Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold295
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: 1524207
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 10
Found at i:1259 original size:13 final size:13
Alignment explanation
Indices: 1243--1276 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
1233 AAAAAGGAAA
1243 AAAAAAACAAAAC
1 AAAAAAACAAAAC
1256 AAAAAAACAAAAC
1 AAAAAAACAAAAC
1269 AAAGAAAA
1 AAA-AAAA
1277 AGAGAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAAAAACAAAAC
Found at i:2345 original size:55 final size:55
Alignment explanation
Indices: 2260--3172 Score: 1077
Period size: 55 Copynumber: 16.3 Consensus size: 55
2250 TCCGCTTTTT
2260 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
2315 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
2370 AGTCCTCAACGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
2425 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACC-TTC
1 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * * * ** * ** *** *
2479 AG-ACCTACA-AG-TGG--ACCTCAGTCAAAGAGCAGGACACCTTTCAAAGCCCGCACAAGTTGG
1 AGTCCCCAAAGAGCAGGACACCTC--TTAAAGCCCA-CACA-AGTT----GGTGGCAC--CTT--
2539 TGGC
54 T--C
2543 ATTGTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 A--GT-C---CC-CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
2605 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
2660 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
2715 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA--TTGTCC
1 AGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTT-T-C
*
2770 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
2825 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
2880 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* * *
2935 AGTCCTCAAAGAACAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
*
2990 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
3045 ATTCCCCAAAGAGCAGGACA-CTTTTCAAAGCCCACACAAGTGGGTGGCACCTTTC
1 AGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * * * *
3100 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
3155 ACTCCTCAATGAGCAGGA
1 AGTCCCCAAAGAGCAGGA
3173 TACAACTTAT
Statistics
Matches: 761, Mismatches: 54, Indels: 86
0.84 0.06 0.10
Matches are distributed among these distances:
49 5 0.01
51 9 0.01
52 5 0.01
53 8 0.01
54 22 0.03
55 645 0.85
56 17 0.02
57 7 0.01
59 1 0.00
60 3 0.00
62 3 0.00
64 3 0.00
66 3 0.00
68 5 0.01
71 2 0.00
72 4 0.01
73 5 0.01
74 9 0.01
76 5 0.01
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.20
Consensus pattern (55 bp):
AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:2476 original size:29 final size:29
Alignment explanation
Indices: 2388--2476 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
2378 ACGAGCAGGA
2388 CACCTCTTAAAGCCCACACAAGTTGGTGG
1 CACCTCTTAAAGCCCACACAAGTTGGTGG
* * **
2417 CACCT-TT-CAGTCCC-CA-AAG-AGCAGG
1 CACCTCTTAAAG-CCCACACAAGTTGGTGG
2442 ACACCTCTTAAAGCCCACACAAGTTGGTGG
1 -CACCTCTTAAAGCCCACACAAGTTGGTGG
2472 CACCT
1 CACCT
2477 TCAGACCTAC
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
25 3 0.07
26 8 0.18
27 9 0.20
28 9 0.20
29 13 0.29
30 3 0.07
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.19
Consensus pattern (29 bp):
CACCTCTTAAAGCCCACACAAGTTGGTGG
Found at i:3774 original size:1 final size:1
Alignment explanation
Indices: 3768--3792 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
3758 AAAGTGTTTG
3768 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
3793 TTTAAATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:3821 original size:21 final size:21
Alignment explanation
Indices: 3797--3853 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
3787 AAAAAATTTA
3797 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
3818 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
3839 AATGTATCGATACAT
1 AATGTATCGATACAT
3854 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:3933 original size:19 final size:19
Alignment explanation
Indices: 3909--3976 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
3899 AATTCAACAA
3909 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
3928 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
3943 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
3960 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
3977 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:3948 original size:13 final size:13
Alignment explanation
Indices: 3930--3954 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3920 ACATAAGTTT
3930 TGTATCGATACAA
1 TGTATCGATACAA
3943 TGTATCGATACA
1 TGTATCGATACA
3955 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3952 original size:32 final size:32
Alignment explanation
Indices: 3911--3973 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
3901 TTCAACAATT
*
3911 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
3943 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
3974 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:4034 original size:13 final size:13
Alignment explanation
Indices: 4016--4041 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4006 CATTTTTCTG
4016 TGTATCGATACAT
1 TGTATCGATACAT
4029 TGTATCGATACAT
1 TGTATCGATACAT
4042 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4038 original size:33 final size:33
Alignment explanation
Indices: 3996--4062 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3986 GCCAAGGAAA
***
3996 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
4029 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
4062 T
1 T
4063 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:6584 original size:28 final size:27
Alignment explanation
Indices: 6517--6589 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
6507 CTTCACAATC
* *
6517 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
6544 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
6572 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
6590 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:6634 original size:51 final size:51
Alignment explanation
Indices: 6572--6742 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
6562 TTATTTCTGA
* * *
6572 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
6623 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
6676 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
6728 GAGGATACTCCAACC
1 GGGGATACTCCAACC
6743 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.37
52 18 0.19
53 32 0.33
54 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:6761 original size:28 final size:28
Alignment explanation
Indices: 6725--6806 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
6715 ATTTTTCACA
*
6725 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
6753 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
6781 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
6807 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:12548 original size:17 final size:17
Alignment explanation
Indices: 12526--12561 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
12516 TTGATAAACC
*
12526 TGATTTTAAAAATAATA
1 TGATTTCAAAAATAATA
12543 TGATTTCAAAAATAATA
1 TGATTTCAAAAATAATA
12560 TG
1 TG
12562 TTTATTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (17 bp):
TGATTTCAAAAATAATA
Found at i:13035 original size:15 final size:15
Alignment explanation
Indices: 13012--13085 Score: 59
Period size: 14 Copynumber: 5.1 Consensus size: 15
13002 TTTAATACAA
13012 AAAATATTAAATTATT
1 AAAA-ATTAAATTATT
13028 AAAAATTAAA-T-TT
1 AAAAATTAAATTATT
* *
13041 AAAAA-TATATTTTT
1 AAAAATTAAATTATT
*
13055 AAAAGA-TAAATTA-G
1 AAAA-ATTAAATTATT
*
13069 AAAAATTAAAATATT
1 AAAAATTAAATTATT
13084 AA
1 AA
13086 TGAGTTGAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
12 3 0.06
13 9 0.19
14 17 0.36
15 14 0.30
16 4 0.09
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (15 bp):
AAAAATTAAATTATT
Found at i:16765 original size:32 final size:29
Alignment explanation
Indices: 16724--16816 Score: 86
Period size: 32 Copynumber: 3.1 Consensus size: 29
16714 ATATTTATAG
16724 ATAAA-TTTAATAATTTATATATTTTATT
1 ATAAATTTTAATAATTTATATATTTTATT
16752 ATAATTATGTTTAA-AATATTATATATATTTA-T
1 ATAA--AT-TTTAATAAT-TTATATAT-TTTATT
*
16784 ATAAATTTTAATATATTAATA-ATTTATATT
1 ATAAATTTTAATA-ATTTATATATTT-TATT
16814 ATA
1 ATA
16817 TATAAATTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 18
0.74 0.01 0.25
Matches are distributed among these distances:
28 6 0.11
29 9 0.17
30 12 0.22
31 5 0.09
32 18 0.33
33 4 0.07
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (29 bp):
ATAAATTTTAATAATTTATATATTTTATT
Found at i:16797 original size:18 final size:18
Alignment explanation
Indices: 16776--16829 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
16766 AATATTATAT
16776 ATATTTATATAAATTTTA
1 ATATTTATATAAATTTTA
16794 ATATATTA-AT-AA-TTT-
1 ATAT-TTATATAAATTTTA
16809 ATATTATATATAAATTTTA
1 ATATT-TATATAAATTTTA
16828 AT
1 AT
16830 GTGTTTATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
14 1 0.03
15 6 0.20
16 5 0.17
17 4 0.13
18 9 0.30
19 5 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATATTTATATAAATTTTA
Found at i:16799 original size:20 final size:20
Alignment explanation
Indices: 16714--16840 Score: 67
Period size: 20 Copynumber: 6.5 Consensus size: 20
16704 TTTTTAAAAA
16714 ATATTTATAGATAAA-TTTAAT
1 ATATTTAT--ATAAATTTTAAT
*
16735 A-ATTTATAT--ATTTTATT
1 ATATTTATATAAATTTTAAT
* * *
16752 ATAATTATGTTTAAAATATTATAT
1 AT-ATT-TATAT-AAATTTTA-AT
16776 ATATTTATATAAATTTTAAT
1 ATATTTATATAAATTTTAAT
16796 ATA-TTA-AT-AA-TTT-AT
1 ATATTTATATAAATTTTAAT
*
16811 AT-TATATATAAATTTTAAT
1 ATATTTATATAAATTTTAAT
* *
16830 GTGTTTATATA
1 ATATTTATATA
16841 TTTATATTTT
Statistics
Matches: 81, Mismatches: 11, Indels: 29
0.67 0.09 0.24
Matches are distributed among these distances:
15 6 0.07
16 6 0.07
17 10 0.12
18 7 0.09
19 9 0.11
20 21 0.26
21 8 0.10
22 3 0.04
23 8 0.10
24 3 0.04
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
ATATTTATATAAATTTTAAT
Found at i:16821 original size:34 final size:34
Alignment explanation
Indices: 16766--16849 Score: 107
Period size: 34 Copynumber: 2.4 Consensus size: 34
16756 TTATGTTTAA
*
16766 AATATTATATATATTTATATAAATTTTAATATATT
1 AATA-TATTTATATTTATATAAATTTTAATATATT
* *
16801 AATA-ATTTATATTATATATAAATTTTAATGTGTT
1 AATATATTTATATT-TATATAAATTTTAATATATT
*
16835 TATATATTTATATTT
1 AATATATTTATATTT
16850 TATTTGAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
33 8 0.19
34 22 0.51
35 13 0.30
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (34 bp):
AATATATTTATATTTATATAAATTTTAATATATT
Found at i:16854 original size:29 final size:28
Alignment explanation
Indices: 16822--16892 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
16812 TTATATATAA
* * *
16822 ATTTTAATGTGTTTATATATTTATATTTT
1 ATTTTAATATATTTATATA-TTACATTTT
* *
16851 ATTTGAATTATATTTTTATATTACATTTT
1 ATTTTAA-TATATTTATATATTACATTTT
16880 ATTTTAAT-TATTT
1 ATTTTAATATATTT
16893 TTTATTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 20 0.57
30 9 0.26
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.65
Consensus pattern (28 bp):
ATTTTAATATATTTATATATTACATTTT
Found at i:16863 original size:16 final size:15
Alignment explanation
Indices: 16842--16899 Score: 57
Period size: 16 Copynumber: 3.9 Consensus size: 15
16832 GTTTATATAT
16842 TTATATTTTATTTGAA
1 TTATATTTTATTT-AA
*
16858 TTATATTTT-TAT-A
1 TTATATTTTATTTAA
*
16871 TTACATTTTATTTTAA
1 TTATATTTTA-TTTAA
*
16887 TTATTTTTTATTT
1 TTATATTTTATTT
16900 TAAATTCACC
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
13 9 0.26
15 7 0.21
16 18 0.53
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (15 bp):
TTATATTTTATTTAA
Found at i:16895 original size:29 final size:30
Alignment explanation
Indices: 16837--16901 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 30
16827 AATGTGTTTA
*
16837 TATATTTATATTTTATTTGAATTATATTTT
1 TATATTTACATTTTATTTGAATTATATTTT
*
16867 TATA-TTACATTTTATTTTAATTAT-TTTT
1 TATATTTACATTTTATTTGAATTATATTTT
16895 TAT-TTTA
1 TATATTTA
16902 AATTCACCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 10 0.31
29 18 0.56
