Multiple sequence alignment - TraesCS2A01G244900

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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 TraesCS2A01G244900 chr2A 100.000 3454 0 0 1 3454 351419367 351422820 0.000000e+00 6379
1 TraesCS2A01G244900 chr2A 98.705 3244 27 1 211 3454 642924701 642921473 0.000000e+00 5744
2 TraesCS2A01G244900 chr6B 99.229 3242 24 1 213 3454 325034348 325037588 0.000000e+00 5847
3 TraesCS2A01G244900 chr6B 99.013 3242 30 1 213 3454 365709307 365712546 0.000000e+00 5808
4 TraesCS2A01G244900 chr7A 98.367 3245 36 3 211 3454 176256560 176259788 0.000000e+00 5683
5 TraesCS2A01G244900 chr5B 98.093 3251 44 4 205 3454 161074839 161078072 0.000000e+00 5644
6 TraesCS2A01G244900 chr5A 99.218 2812 21 1 643 3454 547620693 547617883 0.000000e+00 5070
7 TraesCS2A01G244900 chr5A 92.931 778 19 6 212 987 422075409 422074666 0.000000e+00 1099
8 TraesCS2A01G244900 chr2B 99.367 2529 15 1 926 3454 669227498 669230025 0.000000e+00 4580
9 TraesCS2A01G244900 chr2B 95.588 612 12 1 206 817 669226917 669227513 0.000000e+00 966
10 TraesCS2A01G244900 chr4A 99.050 2526 24 0 929 3454 548525503 548522978 0.000000e+00 4532
11 TraesCS2A01G244900 chr4A 94.466 777 23 5 213 987 548526247 548525489 0.000000e+00 1179
12 TraesCS2A01G244900 chr1A 99.050 2526 24 0 929 3454 80308178 80305653 0.000000e+00 4532
13 TraesCS2A01G244900 chr4B 95.109 777 20 5 210 984 439195474 439196234 0.000000e+00 1208
14 TraesCS2A01G244900 chr4B 98.113 212 4 0 1 212 286125046 286125257 1.510000e-98 370
15 TraesCS2A01G244900 chr6A 95.251 758 19 5 213 969 466092189 466092930 0.000000e+00 1184
16 TraesCS2A01G244900 chr2D 87.212 868 64 26 210 1068 33017489 33018318 0.000000e+00 944
17 TraesCS2A01G244900 chr2D 94.811 212 11 0 1 212 472454025 472454236 7.150000e-87 331
18 TraesCS2A01G244900 chr6D 96.698 212 7 0 1 212 318400649 318400860 1.520000e-93 353
19 TraesCS2A01G244900 chr3D 95.755 212 9 0 1 212 500597839 500597628 3.300000e-90 342


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 TraesCS2A01G244900 chr2A 351419367 351422820 3453 False 6379.0 6379 100.0000 1 3454 1 chr2A.!!$F1 3453
1 TraesCS2A01G244900 chr2A 642921473 642924701 3228 True 5744.0 5744 98.7050 211 3454 1 chr2A.!!$R1 3243
2 TraesCS2A01G244900 chr6B 325034348 325037588 3240 False 5847.0 5847 99.2290 213 3454 1 chr6B.!!$F1 3241
3 TraesCS2A01G244900 chr6B 365709307 365712546 3239 False 5808.0 5808 99.0130 213 3454 1 chr6B.!!$F2 3241
4 TraesCS2A01G244900 chr7A 176256560 176259788 3228 False 5683.0 5683 98.3670 211 3454 1 chr7A.!!$F1 3243
5 TraesCS2A01G244900 chr5B 161074839 161078072 3233 False 5644.0 5644 98.0930 205 3454 1 chr5B.!!$F1 3249
6 TraesCS2A01G244900 chr5A 547617883 547620693 2810 True 5070.0 5070 99.2180 643 3454 1 chr5A.!!$R2 2811
7 TraesCS2A01G244900 chr5A 422074666 422075409 743 True 1099.0 1099 92.9310 212 987 1 chr5A.!!$R1 775
8 TraesCS2A01G244900 chr2B 669226917 669230025 3108 False 2773.0 4580 97.4775 206 3454 2 chr2B.!!$F1 3248
9 TraesCS2A01G244900 chr4A 548522978 548526247 3269 True 2855.5 4532 96.7580 213 3454 2 chr4A.!!$R1 3241
10 TraesCS2A01G244900 chr1A 80305653 80308178 2525 True 4532.0 4532 99.0500 929 3454 1 chr1A.!!$R1 2525
11 TraesCS2A01G244900 chr4B 439195474 439196234 760 False 1208.0 1208 95.1090 210 984 1 chr4B.!!$F2 774
12 TraesCS2A01G244900 chr6A 466092189 466092930 741 False 1184.0 1184 95.2510 213 969 1 chr6A.!!$F1 756
13 TraesCS2A01G244900 chr2D 33017489 33018318 829 False 944.0 944 87.2120 210 1068 1 chr2D.!!$F1 858

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
30 31 0.107643 GCCTGGAATGCTAGTCCCTC 59.892 60.0 0.0 0.0 33.89 4.30 F
69 70 0.693049 TCCTCTTCTTTGGCAGGGTC 59.307 55.0 0.0 0.0 0.00 4.46 F
70 71 0.695347 CCTCTTCTTTGGCAGGGTCT 59.305 55.0 0.0 0.0 0.00 3.85 F
1821 1910 0.716591 TCTGTGGGGAGGTAGGTCAT 59.283 55.0 0.0 0.0 0.00 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1872 1961 0.041833 TTCTACCTCTGCCTGCTCCT 59.958 55.000 0.00 0.0 0.0 3.69 R
2077 2166 4.200092 GCTCTTTCCGGATTACCTTCATT 58.800 43.478 4.15 0.0 0.0 2.57 R
