Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014766.1 Kokia drynarioides strain JFW-HI SEQ_129805, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 206991
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 968 characters in sequence are not A, C, G, or T
Found at i:455 original size:30 final size:31
Alignment explanation
Indices: 413--584 Score: 169
Period size: 30 Copynumber: 5.7 Consensus size: 31
403 NNNNNNNNNN
*
413 AAATGGTAA-TTTTTGAAAGTTTTGGGGTTAA
1 AAATGG-AATTTTTTGAAAGTTTTGGGGTCAA
*
444 AAATGGAATTTTTTG-AAGTTTTGGGGTAAA
1 AAATGGAATTTTTTGAAAGTTTTGGGGTCAA
* * * *
474 AAATGGAATTTTTAG-AAGTTTCGAGGTCGA
1 AAATGGAATTTTTTGAAAGTTTTGGGGTCAA
* * *
504 AAATGGAATTTTTAG-AAGTTTTGAGGTCGA
1 AAATGGAATTTTTTGAAAGTTTTGGGGTCAA
*
534 AAATGAAATTTTTTG-AAG-TTTGAGGG-CAA
1 AAATGGAATTTTTTGAAAGTTTTG-GGGTCAA
* *
563 AAATGTAATTTTTTGACAGTTT
1 AAATGGAATTTTTTGAAAGTTT
585 AGGGACCTCC
Statistics
Matches: 124, Mismatches: 13, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
29 20 0.16
30 90 0.73
31 14 0.11
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (31 bp):
AAATGGAATTTTTTGAAAGTTTTGGGGTCAA
Found at i:507 original size:60 final size:59
Alignment explanation
Indices: 442--584 Score: 187
Period size: 60 Copynumber: 2.4 Consensus size: 59
432 TTTTGGGGTT
* * *
442 AAAAATGGAATTTTTTGAAGTTTTGGGGTAAAAAATGGAATTTTTAGAAGTTTCGAGGTC
1 AAAAATGGAATTTTTTGAAGTTTTGAGGTAAAAAATGAAATTTTTAGAAGTTT-GAGGGC
* * ** *
502 GAAAATGGAATTTTTAGAAGTTTTGAGGTCGAAAATGAAATTTTTTGAAGTTTGAGGGC
1 AAAAATGGAATTTTTTGAAGTTTTGAGGTAAAAAATGAAATTTTTAGAAGTTTGAGGGC
*
561 AAAAATGTAATTTTTTGACAGTTT
1 AAAAATGGAATTTTTTGA-AGTTT
585 AGGGACCTCC
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
59 20 0.28
60 51 0.72
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (59 bp):
AAAAATGGAATTTTTTGAAGTTTTGAGGTAAAAAATGAAATTTTTAGAAGTTTGAGGGC
Found at i:576 original size:90 final size:91
Alignment explanation
Indices: 413--584 Score: 219
Period size: 90 Copynumber: 1.9 Consensus size: 91
403 NNNNNNNNNN
* * *
413 AAATGGTAATTTTTGAAAGTTTTGGGGTTAAAAATGGAATTTTTTGAAGTTTTGGGGTAAAAAAT
1 AAATGGTAATTTTTGAAAGTTTTGAGGTCAAAAATGAAATTTTTTGAAGTTTTGGGGTAAAAAAT
478 GGAATTTTTAGA-AGTTTCGAGGTCGA
66 GGAATTTTT-GACAGTTTCGAGGTCGA
* *
504 AAATGG-AATTTTT-AGAAGTTTTGAGGTCGAAAATGAAATTTTTTGAAG-TTTGAGGG-CAAAA
1 AAATGGTAATTTTTGA-AAGTTTTGAGGTCAAAAATGAAATTTTTTGAAGTTTTG-GGGTAAAAA
*
565 ATGTAATTTTTTGACAGTTT
64 ATGGAA-TTTTTGACAGTTT
585 AGGGACCTCC
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
89 16 0.23
90 49 0.69
91 6 0.08
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (91 bp):
AAATGGTAATTTTTGAAAGTTTTGAGGTCAAAAATGAAATTTTTTGAAGTTTTGGGGTAAAAAAT
GGAATTTTTGACAGTTTCGAGGTCGA
Found at i:2657 original size:26 final size:26
Alignment explanation
Indices: 2621--2673 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
2611 CAATACAAAG
2621 ACATAGATTTTGAAGCATTTGTGATC
1 ACATAGATTTTGAAGCATTTGTGATC
2647 ACATAGATTTTGAAGCATTTGTGATC
1 ACATAGATTTTGAAGCATTTGTGATC
2673 A
1 A
2674 GCATTATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (26 bp):
ACATAGATTTTGAAGCATTTGTGATC
Found at i:3039 original size:12 final size:10
Alignment explanation
Indices: 2967--3049 Score: 106
Period size: 9 Copynumber: 8.7 Consensus size: 10
2957 AGTCATTAAT
2967 TAATTAATAA
1 TAATTAATAA
2977 TAA-TAATAA
1 TAATTAATAA
2986 TAA-TAATAA
1 TAATTAATAA
2995 TAA-TAATAA
1 TAATTAATAA
3004 TAA-TAATAA
1 TAATTAATAA
3013 TAA-TAATAA
1 TAATTAATAA
3022 TAATTAATAA
1 TAATTAATAA
3032 TAGCATTAATAA
1 TA--ATTAATAA
3044 T-ATTAA
1 TAATTAA
3050 AAAAAGGGAA
Statistics
Matches: 70, Mismatches: 0, Indels: 7
0.91 0.00 0.09
Matches are distributed among these distances:
9 50 0.71
10 11 0.16
12 9 0.13
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (10 bp):
TAATTAATAA
Found at i:3045 original size:3 final size:3
Alignment explanation
Indices: 2971--3033 Score: 117
Period size: 3 Copynumber: 20.7 Consensus size: 3
2961 ATTAATTAAT
2971 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3019 TAA TAA TTAA TAA TA
1 TAA TAA -TAA TAA TA
3034 GCATTAATAA
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 56 0.95
4 3 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:4063 original size:29 final size:30
Alignment explanation
Indices: 4030--4133 Score: 135
Period size: 30 Copynumber: 3.5 Consensus size: 30
4020 GAAGGTCCCT
4030 AAACTTCCAAAAATTCCATTTTTGA-CCCG
1 AAACTTCCAAAAATTCCATTTTTGACCCCG
*
4059 AAACTTGCAAAAAATTCCA-TTTT-ACCCCTG
1 AAACTT-CCAAAAATTCCATTTTTGACCCC-G
* *
4089 -AACTTCCAAAAATCCCATTTTTGACCCCA
1 AAACTTCCAAAAATTCCATTTTTGACCCCG
4118 AAACTTCCAAAAATTC
1 AAACTTCCAAAAATTC
4134 TAATTTTACC
Statistics
Matches: 64, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
28 11 0.17
29 22 0.34
30 31 0.48
ACGTcount: A:0.38, C:0.29, G:0.05, T:0.29
Consensus pattern (30 bp):
AAACTTCCAAAAATTCCATTTTTGACCCCG
Found at i:4130 original size:58 final size:59
Alignment explanation
Indices: 4026--4149 Score: 180
Period size: 58 Copynumber: 2.1 Consensus size: 59
4016 CCCTGAAGGT
* * *
4026 CCCTAAACTTCCAAAAATTCCATTTTTGACCCGAAACTTGCAAAAAATTC-CATTTTAC
1 CCCTAAACTTCCAAAAATCCCATTTTTGACCCAAAACTTGCAAAAAATTCTAATTTTAC
* *
4084 CCCTGAACTTCCAAAAATCCCATTTTTGACCCCAAAACTT-CCAAAAATTCTAATTTTAC
1 CCCTAAACTTCCAAAAATCCCATTTTTGA-CCCAAAACTTGCAAAAAATTCTAATTTTAC
4143 CCCTAAA
1 CCCTAAA
4150 ACTCTCAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
58 36 0.62
59 22 0.38
ACGTcount: A:0.36, C:0.30, G:0.04, T:0.30
Consensus pattern (59 bp):
CCCTAAACTTCCAAAAATCCCATTTTTGACCCAAAACTTGCAAAAAATTCTAATTTTAC
Found at i:4145 original size:29 final size:30
Alignment explanation
Indices: 4030--4152 Score: 128
Period size: 30 Copynumber: 4.2 Consensus size: 30
4020 GAAGGTCCCT
* *
4030 AAACTTCCAAAAATTCCATTTTTGA-CCCG
1 AAACTTCCAAAAATTCCAATTTTGACCCCA
* *
4059 AAACTTGCAAAAAATTCC-ATTTT-ACCCCT
1 AAACTT-CCAAAAATTCCAATTTTGACCCCA
* * *
4088 GAACTTCCAAAAATCCCATTTTTGACCCCA
1 AAACTTCCAAAAATTCCAATTTTGACCCCA
*
4118 AAACTTCCAAAAATTCTAATTTT-ACCCCTA
1 AAACTTCCAAAAATTCCAATTTTGACCCC-A
4148 AAACT
1 AAACT
4153 CTCAAAATTA
Statistics
Matches: 77, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
28 10 0.13
29 27 0.35
30 40 0.52
ACGTcount: A:0.37, C:0.28, G:0.04, T:0.30
Consensus pattern (30 bp):
AAACTTCCAAAAATTCCAATTTTGACCCCA
Found at i:4271 original size:28 final size:28
Alignment explanation
Indices: 4215--4276 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
4205 CAAATTTTCA
** *
4215 CAAAATTACCATTTTTGCCCTGAGAATC
1 CAAAATTACCATTTTACCCCCGAGAATC
*
4243 CAAAATTACCATTTTACCCCCGAGCATC
1 CAAAATTACCATTTTACCCCCGAGAATC
4271 CGAAAA
1 C-AAAA
4277 GTCTCATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 25 0.86
29 4 0.14
ACGTcount: A:0.35, C:0.29, G:0.10, T:0.26
Consensus pattern (28 bp):
CAAAATTACCATTTTACCCCCGAGAATC
Found at i:7797 original size:25 final size:25
Alignment explanation
Indices: 7761--7812 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
7751 ATATTATATA
* **
7761 TATTATTTATTATTATATTTAATTT
1 TATTATTAATTAAAATATTTAATTT
*
7786 TATTATTAATTAAAATTTTTAATTT
1 TATTATTAATTAAAATATTTAATTT