30 4 0.12
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (30 bp):
TATATTTACATTTTATTTGAATTATATTTT
Found at i:17311 original size:17 final size:16
Alignment explanation
Indices: 17256--17311 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 16
17246 ATATTACTCC
17256 ATTATTATTGTCATTAT
1 ATTATTA-TGTCATTAT
* *
17273 ATTATTATAT-TTTAAT
1 ATTATTATGTCATT-AT
17289 AGTTATTATGTCATTAT
1 A-TTATTATGTCATTAT
17306 CATTAT
1 -ATTAT
17312 ATTTTTACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
15 2 0.06
16 5 0.16
17 21 0.68
18 3 0.10
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (16 bp):
ATTATTATGTCATTAT
Found at i:17434 original size:18 final size:17
Alignment explanation
Indices: 17408--17441 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
17398 TTATGTTACC
17408 TTTAATTGTTTTTATTAT
1 TTTAATTG-TTTTATTAT
*
17426 TTTATTTGTTTTATTA
1 TTTAATTGTTTTATTA
17442 AATATAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (17 bp):
TTTAATTGTTTTATTAT
Found at i:24399 original size:13 final size:13
Alignment explanation
Indices: 24381--24406 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24371 CAATTTTTTG
24381 TGTATCGATACAT
1 TGTATCGATACAT
24394 TGTATCGATACAT
1 TGTATCGATACAT
24407 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:24471 original size:21 final size:21
Alignment explanation
Indices: 24445--24520 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
24435 CTGCCAAGAA
*
24445 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
24466 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
24486 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
24507 ATGTATCGATACAT
1 ATGTATCGATACAT
24521 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:24491 original size:20 final size:20
Alignment explanation
Indices: 24466--24538 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
24456 CATCTTTTTT
24466 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
24486 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
24507 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
24527 ATGTATCGATAC
1 ATGTATCGATAC
24539 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:24502 original size:41 final size:41
Alignment explanation
Indices: 24445--24538 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
24435 CTGCCAAGAA
*
24445 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
24486 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
24527 ATGTATCGATAC
1 ATGTATCGATAC
24539 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:26997 original size:13 final size:13
Alignment explanation
Indices: 26979--27017 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
26969 ATAATCACCC
*
26979 TGTATCGATACAG
1 TGTATCGATACAA
26992 TGTATCGATACAA
1 TGTATCGATACAA
27005 TGTATCGATACAA
1 TGTATCGATACAA
27018 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:27028 original size:20 final size:20
Alignment explanation
Indices: 27003--27081 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
26993 GTATCGATAC
27003 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
27023 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
27048 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
27068 CATGTATCGATACA
1 AATGTATCGATACA
27082 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:29116 original size:15 final size:15
Alignment explanation
Indices: 29096--29126 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
29086 ATTTCGTTTG
*
29096 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
29111 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
29126 G
1 G
29127 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:33209 original size:13 final size:13
Alignment explanation
Indices: 33191--33216 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33181 CAATTTTTTG
33191 TGTATCGATACAT
1 TGTATCGATACAT
33204 TGTATCGATACAT
1 TGTATCGATACAT
33217 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:33281 original size:21 final size:21
Alignment explanation
Indices: 33255--33330 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
33245 CTGCCAAGAA
*
33255 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
33276 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
33296 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
33317 ATGTATCGATACAT
1 ATGTATCGATACAT
33331 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:33301 original size:20 final size:20
Alignment explanation
Indices: 33276--33348 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
33266 CATCTTTTTT
33276 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
33296 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
33317 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
33337 ATGTATCGATAC
1 ATGTATCGATAC
33349 TTTTAGGGGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:33312 original size:41 final size:41
Alignment explanation
Indices: 33255--33348 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
33245 CTGCCAAGAA
*
33255 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
33296 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
33337 ATGTATCGATAC
1 ATGTATCGATAC
33349 TTTTAGGGGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:36689 original size:20 final size:19
Alignment explanation
Indices: 36613--36691 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 19
36603 AAAAACCCAA
* *
36613 AATGTATCGATACAATGAG
1 AATGTATCGATACATTTAG
*
36632 AAATGTATCGATGCAATTGTAAG
1 -AATGTATCGATAC-ATT-T-AG
* *
36655 CATGTACCGATACATTTAG
1 AATGTATCGATACATTTAG
36674 TAATGTATCGATACATTT
1 -AATGTATCGATACATTT
36692 CCTTAGTAGT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
19 2 0.04
20 28 0.60
21 5 0.11
22 10 0.21
23 2 0.04
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTTAG
Found at i:37523 original size:61 final size:61
Alignment explanation
Indices: 37458--37592 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 61
37448 GCCAATGTGT
* * * *
37458 TGATTCAAGGTCAGCAACGTTGGACTTAAGGATGCA-AAGAATGATAAAGCTGCTAATATAC
1 TGATTCAAGGCCAACAACATTGGACTTAAGGATG-AGAAGAATGATAAAGCTACTAATATAC
* * * * * * *
37519 TGATTCACGGCCAACGATATTGGGCTTGATGATGAGAAGAATGATAAAGGTACTAATATAC
1 TGATTCAAGGCCAACAACATTGGACTTAAGGATGAGAAGAATGATAAAGCTACTAATATAC
*
37580 TGATTCAAAGCCA
1 TGATTCAAGGCCA
37593 GTGATATTGG
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
60 1 0.02
61 59 0.98
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (61 bp):
TGATTCAAGGCCAACAACATTGGACTTAAGGATGAGAAGAATGATAAAGCTACTAATATAC
Found at i:37645 original size:52 final size:52
Alignment explanation
Indices: 37579--37815 Score: 199
Period size: 52 Copynumber: 4.6 Consensus size: 52
37569 TACTAATATA
* * * ** *
37579 CTGATTCAAAGCCAGTGATATTGGGCTTAAAGGTGACAAAGGTGCCAATGTG
1 CTGATTCAAGGCCAGCGATATTGGACTTAAAGAAGAAAAAGGTGCCAATGTG
* * *
37631 TTGATTCAAGGCCAGCGATAATGGACTT-AAGAAAGAAAAATGTGCCAATGTG
1 CTGATTCAAGGCCAGCGATATTGGACTTAAAG-AAGAAAAAGGTGCCAATGTG
** ** * * * **** *
37683 CTGATTCAAGGTTAGCGACGTTGGACTTAATGATGACAAAGGCATTAATATG
1 CTGATTCAAGGCCAGCGATATTGGACTTAAAGAAGAAAAAGGTGCCAATGTG
* *
37735 CTGATTCAAGGCCAACGATATCT-GACTTAAAGAAAAAAAAGGTGCCAATGTG
1 CTGATTCAAGGCCAGCGATAT-TGGACTTAAAGAAGAAAAAGGTGCCAATGTG
* * * *
37787 TTGATTTAAGGCCAGCGACATTAGACTTA
1 CTGATTCAAGGCCAGCGATATTGGACTTA
37816 GAAATAGATG
Statistics
Matches: 139, Mismatches: 42, Indels: 8
0.74 0.22 0.04
Matches are distributed among these distances:
51 4 0.03
52 132 0.95
53 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (52 bp):
CTGATTCAAGGCCAGCGATATTGGACTTAAAGAAGAAAAAGGTGCCAATGTG
Found at i:37936 original size:32 final size:33
Alignment explanation
Indices: 37883--38047 Score: 155
Period size: 32 Copynumber: 5.2 Consensus size: 33
37873 TAGAAAGAGA
* * *
37883 TGCCACCGATTTGTGTTGGCTTTTGA-AAGGGT
1 TGCCACCGACTTATGTGGGCTTTTGAGAAGGGT
* *
37915 CGCCATCGACTTATGTGGGC-TTT-AGAAGGGGT
1 TGCCACCGACTTATGTGGGCTTTTGAGAA-GGGT
* *
37947 TACCACCGACTTATATGGGC-TTTGAGAAGGGT
1 TGCCACCGACTTATGTGGGCTTTTGAGAAGGGT
* * *
37979 TGCCACCAACTTGTGTGGG-TTTT-AGAAGTAGT
1 TGCCACCGACTTATGTGGGCTTTTGAGAAG-GGT
* *
38011 TACCACCAACTTATGTGGGC-TTTGAGAAGGGT
1 TGCCACCGACTTATGTGGGCTTTTGAGAAGGGT
38043 TGCCA
1 TGCCA
38048 TCGATTTGTA
Statistics
Matches: 108, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
30 1 0.01
31 10 0.09
32 88 0.81
33 9 0.08
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (33 bp):
TGCCACCGACTTATGTGGGCTTTTGAGAAGGGT
Found at i:37968 original size:64 final size:64
Alignment explanation
Indices: 37904--38072 Score: 223
Period size: 64 Copynumber: 2.7 Consensus size: 64
37894 TGTGTTGGCT
* * * *
37904 TTTGA-AAGGGTCGCCATCGACTTATGTGGGCTTTAGAAGGGGTTACCACCGACTTATATGGGC
1 TTTGAGAAGGGTTGCCATCGACTTGTGTGGGCTTTAGAAGGAGTTACCACCAACTTATATGGGC
* * * * *
37967 TTTGAGAAGGGTTGCCACCAACTTGTGTGGGTTTTAGAAGTAGTTACCACCAACTTATGTGGGC
1 TTTGAGAAGGGTTGCCATCGACTTGTGTGGGCTTTAGAAGGAGTTACCACCAACTTATATGGGC
* * *
38031 TTTGAGAAGGGTTGCCATCGATTTGTATGGACTTTAGAAGGA
1 TTTGAGAAGGGTTGCCATCGACTTGTGTGGGCTTTAGAAGGA
38073 AAAGGTGCCA
Statistics
Matches: 89, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
63 5 0.06
64 84 0.94
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.31
Consensus pattern (64 bp):
TTTGAGAAGGGTTGCCATCGACTTGTGTGGGCTTTAGAAGGAGTTACCACCAACTTATATGGGC
Found at i:38116 original size:35 final size:35
Alignment explanation
Indices: 38056--38173 Score: 113
Period size: 35 Copynumber: 3.5 Consensus size: 35
38046 CATCGATTTG
*
38056 TATGGACTTTAGAAGG--AAAAGGTGCCACAGAGT
1 TATGGACTTTAAAAGGAAAAAAGGTGCCACAGAGT
**
38089 TATGGAC-TTAAAAGGAAAAAAGAGTGCCGTAGAGT
1 TATGGACTTTAAAAGGAAAAAAG-GTGCCACAGAGT
* *
38124 TGT-GAGCTTTGAAAA-GAAAAAATGTGCCACAGAGT
1 TATGGA-CTTT-AAAAGGAAAAAAGGTGCCACAGAGT
*
38159 TGTGGAC-TTAAAAGG
1 TATGGACTTTAAAAGG
38174 GTTCCATGGA
Statistics
Matches: 70, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
32 7 0.10
33 11 0.16
34 10 0.14
35 27 0.39
36 11 0.16
37 4 0.06
ACGTcount: A:0.39, C:0.10, G:0.29, T:0.22
Consensus pattern (35 bp):
TATGGACTTTAAAAGGAAAAAAGGTGCCACAGAGT
Found at i:38246 original size:34 final size:34
Alignment explanation
Indices: 38195--38344 Score: 136
Period size: 34 Copynumber: 4.6 Consensus size: 34
38185 TTGTGGACTT
*
38195 AAAAGGTGCCACAGAGTTGTGGGCTCTGAAAAGA
1 AAAAAGTGCCACAGAGTTGTGGGCTCTGAAAAGA
* * *
38229 AAAAAGTGTCACGGAGTTGTGGGCTTTGAAAAGA
1 AAAAAGTGCCACAGAGTTGTGGGCTCTGAAAAGA
* * *
38263 AAAAGGTGCCACAGAGTTGTGGACT-T-CAAAG-
1 AAAAAGTGCCACAGAGTTGTGGGCTCTGAAAAGA
* * *
38294 ----GGTGCCACAGAGTTGTGGACT-TGAAAGGA
1 AAAAAGTGCCACAGAGTTGTGGGCTCTGAAAAGA
* *
38323 AAAAGGTGCCACGGAGTTGTGG
1 AAAAAGTGCCACAGAGTTGTGG
38345 ATTTAAAAGG
Statistics
Matches: 98, Mismatches: 12, Indels: 13
0.80 0.10 0.11
Matches are distributed among these distances:
27 22 0.22
28 3 0.03
32 4 0.04
33 18 0.18
34 51 0.52
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (34 bp):
AAAAAGTGCCACAGAGTTGTGGGCTCTGAAAAGA
Found at i:38294 original size:121 final size:122
Alignment explanation
Indices: 38072--38321 Score: 346
Period size: 121 Copynumber: 2.0 Consensus size: 122
38062 CTTTAGAAGG
38072 AAAAGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAAGAGTGCCGTAGAGTTGTGAGCTTTGAA
1 AAAAGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAAGAGTGCCG-AGAGTTGTGAGCTTTGAA
* * **
38137 AAGAAAAAATGTGCCACAGAGTTGTGGACTTAAAAGGGTTCCATGGAGTTGTGGACTT
65 AAGAAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTT
* * * *
38195 AAAAGGTGCCACAGAGTTGTGGGCTCTGAAAA-GAAAAAAGTGT-CACG-GAGTTGTGGGCTTTG
1 AAAAGGTGCCACAGAGTTATGGACT-T-AAAAGGAAAAAAGAGTGC-CGAGAGTTGTGAGCTTTG
*
38257 AAAAG-AAAAAGGTGCCACAGAGTTGTGGACTTCAAAGGGTGCCACAGAGTTGTGGACTT
63 AAAAGAAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTT
*
38316 GAAAGG
1 AAAAGG
38322 AAAAAGGTGC
Statistics
Matches: 114, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
121 54 0.47
122 19 0.17
123 24 0.21
124 13 0.11
125 4 0.04
ACGTcount: A:0.34, C:0.12, G:0.31, T:0.22
Consensus pattern (122 bp):
AAAAGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAAGAGTGCCGAGAGTTGTGAGCTTTGAAA
AGAAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTT
Found at i:38301 original size:27 final size:26