2211 2300 2.419667 GTTTGTATAGTGCCCGTGTGT 58.580 47.619 0.00 0.0 0.0 3.72 R
3427 3516 0.763035 ACAGGGTGTAGGTGGTCAAC 59.237 55.000 0.00 0.0 0.0 3.18 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 2.026641 TGCTAAATCTGCCTGGAATGC 58.973 47.619 0.00 0.00 0.00 3.56
22 23 2.305009 GCTAAATCTGCCTGGAATGCT 58.695 47.619 0.00 0.00 0.00 3.79
23 24 3.117926 TGCTAAATCTGCCTGGAATGCTA 60.118 43.478 0.00 0.00 0.00 3.49
24 25 3.501445 GCTAAATCTGCCTGGAATGCTAG 59.499 47.826 0.00 0.00 0.00 3.42
25 26 3.659183 AAATCTGCCTGGAATGCTAGT 57.341 42.857 0.00 0.00 0.00 2.57
26 27 2.926778 ATCTGCCTGGAATGCTAGTC 57.073 50.000 0.00 0.00 0.00 2.59
27 28 0.833287 TCTGCCTGGAATGCTAGTCC 59.167 55.000 0.00 0.00 35.55 3.85
28 29 0.179034 CTGCCTGGAATGCTAGTCCC 60.179 60.000 0.00 0.00 33.89 4.46
29 30 0.621571 TGCCTGGAATGCTAGTCCCT 60.622 55.000 0.00 0.00 33.89 4.20
30 31 0.107643 GCCTGGAATGCTAGTCCCTC 59.892 60.000 0.00 0.00 33.89 4.30
31 32 1.500474 CCTGGAATGCTAGTCCCTCA 58.500 55.000 0.00 0.00 33.89 3.86
32 33 1.139853 CCTGGAATGCTAGTCCCTCAC 59.860 57.143 0.00 0.00 33.89 3.51
33 34 1.833630 CTGGAATGCTAGTCCCTCACA 59.166 52.381 0.00 0.00 33.89 3.58
34 35 2.437281 CTGGAATGCTAGTCCCTCACAT 59.563 50.000 0.00 0.00 33.89 3.21
35 36 2.846206 TGGAATGCTAGTCCCTCACATT 59.154 45.455 0.00 0.00 33.89 2.71
36 37 3.118261 TGGAATGCTAGTCCCTCACATTC 60.118 47.826 0.00 0.00 43.66 2.67
37 38 3.135530 GGAATGCTAGTCCCTCACATTCT 59.864 47.826 12.26 0.00 43.80 2.40
38 39 4.384647 GGAATGCTAGTCCCTCACATTCTT 60.385 45.833 12.26 0.00 43.80 2.52
39 40 4.851639 ATGCTAGTCCCTCACATTCTTT 57.148 40.909 0.00 0.00 0.00 2.52
40 41 4.640771 TGCTAGTCCCTCACATTCTTTT 57.359 40.909 0.00 0.00 0.00 2.27
41 42 4.326826 TGCTAGTCCCTCACATTCTTTTG 58.673 43.478 0.00 0.00 0.00 2.44
42 43 4.202461 TGCTAGTCCCTCACATTCTTTTGT 60.202 41.667 0.00 0.00 0.00 2.83
43 44 5.012664 TGCTAGTCCCTCACATTCTTTTGTA 59.987 40.000 0.00 0.00 0.00 2.41
44 45 5.582665 GCTAGTCCCTCACATTCTTTTGTAG 59.417 44.000 0.00 0.00 0.00 2.74
45 46 4.327680 AGTCCCTCACATTCTTTTGTAGC 58.672 43.478 0.00 0.00 0.00 3.58
46 47 4.072131 GTCCCTCACATTCTTTTGTAGCA 58.928 43.478 0.00 0.00 0.00 3.49
47 48 4.518970 GTCCCTCACATTCTTTTGTAGCAA 59.481 41.667 0.00 0.00 0.00 3.91
48 49 5.009610 GTCCCTCACATTCTTTTGTAGCAAA 59.990 40.000 0.00 0.00 0.00 3.68
49 50 5.596361 TCCCTCACATTCTTTTGTAGCAAAA 59.404 36.000 6.82 6.82 0.00 2.44
50 51 6.267471 TCCCTCACATTCTTTTGTAGCAAAAT 59.733 34.615 7.38 0.00 0.00 1.82
51 52 6.587608 CCCTCACATTCTTTTGTAGCAAAATC 59.412 38.462 7.38 0.00 0.00 2.17
52 53 6.587608 CCTCACATTCTTTTGTAGCAAAATCC 59.412 38.462 7.38 0.00 0.00 3.01
53 54 7.288810 TCACATTCTTTTGTAGCAAAATCCT 57.711 32.000 7.38 0.00 0.00 3.24
54 55 7.370383 TCACATTCTTTTGTAGCAAAATCCTC 58.630 34.615 7.38 0.00 0.00 3.71
55 56 7.231317 TCACATTCTTTTGTAGCAAAATCCTCT 59.769 33.333 7.38 0.00 0.00 3.69
56 57 7.869429 CACATTCTTTTGTAGCAAAATCCTCTT 59.131 33.333 7.38 0.00 0.00 2.85
57 58 8.084684 ACATTCTTTTGTAGCAAAATCCTCTTC 58.915 33.333 7.38 0.00 0.00 2.87
58 59 7.823745 TTCTTTTGTAGCAAAATCCTCTTCT 57.176 32.000 7.38 0.00 0.00 2.85
59 60 7.823745 TCTTTTGTAGCAAAATCCTCTTCTT 57.176 32.000 7.38 0.00 0.00 2.52
60 61 8.237811 TCTTTTGTAGCAAAATCCTCTTCTTT 57.762 30.769 7.38 0.00 0.00 2.52
61 62 8.137437 TCTTTTGTAGCAAAATCCTCTTCTTTG 58.863 33.333 7.38 0.00 33.99 2.77
62 63 5.964958 TGTAGCAAAATCCTCTTCTTTGG 57.035 39.130 0.00 0.00 31.98 3.28
63 64 3.949842 AGCAAAATCCTCTTCTTTGGC 57.050 42.857 0.00 0.00 32.51 4.52
64 65 3.233507 AGCAAAATCCTCTTCTTTGGCA 58.766 40.909 0.00 0.00 34.39 4.92
65 66 3.257624 AGCAAAATCCTCTTCTTTGGCAG 59.742 43.478 0.00 0.00 34.39 4.85
66 67 3.615834 GCAAAATCCTCTTCTTTGGCAGG 60.616 47.826 0.00 0.00 32.61 4.85
67 68 2.521547 AATCCTCTTCTTTGGCAGGG 57.478 50.000 0.00 0.00 0.00 4.45
68 69 1.376649 ATCCTCTTCTTTGGCAGGGT 58.623 50.000 0.00 0.00 0.00 4.34
69 70 0.693049 TCCTCTTCTTTGGCAGGGTC 59.307 55.000 0.00 0.00 0.00 4.46
70 71 0.695347 CCTCTTCTTTGGCAGGGTCT 59.305 55.000 0.00 0.00 0.00 3.85
71 72 1.074566 CCTCTTCTTTGGCAGGGTCTT 59.925 52.381 0.00 0.00 0.00 3.01
