAT-TTTTTATTTA
1 AATTTAGTTTTTAAATAAAATATTTTTATTTA
* **
62579 AATTTATTTTTTAAATTTAATATTTTTATTTA
1 AATTTAGTTTTTAAATAAAATATTTTTATTTA
62611 AA
1 AA
62613 ATTTTTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 18 0.60
32 12 0.40
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (32 bp):
AATTTAGTTTTTAAATAAAATATTTTTATTTA
Found at i:62596 original size:19 final size:19
Alignment explanation
Indices: 62574--62612 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
62564 AAAATTTTTT
*
62574 ATTTAA-ATTTATTTTTTAA
1 ATTTAATATTT-TTATTTAA
62593 ATTTAATATTTTTATTTAA
1 ATTTAATATTTTTATTTAA
62612 A
1 A
62613 ATTTTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTAATATTTTTATTTAA
Found at i:66470 original size:21 final size:21
Alignment explanation
Indices: 66446--66503 Score: 57
Period size: 23 Copynumber: 2.7 Consensus size: 21
66436 ATTTAATTTA
66446 ATTTAATTTATATAATATATTATT
1 ATTT-ATTTATATAATATA--ATT
* *
66470 TTTTATTTATATTATATAATT
1 ATTTATTTATATAATATAATT
66491 -TTTA-TTATATAAT
1 ATTTATTTATATAAT
66504 GAATAAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 8 0.26
20 4 0.13
21 3 0.10
23 13 0.42
24 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTATTTATATAATATAATT
Found at i:66474 original size:19 final size:20
Alignment explanation
Indices: 66452--66503 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
66442 TTTAATTTAA
*
66452 TTTATATAATATATTATTTT
1 TTTATATAATATATAATTTT
* *
66472 TTATTTATATTATATAATTTT
1 TT-TATATAATATATAATTTT
66493 TATTATATAAT
1 T-TTATATAAT
66504 GAATAAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 2 0.08
21 22 0.88
22 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTATATAATATATAATTTT
Found at i:66481 original size:23 final size:22
Alignment explanation
Indices: 66451--66503 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 22
66441 ATTTAATTTA
*
66451 ATTTATATAATATATTATTTTTT
1 ATTTATATAATATA-TAATTTTT
66474 ATTTATAT--TATATAATTTTT
1 ATTTATATAATATATAATTTTT
66494 A-TTATATAAT
1 ATTTATATAAT
66504 GAATAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 6 0.22
20 8 0.30
21 5 0.19
23 8 0.30
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTTATATAATATATAATTTTT
Found at i:66496 original size:14 final size:14
Alignment explanation
Indices: 66444--66503 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
66434 TAATTTAATT
66444 TAATTTA-ATTTATA
1 TAATTTATA-TTATA
* *
66458 TAATATATTATT-TT
1 TAATTTA-TATTATA
*
66472 TTATTTATATTATA
1 TAATTTATATTATA
*
66486 TAATTTTTATTATA
1 TAATTTATATTATA
66500 TAAT
1 TAAT
66504 GAATAAATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
13 4 0.11
14 29 0.81
15 2 0.06
16 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TAATTTATATTATA
Found at i:66646 original size:9 final size:10
Alignment explanation
Indices: 66591--66645 Score: 56
Period size: 10 Copynumber: 5.1 Consensus size: 10
66581 GTAAATTATT
*
66591 AAATTATTAA
1 AAATAATTAA
66601 AAATTAAATTTAA
1 AAA-T-AA-TTAA
*
66614 AAAAAATTAA
1 AAATAATTAA
66624 AAATAATTAA
1 AAATAATTAA
66634 AAATAATATAA
1 AAATAAT-TAA
66645 A
1 A
66646 TGAACCTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
10 23 0.61
11 7 0.18
12 1 0.03
13 7 0.18
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
AAATAATTAA
Found at i:67179 original size:15 final size:15
Alignment explanation
Indices: 67145--67183 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
67135 AATTAGGTAT
* *
67145 TATTTTTTTTTAATA
1 TATTTATTTTGAATA
67160 T-TTTATTTTGAATA
1 TATTTATTTTGAATA
67174 TATTTATTTT
1 TATTTATTTT
67184 ATTTTAGAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (15 bp):
TATTTATTTTGAATA
Found at i:67872 original size:31 final size:29
Alignment explanation
Indices: 67837--67916 Score: 88
Period size: 31 Copynumber: 2.7 Consensus size: 29
67827 TATTTTATGA
*
67837 ATTTTTAATATAAATATAATTTTGAAATTTT
1 ATTTTTAATATAAATATAATTTT-AAA-GTT
* * **
67868 ATTTTTCATATGAATATAATTTTTTAGTT
1 ATTTTTAATATAAATATAATTTTAAAGTT
67897 ATTATTTAATATAAATATAA
1 ATT-TTTAATATAAATATAA
67917 ATATAATTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 5 0.12
30 15 0.37
31 21 0.51
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (29 bp):
ATTTTTAATATAAATATAATTTTAAAGTT
Found at i:67946 original size:28 final size:28
Alignment explanation
Indices: 67914--67996 Score: 88
Period size: 23 Copynumber: 3.1 Consensus size: 28
67904 AATATAAATA
67914 TAAATATAATTTAATTAATTAATTATTT
1 TAAATATAATTTAATTAATTAATTATTT
67942 TAAATATAATTTAA-TAA--AA-TA-TT
1 TAAATATAATTTAATTAATTAATTATTT
*
67965 TAATTATAATTTAATGTAACTT-ATATATTT
1 TAAATATAATTTAAT-TAA-TTAAT-TATTT
67995 TA
1 TA
67997 TTATTTAACA
Statistics
Matches: 46, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
23 15 0.33
24 2 0.04
25 5 0.11
27 4 0.09
28 14 0.30
29 2 0.04
30 4 0.09
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (28 bp):
TAAATATAATTTAATTAATTAATTATTT
Found at i:67976 original size:23 final size:23
Alignment explanation
Indices: 67900--67979 Score: 83
Period size: 23 Copynumber: 3.3 Consensus size: 23
67890 TTTAGTTATT
67900 ATTTAATATAAATA--TAAATATA
1 ATTTAATA-AAATATTTAAATATA
67922 ATTTAATTAATTAATTATTTTAAATATA
1 ATTTAA-TAA--AA-TA-TTTAAATATA
*
67950 ATTTAATAAAATATTTAATTATA
1 ATTTAATAAAATATTTAAATATA
67973 ATTTAAT
1 ATTTAAT
67980 GTAACTTATA
Statistics
Matches: 50, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
22 7 0.14
23 18 0.36
24 4 0.08
25 4 0.08
27 3 0.06
28 14 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTTAATAAAATATTTAAATATA
Found at i:71455 original size:155 final size:155
Alignment explanation
Indices: 71296--71676 Score: 373
Period size: 154 Copynumber: 2.5 Consensus size: 155
71286 AAAGTGCCTT
*
71296 AGTAACCTTAAAGGACATAAAAATGATAAGTAAAAGGATGAACCTATCATAAATGATACCTTTGG
1 AGTAACCTTAAAGGACATAAAAATGATAAGTAAAAGGACGAACCTATCATAAATGATACCTTTGG
* * * * *