Alignment explanation
Indices: 38267--38395 Score: 105
Period size: 27 Copynumber: 4.6 Consensus size: 26
38257 AAAAGAAAAA
38267 GGTGCCACAGAGTTGTGGACTTCAAAG
1 GGTGCCACAGAGTTGTGGACTT-AAAG
38294 GGTGCCACAGAGTTGTGGACTTGAAAGG
1 GGTGCCACAGAGTTGTGGACTT-AAA-G
* *
38322 AAAAAGGTGCCACGGAGTTGTGGATTTAAAAG
1 -----GGTGCCACAGAGTTGTGGACTT-AAAG
* ** *
38354 GATGCCACAGAGTTGTACACTTAAAA
1 GGTGCCACAGAGTTGTGGACTTAAAG
**
38380 GGTGCCATGGAGTTGT
1 GGTGCCACAGAGTTGT
38396 AGGCTTTGGA
Statistics
Matches: 83, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
26 16 0.19
27 42 0.51
28 1 0.01
32 1 0.01
33 23 0.28
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.23
Consensus pattern (26 bp):
GGTGCCACAGAGTTGTGGACTTAAAG
Found at i:38340 original size:60 final size:59
Alignment explanation
Indices: 38242--38895 Score: 319
Period size: 60 Copynumber: 10.8 Consensus size: 59
38232 AAGTGTCACG
* * *
38242 GAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTCAAAGGGTGCCACA
1 GAGTTGTGGAC-TTG-AAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACA
* *
38303 GAGTTGTGGACTTGAAAGGAAAAAGGTGCCACGGAGTTGTGGATTTAAAAGGATGCCACA
1 GAGTTGTGGACTTGAAA-GAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACA
** * * *
38363 GAGTTGTACACTT------AAAAGGTGCCATGGAGTTGTAGG-CTTTGGAAAGAAAAAGGTGCTA
1 GAGTTGTGGACTTGAAAGAAAAAGGTGCCACGGAGTTGT-GGAC-TT------AAAAGGGTGCCA
*
38421 CG
58 CA
* * * * * *
38423 GAGTTGTTGACTTAAAAGGAAAAAATGTGCCATGGAGTTGTAG-CTTTGAAAAAAAAAAGGTGCC
1 GAGTTGTGGACTTGAAA-G-AAAAAGGTGCCACGGAGTTGTGGAC-TT------AAAAGGGTGCC
*
38487 ACG
57 ACA
* * * * * * *
38490 GAGTTGTAGACTT-----AAAAGGGTGCCACGGAATTGT-AACTTAAAAGGTTACCACG
1 GAGTTGTGGACTTGAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACA
*
38543 GAGTTGT-GAGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAAGTGC
1 GAGTTGTGGA-C-TTG-AAAGAAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAG-----GGTGC
**
38607 CATG
56 CACA
* * * * *
38611 GAGTTGTGGACTT-----AAAAAGGTCCCACGAAGTTGTGGGCTTTGAAAAAAAAGGTGTCACA
1 GAGTTGTGGACTTGAAAGAAAAAGGTGCCACGGAGTTGTGGAC-TT----AAAAGGGTGCCACA
* * * *
38670 GAGTTGTGGGCTTCGAAA-AAAAAGGTGCCACGGAGTTGTGGAATTAAAA-AGTGCCACG
1 GAGTTGTGGACTT-GAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACA
* * * * *
38728 GAGTTGTGGGCTTTGAAAAGAAAAAAGTTCCACGGAGTTGTGGACTTAAATGGGTACCACA
1 GAGTTGTGGAC-TTG-AAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACA
* * * *
38789 GAGTTGTGGACTTAAAAGGAAAAATGTGCCACGAAGTTGTAGACTTAAAAGGGTGCCACA
1 GAGTTGTGGACTTGAAA-GAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACA
* * * *
38849 GAGTTGTTGAC-TAAATAGGAAAAAAGGTGCCACTGAGTTATGGACTT
1 GAGTTGTGGACTTGAA-A-G-AAAAAGGTGCCACGGAGTTGTGGACTT
38896 TGAAAAGAAA
Statistics
Matches: 469, Mismatches: 74, Indels: 100
0.73 0.12 0.16
Matches are distributed among these distances:
52 2 0.00
53 38 0.08
54 6 0.01
58 18 0.04
59 38 0.08
60 188 0.40
61 75 0.16
62 2 0.00
63 7 0.01
64 25 0.05
67 36 0.08
68 32 0.07
69 2 0.00
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.23
Consensus pattern (59 bp):
GAGTTGTGGACTTGAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACA
Found at i:38412 original size:87 final size:87
Alignment explanation
Indices: 38263--38442 Score: 233
Period size: 87 Copynumber: 2.1 Consensus size: 87
38253 TTTGAAAAGA
** *
38263 AAAAGG-TGCCACAGAGTTGTGGACTTCAAAGGGTGCCACAGAGTTGTGGACTTGAAAGGAAAAA
1 AAAAGGATGCCACAGAGTTGTACACTTCAAAAGGTGCCACAGAGTTGTGGACTTGAAAGGAAAAA
*
38327 GGTGCCACGGAGTTGTGGATTT
66 GGTGCCACGGAGTTGTGGACTT
**
38349 AAAAGGATGCCACAGAGTTGTACACTT-AAAAGGTGCCATGGAGTTGTAGG-CTTTGGAAA-GAA
1 AAAAGGATGCCACAGAGTTGTACACTTCAAAAGGTGCCACAGAGTTGT-GGAC-TT-GAAAGGAA
* *
38411 AAAGGTGCTACGGAGTTGTTGACTT
63 AAAGGTGCCACGGAGTTGTGGACTT
38436 AAAAGGA
1 AAAAGGA
38443 AAAAATGTGC
Statistics
Matches: 82, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
86 24 0.29
87 54 0.66
88 4 0.05
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.23
Consensus pattern (87 bp):
AAAAGGATGCCACAGAGTTGTACACTTCAAAAGGTGCCACAGAGTTGTGGACTTGAAAGGAAAAA
GGTGCCACGGAGTTGTGGACTT
Found at i:38426 original size:34 final size:34
Alignment explanation
Indices: 38376--38768 Score: 218
Period size: 34 Copynumber: 12.6 Consensus size: 34
38366 TTGTACACTT
* *
38376 AAAAGGTGCCATGGAGTTGTAGGCTTTGGAAAGA
1 AAAAGGTGCCACGGAGTTGTAGGCTTTGAAAAGA
* * *
38410 AAAAGGTGCTACGGAGTTGTTGAC-TT-AAAAGGAA
1 AAAAGGTGCCACGGAGTTGTAGGCTTTGAAAA-G-A
* * *
38444 AAAATGTGCCATGGAGTTGTA-GCTTTGAAAAAA
1 AAAAGGTGCCACGGAGTTGTAGGCTTTGAAAAGA
*
38477 AAAAGGTGCCACGGAGTTGTAGAC-TT-AAAAG-
1 AAAAGGTGCCACGGAGTTGTAGGCTTTGAAAAGA
* *
38508 ----GGTGCCACGGAATTGTA-AC-TT-AAAAG-
1 AAAAGGTGCCACGGAGTTGTAGGCTTTGAAAAGA
* *
38534 ----GTTACCACGGAGTTGT-GAGCTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTGTAG-GCTTTGAAAAGA
38564 AAAAGGTGCCACGGAGTTGT-GGACTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTGTAGG-CTTTGAAAAGA
* *
38598 AAAAAGTGCCATGGAGTTGT-GGAC-TT------A
1 AAAAGGTGCCACGGAGTTGTAGG-CTTTGAAAAGA
* * *
38625 AAAAGGTCCCACGAAGTTGTGGGCTTTG-AAA-A
1 AAAAGGTGCCACGGAGTTGTAGGCTTTGAAAAGA
* * * *
38657 AAAAGGTGTCACAGAGTTGTGGGCTTCG-AAA-A
1 AAAAGGTGCCACGGAGTTGTAGGCTTTGAAAAGA
**
38689 AAAAGGTGCCACGGAGTTGT--G----G-AATTA
1 AAAAGGTGCCACGGAGTTGTAGGCTTTGAAAAGA
*
38716 AAAA-GTGCCACGGAGTTGTGGGCTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTGTAGGCTTTGAAAAGA
* *
38749 AAAAAGTTCCACGGAGTTGT
1 AAAAGGTGCCACGGAGTTGT
38769 GGACTTAAAT
Statistics
Matches: 290, Mismatches: 39, Indels: 60
0.75 0.10 0.15
Matches are distributed among these distances:
26 40 0.14
27 40 0.14
28 7 0.02
29 5 0.02
30 1 0.00
32 54 0.19
33 36 0.12
34 103 0.36
35 4 0.01
ACGTcount: A:0.35, C:0.12, G:0.30, T:0.23
Consensus pattern (34 bp):
AAAAGGTGCCACGGAGTTGTAGGCTTTGAAAAGA
Found at i:38491 original size:67 final size:68
Alignment explanation
Indices: 38376--38508 Score: 214
Period size: 67 Copynumber: 2.0 Consensus size: 68
38366 TTGTACACTT
* * * *
38376 AAAAGGTGCCATGGAGTTGTAGGCTTTGGAAAGAAAAAGGTGCTACGGAGTTGTTGACTTAAAAG
1 AAAAGGTGCCATGGAGTTGTAGGCTTTGAAAAAAAAAAGGTGCCACGGAGTTGTAGACTTAAAAG
38441 GAA
66 GAA
*
38444 AAAATGTGCCATGGAGTTGTA-GCTTTGAAAAAAAAAAGGTGCCACGGAGTTGTAGACTTAAAAG
1 AAAAGGTGCCATGGAGTTGTAGGCTTTGAAAAAAAAAAGGTGCCACGGAGTTGTAGACTTAAAAG
38508 G
66 G
38509 GTGCCACGGA
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
67 40 0.67
68 20 0.33
ACGTcount: A:0.37, C:0.10, G:0.30, T:0.23
Consensus pattern (68 bp):
AAAAGGTGCCATGGAGTTGTAGGCTTTGAAAAAAAAAAGGTGCCACGGAGTTGTAGACTTAAAAG
GAA
Found at i:38528 original size:26 final size:27
Alignment explanation
Indices: 38476--38549 Score: 105
Period size: 26 Copynumber: 2.8 Consensus size: 27
38466 CTTTGAAAAA
*
38476 AAAAAGGTGCCACGGAGTTGTAGACTT
1 AAAAGGGTGCCACGGAGTTGTAGACTT
*
38503 AAAAGGGTGCCACGGAATTGTA-ACTT
1 AAAAGGGTGCCACGGAGTTGTAGACTT
* *
38529 AAAAGGTTACCACGGAGTTGT
1 AAAAGGGTGCCACGGAGTTGT
38550 GAGCTTTGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 22 0.52
27 20 0.48
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTAGACTT
Found at i:38628 original size:61 final size:62
Alignment explanation
Indices: 38563--39480 Score: 399
Period size: 61 Copynumber: 14.9 Consensus size: 62
38553 CTTTGAAAAG
* **
38563 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAAGTGCCATGGAGTTGTGGACTT-
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTA
* * * * *
38624 AAAAAGGTCCCACGAAGTTGTGGGCTTTG-AAA-AAAAAGGTGTCACAGAGTTGTGGGCTTCGAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTT----
38687 A
62 A
* * *
38688 AAAAAGGTGCCACGGAGTTGTGGA-ATT------AAAAA-GTGCCACGGAGTTGTGGGCTTTGAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGAC-TT---
38745 AA
62 -A
* * * *
38747 GAAAAAAGTTCCACGGAGTTGTGGAC-TT-AAATG-----GGTACCACAGAGTTGTGGACTTAAA
1 -AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTT---
38805 A
62 A
* * * *
38806 GGAAAAATGTGCCACGAAGTTGTAGAC-TT-AAAAG-----GGTGCCACAGAGTTGTTGACTAAA
1 --AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACT---
38864 TAGGA
61 T---A
* * *
38869 AAAAAGGTGCCACTGAGTTATGGACTTTGAAAAGAAAAAGGTGCCAC-GAAATTGTGGACTT-
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAG-AGTTGTGGACTTA
* * * * *
38930 AAAAAGGTGTCATGGAGTTGTGAAC-TT-------AAAAGGTGCCAC-GAAATTTTGGACTTA
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAG-AGTTGTGGACTTA
* ** * * *
38984 AAAGA-GTGCCATAGAGTTGTGGGCTTTGAAATGAAAAAGGTGCCATAGAGTTGTGGACTTAAAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTT----
39048 GA
62 -A
* * * **
39050 AAAAAGGGTGCCATGAAGTTGTGGGCTTTGAAAAGAAAAAGGTG-CATGGAGTTGTGGACTT-
1 AAAAA-GGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTA
* * * * *
39111 AAAAGGGTGCCACAGAGTTATGGAC-TT-AAAAG-----TGTGCCACAGAGTTATGGACTTAAAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTT----
39169 GGA
62 --A
* * * * * * * *
39172 AAAAAGGTGCTACGAAGTTGTGGGCTTTGAAAAGAAAAAGATGCCGCGGAATTATGGACTTAAAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTT----
39237 GGA
62 --A
* * * **
39240 AAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAATATGCCACAGAGTTGTGGACTT-
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTA
* * * * * * *
39301 -AAAAGGCGCCACGAAGTTATGGGCTTTGAAAAG-AAAAGGTGCCATAGAGTTATGGATTTAAAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTT----
39364 AA
62 -A
* * * ** *
39366 AAGAAAGGTGCCACGGAATTGTGGGCTTTGAAAAGAAAAATGTGCCATGGAGTTGTGGA-TTT
1 AA-AAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTA
* * *
39428 AAAAGGGTACCACGGAGTTGTGGACTTT-AAAAGAAAAAGGGTGCCATAGAGTT
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAA-GGTGCCACAGAGTT
39481 ATGAGCTTTG
Statistics
Matches: 679, Mismatches: 110, Indels: 136
0.73 0.12 0.15
Matches are distributed among these distances:
53 43 0.06
54 20 0.03
58 22 0.03
59 59 0.09
60 131 0.19
61 160 0.24
62 7 0.01
63 15 0.02
64 21 0.03
65 1 0.00
66 6 0.01
67 47 0.07
68 147 0.22
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.23
Consensus pattern (62 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTA
Found at i:38662 original size:32 final size:32
Alignment explanation
Indices: 38529--40182 Score: 272
Period size: 34 Copynumber: 52.9 Consensus size: 32
38519 ATTGTAACTT
* *
38529 AAAAGGTTACCACGGAGTTGTGAGCTTTGAAAAGA
1 AAAAGG-TGCCACGGAGTTGTGGGCTTTG-AAA-A
*
38564 AAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTG-AAA-A
* * *
38598 AAAAAGTGCCATGGAGTTGTGGAC-TT----A
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
* *
38625 AAAAGGTCCCACGAAGTTGTGGGCTTTGAAAA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
* * *
38657 AAAAGGTGTCACAGAGTTGTGGGCTTCGAAAA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
**
38689 AAAAGGTGCCACGGAGTTGT-GGAATT----A
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
38716 AAAA-GTGCCACGGAGTTGTGGGCTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTG-AAA-A
* * *
38749 AAAAAGTTCCACGGAGTTGTGGAC-TT----A
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
** * * * *
38776 AATGGGTACCACAGAGTTGTGGAC-TTAAAAGGA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAA--A
* * * *
38809 AAAATGTGCCACGAAGTTGTAGAC-TT----A
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
* * * * * *
38836 AAAGGGTGCCACAGAGTTGTTGACTAAAT-AGGAA
1 AAAAGGTGCCACGGAGTTGTGGGCT--TTGA-AAA
* * *
38870 AAAAGGTGCCACTGAGTTATGGACTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTG-AAA-A
* * *
38904 AAAAGGTGCCACGAAATTGTGGAC-TT----A
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
* * **
38931 AAAAGGTGTCATGGAGTTGTGAAC-TT-----
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
* * * *
38957 AAAAGGTGCCACGAAATTTTGGAC-TT---AA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
* **
38985 AAGA-GTGCCATAGAGTTGTGGGCTTTGAAATGA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAA--A
** * **
39018 AAAAGGTGCCATAGAGTTGTGGACTTAAAAGAA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAA-AA
* *
39051 AAAAGGGTGCCATGAAGTTGTGGGCTTTGAAAAGA
1 AAAA-GGTGCCACGGAGTTGTGGGCTTTG-AAA-A
* *
39086 AAAAGGTG-CATGGAGTTGTGGAC-TT----A
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
* * * *
39112 AAAGGGTGCCACAGAGTTATGGAC-TT-----
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
* * * **
39138 AAAAGTGTGCCACAGAGTTATGGACTTAAAAGGAA
