Multiple sequence alignment - TraesCS3A01G432700

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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 TraesCS3A01G432700 chr3A 100.000 2261 0 0 1 2261 674026514 674024254 0.000000e+00 4176
1 TraesCS3A01G432700 chr3A 89.616 886 72 13 875 1748 674061299 674060422 0.000000e+00 1109
2 TraesCS3A01G432700 chr3A 93.893 524 30 2 1739 2261 487396505 487395983 0.000000e+00 789
3 TraesCS3A01G432700 chr3A 78.517 1308 140 75 499 1732 673923927 673922687 0.000000e+00 728
4 TraesCS3A01G432700 chr3A 91.629 442 31 3 387 828 674061737 674061302 6.910000e-170 606
5 TraesCS3A01G432700 chr3D 90.536 1585 105 23 195 1748 538688230 538686660 0.000000e+00 2054
6 TraesCS3A01G432700 chr3D 90.279 1039 79 13 718 1748 538699825 538698801 0.000000e+00 1339
7 TraesCS3A01G432700 chr3D 78.417 1339 160 72 434 1726 538516249 538514994 0.000000e+00 752
8 TraesCS3A01G432700 chr3D 82.654 761 99 22 875 1613 538574187 538573438 0.000000e+00 643
9 TraesCS3A01G432700 chr3D 80.742 431 53 22 268 694 538700221 538699817 2.180000e-80 309
10 TraesCS3A01G432700 chr3B 92.085 1453 84 14 313 1748 713969446 713968008 0.000000e+00 2017
11 TraesCS3A01G432700 chr3B 88.853 1247 80 18 313 1546 713988852 713987652 0.000000e+00 1478
12 TraesCS3A01G432700 chr3B 77.696 1354 171 67 434 1732 713392472 713391195 0.000000e+00 706
13 TraesCS3A01G432700 chr7D 94.084 524 29 2 1739 2261 185837439 185836917 0.000000e+00 795
14 TraesCS3A01G432700 chr7D 93.893 524 30 2 1739 2261 588894532 588894010 0.000000e+00 789
15 TraesCS3A01G432700 chr5D 94.084 524 29 2 1739 2261 279207848 279207326 0.000000e+00 795
16 TraesCS3A01G432700 chr5D 94.084 524 28 3 1739 2261 229953658 229954179 0.000000e+00 793
17 TraesCS3A01G432700 chr5D 93.702 524 31 2 1739 2261 307503239 307503761 0.000000e+00 784
18 TraesCS3A01G432700 chr7A 93.893 524 30 2 1739 2261 258459718 258460240 0.000000e+00 789
19 TraesCS3A01G432700 chr2D 93.702 524 30 3 1739 2261 477860540 477860019 0.000000e+00 782
20 TraesCS3A01G432700 chr4D 93.524 525 32 2 1738 2261 264426878 264426355 0.000000e+00 780


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 TraesCS3A01G432700 chr3A 674024254 674026514 2260 True 4176.0 4176 100.0000 1 2261 1 chr3A.!!$R3 2260
1 TraesCS3A01G432700 chr3A 674060422 674061737 1315 True 857.5 1109 90.6225 387 1748 2 chr3A.!!$R4 1361
2 TraesCS3A01G432700 chr3A 487395983 487396505 522 True 789.0 789 93.8930 1739 2261 1 chr3A.!!$R1 522
3 TraesCS3A01G432700 chr3A 673922687 673923927 1240 True 728.0 728 78.5170 499 1732 1 chr3A.!!$R2 1233
4 TraesCS3A01G432700 chr3D 538686660 538688230 1570 True 2054.0 2054 90.5360 195 1748 1 chr3D.!!$R3 1553
5 TraesCS3A01G432700 chr3D 538698801 538700221 1420 True 824.0 1339 85.5105 268 1748 2 chr3D.!!$R4 1480
6 TraesCS3A01G432700 chr3D 538514994 538516249 1255 True 752.0 752 78.4170 434 1726 1 chr3D.!!$R1 1292
7 TraesCS3A01G432700 chr3D 538573438 538574187 749 True 643.0 643 82.6540 875 1613 1 chr3D.!!$R2 738
8 TraesCS3A01G432700 chr3B 713968008 713969446 1438 True 2017.0 2017 92.0850 313 1748 1 chr3B.!!$R2 1435
9 TraesCS3A01G432700 chr3B 713987652 713988852 1200 True 1478.0 1478 88.8530 313 1546 1 chr3B.!!$R3 1233
10 TraesCS3A01G432700 chr3B 713391195 713392472 1277 True 706.0 706 77.6960 434 1732 1 chr3B.!!$R1 1298
11 TraesCS3A01G432700 chr7D 185836917 185837439 522 True 795.0 795 94.0840 1739 2261 1 chr7D.!!$R1 522
12 TraesCS3A01G432700 chr7D 588894010 588894532 522 True 789.0 789 93.8930 1739 2261 1 chr7D.!!$R2 522
13 TraesCS3A01G432700 chr5D 279207326 279207848 522 True 795.0 795 94.0840 1739 2261 1 chr5D.!!$R1 522
14 TraesCS3A01G432700 chr5D 229953658 229954179 521 False 793.0 793 94.0840 1739 2261 1 chr5D.!!$F1 522
15 TraesCS3A01G432700 chr5D 307503239 307503761 522 False 784.0 784 93.7020 1739 2261 1 chr5D.!!$F2 522