71361 CATAAAA-CAACCTAGTGATTA-ATGGGGCCTAATTTTTAGAAAAAATTATCAAAATGCCTTTAA
66 CATAAAAGCAACCTAGTGATTACAT-AGGACTAATTTTAAG-AAAAATTATCAAAATACCCTTAA
71424 GGTATACTTTCGACGTAAAACTATCCA
129 GGTATACTTTCGACGTAAAACTATCCA
* * * * * * *
71451 AGTAACCCTAAAGAACATGAAAATGAT-A-TAAAAGGACAAACTTATTCCAAAAAT-ATGCCTTT
1 AGTAACCTTAAAGGACATAAAAATGATAAGTAAAAGGACGAACCTA-T-CATAAATGATACCTTT
* * * ** * *
71513 GGCATAAAAGCAACTTGGTGATTACCTAGGACTCGTTTTAAGAAAAATTATTAAAATACCCTTAG
64 GGCATAAAAGCAACCTAGTGATTACATAGGACTAATTTTAAGAAAAATTATCAAAATACCCTTAA
* * * * * *
71578 GGTTTACTTTCGATGTGAAAGTATTCT
129 GGTATACTTTCGACGTAAAACTATCCA
* * * *
71605 CGTAACCTTAAA-GAGCATAAAAATGATAAGT--AAGGACGAACCTATCCTAAAAGCATACTTTT
1 AGTAACCTTAAAGGA-CATAAAAATGATAAGTAAAAGGACGAACCTATCATAAATG-ATAC-CTT
71667 TGGCATAAAA
63 TGGCATAAAA
71677 ATGACCCAAT
Statistics
Matches: 179, Mismatches: 37, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
152 4 0.02
153 15 0.08
154 93 0.52
155 65 0.36
156 2 0.01
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (155 bp):
AGTAACCTTAAAGGACATAAAAATGATAAGTAAAAGGACGAACCTATCATAAATGATACCTTTGG
CATAAAAGCAACCTAGTGATTACATAGGACTAATTTTAAGAAAAATTATCAAAATACCCTTAAGG
TATACTTTCGACGTAAAACTATCCA
Found at i:71640 original size:154 final size:153
Alignment explanation
Indices: 71248--71676 Score: 370
Period size: 154 Copynumber: 2.8 Consensus size: 153
71238 GATTCTAGAG
* * * *
71248 AAATTACTAAAACACCCTTAGGGTATACCTTT-GATATGAAAGT-GCCTTAGTAACCTTAAAG-G
1 AAATTATTAAAATACCCTTAGGGTATA-CTTTCGATGTGAAAGTATCC-TAGTAACCTTAAAGAG
** *
71310 ACATAAAAATGATAAGTAAAAGGATGAACCTATCATAAATGATACCTTTGGCATAAAACAACCTA
64 -CATAAAAATGATAAGT--AAGGACAAACCTATCAAAAATGATACCTTTGGCATAAAACAACCTA
* * *
71375 GTGATTAATGGGGCCTAATTTTTAGAAA
126 GTGATTAATGAGGACTAATTTTAAGAAA
* * * * * * * * * *
71403 AAATTATCAAAATGCCTTTAAGGTATACTTTCGACGTAAAACTATCCAAGTAACCCTAAAGAACA
1 AAATTATTAAAATACCCTTAGGGTATACTTTCGATGTGAAAGTATCCTAGTAACCTTAAAGAGCA
* * * * * *
71468 TGAAAATGATATA-AAAGGACAAACTTATTCCAAAAAT-ATGCCTTTGGCATAAAAGCAACTTGG
66 TAAAAATGATA-AGTAAGGACAAACCTA-T-CAAAAATGATACCTTTGGCATAAAA-CAACCTAG
* **
71531 TGATTACCT-AGGACTCGTTTTAAG-AA
127 TGATTA-ATGAGGACTAATTTTAAGAAA
* * *
71557 AAATTATTAAAATACCCTTAGGGTTTACTTTCGATGTGAAAGTATTCTCGTAACCTTAAAGAGCA
1 AAATTATTAAAATACCCTTAGGGTATACTTTCGATGTGAAAGTATCCTAGTAACCTTAAAGAGCA
* * *
71622 TAAAAATGATAAGTAAGGACGAACCTATCCTAAAA-GCATACTTTTTGGCATAAAA
66 TAAAAATGATAAGTAAGGACAAACCTAT-CAAAAATG-ATAC-CTTTGGCATAAAA
71677 ATGACCCAAT
Statistics
Matches: 213, Mismatches: 49, Indels: 24
0.74 0.17 0.08
Matches are distributed among these distances:
153 18 0.08
154 99 0.46
155 92 0.43
156 4 0.02
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (153 bp):
AAATTATTAAAATACCCTTAGGGTATACTTTCGATGTGAAAGTATCCTAGTAACCTTAAAGAGCA
TAAAAATGATAAGTAAGGACAAACCTATCAAAAATGATACCTTTGGCATAAAACAACCTAGTGAT
TAATGAGGACTAATTTTAAGAAA
Found at i:73438 original size:6 final size:6
Alignment explanation
Indices: 73429--73460 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
73419 ATAAGAGATC
73429 TAAAAT TAAAA- TAAAAT TAAAAT TAAAAT TAA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAA
73461 TAATCATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
TAAAAT
Found at i:73445 original size:11 final size:12
Alignment explanation
Indices: 73429--73460 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
73419 ATAAGAGATC
73429 TAAAATTAAAA-
1 TAAAATTAAAAT
73440 TAAAATTAAAAT
1 TAAAATTAAAAT
73452 TAAAATTAA
1 TAAAATTAA
73461 TAATCATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTAAAAT
Found at i:75578 original size:33 final size:33
Alignment explanation
Indices: 75541--75621 Score: 117
Period size: 33 Copynumber: 2.5 Consensus size: 33
75531 TAACTAAAGG
*
75541 TGACCAAGGTGAAACCTAAGTCAAAAAGGGTGT
1 TGACCAAGGTGAAACCTAAGTCAAAAAAGGTGT
***
75574 TGACCAATACGAAACCTAAGTCAAAAAAGGTGT
1 TGACCAAGGTGAAACCTAAGTCAAAAAAGGTGT
*
75607 TAACCAAGGTGAAAC
1 TGACCAAGGTGAAAC
75622 TGATAAAGTC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.17
Consensus pattern (33 bp):
TGACCAAGGTGAAACCTAAGTCAAAAAAGGTGT
Found at i:75746 original size:41 final size:41
Alignment explanation
Indices: 75653--75772 Score: 150
Period size: 41 Copynumber: 2.9 Consensus size: 41
75643 CTAATAGACC
* * * * * * *
75653 GAGACAAAATCAATAAGTTAACAAATAAAAAGAGGTTGATT
1 GAGACAAAATCGACAAGTCAATAGATGAAAAGGGGTTGATT
*
75694 GAGAAAAAATCGACAAGTCAATAGATGAAAAGGGGTTGATT
1 GAGACAAAATCGACAAGTCAATAGATGAAAAGGGGTTGATT
* *
75735 GAGACAAAATCGCCAAATCAATAGATGAAAAGGGGTTG
1 GAGACAAAATCGACAAGTCAATAGATGAAAAGGGGTTG
75773 TAACATTTGA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.48, C:0.09, G:0.23, T:0.19
Consensus pattern (41 bp):
GAGACAAAATCGACAAGTCAATAGATGAAAAGGGGTTGATT
Found at i:76209 original size:12 final size:12
Alignment explanation
Indices: 76185--76216 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
76175 AAAAAGTAAG
76185 AACATGATTGGGA
1 AACATG-TTGGGA
76198 AACATGTTGGGA
1 AACATGTTGGGA
76210 AACATGT
1 AACATGT
76217 AGTTTCCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.38, C:0.09, G:0.28, T:0.25
Consensus pattern (12 bp):
AACATGTTGGGA
Found at i:76358 original size:77 final size:74
Alignment explanation
Indices: 76248--76464 Score: 206
Period size: 77 Copynumber: 2.9 Consensus size: 74
76238 ATAGCGGAAG
* * *
76248 CAAACTGATGACAGGCT-AAAGGAAAAAATATGATAGGAATATGTGATTTTTAAAATTTTTATCA
1 CAAACTAATGACAGGCTGAAA-GAAAAAACATGATAGGAATATGTGGTTTTTAAAATTTTTATCA
76312 ACAACTAAAA
65 ACAACTAAAA
* * * *
76322 CAAAACTAAT-A-ATGGCCTGAAAAAGAAAAAACATGATGGGGATATGTGGTTTTTAAAAGTTTC
1 C-AAACTAATGACA-GG-CTG--AAAGAAAAAACATGATAGGAATATGTGGTTTTTAAAATTTTT
* ** *
76385 ATCAGCAGTTGAAA
61 ATCAACAACTAAAA
* * * *
76399 CAAACTGATGACAGGCTGAAAGAAAAGAACATGACAAGGAATATATGGTTTCTAAAATTTTTATC
1 CAAACTAATGACAGGCTGAAAGAAAA-AACATGA-TAGGAATATGTGGTTTTTAAAATTTTTATC
76464 A
64 A
76465 GCGACCAAAT
Statistics