7811 TA
1 TA
7813 AAAAATATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TATTATTAATTAAAATATTTAATTT
Found at i:7802 original size:18 final size:18
Alignment explanation
Indices: 7766--7804 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
7756 ATATATATTA
*
7766 TTTATTATTATATTTAAT
1 TTTATTATTATATTAAAT
7784 TTTATTATTA-ATTAAAAT
1 TTTATTATTATATT-AAAT
7802 TTT
1 TTT
7805 TAATTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTATTATTATATTAAAT
Found at i:22693 original size:16 final size:16
Alignment explanation
Indices: 22669--22699 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22659 TTTTGTACTA
22669 TTTTAAAATTAAATAT
1 TTTTAAAATTAAATAT
*
22685 TTTTTAAATTAAATA
1 TTTTAAAATTAAATA
22700 ATATTAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTAAAATTAAATAT
Found at i:22774 original size:21 final size:20
Alignment explanation
Indices: 22733--22772 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
22723 TTAGTTAAAA
* *
22733 ATTTTGTTATTAAATTTTTT
1 ATTTTATTAATAAATTTTTT
22753 ATTTTATTAATAAATTTTTT
1 ATTTTATTAATAAATTTTTT
22773 TAAAAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
ATTTTATTAATAAATTTTTT
Found at i:23234 original size:17 final size:18
Alignment explanation
Indices: 23212--23245 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23202 CAGAATTATT
*
23212 TTTGTTT-ATTTTTCAAA
1 TTTGTTTCATTTGTCAAA
23229 TTTGTTTCATTTGTCAA
1 TTTGTTTCATTTGTCAA
23246 TCAGTCGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.62
Consensus pattern (18 bp):
TTTGTTTCATTTGTCAAA
Found at i:30909 original size:19 final size:20
Alignment explanation
Indices: 30872--30909 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
30862 AATATCTTAT
**
30872 TATTTCAGTTTTATCTATAA
1 TATTTCAGTTTTAGATATAA
30892 TATTT-AGTTTTAGATATA
1 TATTTCAGTTTTAGATATA
30910 CTTTGAACTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (20 bp):
TATTTCAGTTTTAGATATAA
Found at i:44029 original size:21 final size:21
Alignment explanation
Indices: 44000--44040 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
43990 ACCACTAATA
*
44000 ACCCCACCTAAGTAGAAATCT
1 ACCCAACCTAAGTAGAAATCT
*
44021 ACCCAACCTACGTAGAAATC
1 ACCCAACCTAAGTAGAAATC
44041 CTCCGACAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.34, G:0.10, T:0.17
Consensus pattern (21 bp):
ACCCAACCTAAGTAGAAATCT
Found at i:48700 original size:23 final size:23
Alignment explanation
Indices: 48674--48753 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 23
48664 TTCGATTAAG
*
48674 TTAAATGAACATGATCACAAACA
1 TTAAATGAACATGTTCACAAACA
* **
48697 TTAAACGAACATGTTCATGAACA
1 TTAAATGAACATGTTCACAAACA
*
48720 TATAATTGAACATGTTCACGATAACA
1 T-TAAATGAACATGTTCAC-A-AACA
48746 TT-AATGAA
1 TTAAATGAA
48754 TAATAAACAA
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
23 20 0.44
24 19 0.42
25 1 0.02
26 5 0.11
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (23 bp):
TTAAATGAACATGTTCACAAACA
Found at i:50124 original size:6 final size:6
Alignment explanation
Indices: 50115--50141 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
50105 CGTACCCGTA
50115 CCAGTC CCAGTC CCAGTC CCAGTC CCA
1 CCAGTC CCAGTC CCAGTC CCAGTC CCA
50142 CTACGCCCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.52, G:0.15, T:0.15
Consensus pattern (6 bp):
CCAGTC
Found at i:64799 original size:3 final size:3
Alignment explanation
Indices: 64791--64817 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
64781 TGCAAGAAAT
64791 GCA GCA GCA GCA GCA GCA GCA GCA GCA
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA
64818 TAAGATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:66321 original size:2 final size:2
Alignment explanation
Indices: 66308--66338 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
66298 AAACAAAATG
*
66308 GT GT GC GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
66339 CACGCACATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.03, G:0.52, T:0.45
Consensus pattern (2 bp):
GT
Found at i:73489 original size:22 final size:21
Alignment explanation
Indices: 73447--73491 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
73437 CGGAAAATGA
* *
73447 TTTCTGAAAAATGATTTTTTT
1 TTTCTGAAAAATGAATATTTT
*
73468 TTTCTGGAAAAATTAATATTTT
1 TTTCT-GAAAAATGAATATTTT
73490 TT
1 TT
73492 GGTATTTGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.31, C:0.04, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTCTGAAAAATGAATATTTT
Found at i:76414 original size:25 final size:23
Alignment explanation
Indices: 76386--76431 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
76376 GTTGAATCCA
76386 AATTAAATTCTAAAAAGATAATTTG
1 AATTAAA-TCTAAAAA-ATAATTTG
*
76411 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
76432 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTTG
Found at i:76518 original size:13 final size:13
Alignment explanation
Indices: 76497--76529 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
76487 ACAATATAAT
76497 AATAATAATCCTA
1 AATAATAATCCTA
*
76510 AATATTAATCCTA
1 AATAATAATCCTA
76523 AA-AATAA
1 AATAATAA
76530 AGTTTAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (13 bp):
AATAATAATCCTA
Found at i:81391 original size:14 final size:13
Alignment explanation
Indices: 81371--81402 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
81361 ATAAAAGGGA
81371 AAAAAATTAAATT
1 AAAAAATTAAATT
81384 AGAAAAATTAAATT
1 A-AAAAATTAAATT
81398 AAAAA
1 AAAAA
81403 TGCAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (13 bp):
AAAAAATTAAATT
Found at i:82877 original size:28 final size:29
Alignment explanation
Indices: 82821--82882 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
82811 CCCGAAGGAA
* *
82821 TAAAATGGTAATTTTAGATTCTTGAGGG-
1 TAAAATGGTAATTTTAAAGTCTTGAGGGT
82849 TAAAATGGTAATTTTGGAAAGT-TTG-GGGT
1 TAAAATGGTAATTTT--AAAGTCTTGAGGGT
82878 TAAAA
1 TAAAA
82883 ATAGAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
28 18 0.62
29 8 0.28
30 3 0.10
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.37
Consensus pattern (29 bp):
TAAAATGGTAATTTTAAAGTCTTGAGGGT
Found at i:82941 original size:58 final size:57
Alignment explanation
Indices: 82846--82957 Score: 136
Period size: 58 Copynumber: 1.9 Consensus size: 57
82836 AGATTCTTGA
* * * *
82846 GGGTAAAATGGTAATTTTGGAAAGTTTGGGGTTAAAAATAGAATTTTTAGACATTCGG
1 GGGTAAAAGGGTAATTTT-GAAAGTTTGAGGTCAAAAATAGAATTTTTAAACATTCGG
* *
82904 GGGTAAAAGGGTAATTTT-AAGAGTTTCGAGGTCAAAAATGGAGTTTTTAAACAT
1 GGGTAAAAGGGTAATTTTGAA-AGTTT-GAGGTCAAAAATAGAATTTTTAAACAT
82958 CCGGATCAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
56 2 0.04
57 5 0.11
58 39 0.85
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.33
Consensus pattern (57 bp):
GGGTAAAAGGGTAATTTTGAAAGTTTGAGGTCAAAAATAGAATTTTTAAACATTCGG
Found at i:83087 original size:30 final size:29
Alignment explanation
Indices: 82965--83313 Score: 317
Period size: 29 Copynumber: 11.8 Consensus size: 29
82955 CATCCGGATC
* * * * *
82965 AAAAATTGAAATTTTGGAAGTTTAGGTGC
1 AAAAATGGAATTTTTGGAAGTTTCGGGGT
* *
82994 AAAAATGGAATTTTTGGTAGTTTTGGGGT
1 AAAAATGGAATTTTTGGAAGTTTCGGGGT
