Multiple sequence alignment - TraesCS1A01G343600

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS1A01G343600 chr1A 100.000 2240 0 0 1 2240 532085502 532087741 0.000000e+00 4137.0
1 TraesCS1A01G343600 chr1A 97.025 1412 20 3 793 2182 554463526 554464937 0.000000e+00 2355.0
2 TraesCS1A01G343600 chr1A 98.233 566 9 1 230 794 532078153 532078718 0.000000e+00 989.0
3 TraesCS1A01G343600 chr1A 98.050 564 10 1 230 793 347337276 347336714 0.000000e+00 979.0
4 TraesCS1A01G343600 chr1A 98.690 229 3 0 1 229 552410935 552411163 7.450000e-110 407.0
5 TraesCS1A01G343600 chr1A 98.253 229 4 0 1 229 532078476 532078704 3.470000e-108 401.0
6 TraesCS1A01G343600 chr2A 97.277 1469 19 1 793 2240 726903170 726901702 0.000000e+00 2471.0
7 TraesCS1A01G343600 chr2A 98.217 561 9 1 233 793 668900551 668899992 0.000000e+00 979.0
8 TraesCS1A01G343600 chr7B 97.005 1469 22 3 793 2240 662730199 662731666 0.000000e+00 2449.0
9 TraesCS1A01G343600 chr7B 99.195 621 5 0 1620 2240 622433837 622433217 0.000000e+00 1120.0
10 TraesCS1A01G343600 chr5D 97.005 1469 22 6 793 2240 503248556 503250023 0.000000e+00 2449.0
11 TraesCS1A01G343600 chr5D 96.669 1471 24 8 793 2240 503261492 503260024 0.000000e+00 2422.0
12 TraesCS1A01G343600 chr3B 97.005 1469 23 1 793 2240 201571502 201570034 0.000000e+00 2449.0
13 TraesCS1A01G343600 chr3B 98.053 565 10 1 230 794 22533613 22534176 0.000000e+00 981.0
14 TraesCS1A01G343600 chr3B 99.127 229 2 0 1 229 742539942 742539714 1.600000e-111 412.0
15 TraesCS1A01G343600 chr3B 98.690 229 3 0 1 229 797068975 797068747 7.450000e-110 407.0
16 TraesCS1A01G343600 chr3D 96.869 1469 24 2 793 2240 589260242 589258775 0.000000e+00 2438.0
17 TraesCS1A01G343600 chr7A 96.801 1469 25 2 793 2240 258307528 258306061 0.000000e+00 2433.0
18 TraesCS1A01G343600 chr6B 96.596 1469 29 1 793 2240 450083087 450084555 0.000000e+00 2416.0
19 TraesCS1A01G343600 chr1D 96.256 1469 34 1 793 2240 254528891 254530359 0.000000e+00 2388.0
20 TraesCS1A01G343600 chr2D 96.957 1183 14 2 1079 2240 591989244 591990425 0.000000e+00 1965.0
21 TraesCS1A01G343600 chr2D 96.444 1125 19 6 793 1896 591987894 591989018 0.000000e+00 1836.0
22 TraesCS1A01G343600 chr3A 95.776 805 11 3 1457 2240 695634350 695635152 0.000000e+00 1277.0
23 TraesCS1A01G343600 chr3A 96.132 698 6 1 1564 2240 66001424 66000727 0.000000e+00 1120.0
24 TraesCS1A01G343600 chr3A 98.224 563 9 1 230 792 716903469 716904030 0.000000e+00 983.0
25 TraesCS1A01G343600 chr3A 98.221 562 9 1 233 794 71589270 71588710 0.000000e+00 981.0
26 TraesCS1A01G343600 chr1B 98.224 563 9 1 232 794 44313021 44313582 0.000000e+00 983.0
27 TraesCS1A01G343600 chr4A 98.046 563 10 1 230 792 645798388 645798949 0.000000e+00 977.0
28 TraesCS1A01G343600 chr4A 98.253 229 4 0 1 229 124099367 124099595 3.470000e-108 401.0
29 TraesCS1A01G343600 chr4A 98.253 229 4 0 1 229 695091284 695091056 3.470000e-108 401.0
30 TraesCS1A01G343600 chr4A 94.800 250 11 1 5 254 513411909 513411662 2.700000e-104 388.0
31 TraesCS1A01G343600 chr5A 97.876 565 11 1 230 794 51637691 51637128 0.000000e+00 976.0
32 TraesCS1A01G343600 chr5A 98.253 229 4 0 1 229 704401176 704401404 3.470000e-108 401.0
33 TraesCS1A01G343600 chr6A 98.253 229 4 0 1 229 493707127 493706899 3.470000e-108 401.0
34 TraesCS1A01G343600 chr7D 100.000 36 0 0 793 828 398308536 398308501 1.440000e-07 67.6


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1A01G343600 chr1A 532085502 532087741 2239 False 4137.0 4137 100.0000 1 2240 1 chr1A.!!$F1 2239
1 TraesCS1A01G343600 chr1A 554463526 554464937 1411 False 2355.0 2355 97.0250 793 2182 1 chr1A.!!$F3 1389
2 TraesCS1A01G343600 chr1A 347336714 347337276 562 True 979.0 979 98.0500 230 793 1 chr1A.!!$R1 563
3 TraesCS1A01G343600 chr1A 532078153 532078718 565 False 695.0 989 98.2430 1 794 2 chr1A.!!$F4 793
4 TraesCS1A01G343600 chr2A 726901702 726903170 1468 True 2471.0 2471 97.2770 793 2240 1 chr2A.!!$R2 1447
5 TraesCS1A01G343600 chr2A 668899992 668900551 559 True 979.0 979 98.2170 233 793 1 chr2A.!!$R1 560
