Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002819.1 Hibiscus syriacus cultivar Beakdansim tig00005799_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: 213166
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
File 1 of 2
Found at i:15415 original size:24 final size:24
Alignment explanation
Indices: 15374--15458 Score: 82
Period size: 28 Copynumber: 3.3 Consensus size: 24
15364 GTTCGTGAAC
15374 GTTCGATTATATGTTCGTTTATGTTT
1 GTTC-ATT-TATGTTCGTTTATGTTT
15400 GTTCATTTATGTTCGTTCGTTTATGTTT
1 GTTCATTTA---T-GTTCGTTTATGTTT
* *
15428 GTTCATTTATATTCGTTCAT-TTAT
1 GTTCATTTATGTTCGTTTATGTT-T
15452 GTTCATT
1 GTTCATT
15459 CATTTATGTT
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
23 2 0.04
24 18 0.35
25 4 0.08
26 4 0.08
27 1 0.02
28 23 0.44
ACGTcount: A:0.15, C:0.11, G:0.15, T:0.59
Consensus pattern (24 bp):
GTTCATTTATGTTCGTTTATGTTT
Found at i:15421 original size:28 final size:28
Alignment explanation
Indices: 15386--15469 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
15376 TCGATTATAT
15386 GTTCGTTTATGTTTGTTCATTTATGTTC
1 GTTCGTTTATGTTTGTTCATTTATGTTC
*
15414 GTTCGTTTATGTTTGTTCATTTATATTC
1 GTTCGTTTATGTTTGTTCATTTATGTTC
* **
15442 GTTCATTTATGTTCATTCATTTATGTTC
1 GTTCGTTTATGTTTGTTCATTTATGTTC
15470 AAACAGAGGG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.14, C:0.12, G:0.14, T:0.60
Consensus pattern (28 bp):
GTTCGTTTATGTTTGTTCATTTATGTTC
Found at i:15470 original size:14 final size:14
Alignment explanation
Indices: 15386--15469 Score: 114
Period size: 14 Copynumber: 6.0 Consensus size: 14
15376 TCGATTATAT
* *
15386 GTTCGTTTATGTTT
1 GTTCATTTATGTTC
15400 GTTCATTTATGTTC
1 GTTCATTTATGTTC
* *
15414 GTTCGTTTATGTTT
1 GTTCATTTATGTTC
*
15428 GTTCATTTATATTC
1 GTTCATTTATGTTC
15442 GTTCATTTATGTTC
1 GTTCATTTATGTTC
*
15456 ATTCATTTATGTTC
1 GTTCATTTATGTTC
15470 AAACAGAGGG
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 61 1.00
ACGTcount: A:0.14, C:0.12, G:0.14, T:0.60
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:15731 original size:13 final size:13
Alignment explanation
Indices: 15713--15761 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
15703 GTTCGAATAA
15713 GTTTGTTTTTTGT
1 GTTTGTTTTTTGT
*
15726 GTTTGTGTTGTTTAT
1 GTTTGT-TT-TTTGT
*
15741 GTTTGTTTATTGT
1 GTTTGTTTTTTGT
*
15754 GTTCGTTT
1 GTTTGTTT
15762 ATGTTCATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 16 0.53
14 4 0.13
15 10 0.33
ACGTcount: A:0.04, C:0.02, G:0.24, T:0.69
Consensus pattern (13 bp):
GTTTGTTTTTTGT
Found at i:15748 original size:10 final size:10
Alignment explanation
Indices: 15713--15840 Score: 55
Period size: 10 Copynumber: 12.0 Consensus size: 10
15703 GTTCGAATAA
15713 GTTTGTTT-T
1 GTTTGTTTAT
*
15722 -TTGTGTTTGT
1 GTT-TGTTTAT
15732 G-TTGTTTAT
1 GTTTGTTTAT
15741 GTTTGTTTATT
1 GTTTGTTTA-T
15752 GTGTTCGTTTAT
1 GT-TT-GTTTAT
*
15764 GTTCATTTATTAT
1 GTT--TGT-TTAT
*
15777 GTTCGTTTAT
1 GTTTGTTTAT
*
15787 GTTCGTTCGTTTGT
1 G-T--TT-GTTTAT
* *
15801 GTTCGTTTAC
1 GTTTGTTTAT
*
15811 GTTCGTTTAT
1 GTTTGTTTAT
*
15821 GTTCGTTTAT
1 GTTTGTTTAT
*
15831 GTTCGTTTAT
1 GTTTGTTTAT
15841 CATTTAAATG
Statistics
Matches: 95, Mismatches: 10, Indels: 27
0.72 0.08 0.20
Matches are distributed among these distances:
8 2 0.02
9 12 0.13
10 47 0.49
11 7 0.07
12 6 0.06
13 15 0.16
14 6 0.06
ACGTcount: A:0.09, C:0.08, G:0.21, T:0.62
Consensus pattern (10 bp):
GTTTGTTTAT
Found at i:15764 original size:23 final size:23
Alignment explanation
Indices: 15728--15840 Score: 137
Period size: 23 Copynumber: 5.0 Consensus size: 23
15718 TTTTTTGTGT
*
15728 TTGTGTT-GTTTATGTTTGTTTA
1 TTGTGTTCGTTTATGTTCGTTTA
*
15750 TTGTGTTCGTTTATGTTCATTTA
1 TTGTGTTCGTTTATGTTCGTTTA
*
15773 TTATGTTCGTTTATGTTCGTTCGT-
1 TTGTGTTCGTTTATGTTCGTT--TA
*
15797 TTGTGTTCGTTTACGTTCGTTTA
1 TTGTGTTCGTTTATGTTCGTTTA
15820 ---TGTTCGTTTATGTTCGTTTA
1 TTGTGTTCGTTTATGTTCGTTTA
15840 T
1 T
15841 CATTTAAATG
Statistics
Matches: 79, Mismatches: 7, Indels: 11
0.81 0.07 0.11
Matches are distributed among these distances:
20 19 0.24
22 8 0.10
23 32 0.41
24 19 0.24
25 1 0.01
ACGTcount: A:0.10, C:0.09, G:0.20, T:0.61
Consensus pattern (23 bp):
TTGTGTTCGTTTATGTTCGTTTA
Found at i:15796 original size:14 final size:14
Alignment explanation
Indices: 15777--15807 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
15767 CATTTATTAT
15777 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
*
15791 GTTCGTTTGTGTTC
1 GTTCGTTTATGTTC
15805 GTT
1 GTT
15808 TACGTTCGTT
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:0.03, C:0.13, G:0.26, T:0.58
Consensus pattern (14 bp):
GTTCGTTTATGTTC
Found at i:15815 original size:20 final size:20
Alignment explanation
Indices: 15790--15840 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
15780 CGTTTATGTT
*
15790 CGTTCGTTTGTGTTCGTTTA
1 CGTTCGTTTATGTTCGTTTA
15810 CGTTCGTTTATGTTCGTTTA
1 CGTTCGTTTATGTTCGTTTA
*
15830 TGTTCGTTTAT
1 CGTTCGTTTAT
15841 CATTTAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.08, C:0.14, G:0.22, T:0.57
Consensus pattern (20 bp):
CGTTCGTTTATGTTCGTTTA
Found at i:16833 original size:22 final size:22
Alignment explanation
Indices: 16805--16852 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
16795 ACTATTAAAG
16805 TGTAAGGATGATGTTATGATGA
1 TGTAAGGATGATGTTATGATGA
* *
16827 TGTAAGGATGATTTTATGATGT
1 TGTAAGGATGATGTTATGATGA
16849 TGTA
1 TGTA
16853 TTATGGTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (22 bp):
TGTAAGGATGATGTTATGATGA
Found at i:18501 original size:24 final size:24
Alignment explanation
Indices: 18473--18550 Score: 129
Period size: 24 Copynumber: 3.2 Consensus size: 24
18463 CGTTCGGTAA
* * *
18473 TATGTTTGTTTTTGTTCGTTCATT
1 TATGTTCGTTTATGTGCGTTCATT
18497 TATGTTCGTTTATGTGCGTTCATT
1 TATGTTCGTTTATGTGCGTTCATT
18521 TATGTTCGTTTATGTGCGTTCATT
1 TATGTTCGTTTATGTGCGTTCATT
18545 TATGTT
1 TATGTT
18551 TAGCTCAATC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.12, C:0.10, G:0.19, T:0.59
Consensus pattern (24 bp):
TATGTTCGTTTATGTGCGTTCATT
Found at i:18504 original size:14 final size:14
Alignment explanation
Indices: 18485--18550 Score: 58
Period size: 14 Copynumber: 5.3 Consensus size: 14
18475 TGTTTGTTTT
18485 TGTTCGTTCATTTA
1 TGTTCGTTCATTTA
18499 TGTTCG----TTTA
1 TGTTCGTTCATTTA
*
18509 TGTGCGTTCATTTA
1 TGTTCGTTCATTTA
18523 TGTTCG----TTTA
1 TGTTCGTTCATTTA
*
18533 TGTGCGTTCATTTA
1 TGTTCGTTCATTTA
18547 TGTT
1 TGTT
18551 TAGCTCAATC
Statistics
Matches: 40, Mismatches: 4, Indels: 16
0.67 0.07 0.27
Matches are distributed among these distances:
10 18 0.45
14 22 0.55
ACGTcount: A:0.12, C:0.12, G:0.20, T:0.56
Consensus pattern (14 bp):
TGTTCGTTCATTTA
Found at i:18758 original size:10 final size:10
Alignment explanation
Indices: 18718--18765 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
18708 TATATTTTCA
18718 TTTATGTTCG
1 TTTATGTTCG
**
18728 TTTACATTCG
1 TTTATGTTCG
18738 TTTATTGTGTTCG
1 TTTA---TGTTCG
18751 TTTATGTTCG
1 TTTATGTTCG
18761 TTTAT
1 TTTAT
18766 ATTTGTTCAG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
10 23 0.74
13 8 0.26
ACGTcount: A:0.12, C:0.10, G:0.17, T:0.60
Consensus pattern (10 bp):
TTTATGTTCG
Found at i:18760 original size:33 final size:34
Alignment explanation
Indices: 18718--18789 Score: 110
Period size: 33 Copynumber: 2.1 Consensus size: 34
18708 TATATTTTCA
*
18718 TTTATGTTCGTTTACATTCGTTTA-TTGTGTTCG
1 TTTATGTTCGTTTACATTCGTTCAGTTGTGTTCG
* *
18751 TTTATGTTCGTTTATATTTGTTCAGTTGTGTTCG
1 TTTATGTTCGTTTACATTCGTTCAGTTGTGTTCG
18785 TTTAT
1 TTTAT
18790 TATTTAAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 21 0.60
34 14 0.40
ACGTcount: A:0.12, C:0.10, G:0.18, T:0.60
Consensus pattern (34 bp):
TTTATGTTCGTTTACATTCGTTCAGTTGTGTTCG
Found at i:18782 original size:24 final size:24
Alignment explanation
Indices: 18722--18794 Score: 78
Period size: 23 Copynumber: 3.0 Consensus size: 24
18712 TTTTCATTTA
** *
18722 TGTTCGTTTACATTCGTTTAT-TG
1 TGTTCGTTTATGTTCGTTTATATT
18745 TGTTCGTTTATGTTCGTTTATATT
1 TGTTCGTTTATGTTCGTTTATATT
*
18769 TGTTCAG-TTGTGTTCGTTTATTATT
1 TGTTC-GTTTATGTTCGTTTA-TATT
18794 T
1 T
18795 AAATGAACGA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.44
24 18 0.42
25 6 0.14
ACGTcount: A:0.12, C:0.10, G:0.18, T:0.60
Consensus pattern (24 bp):
TGTTCGTTTATGTTCGTTTATATT
Found at i:25781 original size:42 final size:41
Alignment explanation
Indices: 25734--25858 Score: 178
Period size: 42 Copynumber: 3.0 Consensus size: 41
25724 AGTATAAATT
25734 TTAGAAATATTTAGAGACCAGAATGGTAATTTTCTTCAAAAG
1 TTAGAAATATTTAG-GACCAGAATGGTAATTTTCTTCAAAAG
* *
25776 TTAGAAATATTCAGGGACTAGAATGGTAATTTTCTTCAAAAG
1 TTAGAAATATTTA-GGACCAGAATGGTAATTTTCTTCAAAAG
* * *
25818 TTAGAAATATTTAGGTACCATAATGATAATTTTCTTAAAAA
1 TTAGAAATATTTAGG-ACCAGAATGGTAATTTTCTTCAAAA
25859 AAAATTATTT
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
41 2 0.03
42 71 0.96
43 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (41 bp):
TTAGAAATATTTAGGACCAGAATGGTAATTTTCTTCAAAAG
Found at i:28803 original size:22 final size:21
Alignment explanation
Indices: 28778--28822 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
28768 CACTATAAGT
28778 TATGTGAT-ATTTTATATATTGA
1 TATGT-ATGATTTTATAT-TTGA
*
28800 TATGTTTGATTTTATATTTGA
1 TATGTATGATTTTATATTTGA
28821 TA
1 TA
28823 ATGACTCGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (21 bp):
TATGTATGATTTTATATTTGA
Found at i:29066 original size:17 final size:17
Alignment explanation
Indices: 29044--29078 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
29034 AAAAATGCTC
29044 TGATATGTGTATAGCTT
1 TGATATGTGTATAGCTT
29061 TGATATGTGTATAGCTT
1 TGATATGTGTATAGCTT
29078 T
1 T
29079 TAAATGTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.49
Consensus pattern (17 bp):
TGATATGTGTATAGCTT
Found at i:29085 original size:17 final size:17
Alignment explanation
Indices: 29048--29085 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
29038 ATGCTCTGAT
*
29048 ATGTGTATAGCTTTGAT
1 ATGTGTATAGCTTTGAA
*
29065 ATGTGTATAGCTTTTAA
1 ATGTGTATAGCTTTGAA
29082 ATGT
1 ATGT
29086 TTCGTAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.47
Consensus pattern (17 bp):
ATGTGTATAGCTTTGAA
Found at i:39037 original size:20 final size:20
Alignment explanation
Indices: 39012--39051 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
39002 ACTAGGGGGC
39012 GACTTGGTGCATTAAATGCA
1 GACTTGGTGCATTAAATGCA
*
39032 GACTTGGTTCATTAAATGCA
1 GACTTGGTGCATTAAATGCA
39052 CCCAAATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (20 bp):
GACTTGGTGCATTAAATGCA