* **
83023 CAAAAAATGGAATTTTTGGAAATTTAAGGGT
1 --AAAAATGGAATTTTTGGAAGTTTCGGGGT
*
83054 AAAAATGGAATTTTTGGAAGTCTCGGGGCT
1 AAAAATGGAATTTTTGGAAGTTTCGGGG-T
* * *
83084 AAAAATGTAAATTTTGGAAG-TTCAGGGAT
1 AAAAATGGAATTTTTGGAAGTTTC-GGGGT
* * *
83113 AAAAATGGAATTTTTAGAAGTTTTGAGGT
1 AAAAATGGAATTTTTGGAAGTTTCGGGGT
* *
83142 CAAAAATGAAATTTTTGGAAGTTTAGGGGT
1 -AAAAATGGAATTTTTGGAAGTTTCGGGGT
* *
83172 AAAAAATGGAATTTGTGGATG-TTCGAGGGT
1 -AAAAATGGAATTTTTGGAAGTTTCG-GGGT
**
83202 CAAAAATGTTATTTTTGGAAG-TTCGAGGGT
1 -AAAAATGGAATTTTTGGAAGTTTCG-GGGT
*
83232 AAAAATGGAATTTTTGGAAGTTTGGGGGT
1 AAAAATGGAATTTTTGGAAGTTTCGGGGT
* ***
83261 AAAAATTGAATTTTTGGAAGTTTAATGGT
1 AAAAATGGAATTTTTGGAAGTTTCGGGGT
* *
83290 AAAAATGTAATTTTTAGACAGTTT
1 AAAAATGGAATTTTTGGA-AGTTT
83314 AGGGACCTTC
Statistics
Matches: 263, Mismatches: 48, Indels: 17
0.80 0.15 0.05
Matches are distributed among these distances:
29 135 0.51
30 103 0.39
31 25 0.10
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.35
Consensus pattern (29 bp):
AAAAATGGAATTTTTGGAAGTTTCGGGGT
Found at i:83105 original size:119 final size:117
Alignment explanation
Indices: 82963--83304 Score: 440
Period size: 119 Copynumber: 2.9 Consensus size: 117
82953 AACATCCGGA
* * *
82963 TCAAAAAT-TGAAATTTTGGAAGTTTAGGTGCAAAAATGGAATTTTTGGTAGTTTTGGGGTCAAA
1 TCAAAAATGT-AAATTTTGGAAGTTCAGG-GTAAAAATGGAATTTTTGGAAGTTTTGGGGTC-AA
*
83027 AAATGGAATTTTTGGAAATTTAAGGGTAAAAATGGAATTTTTGGAAGTCTCG-GGG
63 AAATGGAATTTTTGGAAGTTTAAGGGTAAAAATGGAATTTTTGGAAGT-TCGAGGG
* *
83082 -CTAAAAATGTAAATTTTGGAAGTTCAGGGATAAAAATGGAATTTTTAGAAGTTTTGAGGTCAAA
1 TC-AAAAATGTAAATTTTGGAAGTTCAGGG-TAAAAATGGAATTTTTGGAAGTTTTGGGGTCAAA
* * * *
83146 AATGAAATTTTTGGAAGTTTAGGGGTAAAAAATGGAATTTGTGGATGTTCGAGGG
64 AATGGAATTTTTGGAAGTTTAAGGGT-AAAAATGGAATTTTTGGAAGTTCGAGGG
* * *
83201 TCAAAAATGTTATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTGGGGGT-AAAA
1 TCAAAAATGTAAATTTTGGAAGTTC-AGGGTAAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAA
* * *
83265 ATTGAATTTTTGGAAGTTTAATGGTAAAAATGTAATTTTT
65 ATGGAATTTTTGGAAGTTTAAGGGTAAAAATGGAATTTTT
83305 AGACAGTTTA
Statistics
Matches: 195, Mismatches: 21, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
117 13 0.07
118 56 0.29
119 120 0.62
120 6 0.03
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.35
Consensus pattern (117 bp):
TCAAAAATGTAAATTTTGGAAGTTCAGGGTAAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAAA
TGGAATTTTTGGAAGTTTAAGGGTAAAAATGGAATTTTTGGAAGTTCGAGGG
Found at i:83746 original size:16 final size:16
Alignment explanation
Indices: 83725--83756 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
83715 TTAAAGCTAA
*
83725 AAACGACGCTGTTTTG
1 AAACGACACTGTTTTG
83741 AAACGACACTGTTTTG
1 AAACGACACTGTTTTG
83757 GAAGCCTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (16 bp):
AAACGACACTGTTTTG
Found at i:85108 original size:17 final size:18
Alignment explanation
Indices: 85075--85108 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
85065 AAGATTGTAA
85075 TTTGGACTTTGTATTTGT
1 TTTGGACTTTGTATTTGT
*
85093 TTTGGA-TTTTTATTTG
1 TTTGGACTTTGTATTTG
85109 GGCTTTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.12, C:0.03, G:0.21, T:0.65
Consensus pattern (18 bp):
TTTGGACTTTGTATTTGT
Found at i:85207 original size:13 final size:14
Alignment explanation
Indices: 85178--85214 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
85168 AAAGCAAATT
85178 TAAATTTAAAAAGA
1 TAAATTTAAAAAGA
85192 TAAATTTAAAAA-A
1 TAAATTTAAAAAGA
85205 TAAATTTAAA
1 TAAATTTAAA
85215 CCAATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (14 bp):
TAAATTTAAAAAGA
Found at i:85866 original size:25 final size:23
Alignment explanation
Indices: 85838--85883 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
85828 GCTGAATCCA
85838 AATTAAATTCTAAAAAGATAATTTG
1 AATTAAA-TCTAAAAA-ATAATTTG
*
85863 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
85884 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTTG
Found at i:86347 original size:7 final size:7
Alignment explanation
Indices: 86337--86370 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
86327 TGGCAAAAGG
86337 AAGGGGA
1 AAGGGGA
*
86344 AAGGAGA
1 AAGGGGA
*
86351 AAGGAGA
1 AAGGGGA
86358 AAGGGGA
1 AAGGGGA
86365 AAGGGG
1 AAGGGG
86371 TAATGGAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (7 bp):
AAGGGGA
Found at i:91716 original size:19 final size:18
Alignment explanation
Indices: 91685--91731 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
91675 AGCGTCTCCA
*
91685 TTTT-TTCTCTTCTCCTCT
1 TTTTCTTCTTTTCTCCT-T
*
91703 TTTTCTTCTTTTCTTCTT
1 TTTTCTTCTTTTCTCCTT
91721 TTTCTCTTCTT
1 TTT-TCTTCTT
91732 AAATCTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTCTTCTTTTCTCCTT
Found at i:92333 original size:17 final size:17
Alignment explanation
Indices: 92287--92337 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
92277 AGTTTAAATT
*
92287 TTTAAATTAAGTTT-AAG
1 TTTAAATTAA-TTTAAAA
*
92304 TTTAATTTGAATTTAAAA
1 TTTAAATT-AATTTAAAA
92322 TTTAAATTAA-TTAAAA
1 TTTAAATTAATTTAAAA
92338 GTCTAGTCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 6 0.21
17 12 0.41
18 11 0.38
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (17 bp):
TTTAAATTAATTTAAAA
Found at i:94551 original size:27 final size:28
Alignment explanation
Indices: 94424--94609 Score: 132
Period size: 29 Copynumber: 6.5 Consensus size: 28
94414 CAAAACATCC
*
94424 AAAAAATACATTTTTACCCCCGAAACT-TT
1 AAAAATTACA-TTTTACCCCC-AAACTGTT
*
94453 CAAAAATTACATTTTTACCCTCAAACT-TCT
1 -AAAAATTACA-TTTTACCCCCAAACTGT-T
* * *
94483 AAAAATTCCATTTTTGACCTCGAAACT-TCT
1 AAAAATTACA-TTTT-ACCCCCAAACTGT-T
94513 AAAAATTACATTTTACCCCCAAACTGTT
1 AAAAATTACATTTTACCCCCAAACTGTT
* * * * * *
94541 -GAAATTCCATTTTAGCCCTAAAATTTT
1 AAAAATTACATTTTACCCCCAAACTGTT
*
94568 CAAAAATTACATTTTACCCCCAAACT-TCC
1 -AAAAATTACATTTTACCCCCAAACTGT-T
94597 AAAAATT-CATTTT
1 AAAAATTACATTTT
94610 TGATCCCGAA
Statistics
Matches: 129, Mismatches: 21, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
27 27 0.21
28 18 0.14
29 44 0.34
30 40 0.31
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.35
Consensus pattern (28 bp):
AAAAATTACATTTTACCCCCAAACTGTT
Found at i:94610 original size:28 final size:29
Alignment explanation
Indices: 94210--94640 Score: 331
Period size: 30 Copynumber: 14.8 Consensus size: 29
94200 GTTGACCCTT
* * **
94210 AAACTTCTCTAAAATTACATTTTGACCCTA
1 AAACTTC-CAAAAATTACATTTTTACCCCC
* *
94240 AAACTTCCAAAAATTACA-TTTTACCACT
1 AAACTTCCAAAAATTACATTTTTACCCCC
* *
94268 GAACTTCCAAAAATTACA-TTTTACCCTC
1 AAACTTCCAAAAATTACATTTTTACCCCC
* **
94296 GAACTTCCAAAAATT-CAATTTTTGACCCTG
1 AAACTTCCAAAAATTAC-ATTTTT-ACCCCC
*
94326 AAACTTCCAAAAATTACATTTTTACCTCC
1 AAACTTCCAAAAATTACATTTTTACCCCC
* * * * *
94355 GAACTTCTAAAAATTCCATTTTTGACTCCG
1 AAACTTCCAAAAATTACATTTTT-ACCCCC
* * * *
94385 AAACTTTCGAAAATTCCATTTTTTGACCCCA
1 AAACTTCCAAAAATTACA-TTTTT-ACCCCC
* *
94416 AAACATCCAAAAAATACATTTTTACCCCC
1 AAACTTCCAAAAATTACATTTTTACCCCC
* *
94445 GAAACTTTCAAAAATTACATTTTTACCCTC
1 -AAACTTCCAAAAATTACATTTTTACCCCC
* * * *
94475 AAACTTCTAAAAATTCCATTTTTGACCTCG