16 TraesCS3A01G432700 chr7A 258459718 258460240 522 False 789.0 789 93.8930 1739 2261 1 chr7A.!!$F1 522
17 TraesCS3A01G432700 chr2D 477860019 477860540 521 True 782.0 782 93.7020 1739 2261 1 chr2D.!!$R1 522
18 TraesCS3A01G432700 chr4D 264426355 264426878 523 True 780.0 780 93.5240 1738 2261 1 chr4D.!!$R1 523

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
706 757 0.320374 CACCTCCTCGTGCCACTTTA 59.68 55.0 0.0 0.0 0.0 1.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2104 2278 0.677731 CATGCACAACCCCGATGACT 60.678 55.0 0.0 0.0 0.0 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
23 24 5.755813 CGTCCATTGATTGATTGATTCTCC 58.244 41.667 0.00 0.00 0.00 3.71
24 25 5.297527 CGTCCATTGATTGATTGATTCTCCA 59.702 40.000 0.00 0.00 0.00 3.86
25 26 6.016527 CGTCCATTGATTGATTGATTCTCCAT 60.017 38.462 0.00 0.00 0.00 3.41
26 27 7.368833 GTCCATTGATTGATTGATTCTCCATC 58.631 38.462 0.00 0.00 0.00 3.51
27 28 6.492429 TCCATTGATTGATTGATTCTCCATCC 59.508 38.462 0.00 0.00 0.00 3.51
28 29 6.379386 CATTGATTGATTGATTCTCCATCCG 58.621 40.000 0.00 0.00 0.00 4.18
29 30 5.039920 TGATTGATTGATTCTCCATCCGT 57.960 39.130 0.00 0.00 0.00 4.69
30 31 6.173427 TGATTGATTGATTCTCCATCCGTA 57.827 37.500 0.00 0.00 0.00 4.02
31 32 6.772605 TGATTGATTGATTCTCCATCCGTAT 58.227 36.000 0.00 0.00 0.00 3.06
32 33 6.875726 TGATTGATTGATTCTCCATCCGTATC 59.124 38.462 0.00 0.00 0.00 2.24
33 34 5.806654 TGATTGATTCTCCATCCGTATCA 57.193 39.130 0.00 0.00 0.00 2.15
34 35 6.173427 TGATTGATTCTCCATCCGTATCAA 57.827 37.500 0.00 0.00 38.95 2.57
35 36 6.591001 TGATTGATTCTCCATCCGTATCAAA 58.409 36.000 0.00 0.00 38.34 2.69
36 37 7.053498 TGATTGATTCTCCATCCGTATCAAAA 58.947 34.615 0.00 0.00 38.34 2.44
37 38 7.720957 TGATTGATTCTCCATCCGTATCAAAAT 59.279 33.333 0.00 0.00 38.34 1.82
38 39 9.219603 GATTGATTCTCCATCCGTATCAAAATA 57.780 33.333 0.00 0.00 38.34 1.40
39 40 9.745018 ATTGATTCTCCATCCGTATCAAAATAT 57.255 29.630 0.00 0.00 38.34 1.28
44 45 9.929180 TTCTCCATCCGTATCAAAATATAAGAG 57.071 33.333 0.00 0.00 0.00 2.85
45 46 9.090103 TCTCCATCCGTATCAAAATATAAGAGT 57.910 33.333 0.00 0.00 0.00 3.24
46 47 9.712305 CTCCATCCGTATCAAAATATAAGAGTT 57.288 33.333 0.00 0.00 0.00 3.01
64 65 9.825109 ATAAGAGTTTTTAGAGGCTAGAATGTC 57.175 33.333 0.00 0.00 0.00 3.06
65 66 7.489239 AGAGTTTTTAGAGGCTAGAATGTCT 57.511 36.000 0.00 0.00 0.00 3.41
66 67 8.596781 AGAGTTTTTAGAGGCTAGAATGTCTA 57.403 34.615 0.00 0.00 0.00 2.59
67 68 9.036980 AGAGTTTTTAGAGGCTAGAATGTCTAA 57.963 33.333 0.00 0.00 31.20 2.10
68 69 9.825109 GAGTTTTTAGAGGCTAGAATGTCTAAT 57.175 33.333 0.00 0.00 32.82 1.73
76 77 8.718656 AGAGGCTAGAATGTCTAATATTTTGGT 58.281 33.333 0.00 0.00 0.00 3.67
77 78 9.998106 GAGGCTAGAATGTCTAATATTTTGGTA 57.002 33.333 0.00 0.00 0.00 3.25
78 79 9.780186 AGGCTAGAATGTCTAATATTTTGGTAC 57.220 33.333 0.00 0.00 0.00 3.34
79 80 9.555727 GGCTAGAATGTCTAATATTTTGGTACA 57.444 33.333 0.00 0.00 0.00 2.90
83 84 9.314321 AGAATGTCTAATATTTTGGTACAGACG 57.686 33.333 0.00 0.00 42.39 4.18
84 85 9.095065 GAATGTCTAATATTTTGGTACAGACGT 57.905 33.333 0.00 0.00 42.39 4.34
86 87 9.745880 ATGTCTAATATTTTGGTACAGACGTAG 57.254 33.333 5.56 0.00 42.39 3.51
103 104 3.876914 ACGTAGTATCATGTTGCCATTGG 59.123 43.478 0.00 0.00 41.94 3.16
104 105 3.876914 CGTAGTATCATGTTGCCATTGGT 59.123 43.478 4.26 0.00 0.00 3.67
105 106 5.053811 CGTAGTATCATGTTGCCATTGGTA 58.946 41.667 4.26 0.00 0.00 3.25
106 107 5.050363 CGTAGTATCATGTTGCCATTGGTAC 60.050 44.000 4.26 4.04 0.00 3.34
107 108 4.854173 AGTATCATGTTGCCATTGGTACA 58.146 39.130 12.98 12.98 0.00 2.90
108 109 5.448654 AGTATCATGTTGCCATTGGTACAT 58.551 37.500 15.55 15.55 39.30 2.29
109 110 6.600388 AGTATCATGTTGCCATTGGTACATA 58.400 36.000 18.88 11.61 39.30 2.29
110 111 7.059788 AGTATCATGTTGCCATTGGTACATAA 58.940 34.615 18.88 10.30 39.30 1.90
111 112 6.788598 ATCATGTTGCCATTGGTACATAAA 57.211 33.333 18.88 13.30 39.30 1.40
