Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold423
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: 617052
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
File 1 of 6
Found at i:1633 original size:15 final size:15
Alignment explanation
Indices: 1613--1646 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1603 CATTCTTTGA
*
1613 ATCACCATCAGTATC
1 ATCACCAACAGTATC
1628 ATCACCAACAGTATC
1 ATCACCAACAGTATC
1643 ATCA
1 ATCA
1647 TATCTACCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.38, C:0.32, G:0.06, T:0.24
Consensus pattern (15 bp):
ATCACCAACAGTATC
Found at i:4911 original size:17 final size:17
Alignment explanation
Indices: 4867--4912 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
4857 AATTTCAATA
4867 AAAAATAAATATTAAAT
1 AAAAATAAATATTAAAT
* *
4884 -ATAATAAATATTGAAT
1 AAAAATAAATATTAAAT
*
4900 AAAAATACATATT
1 AAAAATAAATATT
4913 TAGTTATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAAATAAATATTAAAT
Found at i:6046 original size:20 final size:18
Alignment explanation
Indices: 6023--6058 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6013 TTAAATATTG
6023 AATAAAT-AAT-TTTAAT
1 AATAAATAAATATTTAAT
6039 AATAAATAAATATTTAAT
1 AATAAATAAATATTTAAT
6057 AA
1 AA
6059 GTGATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 3 0.17
18 8 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AATAAATAAATATTTAAT
Found at i:7965 original size:69 final size:69
Alignment explanation
Indices: 7883--8023 Score: 282
Period size: 69 Copynumber: 2.0 Consensus size: 69
7873 ATTTTTGCAA
7883 ATAAATTAGGCACTCTTTATGATTTATTGTCATAATTATATATTTTAAGCTTACTCTATATATAT
1 ATAAATTAGGCACTCTTTATGATTTATTGTCATAATTATATATTTTAAGCTTACTCTATATATAT
7948 ATAT
66 ATAT
7952 ATAAATTAGGCACTCTTTATGATTTATTGTCATAATTATATATTTTAAGCTTACTCTATATATAT
1 ATAAATTAGGCACTCTTTATGATTTATTGTCATAATTATATATTTTAAGCTTACTCTATATATAT
8017 ATAT
66 ATAT
8021 ATA
1 ATA
8024 TATATATATA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 72 1.00
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.48
Consensus pattern (69 bp):
ATAAATTAGGCACTCTTTATGATTTATTGTCATAATTATATATTTTAAGCTTACTCTATATATAT
ATAT
Found at i:8013 original size:2 final size:2
Alignment explanation
Indices: 8008--8044 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7998 AAGCTTACTC
8008 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8045 TACATCTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8163 original size:13 final size:13
Alignment explanation
Indices: 8145--8169 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8135 CTTAACAACA
8145 TTAAAAAAATAAT
1 TTAAAAAAATAAT
8158 TTAAAAAAATAA
1 TTAAAAAAATAA
8170 AATATGTATA
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
TTAAAAAAATAAT
Found at i:10706 original size:17 final size:17
Alignment explanation
Indices: 10654--10707 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
10644 TGAATGTCTC
10654 AAAATTTATAT-AATA-
1 AAAATTTATATAAATAT
*
10669 CAAA-TTAT-TAATATAT
1 AAAATTTATATAA-ATAT
10685 CAAAATTTATATAAATAT
1 -AAAATTTATATAAATAT
10703 AAAAT
1 AAAAT
10708 ATCTAAACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
13 1 0.03
14 5 0.16
15 6 0.19
17 8 0.26
18 8 0.26
19 3 0.10
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATTTATATAAATAT
Found at i:10749 original size:20 final size:20
Alignment explanation
Indices: 10724--10763 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
10714 ACATGATTAT
*
10724 GATACTATATAAATATACGA
1 GATACTATATAAATACACGA
10744 GATACTATATAAATACACGA
1 GATACTATATAAATACACGA
10764 ATTGTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
GATACTATATAAATACACGA
Found at i:18587 original size:20 final size:21
Alignment explanation
Indices: 18543--18589 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
18533 TTAAATATTA
18543 AAATTT-TTTTATTTTAATAT
1 AAATTTATTTTATTTTAATAT
*
18563 TAATTTATTTT-TTTATAAT-T
1 AAATTTATTTTATTT-TAATAT
18583 AAATTTA
1 AAATTTA
18590 AATAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
AAATTTATTTTATTTTAATAT
Found at i:24024 original size:20 final size:20
Alignment explanation
Indices: 23966--24024 Score: 52
Period size: 22 Copynumber: 3.0 Consensus size: 20
23956 AAATTAAATA
23966 TTATATAA-ATAA-TTTTAG
1 TTATATAATATAATTTTTAG
* *
23984 TAATA-AATAAGTATATATTTAG
1 TTATATAAT-A-TA-ATTTTTAG
24006 TTATATAATATAATTTTTA
1 TTATATAATATAATTTTTA
24025 ATATAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
17 2 0.06
18 4 0.13
19 1 0.03
20 8 0.26
21 3 0.10
22 10 0.32
23 3 0.10
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (20 bp):
TTATATAATATAATTTTTAG
Found at i:24031 original size:41 final size:40
Alignment explanation
Indices: 23966--24045 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 40
23956 AAATTAAATA
* * *
23966 TTATATAAATAATTTTAGTAATAAATAAGTATATATTTAG
1 TTATATAAATAATTTTAATAATAAAAAAGTAAATATTTAG
*
24006 TTATATAATATAATTTTTAAT-ATAAAAAATTAAATATTTA
1 TTATATAA-ATAA-TTTTAATAATAAAAAAGTAAATATTTA
24046 ATTTTTATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 8 0.24
41 20 0.59
42 6 0.18
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (40 bp):
TTATATAAATAATTTTAATAATAAAAAAGTAAATATTTAG
Found at i:24180 original size:23 final size:25
Alignment explanation
Indices: 24128--24180 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
24118 TTTTATATTT
*
24128 TTAATTTTATAATATATATATTAAA
1 TTAATTTTATAATATATAAATTAAA
* *
24153 ATAATTTT-TAAT-TTTAAATTAAA
1 TTAATTTTATAATATATAAATTAAA
24176 TTAAT
1 TTAAT
24181 CTAATCAATC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 13 0.54
24 4 0.17
25 7 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
TTAATTTTATAATATATAAATTAAA
Found at i:24390 original size:2 final size:2
Alignment explanation
Indices: 24383--24426 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
24373 GAAATTGCAA
24383 AT AT AT AT AT AT A- AT -T 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 AT AT
24423 AT AT
1 AT AT
24427 GTCTTTCTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24555 original size:16 final size:15
Alignment explanation
Indices: 24534--24563 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
24524 ATGTATCACA
24534 ACGTAATTTTATAAAG
1 ACGTAATTTT-TAAAG
24550 ACGTAATTTTTAAA
1 ACGTAATTTTTAAA
24564 ATTTTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (15 bp):
ACGTAATTTTTAAAG
Found at i:24738 original size:20 final size:20
Alignment explanation
Indices: 24707--24758 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
24697 ATAGTAAATA
24707 AATATTAAATATAACAATATTT
1 AATA-TAAATAT-ACAATATTT
* *
24729 AATA-AAATATATAATTTTT
1 AATATAAATATACAATATTT
24748 AATATAAATAT
1 AATATAAATAT
24759 TTAAATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 11 0.41
20 12 0.44
22 4 0.15
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
AATATAAATATACAATATTT
Found at i:24751 original size:14 final size:13
Alignment explanation
Indices: 24734--24777 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
24724 TATTTAATAA
*
24734 AATATATAATTTTT
1 AATATA-AATATTT
24748 AATATAAATATTT
1 AATATAAATATTT
*
24761 AAATTTAAATATTT
1 -AATATAAATATTT
24775 AAT
1 AAT
24778 TCTCGTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 9 0.33
14 18 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATATAAATATTT
Found at i:24767 original size:19 final size:19
Alignment explanation