1 AAACTTCCAAAAATTACATTTTT-ACCCCC
*
94505 AAACTTCTAAAAATTACA-TTTTACCCCC
1 AAACTTCCAAAAATTACATTTTTACCCCC
** * **
94533 AAACTGT--TGAAATTCCA-TTTTAGCCCTA
1 AAACT-TCCAAAAATTACATTTTTA-CCCCC
* *
94561 AAATTTTCAAAAATTACA-TTTTACCCCC
1 AAACTTCCAAAAATTACATTTTTACCCCC
* *
94589 AAACTTCCAAAAATT-CATTTTTGATCCCG
1 AAACTTCCAAAAATTACATTTTT-ACCCCC
*
94618 AAACTTGCAAAAATTATCATTTT
1 AAACTTCCAAAAATTA-CATTTT
94641 ACTCTCGGGT
Statistics
Matches: 324, Mismatches: 61, Indels: 31
0.78 0.15 0.07
Matches are distributed among these distances:
27 16 0.05
28 82 0.25
29 97 0.30
30 99 0.31
31 30 0.09
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (29 bp):
AAACTTCCAAAAATTACATTTTTACCCCC
Found at i:95148 original size:2 final size:2
Alignment explanation
Indices: 95136--95182 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
95126 AGTTCTCAAG
* *
95136 AT AT AT TT AT AT AT AT TT 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
95178 AT AT A
1 AT AT A
95183 CAAATGATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:97352 original size:17 final size:16
Alignment explanation
Indices: 97330--97362 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
97320 CTTTTAAAAT
97330 AATTTTAATTATTTTTA
1 AATTTTAATT-TTTTTA
97347 AATTTTAATTTTTTTA
1 AATTTTAATTTTTTTA
97363 GTTAAAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
AATTTTAATTTTTTTA
Found at i:98360 original size:47 final size:47
Alignment explanation
Indices: 98272--98361 Score: 119
Period size: 47 Copynumber: 1.9 Consensus size: 47
98262 AATTGAAAAT
* *
98272 GGATCTAATATTATTATCTAAAGTTAAATTTAATTTATATTTTAAAC
1 GGATCTAATATTATTATCTAAAATTAAATTTAACTTATATTTTAAAC
* **
98319 GGATCTATTATTATTATCTAAAATTATTTTTAAGCTT-TATTTT
1 GGATCTAATATTATTATCTAAAATTAAATTTAA-CTTATATTTT
98362 TGTTCAAACT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
47 35 0.95
48 2 0.05
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.51
Consensus pattern (47 bp):
GGATCTAATATTATTATCTAAAATTAAATTTAACTTATATTTTAAAC
Found at i:100824 original size:107 final size:104
Alignment explanation
Indices: 100711--100923 Score: 227
Period size: 108 Copynumber: 2.0 Consensus size: 104
100701 AAAAAAAAAA
*
100711 AAAAAAAACTTAAAAG-GTTAAGTACCATAGCTATATAAACCCAAGATCTGCAAA-AGATC-TGA
1 AAAAAAACCTTAAAAGAGTTAAGTACC--A--TATATAAACCCAAGATCT-CAAACAGA-CATGA
* * *
100773 ATACATTAATAT-TTCCTTATTAGTGAAAATTCATATTCCACTTTCC
60 ATACAATAA-ATCTTCCATATTAGTGAAAAATCATA-TCCACTTTCC
* * * *
100819 AAAAAAAGCCCTTAAAAGATTTAAGTTCCATATATAAACCCAAGATCTTAAAGCAGACATGAATT
1 AAAAAAA--CCTTAAAAGAGTTAAGTACCATATATAAACCCAAGATCTCAAA-CAGACATGAATA
100884 CAATAAATCTTCCATATTAGTGAAAAATCATATCCACTTT
63 CAATAAATCTTCCATATTAGTGAAAAATCATATCCACTTT
100924 TAAGGGAAAA
Statistics
Matches: 90, Mismatches: 8, Indels: 15
0.80 0.07 0.13
Matches are distributed among these distances:
106 3 0.03
107 29 0.32
108 41 0.46
109 1 0.01
110 8 0.09
111 8 0.09
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.30
Consensus pattern (104 bp):
AAAAAAACCTTAAAAGAGTTAAGTACCATATATAAACCCAAGATCTCAAACAGACATGAATACAA
TAAATCTTCCATATTAGTGAAAAATCATATCCACTTTCC
Found at i:106615 original size:18 final size:17
Alignment explanation
Indices: 106567--106644 Score: 86
Period size: 17 Copynumber: 4.5 Consensus size: 17
106557 CCAAATTCAT
106567 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
* *
106585 -TTCAATTTGTTTTAAA
1 TTTAAATTTATTTTAAA
106601 CTTTAAATTTATTTTCAAA
1 -TTTAAATTTATTTT-AAA
* *
106620 TTTAAAATTATTATAAA
1 TTTAAATTTATTTTAAA
106637 TTTAAATT
1 TTTAAATT
106645 AAATAAAGTC
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
16 1 0.02
17 23 0.46
18 23 0.46
19 3 0.06
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:106641 original size:35 final size:35
Alignment explanation
Indices: 106567--106644 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 35
106557 CCAAATTCAT
* * * *
106567 TTTAAATTTATTTTAAGATTCAATTTGTTTTAAAC
1 TTTAAATTTATTTTAAGATTAAAATTATTATAAAC
106602 TTTAAATTTATTTTCAA-ATTTAAAATTATTATAAA-
1 TTTAAATTTATTTT-AAGA-TTAAAATTATTATAAAC
106637 TTTAAATT
1 TTTAAATT
106645 AAATAAAGTC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 23 0.62
36 14 0.38
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.54
Consensus pattern (35 bp):
TTTAAATTTATTTTAAGATTAAAATTATTATAAAC
Found at i:107329 original size:3 final size:3
Alignment explanation
Indices: 107323--107349 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
107313 ATAACTGTTT
107323 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
107350 CATTAATGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:107416 original size:3 final size:3
Alignment explanation
Indices: 107410--107435 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
107400 ATAAATGTTT
107410 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
107436 TTTAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:108515 original size:59 final size:58
Alignment explanation
Indices: 108404--108604 Score: 196
Period size: 59 Copynumber: 3.4 Consensus size: 58
108394 TAGAGGTCCT
* * ** *
108404 CGAACTTTCAAAAATTCC-GTTTTTATCCTCG-AACTTTAAAAAATCCCATTTTTGACCC
1 CGAACTTCCAAAAA-TCCATTTTTTA-CCTCGAAACTTCCAAAAATTCCATTTTTGACCC
*
108462 CGAACTTGCAAAAATCCCATTTTTTACCTCGAAACTTCCAAAAATTCCATTTTT-ACCCC
1 CGAACTTCCAAAAAT-CCATTTTTTACCTCGAAACTTCCAAAAATTCCATTTTTGA-CCC
* * *
108521 CGAACTTCCAAAAAAATCCATTTTTGACC-CTAAAACTTCC-AAAATTTCATTTTTGACCC
1 CGAACTTCC--AAAAATCCATTTTTTACCTC-GAAACTTCCAAAAATTCCATTTTTGACCC
108580 CGAAACTTCCAAAAATTACCATTTT
1 CG-AACTTCCAAAAA-T-CCATTTT
108605 GCTCCCGGAT
Statistics
Matches: 123, Mismatches: 9, Indels: 20
0.81 0.06 0.13
Matches are distributed among these distances:
57 1 0.01
58 26 0.21
59 56 0.46
60 34 0.28
61 6 0.05
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.33
Consensus pattern (58 bp):
CGAACTTCCAAAAATCCATTTTTTACCTCGAAACTTCCAAAAATTCCATTTTTGACCC
Found at i:108602 original size:60 final size:59
Alignment explanation
Indices: 108442--108604 Score: 197
Period size: 59 Copynumber: 2.7 Consensus size: 59
108432 TCGAACTTTA
* * * * *
108442 AAAAATCCCATTTTTGACCCCGAACTTGCAAAAATCCCATTTTTTACCTCGAAACTTCC
1 AAAAATTCCATTTTTGACCCCGAACTTCCAAAAATACCATTTTTGACCTCAAAACTTCC
*
108501 AAAAATTCCATTTTT-ACCCCCGAACTTCCAAAAAAATCCATTTTTGACC-CTAAAACTTCC
1 AAAAATTCCATTTTTGA-CCCCGAACTTCCAAAAATA-CCATTTTTGACCTC-AAAACTTCC
*
108561 -AAAATTTCATTTTTGACCCCGAAACTTCCAAAAATTACCATTTT
1 AAAAATTCCATTTTTGACCCCG-AACTTCCAAAAA-TACCATTTT
108605 GCTCCCGGAT
Statistics
Matches: 90, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
58 1 0.01
59 49 0.54
60 39 0.43
61 1 0.01
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.32
Consensus pattern (59 bp):
AAAAATTCCATTTTTGACCCCGAACTTCCAAAAATACCATTTTTGACCTCAAAACTTCC
Found at i:108605 original size:30 final size:30
Alignment explanation
Indices: 108406--108604 Score: 194
Period size: 29 Copynumber: 6.7 Consensus size: 30
108396 GAGGTCCTCG
* * *
108406 AACTTTCAAAAATTCCGTTTTT-ATCCTCG-
1 AACTTCCAAAAATTCCATTTTTGA-CCCCGA
** *
108435 AACTTTAAAAAATCCCATTTTTGACCCCG-
1 AACTTCCAAAAATTCCATTTTTGACCCCGA
* * * *
108464 AACTTGCAAAAATCCCATTTTTTACCTCGA
