Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002061.1 Hibiscus syriacus cultivar Beakdansim tig00004198_pilon, whole genome shotgun sequence
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: 345124
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:8072 original size:3 final size:3
Alignment explanation
Indices: 8044--8128 Score: 71
Period size: 3 Copynumber: 27.7 Consensus size: 3
8034 TTTGGGCTTG
* * * * * *
8044 TAA TAT TAA CTAA TATA TAT TAA TAA TAA TAA TAA TTA TTA TTA TTA
1 TAA TAA TAA -TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
8091 TAA TTA TAA TAA TAA TTA TTA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
8129 TAAATAACAT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
3 64 0.91
4 6 0.09
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (3 bp):
TAA
Found at i:8122 original size:21 final size:21
Alignment explanation
Indices: 8069--8127 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
8059 TATATTAATA
* *
8069 ATAATAATAATTATTATTATT
1 ATAATAATAATAATAATTATT
*
8090 ATAATTATAATAATAATTATT
1 ATAATAATAATAATAATTATT
8111 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
8128 ATAAATAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATAATAATAATAATAATTATT
Found at i:9457 original size:60 final size:60
Alignment explanation
Indices: 9386--9499 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
9376 TACAAAAATA
* * *
9386 ATCCTTCAACTATGGAATATTATGTTATTAAGTGT-TTTGACTATTAAAATTTATTAGATG
1 ATCCTTCAACTATGGAACATGATGTTATTAAGT-TATTTGACTATTAAAAGTTATTAGATG
* * * *
9446 ATCCTTTAACTATTGAACATGATTTTATTGAGTTATTTGACTATTAAAAGTTAT
1 ATCCTTCAACTATGGAACATGATGTTATTAAGTTATTTGACTATTAAAAGTTAT
9500 AAAATAGTAC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
59 1 0.02
60 45 0.98
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (60 bp):
ATCCTTCAACTATGGAACATGATGTTATTAAGTTATTTGACTATTAAAAGTTATTAGATG
Found at i:9876 original size:19 final size:19
Alignment explanation
Indices: 9848--9884 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9838 AAAATCTTGA
*
9848 TAAAATAATATTTAATAAT
1 TAAAAAAATATTTAATAAT
*
9867 TAAAAAAATATTTTATAA
1 TAAAAAAATATTTAATAA
9885 CTTTTAATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAAAAAAATATTTAATAAT
Found at i:10704 original size:20 final size:20
Alignment explanation
Indices: 10633--10746 Score: 66
Period size: 20 Copynumber: 5.6 Consensus size: 20
10623 TAGTTGAAAA
*
10633 TCGCGTTGCGATTTTCCATT
1 TCGCATTGCGATTTTCCATT
* * ** **
10653 TCGCGTTGCGATAGTTGAAAA
1 TCGCATTGCGAT-TTTCCATT
**
10674 TCGCAACGCGATTTTCCATT
1 TCGCATTGCGATTTTCCATT
* ** **
10694 TCGCATTGCGATAGTTGAAAA
1 TCGCATTGCGAT-TTTCCATT
**
10715 TCGCAACGCGATTTTCCATT
1 TCGCATTGCGATTTTCCATT
10735 TCGCATTGCGAT
1 TCGCATTGCGAT
10747 AGTTGAAAAT
Statistics
Matches: 63, Mismatches: 29, Indels: 4
0.66 0.30 0.04
Matches are distributed among these distances:
20 38 0.60
21 25 0.40
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (20 bp):
TCGCATTGCGATTTTCCATT
Found at i:10767 original size:41 final size:41
Alignment explanation
Indices: 10608--10759 Score: 268
Period size: 41 Copynumber: 3.7 Consensus size: 41
10598 ATTCGCATTG
***
10608 CATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCATTGCGATAGTTGAAAATCGCAACGCGATTTTC
*
10649 CATTTCGCGTTGCGATAGTTGAAAATCGCAACGCGATTTTC
1 CATTTCGCATTGCGATAGTTGAAAATCGCAACGCGATTTTC
10690 CATTTCGCATTGCGATAGTTGAAAATCGCAACGCGATTTTC
1 CATTTCGCATTGCGATAGTTGAAAATCGCAACGCGATTTTC
10731 CATTTCGCATTGCGATAGTTGAAAATCGC
1 CATTTCGCATTGCGATAGTTGAAAATCGC
10760 GTTGCGATAG
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 106 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (41 bp):
CATTTCGCATTGCGATAGTTGAAAATCGCAACGCGATTTTC
Found at i:10897 original size:6 final size:6
Alignment explanation
Indices: 10886--10963 Score: 77
Period size: 6 Copynumber: 12.5 Consensus size: 6
10876 GACACGTATT
* *
10886 ACCACG ACCACG ACCACC AACACG TATTACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ----ACCACG ACCACG ACCACG ACCACG
* *
10938 ACCACG ACCTCG ACCTCG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACC
10964 CGAGACGGAT
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
5 5 0.08
6 53 0.84
10 5 0.08
ACGTcount: A:0.31, C:0.49, G:0.14, T:0.06
Consensus pattern (6 bp):
ACCACG
Found at i:10937 original size:28 final size:28
Alignment explanation
Indices: 10877--10930 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
10867 CGTGTCGAAG
10877 ACACGTATTACCACGACCACGACCACCA
1 ACACGTATTACCACGACCACGACCACCA
10905 ACACGTATTACCACGACCACGACCAC
1 ACACGTATTACCACGACCACGACCAC
10931 GACCACGACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.35, C:0.43, G:0.11, T:0.11
Consensus pattern (28 bp):
ACACGTATTACCACGACCACGACCACCA
Found at i:11457 original size:6 final size:6
Alignment explanation
Indices: 11448--11478 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
11438 GCCGCCGTCG
11448 TGGTAA TGGTAA TGGTAA TGGTAA TGGTAA T
1 TGGTAA TGGTAA TGGTAA TGGTAA TGGTAA T
11479 ACGTGTCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (6 bp):
TGGTAA
Found at i:11639 original size:41 final size:41
Alignment explanation
Indices: 11577--11711 Score: 198
Period size: 41 Copynumber: 3.3 Consensus size: 41
11567 AATTTGGAAA
* *
11577 ATCGCAACGCGAAATGAAAAATCGCGTTGCGGTTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCGTTGCGATTTTCAACT
* *
11618 ATCGCAACACGAAATGGAAAATCGCGTTGCAATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCGTTGCGATTTTCAACT
***
11659 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCGTTGCGATTTTCAACT
*
11700 ATCACAACGCGA
1 ATCGCAACGCGA
11712 TTTTCAACTA
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 84 1.00
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGAAATGGAAAATCGCGTTGCGATTTTCAACT
Found at i:11709 original size:21 final size:21
Alignment explanation
Indices: 11683--11732 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
11673 TGGAAAATCG
11683 CAACGCGATTTTCAACTATCA
1 CAACGCGATTTTCAACTATCA
*
11704 CAACGCGATTTTCAACTATCG
1 CAACGCGATTTTCAACTATCA
11725 CAACGCGA
1 CAACGCGA
11733 AATGAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (21 bp):
CAACGCGATTTTCAACTATCA
Found at i:11717 original size:62 final size:62
Alignment explanation
Indices: 11649--11773 Score: 214
Period size: 62 Copynumber: 2.0 Consensus size: 62
11639 TCGCGTTGCA
*
11649 ATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCACAACGCG
1 ATTTTCAACTATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTCAACTATCACAACGCG
** *
11711 ATTTTCAACTATCGCAACGCGAAATGAAAAATCGCATTGCGATTTTCAACTATCGCAACGCG
1 ATTTTCAACTATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTCAACTATCACAACGCG
11773 A
1 A
11774 AATAGAAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (62 bp):
ATTTTCAACTATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTCAACTATCACAACGCG
Found at i:11745 original size:82 final size:82
Alignment explanation
Indices: 11659--11858 Score: 188
Period size: 82 Copynumber: 2.4 Consensus size: 82
11649 ATTTTCAACT
* ** * *
11659 ATCGCAACGCGAAATGGAA-AATCGCAACGCGATTTTCAACTATCACAACGCGATTTTCAACTAT
1 ATCGCAACGCGAAATGCAACAATCGCAACGCGAAATACAA-AATCACAACGCGATTTTCAACTAT
11723 CGCAACGCGAAAT-GAAAA
65 CGCAACGCGAAATAG-AAA
** ** * * * * **
11741 ATCGCATTGCGATTTTCAACTATCGCAACGCGAAATAGAAAATCGCATTGCGATTTTCAACTATC
1 ATCGCAACGCGAAATGCAACAATCGCAACGCGAAATACAAAATCACAACGCGATTTTCAACTATC
11806 GCAACGCGAAATAGAAA
66 GCAACGCGAAATAGAAA
** * * *
11823 ATCGCAACGCGATTTTCAACTATCGCAATGCGAAAT
1 ATCGCAACGCGAAATGCAACAATCGCAACGCGAAAT
11859 GCAACACGAA
Statistics
Matches: 98, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
82 82 0.84
83 16 0.16
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (82 bp):
ATCGCAACGCGAAATGCAACAATCGCAACGCGAAATACAAAATCACAACGCGATTTTCAACTATC
GCAACGCGAAATAGAAA
Found at i:11756 original size:103 final size:103
Alignment explanation
Indices: 11609--11814 Score: 340
Period size: 103 Copynumber: 2.0 Consensus size: 103
11599 CGCGTTGCGG
* *
11609 TTTTCAACTATCGCAACACGAAATGGAAAATCGCGTTGCAATTTTCAACTATCGCAACGCGAAAT
1 TTTTCAACTATCGCAACACGAAATGAAAAATCGCATTGCAATTTTCAACTATCGCAACGCGAAAT
*
11674 GGAAAATCGCAACGCGATTTTCAACTATCACAACGCGA
66 AGAAAATCGCAACGCGATTTTCAACTATCACAACGCGA
* *
11712 TTTTCAACTATCGCAACGCGAAATGAAAAATCGCATTGCGATTTTCAACTATCGCAACGCGAAAT
1 TTTTCAACTATCGCAACACGAAATGAAAAATCGCATTGCAATTTTCAACTATCGCAACGCGAAAT
** *
11777 AGAAAATCGCATTGCGATTTTCAACTATCGCAACGCGA
66 AGAAAATCGCAACGCGATTTTCAACTATCACAACGCGA
11815 AATAGAAAAT
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
103 95 1.00
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (103 bp):
TTTTCAACTATCGCAACACGAAATGAAAAATCGCATTGCAATTTTCAACTATCGCAACGCGAAAT
AGAAAATCGCAACGCGATTTTCAACTATCACAACGCGA
Found at i:11760 original size:41 final size:41
Alignment explanation
Indices: 11708--11858 Score: 259
Period size: 41 Copynumber: 3.7 Consensus size: 41
11698 CTATCACAAC
11708 GCGATTTTCAACTATCGCAACGCGAAAT-GAAAAATCGCATT
1 GCGATTTTCAACTATCGCAACGCGAAATAG-AAAATCGCATT
11749 GCGATTTTCAACTATCGCAACGCGAAATAGAAAATCGCATT
1 GCGATTTTCAACTATCGCAACGCGAAATAGAAAATCGCATT
**
11790 GCGATTTTCAACTATCGCAACGCGAAATAGAAAATCGCAAC
1 GCGATTTTCAACTATCGCAACGCGAAATAGAAAATCGCATT
*
11831 GCGATTTTCAACTATCGCAATGCGAAAT
1 GCGATTTTCAACTATCGCAACGCGAAAT
11859 GCAACACGAA
Statistics
Matches: 106, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
41 105 0.99
42 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (41 bp):
GCGATTTTCAACTATCGCAACGCGAAATAGAAAATCGCATT
Found at i:11766 original size:21 final size:21
Alignment explanation
Indices: 11749--11855 Score: 83
Period size: 21 Copynumber: 5.2 Consensus size: 21
11739 AAATCGCATT
11749 GCGATTTTCAACTATCGCAAC
1 GCGATTTTCAACTATCGCAAC
** ** * **
11770 GCGAAATAGAA-AATCGCATT
1 GCGATTTTCAACTATCGCAAC
11790 GCGATTTTCAACTATCGCAAC
1 GCGATTTTCAACTATCGCAAC
** ** *
11811 GCGAAATAGAA-AATCGCAAC
1 GCGATTTTCAACTATCGCAAC
*
11831 GCGATTTTCAACTATCGCAAT
1 GCGATTTTCAACTATCGCAAC
11852 GCGA
1 GCGA
11856 AATGCAACAC
Statistics
Matches: 59, Mismatches: 25, Indels: 4
0.67 0.28 0.05
Matches are distributed among these distances:
20 28 0.47
21 31 0.53
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (21 bp):
GCGATTTTCAACTATCGCAAC
Found at i:11787 original size:20 final size:20
Alignment explanation
Indices: 11762--11834 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
11752 ATTTTCAACT
11762 ATCGCAACGCGAAATAGAAA
1 ATCGCAACGCGAAATAGAAA
** ** ** *
11782 ATCGCATTGCGATTTTCAACT
1 ATCGCAACGCGAAATAGAA-A
11803 ATCGCAACGCGAAATAGAAA
1 ATCGCAACGCGAAATAGAAA
11823 ATCGCAACGCGA
1 ATCGCAACGCGA
11835 TTTTCAACTA
Statistics
Matches: 38, Mismatches: 14, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
20 25 0.66
21 13 0.34
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAATAGAAA
Found at i:11837 original size:144 final size:144
Alignment explanation
Indices: 11577--11855 Score: 477