72 73 2.489802 CCTCTTCTTTGGCAGGGTCTTT 60.490 50.000 0.00 0.00 0.00 2.52
73 74 2.555757 CTCTTCTTTGGCAGGGTCTTTG 59.444 50.000 0.00 0.00 0.00 2.77
74 75 2.174639 TCTTCTTTGGCAGGGTCTTTGA 59.825 45.455 0.00 0.00 0.00 2.69
75 76 2.746279 TCTTTGGCAGGGTCTTTGAA 57.254 45.000 0.00 0.00 0.00 2.69
76 77 3.025322 TCTTTGGCAGGGTCTTTGAAA 57.975 42.857 0.00 0.00 0.00 2.69
77 78 3.370104 TCTTTGGCAGGGTCTTTGAAAA 58.630 40.909 0.00 0.00 0.00 2.29
78 79 3.966665 TCTTTGGCAGGGTCTTTGAAAAT 59.033 39.130 0.00 0.00 0.00 1.82
79 80 3.749665 TTGGCAGGGTCTTTGAAAATG 57.250 42.857 0.00 0.00 0.00 2.32
80 81 2.676748 TGGCAGGGTCTTTGAAAATGT 58.323 42.857 0.00 0.00 0.00 2.71
81 82 2.364970 TGGCAGGGTCTTTGAAAATGTG 59.635 45.455 0.00 0.00 0.00 3.21
82 83 2.289010 GGCAGGGTCTTTGAAAATGTGG 60.289 50.000 0.00 0.00 0.00 4.17
83 84 2.365293 GCAGGGTCTTTGAAAATGTGGT 59.635 45.455 0.00 0.00 0.00 4.16
84 85 3.799917 GCAGGGTCTTTGAAAATGTGGTG 60.800 47.826 0.00 0.00 0.00 4.17
85 86 2.365293 AGGGTCTTTGAAAATGTGGTGC 59.635 45.455 0.00 0.00 0.00 5.01
86 87 2.102252 GGGTCTTTGAAAATGTGGTGCA 59.898 45.455 0.00 0.00 0.00 4.57
87 88 3.431486 GGGTCTTTGAAAATGTGGTGCAA 60.431 43.478 0.00 0.00 0.00 4.08
88 89 3.803778 GGTCTTTGAAAATGTGGTGCAAG 59.196 43.478 0.00 0.00 0.00 4.01
89 90 4.441356 GGTCTTTGAAAATGTGGTGCAAGA 60.441 41.667 0.00 0.00 0.00 3.02
90 91 5.108517 GTCTTTGAAAATGTGGTGCAAGAA 58.891 37.500 0.00 0.00 0.00 2.52
91 92 5.232838 GTCTTTGAAAATGTGGTGCAAGAAG 59.767 40.000 0.00 0.00 0.00 2.85
92 93 4.998671 TTGAAAATGTGGTGCAAGAAGA 57.001 36.364 0.00 0.00 0.00 2.87
93 94 4.998671 TGAAAATGTGGTGCAAGAAGAA 57.001 36.364 0.00 0.00 0.00 2.52
94 95 4.935702 TGAAAATGTGGTGCAAGAAGAAG 58.064 39.130 0.00 0.00 0.00 2.85
95 96 4.644234 TGAAAATGTGGTGCAAGAAGAAGA 59.356 37.500 0.00 0.00 0.00 2.87
96 97 5.126869 TGAAAATGTGGTGCAAGAAGAAGAA 59.873 36.000 0.00 0.00 0.00 2.52
97 98 4.843220 AATGTGGTGCAAGAAGAAGAAG 57.157 40.909 0.00 0.00 0.00 2.85
98 99 1.949525 TGTGGTGCAAGAAGAAGAAGC 59.050 47.619 0.00 0.00 0.00 3.86
99 100 1.268079 GTGGTGCAAGAAGAAGAAGCC 59.732 52.381 0.00 0.00 0.00 4.35
100 101 1.143684 TGGTGCAAGAAGAAGAAGCCT 59.856 47.619 0.00 0.00 0.00 4.58
101 102 2.234143 GGTGCAAGAAGAAGAAGCCTT 58.766 47.619 0.00 0.00 34.81 4.35
102 103 2.625314 GGTGCAAGAAGAAGAAGCCTTT 59.375 45.455 0.00 0.00 31.62 3.11
103 104 3.068732 GGTGCAAGAAGAAGAAGCCTTTT 59.931 43.478 0.00 0.00 31.62 2.27
104 105 4.294232 GTGCAAGAAGAAGAAGCCTTTTC 58.706 43.478 0.00 0.00 31.62 2.29
105 106 3.953612 TGCAAGAAGAAGAAGCCTTTTCA 59.046 39.130 0.00 0.00 31.62 2.69
106 107 4.037208 TGCAAGAAGAAGAAGCCTTTTCAG 59.963 41.667 0.00 0.00 31.62 3.02
107 108 4.276926 GCAAGAAGAAGAAGCCTTTTCAGA 59.723 41.667 0.00 0.00 31.62 3.27
108 109 5.221126 GCAAGAAGAAGAAGCCTTTTCAGAA 60.221 40.000 0.00 0.00 31.62 3.02
109 110 6.516360 GCAAGAAGAAGAAGCCTTTTCAGAAT 60.516 38.462 0.00 0.00 31.62 2.40
110 111 6.572167 AGAAGAAGAAGCCTTTTCAGAATG 57.428 37.500 0.00 0.00 31.62 2.67
111 112 6.302269 AGAAGAAGAAGCCTTTTCAGAATGA 58.698 36.000 0.00 0.00 36.46 2.57
112 113 6.947158 AGAAGAAGAAGCCTTTTCAGAATGAT 59.053 34.615 0.00 0.00 37.65 2.45
113 114 6.756299 AGAAGAAGCCTTTTCAGAATGATC 57.244 37.500 0.00 0.00 37.65 2.92
114 115 6.483405 AGAAGAAGCCTTTTCAGAATGATCT 58.517 36.000 0.00 0.00 37.65 2.75
115 116 6.947158 AGAAGAAGCCTTTTCAGAATGATCTT 59.053 34.615 0.00 0.00 37.65 2.40
116 117 7.450944 AGAAGAAGCCTTTTCAGAATGATCTTT 59.549 33.333 0.00 0.00 37.65 2.52
117 118 8.087136 GAAGAAGCCTTTTCAGAATGATCTTTT 58.913 33.333 0.00 0.00 37.65 2.27
126 127 5.879763 TCAGAATGATCTTTTGGACTTGGA 58.120 37.500 0.00 0.00 42.56 3.53
127 128 6.306199 TCAGAATGATCTTTTGGACTTGGAA 58.694 36.000 0.00 0.00 42.56 3.53
128 129 6.432162 TCAGAATGATCTTTTGGACTTGGAAG 59.568 38.462 0.00 0.00 42.56 3.46
129 130 5.184671 AGAATGATCTTTTGGACTTGGAAGC 59.815 40.000 0.00 0.00 29.15 3.86
130 131 4.104383 TGATCTTTTGGACTTGGAAGCT 57.896 40.909 0.00 0.00 0.00 3.74
131 132 4.074970 TGATCTTTTGGACTTGGAAGCTC 58.925 43.478 0.00 0.00 0.00 4.09
132 133 2.494059 TCTTTTGGACTTGGAAGCTCG 58.506 47.619 0.00 0.00 0.00 5.03