1 AACTTCCAAAAATTCCATTTTTGACCCCGA
108494 AACTTCCAAAAATTCCATTTTT-ACCCCCG-
1 AACTTCCAAAAATTCCATTTTTGA-CCCCGA
* **
108523 AACTTCCAAAAAAATCCATTTTTGACCCTAA
1 AACTTCC-AAAAATTCCATTTTTGACCCCGA
*
108554 AACTTCC-AAAATTTCATTTTTGACCCCGA
1 AACTTCCAAAAATTCCATTTTTGACCCCGA
108583 AACTTCCAAAAATTACCATTTT
1 AACTTCCAAAAATT-CCATTTT
108605 GCTCCCGGAT
Statistics
Matches: 143, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
29 81 0.57
30 48 0.34
31 14 0.10
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (30 bp):
AACTTCCAAAAATTCCATTTTTGACCCCGA
Found at i:109823 original size:29 final size:29
Alignment explanation
Indices: 109772--109882 Score: 70
Period size: 29 Copynumber: 3.8 Consensus size: 29
109762 TTGGGAAAGT
* * *
109772 TCGGGGTTAAAAACGGAAATTTTGAACAC
1 TCGGGGGTAAAAACGGAATTTTTGAACAA
109801 TCGGGGGT-AAAACGGTAATTTTTAGGAA-AA
1 TCGGGGGTAAAAACGG-AATTTTT--GAACAA
* * * *
109831 TC-GGGATCGAAAATGGAATTTTTTG-ACAT
1 TCGGGGGT-AAAAACGGAA-TTTTTGAACAA
109860 TCGGGGGTAAAAA-GGTAATTTTT
1 TCGGGGGTAAAAACGG-AATTTTT
109883 AGGAAATCGG
Statistics
Matches: 65, Mismatches: 8, Indels: 19
0.71 0.09 0.21
Matches are distributed among these distances:
28 15 0.23
29 27 0.42
30 9 0.14
31 14 0.22
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (29 bp):
TCGGGGGTAAAAACGGAATTTTTGAACAA
Found at i:109835 original size:59 final size:59
Alignment explanation
Indices: 109744--109941 Score: 177
Period size: 59 Copynumber: 3.4 Consensus size: 59
109734 TTAACTCATA
* * * * * *
109744 GGGGGTGAAATGGTAA-TTTTGGGAAAGTTCGGGGTTAAAAACGGAA-ATTTTGAACACTC
1 GGGGGTAAAAAGGTAATTTTTAGGAAA-ATCGGGATCAAAAACGGAATATTTTG-ACACTC
* * * * *
109803 GGGGGTAAAACGGTAATTTTTAGGAAAATCGGGATCGAAAATGGAATTTTTTGACATTC
1 GGGGGTAAAAAGGTAATTTTTAGGAAAATCGGGATCAAAAACGGAATATTTTGACACTC
* * * * *
109862 GGGGGTAAAAAGGTAATTTTTAGG-AAATCGGGACCAAAAATGGATTTTTTTGGACATTC
1 GGGGGTAAAAAGGTAATTTTTAGGAAAATCGGGATCAAAAACGGAATATTTT-GACACTC
* * *
109921 GAGGGTAAAAGGGTATTTTTT
1 GGGGGTAAAAAGGTAATTTTT
109942 TTTTAAAGTT
Statistics
Matches: 119, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
58 24 0.20
59 81 0.68
60 14 0.12
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (59 bp):
GGGGGTAAAAAGGTAATTTTTAGGAAAATCGGGATCAAAAACGGAATATTTTGACACTC
Found at i:109892 original size:29 final size:29
Alignment explanation
Indices: 109801--109893 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 29
109791 TTTTGAACAC
*
109801 TCGGGGGTAAAACGGTAATTTTTAGGAAAA
1 TCGGGGGTAAAAAGGTAATTTTTAGG-AAA
* * * *
109831 TC-GGGATCGAAAATGG-AATTTTT-TGACAT
1 TCGGGGGT--AAAAAGGTAATTTTTAGGA-AA
109860 TCGGGGGTAAAAAGGTAATTTTTAGGAAA
1 TCGGGGGTAAAAAGGTAATTTTTAGGAAA
109889 TCGGG
1 TCGGG
109894 ACCAAAAATG
Statistics
Matches: 49, Mismatches: 8, Indels: 13
0.70 0.11 0.19
Matches are distributed among these distances:
28 7 0.14
29 21 0.43
30 15 0.31
31 6 0.12
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (29 bp):
TCGGGGGTAAAAAGGTAATTTTTAGGAAA
Found at i:109902 original size:58 final size:59
Alignment explanation
Indices: 109791--109941 Score: 205
Period size: 59 Copynumber: 2.5 Consensus size: 59
109781 AAAACGGAAA
* * * *
109791 TTTTGAACACTCGGGGGTAAAACGGTAATTTTTAGGAAAATCGGGATCGAAAATGGAATT
1 TTTTG-ACATTCGGGGGTAAAAAGGTAATTTTTAGGAAAATCGGGACCAAAAATGGAATT
*
109851 TTTTGACATTCGGGGGTAAAAAGGTAATTTTTAGG-AAATCGGGACCAAAAATGGATTT
1 TTTTGACATTCGGGGGTAAAAAGGTAATTTTTAGGAAAATCGGGACCAAAAATGGAATT
* * *
109909 TTTTGGACATTCGAGGGTAAAAGGGTATTTTTT
1 TTTT-GACATTCGGGGGTAAAAAGGTAATTTTT
109942 TTTTAAAGTT
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
58 24 0.29
59 53 0.65
60 5 0.06
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (59 bp):
TTTTGACATTCGGGGGTAAAAAGGTAATTTTTAGGAAAATCGGGACCAAAAATGGAATT
Found at i:109930 original size:29 final size:29
Alignment explanation
Indices: 109840--110065 Score: 110
Period size: 29 Copynumber: 7.6 Consensus size: 29
109830 ATCGGGATCG
*
109840 AAAATGGAATTTTTT-GACATTCGGGGGT
1 AAAATGGAATTTTTTGGACATTCGAGGGT
* * * **
109868 AAAAAGGTAATTTTTAGGA-AATCG-GGACCA
1 AAAATGG-AATTTTTTGGACATTCGAGG--GT
*
109898 AAAATGGATTTTTTTGGACATTCGAGGGT
1 AAAATGGAATTTTTTGGACATTCGAGGGT
* * ** *
109927 AAAAGGGTATTTTTTTTTTAAAGTTTC-AGGGTT
1 AAAATGG-A-ATTTTTTGGACA--TTCGAGGG-T
*
109960 AAAAATGGAATTTTTTGGACATTCGAGGGC
1 -AAAATGGAATTTTTTGGACATTCGAGGGT
* *
109990 AAAATGGAAATTTTTGGA-AGTTTTG-GGGTT
1 AAAATGGAATTTTTTGGACA--TTCGAGGG-T
*
110020 AAAATGGAA-TTTTT-GAAAGTT-GAAGGGT
1 AAAATGGAATTTTTTGGACA-TTCG-AGGGT
*
110048 AAAATGGAAATTTTTGGA
1 AAAATGGAATTTTTTGGA
110066 AGTTTCGAGG
Statistics
Matches: 152, Mismatches: 25, Indels: 40
0.70 0.12 0.18
Matches are distributed among these distances:
27 1 0.01
28 23 0.15
29 60 0.39
30 30 0.20
31 15 0.10
32 12 0.08
33 5 0.03
34 6 0.04
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (29 bp):
AAAATGGAATTTTTTGGACATTCGAGGGT
Found at i:110024 original size:30 final size:29
Alignment explanation
Indices: 109947--110198 Score: 158
Period size: 29 Copynumber: 8.6 Consensus size: 29
109937 TTTTTTTTTA
109947 AAGTTTCAG-GGTTAAAAATGGAATTTTTTGG
1 AAGTTT-AGAGGTT-AAAATGGAA-TTTTTGG
* **
109978 ACA--TTCGAGGGCAAAATGGAAATTTTTGG
1 A-AGTTTAGAGGTTAAAATGG-AATTTTTGG
* * *
110007 AAGTTTTGGGGTTAAAATGGAATTTTTGA
1 AAGTTTAGAGGTTAAAATGGAATTTTTGG
* *
110036 AAGTTGA-AGGGTAAAATGGAAATTTTTGG
1 AAGTTTAGAGGTTAAAATGG-AATTTTTGG
* * *
110065 AAGTTTCGAGGTTGAAATTAGG-ATTTTTGA
1 AAGTTTAGAGGTT-AAAAT-GGAATTTTTGG
* * * *
110095 AAGTTCAGAGGTAAAAATGTAATTTTTTG
1 AAGTTTAGAGGTTAAAATGGAATTTTTGG
* * *
110124 AAGTTTCGAGGTCAAAATAAGG-ATTTTTGA
1 AAGTTTAGAGGTTAAAAT--GGAATTTTTGG
* * *
110154 AAGTTTGGGGGTAAAAATGTG-ATTTTTGG
1 AAGTTTAGAGGTTAAAATG-GAATTTTTGG
*
110183 AAGTTTTGAGGTTAAA
1 AAGTTTAGAGGTTAAA
110199 TATATAATTT
Statistics
Matches: 170, Mismatches: 38, Indels: 28
0.72 0.16 0.12
Matches are distributed among these distances:
28 13 0.08
29 88 0.52
30 60 0.35
31 6 0.04
32 3 0.02
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.36
Consensus pattern (29 bp):
AAGTTTAGAGGTTAAAATGGAATTTTTGG
Found at i:110091 original size:59 final size:58
Alignment explanation
Indices: 109990--110199 Score: 232
Period size: 59 Copynumber: 3.6 Consensus size: 58
109980 ATTCGAGGGC
* * *
109990 AAAATGGAAATTTTTGGAAGTTTTGGGGTTAAAAT-GGAATTTTTGAAAGTTGAAGGGT-
1 AAAATGGAAATTTTTGGAAGTTTCGAGGTTAAATTAGG-ATTTTTGAAAGTTG-AGGGTA
*
110048 AAAATGGAAATTTTTGGAAGTTTCGAGGTTGAAATTAGGATTTTTGAAAGTTCAGAGGTA
1 AAAATGGAAATTTTTGGAAGTTTCGAGGTT-AAATTAGGATTTTTGAAAGTTGAG-GGTA
* * * * *
110108 AAAAT-GTAATTTTTTGAAGTTTCGAGGTCAAAATAAGGATTTTTGAAAGTTTGGGGGTA
1 AAAATGGAAATTTTTGGAAGTTTCGAGGT-TAAATTAGGATTTTTGAAAG-TTGAGGGTA
*
110167 AAAATGTG--ATTTTTGGAAGTTTTGAGGTTAAAT
1 AAAATG-GAAATTTTTGGAAGTTTCGAGGTTAAAT
110200 ATATAATTTT
Statistics
Matches: 131, Mismatches: 13, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
58 34 0.26
59 86 0.66
60 10 0.08
61 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.27, T:0.37
Consensus pattern (58 bp):
AAAATGGAAATTTTTGGAAGTTTCGAGGTTAAATTAGGATTTTTGAAAGTTGAGGGTA
Found at i:110134 original size:29 final size:29
Alignment explanation
Indices: 109940--110209 Score: 101
