Multiple sequence alignment - TraesCS1A01G142800

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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 TraesCS1A01G142800 chr1A 100.000 4709 0 0 1 4709 244511602 244506894 0.000000e+00 8696.0
1 TraesCS1A01G142800 chr1A 99.164 4306 34 2 406 4709 587388435 587384130 0.000000e+00 7751.0
2 TraesCS1A01G142800 chr1A 98.099 2314 42 2 2396 4709 97645379 97643068 0.000000e+00 4028.0
3 TraesCS1A01G142800 chr1A 95.724 1988 82 3 376 2361 97647363 97645377 0.000000e+00 3197.0
4 TraesCS1A01G142800 chr1A 89.655 609 38 2 1249 1832 452018765 452019373 0.000000e+00 752.0
5 TraesCS1A01G142800 chr1A 91.489 47 2 2 4012 4057 330766942 330766897 3.930000e-06 63.9
6 TraesCS1A01G142800 chr2B 98.993 4368 25 3 361 4709 596913712 596909345 0.000000e+00 7805.0
7 TraesCS1A01G142800 chr2B 82.527 372 35 20 1 365 74833475 74833823 2.750000e-77 300.0
8 TraesCS1A01G142800 chr5A 99.100 4335 33 5 376 4709 78266817 78262488 0.000000e+00 7784.0
9 TraesCS1A01G142800 chr5A 98.245 4330 45 6 381 4709 78325617 78321318 0.000000e+00 7546.0
10 TraesCS1A01G142800 chr5A 97.706 4315 76 4 396 4709 623556655 623552363 0.000000e+00 7398.0
11 TraesCS1A01G142800 chr5A 96.514 1377 40 2 383 1751 426932602 426931226 0.000000e+00 2270.0
12 TraesCS1A01G142800 chr5A 93.617 47 2 1 4011 4057 169297912 169297867 8.460000e-08 69.4
13 TraesCS1A01G142800 chr6B 91.398 1395 80 12 2673 4047 270877251 270878625 0.000000e+00 1875.0
14 TraesCS1A01G142800 chr6B 93.424 806 42 7 1876 2674 270876417 270877218 0.000000e+00 1184.0
15 TraesCS1A01G142800 chr6B 98.352 364 5 1 1 363 616767578 616767215 5.140000e-179 638.0
16 TraesCS1A01G142800 chr6B 86.327 373 35 7 4174 4546 270878866 270879222 4.420000e-105 392.0
17 TraesCS1A01G142800 chr6B 93.023 86 1 2 4051 4136 270878674 270878754 2.300000e-23 121.0
18 TraesCS1A01G142800 chr4A 92.272 867 64 2 382 1248 599905006 599904143 0.000000e+00 1227.0
19 TraesCS1A01G142800 chr4A 88.699 292 23 7 88 371 672160804 672161093 9.700000e-92 348.0
20 TraesCS1A01G142800 chr4A 100.000 33 0 0 178 210 343880872 343880840 1.410000e-05 62.1
21 TraesCS1A01G142800 chr3D 92.732 853 55 6 397 1248 281331189 281330343 0.000000e+00 1225.0
22 TraesCS1A01G142800 chr5B 93.267 802 49 4 1876 2674 127701892 127701093 0.000000e+00 1177.0
23 TraesCS1A01G142800 chr5B 98.387 372 3 3 1 369 610372134 610372505 0.000000e+00 651.0
24 TraesCS1A01G142800 chr5B 91.071 56 5 0 2669 2724 127701064 127701009 5.050000e-10 76.8
25 TraesCS1A01G142800 chr2A 87.354 941 86 12 3128 4053 456212800 456213722 0.000000e+00 1048.0
26 TraesCS1A01G142800 chr3A 86.306 942 96 12 3128 4053 670100950 670100026 0.000000e+00 994.0
27 TraesCS1A01G142800 chr1B 89.355 620 40 3 1249 1842 473822496 473823115 0.000000e+00 756.0
28 TraesCS1A01G142800 chr1B 82.331 266 30 11 1 259 534313201 534312946 1.030000e-51 215.0
29 TraesCS1A01G142800 chr1D 89.070 613 42 2 1249 1836 351245770 351246382 0.000000e+00 737.0
30 TraesCS1A01G142800 chrUn 91.351 370 23 5 4184 4551 466505782 466505420 9.100000e-137 497.0
31 TraesCS1A01G142800 chrUn 89.844 256 23 2 1876 2128 8502817 8503072 4.540000e-85 326.0
32 TraesCS1A01G142800 chr5D 84.322 472 43 13 2103 2549 382914210 382913745 2.600000e-117 433.0
33 TraesCS1A01G142800 chr5D 92.683 82 6 0 1 82 495953689 495953770 8.280000e-23 119.0
34 TraesCS1A01G142800 chr6A 81.989 372 39 16 4357 4706 314314327 314313962 1.660000e-74 291.0
35 TraesCS1A01G142800 chr6A 100.000 31 0 0 180 210 485767365 485767395 1.830000e-04 58.4
36 TraesCS1A01G142800 chr7B 93.478 46 2 1 4012 4057 559532020 559531976 3.040000e-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 TraesCS1A01G142800 chr1A 244506894 244511602 4708 True 8696.0 8696 100.0000 1 4709 1 chr1A.!!$R1 4708
1 TraesCS1A01G142800 chr1A 587384130 587388435 4305 True 7751.0 7751 99.1640 406 4709 1 chr1A.!!$R3 4303
2 TraesCS1A01G142800 chr1A 97643068 97647363 4295 True 3612.5 4028 96.9115 376 4709 2 chr1A.!!$R4 4333
3 TraesCS1A01G142800 chr1A 452018765 452019373 608 False 752.0 752 89.6550 1249 1832 1 chr1A.!!$F1 583
4 TraesCS1A01G142800 chr2B 596909345 596913712 4367 True 7805.0 7805 98.9930 361 4709 1 chr2B.!!$R1 4348
5 TraesCS1A01G142800 chr5A 78262488 78266817 4329 True 7784.0 7784 99.1000 376 4709 1 chr5A.!!$R1 4333
6 TraesCS1A01G142800 chr5A 78321318 78325617 4299 True 7546.0 7546 98.2450 381 4709 1 chr5A.!!$R2 4328
7 TraesCS1A01G142800 chr5A 623552363 623556655 4292 True 7398.0 7398 97.7060 396 4709 1 chr5A.!!$R5 4313
8 TraesCS1A01G142800 chr5A 426931226 426932602 1376 True 2270.0 2270 96.5140 383 1751 1 chr5A.!!$R4 1368
9 TraesCS1A01G142800 chr6B 270876417 270879222 2805 False 893.0 1875 91.0430 1876 4546 4 chr6B.!!$F1 2670
10 TraesCS1A01G142800 chr4A 599904143 599905006 863 True 1227.0 1227 92.2720 382 1248 1 chr4A.!!$R2 866