112 113 6.596309 TCATGTTGCCATTGGTACATAAAA 57.404 33.333 18.88 9.69 39.30 1.52
113 114 6.629128 TCATGTTGCCATTGGTACATAAAAG 58.371 36.000 18.88 10.97 39.30 2.27
114 115 4.815269 TGTTGCCATTGGTACATAAAAGC 58.185 39.130 4.26 0.00 39.30 3.51
115 116 4.526262 TGTTGCCATTGGTACATAAAAGCT 59.474 37.500 4.26 0.00 39.30 3.74
116 117 4.981806 TGCCATTGGTACATAAAAGCTC 57.018 40.909 4.26 0.00 39.30 4.09
117 118 4.599041 TGCCATTGGTACATAAAAGCTCT 58.401 39.130 4.26 0.00 39.30 4.09
118 119 5.016173 TGCCATTGGTACATAAAAGCTCTT 58.984 37.500 4.26 0.00 39.30 2.85
119 120 6.184068 TGCCATTGGTACATAAAAGCTCTTA 58.816 36.000 4.26 0.00 39.30 2.10
120 121 6.094881 TGCCATTGGTACATAAAAGCTCTTAC 59.905 38.462 4.26 0.00 39.30 2.34
121 122 6.094881 GCCATTGGTACATAAAAGCTCTTACA 59.905 38.462 4.26 0.00 39.30 2.41
122 123 7.362574 GCCATTGGTACATAAAAGCTCTTACAA 60.363 37.037 4.26 0.00 39.30 2.41
123 124 7.968405 CCATTGGTACATAAAAGCTCTTACAAC 59.032 37.037 0.00 0.00 39.30 3.32
124 125 8.511321 CATTGGTACATAAAAGCTCTTACAACA 58.489 33.333 0.00 0.00 39.30 3.33
125 126 7.429636 TGGTACATAAAAGCTCTTACAACAC 57.570 36.000 0.00 0.00 0.00 3.32
126 127 6.993308 TGGTACATAAAAGCTCTTACAACACA 59.007 34.615 0.00 0.00 0.00 3.72
127 128 7.663905 TGGTACATAAAAGCTCTTACAACACAT 59.336 33.333 0.00 0.00 0.00 3.21
128 129 7.962918 GGTACATAAAAGCTCTTACAACACATG 59.037 37.037 0.00 0.00 0.00 3.21
129 130 6.913170 ACATAAAAGCTCTTACAACACATGG 58.087 36.000 0.00 0.00 0.00 3.66
130 131 4.853924 AAAAGCTCTTACAACACATGGG 57.146 40.909 0.00 0.00 0.00 4.00
131 132 1.826385 AGCTCTTACAACACATGGGC 58.174 50.000 0.00 0.00 0.00 5.36
132 133 1.073763 AGCTCTTACAACACATGGGCA 59.926 47.619 0.00 0.00 0.00 5.36
133 134 1.470098 GCTCTTACAACACATGGGCAG 59.530 52.381 0.00 0.00 0.00 4.85
134 135 1.470098 CTCTTACAACACATGGGCAGC 59.530 52.381 0.00 0.00 0.00 5.25
135 136 1.073763 TCTTACAACACATGGGCAGCT 59.926 47.619 0.00 0.00 0.00 4.24
136 137 2.304470 TCTTACAACACATGGGCAGCTA 59.696 45.455 0.00 0.00 0.00 3.32
137 138 2.869101 TACAACACATGGGCAGCTAA 57.131 45.000 0.00 0.00 0.00 3.09
138 139 1.993956 ACAACACATGGGCAGCTAAA 58.006 45.000 0.00 0.00 0.00 1.85
139 140 2.315176 ACAACACATGGGCAGCTAAAA 58.685 42.857 0.00 0.00 0.00 1.52
140 141 2.297033 ACAACACATGGGCAGCTAAAAG 59.703 45.455 0.00 0.00 0.00 2.27
141 142 0.890683 ACACATGGGCAGCTAAAAGC 59.109 50.000 0.00 0.00 42.84 3.51
155 156 5.382573 GCTAAAAGCTTAGACGTGATCAG 57.617 43.478 0.00 0.00 38.45 2.90
156 157 5.103000 GCTAAAAGCTTAGACGTGATCAGA 58.897 41.667 0.00 0.00 38.45 3.27
157 158 5.004916 GCTAAAAGCTTAGACGTGATCAGAC 59.995 44.000 0.00 0.00 38.45 3.51
158 159 4.792521 AAAGCTTAGACGTGATCAGACT 57.207 40.909 0.00 0.00 0.00 3.24
159 160 5.899120 AAAGCTTAGACGTGATCAGACTA 57.101 39.130 0.00 0.00 0.00 2.59
160 161 6.458232 AAAGCTTAGACGTGATCAGACTAT 57.542 37.500 0.00 0.00 0.00 2.12
161 162 6.458232 AAGCTTAGACGTGATCAGACTATT 57.542 37.500 0.00 0.00 0.00 1.73
162 163 6.067263 AGCTTAGACGTGATCAGACTATTC 57.933 41.667 0.00 0.00 0.00 1.75
163 164 5.009210 AGCTTAGACGTGATCAGACTATTCC 59.991 44.000 0.00 0.00 0.00 3.01
164 165 3.972950 AGACGTGATCAGACTATTCCG 57.027 47.619 0.00 0.00 0.00 4.30
165 166 3.542648 AGACGTGATCAGACTATTCCGA 58.457 45.455 0.00 0.00 0.00 4.55
166 167 3.312973 AGACGTGATCAGACTATTCCGAC 59.687 47.826 0.00 0.00 0.00 4.79
167 168 3.280295 ACGTGATCAGACTATTCCGACT 58.720 45.455 0.00 0.00 0.00 4.18
168 169 3.065510 ACGTGATCAGACTATTCCGACTG 59.934 47.826 0.00 0.00 0.00 3.51
169 170 3.312697 CGTGATCAGACTATTCCGACTGA 59.687 47.826 0.00 0.00 42.26 3.41
170 171 4.201920 CGTGATCAGACTATTCCGACTGAA 60.202 45.833 0.00 0.00 41.57 3.02
171 172 5.651530 GTGATCAGACTATTCCGACTGAAA 58.348 41.667 0.00 0.00 41.57 2.69
172 173 6.100004 GTGATCAGACTATTCCGACTGAAAA 58.900 40.000 0.00 0.00 41.57 2.29
173 174 6.590292 GTGATCAGACTATTCCGACTGAAAAA 59.410 38.462 0.00 0.00 41.57 1.94
174 175 6.590292 TGATCAGACTATTCCGACTGAAAAAC 59.410 38.462 0.00 0.00 41.57 2.43