133 134 2.158813 TCTTTTGGACTTGGAAGCTCGT 60.159 45.455 0.00 0.00 0.00 4.18
134 135 3.070446 TCTTTTGGACTTGGAAGCTCGTA 59.930 43.478 0.00 0.00 0.00 3.43
135 136 3.695830 TTTGGACTTGGAAGCTCGTAT 57.304 42.857 0.00 0.00 0.00 3.06
136 137 2.961526 TGGACTTGGAAGCTCGTATC 57.038 50.000 0.00 0.00 0.00 2.24
137 138 2.176045 TGGACTTGGAAGCTCGTATCA 58.824 47.619 0.00 0.00 0.00 2.15
138 139 2.565391 TGGACTTGGAAGCTCGTATCAA 59.435 45.455 0.00 0.00 0.00 2.57
139 140 3.197766 TGGACTTGGAAGCTCGTATCAAT 59.802 43.478 0.00 0.00 0.00 2.57
140 141 3.804873 GGACTTGGAAGCTCGTATCAATC 59.195 47.826 0.00 0.00 0.00 2.67
141 142 4.433615 GACTTGGAAGCTCGTATCAATCA 58.566 43.478 0.00 0.00 0.00 2.57
142 143 4.832248 ACTTGGAAGCTCGTATCAATCAA 58.168 39.130 0.00 0.00 0.00 2.57
143 144 4.631813 ACTTGGAAGCTCGTATCAATCAAC 59.368 41.667 0.00 0.00 0.00 3.18
144 145 4.471904 TGGAAGCTCGTATCAATCAACT 57.528 40.909 0.00 0.00 0.00 3.16
145 146 4.183865 TGGAAGCTCGTATCAATCAACTG 58.816 43.478 0.00 0.00 0.00 3.16
146 147 3.001736 GGAAGCTCGTATCAATCAACTGC 59.998 47.826 0.00 0.00 0.00 4.40
147 148 3.251479 AGCTCGTATCAATCAACTGCA 57.749 42.857 0.00 0.00 0.00 4.41
148 149 3.193263 AGCTCGTATCAATCAACTGCAG 58.807 45.455 13.48 13.48 0.00 4.41
149 150 2.286067 GCTCGTATCAATCAACTGCAGC 60.286 50.000 15.27 0.00 0.00 5.25
150 151 2.931969 CTCGTATCAATCAACTGCAGCA 59.068 45.455 15.27 0.00 0.00 4.41
151 152 3.333804 TCGTATCAATCAACTGCAGCAA 58.666 40.909 15.27 0.00 0.00 3.91
152 153 3.125146 TCGTATCAATCAACTGCAGCAAC 59.875 43.478 15.27 0.00 0.00 4.17
153 154 3.125829 CGTATCAATCAACTGCAGCAACT 59.874 43.478 15.27 0.00 0.00 3.16
154 155 4.378770 CGTATCAATCAACTGCAGCAACTT 60.379 41.667 15.27 0.00 0.00 2.66
155 156 3.631145 TCAATCAACTGCAGCAACTTC 57.369 42.857 15.27 0.00 0.00 3.01
156 157 2.294233 TCAATCAACTGCAGCAACTTCC 59.706 45.455 15.27 0.00 0.00 3.46
157 158 2.283145 ATCAACTGCAGCAACTTCCT 57.717 45.000 15.27 0.00 0.00 3.36
158 159 2.057137 TCAACTGCAGCAACTTCCTT 57.943 45.000 15.27 0.00 0.00 3.36
159 160 2.378038 TCAACTGCAGCAACTTCCTTT 58.622 42.857 15.27 0.00 0.00 3.11
160 161 3.550820 TCAACTGCAGCAACTTCCTTTA 58.449 40.909 15.27 0.00 0.00 1.85
161 162 3.315191 TCAACTGCAGCAACTTCCTTTAC 59.685 43.478 15.27 0.00 0.00 2.01
162 163 2.930950 ACTGCAGCAACTTCCTTTACA 58.069 42.857 15.27 0.00 0.00 2.41
163 164 3.287222 ACTGCAGCAACTTCCTTTACAA 58.713 40.909 15.27 0.00 0.00 2.41
164 165 3.066760 ACTGCAGCAACTTCCTTTACAAC 59.933 43.478 15.27 0.00 0.00 3.32
165 166 3.020274 TGCAGCAACTTCCTTTACAACA 58.980 40.909 0.00 0.00 0.00 3.33
166 167 3.445450 TGCAGCAACTTCCTTTACAACAA 59.555 39.130 0.00 0.00 0.00 2.83
167 168 3.796717 GCAGCAACTTCCTTTACAACAAC 59.203 43.478 0.00 0.00 0.00 3.32
168 169 4.035017 CAGCAACTTCCTTTACAACAACG 58.965 43.478 0.00 0.00 0.00 4.10
169 170 3.066203 AGCAACTTCCTTTACAACAACGG 59.934 43.478 0.00 0.00 0.00 4.44
170 171 3.794138 GCAACTTCCTTTACAACAACGGG 60.794 47.826 0.00 0.00 0.00 5.28
171 172 3.564053 ACTTCCTTTACAACAACGGGA 57.436 42.857 0.00 0.00 0.00 5.14
172 173 3.208594 ACTTCCTTTACAACAACGGGAC 58.791 45.455 0.00 0.00 0.00 4.46
173 174 2.259266 TCCTTTACAACAACGGGACC 57.741 50.000 0.00 0.00 0.00 4.46
174 175 1.489649 TCCTTTACAACAACGGGACCA 59.510 47.619 0.00 0.00 0.00 4.02
175 176 2.106857 TCCTTTACAACAACGGGACCAT 59.893 45.455 0.00 0.00 0.00 3.55
176 177 3.327172 TCCTTTACAACAACGGGACCATA 59.673 43.478 0.00 0.00 0.00 2.74
177 178 4.073549 CCTTTACAACAACGGGACCATAA 58.926 43.478 0.00 0.00 0.00 1.90
178 179 4.703093 CCTTTACAACAACGGGACCATAAT 59.297 41.667 0.00 0.00 0.00 1.28
179 180 5.184287 CCTTTACAACAACGGGACCATAATT 59.816 40.000 0.00 0.00 0.00 1.40
180 181 6.294843 CCTTTACAACAACGGGACCATAATTT 60.295 38.462 0.00 0.00 0.00 1.82
181 182 4.513198 ACAACAACGGGACCATAATTTG 57.487 40.909 0.00 0.00 0.00 2.32
202 203 9.454859 AATTTGGAAACTTCTCTCACTAATAGG 57.545 33.333 0.00 0.00 0.00 2.57
203 204 7.554959 TTGGAAACTTCTCTCACTAATAGGT 57.445 36.000 0.00 0.00 0.00 3.08
204 205 8.660295 TTGGAAACTTCTCTCACTAATAGGTA 57.340 34.615 0.00 0.00 0.00 3.08
208 209 9.959749 GAAACTTCTCTCACTAATAGGTATGAG 57.040 37.037 1.30 1.30 39.99 2.90