Indices: 24722--24768 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
24712 TAAATATAAC
24722 AATATTTAATAAAATATAT
1 AATATTTAATAAAATATAT
* *
24741 AATTTTTAATATAAATATTT
1 AATATTTAATA-AAATATAT
24761 AA-ATTTAA
1 AATATTTAA
24769 ATATTTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AATATTTAATAAAATATAT
Found at i:24873 original size:34 final size:35
Alignment explanation
Indices: 24816--24895 Score: 119
Period size: 35 Copynumber: 2.3 Consensus size: 35
24806 CTTAAAAACA
*
24816 ATTTTTTATTTTTATCAATTTAATCAAATTTTTTT
1 ATTTTTTATTTTTATCAATTTAATCAAATTTTTAT
*
24851 ATTTTTTATTTTTATCAA-TTAATTAAATTTTTAT
1 ATTTTTTATTTTTATCAATTTAATCAAATTTTTAT
*
24885 A-GTTTTATTTT
1 ATTTTTTATTTT
24896 ATGATATATA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
33 9 0.21
34 15 0.36
35 18 0.43
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (35 bp):
ATTTTTTATTTTTATCAATTTAATCAAATTTTTAT
Found at i:25208 original size:77 final size:75
Alignment explanation
Indices: 25127--25318 Score: 226
Period size: 77 Copynumber: 2.5 Consensus size: 75
25117 TGTGCAGCGT
* *
25127 CCTTCATTTTCCATGAAAACTCTCATCCACTTGC-TTCGTAATAACGCTAGGCATGACTATCAGA
1 CCTTCATTTTCCATGACAACTCTCATCCACTTGCATT-GTAATAACGCTAGGCATGACCA--AGA
25191 ATACAAACATCAC
63 ATACAAACATCAC
* * * *
25204 CCTTC-TTTTCCCATGACAACTCTCATCCACTTGCATTTTAATAATGTTAGGTATGACCAAGAAT
1 CCTTCATTTT-CCATGACAACTCTCATCCACTTGCATTGTAATAACGCTAGGCATGACCAAGAAT
* * * *
25268 CCGAGCATCAT
65 ACAAACATCAC
* *
25279 CCTTCATTTTCCATGACAACTGTAATCCACTTGCATTGTA
1 CCTTCATTTTCCATGACAACTCTCATCCACTTGCATTGTA
25319 GTCCGATAGA
Statistics
Matches: 99, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
75 44 0.44
76 8 0.08
77 45 0.45
78 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.32
Consensus pattern (75 bp):
CCTTCATTTTCCATGACAACTCTCATCCACTTGCATTGTAATAACGCTAGGCATGACCAAGAATA
CAAACATCAC
Found at i:25428 original size:14 final size:14
Alignment explanation
Indices: 25405--25444 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
25395 TTATTATTTT
25405 ATAATAAATATAATA
1 ATAAT-AATATAATA
*
25420 ATAATAATAAAATA
1 ATAATAATATAATA
25434 ATAAT-ATATAA
1 ATAATAATATAA
25445 ATATAATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 5 0.22
14 13 0.57
15 5 0.22
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATAATATAATA
Found at i:34050 original size:23 final size:26
Alignment explanation
Indices: 34010--34057 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
34000 ATAGAATTTT
34010 TTAAATATATAAATTTTT-AATAAAA
1 TTAAATATATAAATTTTTAAATAAAA
*
34035 TTAAATATAT-TA-TTTTAAATAAA
1 TTAAATATATAAATTTTTAAATAAA
34058 TATTCATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 7 0.33
25 10 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
TTAAATATATAAATTTTTAAATAAAA
Found at i:34058 original size:23 final size:25
Alignment explanation
Indices: 34010--34057 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
34000 ATAGAATTTT
*
34010 TTAAATATATAAATTTTTAATAAAA
1 TTAAATATATAAATTTTAAATAAAA
*
34035 TTAAATATAT-TATTTTAAATAAA
1 TTAAATATATAAATTTTAAATAAA
34058 TATTCATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TTAAATATATAAATTTTAAATAAAA
Found at i:34793 original size:21 final size:21
Alignment explanation
Indices: 34762--34813 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
34752 TTTAATTAAA
*
34762 TAAATTATTTAT-ATGAATATT
1 TAAATAATTTATAATGAA-ATT
* *
34783 TATATAATTTATAATTAAATT
1 TAAATAATTTATAATGAAATT
34804 TAAATAATTT
1 TAAATAATTT
34814 TTTAATTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
TAAATAATTTATAATGAAATT
Found at i:35879 original size:20 final size:20
Alignment explanation
Indices: 35856--35905 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
35846 TTCATTTTTT
*
35856 ATATTATA-ATTATATTTAAA
1 ATATTATATATT-TATATAAA
35876 ATATTATATATTTATATAAA
1 ATATTATATATTTATATAAA
*
35896 TTATTATATA
1 ATATTATATA
35906 CAAATAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 24 0.89
21 3 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATTATATATTTATATAAA
Found at i:36761 original size:22 final size:21
Alignment explanation
Indices: 36736--36777 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
36726 TTATTAAAAA
* *
36736 ATATTTTTATATTAATATTTAT
1 ATATTTTAAAATTAA-ATTTAT
36758 ATATTTTAAAATTAAATTTA
1 ATATTTTAAAATTAAATTTA
36778 AATAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATTTTAAAATTAAATTTAT
Found at i:37804 original size:12 final size:12
Alignment explanation
Indices: 37787--37824 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
37777 ATAATTCATG
37787 TATTTTATATTA
1 TATTTTATATTA
37799 TATTTTATA-TA
1 TATTTTATATTA
*
37810 TTTTATTATATTA
1 TATT-TTATATTA
37823 TA
1 TA
37825 AAAATATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 5 0.23
12 14 0.64
13 3 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TATTTTATATTA
Found at i:37813 original size:21 final size:22
Alignment explanation
Indices: 37766--37815 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
37756 AGTGGAGGTC
*
37766 ATTTTATATTAATAATTCATGT
1 ATTTTATATTAATAATTCATAT
* *
37788 ATTTTATATT-ATATTTTATAT
1 ATTTTATATTAATAATTCATAT
37809 ATTTTAT
1 ATTTTAT
37816 TATATTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (22 bp):
ATTTTATATTAATAATTCATAT
Found at i:37876 original size:15 final size:16
Alignment explanation
Indices: 37766--37886 Score: 64
Period size: 14 Copynumber: 8.1 Consensus size: 16
37756 AGTGGAGGTC
37766 ATTT-TATATTA-ATA
1 ATTTATATATTATATA
* * *
37780 ATTCATGTATTTTAT-
1 ATTTATATATTATATA
*
37795 A-TTATATTTTATATA
1 ATTTATATATTATATA
*
37810 TTTTATTATATTATA-A
1 ATTTA-TATATTATATA
** * *
37826 AAATAT-TA-AAAATA
1 ATTTATATATTATATA
37840 ATTT-TAT-TTATATA
1 ATTTATATATTATATA
*
37854 TTTTTATATATTA-ATA
1 -ATTTATATATTATATA
37870 ATTTATATATTATATA
1 ATTTATATATTATATA
37886 A
1 A
37887 ATTTTAAAAT
Statistics
Matches: 75, Mismatches: 20, Indels: 22
0.64 0.17 0.19
Matches are distributed among these distances:
13 3 0.04
14 22 0.29
15 21 0.28
16 18 0.24
17 11 0.15
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (16 bp):
ATTTATATATTATATA
Found at i:37889 original size:17 final size:17
Alignment explanation
Indices: 37839--37890 Score: 58
Period size: 15 Copynumber: 3.3 Consensus size: 17
37829 TATTAAAAAT
37839 AATTT-TAT-TTATATA
1 AATTTATATATTATATA
**
37854 TTTTTATATATTA-AT-
1 AATTTATATATTATATA
37869 AATTTATATATTATATA
1 AATTTATATATTATATA
37886 AATTT
1 AATTT
37891 TAAAATATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
15 14 0.48
16 7 0.24
17 8 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
AATTTATATATTATATA
Found at i:37939 original size:24 final size:25
Alignment explanation
Indices: 37911--37957 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
37901 TTATATCGTA
*
37911 TTATATTTA-ATTATTTTATTTATT
1 TTATATTTATATAATTTTATTTATT
37935 TTATATTTATATAATTTTATTTA
1 TTATATTTATATAATTTTATTTA
37958 ATATTAATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (25 bp):
TTATATTTATATAATTTTATTTATT
Found at i:38080 original size:16 final size:16
Alignment explanation
Indices: 38059--38118 Score: 79
Period size: 16 Copynumber: 3.9 Consensus size: 16
38049 CAAATGAAAT
38059 TTTAAATTATTTTAAA
1 TTTAAATTATTTTAAA
*
38075 TTTAAATAATTTTAAA
1 TTTAAATTATTTTAAA
*
38091 TTTAAA-TATTTT-TA
1 TTTAAATTATTTTAAA
*
38105 TTTAAATTTTTTTA
1 TTTAAATTATTTTA
