Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold344
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: 1758742
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 1 of 11
Found at i:7491 original size:20 final size:20
Alignment explanation
Indices: 7444--7518 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
7434 AAAAAGACAT
*
7444 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
7463 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
7484 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
7504 AATGTATCGATACAT
1 AATGTATCGATACAT
7519 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:7512 original size:40 final size:39
Alignment explanation
Indices: 7441--7518 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
7431 GGTAAAAAGA
* *
7441 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
7480 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
7519 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:9807 original size:17 final size:18
Alignment explanation
Indices: 9773--9811 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9763 TATTTTTAAA
* *
9773 TAAAAATTAATATTATTT
1 TAAAAATAAATATAATTT
9791 TAAAAATAAATA-AATTT
1 TAAAAATAAATATAATTT
9808 TAAA
1 TAAA
9812 CTAAGAGGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAAAATAAATATAATTT
Found at i:10040 original size:22 final size:22
Alignment explanation
Indices: 9983--10030 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
9973 TATTAAAATA
* *
9983 TAAATATTTTATATTATATATTAT
1 TAAATATATAATATT-TA-ATTAT
10007 TAAATATATAATATTTAATTAT
1 TAAATATATAATATTTAATTAT
10029 TA
1 TA
10031 CATTATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.32
23 2 0.09
24 13 0.59
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TAAATATATAATATTTAATTAT
Found at i:16099 original size:21 final size:21
Alignment explanation
Indices: 16069--16113 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
16059 TTTTTCTAGA
16069 TTTATTTTCTTTT-TAAAATT
1 TTTATTTTCTTTTCTAAAATT
*
16089 TTTATTCTTCTTTTCTATAATT
1 TTTATT-TTCTTTTCTAAAATT
16111 TTT
1 TTT
16114 TTAAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
21 7 0.32
22 9 0.41
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTATTTTCTTTTCTAAAATT
Found at i:16264 original size:23 final size:23
Alignment explanation
Indices: 16238--16293 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
16228 ATTAAAAAAA
16238 TTAATTTTTTGA-TTTTTTTAATT
1 TTAATTTTTT-ATTTTTTTTAATT
* *
16261 TTAATTTCTATATTTTTTTTTATT
1 TTAATTT-TTTATTTTTTTTAATT
*
16285 TGAATTTTT
1 TTAATTTTT
16294 ACTTTTAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (23 bp):
TTAATTTTTTATTTTTTTTAATT
Found at i:17009 original size:18 final size:18
Alignment explanation
Indices: 16979--17016 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
16969 TATTTAAAAA
*
16979 AAATTGAATAAAAATATT
1 AAATTGAATAAAAAAATT
16997 AAATTCGAA-AAAAAAATT
1 AAATT-GAATAAAAAAATT
17015 AA
1 AA
17017 GTAAAAAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (18 bp):
AAATTGAATAAAAAAATT
Found at i:17127 original size:17 final size:19
Alignment explanation
Indices: 17105--17151 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
17095 TAATTTTTTA
17105 TTATAAAATT-TATAT-TT
1 TTATAAAATTATATATATT
17122 TTATAATATAATTATATATATT
1 TTAT-A-A-AATTATATATATT
17144 TTATAAAA
1 TTATAAAA
17152 ATAGTTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
17 4 0.16
18 1 0.04
19 3 0.12
20 5 0.20
21 6 0.24
22 6 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTATAAAATTATATATATT
Found at i:17136 original size:19 final size:20
Alignment explanation
Indices: 17099--17167 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
17089 CCCAAATAAT
*
17099 TTTTTATTATAAAATTTATA
1 TTTTTATAATAAAATTTATA
*
17119 TTTTTATAATATAATTATATA
1 TTTTTATAATAAAATT-TATA
*
17140 TATTTTATAA-AAATAGTTATA
1 T-TTTTATAATAAA-ATTTATA
*
17161 ATTTTAT
1 TTTTTAT
17168 TTTACTAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
20 20 0.49
21 11 0.27
22 10 0.24
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (20 bp):
TTTTTATAATAAAATTTATA
Found at i:17159 original size:23 final size:21
Alignment explanation
Indices: 17111--17165 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
17101 TTTATTATAA
*
17111 AATT-TATATTTTTATAATAT
1 AATTATATATTTTTATAAAAT
17131 AATTATATATATTTTATAAAAAT
1 AATTATATAT-TTTTAT-AAAAT
*
17154 AGTTATA-ATTTT
1 AATTATATATTTT
17166 ATTTTACTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 4 0.13
21 8 0.27
22 8 0.27
23 10 0.33
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
AATTATATATTTTTATAAAAT
Found at i:18180 original size:21 final size:21
Alignment explanation
Indices: 18156--18195 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
18146 TTTCAAAGAT
18156 ATTTACTATTAACAAATATTA
1 ATTTACTATTAACAAATATTA
*
18177 ATTTATTATTAACAAATAT
1 ATTTACTATTAACAAATAT
18196 GCTATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTTACTATTAACAAATATTA
Found at i:19332 original size:2 final size:2
Alignment explanation
Indices: 19325--19358 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
19315 TAAGAAATAA
19325 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
19359 TGTTCCGTAG
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21756 original size:2 final size:2
Alignment explanation
Indices: 21749--21778 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21739 AAACCCTTAC
21749 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
21779 TCTGAAGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23696 original size:2 final size:2
Alignment explanation
Indices: 23691--23717 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23681 AAAAATGAGT
23691 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
23718 GAATAAATTC
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:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:27491 original size:22 final size:21
Alignment explanation
Indices: 27458--27500 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
27448 AATATATCAT
**
27458 TAAAAAAATTTATTTTTTAAA
1 TAAAAAAATTTAGATTTTAAA
*
27479 TAAATAAAGTTTAGATTTTAAA
1 TAAA-AAAATTTAGATTTTAAA
27501 GTGACTTGCG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (21 bp):
TAAAAAAATTTAGATTTTAAA
Found at i:27580 original size:21 final size:20
Alignment explanation
Indices: 27534--27583 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
27524 ATTATTATTT
27534 TTAAATATATTATTTAAAAA
1 TTAAATATATTATTTAAAAA
* * * *
27554 TAAAATATTTTTTTTATTAAA
1 TTAAATATATTATTTA-AAAA
27575 TTAAATATA
1 TTAAATATA
27584 AATATTAAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAAATATATTATTTAAAAA
Found at i:28858 original size:32 final size:32
Alignment explanation
Indices: 28813--28892 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 32
28803 TTATAATCTT
* *
28813 TTAATTAAATAATTAACCTTTTAAATTATTAA
1 TTAATTAATTAATTAACCTTTTAAATTAATAA
* * * *
28845 TTAATTAATTAATTTATCTTTTAATTTAATAT
1 TTAATTAATTAATTAACCTTTTAAATTAATAA
28877 TTATATATAATTAATT
1 TTA-AT-TAATTAATT
28893 TATCTTATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
32 29 0.73
33 2 0.05
34 9 0.22
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (32 bp):
TTAATTAATTAATTAACCTTTTAAATTAATAA
Found at i:28868 original size:16 final size:16
Alignment explanation
Indices: 28850--28906 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 16
28840 ATTAATTAAT
*
28850 TAATTAATTTATCTTT
1 TAATTAATTTATCTTA
*
28866 TAATTTAATATTTAT-ATA
1 TAA-TT-A-ATTTATCTTA
28884 TAATTAATTTATCTTA
1 TAATTAATTTATCTTA
28900 TAATTAA
1 TAATTAA
28907 ATAATTTATC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
15 6 0.18
16 13 0.38
17 4 0.12
18 5 0.15
19 6 0.18
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (16 bp):
TAATTAATTTATCTTA
Found at i:28868 original size:20 final size:20
Alignment explanation
Indices: 28845--28923 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
28835 AAATTATTAA
28845 TTAATTAATTAATTTATCTT
1 TTAATTAATTAATTTATCTT
28865 TTAA-T--TTAA--TAT-TT
1 TTAATTAATTAATTTATCTT
*
28879 AT-ATATAATTAATTTATCTT
1 TTAAT-TAATTAATTTATCTT
* *
28899 ATAATTAAATAATTTATCTT
1 TTAATTAATTAATTTATCTT
28919 TTAAT
1 TTAAT
28924 AAAATAATTA
Statistics
Matches: 48, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
13 1 0.02
14 3 0.06
15 4 0.08
17 8 0.17
19 4 0.08
20 26 0.54
21 2 0.04
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (20 bp):
TTAATTAATTAATTTATCTT
Found at i:28891 original size:34 final size:35
Alignment explanation
Indices: 28850--28915 Score: 107
Period size: 34 Copynumber: 1.9 Consensus size: 35
28840 ATTAATTAAT
* *
28850 TAATTAATTTATCTTTTAATTTAAT-ATTTATATA