6 TraesCS1A01G343600 chr7B 662730199 662731666 1467 False 2449.0 2449 97.0050 793 2240 1 chr7B.!!$F1 1447
7 TraesCS1A01G343600 chr7B 622433217 622433837 620 True 1120.0 1120 99.1950 1620 2240 1 chr7B.!!$R1 620
8 TraesCS1A01G343600 chr5D 503248556 503250023 1467 False 2449.0 2449 97.0050 793 2240 1 chr5D.!!$F1 1447
9 TraesCS1A01G343600 chr5D 503260024 503261492 1468 True 2422.0 2422 96.6690 793 2240 1 chr5D.!!$R1 1447
10 TraesCS1A01G343600 chr3B 201570034 201571502 1468 True 2449.0 2449 97.0050 793 2240 1 chr3B.!!$R1 1447
11 TraesCS1A01G343600 chr3B 22533613 22534176 563 False 981.0 981 98.0530 230 794 1 chr3B.!!$F1 564
12 TraesCS1A01G343600 chr3D 589258775 589260242 1467 True 2438.0 2438 96.8690 793 2240 1 chr3D.!!$R1 1447
13 TraesCS1A01G343600 chr7A 258306061 258307528 1467 True 2433.0 2433 96.8010 793 2240 1 chr7A.!!$R1 1447
14 TraesCS1A01G343600 chr6B 450083087 450084555 1468 False 2416.0 2416 96.5960 793 2240 1 chr6B.!!$F1 1447
15 TraesCS1A01G343600 chr1D 254528891 254530359 1468 False 2388.0 2388 96.2560 793 2240 1 chr1D.!!$F1 1447
16 TraesCS1A01G343600 chr2D 591987894 591990425 2531 False 1900.5 1965 96.7005 793 2240 2 chr2D.!!$F1 1447
17 TraesCS1A01G343600 chr3A 695634350 695635152 802 False 1277.0 1277 95.7760 1457 2240 1 chr3A.!!$F1 783
18 TraesCS1A01G343600 chr3A 66000727 66001424 697 True 1120.0 1120 96.1320 1564 2240 1 chr3A.!!$R1 676
19 TraesCS1A01G343600 chr3A 716903469 716904030 561 False 983.0 983 98.2240 230 792 1 chr3A.!!$F2 562
20 TraesCS1A01G343600 chr3A 71588710 71589270 560 True 981.0 981 98.2210 233 794 1 chr3A.!!$R2 561
21 TraesCS1A01G343600 chr1B 44313021 44313582 561 False 983.0 983 98.2240 232 794 1 chr1B.!!$F1 562
22 TraesCS1A01G343600 chr4A 645798388 645798949 561 False 977.0 977 98.0460 230 792 1 chr4A.!!$F2 562
23 TraesCS1A01G343600 chr5A 51637128 51637691 563 True 976.0 976 97.8760 230 794 1 chr5A.!!$R1 564

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
168 169 0.034896 TCTTCCCCTTGACTCGTTGC 59.965 55.0 0.0 0.0 0.0 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1448 2516 1.10051 CCCGTCGATGTGGACTCTTA 58.899 55.0 3.52 0.0 34.75 2.1 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 3.529504 CGTCCCGTACGTGTGTTG 58.470 61.111 15.21 0.00 46.72 3.33
22 23 1.008652 CGTCCCGTACGTGTGTTGA 60.009 57.895 15.21 0.00 46.72 3.18
23 24 0.594540 CGTCCCGTACGTGTGTTGAA 60.595 55.000 15.21 0.00 46.72 2.69
24 25 0.854705 GTCCCGTACGTGTGTTGAAC 59.145 55.000 15.21 0.00 0.00 3.18
25 26 0.594540 TCCCGTACGTGTGTTGAACG 60.595 55.000 15.21 0.00 46.32 3.95
26 27 1.199859 CCGTACGTGTGTTGAACGC 59.800 57.895 15.21 1.20 44.80 4.84
31 32 2.935955 GTGTGTTGAACGCGGAGG 59.064 61.111 12.47 0.00 0.00 4.30
32 33 1.885850 GTGTGTTGAACGCGGAGGT 60.886 57.895 12.47 0.00 0.00 3.85
33 34 1.885388 TGTGTTGAACGCGGAGGTG 60.885 57.895 12.47 0.00 0.00 4.00
34 35 1.593209 GTGTTGAACGCGGAGGTGA 60.593 57.895 12.47 0.00 0.00 4.02
35 36 0.949105 GTGTTGAACGCGGAGGTGAT 60.949 55.000 12.47 0.00 0.00 3.06
36 37 0.948623 TGTTGAACGCGGAGGTGATG 60.949 55.000 12.47 0.00 0.00 3.07
37 38 0.949105 GTTGAACGCGGAGGTGATGT 60.949 55.000 12.47 0.00 0.00 3.06
38 39 0.669318 TTGAACGCGGAGGTGATGTC 60.669 55.000 12.47 0.00 0.00 3.06
39 40 1.810030 GAACGCGGAGGTGATGTCC 60.810 63.158 12.47 0.00 0.00 4.02
45 46 3.442996 GGAGGTGATGTCCGTTCAG 57.557 57.895 0.00 0.00 0.00 3.02
46 47 0.741221 GGAGGTGATGTCCGTTCAGC 60.741 60.000 0.00 0.00 40.92 4.26
47 48 0.037326 GAGGTGATGTCCGTTCAGCA 60.037 55.000 5.77 0.21 42.58 4.41
49 50 3.217242 GTGATGTCCGTTCAGCACT 57.783 52.632 14.92 0.00 46.75 4.40
50 51 1.512926 GTGATGTCCGTTCAGCACTT 58.487 50.000 14.92 0.00 46.75 3.16
51 52 1.195448 GTGATGTCCGTTCAGCACTTG 59.805 52.381 14.92 0.00 46.75 3.16
52 53 0.798776 GATGTCCGTTCAGCACTTGG 59.201 55.000 0.00 0.00 0.00 3.61
53 54 0.108585 ATGTCCGTTCAGCACTTGGT 59.891 50.000 0.00 0.00 0.00 3.67
54 55 0.531974 TGTCCGTTCAGCACTTGGTC 60.532 55.000 0.00 0.00 0.00 4.02
55 56 0.531974 GTCCGTTCAGCACTTGGTCA 60.532 55.000 0.00 0.00 0.00 4.02
