Multiple sequence alignment - TraesCS7A01G183400

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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 TraesCS7A01G183400 chr7A 100.000 2550 0 0 1 2550 138181157 138183706 0.000000e+00 4710.0
1 TraesCS7A01G183400 chr7A 86.050 681 53 15 791 1441 138343530 138344198 0.000000e+00 693.0
2 TraesCS7A01G183400 chr7A 81.931 404 53 12 8 392 138283515 138283917 8.800000e-85 324.0
3 TraesCS7A01G183400 chr7A 85.852 311 33 5 1131 1441 138348409 138348708 1.140000e-83 320.0
4 TraesCS7A01G183400 chr7A 87.938 257 27 4 878 1132 138348036 138348290 1.480000e-77 300.0
5 TraesCS7A01G183400 chr7A 77.880 217 37 9 1493 1700 216836434 216836220 9.580000e-25 124.0
6 TraesCS7A01G183400 chr7A 78.836 189 29 8 1508 1685 403197073 403196885 1.600000e-22 117.0
7 TraesCS7A01G183400 chr7A 84.071 113 17 1 760 872 138347872 138347983 9.650000e-20 108.0
8 TraesCS7A01G183400 chr7B 88.358 2053 156 30 499 2498 103581399 103583421 0.000000e+00 2390.0
9 TraesCS7A01G183400 chr7B 85.540 657 62 19 791 1441 103610281 103610910 0.000000e+00 656.0
10 TraesCS7A01G183400 chr7B 84.091 528 59 15 918 1441 103615338 103615844 1.060000e-133 486.0
11 TraesCS7A01G183400 chr7B 88.020 409 42 4 74 482 103580805 103581206 6.380000e-131 477.0
12 TraesCS7A01G183400 chr7B 80.937 619 97 12 1696 2312 63019796 63020395 1.070000e-128 470.0
13 TraesCS7A01G183400 chr7B 86.228 334 38 5 418 751 103609716 103610041 3.120000e-94 355.0
14 TraesCS7A01G183400 chr7B 82.673 202 25 5 1505 1701 63019571 63019767 1.210000e-38 171.0
15 TraesCS7A01G183400 chr7B 75.130 386 67 17 2082 2450 709045863 709046236 1.220000e-33 154.0
16 TraesCS7A01G183400 chr7B 90.566 53 5 0 2496 2548 103607067 103607119 1.270000e-08 71.3
17 TraesCS7A01G183400 chr7D 92.922 989 49 9 526 1496 138280636 138281621 0.000000e+00 1419.0
18 TraesCS7A01G183400 chr7D 85.448 859 78 23 614 1441 138283824 138284666 0.000000e+00 850.0
19 TraesCS7A01G183400 chr7D 83.101 645 58 32 878 1496 138308238 138308857 8.030000e-150 540.0
20 TraesCS7A01G183400 chr7D 90.449 356 33 1 4 359 138276834 138277188 3.840000e-128 468.0
21 TraesCS7A01G183400 chr7D 83.836 464 45 18 8 445 138283185 138283644 5.080000e-112 414.0
22 TraesCS7A01G183400 chr7D 83.500 200 23 4 418 613 138283548 138283741 7.250000e-41 178.0
23 TraesCS7A01G183400 chr6B 81.804 621 91 13 1696 2312 545213126 545213728 3.790000e-138 501.0
24 TraesCS7A01G183400 chr6B 85.507 207 20 2 1505 1701 545212891 545213097 9.250000e-50 207.0
25 TraesCS7A01G183400 chr6B 92.391 92 7 0 1502 1593 634983746 634983837 5.720000e-27 132.0
26 TraesCS7A01G183400 chr6B 80.000 115 19 3 1589 1701 144747794 144747906 5.850000e-12 82.4
27 TraesCS7A01G183400 chr4B 81.178 611 103 9 1698 2303 644280832 644280229 4.930000e-132 481.0
28 TraesCS7A01G183400 chr4B 76.471 323 56 16 2018 2328 579578634 579578320 9.440000e-35 158.0
29 TraesCS7A01G183400 chr1A 80.861 627 99 12 1696 2318 391946597 391945988 8.260000e-130 473.0
30 TraesCS7A01G183400 chr1A 83.168 202 24 6 1505 1696 391946832 391946631 2.610000e-40 176.0
31 TraesCS7A01G183400 chr1A 80.365 219 31 4 1494 1701 580438368 580438151 3.400000e-34 156.0
32 TraesCS7A01G183400 chr1A 93.182 88 6 0 1505 1592 497780549 497780636 2.060000e-26 130.0
33 TraesCS7A01G183400 chr2B 80.882 612 98 17 1698 2303 361287737 361287139 4.970000e-127 464.0
34 TraesCS7A01G183400 chr2B 83.439 157 25 1 245 400 463780711 463780555 7.350000e-31 145.0
35 TraesCS7A01G183400 chr2B 93.258 89 6 0 1505 1593 755010950 755011038 5.720000e-27 132.0
36 TraesCS7A01G183400 chr2B 88.172 93 11 0 233 325 398708392 398708300 7.460000e-21 111.0
37 TraesCS7A01G183400 chr3B 82.265 468 78 5 1696 2161 556032783 556032319 1.420000e-107 399.0