443 445 2.849646 GGCGGGGCCTAAGGAGAT 60.850 66.667 0.84 0.00 46.69 2.75
450 452 3.106986 GCCTAAGGAGATGGCGGCA 62.107 63.158 16.34 16.34 37.11 5.69
514 516 3.580100 GAGGAGAGCTGCACGCACA 62.580 63.158 1.02 0.00 42.61 4.57
515 517 3.418068 GGAGAGCTGCACGCACAC 61.418 66.667 1.02 3.52 42.61 3.82
520 522 3.114616 GCTGCACGCACACGAGAT 61.115 61.111 0.00 0.00 43.93 2.75
1389 1478 5.255710 AGATTCTGTCCACTCAATACTCG 57.744 43.478 0.00 0.00 0.00 4.18
1821 1910 0.716591 TCTGTGGGGAGGTAGGTCAT 59.283 55.000 0.00 0.00 0.00 3.06
1854 1943 2.743718 CCAACTCGTGGCAGAGGT 59.256 61.111 15.26 8.33 41.72 3.85
1872 1961 4.926987 AGAGGTAGGGGATATAACAGAGGA 59.073 45.833 0.00 0.00 0.00 3.71
2077 2166 1.990060 GCTCACTGGGCCTCCACTA 60.990 63.158 4.53 0.00 38.32 2.74
2211 2300 2.254152 ACACTAAGCATCCTCCCTCA 57.746 50.000 0.00 0.00 0.00 3.86
2269 2358 0.991920 ACCAGTCATAGGGGTTGGTG 59.008 55.000 0.00 0.00 40.47 4.17
2395 2484 3.130633 CGTGTGATCCTTGACAAGTTCA 58.869 45.455 14.03 12.82 0.00 3.18
3427 3516 2.547211 CTCAGTCTGTTGTTTGCAGAGG 59.453 50.000 0.00 0.00 42.80 3.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.428171 GCATTCCAGGCAGATTTAGCAA 59.572 45.455 0.00 0.00 0.00 3.91
3 4 4.712476 ACTAGCATTCCAGGCAGATTTAG 58.288 43.478 0.00 0.00 0.00 1.85
6 7 2.158696 GGACTAGCATTCCAGGCAGATT 60.159 50.000 0.00 0.00 32.82 2.40
7 8 1.419387 GGACTAGCATTCCAGGCAGAT 59.581 52.381 0.00 0.00 32.82 2.90
8 9 0.833287 GGACTAGCATTCCAGGCAGA 59.167 55.000 0.00 0.00 32.82 4.26
9 10 0.179034 GGGACTAGCATTCCAGGCAG 60.179 60.000 0.71 0.00 34.45 4.85
10 11 0.621571 AGGGACTAGCATTCCAGGCA 60.622 55.000 0.71 0.00 36.02 4.75
11 12 0.107643 GAGGGACTAGCATTCCAGGC 59.892 60.000 0.71 0.00 41.55 4.85
12 13 1.139853 GTGAGGGACTAGCATTCCAGG 59.860 57.143 0.71 0.00 41.55 4.45
13 14 1.833630 TGTGAGGGACTAGCATTCCAG 59.166 52.381 0.71 0.00 41.55 3.86
14 15 1.951209 TGTGAGGGACTAGCATTCCA 58.049 50.000 0.71 0.00 41.55 3.53
15 16 3.471680 GAATGTGAGGGACTAGCATTCC 58.528 50.000 0.00 0.00 45.36 3.01
17 18 4.851639 AAGAATGTGAGGGACTAGCATT 57.148 40.909 0.00 0.00 41.55 3.56
18 19 4.851639 AAAGAATGTGAGGGACTAGCAT 57.148 40.909 0.00 0.00 41.55 3.79
19 20 4.202461 ACAAAAGAATGTGAGGGACTAGCA 60.202 41.667 0.00 0.00 41.55 3.49
20 21 4.327680 ACAAAAGAATGTGAGGGACTAGC 58.672 43.478 0.00 0.00 41.55 3.42
21 22 5.582665 GCTACAAAAGAATGTGAGGGACTAG 59.417 44.000 0.00 0.00 34.59 2.57
22 23 5.012664 TGCTACAAAAGAATGTGAGGGACTA 59.987 40.000 0.00 0.00 34.59 2.59
23 24 4.202461 TGCTACAAAAGAATGTGAGGGACT 60.202 41.667 0.00 0.00 36.49 3.85
24 25 4.072131 TGCTACAAAAGAATGTGAGGGAC 58.928 43.478 0.00 0.00 34.75 4.46
25 26 4.365514 TGCTACAAAAGAATGTGAGGGA 57.634 40.909 0.00 0.00 34.75 4.20
26 27 5.452078 TTTGCTACAAAAGAATGTGAGGG 57.548 39.130 0.00 0.00 34.75 4.30
27 28 6.587608 GGATTTTGCTACAAAAGAATGTGAGG 59.412 38.462 10.81 0.00 34.75 3.86
28 29 7.373493 AGGATTTTGCTACAAAAGAATGTGAG 58.627 34.615 10.81 0.00 34.75 3.51
29 30 7.231317 AGAGGATTTTGCTACAAAAGAATGTGA 59.769 33.333 10.81 0.00 34.75 3.58
30 31 7.373493 AGAGGATTTTGCTACAAAAGAATGTG 58.627 34.615 10.81 0.00 34.75 3.21
31 32 7.530426 AGAGGATTTTGCTACAAAAGAATGT 57.470 32.000 10.81 0.00 37.32 2.71
32 33 8.302438 AGAAGAGGATTTTGCTACAAAAGAATG 58.698 33.333 10.81 0.00 0.00 2.67
33 34 8.414629 AGAAGAGGATTTTGCTACAAAAGAAT 57.585 30.769 10.81 0.32 0.00 2.40
34 35 7.823745 AGAAGAGGATTTTGCTACAAAAGAA 57.176 32.000 10.81 0.00 0.00 2.52
35 36 7.823745 AAGAAGAGGATTTTGCTACAAAAGA 57.176 32.000 10.81 0.00 0.00 2.52
36 37 7.383300 CCAAAGAAGAGGATTTTGCTACAAAAG 59.617 37.037 10.81 0.00 32.01 2.27
37 38 7.209475 CCAAAGAAGAGGATTTTGCTACAAAA 58.791 34.615 7.84 7.84 32.01 2.44
38 39 6.738453 GCCAAAGAAGAGGATTTTGCTACAAA 60.738 38.462 0.00 0.00 32.01 2.83
39 40 5.278957 GCCAAAGAAGAGGATTTTGCTACAA 60.279 40.000 0.00 0.00 32.01 2.41
40 41 4.218417 GCCAAAGAAGAGGATTTTGCTACA 59.782 41.667 0.00 0.00 32.01 2.74
41 42 4.218417 TGCCAAAGAAGAGGATTTTGCTAC 59.782 41.667 0.00 0.00 32.01 3.58
42 43 4.406456 TGCCAAAGAAGAGGATTTTGCTA 58.594 39.130 0.00 0.00 32.01 3.49
43 44 3.233507 TGCCAAAGAAGAGGATTTTGCT 58.766 40.909 0.00 0.00 32.01 3.91