56 57 0.396435 TCCGTTCAGCACTTGGTCAT 59.604 50.000 0.00 0.00 0.00 3.06
57 58 0.798776 CCGTTCAGCACTTGGTCATC 59.201 55.000 0.00 0.00 0.00 2.92
58 59 0.439985 CGTTCAGCACTTGGTCATCG 59.560 55.000 0.00 0.00 0.00 3.84
59 60 0.798776 GTTCAGCACTTGGTCATCGG 59.201 55.000 0.00 0.00 0.00 4.18
60 61 0.396435 TTCAGCACTTGGTCATCGGT 59.604 50.000 0.00 0.00 0.00 4.69
61 62 0.320683 TCAGCACTTGGTCATCGGTG 60.321 55.000 0.00 0.00 0.00 4.94
62 63 0.320683 CAGCACTTGGTCATCGGTGA 60.321 55.000 0.00 0.00 32.12 4.02
63 64 0.615331 AGCACTTGGTCATCGGTGAT 59.385 50.000 0.00 0.00 36.60 3.06
64 65 1.009829 GCACTTGGTCATCGGTGATC 58.990 55.000 0.00 0.12 36.60 2.92
65 66 1.656652 CACTTGGTCATCGGTGATCC 58.343 55.000 6.45 8.32 34.43 3.36
78 79 3.918102 TGATCCGAATCACGTCGAG 57.082 52.632 0.00 0.00 43.86 4.04
79 80 1.092348 TGATCCGAATCACGTCGAGT 58.908 50.000 0.00 0.00 43.86 4.18
80 81 2.282407 TGATCCGAATCACGTCGAGTA 58.718 47.619 0.00 0.00 43.86 2.59
81 82 2.876550 TGATCCGAATCACGTCGAGTAT 59.123 45.455 0.00 0.00 43.86 2.12
82 83 2.750301 TCCGAATCACGTCGAGTATG 57.250 50.000 0.00 0.00 43.86 2.39
83 84 2.282407 TCCGAATCACGTCGAGTATGA 58.718 47.619 0.00 0.00 43.86 2.15
84 85 2.031314 TCCGAATCACGTCGAGTATGAC 59.969 50.000 0.00 0.00 43.86 3.06
85 86 2.031807 CCGAATCACGTCGAGTATGACT 59.968 50.000 0.00 0.00 43.86 3.41
86 87 3.281601 CGAATCACGTCGAGTATGACTC 58.718 50.000 0.00 0.00 43.86 3.36
87 88 3.619729 GAATCACGTCGAGTATGACTCC 58.380 50.000 0.00 0.00 42.12 3.85
88 89 2.103537 TCACGTCGAGTATGACTCCA 57.896 50.000 0.00 0.00 42.12 3.86
89 90 2.640184 TCACGTCGAGTATGACTCCAT 58.360 47.619 0.00 0.00 42.12 3.41
90 91 2.612672 TCACGTCGAGTATGACTCCATC 59.387 50.000 0.00 0.00 42.12 3.51
91 92 2.354821 CACGTCGAGTATGACTCCATCA 59.645 50.000 0.00 0.00 42.12 3.07
93 94 3.251245 ACGTCGAGTATGACTCCATCATC 59.749 47.826 0.00 0.00 45.52 2.92
94 95 3.251004 CGTCGAGTATGACTCCATCATCA 59.749 47.826 1.13 0.00 45.52 3.07
95 96 4.541779 GTCGAGTATGACTCCATCATCAC 58.458 47.826 1.13 0.00 45.52 3.06
96 97 3.570125 TCGAGTATGACTCCATCATCACC 59.430 47.826 1.13 0.00 45.52 4.02
97 98 3.319122 CGAGTATGACTCCATCATCACCA 59.681 47.826 1.13 0.00 45.52 4.17
98 99 4.021632 CGAGTATGACTCCATCATCACCAT 60.022 45.833 1.13 0.00 45.52 3.55
99 100 5.477510 GAGTATGACTCCATCATCACCATC 58.522 45.833 0.00 0.00 45.52 3.51
100 101 3.784511 ATGACTCCATCATCACCATCC 57.215 47.619 0.00 0.00 45.52 3.51
101 102 1.770658 TGACTCCATCATCACCATCCC 59.229 52.381 0.00 0.00 29.99 3.85
102 103 1.072965 GACTCCATCATCACCATCCCC 59.927 57.143 0.00 0.00 0.00 4.81
103 104 1.345838 ACTCCATCATCACCATCCCCT 60.346 52.381 0.00 0.00 0.00 4.79
104 105 1.779092 CTCCATCATCACCATCCCCTT 59.221 52.381 0.00 0.00 0.00 3.95
105 106 1.496001 TCCATCATCACCATCCCCTTG 59.504 52.381 0.00 0.00 0.00 3.61
106 107 1.496001 CCATCATCACCATCCCCTTGA 59.504 52.381 0.00 0.00 0.00 3.02
107 108 2.091720 CCATCATCACCATCCCCTTGAA 60.092 50.000 0.00 0.00 0.00 2.69
108 109 2.806945 TCATCACCATCCCCTTGAAC 57.193 50.000 0.00 0.00 0.00 3.18
109 110 1.065491 TCATCACCATCCCCTTGAACG 60.065 52.381 0.00 0.00 0.00 3.95
110 111 0.394352 ATCACCATCCCCTTGAACGC 60.394 55.000 0.00 0.00 0.00 4.84
111 112 1.002134 CACCATCCCCTTGAACGCT 60.002 57.895 0.00 0.00 0.00 5.07
112 113 0.609131 CACCATCCCCTTGAACGCTT 60.609 55.000 0.00 0.00 0.00 4.68
113 114 0.322546 ACCATCCCCTTGAACGCTTC 60.323 55.000 0.00 0.00 0.00 3.86
114 115 1.032114 CCATCCCCTTGAACGCTTCC 61.032 60.000 0.00 0.00 0.00 3.46
115 116 1.078426 ATCCCCTTGAACGCTTCCG 60.078 57.895 0.00 0.00 41.14 4.30
116 117 3.431725 CCCCTTGAACGCTTCCGC 61.432 66.667 0.00 0.00 38.22 5.54
117 118 2.668212 CCCTTGAACGCTTCCGCA 60.668 61.111 0.00 0.00 38.22 5.69
118 119 2.556287 CCTTGAACGCTTCCGCAC 59.444 61.111 0.00 0.00 38.22 5.34
119 120 1.961277 CCTTGAACGCTTCCGCACT 60.961 57.895 0.00 0.00 38.22 4.40
120 121 1.493311 CTTGAACGCTTCCGCACTC 59.507 57.895 0.00 0.00 38.22 3.51
121 122 2.215478 CTTGAACGCTTCCGCACTCG 62.215 60.000 0.00 0.00 38.22 4.18
122 123 2.430244 GAACGCTTCCGCACTCGA 60.430 61.111 0.00 0.00 38.22 4.04
123 124 1.805945 GAACGCTTCCGCACTCGAT 60.806 57.895 0.00 0.00 38.22 3.59