Matches: 114, Mismatches: 19, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
73 1 0.01
74 12 0.11
75 16 0.14
76 34 0.30
77 47 0.41
78 4 0.04
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.27
Consensus pattern (74 bp):
CAAACTAATGACAGGCTGAAAGAAAAAACATGATAGGAATATGTGGTTTTTAAAATTTTTATCAA
CAACTAAAA
Found at i:76448 original size:76 final size:74
Alignment explanation
Indices: 76248--76534 Score: 226
Period size: 76 Copynumber: 3.8 Consensus size: 74
76238 ATAGCGGAAG
* *
76248 CAAACTGATGACAGGCT-AAAGGAAAAAATATGATAGGAATATGTGATTTTTAAAATTTTTATCA
1 CAAACTGATGACAGGCTGAAA-GAAAAAACATGATAGGAATATGTGGTTTTTAAAATTTTTATCA
*
76312 ACAACTAAAA
65 GCAACTAAAA
* * * * *
76322 CAAAACTAAT-A-ATGGCCTGAAAAAGAAAAAACATGATGGGGATATGTGGTTTTTAAAAGTTTC
1 C-AAACTGATGACA-GG-CTG--AAAGAAAAAACATGATAGGAATATGTGGTTTTTAAAATTTTT
** *
76385 ATCAGCAGTTGAAA
61 ATCAGCAACTAAAA
* * *
76399 CAAACTGATGACAGGCTGAAAGAAAAGAACATGACAAGGAATATATGGTTTCTAAAATTTTTATC
1 CAAACTGATGACAGGCTGAAAGAAAA-AACATGA-TAGGAATATGTGGTTTTTAAAATTTTTATC
* * *
76464 AGCGACCAAAT
64 AGCAACTAAAA
* * * **
76475 CAAATTGAT-A-ACGCTTGGAAA-AAACAAACACGATGAGGAATATAAGGTTTTTAAAATTTT
1 CAAACTGATGACAGGC-T-GAAAGAAA-AAACATGAT-AGGAATATGTGGTTTTTAAAATTTT
76535 CATCCATTGT
Statistics
Matches: 168, Mismatches: 31, Indels: 27
0.74 0.14 0.12
Matches are distributed among these distances:
73 1 0.01
74 15 0.09
75 50 0.30
76 51 0.30
77 47 0.28
78 4 0.02
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.26
Consensus pattern (74 bp):
CAAACTGATGACAGGCTGAAAGAAAAAACATGATAGGAATATGTGGTTTTTAAAATTTTTATCAG
CAACTAAAA
Found at i:76781 original size:48 final size:48
Alignment explanation
Indices: 76689--76784 Score: 140
Period size: 48 Copynumber: 2.0 Consensus size: 48
76679 AACAGCTGAA
*
76689 ACAAATTGATAAGAAGCTGAAGGAAAAGAACATGATATAGAATATGTG
1 ACAAATTGATAAGAAGCTGAAGGAAAAGAACATGATAGAGAATATGTG
* * *
76737 ACAAATTGATAATAGGCTGAAGGAAAGGAACATGATAG-GAAATATGTG
1 ACAAATTGATAAGAAGCTGAAGGAAAAGAACATGATAGAG-AATATGTG
76785 GTATCTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 1 0.02
48 42 0.98
ACGTcount: A:0.48, C:0.06, G:0.25, T:0.21
Consensus pattern (48 bp):
ACAAATTGATAAGAAGCTGAAGGAAAAGAACATGATAGAGAATATGTG
Found at i:76859 original size:123 final size:123
Alignment explanation
Indices: 76633--76859 Score: 269
Period size: 124 Copynumber: 1.8 Consensus size: 123
76623 ATGGCCTAAA
* * * * * **
76633 AAGGAAAGAACATGATGGGGAATATATGGTTTTTGAAATTTTCATCAACAGCTGAAACAAATTGA
1 AAGGAAAGAACATGATAGGAAATATATGGTATCTAAAATTTTCATCAACAGCCAAAACAAATTGA
* * *
76698 TAAGAAGCTGAAGGAAAAGAACATGATATAGAATATGTGACAAATTGATAATAGGCTG
66 TAACAAGCTAAAGGAAAAGAACATGATAGAGAATATGTGACAAATTGATAATAGGCTG
* * *
76756 AAGGAAAGGAACATGATAGGAAATATGTGGTATCTAAAATTTTTATCGACAGCCAAAACAAA-TG
1 AAGGAAA-GAACATGATAGGAAATATATGGTATCTAAAATTTTCATCAACAGCCAAAACAAATTG
* * * *
76820 ATAACAAGCTAAAGTG-GAAGATCATGATGGGGAATATGTG
65 ATAACAAGCTAAAG-GAAAAGAACATGATAGAGAATATGTG
76860 GTTCTACAAT
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
123 40 0.47
124 45 0.53
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.24
Consensus pattern (123 bp):
AAGGAAAGAACATGATAGGAAATATATGGTATCTAAAATTTTCATCAACAGCCAAAACAAATTGA
TAACAAGCTAAAGGAAAAGAACATGATAGAGAATATGTGACAAATTGATAATAGGCTG
Found at i:76887 original size:75 final size:76
Alignment explanation
Indices: 76767--77128 Score: 340
Period size: 76 Copynumber: 4.8 Consensus size: 76
76757 AGGAAAGGAA
* * ** *
76767 CATGATAGGAAATATGTGGTATCTAAAATTT-TTATCGACAGCCAAAACAAA-TGATAACAAGCT
1 CATGATAGGGAATATGTGGT-TCTACAATTTCCCATCAACAGCCAAAACAAACTGATAACAAGCT
*
76830 AAAGTGGAAGAT
65 AAAGTAGAAGAT
* * * * * * *
76842 CATGATGGGGAATATGTGGTTCTACAATTTCCGATCAACAACCAAAACAAACTTATAATAAGTTG
1 CATGATAGGGAATATGTGGTTCTACAATTTCCCATCAACAGCCAAAACAAACTGATAACAAGCTA
76907 AAGTAGATA-A-
66 AAGTAGA-AGAT
* * *
76917 CATGATAGGGAATATCTGGTTTTTACAATTTCCCATCAACAGCTAAAACAAACTGATAACAAGCT
1 CATGATAGGGAATATGTGG-TTCTACAATTTCCCATCAACAGCCAAAACAAACTGATAACAAGCT
76982 AAAGTAGAAGAT
65 AAAGTAGAAGAT
* * * * * ** *
76994 CATAAT-GCGAAATATGTAGTTCTATAATTTCTCATCAACAGCCAATGCAAACT-ACTAATAAGC
1 CATGATAG-GGAATATGTGGTTCTACAATTTCCCATCAACAGCCAAAACAAACTGA-TAACAAGC
* *
77057 TAAAGTAAAAGAA
64 TAAAGTAGAAGAT
* * * ** *
77070 CATGATAGAGAATATGTGGTTTCTATAATTTCCCATCAATAGTTAAAACAATCTGATAA
1 CATGATAGGGAATATGTGG-TTCTACAATTTCCCATCAACAGCCAAAACAAACTGATAA
77129 GAGTAATGAT
Statistics
Matches: 230, Mismatches: 46, Indels: 20
0.78 0.16 0.07
Matches are distributed among these distances:
74 9 0.04
75 53 0.23
76 122 0.53
77 45 0.20
78 1 0.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (76 bp):
CATGATAGGGAATATGTGGTTCTACAATTTCCCATCAACAGCCAAAACAAACTGATAACAAGCTA
AAGTAGAAGAT
Found at i:77016 original size:152 final size:153
Alignment explanation
Indices: 76746--77128 Score: 418
Period size: 152 Copynumber: 2.5 Consensus size: 153
76736 GACAAATTGA
* * * * * * * ** *
76746 TAATAGGCTGAAGGAAAGGAACATGATAG-GAAATATGTGGTATCTAAAATTT-TTATCGACAGC
1 TAATAAGCTAAAGTAAAAGAACATGATAGAG-AATATCTGGTTTCTACAATTTCCCATCAACAGC
* * * * * *
76809 CAAAACAAA-TGATAACAAGCTAAAGTGGAAGATCATGATGGGGAATATGTGGTTCTACAATTTC
65 TAAAACAAACTGATAACAAGCTAAAGTAGAAGATCATAATGCGAAATATGTAGTTCTACAATTTC
76873 -CGATCAACAACCAAAACAAACTTA-
130 TC-ATCAACAACCAAAACAAAC-TAC
* * * * * *
76897 TAATAAGTTGAAGT-AGATAACATGATAGGGAATATCTGGTTTTTACAATTTCCCATCAACAGCT
1 TAATAAGCTAAAGTAAAAGAACATGATAGAGAATATCTGGTTTCTACAATTTCCCATCAACAGCT
*
76961 AAAACAAACTGATAACAAGCTAAAGTAGAAGATCATAATGCGAAATATGTAGTTCTATAATTTCT
66 AAAACAAACTGATAACAAGCTAAAGTAGAAGATCATAATGCGAAATATGTAGTTCTACAATTTCT
* **
77026 CATCAACAGCCAATGCAAACTAC
131 CATCAACAACCAAAACAAACTAC
* * * *
77049 TAATAAGCTAAAGTAAAAGAACATGATAGAGAATATGTGGTTTCTATAATTTCCCATCAATAGTT
1 TAATAAGCTAAAGTAAAAGAACATGATAGAGAATATCTGGTTTCTACAATTTCCCATCAACAGCT
*
77114 AAAACAATCTGATAA
66 AAAACAAACTGATAA
77129 GAGTAATGAT
Statistics
Matches: 192, Mismatches: 34, Indels: 10