38119 GTTTAAACAG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
14 7 0.18
15 10 0.26
16 21 0.55
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTAAATTATTTTAAA
Found at i:38362 original size:23 final size:22
Alignment explanation
Indices: 38336--38379 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
38326 TTAAAAATTT
38336 TAAATTA-ATAAATAATATTTATA
1 TAAATTATAT-AATAAT-TTTATA
38359 TAAATTATATAATAATTTTAT
1 TAAATTATATAATAATTTTAT
38380 TTATGTACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 13 0.65
24 2 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TAAATTATATAATAATTTTATA
Found at i:38830 original size:20 final size:20
Alignment explanation
Indices: 38804--38846 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
38794 TTAATAAAAA
*
38804 ATATATTTTTATATTAATATTT
1 ATAT-TTTTTAAATTAA-ATTT
38826 ATATTTTTTAAATTAAATTT
1 ATATTTTTTAAATTAAATTT
38846 A
1 A
38847 AATAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 11 0.55
22 4 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATATTTTTTAAATTAAATTT
Found at i:39040 original size:28 final size:28
Alignment explanation
Indices: 38997--39073 Score: 93
Period size: 28 Copynumber: 2.7 Consensus size: 28
38987 TCTTTAATTT
*
38997 TTTAAATAAGTTTTTATATTTTTA-TTATA
1 TTTAAATAA-ATTTTAT-TTTTTATTTATA
39026 TTTAAATAAATTTTATTTTTTATTTATA
1 TTTAAATAAATTTTATTTTTTATTTATA
**
39054 CATAAATAAACTTTTATTTT
1 TTTAAATAAA-TTTTATTTT
39074 AAAATAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 6 0.14
28 19 0.44
29 18 0.42
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (28 bp):
TTTAAATAAATTTTATTTTTTATTTATA
Found at i:39520 original size:18 final size:19
Alignment explanation
Indices: 39497--39539 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
39487 ATTAAATTTA
*
39497 AATTAAA-AATATTTCAT-T
1 AATTAAATAAT-TTTAATCT
39515 AATTAAATAATTTTAATCT
1 AATTAAATAATTTTAATCT
39534 AATTAA
1 AATTAA
39540 TTTAAATTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (19 bp):
AATTAAATAATTTTAATCT
Found at i:40065 original size:19 final size:20
Alignment explanation
Indices: 40023--40065 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
40013 AATGATACTT
* *
40023 TTTTAAAAATAATCGATTAC
1 TTTTAAAAAAAATCGATCAC
*
40043 TTTTAAAAAAAATTGATCA-
1 TTTTAAAAAAAATCGATCAC
40062 TTTT
1 TTTT
40066 CAATAGAGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (20 bp):
TTTTAAAAAAAATCGATCAC
Found at i:43465 original size:22 final size:21
Alignment explanation
Indices: 43395--43470 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 21
43385 TTACGTTTTC
*
43395 TTTAAAACATGAA-TGATCTTTT
1 TTTAAAA-ATGAATTGATC-ATT
*
43417 TTTAATAAT-AATTGATCATT
1 TTTAAAAATGAATTGATCATT
*
43437 TTT-AAAATGAATTGGTCAGTT
1 TTTAAAAATGAATTGATCA-TT
*
43458 TTTAAAAAGGAAT
1 TTTAAAAATGAAT
43471 AATCTTTTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
19 4 0.09
20 15 0.33
21 12 0.27
22 14 0.31
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.43
Consensus pattern (21 bp):
TTTAAAAATGAATTGATCATT
Found at i:43832 original size:5 final size:5
Alignment explanation
Indices: 43816--43850 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
43806 AATTTTATGT
43816 TTAAA TTTAAA TTAAA TTAAA TTAAA TTTAAA TTA
1 TTAAA -TTAAA TTAAA TTAAA TTAAA -TTAAA TTA
43851 TTAAAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 18 0.64
6 10 0.36
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (5 bp):
TTAAA
Found at i:43837 original size:16 final size:16
Alignment explanation
Indices: 43816--43850 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
43806 AATTTTATGT
43816 TTAAATTTAAA-TTAAA
1 TTAAA-TTAAATTTAAA
43832 TTAAATTAAATTTAAA
1 TTAAATTAAATTTAAA
43848 TTA
1 TTA
43851 TTAAAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTAAATTAAATTTAAA
Found at i:44387 original size:13 final size:13
Alignment explanation
Indices: 44371--44412 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
44361 ATTATATTTA
44371 TAAATTTTATAAT
1 TAAATTTTATAAT
*
44384 TAAATTTAAT-A-
1 TAAATTTTATAAT
*
44395 TAATTTTTATAAT
1 TAAATTTTATAAT
44408 TAAAT
1 TAAAT
44413 ATTAATTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
11 8 0.35
12 2 0.09
13 13 0.57
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TAAATTTTATAAT
Found at i:44402 original size:24 final size:24
Alignment explanation
Indices: 44347--44418 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
44337 ATAATATTAA
* *
44347 AATATTATTTTTAT-ATTATATTT
1 AATATAATTTTTATAATTAAATTT
44370 -ATA-AA-TTTTATAATTAAATTT
1 AATATAATTTTTATAATTAAATTT
44391 AATATAATTTTTATAATTAAATATT
1 AATATAATTTTTATAATTAAAT-TT
44416 AAT
1 AAT
44419 TCAAATCCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
20 6 0.14
21 9 0.21
22 6 0.14
23 2 0.05
24 14 0.33
25 5 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
AATATAATTTTTATAATTAAATTT
Found at i:44757 original size:2 final size:2
Alignment explanation
Indices: 44750--44775 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
44740 TCTATGACAA
44750 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
44776 CCCAACTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45840 original size:18 final size:16
Alignment explanation
Indices: 45816--45868 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
45806 TTTAAAGTAT
45816 TTTATATTTATATAAAA
1 TTTATA-TTATATAAAA
45833 TTTGATA-TAT-TAATAA
1 TTT-ATATTATATAA-AA
*
45849 TTTATATTATATAAAT
1 TTTATATTATATAAAA
45865 TTTA
1 TTTA
45869 AAATATTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
15 6 0.19
16 16 0.52
17 6 0.19
18 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
TTTATATTATATAAAA
Found at i:45875 original size:32 final size:33
Alignment explanation
Indices: 45810--45893 Score: 91
Period size: 33 Copynumber: 2.5 Consensus size: 33
45800 ATTATGTTTA
* *
45810 AAGTATTTTATATTTATATAAAATTTGATATA-TT
1 AAGTA-TTTATA-TTATATAAAATTTAAAATATTT
*
45844 AA-TAATTTATATTATATAAATTTTAAAATATTT
1 AAGT-ATTTATATTATATAAAATTTAAAATATTT
*
45877 AAGTATTTACATTATAT
1 AAGTATTTATATTATAT
45894 TTATATTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
32 16 0.37
33 23 0.53
34 4 0.09
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (33 bp):
AAGTATTTATATTATATAAAATTTAAAATATTT
Found at i:47888 original size:21 final size:20
Alignment explanation
Indices: 47848--47889 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
47838 AAAAATAAAA
*
47848 ATATTTTTATATTAATATTT
1 ATATTTTTATACTAATATTT
47868 ATATATTTTATAACTAA-ATTT
1 ATAT-TTTTAT-ACTAATATTT
47889 A
1 A
47890 AATAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 11 0.58
22 4 0.21
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATTTTTATACTAATATTT
Found at i:49009 original size:22 final size:22
Alignment explanation
Indices: 48983--49038 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
48973 TATTAAGTCG
**
48983 ATATAAAAATATATATTTAAAATT
1 ATAT-AAAATA-ATATACAAAATT
49007 ATATAAAATAATATACAAAATT
1 ATATAAAATAATATACAAAATT
*
49029 AAAATAAAAT
1 -ATATAAAAT
49039 TTAAAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.36
23 14 0.50
24 4 0.14
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (22 bp):
ATATAAAATAATATACAAAATT
Found at i:50145 original size:3 final size:3
Alignment explanation
Indices: 50133--50161 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
50123 AAGATTATAT
50133 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