11 TraesCS1A01G142800 chr3D 281330343 281331189 846 True 1225.0 1225 92.7320 397 1248 1 chr3D.!!$R1 851
12 TraesCS1A01G142800 chr5B 127701009 127701892 883 True 626.9 1177 92.1690 1876 2724 2 chr5B.!!$R1 848
13 TraesCS1A01G142800 chr2A 456212800 456213722 922 False 1048.0 1048 87.3540 3128 4053 1 chr2A.!!$F1 925
14 TraesCS1A01G142800 chr3A 670100026 670100950 924 True 994.0 994 86.3060 3128 4053 1 chr3A.!!$R1 925
15 TraesCS1A01G142800 chr1B 473822496 473823115 619 False 756.0 756 89.3550 1249 1842 1 chr1B.!!$F1 593
16 TraesCS1A01G142800 chr1D 351245770 351246382 612 False 737.0 737 89.0700 1249 1836 1 chr1D.!!$F1 587

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
51 52 0.179000 TTGGTGCCGGCAAACATTTT 59.821 45.0 34.66 0.0 0.00 1.82 F
359 360 0.251916 AACGCATGGGCACTTAGCTA 59.748 50.0 10.10 0.0 44.79 3.32 F
2281 2379 7.410120 TGTGAGATCTAAGCTCAATAGTTCA 57.590 36.0 0.00 0.0 43.39 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1405 1433 4.093952 GCGGACGACGTCGAGGAA 62.094 66.667 41.52 0.0 46.52 3.36 R
2281 2379 1.620822 GATTGCCTCCCAAGTTGTGT 58.379 50.000 1.45 0.0 36.76 3.72 R
3862 4013 4.038763 ACACCGACTGAACAAATCTACTGA 59.961 41.667 0.00 0.0 0.00 3.41 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
30 31 2.804986 TCCAACATGGAATAGCTGCA 57.195 45.000 1.02 0.00 45.00 4.41
31 32 2.646930 TCCAACATGGAATAGCTGCAG 58.353 47.619 10.11 10.11 45.00 4.41
32 33 2.025981 TCCAACATGGAATAGCTGCAGT 60.026 45.455 16.64 4.79 45.00 4.40
33 34 2.756760 CCAACATGGAATAGCTGCAGTT 59.243 45.455 16.64 12.62 40.96 3.16
34 35 3.428452 CCAACATGGAATAGCTGCAGTTG 60.428 47.826 16.64 8.26 40.96 3.16
35 36 2.372264 ACATGGAATAGCTGCAGTTGG 58.628 47.619 16.64 0.00 0.00 3.77
36 37 2.291153 ACATGGAATAGCTGCAGTTGGT 60.291 45.455 16.64 1.13 0.00 3.67
37 38 1.825090 TGGAATAGCTGCAGTTGGTG 58.175 50.000 16.64 0.00 0.00 4.17
46 47 2.027460 CAGTTGGTGCCGGCAAAC 59.973 61.111 34.66 31.08 0.00 2.93
47 48 2.441164 AGTTGGTGCCGGCAAACA 60.441 55.556 34.08 30.36 0.00 2.83
48 49 1.832167 AGTTGGTGCCGGCAAACAT 60.832 52.632 34.08 21.50 0.00 2.71
49 50 1.068921 GTTGGTGCCGGCAAACATT 59.931 52.632 34.66 0.00 0.00 2.71
50 51 0.531753 GTTGGTGCCGGCAAACATTT 60.532 50.000 34.66 0.00 0.00 2.32
51 52 0.179000 TTGGTGCCGGCAAACATTTT 59.821 45.000 34.66 0.00 0.00 1.82
52 53 1.040646 TGGTGCCGGCAAACATTTTA 58.959 45.000 34.66 8.01 0.00 1.52
53 54 1.000283 TGGTGCCGGCAAACATTTTAG 60.000 47.619 34.66 0.00 0.00 1.85
54 55 1.671556 GGTGCCGGCAAACATTTTAGG 60.672 52.381 34.66 0.00 0.00 2.69
55 56 1.000394 GTGCCGGCAAACATTTTAGGT 60.000 47.619 34.66 0.00 0.00 3.08
56 57 1.689273 TGCCGGCAAACATTTTAGGTT 59.311 42.857 30.74 0.00 0.00 3.50
57 58 2.891580 TGCCGGCAAACATTTTAGGTTA 59.108 40.909 30.74 0.00 0.00 2.85
58 59 3.247442 GCCGGCAAACATTTTAGGTTAC 58.753 45.455 24.80 0.00 0.00 2.50
59 60 3.305471 GCCGGCAAACATTTTAGGTTACA 60.305 43.478 24.80 0.00 0.00 2.41
60 61 4.796618 GCCGGCAAACATTTTAGGTTACAA 60.797 41.667 24.80 0.00 0.00 2.41
61 62 5.290386 CCGGCAAACATTTTAGGTTACAAA 58.710 37.500 0.00 0.00 0.00 2.83
62 63 5.929415 CCGGCAAACATTTTAGGTTACAAAT 59.071 36.000 0.00 0.00 0.00 2.32
63 64 6.425417 CCGGCAAACATTTTAGGTTACAAATT 59.575 34.615 0.00 0.00 0.00 1.82
64 65 7.599245 CCGGCAAACATTTTAGGTTACAAATTA 59.401 33.333 0.00 0.00 0.00 1.40
65 66 9.145865 CGGCAAACATTTTAGGTTACAAATTAT 57.854 29.630 0.00 0.00 0.00 1.28
104 105 9.742144 ATTTATGTGGTATTAACAGGTGTACAA 57.258 29.630 0.00 0.00 0.00 2.41
105 106 8.550710 TTATGTGGTATTAACAGGTGTACAAC 57.449 34.615 1.50 1.50 0.00 3.32
106 107 5.926663 TGTGGTATTAACAGGTGTACAACA 58.073 37.500 14.58 0.00 30.63 3.33
107 108 6.354938 TGTGGTATTAACAGGTGTACAACAA 58.645 36.000 14.58 0.00 30.29 2.83
108 109 6.260493 TGTGGTATTAACAGGTGTACAACAAC 59.740 38.462 14.58 1.45 35.64 3.32
110 111 7.656948 GTGGTATTAACAGGTGTACAACAACTA 59.343 37.037 14.58 0.00 45.99 2.24
111 112 7.874016 TGGTATTAACAGGTGTACAACAACTAG 59.126 37.037 14.58 0.00 45.99 2.57
112 113 8.090214 GGTATTAACAGGTGTACAACAACTAGA 58.910 37.037 14.58 0.00 45.99 2.43
113 114 9.649167 GTATTAACAGGTGTACAACAACTAGAT 57.351 33.333 14.58 2.63 45.99 1.98
115 116 9.871238 ATTAACAGGTGTACAACAACTAGATAG 57.129 33.333 14.58 0.00 45.99 2.08
116 117 6.282199 ACAGGTGTACAACAACTAGATAGG 57.718 41.667 14.58 0.00 45.99 2.57
117 118 5.187186 ACAGGTGTACAACAACTAGATAGGG 59.813 44.000 14.58 0.00 45.99 3.53
118 119 4.715297 AGGTGTACAACAACTAGATAGGGG 59.285 45.833 14.58 0.00 45.86 4.79
119 120 4.141779 GGTGTACAACAACTAGATAGGGGG 60.142 50.000 5.89 0.00 31.84 5.40
120 121 4.713321 GTGTACAACAACTAGATAGGGGGA 59.287 45.833 0.00 0.00 0.00 4.81
121 122 4.960469 TGTACAACAACTAGATAGGGGGAG 59.040 45.833 0.00 0.00 0.00 4.30
122 123 4.348020 ACAACAACTAGATAGGGGGAGA 57.652 45.455 0.00 0.00 0.00 3.71