175 176 5.849510 TCAGACTATTCCGACTGAAAAACA 58.150 37.500 0.00 0.00 36.63 2.83
176 177 6.285224 TCAGACTATTCCGACTGAAAAACAA 58.715 36.000 0.00 0.00 36.63 2.83
177 178 6.764085 TCAGACTATTCCGACTGAAAAACAAA 59.236 34.615 0.00 0.00 36.63 2.83
178 179 7.042051 TCAGACTATTCCGACTGAAAAACAAAG 60.042 37.037 0.00 0.00 36.63 2.77
179 180 6.766467 AGACTATTCCGACTGAAAAACAAAGT 59.234 34.615 0.00 0.00 36.33 2.66
180 181 7.929785 AGACTATTCCGACTGAAAAACAAAGTA 59.070 33.333 0.00 0.00 36.33 2.24
181 182 8.441312 ACTATTCCGACTGAAAAACAAAGTAA 57.559 30.769 0.00 0.00 36.33 2.24
182 183 9.063615 ACTATTCCGACTGAAAAACAAAGTAAT 57.936 29.630 0.00 0.00 36.33 1.89
183 184 9.543018 CTATTCCGACTGAAAAACAAAGTAATC 57.457 33.333 0.00 0.00 36.33 1.75
184 185 5.981174 TCCGACTGAAAAACAAAGTAATCG 58.019 37.500 0.00 0.00 0.00 3.34
185 186 5.524646 TCCGACTGAAAAACAAAGTAATCGT 59.475 36.000 0.00 0.00 0.00 3.73
186 187 6.037391 TCCGACTGAAAAACAAAGTAATCGTT 59.963 34.615 0.00 0.00 0.00 3.85
187 188 7.224362 TCCGACTGAAAAACAAAGTAATCGTTA 59.776 33.333 0.00 0.00 0.00 3.18
188 189 7.529519 CCGACTGAAAAACAAAGTAATCGTTAG 59.470 37.037 0.00 0.00 0.00 2.34
189 190 8.060090 CGACTGAAAAACAAAGTAATCGTTAGT 58.940 33.333 0.00 0.00 0.00 2.24
190 191 9.366513 GACTGAAAAACAAAGTAATCGTTAGTC 57.633 33.333 0.00 0.00 0.00 2.59
191 192 8.340443 ACTGAAAAACAAAGTAATCGTTAGTCC 58.660 33.333 0.00 0.00 0.00 3.85
192 193 8.211116 TGAAAAACAAAGTAATCGTTAGTCCA 57.789 30.769 0.00 0.00 0.00 4.02
193 194 8.842280 TGAAAAACAAAGTAATCGTTAGTCCAT 58.158 29.630 0.00 0.00 0.00 3.41
210 211 9.298250 GTTAGTCCATAGTCAGGATACAAGATA 57.702 37.037 0.00 0.00 37.52 1.98
337 338 3.780294 TCCTTAGCCTCAACACCATGTAT 59.220 43.478 0.00 0.00 0.00 2.29
344 345 4.700213 GCCTCAACACCATGTATGTTAAGT 59.300 41.667 11.16 0.00 38.22 2.24
346 347 6.611381 CCTCAACACCATGTATGTTAAGTTG 58.389 40.000 11.16 0.00 38.22 3.16
349 350 8.678593 TCAACACCATGTATGTTAAGTTGTTA 57.321 30.769 11.16 0.00 38.22 2.41
350 351 9.121658 TCAACACCATGTATGTTAAGTTGTTAA 57.878 29.630 11.16 0.00 38.22 2.01
351 352 9.393249 CAACACCATGTATGTTAAGTTGTTAAG 57.607 33.333 11.16 0.00 38.22 1.85
410 430 6.504398 CATCATACACGTACAGAACCTACAT 58.496 40.000 0.00 0.00 0.00 2.29
411 431 6.519679 TCATACACGTACAGAACCTACATT 57.480 37.500 0.00 0.00 0.00 2.71
424 444 5.713861 AGAACCTACATTAACTACACGAGGT 59.286 40.000 0.00 0.00 37.67 3.85
426 446 4.159135 ACCTACATTAACTACACGAGGTGG 59.841 45.833 0.42 0.00 37.94 4.61
429 449 2.443887 TTAACTACACGAGGTGGTGC 57.556 50.000 0.42 0.00 40.75 5.01
532 554 5.645624 GACGATCTTCTCTTTGTGATCTGA 58.354 41.667 0.00 0.00 34.75 3.27
619 670 7.147794 TGTCACAAGACCAACCGTATATTATCT 60.148 37.037 0.00 0.00 44.33 1.98
643 694 2.094494 GTGCACTGCTAGTCTGCTAGAA 60.094 50.000 10.32 0.00 45.77 2.10
706 757 0.320374 CACCTCCTCGTGCCACTTTA 59.680 55.000 0.00 0.00 0.00 1.85
707 758 0.320697 ACCTCCTCGTGCCACTTTAC 59.679 55.000 0.00 0.00 0.00 2.01
708 759 0.608640 CCTCCTCGTGCCACTTTACT 59.391 55.000 0.00 0.00 0.00 2.24
709 760 1.002087 CCTCCTCGTGCCACTTTACTT 59.998 52.381 0.00 0.00 0.00 2.24
710 761 2.232941 CCTCCTCGTGCCACTTTACTTA 59.767 50.000 0.00 0.00 0.00 2.24
787 838 3.084786 ACTTTGCCAGAGCTACATTTCC 58.915 45.455 0.00 0.00 40.80 3.13
828 879 7.129457 TCATTATCCTATCCTATGGCATCAC 57.871 40.000 1.65 0.00 0.00 3.06
930 1002 1.815421 CCCCTTCGTCATTCCAGCG 60.815 63.158 0.00 0.00 0.00 5.18
1199 1286 1.313812 GGTGATGTCGACGAGAGGGT 61.314 60.000 11.62 0.00 0.00 4.34
1240 1327 0.667487 CCGAGAGCGCTTCAAGAACA 60.667 55.000 13.26 0.00 35.83 3.18
1270 1357 4.713814 AGATGATGAGTTAGTTGAGCTCCA 59.286 41.667 12.15 0.00 0.00 3.86
1273 1360 4.467438 TGATGAGTTAGTTGAGCTCCATCA 59.533 41.667 18.29 18.29 31.32 3.07
1369 1480 8.585881 GGATACATACATGTGTCTAAGTGGTAT 58.414 37.037 9.11 4.05 44.96 2.73
1393 1510 3.513912 CCATGTACTTTTCCCTTTTCCCC 59.486 47.826 0.00 0.00 0.00 4.81