Found at i:39462 original size:3 final size:3
Alignment explanation
Indices: 39456--39487 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
39446 TTATTTAATA
39456 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
39488 CTGGACGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:41880 original size:18 final size:19
Alignment explanation
Indices: 41845--41881 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
41835 TCATAATATT
*
41845 ATATATAATTTAAATTCAC
1 ATATAAAATTTAAATTCAC
41864 ATATAAAATTT-AATTCAC
1 ATATAAAATTTAAATTCAC
41882 GTATTAACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.41
Consensus pattern (19 bp):
ATATAAAATTTAAATTCAC
Found at i:41928 original size:31 final size:30
Alignment explanation
Indices: 41894--42189 Score: 115
Period size: 30 Copynumber: 9.9 Consensus size: 30
41884 ATTAACACTA
*
41894 AAAAAATATATTTTAATATTATCTTAACTT
1 AAAAAATATATTTTATTATTATCTTAACTT
* *
41924 -AAAAATAT-TTTTATTCTTATCTTAAATTT
1 AAAAAATATATTTTATTATTATCTT-AACTT
* * *
41953 TAAAAATATATTTTATTTTTATCTTGACTT
1 AAAAAATATATTTTATTATTATCTTAACTT
**** * * *
41983 ATTTCATATATTATATTCTTAACTATAA-TT
1 AAAAAATATATTTTATTATTATCT-TAACTT
** * * * * *
42013 ATTAAATATATTCTATCATTACCCTAAATT
1 AAAAAATATATTTTATTATTATCTTAACTT
** * *
42043 -ATTAA-ATA--TTATTATTATTTTAAATT
1 AAAAAATATATTTTATTATTATCTTAACTT
* *
42069 AAAAAATATATATTTTATTCTTATCTTAATTT
1 -AAAAA-ATATATTTTATTATTATCTTAACTT
* ** * *
42101 GTAAATTTATATTTTATT-TTAATTCTAAATTT
1 -AAAAAATATATTTTATTATT-A-TCTTAACTT
* * * *
42133 GAAATATACATTTTATTTTTATCTTAAC-T
1 AAAAAATATATTTTATTATTATCTTAACTT
* * *
42162 AAAAATGTATATTTTATTTTTACCTTAA
1 AAAAA-ATATATTTTATTATTATCTTAA
42190 TTTTAAAATA
Statistics
Matches: 202, Mismatches: 49, Indels: 30
0.72 0.17 0.11
Matches are distributed among these distances:
26 13 0.06
28 18 0.09
29 23 0.11
30 77 0.38
31 43 0.21
32 28 0.14
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.53
Consensus pattern (30 bp):
AAAAAATATATTTTATTATTATCTTAACTT
Found at i:42066 original size:26 final size:26
Alignment explanation
Indices: 42037--42087 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
42027 ATCATTACCC
**
42037 TAAATTATTAAATAT-TATTATTATTT
1 TAAATTAAAAAATATATATT-TTATTT
42063 TAAATTAAAAAATATATATTTTATT
1 TAAATTAAAAAATATATATTTTATT
42088 CTTATCTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TAAATTAAAAAATATATATTTTATTT
Found at i:42110 original size:24 final size:24
Alignment explanation
Indices: 42082--42132 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
42072 AAATATATAT
*
42082 TTTAT-TCTTATCTTAATTTGTAAA
1 TTTATATCTTATCTTAA-TTCTAAA
* *
42106 TTTATATTTTATTTTAATTCTAAA
1 TTTATATCTTATCTTAATTCTAAA
42130 TTT
1 TTT
42133 GAAATATACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (24 bp):
TTTATATCTTATCTTAATTCTAAA
Found at i:42117 original size:25 final size:24
Alignment explanation
Indices: 42080--42132 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
42070 AAAAATATAT
*
42080 ATTTTATTCTTATCTTAATTTGTAA
1 ATTTTATTCTTATCTTAA-TTCTAA
*
42105 ATTTATATT-TTATTTTAATTCTAA
1 ATTT-TATTCTTATCTTAATTCTAA
42129 ATTT
1 ATTT
42133 GAAATATACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.36
25 12 0.48
26 4 0.16
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (24 bp):
ATTTTATTCTTATCTTAATTCTAA
Found at i:42178 original size:30 final size:30
Alignment explanation
Indices: 42051--42201 Score: 122
Period size: 31 Copynumber: 4.9 Consensus size: 30
42041 TTATTAAATA
* *
42051 TTATTATTATTTTAAATTAAAAAATATATATT
1 TTATTTTTATCTT-AATT-AAAAATATATATT
* ** *
42083 TTATTCTTATCTTAATTTGTAAATTTATATT
1 TTATTTTTATCTTAA-TTAAAAATATATATT
* * ** *
42114 TTATTTTAATTCTAAATTTGAAATATACATT
1 TTATTTTTA-TCTTAATTAAAAATATATATT
* *
42145 TTATTTTTATCTTAACTAAAAATGTATATT
1 TTATTTTTATCTTAATTAAAAATATATATT
* *
42175 TTATTTTTACCTTAATTTTAAAATATA
1 TTATTTTTATCTTAA-TTAAAAATATA
42202 ATAAGAATAA
Statistics
Matches: 93, Mismatches: 23, Indels: 7
0.76 0.19 0.06
Matches are distributed among these distances:
30 29 0.31
31 46 0.49
32 18 0.19
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (30 bp):
TTATTTTTATCTTAATTAAAAATATATATT
Found at i:42260 original size:28 final size:28
Alignment explanation
Indices: 42202--42280 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 28
42192 TTAAAATATA
*
42202 ATAAGAATAAAATATAAATATTTAAGTTAAG
1 ATAAAAATAAAATAT--AT-TTTAAGTTAAG
*
42233 GTAAAAATAAAATATATTTTAAGTTAAG
1 ATAAAAATAAAATATATTTTAAGTTAAG
* * *
42261 ATAAGATTAAAATCTATTTT
1 ATAAAAATAAAATATATTTT
42281 TTTTTATTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 27 0.64
29 2 0.05
31 13 0.31
ACGTcount: A:0.53, C:0.01, G:0.09, T:0.37
Consensus pattern (28 bp):
ATAAAAATAAAATATATTTTAAGTTAAG
Found at i:47350 original size:16 final size:15
Alignment explanation
Indices: 47323--47353 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
47313 AAAATCTTAA
47323 TTTTATTTATTAATT
1 TTTTATTTATTAATT
47338 TTTTATATTATTAATT
1 TTTTAT-TTATTAATT
47354 ATGTTCATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTATTTATTAATT
Found at i:47624 original size:27 final size:28
Alignment explanation
Indices: 47594--47666 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 28
47584 TCTTATTTTC
47594 TTATTAATTT-TA-ATAGTTAAAAATAAA
1 TTATTAATTTATACATA-TTAAAAATAAA
* *
47621 TTATTTATTTATACATATTAAATATAAAA
1 TTATTAATTTATACATATTAAAAAT-AAA
* *
47650 TTA-AAATTTACACATAT
1 TTATTAATTTATACATAT
47667 AATGTAACTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
27 9 0.24
28 20 0.53
29 9 0.24
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (28 bp):
TTATTAATTTATACATATTAAAAATAAA
Found at i:54471 original size:24 final size:24
Alignment explanation
Indices: 54444--54492 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
54434 ACCCCTATAG
54444 AGTTTTTGACAATTTTCCTAACTT
1 AGTTTTTGACAATTTTCCTAACTT
54468 AGTTTTTGACAATTTTCCTAACTT
1 AGTTTTTGACAATTTTCCTAACTT
54492 A
1 A
54493 TCTTCCAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.16, G:0.08, T:0.49
Consensus pattern (24 bp):
AGTTTTTGACAATTTTCCTAACTT
Found at i:60493 original size:21 final size:21
Alignment explanation
Indices: 60468--60520 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
60458 ATACTCTTAG
60468 GGGTATCAATAATTGATCCTA
1 GGGTATCAATAATTGATCCTA
60489 GGGTATCAATAATTGATCCTA
1 GGGTATCAATAATTGATCCTA
60510 GGGTATCAATA
1 GGGTATCAATA
60521 CTATAAGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (21 bp):
GGGTATCAATAATTGATCCTA
Found at i:68994 original size:79 final size:77
Alignment explanation
Indices: 68899--69048 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 77
68889 AGTAAGTAAG
68899 CATTAAAAGAATGTAATTTAGATTACAACTCTTTTAATTGATATATATAATTCGGAATAATTAAA
1 CATTAAAAGAATGTAATTTAGATTACAACTC-TTTAA-TG-TATATATAATT-GGAATAATTAAA
68964 TAAT-TTTTAAATAAA
62 TAATATTTTAAATAAA
* * * * *
68979 CATT-AAAGATTGTAATTTAGATTATAAGTCTTTAATGTATATTTAATTTGAATAATTAAATAAT
1 CATTAAAAGAATGTAATTTAGATTACAACTCTTTAATGTATATATAATTGGAATAATTAAATAAT
69043 ATTTTA
66 ATTTTA
69049 TTTATTAATT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
75 15 0.23
76 15 0.23
77 2 0.03
78 5 0.08
79 23 0.36
80 4 0.06
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (77 bp):
CATTAAAAGAATGTAATTTAGATTACAACTCTTTAATGTATATATAATTGGAATAATTAAATAAT
ATTTTAAATAAA
Found at i:89082 original size:27 final size:29
Alignment explanation
Indices: 89047--89103 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
89037 ATTTATCATA
*
89047 AAAATTAATATTA-TTATT-TTTAAATATT
1 AAAATTAAT-TTATTTATTATTAAAATATT
89075 AAAA-TAATTTATTTATTATTAAAATATT
1 AAAATTAATTTATTTATTATTAAAATATT
89103 A
1 A
89104 TTTTTATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 3 0.12
27 9 0.35
28 14 0.54
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
AAAATTAATTTATTTATTATTAAAATATT
Found at i:89109 original size:20 final size:20
Alignment explanation
Indices: 89058--89110 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
89048 AAATTAATAT
*
89058 TATTATTTTTAAATATTAAAA
1 TATTATTTTT-ATTATTAAAA
*
89079 TAATT-TATTTATTATTAAAA
1 T-ATTATTTTTATTATTAAAA
89099 TATTATTTTTAT
1 TATTATTTTTAT
89111 AATTTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 3 0.11
20 16 0.59
21 5 0.19
22 3 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTATTTTTATTATTAAAA
Found at i:89297 original size:24 final size:23
Alignment explanation
Indices: 89270--89323 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
89260 TTAGATTATT
89270 ATATTAATATTAA-ATATATAAATA
1 ATATTAATATTAATA-AT-TAAATA
* *
89294 ATATTCATTATTAATAATTTAATA
1 ATATT-AATATTAATAATTAAATA
89318 ATATTA
1 ATATTA
89324 TTTCTATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.04
24 15 0.58
25 9 0.35
26 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
ATATTAATATTAATAATTAAATA
Found at i:89361 original size:24 final size:24
Alignment explanation
Indices: 89287--89361 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 24
89277 TATTAAATAT
* *
89287 ATAAATAATATTCATTAT-TAATA
1 ATAAATAATATTTATTATATATTA
* * *
89310 ATTTAATAATATTATTTCTATGAAATTA
1 A-TAAATAATATT-TAT-TAT-ATATTA
89338 ATAAATAATATTTATTATATATTA
1 ATAAATAATATTTATTATATATTA
89362 TATATTATTA
Statistics
Matches: 39, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
23 1 0.03
24 15 0.38
25 4 0.10
26 5 0.13
27 10 0.26
28 4 0.10
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (24 bp):
ATAAATAATATTTATTATATATTA
Found at i:89591 original size:37 final size:38
Alignment explanation
Indices: 89502--89780 Score: 199
Period size: 37 Copynumber: 7.3 Consensus size: 38
89492 ATAACATAAA
* *
89502 TTTTGAAAATATTTTTTGAAAAT-TATA-A-TATATAAT
1 TTTTGAAAACA-TTTTTGAAAATATATATATTATATAGT
**
89538 TTTTAGAAAGTAGTTTTTGAAAATATATATATTATATAG-
1 TTTT-GAAAACA-TTTTTGAAAATATATATATTATATAGT
* * *
89577 TTTTGAAAAC-GTTTTGAAAACATATATTATATAGATTTAGAAAAT
1 TTTTGAAAACATTTTTG-AAA-ATATA-TATAT-TATATAG----T
* * * *
89622 AGTTTGTGAAAACATTTTTTAAAATATATATAATATATAGT
1 -TTTTG-AAAA-CATTTTTGAAAATATATATATTATATAGT
*
89663 TTTTGAAAACA-TTTTAAAAATATATATAATT-TATAGT
1 TTTTGAAAACATTTTTGAAAATATATAT-ATTATATAGT
* *
89700 TTTTGAAAATATTTTT-----TA-ATATAATATATAGT
1 TTTTGAAAACATTTTTGAAAATATATATATTATATAGT
89732 TTTTGAAAACATTTTTGAAAATATATATATTATATAG-
1 TTTTGAAAACATTTTTGAAAATATATATATTATATAGT
89769 TTTTGAAAACAT
1 TTTTGAAAACAT
89781 ATATATAATA
Statistics
Matches: 194, Mismatches: 23, Indels: 51
0.72 0.09 0.19
Matches are distributed among these distances:
31 2 0.01
32 25 0.13
33 2 0.01
36 9 0.05
37 65 0.34
38 33 0.17
39 13 0.07
40 15 0.08
41 1 0.01
45 5 0.03
46 8 0.04