Period size: 30 Copynumber: 9.1 Consensus size: 29
109930 AGGGTATTTT
* *
109940 TTTTTTAAAGTTTC-AGGGTTAAAAATGGAA
1 TTTTTTGAAGTTTCGA-GG-TAAAAATGTAA
* ** ** *
109970 TTTTTTGGACATTCGAGGGCAAAATGGAAA
1 TTTTTTGAAGTTTCGAGGTAAAAAT-GTAA
* * * * *
110000 TTTTTGGAAGTTTTGGGGTTAAAATGGAA
1 TTTTTTGAAGTTTCGAGGTAAAAATGTAA
*
110029 -TTTTTGAAAG-TT-GAAGGGT-AAAATGGAAA
1 TTTTTTG-AAGTTTCG-A-GGTAAAAAT-GTAA
* **
110058 TTTTTGGAAGTTTCGAGGTTGAAAT-TAGGA
1 TTTTTTGAAGTTTCGAGGTAAAAATGTA--A
110088 -TTTTTGAAAG-TTCAGAGGTAAAAATGTAA
1 TTTTTTG-AAGTTTC-GAGGTAAAAATGTAA
*
110117 TTTTTTGAAGTTTCGAGGTCAAAA--TAA
1 TTTTTTGAAGTTTCGAGGTAAAAATGTAA
* * * *
110144 GGATTTTTGAAAGTTTGGGGGTAAAAATGTGA
1 --TTTTTTG-AAGTTTCGAGGTAAAAATGTAA
* * * *
110176 TTTTTGGAAGTTTTGAGGTTAAATATATAA
1 TTTTTTGAAGTTTCGAGG-TAAAAATGTAA
110206 TTTT
1 TTTT
110210 GGAGAAGTTT
Statistics
Matches: 179, Mismatches: 38, Indels: 46
0.68 0.14 0.17
Matches are distributed among these distances:
27 4 0.02
28 13 0.07
29 59 0.33
30 97 0.54
31 4 0.02
32 2 0.01
ACGTcount: A:0.33, C:0.03, G:0.25, T:0.39
Consensus pattern (29 bp):
TTTTTTGAAGTTTCGAGGTAAAAATGTAA
Found at i:110209 original size:59 final size:58
Alignment explanation
Indices: 109999--110223 Score: 222
Period size: 59 Copynumber: 3.8 Consensus size: 58
109989 CAAAATGGAA
* * * *
109999 ATTTTTGGAAGTTTTGGGGTTAAAATGGAATTTTTGAAAG-TTGAAGGGT-AAAATG-G
1 ATTTTTGGAAGTTTCGAGGTTAAAATAGAATTTTTGAAAGTTTG-GGGGTAAAAATGTG
* * ** * *
110055 AAATTTTTGGAAGTTTCGAGGTTGAAATTAGGATTTTTGAAAGTTCAGAGGTAAAAATGTA
1 --ATTTTTGGAAGTTTCGAGGTT-AAAATAGAATTTTTGAAAGTTTGGGGGTAAAAATGTG
* * *
110116 ATTTTTTGAAGTTTCGAGGTCAAAATAAGGATTTTTGAAAGTTTGGGGGTAAAAATGTG
1 ATTTTTGGAAGTTTCGAGGTTAAAAT-AGAATTTTTGAAAGTTTGGGGGTAAAAATGTG
* * *
110175 ATTTTTGGAAGTTTTGAGGTTAAATATATAATTTTGGAGAAGTTTGGGG
1 ATTTTTGGAAGTTTCGAGGTTAAA-ATAGAATTTTTGA-AAGTTTGGGG
110224 ACCTCTAGGA
Statistics
Matches: 137, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
58 23 0.17
59 95 0.69
60 19 0.14
ACGTcount: A:0.32, C:0.02, G:0.28, T:0.38
Consensus pattern (58 bp):
ATTTTTGGAAGTTTCGAGGTTAAAATAGAATTTTTGAAAGTTTGGGGGTAAAAATGTG
Found at i:119085 original size:5 final size:5
Alignment explanation
Indices: 119075--119102 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
119065 TACATGAAAA
119075 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
119103 TCACAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:122324 original size:18 final size:16
Alignment explanation
Indices: 122280--122326 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
122270 GACGAGTGTT
122280 AATTAAAAAAATAAAA
1 AATTAAAAAAATAAAA
*
122296 AATCTTAAAAAATAAATA
1 AAT-TAAAAAAATAAA-A
122314 AATTAATAAAAAT
1 AATTAA-AAAAAT
122327 GTAAAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 3 0.12
17 13 0.50
18 10 0.38
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (16 bp):
AATTAAAAAAATAAAA
Found at i:127842 original size:35 final size:33
Alignment explanation
Indices: 127794--127876 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 33
127784 CTCGCCCATA
** *
127794 TTAATTTTTTATTTTTTAAAAATATTTATATTATT
1 TTAATTTAATATTTTTTAAAAAT-TTTATA-TACT
*
127829 TTAATTTAATA---TTTAATAATTTTATATACT
1 TTAATTTAATATTTTTTAAAAATTTTATATACT
127859 TTAATTTAATATTTTTTA
1 TTAATTTAATATTTTTTA
127877 TATAATCATC
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
30 14 0.34
31 6 0.15
32 8 0.20
33 4 0.10
35 9 0.22
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (33 bp):
TTAATTTAATATTTTTTAAAAATTTTATATACT
Found at i:127848 original size:15 final size:13
Alignment explanation
Indices: 127825--127873 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
127815 ATATTTATAT
127825 TATTTTAATTTAA
1 TATTTTAATTTAA
127838 TATTTAATAATTTTATA
1 TATTT--TAA-TTTA-A
*
127855 TACTTTAATTTAA
1 TATTTTAATTTAA
127868 TATTTT
1 TATTTT
127874 TTATATAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 11 0.37
14 4 0.13
15 6 0.20
16 4 0.13
17 5 0.17
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTTTAATTTAA
Found at i:127864 original size:30 final size:32
Alignment explanation
Indices: 127808--127872 Score: 98
Period size: 30 Copynumber: 2.1 Consensus size: 32
127798 TTTTTTATTT
*
127808 TTTAAAAATATTTATATTATTTTAATTTAATA
1 TTTAAAAATATTTATATTACTTTAATTTAATA
*
127840 TTTAATAAT-TTTATA-TACTTTAATTTAATA
1 TTTAAAAATATTTATATTACTTTAATTTAATA
127870 TTT
1 TTT
127873 TTTATATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 17 0.55
31 6 0.19
32 8 0.26
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (32 bp):
TTTAAAAATATTTATATTACTTTAATTTAATA
Found at i:127876 original size:15 final size:15
Alignment explanation
Indices: 127817--127876 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
127807 TTTTAAAAAT
127817 ATTT-ATATTATTTTA
1 ATTTAATATT-TTTTA
**
127832 ATTTAATATTTAATA
1 ATTTAATATTTTTTA
* **
127847 ATTTTATATACTTTA
1 ATTTAATATTTTTTA
127862 ATTTAATATTTTTTA
1 ATTTAATATTTTTTA
127877 TATAATCATC
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
15 29 0.85
16 5 0.15
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTAATATTTTTTA
Found at i:132584 original size:115 final size:117
Alignment explanation
Indices: 132357--132575 Score: 291
Period size: 115 Copynumber: 1.9 Consensus size: 117
132347 ATCCTAGATT
* *
132357 GTGAACTTGTTTTCTAGTTCATCATTTGCCTGAATTTTACGATATAAAAAAATGGCATCTTGGAT
1 GTGAACTTGTTTTCTAGTTCATCATCTGCCTGAATTTTACAATATAAAAAAATGGCATCTTGGAT
*
132422 AATTTCTATTTCTGATTGTGCACTTTGGGGTGTTTTCTTCTGTTTTTTGATG
66 AATTGCTATTTCTGATTGTGCACTTTGGGGTGTTTTCTTCTGTTTTTTGATG
* * * * * *
132474 GTGAA-TTGTTTTTCTAGTTCAT-ATCTGTCTGAGTTTTACAATAT-CAAAAGTTGCATCTTTGA
1 GTGAACTTG-TTTTCTAGTTCATCATCTGCCTGAATTTTACAATATAAAAAAATGGCATCTTGGA
* * * *
132536 TCATTGCTTTTTCTGATTGTGCACTTTGGTGTTTTTTCTT
65 TAATTGCTATTTCTGATTGTGCACTTTGGGGTGTTTTCTT
132576 TTTCTTTTTC
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
115 49 0.56
116 21 0.24
117 18 0.20
ACGTcount: A:0.20, C:0.13, G:0.18, T:0.49
Consensus pattern (117 bp):
GTGAACTTGTTTTCTAGTTCATCATCTGCCTGAATTTTACAATATAAAAAAATGGCATCTTGGAT
AATTGCTATTTCTGATTGTGCACTTTGGGGTGTTTTCTTCTGTTTTTTGATG
Found at i:135992 original size:47 final size:47
Alignment explanation
Indices: 135914--136014 Score: 175
Period size: 47 Copynumber: 2.1 Consensus size: 47
135904 GGGTAAGTCG
*
135914 AATTCTGGTTTAGAATTATTATCATTCGGAAGGTTATCCATAAATTC
1 AATTATGGTTTAGAATTATTATCATTCGGAAGGTTATCCATAAATTC
* *
135961 AATTATGGTTTAGAATTATTATCATTTGGAAGGTTATTCATAAATTC
1 AATTATGGTTTAGAATTATTATCATTCGGAAGGTTATCCATAAATTC
136008 AATTATG
1 AATTATG
136015 TCTTATATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.43
Consensus pattern (47 bp):
AATTATGGTTTAGAATTATTATCATTCGGAAGGTTATCCATAAATTC
Found at i:140038 original size:31 final size:32
Alignment explanation
Indices: 140003--140063 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
139993 AATTAACAAC
*
140003 CCAATGATTT-AAATAAAAACTTTCGAATAGT
1 CCAATGATTTAAAATAAAAACTTTCAAATAGT
140034 CCAATGATTTAAAATAAAAACTTTCAAATA
1 CCAATGATTTAAAATAAAAACTTTCAAATA
140064 ATTTAATGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 10 0.36