1 TAATTAATTTATCTTATAATTAAATAATTTATATA
28884 TAATTAATTTATCTTATAATTAAATAATTTAT
1 TAATTAATTTATCTTATAATTAAATAATTTAT
28916 CTTTTAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 23 0.79
35 6 0.21
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (35 bp):
TAATTAATTTATCTTATAATTAAATAATTTATATA
Found at i:28928 original size:20 final size:20
Alignment explanation
Indices: 28888--28932 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
28878 TATATATAAT
*
28888 TAATTTATCTTATAATTAAA
1 TAATTTATCTTATAATAAAA
*
28908 TAATTTATCTTTTAATAAAA
1 TAATTTATCTTATAATAAAA
28928 TAATT
1 TAATT
28933 AGTTACGAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (20 bp):
TAATTTATCTTATAATAAAA
Found at i:28976 original size:2 final size:2
Alignment explanation
Indices: 28971--29012 Score: 75
Period size: 2 Copynumber: 20.5 Consensus size: 2
28961 TTTTATTCTT
28971 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
29013 TCACTAATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31699 original size:22 final size:23
Alignment explanation
Indices: 31662--31705 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
31652 AACAATATTT
31662 AGATATAAAATAAAAA-TAAAAG
1 AGATATAAAATAAAAATTAAAAG
31684 AGATA-AAAATAAAAAATTAAAA
1 AGATATAAAAT-AAAAATTAAAA
31706 CACAAGACGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
22 10 0.50
23 5 0.25
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (23 bp):
AGATATAAAATAAAAATTAAAAG
Found at i:36774 original size:19 final size:18
Alignment explanation
Indices: 36750--36812 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
36740 ATCGATACAA
36750 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
36769 TGTATCGAT--ATAA---
1 TGTATCGATACATAAGTT
*
36782 TGTATCGATATATAAGTTT
1 TGTATCGATACATAAG-TT
36801 TGTATCGATACA
1 TGTATCGATACA
36813 ATGTATCGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 9 0.24
15 4 0.11
17 4 0.11
19 20 0.54
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:36777 original size:32 final size:32
Alignment explanation
Indices: 36736--36820 Score: 143
Period size: 32 Copynumber: 2.7 Consensus size: 32
36726 TTTCAACAAT
36736 TTGTATCGATACAATGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
* * *
36768 TTGTATCGATATAATGTATCGATATATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
36800 TTGTATCGATACAATGTATCG
1 TTGTATCGATACAATGTATCG
36821 CTACGAAGCT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.39
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:36787 original size:13 final size:13
Alignment explanation
Indices: 36737--36793 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
36727 TTCAACAATT
*
36737 TGTATCGATACAA
1 TGTATCGATATAA
36750 TGTATCGATACATAA
1 TGTATCGAT--ATAA
36765 GTGTTGTATCGATATAA
1 ----TGTATCGATATAA
36782 TGTATCGATATA
1 TGTATCGATATA
36794 TAAGTTTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 21 0.57
15 3 0.08
17 4 0.11
19 9 0.24
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATATAA
Found at i:45846 original size:20 final size:18
Alignment explanation
Indices: 45817--45879 Score: 76
Period size: 20 Copynumber: 3.5 Consensus size: 18
45807 TATATTTTTA
*
45817 TTAATATTTA-CT-ATAT
1 TTAATATTTATTTAATAT
45833 TTAATATTTATTTAATAT
1 TTAATATTTATTTAATAT
*
45851 TAAAATTATTTATTTAATAT
1 T-TAA-TATTTATTTAATAT
45871 TTAATATTT
1 TTAATATTT
45880 TAATTAAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
16 10 0.25
17 1 0.03
18 10 0.25
19 4 0.10
20 15 0.38
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAATATTTATTTAATAT
Found at i:45889 original size:20 final size:19
Alignment explanation
Indices: 45829--45886 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 19
45819 AATATTTACT
45829 ATATTTAATA-TTTATTTA
1 ATATTTAATATTTTATTTA
*
45847 ATA-TTAAAATTATTTATTTA
1 ATATTTAATA-T-TTTATTTA
*
45867 ATATTTAATATTTTAATTA
1 ATATTTAATATTTTATTTA
45886 A
1 A
45887 ATAATTCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 5 0.15
18 3 0.09
19 8 0.24
20 12 0.36
21 5 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATATTTAATATTTTATTTA
Found at i:46097 original size:34 final size:34
Alignment explanation
Indices: 46047--46260 Score: 261
Period size: 34 Copynumber: 6.4 Consensus size: 34
46037 TTTTTTTTTT
* * *
46047 TTGATTAAAT-GGTGATTTGGTGGTTTACCATTG
1 TTGATTAAATGGGAGATTTGGTAGCTTACCATTG
* * * * *
46080 TTGATTAGATGGGTGATTTGGTGGTTTGCCATTG
1 TTGATTAAATGGGAGATTTGGTAGCTTACCATTG
*
46114 TTGACTAAATGGGAGATTTGGTAGCTTACCATTG
1 TTGATTAAATGGGAGATTTGGTAGCTTACCATTG
* *
46148 TTTATTAAAT-GGAAATTTGGTAGCTTACCATTG
1 TTGATTAAATGGGAGATTTGGTAGCTTACCATTG
* *
46181 TTGATTAAATGGGTGATTTGGTGGCTTACCATTG
1 TTGATTAAATGGGAGATTTGGTAGCTTACCATTG
* * * *
46215 TTGACTAAATGGGAGATTTGCTAGATTGCCATTG
1 TTGATTAAATGGGAGATTTGGTAGCTTACCATTG
46249 TTGATTAAATGG
1 TTGATTAAATGG
46261 TGGTTTTTAC
Statistics
Matches: 157, Mismatches: 22, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
33 40 0.25
34 117 0.75
ACGTcount: A:0.24, C:0.08, G:0.27, T:0.41
Consensus pattern (34 bp):
TTGATTAAATGGGAGATTTGGTAGCTTACCATTG
Found at i:46179 original size:67 final size:68
Alignment explanation
Indices: 46047--46260 Score: 288
Period size: 67 Copynumber: 3.2 Consensus size: 68
46037 TTTTTTTTTT
* * * * *
46047 TTGATTAAAT-GGTGATTTGGTGGTTTACCATTGTTGATTAGATGGGTGATTTGGTGGTTTGCCA
1 TTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGATTGCCA
46111 TTG
66 TTG
* * * * * * *
46114 TTGACTAAATGGGAGATTTGGTAGCTTACCATTGTTTATTAAAT-GGAAATTTGGTAGCTTACCA
1 TTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGATTGCCA
46178 TTG
66 TTG
* *
46181 TTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATGGGAGATTTGCTAGATTGCCA
1 TTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGATTGCCA
46246 TTG
66 TTG
46249 TTGATTAAATGG
1 TTGATTAAATGG
46261 TGGTTTTTAC
Statistics
Matches: 125, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
67 66 0.53
68 59 0.47
ACGTcount: A:0.24, C:0.08, G:0.27, T:0.41
Consensus pattern (68 bp):
TTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGATTGCCA
TTG
Found at i:46225 original size:101 final size:101
Alignment explanation
Indices: 46047--46260 Score: 329
Period size: 101 Copynumber: 2.1 Consensus size: 101
46037 TTTTTTTTTT
** * * * * *
46047 TTGATTAAATGGTGATTTGGTGGTTTACCATTGTTGATTAGATGGGTGATTTGGTGGTTTGCCAT
1 TTGATTAAATGGAAATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTACCAT
* *
46112 TGTTGACTAAATGGGAGATTTGGTAGCTTACCATTG
66 TGTTGACTAAATGGGAGATTTGCTAGATTACCATTG
*
46148 TTTATTAAATGGAAATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTACCAT
1 TTGATTAAATGGAAATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTACCAT
*
46213 TGTTGACTAAATGGGAGATTTGCTAGATTGCCATTG
66 TGTTGACTAAATGGGAGATTTGCTAGATTACCATTG
46249 TTGATTAAATGG
1 TTGATTAAATGG
46261 TGGTTTTTAC
Statistics
Matches: 101, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.24, C:0.08, G:0.27, T:0.41
Consensus pattern (101 bp):
TTGATTAAATGGAAATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTACCAT
TGTTGACTAAATGGGAGATTTGCTAGATTACCATTG
Found at i:58452 original size:20 final size:21
Alignment explanation
Indices: 58427--58472 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
58417 ACATATATTA
*
58427 ATACATTCACT-TATGTATCG
1 ATACATTCACTAAATGTATCG
58447 ATACATTCACTAAATGTATCG
1 ATACATTCACTAAATGTATCG
58468 ATACA
1 ATACA
58473 AATATAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATACATTCACTAAATGTATCG
Found at i:58871 original size:20 final size:20
Alignment explanation
Indices: 58822--58882 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
58812 ACAATTGAAA
*
58822 GGATAAGGTATTGATA-TAT
1 GGATAAGGTATTGATACTTT
*
58841 GAAACTAAGGTATTGATACTTT
1 G-GA-TAAGGTATTGATACTTT
*
58863 GGATAAGGTATCGATACTTT
1 GGATAAGGTATTGATACTTT
58883 ATGTTGTTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.03
20 17 0.49
21 14 0.40
22 3 0.09
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (20 bp):
GGATAAGGTATTGATACTTT
Found at i:61989 original size:50 final size:50
Alignment explanation
Indices: 61902--62034 Score: 176
Period size: 50 Copynumber: 2.7 Consensus size: 50
61892 TCACAATATA
* *
61902 TATCGATACATTATTCATTGTATCGATACATTCTGGGTTTTACCCAGATT
1 TATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTACCCAGATG
* * * * *
61952 TATTGATACATTTTTCATTGTATTGATATATTTTGGGTTTTACCTAGATG
1 TATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTACCCAGATG
* * *
62002 TATCGATACATTTCTAAATGTATCGATACATTC
1 TATCGATACATTTTTCATTGTATCGATACATTC
62035 AAGCATTTTT
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (50 bp):
TATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTACCCAGATG
Found at i:64537 original size:51 final size:51
Alignment explanation