47 8 0.04
48 4 0.02
49 4 0.02
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (38 bp):
TTTTGAAAACATTTTTGAAAATATATATATTATATAGT
Found at i:89607 original size:34 final size:37
Alignment explanation
Indices: 89539--89636 Score: 112
Period size: 34 Copynumber: 2.7 Consensus size: 37
89529 ATATATAATT
* * *
89539 TTTAGAAAGTAGTTTTTGAAAATATATATATTATATAG-
1 TTTAGAAAATAGTTTGTG-AAA-ACATATATTATATAGA
* *
89577 TTTTGAAAA-CGTTT-TGAAAACATATATTATATAGA
1 TTTAGAAAATAGTTTGTGAAAACATATATTATATAGA
89612 TTTAGAAAATAGTTTGTGAAAACAT
1 TTTAGAAAATAGTTTGTGAAAACAT
89637 TTTTTAAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
34 14 0.27
35 11 0.22
36 6 0.12
37 13 0.25
38 7 0.14
ACGTcount: A:0.43, C:0.03, G:0.13, T:0.41
Consensus pattern (37 bp):
TTTAGAAAATAGTTTGTGAAAACATATATTATATAGA
Found at i:89730 original size:32 final size:32
Alignment explanation
Indices: 89686--89869 Score: 108
Period size: 32 Copynumber: 5.5 Consensus size: 32
89676 TTAAAAATAT
*
89686 ATATAATTTATAGTTTTTGAAAATATTTTTTA
1 ATATAATATATAGTTTTTGAAAATATTTTTTA
* *
89718 ATATAATATATAGTTTTTGAAAACATTTTTGAAA
1 ATATAATATATAGTTTTTGAAAATATTTTT--TA
* *
89752 ATATATATATTATA-TAGTTTTGAAAACA---TAT-
1 ATATA-ATA-TATAGT--TTTTGAAAATATTTTTTA
* *
89783 ATATAATATATAGTTTTTAAAAAATATTTTTGA
1 ATATAATATATAGTTTTT-GAAAATATTTTTTA
* * * * *
89816 AAATATCTATATAATTTTTTTAAAATAGTTTTAAATA
1 ATATA-ATATAT-AGTTTTTGAAAATA-TTTT--TTA
89853 TATATAATATATAGTTT
1 -ATATAATATATAGTTT
89870 GAAATGCTTT
Statistics
Matches: 116, Mismatches: 18, Indels: 32
0.70 0.11 0.19
Matches are distributed among these distances:
28 4 0.03
29 9 0.08
30 4 0.03
31 5 0.04
32 29 0.25
33 4 0.03
34 18 0.16
35 14 0.12
36 8 0.07
37 17 0.15
38 4 0.03
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (32 bp):
ATATAATATATAGTTTTTGAAAATATTTTTTA
Found at i:89773 original size:69 final size:69
Alignment explanation
Indices: 89649--89869 Score: 244
Period size: 69 Copynumber: 3.2 Consensus size: 69
89639 TTTAAAATAT
*
89649 ATATAATATATAGTTTTTGAAAACA-TTTTAAAAATATATATAATT-TATAGTTTTTGAAAATAT
1 ATATAATATATAGTTTTTGAAAACATTTTTGAAAATATATAT-ATTATATAG-TTTTGAAAATAT
*
89712 TTTTTA
64 TTTATA
*
89718 ATATAATATATAGTTTTTGAAAACATTTTTGAAAATATATATATTATATAGTTTTGAAAACA---
1 ATATAATATATAGTTTTTGAAAACATTTTTGAAAATATATATATTATATAGTTTTGAAAATATTT
89780 TAT-
66 TATA
* * * * *
89783 ATATAATATATAGTTTTTAAAAAATATTTTTGAAAATATCTATA-TA-AT-TTTTTTAAAATAGT
1 ATATAATATATAGTTTTT-GAAAACATTTTTGAAAATATATATATTATATAGTTTTGAAAATA-T
89845 TTTAAATA
64 TTT--ATA
89853 TATATAATATATAGTTT
1 -ATATAATATATAGTTT
89870 GAAATGCTTT
Statistics
Matches: 132, Mismatches: 9, Indels: 20
0.82 0.06 0.12
Matches are distributed among these distances:
63 9 0.07
64 2 0.02
65 20 0.15
66 24 0.18
67 1 0.01
69 40 0.30
70 20 0.15
71 16 0.12
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (69 bp):
ATATAATATATAGTTTTTGAAAACATTTTTGAAAATATATATATTATATAGTTTTGAAAATATTT
TATA
Found at i:89782 original size:27 final size:26
Alignment explanation
Indices: 89744--89809 Score: 91
Period size: 27 Copynumber: 2.6 Consensus size: 26
89734 TTGAAAACAT
*
89744 TTTTG-AAAATATATATATTATATAG
1 TTTTGAAAAATATATATAATATATAG
89769 TTTTGAAAACATATATATAATATATAG
1 TTTTGAAAA-ATATATATAATATATAG
*
89796 TTTTTAAAAA-ATAT
1 TTTTGAAAAATATAT
89810 TTTTGAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
25 9 0.24
26 4 0.11
27 24 0.65
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (26 bp):
TTTTGAAAAATATATATAATATATAG
Found at i:89794 original size:38 final size:36
Alignment explanation
Indices: 89620--89869 Score: 203
Period size: 37 Copynumber: 7.2 Consensus size: 36
89610 GATTTAGAAA
*
89620 ATAGTTTGTGAAAACATTTTTTAAAATATATATAATAT
1 ATAGTTTTTGAAAACA--TTTTAAAATATATATAATAT
*
89658 ATAGTTTTTGAAAACATTTTAAAAATATATATAATTT
1 ATAGTTTTTGAAAACATTTT-AAAATATATATAATAT
* *
89695 ATAGTTTTTGAAAATATTTT---TTA-ATATAATAT
1 ATAGTTTTTGAAAACATTTTAAAATATATATAATAT
*
89727 ATAGTTTTTGAAAACATTTTTGAAAATATATATATTAT
1 ATAGTTTTTGAAAACA-TTTT-AAAATATATATAATAT
89765 ATAG-TTTTGAAAAC--------ATATATATAATAT
1 ATAGTTTTTGAAAACATTTTAAAATATATATAATAT
* * *
89792 ATAGTTTTTAAAAAATATTTTTGAAAATATCTAT-ATA-
1 ATAGTTTTT-GAAAACA-TTTT-AAAATATATATAATAT
* *
89829 AT--TTTTTTAAAATAGTTTT-AAATATATATAATAT
1 ATAGTTTTTGAAAACA-TTTTAAAATATATATAATAT
89863 ATAGTTT
1 ATAGTTT
89870 GAAATGCTTT
Statistics
Matches: 174, Mismatches: 15, Indels: 48
0.73 0.06 0.20
Matches are distributed among these distances:
27 16 0.09
28 4 0.02
29 4 0.02
32 32 0.18
33 9 0.05
34 12 0.07
35 5 0.03
36 7 0.04
37 48 0.28
38 30 0.17
39 7 0.04
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (36 bp):
ATAGTTTTTGAAAACATTTTAAAATATATATAATAT
Found at i:89828 original size:36 final size:37
Alignment explanation
Indices: 89779--89869 Score: 109
Period size: 34 Copynumber: 2.5 Consensus size: 37
89769 TTTTGAAAAC
*
89779 ATATATATAATATATAGTTTTTAAAAAATATTTTTGAA
1 ATATATATAATATATAGTTTTTAAAAAATAGTTTT-AA
* **
89817 A-ATATCT-ATATA-A-TTTTTTTAAAATAGTTTTAA
1 ATATATATAATATATAGTTTTTAAAAAATAGTTTTAA
89850 ATATATATAATATATAGTTT
1 ATATATATAATATATAGTTT
89870 GAAATGCTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
33 3 0.07
34 20 0.45
35 6 0.14
36 6 0.14
37 8 0.18
38 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.49
Consensus pattern (37 bp):
ATATATATAATATATAGTTTTTAAAAAATAGTTTTAA
Found at i:89854 original size:98 final size:95
Alignment explanation
Indices: 89674--89873 Score: 244
Period size: 98 Copynumber: 2.1 Consensus size: 95
89664 TTTGAAAACA
* * * *
89674 TTTT-AAAAATATATATAATTTATAGTTTTTGAAAATATTTTTTAATATAATATATAGTTTTTGA
1 TTTTGAAAAATATATATAATATATAGTTTTTAAAAATATTTTTGAAAATAATATATAGTTTTTGA
* *
89738 AAACATTTTTGAAAATATATATATTATATAG
66 AAACAGTTTT-AAAATATATATAATATATAG
* *
89769 TTTTGAAAACATATATATAATATATAGTTTTTAAAAAATATTTTTGAAAATATCTATATAATTTT
1 TTTTGAAAA-ATATATATAATATATAGTTTTT-AAAAATATTTTTGAAAATA-ATATAT-AGTTT
* *
89834 TTTAAAATAGTTTT-AAATATATATAATATATAG
62 TTGAAAACAGTTTTAAAATATATATAATATATAG
89867 -TTTGAAA
1 TTTTGAAA
89874 TGCTTTTGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
95 4 0.04
96 4 0.04
97 28 0.31
98 34 0.38
99 5 0.06
100 15 0.17
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (95 bp):
TTTTGAAAAATATATATAATATATAGTTTTTAAAAATATTTTTGAAAATAATATATAGTTTTTGA
AAACAGTTTTAAAATATATATAATATATAG
Found at i:91152 original size:83 final size:83
Alignment explanation
Indices: 91013--91221 Score: 264
Period size: 85 Copynumber: 2.5 Consensus size: 83
91003 TATGATGCGC
* * *
91013 ATTTATGACACGCATTAATGACGTT-CTTTGAGTGTCATTGAAGCCCCCGTCATAAAT-TAAG-A
1 ATTTATGACACGCATT-ATGAC-TTACATTGCGTGTCATTGAAGCCCCCGCCATAAATCT--GCA
91075 TGAC-ACATTTGTGCGTCATAA
62 TGACAACATTTGTGCGTCATAA
* * *
91096 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCTGCCATAAATCTGCTTGA
1 ATTTATGACACGCAT-TATGACTTACATTGCGTGTCATTGAAGCCCCCGCCATAAATCTGCATGA
*
91161 CATACATTTGTGTGTCATAA
65 CA-ACATTTGTGCGTCATAA
91181 ATTTATGACACGCATATATGACTTACATTGCGTGTCATTGA
1 ATTTATGACACGCAT-TATGACTTACATTGCGTGTCATTGA
91222 TGCACACGTC
Statistics
Matches: 111, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
82 3 0.03
83 51 0.46
84 2 0.02
85 55 0.50
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (83 bp):
ATTTATGACACGCATTATGACTTACATTGCGTGTCATTGAAGCCCCCGCCATAAATCTGCATGAC
AACATTTGTGCGTCATAA
Found at i:94874 original size:2 final size:2
Alignment explanation
Indices: 94867--94901 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
94857 TCAATCTACA
94867 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
94902 ATTTCCGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:95050 original size:85 final size:84
Alignment explanation
Indices: 94961--95256 Score: 373
Period size: 85 Copynumber: 3.5 Consensus size: 84
94951 GACGTGTGCA
* * * * * * *
94961 TCAATGACACACAATGTAAGTCATATATGCGTGTAATAAATTTATTACACACAAATGTTTTTCAA
1 TCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGTC-A
*
95026 GC-AGATTTATGACGGGGGCT
65 TCTA-ATTTATGACGGGGGCT
**
95046 TCAATGATGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGTCAT
1 TCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGTCAT
95111 CTTAATTTATGACGGGGGCT
66 C-TAATTTATGACGGGGGCT
* * *
95131 TCAATAACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGTACAAATGTGTGTCAT
1 TCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGTCAT
95196 CTTAATTTATGACGGGGGCT
66 C-TAATTTATGACGGGGGCT
* * *
95216 TCAATGACACTCAAAG-AACGTCATTA-ATGCGCGTCATAAAT
1 TCAATGACACGCAATGTAA-GTCA-TACATGCGTGTCATAAAT
95257 GCTTGTCATA
Statistics
Matches: 189, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
84 4 0.02
85 182 0.96
86 3 0.02
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (84 bp):
TCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGTCAT
CTAATTTATGACGGGGGCT
Found at i:99509 original size:80 final size:82
Alignment explanation
Indices: 99283--100054 Score: 831
Period size: 83 Copynumber: 9.4 Consensus size: 82
99273 TAAAGAAACT
* * * *
99283 ATTTGCAGTATAGCTCAAGGCAAAAAGGGTTATCT-TCCAATAAAGACCTTCGATTTCGATTACA
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGT-C-ACAAAGACCTTCGAGTTCGATTACA
* * *
99347 TTTAGCTCAGAGGCACATC
64 CTCAGCTCAAAGGCACATC
* * * * * * * *
99366 AAATTTACAACATAACTTAAGGCGATAAGGGTTATCTGTCAAAAAAGACCTTCGAGTTTGATTAC
1 --ATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTC-ACAAAGACCTTCGAGTTCGATTAC
* * *
99431 ACTCATCTTAAAGGAACATC
63 ACTCAGCTCAAAGGCACATC
* * *
99451 ATTTGCAGCATAGCTCAAGGAAAAAAGGGTTATCTG-C-CAAAGACCTTGGAGTTCGATTACACT
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCACAAAGACCTTCGAGTTCGATTACACT
*
99514 CAGCTCAAAGGCACATT
66 CAGCTCAAAGGCACATC
* * *
99531 ATTTACAGCATAACTCAAGG-ATAGAAGGGTTATCTGTCAACAAAGACCTTTGAGTTCGATTACA
1 ATTTGCAGCATAGCTCAAGGCA-AGAAGGGTTATCTGTC-ACAAAGACCTTCGAGTTCGATTACA
99595 CTCAGCTCAAAGGCACATC
64 CTCAGCTCAAAGGCACATC
** * * * *
99614 ATTTGCAATATAGCTCAAGGTAAGAAGGGCTATCTG-C-CAAAGACCTTCAAGTTTGATTACACT
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCACAAAGACCTTCGAGTTCGATTACACT
*
99677 CAGCTCATAGGCACATC
66 CAGCTCAAAGGCACATC
* * * * * * *
99694 ATTTGCAGTATATCTTAAGGCTAGGAGGGATATCTGCCAACAAAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTC-AC-AAAGACCTTCGAGTTCGATTACA
* *
99759 CTCAGCTCAAAGGAACATT
64 CTCAGCTCAAAGGCACATC
* * *
99778 ATTTGCATCATAGCTCAAGGCAATAAGGGTTATCTG-C-CAAAGACCTTCGACTTCGATTACACT
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCACAAAGACCTTCGAGTTCGATTACACT
*
99841 CAACTCAAAGGCACATC
66 CAGCTCAAAGGCACATC
* * * * * *
99858 ATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCAATAAAGACCTTTGAGTTCGATTACAC