Period size: 144 Copynumber: 1.9 Consensus size: 144
11567 AATTTGGAAA
* * *
11577 ATCGCAACGCGAAATGAAAAATCGCGTTGCGGTTTTCAACTATCGCAACACGAAATGGAAAATCG
1 ATCGCAACGCGAAATGAAAAATCGCATTGCGATTTTCAACTATCGCAACACGAAATAGAAAATCG
* *
11642 CGTTGCAATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCACAA
66 CATTGCAATTTTCAACTATCGCAACGCGAAATAGAAAATCGCAACGCGATTTTCAACTATCACAA
11707 CGCGATTTTCAACT
131 CGCGATTTTCAACT
*
11721 ATCGCAACGCGAAATGAAAAATCGCATTGCGATTTTCAACTATCGCAACGCGAAATAGAAAATCG
1 ATCGCAACGCGAAATGAAAAATCGCATTGCGATTTTCAACTATCGCAACACGAAATAGAAAATCG
* *
11786 CATTGCGATTTTCAACTATCGCAACGCGAAATAGAAAATCGCAACGCGATTTTCAACTATCGCAA
66 CATTGCAATTTTCAACTATCGCAACGCGAAATAGAAAATCGCAACGCGATTTTCAACTATCACAA
*
11851 TGCGA
131 CGCGA
11856 AATGCAACAC
Statistics
Matches: 126, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
144 126 1.00
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (144 bp):
ATCGCAACGCGAAATGAAAAATCGCATTGCGATTTTCAACTATCGCAACACGAAATAGAAAATCG
CATTGCAATTTTCAACTATCGCAACGCGAAATAGAAAATCGCAACGCGATTTTCAACTATCACAA
CGCGATTTTCAACT
Found at i:13774 original size:7 final size:7
Alignment explanation
Indices: 13762--13786 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13752 GAGTGTGCGA
13762 GAAGAAG
1 GAAGAAG
13769 GAAGAAG
1 GAAGAAG
13776 GAAGAAG
1 GAAGAAG
13783 GAAG
1 GAAG
13787 GAGAAGAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (7 bp):
GAAGAAG
Found at i:14607 original size:30 final size:30
Alignment explanation
Indices: 14571--14685 Score: 212
Period size: 30 Copynumber: 3.8 Consensus size: 30
14561 TAATGCAAAA
**
14571 ATTTATTACAAGTAAATCAAACCTTAATCG
1 ATTTATTACAAGTAAATTTAACCTTAATCG
14601 ATTTATTACAAGTAAATTTAACCTTAATCG
1 ATTTATTACAAGTAAATTTAACCTTAATCG
14631 ATTTATTACAAGTAAATTTAACCTTAATCG
1 ATTTATTACAAGTAAATTTAACCTTAATCG
14661 ATTTATTACAAGTAAATTTAACCTT
1 ATTTATTACAAGTAAATTTAACCTT
14686 GAACGGATAG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.41, C:0.14, G:0.06, T:0.39
Consensus pattern (30 bp):
ATTTATTACAAGTAAATTTAACCTTAATCG
Found at i:22087 original size:24 final size:24
Alignment explanation
Indices: 22059--22114 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
22049 GGATGTGCAT
22059 TTTCTTTCCCCATTGTCTTAGAAC
1 TTTCTTTCCCCATTGTCTTAGAAC
22083 TTTCTTTCCCCATTGTCTTAGAAC
1 TTTCTTTCCCCATTGTCTTAGAAC
22107 TTTCTTTC
1 TTTCTTTC
22115 ACTTCCTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.14, C:0.29, G:0.07, T:0.50
Consensus pattern (24 bp):
TTTCTTTCCCCATTGTCTTAGAAC
Found at i:28393 original size:38 final size:38
Alignment explanation
Indices: 28342--28434 Score: 150
Period size: 38 Copynumber: 2.4 Consensus size: 38
28332 CTCGTATAAA
*
28342 TGTCCCGAAGGACCTATCATCCCGAAGGATGTCATCTG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
* *
28380 TGTCCCGAAGGACCTGTCATCTCGAAGGATGTAATCTG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
*
28418 TGTCCCGTAGGACCTAT
1 TGTCCCGAAGGACCTAT
28435 GATATGTCTT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.26
Consensus pattern (38 bp):
TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
Found at i:28998 original size:35 final size:35
Alignment explanation
Indices: 28952--29019 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
28942 TCATTTAGGG
28952 GGAATCGATACCCCCCAGGGGGAATCTGTTCCCGA
1 GGAATCGATACCCCCCAGGGGGAATCTGTTCCCGA
28987 GGAATCGATACCCCCCAGGGGGAATCTGTTCCC
1 GGAATCGATACCCCCCAGGGGGAATCTGTTCCC
29020 CCTGCACATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.22, C:0.32, G:0.28, T:0.18
Consensus pattern (35 bp):
GGAATCGATACCCCCCAGGGGGAATCTGTTCCCGA
Found at i:29021 original size:20 final size:20
Alignment explanation
Indices: 28948--29012 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
28938 TTTTTCATTT
28948 AGGGGGAATCGATACCCCCC
1 AGGGGGAATCGATACCCCCC
*
28968 AGGGGGAATCTG-T---TCCC
1 AGGGGGAATC-GATACCCCCC
*
28985 --GAGGAATCGATACCCCCC
1 AGGGGGAATCGATACCCCCC
29003 AGGGGGAATC
1 AGGGGGAATC
29013 TGTTCCCCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
14 1 0.03
15 8 0.24
17 3 0.09
18 3 0.09
20 18 0.53
21 1 0.03
ACGTcount: A:0.25, C:0.29, G:0.32, T:0.14
Consensus pattern (20 bp):
AGGGGGAATCGATACCCCCC
Found at i:35097 original size:38 final size:38
Alignment explanation
Indices: 35046--35141 Score: 140
Period size: 38 Copynumber: 2.5 Consensus size: 38
35036 CTCGTATAAA
*
35046 TGTCCCGAAGGACCTATCATCCCGAAGGATGTCAT-CTG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATAC-G
* *
35084 TGTCCCGAAGGACCTGTCATCCCGAATGATGTAATACG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATACG
*
35122 TGTCCCGTAGGACCTATCAT
1 TGTCCCGAAGGACCTATCAT
35142 ATGACTTATA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
38 51 0.98
39 1 0.02
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (38 bp):
TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATACG
Found at i:35108 original size:17 final size:17
Alignment explanation
Indices: 35048--35109 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 17
35038 CGTATAAATG
*
35048 TCCCGAAGGACCTATCA
1 TCCCGAAGGACCTGTCA
*
35065 TCCCGAAGGATGTCATCTGT-G
1 TCCCGAAGGA---C--CTGTCA
35086 TCCCGAAGGACCTGTCA
1 TCCCGAAGGACCTGTCA
35103 TCCCGAA
1 TCCCGAA
35110 TGATGTAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
16 4 0.11
17 17 0.47
18 1 0.03
20 1 0.03
21 10 0.28
22 3 0.08
ACGTcount: A:0.24, C:0.32, G:0.23, T:0.21
Consensus pattern (17 bp):
TCCCGAAGGACCTGTCA
Found at i:35712 original size:36 final size:36
Alignment explanation
Indices: 35665--35736 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
35655 TTCATTTAGG
35665 GGGGAATCGATACCCCCC-GAGGGGGAATCTGTTCCC
1 GGGGAATCGATACCCCCCAG-GGGGGAATCTGTTCCC
*
35701 GGGGAATCGATACTCCCCAGGGGGGAATCTGTTCCC
1 GGGGAATCGATACCCCCCAGGGGGGAATCTGTTCCC
35737 TCTGCACATA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 33 0.97
37 1 0.03
ACGTcount: A:0.19, C:0.29, G:0.33, T:0.18
Consensus pattern (36 bp):
GGGGAATCGATACCCCCCAGGGGGGAATCTGTTCCC
Found at i:39915 original size:20 final size:19
Alignment explanation
Indices: 39890--39940 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
39880 ACCTCTACTG
39890 GAGTATCAATACTCTACCCTT
1 GAGTATCAATAC-CT-CCCTT
*
39911 G-GTATCGATA-CTCCCTT
1 GAGTATCAATACCTCCCTT
39928 GAGTATCAATACC
1 GAGTATCAATACC
39941 AAAAATGGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 6 0.23
18 10 0.38
19 1 0.04
20 8 0.31
21 1 0.04
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.31
Consensus pattern (19 bp):
GAGTATCAATACCTCCCTT
Found at i:44665 original size:26 final size:26
Alignment explanation
Indices: 44636--44687 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
44626 CGATCGAGAT
*
44636 TACAAGTCGTCACAAAGGGAGAGTTG
1 TACAAATCGTCACAAAGGGAGAGTTG
*
44662 TACAAATCGTTACAAAGGGAGAGTTG
1 TACAAATCGTCACAAAGGGAGAGTTG
44688 CTCAAGTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.21
Consensus pattern (26 bp):
TACAAATCGTCACAAAGGGAGAGTTG
Found at i:51113 original size:20 final size:20
Alignment explanation
Indices: 51049--51116 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
51039 TGACCCTAGG
* * *
51049 GTATCGATACTGCAAGTATA
1 GTATCAATACTGTAAGTAAA
* *
51069 GTATCGATACTGTAAGT-AG
1 GTATCAATACTGTAAGTAAA
51088 GTATCAATACTGTAAGTAAA
1 GTATCAATACTGTAAGTAAA
51108 GTATCAATA
1 GTATCAATA
51117 GTTGACCATA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
19 16 0.38
20 26 0.62
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (20 bp):
GTATCAATACTGTAAGTAAA
Found at i:53212 original size:45 final size:46
Alignment explanation
Indices: 53085--53353 Score: 332
Period size: 45 Copynumber: 6.0 Consensus size: 46
53075 CCATAAGTGG
* * * *
53085 CACCTTTTATGTCAATAATGCATCGTTATGTATTTTTCATTTATGA
1 CACCTTTTATGCCAATAATGCACCATTATGCATTTTTCATTTATGA
* * *
53131 CACATTTTATGCCAATAATGCACCATTATACA-TTTTCATTTATGG
1 CACCTTTTATGCCAATAATGCACCATTATGCATTTTTCATTTATGA
* *
53176 CACC-TTTATGCCAATAATGTACCGTTATGCATTTTTCATTTATGA
1 CACCTTTTATGCCAATAATGCACCATTATGCATTTTTCATTTATGA
* * * *
53221 CACATTTTCTACCAATAATGCACCGTTATGCA-TTTTCATTTATGA
1 CACCTTTTATGCCAATAATGCACCATTATGCATTTTTCATTTATGA
* * * * *
53266 CACCTTTTTTGCCAATAATGCATCATTTTGTATTTTT-ATTTATGG
1 CACCTTTTATGCCAATAATGCACCATTATGCATTTTTCATTTATGA
*
53311 CACCTTTTATGCTAATAATGCACCATTATGCATTTTT-ATTTAT
1 CACCTTTTATGCCAATAATGCACCATTATGCATTTTTCATTTAT
53354 TTCAATAACA
Statistics
Matches: 191, Mismatches: 29, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
44 24 0.13
45 113 0.59
46 54 0.28
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.45
Consensus pattern (46 bp):
CACCTTTTATGCCAATAATGCACCATTATGCATTTTTCATTTATGA
Found at i:53243 original size:90 final size:91
Alignment explanation
Indices: 53082--53353 Score: 386
Period size: 90 Copynumber: 3.0 Consensus size: 91
53072 ATACCATAAG
*
53082 TGGCACCTTTTATGTCAATAATGCATCGTTATGTATTTTTCATTTATGACACATTTTATGCCAAT
1 TGGCACCTTTTATGCCAATAATGCATCGTTATGTATTTTTCATTTATGACACATTTTATGCCAAT
*
53147 AATGCACCATTATACATTTTCATTTA
66 AATGCACCATTATGCATTTTCATTTA
* * * * *
53173 TGGCACC-TTTATGCCAATAATGTACCGTTATGCATTTTTCATTTATGACACATTTTCTACCAAT
1 TGGCACCTTTTATGCCAATAATGCATCGTTATGTATTTTTCATTTATGACACATTTTATGCCAAT
*
53237 AATGCACCGTTATGCATTTTCATTTA
66 AATGCACCATTATGCATTTTCATTTA
* * * * * * *
53263 TGACACCTTTTTTGCCAATAATGCATCATTTTGTATTTTT-ATTTATGGCACCTTTTATGCTAAT
1 TGGCACCTTTTATGCCAATAATGCATCGTTATGTATTTTTCATTTATGACACATTTTATGCCAAT
*
53327 AATGCACCATTATGCATTTTTATTTA
66 AATGCACCATTATGCATTTTCATTTA
53353 T
1 T
53354 TTCAATAACA
Statistics
Matches: 158, Mismatches: 22, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
90 125 0.79
91 33 0.21
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.44
Consensus pattern (91 bp):
TGGCACCTTTTATGCCAATAATGCATCGTTATGTATTTTTCATTTATGACACATTTTATGCCAAT
AATGCACCATTATGCATTTTCATTTA
Found at i:53280 original size:135 final size:136
Alignment explanation
Indices: 53097--53353 Score: 383
Period size: 135 Copynumber: 1.9 Consensus size: 136
53087 CCTTTTATGT
* *
53097 CAATAATGCATCGTTATGTATTTTTCATTTATGACACATTTTATGCCAATAATGCACCATTATAC
1 CAATAATGCACCGTTATGCATTTTTCATTTATGACACATTTTATGCCAATAATGCACCATTATAC
* *
53162 ATTTTCATTTATGGCACC-TTTATGCCAATAATGTACCGTTATGCATTTTTCATTTATGACACAT
66 ATTTTCATTTATGGCACCTTTTATGCCAATAATGCACCATTATGCATTTTT-ATTTATGACACAT
53226 TTTCTAC
130 TTTCTAC
* * * * **
53233 CAATAATGCACCGTTATGCA-TTTTCATTTATGACACCTTTTTTGCCAATAATGCATCATTTTGT
1 CAATAATGCACCGTTATGCATTTTTCATTTATGACACATTTTATGCCAATAATGCACCATTATAC
* *
53297 ATTTTTATTTATGGCACCTTTTATGCTAATAATGCACCATTATGCATTTTTATTTAT
66 ATTTTCATTTATGGCACCTTTTATGCCAATAATGCACCATTATGCATTTTTATTTAT
53354 TTCAATAACA
Statistics
Matches: 108, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
135 61 0.56
136 47 0.44
ACGTcount: A:0.28, C:0.18, G:0.10, T:0.44
Consensus pattern (136 bp):
CAATAATGCACCGTTATGCATTTTTCATTTATGACACATTTTATGCCAATAATGCACCATTATAC
ATTTTCATTTATGGCACCTTTTATGCCAATAATGCACCATTATGCATTTTTATTTATGACACATT
TTCTAC
Found at i:60232 original size:45 final size:45
Alignment explanation