123 124 4.290942 ACAACAACTAGATAGGGGGAGAG 58.709 47.826 0.00 0.00 0.00 3.20
124 125 3.621682 ACAACTAGATAGGGGGAGAGG 57.378 52.381 0.00 0.00 0.00 3.69
125 126 3.140143 ACAACTAGATAGGGGGAGAGGA 58.860 50.000 0.00 0.00 0.00 3.71
126 127 3.536434 ACAACTAGATAGGGGGAGAGGAA 59.464 47.826 0.00 0.00 0.00 3.36
127 128 4.173043 ACAACTAGATAGGGGGAGAGGAAT 59.827 45.833 0.00 0.00 0.00 3.01
128 129 5.378985 ACAACTAGATAGGGGGAGAGGAATA 59.621 44.000 0.00 0.00 0.00 1.75
129 130 5.806955 ACTAGATAGGGGGAGAGGAATAG 57.193 47.826 0.00 0.00 0.00 1.73
130 131 5.435005 ACTAGATAGGGGGAGAGGAATAGA 58.565 45.833 0.00 0.00 0.00 1.98
131 132 4.965283 AGATAGGGGGAGAGGAATAGAG 57.035 50.000 0.00 0.00 0.00 2.43
132 133 4.528354 AGATAGGGGGAGAGGAATAGAGA 58.472 47.826 0.00 0.00 0.00 3.10
133 134 4.544152 AGATAGGGGGAGAGGAATAGAGAG 59.456 50.000 0.00 0.00 0.00 3.20
134 135 1.792651 AGGGGGAGAGGAATAGAGAGG 59.207 57.143 0.00 0.00 0.00 3.69
135 136 1.203250 GGGGGAGAGGAATAGAGAGGG 60.203 61.905 0.00 0.00 0.00 4.30
136 137 1.203250 GGGGAGAGGAATAGAGAGGGG 60.203 61.905 0.00 0.00 0.00 4.79
137 138 1.203250 GGGAGAGGAATAGAGAGGGGG 60.203 61.905 0.00 0.00 0.00 5.40
154 155 3.094498 GGAGGGGGCGGTGGTTAT 61.094 66.667 0.00 0.00 0.00 1.89
155 156 2.686572 GGAGGGGGCGGTGGTTATT 61.687 63.158 0.00 0.00 0.00 1.40
156 157 1.305287 GAGGGGGCGGTGGTTATTT 59.695 57.895 0.00 0.00 0.00 1.40
157 158 0.547553 GAGGGGGCGGTGGTTATTTA 59.452 55.000 0.00 0.00 0.00 1.40
158 159 1.001282 AGGGGGCGGTGGTTATTTAA 58.999 50.000 0.00 0.00 0.00 1.52
159 160 1.105457 GGGGGCGGTGGTTATTTAAC 58.895 55.000 0.00 0.00 35.50 2.01
160 161 1.616456 GGGGGCGGTGGTTATTTAACA 60.616 52.381 3.12 0.00 37.92 2.41
161 162 2.380941 GGGGCGGTGGTTATTTAACAT 58.619 47.619 3.12 0.00 37.92 2.71
162 163 2.100087 GGGGCGGTGGTTATTTAACATG 59.900 50.000 3.12 0.00 37.92 3.21
163 164 2.480587 GGGCGGTGGTTATTTAACATGC 60.481 50.000 0.00 1.32 37.92 4.06
164 165 2.164624 GGCGGTGGTTATTTAACATGCA 59.835 45.455 0.00 0.00 37.92 3.96
165 166 3.181480 GGCGGTGGTTATTTAACATGCAT 60.181 43.478 0.00 0.00 37.92 3.96
166 167 3.796178 GCGGTGGTTATTTAACATGCATG 59.204 43.478 25.09 25.09 37.92 4.06
167 168 4.439426 GCGGTGGTTATTTAACATGCATGA 60.439 41.667 32.75 11.13 37.92 3.07
168 169 5.273170 CGGTGGTTATTTAACATGCATGAG 58.727 41.667 32.75 8.19 37.92 2.90
169 170 5.591099 GGTGGTTATTTAACATGCATGAGG 58.409 41.667 32.75 7.38 37.92 3.86
170 171 5.359576 GGTGGTTATTTAACATGCATGAGGA 59.640 40.000 32.75 14.06 37.92 3.71
171 172 6.040842 GGTGGTTATTTAACATGCATGAGGAT 59.959 38.462 32.75 20.21 37.92 3.24
172 173 7.141363 GTGGTTATTTAACATGCATGAGGATC 58.859 38.462 32.75 13.63 37.92 3.36
173 174 6.832900 TGGTTATTTAACATGCATGAGGATCA 59.167 34.615 32.75 13.62 43.50 2.92
174 175 7.506599 TGGTTATTTAACATGCATGAGGATCAT 59.493 33.333 32.75 17.07 46.88 2.45
175 176 9.013229 GGTTATTTAACATGCATGAGGATCATA 57.987 33.333 32.75 16.17 45.39 2.15
191 192 9.764363 TGAGGATCATAAGTATATGTTTGACAC 57.236 33.333 0.00 0.00 42.56 3.67
192 193 9.764363 GAGGATCATAAGTATATGTTTGACACA 57.236 33.333 0.00 0.00 39.94 3.72
202 203 9.844790 AGTATATGTTTGACACAATTGATGTTG 57.155 29.630 13.59 2.05 41.46 3.33
203 204 9.838975 GTATATGTTTGACACAATTGATGTTGA 57.161 29.630 13.59 3.51 41.46 3.18
205 206 6.884096 TGTTTGACACAATTGATGTTGAAC 57.116 33.333 13.59 17.68 41.46 3.18
206 207 5.809562 TGTTTGACACAATTGATGTTGAACC 59.190 36.000 13.59 4.18 41.46 3.62
207 208 5.588958 TTGACACAATTGATGTTGAACCA 57.411 34.783 13.59 4.34 41.46 3.67
208 209 4.930963 TGACACAATTGATGTTGAACCAC 58.069 39.130 13.59 0.69 41.46 4.16
209 210 4.644234 TGACACAATTGATGTTGAACCACT 59.356 37.500 13.59 0.00 41.46 4.00
210 211 5.825151 TGACACAATTGATGTTGAACCACTA 59.175 36.000 13.59 0.00 41.46 2.74
211 212 6.017192 TGACACAATTGATGTTGAACCACTAG 60.017 38.462 13.59 0.00 41.46 2.57
212 213 6.061441 ACACAATTGATGTTGAACCACTAGA 58.939 36.000 13.59 0.00 41.46 2.43
213 214 6.716628 ACACAATTGATGTTGAACCACTAGAT 59.283 34.615 13.59 0.00 41.46 1.98
214 215 7.231317 ACACAATTGATGTTGAACCACTAGATT 59.769 33.333 13.59 0.00 41.46 2.40
215 216 8.084073 CACAATTGATGTTGAACCACTAGATTT 58.916 33.333 13.59 0.00 41.46 2.17
216 217 8.084073 ACAATTGATGTTGAACCACTAGATTTG 58.916 33.333 13.59 0.00 40.06 2.32
217 218 7.765695 ATTGATGTTGAACCACTAGATTTGT 57.234 32.000 0.00 0.00 0.00 2.83
218 219 8.862325 ATTGATGTTGAACCACTAGATTTGTA 57.138 30.769 0.00 0.00 0.00 2.41
219 220 8.862325 TTGATGTTGAACCACTAGATTTGTAT 57.138 30.769 0.00 0.00 0.00 2.29
220 221 8.267620 TGATGTTGAACCACTAGATTTGTATG 57.732 34.615 0.00 0.00 0.00 2.39
221 222 7.882791 TGATGTTGAACCACTAGATTTGTATGT 59.117 33.333 0.00 0.00 0.00 2.29
222 223 7.667043 TGTTGAACCACTAGATTTGTATGTC 57.333 36.000 0.00 0.00 0.00 3.06
223 224 6.653320 TGTTGAACCACTAGATTTGTATGTCC 59.347 38.462 0.00 0.00 0.00 4.02
224 225 5.416083 TGAACCACTAGATTTGTATGTCCG 58.584 41.667 0.00 0.00 0.00 4.79