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTC-ACAAAGACCTTCGAGTTCGATTACAC
99923 TCAGCTCAAAGGCACATC
65 TCAGCTCAAAGGCACATC
* * * *
99941 ATTTGCAGCATAGCTCAAGGCAAAAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCTATTACAT
1 ATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTC-ACAAAGACCTTCGAGTTCGATTACAC
* * * *
100006 TCAACTTAGAGGCAAATC
65 TCAGCTCAAAGGCACATC
*
100024 AAATTTACAGCATAGCTCAAGGCAAGAAGGG
1 --ATTTGCAGCATAGCTCAAGGCAAGAAGGG
100055 CTATTTTTCA
Statistics
Matches: 578, Mismatches: 94, Indels: 30
0.82 0.13 0.04
Matches are distributed among these distances:
79 1 0.00
80 203 0.35
81 4 0.01
82 2 0.00
83 209 0.36
84 66 0.11
85 92 0.16
86 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (82 bp):
ATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCACAAAGACCTTCGAGTTCGATTACACT
CAGCTCAAAGGCACATC
Found at i:99578 original size:163 final size:163
Alignment explanation
Indices: 99283--100069 Score: 962
Period size: 163 Copynumber: 4.8 Consensus size: 163
99273 TAAAGAAACT
* * * *
99283 ATTTGCAGTATAGCTCAAGGCAAAAAGGGTTATCTTCCAATAAAGACCTTCGATTTCGATTACAT
1 ATTTGCAGCATAGCTCAAGGCAAAAAGGGTTATCTGCC---AAAGACCTTCGAGTTCGATTACAC
* * * * * * *
99348 TTAGCTCAGAGGCACATCAAATTTACAACATAACTTAAGGCGATAAGGGTTATCTGTCAAAAAAG
63 TCAGCTCAAAGGCACAT--AATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAG
* * *
99413 ACCTTCGAGTTTGATTACACTCATCTTAAAGGAACATC
126 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGAACATC
* *
99451 ATTTGCAGCATAGCTCAAGGAAAAAAGGGTTATCTGCCAAAGACCTTGGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTCAAGGCAAAAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACACTCA
* *
99516 GCTCAAAGGCACATTATTTACAGCATAACTCAAGGATAGAAGGGTTATCTGTCAACAAAGACCTT
66 GCTCAAAGGCACATAATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTT
* *
99581 TGAGTTCGATTACACTCAGCTCAAAGGCACATC
131 CGAGTTCGATTACACTCAGCTCAAAGGAACATC
** * * * * *
99614 ATTTGCAATATAGCTCAAGGTAAGAAGGGCTATCTGCCAAAGACCTTCAAGTTTGATTACACTCA
1 ATTTGCAGCATAGCTCAAGGCAAAAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACACTCA
* * * * * * * * *
99679 GCTCATAGGCACATCATTTGCAGTATATCTTAAGGCTAGGAGGGATATCTGCCAACAAAAGACCT
66 GCTCAAAGGCACATAATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAAC-AAAGACCT
*
99744 TCGAGTTCGATTACACTCAGCTCAAAGGAACATT
130 TCGAGTTCGATTACACTCAGCTCAAAGGAACATC
* * *
99778 ATTTGCATCATAGCTCAAGGCAATAAGGGTTATCTGCCAAAGACCTTCGACTTCGATTACACTCA
1 ATTTGCAGCATAGCTCAAGGCAAAAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACACTCA
* * * *
99843 ACTCAAAGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCAATAAAGACCTT
66 GCTCAAAGGCACATAATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTT
* *
99908 TGAGTTCGATTACACTCAGCTCAAAGGCACATC
131 CGAGTTCGATTACACTCAGCTCAAAGGAACATC
* *
99941 ATTTGCAGCATAGCTCAAGGCAAAAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCTATTACAT
1 ATTTGCAGCATAGCTCAAGGCAAAAAGGGTTATCTG-C--CAAAGACCTTCGAGTTCGATTACAC
* * * * * * * * *
100006 TCAACTTAGAGGCAAATCAAATTTACAGCATAGCTCAAGGCAAGAAGGGCTATTTTTCAACAAA
63 TCAGCTCAAAGGCACAT--AATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAA
100070 ATTATCGAGT
Statistics
Matches: 536, Mismatches: 77, Indels: 12
0.86 0.12 0.02
Matches are distributed among these distances:
163 248 0.46
164 144 0.27
165 36 0.07
166 36 0.07
168 72 0.13
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (163 bp):
ATTTGCAGCATAGCTCAAGGCAAAAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACACTCA
GCTCAAAGGCACATAATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTT
CGAGTTCGATTACACTCAGCTCAAAGGAACATC
Found at i:100775 original size:37 final size:34
Alignment explanation
Indices: 100691--100777 Score: 102
Period size: 35 Copynumber: 2.4 Consensus size: 34
100681 TTTAGAAAGC
* *
100691 AGTTTTCGAAAATATATATTATATAGTTTTGAAAA
1 AGTTTT-GAAAACATATATTATATAGTTTGGAAAA
*
100726 CGTTTTGAAAAACATATATTATATAGCTTTGGAAAA
1 AGTTTTG-AAAACATATATTATATAG-TTTGGAAAA
100762 TAGTTTGTGAAAACAT
1 -AGTTT-TGAAAACAT
100778 TTTTTAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
34 1 0.02
35 22 0.50
36 8 0.18
37 11 0.25
38 2 0.05
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.39
Consensus pattern (34 bp):
AGTTTTGAAAACATATATTATATAGTTTGGAAAA
Found at i:100803 original size:38 final size:38
Alignment explanation
Indices: 100761--100853 Score: 159
Period size: 38 Copynumber: 2.4 Consensus size: 38
100751 GCTTTGGAAA
* *
100761 ATAGTTTGTGAAAACATTTTTTAAAATATATATAATAT
1 ATAGTTTTTGAAAACATTTTTAAAAATATATATAATAT
*
100799 ATAGTTTTTGAAAACAATTTTAAAAATATATATAATAT
1 ATAGTTTTTGAAAACATTTTTAAAAATATATATAATAT
100837 ATAGTTTTTGAAAACAT
1 ATAGTTTTTGAAAACAT
100854 ATATTATATT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (38 bp):
ATAGTTTTTGAAAACATTTTTAAAAATATATATAATAT
Found at i:100861 original size:24 final size:23
Alignment explanation
Indices: 100828--100876 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
100818 TTAAAAATAT
100828 ATATAATATATAGT-TTTTGAAAAC
1 ATATAATATAT--TCTTTTGAAAAC
*
100852 ATATATTATATTCTTTTGAAAAC
1 ATATAATATATTCTTTTGAAAAC
100875 AT
1 AT
100877 TTTTAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 1 0.04
23 12 0.52
24 10 0.43
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (23 bp):
ATATAATATATTCTTTTGAAAAC
Found at i:100887 original size:31 final size:32
Alignment explanation
Indices: 100865--100964 Score: 102
Period size: 32 Copynumber: 3.1 Consensus size: 32
100855 TATTATATTC
100865 TTTTGAAAACATTTTTAAATATAATATATAGT
1 TTTTGAAAACATTTTTAAATATAATATATAGT
100897 TTTTGAAAACATTTTTGAAAACATATATATTATATAG-
1 TTTTGAAAACATTTTT---AA-ATATA-A-TATATAGT
*
100934 TTTTGAAAACA----TATATATAATATATAGT
1 TTTTGAAAACATTTTTAAATATAATATATAGT
100962 TTT
1 TTT
100965 AAAAAAAATA
Statistics
Matches: 60, Mismatches: 1, Indels: 18
0.76 0.01 0.23
Matches are distributed among these distances:
27 7 0.12
28 4 0.07
29 5 0.08
30 1 0.02
32 16 0.27
33 1 0.02
35 2 0.03
36 5 0.08
37 12 0.20
38 7 0.12
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (32 bp):
TTTTGAAAACATTTTTAAATATAATATATAGT
Found at i:100913 original size:12 final size:12
Alignment explanation
Indices: 100896--100920 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100886 TAATATATAG
100896 TTTTTGAAAACA
1 TTTTTGAAAACA
100908 TTTTTGAAAACA
1 TTTTTGAAAACA
100920 T
1 T
100921 ATATATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:100921 original size:67 final size:64
Alignment explanation
Indices: 100841--100964 Score: 169
Period size: 69 Copynumber: 1.9 Consensus size: 64
100831 TAATATATAG
*
100841 TTTTTGAAAAC-ATATATTATATTCTTTTGAAAACATTTTTAAATATAATATATAGTTTTTGAAA
1 TTTTTGAAAACAATATATTATATACTTTTGAAAACA----TAAATATAATATATAGTTTTTGAAA
100905 ACA
62 ACA
* *
100908 TTTTTGAAAACATATATATTATATAGTTTTGAAAACATATATATAATATATAGTTTT
1 TTTTTGAAAACA-ATATATTATATACTTTTGAAAACATAAATATAATATATAGTTTT
100965 AAAAAAAATA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
65 19 0.37
67 11 0.21
69 22 0.42
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.47
Consensus pattern (64 bp):
TTTTTGAAAACAATATATTATATACTTTTGAAAACATAAATATAATATATAGTTTTTGAAAACA
Found at i:100943 original size:25 final size:26
Alignment explanation
Indices: 100909--100969 Score: 97
Period size: 25 Copynumber: 2.3 Consensus size: 26
100899 TTGAAAACAT
100909 TTTTGAAAACATATATAT-TATATAG
1 TTTTGAAAACATATATATATATATAG
100934 TTTTGAAAACATATATATAATATATAG
1 TTTTGAAAACATATATAT-ATATATAG
*
100961 TTTTAAAAA
1 TTTTGAAAA
100970 AAATATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
25 18 0.55
27 15 0.45
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.43
Consensus pattern (26 bp):
TTTTGAAAACATATATATATATATAG
Found at i:100983 original size:67 final size:64
Alignment explanation
Indices: 100841--100970 Score: 163
Period size: 65 Copynumber: 2.0 Consensus size: 64
100831 TAATATATAG
* **
100841 TTTTTGAAAACATATATTATATTCTTTTGAAAACATTTTTAAATATAATATATAGTTTTTGAAAA
1 TTTTTGAAAACATATATTATATACTTTTGAAAACA---TTAAATATAATATATAGTTTTAAAAAA
100906 CA
63 CA
* *
100908 TTTTTGAAAACATATATATTATATAGTTTTGAAAACA-TATATATAATATATAGTTTTAAAAAA
1 TTTTTGAAAAC--ATATATTATATACTTTTGAAAACATTAAATATAATATATAGTTTTAAAAAA
100971 AATATTTTTG
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
65 23 0.41
67 11 0.20
69 22 0.39
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.45
Consensus pattern (64 bp):
TTTTTGAAAACATATATTATATACTTTTGAAAACATTAAATATAATATATAGTTTTAAAAAACA
Found at i:101089 original size:14 final size:11
Alignment explanation
Indices: 101061--101109 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
101051 ATATAATATA
101061 TTTTTTATTAT
1 TTTTTTATTAT
101072 TTTTTTATTAT
1 TTTTTTATTAT
*
101083 TTGTTTT-TCATT
1 TT-TTTTATTA-T
*
101095 TTTTTTATTCT
1 TTTTTTATTAT
101106 TTTT
1 TTTT
101110 CAGGTCCAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
11 24 0.75
12 8 0.25
ACGTcount: A:0.12, C:0.04, G:0.02, T:0.82
Consensus pattern (11 bp):
TTTTTTATTAT
Found at i:101108 original size:19 final size:21
Alignment explanation
Indices: 101072--101111 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
101062 TTTTTATTAT
*
101072 TTTTTTATTATTTGTTTTTCA
1 TTTTTTATTATTTCTTTTTCA
101093 TTTTTT-TTA-TTCTTTTTCA
1 TTTTTTATTATTTCTTTTTCA
101112 GGTCCAAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.12, C:0.07, G:0.03, T:0.78
Consensus pattern (21 bp):
TTTTTTATTATTTCTTTTTCA
Found at i:102740 original size:22 final size:24
Alignment explanation
Indices: 102715--102777 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 24
102705 GTCGCGATAA
*
102715 TATTAAAAATA-TAAT-ATTATAT
1 TATTAAAAATATTAATAAATATAT
*
102737 TATTAGAAATATTAATAAATATAT
1 TATTAAAAATATTAATAAATATAT
* *
102761 T-TTAAATATTTTAATAA
1 TATTAAAAATATTAATAA
102778 TTAATGTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 10 0.29
23 17 0.50
24 7 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
TATTAAAAATATTAATAAATATAT
Found at i:103512 original size:81 final size:81
Alignment explanation
Indices: 103395--103761 Score: 301
Period size: 82 Copynumber: 4.5 Consensus size: 81
103385 GCGTAGCACA
* * * * *
103395 GTAGTACTTTAGCAGCGCTTTTATACAAATGTCGCAATAAGTCCATCTATAATGGCATTTTTTGA
1 GTAGTACTTTAGCAGCGTTTTTATACAAACGTCGCAATAGGTCCATCTATAGTGGCATTTTTTAA
* *
103460 CAAACGCCGCAACAGT
66 TAAACACCGCAACAGT
* **
103476 GTAGTACTTTAGCAGCATTTTTATACAAACGTCGCAATAGGTCCATCTATAGTGGTGTTTTTTCA
1 GTAGTACTTTAGCAGCGTTTTTATACAAACGTCGCAATAGGTCCATCTATAGTGGCATTTTTT-A
103541 ATAAACACCGCAACAAGT
65 ATAAACACCGCAAC-AGT
* * * * * * * *