38 TraesCS7A01G183400 chr3B 82.843 204 22 4 1508 1701 556033012 556032812 1.210000e-38 171.0
39 TraesCS7A01G183400 chr3B 93.182 88 6 0 1505 1592 525630056 525630143 2.060000e-26 130.0
40 TraesCS7A01G183400 chr5B 82.589 448 67 9 1700 2143 369488065 369488505 3.980000e-103 385.0
41 TraesCS7A01G183400 chr5B 83.495 103 13 2 418 517 113089394 113089293 2.700000e-15 93.5
42 TraesCS7A01G183400 chr3A 78.070 570 89 26 880 1441 684324316 684324857 6.800000e-86 327.0
43 TraesCS7A01G183400 chr3A 84.500 200 20 6 1507 1696 100929123 100929321 1.200000e-43 187.0
44 TraesCS7A01G183400 chr1B 85.047 321 47 1 1784 2103 517351371 517351051 2.450000e-85 326.0
45 TraesCS7A01G183400 chr3D 78.068 497 79 22 949 1441 547455051 547455521 1.150000e-73 287.0
46 TraesCS7A01G183400 chr5D 75.288 607 125 20 1769 2359 549026524 549027121 1.500000e-67 267.0
47 TraesCS7A01G183400 chr5D 93.258 89 6 0 1505 1593 483567777 483567865 5.720000e-27 132.0
48 TraesCS7A01G183400 chr5D 92.857 70 4 1 315 383 114913399 114913330 1.610000e-17 100.0
49 TraesCS7A01G183400 chr5D 84.375 96 11 2 422 514 103986611 103986517 9.720000e-15 91.6
50 TraesCS7A01G183400 chrUn 73.953 645 141 20 1832 2465 24392638 24393266 4.240000e-58 235.0
51 TraesCS7A01G183400 chrUn 77.419 155 23 10 1557 1701 371146065 371146217 5.850000e-12 82.4
52 TraesCS7A01G183400 chr4A 86.341 205 26 2 242 445 94755978 94756181 3.300000e-54 222.0
53 TraesCS7A01G183400 chr4A 77.419 155 23 10 1557 1701 144632254 144632102 5.850000e-12 82.4
54 TraesCS7A01G183400 chr5A 84.000 200 17 5 1505 1701 184020860 184021047 7.250000e-41 178.0
55 TraesCS7A01G183400 chr5A 81.111 180 27 5 271 445 94688586 94688763 1.230000e-28 137.0
56 TraesCS7A01G183400 chr6A 93.182 88 6 0 1505 1592 569973552 569973639 2.060000e-26 130.0
57 TraesCS7A01G183400 chr2D 93.182 88 6 0 1505 1592 448222120 448222207 2.060000e-26 130.0
58 TraesCS7A01G183400 chr2D 86.842 114 13 2 233 344 330495943 330495830 2.660000e-25 126.0
59 TraesCS7A01G183400 chr2A 95.556 45 2 0 1549 1593 772720144 772720100 3.520000e-09 73.1


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 TraesCS7A01G183400 chr7A 138181157 138183706 2549 False 4710.000000 4710 100.000000 1 2550 1 chr7A.!!$F1 2549
1 TraesCS7A01G183400 chr7A 138343530 138348708 5178 False 355.250000 693 85.977750 760 1441 4 chr7A.!!$F3 681
2 TraesCS7A01G183400 chr7B 103580805 103583421 2616 False 1433.500000 2390 88.189000 74 2498 2 chr7B.!!$F4 2424
3 TraesCS7A01G183400 chr7B 103615338 103615844 506 False 486.000000 486 84.091000 918 1441 1 chr7B.!!$F1 523
4 TraesCS7A01G183400 chr7B 103607067 103610910 3843 False 360.766667 656 87.444667 418 2548 3 chr7B.!!$F5 2130
5 TraesCS7A01G183400 chr7B 63019571 63020395 824 False 320.500000 470 81.805000 1505 2312 2 chr7B.!!$F3 807
6 TraesCS7A01G183400 chr7D 138276834 138284666 7832 False 665.800000 1419 87.231000 4 1496 5 chr7D.!!$F2 1492
7 TraesCS7A01G183400 chr7D 138308238 138308857 619 False 540.000000 540 83.101000 878 1496 1 chr7D.!!$F1 618
8 TraesCS7A01G183400 chr6B 545212891 545213728 837 False 354.000000 501 83.655500 1505 2312 2 chr6B.!!$F3 807
9 TraesCS7A01G183400 chr4B 644280229 644280832 603 True 481.000000 481 81.178000 1698 2303 1 chr4B.!!$R2 605
10 TraesCS7A01G183400 chr1A 391945988 391946832 844 True 324.500000 473 82.014500 1505 2318 2 chr1A.!!$R2 813
11 TraesCS7A01G183400 chr2B 361287139 361287737 598 True 464.000000 464 80.882000 1698 2303 1 chr2B.!!$R1 605
12 TraesCS7A01G183400 chr3B 556032319 556033012 693 True 285.000000 399 82.554000 1508 2161 2 chr3B.!!$R1 653
13 TraesCS7A01G183400 chr3A 684324316 684324857 541 False 327.000000 327 78.070000 880 1441 1 chr3A.!!$F2 561