Indices: 60176--60304 Score: 197
Period size: 45 Copynumber: 2.9 Consensus size: 45
60166 AAGTGACACC
* * *
60176 TTTTATGCCAATAATACACTGTTATGTATTTTTATTTATGGCACA
1 TTTTCTGCCAATAATGCACTGTTATGCATTTTTATTTATGGCACA
* *
60221 TTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACA
1 TTTTCTGCCAATAATGCACTGTTATGCATTTTTATTTATGGCACA
60266 TTTTCTGCCAATAATGCA-TCGTTATGCATTTTTATTTAT
1 TTTTCTGCCAATAATGCACT-GTTATGCATTTTTATTTAT
60305 TTCGGTAACA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
45 76 1.00
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.46
Consensus pattern (45 bp):
TTTTCTGCCAATAATGCACTGTTATGCATTTTTATTTATGGCACA
Found at i:67559 original size:15 final size:15
Alignment explanation
Indices: 67539--67567 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
67529 TTTTTTAAGT
67539 TATTTTATAAAATTG
1 TATTTTATAAAATTG
67554 TATTTTATAAAATT
1 TATTTTATAAAATT
67568 TTGAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTTTATAAAATTG
Found at i:67802 original size:21 final size:21
Alignment explanation
Indices: 67778--67821 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
67768 TTTTTCTCTT
*
67778 AAATTTTTAAGCATATACA-TA
1 AAATTATT-AGCATATACACTA
*
67799 AAATTATTATCATATACACTA
1 AAATTATTAGCATATACACTA
67820 AA
1 AA
67822 CTGATCCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.36
Consensus pattern (21 bp):
AAATTATTAGCATATACACTA
Found at i:69477 original size:19 final size:20
Alignment explanation
Indices: 69435--69477 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
69425 TTATTTCTTT
**
69435 TTTTTTTCCTTTGATTGTAG
1 TTTTTTTCCTTTGACCGTAG
69455 TTTTTTTCCTTTGACCGTA-
1 TTTTTTTCCTTTGACCGTAG
69474 TTTT
1 TTTT
69478 CTTTTTTCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.09, C:0.14, G:0.12, T:0.65
Consensus pattern (20 bp):
TTTTTTTCCTTTGACCGTAG
Found at i:79880 original size:20 final size:20
Alignment explanation
Indices: 79851--79902 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
79841 ATTCTTAAGG
*
79851 AGTTTCGATACTTCATGAAA
1 AGTTTTGATACTTCATGAAA
** *
79871 AGTTTTGATACTTTGTTAAA
1 AGTTTTGATACTTCATGAAA
79891 AGTTTTGATACT
1 AGTTTTGATACT
79903 ATTCATGTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (20 bp):
AGTTTTGATACTTCATGAAA
Found at i:82436 original size:51 final size:51
Alignment explanation
Indices: 82381--82485 Score: 210
Period size: 51 Copynumber: 2.1 Consensus size: 51
82371 ATACATCACT
82381 AATAGGTTTAAAATAAGATCTTTTGTGTTTGCCCTTAGCACATGCATCATA
1 AATAGGTTTAAAATAAGATCTTTTGTGTTTGCCCTTAGCACATGCATCATA
82432 AATAGGTTTAAAATAAGATCTTTTGTGTTTGCCCTTAGCACATGCATCATA
1 AATAGGTTTAAAATAAGATCTTTTGTGTTTGCCCTTAGCACATGCATCATA
82483 AAT
1 AAT
82486 TTTATCAAGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (51 bp):
AATAGGTTTAAAATAAGATCTTTTGTGTTTGCCCTTAGCACATGCATCATA
Found at i:90742 original size:20 final size:20
Alignment explanation
Indices: 90719--90764 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
90709 CTAAAGTATA
*
90719 GAAACT-TTAAGGAAAGTTTT
1 GAAACTCTTAA-GAAAGTTTC
*
90739 GAAACTCTTAAGATAGTTTC
1 GAAACTCTTAAGAAAGTTTC
90759 GAAACT
1 GAAACT
90765 ACATGAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (20 bp):
GAAACTCTTAAGAAAGTTTC
Found at i:91629 original size:15 final size:14
Alignment explanation
Indices: 91595--91640 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 14
91585 CTGTCCATAT
91595 TATTTATT-TATT-
1 TATTTATTATATTA
* *
91607 TATTTATTTTCTTA
1 TATTTATTATATTA
91621 TATTATATTATATTA
1 TATT-TATTATATTA
91636 TATTT
1 TATTT
91641 TTTGTTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 8 0.29
13 3 0.11
14 5 0.18
15 12 0.43
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (14 bp):
TATTTATTATATTA
Found at i:94706 original size:105 final size:105
Alignment explanation
Indices: 94549--95744 Score: 1924
Period size: 105 Copynumber: 11.4 Consensus size: 105
94539 GTATTGTTCC
* ** * * * * ** *
94549 GGAGTCCAATATCATTCACTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATGTCGGTTGACAG
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAA
* * ****
94614 TCAGCGGCCCCTTCGTCGTGAAGTTGAACTTATACTGTCT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
94654 TGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAA
* *
94719 CCAGCGGTCCATTCGTCGTGAAGTTGAACTTGCGTCGTCT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
** *
94759 GGAGTCCAATATCCTTCGTTACGAAGTTGAAATTGGCTCTGAAATTGAGAAACGTTTGTTGACAA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAA
*
94824 CCAGCGGTCCCTTCGTCGTGAAGTTGAGCTTGCGTTGTCT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
94864 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGGAATTGAGAAATGTTTGTTGACAG
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAA
94929 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* **
94969 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGGTATTGAGAAATGTTTGTTGACAA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAA
*
95034 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
** * *
95074 GGAGTCCAATATCCTTCGTTGTGAAGAAGAAATTGGCTTTGAAATTGAGAAATGTTCGTTGACAA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAA
95139 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
95179 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGGAATTGAGAAATGTTTATTGACAA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAA
95244 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* **
95284 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGGTATTGAGAAATGTTTGTTGACAA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAA
*
95349 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
** * *
95389 GGAGTCCAATATCCTTCGTTGTGAAGCAGAAATTGGCTTTGAAATTGAGAAATGTTCGTTGACAA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAA
95454 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
95494 GGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAA
95559 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
95599 GGAGTCCAATATCCTTCGTTGTGAAGTGGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAA
*
95664 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
95704 AGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
95745 GGTAAAACCT
Statistics
Matches: 1014, Mismatches: 77, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
105 1014 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (105 bp):
GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:96569 original size:1 final size:1
Alignment explanation
Indices: 96565--96613 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
96555 CTCTTTTTGG
* * * * *
96565 TTTTTTGTTTTTGTTTTTTTGTTTTTTTTTGTTTTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
96614 CCAACTTAGG
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (1 bp):
T
Found at i:96569 original size:8 final size:7
Alignment explanation
Indices: 96558--96612 Score: 60
Period size: 7 Copynumber: 7.9 Consensus size: 7
96548 CGTTTTTCTC
*
96558 TTTTTGG
1 TTTTTTG
96565 TTTTTTG
1 TTTTTTG
96572 -TTTTTG
1 TTTTTTG
96578 TTTTTTTG
1 -TTTTTTG
96586 TTTTTT-
1 TTTTTTG
*
96592 TTTGTTTT
1 TTT-TTTG
96600 TTTTTTG
1 TTTTTTG
96607 TTTTTT
1 TTTTTT
96613 TCCAACTTAG
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
6 9 0.21
7 24 0.57
8 9 0.21
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (7 bp):
TTTTTTG
Found at i:96582 original size:21 final size:21
Alignment explanation
Indices: 96549--96613 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
96539 CACCCTAAAC
96549 GTTTTTCTCTTTTTGGTTTTTT
1 GTTTTTCT-TTTTTGGTTTTTT
* *
96571 GTTTTTGTTTTTTTGTTTTTT
1 GTTTTTCTTTTTTGGTTTTTT
* * *
96592 TTTGTTTTTTTTTTGTTTTTTT
1 GTT-TTTCTTTTTTGGTTTTTT
96614 CCAACTTAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
21 14 0.39
22 22 0.61
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (21 bp):
GTTTTTCTTTTTTGGTTTTTT
Found at i:96613 original size:8 final size:8
Alignment explanation
Indices: 96558--96613 Score: 59
Period size: 8 Copynumber: 7.6 Consensus size: 8
96548 CGTTTTTCTC
*
96558 TTTTTGGT
1 TTTTTGTT
96566 TTTTTG--
1 TTTTTGTT
96572 TTTTTGTT
1 TTTTTGTT
96580 TTTTTG-T
1 TTTTTGTT
96587 TTTTT-TT
1 TTTTTGTT
*
96594 TGTTT-TT
1 TTTTTGTT
96601 TTTTTGTT
1 TTTTTGTT
96609 TTTTT
1 TTTTT
96614 CCAACTTAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
6 6 0.14
7 17 0.40
8 19 0.45
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (8 bp):
TTTTTGTT
Found at i:96613 original size:14 final size:14
Alignment explanation
Indices: 96558--96613 Score: 69
Period size: 14 Copynumber: 3.9 Consensus size: 14
96548 CGTTTTTCTC
* *
96558 TTTTTGGTTTTTTG
1 TTTTTGTTTTTTTT
96572 TTTTTGTTTTTTTGT
1 TTTTTGTTTTTTT-T
96587 TTTTT-TTTGTTTTT
1 TTTTTGTTT-TTTTT
96601 TTTTTGTTTTTTT
1 TTTTTGTTTTTTT
96614 CCAACTTAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
14 25 0.68
15 12 0.32
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (14 bp):
TTTTTGTTTTTTTT
Found at i:103753 original size:14 final size:15
Alignment explanation
Indices: 103734--103781 Score: 55
Period size: 14 Copynumber: 3.2 Consensus size: 15
103724 ATACGAATGT
103734 AAAAACATGAAAA-A
1 AAAAACATGAAAATA
103748 AAAAACAT-AAAATA
1 AAAAACATGAAAATA
*
103762 AACAGACATGAAATATA
1 AA-AAACATGAAA-ATA
103779 AAA
1 AAA
103782 TGCAAGAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
13 4 0.14
14 11 0.38
15 5 0.17
16 4 0.14
17 5 0.17
ACGTcount: A:0.73, C:0.08, G:0.06, T:0.12
Consensus pattern (15 bp):
AAAAACATGAAAATA
Found at i:111672 original size:15 final size:15
Alignment explanation
Indices: 111638--111677 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
111628 ATGTACATGT
* *
111638 ATATATTATGTATAAT
1 ATATATT-TTTATAAA
111654 ATATATTTTTATAAA
1 ATATATTTTTATAAA
111669 ATATATTTT
1 ATATATTTT
111678 AATTCTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
ATATATTTTTATAAA
Found at i:113985 original size:43 final size:43
Alignment explanation
Indices: 113925--114256 Score: 209
Period size: 43 Copynumber: 7.8 Consensus size: 43
113915 ACAAAAAATG
* *
113925 CCGCAATAGGTCAATATCTATTA-CGGCGTTTTTTAAACAAACA
1 CCGCAAAAGGTCAATATCTA-TAGCGGCGTTTTTGAAACAAACA
* * * *
113968 CCGTAAAAGGTCGATATCTATAGCGGCGTTTTTGGAACAAACG
1 CCGCAAAAGGTCAATATCTATAGCGGCGTTTTTGAAACAAACA
* * * * *
114011 CCGCAAAAAGT-TATGATATATAGCGGCGTTTCTAGAAA-AAACG
1 CCGCAAAAGGTCAAT-ATCTATAGCGGCGTTT-TTGAAACAAACA
* * * *
114054 CCGCAAAAAGTC-AGATCTATAGCGGCGTTTTTGGATACAAACG
1 CCGCAAAAGGTCAATATCTATAGCGGCGTTTTT-GAAACAAACA
* * *
114097 CCGCAAAAGAG-C-AGACCTATA-CTGGCGTTTTT-AGAACAAACG
1 CCGCAAAAG-GTCAATATCTATAGC-GGCGTTTTTGA-AACAAACA
* * * * *
114139 CCGCAAAAGTTC-AGACCTATAGCGGCGTTTTTTGACACAAACG
1 CCGCAAAAGGTCAATATCTATAGCGGCG-TTTTTGAAACAAACA
* * * * * *
114182 CTGCTAAAGGTCAA-ACCTATAACGACGTTTTTGAACACAAACG
1 CCGCAAAAGGTCAATATCTATAGCGGCGTTTTTGAA-ACAAACA
* * * *
114225 CCGCAAAAAGTC-AGACCTATAGCAGCGTTTTT
1 CCGCAAAAGGTCAATATCTATAGCGGCGTTTTT
114257 TGGATACAAA
Statistics
Matches: 240, Mismatches: 33, Indels: 32
0.79 0.11 0.10