Indices: 64443--64556 Score: 135
Period size: 51 Copynumber: 2.2 Consensus size: 51
64433 ATTTTCGAGG
* * *
64443 GGATACTCCAACCTCAATTTTATTTCTAAAATACTGATTTTTCATAATCG-
1 GGATACTCCAACCTCAATTTTATTTCAAAAATACTAATGTTTCATAATCGA
*
64493 GAGATACTCCAACCTCAGTTTTATTTTCAAAACAT-C-AATGTTTCATAATCGA
1 G-GATACTCCAACCTCAATTTTA-TTTCAAAA-ATACTAATGTTTCATAATCGA
*
64545 GGATACTTCAAC
1 GGATACTCCAAC
64557 TCCGTTATTT
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
50 1 0.02
51 43 0.78
52 9 0.16
53 2 0.04
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (51 bp):
GGATACTCCAACCTCAATTTTATTTCAAAAATACTAATGTTTCATAATCGA
Found at i:64790 original size:78 final size:79
Alignment explanation
Indices: 64495--64853 Score: 395
Period size: 79 Copynumber: 4.5 Consensus size: 79
64485 CATAATCGGA
* * * * * * *
64495 GATACTCCAACCTCAGTTTTATTTTCAAAACATCAATGTTTCATAATC-GAGGATACTTCAACTC
1 GATACTCTAACCCCAGTTTTATTTCCAAAACATCAATTTTTCACAATCAG-GGATACTCCAACCC
* *
64559 CGTTATTTCCGTGGG
65 CGTTATTTTCGAGGG
* * *
64574 GATACTCTAACCCCAGCTTTATTTCTAAAACATCAATTTTTCACAATCAGAGATACTCCAACCCC
1 GATACTCTAACCCCAGTTTTATTTCCAAAACATCAATTTTTCACAATCAGGGATACTCCAACCCC
* * *
64639 ATTATTTTTGAGAG
66 GTTATTTTCGAGGG
** * *
64653 GATACTCTAACCCCA-TCTTTATTTGTAAAACATTAATTTTTCATAATCAGGGATACTCCAACCC
1 GATACTCTAACCCCAGT-TTTATTTCCAAAACATCAATTTTTCACAATCAGGGATACTCCAACCC
64717 CGTTATTTTCGAGGG
65 CGTTATTTTCGAGGG
* * *
64732 GATACTCTAACCTC-GTTTTATTTCCAAAACATCAATTTTTCACCATCGGGGATACTCCAACCCC
1 GATACTCTAACCCCAGTTTTATTTCCAAAACATCAATTTTTCACAATCAGGGATACTCCAACCCC
*
64796 GTCA-TTTCTGAGGG
66 GTTATTTTC-GAGGG
* * * *
64810 GATACT-TCAACCCCATTTTTATCTCCAAAATATTAAATTTTTCA
1 GATACTCT-AACCCCAGTTTTATTTCCAAAACA-TCAATTTTTCA
64854 TCGGGGAATG
Statistics
Matches: 237, Mismatches: 36, Indels: 13
0.83 0.13 0.05
Matches are distributed among these distances:
77 5 0.02
78 61 0.26
79 160 0.68
80 11 0.05
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.35
Consensus pattern (79 bp):
GATACTCTAACCCCAGTTTTATTTCCAAAACATCAATTTTTCACAATCAGGGATACTCCAACCCC
GTTATTTTCGAGGG
Found at i:64831 original size:157 final size:157
Alignment explanation
Indices: 64495--64854 Score: 438
Period size: 158 Copynumber: 2.3 Consensus size: 157
64485 CATAATCGGA
* * * * * * *
64495 GATACTCCAACCTCAGTTTTATTTTCAAAACATCAATGTTTCATAATCGAGGATACTTCAACTCC
1 GATACTTCAACCCCATTTTTATTTT-AAAACATTAATTTTTCATAATCGAGGATACTCCAACCCC
* *
64560 GTTATTTCCGTGGGGATACTCTAACCCCAGCTTTATTTCTAAAACATCAATTTTTCACAATCAGA
65 GTTATTTCCGAGGGGATACTCTAACCCCAGCTTTATTTCCAAAACATCAATTTTTCACAATCAGA
* *
64625 GATACTCCAACCCCATTATTTTTGAGAG
130 GATACTCCAACCCCATCATTTCTGAGAG
*
64653 GATAC-TCTAACCCCATCTTTATTTGTAAAACATTAATTTTTCATAATC-AGGGATACTCCAACC
1 GATACTTC-AACCCCATTTTTATTT-TAAAACATTAATTTTTCATAATCGA-GGATACTCCAACC
* * * * *
64716 CCGTTATTTTCGAGGGGATACTCTAACCTC-GTTTTATTTCCAAAACATCAATTTTTCACCATCG
63 CCGTTATTTCCGAGGGGATACTCTAACCCCAGCTTTATTTCCAAAACATCAATTTTTCACAATCA
* * *
64780 GGGATACTCCAACCCCGTCATTTCTGAGGG
128 GAGATACTCCAACCCCATCATTTCTGAGAG
** *
64810 GATACTTCAACCCCATTTTTATCTCCAAAATATTAAATTTTTCAT
1 GATACTTCAACCCCATTTTTAT-TTTAAAACATT-AATTTTTCAT
64855 CGGGGAATGT
Statistics
Matches: 172, Mismatches: 24, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
157 82 0.48
158 89 0.52
159 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.35
Consensus pattern (157 bp):
GATACTTCAACCCCATTTTTATTTTAAAACATTAATTTTTCATAATCGAGGATACTCCAACCCCG
TTATTTCCGAGGGGATACTCTAACCCCAGCTTTATTTCCAAAACATCAATTTTTCACAATCAGAG
ATACTCCAACCCCATCATTTCTGAGAG
Found at i:77068 original size:15 final size:13
Alignment explanation
Indices: 77050--77083 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
77040 AAAACTACAC
77050 AAAAAAAAGAA-AG
1 AAAAAAAA-AAGAG
77063 AAAAAAAAAAGAG
1 AAAAAAAAAAGAG
77076 AAAAAAAA
1 AAAAAAAA
77084 CCTGCCTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 2 0.10
13 18 0.90
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGAG
Found at i:78170 original size:61 final size:61
Alignment explanation
Indices: 78054--78439 Score: 450
Period size: 61 Copynumber: 6.4 Consensus size: 61
78044 AACCTTTTAT
* * * *
78054 CCTT-TCAGTCCTCAAAGAGCAAGATAC-TTTCCTTTCAAAACCCACACAGGTTGGTGGCA
1 CCTTCTCAGTCCTCAAAGAGCAGGATGCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
78113 CCTTCT-AGTCCTCAAAGAGCAGGATGTCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCTCAGTCCTCAAAGAGCAGGATG-CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * ** * * *
78174 CATT-TCAGTCCTCAAAGAGCAGAACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTAGCA
1 CCTTCTCAGTCCTCAAAGAGCAGGA-TGCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
78235 CCTT-TCAGTTCTCAAAAAGCAGAATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCTCAGTCCTCAAAGAGCAGGATG-CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
78296 -CTTTTCAGTCCTCAAAAAGCAGGACG-TTTTCCTTTCAAAGCCCACACAAGTTGGTGACA
1 CCTTCTCAGTCCTCAAAGAGCAGGATGCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
78355 CCTTCT-AGTCCTCAAAGAGCAGGACGC-TTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCA
1 CCTTCTCAGTCCTCAAAGAGCAGGATGCTTTTC-CTTT-CAAAGCCCACACAAGTTGGTGGCA
*
78416 CCTTCT-AGTCCCCAAAGAGCAGGA
1 CCTTCTCAGTCCTCAAAGAGCAGGA
78440 CACTTTCCTT
Statistics
Matches: 287, Mismatches: 29, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
59 76 0.26
60 14 0.05
61 197 0.69
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (61 bp):
CCTTCTCAGTCCTCAAAGAGCAGGATGCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:78399 original size:120 final size:118
Alignment explanation
Indices: 78055--78450 Score: 501
Period size: 120 Copynumber: 3.3 Consensus size: 118
78045 ACCTTTTATC
* * * * *
78055 CTTTCAGTCCTCAAAGAGCAAGATACTTTCCTTTCAAAACCCACACAGGTTGGTGGCACCTTCTA
1 CTTTCAGTCCTCAAAGAGCAGGACACTTTCCTTTCAAAGCCCACACAAGTTGGTGACACCTTCTA
*
78120 GTCCTCAAAGAGCAGGATGTCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
66 GTCCTCAAAGAGCAGGATG-CCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
78174 CATTTCAGTCCTCAAAGAGCAGAACACCTTTTCTTTTTAAAGCCCACACAAGTTGGT-AGCACCT
1 C-TTTCAGTCCTCAAAGAGCAGGACA-C-TTTCCTTTCAAAGCCCACACAAGTTGGTGA-CACCT
* * *
78238 T-TCAGTTCTCAAAAAGCAGAATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
62 TCT-AGTCCTCAAAGAGCAGGATGCCTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCA
* **
78296 CTTTTCAGTCCTCAAAAAGCAGGACGTTTTCCTTTCAAAGCCCACACAAGTTGGTGACACCTTCT
1 C-TTTCAGTCCTCAAAGAGCAGGACACTTTCCTTTCAAAGCCCACACAAGTTGGTGACACCTTCT
* *
78361 AGTCCTCAAAGAGCAGGACG-CTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCA
65 AGTCCTCAAAGAGCAGGATGCCTTT-TCTTT-TAAAGCCCACACAAGTTGGTGGCA
* *
78416 CCTTCTAGTCCCCAAAGAGCAGGACACTTTCCTTT
1 CTTTC-AGTCCTCAAAGAGCAGGACACTTTCCTTT
78451 TTCCTCTAAA
Statistics
Matches: 237, Mismatches: 29, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
119 12 0.05
120 119 0.50
121 9 0.04
122 97 0.41
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (118 bp):
CTTTCAGTCCTCAAAGAGCAGGACACTTTCCTTTCAAAGCCCACACAAGTTGGTGACACCTTCTA
GTCCTCAAAGAGCAGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:78491 original size:66 final size:64
Alignment explanation
Indices: 78094--78499 Score: 309
Period size: 61 Copynumber: 6.6 Consensus size: 64
78084 CCTTTCAAAA
* * * * *
78094 CCCACACAGGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGG--A-TGTCTTTTTCTTTTAAAG
1 CCCACACAAGTTGGTGACACCTTCTAGTCCTCAAAGAGCAGGACACTTTCTTTTTCCTCTAAAG
* * * *
78155 CCCACACAAGTTGGTGGCACATT-TCAGTCCTCAAAGAGCAGAACACCTTT-TCTTT--T-TAAA
1 CCCACACAAGTTGGTGACACCTTCT-AGTCCTCAAAGAGCAGGACA-CTTTCTTTTTCCTCTAAA
78215 G
64 G
* * * * *
78216 CCCACACAAGTTGGT-AGCACCTT-TCAGTTCTCAAAAAGCA-GA-A--TGCCTTTTCCTTTTAA
1 CCCACACAAGTTGGTGA-CACCTTCT-AGTCCTCAAAGAGCAGGACACTTTCTTTTTCC-TCTAA
78275 AG
63 AG
* * * * **
78277 CCCACACAAGTTGGTGGCA-CTTTTCAGTCCTCAAAAAGCAGGAC-GTTT-TCCTT--TC-AAAG
1 CCCACACAAGTTGGTGACACCTTCT-AGTCCTCAAAGAGCAGGACACTTTCTTTTTCCTCTAAAG
* * *
78336 CCCACACAAGTTGGTGACACCTTCTAGTCCTCAAAGAGCAGGACGCTTTCTCTTT--GC-AAAG
1 CCCACACAAGTTGGTGACACCTTCTAGTCCTCAAAGAGCAGGACACTTTCTTTTTCCTCTAAAG
* *
78397 CCCACACAAGTTGGTGGCACCTTCTAGTCCCCAAAGAGCAGGACACTTTCCTTTTTCCTCTAAAA
1 CCCACACAAGTTGGTGACACCTTCTAGTCCTCAAAGAGCAGGACACTTT-CTTTTTCCTCT-AAA
78462 G
64 G
* * ** *
78463 CTCATACAAGTTGGCAACACCTTTTAGTCCTCAAAGA
1 CCCACACAAGTTGGTGACACCTTCTAGTCCTCAAAGA
78500 ATAGGACGCA
Statistics
Matches: 282, Mismatches: 38, Indels: 45
0.77 0.10 0.12
Matches are distributed among these distances:
56 1 0.00
57 3 0.01
59 41 0.15
60 14 0.05
61 170 0.60
62 8 0.03
63 3 0.01
64 6 0.02
65 2 0.01
66 34 0.12
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (64 bp):
CCCACACAAGTTGGTGACACCTTCTAGTCCTCAAAGAGCAGGACACTTTCTTTTTCCTCTAAAG
Found at i:78585 original size:42 final size:43