124 125 1.743855 GAACGCTTCCGCACTCGATC 61.744 60.000 0.00 0.00 38.22 3.69
125 126 2.103143 CGCTTCCGCACTCGATCT 59.897 61.111 0.00 0.00 38.10 2.75
126 127 1.355563 CGCTTCCGCACTCGATCTA 59.644 57.895 0.00 0.00 38.10 1.98
127 128 0.930742 CGCTTCCGCACTCGATCTAC 60.931 60.000 0.00 0.00 38.10 2.59
128 129 0.100682 GCTTCCGCACTCGATCTACA 59.899 55.000 0.00 0.00 38.10 2.74
129 130 1.469251 GCTTCCGCACTCGATCTACAA 60.469 52.381 0.00 0.00 38.10 2.41
130 131 2.455032 CTTCCGCACTCGATCTACAAG 58.545 52.381 0.00 0.00 38.10 3.16
131 132 1.460504 TCCGCACTCGATCTACAAGT 58.539 50.000 0.00 0.00 38.10 3.16
132 133 1.132453 TCCGCACTCGATCTACAAGTG 59.868 52.381 8.99 8.99 42.59 3.16
133 134 1.550065 CGCACTCGATCTACAAGTGG 58.450 55.000 13.06 4.01 40.57 4.00
134 135 1.135373 CGCACTCGATCTACAAGTGGT 60.135 52.381 13.06 0.00 40.57 4.16
135 136 2.096980 CGCACTCGATCTACAAGTGGTA 59.903 50.000 13.06 0.00 40.57 3.25
136 137 3.243101 CGCACTCGATCTACAAGTGGTAT 60.243 47.826 13.06 0.00 40.57 2.73
137 138 4.024302 CGCACTCGATCTACAAGTGGTATA 60.024 45.833 13.06 0.00 40.57 1.47
138 139 5.334957 CGCACTCGATCTACAAGTGGTATAT 60.335 44.000 13.06 0.00 40.57 0.86
139 140 6.128363 CGCACTCGATCTACAAGTGGTATATA 60.128 42.308 13.06 0.00 40.57 0.86
140 141 7.244898 GCACTCGATCTACAAGTGGTATATAG 58.755 42.308 13.06 0.00 40.57 1.31
141 142 7.119407 GCACTCGATCTACAAGTGGTATATAGA 59.881 40.741 13.06 0.00 40.57 1.98
142 143 9.168451 CACTCGATCTACAAGTGGTATATAGAT 57.832 37.037 0.00 0.00 37.38 1.98
143 144 9.168451 ACTCGATCTACAAGTGGTATATAGATG 57.832 37.037 0.00 0.00 33.70 2.90
144 145 7.986562 TCGATCTACAAGTGGTATATAGATGC 58.013 38.462 0.00 0.00 33.70 3.91
145 146 7.610305 TCGATCTACAAGTGGTATATAGATGCA 59.390 37.037 0.00 0.00 33.70 3.96
146 147 8.244113 CGATCTACAAGTGGTATATAGATGCAA 58.756 37.037 0.00 0.00 33.70 4.08
147 148 9.929180 GATCTACAAGTGGTATATAGATGCAAA 57.071 33.333 0.00 0.00 33.70 3.68
148 149 9.712305 ATCTACAAGTGGTATATAGATGCAAAC 57.288 33.333 0.00 0.00 32.60 2.93
149 150 8.924303 TCTACAAGTGGTATATAGATGCAAACT 58.076 33.333 0.00 0.00 0.00 2.66
150 151 9.197694 CTACAAGTGGTATATAGATGCAAACTC 57.802 37.037 0.00 0.00 0.00 3.01
151 152 7.796054 ACAAGTGGTATATAGATGCAAACTCT 58.204 34.615 0.00 0.00 0.00 3.24
152 153 8.267894 ACAAGTGGTATATAGATGCAAACTCTT 58.732 33.333 0.00 0.00 0.00 2.85
153 154 8.768955 CAAGTGGTATATAGATGCAAACTCTTC 58.231 37.037 0.00 0.00 0.00 2.87
154 155 7.445945 AGTGGTATATAGATGCAAACTCTTCC 58.554 38.462 0.00 0.00 0.00 3.46
155 156 6.651225 GTGGTATATAGATGCAAACTCTTCCC 59.349 42.308 0.00 0.00 0.00 3.97
156 157 6.174049 GGTATATAGATGCAAACTCTTCCCC 58.826 44.000 0.00 0.00 0.00 4.81
157 158 6.013293 GGTATATAGATGCAAACTCTTCCCCT 60.013 42.308 0.00 0.00 0.00 4.79
158 159 4.870021 ATAGATGCAAACTCTTCCCCTT 57.130 40.909 0.00 0.00 0.00 3.95
159 160 2.800250 AGATGCAAACTCTTCCCCTTG 58.200 47.619 0.00 0.00 0.00 3.61
160 161 2.376518 AGATGCAAACTCTTCCCCTTGA 59.623 45.455 0.00 0.00 0.00 3.02
161 162 1.981256 TGCAAACTCTTCCCCTTGAC 58.019 50.000 0.00 0.00 0.00 3.18
162 163 1.494721 TGCAAACTCTTCCCCTTGACT 59.505 47.619 0.00 0.00 0.00 3.41
163 164 2.155279 GCAAACTCTTCCCCTTGACTC 58.845 52.381 0.00 0.00 0.00 3.36
164 165 2.417719 CAAACTCTTCCCCTTGACTCG 58.582 52.381 0.00 0.00 0.00 4.18
165 166 1.718280 AACTCTTCCCCTTGACTCGT 58.282 50.000 0.00 0.00 0.00 4.18
166 167 1.718280 ACTCTTCCCCTTGACTCGTT 58.282 50.000 0.00 0.00 0.00 3.85
167 168 1.344763 ACTCTTCCCCTTGACTCGTTG 59.655 52.381 0.00 0.00 0.00 4.10
168 169 0.034896 TCTTCCCCTTGACTCGTTGC 59.965 55.000 0.00 0.00 0.00 4.17
169 170 0.035458 CTTCCCCTTGACTCGTTGCT 59.965 55.000 0.00 0.00 0.00 3.91
170 171 0.472471 TTCCCCTTGACTCGTTGCTT 59.528 50.000 0.00 0.00 0.00 3.91
171 172 1.344065 TCCCCTTGACTCGTTGCTTA 58.656 50.000 0.00 0.00 0.00 3.09
172 173 1.275291 TCCCCTTGACTCGTTGCTTAG 59.725 52.381 0.00 0.00 0.00 2.18
173 174 1.275291 CCCCTTGACTCGTTGCTTAGA 59.725 52.381 0.00 0.00 0.00 2.10
174 175 2.093447 CCCCTTGACTCGTTGCTTAGAT 60.093 50.000 0.00 0.00 0.00 1.98
175 176 2.932614 CCCTTGACTCGTTGCTTAGATG 59.067 50.000 0.00 0.00 0.00 2.90