1 AAAAG-GTGCCACGGAGTTGTGGGCTTTGAA--AA
* *
39173 AAAAGGTGCTACGAAGTTGTGGGCTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTG-AAA-A
* * * * * **
39207 AAAAGATGCCGCGGAATTATGGACTTAAAAGGAA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAA--AA
* *
39241 AAAAGGTGCCACAGAGTTGTGGGCTTTAAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGGCTTT-GAAA-A
** * *
39275 AAAATATGCCACAGAGTTGTGGAC-TT-----
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
* * *
39301 AAAAGGCGCCACGAAGTTATGGGCTTTGAAAA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
** * * *
39333 GAAAAGGTGCCATAGAGTTAT-GGATTTAAAAAAA
1 -AAAAGGTGCCACGGAGTTGTGGGCTTT--GAAAA
*
39367 AGAAAGGTGCCACGGAATTGTGGGCTTTGAAAAGA
1 A-AAAGGTGCCACGGAGTTGTGGGCTTTG-AAA-A
* * *
39402 AAAATGTGCCATGGAGTTGT-GGATTT----A
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
* * * *
39429 AAAGGGTACCACGGAGTTGTGGACTTTAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAA-A
** * *
39462 AAAAGGGTGCCATAGAGTTATGAGCTTTGAAACAA
1 AAAA-GGTGCCACGGAGTTGTGGGCTTTG-AA-AA
* ** *
39497 AAAAGGTACCATAGAGTTGTGGAC--T----A
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
* * * * *
39523 AAAGGGTGCCACAGAGTTTTAGAC-TT-AATAGGA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAA-A--A
* *
39556 AAAATGGTGTCACGTAGTTGTGGGCTTT-AAAA
1 AAAA-GGTGCCACGGAGTTGTGGGCTTTGAAAA
* * * ** **
39588 AAAAGATGCTACGGAGTTATGAACTTAAAAGGAA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAA--AA
* **
39622 AAAAAGTGCCATAGAGTTGTGGGCTTTGAAAA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
* * *
39654 GAAATATGTGCCACAGAGTTGTGGAC-TT----A
1 -AAA-AGGTGCCACGGAGTTGTGGGCTTTGAAAA
* ** * *
39683 AAAGGGTGCCACAAAGTTATGGAC-TT----A
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
* *
39710 AAAA-GTGCCGCGG-GATTATGGGCTTTGAAAAGA
1 AAAAGGTGCCACGGAG-TTGTGGGCTTTG-AAA-A
* * *
39743 AAAAGGTGCCATGGAGTTGTGGAC-TTAAAAGGA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAA--A
** * *
39776 AAAAGGGTGCCACAAATTTATGGGCTTTGAAAA
1 AAAA-GGTGCCACGGAGTTGTGGGCTTTGAAAA
* * *
39809 GAAAAGTGTGCCATGGAGTTGTAGAC-TT-----
1 -AAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAA
* *
39837 AAAAGGATGCCACAGAGTTGTGGAC-TT-----
1 AAAAGG-TGCCACGGAGTTGTGGGCTTTGAAAA
* *
39864 AAAAGGTGCTAC-GAGGTTATGGGCTTTGAAAAGA
1 AAAAGGTGCCACGGA-GTTGTGGGCTTTG-AAA-A
* *
39898 AAAAGGTGTCACAGAGTTGTGGGCTTTGAAAAA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTG-AAAA
* * ** *
39931 AAAAGGTGCCATGAAGTTGTGAAC--T---CA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
* * * * * *
39958 AAAGGGGGCTACAGAGTTATGGAC-TT----A
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
* * * * * *
39985 AAAGGGTGCTACAGAGTTGTAGACTTTAAAAGAA
1 AAAAGGTGCCACGGAGTTGTGGGCTTT-GAA-AA
**
40019 AAAAGGTGCCGTGGAGTTGTGGGCTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTG-AAA-A
* * * *
40053 AAAAGGTGCTACGAAGTTGTGGAC-TTAAAAGGA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAA--A
*
40086 AAAAGGGTGCCACGGAGTTATGGGCTTTGAAAAGA
1 AAAA-GGTGCCACGGAGTTGTGGGCTTTG-AAA-A
** * *
40121 AAAAGGTGATACGGAGTCGTGGAC-TT-AAAA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
* *
40151 GAAAAGGGATGCCACGGAGTCGTGGACTTTGA
1 -AAAA-GG-TGCCACGGAGTTGTGGGCTTTGA
40183 GAAGAGATGC
Statistics
Matches: 1212, Mismatches: 268, Indels: 278
0.69 0.15 0.16
Matches are distributed among these distances:
25 3 0.00
26 110 0.09
27 253 0.21
28 18 0.01
29 1 0.00
30 2 0.00
31 27 0.02
32 72 0.06
33 158 0.13
34 504 0.42
35 60 0.05
36 4 0.00
ACGTcount: A:0.36, C:0.11, G:0.29, T:0.23
Consensus pattern (32 bp):
AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
Found at i:38948 original size:155 final size:149
Alignment explanation
Indices: 38072--39236 Score: 487
Period size: 154 Copynumber: 7.7 Consensus size: 149
38062 CTTTAGAAGG
* *
38072 AAAAG-GTGCCACAGAGTTATGGACTTAAA-AGGAAAAAAGAGTGCC-GTAGAGTTGT-GAGCTT
1 AAAAGAGTGCCACAGAGTTGTGGACTTAAATAGGAAAAAAG-GTGCCACT-GAGTTGTGGA-CTT
* * * *
38133 TGAAAAGAAAAAATGTGCCAC-AGAGTTGTGGACTTAAAAGGGTTCCATGGAGTTGTGGACTTAA
63 TGAAAAG-AAAAAGGTGCCACGA-AATTGTGGACTTAAAAAGG-TGCATGGAGTTGTGGACTTAA
* *
38197 AA-GGTGCCAC-AGAGTTGTGGGCTCT
125 AAGGGTGCCACGA-AGTTATGGACT-T
* * * *
38222 GAAAAGAAAAAAGTGTCACGGAGTTGTGGGCTTTGAAA-A-G-AAAAAGGTGCCACAGAGTTGTG
1 -AAAAG-----AGTGCCACAGAGTTGTGGAC-TT-AAATAGGAAAAAAGGTGCCACTGAGTTGTG
* * *
38284 GAC-TT-CAAAG-----GGTGCCAC-AGAGTTGTGGACTTGAAAGGAAAAAGGTGCCACGGAGTT
58 GACTTTGAAAAGAAAAAGGTGCCACGA-AATTGTGGACTT------AAAAAGGTG-CATGGAGTT
* * * **
38341 GTGGATTTAAAAGGATGCCAC-AGAGTTGTACACTT
115 GTGGACTTAAAAGGGTGCCACGA-AGTTATGGACTT
** * * * *
38376 AAAAG-GTGCCATGGAGTTGTAGG-CTTTGGAA-A-G-AAAAAGGTGCTACGGAGTTGTTGAC-T
1 AAAAGAGTGCCACAGAGTTGT-GGAC-TT-AAATAGGAAAAAAGGTGCCACTGAGTTGTGGACTT
* * * * * * *
38435 T-AAAAGGAAAAAATGTGCCATGGAGTTGTAG-CTTTGAAAAAAAAAAGGTGCCACGGAGTTGTA
63 TGAAAA-G-AAAAAGGTGCCACGAAATTGTGGAC-TT------AAAAAGGTG-CATGGAGTTGTG
* *
38498 GACTTAAAAGGGTGCCACGGAA-TTGT-AACTT
118 GACTTAAAAGGGTGCCAC-GAAGTTATGGACTT
* * *
38529 AAAAG-GTTACCACGGAGTTGT-GAGCTTTGAAA-A-G-AAAAAGGTGCCACGGAGTTGTGGACT
1 AAAAGAG-TGCCACAGAGTTGTGGA-C-TT-AAATAGGAAAAAAGGTGCCACTGAGTTGTGGACT
* * * * * * * *
38589 TTGAAAAGAAAAAAGTGCCATGGAGTTGTGGACTTAAAAAGGTCCCACGAAGTTGTGGGCTTTGA
62 TTGAAAAGAAAAAGGTGCCACGAAATTGTGGACTTAAAAAGGT-GCATGGAGTTGTGGAC-TT--
* * * *
38654 AAAAAAAGGTGTCAC-AGAGTTGTGGGCTT
123 --AAAAGGGTGCCACGA-AGTTATGGACTT
* * * * *
38683 CGAAAAAAAAGGTGCCACGGAGTTGTGG-----AAT---TAAAAA-GTGCCACGGAGTTGTGGGC
1 ----AAAAGA-GTGCCACAGAGTTGTGGACTTAAATAGGAAAAAAGGTGCCACTGAGTTGTGGAC
* * * * ** * **
38739 TTTGAAAAGAAAAAAGTTCCACGGAGTTGTGGACTTAAATGGGTACCACAGAGTTGTGGACTTAA
61 TTTGAAAAGAAAAAGGTGCCACGAAATTGTGGACTTAAAAAGGT-GCATGGAGTTGTGGACTTAA
* *
38804 AAGGAAAAATGTGCCACGAAGTTGTAGACTT
125 AAGG------GTGCCACGAAGTTATGGACTT
* * *
38835 AAAAGGGTGCCACAGAGTTGTTGAC-TAAATAGGAAAAAAGGTGCCACTGAGTTATGGACTTTGA
1 AAAAGAGTGCCACAGAGTTGTGGACTTAAATAGGAAAAAAGGTGCCACTGAGTTGTGGACTTTGA
*
38899 AAAGAAAAAGGTGCCACGAAATTGTGGACTTAAAAAGGTGTCATGGAGTTGTGAACTTAAAA-GG
66 AAAGAAAAAGGTGCCACGAAATTGTGGACTTAAAAAGGTG-CATGGAGTTGTGGACTTAAAAGGG
* *
38963 TGCCACGAAATTTTGGACTT
130 TGCCACGAAGTTATGGACTT
* *
38983 AAAAGAGTGCCATAGAGTTGTGGGCTTTGAAAT--G-AAAAAGGTGCCA-TAGAGTTGTGGAC-T
1 AAAAGAGTGCCACAGAGTTGTGGAC-TT-AAATAGGAAAAAAGGTGCCACT-GAGTTGTGGACTT
* * *
39043 T-AAAAGAAAAAAGGGTGCCATGAAGTTGTGGGCTTTGAAAAGAAAAAGGTGCATGGAGTTGTGG
63 TGAAAAG-AAAAA-GGTGCCACGAAATTGTGGAC-TT------AAAAAGGTGCATGGAGTTGTGG
39107 ACTTAAAAGGGTGCCAC-AGAGTTATGGACTT
119 ACTTAAAAGGGTGCCACGA-AGTTATGGACTT
* * * *
39138 AAAAGTGTGCCACAGAGTTATGGACTTAAA-AGGAAAAAAGGTGCTAC-GAAGTTGTGGGCTTTG
1 AAAAGAGTGCCACAGAGTTGTGGACTTAAATAGGAAAAAAGGTGCCACTG-AGTTGTGGACTTTG
* * * *
39201 AAAAGAAAAAGATGCCGCGGAATTATGGACTTAAAA
65 AAAAGAAAAAGGTGCCACGAAATTGTGGACTTAAAA
39237 GGAAAAAAGG
Statistics
Matches: 814, Mismatches: 108, Indels: 187
0.73 0.10 0.17
Matches are distributed among these distances:
146 10 0.01
147 72 0.09
148 130 0.16
149 5 0.01
150 3 0.00
151 84 0.10
152 25 0.03
153 36 0.04
154 193 0.24
155 177 0.22
156 25 0.03
157 28 0.03
158 7 0.01
159 17 0.02
160 2 0.00
ACGTcount: A:0.35, C:0.12, G:0.30, T:0.23
Consensus pattern (149 bp):
AAAAGAGTGCCACAGAGTTGTGGACTTAAATAGGAAAAAAGGTGCCACTGAGTTGTGGACTTTGA
AAAGAAAAAGGTGCCACGAAATTGTGGACTTAAAAAGGTGCATGGAGTTGTGGACTTAAAAGGGT
GCCACGAAGTTATGGACTT
Found at i:38950 original size:27 final size:26
Alignment explanation
Indices: 38904--39005 Score: 96
Period size: 27 Copynumber: 3.8 Consensus size: 26
38894 TTTGAAAAGA
* * *
38904 AAAAGGTGCCACGAAATTGTGGACTT
1 AAAAGGTGCCATGGAGTTGTGGACTT
* *
38930 AAAAAGGTGTCATGGAGTTGTGAACTT
1 -AAAAGGTGCCATGGAGTTGTGGACTT
* * * *
38957 AAAAGGTGCCACGAAATTTTGGACTT
1 AAAAGGTGCCATGGAGTTGTGGACTT
*
38983 AAAAGAGTGCCATAGAGTTGTGG
1 AAAAG-GTGCCATGGAGTTGTGG
39006 GCTTTGAAAT
Statistics
Matches: 58, Mismatches: 16, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
26 25 0.43
27 33 0.57
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.25
Consensus pattern (26 bp):
AAAAGGTGCCATGGAGTTGTGGACTT
Found at i:38968 original size:53 final size:53
Alignment explanation
Indices: 38904--39004 Score: 159
Period size: 53 Copynumber: 1.9 Consensus size: 53
38894 TTTGAAAAGA
* *
38904 AAAAGGTGCCACGAAATTGTGGACTTAAAA-AGGTGTCATGGAGTTGTGAACTT
1 AAAAGGTGCCACGAAATTGTGGACTTAAAAGA-GTGCCATAGAGTTGTGAACTT
*
38957 AAAAGGTGCCACGAAATTTTGGACTTAAAAGAGTGCCATAGAGTTGTG
1 AAAAGGTGCCACGAAATTGTGGACTTAAAAGAGTGCCATAGAGTTGTG
39005 GGCTTTGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
53 43 0.98
54 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.26
Consensus pattern (53 bp):
AAAAGGTGCCACGAAATTGTGGACTTAAAAGAGTGCCATAGAGTTGTGAACTT
Found at i:38982 original size:26 final size:26
Alignment explanation
Indices: 38904--38994 Score: 110
Period size: 27 Copynumber: 3.4 Consensus size: 26
38894 TTTGAAAAGA
38904 AAAAGGTGCCACGAAATTGTGGACTT
1 AAAAGGTGCCACGAAATTGTGGACTT
* * * * *
38930 AAAAAGGTGTCATGGAGTTGTGAACTT
1 -AAAAGGTGCCACGAAATTGTGGACTT
*
38957 AAAAGGTGCCACGAAATTTTGGACTT
1 AAAAGGTGCCACGAAATTGTGGACTT
38983 AAAAGAGTGCCA
1 AAAAG-GTGCCA
38995 TAGAGTTGTG
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 25 0.48
27 27 0.52
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.24
Consensus pattern (26 bp):
AAAAGGTGCCACGAAATTGTGGACTT
Found at i:39032 original size:34 final size:33
Alignment explanation
Indices: 38983--40128 Score: 279
Period size: 34 Copynumber: 36.2 Consensus size: 33
38973 TTTTGGACTT
*
38983 AAAAGAGTGCCATAGAGTTGTGGGCTTTGAAATGA
1 AAAAG-GTGCCATAGAGTTGTGGGCTTT-AAAAGA
*
39018 AAAAGGTGCCATAGAGTTGTGGAC-TTAAAAGAA
1 AAAAGGTGCCATAGAGTTGTGGGCTTTAAAAG-A
39051 AAAAGGGTGCCAT-GAAGTTGTGGGCTTTGAAAAGA
1 AAAA-GGTGCCATAG-AGTTGTGGGCTTT-AAAAGA
* *
39086 AAAAGGTG-CATGGAGTTGTGGAC-TTAAAAG-
1 AAAAGGTGCCATAGAGTTGTGGGCTTTAAAAGA
* * *
39116 ----GGTGCCACAGAGTTATGGAC-TTAAAAG-
1 AAAAGGTGCCATAGAGTTGTGGGCTTTAAAAGA
* * * *
39143 ----TGTGCCACAGAGTTATGGAC-TTAAAAGGAA
1 AAAAGGTGCCATAGAGTTGTGGGCTTTAAAA-G-A
39173 AAAAGGTG-C-TACGAAGTTGTGGGCTTTGAAAAGA
1 AAAAGGTGCCATA-G-AGTTGTGGGCTTT-AAAAGA
* *** * * *
39207 AAAAGATGCCGCGGAATTATGGAC-TTAAAAGGAA
1 AAAAGGTGCCATAGAGTTGTGGGCTTTAAAA-G-A
*
39241 AAAAGGTGCCACAGAGTTGTGGGCTTTAAAAAGA
1 AAAAGGTGCCATAGAGTTGTGGGCTTT-AAAAGA
** * *
39275 AAAATATGCCACAGAGTTGTGGAC-TT------
1 AAAAGGTGCCATAGAGTTGTGGGCTTTAAAAGA
* * *
39301 AAAAGGCGCCA-CGAAGTTATGGGCTTTGAAAAG-
1 AAAAGGTGCCATAG-AGTTGTGGGCTTT-AAAAGA
* * *
39334 AAAAGGTGCCATAGAGTTAT-GGATTTAAAAAAA
1 AAAAGGTGCCATAGAGTTGTGGGCTTT-AAAAGA
** *
39367 AGAAAGGTGCCACGGAATTGTGGGCTTTGAAAAGA
1 A-AAAGGTGCCATAGAGTTGTGGGCTTT-AAAAGA
* * *
39402 AAAATGTGCCATGGAGTTGT-GGATTTAAAAG-
1 AAAAGGTGCCATAGAGTTGTGGGCTTTAAAAGA
* ** *
39433 ----GGTACCACGGAGTTGTGGACTTTAAAAGA
1 AAAAGGTGCCATAGAGTTGTGGGCTTTAAAAGA
* *
39462 AAAAGGGTGCCATAGAGTTATGAGCTTTGAAACA-A
1 AAAA-GGTGCCATAGAGTTGTGGGCTTT-AAA-AGA
* *
39497 AAAAGGTACCATAGAGTTGTGGAC--TAAAAG-
1 AAAAGGTGCCATAGAGTTGTGGGCTTTAAAAGA
* * * * *
39527 ----GGTGCCACAGAGTTTTAGAC-TTAATAGGA
1 AAAAGGTGCCATAGAGTTGTGGGCTTTAA-AAGA
* *
39556 AAAATGGTGTCA-CGTAGTTGTGGGCTTT-AAA-A
1 AAAA-GGTGCCATAG-AGTTGTGGGCTTTAAAAGA
* * ** * **
39588 AAAAGATGCTACGGAGTTATGAAC-TTAAAAGGAA
1 AAAAGGTGCCATAGAGTTGTGGGCTTTAAAA-G-A
*
39622 AAAAAGTGCCATAGAGTTGTGGGCTTTGAAAAGA
1 AAAAGGTGCCATAGAGTTGTGGGCTTT-AAAAGA
* * * *
39656 AATATGTGCCACAGAGTTGTGGAC-TTAAAAG-
1 AAAAGGTGCCATAGAGTTGTGGGCTTTAAAAGA
* * * *
39687 ----GGTGCCACAAAGTTATGGAC-TT-----A
1 AAAAGGTGCCATAGAGTTGTGGGCTTTAAAAGA
** * *
39710 AAAA-GTGCC-GCGGGATTATGGGCTTTGAAAAGA
1 AAAAGGTGCCATAGAG-TTGTGGGCTTT-AAAAGA
* *
39743 AAAAGGTGCCATGGAGTTGTGGAC-TTAAAAGGA
1 AAAAGGTGCCATAGAGTTGTGGGCTTTAAAA-GA
* * * *
39776 AAAAGGGTGCCACAAATTTATGGGCTTTGAAAAG-
1 AAAA-GGTGCCATAGAGTTGTGGGCTTT-AAAAGA
* * *
39810 AAAAGTGTGCCATGGAGTTGTAGAC-TTAAAAG-
1 AAAAG-GTGCCATAGAGTTGTGGGCTTTAAAAGA
* * *
39842 ----GATGCCACAGAGTTGTGGAC-TT------
1 AAAAGGTGCCATAGAGTTGTGGGCTTTAAAAGA
*
39864 AAAAGGTG-C-TACGAGGTTATGGGCTTTGAAAAGA
1 AAAAGGTGCCATA-GA-GTTGTGGGCTTT-AAAAGA
* *
39898 AAAAGGTGTCACAGAGTTGTGGGCTTTGAAAA-A
1 AAAAGGTGCCATAGAGTTGTGGGCTTT-AAAAGA
** *
39931 AAAAGGTGCCAT-GAAGTTGTGAAC-TCAAAAG-
1 AAAAGGTGCCATAG-AGTTGTGGGCTTTAAAAGA
* * * * *
39962 ----GGGGCTACAGAGTTATGGAC-TTAAAAG-
1 AAAAGGTGCCATAGAGTTGTGGGCTTTAAAAGA