0.81 0.14 0.04
Matches are distributed among these distances:
150 28 0.15
151 30 0.16
152 77 0.40
153 57 0.30
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (153 bp):
TAATAAGCTAAAGTAAAAGAACATGATAGAGAATATCTGGTTTCTACAATTTCCCATCAACAGCT
AAAACAAACTGATAACAAGCTAAAGTAGAAGATCATAATGCGAAATATGTAGTTCTACAATTTCT
CATCAACAACCAAAACAAACTAC
Found at i:77362 original size:60 final size:59
Alignment explanation
Indices: 77263--77488 Score: 215
Period size: 60 Copynumber: 3.8 Consensus size: 59
77253 ATGACATTAG
* * *
77263 AAACCTACAA-AATGACTTGGGTAAAACTAAGACTTAATGAAATGGCTTGGATCAAACCA
1 AAACCTA-AACAATGACTTGGGCAAAACCAAGACTCAATGAAATGGCTTGGATCAAACCA
* * * * * *
77322 ACAACCTAAACAATGACTTGGGAAAAACAAAGAGTCAATGAAATGGCTTGAATAAAATCAA
1 A-AACCTAAACAATGACTTGGGCAAAACCAAGACTCAATGAAATGGCTTGGATCAAA-CCA
* * ** * *
77383 AAACCTAAACAATGAGTTGGCCAAAACCAAGACTCAACT-AAATAACTT-GAACGAAACTA
1 AAACCTAAACAATGACTTGGGCAAAACCAAGACTCAA-TGAAATGGCTTGGATC-AAACCA
** *
77442 GAAACCTAAACAATGACTTTTGCAAAACCAAGATTCAATGAAATGGC
1 -AAACCTAAACAATGACTTGGGCAAAACCAAGACTCAATGAAATGGC
77489 CTAAATAGAA
Statistics
Matches: 135, Mismatches: 25, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
59 7 0.05
60 124 0.92
61 4 0.03
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.19
Consensus pattern (59 bp):
AAACCTAAACAATGACTTGGGCAAAACCAAGACTCAATGAAATGGCTTGGATCAAACCA
Found at i:78312 original size:44 final size:44
Alignment explanation
Indices: 78264--78384 Score: 129
Period size: 44 Copynumber: 2.8 Consensus size: 44
78254 TGCAGATGTT
*
78264 CATGAAAAAATGCAACTGCAAGCATCAATAAAGATGCAAATACA
1 CATGAAAAGATGCAACTGCAAGCATCAATAAAGATGCAAATACA
* * * * **
78308 CATGAAATGATGCAAATGCCAA-CATTATCTAAA-ATGCAAATATG
1 CATGAAAAGATGCAACTG-CAAGCATCA-ATAAAGATGCAAATACA
* *
78352 CATGAAACGATGCAACTGTAAGCATCAATAAAG
1 CATGAAAAGATGCAACTGCAAGCATCAATAAAG
78385 TGGGAAATGC
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
43 6 0.10
44 48 0.79
45 7 0.11
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.20
Consensus pattern (44 bp):
CATGAAAAGATGCAACTGCAAGCATCAATAAAGATGCAAATACA
Found at i:78326 original size:88 final size:88
Alignment explanation
Indices: 78113--78426 Score: 290
Period size: 88 Copynumber: 3.6 Consensus size: 88
78103 AATGCTAGCT
* * * * * * * * *
78113 TCAATAAAGTGGCAAATGCATATGATATGATGCCATTACCAAGGTCATCTAAAGTACAAATATGC
1 TCAATAAAGTGGCAAATACACATGAAATGATGCAAATGCCAATGTCATCTAAAATGCAAATATGC
* ** * *
78178 GTGAAATGATGCAAATACAAGCA
66 ATGAAAAAATGCAACTGCAAGCA
* * * * * * * * * *
78201 TTAATAAA-TGGAAAATCCATATGAAATAATGCAAATGCCAATGTCATGTAAAGTGCAGATGTTC
1 TCAATAAAGTGGCAAATACACATGAAATGATGCAAATGCCAATGTCATCTAAAATGCAAATATGC
78265 ATGAAAAAATGCAACTGCAAGCA
66 ATGAAAAAATGCAACTGCAAGCA
** *
78288 TCAATAAAGAT-GCAAATACACATGAAATGATGCAAATGCCAACATTATCTAAAATGCAAATATG
1 TCAATAAAG-TGGCAAATACACATGAAATGATGCAAATGCCAATGTCATCTAAAATGCAAATATG
** *
78352 CATGAAACGATGCAACTGTAAGCA
65 CATGAAAAAATGCAACTGCAAGCA
* * * * *
78376 TCAATAAAGTGGGAAATGCATATAAAATGATGCAAATGTCAATGTCATCTA
1 TCAATAAAGTGGCAAATACACATGAAATGATGCAAATGCCAATGTCATCTA
78427 GAGTTGTAGA
Statistics
Matches: 180, Mismatches: 43, Indels: 6
0.79 0.19 0.03
Matches are distributed among these distances:
87 69 0.38
88 110 0.61
89 1 0.01
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (88 bp):
TCAATAAAGTGGCAAATACACATGAAATGATGCAAATGCCAATGTCATCTAAAATGCAAATATGC
ATGAAAAAATGCAACTGCAAGCA
Found at i:79136 original size:113 final size:111
Alignment explanation
Indices: 78892--79298 Score: 351
Period size: 113 Copynumber: 3.6 Consensus size: 111
78882 AAAATTTTTG
* * * * *
78892 GTTGGCTCGAAAA-TTTAAAAACTGATAGGATACATGCCCCATTTTCCTAAGTACGAATAGATCA
1 GTTGGCT-TAAAAGTTTCAAAACTAATAGGATACATGCCCTATTTTCCTAAGCACGAATAGATC-
* **
78956 AATCGTATAAAATATGAATTTTTTTGAAAATCT-GACAAATTTGATGCT
64 AATTGTATAAAATATGAATTTTTTTGAAAAT-TAGACAAATTTGATAAT
* * ** * * *
79004 GCTAGCTTAAAAGCATCAAAACTAATAGGATATATGCCCTTATTTTCCTAAGCACGGATGGATCA
1 GTTGGCTTAAAAGTTTCAAAACTAATAGGATACATGCCC-TATTTTCCTAAGCACGAATAGATCA
* *
79069 GATTGTATAAAATATGAATTTTTTTTATAAATTAGACACATTTGATAAT
65 -ATTGTATAAAATATGAATTTTTTTGA-AAATTAGACAAATTTGATAAT
* * * * * ** *
79118 GTTGGCTTAAAA-TTTCAAAATTGATAGGATAGAT--CCTATTTTCCTATGTATAAATAGATTAA
1 GTTGGCTTAAAAGTTTCAAAACTAATAGGATACATGCCCTATTTTCCTAAGCACGAATAGATCAA
* ** * * * *
79180 GCTGTATAAACCATGAATTTCTTTGAAAAATAGGCAAATTTGATATT
66 -TTGTATAAAATATGAATTTTTTTGAAAATTAGACAAATTTGATAAT
* ** *
79227 GTTGGCTTAAAATTTTCAAAAC-AGATAGGATACATGGCCC-ATTTTCCTAAGCATAAATAGGTC
1 GTTGGCTTAAAAGTTTCAAAACTA-ATAGGATACAT-GCCCTATTTTCCTAAGCACGAATAGATC
79290 AAGTTGTAT
64 AA-TTGTAT
79299 CTATAAGCTT
Statistics
Matches: 236, Mismatches: 48, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
109 30 0.13
110 56 0.24
111 6 0.03
112 54 0.23
113 64 0.27
114 26 0.11
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (111 bp):
GTTGGCTTAAAAGTTTCAAAACTAATAGGATACATGCCCTATTTTCCTAAGCACGAATAGATCAA
TTGTATAAAATATGAATTTTTTTGAAAATTAGACAAATTTGATAAT
Found at i:88544 original size:59 final size:59
Alignment explanation
Indices: 88452--88573 Score: 244
Period size: 59 Copynumber: 2.1 Consensus size: 59
88442 AAGAGGGTAA
88452 CAAATGAAAGAATTTTTAATGTTTGTGAATAGGTGATGAAAGAAGGCCATTTATCACTT
1 CAAATGAAAGAATTTTTAATGTTTGTGAATAGGTGATGAAAGAAGGCCATTTATCACTT
88511 CAAATGAAAGAATTTTTAATGTTTGTGAATAGGTGATGAAAGAAGGCCATTTATCACTT
1 CAAATGAAAGAATTTTTAATGTTTGTGAATAGGTGATGAAAGAAGGCCATTTATCACTT
88570 CAAA
1 CAAA
88574 CATGACTATA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 63 1.00
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.33
Consensus pattern (59 bp):
CAAATGAAAGAATTTTTAATGTTTGTGAATAGGTGATGAAAGAAGGCCATTTATCACTT
Found at i:97343 original size:57 final size:58
Alignment explanation
Indices: 97278--97397 Score: 136
Period size: 57 Copynumber: 2.1 Consensus size: 58
97268 CCATTTGTGT