103559 -CAATACTTTAGCTGTGTTTTTATACAAACG-CTGCAATATGGTTCAACTATAGTGGCGTTTTTC
1 GTAGTACTTTAGCAGCGTTTTTATACAAACGTC-GCAATA-GGTCCATCTATAGTGGCATTTTTT
* *
103622 AATAAACGCCGTAACA-T
64 AATAAACACCGCAACAGT
* * * * ** * ** * *
103639 ATTAGAACTTTATCGGAATTTTTATACAAACGTCGCAGTAGGGTTAACCTATTGTGGCATTTTTC
1 -GTAGTACTTTAGCAGCGTTTTTATACAAACGTCGCAATA-GGTCCATCTATAGTGGCATTTTT-
* * *
103704 TCATGAACACCGCAATAGT
63 TAATAAACACCGCAACAGT
* * *
103723 GTAGTGCTTTAGC-GACGTTTTTATACAAATGCCGCAATA
1 GTAGTACTTTAGCAG-CGTTTTTATACAAACGTCGCAATA
103762 AGTTTCATCT
Statistics
Matches: 227, Mismatches: 49, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
80 1 0.00
81 58 0.26
82 104 0.46
83 63 0.28
84 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.33
Consensus pattern (81 bp):
GTAGTACTTTAGCAGCGTTTTTATACAAACGTCGCAATAGGTCCATCTATAGTGGCATTTTTTAA
TAAACACCGCAACAGT
Found at i:103538 original size:41 final size:40
Alignment explanation
Indices: 103493--103620 Score: 93
Period size: 41 Copynumber: 3.1 Consensus size: 40
103483 TTTAGCAGCA
103493 TTTTTATACAAACGTCGCAATAGGTCCATCTATAGTGGTGT
1 TTTTTATACAAACG-CGCAATAGGTCCATCTATAGTGGTGT
* * * *
103534 TTTTTCAATA-AACAC-CGCAACAAGTCAATACTTTAGCT-GTG-
1 TTTTT--ATACAA-ACGCGCAATAGGTCCAT-CTATAG-TGGTGT
* * *
103575 TTTTTATACAAACGCTGCAATATGGTTCAACTATAGTGGCGT
1 TTTTTATACAAACGC-GCAATA-GGTCCATCTATAGTGGTGT
103617 TTTT
1 TTTT
103621 CAATAAACGC
Statistics
Matches: 65, Mismatches: 11, Indels: 21
0.67 0.11 0.22
Matches are distributed among these distances:
39 5 0.08
40 4 0.06
41 33 0.51
42 17 0.26
43 6 0.09
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (40 bp):
TTTTTATACAAACGCGCAATAGGTCCATCTATAGTGGTGT
Found at i:104003 original size:20 final size:20
Alignment explanation
Indices: 103952--104082 Score: 129
Period size: 20 Copynumber: 6.5 Consensus size: 20
103942 ACAGGTTCCA
**
103952 AAATCGCAACGCG-ATTTACC
1 AAATCGCAACGCGAATTT-GT
**
103972 AAATTCGCAACGCGAATAGGT
1 AAA-TCGCAACGCGAATTTGT
* ** *
103993 AAATTGCAACGATAATATGT
1 AAATCGCAACGCGAATTTGT
* *
104013 AAATTGCAATGCGAATTTGT
1 AAATCGCAACGCGAATTTGT
*
104033 AAATCGCAATGCGAATTTGT
1 AAATCGCAACGCGAATTTGT
*
104053 AAATCGCAATGCGAATTTGT
1 AAATCGCAACGCGAATTTGT
104073 AAATCGCAAC
1 AAATCGCAAC
104083 ACATAAGTCA
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
20 80 0.84
21 13 0.14
22 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (20 bp):
AAATCGCAACGCGAATTTGT
Found at i:104168 original size:21 final size:21
Alignment explanation
Indices: 104112--104194 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
104102 CGCGAAATTT
* **
104112 CAAATTCGCAACGCGA-ACTC
1 CAAATTCGCAATGCGATTTTC
* *
104132 CAATTTCGCAACGCGATTTTC
1 CAAATTCGCAATGCGATTTTC
* *
104153 CAAATTCACAATGCGATTTTG
1 CAAATTCGCAATGCGATTTTC
* *
104174 TAAATTCGCAATGAGATTTTC
1 CAAATTCGCAATGCGATTTTC
104195 TAATTCGTGA
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
20 15 0.29
21 36 0.71
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (21 bp):
CAAATTCGCAATGCGATTTTC
Found at i:104201 original size:20 final size:20
Alignment explanation
Indices: 104136--104201 Score: 69
Period size: 21 Copynumber: 3.2 Consensus size: 20
104126 GAACTCCAAT
* *
104136 TTCGCAACGCGATTTTCCAAA
1 TTCGCAATGCGATTTT-CTAA
* *
104157 TTCACAATGCGATTTTGTAAA
1 TTCGCAATGCGATTTTCT-AA
*
104178 TTCGCAATGAGATTTTCTAA
1 TTCGCAATGCGATTTTCTAA
104198 TTCG
1 TTCG
104202 TGACGCTAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 6 0.16
21 31 0.84
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (20 bp):
TTCGCAATGCGATTTTCTAA
Found at i:104217 original size:20 final size:20
Alignment explanation
Indices: 104194--104261 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
104184 ATGAGATTTT
104194 CTAATTCGTGACGCTAATTC
1 CTAATTCGTGACGCTAATTC
* *
104214 CTAATTC-TCGACGATATTTC
1 CTAATTCGT-GACGCTAATTC
*
104234 CTAGTTCGTGACGCTAATTC
1 CTAATTCGTGACGCTAATTC
104254 CTAATTCG
1 CTAATTCG
104262 CGATTCGCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 1 0.03
20 38 0.95
21 1 0.03
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.37
Consensus pattern (20 bp):
CTAATTCGTGACGCTAATTC
Found at i:104306 original size:20 final size:20
Alignment explanation
Indices: 104283--104499 Score: 139
Period size: 20 Copynumber: 10.4 Consensus size: 20
104273 GTGATTTTGT
*
104283 AATTCGGAATTAACGTTGCG
1 AATTCGGAATTAACGTCGCG
* *
104303 AATTAGGAATTAGCGTCGCG
1 AATTCGGAATTAACGTCGCG
* *
104323 AATTCAGAATTAGCGTCGCG
1 AATTCGGAATTAACGTCGCG
*
104343 AATTCGGAATTAGA-GTCGTG
1 AATTCGGAATTA-ACGTCGCG
* *
104363 AATTCGGAATTAGCGTCGCA
1 AATTCGGAATTAACGTCGCG
* * * ** *
104383 AATTTGAAAAATCGCGTTGCG
1 AATTCG-GAATTAACGTCGCG
** **
104404 AATTACAAAATATCGTTGCGAATCGCG
1 AATT-C-GGA-AT--TAACG--TCGCG
* *
104431 AATTAGGAATTAGCGTCGCG
1 AATTCGGAATTAACGTCGCG
*
104451 AATTCGGAATTAGCGTCGCG
1 AATTCGGAATTAACGTCGCG
*
104471 AATTCGGAATTAGCGTCGCG
1 AATTCGGAATTAACGTCGCG
*
104491 AATTTGGAA
1 AATTCGGAA
104500 AATCGCGTTG
Statistics
Matches: 159, Mismatches: 28, Indels: 20
0.77 0.14 0.10
Matches are distributed among these distances:
20 124 0.78
21 13 0.08
22 6 0.04
23 1 0.01
24 2 0.01
25 5 0.03
27 8 0.05
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (20 bp):
AATTCGGAATTAACGTCGCG
Found at i:104344 original size:40 final size:40
Alignment explanation
Indices: 104283--104922 Score: 245
Period size: 40 Copynumber: 15.7 Consensus size: 40
104273 GTGATTTTGT
* * *
104283 AATTCGGAATTAACGTTGCGAATTAGGAATTAGCGTCGCG
1 AATTCAGAATTAGCGTCGCGAATTAGGAATTAGCGTCGCG
* * *
104323 AATTCAGAATTAGCGTCGCGAATTCGGAATTAGAGTCGTG
1 AATTCAGAATTAGCGTCGCGAATTAGGAATTAGCGTCGCG
* * * * * * *
104363 AATTCGGAATTAGCGTCGCAAATTTGAAAAATCGCGTTGCG
1 AATTCAGAATTAGCGTCGCGAATTAG-GAATTAGCGTCGCG
* *
104404 AATTACAAAATATCGTTGCGAATCGCGAATTAGGAATTAGCGTCGCG
1 AATT-C-AGA-AT--TAGCG--TCGCGAATTAGGAATTAGCGTCGCG
* *
104451 AATTCGGAATTAGCGTCGCGAATTCGGAATTAGCGTCGCG
1 AATTCAGAATTAGCGTCGCGAATTAGGAATTAGCGTCGCG
** * * * * * * *
104491 AATTTGGAAAATCGCGTTGCGAATTTGAAATT-CCGT-GTTG
1 AATTCAG-AATTAGCGTCGCGAATTAGGAATTAGCGTCG-CG
** * * * * **
104531 --TTCCTAATTCGTGAT-GCTAATTCGGAATTAGTAATTC-CG
1 AATTCAGAATTAGCG-TCGCGAATTAGGAATTAG--CGTCGCG
* ** ** * ** * * *
104570 AATTCGCGACGCTA-ATTC-CTAATTACAAACTCGCGTTGCG
1 AATTC-AGA-ATTAGCGTCGCGAATTAGGAATTAGCGTCGCG
*
104610 AATTC-GAAATTAGCGTCGCGAATTAGGATTTAGCGTCGCG
1 AATTCAG-AATTAGCGTCGCGAATTAGGAATTAGCGTCGCG
*
104650 AATT-AGGAATTAGCGTCGCGAATTAGGAATTAGCGACGCG
1 AATTCA-GAATTAGCGTCGCGAATTAGGAATTAGCGTCGCG
* * * * ** * * *
104690 AATT-AGGAAAATCGAGTTGCGAATTACAAAATCGCGTTGCAAATCGCA
1 AATTCA-G-AATTAGCGTCGCGAATTA-GGAAT----TAGC--GTCGCG
* * *
104738 AATT-AGGAATTAGCGTCGTGAATTAGGAATTAGCATCGTG
1 AATTCA-GAATTAGCGTCGCGAATTAGGAATTAGCGTCGCG
* *
104778 AATTCGGAATTAGCGTCGTGAATTCA-GAATTAGCGTCGCG
1 AATTCAGAATTAGCGTCGCGAATT-AGGAATTAGCGTCGCG
* * * *
104818 AATT-AGAAAATCGCGTCGCGAATTA-GAAATCGCGTCGCG
1 AATTCAG-AATTAGCGTCGCGAATTAGGAATTAGCGTCGCG
* * * *
104857 AATT-AGAAAATCGCGTCGCGAATTAGAAAATT-GCATCGCG
1 AATTCAG-AATTAGCGTCGCGAATTAG-GAATTAGCGTCGCG
104897 AATT-AGGAATTAGCGTCGCGAATTAG
1 AATTCA-GAATTAGCGTCGCGAATTAG
104923 AAAATCGCAT
Statistics
Matches: 451, Mismatches: 109, Indels: 80
0.70 0.17 0.12
Matches are distributed among these distances:
37 17 0.04
38 6 0.01
39 45 0.10
40 241 0.53
41 65 0.14
42 13 0.03
43 2 0.00
44 4 0.01
45 1 0.00
46 11 0.02
47 27 0.06
48 19 0.04
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (40 bp):
AATTCAGAATTAGCGTCGCGAATTAGGAATTAGCGTCGCG
Found at i:104452 original size:108 final size:108
Alignment explanation
Indices: 104318--104515 Score: 344
Period size: 108 Copynumber: 1.8 Consensus size: 108
104308 GGAATTAGCG
*
104318 TCGCGAATTCAGAATTAGCGTCGCGAATTCGGAATTAGAGTCGTGAATTCGGAATTAGCGTCGCA
1 TCGCGAATTCAGAATTAGCGTCGCGAATTCGGAATTAGAGTCGCGAATTCGGAATTAGCGTCGCA
104383 AATTTGAAAAATCGCGTTGCGAATTACAAAATATCGTTGCGAA
66 AATTTGAAAAATCGCGTTGCGAATTACAAAATATCGTTGCGAA
*
104426 TCGCGAATT-AGGAATTAGCGTCGCGAATTCGGAATTAGCGTCGCGAATTCGGAATTAGCGTCGC
1 TCGCGAATTCA-GAATTAGCGTCGCGAATTCGGAATTAGAGTCGCGAATTCGGAATTAGCGTCGC
* *
104490 GAATTTGGAAAATCGCGTTGCGAATT
65 AAATTTGAAAAATCGCGTTGCGAATT
104516 TGAAATTCCG
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
107 1 0.01
108 84 0.99
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (108 bp):
TCGCGAATTCAGAATTAGCGTCGCGAATTCGGAATTAGAGTCGCGAATTCGGAATTAGCGTCGCA
AATTTGAAAAATCGCGTTGCGAATTACAAAATATCGTTGCGAA
Found at i:104502 original size:88 final size:88
Alignment explanation
Indices: 104338--104514 Score: 221
Period size: 88 Copynumber: 2.0 Consensus size: 88
104328 AGAATTAGCG
* * * * *
104338 TCGCGAATTCGGAATTAGAGTCGTGAATTCGGAATTAGCGTCGCAAATTTGAAAAATCGCGTTGC
1 TCGCGAATTAGGAATTAGAGTCGCGAATTCGGAATTAGCGTCGCAAATTCGAAAAATAGCGTCGC
*
104403 GAATTACAAAATATCGTTGCGAA
66 GAATTACAAAATAGCGTTGCGAA
* * * *
104426 TCGCGAATTAGGAATTAGCGTCGCGAATTCGGAATTAGCGTCGCGAATTCG-GAATTAGCGTCGC
1 TCGCGAATTAGGAATTAGAGTCGCGAATTCGGAATTAGCGTCGCAAATTCGAAAAATAGCGTCGC
** *
104490 GAATTTGGAAAATCGCGTTGCGAA
66 GAA-TTACAAAATAGCGTTGCGAA
104514 T
1 T
104515 TTGAAATTCC
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
87 12 0.16
88 63 0.84
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.27
Consensus pattern (88 bp):
TCGCGAATTAGGAATTAGAGTCGCGAATTCGGAATTAGCGTCGCAAATTCGAAAAATAGCGTCGC
GAATTACAAAATAGCGTTGCGAA
Found at i:104625 original size:20 final size:20
Alignment explanation
Indices: 104602--104925 Score: 267
Period size: 20 Copynumber: 15.8 Consensus size: 20
104592 TTACAAACTC
* *
104602 GCGTTGCGAATTCGAAATTA
1 GCGTCGCGAATTAGAAATTA
* *
104622 GCGTCGCGAATTAGGATTTA
1 GCGTCGCGAATTAGAAATTA
*
104642 GCGTCGCGAATTAGGAATTA
1 GCGTCGCGAATTAGAAATTA
*
104662 GCGTCGCGAATTAGGAATTA
1 GCGTCGCGAATTAGAAATTA
* * *
104682 GCGACGCGAATTAGGAAAATC
1 GCGTCGCGAATTA-GAAATTA
* * * *
104703 GAGTTGCGAATTACAAAATCGCGTT
1 GCGTCGCGAATTA-GAAAT----TA
* * *
104728 GCAAATCGCAAATTAGGAATTA
1 GC--GTCGCGAATTAGAAATTA
* *
104750 GCGTCGTGAATTAGGAATTA
1 GCGTCGCGAATTAGAAATTA
* * * *
104770 GCATCGTGAATTCGGAATTA
1 GCGTCGCGAATTAGAAATTA
*
104790 GCGTCGTGAATTCAG-AATTA
1 GCGTCGCGAATT-AGAAATTA
* *
104810 GCGTCGCGAATTAGAAAATC
1 GCGTCGCGAATTAGAAATTA
*
104830 GCGTCGCGAATTAGAAA-TC
1 GCGTCGCGAATTAGAAATTA
* *
104849 GCGTCGCGAATTAGAAAATC
1 GCGTCGCGAATTAGAAATTA
104869 GCGTCGCGAATTAGAAAATT-
1 GCGTCGCGAATTAG-AAATTA
* *
104889 GCATCGCGAATTAGGAATTA
1 GCGTCGCGAATTAGAAATTA
104909 GCGTCGCGAATTAGAAA
1 GCGTCGCGAATTAGAAA
104926 ATCGCATTGC
Statistics
Matches: 254, Mismatches: 38, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
19 25 0.10
20 191 0.75
21 22 0.09