* * * *
39989 ----GGTGCTACAGAGTTGTAGACTTTAAAAGAA
1 AAAAGGTGCCATAGAGTTGTGGGCTTTAAAAG-A
* *
40019 AAAAGGTGCCGTGGAGTTGTGGGCTTTGAAAAGA
1 AAAAGGTGCCATAGAGTTGTGGGCTTT-AAAAGA
*
40053 AAAAGGTG-C-TACGAAGTTGTGGAC-TTAAAAGGA
1 AAAAGGTGCCATA-G-AGTTGTGGGCTTTAAAA-GA
** *
40086 AAAAGGGTGCCACGGAGTTATGGGCTTTGAAAAGA
1 AAAA-GGTGCCATAGAGTTGTGGGCTTT-AAAAGA
40121 AAAAGGTG
1 AAAAGGTG
40129 ATACGGAGTC
Statistics
Matches: 837, Mismatches: 156, Indels: 237
0.68 0.13 0.19
Matches are distributed among these distances:
24 1 0.00
25 5 0.01
26 58 0.07
27 138 0.16
28 21 0.03
30 3 0.00
31 26 0.03
32 53 0.06
33 98 0.12
34 340 0.41
35 67 0.08
36 27 0.03
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.23
Consensus pattern (33 bp):
AAAAGGTGCCATAGAGTTGTGGGCTTTAAAAGA
Found at i:39092 original size:68 final size:67
Alignment explanation
Indices: 38998--39686 Score: 453
Period size: 68 Copynumber: 10.8 Consensus size: 67
38988 AGTGCCATAG
* * *
38998 AGTTGTGGGCTTTGAAATGAAAAAGGTGCCATAGAGTTGTGGACTTAAAAGAAAAAAGGGTGCCA
1 AGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGACTTAAAAGAAAAAA-GGTGCCA
*
39063 TGA
65 CGA
** *
39066 AGTTGTGGGCTTTGAAAAGAAAAAGGTG-CATGGAGTTGTGGACTTAAAAG------GGTGCCAC
1 AGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGACTTAAAAGAAAAAAGGTGCCAC
39124 -A
66 GA
* * * *
39125 GAGTTATGGAC-TT-AAAAG-----TGTGCCACAGAGTTATGGACTTAAAAGGAAAAAAGGTGCT
1 -AGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGACTTAAAA-GAAAAAAGGTGCC
39183 ACGA
64 ACGA
* * * *
39187 AGTTGTGGGCTTTGAAAAGAAAAAGATGCCGCGGAATTATGGACTTAAAAGGAAAAAAGGTGCCA
1 AGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGACTTAAAA-GAAAAAAGGTGCCA
39252 C-A
65 CGA
* ** * *
39254 GAGTTGTGGGCTTTAAAAAGAAAAATATGCCACAGAGTTGTGGACTT-------AAAAGGCGCCA
1 -AGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGACTTAAAAGAAAAAAGGTGCCA
39312 CGA
65 CGA
* * * *
39315 AGTTATGGGCTTTGAAAAG-AAAAGGTGCCATAGAGTTATGGATTTAAAAAAAAGAAAGGTGCCA
1 AGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGACTTAAAAGAAA-AAAGGTGCCA
39379 CGGA
65 C-GA
* ** * * *
39383 A-TTGTGGGCTTTGAAAAGAAAAATGTGCCATGGAGTTGTGGATTTAAAAG------GGTACCAC
1 AGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGACTTAAAAGAAAAAAGGTGCCAC
*
39441 GG
66 GA
* * * * *
39443 AGTTGTGGACTTT-AAAAGAAAAAGGGTGCCATAGAGTTAT-GAGCTTTGAAACAAAAAAGGTAC
1 AGTTGTGGGCTTTGAAAAGAAAAA-GGTGCCACAGAGTTATGGA-C-TTAAAAGAAAAAAGGTGC
*
39506 CA-TA
63 CACGA
* * * * * *
39510 GAGTTGTGGAC--T-AAAAG-----GGTGCCACAGAGTTTTAGACTTAATAGGAAAAATGGTGTC
1 -AGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGACTTAA-AAGAAAAAAGGTGCC
*
39567 ACGT
64 ACGA
* * * * *
39571 AGTTGTGGGCTTT--AAA-AAAAAGATGCTACGGAGTTATGAACTTAAAAGGAAAAAAAGTGCCA
1 AGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGACTTAAAA-GAAAAAAGGTGCCA
*
39633 -TA
65 CGA
* * *
39635 GAGTTGTGGGCTTTGAAAAGAAATATGTGCCACAGAGTTGTGGACTTAAAAG
1 -AGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGACTTAAAAG
39687 GGTGCCACAA
Statistics
Matches: 487, Mismatches: 79, Indels: 111
0.72 0.12 0.16
Matches are distributed among these distances:
53 3 0.01
54 18 0.04
55 1 0.00
58 5 0.01
59 27 0.06
60 92 0.19
61 51 0.10
62 9 0.02
63 5 0.01
64 1 0.00
65 42 0.09
66 7 0.01
67 52 0.11
68 174 0.36
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.24
Consensus pattern (67 bp):
AGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGACTTAAAAGAAAAAAGGTGCCAC
GA
Found at i:39134 original size:27 final size:27
Alignment explanation
Indices: 39098--39170 Score: 128
Period size: 27 Copynumber: 2.7 Consensus size: 27
39088 AAGGTGCATG
*
39098 GAGTTGTGGACTTAAAAGGGTGCCACA
1 GAGTTATGGACTTAAAAGGGTGCCACA
*
39125 GAGTTATGGACTTAAAAGTGTGCCACA
1 GAGTTATGGACTTAAAAGGGTGCCACA
39152 GAGTTATGGACTTAAAAGG
1 GAGTTATGGACTTAAAAGG
39171 AAAAAAGGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.25
Consensus pattern (27 bp):
GAGTTATGGACTTAAAAGGGTGCCACA
Found at i:39162 original size:121 final size:121
Alignment explanation
Indices: 39018--39238 Score: 329
Period size: 121 Copynumber: 1.8 Consensus size: 121
39008 TTTGAAATGA
* * *
39018 AAAAGGTGCCATAGAGTTGTGGACTTAAAA-GAAAAAAGGGTGCCATGAAGTTGTGGGCTTTGAA
1 AAAAGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAA-GGTGCCACGAAGTTGTGGGCTTTGAA
* * * *
39082 AAGAAAAAGGTG-CATGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTATGGACTT
65 AAGAAAAAGATGCCACGGAATTATGGACTTAAAAGGGTGCCACAGAGTTATGGACTT
*
39138 AAAAGTGTGCCACAGAGTTATGGACTTAAAAGGAAAAAAGGTGCTACGAAGTTGTGGGCTTTGAA
1 AAAAG-GTGCCACAGAGTTATGGACTTAAAAGGAAAAAAGGTGCCACGAAGTTGTGGGCTTTGAA
*
39203 AAGAAAAAGATGCCGCGGAATTATGGACTTAAAAGG
65 AAGAAAAAGATGCCACGGAATTATGGACTTAAAAGG
39239 AAAAAAGGTG
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
120 5 0.06
121 58 0.65
122 26 0.29
ACGTcount: A:0.37, C:0.10, G:0.30, T:0.22
Consensus pattern (121 bp):
AAAAGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAAGGTGCCACGAAGTTGTGGGCTTTGAAA
AGAAAAAGATGCCACGGAATTATGGACTTAAAAGGGTGCCACAGAGTTATGGACTT
Found at i:39251 original size:189 final size:189
Alignment explanation
Indices: 38748--39712 Score: 718
Period size: 189 Copynumber: 5.2 Consensus size: 189
38738 CTTTGAAAAG
* * * * * * * *
38748 AAAAAAGTTCCACGGAGTTGTGGACTTAAATGGGTACCACAGAGTTGTGGACTTAAAAGGAAAAA
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGGTGCCACAGAGTTATGGACTTAAAAGAAAAAA
* * * * * * * *
38813 TGTGCCACGAAGTTGTAGAC-TT-AAAAG-----GGTGCCACAGAGTTGTTGAC-TAAATAGGAA
66 GGTGCTACGAAGTTGTGGGCTTTGAAAAGAAAAAGATGCCACGGAGTTATGGACTTAAA-AGGAA
* * *
38870 AAAAGGTGCCACTG-AGTTATGGACTTTGAAAAGAAAAAGGTGCCAC-GAAATTGTGGACTT
130 AAAAGGTGCCA-TGAAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAG-AGTTGTGGACTT
* ** * * * *
38930 AAAAAGGTGTCATGGAGTTGTGAACTTAAAA-GGTGCCAC-GAAATTTTGGACTTAAAAG-----
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGGTGCCACAG-AGTTATGGACTTAAAAGAAAAA
* * ** *
38988 A-GTGCCATA-G-AGTTGTGGGCTTTGAAATGAAAAAGGTGCCATAGAGTTGTGGACTTAAAA-G
65 AGGTG-C-TACGAAGTTGTGGGCTTTGAAAAGAAAAAGATGCCACGGAGTTATGGACTTAAAAGG
**
39049 AAAAAAGGGTGCCATGAAGTTGTGGGCTTTGAAAAGAAAAAGGTG-CATGGAGTTGTGGACTT
128 AAAAAA-GGTGCCATGAAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
* *
39111 AAAAGGGTGCCACAGAGTTATGGACTTAAAAGTGTGCCACAGAGTTATGGACTTAAAAGGAAAAA
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGGTGCCACAGAGTTATGGACTTAAAA-GAAAAA
* *
39176 AGGTGCTACGAAGTTGTGGGCTTTGAAAAGAAAAAGATGCCGCGGAATTATGGACTTAAAAGGAA
65 AGGTGCTACGAAGTTGTGGGCTTTGAAAAGAAAAAGATGCCACGGAGTTATGGACTTAAAAGGAA
* * **
39241 AAAAGGTGCCA-CAGAGTTGTGGGCTTTAAAAAGAAAAATATGCCACAGAGTTGTGGACTT
130 AAAAGGTGCCATGA-AGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
* * * *
39301 -AAAAGGCGCCAC-GAAGTTATGGGCTTTGAAAAGAAAAGGTGCCATAGAGTTATGGATTTAAAA
1 AAAAAGGTGCCACAG-AGTTATGGAC-TT-AAAAG----GGTGCCACAGAGTTATGGACTTAAAA
* * * * *
39364 AAAAGAAAGGTGCCACGGAA-TTGTGGGCTTTGAAAAGAAAAATG-TGCCATGGAGTTGTGGATT
59 GAAA-AAAGGTGCTAC-GAAGTTGTGGGCTTTGAAAAGAAAAA-GATGCCACGGAGTTATGGACT
* * * * * *
39427 TAAAA-G------GGTACCACGGAGTTGTGGACTTT-AAAAGAAAAAGGGTGCCATAGAGTTAT-
121 TAAAAGGAAAAAAGGTGCCATGAAGTTGTGGGCTTTGAAAAGAAAAA-GGTGCCACAGAGTTGTG
39483 GAGCTTT
185 GA-C-TT
* * * * * *
39490 GAAACAAAAAAGGTACCATAGAGTTGTGGAC-TAAAAGGGTGCCACAGAGTTTTAGACTTAATAG
1 ------AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGGTGCCACAGAGTTATGGACTTAA-AA
* * * *
39554 GAAAAATGGTG-TCACGTAGTTGTGGGCTTT--AAA-AAAAAGATGCTACGGAGTTATGAACTTA
59 GAAAAAAGGTGCT-ACGAAGTTGTGGGCTTTGAAAAGAAAAAGATGCCACGGAGTTATGGACTTA
* * *
39615 AAAGGAAAAAAAGTGCCAT-AGAGTTGTGGGCTTTGAAAAGAAATATGTGCCACAGAGTTGTGGA
123 AAAGGAAAAAAGGTGCCATGA-AGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGA
39679 CTT
187 CTT
* *
39682 AAAAGGGTGCCACAAAGTTATGGACTTAAAA
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAA
39713 AGTGCCGCGG
Statistics
Matches: 623, Mismatches: 95, Indels: 125
0.74 0.11 0.15
Matches are distributed among these distances:
175 11 0.02
176 5 0.01
177 5 0.01
180 1 0.00
181 69 0.11
182 99 0.16
183 6 0.01
185 1 0.00
186 44 0.07
187 23 0.04
188 38 0.06
189 138 0.22
190 28 0.04
191 5 0.01
192 2 0.00
193 36 0.06
194 16 0.03
195 74 0.12
196 21 0.03
197 1 0.00
ACGTcount: A:0.37, C:0.11, G:0.28, T:0.24
Consensus pattern (189 bp):
AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGGTGCCACAGAGTTATGGACTTAAAAGAAAAAA
GGTGCTACGAAGTTGTGGGCTTTGAAAAGAAAAAGATGCCACGGAGTTATGGACTTAAAAGGAAA
AAAGGTGCCATGAAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
Found at i:39400 original size:127 final size:127
Alignment explanation
Indices: 39173--39688 Score: 391
Period size: 127 Copynumber: 4.1 Consensus size: 127
39163 TTAAAAGGAA
* * *** *
39173 AAAAGGTGCTACGAAGTTGTGGGCTTTGAAAAGAAAAAGATGCCGCGGAATTATGGACTTAAAAG
1 AAAAGG-GCCACGAAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCATAGAGTTATGGACTTAAAAG
* *
39238 GAAAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAATATGCCACAGAGTTGTGGACTT
65 AAAAAAAGGTGCCACAGAATTGTGGGCTTTAAAAAGAAAAATATGCCACAGAGTTGTGGACTT
* *
39301 AAAAGGCGCCACGAAGTTATGGGCTTTGAAAAG-AAAAGGTGCCATAGAGTTATGGATTTAAAA-
1 AAAAGG-GCCACGAAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCATAGAGTTATGGACTTAAAAG
* * * ** *
39364 AAAAGAAAGGTGCCACGGAATTGTGGGCTTTGAAAAGAAAAATGTGCCATGGAGTTGTGGATTT
65 AAAA-AAAGGTGCCACAGAATTGTGGGCTTTAAAAAGAAAAATATGCCACAGAGTTGTGGACTT
* * *
39428 AAAAGGGTACCACGGAGTTGTGGACTTT-AAAAGAAAAAGGGTGCCATAGAGTTAT-GAGCTTTG
1 AAAAGGG--CCACGAAGTTGTGGGCTTTGAAAAGAAAAA-GGTGCCATAGAGTTATGGA-C-TTA
* * * * * ** * *
39491 AAA-CAAAAAAGGTACCATAGAGTTGTGGAC--T-AAAAG-----GGTGCCACAGAGTTTTAGAC
61 AAAGAAAAAAAGGTGCCACAGAATTGTGGGCTTTAAAAAGAAAAATATGCCACAGAGTTGTGGAC
39547 TTAAT
126 -T--T
* * * * ** *
39552 AGGAAAAATGGTGTCACGTAGTTGTGGGCTTT--AAA-AAAAAGATGCTACGGAGTTATGAACTT
1 ----AAAA-GG-GCCACGAAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCATAGAGTTATGGACTT
* * * * *
39614 AAAAGGAAAAAAA-GTGCCATAGAGTTGTGGGCTTTGAAAAGAAATATGTGCCACAGAGTTGTGG
60 AAAA-GAAAAAAAGGTGCCACAGAATTGTGGGCTTTAAAAAGAAAAATATGCCACAGAGTTGTGG
39678 ACTT
124 ACTT
39682 AAAAGGG
1 AAAAGGG
39689 TGCCACAAAG
Statistics
Matches: 312, Mismatches: 49, Indels: 58
0.74 0.12 0.14
Matches are distributed among these distances:
121 14 0.04
122 1 0.00
124 7 0.02
125 32 0.10
126 25 0.08
127 92 0.29
128 77 0.25
129 36 0.12
130 10 0.03
132 1 0.00
133 17 0.05
ACGTcount: A:0.38, C:0.11, G:0.28, T:0.23
Consensus pattern (127 bp):
AAAAGGGCCACGAAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCATAGAGTTATGGACTTAAAAGA
AAAAAAGGTGCCACAGAATTGTGGGCTTTAAAAAGAAAAATATGCCACAGAGTTGTGGACTT
Found at i:39446 original size:95 final size:94
Alignment explanation
Indices: 39346--39540 Score: 223
Period size: 95 Copynumber: 2.1 Consensus size: 94
39336 AAGGTGCCAT
* * * *
39346 AGAGTTATGGA-TTTAAAAAAAAGAAAGGTGCCACGGAATTGTGGGCTTTGAAA-AGAAAAATGT
1 AGAGTTATGGACTTTAAAAAAAA-AAAGGTGCCACAGAATTATGAGCTTTGAAACA-AAAAAGGT
* * *
39409 GCCATGGAGTTGTGGATTTAAAAGGGTACCAC
64 ACCATAGAGTTGTGGA-CTAAAAGGGTACCAC
* * * * * *
39441 GGAGTTGTGGACTTTAAAAGAAAAAGGGTGCCATAGAGTTATGAGCTTTGAAACAAAAAAGGTAC
1 AGAGTTATGGACTTTAAAAAAAAAAAGGTGCCACAGAATTATGAGCTTTGAAACAAAAAAGGTAC
*
39506 CATAGAGTTGTGGACTAAAAGGGTGCCAC
66 CATAGAGTTGTGGACTAAAAGGGTACCAC
39535 AGAGTT
1 AGAGTT
39541 TTAGACTTAA
Statistics
Matches: 83, Mismatches: 15, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
94 18 0.22
95 54 0.65
96 11 0.13
ACGTcount: A:0.37, C:0.10, G:0.29, T:0.24
Consensus pattern (94 bp):
AGAGTTATGGACTTTAAAAAAAAAAAGGTGCCACAGAATTATGAGCTTTGAAACAAAAAAGGTAC
CATAGAGTTGTGGACTAAAAGGGTACCAC
Found at i:39583 original size:94 final size:94
Alignment explanation
Indices: 39357--39591 Score: 226
Period size: 94 Copynumber: 2.5 Consensus size: 94
39347 GAGTTATGGA
* * ** * * * *
39357 TTTAAAAAAAAGAAAGGTGCCACGGAATTGTGGGCTTTGAAAAGAAAAATGTGCCATGGAGTTGT
1 TTTAAAAGAAA-AAGGGTGCCATAGAGTTGTGGGCTTTGAAAA-AAAAAGGTACCATAGAGTTGT
* * *
39422 GGATTTAAAAGGGTACCACGGAGTTGTGGAC
64 GGATCTAAAAGGGTACCACAGAGTTGTAGAC
* *
39453 TTTAAAAGAAAAAGGGTGCCATAGAGTTATGAGCTTTGAAACAAAAAAGGTACCATAGAGTTGTG
1 TTTAAAAGAAAAAGGGTGCCATAGAGTTGTGGGCTTTGAAA-AAAAAAGGTACCATAGAGTTGTG
* *
39518 GA-CTAAAAGGGTGCCACAGAGTTTTAGAC
65 GATCTAAAAGGGTACCACAGAGTTGTAGAC
* * * *
39547 -TTAATAGGAAAAATGGTGTCA-CGTAGTTGTGGGCTTT-AAAAAAAA