** * * * *
97278 AATTTCATGCATTTTAGGGTCACTTTA-GTAATTTTTCATGTTTTATGGAC-TTTATAC
1 AATTTCATGCATGCTAGGGTCA-TTTAGGTAATTTTTCACGATCTAGGGACTTTTATAC
* * *
97335 AATTTCATGTATGCTAGGGTTATTTAGGTAATTTTTTACGATCTAGGGACTTTTATAC
1 AATTTCATGCATGCTAGGGTCATTTAGGTAATTTTTCACGATCTAGGGACTTTTATAC
97393 AATTT
1 AATTT
97398 AAGTCATTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
56 4 0.08
57 36 0.69
58 12 0.23
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (58 bp):
AATTTCATGCATGCTAGGGTCATTTAGGTAATTTTTCACGATCTAGGGACTTTTATAC
Found at i:99295 original size:15 final size:15
Alignment explanation
Indices: 99234--99294 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
99224 AAATGAAACG
99234 AAAAATGTAAAAAAAT
1 AAAAATG-AAAAAAAT
*
99250 CAAAAATGGAAAAAAT
1 -AAAAATGAAAAAAAT
* *
99266 AAAAAAG-GAAAAAT
1 AAAAATGAAAAAAAT
*
99280 GAAAATGAAAAAAAT
1 AAAAATGAAAAAAAT
99295 GTTAGTAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
14 11 0.30
15 12 0.32
16 7 0.19
17 7 0.19
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (15 bp):
AAAAATGAAAAAAAT
Found at i:106084 original size:13 final size:13
Alignment explanation
Indices: 106066--106091 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
106056 CAATTTTTTG
106066 TGTATCGATACAT
1 TGTATCGATACAT
106079 TGTATCGATACAT
1 TGTATCGATACAT
106092 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:107053 original size:21 final size:21
Alignment explanation
Indices: 107028--107079 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
107018 GCTCTCCCCC
107028 TTAATACAAATGTTCTTCCCT
1 TTAATACAAATGTTCTTCCCT
107049 TTAATACAAATGTTCTTCCCT
1 TTAATACAAATGTTCTTCCCT
107070 TTAATACAAA
1 TTAATACAAA
107080 ATTTATACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (21 bp):
TTAATACAAATGTTCTTCCCT
Found at i:107956 original size:14 final size:14
Alignment explanation
Indices: 107937--107965 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
107927 ATACTGAAGC
107937 AATGTATCGATACA
1 AATGTATCGATACA
107951 AATGTATCGATACA
1 AATGTATCGATACA
107965 A
1 A
107966 TCTGGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (14 bp):
AATGTATCGATACA
Found at i:111702 original size:13 final size:13
Alignment explanation
Indices: 111684--111709 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
111674 CAATTTTTTG
111684 TGTATCGATACAT
1 TGTATCGATACAT
111697 TGTATCGATACAT
1 TGTATCGATACAT
111710 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:114714 original size:35 final size:35
Alignment explanation
Indices: 114670--114744 Score: 93
Period size: 34 Copynumber: 2.2 Consensus size: 35
114660 CAAGAGACTA
* * *
114670 AGTATAAAATTATCACTTTTTTAAGAGGTTTAACAT
1 AGTATAAAATTATAAC-CTTTTAAGAAGTTTAACAT
114706 AGTA-AAAATTATAACCTTTTAAGAAGTTTAA-AT
1 AGTATAAAATTATAACCTTTTAAGAAGTTTAACAT
114739 A-TATAA
1 AGTATAA
114745 GTTCAATCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 2 0.06
33 5 0.14
34 14 0.40
35 10 0.29
36 4 0.11
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (35 bp):
AGTATAAAATTATAACCTTTTAAGAAGTTTAACAT
Found at i:126688 original size:2 final size:2
Alignment explanation
Indices: 126681--126712 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
126671 TAAAATTTGG
126681 AT AT AT AT AT AT AT -T A- 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 AT
126713 TCAATGACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:309406 original size:2 final size:2
Alignment explanation
Indices: 309399--309520 Score: 99
Period size: 2 Copynumber: 67.0 Consensus size: 2
309389 AATTATATGT
309399 TA TA TA TA TA -A TA TA TA TA TA -A TA TA TA -A 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 TA
* * * *
309437 TA -A TA TA AA TA TA TA TA -A TA GA TA TA TGA TA TA TA AA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA
*
309478 TA -A TA TA -A TA TA -A TA -A TA TA TA -A TA TA -A AA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
309514 TA -A TA TA
1 TA TA TA TA
309521 ACATATAATA
Statistics
Matches: 99, Mismatches: 7, Indels: 28
0.74 0.05 0.21
Matches are distributed among these distances:
1 13 0.13
2 84 0.85
3 2 0.02
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (2 bp):
TA
Found at i:309412 original size:7 final size:7
Alignment explanation
Indices: 309399--309531 Score: 113
Period size: 7 Copynumber: 19.4 Consensus size: 7
309389 AATTATATGT
309399 TATAT-A
1 TATATAA
309405 TATAATATA
1 TAT-ATA-A
309414 TATATAA
1 TATATAA
309421 TATATAA
1 TATATAA
309428 TATAT-A
1 TATATAA
309434 TAT-TAA
1 TATATAA
309440 TATA-AA
1 TATATAA
309446 TATAT-A
1 TATATAA
309452 TA-ATAGA
1 TATATA-A
*
309459 TATATGA
1 TATATAA
309466 TATATAA
1 TATATAA
*
309473 -AAAT-A
1 TATATAA
309478 TAATATAA
1 T-ATATAA
309486 TATAATAA
1 TAT-ATAA
309494 TATATAA
1 TATATAA
*
309501 TATAAAA
1 TATATAA
309508 TATAT-A
1 TATATAA
309514 TAATATAA
1 T-ATATAA
*
309522 CATATAA
1 TATATAA
309529 TAT
1 TAT
309532 TTTATTTATT
Statistics
Matches: 104, Mismatches: 8, Indels: 29
0.74 0.06 0.21
Matches are distributed among these distances:
5 4 0.04
6 25 0.24
7 56 0.54
8 15 0.14
9 4 0.04
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.41
Consensus pattern (7 bp):
TATATAA
Found at i:309423 original size:18 final size:18
Alignment explanation
Indices: 309402--309531 Score: 137
Period size: 18 Copynumber: 7.2 Consensus size: 18
309392 TATATGTTAT
309402 ATATATAATATATATATA
1 ATATATAATATATATATA
309420 ATATATAATATATATATTA
1 ATATATAATATATATA-TA
309439 ATATA-AATATATATAATA
1 ATATATAATATATAT-ATA
*
309457 GATATATGATATATA-A-A
1 -ATATATAATATATATATA
309474 A-ATATAATATAATATAATA
1 ATATATAATAT-ATAT-ATA
*
309493 ATATATAATATA-AAAT-
1 ATATATAATATATATATA
*
309509 ATATATAATATAACATATA
1 ATATATAATAT-ATATATA
309528 ATAT
1 ATAT
309532 TTTATTTATT
Statistics
Matches: 96, Mismatches: 4, Indels: 23
0.78 0.03 0.19
Matches are distributed among these distances:
15 8 0.08
16 15 0.16
17 4 0.04
18 33 0.34