176 177 3.368427 CCCTTGACTCGTTGCTTAGATGA 60.368 47.826 0.00 0.00 0.00 2.92
177 178 4.245660 CCTTGACTCGTTGCTTAGATGAA 58.754 43.478 0.00 0.00 0.00 2.57
178 179 4.092091 CCTTGACTCGTTGCTTAGATGAAC 59.908 45.833 0.00 0.00 0.00 3.18
179 180 4.521130 TGACTCGTTGCTTAGATGAACT 57.479 40.909 0.00 0.00 0.00 3.01
180 181 4.486090 TGACTCGTTGCTTAGATGAACTC 58.514 43.478 0.00 0.00 0.00 3.01
181 182 4.022329 TGACTCGTTGCTTAGATGAACTCA 60.022 41.667 0.00 0.00 0.00 3.41
182 183 5.078411 ACTCGTTGCTTAGATGAACTCAT 57.922 39.130 0.00 0.00 39.70 2.90
183 184 6.127730 TGACTCGTTGCTTAGATGAACTCATA 60.128 38.462 0.00 0.00 36.57 2.15
184 185 6.269315 ACTCGTTGCTTAGATGAACTCATAG 58.731 40.000 0.00 0.00 36.57 2.23
185 186 6.095580 ACTCGTTGCTTAGATGAACTCATAGA 59.904 38.462 0.00 0.00 36.57 1.98
186 187 7.043961 TCGTTGCTTAGATGAACTCATAGAT 57.956 36.000 0.00 0.00 36.57 1.98
187 188 6.920210 TCGTTGCTTAGATGAACTCATAGATG 59.080 38.462 0.00 0.00 36.57 2.90
188 189 6.145209 CGTTGCTTAGATGAACTCATAGATGG 59.855 42.308 0.00 0.00 36.57 3.51
189 190 6.983906 TGCTTAGATGAACTCATAGATGGA 57.016 37.500 0.00 0.00 36.57 3.41
190 191 7.550597 TGCTTAGATGAACTCATAGATGGAT 57.449 36.000 0.00 0.00 36.57 3.41
191 192 7.609960 TGCTTAGATGAACTCATAGATGGATC 58.390 38.462 0.00 0.00 36.57 3.36
192 193 7.454066 TGCTTAGATGAACTCATAGATGGATCT 59.546 37.037 0.00 0.00 40.86 2.75
193 194 8.313292 GCTTAGATGAACTCATAGATGGATCTT 58.687 37.037 0.00 0.00 38.32 2.40
194 195 9.642327 CTTAGATGAACTCATAGATGGATCTTG 57.358 37.037 0.00 0.00 38.32 3.02
195 196 7.006865 AGATGAACTCATAGATGGATCTTGG 57.993 40.000 0.00 0.00 38.32 3.61
196 197 6.558014 AGATGAACTCATAGATGGATCTTGGT 59.442 38.462 0.00 0.00 38.32 3.67
197 198 5.922053 TGAACTCATAGATGGATCTTGGTG 58.078 41.667 0.00 0.00 38.32 4.17
198 199 5.662657 TGAACTCATAGATGGATCTTGGTGA 59.337 40.000 0.00 0.00 38.32 4.02
199 200 6.156775 TGAACTCATAGATGGATCTTGGTGAA 59.843 38.462 0.00 0.00 38.32 3.18
200 201 6.566079 ACTCATAGATGGATCTTGGTGAAA 57.434 37.500 0.00 0.00 38.32 2.69
201 202 6.352516 ACTCATAGATGGATCTTGGTGAAAC 58.647 40.000 0.00 0.00 38.32 2.78
511 513 2.626840 GTTAGAGCTGCCTTCCTCAAG 58.373 52.381 0.00 0.00 0.00 3.02
937 939 4.635699 AATTCCTTGTCGGGTAAGTTCT 57.364 40.909 0.00 0.00 0.00 3.01
1052 1054 4.425772 TGGACAGAAAGACCCTATGAAGA 58.574 43.478 0.00 0.00 0.00 2.87
1448 2516 2.708325 GGATAACAGGCTGATCTTCCCT 59.292 50.000 23.66 0.00 0.00 4.20
1479 2547 1.674322 CGACGGGAAGGTTTGGCAT 60.674 57.895 0.00 0.00 0.00 4.40
1774 2863 0.106419 CCGACTTCCCTAGAGCCTCT 60.106 60.000 0.00 0.00 0.00 3.69
2205 3297 1.541670 GCGTAGAGGAACCACACCAAA 60.542 52.381 0.00 0.00 0.00 3.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 0.854705 GTTCAACACACGTACGGGAC 59.145 55.000 27.01 6.79 0.00 4.46
6 7 0.594540 CGTTCAACACACGTACGGGA 60.595 55.000 27.01 6.23 32.80 5.14
7 8 1.847975 CGTTCAACACACGTACGGG 59.152 57.895 17.69 17.69 32.80 5.28
8 9 1.199859 GCGTTCAACACACGTACGG 59.800 57.895 21.06 11.05 39.92 4.02
9 10 1.155158 CGCGTTCAACACACGTACG 60.155 57.895 15.01 15.01 39.92 3.67
10 11 1.199859 CCGCGTTCAACACACGTAC 59.800 57.895 4.92 0.00 39.92 3.67
11 12 0.935831 CTCCGCGTTCAACACACGTA 60.936 55.000 4.92 0.00 39.92 3.57
12 13 2.202770 TCCGCGTTCAACACACGT 60.203 55.556 4.92 0.00 39.92 4.49
13 14 2.544359 CTCCGCGTTCAACACACG 59.456 61.111 4.92 0.00 40.75 4.49
14 15 1.885850 ACCTCCGCGTTCAACACAC 60.886 57.895 4.92 0.00 0.00 3.82
15 16 1.885388 CACCTCCGCGTTCAACACA 60.885 57.895 4.92 0.00 0.00 3.72
16 17 0.949105 ATCACCTCCGCGTTCAACAC 60.949 55.000 4.92 0.00 0.00 3.32
17 18 0.948623 CATCACCTCCGCGTTCAACA 60.949 55.000 4.92 0.00 0.00 3.33
18 19 0.949105 ACATCACCTCCGCGTTCAAC 60.949 55.000 4.92 0.00 0.00 3.18
19 20 0.669318 GACATCACCTCCGCGTTCAA 60.669 55.000 4.92 0.00 0.00 2.69
20 21 1.080093 GACATCACCTCCGCGTTCA 60.080 57.895 4.92 0.00 0.00 3.18
21 22 1.810030 GGACATCACCTCCGCGTTC 60.810 63.158 4.92 0.00 0.00 3.95
22 23 2.264794 GGACATCACCTCCGCGTT 59.735 61.111 4.92 0.00 0.00 4.84
23 24 4.129737 CGGACATCACCTCCGCGT 62.130 66.667 4.92 0.00 44.04 6.01