14 TraesCS7A01G183400 chr5D 549026524 549027121 597 False 267.000000 267 75.288000 1769 2359 1 chr5D.!!$F2 590
15 TraesCS7A01G183400 chrUn 24392638 24393266 628 False 235.000000 235 73.953000 1832 2465 1 chrUn.!!$F1 633

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
249 250 0.168128 GTTTCAGATTCGGCGGTTGG 59.832 55.0 7.21 0.0 0.0 3.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1781 14336 0.03213 TCGGAGCTGTGTTGTCTCAC 59.968 55.0 0.0 0.0 38.63 3.51 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
28 29 4.988598 CGGCGCACCTGTTCCTGT 62.989 66.667 10.83 0.00 0.00 4.00
65 66 4.388499 GAGGCGAAACTGGGGCGA 62.388 66.667 0.00 0.00 0.00 5.54
80 81 4.530857 CGACAGGATGGGGGCGAC 62.531 72.222 0.00 0.00 43.62 5.19
81 82 3.399181 GACAGGATGGGGGCGACA 61.399 66.667 0.00 0.00 43.62 4.35
82 83 2.692368 ACAGGATGGGGGCGACAT 60.692 61.111 0.00 0.00 43.62 3.06
83 84 2.203252 CAGGATGGGGGCGACATG 60.203 66.667 0.00 0.00 0.00 3.21
93 94 3.554692 GCGACATGGCGACGAAGG 61.555 66.667 28.68 0.00 34.56 3.46
95 96 3.554692 GACATGGCGACGAAGGCG 61.555 66.667 0.00 0.00 44.79 5.52
107 108 3.952628 GAAGGCGGGGTCGGTGAAG 62.953 68.421 0.00 0.00 36.79 3.02
112 113 3.246880 GGGGTCGGTGAAGGTGGT 61.247 66.667 0.00 0.00 0.00 4.16
113 114 2.826003 GGGGTCGGTGAAGGTGGTT 61.826 63.158 0.00 0.00 0.00 3.67
114 115 1.599797 GGGTCGGTGAAGGTGGTTG 60.600 63.158 0.00 0.00 0.00 3.77
116 117 2.280524 TCGGTGAAGGTGGTTGCG 60.281 61.111 0.00 0.00 0.00 4.85
118 119 2.904866 GGTGAAGGTGGTTGCGCA 60.905 61.111 5.66 5.66 0.00 6.09
119 120 2.639286 GTGAAGGTGGTTGCGCAG 59.361 61.111 11.31 0.00 0.00 5.18
120 121 2.594303 TGAAGGTGGTTGCGCAGG 60.594 61.111 11.31 0.00 0.00 4.85
121 122 4.043200 GAAGGTGGTTGCGCAGGC 62.043 66.667 11.31 7.93 40.52 4.85
144 145 2.031012 CTGCAGCGAGGTGGTTCA 59.969 61.111 0.00 0.00 0.00 3.18
147 148 2.029844 GCAGCGAGGTGGTTCAGAC 61.030 63.158 4.40 0.00 0.00 3.51
148 149 1.374758 CAGCGAGGTGGTTCAGACC 60.375 63.158 0.00 0.00 46.71 3.85
158 159 0.868406 GGTTCAGACCAGCAGAAACG 59.132 55.000 0.00 0.00 45.77 3.60
159 160 0.868406 GTTCAGACCAGCAGAAACGG 59.132 55.000 0.00 0.00 0.00 4.44
160 161 0.884704 TTCAGACCAGCAGAAACGGC 60.885 55.000 0.00 0.00 0.00 5.68
161 162 2.357517 AGACCAGCAGAAACGGCG 60.358 61.111 4.80 4.80 36.08 6.46
162 163 2.665185 GACCAGCAGAAACGGCGT 60.665 61.111 6.77 6.77 36.08 5.68
163 164 2.954753 GACCAGCAGAAACGGCGTG 61.955 63.158 15.70 1.08 36.08 5.34
164 165 3.726517 CCAGCAGAAACGGCGTGG 61.727 66.667 15.70 4.35 36.08 4.94
165 166 3.726517 CAGCAGAAACGGCGTGGG 61.727 66.667 15.70 4.59 36.08 4.61
166 167 3.936203 AGCAGAAACGGCGTGGGA 61.936 61.111 15.70 0.00 36.08 4.37
167 168 3.423154 GCAGAAACGGCGTGGGAG 61.423 66.667 15.70 5.82 0.00 4.30
168 169 2.742372 CAGAAACGGCGTGGGAGG 60.742 66.667 15.70 0.00 0.00 4.30
169 170 4.016706 AGAAACGGCGTGGGAGGG 62.017 66.667 15.70 0.00 0.00 4.30
185 186 3.400188 GGGGGTCATTGGAGTCGT 58.600 61.111 0.00 0.00 0.00 4.34
187 188 1.221021 GGGGTCATTGGAGTCGTCC 59.779 63.158 0.00 0.00 44.24 4.79
196 197 2.494918 GAGTCGTCCATGGGGTCG 59.505 66.667 13.02 14.35 45.37 4.79
197 198 3.075005 AGTCGTCCATGGGGTCGG 61.075 66.667 13.02 0.00 44.35 4.79
233 234 2.959372 GCGGGCGCCTAAAAGTTT 59.041 55.556 28.56 0.00 34.56 2.66
234 235 1.154093 GCGGGCGCCTAAAAGTTTC 60.154 57.895 28.56 4.75 34.56 2.78
235 236 1.858372 GCGGGCGCCTAAAAGTTTCA 61.858 55.000 28.56 0.00 34.56 2.69
237 238 1.530323 GGGCGCCTAAAAGTTTCAGA 58.470 50.000 28.56 0.00 0.00 3.27
238 239 2.092323 GGGCGCCTAAAAGTTTCAGAT 58.908 47.619 28.56 0.00 0.00 2.90
239 240 2.492088 GGGCGCCTAAAAGTTTCAGATT 59.508 45.455 28.56 0.00 0.00 2.40
240 241 3.427638 GGGCGCCTAAAAGTTTCAGATTC 60.428 47.826 28.56 0.00 0.00 2.52
241 242 3.417185 GCGCCTAAAAGTTTCAGATTCG 58.583 45.455 0.00 0.00 0.00 3.34