Matches are distributed among these distances:
41 2 0.01
42 61 0.25
43 170 0.71
44 7 0.03
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (43 bp):
CCGCAAAAGGTCAATATCTATAGCGGCGTTTTTGAAACAAACA
Found at i:114080 original size:128 final size:125
Alignment explanation
Indices: 113917--114272 Score: 367
Period size: 128 Copynumber: 2.8 Consensus size: 125
113907 GTTTGAGAAC
* * * * *
113917 AAAAAATGCCGCAATAGGTCAATATCTATTACGGCGTTTTTTAAACAAACACCGTAAAAGGTCGA
1 AAAAAACGCCGCAAAAGGTCAA-ATCTA-TACGGCGTTTTTGAAACAAACGCCGCAAAAGGTC-A
* * *
113982 TATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAAGTT-ATGATATATAGCGGCGTTTCTAG
63 GACCTATAGCGGCGTTTTTGGAACAAACGCCGC-AAAAGTTCA-GACATATAGCGGCGTTTCTAG
* * *
114046 AAAAAACGCCGCAAAAAGTCAGATCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGAG-CA
1 AAAAAACGCCGCAAAAGGTCAAATCTATA-CGGCGTTTTT-GAAACAAACGCCGCAAAAG-GTCA
* * * *
114110 GACCTATA-CTGGCGTTTTTAGAACAAACGCCGCAAAAGTTCAGACCTATAGCGGCGTTTTTTG
63 GACCTATAGC-GGCGTTTTTGGAACAAACGCCGCAAAAGTTCAGACATATAGCGGCGTTTCTAG
* * * * * *
114173 ACACAAACGCTGCTAAAGGTCAAACCTATAACGACGTTTTTGAACACAAACGCCGCAAAAAGTCA
1 A-AAAAACGCCGCAAAAGGTCAAATCTAT-ACGGCGTTTTTGAA-ACAAACGCCGCAAAAGGTCA
*
114238 GACCTATAGCAGCGTTTTTTGGATACAAACGCCGC
63 GACCTATAGCGGCG-TTTTTGGA-ACAAACGCCGC
114273 TAATTACCTT
Statistics
Matches: 189, Mismatches: 26, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
127 31 0.16
128 103 0.54
129 43 0.23
130 12 0.06
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (125 bp):
AAAAAACGCCGCAAAAGGTCAAATCTATACGGCGTTTTTGAAACAAACGCCGCAAAAGGTCAGAC
CTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGTTCAGACATATAGCGGCGTTTCTAG
Found at i:114082 original size:85 final size:83
Alignment explanation
Indices: 113985--114272 Score: 330
Period size: 85 Copynumber: 3.4 Consensus size: 83
113975 AGGTCGATAT
* **
113985 CTATAGCGGCGTTTTTGGA-ACAAACGCCGCAAAAAGTTATGATATATAGCGGCGTTTCTAGAAA
1 CTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAAGTCA-GACCTATA-CGGCGTTT-TAGAAA
*
114049 AAACGCCGCAAAAAGTCAGAT
63 AAACGCCGCAAAAAGTCAGAC
*
114070 CTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGAG-CAGACCTATACTGGCGTTTTTAGAAC
1 CTATAGCGGCGTTTTTGGATACAAACGCCGCAAAA-AGTCAGACCTATAC-GGCG-TTTTAGAAA
114134 AAACGCCGC-AAAAGTTCAGAC
63 AAACGCCGCAAAAAG-TCAGAC
* * * * * * * *
114155 CTATAGCGGCGTTTTTTGACACAAACGCTGCTAAAGGTCAAACCTATAACGACGTTTTTGAACAC
1 CTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAAGTCAGACCTAT-ACGGCGTTTTAGAA-A-
114220 AAACGCCGCAAAAAGTCAGAC
63 AAACGCCGCAAAAAGTCAGAC
*
114241 CTATAGCAGCGTTTTTTGGATACAAACGCCGC
1 CTATAGCGGCG-TTTTTGGATACAAACGCCGC
114273 TAATTACCTT
Statistics
Matches: 174, Mismatches: 18, Indels: 20
0.82 0.08 0.09
Matches are distributed among these distances:
84 14 0.08
85 90 0.52
86 46 0.26
87 24 0.14
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.23
Consensus pattern (83 bp):
CTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAAGTCAGACCTATACGGCGTTTTAGAAAAAA
CGCCGCAAAAAGTCAGAC
Found at i:117441 original size:41 final size:41
Alignment explanation
Indices: 117262--117626 Score: 337
Period size: 42 Copynumber: 8.8 Consensus size: 41
117252 ACAATCAAAT
*
117262 TACGAGTCTATAGCGGCGTTTG-GTATTAAAACGCCACAAAAG
1 TACGAGTCTATAGCGGCGTTTGTGTA--AAAACGCCACTAAAG
** *
117304 TACGTTTCTATAGCGGCGTTTGTGTAAAAAACGCCATTAAAG
1 TACGAGTCTATAGCGGCGTTTGTGT-AAAAACGCCACTAAAG
* *
117346 TACGAATCTATAGCGGCGTTTG-GTATTAAAACGCCACAAAAG
1 TACGAGTCTATAGCGGCGTTTGTGTA--AAAACGCCACTAAAG
* * *
117388 TACGTGTCTATAGCGGCGTTTGTGTAAAAATGTCACTAAAG
1 TACGAGTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAG
*
117429 TACGAGTCTATAGCGGCGTTTG-GTATTAAAACGCCACAAAAG
1 TACGAGTCTATAGCGGCGTTTGTGTA--AAAACGCCACTAAAG
* * *
117471 TAC-ATGTCTATAGCGGCGTTTATATAAAAACGCCACTAAAA
1 TACGA-GTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAG
** * * * * *
117512 TACTTGTTTATAGCGGCGTTTGTATAAAAAAGCCACTACAT
1 TACGAGTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAG
* * * * * *
117553 TACAATTCTTTAGCGGCGTTTTTATACAAACGCCACTAAAG
1 TACGAGTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAG
* * * *
117594 TA-TAGTATTTTGCGGCGTTTGT-TCAAAAACGCC
1 TACGAGTCTATAGCGGCGTTTGTGT-AAAAACGCC
117627 GCTATATATA
Statistics
Matches: 269, Mismatches: 43, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
39 1 0.00
40 27 0.10
41 116 0.43
42 117 0.43
43 7 0.03
44 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (41 bp):
TACGAGTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAG
Found at i:117469 original size:83 final size:83
Alignment explanation
Indices: 117262--117595 Score: 438
Period size: 83 Copynumber: 4.0 Consensus size: 83
117252 ACAATCAAAT
*
117262 TACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTTTCTATAGCGGCGTTTGT
1 TACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTTTGT
*
117327 GTAAAAAACGCCATTAAAG
66 GT-AAAAACGCCACTAAAG
*
117346 TACGAATCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTTTGT
1 TACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTTTGT
* *
117411 GTAAAAATGTCACTAAAG
66 GTAAAAACGCCACTAAAG
* *
117429 TACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTACATGTCTATAGCGGCGTTTAT
1 TACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTTTGT
* *
117494 ATAAAAACGCCACTAAAA
66 GTAAAAACGCCACTAAAG
** * * * * * * * * *
117512 TACTTGTTTATAGCGGCGTTT-GTATAAAAAAGCCACTACATTACAAT-TCTTTAGCGGCGTTTT
1 TACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTAC-GTGTCTATAGCGGCGTTTG
* *
117575 TATACAAACGCCACTAAAG
65 TGTAAAAACGCCACTAAAG
117594 TA
1 TA
117596 TAGTATTTTG
Statistics
Matches: 225, Mismatches: 24, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
82 51 0.23
83 109 0.48
84 65 0.29
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (83 bp):
TACGAGTCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTTTGT
GTAAAAACGCCACTAAAG
Found at i:125962 original size:27 final size:27
Alignment explanation
Indices: 125919--125986 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
125909 AGTGAAAAAG
*
125919 AGAGAAAAGAGTGCCAAAAGTGTGAGCT
1 AGAG-AAAGAGAGCCAAAAGTGTGAGCT
125947 AGAGAAAGAGAGCCAAAAGTGTGAGCT
1 AGAGAAAGAGAGCCAAAAGTGTGAGCT
125974 AGAGAAAGAGAGC
1 AGAGAAAGAGAGC
125987 TTTAGAGATA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 35 0.90
28 4 0.10
ACGTcount: A:0.46, C:0.10, G:0.34, T:0.10
Consensus pattern (27 bp):
AGAGAAAGAGAGCCAAAAGTGTGAGCT
Found at i:128291 original size:23 final size:22
Alignment explanation
Indices: 128239--128366 Score: 102
Period size: 21 Copynumber: 5.8 Consensus size: 22
128229 AAGTCGAGGG
*
128239 TTCTATGCGGTCCTTCAGGAAA
1 TTCTATGTGGTCCTTCAGGAAA
*
128261 -TCTATGTGGTCCTTCGGGATAA
1 TTCTATGTGGTCCTTCAGGA-AA
* ** *
128283 TTCTATGTGGTCTTTTGGGATA
1 TTCTATGTGGTCCTTCAGGAAA
* *
128305 TTGCTATGCGGTCATTC-GGAACA
1 TT-CTATGTGGTCCTTCAGGAA-A
* *
128328 -TATATGTGGTCCTTCAGGACA
1 TTCTATGTGGTCCTTCAGGAAA
128349 TTCTATGTGG-CACTTCAG
1 TTCTATGTGGTC-CTTCAG
128367 TGCAATTTTT
Statistics
Matches: 85, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
21 30 0.35
22 26 0.31
23 29 0.34
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.37
Consensus pattern (22 bp):
TTCTATGTGGTCCTTCAGGAAA
Found at i:131924 original size:19 final size:19
Alignment explanation
Indices: 131876--131933 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
131866 TCGAAGTAGG
* *
131876 GTATCGATACAGAAGTATA
1 GTATCGATACCGAAATATA
131895 GTATCGATACCGAAATATA
1 GTATCGATACCGAAATATA
131914 GTATCGATACC-ATAATATA
1 GTATCGATACCGA-AATATA
131933 G
1 G
131934 AAGTATCGGT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
18 1 0.03
19 35 0.97
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (19 bp):
GTATCGATACCGAAATATA
Found at i:132760 original size:23 final size:23
Alignment explanation
Indices: 132653--132765 Score: 115
Period size: 23 Copynumber: 5.0 Consensus size: 23
132643 GAGTCGAGGG
* *
132653 TTCTACGCGATCCTTTGGGACA-
1 TTCTACGCGGTCCTTCGGGACAT
* * **
132675 -TCTATGTGGTCCTTCGAAACAAT
1 TTCTACGCGGTCCTTCGGGAC-AT
* * *
132698 TT-TATGTGGTCCTTCGAGACAT
1 TTCTACGCGGTCCTTCGGGACAT
132720 TTCTACGCGGTCCTTCGGGACAT
1 TTCTACGCGGTCCTTCGGGACAT
132743 TTCTACGCGGTCCTTCGGGACAT
1 TTCTACGCGGTCCTTCGGGACAT
132766 ATATGTGGTC
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
21 14 0.18
22 5 0.06
23 57 0.74
24 1 0.01
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.34
Consensus pattern (23 bp):
TTCTACGCGGTCCTTCGGGACAT
Found at i:134398 original size:3 final size:3
Alignment explanation
Indices: 134373--134429 Score: 60
Period size: 3 Copynumber: 18.7 Consensus size: 3
134363 CATTTTCATT
* ** * *
134373 TTA TTA TTT TTA AAA TTA CTA TTA TTA TTA TTA ATA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
134419 TTA TTA TTA TT
1 TTA TTA TTA TT
134430 TAATAAATAA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:136652 original size:26 final size:26
Alignment explanation
Indices: 136601--136657 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 26
136591 TAATTCTTTC
136601 TTTTCAAAATTTTATATATACTTATTA
1 TTTTCAAAATTTTATATATAC-TATTA
*
136628 TTTTCATAATATTTATATATA-TATTA
1 TTTTCAAAAT-TTTATATATACTATTA
136654 TTTT
1 TTTT
136658 TATTAATGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 9 0.32
27 9 0.32
28 10 0.36
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTTCAAAATTTTATATATACTATTA
Found at i:136678 original size:26 final size:26
Alignment explanation
Indices: 136601--136657 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
136591 TAATTCTTTC
*
136601 TTTTCAAAAT-TTTATATATACTTATTA
1 TTTTCATAATATTTATATAT--TTATTA
*
136628 TTTTCATAATATTTATATATATATTA
1 TTTTCATAATATTTATATATTTATTA
136654 TTTT
1 TTTT
136658 TATTAATGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 9 0.33
27 9 0.33
28 9 0.33
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTTCATAATATTTATATATTTATTA
Found at i:138306 original size:20 final size:20
Alignment explanation
Indices: 138273--138311 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
138263 TGCATTTTTG
* *
138273 CATTTTTATGTTTGTATTTA
1 CATTTTCATGTTTGCATTTA
*
138293 CATTTTCATTTTTGCATTT
1 CATTTTCATGTTTGCATTT
138312 GCATCTTTGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.10, G:0.08, T:0.64
Consensus pattern (20 bp):
CATTTTCATGTTTGCATTTA
Found at i:144855 original size:54 final size:54
Alignment explanation
Indices: 144756--144908 Score: 200
Period size: 54 Copynumber: 2.9 Consensus size: 54
144746 AAATATGTGT
* * * *
144756 AGAAAACACAAGAAAGAATGAATGT-TTGTCAAATGCTTTACGAACATCTGGGC
1 AGAAACCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAGC
* * *
144809 AGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTATGAACATCTGAGC
1 AGAAACCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAGC
* * * *
144863 AGAAACCACATGAGATGATGAATGTGTTGTCAAGTGTTTTACGAAC
1 AGAAACCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
144909 CAGTAATTAT
Statistics