27 28 0.741221 GCTGAACGGACATCACCTCC 60.741 60.000 0.00 0.00 0.00 4.30
28 29 0.037326 TGCTGAACGGACATCACCTC 60.037 55.000 0.00 0.00 0.00 3.85
29 30 0.320771 GTGCTGAACGGACATCACCT 60.321 55.000 6.76 0.00 32.85 4.00
30 31 0.320771 AGTGCTGAACGGACATCACC 60.321 55.000 12.07 0.00 37.54 4.02
31 32 1.195448 CAAGTGCTGAACGGACATCAC 59.805 52.381 9.06 9.06 37.23 3.06
32 33 1.511850 CAAGTGCTGAACGGACATCA 58.488 50.000 0.00 0.00 36.26 3.07
33 34 0.798776 CCAAGTGCTGAACGGACATC 59.201 55.000 0.00 0.00 36.26 3.06
34 35 0.108585 ACCAAGTGCTGAACGGACAT 59.891 50.000 0.00 0.00 36.26 3.06
35 36 0.531974 GACCAAGTGCTGAACGGACA 60.532 55.000 0.00 0.00 36.26 4.02
36 37 0.531974 TGACCAAGTGCTGAACGGAC 60.532 55.000 0.00 0.00 0.00 4.79
37 38 0.396435 ATGACCAAGTGCTGAACGGA 59.604 50.000 0.00 0.00 0.00 4.69
38 39 0.798776 GATGACCAAGTGCTGAACGG 59.201 55.000 0.00 0.00 0.00 4.44
39 40 0.439985 CGATGACCAAGTGCTGAACG 59.560 55.000 0.00 0.00 0.00 3.95
40 41 0.798776 CCGATGACCAAGTGCTGAAC 59.201 55.000 0.00 0.00 0.00 3.18
41 42 0.396435 ACCGATGACCAAGTGCTGAA 59.604 50.000 0.00 0.00 0.00 3.02
42 43 0.320683 CACCGATGACCAAGTGCTGA 60.321 55.000 0.00 0.00 0.00 4.26
43 44 0.320683 TCACCGATGACCAAGTGCTG 60.321 55.000 0.00 0.00 0.00 4.41
44 45 0.615331 ATCACCGATGACCAAGTGCT 59.385 50.000 0.00 0.00 37.79 4.40
45 46 1.009829 GATCACCGATGACCAAGTGC 58.990 55.000 0.00 0.00 37.79 4.40
46 47 1.656652 GGATCACCGATGACCAAGTG 58.343 55.000 0.00 0.00 37.79 3.16
60 61 1.092348 ACTCGACGTGATTCGGATCA 58.908 50.000 1.00 1.00 44.69 2.92
61 62 3.059120 TCATACTCGACGTGATTCGGATC 60.059 47.826 3.58 0.00 44.69 3.36
62 63 2.876550 TCATACTCGACGTGATTCGGAT 59.123 45.455 3.58 0.00 44.69 4.18
63 64 2.031314 GTCATACTCGACGTGATTCGGA 59.969 50.000 3.58 0.00 44.69 4.55
64 65 2.031807 AGTCATACTCGACGTGATTCGG 59.968 50.000 3.58 0.00 44.69 4.30
65 66 3.281601 GAGTCATACTCGACGTGATTCG 58.718 50.000 3.58 0.00 40.98 3.34
66 67 3.064958 TGGAGTCATACTCGACGTGATTC 59.935 47.826 3.58 2.39 45.96 2.52
67 68 3.014623 TGGAGTCATACTCGACGTGATT 58.985 45.455 3.58 0.00 45.96 2.57
68 69 2.640184 TGGAGTCATACTCGACGTGAT 58.360 47.619 3.58 0.00 45.96 3.06
69 70 2.103537 TGGAGTCATACTCGACGTGA 57.896 50.000 3.58 0.00 45.96 4.35
70 71 2.354821 TGATGGAGTCATACTCGACGTG 59.645 50.000 0.00 0.00 45.96 4.49
71 72 2.640184 TGATGGAGTCATACTCGACGT 58.360 47.619 0.00 0.00 45.96 4.34
72 73 3.906014 ATGATGGAGTCATACTCGACG 57.094 47.619 1.23 0.00 45.96 5.12
81 82 1.770658 GGGATGGTGATGATGGAGTCA 59.229 52.381 0.00 0.00 42.06 3.41
82 83 1.072965 GGGGATGGTGATGATGGAGTC 59.927 57.143 0.00 0.00 0.00 3.36
83 84 1.143813 GGGGATGGTGATGATGGAGT 58.856 55.000 0.00 0.00 0.00 3.85
84 85 1.442773 AGGGGATGGTGATGATGGAG 58.557 55.000 0.00 0.00 0.00 3.86
85 86 1.496001 CAAGGGGATGGTGATGATGGA 59.504 52.381 0.00 0.00 0.00 3.41
86 87 1.496001 TCAAGGGGATGGTGATGATGG 59.504 52.381 0.00 0.00 0.00 3.51
87 88 2.954318 GTTCAAGGGGATGGTGATGATG 59.046 50.000 0.00 0.00 0.00 3.07
88 89 2.421952 CGTTCAAGGGGATGGTGATGAT 60.422 50.000 0.00 0.00 0.00 2.45
89 90 1.065491 CGTTCAAGGGGATGGTGATGA 60.065 52.381 0.00 0.00 0.00 2.92
90 91 1.382522 CGTTCAAGGGGATGGTGATG 58.617 55.000 0.00 0.00 0.00 3.07
91 92 0.394352 GCGTTCAAGGGGATGGTGAT 60.394 55.000 0.00 0.00 0.00 3.06
92 93 1.002624 GCGTTCAAGGGGATGGTGA 60.003 57.895 0.00 0.00 0.00 4.02
93 94 0.609131 AAGCGTTCAAGGGGATGGTG 60.609 55.000 0.00 0.00 0.00 4.17
94 95 0.322546 GAAGCGTTCAAGGGGATGGT 60.323 55.000 0.00 0.00 0.00 3.55
95 96 1.032114 GGAAGCGTTCAAGGGGATGG 61.032 60.000 0.00 0.00 0.00 3.51
96 97 1.369091 CGGAAGCGTTCAAGGGGATG 61.369 60.000 0.00 0.00 0.00 3.51
97 98 1.078426 CGGAAGCGTTCAAGGGGAT 60.078 57.895 0.00 0.00 0.00 3.85
98 99 2.345991 CGGAAGCGTTCAAGGGGA 59.654 61.111 0.00 0.00 0.00 4.81
110 111 2.159366 ACTTGTAGATCGAGTGCGGAAG 60.159 50.000 0.00 0.00 39.15 3.46
111 112 1.816835 ACTTGTAGATCGAGTGCGGAA 59.183 47.619 0.00 0.00 39.15 4.30
112 113 1.460504 ACTTGTAGATCGAGTGCGGA 58.539 50.000 0.00 0.00 39.15 5.54
117 118 9.168451 CATCTATATACCACTTGTAGATCGAGT 57.832 37.037 0.00 0.00 41.11 4.18