1411 1528 1.341209 CCCCTCCTTTTGCAACTTCAC 59.659 52.381 0.00 0.00 0.00 3.18
1416 1533 4.381932 CCTCCTTTTGCAACTTCACTTTGT 60.382 41.667 0.00 0.00 0.00 2.83
1441 1558 5.310594 CCATAAGAGTGGGAAGAATGGGATA 59.689 44.000 0.00 0.00 35.55 2.59
1473 1609 6.661304 ATCCCCATTTCTGAAAATATGCTC 57.339 37.500 6.95 0.00 33.27 4.26
1480 1616 5.991328 TTCTGAAAATATGCTCGGATGTC 57.009 39.130 0.00 0.00 0.00 3.06
1502 1644 8.812513 TGTCAATATGATCCTTCATCAAAGTT 57.187 30.769 0.00 0.00 45.06 2.66
1514 1663 5.895636 TCATCAAAGTTGAGTTTGTGTGT 57.104 34.783 10.22 0.00 41.08 3.72
1592 1755 6.384258 TTCAGTTCATTTTTGGATGTCGAA 57.616 33.333 0.00 0.00 0.00 3.71
1609 1772 4.573201 TGTCGAAAACTCCTTTACAAGTGG 59.427 41.667 0.00 0.00 0.00 4.00
1614 1777 3.756933 ACTCCTTTACAAGTGGCGTAA 57.243 42.857 0.00 0.00 0.00 3.18
1624 1792 7.959689 TTACAAGTGGCGTAACAAAATAGTA 57.040 32.000 0.00 0.00 0.00 1.82
1625 1793 6.864360 ACAAGTGGCGTAACAAAATAGTAA 57.136 33.333 0.00 0.00 0.00 2.24
1783 1956 6.558771 TGTATATTTCAATGATGGGCTTCG 57.441 37.500 0.00 0.00 0.00 3.79
1792 1965 2.513753 TGATGGGCTTCGTCAAATTGT 58.486 42.857 0.00 0.00 38.36 2.71
1800 1973 3.751698 GCTTCGTCAAATTGTCCTAGGTT 59.248 43.478 9.08 0.00 0.00 3.50
1879 2052 7.275183 TCATACACTTATAGCTCTTGTGCATT 58.725 34.615 0.00 0.00 34.99 3.56
1899 2072 5.769367 CATTCATTGCATGACAATCCCTAG 58.231 41.667 11.03 3.02 46.28 3.02
1901 2074 5.628797 TCATTGCATGACAATCCCTAGTA 57.371 39.130 11.03 0.00 46.28 1.82
1973 2146 6.578023 GCCTAGTTGATGTGAGACTATCTTT 58.422 40.000 0.00 0.00 0.00 2.52
2035 2209 5.470098 CACCTATAGTGTTATGTTCATGGCC 59.530 44.000 0.00 0.00 41.93 5.36
2104 2278 6.588719 AAGTATGAAACAATTGCTTGGCTA 57.411 33.333 5.05 0.00 36.64 3.93
2128 2302 0.037447 TCGGGGTTGTGCATGATTGA 59.963 50.000 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.297527 TGGAGAATCAATCAATCAATGGACG 59.702 40.000 0.00 0.00 36.25 4.79
1 2 6.704289 TGGAGAATCAATCAATCAATGGAC 57.296 37.500 0.00 0.00 36.25 4.02
2 3 7.520451 GATGGAGAATCAATCAATCAATGGA 57.480 36.000 0.00 0.00 45.20 3.41
12 13 7.496529 TTTTGATACGGATGGAGAATCAATC 57.503 36.000 0.00 0.00 45.13 2.67
13 14 9.745018 ATATTTTGATACGGATGGAGAATCAAT 57.255 29.630 0.00 0.00 36.68 2.57
18 19 9.929180 CTCTTATATTTTGATACGGATGGAGAA 57.071 33.333 0.00 0.00 0.00 2.87
19 20 9.090103 ACTCTTATATTTTGATACGGATGGAGA 57.910 33.333 0.00 0.00 0.00 3.71
20 21 9.712305 AACTCTTATATTTTGATACGGATGGAG 57.288 33.333 0.00 0.00 0.00 3.86
38 39 9.825109 GACATTCTAGCCTCTAAAAACTCTTAT 57.175 33.333 0.00 0.00 0.00 1.73
39 40 9.036980 AGACATTCTAGCCTCTAAAAACTCTTA 57.963 33.333 0.00 0.00 0.00 2.10
40 41 7.912719 AGACATTCTAGCCTCTAAAAACTCTT 58.087 34.615 0.00 0.00 0.00 2.85
41 42 7.489239 AGACATTCTAGCCTCTAAAAACTCT 57.511 36.000 0.00 0.00 0.00 3.24
42 43 9.825109 ATTAGACATTCTAGCCTCTAAAAACTC 57.175 33.333 0.00 0.00 30.85 3.01
50 51 8.718656 ACCAAAATATTAGACATTCTAGCCTCT 58.281 33.333 0.00 0.00 29.56 3.69
51 52 8.910351 ACCAAAATATTAGACATTCTAGCCTC 57.090 34.615 0.00 0.00 29.56 4.70
52 53 9.780186 GTACCAAAATATTAGACATTCTAGCCT 57.220 33.333 0.00 0.00 29.56 4.58
53 54 9.555727 TGTACCAAAATATTAGACATTCTAGCC 57.444 33.333 0.00 0.00 29.56 3.93
57 58 9.314321 CGTCTGTACCAAAATATTAGACATTCT 57.686 33.333 11.09 0.00 34.32 2.40
58 59 9.095065 ACGTCTGTACCAAAATATTAGACATTC 57.905 33.333 11.09 0.00 34.32 2.67
60 61 9.745880 CTACGTCTGTACCAAAATATTAGACAT 57.254 33.333 11.09 1.24 34.32 3.06
61 62 8.742777 ACTACGTCTGTACCAAAATATTAGACA 58.257 33.333 11.09 2.12 34.32 3.41
67 68 9.692749 CATGATACTACGTCTGTACCAAAATAT 57.307 33.333 0.00 0.00 0.00 1.28
68 69 8.689061 ACATGATACTACGTCTGTACCAAAATA 58.311 33.333 0.00 0.00 0.00 1.40
69 70 7.553334 ACATGATACTACGTCTGTACCAAAAT 58.447 34.615 0.00 0.00 0.00 1.82
70 71 6.927416 ACATGATACTACGTCTGTACCAAAA 58.073 36.000 0.00 0.00 0.00 2.44
71 72 6.519679 ACATGATACTACGTCTGTACCAAA 57.480 37.500 0.00 0.00 0.00 3.28