44 45 3.582780 CTGCCAAAGAAGAGGATTTTGC 58.417 45.455 0.00 0.00 32.01 3.68
45 46 3.056322 CCCTGCCAAAGAAGAGGATTTTG 60.056 47.826 0.00 0.00 0.00 2.44
46 47 3.168292 CCCTGCCAAAGAAGAGGATTTT 58.832 45.455 0.00 0.00 0.00 1.82
47 48 2.110721 ACCCTGCCAAAGAAGAGGATTT 59.889 45.455 0.00 0.00 0.00 2.17
48 49 1.713078 ACCCTGCCAAAGAAGAGGATT 59.287 47.619 0.00 0.00 0.00 3.01
49 50 1.283321 GACCCTGCCAAAGAAGAGGAT 59.717 52.381 0.00 0.00 0.00 3.24
50 51 0.693049 GACCCTGCCAAAGAAGAGGA 59.307 55.000 0.00 0.00 0.00 3.71
51 52 0.695347 AGACCCTGCCAAAGAAGAGG 59.305 55.000 0.00 0.00 0.00 3.69
52 53 2.555757 CAAAGACCCTGCCAAAGAAGAG 59.444 50.000 0.00 0.00 0.00 2.85
53 54 2.174639 TCAAAGACCCTGCCAAAGAAGA 59.825 45.455 0.00 0.00 0.00 2.87
54 55 2.586425 TCAAAGACCCTGCCAAAGAAG 58.414 47.619 0.00 0.00 0.00 2.85
55 56 2.746279 TCAAAGACCCTGCCAAAGAA 57.254 45.000 0.00 0.00 0.00 2.52
56 57 2.746279 TTCAAAGACCCTGCCAAAGA 57.254 45.000 0.00 0.00 0.00 2.52
57 58 3.817709 TTTTCAAAGACCCTGCCAAAG 57.182 42.857 0.00 0.00 0.00 2.77
58 59 3.454082 ACATTTTCAAAGACCCTGCCAAA 59.546 39.130 0.00 0.00 0.00 3.28
59 60 3.037549 ACATTTTCAAAGACCCTGCCAA 58.962 40.909 0.00 0.00 0.00 4.52
60 61 2.364970 CACATTTTCAAAGACCCTGCCA 59.635 45.455 0.00 0.00 0.00 4.92
61 62 2.289010 CCACATTTTCAAAGACCCTGCC 60.289 50.000 0.00 0.00 0.00 4.85
62 63 2.365293 ACCACATTTTCAAAGACCCTGC 59.635 45.455 0.00 0.00 0.00 4.85
63 64 3.799917 GCACCACATTTTCAAAGACCCTG 60.800 47.826 0.00 0.00 0.00 4.45
64 65 2.365293 GCACCACATTTTCAAAGACCCT 59.635 45.455 0.00 0.00 0.00 4.34
65 66 2.102252 TGCACCACATTTTCAAAGACCC 59.898 45.455 0.00 0.00 0.00 4.46
66 67 3.451141 TGCACCACATTTTCAAAGACC 57.549 42.857 0.00 0.00 0.00 3.85
67 68 4.681744 TCTTGCACCACATTTTCAAAGAC 58.318 39.130 0.00 0.00 0.00 3.01
68 69 4.998671 TCTTGCACCACATTTTCAAAGA 57.001 36.364 0.00 0.00 0.00 2.52
69 70 5.350633 TCTTCTTGCACCACATTTTCAAAG 58.649 37.500 0.00 0.00 0.00 2.77
70 71 5.336150 TCTTCTTGCACCACATTTTCAAA 57.664 34.783 0.00 0.00 0.00 2.69
71 72 4.998671 TCTTCTTGCACCACATTTTCAA 57.001 36.364 0.00 0.00 0.00 2.69
72 73 4.644234 TCTTCTTCTTGCACCACATTTTCA 59.356 37.500 0.00 0.00 0.00 2.69
73 74 5.186996 TCTTCTTCTTGCACCACATTTTC 57.813 39.130 0.00 0.00 0.00 2.29
74 75 5.594926 CTTCTTCTTCTTGCACCACATTTT 58.405 37.500 0.00 0.00 0.00 1.82
75 76 4.500375 GCTTCTTCTTCTTGCACCACATTT 60.500 41.667 0.00 0.00 0.00 2.32
76 77 3.005155 GCTTCTTCTTCTTGCACCACATT 59.995 43.478 0.00 0.00 0.00 2.71
77 78 2.555757 GCTTCTTCTTCTTGCACCACAT 59.444 45.455 0.00 0.00 0.00 3.21
78 79 1.949525 GCTTCTTCTTCTTGCACCACA 59.050 47.619 0.00 0.00 0.00 4.17
79 80 1.268079 GGCTTCTTCTTCTTGCACCAC 59.732 52.381 0.00 0.00 0.00 4.16
80 81 1.143684 AGGCTTCTTCTTCTTGCACCA 59.856 47.619 0.00 0.00 0.00 4.17
81 82 1.902938 AGGCTTCTTCTTCTTGCACC 58.097 50.000 0.00 0.00 0.00 5.01
82 83 3.998099 AAAGGCTTCTTCTTCTTGCAC 57.002 42.857 0.00 0.00 0.00 4.57
83 84 3.953612 TGAAAAGGCTTCTTCTTCTTGCA 59.046 39.130 17.13 0.00 0.00 4.08
84 85 4.276926 TCTGAAAAGGCTTCTTCTTCTTGC 59.723 41.667 17.13 0.00 0.00 4.01
85 86 6.382869 TTCTGAAAAGGCTTCTTCTTCTTG 57.617 37.500 17.13 8.87 0.00 3.02
86 87 6.774656 TCATTCTGAAAAGGCTTCTTCTTCTT 59.225 34.615 17.13 1.84 0.00 2.52
87 88 6.302269 TCATTCTGAAAAGGCTTCTTCTTCT 58.698 36.000 17.13 0.00 0.00 2.85
88 89 6.566197 TCATTCTGAAAAGGCTTCTTCTTC 57.434 37.500 17.13 11.24 0.00 2.87
89 90 6.947158 AGATCATTCTGAAAAGGCTTCTTCTT 59.053 34.615 17.13 3.38 0.00 2.52
90 91 6.483405 AGATCATTCTGAAAAGGCTTCTTCT 58.517 36.000 17.13 0.00 0.00 2.85
91 92 6.756299 AGATCATTCTGAAAAGGCTTCTTC 57.244 37.500 0.00 7.62 0.00 2.87
92 93 7.536159 AAAGATCATTCTGAAAAGGCTTCTT 57.464 32.000 0.00 0.00 30.72 2.52
93 94 7.376615 CAAAAGATCATTCTGAAAAGGCTTCT 58.623 34.615 0.00 0.00 30.72 2.85
94 95 6.589139 CCAAAAGATCATTCTGAAAAGGCTTC 59.411 38.462 0.00 0.00 30.72 3.86
95 96 6.268387 TCCAAAAGATCATTCTGAAAAGGCTT 59.732 34.615 0.00 0.00 30.72 4.35
96 97 5.776716 TCCAAAAGATCATTCTGAAAAGGCT 59.223 36.000 0.00 0.00 30.72 4.58
97 98 5.866092 GTCCAAAAGATCATTCTGAAAAGGC 59.134 40.000 0.00 0.00 30.72 4.35