118 119 8.126074 GCATCTATATACCACTTGTAGATCGAG 58.874 40.741 0.00 0.00 33.54 4.04
119 120 7.610305 TGCATCTATATACCACTTGTAGATCGA 59.390 37.037 0.00 0.00 33.54 3.59
120 121 7.762382 TGCATCTATATACCACTTGTAGATCG 58.238 38.462 0.00 0.00 33.54 3.69
121 122 9.929180 TTTGCATCTATATACCACTTGTAGATC 57.071 33.333 0.00 0.00 33.54 2.75
122 123 9.712305 GTTTGCATCTATATACCACTTGTAGAT 57.288 33.333 0.00 0.00 35.59 1.98
123 124 8.924303 AGTTTGCATCTATATACCACTTGTAGA 58.076 33.333 0.00 0.00 31.61 2.59
124 125 9.197694 GAGTTTGCATCTATATACCACTTGTAG 57.802 37.037 0.00 0.00 31.61 2.74
125 126 8.924303 AGAGTTTGCATCTATATACCACTTGTA 58.076 33.333 0.00 0.00 0.00 2.41
126 127 7.796054 AGAGTTTGCATCTATATACCACTTGT 58.204 34.615 0.00 0.00 0.00 3.16
127 128 8.668510 AAGAGTTTGCATCTATATACCACTTG 57.331 34.615 0.00 0.00 0.00 3.16
128 129 7.934120 GGAAGAGTTTGCATCTATATACCACTT 59.066 37.037 0.00 0.00 0.00 3.16
129 130 7.445945 GGAAGAGTTTGCATCTATATACCACT 58.554 38.462 0.00 0.00 0.00 4.00
130 131 6.651225 GGGAAGAGTTTGCATCTATATACCAC 59.349 42.308 0.00 0.00 0.00 4.16
131 132 6.239887 GGGGAAGAGTTTGCATCTATATACCA 60.240 42.308 0.00 0.00 0.00 3.25
132 133 6.013293 AGGGGAAGAGTTTGCATCTATATACC 60.013 42.308 0.00 0.00 0.00 2.73
133 134 7.010339 AGGGGAAGAGTTTGCATCTATATAC 57.990 40.000 0.00 0.00 0.00 1.47
134 135 7.292356 TCAAGGGGAAGAGTTTGCATCTATATA 59.708 37.037 0.00 0.00 0.00 0.86
135 136 6.101734 TCAAGGGGAAGAGTTTGCATCTATAT 59.898 38.462 0.00 0.00 0.00 0.86
136 137 5.428457 TCAAGGGGAAGAGTTTGCATCTATA 59.572 40.000 0.00 0.00 0.00 1.31
137 138 4.228210 TCAAGGGGAAGAGTTTGCATCTAT 59.772 41.667 0.00 0.00 0.00 1.98
138 139 3.587061 TCAAGGGGAAGAGTTTGCATCTA 59.413 43.478 0.00 0.00 0.00 1.98
139 140 2.376518 TCAAGGGGAAGAGTTTGCATCT 59.623 45.455 0.00 0.00 0.00 2.90
140 141 2.489722 GTCAAGGGGAAGAGTTTGCATC 59.510 50.000 0.00 0.00 0.00 3.91
141 142 2.108952 AGTCAAGGGGAAGAGTTTGCAT 59.891 45.455 0.00 0.00 0.00 3.96
142 143 1.494721 AGTCAAGGGGAAGAGTTTGCA 59.505 47.619 0.00 0.00 0.00 4.08
143 144 2.155279 GAGTCAAGGGGAAGAGTTTGC 58.845 52.381 0.00 0.00 0.00 3.68
144 145 2.224305 ACGAGTCAAGGGGAAGAGTTTG 60.224 50.000 0.00 0.00 0.00 2.93
145 146 2.047830 ACGAGTCAAGGGGAAGAGTTT 58.952 47.619 0.00 0.00 0.00 2.66
146 147 1.718280 ACGAGTCAAGGGGAAGAGTT 58.282 50.000 0.00 0.00 0.00 3.01
147 148 1.344763 CAACGAGTCAAGGGGAAGAGT 59.655 52.381 0.00 0.00 0.00 3.24
148 149 1.941668 GCAACGAGTCAAGGGGAAGAG 60.942 57.143 0.00 0.00 0.00 2.85
149 150 0.034896 GCAACGAGTCAAGGGGAAGA 59.965 55.000 0.00 0.00 0.00 2.87
150 151 0.035458 AGCAACGAGTCAAGGGGAAG 59.965 55.000 0.00 0.00 0.00 3.46
151 152 0.472471 AAGCAACGAGTCAAGGGGAA 59.528 50.000 0.00 0.00 0.00 3.97
152 153 1.275291 CTAAGCAACGAGTCAAGGGGA 59.725 52.381 0.00 0.00 0.00 4.81
153 154 1.275291 TCTAAGCAACGAGTCAAGGGG 59.725 52.381 0.00 0.00 0.00 4.79
154 155 2.743636 TCTAAGCAACGAGTCAAGGG 57.256 50.000 0.00 0.00 0.00 3.95
155 156 3.849911 TCATCTAAGCAACGAGTCAAGG 58.150 45.455 0.00 0.00 0.00 3.61
156 157 4.926238 AGTTCATCTAAGCAACGAGTCAAG 59.074 41.667 0.00 0.00 0.00 3.02
157 158 4.883083 AGTTCATCTAAGCAACGAGTCAA 58.117 39.130 0.00 0.00 0.00 3.18
158 159 4.022329 TGAGTTCATCTAAGCAACGAGTCA 60.022 41.667 0.00 0.00 0.00 3.41
159 160 4.486090 TGAGTTCATCTAAGCAACGAGTC 58.514 43.478 0.00 0.00 0.00 3.36
160 161 4.521130 TGAGTTCATCTAAGCAACGAGT 57.479 40.909 0.00 0.00 0.00 4.18
161 162 6.499172 TCTATGAGTTCATCTAAGCAACGAG 58.501 40.000 0.00 0.00 37.76 4.18
162 163 6.451064 TCTATGAGTTCATCTAAGCAACGA 57.549 37.500 0.00 0.00 37.76 3.85
163 164 6.145209 CCATCTATGAGTTCATCTAAGCAACG 59.855 42.308 0.00 0.00 37.76 4.10
164 165 7.212976 TCCATCTATGAGTTCATCTAAGCAAC 58.787 38.462 0.00 0.00 37.76 4.17
165 166 7.365497 TCCATCTATGAGTTCATCTAAGCAA 57.635 36.000 0.00 0.00 37.76 3.91
166 167 6.983906 TCCATCTATGAGTTCATCTAAGCA 57.016 37.500 0.00 0.00 37.76 3.91
167 168 7.839907 AGATCCATCTATGAGTTCATCTAAGC 58.160 38.462 0.00 0.00 37.76 3.09
168 169 9.642327 CAAGATCCATCTATGAGTTCATCTAAG 57.358 37.037 0.00 0.00 35.76 2.18
169 170 8.591940 CCAAGATCCATCTATGAGTTCATCTAA 58.408 37.037 0.00 0.00 35.76 2.10