242 243 3.727970 GCGCCTAAAAGTTTCAGATTCGG 60.728 47.826 0.00 0.00 0.00 4.30
243 244 3.727970 CGCCTAAAAGTTTCAGATTCGGC 60.728 47.826 0.00 0.00 0.00 5.54
244 245 3.727970 GCCTAAAAGTTTCAGATTCGGCG 60.728 47.826 0.00 0.00 0.00 6.46
247 248 1.892209 AAGTTTCAGATTCGGCGGTT 58.108 45.000 7.21 0.00 0.00 4.44
248 249 1.156736 AGTTTCAGATTCGGCGGTTG 58.843 50.000 7.21 0.57 0.00 3.77
249 250 0.168128 GTTTCAGATTCGGCGGTTGG 59.832 55.000 7.21 0.00 0.00 3.77
251 252 2.436646 CAGATTCGGCGGTTGGCT 60.437 61.111 7.21 0.00 42.94 4.75
258 259 4.025401 GGCGGTTGGCTGTTCACG 62.025 66.667 0.00 0.00 42.94 4.35
260 261 4.368808 CGGTTGGCTGTTCACGCG 62.369 66.667 3.53 3.53 0.00 6.01
261 262 4.683334 GGTTGGCTGTTCACGCGC 62.683 66.667 5.73 0.00 0.00 6.86
277 278 3.358707 GCGGCTGGGCGTTTTACA 61.359 61.111 17.09 0.00 0.00 2.41
279 280 1.427819 CGGCTGGGCGTTTTACATC 59.572 57.895 8.37 0.00 0.00 3.06
280 281 1.302383 CGGCTGGGCGTTTTACATCA 61.302 55.000 8.37 0.00 0.00 3.07
281 282 0.170339 GGCTGGGCGTTTTACATCAC 59.830 55.000 0.00 0.00 0.00 3.06
282 283 1.165270 GCTGGGCGTTTTACATCACT 58.835 50.000 0.00 0.00 0.00 3.41
284 285 2.351726 GCTGGGCGTTTTACATCACTAG 59.648 50.000 0.00 0.00 0.00 2.57
288 289 2.264813 GCGTTTTACATCACTAGGCGA 58.735 47.619 0.00 0.00 0.00 5.54
293 294 2.320745 TACATCACTAGGCGACTCGA 57.679 50.000 0.00 0.00 43.67 4.04
295 296 1.300481 CATCACTAGGCGACTCGAGA 58.700 55.000 21.68 0.00 43.67 4.04
296 297 1.876799 CATCACTAGGCGACTCGAGAT 59.123 52.381 21.68 0.00 43.67 2.75
297 298 1.300481 TCACTAGGCGACTCGAGATG 58.700 55.000 21.68 11.84 43.67 2.90
298 299 0.317436 CACTAGGCGACTCGAGATGC 60.317 60.000 21.68 20.85 43.67 3.91
299 300 0.748367 ACTAGGCGACTCGAGATGCA 60.748 55.000 26.35 12.38 43.67 3.96
300 301 0.382158 CTAGGCGACTCGAGATGCAA 59.618 55.000 26.35 16.68 43.67 4.08
301 302 0.815095 TAGGCGACTCGAGATGCAAA 59.185 50.000 26.35 15.45 43.67 3.68
302 303 0.176680 AGGCGACTCGAGATGCAAAT 59.823 50.000 26.35 14.17 32.90 2.32
303 304 1.009829 GGCGACTCGAGATGCAAATT 58.990 50.000 26.35 2.18 0.00 1.82
304 305 1.398390 GGCGACTCGAGATGCAAATTT 59.602 47.619 26.35 1.49 0.00 1.82
305 306 2.434761 GCGACTCGAGATGCAAATTTG 58.565 47.619 21.68 14.03 0.00 2.32
307 308 2.672874 CGACTCGAGATGCAAATTTGGA 59.327 45.455 21.68 17.40 0.00 3.53
308 309 3.310774 CGACTCGAGATGCAAATTTGGAT 59.689 43.478 23.31 23.31 42.18 3.41
327 328 6.817765 TGGATCTCCAAGTGTTGTATTTTC 57.182 37.500 0.00 0.00 44.35 2.29
328 329 6.303054 TGGATCTCCAAGTGTTGTATTTTCA 58.697 36.000 0.00 0.00 44.35 2.69
329 330 6.947733 TGGATCTCCAAGTGTTGTATTTTCAT 59.052 34.615 0.00 0.00 44.35 2.57
331 332 7.121168 GGATCTCCAAGTGTTGTATTTTCATCA 59.879 37.037 0.00 0.00 35.64 3.07
333 334 6.998074 TCTCCAAGTGTTGTATTTTCATCACT 59.002 34.615 5.07 5.07 44.81 3.41
337 338 7.581213 AAGTGTTGTATTTTCATCACTTGGA 57.419 32.000 16.83 0.00 46.88 3.53
338 339 7.206981 AGTGTTGTATTTTCATCACTTGGAG 57.793 36.000 5.07 0.00 42.18 3.86
339 340 6.207417 AGTGTTGTATTTTCATCACTTGGAGG 59.793 38.462 5.07 0.00 42.18 4.30
340 341 6.206634 GTGTTGTATTTTCATCACTTGGAGGA 59.793 38.462 0.00 0.00 36.03 3.71
342 343 5.500234 TGTATTTTCATCACTTGGAGGAGG 58.500 41.667 0.00 0.00 37.65 4.30
343 344 4.664688 ATTTTCATCACTTGGAGGAGGT 57.335 40.909 0.00 0.00 37.65 3.85
344 345 3.423539 TTTCATCACTTGGAGGAGGTG 57.576 47.619 0.00 0.00 37.65 4.00
345 346 2.325661 TCATCACTTGGAGGAGGTGA 57.674 50.000 0.00 0.00 42.85 4.02
348 349 2.030027 TCACTTGGAGGAGGTGATGT 57.970 50.000 0.00 0.00 35.44 3.06
349 350 3.184382 TCACTTGGAGGAGGTGATGTA 57.816 47.619 0.00 0.00 35.44 2.29
351 352 3.907474 TCACTTGGAGGAGGTGATGTAAA 59.093 43.478 0.00 0.00 35.44 2.01
353 354 5.070001 CACTTGGAGGAGGTGATGTAAAAA 58.930 41.667 0.00 0.00 33.32 1.94
354 355 5.711976 CACTTGGAGGAGGTGATGTAAAAAT 59.288 40.000 0.00 0.00 33.32 1.82