72 73 6.327154 CAACATGATACTACGTCTGTACCAA 58.673 40.000 0.00 0.00 0.00 3.67
73 74 5.677852 GCAACATGATACTACGTCTGTACCA 60.678 44.000 0.00 0.00 0.00 3.25
74 75 4.738740 GCAACATGATACTACGTCTGTACC 59.261 45.833 0.00 0.00 0.00 3.34
75 76 4.738740 GGCAACATGATACTACGTCTGTAC 59.261 45.833 0.00 0.00 0.00 2.90
76 77 4.399934 TGGCAACATGATACTACGTCTGTA 59.600 41.667 0.00 0.00 46.17 2.74
77 78 3.194755 TGGCAACATGATACTACGTCTGT 59.805 43.478 0.00 0.00 46.17 3.41
78 79 3.780902 TGGCAACATGATACTACGTCTG 58.219 45.455 0.00 0.00 46.17 3.51
93 94 5.072040 AGCTTTTATGTACCAATGGCAAC 57.928 39.130 0.00 0.00 0.00 4.17
94 95 5.016173 AGAGCTTTTATGTACCAATGGCAA 58.984 37.500 0.00 0.00 0.00 4.52
95 96 4.599041 AGAGCTTTTATGTACCAATGGCA 58.401 39.130 0.00 0.00 0.00 4.92
96 97 5.582689 AAGAGCTTTTATGTACCAATGGC 57.417 39.130 0.00 0.00 0.00 4.40
97 98 7.624360 TGTAAGAGCTTTTATGTACCAATGG 57.376 36.000 0.00 0.00 0.00 3.16
98 99 8.511321 TGTTGTAAGAGCTTTTATGTACCAATG 58.489 33.333 0.00 0.00 0.00 2.82
99 100 8.512138 GTGTTGTAAGAGCTTTTATGTACCAAT 58.488 33.333 0.00 0.00 0.00 3.16
100 101 7.499563 TGTGTTGTAAGAGCTTTTATGTACCAA 59.500 33.333 0.00 0.00 0.00 3.67
101 102 6.993308 TGTGTTGTAAGAGCTTTTATGTACCA 59.007 34.615 0.00 0.00 0.00 3.25
102 103 7.429636 TGTGTTGTAAGAGCTTTTATGTACC 57.570 36.000 0.00 0.00 0.00 3.34
103 104 7.962918 CCATGTGTTGTAAGAGCTTTTATGTAC 59.037 37.037 0.00 0.73 0.00 2.90
104 105 7.120579 CCCATGTGTTGTAAGAGCTTTTATGTA 59.879 37.037 0.00 0.00 0.00 2.29
105 106 6.071952 CCCATGTGTTGTAAGAGCTTTTATGT 60.072 38.462 0.00 0.00 0.00 2.29
106 107 6.324819 CCCATGTGTTGTAAGAGCTTTTATG 58.675 40.000 0.00 0.00 0.00 1.90
107 108 5.105756 GCCCATGTGTTGTAAGAGCTTTTAT 60.106 40.000 0.00 0.00 0.00 1.40
108 109 4.217550 GCCCATGTGTTGTAAGAGCTTTTA 59.782 41.667 0.00 0.00 0.00 1.52
109 110 3.005791 GCCCATGTGTTGTAAGAGCTTTT 59.994 43.478 0.00 0.00 0.00 2.27
110 111 2.558359 GCCCATGTGTTGTAAGAGCTTT 59.442 45.455 0.00 0.00 0.00 3.51
111 112 2.162681 GCCCATGTGTTGTAAGAGCTT 58.837 47.619 0.00 0.00 0.00 3.74
112 113 1.073763 TGCCCATGTGTTGTAAGAGCT 59.926 47.619 0.00 0.00 0.00 4.09
113 114 1.470098 CTGCCCATGTGTTGTAAGAGC 59.530 52.381 0.00 0.00 0.00 4.09
114 115 1.470098 GCTGCCCATGTGTTGTAAGAG 59.530 52.381 0.00 0.00 0.00 2.85
115 116 1.073763 AGCTGCCCATGTGTTGTAAGA 59.926 47.619 0.00 0.00 0.00 2.10
116 117 1.538047 AGCTGCCCATGTGTTGTAAG 58.462 50.000 0.00 0.00 0.00 2.34
117 118 2.869101 TAGCTGCCCATGTGTTGTAA 57.131 45.000 0.00 0.00 0.00 2.41
118 119 2.869101 TTAGCTGCCCATGTGTTGTA 57.131 45.000 0.00 0.00 0.00 2.41
119 120 1.993956 TTTAGCTGCCCATGTGTTGT 58.006 45.000 0.00 0.00 0.00 3.32
120 121 2.927871 GCTTTTAGCTGCCCATGTGTTG 60.928 50.000 0.00 0.00 38.45 3.33
121 122 1.273327 GCTTTTAGCTGCCCATGTGTT 59.727 47.619 0.00 0.00 38.45 3.32
122 123 0.890683 GCTTTTAGCTGCCCATGTGT 59.109 50.000 0.00 0.00 38.45 3.72
123 124 3.727419 GCTTTTAGCTGCCCATGTG 57.273 52.632 0.00 0.00 38.45 3.21
133 134 5.004916 GTCTGATCACGTCTAAGCTTTTAGC 59.995 44.000 3.20 0.00 42.84 3.09
134 135 6.326375 AGTCTGATCACGTCTAAGCTTTTAG 58.674 40.000 3.20 0.00 0.00 1.85
135 136 6.268825 AGTCTGATCACGTCTAAGCTTTTA 57.731 37.500 3.20 0.00 0.00 1.52
136 137 5.140747 AGTCTGATCACGTCTAAGCTTTT 57.859 39.130 3.20 0.00 0.00 2.27
137 138 4.792521 AGTCTGATCACGTCTAAGCTTT 57.207 40.909 3.20 0.00 0.00 3.51
138 139 6.458232 AATAGTCTGATCACGTCTAAGCTT 57.542 37.500 3.48 3.48 0.00 3.74
139 140 5.009210 GGAATAGTCTGATCACGTCTAAGCT 59.991 44.000 0.00 0.00 0.00 3.74
140 141 5.216648 GGAATAGTCTGATCACGTCTAAGC 58.783 45.833 0.00 0.00 0.00 3.09
141 142 5.236695 TCGGAATAGTCTGATCACGTCTAAG 59.763 44.000 0.00 0.00 34.02 2.18
142 143 5.007430 GTCGGAATAGTCTGATCACGTCTAA 59.993 44.000 4.79 0.00 41.29 2.10
143 144 4.510711 GTCGGAATAGTCTGATCACGTCTA 59.489 45.833 4.79 0.00 41.29 2.59
144 145 3.312973 GTCGGAATAGTCTGATCACGTCT 59.687 47.826 4.79 0.00 41.29 4.18