170 171 7.732140 ACCAAGATCCATCTATGAGTTCATCTA 59.268 37.037 0.00 0.00 35.76 1.98
171 172 6.558014 ACCAAGATCCATCTATGAGTTCATCT 59.442 38.462 0.00 0.00 35.76 2.90
172 173 6.649973 CACCAAGATCCATCTATGAGTTCATC 59.350 42.308 0.00 0.00 35.76 2.92
173 174 6.328410 TCACCAAGATCCATCTATGAGTTCAT 59.672 38.462 0.00 0.00 35.76 2.57
174 175 5.662657 TCACCAAGATCCATCTATGAGTTCA 59.337 40.000 0.00 0.00 35.76 3.18
175 176 6.166984 TCACCAAGATCCATCTATGAGTTC 57.833 41.667 0.00 0.00 35.76 3.01
176 177 6.566079 TTCACCAAGATCCATCTATGAGTT 57.434 37.500 0.00 0.00 35.76 3.01
177 178 6.352516 GTTTCACCAAGATCCATCTATGAGT 58.647 40.000 0.00 0.00 35.76 3.41
178 179 5.762218 GGTTTCACCAAGATCCATCTATGAG 59.238 44.000 0.00 0.00 38.42 2.90
179 180 5.684704 GGTTTCACCAAGATCCATCTATGA 58.315 41.667 0.00 0.00 38.42 2.15
180 181 4.512944 CGGTTTCACCAAGATCCATCTATG 59.487 45.833 0.00 0.00 38.47 2.23
181 182 4.164221 ACGGTTTCACCAAGATCCATCTAT 59.836 41.667 0.00 0.00 38.47 1.98
182 183 3.517901 ACGGTTTCACCAAGATCCATCTA 59.482 43.478 0.00 0.00 38.47 1.98
183 184 2.305927 ACGGTTTCACCAAGATCCATCT 59.694 45.455 0.00 0.00 38.47 2.90
184 185 2.711542 ACGGTTTCACCAAGATCCATC 58.288 47.619 0.00 0.00 38.47 3.51
185 186 2.879103 ACGGTTTCACCAAGATCCAT 57.121 45.000 0.00 0.00 38.47 3.41
186 187 2.027561 CCTACGGTTTCACCAAGATCCA 60.028 50.000 0.00 0.00 38.47 3.41
187 188 2.235402 TCCTACGGTTTCACCAAGATCC 59.765 50.000 0.00 0.00 38.47 3.36
188 189 3.604875 TCCTACGGTTTCACCAAGATC 57.395 47.619 0.00 0.00 38.47 2.75
189 190 4.360951 TTTCCTACGGTTTCACCAAGAT 57.639 40.909 0.00 0.00 38.47 2.40
190 191 3.842007 TTTCCTACGGTTTCACCAAGA 57.158 42.857 0.00 0.00 38.47 3.02
191 192 5.447624 AATTTTCCTACGGTTTCACCAAG 57.552 39.130 0.00 0.00 38.47 3.61
192 193 5.855740 AAATTTTCCTACGGTTTCACCAA 57.144 34.783 0.00 0.00 38.47 3.67
193 194 5.855740 AAAATTTTCCTACGGTTTCACCA 57.144 34.783 0.00 0.00 38.47 4.17
194 195 8.821147 ATTAAAAATTTTCCTACGGTTTCACC 57.179 30.769 3.41 0.00 34.05 4.02
200 201 8.984764 GCAGAAAATTAAAAATTTTCCTACGGT 58.015 29.630 24.00 10.00 44.66 4.83
201 202 8.983724 TGCAGAAAATTAAAAATTTTCCTACGG 58.016 29.630 24.00 14.67 44.66 4.02
205 206 9.625747 TCCTTGCAGAAAATTAAAAATTTTCCT 57.374 25.926 24.00 14.27 44.66 3.36
210 211 8.629158 GGGTTTCCTTGCAGAAAATTAAAAATT 58.371 29.630 2.95 0.00 37.49 1.82
211 212 7.998383 AGGGTTTCCTTGCAGAAAATTAAAAAT 59.002 29.630 2.95 0.00 41.56 1.82
212 213 7.342581 AGGGTTTCCTTGCAGAAAATTAAAAA 58.657 30.769 2.95 0.00 41.56 1.94
213 214 6.894682 AGGGTTTCCTTGCAGAAAATTAAAA 58.105 32.000 2.95 0.00 41.56 1.52
214 215 6.493189 AGGGTTTCCTTGCAGAAAATTAAA 57.507 33.333 2.95 0.00 41.56 1.52
215 216 7.604657 TTAGGGTTTCCTTGCAGAAAATTAA 57.395 32.000 2.95 1.42 41.56 1.40
216 217 7.256154 CCTTTAGGGTTTCCTTGCAGAAAATTA 60.256 37.037 2.95 0.00 41.56 1.40
217 218 6.464322 CCTTTAGGGTTTCCTTGCAGAAAATT 60.464 38.462 2.95 0.00 41.56 1.82
218 219 5.012046 CCTTTAGGGTTTCCTTGCAGAAAAT 59.988 40.000 2.95 0.00 41.56 1.82
219 220 4.343814 CCTTTAGGGTTTCCTTGCAGAAAA 59.656 41.667 2.95 0.00 41.56 2.29
220 221 3.895041 CCTTTAGGGTTTCCTTGCAGAAA 59.105 43.478 0.00 0.00 41.56 2.52
221 222 3.496331 CCTTTAGGGTTTCCTTGCAGAA 58.504 45.455 0.00 0.00 41.56 3.02
222 223 3.154827 CCTTTAGGGTTTCCTTGCAGA 57.845 47.619 0.00 0.00 41.56 4.26
494 496 1.200092 AGCTTGAGGAAGGCAGCTCT 61.200 55.000 0.00 0.00 0.00 4.09
511 513 0.107752 CAGCAAGGAGGAAGGAGAGC 60.108 60.000 0.00 0.00 0.00 4.09
888 890 7.308830 CGCTACCTTAGGACCGTTATAGTTATT 60.309 40.741 4.77 0.00 0.00 1.40
889 891 6.150140 CGCTACCTTAGGACCGTTATAGTTAT 59.850 42.308 4.77 0.00 0.00 1.89
1052 1054 3.881713 GCCAATCCCAGGGAACAGTAAAT 60.882 47.826 13.94 0.00 34.34 1.40
1372 2440 2.438975 ACTCGGCACCGTCGGATA 60.439 61.111 20.51 0.00 40.74 2.59
1448 2516 1.100510 CCCGTCGATGTGGACTCTTA 58.899 55.000 3.52 0.00 34.75 2.10
1479 2547 1.722082 CGAAGAGCCGACATCGAGA 59.278 57.895 2.09 0.00 43.02 4.04
1774 2863 1.339055 GCTGTCTTGGCTGTGATACCA 60.339 52.381 0.00 0.00 0.00 3.25


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.