50162 TTCAAATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:50247 original size:14 final size:14
Alignment explanation
Indices: 50228--50268 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
50218 ATCTGTTAAC
50228 TTTTTTATTTTTAT
1 TTTTTTATTTTTAT
*
50242 TTTTTTATTATTAT
1 TTTTTTATTTTTAT
*
50256 TATTTTGATTTTT
1 T-TTTTTATTTTT
50269 GATTGAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 14 0.61
15 9 0.39
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (14 bp):
TTTTTTATTTTTAT
Found at i:52038 original size:18 final size:17
Alignment explanation
Indices: 52011--52046 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
52001 CTATAATAGT
52011 AAAAATATAATATAATA
1 AAAAATATAATATAATA
*
52028 AAAAATAATAATATTATA
1 AAAAAT-ATAATATAATA
52046 A
1 A
52047 TTATTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAAATATAATATAATA
Found at i:52102 original size:21 final size:21
Alignment explanation
Indices: 52078--52147 Score: 55
Period size: 19 Copynumber: 3.6 Consensus size: 21
52068 ATAAATTATC
52078 AATATATTAATATTTATATAA
1 AATATATTAATATTTATATAA
52099 AATATA--AATATTT-TA-AA
1 AATATATTAATATTTATATAA
* *
52116 TATA-ATT-ATGATATA-ATAA
1 AATATATTAAT-ATTTATATAA
*
52135 AATATATGAATAT
1 AATATATTAATAT
52148 GATATAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 15
0.67 0.07 0.26
Matches are distributed among these distances:
16 1 0.03
17 7 0.18
18 6 0.16
19 12 0.32
20 4 0.11
21 8 0.21
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (21 bp):
AATATATTAATATTTATATAA
Found at i:52156 original size:18 final size:18
Alignment explanation
Indices: 52114--52163 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
52104 AAATATTTTA
52114 AATATAAT-TATG-ATAT
1 AATATAATATATGAATAT
*
52130 AATAAAATATATGAATAT
1 AATATAATATATGAATAT
* *
52148 GATATAATATTTGAAT
1 AATATAATATATGAAT
52164 TGTCAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 7 0.25
17 4 0.14
18 17 0.61
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (18 bp):
AATATAATATATGAATAT
Found at i:52658 original size:23 final size:23
Alignment explanation
Indices: 52616--52660 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
52606 ATTAATATTA
* *
52616 ATGAGATTTGGACAAGTTTAATC
1 ATGAGATTTAGACAAATTTAATC
*
52639 ATGAGATTTAGATAAATTTAAT
1 ATGAGATTTAGACAAATTTAAT
52661 GATAATTGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (23 bp):
ATGAGATTTAGACAAATTTAATC
Found at i:52716 original size:27 final size:26
Alignment explanation
Indices: 52682--52738 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
52672 TACCATATAA
52682 ATAT-AATATAAAATAATTAAAAAAAT
1 ATATAAATATAAAATAA-TAAAAAAAT
* * *
52708 ATATAAATATGATATAATAAGAAAAT
1 ATATAAATATAAAATAATAAAAAAAT
52734 A-ATAA
1 ATATAA
52739 GAAAAATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 4 0.15
26 13 0.48
27 10 0.37
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (26 bp):
ATATAAATATAAAATAATAAAAAAAT
Found at i:52736 original size:38 final size:39
Alignment explanation
Indices: 52682--52757 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
52672 TACCATATAA
* *
52682 ATATAATATAAAATAATTA-AAAAA-ATATATAAATATG
1 ATATAATAGAAAATAATAAGAAAAATATATATAAATATG
52719 ATATAATAAGAAAATAATAAGAAAAATATATATAAATAT
1 ATATAAT-AGAAAATAATAAGAAAAATATATATAAATAT
52758 TTTAAAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
37 7 0.21
38 10 0.29
39 5 0.15
40 12 0.35
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (39 bp):
ATATAATAGAAAATAATAAGAAAAATATATATAAATATG
Found at i:52863 original size:60 final size:59
Alignment explanation
Indices: 52676--52875 Score: 157
Period size: 60 Copynumber: 3.4 Consensus size: 59
52666 TTGTTATACC
* ** * *
52676 ATATAAATATAATATAAAATAATTAAAAAAATATATAAATATGA-TATA-ATAAGAAAAT
1 ATATAAATACAATATAAAATTTTTAAAATAAT-TATAAATATGATTATATATAATAAAAT
* * * *
52734 A-ATAAGAAAAATATATATAAATATTTTAAAAT--TTATATAATATGAATTATTAGTATATTTAA
1 ATATAA-ATACA-ATATA-AAAT-TTTTAAAATAATTATA-AATATG-ATTA-TA-TATAATAAA
52796 AT
58 AT
52798 -T-TAAATA-AATATAAAATTTTTAAATATAATTATAAATATGATTATGATATAATAAAAT
1 ATATAAATACAATATAAAATTTTTAAA-ATAATTATAAATATGATTAT-ATATAATAAAAT
52856 ATATAAATACAATA-AAAATT
1 ATATAAATACAATATAAAATT
52876 ATAAATAACT
Statistics
Matches: 113, Mismatches: 11, Indels: 34
0.72 0.07 0.22
Matches are distributed among these distances:
57 4 0.04
58 25 0.22
59 24 0.21
60 28 0.25
61 18 0.16
62 4 0.04
63 3 0.03
64 7 0.06
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.38
Consensus pattern (59 bp):
ATATAAATACAATATAAAATTTTTAAAATAATTATAAATATGATTATATATAATAAAAT
Found at i:53105 original size:23 final size:22
Alignment explanation
Indices: 53072--53131 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
53062 TTAAATTATT
* *
53072 TTTAATA-AAAATTTATTTAAA
1 TTTAATATAAAATATATATAAA
53093 TTTAATTATAAAATATATATAAA
1 TTTAA-TATAAAATATATATAAA
53116 TATTAATAT-AAATATA
1 T-TTAATATAAAATATA
53132 ATTATTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 5 0.15
22 9 0.26
23 16 0.47
24 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTAATATAAAATATATATAAA
Found at i:54775 original size:27 final size:28
Alignment explanation
Indices: 54723--54775 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
54713 TAGAAGTTAT
**
54723 AAAACTATGAAAATATTTTTCTCAAAAA
1 AAAACTATGAAAATATTTAACTCAAAAA
54751 AAAACTATGAAAATATTTAAC-CAAA
1 AAAACTATGAAAATATTTAACTCAAA
54776 TATTCAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.57, C:0.11, G:0.04, T:0.28
Consensus pattern (28 bp):
AAAACTATGAAAATATTTAACTCAAAAA
Found at i:55604 original size:25 final size:25
Alignment explanation
Indices: 55576--55658 Score: 75
Period size: 24 Copynumber: 3.3 Consensus size: 25
55566 TAATTTAAAT
55576 TAAATTAATTAAAAAAATTATTTTA
1 TAAATTAATTAAAAAAATTATTTTA
* *
55601 TAAATTAA--AAATATATATTTATTTAA
1 TAAATTAATTAAA-A-A-AATTATTTTA
*
55627 GAATATTAATT--AAAAATTATTTTA
1 TAA-ATTAATTAAAAAAATTATTTTA
55651 TAAATTAA
1 TAAATTAA
55659 AAAAATATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
23 8 0.17
24 11 0.24
25 10 0.22
26 11 0.24
27 6 0.13
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (25 bp):
TAAATTAATTAAAAAAATTATTTTA
Found at i:55611 original size:50 final size:49
Alignment explanation
Indices: 55555--55661 Score: 137
Period size: 50 Copynumber: 2.1 Consensus size: 49
55545 TGTTGGTTAT
*
55555 TTAAAAATAGATAATTTAAATTAA-ATTAATTAA-AAAAATTATTTTATAAA
1 TTAAAAATAGAT-ATTT-AATTAAGAAT-ATTAATAAAAATTATTTTATAAA
* *
55605 TTAAAAATATATATTTATTTAAGAATATTAATTAAAAATTATTTTATAAA
1 TTAAAAATAGATATTTAATTAAGAATATTAA-TAAAAATTATTTTATAAA
55655 TTAAAAA
1 TTAAAAA
55662 AATATATATC
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 10 0.20
49 6 0.12
50 35 0.69
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (49 bp):
TTAAAAATAGATATTTAATTAAGAATATTAATAAAAATTATTTTATAAA
Found at i:55639 original size:52 final size:54
Alignment explanation
Indices: 55579--55693 Score: 175
Period size: 52 Copynumber: 2.2 Consensus size: 54
55569 TTTAAATTAA
* *
55579 ATTAATTAAAAAAATTATTTTATAAATT-AAAAATATATATTTATTT-AAGAAT
1 ATTAATTAAAAAAATTATTTTATAAATTAAAAAATATATATCTATTTAAAAAAT
55631 ATTAATT--AAAAATTATTTTATAAATTAAAAAAATATATATCTATTTAAAAAAT
1 ATTAATTAAAAAAATTATTTTATAAATT-AAAAAATATATATCTATTTAAAAAAT
55684 ATTAATTAAA
1 ATTAATTAAA
55694 GGACAAGTGA
Statistics
Matches: 56, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
50 19 0.34