19 20 0.21
20 16 0.17
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.40
Consensus pattern (18 bp):
ATATATAATATATATATA
Found at i:309918 original size:89 final size:89
Alignment explanation
Indices: 309611--312397 Score: 3293
Period size: 89 Copynumber: 31.4 Consensus size: 89
309601 TTATTAGATT
* * * * * * *
309611 AGATTATTTCTGAGACGATAGAAAATATTTGATTAAT--ATAAATTAAAATTCTTGGAACCCAAA
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCT-AA-TAAATTTCTTGGAACCCGAA
* * * *
309674 AGATGTGAGAGGTACATGCGAGTATC
64 AGATGTGACAGATGCATGCGGGTATC
* * * * * * * *
309700 AAATTCTTTTTGACACGATATAAAATATTTGATTAATGCCTAATAAATTTTTTGGAACCTGAAAA
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAG
* * *
309765 AAGTG--ATA-G-ATGCGAGTATC
66 ATGTGACAGATGCATGCGGGTATC
* * ** * * * * * *
309785 AGATT-TCTACTAACATAACAGAAAATATTTGATTAATACTTAATATATTTCTTAGAACTCGAAA
1 AGATTCT-TTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAA
* *
309849 AATGTGACAGATGCATGCGTGTATC
65 GATGTGACAGATGCATGCGGGTATC
* * * *
309874 AAATTCTTTCTGACACGACAAAAAATATTTGACTAATGTCTAATAAATTTCTTGGAACTCGAAAG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAG
* *
309939 ATATGATAGATGCATGCGGGTATC
66 ATGTGACAGATGCATGCGGGTATC
* * * * * *
309963 AGATTCTTTTTGACA-TATCAAAAAATATTTGATTAATGCCTAATAAATTT-TTTGAACTCGAAA
1 AGATTCTTTCTGACACGA-CAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAA
*
310026 -ATGTGATAGATGCATGCGGGTATC
65 GATGTGACAGATGCATGCGGGTATC
* * *
310050 AGATTCTTTCTGACACGACAGAAAATATTTGAC-AATGTCTAATAAATTTTTTGGAATCCGAAAG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAG
* *
310114 ATGTGATAGATACATGCGGGTATC
66 ATGTGACAGATGCATGCGGGTATC
* * * * * * *
310138 AAATTCTTTTTAACACGATAGAAAATATTTGACTAATGCCGAATAAATTTCTTGGAACCCAAAAA
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAG
* * *
310203 ATATGACAAATGCATGCGGGTATT
66 ATGTGACAGATGCATGCGGGTATC
* * *
310227 AGATTCTTTTTGACACGATAAAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAG
* *
310292 ATTTGACAGATGGATGCGGGTATC
66 ATGTGACAGATGCATGCGGGTATC
* * * * * * * *
310316 AAATTCCTTCTAACATGATATAAAATATTTGACTAATGCCTAACAAATTTCTTGAAACCCGAAAG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAG
310381 ATGTGACAGATGCATGCGGGTATC
66 ATGTGACAGATGCATGCGGGTATC
* * * *
310405 AGATTTTTTCTGACACGACAGAAAATATTTGACTAATACCTAATAAATTTCTTAGAACTCGAAAG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAG
* * * *
310470 ATGTGATAGATACATGCGAGTATT
66 ATGTGACAGATGCATGCGGGTATC
* *** * ** *
310494 AGATTAC-TTCTTACACGATTTAAAATATTTGACTAATGCCTAATAAATTTTTTAAAACCCCAAA
1 AGATT-CTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAA
** * *
310558 GATGTGACAGATATATGCGAGTGTC
65 GATGTGACAGATGCATGCGGGTATC
* * * * * *
310583 AGATTCCTTCTGACACAATATAAAATATTTGACTAATGCTTAATAAATTTCTTGAAACCCGAAAG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAG
* *
310648 ATATGA-ACGATGCATGCGAGTATC
66 ATGTGACA-GATGCATGCGGGTATC
* ** * * * *
310672 AGATTCTTTCTGATACGATTGAAAATATTTTACTAATACCTAATAAATTTCTTAGAACTCGAAAG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAG
* * *
310737 ATGTGACATATGCATGTAGGATATC
66 ATGTGACAGATGCATG-CGGGTATC
* * *
310762 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGTCTAATAAATTTTTTGGAATCCGAAAG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAG
*
310827 ATGTGACAGATGCATGCAGGTATC
66 ATGTGACAGATGCATGCGGGTATC
* * * * * *
310851 ATATTCTTTCTGACACGACAAAAAACATTTGTCTAATGCTTAATAAATTTCTTGAAACCCGAAAG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAG
* * *
310916 ATGTGATAGATGGATGTGGGTATC
66 ATGTGACAGATGCATGCGGGTATC
* * * * *
310940 AGATTCCTTCTAACACAACAGAAAATATTTGACTAATGCCTAATAAATTTCTT-CAACTCGAAAG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAG
* *
311004 ATATGACAGATGCAGGCGGGTATC
66 ATGTGACAGATGCATGCGGGTATC
** *
311028 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATATCTAATAAATTTCTTGAAACCCGAAAG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAG
* *
311093 ATGTGATAGATACATAG-GGGTATC
66 ATGTGACAGATGCAT-GCGGGTATC
* * * *
311117 AGA----TTCTAACACGACAAAAAATATTTGACTAATGTCTAATAAATTTCTTGGAACCCAAAAG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAG
*
311178 ATATGACAGATGCATGCGGGTATC
66 ATGTGACAGATGCATGCGGGTATC
* * ** * * *
311202 AGATTCCTTCTGGCACGTTATAAAATATTTGACTAATGTCTAATAAATTTCTTAGAACCCGAAAG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAG
* *
311267 ATGTGACAGATGCATACGAGTATC
66 ATGTGACAGATGCATGCGGGTATC
* * * * **
311291 AGATTCCTTCT-A-ACAAAATATAAATATTTGACTAATGCCTAATAAATTTCTTAAAACCCGAAA
1 AGATTCTTTCTGACACGACAGA-AAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAA
* *
311354 GATATGACAGATGCATGCGAGTATC
65 GATGTGACAGATGCATGCGGGTATC
* * * *
311379 CGATTCTTTCCGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACTCGAAAG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAG
311444 ATGTGACAGATGCATGCAGGGTATC
66 ATGTGACAGATGCATGC-GGGTATC
* *
311469 TGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACCCGAAAG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAG
*
311534 ATGTGACAGATGGATGCGGGTATC
66 ATGTGACAGATGCATGCGGGTATC
* * * *
311558 AGATTCCTTCTAACACGACAGAAAATATTTAACTAATGCCTAATAAATTTATTGGAACCCGAAAG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAG
* * *
311623 ATGTGATAGATGGATGTGGGTATC
66 ATGTGACAGATGCATGCGGGTATC
* * *
311647 AGATTCCTTT-TGATACGACAGAAAATATTTGACTAATACCTAATAAATTTCTTGGAACCCAAAA
1 AGATT-CTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAA
*
311711 GATGTGACAGATGGATGCGGGTATC
65 GATGTGACAGATGCATGCGGGTATC
* * *
311736 AGATT-TCTTCTGACACGATATAAAATATTTGACTAATGCCTGATAAATTTCTTGGAACCCGAAA
1 AGATTCT-TTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAA
*
311800 GATGTGACAGATGCATGCGAGTATC
65 GATGTGACAGATGCATGCGGGTATC
* * * *
311825 CGATTCTTTCCGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACTCGAAAG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAG
311890 ATGTGACAGATGCATGCAGGGTATC