Matches: 86, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 21 0.24
54 65 0.76
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (54 bp):
AGAAACCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAGC
Found at i:145299 original size:22 final size:22
Alignment explanation
Indices: 145271--145325 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
145261 ACATCTACAC
145271 TTTTCAAAGATAATAGATTCTA
1 TTTTCAAAGATAATAGATTCTA
145293 TTTTCAAAGATAATAGATTCTA
1 TTTTCAAAGATAATAGATTCTA
145315 TTTTCAAAGAT
1 TTTTCAAAGAT
145326 GAACGCTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (22 bp):
TTTTCAAAGATAATAGATTCTA
Found at i:146094 original size:45 final size:45
Alignment explanation
Indices: 146040--146721 Score: 1107
Period size: 45 Copynumber: 15.1 Consensus size: 45
146030 GGGAGCTTTT
* *
146040 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
146085 TGATGTTTTCCAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
146130 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAG-CGCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTC-CTTCAGTGCA
146175 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
* *
146220 TGATGTTTTCAAAACCTTCCGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
146265 TGATGTTTTCAAAACCTTTC-GGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACC-TTCGGGTCATCTGTAAGTCCTTCAGTGCA
* * * *
146310 TGATGTTTTTAAAACCTTCCGGTCATCTGTAAGCCCTTCAATGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
146355 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
146400 TGATGTTTTTCAAAACCTTCGGGTCATCTGTAAGTTCTTCAGTGCA
1 TGATG-TTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
146446 TGATGTTTTTCAAAACCTTCGAGTCATCTGTAAGTCCTTCAGTGCA
1 TGATG-TTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
* * *
146492 TGATGTTTTCCAAACCTTCGGGTCATCTGTATGTCCTTCAGTACA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
146537 TGATCTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
146582 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
* *
146627 TGATGTTTTCAAAACTTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
** *
146672 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAAACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
146717 AGATG
1 TGATG
146722 ATAAGACCTC
Statistics
Matches: 599, Mismatches: 33, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
44 4 0.01
45 503 0.84
46 92 0.15
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
Found at i:151616 original size:15 final size:15
Alignment explanation
Indices: 151593--151622 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
151583 AGAAATCTAT
151593 TTATCTTATAATTAA
1 TTATCTTATAATTAA
*
151608 TTATTTTATAATTAA
1 TTATCTTATAATTAA
151623 ACATTAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATCTTATAATTAA
Found at i:152651 original size:21 final size:21
Alignment explanation
Indices: 152625--152670 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
152615 AGCATGACAG
*
152625 CCATAACAACAAACTTTAATT
1 CCATAACAACAAACTTTAAAT
*
152646 CCATAACAACCAACTTTAAAT
1 CCATAACAACAAACTTTAAAT
152667 CCAT
1 CCAT
152671 TATAATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (21 bp):
CCATAACAACAAACTTTAAAT
Found at i:153112 original size:23 final size:23
Alignment explanation
Indices: 153085--153137 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
153075 TGGTTGATTA
153085 ATCTTTCCATAAGTAAACTTGAT
1 ATCTTTCCATAAGTAAACTTGAT
153108 ATCTTTCCATAAGTAAACTTGAT
1 ATCTTTCCATAAGTAAACTTGAT
*
153131 ATGTTTC
1 ATCTTTC
153138 AACATGGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (23 bp):
ATCTTTCCATAAGTAAACTTGAT
Found at i:155469 original size:5 final size:5
Alignment explanation
Indices: 155461--155688 Score: 382
Period size: 5 Copynumber: 46.8 Consensus size: 5
155451 TTAAAAGAAA
155461 ATAAT ATAAT ATAAT ATAAT AT-AT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
155510 ATAAT ATAAT AT-AT ATAA- ATATAT ATAAT AT-A- ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT ATAAT ATAAT ATAAT ATAAT
155557 ATAAT ATAAT ATAAT ATAAT ATAAT AT-AT ATATAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT ATAAT ATAAT
155607 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT-A- ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
155655 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
155689 ATTCAACCCA
Statistics
Matches: 213, Mismatches: 0, Indels: 20
0.91 0.00 0.09
Matches are distributed among these distances:
3 4 0.02
4 19 0.09
5 182 0.85
6 8 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:156391 original size:59 final size:59
Alignment explanation
Indices: 156272--156391 Score: 129
Period size: 59 Copynumber: 2.0 Consensus size: 59
156262 CTTCAATCCC
* * ***
156272 ACAAGCAGACCACAAAAATCAAGGACATAGTATTAGAATTGTCAAAGCATCTATTTCCA
1 ACAAGCAGACCACAAAAATCAAGGACATAGTATTAGAACTGTCAAACCATCTAGGGCCA
* *
156331 ACAAGCATACCACAAAAATCAAGGACAT-GATATTAGAACT-TCAATCCAAAT-TAGGGCCA
1 ACAAGCAGACCACAAAAATCAAGGACATAG-TATTAGAACTGTCAAACC--ATCTAGGGCCA
156390 AC
1 AC
156392 CAAGACTTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
58 6 0.12
59 43 0.84
60 2 0.04
ACGTcount: A:0.45, C:0.22, G:0.13, T:0.20
Consensus pattern (59 bp):
ACAAGCAGACCACAAAAATCAAGGACATAGTATTAGAACTGTCAAACCATCTAGGGCCA
Found at i:159533 original size:41 final size:41
Alignment explanation
Indices: 159411--159764 Score: 441
Period size: 41 Copynumber: 8.8 Consensus size: 41
159401 CAAAATGGTA
*
159411 ACTTTAGCGGCGTTTTTATACAAACGCCGCTAT--ACTCGT
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
* *
159450 ACTTTAGTGGCG-TTTT-TACAAACGCCACTATAGACTCAT
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
* *
159489 ACTTTAGTGGCGTTTTTATATAAACGCCGCTATATACTCGT
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
* * * *
159530 ACTTTAGTGGCGTTTTTATACAAACACCGCTAAAAACTGGT
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
* ***
159571 ACTTTAGTGGCGTTTTTAAACAAACAATGCTATAGACTCGT
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
* ***
159612 ACTTTAGTGGCGTTTTTAAACAAACAATGCTATAGACTCGT
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
* *
159653 ACTTTAGTGGCATTTTTGTACAAACGCCGCTATAGACTCGT
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
* * * **
159694 ACATTAGTGGCGTTTTTATAAAAATGCCATTATAGACTCGT
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
*
159735 -CTTTAGTGGCATTTTT-TACAAACGCCGCTA
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTA
159765 AAAATGCCGT
Statistics
Matches: 274, Mismatches: 37, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
37 14 0.05
38 4 0.01
39 38 0.14
40 18 0.07
41 200 0.73
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (41 bp):
ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
Found at i:163322 original size:43 final size:43
Alignment explanation
Indices: 163274--163673 Score: 384
Period size: 42 Copynumber: 9.4 Consensus size: 43
163264 TACAAATATA
* * * *
163274 ACCTTTTGCAGCGTTTGTATAAAAAAATGCCACTATAGATCTG
1 ACCTTTTGCGGCGTTTGTATCAAAAAACGCCGCTATAGATCTG
* * * *
163317 ACCTTTTGCAGCGTTTGTAT-TAAAACCGCCGCTATAGATATG
1 ACCTTTTGCGGCGTTTGTATCAAAAAACGCCGCTATAGATCTG
* * ** * * *
163359 ACTTTTTGTGGCGTTTGT-TCAAAAAATACCGCTACAAATATG
1 ACCTTTTGCGGCGTTTGTATCAAAAAACGCCGCTATAGATCTG
* * * *
163401 ACTTTTTGTGGCGTTTGT-TCAAAAAACGGCGCTACAGATCTG
1 ACCTTTTGCGGCGTTTGTATCAAAAAACGCCGCTATAGATCTG
* * * *
163443 ATCTTTTGCGGTGTTTGTAT-ACAAAACCGCCGCTATAGATATG
1 ACCTTTTGCGGCGTTTGTATCA-AAAAACGCCGCTATAGATCTG
* *
163486 ACCTTTTGCGGCGTTTGT-TCAAAAAACGCTGCTACAGATCTG
1 ACCTTTTGCGGCGTTTGTATCAAAAAACGCCGCTATAGATCTG
* *
163528 ACCTTTTGCGGCGTTTATAT-ACAAAATCGCCGCTATAGATCTG
1 ACCTTTTGCGGCGTTTGTATCA-AAAAACGCCGCTATAGATCTG
* *
163571 ACCTTTTGCGGTGTTTGT-TCAAAAAACGCCGCTATAGATCTCA
1 ACCTTTTGCGGCGTTTGTATCAAAAAACGCCGCTATAGATCT-G
* * **
163614 ACCTTTTGTGGGGTTTGTAT-ATAAAAATACCGCTATAGATCTTG
1 ACCTTTTGCGGCGTTTGTATCA-AAAAACGCCGCTATAGATC-TG
**
163658 ATTTTTTGCGGCGTTT
1 ACCTTTTGCGGCGTTT
163674 TTATTTCACA
Statistics
Matches: 296, Mismatches: 50, Indels: 21
0.81 0.14 0.06
Matches are distributed among these distances:
41 1 0.00
42 156 0.53
43 108 0.36
44 30 0.10
45 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (43 bp):
ACCTTTTGCGGCGTTTGTATCAAAAAACGCCGCTATAGATCTG
Found at i:163449 original size:85 final size:85
Alignment explanation
Indices: 163243--163673 Score: 397
Period size: 85 Copynumber: 5.1 Consensus size: 85
163233 TAATTAGCGA
* * * * * * * * *
163243 CGTTTGTTCCAAAAAC-GCTACTACAAATATAACCTTTTGCAGCGTTTGTATAAAAAAATGCCAC
1 CGTTTGTTCAAAAAACGGC-GCTACAGATCTGACCTTTTGCGGCGTTTGTATACAAAAATACCGC
* *
163307 TATAGATCTGACCTTTTGCAG
65 TATAGATATGACCTTTTGCGG
* * * * * * *
163328 CGTTTGTAT-TAAAACCGCCGCTATAGATATGACTTTTTGTGGCGTTTGT-T-CAAAAAATACCG
1 CGTTTGT-TCAAAAAACGGCGCTACAGATCTGACCTTTTGCGGCGTTTGTATAC-AAAAATACCG
* * * *
163390 CTACAAATATGACTTTTTGTGG
64 CTATAGATATGACCTTTTGCGG
* * ***
163412 CGTTTGTTCAAAAAACGGCGCTACAGATCTGATCTTTTGCGGTGTTTGTATACAAAACCGCCGCT
1 CGTTTGTTCAAAAAACGGCGCTACAGATCTGACCTTTTGCGGCGTTTGTATACAAAAATACCGCT
163477 ATAGATATGACCTTTTGCGG
66 ATAGATATGACCTTTTGCGG
* *
163497 CGTTTGTTCAAAAAAC-GCTGCTACAGATCTGACCTTTTGCGGCGTTTATATAC-AAAATCGCCG
1 CGTTTGTTCAAAAAACGGC-GCTACAGATCTGACCTTTTGCGGCGTTTGTATACAAAAAT-ACCG
*
163560 CTATAGATCTGACCTTTTGCGG
64 CTATAGATATGACCTTTTGCGG
* * * * * * *
163582 TGTTTGTTCAAAAAACGCCGCTATAGATCTCAACCTTTTGTGGGGTTTGTATATAAAAATACCGC
1 CGTTTGTTCAAAAAACGGCGCTACAGATCT-GACCTTTTGCGGCGTTTGTATACAAAAATACCGC
* **
163647 TATAGATCTTGATTTTTTGCGG
65 TATAGAT-ATGACCTTTTGCGG
163669 CGTTT
1 CGTTT
163674 TTATTTCACA
Statistics
Matches: 280, Mismatches: 54, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
83 1 0.00
84 68 0.24
85 158 0.56
86 33 0.12
87 20 0.07
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (85 bp):
CGTTTGTTCAAAAAACGGCGCTACAGATCTGACCTTTTGCGGCGTTTGTATACAAAAATACCGCT
ATAGATATGACCTTTTGCGG
Found at i:163469 original size:127 final size:126
Alignment explanation
Indices: 163263--163648 Score: 454
Period size: 127 Copynumber: 3.0 Consensus size: 126
163253 AAAAACGCTA
* * * * *
163263 CTACAAATATAACCTTTTGCAGCGTTTGTATAAAAAAATGCCACTATAGATCTGACCTTTTGCAG
1 CTACAAATATGACCTTTTGCGGCGTTTGTAT-AAAAAACGCCGCTATAGATCTGACCTTTTGCGG
* * *
163328 CGTTTGTATTAAAACCGCCGCTATAGATATGACTTTTTGTGGCGTTTGTTCAAAAAATACCG
65 TGTTTGTATCAAAACCGCCGCTATAGATATGACCTTTTGTGGCGTTTGTTCAAAAAATACCG
* * * * *
163390 CTACAAATATGACTTTTTGTGGCGTTTGT-TCAAAAAACGGCGCTACAGATCTGATCTTTTGCGG
1 CTACAAATATGACCTTTTGCGGCGTTTGTAT-AAAAAACGCCGCTATAGATCTGACCTTTTGCGG
* ** *
163454 TGTTTGTATACAAAACCGCCGCTATAGATATGACCTTTTGCGGCGTTTGTTCAAAAAACGCTG
65 TGTTTGTAT-CAAAACCGCCGCTATAGATATGACCTTTTGTGGCGTTTGTTCAAAAAATACCG
* * * *
163517 CTACAGATCTGACCTTTTGCGGCGTTTATATACAAAATCGCCGCTATAGATCTGACCTTTTGCGG
1 CTACAAATATGACCTTTTGCGGCGTTTGTATA-AAAAACGCCGCTATAGATCTGACCTTTTGCGG
* * * *
163582 TGTTTGT-TCAAAAAACGCCGCTATAGATCTCAACCTTTTGTGGGGTTTGTAT-ATAAAAATACC
65 TGTTTGTATC-AAAACCGCCGCTATAGATAT-GACCTTTTGTGGCGTTTGT-TCA-AAAAATACC