225 226 4.402056 ACCACTAGATTTGTATGTCCGG 57.598 45.455 0.00 0.00 0.00 5.14
226 227 3.131396 CCACTAGATTTGTATGTCCGGC 58.869 50.000 0.00 0.00 0.00 6.13
227 228 3.431626 CCACTAGATTTGTATGTCCGGCA 60.432 47.826 0.00 0.00 0.00 5.69
228 229 4.380531 CACTAGATTTGTATGTCCGGCAT 58.619 43.478 14.43 14.43 41.42 4.40
229 230 4.212004 CACTAGATTTGTATGTCCGGCATG 59.788 45.833 18.08 0.00 38.47 4.06
230 231 3.558931 AGATTTGTATGTCCGGCATGA 57.441 42.857 18.08 5.36 38.47 3.07
231 232 4.090761 AGATTTGTATGTCCGGCATGAT 57.909 40.909 18.08 9.00 38.47 2.45
232 233 4.464008 AGATTTGTATGTCCGGCATGATT 58.536 39.130 18.08 0.00 38.47 2.57
233 234 4.276678 AGATTTGTATGTCCGGCATGATTG 59.723 41.667 18.08 0.00 38.47 2.67
234 235 2.998316 TGTATGTCCGGCATGATTGA 57.002 45.000 18.08 0.00 38.47 2.57
235 236 3.490439 TGTATGTCCGGCATGATTGAT 57.510 42.857 18.08 0.00 38.47 2.57
236 237 4.615588 TGTATGTCCGGCATGATTGATA 57.384 40.909 18.08 0.00 38.47 2.15
237 238 5.164620 TGTATGTCCGGCATGATTGATAT 57.835 39.130 18.08 0.00 38.47 1.63
238 239 5.559770 TGTATGTCCGGCATGATTGATATT 58.440 37.500 18.08 0.00 38.47 1.28
239 240 6.003326 TGTATGTCCGGCATGATTGATATTT 58.997 36.000 18.08 0.00 38.47 1.40
240 241 4.834357 TGTCCGGCATGATTGATATTTG 57.166 40.909 0.00 0.00 0.00 2.32
241 242 4.459330 TGTCCGGCATGATTGATATTTGA 58.541 39.130 0.00 0.00 0.00 2.69
242 243 4.886489 TGTCCGGCATGATTGATATTTGAA 59.114 37.500 0.00 0.00 0.00 2.69
243 244 5.215160 GTCCGGCATGATTGATATTTGAAC 58.785 41.667 0.00 0.00 0.00 3.18
244 245 4.278170 TCCGGCATGATTGATATTTGAACC 59.722 41.667 0.00 0.00 0.00 3.62
245 246 4.037803 CCGGCATGATTGATATTTGAACCA 59.962 41.667 0.00 0.00 0.00 3.67
246 247 4.977963 CGGCATGATTGATATTTGAACCAC 59.022 41.667 0.00 0.00 0.00 4.16
247 248 5.221106 CGGCATGATTGATATTTGAACCACT 60.221 40.000 0.00 0.00 0.00 4.00
248 249 6.017192 CGGCATGATTGATATTTGAACCACTA 60.017 38.462 0.00 0.00 0.00 2.74
249 250 7.365741 GGCATGATTGATATTTGAACCACTAG 58.634 38.462 0.00 0.00 0.00 2.57
250 251 7.229306 GGCATGATTGATATTTGAACCACTAGA 59.771 37.037 0.00 0.00 0.00 2.43
251 252 8.623903 GCATGATTGATATTTGAACCACTAGAA 58.376 33.333 0.00 0.00 0.00 2.10
262 263 7.681939 TTGAACCACTAGAATTTGTATGTCC 57.318 36.000 0.00 0.00 0.00 4.02
263 264 5.872617 TGAACCACTAGAATTTGTATGTCCG 59.127 40.000 0.00 0.00 0.00 4.79
264 265 5.670792 ACCACTAGAATTTGTATGTCCGA 57.329 39.130 0.00 0.00 0.00 4.55
265 266 5.416947 ACCACTAGAATTTGTATGTCCGAC 58.583 41.667 0.00 0.00 0.00 4.79
266 267 5.046878 ACCACTAGAATTTGTATGTCCGACA 60.047 40.000 3.10 3.10 0.00 4.35
267 268 6.049149 CCACTAGAATTTGTATGTCCGACAT 58.951 40.000 17.92 17.92 42.35 3.06
268 269 6.018751 CCACTAGAATTTGTATGTCCGACATG 60.019 42.308 22.00 5.62 39.53 3.21
269 270 6.756542 CACTAGAATTTGTATGTCCGACATGA 59.243 38.462 22.00 7.49 39.53 3.07
270 271 7.439356 CACTAGAATTTGTATGTCCGACATGAT 59.561 37.037 22.00 9.22 39.53 2.45
271 272 7.987458 ACTAGAATTTGTATGTCCGACATGATT 59.013 33.333 22.00 15.56 39.53 2.57
272 273 7.630242 AGAATTTGTATGTCCGACATGATTT 57.370 32.000 22.00 11.01 39.53 2.17
273 274 7.475015 AGAATTTGTATGTCCGACATGATTTG 58.525 34.615 22.00 0.00 39.53 2.32
274 275 7.336679 AGAATTTGTATGTCCGACATGATTTGA 59.663 33.333 22.00 0.06 39.53 2.69
275 276 6.809630 TTTGTATGTCCGACATGATTTGAA 57.190 33.333 22.00 7.19 39.53 2.69
276 277 6.421377 TTGTATGTCCGACATGATTTGAAG 57.579 37.500 22.00 0.00 39.53 3.02
277 278 4.332543 TGTATGTCCGACATGATTTGAAGC 59.667 41.667 22.00 4.01 39.53 3.86
278 279 2.777094 TGTCCGACATGATTTGAAGCA 58.223 42.857 0.00 0.00 0.00 3.91
279 280 2.483877 TGTCCGACATGATTTGAAGCAC 59.516 45.455 0.00 0.00 0.00 4.40
280 281 2.744202 GTCCGACATGATTTGAAGCACT 59.256 45.455 0.00 0.00 0.00 4.40
281 282 3.932710 GTCCGACATGATTTGAAGCACTA 59.067 43.478 0.00 0.00 0.00 2.74
282 283 4.033358 GTCCGACATGATTTGAAGCACTAG 59.967 45.833 0.00 0.00 0.00 2.57
283 284 4.081697 TCCGACATGATTTGAAGCACTAGA 60.082 41.667 0.00 0.00 0.00 2.43
284 285 4.631377 CCGACATGATTTGAAGCACTAGAA 59.369 41.667 0.00 0.00 0.00 2.10
285 286 5.295292 CCGACATGATTTGAAGCACTAGAAT 59.705 40.000 0.00 0.00 0.00 2.40
286 287 6.183360 CCGACATGATTTGAAGCACTAGAATT 60.183 38.462 0.00 0.00 0.00 2.17
287 288 7.246311 CGACATGATTTGAAGCACTAGAATTT 58.754 34.615 0.00 0.00 0.00 1.82
288 289 7.217636 CGACATGATTTGAAGCACTAGAATTTG 59.782 37.037 0.00 0.00 0.00 2.32
289 290 7.889469 ACATGATTTGAAGCACTAGAATTTGT 58.111 30.769 0.00 0.00 0.00 2.83
290 291 9.013229 ACATGATTTGAAGCACTAGAATTTGTA 57.987 29.630 0.00 0.00 0.00 2.41
293 294 9.013229 TGATTTGAAGCACTAGAATTTGTATGT 57.987 29.630 0.00 0.00 0.00 2.29
294 295 9.495754 GATTTGAAGCACTAGAATTTGTATGTC 57.504 33.333 0.00 0.00 0.00 3.06
295 296 6.985188 TGAAGCACTAGAATTTGTATGTCC 57.015 37.500 0.00 0.00 0.00 4.02
296 297 6.711277 TGAAGCACTAGAATTTGTATGTCCT 58.289 36.000 0.00 0.00 0.00 3.85
297 298 6.595326 TGAAGCACTAGAATTTGTATGTCCTG 59.405 38.462 0.00 0.00 0.00 3.86