22 3 0.01
25 2 0.01
26 3 0.01
27 8 0.03
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (20 bp):
GCGTCGCGAATTAGAAATTA
Found at i:105017 original size:20 final size:20
Alignment explanation
Indices: 104992--105221 Score: 354
Period size: 20 Copynumber: 11.5 Consensus size: 20
104982 TGACTTCTGT
104992 GTTGCGATTTACA-AGTTCGC
1 GTTGCGATTTACATA-TTCGC
105012 GTTGCGATTTACATATTCGC
1 GTTGCGATTTACATATTCGC
*
105032 ATTGCGATTTACATATTCGC
1 GTTGCGATTTACATATTCGC
*
105052 GTTGCGATTTAGATATTCGC
1 GTTGCGATTTACATATTCGC
*
105072 GTTGCGATTTAGATATTCGC
1 GTTGCGATTTACATATTCGC
*
105092 GTTGCGATTTAGATATTCGC
1 GTTGCGATTTACATATTCGC
*
105112 GTTGCGATTTAGATATTCGC
1 GTTGCGATTTACATATTCGC
*
105132 GATGCGATTTACATATTCGC
1 GTTGCGATTTACATATTCGC
105152 GTTGCGATTTACATATTCGC
1 GTTGCGATTTACATATTCGC
*
105172 GTTGCGATTTACATATTCGT
1 GTTGCGATTTACATATTCGC
* *
105192 GTTGCGATTTACCTATTCAC
1 GTTGCGATTTACATATTCGC
*
105212 GTTGCAATTT
1 GTTGCGATTT
105222 TTGAACCTTA
Statistics
Matches: 198, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
20 197 0.99
21 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (20 bp):
GTTGCGATTTACATATTCGC
Found at i:113408 original size:23 final size:24
Alignment explanation
Indices: 113355--113410 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
113345 ATCACCATTC
113355 AAAATTTTAATACCATGCCTTTAA
1 AAAATTTTAATACCATGCCTTTAA
113379 AAAATTTTAATACCATGCCTTT-A
1 AAAATTTTAATACCATGCCTTTAA
113402 AAAATTTTA
1 AAAATTTTA
113411 GTTTTTGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 10 0.31
24 22 0.69
ACGTcount: A:0.43, C:0.14, G:0.04, T:0.39
Consensus pattern (24 bp):
AAAATTTTAATACCATGCCTTTAA
Found at i:114831 original size:19 final size:19
Alignment explanation
Indices: 114788--114833 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
114778 CAAATGGTTA
114788 AATTTATTTACCACCATAAC
1 AATTT-TTTACCACCATAAC
* * *
114808 CATTTTTTACCACCTTAAT
1 AATTTTTTACCACCATAAC
114827 AATTTTT
1 AATTTTT
114834 ATTAAGTTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.46
Consensus pattern (19 bp):
AATTTTTTACCACCATAAC
Found at i:115445 original size:17 final size:17
Alignment explanation
Indices: 115423--115464 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
115413 TCAGTACCAC
*
115423 ACTAACAACTAATCCAT
1 ACTAACAACTAAGCCAT
115440 ACTAACAACTAAGCCAT
1 ACTAACAACTAAGCCAT
115457 ACTAACAA
1 ACTAACAA
115465 TGTTCATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.50, C:0.29, G:0.02, T:0.19
Consensus pattern (17 bp):
ACTAACAACTAAGCCAT
Found at i:117715 original size:57 final size:57
Alignment explanation
Indices: 117562--117777 Score: 227
Period size: 57 Copynumber: 3.8 Consensus size: 57
117552 AAACATACTT
* * * * * * * * *
117562 GATTCCCATAAAATAAATTCAATGATTTATTTTATTTTTACAAAGTAGAATTATACAT
1 GATTTCCAGAAAATAAATTAAATGATTTATTTT-CTTTTACAAAGCAAAATCATATAA
* * * ** ** *
117620 GATTTTCAAGAAAGTAAATTCAACAATCCATTTCCTTTTACAAAGCAAAATCATATAA
1 GA-TTTCCAGAAAATAAATTAAATGATTTATTTTCTTTTACAAAGCAAAATCATATAA
* *
117678 GATTTCCAGAAAATAAATTAAATGATTTATTTTCTTTTACAAAACATAATCATATAA
1 GATTTCCAGAAAATAAATTAAATGATTTATTTTCTTTTACAAAGCAAAATCATATAA
117735 -ATTTCCAAGAAAATAAATTAAATGATTTATTTTCTTTTACAAA
1 GATTTCC-AGAAAATAAATTAAATGATTTATTTTCTTTTACAAA
117778 ATGGACACGT
Statistics
Matches: 131, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
56 6 0.05
57 81 0.62
58 22 0.17
59 22 0.17
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (57 bp):
GATTTCCAGAAAATAAATTAAATGATTTATTTTCTTTTACAAAGCAAAATCATATAA
Found at i:117778 original size:57 final size:57
Alignment explanation
Indices: 117508--117778 Score: 221
Period size: 57 Copynumber: 4.8 Consensus size: 57
117498 ACATGTCGAG
* * * * **
117508 ATTTCTAAG-AAATAAATTTAACGATTTA-TTT-TTTTACAAAATAGAAA-CATACTTG
1 ATTTCCAAGAAAATAAATTAAATGATTTATTTTCTTTTACAAAACA-AAATCATA-TAA
* * * * ** * * * *
117563 A-TTCCCATAAAATAAATTCAATGATTTATTTTATTTTTACAAAGTAGAATTATACATG
1 ATTTCCAAGAAAATAAATTAAATGATTTATTTT-CTTTTACAAAACAAAATCATATA-A
* * * ** ** * *
117621 ATTTTCAAGAAAGTAAATTCAACAATCCATTTCCTTTTACAAAGCAAAATCATATAA
1 ATTTCCAAGAAAATAAATTAAATGATTTATTTTCTTTTACAAAACAAAATCATATAA
*
117678 GATTTCC-AGAAAATAAATTAAATGATTTATTTTCTTTTACAAAACATAATCATATAA
1 -ATTTCCAAGAAAATAAATTAAATGATTTATTTTCTTTTACAAAACAAAATCATATAA
117735 ATTTCCAAGAAAATAAATTAAATGATTTATTTTCTTTTACAAAA
1 ATTTCCAAGAAAATAAATTAAATGATTTATTTTCTTTTACAAAA
117779 TGGACACGTT
Statistics
Matches: 172, Mismatches: 35, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
54 4 0.02
55 18 0.10
56 9 0.05
57 80 0.47
58 39 0.23
59 22 0.13
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.38
Consensus pattern (57 bp):
ATTTCCAAGAAAATAAATTAAATGATTTATTTTCTTTTACAAAACAAAATCATATAA
Found at i:117882 original size:63 final size:58
Alignment explanation
Indices: 117517--118007 Score: 235
Period size: 58 Copynumber: 8.4 Consensus size: 58
117507 GATTTCTAAG
* * * * * ** * *
117517 AAATAAATTTAACGATTTA-TT-TTTTTACAAAATAGAAACATACTTGATTC-CCATA
1 AAATAAATTCAACAATTTATTTCTTTTTACACAATAGAATCATTCAAGATTCTCAAAA
** * * * * * *
117572 AAATAAATTCAATGATTTATTTTATTTTTACA-AAGTAGAATTATACATGATTTTCAAGA
1 AAATAAATTCAACAATTTA-TTTCTTTTTACACAA-TAGAATCATTCAAGATTCTCAAAA
* ** * * * * *
117631 AAGTAAATTCAACAATCCATTTCCTTTTACA-AAGCAAAATCATAT-AAGATT-TCCAGA
1 AAATAAATTCAACAATTTATTTCTTTTTACACAA-TAGAATCAT-TCAAGATTCTCAAAA
* ** * * * *
117688 AAATAAATTAAATGATTTATTT-TCTTTTACAAAACATAATCATAT-AA-ATT-TCCAAGA
1 AAATAAATTCAACAATTTATTTCT-TTTTACACAATAGAATCAT-TCAAGATTCT-CAAAA
* ** * * * * *
117745 AAATAAATTAAATGATTTATTT-TCTTTTACAAAATGGACA-CGTTCAAGACTC-CTAAGA
1 AAATAAATTCAACAATTTATTTCT-TTTTACACAATAGA-ATCATTCAAGATTCTC-AAAA
* *
117803 AAATAAATTCAACAATTTATTTCTTTTTACATAATAGAATCATTCGAGATT-TCCAAAAAAAA
1 AAATAAATTCAACAATTTATTTCTTTTTACACAATAGAATCATTCAAGATTCT-C----AAAA
* * * *
117865 AATATAAATCCAACAATTTATATT-GTTTTAAAGC-ATAGAATCATTCAAGATTCTCAACA
1 AA-ATAAATTCAACAATTTAT-TTCTTTTTACA-CAATAGAATCATTCAAGATTCTCAAAA
* * *
117924 AAATAAATTCAACAATTTATTTCGTTTTT-CACAATAGAATTATTAAAGATTCTCTAAA
1 AAATAAATTCAACAATTTATTTC-TTTTTACACAATAGAATCATTCAAGATTCTCAAAA
*
117982 AAATAAATTCAATAATTTATTTCTTT
1 AAATAAATTCAACAATTTATTTCTTT
118008 ATTTAAGATT
Statistics
Matches: 349, Mismatches: 59, Indels: 54
0.76 0.13 0.12
Matches are distributed among these distances:
55 17 0.05
56 5 0.01
57 95 0.27
58 155 0.44
59 28 0.08
62 5 0.01
63 41 0.12
64 3 0.01
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (58 bp):
AAATAAATTCAACAATTTATTTCTTTTTACACAATAGAATCATTCAAGATTCTCAAAA
Found at i:118028 original size:43 final size:43
Alignment explanation
Indices: 117963--118055 Score: 118
Period size: 43 Copynumber: 2.2 Consensus size: 43
117953 CACAATAGAA
* *
117963 TTATTAAAGATTCTCTAAAAAATAAATTCAATAATTTATTTCT
1 TTATTAAAGATTCTCAAAAAAATAAATTCAACAATTTATTTCT
* * *
118006 TTATTTAAGATTC-CAAAGAAAATAAATTTAACAATTTATTTCC
1 TTATTAAAGATTCTCAAA-AAAATAAATTCAACAATTTATTTCT
118049 TT-TTAAA
1 TTATTAAA
118056 AGGTAGAATC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
42 7 0.16
43 36 0.84
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.43
Consensus pattern (43 bp):
TTATTAAAGATTCTCAAAAAAATAAATTCAACAATTTATTTCT
Found at i:118086 original size:101 final size:102
Alignment explanation
Indices: 117923--118109 Score: 247
Period size: 101 Copynumber: 1.8 Consensus size: 102
117913 GATTCTCAAC
* * * *
117923 AAAATAAATTCAACAATTTATTTCGTTTTTCACAATAGAATTATTAAAGATTCTCTAAAAAATAA
1 AAAATAAATTCAACAATTTATTTCGCTTTTCAAAATAGAATCATTAAAGATTCTCCAAAAAATAA
*
117988 ATTCAATAATTTA-TTTCTTTATTTAAGATTCCAAAG
66 ATTCAACAATTTATTTTCTTTATTTAAGATTCCAAAG
* *
118024 AAAATAAATTTAACAATTTATTTC-CTTTT-AAAAGGTAGAATCATTAAGGATTC-CCAAGAAAA
1 AAAATAAATTCAACAATTTATTTCGCTTTTCAAAA--TAGAATCATTAAAGATTCTCCAA-AAAA
*
118086 TAAATTTAACAATTTATTTTCTTT
63 TAAATTCAACAATTTATTTTCTTT
118110 TACAAAATAG
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
99 3 0.04
100 7 0.09
101 57 0.77
102 7 0.09
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (102 bp):
AAAATAAATTCAACAATTTATTTCGCTTTTCAAAATAGAATCATTAAAGATTCTCCAAAAAATAA
ATTCAACAATTTATTTTCTTTATTTAAGATTCCAAAG
Found at i:118104 original size:58 final size:58
Alignment explanation
Indices: 118008--118182 Score: 200
Period size: 58 Copynumber: 3.0 Consensus size: 58
117998 TTATTTCTTT
* *
118008 ATTTAAGATTCCAAAGAAAATAAATTTAACAATTTATTTCCTTTTA-AAAGGTAGAATC
1 ATTTAAGATTCCCAAGAAAATAAATTTAACAATTTATTTCCTTTTACAAA-ATAGAATC
*
118066 A-TTAAGGATTCCCAAGAAAATAAATTTAACAATTTATTTTCTTTTACAAAATAGAATC
1 ATTTAA-GATTCCCAAGAAAATAAATTTAACAATTTATTTCCTTTTACAAAATAGAATC
* * *
118124 ATTTGAA-ATTCTCAAGAAAATAAATTCAA-AGGTTTATCTTCC--TTACAAAATTAGAATC
1 ATTT-AAGATTCCCAAGAAAATAAATTTAACA-ATTTAT-TTCCTTTTACAAAA-TAGAATC
118182 A
1 A
118183 AAGCGAGTTT
Statistics
Matches: 103, Mismatches: 7, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
57 13 0.13
58 80 0.78
59 8 0.08
60 2 0.02
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (58 bp):
ATTTAAGATTCCCAAGAAAATAAATTTAACAATTTATTTCCTTTTACAAAATAGAATC
Found at i:118434 original size:45 final size:45
Alignment explanation
Indices: 118363--118537 Score: 217
Period size: 45 Copynumber: 3.9 Consensus size: 45
118353 TTAGTAACCA
* *
118363 AATCATTTGATTTTGATTCTT-TCAACCCAATAATCAAAAGAAACT
1 AATCATTTGATTTTAATT-TTGACAACCCAATAATCAAAAGAAACT
*
118408 AATCATTTGATTTTAATTTTGACAACCCAGTAATCAAAAGAAACT
1 AATCATTTGATTTTAATTTTGACAACCCAATAATCAAAAGAAACT
** * * * * *
118453 AATTGTTTGATTTTAATTTTGGCAACCTAGTAATCAGAAGGAACT
1 AATCATTTGATTTTAATTTTGACAACCCAATAATCAAAAGAAACT
* * *
118498 AATCCTTTGGTTTTACTTTTGACAACCCAATAATCAAAAG
1 AATCATTTGATTTTAATTTTGACAACCCAATAATCAAAAG
118538 TCTTGGATTA
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
44 2 0.02
45 110 0.98
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (45 bp):
AATCATTTGATTTTAATTTTGACAACCCAATAATCAAAAGAAACT
Found at i:124868 original size:3 final size:3
Alignment explanation
Indices: 124860--124950 Score: 82
Period size: 3 Copynumber: 30.7 Consensus size: 3
124850 TTATTTTTTC
* *
124860 TAT TAT TAT TAT T-T TAT T-T GT-T TAT TAT TAT TAT TAT TAA TAA
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* * *
124903 TAT TAT TA- TAT TAT TATT TAT TTT TAT TAT TAAT AAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT T-AT TAT TAT TAT TAT
124949 TA
1 TA
124951 CAAAACCGGA
Statistics
Matches: 74, Mismatches: 8, Indels: 12
0.79 0.09 0.13
Matches are distributed among these distances:
2 6 0.08
3 63 0.85
4 5 0.07
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:124888 original size:22 final size:23
Alignment explanation