98 99 7.224522 AGTCCAAAAGATCATTCTGAAAAGG 57.775 36.000 0.00 0.00 30.72 3.11
99 100 7.597743 CCAAGTCCAAAAGATCATTCTGAAAAG 59.402 37.037 0.00 0.00 30.72 2.27
100 101 7.287466 TCCAAGTCCAAAAGATCATTCTGAAAA 59.713 33.333 0.00 0.00 30.72 2.29
101 102 6.777091 TCCAAGTCCAAAAGATCATTCTGAAA 59.223 34.615 0.00 0.00 30.72 2.69
102 103 6.306199 TCCAAGTCCAAAAGATCATTCTGAA 58.694 36.000 0.00 0.00 30.72 3.02
103 104 5.879763 TCCAAGTCCAAAAGATCATTCTGA 58.120 37.500 0.00 0.00 30.72 3.27
104 105 6.579666 TTCCAAGTCCAAAAGATCATTCTG 57.420 37.500 0.00 0.00 30.72 3.02
105 106 5.184671 GCTTCCAAGTCCAAAAGATCATTCT 59.815 40.000 0.00 0.00 0.00 2.40
106 107 5.184671 AGCTTCCAAGTCCAAAAGATCATTC 59.815 40.000 0.00 0.00 0.00 2.67
107 108 5.082425 AGCTTCCAAGTCCAAAAGATCATT 58.918 37.500 0.00 0.00 0.00 2.57
108 109 4.670765 AGCTTCCAAGTCCAAAAGATCAT 58.329 39.130 0.00 0.00 0.00 2.45
109 110 4.074970 GAGCTTCCAAGTCCAAAAGATCA 58.925 43.478 0.00 0.00 34.98 2.92
110 111 3.126000 CGAGCTTCCAAGTCCAAAAGATC 59.874 47.826 0.00 0.00 32.33 2.75
111 112 3.077359 CGAGCTTCCAAGTCCAAAAGAT 58.923 45.455 0.00 0.00 0.00 2.40
112 113 2.158813 ACGAGCTTCCAAGTCCAAAAGA 60.159 45.455 0.00 0.00 0.00 2.52
113 114 2.222027 ACGAGCTTCCAAGTCCAAAAG 58.778 47.619 0.00 0.00 0.00 2.27
114 115 2.341846 ACGAGCTTCCAAGTCCAAAA 57.658 45.000 0.00 0.00 0.00 2.44
115 116 3.007506 TGATACGAGCTTCCAAGTCCAAA 59.992 43.478 0.00 0.00 0.00 3.28
116 117 2.565391 TGATACGAGCTTCCAAGTCCAA 59.435 45.455 0.00 0.00 0.00 3.53
117 118 2.176045 TGATACGAGCTTCCAAGTCCA 58.824 47.619 0.00 0.00 0.00 4.02
118 119 2.961526 TGATACGAGCTTCCAAGTCC 57.038 50.000 0.00 0.00 0.00 3.85
119 120 4.433615 TGATTGATACGAGCTTCCAAGTC 58.566 43.478 0.00 0.00 0.00 3.01
120 121 4.471904 TGATTGATACGAGCTTCCAAGT 57.528 40.909 0.00 0.00 0.00 3.16
121 122 4.872691 AGTTGATTGATACGAGCTTCCAAG 59.127 41.667 0.00 0.00 0.00 3.61
122 123 4.631377 CAGTTGATTGATACGAGCTTCCAA 59.369 41.667 0.00 0.00 0.00 3.53
123 124 4.183865 CAGTTGATTGATACGAGCTTCCA 58.816 43.478 0.00 0.00 0.00 3.53
124 125 3.001736 GCAGTTGATTGATACGAGCTTCC 59.998 47.826 0.00 0.00 0.00 3.46
125 126 3.618594 TGCAGTTGATTGATACGAGCTTC 59.381 43.478 0.00 0.00 0.00 3.86
126 127 3.599343 TGCAGTTGATTGATACGAGCTT 58.401 40.909 0.00 0.00 0.00 3.74
127 128 3.193263 CTGCAGTTGATTGATACGAGCT 58.807 45.455 5.25 0.00 0.00 4.09
128 129 2.286067 GCTGCAGTTGATTGATACGAGC 60.286 50.000 16.64 0.00 0.00 5.03
129 130 2.931969 TGCTGCAGTTGATTGATACGAG 59.068 45.455 16.64 0.00 0.00 4.18
130 131 2.971307 TGCTGCAGTTGATTGATACGA 58.029 42.857 16.64 0.00 0.00 3.43
131 132 3.125829 AGTTGCTGCAGTTGATTGATACG 59.874 43.478 16.64 0.00 0.00 3.06
132 133 4.691860 AGTTGCTGCAGTTGATTGATAC 57.308 40.909 16.64 0.00 0.00 2.24
133 134 4.156556 GGAAGTTGCTGCAGTTGATTGATA 59.843 41.667 16.64 0.00 0.00 2.15
134 135 3.057033 GGAAGTTGCTGCAGTTGATTGAT 60.057 43.478 16.64 0.00 0.00 2.57
135 136 2.294233 GGAAGTTGCTGCAGTTGATTGA 59.706 45.455 16.64 0.00 0.00 2.57
136 137 2.295349 AGGAAGTTGCTGCAGTTGATTG 59.705 45.455 16.64 0.00 0.00 2.67
137 138 2.590821 AGGAAGTTGCTGCAGTTGATT 58.409 42.857 16.64 5.84 0.00 2.57
138 139 2.283145 AGGAAGTTGCTGCAGTTGAT 57.717 45.000 16.64 0.00 0.00 2.57
139 140 2.057137 AAGGAAGTTGCTGCAGTTGA 57.943 45.000 16.64 0.00 0.00 3.18
140 141 2.877043 AAAGGAAGTTGCTGCAGTTG 57.123 45.000 16.64 0.00 0.00 3.16
141 142 3.287222 TGTAAAGGAAGTTGCTGCAGTT 58.713 40.909 16.64 0.51 0.00 3.16
142 143 2.930950 TGTAAAGGAAGTTGCTGCAGT 58.069 42.857 16.64 0.00 0.00 4.40
143 144 3.066621 TGTTGTAAAGGAAGTTGCTGCAG 59.933 43.478 10.11 10.11 0.00 4.41
144 145 3.020274 TGTTGTAAAGGAAGTTGCTGCA 58.980 40.909 0.00 0.00 0.00 4.41
145 146 3.708563 TGTTGTAAAGGAAGTTGCTGC 57.291 42.857 0.00 0.00 0.00 5.25
146 147 4.035017 CGTTGTTGTAAAGGAAGTTGCTG 58.965 43.478 0.00 0.00 0.00 4.41
147 148 3.066203 CCGTTGTTGTAAAGGAAGTTGCT 59.934 43.478 0.00 0.00 0.00 3.91
148 149 3.368495 CCGTTGTTGTAAAGGAAGTTGC 58.632 45.455 0.00 0.00 0.00 4.17
149 150 3.628487 TCCCGTTGTTGTAAAGGAAGTTG 59.372 43.478 0.00 0.00 0.00 3.16
150 151 3.628942 GTCCCGTTGTTGTAAAGGAAGTT 59.371 43.478 0.00 0.00 0.00 2.66