52 24 0.43
53 12 0.21
55 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.43
Consensus pattern (54 bp):
ATTAATTAAAAAAATTATTTTATAAATTAAAAAATATATATCTATTTAAAAAAT
Found at i:56171 original size:9 final size:9
Alignment explanation
Indices: 56147--56189 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
56137 ACTATATATT
56147 TATTAAATA
1 TATTAAATA
*
56156 TTATTAATTA
1 -TATTAAATA
*
56166 TATTAATTA
1 TATTAAATA
56175 TATTTAAATA
1 TA-TTAAATA
56185 TATTA
1 TATTA
56190 TATCATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
9 14 0.47
10 16 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TATTAAATA
Found at i:56171 original size:19 final size:19
Alignment explanation
Indices: 56147--56199 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
56137 ACTATATATT
*
56147 TATTAAATAT-TATTAATTA
1 TATTAAATATAT-TTAAATA
*
56166 TATTAATTATATTTAAATA
1 TATTAAATATATTTAAATA
*
56185 TATTATATCATATTT
1 TATTAAAT-ATATTT
56200 TATTTTTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TATTAAATATATTTAAATA
Found at i:56466 original size:21 final size:21
Alignment explanation
Indices: 56442--56528 Score: 54
Period size: 21 Copynumber: 4.2 Consensus size: 21
56432 TTTTATTATA
56442 TTATAATTATATTTAAAATAT
1 TTATAATTATATTTAAAATAT
* * **
56463 TTATAGTTACA-TTAATTTTAT
1 TTATAATTATATTTAA-AATAT
* * *
56484 ATATAAATA-ATTTAAATTAT
1 TTATAATTATATTTAAAATAT
* *
56504 ATAAAATT-TATTTTAAAATAT
1 TTATAATTATA-TTTAAAATAT
56525 TTAT
1 TTAT
56529 TAAAATATTT
Statistics
Matches: 49, Mismatches: 13, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
20 16 0.33
21 33 0.67
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (21 bp):
TTATAATTATATTTAAAATAT
Found at i:56531 original size:12 final size:12
Alignment explanation
Indices: 56516--56540 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56506 AAAATTTATT
56516 TTAAAATATTTA
1 TTAAAATATTTA
56528 TTAAAATATTTA
1 TTAAAATATTTA
56540 T
1 T
56541 CTTATATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTAAAATATTTA
Found at i:56549 original size:11 final size:11
Alignment explanation
Indices: 56533--56590 Score: 66
Period size: 11 Copynumber: 5.4 Consensus size: 11
56523 ATTTATTAAA
*
56533 ATATTTATCTT
1 ATATTTATATT
56544 ATATTTATATT
1 ATATTTATATT
*
56555 ATTTTTATATT
1 ATATTTATATT
56566 ATATTT-TATT
1 ATATTTATATT
*
56576 -TTTTATATATT
1 ATATT-TATATT
56587 ATAT
1 ATAT
56591 GGAAACTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
9 3 0.08
10 5 0.13
11 29 0.74
12 2 0.05
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (11 bp):
ATATTTATATT
Found at i:56553 original size:17 final size:17
Alignment explanation
Indices: 56521--56590 Score: 51
Period size: 17 Copynumber: 4.2 Consensus size: 17
56511 TTATTTTAAA
* *
56521 ATATTTATTAAAATATT
1 ATATTTATTTATATATT
56538 -TATCTTATATT-TATATT
1 ATAT-TTAT-TTATATATT
*
56555 ATTTTTATATTATAT-TT
1 ATATTTAT-TTATATATT
56572 -TATTT-TTTATATATT
1 ATATTTATTTATATATT
56587 ATAT
1 ATAT
56591 GGAAACTAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
14 6 0.14
15 3 0.07
16 10 0.23
17 18 0.42
18 6 0.14
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (17 bp):
ATATTTATTTATATATT
Found at i:56584 original size:21 final size:22
Alignment explanation
Indices: 56536--56590 Score: 78
Period size: 21 Copynumber: 2.5 Consensus size: 22
56526 TATTAAAATA
*
56536 TTTATCTTATATTTATATTATT
1 TTTATATTATATTTATATTATT
56558 TTTATATTATATTT-TATT-TT
1 TTTATATTATATTTATATTATT
56578 TTATATATTATAT
1 TT-TATATTATAT
56591 GGAAACTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 4 0.13
21 14 0.45
22 13 0.42
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTATATTATATTTATATTATT
Found at i:58755 original size:2 final size:2
Alignment explanation
Indices: 58748--58779 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
58738 AGGCTGGGAA
58748 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
58780 TATCACTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59805 original size:16 final size:15
Alignment explanation
Indices: 59784--59814 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
59774 CGTCATCATC
59784 AAAAAATATAAAAAAT
1 AAAAAATA-AAAAAAT
59800 AAAAAATAAAAAAAT
1 AAAAAATAAAAAAAT
59815 TAATGAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (15 bp):
AAAAAATAAAAAAAT
Found at i:61089 original size:2 final size:2
Alignment explanation
Indices: 61082--61117 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
61072 TTACAACTCT
* *
61082 TA TA TA TA TA TA TA TA TA TA TG TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
61118 AATAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:61706 original size:20 final size:20
Alignment explanation
Indices: 61683--61724 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
61673 GTATCTACTA
61683 TATTTAATATTAAAAATATT
1 TATTTAATATTAAAAATATT
* *
61703 TATTTAATATTTAAAATTTT
1 TATTTAATATTAAAAATATT
61723 TA
1 TA
61725 AAACAATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTTAATATTAAAAATATT
Found at i:62656 original size:3 final size:3
Alignment explanation
Indices: 62648--62679 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
62638 AGTAGCATTG
62648 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
62680 CCTTTAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:64020 original size:3 final size:3
Alignment explanation
Indices: 64012--64043 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
64002 CAGTAAACTT
64012 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
64044 CTCTTTTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:69068 original size:24 final size:24
Alignment explanation
Indices: 69018--69076 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
69008 CATTCCGATA
* *
69018 TTTATAATATTAATAAAATATTATT
1 TTTATAAT-TAAATAAAATAATATT
69043 TTTATAATTAAATATAAATAAT-TT
1 TTTATAATTAAATA-AAATAATATT
*
69067 TTTATTATTA
1 TTTATAATTA
69077 TTAAAATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.53
25 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TTTATAATTAAATAAAATAATATT
Found at i:69774 original size:22 final size:21
Alignment explanation
Indices: 69746--69786 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
69736 TAAATAAAAT
69746 TATTTTTATATTAATATTTATA
1 TATTTTTATATTAA-ATTTATA
*
69768 TATTTTTTTATTAAATTTA
1 TATTTTTATATTAAATTTA
69787 AATAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TATTTTTATATTAAATTTATA
Found at i:70039 original size:8 final size:8
Alignment explanation
Indices: 70028--70093 Score: 59
Period size: 8 Copynumber: 8.6 Consensus size: 8
70018 AAAATTAAAA
70028 ATATATTT
1 ATATATTT
70036 ATATATTT
1 ATATATTT
*
70044 GTATA-TT
1 ATATATTT
70051 -TATATTT
1 ATATATTT
70058 ATATATTT
1 ATATATTT
* *
70066 -TTTGTATT
1 ATATAT-TT
70074 A-ATATTT
1 ATATATTT
70081 ATATATTT
1 ATATATTT
*
70089 TTATA
1 ATATA
70094 ATTAAATTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
6 4 0.09
7 10 0.21
8 33 0.70
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (8 bp):
ATATATTT
Found at i:70056 original size:14 final size:14
Alignment explanation
Indices: 70029--70088 Score: 50
Period size: 14 Copynumber: 4.1 Consensus size: 14
70019 AAATTAAAAA
70029 TATATTTATATATTT
1 TATATTTATATA-TT
70044 GTATATTTATAT-TT
1 -TATATTTATATATT
* *
70058 ATATATTTTTTGTATT
1 -TATA-TTTATATATT
*
70074 AATATTTATATATT
1 TATATTTATATATT
70088 T
1 T