32 18 0.64
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.31
Consensus pattern (32 bp):
CCAATGATTTAAAATAAAAACTTTCAAATAGT
Found at i:149450 original size:13 final size:13
Alignment explanation
Indices: 149430--149464 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
149420 ATGGGAAAAG
149430 AACAATCTTGAGC
1 AACAATCTTGAGC
*
149443 AGCAATCTTGAGC
1 AACAATCTTGAGC
149456 AACAATCTT
1 AACAATCTT
149465 CAGAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (13 bp):
AACAATCTTGAGC
Found at i:151480 original size:23 final size:23
Alignment explanation
Indices: 151454--151502 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
151444 CGGAAAGGAG
151454 TAAGAGATTAATCATACAAAAAA
1 TAAGAGATTAATCATACAAAAAA
151477 TAAGAGATTAATCATACAAAAAA
1 TAAGAGATTAATCATACAAAAAA
151500 TAA
1 TAA
151503 AACTTTAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.61, C:0.08, G:0.08, T:0.22
Consensus pattern (23 bp):
TAAGAGATTAATCATACAAAAAA
Found at i:162110 original size:6 final size:6
Alignment explanation
Indices: 162099--162127 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
162089 CTATCTAGAT
162099 GATCAC GATCAC GATCAC GATCAC GATCA
1 GATCAC GATCAC GATCAC GATCAC GATCA
162128 ACATCATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.31, G:0.17, T:0.17
Consensus pattern (6 bp):
GATCAC
Found at i:181981 original size:14 final size:14
Alignment explanation
Indices: 181962--181991 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
181952 ATGTTCATTT
*
181962 ATTTATTTTTTAAA
1 ATTTATTTATTAAA
181976 ATTTATTTATTAAA
1 ATTTATTTATTAAA
181990 AT
1 AT
181992 CCAGCAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
ATTTATTTATTAAA
Found at i:182014 original size:7 final size:7
Alignment explanation
Indices: 182002--182034 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
181992 CCAGCAAGTT
182002 AAATTGA
1 AAATTGA
182009 AAATTGA
1 AAATTGA
182016 AAATTGA
1 AAATTGA
182023 AAATTGA
1 AAATTGA
182030 AAATT
1 AAATT
182035 AAACTAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (7 bp):
AAATTGA
Found at i:197387 original size:12 final size:11
Alignment explanation
Indices: 197369--197457 Score: 53
Period size: 12 Copynumber: 8.1 Consensus size: 11
197359 AAAAAAATCC
197369 AAACAACAAAA
1 AAACAACAAAA
*
197380 ATAACAAC--CA
1 A-AACAACAAAA
*
197390 AAACAAC-AAC
1 AAACAACAAAA
*
197400 AAACAACATTAA
1 AAACAACA-AAA
197412 AAACAACAAAA
1 AAACAACAAAA
197423 ATAACAGA-AAAA
1 A-AACA-ACAAAA
*
197435 CAAC-ACGAAAA
1 AAACAAC-AAAA
*
197446 TAACAACAAAA
1 AAACAACAAAA
197457 A
1 A
197458 CAGTAAAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
9 7 0.12
10 9 0.15
11 18 0.30
12 25 0.42
13 1 0.02
ACGTcount: A:0.72, C:0.20, G:0.02, T:0.06
Consensus pattern (11 bp):
AAACAACAAAA
Found at i:197406 original size:31 final size:33
Alignment explanation
Indices: 197368--197459 Score: 109
Period size: 31 Copynumber: 2.8 Consensus size: 33
197358 TAAAAAAATC
*
197368 CAAACAACA-AAAATAACAACCAAAACAACA-A
1 CAAACAACACAAAATAACAACAAAAACAACAGA
** *
197399 CAAACAACATTAAA-AACAACAAAAATAACAGA
1 CAAACAACACAAAATAACAACAAAAACAACAGA
*
197431 AAAACAACACGAAAATAACAACAAAAACA
1 CAAACAACAC-AAAATAACAACAAAAACA
197460 GTAAAAAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
31 23 0.46
32 12 0.24
33 3 0.06
34 12 0.24
ACGTcount: A:0.71, C:0.22, G:0.02, T:0.05
Consensus pattern (33 bp):
CAAACAACACAAAATAACAACAAAAACAACAGA
Found at i:197448 original size:22 final size:21
Alignment explanation
Indices: 197369--197459 Score: 103
Period size: 22 Copynumber: 4.2 Consensus size: 21
197359 AAAAAAATCC
*
197369 AAACAACAAAAATAACAACCA
1 AAACAACAAAAATAACAACAA
* **
197390 AAACAACAACAAACAACATTAA
1 AAACAACAA-AAATAACAACAA
*
197412 AAACAACAAAAATAAC-AGAA
1 AAACAACAAAAATAACAACAA
197432 AAACAACACGAAAATAACAACAA
1 AAACAACA--AAAATAACAACAA
197455 AAACA
1 AAACA
197460 GTAAAAAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
20 10 0.17
21 15 0.26
22 25 0.43
23 8 0.14
ACGTcount: A:0.71, C:0.21, G:0.02, T:0.05
Consensus pattern (21 bp):
AAACAACAAAAATAACAACAA
Found at i:197457 original size:43 final size:42
Alignment explanation
Indices: 197369--197485 Score: 105
Period size: 43 Copynumber: 2.7 Consensus size: 42
197359 AAAAAAATCC
**
197369 AAACAACAAAAATAACAACCAAAACAACAACAAACAACATTAA
1 AAACAACAAAAATAACAA-CAAAACAACAACAAACAACAACAA
*
197412 AAACAACAAAAATAACAGA-AAAACAAC-ACGAAAATAACAACAA
1 AAACAACAAAAATAACA-ACAAAACAACAAC--AAACAACAACAA
* *
197455 AAACAGTA-AAAAAAAAGCACCAAAACAACAA
1 AAACA--ACAAAAATAA-CAACAAAACAACAA
197486 TATAATTTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
41 2 0.03
42 8 0.13
43 31 0.51
44 8 0.13
45 11 0.18
46 1 0.02
ACGTcount: A:0.71, C:0.21, G:0.03, T:0.05
Consensus pattern (42 bp):
AAACAACAAAAATAACAACAAAACAACAACAAACAACAACAA
Found at i:203299 original size:6 final size:6
Alignment explanation
Indices: 203288--203368 Score: 57
Period size: 6 Copynumber: 14.2 Consensus size: 6
203278 TGGGCCCAAC
* * * * *
203288 AAATTT AAATTT -ATTTT AAAATT AAGTTT -ATTTT AAATTT AAGTTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
203334 --ATTT AAATTT --ATTAT AAATTT AAATTT AAAATTT A
1 AAATTT AAATTT AAATT-T AAATTT AAATTT -AAATTT A
203369 TTTAAATAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
4 6 0.10
5 9 0.16
6 34 0.59
7 9 0.16
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (6 bp):
AAATTT
Found at i:203339 original size:10 final size:10
Alignment explanation
Indices: 203324--203375 Score: 59
Period size: 10 Copynumber: 4.8 Consensus size: 10
203314 TTTATTTTAA
*
203324 ATTTAAGTTT
1 ATTTAAATTT
203334 ATTTAAATTT
1 ATTTAAATTT
203344 ATTATAAATTT
1 ATT-TAAATTT
203355 AAATTTAAAATTT
1 --ATTT-AAATTT
203368 ATTTAAAT
1 ATTTAAAT
203376 AATGTCCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
10 16 0.43
11 11 0.30
12 1 0.03
13 9 0.24
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (10 bp):
ATTTAAATTT
Found at i:203339 original size:27 final size:27
Alignment explanation
Indices: 203309--203375 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
203299 TATTTTAAAA
* * *
203309 TTAAGTTTATTTTAAATTTAAGTTTAT
1 TTAAATTTATTATAAATTTAAATTTAT
203336 TTAAATTTATTATAAATTTAAATTTA-
1 TTAAATTTATTATAAATTTAAATTTAT
203362 --AAATTTATT-TAAAT
1 TTAAATTTATTATAAAT
203376 AATGTCCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 5 0.14
24 9 0.24
27 23 0.62
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (27 bp):
TTAAATTTATTATAAATTTAAATTTAT
Found at i:203354 original size:17 final size:16
Alignment explanation
Indices: 203288--203375 Score: 86
Period size: 17 Copynumber: 5.2 Consensus size: 16
203278 TGGGCCCAAC
203288 AAATTTAAATTTATTTT
1 AAATTTAAATTTA-TTT
* *
203305 AAAATTAAGTTTATTTT
1 AAATTTAAATTTA-TTT
*
203322 AAATTTAAGTTTATTT
1 AAATTTAAATTTATTT
* **
203338 AAATTTATTATAAATTT
1 AAATTTA-AATTTATTT
203355 AAATTTAAAATTTATTT
1 AAATTT-AAATTTATTT
203372 AAAT
1 AAAT
203376 AATGTCCAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
16 10 0.17
17 48 0.81
18 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
AAATTTAAATTTATTT
Found at i:204010 original size:15 final size:15