298 299 6.299805 AGCACTAGAATTTGTATGTCCTGA 57.700 37.500 0.00 0.00 0.00 3.86
299 300 6.109359 AGCACTAGAATTTGTATGTCCTGAC 58.891 40.000 0.00 0.00 0.00 3.51
300 301 5.874810 GCACTAGAATTTGTATGTCCTGACA 59.125 40.000 1.93 1.93 46.44 3.58
313 314 5.632244 TGTCCTGACATGATTGATGTTTG 57.368 39.130 0.00 0.00 45.90 2.93
314 315 5.315348 TGTCCTGACATGATTGATGTTTGA 58.685 37.500 0.00 0.00 45.90 2.69
315 316 5.769162 TGTCCTGACATGATTGATGTTTGAA 59.231 36.000 0.00 0.00 45.90 2.69
316 317 6.434965 TGTCCTGACATGATTGATGTTTGAAT 59.565 34.615 0.00 0.00 45.90 2.57
317 318 6.971184 GTCCTGACATGATTGATGTTTGAATC 59.029 38.462 0.00 0.00 45.90 2.52
318 319 6.660094 TCCTGACATGATTGATGTTTGAATCA 59.340 34.615 0.00 0.00 45.90 2.57
319 320 6.750501 CCTGACATGATTGATGTTTGAATCAC 59.249 38.462 0.00 0.00 45.90 3.06
320 321 7.362660 CCTGACATGATTGATGTTTGAATCACT 60.363 37.037 0.00 0.00 45.90 3.41
321 322 8.564509 TGACATGATTGATGTTTGAATCACTA 57.435 30.769 0.00 0.00 45.90 2.74
322 323 8.671028 TGACATGATTGATGTTTGAATCACTAG 58.329 33.333 0.00 0.00 45.90 2.57
323 324 8.797350 ACATGATTGATGTTTGAATCACTAGA 57.203 30.769 0.00 0.00 43.20 2.43
324 325 9.234827 ACATGATTGATGTTTGAATCACTAGAA 57.765 29.630 0.00 0.00 43.20 2.10
334 335 8.956426 TGTTTGAATCACTAGAATTTGTATCCC 58.044 33.333 0.00 0.00 0.00 3.85
335 336 7.786178 TTGAATCACTAGAATTTGTATCCCG 57.214 36.000 0.00 0.00 0.00 5.14
336 337 6.884832 TGAATCACTAGAATTTGTATCCCGT 58.115 36.000 0.00 0.00 0.00 5.28
337 338 7.335627 TGAATCACTAGAATTTGTATCCCGTT 58.664 34.615 0.00 0.00 0.00 4.44
338 339 7.279981 TGAATCACTAGAATTTGTATCCCGTTG 59.720 37.037 0.00 0.00 0.00 4.10
339 340 4.873827 TCACTAGAATTTGTATCCCGTTGC 59.126 41.667 0.00 0.00 0.00 4.17
340 341 4.634004 CACTAGAATTTGTATCCCGTTGCA 59.366 41.667 0.00 0.00 0.00 4.08
341 342 5.123186 CACTAGAATTTGTATCCCGTTGCAA 59.877 40.000 0.00 0.00 0.00 4.08
342 343 4.434713 AGAATTTGTATCCCGTTGCAAC 57.565 40.909 19.89 19.89 0.00 4.17
351 352 4.340019 CGTTGCAACGCATGGGCA 62.340 61.111 35.89 0.00 46.06 5.36
352 353 2.734346 GTTGCAACGCATGGGCAC 60.734 61.111 14.90 0.00 38.76 5.01
353 354 2.911509 TTGCAACGCATGGGCACT 60.912 55.556 10.10 0.00 38.76 4.40
354 355 2.497173 TTGCAACGCATGGGCACTT 61.497 52.632 10.10 0.00 38.76 3.16
355 356 1.175347 TTGCAACGCATGGGCACTTA 61.175 50.000 10.10 0.00 38.76 2.24
356 357 1.137404 GCAACGCATGGGCACTTAG 59.863 57.895 10.10 0.00 41.24 2.18
357 358 1.137404 CAACGCATGGGCACTTAGC 59.863 57.895 10.10 0.00 41.24 3.09
358 359 1.002134 AACGCATGGGCACTTAGCT 60.002 52.632 10.10 0.00 44.79 3.32
359 360 0.251916 AACGCATGGGCACTTAGCTA 59.748 50.000 10.10 0.00 44.79 3.32
2281 2379 7.410120 TGTGAGATCTAAGCTCAATAGTTCA 57.590 36.000 0.00 0.00 43.39 3.18
3678 3826 2.287644 GGTGCAATTTGTTTCCTGCAAC 59.712 45.455 0.00 0.00 45.71 4.17
3862 4013 4.202295 TGTTGCACAACTTCTCTGATCTCT 60.202 41.667 14.16 0.00 41.67 3.10
4664 4942 1.206849 CCTTGCAACCACAAACCTTGT 59.793 47.619 0.00 0.00 46.75 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 2.025981 ACTGCAGCTATTCCATGTTGGA 60.026 45.455 15.27 0.00 46.61 3.53
12 13 2.372264 ACTGCAGCTATTCCATGTTGG 58.628 47.619 15.27 0.00 39.43 3.77
13 14 3.428452 CCAACTGCAGCTATTCCATGTTG 60.428 47.826 15.27 7.37 34.96 3.33
14 15 2.756760 CCAACTGCAGCTATTCCATGTT 59.243 45.455 15.27 0.00 0.00 2.71
15 16 2.291153 ACCAACTGCAGCTATTCCATGT 60.291 45.455 15.27 0.00 0.00 3.21
16 17 2.098607 CACCAACTGCAGCTATTCCATG 59.901 50.000 15.27 0.00 0.00 3.66
17 18 2.372264 CACCAACTGCAGCTATTCCAT 58.628 47.619 15.27 0.00 0.00 3.41
18 19 1.825090 CACCAACTGCAGCTATTCCA 58.175 50.000 15.27 0.00 0.00 3.53
19 20 0.453390 GCACCAACTGCAGCTATTCC 59.547 55.000 15.27 0.00 46.29 3.01
28 29 3.910490 TTTGCCGGCACCAACTGC 61.910 61.111 32.95 0.00 46.31 4.40
29 30 2.027460 GTTTGCCGGCACCAACTG 59.973 61.111 32.95 0.00 0.00 3.16
30 31 1.398958 AATGTTTGCCGGCACCAACT 61.399 50.000 32.90 20.99 0.00 3.16
31 32 0.531753 AAATGTTTGCCGGCACCAAC 60.532 50.000 32.95 30.56 0.00 3.77
32 33 0.179000 AAAATGTTTGCCGGCACCAA 59.821 45.000 32.95 20.28 0.00 3.67
33 34 1.000283 CTAAAATGTTTGCCGGCACCA 60.000 47.619 32.95 28.43 0.00 4.17
34 35 1.671556 CCTAAAATGTTTGCCGGCACC 60.672 52.381 32.95 23.36 0.00 5.01
35 36 1.000394 ACCTAAAATGTTTGCCGGCAC 60.000 47.619 32.95 20.33 0.00 5.01
36 37 1.333177 ACCTAAAATGTTTGCCGGCA 58.667 45.000 29.03 29.03 0.00 5.69
37 38 2.448926 AACCTAAAATGTTTGCCGGC 57.551 45.000 22.73 22.73 0.00 6.13
38 39 4.506886 TGTAACCTAAAATGTTTGCCGG 57.493 40.909 0.00 0.00 0.00 6.13
39 40 7.414814 AATTTGTAACCTAAAATGTTTGCCG 57.585 32.000 0.00 0.00 0.00 5.69
78 79 9.742144 TTGTACACCTGTTAATACCACATAAAT 57.258 29.630 0.00 0.00 0.00 1.40
79 80 9.001542 GTTGTACACCTGTTAATACCACATAAA 57.998 33.333 0.00 0.00 0.00 1.40
80 81 8.155510 TGTTGTACACCTGTTAATACCACATAA 58.844 33.333 0.00 0.00 0.00 1.90
81 82 7.677892 TGTTGTACACCTGTTAATACCACATA 58.322 34.615 0.00 0.00 0.00 2.29