70089 TTATAATTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
14 14 0.40
15 8 0.23
16 13 0.37
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (14 bp):
TATATTTATATATT
Found at i:70078 original size:23 final size:23
Alignment explanation
Indices: 70030--70103 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
70020 AATTAAAAAT
* *
70030 ATATTTATATA-TTTGTATATTT
1 ATATTTATATATTTTTTATATTA
*
70052 ATATTTATATATTTTTTGTATTA
1 ATATTTATATATTTTTTATATTA
70075 ATATTTATATA-TTTTTATAATTA
1 ATATTTATATATTTTTTAT-ATTA
70098 A-ATTTA
1 ATATTTA
70104 AATAAAAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.48
23 24 0.52
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (23 bp):
ATATTTATATATTTTTTATATTA
Found at i:70997 original size:28 final size:26
Alignment explanation
Indices: 70966--71023 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 26
70956 CGGCCCTTCG
*
70966 TTCCTCTCTCCTCCCTTCATTCTCTTTT
1 TTCCTCTCTCCTCCCTTC-TTC-CTTTC
**
70994 TTCCTCTCTTTTCCCTTCTTCCTTTC
1 TTCCTCTCTCCTCCCTTCTTCCTTTC
71020 TTCC
1 TTCC
71024 CTTCATCTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 8 0.30
27 3 0.11
28 16 0.59
ACGTcount: A:0.02, C:0.43, G:0.00, T:0.55
Consensus pattern (26 bp):
TTCCTCTCTCCTCCCTTCTTCCTTTC
Found at i:76758 original size:90 final size:90
Alignment explanation
Indices: 76605--76785 Score: 362
Period size: 90 Copynumber: 2.0 Consensus size: 90
76595 TGCTTTCTGG
76605 GATACAAAGTATGAAGACACAAACTAATGATCTTCGATTATTGTTCATTGCATCCCAGGCAGCCG
1 GATACAAAGTATGAAGACACAAACTAATGATCTTCGATTATTGTTCATTGCATCCCAGGCAGCCG
76670 ATTGCTATTCGAGCTATGTTATATT
66 ATTGCTATTCGAGCTATGTTATATT
76695 GATACAAAGTATGAAGACACAAACTAATGATCTTCGATTATTGTTCATTGCATCCCAGGCAGCCG
1 GATACAAAGTATGAAGACACAAACTAATGATCTTCGATTATTGTTCATTGCATCCCAGGCAGCCG
76760 ATTGCTATTCGAGCTATGTTATATT
66 ATTGCTATTCGAGCTATGTTATATT
76785 G
1 G
76786 CTACGAGTTT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 91 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (90 bp):
GATACAAAGTATGAAGACACAAACTAATGATCTTCGATTATTGTTCATTGCATCCCAGGCAGCCG
ATTGCTATTCGAGCTATGTTATATT
Found at i:77902 original size:15 final size:15
Alignment explanation
Indices: 77880--77928 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
77870 TGTAAAAATA
77880 AAAT-TTTAAATTAT
1 AAATATTTAAATTAT
77894 AAATATTTAACATT-T
1 AAATATTTAA-ATTAT
*
77909 -AATATTTTAAAGTAT
1 AAATA-TTTAAATTAT
77924 AAATA
1 AAATA
77929 AACATAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
14 10 0.34
15 12 0.41
16 7 0.24
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (15 bp):
AAATATTTAAATTAT
Found at i:78651 original size:49 final size:49
Alignment explanation
Indices: 78551--78649 Score: 123
Period size: 48 Copynumber: 2.0 Consensus size: 49
78541 TATTAAACTT
*
78551 AATTAAAATAAATTCAAAATAACTAAAATCTAATAAATCTAAATATTAA
1 AATTAAAATAAATTCAAAATAACTAAAATCTAAAAAATCTAAATATTAA
* * *
78600 AATTAAAAT-AATTTAAAATAATTCAAAAT-TAAAATAATTTAAAT-TTAA
1 AATTAAAATAAATTCAAAATAACT-AAAATCTAAAA-AATCTAAATATTAA
78648 AA
1 AA
78650 ATAATCCAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
48 22 0.50
49 22 0.50
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (49 bp):
AATTAAAATAAATTCAAAATAACTAAAATCTAAAAAATCTAAATATTAA
Found at i:78652 original size:17 final size:16
Alignment explanation
Indices: 78609--78654 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
78599 AAATTAAAAT
78609 AATTTAAAATAATTCA
1 AATTTAAAATAATTCA
* *
78625 AAATTAAAATAATTTA
1 AATTTAAAATAATTCA
78641 AATTTAAAAATAAT
1 AATTT-AAAATAAT
78655 CCAATTCCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 18 0.69
17 8 0.31
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
AATTTAAAATAATTCA
Found at i:83890 original size:19 final size:21
Alignment explanation
Indices: 83863--83902 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
83853 CATAATAAAA
*
83863 TTTATATATTTAA-AAATAAT
1 TTTATATATTAAATAAATAAT
83883 TTTA-ATATTAAATAAATAAT
1 TTTATATATTAAATAAATAAT
83903 AAATATAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTATATATTAAATAAATAAT
Found at i:84472 original size:18 final size:17
Alignment explanation
Indices: 84419--84472 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 17
84409 ATATTAAAAA
84419 AAATTTTGATATATTA-
1 AAATTTTGATATATTAT
84435 ATAA-TTT-ATAT-TATAT
1 A-AATTTTGATATAT-TAT
84451 AAATTTTGATATATTCAT
1 AAATTTTGATATATT-AT
84469 AAAT
1 AAAT
84473 GTCATATTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
14 1 0.03
15 8 0.26
16 8 0.26
17 7 0.23
18 7 0.23
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (17 bp):
AAATTTTGATATATTAT
Found at i:85512 original size:2 final size:2
Alignment explanation
Indices: 85507--85539 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
85497 CAAAAGGTCA
85507 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
85540 ATATATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:85544 original size:2 final size:2
Alignment explanation
Indices: 85539--85567 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
85529 TCTCTCTCTC
85539 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
85568 GAACTTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:85752 original size:2 final size:2
Alignment explanation
Indices: 85745--85778 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
85735 TAAATCTCAT
85745 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
85779 CATAATTGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:94560 original size:25 final size:28
Alignment explanation
Indices: 94514--94566 Score: 76
Period size: 25 Copynumber: 2.0 Consensus size: 28
94504 TTGAATTATT
94514 ATTTAATAAATAAATATATTTTATTTAA
1 ATTTAATAAATAAATATATTTTATTTAA
*
94542 ATTTAAT-TATAAAT-T-TTTTATTTAA
1 ATTTAATAAATAAATATATTTTATTTAA
94567 TATAAAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 10 0.42
26 1 0.04
27 6 0.25
28 7 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
ATTTAATAAATAAATATATTTTATTTAA
Found at i:94962 original size:22 final size:21
Alignment explanation
Indices: 94918--94959 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
94908 TAAAATATTT
94918 TATTTAAATTTAATTATAAAA
1 TATTTAAATTTAATTATAAAA
94939 TATTTAAATATTAA-TATAAAA
1 TATTTAAAT-TTAATTATAAAA
94960 ATAATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TATTTAAATTTAATTATAAAA
Found at i:94969 original size:27 final size:24
Alignment explanation
Indices: 94908--94969 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 24
94898 TTTTATAAAA
*
94908 TAAAATATTTTATTTAAATTTAAT
1 TAAAATAATTTATTTAAATTTAAT
*
94932 TATAA-AA--TATTTAAATATTAAT
1 TAAAATAATTTATTTAAAT-TTAAT
94954 ATAAAAATAATTTATT
1 -T-AAAATAATTTATT
94970 AATATTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 9
0.71 0.07 0.22
Matches are distributed among these distances:
21 9 0.31
22 5 0.17
23 2 0.07
24 7 0.24
25 2 0.07
27 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TAAAATAATTTATTTAAATTTAAT
Found at i:95785 original size:158 final size:151
Alignment explanation
Indices: 95542--95992 Score: 459
Period size: 157 Copynumber: 2.9 Consensus size: 151
95532 TAGCAGCCAA
* ** * *
95542 TGCACAAGGCT-CTCACTATAAGTAGGGTCTGGGGAATGTCCCAATCTACGCAACCTTC-CCCTT
1 TGCACAAGGCTCCTCACAATAAGTAGGGTCCAGGGAATGTCCCAA-CTACACAGCCTTCTCCC-T
* *
95605 GTTTGCACAGAGAGGCTTTTTTCAGGGTTCGAACCCATGACCCAGTCATTCACACCTGAGACCAC