145 146 3.312973 AGTCGGAATAGTCTGATCACGTC 59.687 47.826 4.79 0.00 41.29 4.34
146 147 3.065510 CAGTCGGAATAGTCTGATCACGT 59.934 47.826 4.79 0.00 41.29 4.49
147 148 3.312697 TCAGTCGGAATAGTCTGATCACG 59.687 47.826 4.79 0.00 41.29 4.35
148 149 4.902443 TCAGTCGGAATAGTCTGATCAC 57.098 45.455 4.79 0.00 41.29 3.06
149 150 5.914898 TTTCAGTCGGAATAGTCTGATCA 57.085 39.130 4.79 0.00 41.29 2.92
150 151 6.590292 TGTTTTTCAGTCGGAATAGTCTGATC 59.410 38.462 4.79 0.00 41.29 2.92
151 152 6.464222 TGTTTTTCAGTCGGAATAGTCTGAT 58.536 36.000 4.79 0.00 41.29 2.90
152 153 5.849510 TGTTTTTCAGTCGGAATAGTCTGA 58.150 37.500 0.00 0.00 36.78 3.27
153 154 6.539649 TTGTTTTTCAGTCGGAATAGTCTG 57.460 37.500 0.00 0.00 34.91 3.51
154 155 6.766467 ACTTTGTTTTTCAGTCGGAATAGTCT 59.234 34.615 0.00 0.00 34.91 3.24
155 156 6.956047 ACTTTGTTTTTCAGTCGGAATAGTC 58.044 36.000 0.00 0.00 34.91 2.59
156 157 6.937436 ACTTTGTTTTTCAGTCGGAATAGT 57.063 33.333 0.00 0.00 34.91 2.12
157 158 9.543018 GATTACTTTGTTTTTCAGTCGGAATAG 57.457 33.333 0.00 0.00 34.91 1.73
158 159 8.225107 CGATTACTTTGTTTTTCAGTCGGAATA 58.775 33.333 0.00 0.00 34.91 1.75
159 160 7.075741 CGATTACTTTGTTTTTCAGTCGGAAT 58.924 34.615 0.00 0.00 34.91 3.01
160 161 6.037391 ACGATTACTTTGTTTTTCAGTCGGAA 59.963 34.615 0.00 0.00 0.00 4.30
161 162 5.524646 ACGATTACTTTGTTTTTCAGTCGGA 59.475 36.000 0.00 0.00 0.00 4.55
162 163 5.744490 ACGATTACTTTGTTTTTCAGTCGG 58.256 37.500 0.00 0.00 0.00 4.79
163 164 8.060090 ACTAACGATTACTTTGTTTTTCAGTCG 58.940 33.333 0.00 0.00 33.77 4.18
164 165 9.366513 GACTAACGATTACTTTGTTTTTCAGTC 57.633 33.333 0.00 0.00 33.77 3.51
165 166 8.340443 GGACTAACGATTACTTTGTTTTTCAGT 58.660 33.333 0.00 0.00 33.77 3.41
166 167 8.339714 TGGACTAACGATTACTTTGTTTTTCAG 58.660 33.333 0.00 0.00 33.77 3.02
167 168 8.211116 TGGACTAACGATTACTTTGTTTTTCA 57.789 30.769 0.00 0.00 33.77 2.69
170 171 9.498176 ACTATGGACTAACGATTACTTTGTTTT 57.502 29.630 0.00 0.00 33.77 2.43
171 172 9.148104 GACTATGGACTAACGATTACTTTGTTT 57.852 33.333 0.00 0.00 33.77 2.83
172 173 8.308931 TGACTATGGACTAACGATTACTTTGTT 58.691 33.333 0.00 0.00 35.96 2.83
173 174 7.833786 TGACTATGGACTAACGATTACTTTGT 58.166 34.615 0.00 0.00 0.00 2.83
174 175 7.435488 CCTGACTATGGACTAACGATTACTTTG 59.565 40.741 0.00 0.00 0.00 2.77
175 176 7.341256 TCCTGACTATGGACTAACGATTACTTT 59.659 37.037 0.00 0.00 0.00 2.66
176 177 6.832384 TCCTGACTATGGACTAACGATTACTT 59.168 38.462 0.00 0.00 0.00 2.24
177 178 6.363065 TCCTGACTATGGACTAACGATTACT 58.637 40.000 0.00 0.00 0.00 2.24
178 179 6.630444 TCCTGACTATGGACTAACGATTAC 57.370 41.667 0.00 0.00 0.00 1.89
179 180 7.940688 TGTATCCTGACTATGGACTAACGATTA 59.059 37.037 0.00 0.00 36.30 1.75
180 181 6.776116 TGTATCCTGACTATGGACTAACGATT 59.224 38.462 0.00 0.00 36.30 3.34
181 182 6.304624 TGTATCCTGACTATGGACTAACGAT 58.695 40.000 0.00 0.00 36.30 3.73
182 183 5.687780 TGTATCCTGACTATGGACTAACGA 58.312 41.667 0.00 0.00 36.30 3.85
183 184 6.262496 TCTTGTATCCTGACTATGGACTAACG 59.738 42.308 0.00 0.00 36.30 3.18
184 185 7.584122 TCTTGTATCCTGACTATGGACTAAC 57.416 40.000 0.00 0.00 36.30 2.34
185 186 9.877222 TTATCTTGTATCCTGACTATGGACTAA 57.123 33.333 0.00 0.00 36.30 2.24
186 187 9.877222 TTTATCTTGTATCCTGACTATGGACTA 57.123 33.333 0.00 0.00 36.30 2.59
187 188 8.783660 TTTATCTTGTATCCTGACTATGGACT 57.216 34.615 0.00 0.00 36.30 3.85
193 194 9.670442 AGGGTATTTTATCTTGTATCCTGACTA 57.330 33.333 0.00 0.00 0.00 2.59
256 257 2.233922 GCCTGAACCTGTGACTAGCTAA 59.766 50.000 0.00 0.00 0.00 3.09
303 304 6.620877 TGAGGCTAAGGAAGAGAAATAACA 57.379 37.500 0.00 0.00 0.00 2.41
337 338 3.490526 GGACGACGCTTAACAACTTAACA 59.509 43.478 0.00 0.00 0.00 2.41
344 345 0.320073 CTGGGGACGACGCTTAACAA 60.320 55.000 0.00 0.00 0.00 2.83
346 347 1.012486 CACTGGGGACGACGCTTAAC 61.012 60.000 0.00 0.00 0.00 2.01
349 350 4.681978 GCACTGGGGACGACGCTT 62.682 66.667 0.00 0.00 0.00 4.68
351 352 4.980805 TTGCACTGGGGACGACGC 62.981 66.667 0.00 0.00 0.00 5.19