355 356 6.209391 CACTTGGAGGAGGTGATGTAAAAATT 59.791 38.462 0.00 0.00 33.32 1.82
356 357 6.782494 ACTTGGAGGAGGTGATGTAAAAATTT 59.218 34.615 0.00 0.00 0.00 1.82
357 358 7.947890 ACTTGGAGGAGGTGATGTAAAAATTTA 59.052 33.333 0.00 0.00 0.00 1.40
358 359 8.893563 TTGGAGGAGGTGATGTAAAAATTTAT 57.106 30.769 0.00 0.00 0.00 1.40
360 361 9.403583 TGGAGGAGGTGATGTAAAAATTTATAC 57.596 33.333 0.00 0.00 0.00 1.47
383 384 9.797642 ATACATCTACATCATTTATTGGAGCAA 57.202 29.630 0.00 0.00 0.00 3.91
384 385 7.934457 ACATCTACATCATTTATTGGAGCAAC 58.066 34.615 0.00 0.00 0.00 4.17
385 386 6.603237 TCTACATCATTTATTGGAGCAACG 57.397 37.500 0.00 0.00 0.00 4.10
386 387 6.112734 TCTACATCATTTATTGGAGCAACGT 58.887 36.000 0.00 0.00 0.00 3.99
387 388 5.643379 ACATCATTTATTGGAGCAACGTT 57.357 34.783 0.00 0.00 0.00 3.99
388 389 6.024552 ACATCATTTATTGGAGCAACGTTT 57.975 33.333 0.00 0.00 0.00 3.60
389 390 6.454795 ACATCATTTATTGGAGCAACGTTTT 58.545 32.000 0.00 0.00 0.00 2.43
390 391 6.928492 ACATCATTTATTGGAGCAACGTTTTT 59.072 30.769 0.00 0.00 0.00 1.94
409 410 5.878406 TTTTTGGCCTTGGAGATGTAAAA 57.122 34.783 3.32 0.00 0.00 1.52
410 411 5.878406 TTTTGGCCTTGGAGATGTAAAAA 57.122 34.783 3.32 0.00 0.00 1.94
523 6192 2.479566 ATGAAGATGCACTGACGGTT 57.520 45.000 0.00 0.00 0.00 4.44
529 6198 3.461061 AGATGCACTGACGGTTATCATG 58.539 45.455 9.82 0.00 0.00 3.07
531 6200 3.541996 TGCACTGACGGTTATCATGAT 57.458 42.857 13.81 13.81 0.00 2.45
532 6201 4.664150 TGCACTGACGGTTATCATGATA 57.336 40.909 11.49 11.49 0.00 2.15
533 6202 5.017294 TGCACTGACGGTTATCATGATAA 57.983 39.130 21.67 21.67 0.00 1.75
544 6213 9.403583 ACGGTTATCATGATAAACCATAAAAGT 57.596 29.630 29.33 19.59 37.62 2.66
643 6320 2.689471 ACATTGAACAGAGCAGCAAACA 59.311 40.909 0.00 0.00 0.00 2.83
672 6349 3.300590 GCAACGTAAATAACATGCAGCAC 59.699 43.478 0.00 0.00 39.30 4.40
783 6462 3.744660 ACAGCCTTCCTACTTTTCACAG 58.255 45.455 0.00 0.00 0.00 3.66
785 6464 2.040412 AGCCTTCCTACTTTTCACAGGG 59.960 50.000 0.00 0.00 0.00 4.45
833 6514 5.108517 CACACACAAACAAAAAGGCTGTAT 58.891 37.500 0.00 0.00 0.00 2.29
838 6519 7.867403 CACACAAACAAAAAGGCTGTATTATCT 59.133 33.333 0.00 0.00 0.00 1.98
894 6575 4.264713 ACCCACTCAGTTACACTACCCTAT 60.265 45.833 0.00 0.00 0.00 2.57
916 6597 9.431887 CCTATAAAAATATGTTCGCTTAGCCTA 57.568 33.333 0.00 0.00 0.00 3.93
966 11157 3.138283 TGCAAGTATATAAGCAAGGCCCT 59.862 43.478 0.00 0.00 33.48 5.19
967 11158 4.349636 TGCAAGTATATAAGCAAGGCCCTA 59.650 41.667 0.00 0.00 33.48 3.53
980 11172 0.612453 GGCCCTATCCCTCCTCTACG 60.612 65.000 0.00 0.00 0.00 3.51
1055 11250 8.502387 CCTCTCAATCTTTCACAAGAAAACTAG 58.498 37.037 0.00 0.00 42.53 2.57
1092 11287 1.760613 AGGTCTTTGTGGTCGTCTTCA 59.239 47.619 0.00 0.00 0.00 3.02
1232 11573 1.258445 CGTGTAGGCTTCCAGGGAGT 61.258 60.000 0.00 0.00 0.00 3.85
1353 11694 3.063197 TTTCCCCGGTGGCAAGTGT 62.063 57.895 0.00 0.00 0.00 3.55
1413 11754 2.222227 AGATGGCCCTGTTTTCTTCC 57.778 50.000 0.00 0.00 0.00 3.46
1450 11806 4.376413 GCTTCCGTGTAATATTGATCTGCG 60.376 45.833 0.00 0.00 0.00 5.18
1454 11810 4.745125 CCGTGTAATATTGATCTGCGTCTT 59.255 41.667 0.00 0.00 0.00 3.01
1467 11823 3.557185 TCTGCGTCTTTGCATGTATGATC 59.443 43.478 0.00 0.00 45.26 2.92
1552 12608 6.774656 ACCTCATCCATTAATTAAGCAGAAGG 59.225 38.462 3.94 8.41 0.00 3.46
1720 14259 4.494199 GCCAAAGACGATTATCGAACCAAG 60.494 45.833 21.93 6.80 43.74 3.61
1724 14279 2.540101 GACGATTATCGAACCAAGCCAG 59.460 50.000 21.93 0.00 43.74 4.85
1746 14301 4.586001 AGACTAAAAAGGTCGTGTGAGGTA 59.414 41.667 0.00 0.00 38.58 3.08
1781 14336 1.142748 GAGACCTCAGCCATCACGG 59.857 63.158 0.00 0.00 38.11 4.94
1803 14477 0.681733 AGACAACACAGCTCCGACAT 59.318 50.000 0.00 0.00 0.00 3.06
1906 14762 3.000819 CACAGGGCCCCGTCACTA 61.001 66.667 21.43 0.00 0.00 2.74