66 ATGTGACAGATGCATGC-GGGTATC
* * * *
311915 TGACTCTTTCTGACACGACAGGAAATATTTGACTAATGCCTAATAAATTTCTTGAAACCCGAAAG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAG
*
311980 ATGTGACAGATGGATGCGGGTATC
66 ATGTGACAGATGCATGCGGGTATC
* * * *
312004 AGATTCCTTCTAACACGACAGAAAATATTTAACTAATGCCTAATAAATTTATTGGAACCCGAAAG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAG
* * *
312069 ATGTGATAGATGGATGCGAGTATC
66 ATGTGACAGATGCATGCGGGTATC
* *
312093 AGATTCCTTT-TGACACGACAGAAAATATTTGACTAATACCTAATAAATTTCTTGGAACCCAAAA
1 AGATT-CTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAA
*
312157 GATGTGACAGATGGATGCGGGTATC
65 GATGTGACAGATGCATGCGGGTATC
* * * * *
312182 AGATT-TCTTCTGACATGATATAAAATATTTGACTAATGCCTGATAAATTTCTTGGAACTCGAAA
1 AGATTCT-TTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAA
* *
312246 GATGTGACAGATACATGCGAGTATC
65 GATGTGACAGATGCATGCGGGTATC
* * * * * * *
312271 AGATTCTTTCTAACACGATATAAAATATTTGACTAATTCTTAATAAATTTCTTGAAACCCAAAAG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAG
* * *
312336 ATATGACAAATGCATACGGGTATC
66 ATGTGACAGATGCATGCGGGTATC
*
312360 AGATTCTTTCTGACACAACAGAAAATATTTGACTAATG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATG
312398 ATATGACAGA
Statistics
Matches: 2325, Mismatches: 335, Indels: 76
0.85 0.12 0.03
Matches are distributed among these distances:
84 2 0.00
85 138 0.06
86 15 0.01
87 70 0.03
88 220 0.09
89 1620 0.70
90 259 0.11
91 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (89 bp):
AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAG
ATGTGACAGATGCATGCGGGTATC
Found at i:310973 original size:446 final size:445
Alignment explanation
Indices: 309611--312397 Score: 3353
Period size: 446 Copynumber: 6.3 Consensus size: 445
309601 TTATTAGATT
* * * * * * * *
309611 AGATTATTTCTGAGACGATAGAAAATATTTGATTAAT--ATAAATTAAAATTCTTGGAACCCAAA
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCT-AA-TAAATTTCTTGAAACCCGAA
* * * * * * * * *
309674 AGATGTGAGAGGTACATGCGAGTATCAAATTCTTTTTGACACGATATAAAATATTTGATTAATGC
64 AGATGTGACAGATGCATGCGGGTATCAGATTCTTTCTGACACGACAGAAAATATTTGACTAATGC
* * * ** * *
309739 CTAATAAATTTTTTGGAACCTGAAA-A-A--AGTGATAG-ATGCGAGTATCAGATT-TCTACTAA
129 CTAATAAATTTCTTGAAACCCGAAAGATATGACAGAT-GCATGCGGGTATCAGATTCT-TTCTAA
** * * * * * * *
309798 CATAACAGAAAATATTTGATTAATACTTAATATATTTCTTAGAACTCGAAAAATGTGACAGATGC
192 CACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAGATGTGACAGATGC
* * * *
309863 ATGCGTGTATCAAATTCTTTCTGACACGACAAAAAATATTTGACTAATGTCTAATAAATTTCTTG
257 ATGCGGGTATCAGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTG
* * * * *
309928 GAACTCGAAAGATATGATAGATGCATGCGGGTATCAGATTCTTTTTGACA-TATCAAAAAATATT
322 GAACCCGAAAGATGTGACAGATGCATGCGGGTATCAGATTCTTTCTGACACGA-CAAAAAATATT
* * * * *
309992 TGATTAATGCCTAATAAATTTTTTG-AACTCGAAA-ATGTGATAGATGCATGCGGGTATC
386 TGACTAATGCCTAATAAATTTCTTGAAACCCGAAAGATGTGACAGATGCATGCGAGTATC
* * * *
310050 AGATTCTTTCTGACACGACAGAAAATATTTGAC-AATGTCTAATAAATTTTTTGGAATCCGAAAG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACCCGAAAG
* * * * * * *
310114 ATGTGATAGATACATGCGGGTATCAAATTCTTTTTAACACGATAGAAAATATTTGACTAATGCCG
66 ATGTGACAGATGCATGCGGGTATCAGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCT
* * * * * * *
310179 AATAAATTTCTTGGAACCCAAAAAATATGACAAATGCATGCGGGTATTAGATTCTTTTTGACACG
131 AATAAATTTCTTGAAACCCGAAAGATATGACAGATGCATGCGGGTATCAGATTCTTTCTAACACG
* * * *
310244 ATAAAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAGATTTGACAGATGGATGC
196 ACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAGATGTGACAGATGCATGC
* * * * * * * *
310309 GGGTATCAAATTCCTTCTAACATGATATAAAATATTTGACTAATGCCTAACAAATTTCTTGAAAC
261 GGGTATCAGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAAC
* *
310374 CCGAAAGATGTGACAGATGCATGCGGGTATCAGATTTTTTCTGACACGACAGAAAATATTTGACT
326 CCGAAAGATGTGACAGATGCATGCGGGTATCAGATTCTTTCTGACACGACAAAAAATATTTGACT
* * * * *
310439 AATACCTAATAAATTTCTT-AGAACTCGAAAGATGTGATAGATACATGCGAGTATT
391 AATGCCTAATAAATTTCTTGA-AACCCGAAAGATGTGACAGATGCATGCGAGTATC
* *** * * *
310494 AGATTAC-TTCTTACACGATTTAAAATATTTGACTAATGCCTAATAAATTTTTTAAAACCCCAAA
1 AGATT-CTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACCCGAAA
** * * * * * * *
310558 GATGTGACAGATATATGCGAGTGTCAGATTCCTTCTGACACAATATAAAATATTTGACTAATGCT
65 GATGTGACAGATGCATGCGGGTATCAGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCC
* * *
310623 TAATAAATTTCTTGAAACCCGAAAGATATGA-ACGATGCATGCGAGTATCAGATTCTTTCTGATA
130 TAATAAATTTCTTGAAACCCGAAAGATATGACA-GATGCATGCGGGTATCAGATTCTTTCTAACA
** * * * * *
310687 CGATTGAAAATATTTTACTAATACCTAATAAATTTCTTAGAACTCGAAAGATGTGACATATGCAT
194 CGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAGATGTGACAGATGCAT
* * * *
310752 GTAGGATATCAGATTCTTTCTGACACGACAGAAAATATTTGACTAATGTCTAATAAATTTTTTGG
259 G-CGGGTATCAGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGG
* * * *
310817 AATCCGAAAGATGTGACAGATGCATGCAGGTATCATATTCTTTCTGACACGACAAAAAACATTTG
323 AACCCGAAAGATGTGACAGATGCATGCGGGTATCAGATTCTTTCTGACACGACAAAAAATATTTG
* * * * * *
310882 TCTAATGCTTAATAAATTTCTTGAAACCCGAAAGATGTGATAGATGGATGTGGGTATC
388 ACTAATGCCTAATAAATTTCTTGAAACCCGAAAGATGTGACAGATGCATGCGAGTATC
* * * * *
310940 AGATTCCTTCTAACACAACAGAAAATATTTGACTAATGCCTAATAAATTTCTT-CAACTCGAAAG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACCCGAAAG
* * **
311004 ATATGACAGATGCAGGCGGGTATCAGATTCTTTCTGACACGACAGAAAATATTTGACTAATATCT
66 ATGTGACAGATGCATGCGGGTATCAGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCT
* * *
311069 AATAAATTTCTTGAAACCCGAAAGATGTGATAGATACATAG-GGGTATCAGA----TTCTAACAC
131 AATAAATTTCTTGAAACCCGAAAGATATGACAGATGCAT-GCGGGTATCAGATTCTTTCTAACAC
* * * *
311129 GACAAAAAATATTTGACTAATGTCTAATAAATTTCTTGGAACCCAAAAGATATGACAGATGCATG
195 GACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAGATGTGACAGATGCATG
* * ** * * *
311194 CGGGTATCAGATTCCTTCTGGCACGTTATAAAATATTTGACTAATGTCTAATAAATTTCTTAGAA