82 83 6.535540 TGTTGTACACCTGTTAATACCACAT 58.464 36.000 0.00 0.00 0.00 3.21
83 84 5.926663 TGTTGTACACCTGTTAATACCACA 58.073 37.500 0.00 0.00 0.00 4.17
84 85 6.484308 AGTTGTTGTACACCTGTTAATACCAC 59.516 38.462 0.00 0.00 0.00 4.16
85 86 6.593807 AGTTGTTGTACACCTGTTAATACCA 58.406 36.000 0.00 0.00 0.00 3.25
86 87 8.090214 TCTAGTTGTTGTACACCTGTTAATACC 58.910 37.037 0.00 0.00 0.00 2.73
87 88 9.649167 ATCTAGTTGTTGTACACCTGTTAATAC 57.351 33.333 0.00 0.00 0.00 1.89
89 90 9.871238 CTATCTAGTTGTTGTACACCTGTTAAT 57.129 33.333 0.00 0.00 0.00 1.40
90 91 8.308931 CCTATCTAGTTGTTGTACACCTGTTAA 58.691 37.037 0.00 0.00 0.00 2.01
91 92 7.093640 CCCTATCTAGTTGTTGTACACCTGTTA 60.094 40.741 0.00 0.00 0.00 2.41
92 93 6.295688 CCCTATCTAGTTGTTGTACACCTGTT 60.296 42.308 0.00 0.00 0.00 3.16
93 94 5.187186 CCCTATCTAGTTGTTGTACACCTGT 59.813 44.000 0.00 0.00 0.00 4.00
94 95 5.395324 CCCCTATCTAGTTGTTGTACACCTG 60.395 48.000 0.00 0.00 0.00 4.00
95 96 4.715297 CCCCTATCTAGTTGTTGTACACCT 59.285 45.833 0.00 0.00 0.00 4.00
96 97 4.141779 CCCCCTATCTAGTTGTTGTACACC 60.142 50.000 0.00 0.00 0.00 4.16
97 98 4.713321 TCCCCCTATCTAGTTGTTGTACAC 59.287 45.833 0.00 0.00 0.00 2.90
98 99 4.950361 TCCCCCTATCTAGTTGTTGTACA 58.050 43.478 0.00 0.00 0.00 2.90
99 100 5.206587 TCTCCCCCTATCTAGTTGTTGTAC 58.793 45.833 0.00 0.00 0.00 2.90
100 101 5.455872 CTCTCCCCCTATCTAGTTGTTGTA 58.544 45.833 0.00 0.00 0.00 2.41
101 102 4.290942 CTCTCCCCCTATCTAGTTGTTGT 58.709 47.826 0.00 0.00 0.00 3.32
102 103 3.643792 CCTCTCCCCCTATCTAGTTGTTG 59.356 52.174 0.00 0.00 0.00 3.33
103 104 3.536434 TCCTCTCCCCCTATCTAGTTGTT 59.464 47.826 0.00 0.00 0.00 2.83
104 105 3.140143 TCCTCTCCCCCTATCTAGTTGT 58.860 50.000 0.00 0.00 0.00 3.32
105 106 3.905493 TCCTCTCCCCCTATCTAGTTG 57.095 52.381 0.00 0.00 0.00 3.16
106 107 5.864070 TCTATTCCTCTCCCCCTATCTAGTT 59.136 44.000 0.00 0.00 0.00 2.24
107 108 5.435005 TCTATTCCTCTCCCCCTATCTAGT 58.565 45.833 0.00 0.00 0.00 2.57
108 109 5.734140 TCTCTATTCCTCTCCCCCTATCTAG 59.266 48.000 0.00 0.00 0.00 2.43
109 110 5.687727 TCTCTATTCCTCTCCCCCTATCTA 58.312 45.833 0.00 0.00 0.00 1.98
110 111 4.528354 TCTCTATTCCTCTCCCCCTATCT 58.472 47.826 0.00 0.00 0.00 1.98
111 112 4.325816 CCTCTCTATTCCTCTCCCCCTATC 60.326 54.167 0.00 0.00 0.00 2.08
112 113 3.600617 CCTCTCTATTCCTCTCCCCCTAT 59.399 52.174 0.00 0.00 0.00 2.57
113 114 2.997463 CCTCTCTATTCCTCTCCCCCTA 59.003 54.545 0.00 0.00 0.00 3.53
114 115 1.792651 CCTCTCTATTCCTCTCCCCCT 59.207 57.143 0.00 0.00 0.00 4.79
115 116 1.203250 CCCTCTCTATTCCTCTCCCCC 60.203 61.905 0.00 0.00 0.00 5.40
116 117 1.203250 CCCCTCTCTATTCCTCTCCCC 60.203 61.905 0.00 0.00 0.00 4.81
117 118 1.203250 CCCCCTCTCTATTCCTCTCCC 60.203 61.905 0.00 0.00 0.00 4.30
118 119 2.319025 CCCCCTCTCTATTCCTCTCC 57.681 60.000 0.00 0.00 0.00 3.71
137 138 2.219449 AAATAACCACCGCCCCCTCC 62.219 60.000 0.00 0.00 0.00 4.30
138 139 0.547553 TAAATAACCACCGCCCCCTC 59.452 55.000 0.00 0.00 0.00 4.30
139 140 1.001282 TTAAATAACCACCGCCCCCT 58.999 50.000 0.00 0.00 0.00 4.79
140 141 1.105457 GTTAAATAACCACCGCCCCC 58.895 55.000 0.00 0.00 0.00 5.40
141 142 1.836802 TGTTAAATAACCACCGCCCC 58.163 50.000 1.13 0.00 35.37 5.80
142 143 2.480587 GCATGTTAAATAACCACCGCCC 60.481 50.000 0.00 0.00 35.37 6.13
143 144 2.164624 TGCATGTTAAATAACCACCGCC 59.835 45.455 0.00 0.00 35.37 6.13
144 145 3.495670 TGCATGTTAAATAACCACCGC 57.504 42.857 0.00 0.25 35.37 5.68
145 146 5.242069 TCATGCATGTTAAATAACCACCG 57.758 39.130 25.43 0.00 35.37 4.94
146 147 5.359576 TCCTCATGCATGTTAAATAACCACC 59.640 40.000 25.43 0.00 35.37 4.61
147 148 6.449635 TCCTCATGCATGTTAAATAACCAC 57.550 37.500 25.43 0.00 35.37 4.16
148 149 6.832900 TGATCCTCATGCATGTTAAATAACCA 59.167 34.615 25.43 10.58 35.37 3.67
149 150 7.275888 TGATCCTCATGCATGTTAAATAACC 57.724 36.000 25.43 8.42 35.37 2.85
152 153 9.797642 ACTTATGATCCTCATGCATGTTAAATA 57.202 29.630 25.43 13.82 37.70 1.40
153 154 8.701908 ACTTATGATCCTCATGCATGTTAAAT 57.298 30.769 25.43 14.70 37.70 1.40
154 155 9.797642 ATACTTATGATCCTCATGCATGTTAAA 57.202 29.630 25.43 10.79 37.70 1.52
157 158 9.392259 CATATACTTATGATCCTCATGCATGTT 57.608 33.333 25.43 9.84 37.70 2.71
158 159 8.546322 ACATATACTTATGATCCTCATGCATGT 58.454 33.333 25.43 6.92 37.70 3.21
159 160 8.959705 ACATATACTTATGATCCTCATGCATG 57.040 34.615 21.07 21.07 37.70 4.06
160 161 9.970553 AAACATATACTTATGATCCTCATGCAT 57.029 29.630 0.00 0.00 37.70 3.96
161 162 9.223099 CAAACATATACTTATGATCCTCATGCA 57.777 33.333 0.00 0.00 37.70 3.96
162 163 9.440773 TCAAACATATACTTATGATCCTCATGC 57.559 33.333 0.00 0.00 37.70 4.06
165 166 9.764363 GTGTCAAACATATACTTATGATCCTCA 57.236 33.333 0.25 0.00 37.94 3.86
166 167 9.764363 TGTGTCAAACATATACTTATGATCCTC 57.236 33.333 0.25 0.00 37.94 3.71
176 177 9.844790 CAACATCAATTGTGTCAAACATATACT 57.155 29.630 5.13 0.00 38.99 2.12