1909 14765 2.203877 AGGGCCCCGTCACTACAA 60.204 61.111 21.43 0.00 0.00 2.41
1912 14768 1.373812 GGCCCCGTCACTACAACTT 59.626 57.895 0.00 0.00 0.00 2.66
1913 14769 0.672711 GGCCCCGTCACTACAACTTC 60.673 60.000 0.00 0.00 0.00 3.01
1915 14771 0.599558 CCCCGTCACTACAACTTCGA 59.400 55.000 0.00 0.00 0.00 3.71
1916 14772 1.203994 CCCCGTCACTACAACTTCGAT 59.796 52.381 0.00 0.00 0.00 3.59
1917 14773 2.353406 CCCCGTCACTACAACTTCGATT 60.353 50.000 0.00 0.00 0.00 3.34
1918 14774 3.323243 CCCGTCACTACAACTTCGATTT 58.677 45.455 0.00 0.00 0.00 2.17
1919 14775 3.367025 CCCGTCACTACAACTTCGATTTC 59.633 47.826 0.00 0.00 0.00 2.17
1920 14776 3.985279 CCGTCACTACAACTTCGATTTCA 59.015 43.478 0.00 0.00 0.00 2.69
2065 14937 1.065410 AACCACCATCCACAGGTCCA 61.065 55.000 0.00 0.00 37.23 4.02
2072 14944 0.773644 ATCCACAGGTCCAGCTTGTT 59.226 50.000 0.00 0.00 35.03 2.83
2080 14952 1.675310 TCCAGCTTGTTGATGCCCG 60.675 57.895 0.00 0.00 0.00 6.13
2170 15168 4.745116 GGGTTTCCCTTGGAGCTC 57.255 61.111 4.71 4.71 41.34 4.09
2240 15240 0.396811 CCTCCAAGAAGGTCAACGGT 59.603 55.000 0.00 0.00 39.02 4.83
2308 15310 1.003580 GTCTTCACCCATGCTCCAGAA 59.996 52.381 0.00 0.00 0.00 3.02
2332 15344 1.302431 CTCCGCCACACATCAACCA 60.302 57.895 0.00 0.00 0.00 3.67
2333 15345 0.677731 CTCCGCCACACATCAACCAT 60.678 55.000 0.00 0.00 0.00 3.55
2363 15375 2.200337 GCAAGACCACCAACCCCAC 61.200 63.158 0.00 0.00 0.00 4.61
2468 15491 1.072331 GGCACCGGATCCATCAATAGT 59.928 52.381 9.46 0.00 0.00 2.12
2470 15493 2.677199 CACCGGATCCATCAATAGTCG 58.323 52.381 9.46 0.00 0.00 4.18
2489 15512 0.591741 GATCAGACGTAAGACCGCCG 60.592 60.000 0.00 0.00 43.62 6.46
2494 15517 2.275547 GACGTAAGACCGCCGGATGT 62.276 60.000 11.71 0.00 43.62 3.06
2502 15525 3.630148 CGCCGGATGTAGCGCAAG 61.630 66.667 11.47 0.00 46.50 4.01
2525 15548 4.269523 GCACCCCACTGAGCACCA 62.270 66.667 0.00 0.00 0.00 4.17
2526 15549 2.759114 CACCCCACTGAGCACCAT 59.241 61.111 0.00 0.00 0.00 3.55
2527 15550 1.676635 CACCCCACTGAGCACCATG 60.677 63.158 0.00 0.00 0.00 3.66
2528 15551 2.753043 CCCCACTGAGCACCATGC 60.753 66.667 0.00 0.00 45.46 4.06
2529 15552 2.753043 CCCACTGAGCACCATGCC 60.753 66.667 0.00 0.00 46.52 4.40
2530 15553 2.034532 CCACTGAGCACCATGCCA 59.965 61.111 0.00 0.00 46.52 4.92
2531 15554 2.044555 CCACTGAGCACCATGCCAG 61.045 63.158 14.07 14.07 46.52 4.85
2532 15555 2.360852 ACTGAGCACCATGCCAGC 60.361 61.111 15.04 0.00 46.52 4.85
2533 15556 2.360726 CTGAGCACCATGCCAGCA 60.361 61.111 0.00 0.00 46.52 4.41
2534 15557 2.674033 TGAGCACCATGCCAGCAC 60.674 61.111 0.00 0.24 46.52 4.40
2535 15558 3.807538 GAGCACCATGCCAGCACG 61.808 66.667 0.00 0.00 46.52 5.34
2536 15559 4.648626 AGCACCATGCCAGCACGT 62.649 61.111 0.00 0.00 46.52 4.49
2537 15560 2.745884 GCACCATGCCAGCACGTA 60.746 61.111 0.00 0.00 37.42 3.57
2538 15561 2.753966 GCACCATGCCAGCACGTAG 61.754 63.158 0.00 0.00 37.42 3.51
2540 15563 0.108377 CACCATGCCAGCACGTAGTA 60.108 55.000 0.00 0.00 41.61 1.82
2541 15564 0.175760 ACCATGCCAGCACGTAGTAG 59.824 55.000 0.00 0.00 41.61 2.57
2542 15565 0.459899 CCATGCCAGCACGTAGTAGA 59.540 55.000 0.00 0.00 41.61 2.59
2543 15566 1.536922 CCATGCCAGCACGTAGTAGAG 60.537 57.143 0.00 0.00 41.61 2.43
2544 15567 0.747255 ATGCCAGCACGTAGTAGAGG 59.253 55.000 0.00 0.00 41.61 3.69
2545 15568 0.323087 TGCCAGCACGTAGTAGAGGA 60.323 55.000 0.00 0.00 41.61 3.71
2546 15569 0.382515 GCCAGCACGTAGTAGAGGAG 59.617 60.000 0.00 0.00 41.61 3.69
2547 15570 0.382515 CCAGCACGTAGTAGAGGAGC 59.617 60.000 0.00 0.00 41.61 4.70
2548 15571 0.028242 CAGCACGTAGTAGAGGAGCG 59.972 60.000 0.00 0.00 41.61 5.03
2549 15572 1.298488 GCACGTAGTAGAGGAGCGC 60.298 63.158 0.00 0.00 41.61 5.92
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 45 2.750350 CCCAGTTTCGCCTCACCT 59.250 61.111 0.00 0.00 0.00 4.00