151 152 3.208594 GTCCCGTTGTTGTAAAGGAAGT 58.791 45.455 0.00 0.00 0.00 3.01
152 153 2.551032 GGTCCCGTTGTTGTAAAGGAAG 59.449 50.000 0.00 0.00 0.00 3.46
153 154 2.092538 TGGTCCCGTTGTTGTAAAGGAA 60.093 45.455 0.00 0.00 0.00 3.36
154 155 1.489649 TGGTCCCGTTGTTGTAAAGGA 59.510 47.619 0.00 0.00 0.00 3.36
155 156 1.970092 TGGTCCCGTTGTTGTAAAGG 58.030 50.000 0.00 0.00 0.00 3.11
156 157 5.890424 ATTATGGTCCCGTTGTTGTAAAG 57.110 39.130 0.00 0.00 0.00 1.85
157 158 6.448006 CAAATTATGGTCCCGTTGTTGTAAA 58.552 36.000 0.00 0.00 0.00 2.01
158 159 5.047943 CCAAATTATGGTCCCGTTGTTGTAA 60.048 40.000 0.00 0.00 44.85 2.41
159 160 4.459685 CCAAATTATGGTCCCGTTGTTGTA 59.540 41.667 0.00 0.00 44.85 2.41
160 161 3.257127 CCAAATTATGGTCCCGTTGTTGT 59.743 43.478 0.00 0.00 44.85 3.32
161 162 3.843999 CCAAATTATGGTCCCGTTGTTG 58.156 45.455 0.00 0.00 44.85 3.33
176 177 9.454859 CCTATTAGTGAGAGAAGTTTCCAAATT 57.545 33.333 0.00 0.00 0.00 1.82
177 178 8.606830 ACCTATTAGTGAGAGAAGTTTCCAAAT 58.393 33.333 0.00 0.00 0.00 2.32
178 179 7.974504 ACCTATTAGTGAGAGAAGTTTCCAAA 58.025 34.615 0.00 0.00 0.00 3.28
179 180 7.554959 ACCTATTAGTGAGAGAAGTTTCCAA 57.445 36.000 0.00 0.00 0.00 3.53
180 181 8.696374 CATACCTATTAGTGAGAGAAGTTTCCA 58.304 37.037 0.00 0.00 0.00 3.53
181 182 8.915036 TCATACCTATTAGTGAGAGAAGTTTCC 58.085 37.037 0.00 0.00 0.00 3.13
182 183 9.959749 CTCATACCTATTAGTGAGAGAAGTTTC 57.040 37.037 4.54 0.00 40.30 2.78
183 184 9.482175 ACTCATACCTATTAGTGAGAGAAGTTT 57.518 33.333 13.76 0.00 40.30 2.66
184 185 9.482175 AACTCATACCTATTAGTGAGAGAAGTT 57.518 33.333 13.76 2.74 40.30 2.66
185 186 9.127277 GAACTCATACCTATTAGTGAGAGAAGT 57.873 37.037 13.76 0.00 40.30 3.01
186 187 9.349713 AGAACTCATACCTATTAGTGAGAGAAG 57.650 37.037 13.76 0.00 40.30 2.85
187 188 9.126151 CAGAACTCATACCTATTAGTGAGAGAA 57.874 37.037 13.76 0.00 40.30 2.87
188 189 8.275758 ACAGAACTCATACCTATTAGTGAGAGA 58.724 37.037 13.76 0.00 40.30 3.10
189 190 8.458573 ACAGAACTCATACCTATTAGTGAGAG 57.541 38.462 13.76 7.21 40.30 3.20
190 191 8.687242 CAACAGAACTCATACCTATTAGTGAGA 58.313 37.037 13.76 0.00 40.30 3.27
191 192 8.687242 TCAACAGAACTCATACCTATTAGTGAG 58.313 37.037 7.79 7.79 42.80 3.51
192 193 8.589701 TCAACAGAACTCATACCTATTAGTGA 57.410 34.615 0.00 0.00 0.00 3.41
193 194 9.088512 GTTCAACAGAACTCATACCTATTAGTG 57.911 37.037 1.35 0.00 38.83 2.74
194 195 8.258708 GGTTCAACAGAACTCATACCTATTAGT 58.741 37.037 8.11 0.00 41.07 2.24
195 196 7.435488 CGGTTCAACAGAACTCATACCTATTAG 59.565 40.741 8.11 0.00 41.07 1.73
196 197 7.262772 CGGTTCAACAGAACTCATACCTATTA 58.737 38.462 8.11 0.00 41.07 0.98
197 198 6.106673 CGGTTCAACAGAACTCATACCTATT 58.893 40.000 8.11 0.00 41.07 1.73
198 199 5.395324 CCGGTTCAACAGAACTCATACCTAT 60.395 44.000 8.11 0.00 41.07 2.57
199 200 4.081862 CCGGTTCAACAGAACTCATACCTA 60.082 45.833 8.11 0.00 41.07 3.08
200 201 3.306780 CCGGTTCAACAGAACTCATACCT 60.307 47.826 8.11 0.00 41.07 3.08
201 202 3.000727 CCGGTTCAACAGAACTCATACC 58.999 50.000 8.11 0.00 41.07 2.73
202 203 3.660865 ACCGGTTCAACAGAACTCATAC 58.339 45.455 0.00 0.00 41.07 2.39
203 204 5.416083 CATACCGGTTCAACAGAACTCATA 58.584 41.667 15.04 0.00 41.07 2.15
204 205 2.930826 ACCGGTTCAACAGAACTCAT 57.069 45.000 0.00 0.00 41.07 2.90
208 209 2.081462 CCCATACCGGTTCAACAGAAC 58.919 52.381 15.04 0.00 40.68 3.01
273 275 2.733956 CTCCTCTTCTAGGTCAGCACT 58.266 52.381 0.00 0.00 46.62 4.40
1389 1478 1.518774 CATGACATTGCCCTTGCCC 59.481 57.895 0.00 0.00 36.33 5.36
1821 1910 4.561530 CGAGTTGGACATTCTCTCTTCCAA 60.562 45.833 0.00 0.00 44.21 3.53
1854 1943 4.264442 GCTCCTCCTCTGTTATATCCCCTA 60.264 50.000 0.00 0.00 0.00 3.53
1872 1961 0.041833 TTCTACCTCTGCCTGCTCCT 59.958 55.000 0.00 0.00 0.00 3.69
2077 2166 4.200092 GCTCTTTCCGGATTACCTTCATT 58.800 43.478 4.15 0.00 0.00 2.57
2211 2300 2.419667 GTTTGTATAGTGCCCGTGTGT 58.580 47.619 0.00 0.00 0.00 3.72
2269 2358 2.029649 TGGTCGGAGTACACTTTACTGC 60.030 50.000 0.00 0.00 33.36 4.40
2395 2484 1.002430 TCGCTCCTGAATCAAGCAACT 59.998 47.619 7.58 0.00 35.76 3.16
3427 3516 0.763035 ACAGGGTGTAGGTGGTCAAC 59.237 55.000 0.00 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.