1 TTTAA-AAGAAAAAGGGTGCCATAG-AGTTGTGGGCTTTGAAAAAAAA
39592 GATGCTACGG
Statistics
Matches: 115, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
92 5 0.04
93 8 0.07
94 46 0.40
95 45 0.39
96 11 0.10
ACGTcount: A:0.38, C:0.10, G:0.27, T:0.25
Consensus pattern (94 bp):
TTTAAAAGAAAAAGGGTGCCATAGAGTTGTGGGCTTTGAAAAAAAAAGGTACCATAGAGTTGTGG
ATCTAAAAGGGTACCACAGAGTTGTAGAC
Found at i:39700 original size:27 final size:27
Alignment explanation
Indices: 39661--39712 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
39651 AAAGAAATAT
* *
39661 GTGCCACAGAGTTGTGGACTTAAAAGG
1 GTGCCACAAAGTTATGGACTTAAAAGG
39688 GTGCCACAAAGTTATGGACTTAAAA
1 GTGCCACAAAGTTATGGACTTAAAA
39713 AGTGCCGCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (27 bp):
GTGCCACAAAGTTATGGACTTAAAAGG
Found at i:39800 original size:155 final size:158
Alignment explanation
Indices: 39428--40151 Score: 618
Period size: 155 Copynumber: 4.6 Consensus size: 158
39418 TTGTGGATTT
* * *
39428 AAAAGGGTACCACGGAGTTGTGGACTTTAAAA-GAAAAAGGGTGCCATAGAGTTATGAGCTTTGA
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGGGTGCCATAGAGTTATGGGCTTTGA
* * * *
39492 AACAAAAAAGGTACCATAGAGTTGTGGAC-TAAAAGGGTGCCACAGAGTTTTAGACTTAATAGGA
65 AA-AGAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTAGACTT--TA--A
* * *
39556 AAAATGGTGTCAC-GTAGTTGTGGGCTTT--AAA-
125 AAAA-GGTGCCACGGGAGTTATGGGCTTTGAAAAG
* * * * ** *
39587 AAAAAGATGCTACGGAGTTATGAACTTAAAAGGAAAAAAAGTGCCATAGAGTTGTGGGCTTTGAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGGTGCCATAGAGTTATGGGCTTTGAA
* * * *
39652 AAGAAATATGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTATGGAC-TT-AAAAA-
66 AAGAAA-AGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTAGACTTTAAAAAAG
*
39714 GTGCCGCGGGA-TTATGGGCTTTGAAAAG
130 GTGCCACGGGAGTTATGGGCTTTGAAAAG
* * * *
39742 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAGGGTGCCACAAATTTATGGGCTTTGAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGGTGCCATAGAGTTATGGGCTTTGAA
** * * *
39807 AAGAAAAGTGTGCCATGGAGTTGTAGACTTAAAAGGATGCCACAGAGTTGTGGAC-TT--AAAAG
66 AAGAAAAG-GTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTAGACTTTAAAAAAG
* *
39869 GTGCTACGAG-GTTATGGGCTTTGAAAAG
130 GTGCCACGGGAGTTATGGGCTTTGAAAAG
* * * * **
39897 AAAAAGGTGTCACAGAGTTGTGGGCTTTGAAAA--AAAAA-GGTGCCAT-GAAGTTGTGAAC--T
1 AAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGGGTGCCATAG-AGTTATGGGCTTT
* * * * *
39956 CAAAAG----GGGGCTACAGAGTTATGGACTTAAAAGGGTGCTACAGAGTTGTAGACTTTAAAAG
63 GAAAAGAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTAGACTTT-----
*
40017 AAAAAAGGTG-C-CGTGGAGTTGTGGGCTTTGAAAAG
123 AAAAAAGGTGCCACG-GGAGTTATGGGCTTTGAAAAG
* * **
40052 AAAAAGGTGCTACGAAGTTGTGGACTTAAAAGGAAAAAGGGTGCCACGGAGTTATGGGCTTTGAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGGTGCCATAGAGTTATGGGCTTTGAA
** * *
40117 AAGAAAAAGGTGATACGGAGTCGTGGACTTAAAAG
66 AAG-AAAAGGTGCCACAGAGTTGTGGACTTAAAAG
40152 AAAAGGGATG
Statistics
Matches: 451, Mismatches: 80, Indels: 64
0.76 0.13 0.11
Matches are distributed among these distances:
147 37 0.08
148 3 0.01
152 21 0.05
153 8 0.02
154 29 0.06
155 202 0.45
156 16 0.04
157 6 0.01
158 16 0.04
159 68 0.15
160 23 0.05
163 22 0.05
ACGTcount: A:0.36, C:0.11, G:0.30, T:0.23
Consensus pattern (158 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGGTGCCATAGAGTTATGGGCTTTGAA
AAGAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTAGACTTTAAAAAAGG
TGCCACGGGAGTTATGGGCTTTGAAAAG
Found at i:39840 original size:27 final size:26
Alignment explanation
Indices: 39810--39872 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
39800 CTTTGAAAAG
**
39810 AAAAGTGTGCCATGGAGTTGTAGACTT
1 AAAAG-GTGCCACAGAGTTGTAGACTT
*
39837 AAAAGGATGCCACAGAGTTGTGGACTT
1 AAAAGG-TGCCACAGAGTTGTAGACTT
39864 AAAAGGTGC
1 AAAAGGTGC
39873 TACGAGGTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 4 0.12
27 28 0.88
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.24
Consensus pattern (26 bp):
AAAAGGTGCCACAGAGTTGTAGACTT
Found at i:39974 original size:120 final size:120
Alignment explanation
Indices: 39767--40085 Score: 365
Period size: 121 Copynumber: 2.6 Consensus size: 120
39757 AGTTGTGGAC
* * * * *
39767 TTAAAAGGAAAAAGGGTGCCACAAATTTATGGGCTTTGAAAAGAAAAGTGTGCCATGGAGTTGT-
1 TTAAAA-GAAAAA-GGTGCCACAGAGTTGTGGGCTTTGAAAAAAAAAG-GTGCCATGAAGTTGTG
* * * *
39831 AGACTTAAAAGGATGCCACAGAGTTGTGGACTTAAAA-GGTGCTAC-GAGGTTATGGGCT
63 A-ACTTAAAAGGAGGCCACAGAGTTATGGACTTAAAAGGGTGCTACAGA-GTTATAGACT
*
39889 TTGAAAAGAAAAAGGTGTCACAGAGTTGTGGGCTTTGAAAAAAAAAGGTGCCATGAAGTTGTGAA
1 TT-AAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAAAAAAGGTGCCATGAAGTTGTGAA
* * * *
39954 CTCAAAAGGGGGCTACAGAGTTATGGACTTAAAAGGGTGCTACAGAGTTGTAGACT
65 CTTAAAAGGAGGCCACAGAGTTATGGACTTAAAAGGGTGCTACAGAGTTATAGACT
*** * * *
40010 TTAAAAGAAAAAAGGTGCCGTGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCTACGAAGTTGTGG
1 TTAAAAG-AAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAA-AAAAAGGTGCCATGAAGTTGTGA
40075 ACTTAAAAGGA
64 ACTTAAAAGGA
40086 AAAAGGGTGC
Statistics
Matches: 168, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
120 49 0.29
121 76 0.45
122 39 0.23
123 4 0.02
ACGTcount: A:0.36, C:0.10, G:0.30, T:0.24
Consensus pattern (120 bp):
TTAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAAAAAAGGTGCCATGAAGTTGTGAAC
TTAAAAGGAGGCCACAGAGTTATGGACTTAAAAGGGTGCTACAGAGTTATAGACT
Found at i:39975 original size:27 final size:27
Alignment explanation
Indices: 39945--40004 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
39935 GGTGCCATGA
39945 AGTTGTGAACTCAAAAGGGGGCTACAG
1 AGTTGTGAACTCAAAAGGGGGCTACAG
* * * *
39972 AGTTATGGACTTAAAAGGGTGCTACAG
1 AGTTGTGAACTCAAAAGGGGGCTACAG
39999 AGTTGT
1 AGTTGT
40005 AGACTTTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.25
Consensus pattern (27 bp):
AGTTGTGAACTCAAAAGGGGGCTACAG
Found at i:40009 original size:27 final size:28
Alignment explanation
Indices: 39957--40016 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 28
39947 TTGTGAACTC
*
39957 AAAAGGGGGCTACAGAGTTATGGAC-TT
1 AAAAGGGGGCTACAGAGTTATAGACTTT
* *
39984 AAAAGGGTGCTACAGAGTTGTAGACTTT
1 AAAAGGGGGCTACAGAGTTATAGACTTT
40012 AAAAG
1 AAAAG
40017 AAAAAAGGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 22 0.76
28 7 0.24
ACGTcount: A:0.37, C:0.10, G:0.30, T:0.23
Consensus pattern (28 bp):
AAAAGGGGGCTACAGAGTTATAGACTTT
Found at i:40194 original size:30 final size:31
Alignment explanation
Indices: 40131--40195 Score: 78
Period size: 33 Copynumber: 2.1 Consensus size: 31
40121 AAAAGGTGAT
*
40131 ACGGAGTCGTGGACTTAAAAGAAAAGGGATGCC
1 ACGGAGTCGTGGACTT--AAGAAAAGAGATGCC
* *
40164 ACGGAGTCGTGGACTT-TGAGAAGAGATGCC
1 ACGGAGTCGTGGACTTAAGAAAAGAGATGCC
40194 AC
1 AC
40196 TGAATTGTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 13 0.45
33 16 0.55
ACGTcount: A:0.32, C:0.17, G:0.34, T:0.17
Consensus pattern (31 bp):
ACGGAGTCGTGGACTTAAGAAAAGAGATGCC
Found at i:40206 original size:30 final size:31
Alignment explanation
Indices: 40158--40217 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
40148 AAAGAAAAGG
* *
40158 GATGCCACGGAGTCGTGGACTTTG-AGAAGA
1 GATGCCACGGAATCGTGGAATTTGAAGAAGA
* *
40188 GATGCCACTGAATTGTGGAATTTGAAGAAG
1 GATGCCACGGAATCGTGGAATTTGAAGAAG
40218 GAAAAAGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.30, C:0.13, G:0.33, T:0.23
Consensus pattern (31 bp):
GATGCCACGGAATCGTGGAATTTGAAGAAGA
Found at i:41267 original size:21 final size:20
Alignment explanation
Indices: 41208--41267 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
41198 ATGTCCTTGT
* *
41208 TTTTTTATTTTTGTTGTTCCC
1 TTTTTTA-TTTTGTTTTTCAC
* *
41229 TTTTTTGATTTTACTTTTGCAC
1 TTTTTT-ATTTT-GTTTTTCAC
41251 TTTTTTATTTTGTTTTT
1 TTTTTTATTTTGTTTTT
41268 TTAACTTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 4 0.13
21 15 0.48
22 12 0.39
ACGTcount: A:0.08, C:0.10, G:0.08, T:0.73
Consensus pattern (20 bp):
TTTTTTATTTTGTTTTTCAC
Found at i:48905 original size:27 final size:27
Alignment explanation
Indices: 48823--48910 Score: 97
Period size: 28 Copynumber: 3.2 Consensus size: 27
48813 TTATTCCTCT
* **
48823 TTATTGATTTCTCTTTATTTGATATTTC
1 TTATTGATTTC-ATTTCCTTGATATTTC
*
48851 TTACTT-ATTTCATTTCCCTTCATATTTC
1 TTA-TTGATTTCATTT-CCTTGATATTTC
*
48879 TTATTGATTTCATTTCCTTGATCTTTC
1 TTATTGATTTCATTTCCTTGATATTTC
48906 TTATT
1 TTATT
48911 TACTAATCAA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 20 0.39
28 29 0.57
29 2 0.04
ACGTcount: A:0.17, C:0.17, G:0.05, T:0.61
Consensus pattern (27 bp):
TTATTGATTTCATTTCCTTGATATTTC
Found at i:52071 original size:21 final size:21
Alignment explanation
Indices: 52038--52078 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
52028 CTAAGTAAAA
52038 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
52059 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
52079 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:52144 original size:21 final size:20
Alignment explanation
Indices: 52115--52171 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
52105 AAAACCCCGA
**
52115 AAAGTATCGATACACATTTT
1 AAAGTATCGATACACATTGC
*
52135 AAATGTATCGATACAGATTGC
1 AAA-GTATCGATACACATTGC
*
52156 ATAGTATCGATACACA
1 AAAGTATCGATACACA
52172 CAAATATGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (20 bp):
AAAGTATCGATACACATTGC
Found at i:52242 original size:53 final size:53
Alignment explanation
Indices: 52159--52295 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
52149 AGATTGCATA
*
52159 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAATAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACACTGGCAATAGCCAAATTT
* *
52213 GTATCGATACACACAATATGTATCGATACAGGTCACTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACACTGGCAATAGCCAAATTT
*
52266 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
52296 TTGGTAGTAG
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 65 0.82
54 14 0.18
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACACTGGCAATAGCCAAATTT
Found at i:52428 original size:13 final size:13
Alignment explanation
Indices: 52410--52446 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
52400 ACTATTCATC
52410 TATCGATACATTG
1 TATCGATACATTG
*
52423 TATCGATACAGTG
1 TATCGATACATTG
52436 TATCGATACAT
1 TATCGATACAT
52447 CATAAATAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:57602 original size:68 final size:68
Alignment explanation
Indices: 57383--57726 Score: 198
Period size: 68 Copynumber: 5.1 Consensus size: 68
57373 CTAACTACCA
* * * * * * * * * * * *
57383 TCAAAGGTCTGATCGACATCTCAACATATAGGTAAGTGACACCAAATAACGTATGTTAGTAAATG
1 TCAAAGGTCTGACCGACATCTTAGCATATAAGCAAGTGAAACCAAGTCACCTATGCTAATAAACG
*
57448 ACT
66 ACC
* * * ** * * * * *
57451 TCAAAGTTCTAATCGACATCTCGGCATATAAGTAAGTGACACTAAGTTA-C-AT--AAATAAACG
1 TCAAAGGTCTGACCGACATCTTAGCATATAAGCAAGTGAAACCAAGTCACCTATGCTAATAAACG
57512 ACC
66 ACC
* * * * * *
57515 TTAAAGGTCT-AGTCTACATCTTAGTAAATAAGCAAGT-AACACCAAGTCACCTATTCTAATAAA
1 TCAAAGGTCTGA-CCGACATCTTAGCATATAAGCAAGTGAA-ACCAAGTCACCTATGCTAATAAA
57578 CGA-C
64 CGACC
* * * * * **
57582 TCTAAAGGTTTGACCGACATCTCAACATATAAGTAAGTGAAACTAAGTCATTTATGCTAATAAAC
1 TC-AAAGGTCTGACCGACATCTTAGCATATAAGCAAGTGAAACCAAGTCACCTATGCTAATAAAC
57647 GACC
65 GACC
* * ** * ** * *
57651 TCAAAGGTCTGATCGGCATCTTAGCATATAAGCAAGTGATGCTAAGTCATTTATGCTAATACATG
1 TCAAAGGTCTGACCGACATCTTAGCATATAAGCAAGTGAAACCAAGTCACCTATGCTAATAAACG
57716 ACC
66 ACC
*
57719 TCATAGGT
1 TCAAAGGT
57727 TTGTTTGATA
Statistics
Matches: 217, Mismatches: 49, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
63 2 0.01
64 42 0.19
65 1 0.00
66 4 0.02
67 2 0.01
68 160 0.74
69 6 0.03
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (68 bp):
TCAAAGGTCTGACCGACATCTTAGCATATAAGCAAGTGAAACCAAGTCACCTATGCTAATAAACG
ACC
Found at i:57747 original size:68 final size:67
Alignment explanation
Indices: 57504--57767 Score: 210
Period size: 68 Copynumber: 3.9 Consensus size: 67
57494 AAGTTACATA
* * * * * **
57504 AATAAACGACCTTAAAGGTCT-AGTCTACATCTTAGTAAATAAGCAAGT-AACACCAAGTCACCT
1 AATAAACGACCTCAAAGGTCTGA-TCGACATCTTA-CATATAAGCAAGTGAA-ACTAAGTCATTT
*
57567 ATTCT
63 ATGCT
* * * *
57572 AATAAACGA-CTCTAAAGGTTTGACCGACATCTCAACATATAAGTAAGTGAAACTAAGTCATTTA
1 AATAAACGACCTC-AAAGGTCTGATCGACATCT-TACATATAAGCAAGTGAAACTAAGTCATTTA