65 66 2.692368 ATGTCGCCCCCATCCTGT 60.692 61.111 0.00 0.00 0.00 4.00
90 91 4.016706 CTTCACCGACCCCGCCTT 62.017 66.667 0.00 0.00 0.00 4.35
95 96 2.826003 AACCACCTTCACCGACCCC 61.826 63.158 0.00 0.00 0.00 4.95
96 97 1.599797 CAACCACCTTCACCGACCC 60.600 63.158 0.00 0.00 0.00 4.46
97 98 2.258726 GCAACCACCTTCACCGACC 61.259 63.158 0.00 0.00 0.00 4.79
98 99 2.604174 CGCAACCACCTTCACCGAC 61.604 63.158 0.00 0.00 0.00 4.79
99 100 2.280524 CGCAACCACCTTCACCGA 60.281 61.111 0.00 0.00 0.00 4.69
100 101 4.025401 GCGCAACCACCTTCACCG 62.025 66.667 0.30 0.00 0.00 4.94
101 102 2.904866 TGCGCAACCACCTTCACC 60.905 61.111 8.16 0.00 0.00 4.02
102 103 2.639286 CTGCGCAACCACCTTCAC 59.361 61.111 13.05 0.00 0.00 3.18
103 104 2.594303 CCTGCGCAACCACCTTCA 60.594 61.111 13.05 0.00 0.00 3.02
126 127 3.426568 GAACCACCTCGCTGCAGC 61.427 66.667 29.12 29.12 37.78 5.25
127 128 2.031012 TGAACCACCTCGCTGCAG 59.969 61.111 10.11 10.11 0.00 4.41
128 129 2.031012 CTGAACCACCTCGCTGCA 59.969 61.111 0.00 0.00 0.00 4.41
129 130 2.029844 GTCTGAACCACCTCGCTGC 61.030 63.158 0.00 0.00 0.00 5.25
130 131 1.374758 GGTCTGAACCACCTCGCTG 60.375 63.158 0.00 0.00 45.68 5.18
131 132 3.060866 GGTCTGAACCACCTCGCT 58.939 61.111 0.00 0.00 45.68 4.93
139 140 0.868406 CGTTTCTGCTGGTCTGAACC 59.132 55.000 0.00 0.00 46.66 3.62
140 141 0.868406 CCGTTTCTGCTGGTCTGAAC 59.132 55.000 0.00 0.00 33.23 3.18
141 142 0.884704 GCCGTTTCTGCTGGTCTGAA 60.885 55.000 0.00 0.00 0.00 3.02
142 143 1.301716 GCCGTTTCTGCTGGTCTGA 60.302 57.895 0.00 0.00 0.00 3.27
144 145 2.357517 CGCCGTTTCTGCTGGTCT 60.358 61.111 0.00 0.00 0.00 3.85
147 148 3.726517 CCACGCCGTTTCTGCTGG 61.727 66.667 0.00 0.00 0.00 4.85
148 149 3.726517 CCCACGCCGTTTCTGCTG 61.727 66.667 0.00 0.00 0.00 4.41
149 150 3.883744 CTCCCACGCCGTTTCTGCT 62.884 63.158 0.00 0.00 0.00 4.24
150 151 3.423154 CTCCCACGCCGTTTCTGC 61.423 66.667 0.00 0.00 0.00 4.26
151 152 2.742372 CCTCCCACGCCGTTTCTG 60.742 66.667 0.00 0.00 0.00 3.02
152 153 4.016706 CCCTCCCACGCCGTTTCT 62.017 66.667 0.00 0.00 0.00 2.52
168 169 1.221021 GACGACTCCAATGACCCCC 59.779 63.158 0.00 0.00 0.00 5.40
169 170 1.221021 GGACGACTCCAATGACCCC 59.779 63.158 0.00 0.00 36.42 4.95
170 171 1.980052 TGGACGACTCCAATGACCC 59.020 57.895 0.00 0.00 44.26 4.46
178 179 2.901042 GACCCCATGGACGACTCC 59.099 66.667 15.22 0.00 37.04 3.85
216 217 1.154093 GAAACTTTTAGGCGCCCGC 60.154 57.895 26.15 3.71 41.06 6.13
217 218 0.168128 CTGAAACTTTTAGGCGCCCG 59.832 55.000 26.15 9.34 0.00 6.13
219 220 3.727970 CGAATCTGAAACTTTTAGGCGCC 60.728 47.826 21.89 21.89 0.00 6.53
222 223 3.727970 CGCCGAATCTGAAACTTTTAGGC 60.728 47.826 3.01 3.01 37.65 3.93
223 224 3.181510 CCGCCGAATCTGAAACTTTTAGG 60.182 47.826 0.00 0.00 0.00 2.69
225 226 3.404899 ACCGCCGAATCTGAAACTTTTA 58.595 40.909 0.00 0.00 0.00 1.52
227 228 1.892209 ACCGCCGAATCTGAAACTTT 58.108 45.000 0.00 0.00 0.00 2.66
229 230 1.156736 CAACCGCCGAATCTGAAACT 58.843 50.000 0.00 0.00 0.00 2.66
230 231 0.168128 CCAACCGCCGAATCTGAAAC 59.832 55.000 0.00 0.00 0.00 2.78
231 232 1.582610 GCCAACCGCCGAATCTGAAA 61.583 55.000 0.00 0.00 0.00 2.69
232 233 2.038269 GCCAACCGCCGAATCTGAA 61.038 57.895 0.00 0.00 0.00 3.02
233 234 2.435938 GCCAACCGCCGAATCTGA 60.436 61.111 0.00 0.00 0.00 3.27
234 235 2.436646 AGCCAACCGCCGAATCTG 60.437 61.111 0.00 0.00 38.78 2.90
235 236 2.436646 CAGCCAACCGCCGAATCT 60.437 61.111 0.00 0.00 38.78 2.40
237 238 2.282180 AACAGCCAACCGCCGAAT 60.282 55.556 0.00 0.00 38.78 3.34
238 239 2.975799 GAACAGCCAACCGCCGAA 60.976 61.111 0.00 0.00 38.78 4.30
239 240 4.243008 TGAACAGCCAACCGCCGA 62.243 61.111 0.00 0.00 38.78 5.54
240 241 4.025401 GTGAACAGCCAACCGCCG 62.025 66.667 0.00 0.00 38.78 6.46
241 242 4.025401 CGTGAACAGCCAACCGCC 62.025 66.667 0.00 0.00 38.78 6.13