163645 G
126 G
163646 CTA
1 CTA
163649 TAGATCTTGA
Statistics
Matches: 217, Mismatches: 35, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
126 37 0.17
127 116 0.53
128 53 0.24
129 11 0.05
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (126 bp):
CTACAAATATGACCTTTTGCGGCGTTTGTATAAAAAACGCCGCTATAGATCTGACCTTTTGCGGT
GTTTGTATCAAAACCGCCGCTATAGATATGACCTTTTGTGGCGTTTGTTCAAAAAATACCG
Found at i:165893 original size:15 final size:15
Alignment explanation
Indices: 165870--165899 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
165860 AGAAATCTAT
165870 TTATCTTATAATTAA
1 TTATCTTATAATTAA
*
165885 TTATTTTATAATTAA
1 TTATCTTATAATTAA
165900 AAATTAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATCTTATAATTAA
Found at i:170425 original size:29 final size:29
Alignment explanation
Indices: 170377--170432 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
170367 GGTTGAAGTA
*
170377 GAAGAAGAAGAGGAGAAGGAGGAGGAGCT
1 GAAGAAGAAGAAGAGAAGGAGGAGGAGCT
* *
170406 GAAGGAGAAGAAGAGGAGGAGGAGGAG
1 GAAGAAGAAGAAGAGAAGGAGGAGGAG
170433 ATAACGGGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.45, C:0.02, G:0.52, T:0.02
Consensus pattern (29 bp):
GAAGAAGAAGAAGAGAAGGAGGAGGAGCT
Found at i:172234 original size:164 final size:161
Alignment explanation
Indices: 171952--172281 Score: 423
Period size: 164 Copynumber: 2.0 Consensus size: 161
171942 CTCACTGAGT
* * * *
171952 TTTAATATCTCTCCTATTTCACTCGCCATACTTTCAATTTTTTTCAATTTTCTCACTTTAGACAT
1 TTTACTATCTCTCCTATTTCACTCGCCATACTCTCAAGTTTTTTCAATTTTCTAACTTTAGACAT
* * * * *
172017 TGAACTTTTTTTTGTCACTCGACCGTTTACTTAGTAACGAGGTGCTCACGTGACTTGTTTTAATA
66 TGAACTTTCTTTTGTCACTCGACCGCTTACTCAATAACGAGGTGCTCACGTGACTTATTTTAATA
172082 ATAAAACATGACACACATTTACTT-ACTAAAC
131 ATAAAACATGACACACATTTA-TTCACTAAAC
**
172113 TTTACTATCTCTCCTATTTCACTCGTTATACTCTC-AGTTTTTTCAATTTACTCATTAAACTTTA
1 TTTACTATCTCTCCTATTTCACTCGCCATACTCTCAAGTTTTTTCAATTT--TC--T-AACTTTA
* ** **
172177 GATATTGAAC-TTCTTTTGTTTCTCGGTCGCTTACTCAATAACGAGGTGCTCACGTGACTTATTT
61 GACATTGAACTTTCTTTTGTCACTCGACCGCTTACTCAATAACGAGGTGCTCACGTGACTTATTT
* *
172241 TAATAATAAAACATGACACACGTTTATTCACTGAAC
126 TAATAATAAAACATGACACACATTTATTCACTAAAC
172277 TTTAC
1 TTTAC
172282 GCTATTTCCT
Statistics
Matches: 145, Mismatches: 18, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
160 13 0.09
161 31 0.21
162 2 0.01
163 2 0.01
164 82 0.57
165 15 0.10
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.42
Consensus pattern (161 bp):
TTTACTATCTCTCCTATTTCACTCGCCATACTCTCAAGTTTTTTCAATTTTCTAACTTTAGACAT
TGAACTTTCTTTTGTCACTCGACCGCTTACTCAATAACGAGGTGCTCACGTGACTTATTTTAATA
ATAAAACATGACACACATTTATTCACTAAAC
Found at i:176596 original size:20 final size:20
Alignment explanation
Indices: 176571--176613 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
176561 GCGATTTTCT
*
176571 AAATTCGCAACACATAAGTC
1 AAATTCGCAACACAAAAGTC
*
176591 AAATTCGCAACAGAAAAGTC
1 AAATTCGCAACACAAAAGTC
176611 AAA
1 AAA
176614 GCGCGTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.21, G:0.12, T:0.16
Consensus pattern (20 bp):
AAATTCGCAACACAAAAGTC
Found at i:176761 original size:22 final size:22
Alignment explanation
Indices: 176736--176783 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
176726 CTACGGCGAC
*
176736 ATCCGTCCCCATCTCCGACGTA
1 ATCCGTCCCCATCTCCGACGAA
* *
176758 ATCCGTCTCCATCTCTGACGAA
1 ATCCGTCCCCATCTCCGACGAA
176780 ATCC
1 ATCC
176784 ATCTATCTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.21, C:0.42, G:0.12, T:0.25
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:177109 original size:14 final size:14
Alignment explanation
Indices: 177090--177120 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
177080 ACACGAAAAT
177090 GAAAATCGCAACAC
1 GAAAATCGCAACAC
*
177104 GAAAATCGCAACGC
1 GAAAATCGCAACAC
177118 GAA
1 GAA
177121 TTTAGTTTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.26, G:0.19, T:0.06
Consensus pattern (14 bp):
GAAAATCGCAACAC
Found at i:177229 original size:20 final size:20
Alignment explanation
Indices: 177126--177218 Score: 177
Period size: 20 Copynumber: 4.7 Consensus size: 20
177116 GCGAATTTAG
177126 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
177146 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
177166 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
177186 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
*
177206 TTTCGCATTGCGA
1 TTTCGCGTTGCGA
177219 ATTTAAGTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
20 72 1.00
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTCAT
Found at i:178336 original size:16 final size:16
Alignment explanation
Indices: 178315--178348 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
178305 CAATTACTGA
*
178315 TGTTTGTGTATTATAT
1 TGTTTGTGTACTATAT
178331 TGTTTGTGTACTATAT
1 TGTTTGTGTACTATAT
178347 TG
1 TG
178349 ATTTTTTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.03, G:0.21, T:0.59
Consensus pattern (16 bp):
TGTTTGTGTACTATAT
Found at i:180989 original size:21 final size:21
Alignment explanation
Indices: 180961--181003 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
180951 AAACTCAAAG
180961 TTAGGTTTAAGGTTTAG-TAT
1 TTAGGTTTAAGGTTTAGCTAT
*
180981 TTAGAGTTTAGGGTTTAGCTAT
1 TTAG-GTTTAAGGTTTAGCTAT
181003 T
1 T
181004 AATTTGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.23, C:0.02, G:0.26, T:0.49
Consensus pattern (21 bp):
TTAGGTTTAAGGTTTAGCTAT
Found at i:181414 original size:15 final size:15
Alignment explanation
Indices: 181394--181422 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
181384 CTTCTTCATA
181394 TATGCGTGAAATGAG
1 TATGCGTGAAATGAG
181409 TATGCGTGAAATGA
1 TATGCGTGAAATGA
181423 CATTAGACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.07, G:0.31, T:0.28
Consensus pattern (15 bp):
TATGCGTGAAATGAG
Found at i:182069 original size:7 final size:7
Alignment explanation
Indices: 182057--182144 Score: 106
Period size: 7 Copynumber: 12.7 Consensus size: 7
182047 ACTTTAAGTG
182057 TAAGGTT
1 TAAGGTT
182064 TAAGGTT
1 TAAGGTT
*
182071 T-AGATT
1 TAAGGTT
*
182077 TAGGGTT
1 TAAGGTT
*
182084 TAAGGAT
1 TAAGGTT
*
182091 TAAGGAT
1 TAAGGTT
*
182098 TATGGTT
1 TAAGGTT
182105 TAAGGTT
1 TAAGGTT
*
182112 TAAGGTA
1 TAAGGTT
*
182119 TAGGGTT
1 TAAGGTT
182126 TAAGGTT
1 TAAGGTT
182133 TAAGGTT
1 TAAGGTT
182140 TAAGG
1 TAAGG
182145 CTTTGGGCTT
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
6 5 0.07
7 63 0.93
ACGTcount: A:0.30, C:0.00, G:0.31, T:0.40
Consensus pattern (7 bp):
TAAGGTT
Found at i:182162 original size:21 final size:21
Alignment explanation
Indices: 182136--182183 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
182126 TAAGGTTTAA
182136 GGTTTAAGGCTTTGGGCTTGG
1 GGTTTAAGGCTTTGGGCTTGG
182157 GGTTTAAGGCTTTGGGCTTGG
1 GGTTTAAGGCTTTGGGCTTGG
182178 GGTTTA
1 GGTTTA
182184 GTGTTTAGGG
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:0.10, C:0.08, G:0.42, T:0.40
Consensus pattern (21 bp):
GGTTTAAGGCTTTGGGCTTGG
Found at i:186627 original size:18 final size:18
Alignment explanation
Indices: 186604--186650 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
186594 GTTGAAGTCT
186604 GTTTTAACCCAAGCACCA
1 GTTTTAACCCAAGCACCA
*
186622 GTTTTAACCCAAGCACTA
1 GTTTTAACCCAAGCACCA
186640 GTTTTAACCCA
1 GTTTTAACCCA
186651 GCTAGAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.32, C:0.30, G:0.11, T:0.28
Consensus pattern (18 bp):
GTTTTAACCCAAGCACCA
Found at i:208695 original size:12 final size:13
Alignment explanation
Indices: 208677--208708 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
208667 CCTTTTATTC
208677 TAATTTAAAAATG
1 TAATTTAAAAATG
208690 -AATTT-AAAATG
1 TAATTTAAAAATG
208701 TAATTTAA
1 TAATTTAA
208709 TCCAAAAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
11 6 0.35
12 10 0.59
13 1 0.06
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (13 bp):
TAATTTAAAAATG
Found at i:212218 original size:21 final size:21
Alignment explanation
Indices: 212180--212225 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
212170 ATTCATCCAA
** *
212180 TATCGATATTGTTTATCCTAG
1 TATCGATATTGTCCATCCCAG
212201 TATCGATATTGTCCATCCCAG
1 TATCGATATTGTCCATCCCAG
212222 TATC
1 TATC
212226 AACATTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.41
Consensus pattern (21 bp):
TATCGATATTGTCCATCCCAG
Found at i:214698 original size:22 final size:22
Alignment explanation
Indices: 214675--214715 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
214665 TTCAACTTCT
*
214675 TTTCAGCT-CCTTCAGCTAACC
1 TTTCAGCTCCCTTAAGCTAACC
*
214696 TTTGAGCTCCCTTAAGCTAA
1 TTTCAGCTCCCTTAAGCTAA
214716 GTGAGCTAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.34
Consensus pattern (22 bp):
TTTCAGCTCCCTTAAGCTAACC
Found at i:219057 original size:41 final size:40
Alignment explanation
Indices: 218993--219386 Score: 252
Period size: 41 Copynumber: 9.4 Consensus size: 40
218983 CAAGATTTCA
* * *
218993 ATTCAATTGAGTTCGAT-ATTGGTAGCATGCAATAGTTCATC
1 ATTCAATTGA-TTCAATCA-TGGTAGCATACAATAATTCATC
* * *
219034 ATTCAACTTGATTCAATCATGGTAACATGCAATAATTCACC
1 ATTCAA-TTGATTCAATCATGGTAGCATACAATAATTCATC
* * * *
219075 ATTCAATTCTATTCAATCATGGCAGCATACATTAGTTCATC
1 ATTCAATT-GATTCAATCATGGTAGCATACAATAATTCATC
* ** * *
219116 GTTCAACTTGATTTGATCATGGTAG-ATTACAATAATTAACC
1 ATTCAA-TTGATTCAATCATGGTAGCA-TACAATAATTCATC
** * * * * * *
219157 ATTTGATTCAATTCAATCAAGGCAGTATATAATATTTCATC
1 ATTCAATT-GATTCAATCATGGTAGCATACAATAATTCATC
219198 ATTCAATTTGATTCAATCATGGTAGCATACAATAATTCACCTTCATC
1 ATTCAA-TTGATTCAATCATGGTAGCATACAAT-A---A--TTCATC
* * * *
219245 ATTCAATTTGATTCGATCATGGTATCATGCAATAATTCACC
1 ATTCAA-TTGATTCAATCATGGTAGCATACAATAATTCATC
* * * * * * *
219286 ATTCGATTCAATTCAATCAAGGCATCATATAATAGTTCATC
1 ATTCAATT-GATTCAATCATGGTAGCATACAATAATTCATC
** * *
219327 ATTCAATTTGATTTGATCATGGTAGCATGCAATAATTCACC
1 ATTCAA-TTGATTCAATCATGGTAGCATACAATAATTCATC
* *
219368 ATTCGATTCAATTCAATCA
1 ATTCAATT-GATTCAATCA
219387 ATGCAACATA
Statistics
Matches: 268, Mismatches: 68, Indels: 34
0.72 0.18 0.09
Matches are distributed among these distances:
40 9 0.03
41 208 0.78
42 13 0.05
43 1 0.00
46 1 0.00
47 36 0.13
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.36
Consensus pattern (40 bp):
ATTCAATTGATTCAATCATGGTAGCATACAATAATTCATC
Found at i:219135 original size:82 final size:82
Alignment explanation
Indices: 219016--219252 Score: 280
Period size: 82 Copynumber: 2.9 Consensus size: 82
219006 CGATATTGGT
* *
219016 AGCATGCAATAGTTCATCATTCAACTTGATTCAATCATGGTAACATGCAATAATTCACCATTCAA
1 AGCATACAATAGTTCATCATTCAACTTGATTCAATCATGGTAACATACAATAATTCACCATTCAA
* *
219081 TTCTATTCAATCATGGC
66 TTCAATTCAATCAAGGC
* * ** * * **
219098 AGCATACATTAGTTCATCGTTCAACTTGATTTGATCATGGTAGA-TTACAATAATTAACCATTTG
1 AGCATACAATAGTTCATCATTCAACTTGATTCAATCATGGTA-ACATACAATAATTCACCATTCA
219162 ATTCAATTCAATCAAGGC
65 ATTCAATTCAATCAAGGC
* * * * *
219180 AGTATATAATATTTCATCATTCAATTTGATTCAATCATGGTAGCATACAATAATTCACC-TTCAT