57636 TGCT
64 TGCT
* **
57640 AATAAACGACCTCAAAGGTCTGATCGGCATCTTAGCATATAAGCAAGTGATGCTAAGTCATTTAT
1 AATAAACGACCTCAAAGGTCTGATCGACATCTTA-CATATAAGCAAGTGAAACTAAGTCATTTAT
57705 GCT
65 GCT
* * * * * * * * * * *
57708 AATACATGACCTCATAGGTTTGTTTGATATTTTGACATATAAACAAGTGACACCAAGTCA
1 AATAAACGACCTCAAAGGTCTGATCGACATCTT-ACATATAAGCAAGTGAAACTAAGTCA
57768 CCACGTACAC
Statistics
Matches: 157, Mismatches: 32, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
67 3 0.02
68 146 0.93
69 8 0.05
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (67 bp):
AATAAACGACCTCAAAGGTCTGATCGACATCTTACATATAAGCAAGTGAAACTAAGTCATTTATG
CT
Found at i:60902 original size:108 final size:110
Alignment explanation
Indices: 60708--60932 Score: 366
Period size: 108 Copynumber: 2.0 Consensus size: 110
60698 ATGTTAACTA
* *
60708 TTTAACCTTTTTATTGAAAAAAAAAAATCCAACCCAATTCCCTTTCTTTGTGTTGATTTCACAAG
1 TTTAACCTTTTTATTG---AAAAAAAATCCAACCCAATTCCCTTTCTTTGGGTTCATTTCACAAG
60773 TATATATAAGCACCACTTAAATATTATCTAATTACTCTTTTAATTTTT
63 TATATATAAGCACCACTTAAATATTATCTAATTACTCTTTTAATTTTT
60821 TTTAACCTTTTTATTG-AAAAAAATCCAA-CCAATTCCCTTTCTTTGGGTTCATTTCACAAGTAT
1 TTTAACCTTTTTATTGAAAAAAAATCCAACCCAATTCCCTTTCTTTGGGTTCATTTCACAAGTAT
*
60884 ATATAAGCACCAAC-TAAATATTATTTAATTACTCTTTTAATTTTT
66 ATATAAGCACC-ACTTAAATATTATCTAATTACTCTTTTAATTTTT
60929 TTTA
1 TTTA
60933 CATAAATAAT
Statistics
Matches: 108, Mismatches: 3, Indels: 7
0.92 0.03 0.06
Matches are distributed among these distances:
108 78 0.72
109 14 0.13
113 16 0.15
ACGTcount: A:0.34, C:0.17, G:0.05, T:0.44
Consensus pattern (110 bp):
TTTAACCTTTTTATTGAAAAAAAATCCAACCCAATTCCCTTTCTTTGGGTTCATTTCACAAGTAT
ATATAAGCACCACTTAAATATTATCTAATTACTCTTTTAATTTTT
Found at i:61287 original size:2 final size:2
Alignment explanation
Indices: 61280--61317 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
61270 TTAGATAATG
61280 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61318 CCTTTCAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62656 original size:26 final size:21
Alignment explanation
Indices: 62603--62651 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
62593 AAGACGTAGT
62603 TATATTACTTAAAAGTAATGA
1 TATATTACTTAAAAGTAATGA
62624 TATATTACTTAAAAGTAATGA
1 TATATTACTTAAAAGTAATGA
62645 TATATTA
1 TATATTA
62652 GATTAGACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (21 bp):
TATATTACTTAAAAGTAATGA
Found at i:68296 original size:52 final size:51
Alignment explanation
Indices: 68173--68354 Score: 154
Period size: 50 Copynumber: 3.6 Consensus size: 51
68163 TGGATGTCTG
* * * ** * *
68173 CATACATTGAAAATTGTATCGCTACATTTGGGTCAAAATCCAGAACATATC
1 CATACAATGAAAAATGTATCGATACATTTAAGTCAAAAACCAAAACATATC
* *
68224 GATACAAT-AAATAATGTATCGATACATTTAAGTCAAAAACCTAAAATATATC
1 CATACAATGAAA-AATGTATCGATACATTTAAGTCAAAAACC-AAAACATATC
* * * * * *
68276 CATATAATGAAAAATGTATCGATACATTT-GGATC-AAACCCAGAATATATT
1 CATACAATGAAAAATGTATCGATACATTTAAG-TCAAAAACCAAAACATATC
* * *
68326 GATACAATAAAAAATGTATCGATATATTT
1 CATACAATGAAAAATGTATCGATACATTT
68355 TTTTTCAAAA
Statistics
Matches: 108, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
50 36 0.33
51 36 0.33
52 33 0.31
53 3 0.03
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (51 bp):
CATACAATGAAAAATGTATCGATACATTTAAGTCAAAAACCAAAACATATC
Found at i:68339 original size:50 final size:51
Alignment explanation
Indices: 68182--68354 Score: 188
Period size: 52 Copynumber: 3.4 Consensus size: 51
68172 GCATACATTG
* * * * *
68182 AAAATTGTATCGCTACATTTGGGTCAAAATCCAGAACATATCGATACAATA
1 AAAAATGTATCGATACATTTGGATCAAAACCCAGAATATATCGATACAATA
* * * * * * *
68233 AATAATGTATCGATACATTT-AAGTCAAAAACCTAAAATATATCCATATAATG
1 AAAAATGTATCGATACATTTGGA-TC-AAAACCCAGAATATATCGATACAATA
*
68285 AAAAATGTATCGATACATTTGGATC-AAACCCAGAATATATTGATACAATA
1 AAAAATGTATCGATACATTTGGATCAAAACCCAGAATATATCGATACAATA
*
68335 AAAAATGTATCGATATATTT
1 AAAAATGTATCGATACATTT
68355 TTTTTCAAAA
Statistics
Matches: 98, Mismatches: 21, Indels: 7
0.78 0.17 0.06
Matches are distributed among these distances:
50 38 0.39
51 19 0.19
52 40 0.41
53 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (51 bp):
AAAAATGTATCGATACATTTGGATCAAAACCCAGAATATATCGATACAATA
Found at i:71954 original size:26 final size:26
Alignment explanation
Indices: 71915--71965 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
71905 ATTTAGATTT
*
71915 TAACTCTTCCTTTTAAACGAAAGTTC
1 TAACCCTTCCTTTTAAACGAAAGTTC
* *
71941 TAACCCTTCTTTTTAAATGAAAGTT
1 TAACCCTTCCTTTTAAACGAAAGTT
71966 TACAGCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (26 bp):
TAACCCTTCCTTTTAAACGAAAGTTC
Found at i:74029 original size:29 final size:29
Alignment explanation
Indices: 73988--74047 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
73978 TCTTTGTTTA
*
73988 TAAAATTAATTATTAAAATATTATTATTT
1 TAAAATTAATTATCAAAATATTATTATTT
* *
74017 TAAAA-TAATTTATCAACATATTATTGTTT
1 TAAAATTAA-TTATCAAAATATTATTATTT
74046 TA
1 TA
74048 TATTATCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 3 0.11
29 24 0.89
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (29 bp):
TAAAATTAATTATCAAAATATTATTATTT
Found at i:74501 original size:23 final size:23
Alignment explanation
Indices: 74475--74523 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
74465 TTTTTTATAA
*
74475 TTTTTTATCGTATTCA-TATTAT
1 TTTTTTATCATATTCAGTATTAT
*
74497 TTTTTTATCATATTCAGTGTTAT
1 TTTTTTATCATATTCAGTATTAT
74520 TTTT
1 TTTT
74524 CTCATGCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.20, C:0.08, G:0.06, T:0.65
Consensus pattern (23 bp):
TTTTTTATCATATTCAGTATTAT
Found at i:74608 original size:19 final size:20
Alignment explanation
Indices: 74584--74623 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
74574 AGAACATATG
*
74584 ACACGAGA-AAATAATATTA
1 ACACGAGATAAAAAATATTA
*
74603 ACACGATATAAAAAATATTA
1 ACACGAGATAAAAAATATTA
74623 A
1 A
74624 TTTTAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.23
Consensus pattern (20 bp):
ACACGAGATAAAAAATATTA
Found at i:74874 original size:29 final size:30
Alignment explanation
Indices: 74817--74883 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 30
74807 TTTAGCGTCT
*
74817 TAAATCAATAGTATTTTAATAAACTGTTTTA
1 TAAAT-AATAATATTTTAATAAACTGTTTTA
*
74848 -AAATAATAATATTTTAAT-AATTAGTTTTA
1 TAAATAATAATATTTTAATAAACT-GTTTTA
74877 TAAATAA
1 TAAATAA
74884 AGATAGTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 3 0.09
29 19 0.59
30 10 0.31
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (30 bp):
TAAATAATAATATTTTAATAAACTGTTTTA
Found at i:76256 original size:30 final size:30
Alignment explanation
Indices: 76208--76289 Score: 84
Period size: 30 Copynumber: 2.9 Consensus size: 30
76198 TTTTTATATT
* * *
76208 TTAAAATTTTAATATAAAAATATTAAATTA
1 TTAAAAATTAAATTTAAAAATATTAAATTA
*
76238 TTAAAAATTAAATTTAAAAATA-T--ATTT
1 TTAAAAATTAAATTTAAAAATATTAAATTA
*
76265 TTAAAAA-TAAA-TTAAAAAAATTAAA
1 TTAAAAATTAAATTTAAAAATATTAAA
76290 ATACTAATGA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
25 8 0.18
26 5 0.11
27 10 0.23
28 1 0.02
29 1 0.02
30 19 0.43
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (30 bp):
TTAAAAATTAAATTTAAAAATATTAAATTA
Found at i:79663 original size:124 final size:125
Alignment explanation
Indices: 79433--79684 Score: 443
Period size: 124 Copynumber: 2.0 Consensus size: 125
79423 CTTTAGCATA
*
79433 AAAAGCTTTGAAACAAGGTTTCTTTTGGCTAACTATGAGAAAAGATACAACTGATATAGTCAAAA
1 AAAAGCTTTGAAACAAGGTTTCTTTTGGCTAACTATGAGAAAAGATACAACTAATATAGTCAAAA
*
79498 GACGTGACAAATGCCAACAATTCTCCAAAATACTCAGACAGCTACTAGAAGTACTAAAGC
66 GACGTGACAAATGCCAACAATTCTCCAAAATACTCAAACAGCTACTAGAAGTACTAAAGC
* *
79558 AAAA-CTTTGAAACAAGGTTTCTTTTGGCTAACTATGAGAAAAGATGCAGCTAATATAGTCAAAA
1 AAAAGCTTTGAAACAAGGTTTCTTTTGGCTAACTATGAGAAAAGATACAACTAATATAGTCAAAA
* *
79622 GACGTGACAAATGCTAACAATTCTCCAAAATACTTAAACAGCTACTAGAAGTACTAAAGC
66 GACGTGACAAATGCCAACAATTCTCCAAAATACTCAAACAGCTACTAGAAGTACTAAAGC
79682 AAA
1 AAA
79685 TTTTCAGTCC
Statistics
Matches: 121, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
124 117 0.97
125 4 0.03
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.24
Consensus pattern (125 bp):
AAAAGCTTTGAAACAAGGTTTCTTTTGGCTAACTATGAGAAAAGATACAACTAATATAGTCAAAA
GACGTGACAAATGCCAACAATTCTCCAAAATACTCAAACAGCTACTAGAAGTACTAAAGC
Found at i:81487 original size:20 final size:20
Alignment explanation
Indices: 81450--81503 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
81440 TTCTACAATT
*
81450 TGTATTGATACAATAAGTGAA
1 TGTATCGATAC-ATAAGTGAA
81471 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
*
81491 TGAATCGATACAT
1 TGTATCGATACAT
81504 GTTTACAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 21 0.68
21 10 0.32
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:92955 original size:17 final size:16
Alignment explanation
Indices: 92928--92963 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
92918 GAATGGTATC
*
92928 TTACATTTTTTAATTT
1 TTACATTTTTTAATAT
92944 TTACATTTTTTTAATAT
1 TTACA-TTTTTTAATAT
92961 TTA
1 TTA
92964 TATATAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (16 bp):
TTACATTTTTTAATAT
Found at i:93046 original size:20 final size:20
Alignment explanation
Indices: 93021--93086 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 20
93011 TATATTATAT
93021 ATATATTTATATAAATTTTA
1 ATATATTTATATAAATTTTA
*
93041 ATATA-TTA-AT-AA--TTC
1 ATATATTTATATAAATTTTA
*
93056 ATAT-TATATATAAATTTTA
1 ATATATTTATATAAATTTTA
93075 ATATATTTATAT
1 ATATATTTATAT
93087 TTTATTTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
15 8 0.22
16 2 0.06
17 4 0.11
18 2 0.06
19 9 0.25
20 11 0.31
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATATTTATATAAATTTTA
Found at i:93079 original size:16 final size:16
Alignment explanation
Indices: 93028--93090 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 16
93018 TATATATATT
93028 TATATAAATTTTAATA
1 TATATAAATTTTAATA
* *
93044 TAT-TAATAATTCATATTA
1 TATAT-A-AATT-TTAATA
93062 TATATAAATTTTAATA
1 TATATAAATTTTAATA
* *
93078 TATTTATATTTTA
1 TATATAAATTTTA
93091 TTTAAATTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
15 1 0.03
16 19 0.51
17 8 0.22
18 8 0.22
19 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (16 bp):
TATATAAATTTTAATA
Found at i:93096 original size:27 final size:26
Alignment explanation
Indices: 93037--93098 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
93027 TTATATAAAT
*
93037 TTTAATATATTAATAATTCATATTATA
1 TTTAA-ATTTTAATAATTCATATTATA
* * *
93064 TATAAATTTTAATATATTTATATTTTA
1 TTTAAATTTTAATA-ATTCATATTATA
93091 TTTAAATT
1 TTTAAATT
93099 ATTTTATTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (26 bp):
TTTAAATTTTAATAATTCATATTATA
Found at i:93420 original size:28 final size:28
Alignment explanation
Indices: 93383--93476 Score: 123
Period size: 28 Copynumber: 3.6 Consensus size: 28
93373 TTATCATTAC
93383 GTTATTATATTATTACATTACTTTCATT
1 GTTATTATATTATTACATTACTTTCATT
*
93411 GTTATTATATTATT--A-T-CGTT-A-T
1 GTTATTATATTATTACATTACTTTCATT
93433 GTTATTATATTATTACATTACTTTCATT
1 GTTATTATATTATTACATTACTTTCATT
93461 GTTATTA-ATTA-TACAT
1 GTTATTATATTATTACAT
93477 ATATATATAT
Statistics
Matches: 58, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
22 15 0.26
23 1 0.02
24 4 0.07
25 2 0.03
26 9 0.16
27 5 0.09
28 22 0.38
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.56
Consensus pattern (28 bp):
GTTATTATATTATTACATTACTTTCATT
Found at i:93437 original size:50 final size:50
Alignment explanation
Indices: 93368--93472 Score: 185
Period size: 50 Copynumber: 2.1 Consensus size: 50
93358 TACGTGATCT
93368 TATTATTATCATTACGTTATTATATTATTACATTACTTTCATTGTTATTA
1 TATTATTATCATTACGTTATTATATTATTACATTACTTTCATTGTTATTA
* *
93418 TATTATTATCGTTATGTTATTATATTATTACATTACTTTCATTGTTATTA
1 TATTATTATCATTACGTTATTATATTATTACATTACTTTCATTGTTATTA
93468 -ATTAT
1 TATTAT
93473 ACATATATAT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
49 5 0.09
50 48 0.91
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.57
Consensus pattern (50 bp):
TATTATTATCATTACGTTATTATATTATTACATTACTTTCATTGTTATTA
Found at i:93565 original size:6 final size:6
Alignment explanation
Indices: 93554--93618 Score: 58
Period size: 6 Copynumber: 10.2 Consensus size: 6