177 178 9.838975 TCAACATCAATTGTGTCAAACATATAC 57.161 29.630 5.13 0.00 38.99 1.47
179 180 9.195411 GTTCAACATCAATTGTGTCAAACATAT 57.805 29.630 19.48 1.07 38.99 1.78
180 181 7.651304 GGTTCAACATCAATTGTGTCAAACATA 59.349 33.333 22.21 1.94 38.99 2.29
181 182 6.479660 GGTTCAACATCAATTGTGTCAAACAT 59.520 34.615 22.21 4.60 38.99 2.71
182 183 5.809562 GGTTCAACATCAATTGTGTCAAACA 59.190 36.000 22.21 2.97 38.99 2.83
183 184 5.809562 TGGTTCAACATCAATTGTGTCAAAC 59.190 36.000 5.13 14.20 38.99 2.93
184 185 5.809562 GTGGTTCAACATCAATTGTGTCAAA 59.190 36.000 5.13 5.13 38.99 2.69
185 186 5.126869 AGTGGTTCAACATCAATTGTGTCAA 59.873 36.000 5.13 4.04 38.99 3.18
186 187 4.644234 AGTGGTTCAACATCAATTGTGTCA 59.356 37.500 5.13 1.40 38.99 3.58
187 188 5.186996 AGTGGTTCAACATCAATTGTGTC 57.813 39.130 5.13 0.00 38.99 3.67
188 189 6.061441 TCTAGTGGTTCAACATCAATTGTGT 58.939 36.000 5.13 6.59 38.99 3.72
189 190 6.558771 TCTAGTGGTTCAACATCAATTGTG 57.441 37.500 5.13 5.96 38.99 3.33
190 191 7.765695 AATCTAGTGGTTCAACATCAATTGT 57.234 32.000 5.13 0.00 41.53 2.71
191 192 8.084073 ACAAATCTAGTGGTTCAACATCAATTG 58.916 33.333 0.00 0.00 0.00 2.32
192 193 8.181904 ACAAATCTAGTGGTTCAACATCAATT 57.818 30.769 0.00 0.00 0.00 2.32
193 194 7.765695 ACAAATCTAGTGGTTCAACATCAAT 57.234 32.000 0.00 0.00 0.00 2.57
194 195 8.729756 CATACAAATCTAGTGGTTCAACATCAA 58.270 33.333 0.00 0.00 0.00 2.57
195 196 7.882791 ACATACAAATCTAGTGGTTCAACATCA 59.117 33.333 0.00 0.00 0.00 3.07
196 197 8.268850 ACATACAAATCTAGTGGTTCAACATC 57.731 34.615 0.00 0.00 0.00 3.06
197 198 7.336931 GGACATACAAATCTAGTGGTTCAACAT 59.663 37.037 0.00 0.00 0.00 2.71
198 199 6.653320 GGACATACAAATCTAGTGGTTCAACA 59.347 38.462 0.00 0.00 0.00 3.33
199 200 6.183360 CGGACATACAAATCTAGTGGTTCAAC 60.183 42.308 0.00 0.00 0.00 3.18
200 201 5.872617 CGGACATACAAATCTAGTGGTTCAA 59.127 40.000 0.00 0.00 0.00 2.69
201 202 5.416083 CGGACATACAAATCTAGTGGTTCA 58.584 41.667 0.00 0.00 0.00 3.18
202 203 4.809426 CCGGACATACAAATCTAGTGGTTC 59.191 45.833 0.00 0.00 0.00 3.62
203 204 4.766375 CCGGACATACAAATCTAGTGGTT 58.234 43.478 0.00 0.00 0.00 3.67
204 205 3.431766 GCCGGACATACAAATCTAGTGGT 60.432 47.826 5.05 0.00 0.00 4.16
205 206 3.131396 GCCGGACATACAAATCTAGTGG 58.869 50.000 5.05 0.00 0.00 4.00
206 207 3.792401 TGCCGGACATACAAATCTAGTG 58.208 45.455 5.05 0.00 0.00 2.74
207 208 4.100963 TCATGCCGGACATACAAATCTAGT 59.899 41.667 5.05 0.00 36.64 2.57
208 209 4.631131 TCATGCCGGACATACAAATCTAG 58.369 43.478 5.05 0.00 36.64 2.43
209 210 4.681074 TCATGCCGGACATACAAATCTA 57.319 40.909 5.05 0.00 36.64 1.98
210 211 3.558931 TCATGCCGGACATACAAATCT 57.441 42.857 5.05 0.00 36.64 2.40
211 212 4.275689 TCAATCATGCCGGACATACAAATC 59.724 41.667 5.05 0.00 36.64 2.17
212 213 4.206375 TCAATCATGCCGGACATACAAAT 58.794 39.130 5.05 0.00 36.64 2.32
213 214 3.615155 TCAATCATGCCGGACATACAAA 58.385 40.909 5.05 0.00 36.64 2.83
214 215 3.274095 TCAATCATGCCGGACATACAA 57.726 42.857 5.05 0.00 36.64 2.41
215 216 2.998316 TCAATCATGCCGGACATACA 57.002 45.000 5.05 0.00 36.64 2.29
216 217 6.149308 TCAAATATCAATCATGCCGGACATAC 59.851 38.462 5.05 0.00 36.64 2.39
217 218 6.237154 TCAAATATCAATCATGCCGGACATA 58.763 36.000 5.05 0.00 36.64 2.29
218 219 5.072055 TCAAATATCAATCATGCCGGACAT 58.928 37.500 5.05 5.44 40.66 3.06
219 220 4.459330 TCAAATATCAATCATGCCGGACA 58.541 39.130 5.05 2.56 0.00 4.02
220 221 5.215160 GTTCAAATATCAATCATGCCGGAC 58.785 41.667 5.05 0.00 0.00 4.79
221 222 4.278170 GGTTCAAATATCAATCATGCCGGA 59.722 41.667 5.05 0.00 0.00 5.14
222 223 4.037803 TGGTTCAAATATCAATCATGCCGG 59.962 41.667 0.00 0.00 0.00 6.13
223 224 4.977963 GTGGTTCAAATATCAATCATGCCG 59.022 41.667 0.00 0.00 0.00 5.69
224 225 6.152932 AGTGGTTCAAATATCAATCATGCC 57.847 37.500 0.00 0.00 0.00 4.40
225 226 8.158169 TCTAGTGGTTCAAATATCAATCATGC 57.842 34.615 0.00 0.00 0.00 4.06
236 237 8.739972 GGACATACAAATTCTAGTGGTTCAAAT 58.260 33.333 0.00 0.00 0.00 2.32
237 238 7.094975 CGGACATACAAATTCTAGTGGTTCAAA 60.095 37.037 0.00 0.00 0.00 2.69
238 239 6.370442 CGGACATACAAATTCTAGTGGTTCAA 59.630 38.462 0.00 0.00 0.00 2.69
239 240 5.872617 CGGACATACAAATTCTAGTGGTTCA 59.127 40.000 0.00 0.00 0.00 3.18
240 241 6.035758 GTCGGACATACAAATTCTAGTGGTTC 59.964 42.308 2.62 0.00 0.00 3.62
241 242 5.873164 GTCGGACATACAAATTCTAGTGGTT 59.127 40.000 2.62 0.00 0.00 3.67
242 243 5.046878 TGTCGGACATACAAATTCTAGTGGT 60.047 40.000 6.76 0.00 0.00 4.16
243 244 5.416083 TGTCGGACATACAAATTCTAGTGG 58.584 41.667 6.76 0.00 0.00 4.00
244 245 6.756542 TCATGTCGGACATACAAATTCTAGTG 59.243 38.462 22.26 8.06 36.53 2.74
245 246 6.873997 TCATGTCGGACATACAAATTCTAGT 58.126 36.000 22.26 0.00 36.53 2.57
246 247 7.953158 ATCATGTCGGACATACAAATTCTAG 57.047 36.000 22.26 7.27 36.53 2.43
247 248 8.611757 CAAATCATGTCGGACATACAAATTCTA 58.388 33.333 22.26 2.07 36.53 2.10
248 249 7.336679 TCAAATCATGTCGGACATACAAATTCT 59.663 33.333 22.26 8.82 36.53 2.40