64 GTTTGCACAGAGAGGCTGTTTTCAGGGTTTGAACCCATGACCCAGTCATT-ACACC----ACCAC
* *
95670 AAAAGTAT-ATATAAAAACCGTAGCCCG
124 AAAAGTATAAAATAAAAACCATAGCCCG
95697 TGCACAAGGCTCCTACACAATAAGTAGGGTCCAGGGAATGTCCCAACATACACCAGCCTTCTCCC
1 TGCACAAGGCTCCT-CACAATAAGTAGGGTCCAGGGAATGTCCCAAC-TACA-CAGCCTTCTCCC
* *
95762 TGGTTGCACGGAGAGGCTGTTTTCAGGGTTTGAACCCCTGGGCAATGACCCAGTCATT-CA-CAC
63 TGTTTGCACAGAGAGGCTGTTTTCAGGGTTTGAA--CC----C-ATGACCCAGTCATTACACCAC
* *** *
95825 CACTAAAGTATAAAATAAAGGTCATAGCCTG
121 CACAAAAGTATAAAATAAAAACCATAGCCCG
* * ** * *
95856 TGCACAGGGCTCC-CAGAATAACAAGGGTCCAGTGAATGTCCCGAAGTACACAGCCTTCTCCCTG
1 TGCACAAGGCTCCTCACAATAAGTAGGGTCCAGGGAATGTCCC-AACTACACAGCCTTCTCCCTG
* * *
95920 TTTGTACAGAGAGGCTGTTTTCAGGGTTTGAACCCATGACCCAGTCATT-TA-CACCACTAAAGT
65 TTTGCACAGAGAGGCTGTTTTCAGGGTTTGAACCCATGACCCAGTCATTACACCACCACAAAAGT
95983 ATAAAATAAA
130 ATAAAATAAA
95993 GGTGCACAAG
Statistics
Matches: 256, Mismatches: 26, Indels: 34
0.81 0.08 0.11
Matches are distributed among these distances:
149 37 0.14
150 1 0.00
154 2 0.01
155 11 0.04
156 46 0.18
157 60 0.23
158 51 0.20
159 28 0.11
160 2 0.01
162 1 0.00
163 2 0.01
164 1 0.00
165 14 0.05
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (151 bp):
TGCACAAGGCTCCTCACAATAAGTAGGGTCCAGGGAATGTCCCAACTACACAGCCTTCTCCCTGT
TTGCACAGAGAGGCTGTTTTCAGGGTTTGAACCCATGACCCAGTCATTACACCACCACAAAAGTA
TAAAATAAAAACCATAGCCCG
Found at i:98429 original size:2 final size:2
Alignment explanation
Indices: 98422--98449 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
98412 TACTCCAATA
98422 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
98450 CGTAAAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:99382 original size:13 final size:13
Alignment explanation
Indices: 99364--99436 Score: 50
Period size: 13 Copynumber: 5.8 Consensus size: 13
99354 AATAAGTAAG
99364 AAATAAATATAAT
1 AAATAAATATAAT
99377 AAAT-AAT-TAAT
1 AAATAAATATAAT
*
99388 AAA-AATATTTAAT
1 AAATAA-ATATAAT
* *
99401 AAAATTAA-GTAAT
1 -AAATAAATATAAT
99414 AAATATAATA-AAT
1 AAATA-AATATAAT
99427 -AATAAATATA
1 AAATAAATATA
99437 TTTAATTTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 17
0.70 0.06 0.25
Matches are distributed among these distances:
11 12 0.25
12 14 0.29
13 17 0.35
14 4 0.08
15 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (13 bp):
AAATAAATATAAT
Found at i:99427 original size:26 final size:26
Alignment explanation
Indices: 99360--99428 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 26
99350 ATCAAATAAG
*
99360 TAAGAAATAAATATAATAAAT--AAT
1 TAAGTAATAAATATAATAAATAAAAT
*
99384 TAA-TAA-AAATAT--TTAATAAAAT
1 TAAGTAATAAATATAATAAATAAAAT
99406 TAAGTAATAAATATAATAAATAA
1 TAAGTAATAAATATAATAAATAA
99429 TAAATATATT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
20 4 0.11
22 12 0.33
23 5 0.14
24 9 0.25
26 6 0.17
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (26 bp):
TAAGTAATAAATATAATAAATAAAAT
Found at i:102495 original size:2 final size:2
Alignment explanation
Indices: 102490--102518 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
102480 TTTTTCCTTT
102490 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
102519 TTAAATAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:104003 original size:28 final size:29
Alignment explanation
Indices: 103942--104003 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 29
103932 ATATGGCATA
* *
103942 AATATAATATTAAAAAATAATTAGAGCAC
1 AATATAATATTAAAAAATAACTAGAACAC
* * *
103971 GATATAATA-TAAAAAATAACTCGAATAC
1 AATATAATATTAAAAAATAACTAGAACAC
103999 AATAT
1 AATAT
104004 GGATGGACAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
28 19 0.70
29 8 0.30
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.27
Consensus pattern (29 bp):
AATATAATATTAAAAAATAACTAGAACAC
Found at i:104065 original size:2 final size:2
Alignment explanation
Indices: 104058--104103 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
104048 GTATTGAATT
104058 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
104100 TA TA
1 TA TA
104104 CTACTTTGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:104237 original size:32 final size:32
Alignment explanation
Indices: 104179--104240 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
104169 TAAACATGAT
104179 ATGAATAAATAAATGTATTAAAATTGATATAAA
1 ATGAATAAATAAATG-ATTAAAATTGATATAAA
*
104212 ATGAATTAATAAAATG-TTAAAATTGATAT
1 ATGAATAAAT-AAATGATTAAAATTGATAT
104241 GTATATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 13 0.48
33 9 0.33
34 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (32 bp):
ATGAATAAATAAATGATTAAAATTGATATAAA
Found at i:111033 original size:2 final size:2
Alignment explanation
Indices: 111026--111068 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
111016 TAAAAATGAC
* *
111026 TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
111068 T
1 T
111069 CCCTTTTCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:111638 original size:24 final size:25
Alignment explanation
Indices: 111598--111665 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 25
111588 AATTTTTTTA
*
111598 AAAAATAATAATA-TAAAATAAAT-T
1 AAAATTAA-AATATTAAAATAAATAT
111622 AAAATT-AAATATGT-AAATAAATAT
1 AAAATTAAAATAT-TAAAATAAATAT
*
111646 TAAATTAAAATATTAAAATA
1 AAAATTAAAATATTAAAATA
111666 TATTTTATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
22 4 0.11
23 9 0.24
24 13 0.35
25 11 0.30
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (25 bp):
AAAATTAAAATATTAAAATAAATAT
Found at i:111644 original size:12 final size:11
Alignment explanation
Indices: 111607--111662 Score: 51
Period size: 13 Copynumber: 4.8 Consensus size: 11
111597 AAAAAATAAT
*
111607 AATATAAAATA
1 AATATTAAATA
*
111618 AAT-TAAAATTA
1 AATATTAAA-TA
111629 AATATGTAAATA
1 AATAT-TAAATA
111641 AATATTAAATTAA
1 AATATTAAA-T-A
111654 AATATTAAA
1 AATATTAAA
111663 ATATATTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
10 5 0.13
11 12 0.31
12 9 0.23
13 13 0.33
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (11 bp):
AATATTAAATA
Found at i:111656 original size:13 final size:12
Alignment explanation
Indices: 111623--111662 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
111613 AAATAAATTA
111623 AAATTAAATATGT
1 AAATTAAATAT-T
111636 AAA-TAAATATT
1 AAATTAAATATT
111647 AAATTAAAATATT
1 AAATT-AAATATT
111660 AAA
1 AAA
111663 ATATATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.16
12 8 0.32
13 13 0.52
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (12 bp):
AAATTAAATATT
Found at i:111664 original size:25 final size:23
Alignment explanation
Indices: 111607--111665 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 23
111597 AAAAAATAAT
111607 AATA-TAAAATAAATTAAAATTA
1 AATATTAAAATAAATTAAAATTA
*
111629 AATATGT-AAATAAATATTAAATTAA
1 AATAT-TAAAATAAAT-TAAAATT-A
111654 AATATTAAAATA
1 AATATTAAAATA
111666 TATTTTATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
22 4 0.13
23 8 0.26
24 8 0.26
25 11 0.35
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
AATATTAAAATAAATTAAAATTA
Found at i:111699 original size:41 final size:41
Alignment explanation
Indices: 111647--111745 Score: 107
Period size: 41 Copynumber: 2.4 Consensus size: 41
111637 AATAAATATT
* *
111647 AAATTAAAATATTAAAATA-TATTT-TATATATAAGT-AAATAA
1 AAATTTAAATATTAAAATATTATTTATAT-TA-AAATCAAA-AA
* *
111688 AAATTTAAATATT-TAATATTATTTATATTAAAATCAAAAT
1 AAATTTAAATATTAAAATATTATTTATATTAAAATCAAAAA