93544 AGTTTTTCTG
* * * *
93554 TCATTA TCATTA TTATTA TTATTA TCATTA TCATTATA TAATTA CTCCATTG
1 TCATTA TCATTA TCATTA TCATTA TCATTA TCA-T-TA TCATTA -T-CATTA
93606 TCATTA TCATTA T
1 TCATTA TCATTA T
93619 ATTTTTACAT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
6 38 0.78
7 4 0.08
8 7 0.14
ACGTcount: A:0.32, C:0.14, G:0.02, T:0.52
Consensus pattern (6 bp):
TCATTA
Found at i:93710 original size:30 final size:29
Alignment explanation
Indices: 93676--93793 Score: 93
Period size: 30 Copynumber: 4.0 Consensus size: 29
93666 ATGCTAATCA
93676 TTATTATTATTATATTGTTTATATTTATTT
1 TTATTATTATTAT-TTGTTTATATTTATTT
* *
93706 TTATTGTTATTATGTTACCTTTA-A-TTATTT
1 TTATTATTATTAT-TT--GTTTATATTTATTT
* * *
93736 TTATTATT-TTATTTGTTT-TATTAAATA
1 TTATTATTATTATTTGTTTATATTTATTT
*
93763 TAATTTATTAATTATTTGTTTATATTT-TTT
1 TTA-TTATT-ATTATTTGTTTATATTTATTT
93793 T
1 T
93794 ATTTTTTTAT
Statistics
Matches: 68, Mismatches: 12, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
26 4 0.06
27 5 0.07
28 7 0.10
29 4 0.06
30 39 0.57
31 5 0.07
32 4 0.06
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (29 bp):
TTATTATTATTATTTGTTTATATTTATTT
Found at i:93817 original size:21 final size:20
Alignment explanation
Indices: 93761--93817 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 20
93751 TTTTATTAAA
93761 TATAATTTATTAATTATTTGTT
1 TATAATTT-TTAA-TATTTGTT
* *
93783 TAT-ATTTTT-TTATTTTTT
1 TATAATTTTTAATATTTGTT
93801 TATTAATTTTTAATATT
1 TA-TAATTTTTAATATT
93818 ATATACGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 9 0.31
19 1 0.03
20 8 0.28
21 8 0.28
22 3 0.10
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
TATAATTTTTAATATTTGTT
Found at i:94170 original size:20 final size:21
Alignment explanation
Indices: 94145--94205 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 21
94135 TGTTATTATA
*
94145 TTATTACATTACTT-TCATT-G
1 TTATTATATTA-TTATCATTAG
94165 TTATTATATTATTATCATTAAG
1 TTATTATATTATTATCATT-AG
94187 TTATTATATTATTA-CATTA
1 TTATTATATTATTATCATTA
94206 CTTTCATTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
19 2 0.05
20 16 0.43
21 4 0.11
22 15 0.41
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (21 bp):
TTATTATATTATTATCATTAG
Found at i:94171 original size:28 final size:28
Alignment explanation
Indices: 94135--94224 Score: 115
Period size: 28 Copynumber: 3.5 Consensus size: 28
94125 GGTATCATTA
94135 TGTTATTATATTATTACATTACTTTCAT
1 TGTTATTATATTATTACATTACTTTCAT
94163 TGTTATTATATTATTATCATTA-----A-
1 TGTTATTATATTATTA-CATTACTTTCAT
94186 -GTTATTATATTATTACATTACTTTCAT
1 TGTTATTATATTATTACATTACTTTCAT
94213 TGTTATTA-ATTA
1 TGTTATTATATTA
94225 ATTATATATA
Statistics
Matches: 54, Mismatches: 0, Indels: 17
0.76 0.00 0.24
Matches are distributed among these distances:
21 5 0.09
22 15 0.28
24 1 0.02
26 1 0.02
27 4 0.07
28 23 0.43
29 5 0.09
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (28 bp):
TGTTATTATATTATTACATTACTTTCAT
Found at i:94192 original size:22 final size:21
Alignment explanation
Indices: 94164--94205 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
94154 TACTTTCATT
94164 GTTATTATATTATTATCATTAA
1 GTTATTATATTATTA-CATTAA
94186 GTTATTATATTATTACATTA
1 GTTATTATATTATTACATTA
94206 CTTTCATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (21 bp):
GTTATTATATTATTACATTAA
Found at i:94202 original size:50 final size:50
Alignment explanation
Indices: 94127--94229 Score: 181
Period size: 50 Copynumber: 2.1 Consensus size: 50
94117 GTGTTTCAGG
*
94127 TATCATTATGTTATTATATTATTACATTACTTTCATTGTTATTATATT-AT
1 TATCATTAAGTTATTATATTATTACATTACTTTCATTGTTATTA-ATTAAT
94177 TATCATTAAGTTATTATATTATTACATTACTTTCATTGTTATTAATTAAT
1 TATCATTAAGTTATTATATTATTACATTACTTTCATTGTTATTAATTAAT
94227 TAT
1 TAT
94230 ATATATATAA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
49 3 0.06
50 48 0.94
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (50 bp):
TATCATTAAGTTATTATATTATTACATTACTTTCATTGTTATTAATTAAT
Found at i:94292 original size:17 final size:17
Alignment explanation
Indices: 94270--94309 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
94260 GTCTTTACAG
*
94270 TATTATATTATAATCAT
1 TATTATATCATAATCAT
* *
94287 TATTATGTCATTATCAT
1 TATTATATCATAATCAT
94304 TATTAT
1 TATTAT
94310 TTTTATTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (17 bp):
TATTATATCATAATCAT
Found at i:94308 original size:3 final size:3
Alignment explanation
Indices: 94270--94331 Score: 54
Period size: 3 Copynumber: 20.3 Consensus size: 3
94260 GTCTTTACAG
* * * *
94270 TAT TA- TAT TAT AAT CAT TAT TAT GTCAT TAT CAT TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -T-AT TAT TAT TAT TAT TAT TAT
*
94316 TAT TGT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
94332 TATATTACTC
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
2 2 0.04
3 41 0.87
4 2 0.04
5 2 0.04
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:98613 original size:20 final size:19
Alignment explanation
Indices: 98588--98625 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
98578 TCCCGTAGCC
98588 ATATATCGATACAATTCATA
1 ATATATCGATAC-ATTCATA
98608 ATATATCGATACATTCAT
1 ATATATCGATACATTCAT
98626 TTGAAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (19 bp):
ATATATCGATACATTCATA
Found at i:98707 original size:20 final size:20
Alignment explanation
Indices: 98660--98713 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
98650 GTTACAAGCA
98660 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
* * *
98680 ATGCATCGATACATTGTC-TT
1 ATGTATCGATACAAT-TCATC
98700 ATGTATCGATACAA
1 ATGTATCGATACAA
98714 ACAGTGGTAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATTCATC
Found at i:98767 original size:20 final size:19
Alignment explanation
Indices: 98742--98794 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
98732 CTACGAGTTT
**
98742 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
98762 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
98781 CATGTATCGATACA
1 CATGTATCGATACA
98795 TTTGAGTGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:98786 original size:19 final size:20
Alignment explanation
Indices: 98742--98799 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
98732 CTACGAGTTT
**
98742 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
98762 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
*
98781 CATGTATCGATACATTTGA
1 CATGTATCGATACAATTGA
98800 GTGAGTATCG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:104877 original size:13 final size:13
Alignment explanation
Indices: 104859--104884 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
104849 TTTTAGGTAC
104859 CCAAATTTTCTTG
1 CCAAATTTTCTTG
104872 CCAAATTTTCTTG
1 CCAAATTTTCTTG
104885 GGTCCTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (13 bp):
CCAAATTTTCTTG
Found at i:107621 original size:20 final size:20
Alignment explanation
Indices: 107598--107649 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
107588 CAATTGTCCT
107598 TGTATCGATACAAAGCATAA
1 TGTATCGATACAAAGCATAA
* *
107618 TGTATTGATACAAAGTATAA
1 TGTATCGATACAAAGCATAA
107638 TGTATCGATACA
1 TGTATCGATACA
107650 TCTGAGTGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (20 bp):
TGTATCGATACAAAGCATAA
Found at i:110325 original size:14 final size:15
Alignment explanation
Indices: 110306--110337 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
110296 TATCATCCAT
110306 AAAAAAA-GCAAAAA
1 AAAAAAAGGCAAAAA
110320 AAAAAAAGGCAAAAA
1 AAAAAAAGGCAAAAA
110335 AAA
1 AAA
110338 GTCTTCTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.84, C:0.06, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAAGGCAAAAA
Found at i:110395 original size:13 final size:14
Alignment explanation
Indices: 110377--110407 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
110367 CATCATCTAT
110377 AAAAAAA-GCAAAA
1 AAAAAAAGGCAAAA
110390 AAAAAAAGGCAAAA
1 AAAAAAAGGCAAAA
110404 AAAA
1 AAAA
110408 GTCTTTTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAGGCAAAA
Found at i:110460 original size:69 final size:70
Alignment explanation
Indices: 110293--110531 Score: 405
Period size: 70 Copynumber: 3.5 Consensus size: 70
110283 TTTAGGTTGT
* *
110293 TGTT-ATCATCCATAAAAAAAGCAAAAAAAAAAAAGGCAAAAAAAAGTCTTCTAGTGTTCTAATC
1 TGTTCATCATCTATAAAAAAAGC-AAAAAAAAAAAGGCAAAAAAAAGTCTTATAGTGTTCTAATC
110357 CTTTGC
65 CTTTGC
* *
110363 TGTTCATCATCTATAAAAAAAGCAAAAAAAAAAAGGCAAAAAAAAGTCTTTTACTGTTCTAATCC
1 TGTTCATCATCTATAAAAAAAGCAAAAAAAAAAAGGCAAAAAAAAGTCTTATAGTGTTCTAATCC
110428 TTTGC
66 TTTGC
110433 TGTTCATCATCTATAAAAAAAGC-AAAAAAAAAAGGCAAAAAAAAGTCTTATAGTGTTCTAATCC
1 TGTTCATCATCTATAAAAAAAGCAAAAAAAAAAAGGCAAAAAAAAGTCTTATAGTGTTCTAATCC
110497 TTTGC
66 TTTGC
110502 TGTTCATCATCTATAAAAAAA--AAAAAAAAA
1 TGTTCATCATCTATAAAAAAAGCAAAAAAAAA
110532 GTGTTCTAGT
Statistics
Matches: 162, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
68 8 0.05
69 65 0.40
70 72 0.44
71 17 0.10
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.27
Consensus pattern (70 bp):
TGTTCATCATCTATAAAAAAAGCAAAAAAAAAAAGGCAAAAAAAAGTCTTATAGTGTTCTAATCC
TTTGC
Found at i:110464 original size:12 final size:13
Alignment explanation
Indices: 110447--110476 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
110437 CATCATCTAT
110447 AAAAAAA-GCAAA
1 AAAAAAAGGCAAA
110459 AAAAAAAGGCAAA
1 AAAAAAAGGCAAA
110472 AAAAA
1 AAAAA
110477 GTCTTATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAAGGCAAA
Found at i:113850 original size:111 final size:111
Alignment explanation
Indices: 113656--113864 Score: 375
Period size: 111 Copynumber: 1.9 Consensus size: 111
113646 TATGTTCTCG
*
113656 GCGTGAAATGCTGTTTAGAAAGACTCATGGAAGTGGTCTAATAAGGCATTTTGGTGTACAAAAGA
1 GCGTGAAATGCTGGTTAGAAAGACTCATGGAAGTGGTCTAATAAGGCATTTTGGTGTACAAAAGA
113721 CTTTAGATATATTGCATGAACATTTTTATTGGCTTTTATATTTTCT
66 CTTTAGATATATTGCATGAACATTTTTATTGGCTTTTATATTTTCT
* *
113767 GCGTGAAATGCTGGTTAGAGAGACTCATGG-AGATGGTCTAATGAGGCATTTTGGTGTACAAAAG
1 GCGTGAAATGCTGGTTAGAAAGACTCATGGAAG-TGGTCTAATAAGGCATTTTGGTGTACAAAAG
113831 ACTTTAGATATATTGCATGAACATTTTTATTGGC
65 ACTTTAGATATATTGCATGAACATTTTTATTGGC
113865 CAAACATGAA
Statistics
Matches: 94, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
110 2 0.02
111 92 0.98
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (111 bp):
GCGTGAAATGCTGGTTAGAAAGACTCATGGAAGTGGTCTAATAAGGCATTTTGGTGTACAAAAGA
CTTTAGATATATTGCATGAACATTTTTATTGGCTTTTATATTTTCT
Found at i:117397 original size:68 final size:68
Alignment explanation
Indices: 117322--117520 Score: 168
Period size: 68 Copynumber: 2.9 Consensus size: 68
117312 AAGTTCTAAT
* * *
117322 TGACATCTCAGCATATAAGCAAGTGACACTAAGTTA-CT-TACGTAAATAAATGACCTTAAATGT
1 TGACATCTCAGCATATAAGCAAGTGACACCAAGTCACCTATAC-T-AATAAATGACCTTAAAGGT
*
117385 CCAGT
64 CCAGC
* * * * * * **
117390 TGGCATCTTAGTATAAAAGCAAGTAACACCAAGTCACCTATTCTAATAAATGACCTTAAAGGTTT
1 TGACATCTCAGCATATAAGCAAGTGACACCAAGTCACCTATACTAATAAATGACCTTAAAGGTCC
*
117455 GGC
66 AGC
* * ** ** * * *
117458 TGACATCTCAACATATAAGCAAGTGAAAGTAAGTCATTTATGCTAATAAACGACCTCAAAGGT
1 TGACATCTCAGCATATAAGCAAGTGACACCAAGTCACCTATACTAATAAATGACCTTAAAGGT
117521 TTGATCGACA
Statistics
Matches: 102, Mismatches: 27, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
68 97 0.95
69 3 0.03
70 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (68 bp):
TGACATCTCAGCATATAAGCAAGTGACACCAAGTCACCTATACTAATAAATGACCTTAAAGGTCC
AGC
Found at i:117521 original size:68 final size:68
Alignment explanation
Indices: 117432--117588 Score: 183
Period size: 68 Copynumber: 2.3 Consensus size: 68
117422 GTCACCTATT
* * *
117432 CTAATAAATGACCTTAAAGGTTTG-GCTGACATCTCAACATATAAGCAAGTGAAAG-TAAGTCAT
1 CTAATAAACGACCTCAAAGGTTTGATC-GACATCTCAACATATAAGCAAGTG-AAGCTAAGTCAT
117495 TTATG
64 TTATG
* *** *
117500 CTAATAAACGACCTCAAAGGTTTGATCGACATCTTAGTGTATAAGCAAGTGATGCTAAGTCATTT
1 CTAATAAACGACCTCAAAGGTTTGATCGACATCTCAACATATAAGCAAGTGAAGCTAAGTCATTT
*
117565 ATT
66 ATG
* *
117568 CTAATACACGACCTCATAGGT
1 CTAATAAACGACCTCAAAGGT
117589 CTGTTTGATA
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
67 2 0.03
68 73 0.96
69 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (68 bp):
CTAATAAACGACCTCAAAGGTTTGATCGACATCTCAACATATAAGCAAGTGAAGCTAAGTCATTT
ATG
Done.