260 CGGGTATCAGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAA
* * * *
311259 CCCGAAAGATGTGACAGATGCATACGAGTATCAGATTCCTTCT-A-AC-AAAATATAAATATTTG
325 CCCGAAAGATGTGACAGATGCATGCGGGTATCAGATTCTTTCTGACACGACAA-A-AAATATTTG
* *
311321 ACTAATGCCTAATAAATTTCTTAAAACCCGAAAGATATGACAGATGCATGCGAGTATC
388 ACTAATGCCTAATAAATTTCTTGAAACCCGAAAGATGTGACAGATGCATGCGAGTATC
* * *
311379 CGATTCTTTCCGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACTCGAAAG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACCCGAAAG
*
311444 ATGTGACAGATGCATGCAGGGTATCTGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCC
66 ATGTGACAGATGCATGC-GGGTATCAGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCC
* * *
311509 TAATAAATTTCTTGAAACCCGAAAGATGTGACAGATGGATGCGGGTATCAGATTCCTTCTAACAC
130 TAATAAATTTCTTGAAACCCGAAAGATATGACAGATGCATGCGGGTATCAGATTCTTTCTAACAC
* * * *
311574 GACAGAAAATATTTAACTAATGCCTAATAAATTTATTGGAACCCGAAAGATGTGATAGATGGATG
195 GACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAGATGTGACAGATGCATG
* * *
311639 TGGGTATCAGATTCCTTT-TGATACGACAGAAAATATTTGACTAATACCTAATAAATTTCTTGGA
260 CGGGTATCAGATT-CTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGA
* * * *
311703 ACCCAAAAGATGTGACAGATGGATGCGGGTATCAGATT-TCTTCTGACACGATATAAAATATTTG
324 ACCCGAAAGATGTGACAGATGCATGCGGGTATCAGATTCT-TTCTGACACGACAAAAAATATTTG
* *
311767 ACTAATGCCTGATAAATTTCTTGGAACCCGAAAGATGTGACAGATGCATGCGAGTATC
388 ACTAATGCCTAATAAATTTCTTGAAACCCGAAAGATGTGACAGATGCATGCGAGTATC
* * *
311825 CGATTCTTTCCGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACTCGAAAG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACCCGAAAG
* * *
311890 ATGTGACAGATGCATGCAGGGTATCTGACTCTTTCTGACACGACAGGAAATATTTGACTAATGCC
66 ATGTGACAGATGCATGC-GGGTATCAGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCC
* * *
311955 TAATAAATTTCTTGAAACCCGAAAGATGTGACAGATGGATGCGGGTATCAGATTCCTTCTAACAC
130 TAATAAATTTCTTGAAACCCGAAAGATATGACAGATGCATGCGGGTATCAGATTCTTTCTAACAC
* * * *
312020 GACAGAAAATATTTAACTAATGCCTAATAAATTTATTGGAACCCGAAAGATGTGATAGATGGATG
195 GACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAGATGTGACAGATGCATG
* *
312085 CGAGTATCAGATTCCTTT-TGACACGACAGAAAATATTTGACTAATACCTAATAAATTTCTTGGA
260 CGGGTATCAGATT-CTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGA
* * * * *
312149 ACCCAAAAGATGTGACAGATGGATGCGGGTATCAGATT-TCTTCTGACATGATATAAAATATTTG
324 ACCCGAAAGATGTGACAGATGCATGCGGGTATCAGATTCT-TTCTGACACGACAAAAAATATTTG
* * * *
312213 ACTAATGCCTGATAAATTTCTTGGAACTCGAAAGATGTGACAGATACATGCGAGTATC
388 ACTAATGCCTAATAAATTTCTTGAAACCCGAAAGATGTGACAGATGCATGCGAGTATC
* * * * * *
312271 AGATTCTTTCTAACACGATATAAAATATTTGACTAATTCTTAATAAATTTCTTGAAACCCAAAAG
1 AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACCCGAAAG
* * * *
312336 ATATGACAAATGCATACGGGTATCAGATTCTTTCTGACACAACAGAAAATATTTGACTAATG
66 ATGTGACAGATGCATGCGGGTATCAGATTCTTTCTGACACGACAGAAAATATTTGACTAATG
312398 ATATGACAGA
Statistics
Matches: 2057, Mismatches: 257, Indels: 62
0.87 0.11 0.03
Matches are distributed among these distances:
437 3 0.00
438 102 0.05
439 139 0.07
440 121 0.06
441 153 0.07
442 204 0.10
443 11 0.01
444 49 0.02
445 490 0.24
446 779 0.38
447 4 0.00
448 2 0.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (445 bp):
AGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACCCGAAAG
ATGTGACAGATGCATGCGGGTATCAGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCT
AATAAATTTCTTGAAACCCGAAAGATATGACAGATGCATGCGGGTATCAGATTCTTTCTAACACG
ACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAACCCGAAAGATGTGACAGATGCATGC
GGGTATCAGATTCTTTCTGACACGACAGAAAATATTTGACTAATGCCTAATAAATTTCTTGGAAC
CCGAAAGATGTGACAGATGCATGCGGGTATCAGATTCTTTCTGACACGACAAAAAATATTTGACT
AATGCCTAATAAATTTCTTGAAACCCGAAAGATGTGACAGATGCATGCGAGTATC
Found at i:315890 original size:2 final size:2
Alignment explanation
Indices: 315883--316048 Score: 122
Period size: 2 Copynumber: 92.0 Consensus size: 2
315873 TATTATATGT
*
315883 TA TA TA TA T- TA T- TA TG TA TA TA T- TA TA T- TA TA TA TA CTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
315922 TA TA TA T- TA T- TA TA T- TA TA TA T- TA TA TA T- 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 TA
* *
315958 TA T- TA TA T- TA TCA TA TA TA TA TA TA GT- TA TT TA TA TA TA TT
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
*
315999 TA TA T- TA -A TA TA TA -A TA TA TA -A CA TA -A TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
316035 TA TA -A TA TA -A TA TA
1 TA TA TA TA TA TA TA TA
316049 AAAAAAATTA
Statistics
Matches: 133, Mismatches: 7, Indels: 48
0.71 0.04 0.26
Matches are distributed among these distances:
1 21 0.16
2 107 0.80
3 5 0.04
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (2 bp):
TA
Found at i:316026 original size:19 final size:19
Alignment explanation
Indices: 316004--316048 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
315994 ATATTTATAT
316004 TAATATATA-ATATATAACA
1 TAATATATATA-ATATAACA
*
316023 TAATATATATAATATAATA
1 TAATATATATAATATAACA
316042 TAATATA
1 TAATATA
316049 AAAAAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 23 0.96
20 1 0.04
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
TAATATATATAATATAACA
Found at i:316037 original size:5 final size:5
Alignment explanation
Indices: 316015--316049 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
316005 AATATATAAT
*
316015 ATATA ACATA ATAT- ATATA ATATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA A
316050 AAAAAATTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (5 bp):
ATATA
Found at i:317325 original size:3 final size:3
Alignment explanation
Indices: 317317--317346 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
317307 ACATTTTCTC
317317 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
317347 TTCCTGCCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Done.