Alignment explanation
Indices: 78489--78592 Score: 156
Period size: 43 Copynumber: 2.4 Consensus size: 43
78479 ACACCTTTTA
** *
78489 GTCCTCAAAGAATAGGACGCATTTAATTTCCTTCTTTTCCTTT
1 GTCCTCAAAGAGCAGGATGCATTTAATTTCCTTCTTTTCCTTT
*
78532 GTCCTCAAAGAGCAGGATGCATTTTATTTCCTT-TTTTCCTTT
1 GTCCTCAAAGAGCAGGATGCATTTAATTTCCTTCTTTTCCTTT
*
78574 GTCCTCGAAGAGCAGGATG
1 GTCCTCAAAGAGCAGGATG
78593 TACTCTTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 27 0.48
43 29 0.52
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.38
Consensus pattern (43 bp):
GTCCTCAAAGAGCAGGATGCATTTAATTTCCTTCTTTTCCTTT
Found at i:78604 original size:42 final size:42
Alignment explanation
Indices: 78489--78613 Score: 146
Period size: 42 Copynumber: 3.0 Consensus size: 42
78479 ACACCTTTTA
** *
78489 GTCCTCAAAGAATAGGACGCAT-TTAATTTCCTTCTTTTCCTTT
1 GTCCTCAAAGAGCAGGATGCATCTT-ATTTCCTT-TTTTCCTTT
*
78532 GTCCTCAAAGAGCAGGATGCATTTTATTTCCTTTTTTCCTTT
1 GTCCTCAAAGAGCAGGATGCATCTTATTTCCTTTTTTCCTTT
* * *
78574 GTCCTCGAAGAGCAGGATGTACTCTT-TTTCCTTTTGTCCT
1 GTCCTCAAAGAGCAGGATGCA-TCTTATTTCCTTTTTTCCT
78614 CAAGGAGTAG
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
42 41 0.56
43 30 0.41
44 2 0.03
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.42
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGATGCATCTTATTTCCTTTTTTCCTTT
Found at i:78614 original size:77 final size:74
Alignment explanation
Indices: 78523--78850 Score: 329
Period size: 75 Copynumber: 4.4 Consensus size: 74
78513 AATTTCCTTC
* **
78523 TTTTCCTTTGTCCTCAAAGAGCAGGATGCATTTTATTTCCTTTTTTCCTTTGTCCTCGAAGAGCA
1 TTTTCCTTTGTCCTCAAAGAGCAAGACCCATTTTA-TT-CTTTTTTCCTTTGTCCTCGAAGAGCA
78588 GGATGTACTCT
64 GGATGTACTCT
* * * * *
78599 TTTTCCTTTTGTCCTCAAGGAGTAGGACCCATTTTATTCTCTTTTT-CTTTGTCCTCAAAGAGTA
1 TTTTCC-TTTGTCCTCAAAGAGCAAGACCCATTTTATTCT-TTTTTCCTTTGTCCTCGAAGAGCA
* * *
78663 AGACGTACTCC
64 GGATGTACTCT
* * * * * *
78674 TTTTCCTTTGTCCTCAAAAAGCAAGACGCATTTTGTTTCCTTTTTTCATTTATCCTTGAAGAGCA
1 TTTTCCTTTGTCCTCAAAGAGCAAGACCCATTTT-ATT-CTTTTTTCCTTTGTCCTCGAAGAGCA
78739 GGATGTACTCTT
64 GGATGTACTC-T
** * * *
78751 TTTTCCTCGGTCCTCAAGGAGCAAGACCCATTTCATTCTTTTTTCTTTTGTCCTCGAAGAGCAAG
1 TTTTCCTTTGTCCTCAAAGAGCAAGACCCATTTTATTCTTTTTTCCTTTGTCCTCGAAGAGC-AG
*
78816 GCATG--CTTT
65 G-ATGTACTCT
* *
78825 TTTTCCTCTGTCCTCAAAGAGTAAGA
1 TTTTCCTTTGTCCTCAAAGAGCAAGA
78851 TGCCTATTCC
Statistics
Matches: 207, Mismatches: 37, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
74 47 0.23
75 63 0.30
76 41 0.20
77 56 0.27
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (74 bp):
TTTTCCTTTGTCCTCAAAGAGCAAGACCCATTTTATTCTTTTTTCCTTTGTCCTCGAAGAGCAGG
ATGTACTCT
Found at i:78705 original size:151 final size:151
Alignment explanation
Indices: 78522--78811 Score: 431
Period size: 151 Copynumber: 1.9 Consensus size: 151
78512 TAATTTCCTT
* * * * *
78522 CTTTTCCTTTGTCCTCAAAGAGCAGGATGCATTTTATTTCCTTTTTTCCTTTGTCCTCGAAGAGC
1 CTTTTCCTTTGTCCTCAAAAAGCAAGACGCATTTTATTTCCTTTTTTCATTTATCCTCGAAGAGC
** * * *
78587 AGGATGTACTC-TTTTTCCTTTTGTCCTCAAGGAGTAGGACCCATTTTATTCTCTTTTTC-TTTG
66 AGGATGTACTCTTTTTTCC-TCGGTCCTCAAGGAGCAAGACCCATTTCATTCT-TTTTTCTTTTG
78650 TCCTCAAAGAGTAAGACGTACTC
129 TCCTCAAAGAGTAAGACGTACTC
* *
78673 CTTTTCCTTTGTCCTCAAAAAGCAAGACGCATTTTGTTTCCTTTTTTCATTTATCCTTGAAGAGC
1 CTTTTCCTTTGTCCTCAAAAAGCAAGACGCATTTTATTTCCTTTTTTCATTTATCCTCGAAGAGC
78738 AGGATGTACTCTTTTTTCCTCGGTCCTCAAGGAGCAAGACCCATTTCATTCTTTTTTCTTTTGTC
66 AGGATGTACTCTTTTTTCCTCGGTCCTCAAGGAGCAAGACCCATTTCATTCTTTTTTCTTTTGTC
*
78803 CTCGAAGAG
131 CTCAAAGAG
78812 CAAGGCATGC
Statistics
Matches: 124, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
150 6 0.05
151 111 0.90
152 7 0.06
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (151 bp):
CTTTTCCTTTGTCCTCAAAAAGCAAGACGCATTTTATTTCCTTTTTTCATTTATCCTCGAAGAGC
AGGATGTACTCTTTTTTCCTCGGTCCTCAAGGAGCAAGACCCATTTCATTCTTTTTTCTTTTGTC
CTCAAAGAGTAAGACGTACTC
Found at i:79506 original size:50 final size:50
Alignment explanation
Indices: 79439--79551 Score: 165
Period size: 50 Copynumber: 2.3 Consensus size: 50
79429 TCACAATATA
*
79439 TATCGATACATTATTCATTGTATCAATACATTCTGAGTTTTATCC-AGATG
1 TATCGATACATTTTTCATTGTATCAATACATTCTGAGTTTTA-CCTAGATG
* * * *
79489 TATTGATACATTTTTCATTGTATCGATGCATTCTGGGTTTTACCTAGATG
1 TATCGATACATTTTTCATTGTATCAATACATTCTGAGTTTTACCTAGATG
79539 TATCGATACATTT
1 TATCGATACATTT
79552 CTAAATGTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
49 2 0.04
50 54 0.96
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (50 bp):
TATCGATACATTTTTCATTGTATCAATACATTCTGAGTTTTACCTAGATG
Found at i:79561 original size:50 final size:49
Alignment explanation
Indices: 79439--79571 Score: 160
Period size: 50 Copynumber: 2.7 Consensus size: 49
79429 TCACAATATA
*
79439 TATCGATACATTATTCATTGTATCAATACATTCTGAGTTTTATCCAGATG
1 TATCGATACATT-TTCATTGTATCGATACATTCTGAGTTTTATCCAGATG
* * *
79489 TATTGATACATTTTTCATTGTATCGATGCATTCTGGGTTTTA-CCTAGATG
1 TATCGATACA-TTTTCATTGTATCGATACATTCTGAGTTTTATCC-AGATG
* * *
79539 TATCGATACATTTCTAAATGTATCGATATATTC
1 TATCGATACATTT-TCATTGTATCGATACATTC
79572 AGGCATTTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
49 5 0.07
50 64 0.90
51 2 0.03
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.44
Consensus pattern (49 bp):
TATCGATACATTTTCATTGTATCGATACATTCTGAGTTTTATCCAGATG
Found at i:82055 original size:51 final size:51
Alignment explanation
Indices: 81984--82097 Score: 142
Period size: 51 Copynumber: 2.2 Consensus size: 51
81974 TTTCTGAGGA
* *
81984 GATAATCCAACCTCAATTTTATTTCC-AAACTATCT-ATTTTTCACAATCGAG
1 GATACTCCAACCTCAATTTTATTTCCAAAAC-A-CTAATTTTCCACAATCGAG
** *
82035 GATACTCCAACCTCGGTTTTATTTCCAAAACACTAATTTTCCACAATCGGG
1 GATACTCCAACCTCAATTTTATTTCCAAAACACTAATTTTCCACAATCGAG
*
82086 GATACTCAAACC
1 GATACTCCAACC
82098 CTGTTATTTC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
50 2 0.04
51 49 0.89
52 4 0.07
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (51 bp):
GATACTCCAACCTCAATTTTATTTCCAAAACACTAATTTTCCACAATCGAG
Found at i:82154 original size:130 final size:130
Alignment explanation
Indices: 81921--82176 Score: 304
Period size: 130 Copynumber: 2.0 Consensus size: 130
81911 TTATTCATGT
** * * * * * *
81921 TTTTATTTTTAAAATACTGATTTCCCACCATCAGGGATACTCCAACCTTGTTATTTCTGAGGAGA
1 TTTTATTTCCAAAACACTAATTTCCCACAATCAGGGATACTCAAACCCTGTTATTTCCGAGGAGA
* * * *
81986 TAATCCAACCTCAATTTTATTTCCAAACTATCTATTTTTCACAATC-GAGGATACTCCAACCTCG
66 TAATCCAACCTCAACTTTATTTCAAAACTATCAATTTTTCACAATCGGA-GATACCCCAACCTCG
82050 G
130 G
* *
82051 TTTTATTTCCAAAACACTAATTTTCCACAATCGGGGATACTCAAACCCTGTTATTTCCGAGG-GA
1 TTTTATTTCCAAAACACTAATTTCCCACAATCAGGGATACTCAAACCCTGTTATTTCCGAGGAG-
* *
82115 ATACTCCAACC-CTGACTTTATTTCTAAAAC-ATCAATTTTTCACAATCGGAGATACCCCAACC
65 ATAATCCAACCTC-AACTTTATTTC-AAAACTATCAATTTTTCACAATCGGAGATACCCCAACC
82177 CCATTATTTC
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
129 2 0.02
130 98 0.92
131 6 0.06
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (130 bp):
TTTTATTTCCAAAACACTAATTTCCCACAATCAGGGATACTCAAACCCTGTTATTTCCGAGGAGA
TAATCCAACCTCAACTTTATTTCAAAACTATCAATTTTTCACAATCGGAGATACCCCAACCTCGG
Found at i:82247 original size:78 final size:78
Alignment explanation
Indices: 82034--82362 Score: 342
Period size: 79 Copynumber: 4.2 Consensus size: 78
82024 TCACAATCGA
* * * *
82034 GGATACTCCAACCTCGGTTTTATTTCCAAAACA-CTAATTTTCCACAATCGGGGATACTCAAACC
1 GGATACTCCAACC-CAGATTTATTTCTAAAACATC-AATTTTCCACAATCGGGGATACTCCAACC
*
82098 CTGTTATTTCCGAGG
64 CCGTTATTTCCGAGG
* * * * *
82113 GAATACTCCAACCCTGACTTTATTTCTAAAACATCAATTTTTCACAATCGGAGATACCCCAACCC
1 GGATACTCCAACCCAGA-TTTATTTCTAAAACATCAATTTTCCACAATCGGGGATACTCCAACCC
* **
82178 CATTATTTCTAAGG
65 CGTTATTTCCGAGG
* * *
82192 GGATACTCCAACCCAGATTTATTTCTAAAACATTAATTTTCCATAATCGGGGATACTCCAACCTC
1 GGATACTCCAACCCAGATTTATTTCTAAAACATCAATTTTCCACAATCGGGGATACTCCAACCCC
**
82257 GTTATTTTTGAGG
66 GTTATTTCCGAGG
* * * *
82270 GGATATTTCAACCCCAG-TCTCATTT-TCAAAACATCGATTTTCCATC-ATCGGGGATACTCCAA
1 GGATACTCCAA-CCCAGAT-TTATTTCT-AAAACATCAATTTTCCA-CAATCGGGGATACTCCAA
*
82332 CCCCGTCATTTCCGAGG
62 CCCCGTTATTTCCGAGG
* *
82349 AGATACTCTAACCC
1 GGATACTCCAACCC
82363 CATTTTTATC
Statistics
Matches: 207, Mismatches: 37, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
78 68 0.33
79 138 0.67
80 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (78 bp):
GGATACTCCAACCCAGATTTATTTCTAAAACATCAATTTTCCACAATCGGGGATACTCCAACCCC
GTTATTTCCGAGG
Found at i:82343 original size:157 final size:157
Alignment explanation
Indices: 82034--82362 Score: 369
Period size: 157 Copynumber: 2.1 Consensus size: 157
82024 TCACAATCGA
* *
82034 GGATACTCCAACCTCGGTTTTATTTCCAAAACACTAATTTTCCACAATCGGGGATACTCAAACCC
1 GGATACTCCAACC-CAGATTTATTTCCAAAACACTAATTTTCCACAATCGGGGATACTCAAACCC