Alignment explanation
Indices: 203992--204024 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
203982 TATTACAATA
*
203992 AATGACATTAATAAT
1 AATGAAATTAATAAT
204007 AATGAAATTAATAAT
1 AATGAAATTAATAAT
204022 AAT
1 AAT
204025 ATTTATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (15 bp):
AATGAAATTAATAAT
Found at i:204020 original size:12 final size:12
Alignment explanation
Indices: 204003--204043 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
203993 ATGACATTAA
204003 TAATAATGAA-AT
1 TAATAAT-AATAT
204015 TAATAATAATAT
1 TAATAATAATAT
*
204027 TTATAATAATAT
1 TAATAATAATAT
204039 TAATA
1 TAATA
204044 GTAGTAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 2 0.08
12 24 0.92
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:205194 original size:29 final size:29
Alignment explanation
Indices: 205144--205775 Score: 277
Period size: 29 Copynumber: 21.7 Consensus size: 29
205134 GAGGCCCCTA
* * * *
205144 AACTATCCAAAACTTCCGTTTTCACCCTCG
1 AACT-TCCAAAAATCCCATTTTGACCCTCG
* * *
205174 AACTTCTAAAAACCCCATTTTTGACCCCCG
1 AACTTCCAAAAATCCCA-TTTTGACCCTCG
** * *
205204 AAACTTTTAAAAATTCCATTTTTACCCTCG
1 -AACTTCCAAAAATCCCATTTTGACCCTCG
* *
205234 AATTTCCAAAAATCCCACTTTTGA-CCTCTA
1 AACTTCCAAAAATCCCA-TTTTGACCCTC-G
*** * *
205264 AAC-TCCTAAAAATTTTATTTTTACCCCCG
1 AACTTCC-AAAAATCCCATTTTGACCCTCG
*
205293 AACATT-CAATAATCCCATTTTTGA-CCTCG
1 AAC-TTCCAAAAATCCCA-TTTTGACCCTCG
* * * *
205322 AAATTCTCAAAAATTCTATTTTTACCCTCG
1 AACTTC-CAAAAATCCCATTTTGACCCTCG
205352 AACTTCCAAAAATCCCATTTTTGA-CCTCG
1 AACTTCCAAAAATCCCA-TTTTGACCCTCG
* * * *
205381 AAATTCCCAAAAATTCCGTTTTCACCAC-CG
1 AACTT-CCAAAAATCCCATTTTGACC-CTCG
*
205411 AACTTCCAAAAACCCCATTTTTGACCC-CG
1 AACTTCCAAAAATCCCA-TTTTGACCCTCG
* ** * *
205440 AAACTTCTAAAAATTTCGTTTTTACTCCT-G
1 -AACTTCCAAAAATCCCATTTTGAC-CCTCG
205470 AACTTCCAAAAATCCCATTTTTGA-CCTCG
1 AACTTCCAAAAATCCCA-TTTTGACCCTCG
* ** * *
205499 AAACTCCCAAAAATTTCATTTTCACCCTAG
1 -AACTTCCAAAAATCCCATTTTGACCCTCG
205529 AACTTCCAAAAATCCCATTTTTGA-CC-CG
1 AACTTCCAAAAATCCCA-TTTTGACCCTCG
* * **** * *
205557 AAAATCCCAAAAATTTTGTTTTCACTCTCG
1 -AACTTCCAAAAATCCCATTTTGACCCTCG
* * *
205587 AACTTCTAAAAACCCCAATTTTGACCCT-A
1 AACTTCCAAAAATCCC-ATTTTGACCCTCG
* * *
205616 AGACTTCCAAAAAAT-CTATTTTTACCCCCG
1 A-ACTTCC-AAAAATCCCATTTTGACCCTCG
* *
205646 AACTTTCGAAAATCCCATTTT-----T-G
1 AACTTCCAAAAATCCCATTTTGACCCTCG
* * ** *
205669 -ACCT-CAAAAATTCCATTTCAACCCTCA
1 AACTTCCAAAAATCCCATTTTGACCCTCG
*
205696 AACTTCCAAAAATCCCATTTTTTACCC-CG
1 AACTTCCAAAAATCCCA-TTTTGACCCTCG
* * *
205725 AAACCTCCAAAAATAACCATTTT-ACCCCCG
1 -AACTTCCAAAAAT-CCCATTTTGACCCTCG
*
205755 AA-TGTCCAAAAACTCCAATTT
1 AACT-TCCAAAAA-TCCCATTT
205776 CGATCTCGAA
Statistics
Matches: 441, Mismatches: 114, Indels: 95
0.68 0.18 0.15
Matches are distributed among these distances:
21 12 0.03
22 3 0.01
23 1 0.00
26 1 0.00
28 19 0.04
29 201 0.46
30 180 0.41
31 24 0.05
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.32
Consensus pattern (29 bp):
AACTTCCAAAAATCCCATTTTGACCCTCG
Found at i:205215 original size:31 final size:30
Alignment explanation
Indices: 205174--205452 Score: 121
Period size: 30 Copynumber: 9.4 Consensus size: 30
205164 TTCACCCTCG
205174 AACTTCTAAAAACCCCATTTTTGACCCCCGA
1 AACTTCTAAAAACCCCATTTTT-ACCCCCGA
* ** *
205205 AACTTTTAAAAATTCCATTTTTACCCTCG-
1 AACTTCTAAAAACCCCATTTTTACCCCCGA
* * * * * *
205234 AATTTCCAAAAATCCCACTTTTGA-CCTCTA
1 AACTTCTAAAAACCCCA-TTTTTACCCCCGA
* ****
205264 AACTCCTAAAAATTTTATTTTTACCCCCG-
1 AACTTCTAAAAACCCCATTTTTACCCCCGA
* * *
205293 AACATTC-AATAATCCCATTTTTGA-CCTCGA
1 AAC-TTCTAAAAACCCCATTTTT-ACCCCCGA
** * *
205323 AA-TTCTCAAAAATTCTATTTTTACCCTCG-
1 AACTTCT-AAAAACCCCATTTTTACCCCCGA
* * *
205352 AACTTCCAAAAATCCCATTTTTGA-CCTCGA
1 AACTTCTAAAAACCCCATTTTT-ACCCCCGA
* ** * * *
205382 AA-TTCCCAAAAATTCCGTTTTCACCACCG-
1 AACTT-CTAAAAACCCCATTTTTACCCCCGA
*
205411 AACTTCCAAAAACCCCATTTTTGA-CCCCGA
1 AACTTCTAAAAACCCCATTTTT-ACCCCCGA
205441 AACTTCTAAAAA
1 AACTTCTAAAAA
205453 TTTCGTTTTT
Statistics
Matches: 189, Mismatches: 42, Indels: 35
0.71 0.16 0.13
Matches are distributed among these distances:
28 3 0.02
29 83 0.44
30 84 0.44
31 19 0.10
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.32
Consensus pattern (30 bp):
AACTTCTAAAAACCCCATTTTTACCCCCGA
Found at i:205288 original size:59 final size:59
Alignment explanation
Indices: 205152--205797 Score: 533
Period size: 59 Copynumber: 11.1 Consensus size: 59
205142 TAAACTATCC
* * * * * * **
205152 AAAACTTCCGTTTTCACCCTCGAACTTCTAAAAACCCCATTTTTGACCCCCGAAACTTTT
1 AAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGA-CCTCGAAACTCCT
* * *
205212 AAAAATTCCATTTTTACCCTCGAATTTCCAAAAATCCCACTTTTGACCTCTAAACTCCT
1 AAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCTCGAAACTCCT
** * * *
205271 AAAAATTTTATTTTTACCCCCGAACATT-CAATAATCCCATTTTTGACCTCGAAA-TTCT
1 AAAAATTCCATTTTTACCCTCGAAC-TTCCAAAAATCCCATTTTTGACCTCGAAACTCCT
* * *
205329 CAAAAATTCTATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCTCGAAATTCCC
1 -AAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCTCGAAACTCCT
* * * * *
205389 AAAAATTCCGTTTTCACCAC-CGAACTTCCAAAAACCCCATTTTTGACCCCGAAACTTCT
1 AAAAATTCCATTTTTACC-CTCGAACTTCCAAAAATCCCATTTTTGACCTCGAAACTCCT
* * *
205448 AAAAATTTCGTTTTTACTCCT-GAACTTCCAAAAATCCCATTTTTGACCTCGAAACTCCC
1 AAAAATTCCATTTTTAC-CCTCGAACTTCCAAAAATCCCATTTTTGACCTCGAAACTCCT
* * * * *
205507 AAAAATTTCATTTTCACCCTAGAACTTCCAAAAATCCCATTTTTGACC-CGAAAATCCC
1 AAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCTCGAAACTCCT
*** * * * * * *
205565 AAAAATTTTGTTTTCACTCTCGAACTTCTAAAAACCCCAATTTTGACC-CTAAGACTTCC-
1 AAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCTCGAA-AC-TCCT
* * * * *
205624 AAAAAATCTATTTTTACCCCCGAACTTTCGAAAATCCCATTTTTGA---C----CT-C-
1 AAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCTCGAAACTCCT
** * * *
205674 AAAAATTCCATTTCAACCCTCAAACTTCCAAAAATCCCATTTTTTACCCCGAAACCTCC-
1 AAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCTCGAAA-CTCCT
* * * * *
205733 AAAAATAACCA-TTTTACCCCCGAA-TGTCCAAAAA-CTCCAATTTCGATCTCGAAACT-CT
1 AAAAAT-TCCATTTTTACCCTCGAACT-TCCAAAAATC-CCATTTTTGACCTCGAAACTCCT
*
205791 CAAAATT
1 AAAAATT
205798 ACCCTTTTAC
Statistics
Matches: 481, Mismatches: 82, Indels: 49
0.79 0.13 0.08
Matches are distributed among these distances:
50 38 0.08
51 1 0.00
52 1 0.00
53 1 0.00
57 2 0.00
58 72 0.15
59 315 0.65
60 51 0.11
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.32
Consensus pattern (59 bp):
AAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCTCGAAACTCCT
Found at i:205905 original size:28 final size:29
Alignment explanation
Indices: 205851--205910 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
205841 AAAATTTCCC
205851 AAATTACCATTTCACCCTCGAGAATCC-A
1 AAATTACCATTTCACCCTCGAGAATCCGA
* *
205879 AAATTGCCATTTTACCCTCG-GATATCCGA
1 AAATTACCATTTCACCCTCGAGA-ATCCGA
205908 AAA
1 AAA
205911 GTCTCATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 2 0.07
28 22 0.79
29 4 0.14
ACGTcount: A:0.35, C:0.28, G:0.10, T:0.27
Consensus pattern (29 bp):
AAATTACCATTTCACCCTCGAGAATCCGA
Done.