1 AGCATACAATAGTTCATCATTCAACTTGATTCAATCATGGTAACATACAATAATTCACCATTCA-
219244 CATTCAATT
65 -ATTCAATT
219253 TGATTCGATC
Statistics
Matches: 126, Mismatches: 25, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
81 2 0.02
82 115 0.91
83 9 0.07
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.36
Consensus pattern (82 bp):
AGCATACAATAGTTCATCATTCAACTTGATTCAATCATGGTAACATACAATAATTCACCATTCAA
TTCAATTCAATCAAGGC
Found at i:219250 original size:47 final size:47
Alignment explanation
Indices: 219192--219285 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
219182 TATATAATAT
219192 TTCATCATTCAATTTGATTCAATCATGGTAGCATACAATAATTCACC
1 TTCATCATTCAATTTGATTCAATCATGGTAGCATACAATAATTCACC
* * *
219239 TTCATCATTCAATTTGATTCGATCATGGTATCATGCAATAATTCACC
1 TTCATCATTCAATTTGATTCAATCATGGTAGCATACAATAATTCACC
219286 ATTCGATTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (47 bp):
TTCATCATTCAATTTGATTCAATCATGGTAGCATACAATAATTCACC
Found at i:219287 original size:129 final size:129
Alignment explanation
Indices: 219110--219367 Score: 385
Period size: 129 Copynumber: 2.0 Consensus size: 129
219100 CATACATTAG
* * * *
219110 TTCATCGTTCAACTTGATTTGATCATGGTAGATTACAATAATTAACCATTTGATTCAATTCAATC
1 TTCATCATTCAACTTGATTCGATCATGGTACATTACAATAATTAACCATTCGATTCAATTCAATC
*
219175 AAGGCAGT-ATATAATATTTCATCATTCAATTTGATTCAATCATGGTAGCATACAATAATTCACC
66 AAGGCA-TCATATAATAGTTCATCATTCAATTTGATTCAATCATGGTAGCATACAATAATTCACC
* * *
219239 TTCATCATTCAATTTGATTCGATCATGGTATCA-TGCAATAATTCACCATTCGATTCAATTCAAT
1 TTCATCATTCAACTTGATTCGATCATGGTA-CATTACAATAATTAACCATTCGATTCAATTCAAT
** *
219303 CAAGGCATCATATAATAGTTCATCATTCAATTTGATTTGATCATGGTAGCATGCAATAATTCACC
65 CAAGGCATCATATAATAGTTCATCATTCAATTTGATTCAATCATGGTAGCATACAATAATTCACC
219368 ATTCGATTCA
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
128 1 0.01
129 114 0.98
130 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (129 bp):
TTCATCATTCAACTTGATTCGATCATGGTACATTACAATAATTAACCATTCGATTCAATTCAATC
AAGGCATCATATAATAGTTCATCATTCAATTTGATTCAATCATGGTAGCATACAATAATTCACC
Found at i:219335 original size:82 final size:82
Alignment explanation
Indices: 219239--219443 Score: 338
Period size: 82 Copynumber: 2.5 Consensus size: 82
219229 ATAATTCACC
* *
219239 TTCATCATTCAATTTGATTCGATCATGGTATCATGCAATAATTCACCATTCGATTCAATTCAATC
1 TTCATCATTCAATTTGATTTGATCATGGTAACATGCAATAATTCACCATTCGATTCAATTCAATC
*
219304 AAGGCATCATATAATAG
66 AAGGCAACATATAATAG
*
219321 TTCATCATTCAATTTGATTTGATCATGGTAGCATGCAATAATTCACCATTCGATTCAATTCAATC
1 TTCATCATTCAATTTGATTTGATCATGGTAACATGCAATAATTCACCATTCGATTCAATTCAATC
*
219386 AATGCAACATATAATAG
66 AAGGCAACATATAATAG
* * *
219403 TTGACCATTCAATTTGATTTGATCATGATAACATGCAATAA
1 TTCATCATTCAATTTGATTTGATCATGGTAACATGCAATAA
219444 CCAATTTATC
Statistics
Matches: 115, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 115 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (82 bp):
TTCATCATTCAATTTGATTTGATCATGGTAACATGCAATAATTCACCATTCGATTCAATTCAATC
AAGGCAACATATAATAG
Found at i:219400 original size:211 final size:211
Alignment explanation
Indices: 219028--219421 Score: 592
Period size: 211 Copynumber: 1.9 Consensus size: 211
219018 CATGCAATAG
*
219028 TTCATCATTCAACTTGATTCAATCATGGTAACATGCAATAATTCACCATTCAATTCTATTCAATC
1 TTCATCATTCAACTTGATTCAATCATGGTAACATGCAATAATTCACCATTCAATTCAATTCAATC
* * *
219093 ATGGCAGCATACATTAGTTCATCGTTCAACTTGATTTGATCATGGTAGATTACAATAATTAACCA
66 AAGGCAGCATACAATAGTTCATCATTCAACTTGATTTGATCATGGTAGATTACAATAATTAACCA
* ** * *
219158 TTTGATTCAATTCAATCAAGGCAGTATATAATATTTCATCATTCAATTTGATTCAATCATGGTAG
131 TTCGATTCAATTCAATCAAGGCAACATATAATAGTTCACCATTCAATTTGATTCAATCATGGTAG
219223 CATACAATAATTCACC
196 CATACAATAATTCACC
* * * *
219239 TTCATCATTCAATTTGATTCGATCATGGTATCATGCAATAATTCACCATTCGATTCAATTCAATC
1 TTCATCATTCAACTTGATTCAATCATGGTAACATGCAATAATTCACCATTCAATTCAATTCAATC
* * * * *
219304 AAGGCATCATATAATAGTTCATCATTCAATTTGATTTGATCATGGTAGCA-TGCAATAATTCACC
66 AAGGCAGCATACAATAGTTCATCATTCAACTTGATTTGATCATGGTAG-ATTACAATAATTAACC
* *
219368 ATTCGATTCAATTCAATCAATGCAACATATAATAGTTGACCATTCAATTTGATT
130 ATTCGATTCAATTCAATCAAGGCAACATATAATAGTTCACCATTCAATTTGATT
219422 TGATCATGAT
Statistics
Matches: 162, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
211 161 0.99
212 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (211 bp):
TTCATCATTCAACTTGATTCAATCATGGTAACATGCAATAATTCACCATTCAATTCAATTCAATC
AAGGCAGCATACAATAGTTCATCATTCAACTTGATTTGATCATGGTAGATTACAATAATTAACCA
TTCGATTCAATTCAATCAAGGCAACATATAATAGTTCACCATTCAATTTGATTCAATCATGGTAG
CATACAATAATTCACC
Found at i:219410 original size:41 final size:41
Alignment explanation
Indices: 219275--219412 Score: 125
Period size: 41 Copynumber: 3.4 Consensus size: 41
219265 GGTATCATGC
* * *
219275 AATAATTCACCATTCGATTCAATTCAATCAAGGCATCATAT
1 AATAGTTCACCATTCGATTCAATTCAATCAATGCAACATAT
* * ** ** * * **
219316 AATAGTTCATCATTCAATTTGATTTGATC-ATGGTAGCATGC
1 AATAGTTCACCATTCGATTCAATTCAATCAAT-GCAACATAT
*
219357 AATAATTCACCATTCGATTCAATTCAATCAATGCAACATAT
1 AATAGTTCACCATTCGATTCAATTCAATCAATGCAACATAT
*
219398 AATAGTTGACCATTC
1 AATAGTTCACCATTC
219413 AATTTGATTT
Statistics
Matches: 70, Mismatches: 25, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
40 1 0.01
41 67 0.96
42 2 0.03
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (41 bp):
AATAGTTCACCATTCGATTCAATTCAATCAATGCAACATAT
Found at i:219436 original size:41 final size:40
Alignment explanation
Indices: 219239--219436 Score: 117
Period size: 41 Copynumber: 4.8 Consensus size: 40
219229 ATAATTCACC
* * * ** *
219239 TTCATCATTCAATTTGATTCGATCATGGTATCATGCAATAA
1 TTCACCATTCAATTTGATTTGATCAT-GTAACATATAATAG
* ** ** * * *
219280 TTCACCATTCGATTCAATTCAATCAAGGCATCATATAATAG
1 TTCACCATTCAATTTGATTTGATC-ATGTAACATATAATAG
* * ** *
219321 TTCATCATTCAATTTGATTTGATCATGGTAGCATGCAATAA
1 TTCACCATTCAATTTGATTTGATCAT-GTAACATATAATAG
* ** ** *
219362 TTCACCATTCGATTCAATTCAATCAATGCAACATATAATAG
1 TTCACCATTCAATTTGATTTGATC-ATGTAACATATAATAG
*
219403 TTGACCATTCAATTTGATTTGATCATGATAACAT
1 TTCACCATTCAATTTGATTTGATCATG-TAACAT
219437 GCAATAACCA
Statistics
Matches: 113, Mismatches: 40, Indels: 8
0.70 0.25 0.05
Matches are distributed among these distances:
40 4 0.04
41 106 0.94
42 3 0.03
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (40 bp):
TTCACCATTCAATTTGATTTGATCATGTAACATATAATAG
Found at i:221136 original size:14 final size:14
Alignment explanation
Indices: 221117--221149 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
221107 TAGGTCCATG
221117 TTTAATTCAACTAA
1 TTTAATTCAACTAA
221131 TTTAATTCAACTAA
1 TTTAATTCAACTAA
221145 TTTAA
1 TTTAA
221150 ATTCCAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTAATTCAACTAA
Found at i:226922 original size:20 final size:21
Alignment explanation
Indices: 226885--226923 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
226875 ATAAACATTA
* *
226885 ATTAAAGAATATATTATTTTT
1 ATTAAAGAATAAAATATTTTT
226906 ATTAAA-AATAAAATATTT
1 ATTAAAGAATAAAATATTT
226924 ATTAAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (21 bp):
ATTAAAGAATAAAATATTTTT
Found at i:229173 original size:128 final size:128
Alignment explanation
Indices: 228935--229201 Score: 390
Period size: 128 Copynumber: 2.1 Consensus size: 128
228925 TTGACGGAAA
* *
228935 GTTTGTTTATGTATGTTTATTTATTAAACGAATAAATATGAACAAGATTTTATATTCGTTTAATT
1 GTTTGTTTATGTATGTTTATTTATTAAACGAACAAACATGAACAAGATTTTATATTCGTTTAATT
* *
229000 AAATGAACGAACACAAACAAAAGGCTCGTTCGTTCGTATACGTTTGTGAACATTCGGTAACTC
66 AAATGAAAGAACACAAACAAAAGGCTCGTTCGTTCGTATACGTTTGTGAACATTCGATAACTC
* * * *
229063 GTTTGTTTATGTTTGTTTATTTATTAAACGAACGAACATGAACCAGATTTTATGTTCGTTTAATT
1 GTTTGTTTATGTATGTTTATTTATTAAACGAACAAACATGAACAAGATTTTATATTCGTTTAATT
* * * * * *
229128 AAATGAAAGAACACGAACAAAAGGCTCGTTCTTTTGTTTATGTTTGTGAACTTTCGATAACTC
66 AAATGAAAGAACACAAACAAAAGGCTCGTTCGTTCGTATACGTTTGTGAACATTCGATAACTC
* *
229191 ATTTATTTATG
1 GTTTGTTTATG
229202 CTCATTTACG
Statistics
Matches: 123, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
128 123 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (128 bp):
GTTTGTTTATGTATGTTTATTTATTAAACGAACAAACATGAACAAGATTTTATATTCGTTTAATT
AAATGAAAGAACACAAACAAAAGGCTCGTTCGTTCGTATACGTTTGTGAACATTCGATAACTC
Found at i:229477 original size:14 final size:14
Alignment explanation
Indices: 229458--229487 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
229448 TACGTTTACA
229458 TTCGTTTGTGTACG
1 TTCGTTTGTGTACG
*
229472 TTCGTTTGTGTTCG
1 TTCGTTTGTGTACG
229486 TT
1 TT
229488 TACATTCGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.03, C:0.13, G:0.27, T:0.57
Consensus pattern (14 bp):
TTCGTTTGTGTACG
Found at i:229485 original size:24 final size:24
Alignment explanation
Indices: 229468--229513 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
229458 TTCGTTTGTG
*
229468 TACGTTCGTTTGTGTTCGTTTACA
1 TACGTTCATTTGTGTTCGTTTACA
*
229492 TTCGTTCATTTGTGTTCGTTTA
1 TACGTTCATTTGTGTTCGTTTA
229514 TCATTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.11, C:0.15, G:0.20, T:0.54
Consensus pattern (24 bp):
TACGTTCATTTGTGTTCGTTTACA
Found at i:230472 original size:45 final size:44
Alignment explanation
Indices: 230413--230650 Score: 302
Period size: 45 Copynumber: 5.3 Consensus size: 44
230403 AGATCCAAGT
* *
230413 AAAAA-TAAAGATGTTGATG-TCGATAAAGTAGGCGATACTTCAA
1 AAAAACTAAAGATGTTGATGCT-GATAAAGCAGGCGATGCTTCAA
230456 AAAACACTAAAGATGTTGATGCTGATAAAGCAGGCGATGCTGAT-AA
1 AAAA-ACTAAAGATGTTGATGCTGATAAAGCAGGCGATGCT--TCAA
*
230502 AAAAACTAAAGATGTTGATGCTGATAAAGCAGACGATGCTTCAA
1 AAAAACTAAAGATGTTGATGCTGATAAAGCAGGCGATGCTTCAA
* * * *
230546 ATAAAAATAAAGATGTTGGTGCTGATGAAGCAGGCGGTGCTTCGAA
1 A-AAAACTAAAGATGTTGATGCTGATAAAGCAGGCGATGCTTC-AA
* * *
230592 TAAAACTAAAGATGTTGGTGCTGATGAAGCAGGCGATGCTTCAA
1 AAAAACTAAAGATGTTGATGCTGATAAAGCAGGCGATGCTTCAA
230636 ACAAAACTAAAGATG
1 A-AAAACTAAAGATG
230651 CTGGTGTTGG
Statistics
Matches: 174, Mismatches: 12, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
43 5 0.03
44 6 0.03
45 153 0.88
46 9 0.05
47 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.23
Consensus pattern (44 bp):
AAAAACTAAAGATGTTGATGCTGATAAAGCAGGCGATGCTTCAA
Found at i:233449 original size:21 final size:21
Alignment explanation
Indices: 233420--233476 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
233410 AAGCAGCGCC
233420 CTCTCTTCTCCTTCTTCCCCT
1 CTCTCTTCTCCTTCTTCCCCT
* **
233441 CTTTCTTCTTCC-TCTTCTTCT
1 CTCTCTTC-TCCTTCTTCCCCT
*
233462 CTCTCTTCTCGTTCT
1 CTCTCTTCTCCTTCT
233477 CGCTTCACAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 2 0.07
21 24 0.83
22 3 0.10
ACGTcount: A:0.00, C:0.44, G:0.02, T:0.54
Consensus pattern (21 bp):
CTCTCTTCTCCTTCTTCCCCT
Found at i:234370 original size:30 final size:30
Alignment explanation
Indices: 234334--234406 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
234324 TACAGGTCGA
*
234334 AATGAAGGTCGCCGGGTGATCTAGGCGACT
1 AATGAAGGTCGCCGGGTGATCTAGGCGACC
* * *
234364 AATGAAGGTCTCCGGGTGGTCTGGGCGACC
1 AATGAAGGTCGCCGGGTGATCTAGGCGACC
*
234394 AATGAAAGTCGCC
1 AATGAAGGTCGCC