410 430 1.965643 AGCACCACCTCGTGTAGTTAA 59.034 47.619 0.00 0.00 36.08 2.01
411 431 1.271379 CAGCACCACCTCGTGTAGTTA 59.729 52.381 0.00 0.00 36.08 2.24
424 444 1.340308 CCTGTGAATCATCCAGCACCA 60.340 52.381 0.00 0.00 0.00 4.17
426 446 1.386533 CCCTGTGAATCATCCAGCAC 58.613 55.000 0.00 0.00 0.00 4.40
429 449 3.906218 TCTATCCCCTGTGAATCATCCAG 59.094 47.826 0.00 0.00 0.00 3.86
532 554 4.410400 CCGCCCTCTCGCCCTTTT 62.410 66.667 0.00 0.00 0.00 2.27
619 670 0.603707 GCAGACTAGCAGTGCACCAA 60.604 55.000 19.20 0.00 37.16 3.67
643 694 3.758554 GGTTTGTGGTCTGTATGATTGCT 59.241 43.478 0.00 0.00 0.00 3.91
706 757 0.910088 GGGAGGGTCCAGTGCTAAGT 60.910 60.000 0.00 0.00 38.64 2.24
707 758 0.909610 TGGGAGGGTCCAGTGCTAAG 60.910 60.000 0.00 0.00 38.64 2.18
708 759 0.474854 TTGGGAGGGTCCAGTGCTAA 60.475 55.000 0.00 0.00 38.64 3.09
709 760 0.474854 TTTGGGAGGGTCCAGTGCTA 60.475 55.000 0.00 0.00 38.64 3.49
710 761 1.774217 TTTGGGAGGGTCCAGTGCT 60.774 57.895 0.00 0.00 38.64 4.40
787 838 1.081242 GAACATGCGTGCACCCAAG 60.081 57.895 12.15 8.33 0.00 3.61
828 879 2.886523 TCCATGTCACTTCTTGGCTTTG 59.113 45.455 0.00 0.00 34.12 2.77
930 1002 1.065600 TGTGCCTTTGCTTTGCGAC 59.934 52.632 0.00 0.00 38.71 5.19
1056 1140 1.226888 GCCGGCGTACTTGGAGTAG 60.227 63.158 12.58 0.00 30.12 2.57
1098 1182 0.109919 CGTGTGCTGTAGTGACGCTA 60.110 55.000 0.00 0.00 0.00 4.26
1199 1286 0.108992 GGACAGTATGAACGCCGTGA 60.109 55.000 0.00 0.00 39.69 4.35
1240 1327 6.705302 TCAACTAACTCATCATCTTCTGCTT 58.295 36.000 0.00 0.00 0.00 3.91
1270 1357 1.976132 CTGACCTGACCGGCCATGAT 61.976 60.000 0.00 0.00 35.61 2.45
1273 1360 2.607750 ACTGACCTGACCGGCCAT 60.608 61.111 0.00 0.00 35.61 4.40
1288 1383 3.670629 CTCTCCCGGAGCCTGGACT 62.671 68.421 9.87 0.00 35.08 3.85
1369 1480 5.326900 GGGAAAAGGGAAAAGTACATGGTA 58.673 41.667 0.00 0.00 0.00 3.25
1385 1496 1.715785 TGCAAAAGGAGGGGGAAAAG 58.284 50.000 0.00 0.00 0.00 2.27
1393 1510 4.114794 CAAAGTGAAGTTGCAAAAGGAGG 58.885 43.478 0.00 0.00 0.00 4.30
1411 1528 5.165961 TCTTCCCACTCTTATGGACAAAG 57.834 43.478 0.00 0.00 43.02 2.77
1416 1533 3.459598 CCCATTCTTCCCACTCTTATGGA 59.540 47.826 0.00 0.00 43.02 3.41
1467 1599 5.423290 AGGATCATATTGACATCCGAGCATA 59.577 40.000 0.00 0.00 32.26 3.14
1473 1609 6.168389 TGATGAAGGATCATATTGACATCCG 58.832 40.000 0.00 0.00 46.30 4.18
1480 1616 8.900781 ACTCAACTTTGATGAAGGATCATATTG 58.099 33.333 0.00 0.00 46.30 1.90
1502 1644 6.703607 ACAAAAATGAACAACACACAAACTCA 59.296 30.769 0.00 0.00 0.00 3.41
1514 1663 3.190874 GTCGGGCAACAAAAATGAACAA 58.809 40.909 0.00 0.00 39.74 2.83
1577 1731 6.405278 AAGGAGTTTTCGACATCCAAAAAT 57.595 33.333 7.04 0.00 34.08 1.82
1637 1808 6.114767 AGCAAAAACAAGATGGAATGTTTGT 58.885 32.000 4.82 0.00 46.09 2.83
1716 1888 4.585879 TCTGGTTTAAGTATGGTGCTTCC 58.414 43.478 0.00 0.00 0.00 3.46
1750 1923 9.590451 CATCATTGAAATATACAAGCCAAGTTT 57.410 29.630 0.00 0.00 0.00 2.66
1768 1941 2.488204 TTGACGAAGCCCATCATTGA 57.512 45.000 0.00 0.00 0.00 2.57
1783 1956 5.237779 TCACGAAAACCTAGGACAATTTGAC 59.762 40.000 17.98 3.36 0.00 3.18
1792 1965 2.870435 GCTTGCTCACGAAAACCTAGGA 60.870 50.000 17.98 0.00 0.00 2.94
1800 1973 1.065401 CCAACTTGCTTGCTCACGAAA 59.935 47.619 0.00 0.00 0.00 3.46
1889 2062 6.620877 TCAATGTGAGTTACTAGGGATTGT 57.379 37.500 0.00 0.00 0.00 2.71
1901 2074 8.781196 GCACATCAATAGATATCAATGTGAGTT 58.219 33.333 24.10 7.27 44.11 3.01
1925 2098 1.776063 TCAATGGGCTATGGAGATGCA 59.224 47.619 0.00 0.00 0.00 3.96
1982 2156 1.144708 TGGTGATTGTGGAGAAGGCAA 59.855 47.619 0.00 0.00 0.00 4.52
1985 2159 3.960571 AGAATGGTGATTGTGGAGAAGG 58.039 45.455 0.00 0.00 0.00 3.46
1997 2171 7.303182 CACTATAGGTGGAATAGAATGGTGA 57.697 40.000 4.43 0.00 41.90 4.02
2028 2202 1.540435 TATATGAGCGCGGGCCATGA 61.540 55.000 26.93 17.19 41.24 3.07
2104 2278 0.677731 CATGCACAACCCCGATGACT 60.678 55.000 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.