* * *
82099 TGTTATTTCCGAGGGAATACTCCAACCCTGACTTTATTTCTAAAACATCAATTTTTCACAATCGG
65 TGTTATTTCCGAGGGAATACTCCAACCCAGACTATATTTCTAAAACATCAATTTTCCACAATCGG
* *
82164 AGATACCCCAACCCCATTATTTCTAAGG
130 AGATACCCCAACCCCATCATTTCCAAGG
* * * *
82192 GGATACTCCAACCCAGATTTATTTCTAAAACATTAATTTTCCATAATCGGGGATACTCCAA-CCT
1 GGATACTCCAACCCAGATTTATTTCCAAAACACTAATTTTCCACAATCGGGGATACTCAAACCCT
** * * * * *
82256 CGTTATTTTTGAGGGGATATTTCAACCCCAGTCTCAT-TTTC-AAAACATCGATTTTCCATC-AT
66 -GTTATTTCCGAGGGAATACTCCAA-CCCAGACT-ATATTTCTAAAACATCAATTTTCCA-CAAT
* * * *
82318 CGGGGATACTCCAACCCCGTCATTTCCGAGG
127 CGGAGATACCCCAACCCCATCATTTCCAAGG
* *
82349 AGATACTCTAACCC
1 GGATACTCCAACCC
82363 CATTTTTATC
Statistics
Matches: 143, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
156 3 0.02
157 115 0.80
158 24 0.17
159 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (157 bp):
GGATACTCCAACCCAGATTTATTTCCAAAACACTAATTTTCCACAATCGGGGATACTCAAACCCT
GTTATTTCCGAGGGAATACTCCAACCCAGACTATATTTCTAAAACATCAATTTTCCACAATCGGA
GATACCCCAACCCCATCATTTCCAAGG
Found at i:86260 original size:21 final size:21
Alignment explanation
Indices: 86236--86282 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
86226 AAAATATTCA
* *
86236 TATATTTTAAAATATTATAAT
1 TATATTTAAAAAAATTATAAT
* *
86257 TATATTTAAAAAAATTTTATT
1 TATATTTAAAAAAATTATAAT
86278 TATAT
1 TATAT
86283 AAATTTTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TATATTTAAAAAAATTATAAT
Found at i:88978 original size:29 final size:29
Alignment explanation
Indices: 88946--89004 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
88936 ACCATTTTCA
88946 TCAGGTAACATGTCTTTTTTGATTACTGT
1 TCAGGTAACATGTCTTTTTTGATTACTGT
*
88975 TCAGGTAACATGTCTTTTTTTATTACTGT
1 TCAGGTAACATGTCTTTTTTGATTACTGT
89004 T
1 T
89005 GTAAATAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.20, C:0.14, G:0.15, T:0.51
Consensus pattern (29 bp):
TCAGGTAACATGTCTTTTTTGATTACTGT
Found at i:91500 original size:15 final size:16
Alignment explanation
Indices: 91473--91502 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
91463 TATAATATAT
91473 AATAAATAATATTTAA
1 AATAAATAATATTTAA
91489 AATAAA-AATATTTA
1 AATAAATAATATTTA
91503 TTTTTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AATAAATAATATTTAA
Found at i:91545 original size:28 final size:27
Alignment explanation
Indices: 91492--91561 Score: 74
Period size: 29 Copynumber: 2.6 Consensus size: 27
91482 TATTTAAAAT
*
91492 AAAAATATTTATTTTTTAAATTTTTATG
1 AAAAATATTTATTTTTTAAATGTTTA-G
*
91520 AAAATATATTTATTTTTT-GATGTTTAG
1 AAAA-ATATTTATTTTTTAAATGTTTAG
*
91547 --AAATATTCATTTTTT
1 AAAAATATTTATTTTTT
91562 TATAGTTTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
24 12 0.32
25 2 0.05
27 1 0.03
28 10 0.26
29 13 0.34
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (27 bp):
AAAAATATTTATTTTTTAAATGTTTAG
Found at i:93305 original size:24 final size:24
Alignment explanation
Indices: 93278--93324 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
93268 AGATATAAAT
93278 TTAA-TATATATCAAATATATTATG
1 TTAATTATAT-TCAAATATATTATG
*
93302 TTAATTATATTTAAATATATTAT
1 TTAATTATATTCAAATATATTAT
93325 ATTATGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
TTAATTATATTCAAATATATTATG
Found at i:93348 original size:14 final size:14
Alignment explanation
Indices: 93319--93357 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
93309 TATTTAAATA
*
93319 TATTATATTATGTT
1 TATTTTATTATGTT
*
93333 TATTTTATTATTTT
1 TATTTTATTATGTT
93347 TATATTTATTA
1 TAT-TTTATTA
93358 AATATGTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (14 bp):
TATTTTATTATGTT
Found at i:95393 original size:35 final size:35
Alignment explanation
Indices: 95347--95463 Score: 198
Period size: 35 Copynumber: 3.3 Consensus size: 35
95337 CCAGCCCACG
*
95347 TCCATCAGCTTCTAGCCACGAACATCGGCAGCAGC
1 TCCATCAGCTTCTAGCCACGAACACCGGCAGCAGC
95382 TCCATCAGCTTCTAGCCACGAACACCGGCAGCAGC
1 TCCATCAGCTTCTAGCCACGAACACCGGCAGCAGC
* *
95417 TCCATCAGCTTATAGCCACAAACACCGGCAGCAGC
1 TCCATCAGCTTCTAGCCACGAACACCGGCAGCAGC
*
95452 TCCATCAACTTC
1 TCCATCAGCTTC
95464 CATTCCAACG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 77 1.00
ACGTcount: A:0.27, C:0.38, G:0.17, T:0.17
Consensus pattern (35 bp):
TCCATCAGCTTCTAGCCACGAACACCGGCAGCAGC
Found at i:96282 original size:8 final size:8
Alignment explanation
Indices: 96269--96308 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
96259 ACGAAATTAG
96269 AATAAAAA
1 AATAAAAA
96277 AATAAAAA
1 AATAAAAA
*
96285 TAATAACAA
1 -AATAAAAA
*
96294 AATAAAAT
1 AATAAAAA
96302 AATAAAA
1 AATAAAA
96309 TTTTTTATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 21 0.75
9 7 0.25
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (8 bp):
AATAAAAA
Found at i:96295 original size:17 final size:16
Alignment explanation
Indices: 96269--96308 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
96259 ACGAAATTAG
96269 AATAAAAAAATAAAAAT
1 AATAAAAAAAT-AAAAT
*
96286 AATAACAAAATAAAAT
1 AATAAAAAAATAAAAT
96302 AATAAAA
1 AATAAAA
96309 TTTTTTATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (16 bp):
AATAAAAAAATAAAAT
Found at i:107263 original size:88 final size:88
Alignment explanation
Indices: 107162--107451 Score: 343
Period size: 88 Copynumber: 3.3 Consensus size: 88
107152 ATTTTTTCTA
* *
107162 ACACGATAGAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACTCGAAAGATATGACAAATG
1 ACACAATAGAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACTCGAAAGATATGAAAAATG
* *
107227 CATAAAGTATAAGATTCCTTTTG
66 CACAAGGTATAAGATTCCTTTTG
* * * * ** * * * * * *
107250 AGACGACAAAAAATATTTGACTAATGTATAGTAAATTTCTTGGAACCCGAAAGATGTGATAGATG
1 ACACAATAGAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACTCGAAAGATATGAAAAATG
107315 CACAAGGTATCAA-ATT-CTTTCTG
66 CACAAGGTAT-AAGATTCCTTT-TG
107338 ACACAATAGAAAATATTTGACTAATGCCTAATAAATTTCTT-AGAACTCGAAAGATATGAAAAAT
1 ACACAATAGAAAATATTTGACTAATGCCTAATAAATTTCTTGA-AACTCGAAAGATATGAAAAAT
* * *
107402 GCACGAGGTATCAGATTCCTTCTG
65 GCACAAGGTATAAGATTCCTTTTG
* *
107426 ATACAATAGAAAATATTTAACTAATG
1 ACACAATAGAAAATATTTGACTAATG
107452 ACACGACAGA
Statistics
Matches: 167, Mismatches: 30, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
87 5 0.03
88 157 0.94
89 5 0.03
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.30
Consensus pattern (88 bp):
ACACAATAGAAAATATTTGACTAATGCCTAATAAATTTCTTGAAACTCGAAAGATATGAAAAATG
CACAAGGTATAAGATTCCTTTTG
Found at i:112715 original size:12 final size:14
Alignment explanation
Indices: 112697--112742 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 14
112687 GCCGGGGATC
112697 TTAATTTTTT-TAA
1 TTAATTTTTTATAA
112710 -TAATTTTTTATAA
1 TTAATTTTTTATAA
*
112723 TTAATTAATTTTAAAA
1 TTAATT--TTTTATAA
112739 TTAA
1 TTAA
112743 AATTAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 9 0.32
13 3 0.11
14 5 0.18
16 11 0.39
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTAATTTTTTATAA
Found at i:112768 original size:19 final size:17
Alignment explanation
Indices: 112746--112793 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 17
112736 AAATTAAAAT
112746 TAAAATTTATTAAATTATA
1 TAAAATTT-TTAAATT-TA
112765 TAAAA-TTTTAAATTTA
1 TAAAATTTTTAAATTTA
112781 TAATAATTATTTA
1 TAA-AATT-TTTA
112794 TGATCGAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.19
17 9 0.35
18 3 0.12
19 9 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAAATTTTTAAATTTA
Found at i:112788 original size:27 final size:25
Alignment explanation
Indices: 112740--112790 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
112730 ATTTTAAAAT
*
112740 TAAAATTAAAATTTATTAAATTATA
1 TAAAATTAAAATTTATAAAATTATA
*
112765 TAAAATTTTAAATTTATAATAATTAT
1 TAAAA-TTAAAATTTATAA-AATTAT
112791 TTATGATCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 11 0.50
27 6 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TAAAATTAAAATTTATAAAATTATA
Found at i:112890 original size:28 final size:29
Alignment explanation
Indices: 112841--112897 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
112831 TATATTGGTT
112841 AATTACATAAAAATTGATTATTTAAAAAA
1 AATTACATAAAAATTGATTATTTAAAAAA
*
112870 AATTACAT-AAAATTTATTATTTAAAAAA
1 AATTACATAAAAATTGATTATTTAAAAAA
112898 TATAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 19 0.70
29 8 0.30
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (29 bp):
AATTACATAAAAATTGATTATTTAAAAAA
Found at i:113045 original size:16 final size:17
Alignment explanation
Indices: 113014--113047 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
113004 AATTTTAAAA
113014 AAATTAAATATAAATAT
1 AAATTAAATATAAATAT
*
113031 AAATT-AATTTAAATAT
1 AAATTAAATATAAATAT
113047 A
1 A
113048 TTATTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATTAAATATAAATAT
Found at i:116943 original size:7 final size:7
Alignment explanation
Indices: 116858--116935 Score: 79
Period size: 7 Copynumber: 10.9 Consensus size: 7
116848 CATATCAAAT
116858 TTTAAAA
1 TTTAAAA
116865 -TTAAAA
1 TTTAAAA
116871 -TTAAAA
1 TTTAAAA
* *
116877 TTTAGAT
1 TTTAAAA
116884 TTTAAAAA
1 TTT-AAAA
116892 TCTTGATAAA
1 T-TT-A-AAA
*
116902 ATTAAAA
1 TTTAAAA
116909 TTTAAAA
1 TTTAAAA
116916 TTTAAAA
1 TTTAAAA
116923 TTTAAAA
1 TTTAAAA
116930 TTTAAA
1 TTTAAA
116936 TTTCAAATGA
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
6 12 0.20
7 36 0.60
8 4 0.07
9 5 0.08
10 3 0.05
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (7 bp):
TTTAAAA
Found at i:116964 original size:14 final size:13
Alignment explanation
Indices: 116898--116964 Score: 71
Period size: 14 Copynumber: 5.0 Consensus size: 13
116888 AAAATCTTGA
116898 TAAAATTAAAATT
1 TAAAATTAAAATT
116911 TAAAATTTAAAATT
1 TAAAA-TTAAAATT
*
116925 TAAAATTTAAATT
1 TAAAATTAAAATT
* * *
116938 TCAAATGATAATT
1 TAAAATTAAAATT
*
116951 ATAAAATTCAAATT
1 -TAAAATTAAAATT
116965 GGATAACTAA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
13 21 0.49
14 22 0.51
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.40
Consensus pattern (13 bp):
TAAAATTAAAATT
Found at i:118124 original size:99 final size:99
Alignment explanation
Indices: 118007--118205 Score: 346
Period size: 99 Copynumber: 2.0 Consensus size: 99
117997 AATATTGAGT
*
118007 ATTTTTCTAAAAATTTCAAAACCACTTTACTTTTTCTCTAGCTTTATTTAAAGCTATGAACTCT-
1 ATTTTTCTAAAAATTTCAAAACCACTATACTTTTTCTCTAGCTTTATTTAAAGCTATGAA-TCTA
*
118071 GATTCCATCAGATTTGGCTATGTATGTTTGTTTAA
65 GATTCCATCAAATTTGGCTATGTATGTTTGTTTAA
* *
118106 ATTTTTTTAAAAATTTCAAAACCACTATACTTTTTCTCTAGCTTTATTTAAAGCTATGAATTTAG
1 ATTTTTCTAAAAATTTCAAAACCACTATACTTTTTCTCTAGCTTTATTTAAAGCTATGAATCTAG
118171 ATTCCATCAAATTTGGCTATGTATGTTTGTTTAA
66 ATTCCATCAAATTTGGCTATGTATGTTTGTTTAA
118205 A
1 A
118206 AGATTTTTAA
Statistics
Matches: 95, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
98 2 0.02
99 93 0.98
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.46
Consensus pattern (99 bp):
ATTTTTCTAAAAATTTCAAAACCACTATACTTTTTCTCTAGCTTTATTTAAAGCTATGAATCTAG
ATTCCATCAAATTTGGCTATGTATGTTTGTTTAA
Found at i:121213 original size:2 final size:2
Alignment explanation
Indices: 121206--121241 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
121196 AATAATAGTT
121206 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
121242 AAAGAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:121287 original size:10 final size:10
Alignment explanation
Indices: 121265--121294 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
121255 TTTATGTTAA
121265 AAATAATAAAT
1 AAATAA-AAAT
121276 AAATAAAAAT
1 AAATAAAAAT
121286 AAATAAAAA
1 AAATAAAAA
121295 GGAGACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.68
11 6 0.32
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:122772 original size:9 final size:10
Alignment explanation
Indices: 122747--122773 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
122737 AACTGTATTC
122747 GATTTTTATA
1 GATTTTTATA
122757 GATTTTTATA
1 GATTTTTATA
122767 GATTTTT
1 GATTTTT
122774 CTCGCATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (10 bp):
GATTTTTATA
Found at i:127838 original size:42 final size:42
Alignment explanation
Indices: 127791--127900 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
127781 TTTTTCTCTC
* * * *
127791 CTCCTCATGTCA-TCTCTTCTCTCTCTATTATCTATCATATTT
1 CTCCTCATATCATTC-CTTCTATCTCTACTATCTATCATATCT
* * *
127833 CTCCTCCTATCATTCCTTCTATCTCTACTATCTCTCTTATCT
1 CTCCTCATATCATTCCTTCTATCTCTACTATCTATCATATCT
*
127875 CTCCTCCTATCA-TCCTTTCTATCTCT
1 CTCCTCATATCATTCC-TTCTATCTCT
127901 TTAAGGGTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 3 0.05
42 54 0.92
43 2 0.03
ACGTcount: A:0.15, C:0.36, G:0.01, T:0.48
Consensus pattern (42 bp):
CTCCTCATATCATTCCTTCTATCTCTACTATCTATCATATCT
Found at i:130643 original size:18 final size:18
Alignment explanation
Indices: 130620--130661 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
130610 ATCACTTTCA
130620 AAATTACATCATAAAAAG
1 AAATTACATCATAAAAAG
130638 AAATTACATCATAAAAAG
1 AAATTACATCATAAAAAG
*
130656 AGATTA
1 AAATTA
130662 TAAAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.24
Consensus pattern (18 bp):
AAATTACATCATAAAAAG
Found at i:130933 original size:54 final size:54
Alignment explanation
Indices: 130851--130959 Score: 182
Period size: 54 Copynumber: 2.0 Consensus size: 54
130841 TTTTAATAAG
* * * *
130851 TATCCAATTATACTTAGCTGAAATGATTAGTGGCAACTTCAAATCTTCGATCAC
1 TATCCAATTATACTTAGCTCAAATGATTAATGGCAACTTCAAATCATCAATCAC
130905 TATCCAATTATACTTAGCTCAAATGATTAATGGCAACTTCAAATCATCAATCAC
1 TATCCAATTATACTTAGCTCAAATGATTAATGGCAACTTCAAATCATCAATCAC
130959 T
1 T
130960 TCGCGGTGGC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (54 bp):
TATCCAATTATACTTAGCTCAAATGATTAATGGCAACTTCAAATCATCAATCAC
Found at i:132014 original size:2 final size:2
Alignment explanation
Indices: 132007--132038 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
131997 TTACATATTG
132007 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
132039 TTTATATTTA
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:132663 original size:11 final size:11
Alignment explanation
Indices: 132656--132695 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
132646 ATAAATGCGT
132656 TTTAAATGAGC
1 TTTAAATGAGC
**
132667 TTTAAATGATT
1 TTTAAATGAGC
132678 TATTAAATGAGC
1 T-TTAAATGAGC
132690 TTTAAA
1 TTTAAA
132696 CAATTTGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.42
Consensus pattern (11 bp):
TTTAAATGAGC
Found at i:132701 original size:23 final size:23
Alignment explanation
Indices: 132657--132701 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
132647 TAAATGCGTT
**
132657 TTAAATGAGCTTTAAATGATTTA
1 TTAAATGAGCTTTAAACAATTTA
132680 TTAAATGAGCTTTAAACAATTT
1 TTAAATGAGCTTTAAACAATTT
132702 GTAAACAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (23 bp):
TTAAATGAGCTTTAAACAATTTA
Found at i:132934 original size:2 final size:2
Alignment explanation
Indices: 132927--132955 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
132917 GTAGTATCGA
132927 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
132956 GAGAGAGAGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:132960 original size:2 final size:2
Alignment explanation
Indices: 132955--133033 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
132945 ATATATATAT
132955 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
132997 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
133034 TAGAATCTAA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:136564 original size:16 final size:15
Alignment explanation
Indices: 136545--136585 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
136535 AAAATAAAAA
136545 ATATAATAATTAAATC
1 ATATAA-AATTAAATC
136561 ATAT-AAATATAAATC
1 ATATAAAAT-TAAATC
136576 ATATAAAATT
1 ATATAAAATT
136586 TATGAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 3 0.13
15 12 0.52
16 8 0.35
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATAAAATTAAATC
Found at i:145416 original size:2 final size:2
Alignment explanation
Indices: 145376--145404 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
145366 AGCTGAAGAA
145376 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
145405 AATTAGGAGA
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:151920 original size:2 final size:2
Alignment explanation
Indices: 151908--151937 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
151898 TGACAACAAA
151908 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
151938 ATCATTGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:154743 original size:20 final size:20
Alignment explanation
Indices: 154718--154756 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
154708 ATGTAAACAT
*
154718 ATATTCCGACTAGCATCACA
1 ATATTCCAACTAGCATCACA
154738 ATATTCCAACTAGCATCAC
1 ATATTCCAACTAGCATCAC
154757 CGGCCAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.31, G:0.08, T:0.26
Consensus pattern (20 bp):
ATATTCCAACTAGCATCACA
Found at i:159322 original size:21 final size:23
Alignment explanation
Indices: 159280--159324 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
159270 CATTATTATT
**
159280 CAAAAATCAGAAAATAGTAACAA
1 CAAAAATCAGAAAATAAAAACAA
159303 CAAAAAT-A-AAAATAAAAACAA
1 CAAAAATCAGAAAATAAAAACAA
159324 C
1 C
159325 TGCCACTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.60
22 1 0.05
23 7 0.35
ACGTcount: A:0.71, C:0.13, G:0.04, T:0.11
Consensus pattern (23 bp):
CAAAAATCAGAAAATAAAAACAA
Found at i:160695 original size:18 final size:18