111728 AAATTTAAATATTAAAAT
1 AAATTTAAATATTAAAAT
111746 TTAAAAAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
40 21 0.43
41 25 0.51
42 3 0.06
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (41 bp):
AAATTTAAATATTAAAATATTATTTATATTAAAATCAAAAA
Found at i:113982 original size:22 final size:21
Alignment explanation
Indices: 113951--113991 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
113941 ATATTTTATT
113951 TAAATTTAATCA-TAAAATATA
1 TAAATTTAAT-ATTAAAATATA
113972 TAAATATTAATATTAAAATA
1 TAAAT-TTAATATTAAAATA
113992 ATTTTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
TAAATTTAATATTAAAATATA
Found at i:115622 original size:22 final size:22
Alignment explanation
Indices: 115573--115622 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
115563 CATTCCAATT
* *
115573 ATTTTTTAAATGTAGCCTAACG
1 ATTTTTTAAATATAACCTAACG
* *
115595 AGTTTTTTAAATATAACTTAATG
1 A-TTTTTTAAATATAACCTAACG
115618 ATTTT
1 ATTTT
115623 GACATTTACT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.34, C:0.08, G:0.10, T:0.48
Consensus pattern (22 bp):
ATTTTTTAAATATAACCTAACG
Found at i:115899 original size:2 final size:2
Alignment explanation
Indices: 115892--115931 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
115882 GTTGAATAAC
115892 AT 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 AT
115932 CTCAAAGGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:116079 original size:23 final size:22
Alignment explanation
Indices: 116027--116079 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
116017 ATATTAAACG
*
116027 AATAT-AATATAAAAAATAATT
1 AATATAAATATAAAAAATAAAT
*
116048 AATATTAAATATAAAATATAAAAT
1 AATA-TAAATATAAAAAAT-AAAT
116072 AATATAAA
1 AATATAAA
116080 AAAATATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 4 0.15
22 1 0.04
23 15 0.56
24 7 0.26
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AATATAAATATAAAAAATAAAT
Found at i:117095 original size:12 final size:13
Alignment explanation
Indices: 117078--117106 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
117068 TGAATAAATT
117078 AAATAAAATAT-A
1 AAATAAAATATGA
117090 AAATAAAATATGA
1 AAATAAAATATGA
117103 AAAT
1 AAAT
117107 GACATGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (13 bp):
AAATAAAATATGA
Found at i:118650 original size:2 final size:2
Alignment explanation
Indices: 118643--118669 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
118633 TTATTAAGAC
118643 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
118670 TTGCGAATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:120720 original size:18 final size:18
Alignment explanation
Indices: 120684--120717 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
120674 TATAAATATG
120684 ATATATAAAATAATTTTA
1 ATATATAAAATAATTTTA
*
120702 ATAT-TAAAATACTTTT
1 ATATATAAAATAATTTT
120718 TAAATAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATATAAAATAATTTTA
Found at i:121896 original size:14 final size:14
Alignment explanation
Indices: 121877--121931 Score: 56
Period size: 14 Copynumber: 3.5 Consensus size: 14
121867 TTTAGATTTA
121877 ATTATATTTAAATT
1 ATTATATTTAAATT
121891 ATTATATTTTTATAAACTT
1 ATTATA---TT-TAAA-TT
121910 AATTATATTTAAATT
1 -ATTATATTTAAATT
121925 ATTATAT
1 ATTATAT
121932 ATTTATTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
14 13 0.37
15 2 0.06
16 4 0.11
17 4 0.11
18 4 0.11
19 2 0.06
20 6 0.17
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTATATTTAAATT
Found at i:121932 original size:16 final size:16
Alignment explanation
Indices: 121879--121936 Score: 64
Period size: 16 Copynumber: 3.5 Consensus size: 16
121869 TAGATTTAAT
121879 TATATTTAAATTATTA
1 TATATTTAAATTATTA
* *
121895 TATTTTTATAAACTTAAT-
1 TA-TATT-TAAA-TTATTA
121913 TATATTTAAATTATTA
1 TATATTTAAATTATTA
121929 TATATTTA
1 TATATTTA
121937 TTTAAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 4 0.12
16 14 0.41
17 6 0.18
18 6 0.18
19 4 0.12
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATTTAAATTATTA
Found at i:121938 original size:20 final size:20
Alignment explanation
Indices: 121881--121955 Score: 67
Period size: 20 Copynumber: 4.0 Consensus size: 20
121871 GATTTAATTA
121881 TATTTAAATTATTATAT-TT
1 TATTTAAATTATTATATATT
*
121900 T-TATAAACTTA--AT-TA--
1 TATTTAAA-TTATTATATATT
121915 TATTTAAATTATTATATATT
1 TATTTAAATTATTATATATT
121935 TATTTAAATT-TTAATATATT
1 TATTTAAATTATT-ATATATT
121955 T
1 T
121956 TTATATTTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 17
0.70 0.03 0.27
Matches are distributed among these distances:
15 4 0.09
16 6 0.13
17 4 0.09
18 7 0.16
19 6 0.13
20 18 0.40
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTTAAATTATTATATATT
Found at i:121952 original size:22 final size:20
Alignment explanation
Indices: 121915--121959 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
121905 AACTTAATTA
*
121915 TATTTAAATTATTATATATT
1 TATTTAAATTAATATATATT
*
121935 TATTTAAATTTTAATATATTTT
1 TATTTAAA--TTAATATATATT
121957 TAT
1 TAT
121960 ATTTATATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
22 13 0.62
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTAAATTAATATATATT
Found at i:121961 original size:44 final size:43
Alignment explanation
Indices: 121912--122002 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 43
121902 ATAAACTTAA
121912 TTATATTTAAAT-TATTATATATTTAT-TTAAATTTTAATATATTT
1 TTATATTTAAATATATTAT-TATTTATATTAAATTTTAA-AT-TTT
* * *
121956 TTATATTTATATCATATTATTTTTTATATTATATTTTAAATTTT
1 TTATATTTAAAT-ATATTATTATTTATATTAAATTTTAAATTTT
122000 TTA
1 TTA
122003 CATTATATTC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
44 17 0.41
45 8 0.20
46 16 0.39
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (43 bp):
TTATATTTAAATATATTATTATTTATATTAAATTTTAAATTTT
Found at i:121986 original size:12 final size:12
Alignment explanation
Indices: 121924--121993 Score: 58
Period size: 12 Copynumber: 6.0 Consensus size: 12
121914 ATATTTAAAT
121924 TATTATATATTTA
1 TATTATAT-TTTA
*
121937 T-TTAAATTTTA
1 TATTATATTTTA
121948 -A-TATATTTTTA
1 TATTATA-TTTTA
* *
121959 TATT-TATATCA
1 TATTATATTTTA
*
121970 TATTATTTTTTA
1 TATTATATTTTA
121982 TATTATATTTTA
1 TATTATATTTTA
121994 AATTTTTTAC
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
10 3 0.07
11 16 0.36
12 23 0.52
13 2 0.05
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (12 bp):
TATTATATTTTA
Found at i:121998 original size:21 final size:21
Alignment explanation
Indices: 121933--122011 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 21
121923 TTATTATATA
*
121933 TTTAT-TTAAATTTTAATATATT
1 TTTATATTATATTTTAA-AT-TT
** *
121955 TTTATATTTATATCATATTATTT
1 TTTATA-TTATATTTTA-AATTT
121978 TTTATATTATATTTTAAATTT
1 TTTATATTATATTTTAAATTT
*
121999 TTTACATTATATT
1 TTTATATTATATT
122012 CAAAATCTCG
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
21 16 0.35
22 13 0.28
23 8 0.17
24 9 0.20
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTATATTATATTTTAAATTT
Found at i:122017 original size:21 final size:21
Alignment explanation
Indices: 121974--122017 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
121964 ATATCATATT
* **
121974 ATTTTTTATATTATATTTTAA
1 ATTTTTTACATTATATTCAAA
121995 ATTTTTTACATTATATTCAAA
1 ATTTTTTACATTATATTCAAA
122016 AT
1 AT
122018 CTCGAAATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTTTTACATTATATTCAAA
Done.