234407 AGCCATGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.23, C:0.22, G:0.36, T:0.19
Consensus pattern (30 bp):
AATGAAGGTCGCCGGGTGATCTAGGCGACC
Found at i:235213 original size:30 final size:30
Alignment explanation
Indices: 235177--235235 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
235167 TGTGAAACAG
235177 CATTGGTCGCCCAGACCACCTGGCGACCTT
1 CATTGGTCGCCCAGACCACCTGGCGACCTT
*
235207 CATTGGTCGCCCAGACCATCTGGCGACCT
1 CATTGGTCGCCCAGACCACCTGGCGACCT
235236 ATATTCGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.17, C:0.39, G:0.24, T:0.20
Consensus pattern (30 bp):
CATTGGTCGCCCAGACCACCTGGCGACCTT
Found at i:239152 original size:30 final size:30
Alignment explanation
Indices: 239113--239174 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
239103 TATACGTATG
239113 TATGCGTGTTTATGAGTTTCTGAATGTTAA
1 TATGCGTGTTTATGAGTTTCTGAATGTTAA
*
239143 TATGTGTGTTTATGAGTTTCTGAATGTTAA
1 TATGCGTGTTTATGAGTTTCTGAATGTTAA
239173 TA
1 TA
239175 AGAAAAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.05, G:0.23, T:0.48
Consensus pattern (30 bp):
TATGCGTGTTTATGAGTTTCTGAATGTTAA
Found at i:242915 original size:66 final size:67
Alignment explanation
Indices: 242614--242926 Score: 341
Period size: 66 Copynumber: 4.7 Consensus size: 67
242604 GGGTATGATG
* ** * *
242614 GTTTCAAGAGAAACCGTCTCAAGAGAGACAAAACATGT-TCTAAGGGAAA-AAATCTCAAAGGTT
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTCTC-AAGGGAAACAGATCTCAAAGATT
242677 GGT
65 GGT
* ** * *
242680 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAAC-GATCTCAAAGATTT
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTCTCAAGGGAAACAGATCTCAAAGATTG
242744 GT
66 GT
* * * *
242746 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAAACTGAT-TCAAAGATTG
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTCTCAAGGGAAACAGATCTCAAAGATTG
242810 GT
66 GT
* * ** *
242812 GTTTCAAGAGAAACTGTCCCAAGGGAGATGAAATTTGTCTAAAGGGAAACAGAT-TCAAAGATT-
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTCTCAAGGGAAACAGATCTCAAAGATTG
*
242875 TT
66 GT
* * * * *
242877 GTTTCAAGGGAAACTATTTCAAGAGAGACAAAACTTTGTTTCAAGAGAAA
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTCTCAAGGGAAA
242927 TTGTCTCAAG
Statistics
Matches: 210, Mismatches: 33, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
65 27 0.13
66 178 0.85
67 5 0.02
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.25
Consensus pattern (67 bp):
GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTCTCAAGGGAAACAGATCTCAAAGATTG
GT
Found at i:242937 original size:102 final size:101
Alignment explanation
Indices: 242811--243028 Score: 328
Period size: 102 Copynumber: 2.1 Consensus size: 101
242801 CAAAGATTGG
*
242811 TGTTTCAAGAGAAACTGTCCCAAGGGAGATGAAATTTGTCTAAAGGGAAACAGATTCAAAGATTT
1 TGTTTCAAGAGAAACTGTCCCAAGGGAGACGAAATTTGTCTAAAGGGAAACAGATTCAAAGATTT
* *
242876 TGTTTCAAGGGAAACTATTTCAAGAGAGACAAAACTT
66 TGTTTCAAGGGAAAATATCTCAAGAGAGACAAAA-TT
* * * * * *
242913 TGTTTCAAGAGAAATTGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAACGGATTCTAAGATTT
1 TGTTTCAAGAGAAACTGTCCCAAGGGAGACGAAATTTGTCTAAAGGGAAACAGATTCAAAGATTT
*
242978 TGTTTCAAGGGAAAATGTCTCAAGAGAGACAAAATT
66 TGTTTCAAGGGAAAATATCTCAAGAGAGACAAAATT
*
243014 TGTTTCAAGGGAAAC
1 TGTTTCAAGAGAAAC
243029 AGATTCAAAG
Statistics
Matches: 104, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
101 15 0.14
102 89 0.86
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.28
Consensus pattern (101 bp):
TGTTTCAAGAGAAACTGTCCCAAGGGAGACGAAATTTGTCTAAAGGGAAACAGATTCAAAGATTT
TGTTTCAAGGGAAAATATCTCAAGAGAGACAAAATT
Found at i:243015 original size:65 final size:65
Alignment explanation
Indices: 242911--243094 Score: 269
Period size: 65 Copynumber: 2.8 Consensus size: 65
242901 GAGACAAAAC
* * * * *
242911 TTTGTTTCAAGAGAAATTGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAACGGATTCTAAGAT
1 TTTGTTTCAAGAGAAAATGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAGATTCAAAGAT
*
242976 TTTGTTTCAAGGGAAAATGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAGATTCAAAGAT
1 TTTGTTTCAAGAGAAAATGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAGATTCAAAGAT
* * * *
243041 TTTGTTTCAAGAGAAACTGTCTCAAAAGTGACAAAACTTTGTTTCAAGAGAAAC
1 TTTGTTTCAAGAGAAAATGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAAC
243095 TGTCTCAAGG
Statistics
Matches: 107, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
65 91 0.85
66 16 0.15
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (65 bp):
TTTGTTTCAAGAGAAAATGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAGATTCAAAGAT
Found at i:243046 original size:167 final size:168
Alignment explanation
Indices: 242745--243120 Score: 574
Period size: 167 Copynumber: 2.2 Consensus size: 168
242735 CAAAGATTTG
*
242745 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAAACTGATTCAAAGATTG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAAACGGATTCAAAGATTG
* * **
242810 GTGTTTCAAGAGAAACTGTCCCAAGGGAGATGAAATTTGTCTAAAGGGAAACAGATTCAAAGATT
66 GTGTTTCAAGAGAAAATGTCCCAAGAGAGACAAAATTTGTCTAAAGGGAAACAGATTCAAAGATT
* * *
242875 TTGTTTCAAGGGAAACTATTTCAAGAGAGACAAAACTT
131 TTGTTTCAAGAGAAACTATCTCAAAAGAGACAAAACTT
* * * *
242913 TGTTTCAAGAGAAATTGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAACGGATTCTAAGATT-
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAAACGGATTCAAAGATTG
* * * * *
242977 TTGTTTCAAGGGAAAATGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAGATTCAAAGATT
66 GTGTTTCAAGAGAAAATGTCCCAAGAGAGACAAAATTTGTCTAAAGGGAAACAGATTCAAAGATT
* *
243042 TTGTTTCAAGAGAAACTGTCTCAAAAGTGACAAAACTT
131 TTGTTTCAAGAGAAACTATCTCAAAAGAGACAAAACTT
243080 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTT
243121 TTTAGAGAAA
Statistics
Matches: 187, Mismatches: 21, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
167 128 0.68
168 59 0.32
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (168 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAAACGGATTCAAAGATTG
GTGTTTCAAGAGAAAATGTCCCAAGAGAGACAAAATTTGTCTAAAGGGAAACAGATTCAAAGATT
TTGTTTCAAGAGAAACTATCTCAAAAGAGACAAAACTT
Found at i:243128 original size:37 final size:36
Alignment explanation
Indices: 243041--243233 Score: 140
Period size: 37 Copynumber: 5.3 Consensus size: 36
243031 ATTCAAAGAT
* ** *
243041 TTTGTTTCAAGAGAAACTGTCTCAAAAGTGACAAAA
1 TTTGTTTTAAGAGAAACTGTCTCAAGTGAGACAAAA
* *
243077 CTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA
1 -TTTGTTTTAAGAGAAACTGTCTCAAGTGAGACAAAA
* * * ** *
243114 TTTGTTTTTTAGAGAAAATAATCTCAAGTGAGATTAAT
1 TTTG-TTTTAAGAGAAACT-GTCTCAAGTGAGACAAAA
* *
243152 TTTGTTTTAAG-GAAAATTGTCTCCAGTGAGACAAAA
1 TTTGTTTTAAGAG-AAACTGTCTCAAGTGAGACAAAA
* * * * *
243188 TTTGTTATTAGGA-AAATTATCTCATGTGAGATC-AAT
1 TTTGTT-TTAAGAGAAACTGTCTCAAGTGAGA-CAAAA
243224 TTTGTTTTAA
1 TTTGTTTTAA
243234 ATATTTCAAA
Statistics
Matches: 126, Mismatches: 24, Indels: 14
0.77 0.15 0.09
Matches are distributed among these distances:
35 3 0.02
36 47 0.37
37 59 0.47
38 17 0.13
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (36 bp):
TTTGTTTTAAGAGAAACTGTCTCAAGTGAGACAAAA
Found at i:243201 original size:36 final size:35
Alignment explanation
Indices: 243070--243232 Score: 130
Period size: 36 Copynumber: 4.5 Consensus size: 35
243060 TCTCAAAAGT
* * * * *
243070 GACAAAACTTTGTTTCAAGAGAAACTGTCTCAAGGGA
1 GACAAAA-TTTGTTTTAGGA-AAATTATCTCAAGTGA
*
243107 GACAAAATTTGTTTTTTAGAGAAAATAATCTCAAGTGA
1 GACAAAATTTG--TTTTAG-GAAAATTATCTCAAGTGA
** * * *
243145 GATTAATTTTGTTTTAAGGAAAATTGTCTCCAGTGA
1 GACAAAATTTGTTTT-AGGAAAATTATCTCAAGTGA
*
243181 GACAAAATTTGTTATTAGGAAAATTATCTCATGTGA
1 GACAAAATTTGTT-TTAGGAAAATTATCTCAAGTGA
*
243217 GATC-AATTTTGTTTTA
1 GA-CAAAATTTGTTTTA
243233 AATATTTCAA
Statistics
Matches: 101, Mismatches: 19, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
35 3 0.03
36 60 0.59
37 12 0.12
38 24 0.24
39 2 0.02
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (35 bp):
GACAAAATTTGTTTTAGGAAAATTATCTCAAGTGA
Found at i:243229 original size:72 final size:74
Alignment explanation
Indices: 243078--243233 Score: 210
Period size: 74 Copynumber: 2.1 Consensus size: 74
243068 GTGACAAAAC
* *
243078 TTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTTTAGAGAAAATAATCTCAAGT
1 TTTGTTTTAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTATTAGAGAAAATAATCTCAAGT
*
243143 GAGATTAAT
66 GAGATCAAT
* * * * *
243152 TTTGTTTTAAG-GAAAATTGTCTCCAGTGAGACAAAATTTG-TTATTAG-GAAAATTATCTCATG
1 TTTGTTTTAAGAG-AAACTGTCTCAAGGGAGACAAAATTTGTTTATTAGAGAAAATAATCTCAAG
243214 TGAGATCAAT
65 TGAGATCAAT
243224 TTTGTTTTAA
1 TTTGTTTTAA
243234 ATATTTCAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
72 32 0.44
73 7 0.10
74 34 0.47
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (74 bp):
TTTGTTTTAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTATTAGAGAAAATAATCTCAAGT
GAGATCAAT
Found at i:245629 original size:28 final size:29
Alignment explanation
Indices: 245579--245646 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
245569 TAAACTAATA
*
245579 CAAAGATGCAAAGATGCACGTGC-AAATG
1 CAAAGATGCAAAAATGCACGTGCAAAATG
*
245607 CAAAGATGCAAAAATGGGA-GTGCAAAATG
1 CAAAGATGCAAAAAT-GCACGTGCAAAATG
*
245636 C-GAGATGCAAA
1 CAAAGATGCAAA
245647 TGCAACAAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 27 0.77
29 8 0.23
ACGTcount: A:0.46, C:0.15, G:0.26, T:0.13
Consensus pattern (29 bp):
CAAAGATGCAAAAATGCACGTGCAAAATG
Found at i:245630 original size:14 final size:15
Alignment explanation
Indices: 245610--245646 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
245600 GCAAATGCAA
*
245610 AGATGCAAAAATGGG
1 AGATGCAAAAATGCG
245625 AG-TGC-AAAATGCG
1 AGATGCAAAAATGCG
245638 AGATGCAAA
1 AGATGCAAA
245647 TGCAACAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
13 9 0.47
14 6 0.32
15 4 0.21
ACGTcount: A:0.46, C:0.11, G:0.30, T:0.14
Consensus pattern (15 bp):
AGATGCAAAAATGCG
Found at i:248842 original size:17 final size:17
Alignment explanation
Indices: 248816--248860 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
248806 TTTCCTTCTT
*
248816 TTCGAATGGTTCTCCCC
1 TTCGATTGGTTCTCCCC
248833 TTCGATTGGTTCTCCCC
1 TTCGATTGGTTCTCCCC
248850 TTCGATTGGTT
1 TTCGATTGGTT
248861 TTCTCTCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.09, C:0.29, G:0.20, T:0.42
Consensus pattern (17 bp):
TTCGATTGGTTCTCCCC
Found at i:249283 original size:3 final size:3
Alignment explanation
Indices: 249275--249304 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
249265 ATTAATTAAC
249275 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
249305 TTTTTTTCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:251643 original size:17 final size:17
Alignment explanation
Indices: 251621--251658 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
251611 TAAGTTATAC
*
251621 ATGTGATAATTATCCAT
1 ATGTGATAAGTATCCAT
251638 ATGTGATAAGTATCCAT
1 ATGTGATAAGTATCCAT
251655 ATGT
1 ATGT
251659 TTGATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (17 bp):
ATGTGATAAGTATCCAT
Done.