Alignment explanation
Indices: 160643--160702 Score: 86
Period size: 18 Copynumber: 3.3 Consensus size: 18
160633 TGAGAATCAC
160643 AAATTTTTTAGGAATT-T
1 AAATTTTTTAGGAATTAT
160660 AAGATTTTTTAGGAATTAT
1 AA-ATTTTTTAGGAATTAT
* *
160679 GAATTTTTTAAGAATTAT
1 AAATTTTTTAGGAATTAT
160697 AAATTT
1 AAATTT
160703 CTATAATCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
17 2 0.05
18 34 0.89
19 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (18 bp):
AAATTTTTTAGGAATTAT
Found at i:167458 original size:24 final size:24
Alignment explanation
Indices: 167411--167487 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
167401 ATACTTGATA
* * **
167411 ATTATAAACATAATATGATTAAAT
1 ATTATAAATATAATATTAAAAAAT
167435 ATTATAAATATAATATTAAAAAAT
1 ATTATAAATATAATATTAAAAAAT
* *
167459 AATTA-AACTATAA-AATAAAAAAT
1 -ATTATAAATATAATATTAAAAAAT
*
167482 AATATA
1 ATTATA
167488 TATACGATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
22 3 0.07
23 10 0.23
24 27 0.61
25 4 0.09
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (24 bp):
ATTATAAATATAATATTAAAAAAT
Found at i:167477 original size:23 final size:24
Alignment explanation
Indices: 167442--167521 Score: 72
Period size: 27 Copynumber: 3.1 Consensus size: 24
167432 AATATTATAA
167442 ATATAATATTAAAAAATAATTAAACT
1 ATATAA-A-TAAAAAATAATTAAACT
*
167468 ATA-AAATAAAAAATAATATATATACG
1 ATATAAATAAAAAATAAT-TA-A-ACT
* *
167494 ATATAAATAAAATATATTTAAATCT
1 ATATAAATAAAAAATAATTAAA-CT
167519 ATA
1 ATA
167522 CAAAATTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
23 11 0.24
24 4 0.09
25 8 0.18
26 10 0.22
27 12 0.27
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (24 bp):
ATATAAATAAAAAATAATTAAACT
Found at i:167699 original size:11 final size:11
Alignment explanation
Indices: 167685--167778 Score: 52
Period size: 11 Copynumber: 8.5 Consensus size: 11
167675 TATTATATGA
167685 TATAAATATAT
1 TATAAATATAT
*
167696 TATAAAAAATAAT
1 TAT-AAATAT-AT
*
167709 TA-AAA-ATAA
1 TATAAATATAT
*
167718 TATAAATATAA
1 TATAAATATAT
167729 TATAAATATA-
1 TATAAATATAT
* *
167739 TAAAAATTTA-
1 TATAAATATAT
* *
167749 AATAAAATAAAT
1 TAT-AAATATAT
*
167761 TATCAATATATT
1 TATAAATATA-T
167773 TATAAA
1 TATAAA
167779 AAATAATATA
Statistics
Matches: 64, Mismatches: 12, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
9 3 0.05
10 14 0.22
11 30 0.47
12 13 0.20
13 4 0.06
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (11 bp):
TATAAATATAT
Found at i:167715 original size:10 final size:11
Alignment explanation
Indices: 167684--167745 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
167674 TTATTATATG
*
167684 ATATAAATATA
1 ATATAAAAATA
*
167695 TTATAAAAAATA
1 ATAT-AAAAATA
167707 AT-TAAAAATA
1 ATATAAAAATA
*
167717 ATATAAATATA
1 ATATAAAAATA
167728 ATAT--AAAT-
1 ATATAAAAATA
167736 ATATAAAAAT
1 ATATAAAAAT
167746 TTAAATAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
8 4 0.10
9 3 0.07
10 13 0.31
11 15 0.36
12 7 0.17
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
ATATAAAAATA
Found at i:167731 original size:38 final size:38
Alignment explanation
Indices: 167684--167807 Score: 114
Period size: 38 Copynumber: 3.2 Consensus size: 38
167674 TTATTATATG
167684 ATATAAATATATTATAAAAAATAATTAAA-AATAATATAA
1 ATATAAATATATTATAAAAAATAATTAAATAA-AATA-AA
*
167723 ATAT-AATATAAATATATAAAAAT--TTAAATAAAATAAA
1 ATATAAATAT-ATTATA-AAAAATAATTAAATAAAATAAA
* * * *
167760 TTATCAATATATTTATAAAAAATAA-TATATTAAATATAA
1 ATATAAATATA-TTATAAAAAATAATTAAATAAAATA-AA
167799 ATATAAATA
1 ATATAAATA
167808 ATAAAATAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
37 12 0.17
38 32 0.46
39 20 0.29
40 6 0.09
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (38 bp):
ATATAAATATATTATAAAAAATAATTAAATAAAATAAA
Found at i:167753 original size:20 final size:20
Alignment explanation
Indices: 167684--167836 Score: 69
Period size: 20 Copynumber: 8.0 Consensus size: 20
167674 TTATTATATG
* *
167684 ATATAA-ATATATTATAAAA
1 ATATAATATAAATAATAAAA
* *
167703 A-ATAATTAAAAATAATATAA
1 ATATAA-TATAAATAATAAAA
167723 ATATAATATAAATATATAAAA
1 ATATAATATAAATA-ATAAAA
*
167744 ATTTAA-AT-AA-AAT-AAA
1 ATATAATATAAATAATAAAA
* * *
167760 TTATCAATAT-ATTTATAAAA
1 ATAT-AATATAAATAATAAAA
* *
167780 A-ATAATAT-ATTAAATATAA
1 ATATAATATAAAT-AATAAAA
167799 ATATAA-AT-AATAA-AATAA
1 ATATAATATAAATAATAA-AA
* *
167817 ATATTATATAAATACTAAAA
1 ATATAATATAAATAATAAAA
167837 TAAAATGAAA
Statistics
Matches: 102, Mismatches: 18, Indels: 27
0.69 0.12 0.18
Matches are distributed among these distances:
16 5 0.05
17 5 0.05
18 25 0.25
19 19 0.19
20 32 0.31
21 16 0.16
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (20 bp):
ATATAATATAAATAATAAAA
Found at i:167756 original size:21 final size:19
Alignment explanation
Indices: 167697--167758 Score: 54
Period size: 21 Copynumber: 3.1 Consensus size: 19
167687 TAAATATATT
167697 ATAAAAA-ATAATTAAAAATA
1 ATAAAAATATAA-T-AAAATA
*
167717 ATATAAATATAATATAAATA
1 ATAAAAATATAATA-AAATA
*
167737 TATAAAAATTTAAATAAAATA
1 -ATAAAAATAT-AATAAAATA
167758 A
1 A
167759 ATTATCAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
19 1 0.03
20 13 0.37
21 17 0.49
22 4 0.11
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
ATAAAAATATAATAAAATA
Found at i:167818 original size:12 final size:12
Alignment explanation
Indices: 167779--167840 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
167769 TATTTATAAA
* *
167779 AAATAATATATT
1 AAATAATAAAAT
167791 AAAT-ATAAATAT
1 AAATAATAAA-AT
167803 AAATAATAAAAT
1 AAATAATAAAAT
* *
167815 AAAT-ATTATAT
1 AAATAATAAAAT
*
167826 AAATACTAAAAT
1 AAATAATAAAAT
167838 AAA
1 AAA
167841 ATGAAAAACG
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
11 13 0.32
12 22 0.55
13 5 0.12
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATAATAAAAT
Found at i:167829 original size:23 final size:24
Alignment explanation
Indices: 167709--167840 Score: 89
Period size: 23 Copynumber: 5.7 Consensus size: 24
167699 AAAAAATAAT
*
167709 TAAA-AATAATATAAATAT-AATA
1 TAAATAATAAAATAAATATAAATA
* *
167731 TAAAT-ATATAA-AAATTTAAATA
1 TAAATAATAAAATAAATATAAATA
** * **
167753 -AAATAA-ATTATCAATATATTTA
1 TAAATAATAAAATAAATATAAATA
*
167775 TAAAAAATAATATATTAAATATAAATA
1 TAAATAATAA-A-A-TAAATATAAATA
*
167802 TAAATAATAAAATAAATAT-TATA
1 TAAATAATAAAATAAATATAAATA
*
167825 TAAATACTAAAATAAA
1 TAAATAATAAAATAAA
167841 ATGAAAAACG
Statistics
Matches: 84, Mismatches: 17, Indels: 17
0.71 0.14 0.14
Matches are distributed among these distances:
21 12 0.14
22 20 0.24
23 23 0.27
24 8 0.10
25 1 0.01
26 2 0.02
27 18 0.21
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (24 bp):
TAAATAATAAAATAAATATAAATA
Found at i:167838 original size:31 final size:30
Alignment explanation
Indices: 167774--167841 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 30
167764 CAATATATTT
167774 ATAAAAAATAATATATTAAATATAAATATAA
1 ATAAAAAATAATATATT-AATATAAATATAA
167805 ATAATAAAATAA-ATATT-ATATAAATACTAAA
1 ATAA-AAAATAATATATTAATATAAATA-T-AA
167836 ATAAAA
1 ATAAAA
167842 TGAAAAACGA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
29 9 0.26
30 3 0.09
31 15 0.44
32 7 0.21
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (30 bp):
ATAAAAAATAATATATTAATATAAATATAA
Found at i:168704 original size:32 final size:32
Alignment explanation
Indices: 168668--168732 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
168658 ATGCTTAGTC
168668 AACAATACTGCTACACTTGAAAATGTGGTGGT
1 AACAATACTGCTACACTTGAAAATGTGGTGGT
**
168700 AACAATACTGCTACACTTGAGCATGTGGTGGT
1 AACAATACTGCTACACTTGAAAATGTGGTGGT
168732 A
1 A
168733 CTTCAGAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (32 bp):
AACAATACTGCTACACTTGAAAATGTGGTGGT
Found at i:168873 original size:19 final size:18
Alignment explanation
Indices: 168849--168891 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
168839 AAAAATTCAT
*
168849 ATATATATATATTCTTTAA
1 ATATATATATATT-TTAAA
*
168868 ATATATTTATATTTTAAA
1 ATATATATATATTTTAAA
168886 ATATAT
1 ATATAT
168892 TTTTTATCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATATATATATTTTAAA
Found at i:170165 original size:18 final size:18
Alignment explanation
Indices: 170142--170176 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
170132 TAGATACATA
*
170142 AAAAATAACACAAAAATT
1 AAAAATAACAAAAAAATT
170160 AAAAATAACAAAAAAAT
1 AAAAATAACAAAAAAAT
170177 AAACATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (18 bp):
AAAAATAACAAAAAAATT
Found at i:170173 original size:17 final size:18
Alignment explanation
Indices: 170142--170184 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
170132 TAGATACATA
*
170142 AAAAATAACACAAAAATT
1 AAAAATAACACAAAAAAT
170160 AAAAATAACA-AAAAAAT
1 AAAAATAACACAAAAAAT
*
170177 AAACATAA
1 AAAAATAA