Indices: 124848--124894 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
124838 CATCCATTTG
*
124848 TTTTATTTTTTCTATTATTATTA
1 TTTTATTTGTTCTATTATTATTA
124871 TTTTATTTGTT-TATTATTATTA
1 TTTTATTTGTTCTATTATTATTA
124893 TT
1 TT
124895 ATTAATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTTATTTGTTCTATTATTATTA
Found at i:124907 original size:40 final size:37
Alignment explanation
Indices: 124863--124949 Score: 113
Period size: 37 Copynumber: 2.3 Consensus size: 37
124853 TTTTTTCTAT
*
124863 TATTATTATTTTATTTGTTTATTATTATTATTATTAAT-AA
1 TATTATTATTTTA-TTATTTA-T-TT-TTATTATTAATAAA
*
124903 TATTATTATATTATTATTTATTTTTATTATTAATAAA
1 TATTATTATTTTATTATTTATTTTTATTATTAATAAA
124940 TATTATTATT
1 TATTATTATT
124950 ACAAAACCGG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
36 11 0.26
37 13 0.30
38 1 0.02
39 6 0.14
40 12 0.28
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (37 bp):
TATTATTATTTTATTATTTATTTTTATTATTAATAAA
Found at i:124950 original size:40 final size:40
Alignment explanation
Indices: 124860--124950 Score: 121
Period size: 40 Copynumber: 2.3 Consensus size: 40
124850 TTATTTTTTC
* * *
124860 TATTATTATTATTTTATTTGTTTATTATTATTATTATTAA
1 TATTATTATTATATTATTTATTTATTATTATTATTATAAA
* *
124900 TAATATTATTATATTA-TTATTTATTTTTATTATTAATAAA
1 TATTATTATTATATTATTTATTTATTATTATTATT-ATAAA
124940 TATTATTATTA
1 TATTATTATTA
124951 CAAAACCGGA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
39 16 0.36
40 28 0.64
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (40 bp):
TATTATTATTATATTATTTATTTATTATTATTATTATAAA
Found at i:125892 original size:16 final size:17
Alignment explanation
Indices: 125873--125905 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
125863 AGCTTTAAAA
*
125873 TTAT-TAGTTTTTATTT
1 TTATATAGTTTTAATTT
125889 TTATATAGTTTTAATTT
1 TTATATAGTTTTAATTT
125906 CATTTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (17 bp):
TTATATAGTTTTAATTT
Found at i:125979 original size:2 final size:2
Alignment explanation
Indices: 125949--126000 Score: 60
Period size: 2 Copynumber: 28.5 Consensus size: 2
125939 TTTATTTGAA
*
125949 AT AT AT -T AT -T AT -T AT -T AT -T AT AA AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
125986 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
126001 ATAAATAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
1 5 0.12
2 38 0.88
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:130156 original size:15 final size:15
Alignment explanation
Indices: 130136--130167 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
130126 GATCAATACC
130136 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
130151 TTTTGCATACATTCA
1 TTTTGCATACATGCA
130166 TT
1 TT
130168 ATTCATTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:133433 original size:8 final size:9
Alignment explanation
Indices: 133406--133436 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
133396 AAATGGAAAT
133406 CATTCTTTA
1 CATTCTTTA
133415 CATTCTTTA
1 CATTCTTTA
133424 CATT-TTTA
1 CATTCTTTA
133432 CATTC
1 CATTC
133437 ATTATTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (9 bp):
CATTCTTTA
Found at i:137384 original size:18 final size:18
Alignment explanation
Indices: 137361--137395 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
137351 CAAGATTATC
137361 TTTTTGAAATTCAATTTA
1 TTTTTGAAATTCAATTTA
137379 TTTTTGAAATTCAATTT
1 TTTTTGAAATTCAATTT
137396 GTTTCATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (18 bp):
TTTTTGAAATTCAATTTA
Found at i:138744 original size:123 final size:123
Alignment explanation
Indices: 138575--139051 Score: 595
Period size: 123 Copynumber: 4.0 Consensus size: 123
138565 CATCATTTCC
* * * *
138575 AGAAAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGTTTGACTCTATCACAGAAGGAGATA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTATGACTCTATCACAGAAAGAGATA
* *
138640 GATCAACATCAATTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGA
66 GATCAGCATCAATTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGA
*
138698 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCACAGAAAGAGATA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTATGACTCTATCACAGAAAGAGATA
* * *
138763 GATCAGCATCAATTTTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAAAAGA
66 GATCAGCATCAATTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGA
* * * ***
138821 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTCGCT-CGA--AT-TCATC---ATTCGA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG-TATGACTCTATCA-CAGAAAGAGA
* * * *
138879 TGGAT---CATC-A--TTTCCAGAAAAATTTCATAATGAGAAGAACTTATCTGAAGAGGA
64 TAGATCAGCATCAATTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGA
* *
138933 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAGCCTTTTGCATGACTCTATCACAGAAAGAGATA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTATGACTCTATCACAGAAAGAGATA
* * ** *
138998 GACCAGCATCAACTTTTCCAGA-AGTGTTCATAATAAGAAGAACTCATCTGAAGA
66 GATCAGCATCAATTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
139052 AGGAGAATAA
Statistics
Matches: 302, Mismatches: 37, Indels: 31
0.82 0.10 0.08
Matches are distributed among these distances:
112 78 0.26
114 3 0.01
115 7 0.02
117 6 0.02
118 7 0.02
120 7 0.02
121 3 0.01
122 27 0.09
123 163 0.54
124 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.27
Consensus pattern (123 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTATGACTCTATCACAGAAAGAGATA
GATCAGCATCAATTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGA
Found at i:138963 original size:20 final size:20
Alignment explanation
Indices: 138902--138964 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
138892 CCAGAAAAAT
138902 TTCATAATGAGAAGAACTT-
1 TTCATAATGAGAAGAACTTG
* ***
138921 ATC-TGAA-GAGGAAGAAGAAG
1 TTCAT-AATGA-GAAGAACTTG
138941 TTCATAATGAGAAGAACTTG
1 TTCATAATGAGAAGAACTTG
138961 TTCA
1 TTCA
138965 GCCTTTTGCA
Statistics
Matches: 31, Mismatches: 8, Indels: 9
0.65 0.17 0.19
Matches are distributed among these distances:
18 3 0.10
19 10 0.32
20 15 0.48
21 3 0.10
ACGTcount: A:0.43, C:0.10, G:0.22, T:0.25
Consensus pattern (20 bp):
TTCATAATGAGAAGAACTTG
Found at i:139392 original size:3 final size:3
Alignment explanation
Indices: 139312--139380 Score: 90
Period size: 3 Copynumber: 23.7 Consensus size: 3
139302 TCATTTTTAC
*
139312 TAT TAT TAT TAT T-T TAT T-T TAT TTT TAT TAT TAT TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
139357 TAT TAT TATT TAT TTT TAT TAT TA
1 TAT TAT TA-T TAT TAT TAT TAT TA
139381 ATAAATATTA
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
2 6 0.10
3 49 0.84
4 3 0.05
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:141777 original size:64 final size:64
Alignment explanation
Indices: 141638--141778 Score: 144
Period size: 64 Copynumber: 2.2 Consensus size: 64
141628 CACATTCAAT
* * * *
141638 GTGTATCGATGCA-CTCTTTAAAGAAGAAACATCGAATGTAATTAGTGCATCGATGCATAAGGA
1 GTGTATCGATGCACCCCCTTAAAGAAAAAACATCGAAGGTAATTAGTGCATCGATGCATAAGGA
* * * * * * *
141701 GTGCATCAATGCACCCCCTTAAA-ATAAAAACATTGAAGGTGATTGGTGTATCGATGCAT-GGGT
1 GTGTATCGATGCACCCCCTTAAAGA-AAAAACATCGAAGGTAATTAGTGCATCGATGCATAAGG-
141764 A
64 A
141765 GTGTATCGATGCAC
1 GTGTATCGATGCAC
141779 ATGTTAAACA
Statistics
Matches: 62, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
63 14 0.23
64 48 0.77
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.27
Consensus pattern (64 bp):
GTGTATCGATGCACCCCCTTAAAGAAAAAACATCGAAGGTAATTAGTGCATCGATGCATAAGGA
Found at i:143821 original size:23 final size:23
Alignment explanation
Indices: 143789--143849 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
143779 CTCATATAAA
143789 TGCACTGAAGTGCCACGTAGAAT
1 TGCACTGAAGTGCCACGTAGAAT
* **
143812 TGCACCGAAGTGCCGTGTAGAAT
1 TGCACTGAAGTGCCACGTAGAAT
143835 TGCACTGAAGTGCCA
1 TGCACTGAAGTGCCA
143850 TATAAAATGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (23 bp):
TGCACTGAAGTGCCACGTAGAAT
Found at i:146950 original size:21 final size:21
Alignment explanation
Indices: 146921--146960 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
146911 ACCAATCTTC
146921 ATTGCATCCTCATAACTTTAG
1 ATTGCATCCTCATAACTTTAG
*
146942 ATTGGATCCTCATAACTTT
1 ATTGCATCCTCATAACTTT
146961 GGTAACCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.40
Consensus pattern (21 bp):
ATTGCATCCTCATAACTTTAG
Found at i:148788 original size:23 final size:23
Alignment explanation
Indices: 148757--148839 Score: 130
Period size: 23 Copynumber: 3.6 Consensus size: 23
148747 CTTGTATAAA
* * *
148757 TGCATCGAAGTTCCACGTAGAAT
1 TGCACCGAAGTGCCGCGTAGAAT
148780 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCGCGTAGAAT
*
148803 TGCACCTAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCGCGTAGAAT
148826 TGCACCGAAGTGCC
1 TGCACCGAAGTGCC
148840 ATATAAAATG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
TGCACCGAAGTGCCGCGTAGAAT
Found at i:150441 original size:24 final size:22
Alignment explanation
Indices: 150384--150448 Score: 71
Period size: 24 Copynumber: 2.9 Consensus size: 22
150374 TTCCCCTTGA
*
150384 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATCCTTAAC
*
150404 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CCTTAAC
150427 ATGTGCATCGATGCATTCCTTA
1 A-GTGCATCGATGCA-TCCTTA
150449 TGCATCGATG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 14 0.38
21 1 0.03
22 1 0.03
23 3 0.08
24 17 0.46
25 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (22 bp):
AGTGCATCGATGCATCCTTAAC
Found at i:151515 original size:15 final size:17
Alignment explanation
Indices: 151486--151522 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
151476 TTTGTTGAAA
*
151486 TTTTTTTAAGTGTC-AT
1 TTTTTTTAAGAGTCAAT
151502 TTTTTTTAA-AGTCAAT
1 TTTTTTTAAGAGTCAAT
151518 TTTTT
1 TTTTT
151523 GTTTGGAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.22, C:0.05, G:0.08, T:0.65
Consensus pattern (17 bp):
TTTTTTTAAGAGTCAAT
Found at i:155064 original size:20 final size:20
Alignment explanation
Indices: 155043--155148 Score: 106
Period size: 20 Copynumber: 5.2 Consensus size: 20
155033 AAATCACAAT
*
155043 GCGATACTGACTATCGCAAT
1 GCGATACTGACTATCGCAAC
* *
155063 GCGATACTTACTATCGCAAT
1 GCGATACTGACTATCGCAAC
* *
155083 GCGATAAT-ACAAAATCGCAAC
1 GCGATACTGAC--TATCGCAAC
* *
155104 GAGATACTGACTTTCGCAAC
1 GCGATACTGACTATCGCAAC
* *
155124 GCGATTCTGACTTTCGCAAC
1 GCGATACTGACTATCGCAAC
155144 GCGAT
1 GCGAT
155149 TTACATAGCG
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
19 2 0.03
20 56 0.77
21 13 0.18