249 250 7.471721 TCAAATCATGTCGGACATACAAATTC 58.528 34.615 22.26 0.00 36.53 2.17
250 251 7.389803 TCAAATCATGTCGGACATACAAATT 57.610 32.000 22.26 15.66 36.53 1.82
251 252 7.389803 TTCAAATCATGTCGGACATACAAAT 57.610 32.000 22.26 11.29 36.53 2.32
252 253 6.622679 GCTTCAAATCATGTCGGACATACAAA 60.623 38.462 22.26 9.62 36.53 2.83
253 254 5.163764 GCTTCAAATCATGTCGGACATACAA 60.164 40.000 22.26 11.90 36.53 2.41
254 255 4.332543 GCTTCAAATCATGTCGGACATACA 59.667 41.667 22.26 12.88 36.53 2.29
255 256 4.332543 TGCTTCAAATCATGTCGGACATAC 59.667 41.667 22.26 5.61 36.53 2.39
256 257 4.332543 GTGCTTCAAATCATGTCGGACATA 59.667 41.667 22.26 11.86 36.53 2.29
257 258 3.127548 GTGCTTCAAATCATGTCGGACAT 59.872 43.478 17.62 17.62 39.91 3.06
258 259 2.483877 GTGCTTCAAATCATGTCGGACA 59.516 45.455 14.01 14.01 0.00 4.02
259 260 2.744202 AGTGCTTCAAATCATGTCGGAC 59.256 45.455 0.00 0.00 0.00 4.79
260 261 3.057969 AGTGCTTCAAATCATGTCGGA 57.942 42.857 0.00 0.00 0.00 4.55
261 262 4.183865 TCTAGTGCTTCAAATCATGTCGG 58.816 43.478 0.00 0.00 0.00 4.79
262 263 5.784750 TTCTAGTGCTTCAAATCATGTCG 57.215 39.130 0.00 0.00 0.00 4.35
263 264 8.025445 ACAAATTCTAGTGCTTCAAATCATGTC 58.975 33.333 0.00 0.00 0.00 3.06
264 265 7.889469 ACAAATTCTAGTGCTTCAAATCATGT 58.111 30.769 0.00 0.00 0.00 3.21
267 268 9.013229 ACATACAAATTCTAGTGCTTCAAATCA 57.987 29.630 0.00 0.00 0.00 2.57
268 269 9.495754 GACATACAAATTCTAGTGCTTCAAATC 57.504 33.333 0.00 0.00 0.00 2.17
269 270 8.462016 GGACATACAAATTCTAGTGCTTCAAAT 58.538 33.333 0.00 0.00 0.00 2.32
270 271 7.665559 AGGACATACAAATTCTAGTGCTTCAAA 59.334 33.333 0.00 0.00 0.00 2.69
271 272 7.119699 CAGGACATACAAATTCTAGTGCTTCAA 59.880 37.037 0.00 0.00 0.00 2.69
272 273 6.595326 CAGGACATACAAATTCTAGTGCTTCA 59.405 38.462 0.00 0.00 0.00 3.02
273 274 6.818644 TCAGGACATACAAATTCTAGTGCTTC 59.181 38.462 0.00 0.00 0.00 3.86
274 275 6.595716 GTCAGGACATACAAATTCTAGTGCTT 59.404 38.462 0.00 0.00 0.00 3.91
275 276 6.109359 GTCAGGACATACAAATTCTAGTGCT 58.891 40.000 0.00 0.00 0.00 4.40
276 277 5.874810 TGTCAGGACATACAAATTCTAGTGC 59.125 40.000 0.00 0.00 36.21 4.40
291 292 5.315348 TCAAACATCAATCATGTCAGGACA 58.685 37.500 4.37 4.37 45.77 4.02
292 293 5.885230 TCAAACATCAATCATGTCAGGAC 57.115 39.130 0.00 0.00 45.77 3.85
293 294 6.660094 TGATTCAAACATCAATCATGTCAGGA 59.340 34.615 0.00 0.00 45.77 3.86
294 295 6.750501 GTGATTCAAACATCAATCATGTCAGG 59.249 38.462 0.00 0.00 45.77 3.86
295 296 7.535997 AGTGATTCAAACATCAATCATGTCAG 58.464 34.615 0.00 0.00 45.77 3.51
296 297 7.457024 AGTGATTCAAACATCAATCATGTCA 57.543 32.000 0.00 0.00 45.77 3.58
297 298 8.886719 TCTAGTGATTCAAACATCAATCATGTC 58.113 33.333 0.00 0.00 45.77 3.06
308 309 8.956426 GGGATACAAATTCTAGTGATTCAAACA 58.044 33.333 0.00 0.00 39.74 2.83
309 310 8.122952 CGGGATACAAATTCTAGTGATTCAAAC 58.877 37.037 0.00 0.00 39.74 2.93
310 311 7.827236 ACGGGATACAAATTCTAGTGATTCAAA 59.173 33.333 0.00 0.00 39.74 2.69
311 312 7.335627 ACGGGATACAAATTCTAGTGATTCAA 58.664 34.615 0.00 0.00 39.74 2.69
312 313 6.884832 ACGGGATACAAATTCTAGTGATTCA 58.115 36.000 0.00 0.00 39.74 2.57
313 314 7.630924 CAACGGGATACAAATTCTAGTGATTC 58.369 38.462 0.00 0.00 39.74 2.52
314 315 6.038271 GCAACGGGATACAAATTCTAGTGATT 59.962 38.462 0.00 0.00 39.74 2.57
315 316 5.527582 GCAACGGGATACAAATTCTAGTGAT 59.472 40.000 0.00 0.00 39.74 3.06
316 317 4.873827 GCAACGGGATACAAATTCTAGTGA 59.126 41.667 0.00 0.00 39.74 3.41
317 318 4.634004 TGCAACGGGATACAAATTCTAGTG 59.366 41.667 0.00 0.00 39.74 2.74
318 319 4.839121 TGCAACGGGATACAAATTCTAGT 58.161 39.130 0.00 0.00 39.74 2.57
319 320 5.569413 GTTGCAACGGGATACAAATTCTAG 58.431 41.667 14.90 0.00 39.74 2.43
320 321 5.554822 GTTGCAACGGGATACAAATTCTA 57.445 39.130 14.90 0.00 39.74 2.10
321 322 4.434713 GTTGCAACGGGATACAAATTCT 57.565 40.909 14.90 0.00 39.74 2.40
335 336 2.697992 AAGTGCCCATGCGTTGCAAC 62.698 55.000 19.89 19.89 43.62 4.17
336 337 1.175347 TAAGTGCCCATGCGTTGCAA 61.175 50.000 0.00 0.00 43.62 4.08
337 338 1.585267 CTAAGTGCCCATGCGTTGCA 61.585 55.000 0.00 0.00 44.86 4.08
338 339 1.137404 CTAAGTGCCCATGCGTTGC 59.863 57.895 0.00 0.00 41.78 4.17
339 340 1.137404 GCTAAGTGCCCATGCGTTG 59.863 57.895 0.00 0.00 41.78 4.10
340 341 0.251916 TAGCTAAGTGCCCATGCGTT 59.748 50.000 0.00 0.00 44.23 4.84
341 342 0.179073 CTAGCTAAGTGCCCATGCGT 60.179 55.000 0.00 0.00 44.23 5.24
342 343 0.179073 ACTAGCTAAGTGCCCATGCG 60.179 55.000 0.00 0.00 44.23 4.73
343 344 2.910688 TACTAGCTAAGTGCCCATGC 57.089 50.000 0.00 0.00 44.23 4.06
1405 1433 4.093952 GCGGACGACGTCGAGGAA 62.094 66.667 41.52 0.00 46.52 3.36
2281 2379 1.620822 GATTGCCTCCCAAGTTGTGT 58.379 50.000 1.45 0.00 36.76 3.72
2800 2935 6.241207 TCACAGAACAATAAGCTAAACTGC 57.759 37.500 0.00 0.00 0.00 4.40
3862 4013 4.038763 ACACCGACTGAACAAATCTACTGA 59.961 41.667 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.