170185 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (18 bp):
AAAAATAACACAAAAAAT
Found at i:173102 original size:2 final size:2
Alignment explanation
Indices: 173095--173120 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
173085 TTTCCATTTA
173095 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
173121 TTAATTTTCT
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:176946 original size:21 final size:22
Alignment explanation
Indices: 176904--176946 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
176894 GAGTTATGAA
**
176904 CAAATGTTTTTAAATCTTAAAT
1 CAAATGTTTTTAAATCGGAAAT
*
176926 CAAATGTTTTTAAGT-GGAAAT
1 CAAATGTTTTTAAATCGGAAAT
176947 ATTCTAAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.42
Consensus pattern (22 bp):
CAAATGTTTTTAAATCGGAAAT
Found at i:177082 original size:13 final size:13
Alignment explanation
Indices: 177064--177090 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
177054 ACATTATGAT
177064 TTGTATCGATACA
1 TTGTATCGATACA
177077 TTGTATCGATACA
1 TTGTATCGATACA
177090 T
1 T
177091 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:177087 original size:33 final size:32
Alignment explanation
Indices: 177045--177109 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
177035 CACATCCAGA
*
177045 TGTATCGATACAT-TATGATTTGTATCGATACAT
1 TGTATCGATACATGT-TCA-TTGTATCGATACAT
177078 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTTCATTGTATCGATACAT
177110 GCACAATTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATGTTCATTGTATCGATACAT
Found at i:177120 original size:20 final size:19
Alignment explanation
Indices: 177074--177130 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
177064 TTGTATCGAT
*
177074 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGC
*
177093 TCATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
177112 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
177131 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:177197 original size:33 final size:32
Alignment explanation
Indices: 177160--177222 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
177150 TACCATTGTT
177160 TGTATCAATACATG-GCACATTGTATCGATATAA
1 TGTATCAATACATGAG-A-ATTGTATCGATATAA
*
177193 TGTATCGATACATGATGAATTGTATCGATA
1 TGTATCAATACATGA-GAATTGTATCGATA
177223 CATTGCTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 25 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTATCAATACATGAGAATTGTATCGATATAA
Found at i:178935 original size:20 final size:21
Alignment explanation
Indices: 178892--178944 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
178882 GCCAATGACT
**
178892 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
178913 TGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
178933 TGTATCGATACA
1 TGTATCGATACA
178945 ATGTATCGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:179532 original size:21 final size:22
Alignment explanation
Indices: 179506--179551 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
179496 ACATTTTTCT
179506 TTTCTCCCCCTTAATAAAA-AA
1 TTTCTCCCCCTTAATAAAATAA
*
179527 TTTCTCCCCCTTAGTAAAATAA
1 TTTCTCCCCCTTAATAAAATAA
179549 TTT
1 TTT
179552 AATACTTTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.39
Consensus pattern (22 bp):
TTTCTCCCCCTTAATAAAATAA
Found at i:181407 original size:13 final size:13
Alignment explanation
Indices: 181389--181426 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
181379 ATAATCCCCT
*
181389 TGTATCGATACAG
1 TGTATCGATACAA
181402 TGTATCGATACAA
1 TGTATCGATACAA
181415 TGTATCGATACA
1 TGTATCGATACA
181427 TCTGTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:181622 original size:8 final size:8
Alignment explanation
Indices: 181609--181634 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
181599 AACATCATTC
181609 ATCACAAA
1 ATCACAAA
181617 ATCACAAA
1 ATCACAAA
181625 ATCACAAA
1 ATCACAAA
181633 AT
1 AT
181635 TTAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:187592 original size:13 final size:13
Alignment explanation
Indices: 187574--187599 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
187564 ACATTTTATG
187574 ATGTATCGATACA
1 ATGTATCGATACA
187587 ATGTATCGATACA
1 ATGTATCGATACA
187600 TACTGTGTGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:187694 original size:20 final size:21
Alignment explanation
Indices: 187651--187703 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
187641 GCCAATGACT
**
187651 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
187672 TGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
187692 TGTATCGATACA
1 TGTATCGATACA
187704 ATGCAGTCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:190253 original size:13 final size:13
Alignment explanation
Indices: 190235--190261 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
190225 ACAATGTTCT
190235 TTGTATTGATACA
1 TTGTATTGATACA
190248 TTGTATTGATACA
1 TTGTATTGATACA
190261 T
1 T
190262 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (13 bp):
TTGTATTGATACA
Found at i:190375 original size:10 final size:11
Alignment explanation
Indices: 190354--190394 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
190344 CCCTAATGAT
190354 TTTTCATCAAA
1 TTTTCATCAAA
190365 TTTTC-TCAAA
1 TTTTCATCAAA
*
190375 TTTTC-TTAAA
1 TTTTCATCAAA
*
190385 ATTTCATCAA
1 TTTTCATCAA
190395 TTCTACATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
10 18 0.69
11 8 0.31
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (11 bp):
TTTTCATCAAA
Found at i:191787 original size:33 final size:33
Alignment explanation
Indices: 191741--191803 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
191731 AGTTGATCAT
191741 TTCACTTTCGCAGCACATGAATGAGCACTTCAC
1 TTCACTTTCGCAGCACATGAATGAGCACTTCAC
* *
191774 TTCACTTTTGCAGCACATGGATGAGCACTT
1 TTCACTTTCGCAGCACATGAATGAGCACTT
191804 TAGTGCACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.30
Consensus pattern (33 bp):
TTCACTTTCGCAGCACATGAATGAGCACTTCAC
Found at i:191813 original size:33 final size:33
Alignment explanation
Indices: 191743--191813 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
191733 TTGATCATTT
*
191743 CACTTTCGCAGCACATGAATGAGCACTTCACTT
1 CACTTTCGCAGCACATGAATGAGCACTTCACTG
* * * *
191776 CACTTTTGCAGCACATGGATGAGCACTTTAGTG
1 CACTTTCGCAGCACATGAATGAGCACTTCACTG
191809 CACTT
1 CACTT
191814 AACCGACGGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (33 bp):
CACTTTCGCAGCACATGAATGAGCACTTCACTG
Found at i:192581 original size:144 final size:143
Alignment explanation
Indices: 192404--192688 Score: 416
Period size: 144 Copynumber: 2.0 Consensus size: 143
192394 GGGGAGATTT
*
192404 TTAGGATTTTGGTTTTGATATAACAAAGATTGAATAAAACTAG-AAAATATTTGAAAAACCGTAA
1 TTAGGATCTTGGTTTTGATATAACAAAGATTGAATAAAAC-AGAAAAATATTTGAAAAACCGTAA
* ** *
192468 ACAAGTTTTGTTCGTTTAAAAACACTCTAAAAAC-ATGTTCTAAGTAATTTTTTATATCAAT-GA
65 ACAAGTTTTATTCACTCAAAAACACTCTAAAAACTA-GTTCTAAGTAA--TTTTATATCAATGGA
192531 A-TGTTTTAGAGTTATTG
127 AGT-TTTTAGAGTTATTG
* *
192548 TTAGGATCTTGGTTTTGATATAACAAAGATTGAATAAAACCGAAAAATGTTTGAAAAACCGTAAA
1 TTAGGATCTTGGTTTTGATATAACAAAGATTGAATAAAACAGAAAAATATTTGAAAAACCGTAAA
* *
192613 CAAGTTTTATTCACTCATAAACACTCTAAAAACTAGTTCTAAGTAATTTTCTATCAATGGAAGTT
66 CAAGTTTTATTCACTCAAAAACACTCTAAAAACTAGTTCTAAGTAATTTTATATCAATGGAAGTT
192678 TTTAGAGTTAT
131 TTTAGAGTTAT
192689 AAACAAATGT
Statistics
Matches: 128, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
142 11 0.09
143 16 0.12
144 100 0.78
145 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (143 bp):
TTAGGATCTTGGTTTTGATATAACAAAGATTGAATAAAACAGAAAAATATTTGAAAAACCGTAAA
CAAGTTTTATTCACTCAAAAACACTCTAAAAACTAGTTCTAAGTAATTTTATATCAATGGAAGTT
TTTAGAGTTATTG
Found at i:192909 original size:20 final size:19
Alignment explanation
Indices: 192863--192919 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
192853 TTGTATTGAT
**
192863 ACATTGTATCGATACATAT
1 ACATTGTATCGATACATGG
*
192882 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
192901 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
192920 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:199170 original size:13 final size:13
Alignment explanation
Indices: 199152--199178 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
199142 ACAACATTCC
199152 TTGTATCGATACA
1 TTGTATCGATACA
199165 TTGTATCGATACA
1 TTGTATCGATACA
199178 T
1 T
199179 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:201673 original size:13 final size:13
Alignment explanation
Indices: 201655--201681 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
201645 ACATTATGCT
201655 TTGTATCGATACA
1 TTGTATCGATACA
201668 TTGTATCGATACA
1 TTGTATCGATACA
201681 T
1 T
201682 ATTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Done.