22 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (20 bp):
GCGATACTGACTATCGCAAC
Found at i:155079 original size:61 final size:61
Alignment explanation
Indices: 155032--155148 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
155022 GTGAATTAGG
* * * * *
155032 AAAATCACAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCACAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * * *
155093 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCACAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
155149 TTACATAGCG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (61 bp):
AAAATCACAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:155753 original size:19 final size:19
Alignment explanation
Indices: 155726--155937 Score: 193
Period size: 19 Copynumber: 11.8 Consensus size: 19
155716 AAAAATCACA
155726 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
155745 TTCCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
155764 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
155783 TTGCGATTTTTATTTCGCGG
1 TTGCGATTTTCATTTCGC-G
155803 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
155822 TTGCGATTTTC---T-G-G
1 TTGCGATTTTCATTTCGCG
* **
155836 TCGCGATAGTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
155855 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCGCG
*
155869 TTGCGA--TTC-TAT--CG
1 TTGCGATTTTCATTTCGCG
**
155883 TTGCGATAGTCATTTTCGCG
1 TTGCGATTTTCA-TTTCGCG
* *
155903 TTGCGATTCTCATTATCTCG
1 TTGCGATTTTCATT-TCGCG
155923 TTGCGATTTTCATTT
1 TTGCGATTTTCATTT
155938 TAACCAAAAG
Statistics
Matches: 162, Mismatches: 16, Indels: 30
0.78 0.08 0.14
Matches are distributed among these distances:
14 30 0.19
15 1 0.01
16 4 0.02
17 3 0.02
18 3 0.02
19 74 0.46
20 47 0.29
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:155870 original size:14 final size:14
Alignment explanation
Indices: 155853--155889 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
155843 AGTCATTTCG
*
155853 CGTTGCGATTCTCT
1 CGTTGCGATTCTAT
155867 CGTTGCGATTCTAT
1 CGTTGCGATTCTAT
155881 CGTTGCGAT
1 CGTTGCGAT
155890 AGTCATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.11, C:0.24, G:0.24, T:0.41
Consensus pattern (14 bp):
CGTTGCGATTCTAT
Found at i:155875 original size:33 final size:33
Alignment explanation
Indices: 155802--155875 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
155792 TTATTTCGCG
** * *
155802 GTTGCGATTTTCATTTCGCGTTGCGATTTTCTG
1 GTTGCGATAGTCATTTCGCGTTGCGATTCTCTC
*
155835 GTCGCGATAGTCATTTCGCGTTGCGATTCTCTC
1 GTTGCGATAGTCATTTCGCGTTGCGATTCTCTC
155868 GTTGCGAT
1 GTTGCGAT
155876 TCTATCGTTG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.22, G:0.26, T:0.42
Consensus pattern (33 bp):
GTTGCGATAGTCATTTCGCGTTGCGATTCTCTC
Found at i:155889 original size:47 final size:48
Alignment explanation
Indices: 155820--155913 Score: 145
Period size: 47 Copynumber: 2.0 Consensus size: 48
155810 TTTCATTTCG
* * *
155820 CGTTGCGATTTTCTGGTCGCGATAGTCA-TTTCGCGTTGCGATTCTCT
1 CGTTGCGATTCTATCGTCGCGATAGTCATTTTCGCGTTGCGATTCTCT
*
155867 CGTTGCGATTCTATCGTTGCGATAGTCATTTTCGCGTTGCGATTCTC
1 CGTTGCGATTCTATCGTCGCGATAGTCATTTTCGCGTTGCGATTCTC
155914 ATTATCTCGT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 24 0.57
48 18 0.43
ACGTcount: A:0.12, C:0.23, G:0.24, T:0.40
Consensus pattern (48 bp):
CGTTGCGATTCTATCGTCGCGATAGTCATTTTCGCGTTGCGATTCTCT
Found at i:155930 original size:20 final size:20
Alignment explanation
Indices: 155880--155936 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
155870 TGCGATTCTA
** *
155880 TCGTTGCGATAGTCATTTTC
1 TCGTTGCGATTCTCATTATC
*
155900 GCGTTGCGATTCTCATTATC
1 TCGTTGCGATTCTCATTATC
*
155920 TCGTTGCGATTTTCATT
1 TCGTTGCGATTCTCATT
155937 TTAACCAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (20 bp):
TCGTTGCGATTCTCATTATC
Found at i:159443 original size:14 final size:14
Alignment explanation
Indices: 159424--159459 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
159414 ATTGTTTAAT
159424 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
159438 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
159452 TGATTTGT
1 TGATTTGT
159460 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:159640 original size:19 final size:19
Alignment explanation
Indices: 159618--159769 Score: 64
Period size: 19 Copynumber: 8.7 Consensus size: 19
159608 CGAAATTAAA
159618 TTCGCGTTGCGATATTCAT
1 TTCGCGTTGCGATATTCAT
*
159637 TTCGCATTGCG--ATTC--
1 TTCGCGTTGCGATATTCAT
* * *
159652 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATATTCAT
*
159670 TTCGCATTGCGA-A---A-
1 TTCGCGTTGCGATATTCAT
* *
159684 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATATTCAT
*
159703 TTCGCATTGCG--ATTC--
1 TTCGCGTTGCGATATTCAT
* *
159718 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATATTCAT
* * * *
159736 TTCGCATTGCAATAGTAAT
1 TTCGCGTTGCGATATTCAT
159755 TTCCGCGTTGCGATA
1 TT-CGCGTTGCGATA
159770 GACATTAAGA
Statistics
Matches: 91, Mismatches: 26, Indels: 31
0.61 0.18 0.21
Matches are distributed among these distances:
14 25 0.27
15 1 0.01
16 6 0.07
17 7 0.08
18 1 0.01
19 41 0.45
20 10 0.11
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.41
Consensus pattern (19 bp):
TTCGCGTTGCGATATTCAT
Found at i:159669 original size:33 final size:32
Alignment explanation
Indices: 159622--159745 Score: 178
Period size: 33 Copynumber: 3.8 Consensus size: 32
159612 ATTAAATTCG
*
159622 CGTTGCGATATTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
159655 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
159688 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
159721 CGTTGCGATTTTCATTTCGCATTGC
1 CGTTGCGATTTTCATTTCGCATTGC
159746 AATAGTAATT
Statistics
Matches: 82, Mismatches: 5, Indels: 8
0.86 0.05 0.08
Matches are distributed among these distances:
31 3 0.04
33 76 0.93
35 3 0.04
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.42
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:159702 original size:66 final size:66
Alignment explanation
Indices: 159615--159745 Score: 235
Period size: 66 Copynumber: 2.0 Consensus size: 66
159605 ACGCGAAATT
*
159615 AAATTCGCGTTGCGATATTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATATTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
159680 G
66 G
* *
159681 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATATTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
159746 AATAGTAATT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATATTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:162058 original size:12 final size:12
Alignment explanation
Indices: 162041--162065 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
162031 TCTTCGGGGA
162041 CTTTTTCTTCTT
1 CTTTTTCTTCTT
162053 CTTTTTCTTCTT
1 CTTTTTCTTCTT
162065 C
1 C
162066 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:162274 original size:24 final size:24
Alignment explanation
Indices: 162240--162293 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
162230 ATGAAACATC
* *
162240 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
162264 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
162288 ATCAAA
1 ATCAAA
162294 TTTCGAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:162304 original size:24 final size:24
Alignment explanation
Indices: 162253--162307 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
162243 AAAATCCGTG
* **
162253 TATTGACCAATATCAAAGTCCGGG
1 TATTGACCAAGATCAAAGTCCGAA
* *
162277 TATTGACCAAGATCAAATTTCGAA
1 TATTGACCAAGATCAAAGTCCGAA
162301 TATTGAC
1 TATTGAC
162308 TAGTACTCAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (24 bp):
TATTGACCAAGATCAAAGTCCGAA
Found at i:163404 original size:20 final size:20
Alignment explanation
Indices: 163348--163405 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
163338 ATTCAATTGA
* *
163348 CTATCGCAATGCGAAAATGG
1 CTATCGCAACGAGAAAATGG
163368 CTATCGCAACGTA-AAAATGG
1 CTATCGCAACG-AGAAAATGG
163388 CTATCGCAACGAGAAAAT
1 CTATCGCAACGAGAAAAT
163406 CGCAATGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.03
20 33 0.97
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (20 bp):
CTATCGCAACGAGAAAATGG
Found at i:163448 original size:14 final size:14
Alignment explanation
Indices: 163429--163482 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
163419 AAAAATCGCA
163429 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
163443 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
163460 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
163476 TTGCGAT
1 TTGCGAT
163483 AGTCTGTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
16 3 0.09
17 3 0.09
19 11 0.31
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:163448 original size:33 final size:33
Alignment explanation
Indices: 163411--163481 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
163401 AAAATCGCAA
163411 TGCGAAATAAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATAAAAATCGCATTGCGATTTTCTCGT
** ** **
163444 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATAAAAATCGCATTGCGATTTTCTCGT
163477 TGCGA
1 TGCGA
163482 TAGTCTGTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (33 bp):
TGCGAAATAAAAATCGCATTGCGATTTTCTCGT
Found at i:163589 original size:14 final size:14
Alignment explanation
Indices: 163570--163606 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
163560 CATCAATTAA
163570 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
163584 ACAAATCATCTTTT
1 ACAAATCAACATTT
163598 ACAAATCAA
1 ACAAATCAA
163607 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:165511 original size:19 final size:20
Alignment explanation
Indices: 165466--165516 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
165456 CACGAAACTT
*
165466 AAAATCGCAACGCTGAAATG
1 AAAATCGCAATGCTGAAATG
***
165486 GCTATCGCAATGC-GAAATG
1 AAAATCGCAATGCTGAAATG
165505 AAAATCGCAATG
1 AAAATCGCAATG
165517 ACAAAATCGC
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.18
Consensus pattern (20 bp):
AAAATCGCAATGCTGAAATG
Found at i:165552 original size:32 final size:33
Alignment explanation
Indices: 165489--165567 Score: 124
Period size: 32 Copynumber: 2.4 Consensus size: 33
165479 TGAAATGGCT
* *
165489 ATCGCAATGCGAAATGAAAATCGCAATGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
165522 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
165554 ATCACAACGCGAAA
1 ATCGCAACGCGAAA
165568 CACAAATCGC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
32 28 0.65
33 15 0.35
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Done.