242 243 4.683334 GCGTGAACAGCCAACCGC 62.683 66.667 0.00 0.00 37.98 5.68
243 244 4.368808 CGCGTGAACAGCCAACCG 62.369 66.667 0.00 0.00 0.00 4.44
244 245 4.683334 GCGCGTGAACAGCCAACC 62.683 66.667 8.43 0.00 0.00 3.77
260 261 2.592623 GATGTAAAACGCCCAGCCGC 62.593 60.000 0.00 0.00 0.00 6.53
261 262 1.302383 TGATGTAAAACGCCCAGCCG 61.302 55.000 0.00 0.00 0.00 5.52
263 264 1.165270 AGTGATGTAAAACGCCCAGC 58.835 50.000 0.00 0.00 0.00 4.85
264 265 2.936498 CCTAGTGATGTAAAACGCCCAG 59.064 50.000 0.00 0.00 0.00 4.45
265 266 2.937873 GCCTAGTGATGTAAAACGCCCA 60.938 50.000 0.00 0.00 0.00 5.36
266 267 1.669265 GCCTAGTGATGTAAAACGCCC 59.331 52.381 0.00 0.00 0.00 6.13
267 268 1.326548 CGCCTAGTGATGTAAAACGCC 59.673 52.381 0.00 0.00 0.00 5.68
268 269 2.028883 GTCGCCTAGTGATGTAAAACGC 59.971 50.000 0.00 0.00 0.00 4.84
270 271 3.546670 CGAGTCGCCTAGTGATGTAAAAC 59.453 47.826 0.00 0.00 0.00 2.43
272 273 3.011818 TCGAGTCGCCTAGTGATGTAAA 58.988 45.455 7.92 0.00 0.00 2.01
273 274 2.612672 CTCGAGTCGCCTAGTGATGTAA 59.387 50.000 7.92 0.00 0.00 2.41
274 275 2.159000 TCTCGAGTCGCCTAGTGATGTA 60.159 50.000 13.13 0.00 0.00 2.29
275 276 1.018148 CTCGAGTCGCCTAGTGATGT 58.982 55.000 7.92 0.00 0.00 3.06
276 277 1.300481 TCTCGAGTCGCCTAGTGATG 58.700 55.000 13.13 0.00 0.00 3.07
277 278 1.876799 CATCTCGAGTCGCCTAGTGAT 59.123 52.381 13.13 1.96 29.95 3.06
279 280 0.317436 GCATCTCGAGTCGCCTAGTG 60.317 60.000 13.13 3.51 0.00 2.74
280 281 0.748367 TGCATCTCGAGTCGCCTAGT 60.748 55.000 20.74 0.00 0.00 2.57
281 282 0.382158 TTGCATCTCGAGTCGCCTAG 59.618 55.000 20.74 0.00 0.00 3.02
282 283 0.815095 TTTGCATCTCGAGTCGCCTA 59.185 50.000 20.74 10.11 0.00 3.93
284 285 1.009829 AATTTGCATCTCGAGTCGCC 58.990 50.000 20.74 7.13 0.00 5.54
288 289 4.521146 AGATCCAAATTTGCATCTCGAGT 58.479 39.130 17.29 0.00 0.00 4.18
290 291 3.879295 GGAGATCCAAATTTGCATCTCGA 59.121 43.478 31.66 16.82 41.51 4.04
304 305 6.303054 TGAAAATACAACACTTGGAGATCCA 58.697 36.000 0.00 0.00 45.94 3.41
305 306 6.817765 TGAAAATACAACACTTGGAGATCC 57.182 37.500 0.00 0.00 34.12 3.36
307 308 7.667219 AGTGATGAAAATACAACACTTGGAGAT 59.333 33.333 0.00 0.00 46.33 2.75
308 309 6.998074 AGTGATGAAAATACAACACTTGGAGA 59.002 34.615 0.00 0.00 46.33 3.71
309 310 7.206981 AGTGATGAAAATACAACACTTGGAG 57.793 36.000 0.00 0.00 46.33 3.86
315 316 6.206634 TCCTCCAAGTGATGAAAATACAACAC 59.793 38.462 0.00 0.00 41.56 3.32
316 317 6.303054 TCCTCCAAGTGATGAAAATACAACA 58.697 36.000 0.00 0.00 0.00 3.33
319 320 5.014123 ACCTCCTCCAAGTGATGAAAATACA 59.986 40.000 0.00 0.00 0.00 2.29
321 322 5.250543 TCACCTCCTCCAAGTGATGAAAATA 59.749 40.000 0.00 0.00 35.67 1.40
323 324 3.394274 TCACCTCCTCCAAGTGATGAAAA 59.606 43.478 0.00 0.00 35.67 2.29
324 325 2.978978 TCACCTCCTCCAAGTGATGAAA 59.021 45.455 0.00 0.00 35.67 2.69
325 326 2.619931 TCACCTCCTCCAAGTGATGAA 58.380 47.619 0.00 0.00 35.67 2.57
326 327 2.325661 TCACCTCCTCCAAGTGATGA 57.674 50.000 0.00 0.00 35.67 2.92
329 330 2.030027 ACATCACCTCCTCCAAGTGA 57.970 50.000 0.00 0.00 44.11 3.41
331 332 4.993705 TTTTACATCACCTCCTCCAAGT 57.006 40.909 0.00 0.00 0.00 3.16
333 334 8.893563 ATAAATTTTTACATCACCTCCTCCAA 57.106 30.769 0.00 0.00 0.00 3.53
334 335 9.403583 GTATAAATTTTTACATCACCTCCTCCA 57.596 33.333 12.30 0.00 0.00 3.86
357 358 9.797642 TTGCTCCAATAAATGATGTAGATGTAT 57.202 29.630 0.00 0.00 0.00 2.29
358 359 9.056005 GTTGCTCCAATAAATGATGTAGATGTA 57.944 33.333 0.00 0.00 0.00 2.29
360 361 7.073883 CGTTGCTCCAATAAATGATGTAGATG 58.926 38.462 0.00 0.00 0.00 2.90
364 365 6.751514 AACGTTGCTCCAATAAATGATGTA 57.248 33.333 0.00 0.00 0.00 2.29
365 366 5.643379 AACGTTGCTCCAATAAATGATGT 57.357 34.783 0.00 0.00 0.00 3.06
387 388 5.878406 TTTTACATCTCCAAGGCCAAAAA 57.122 34.783 5.01 0.00 0.00 1.94
388 389 5.878406 TTTTTACATCTCCAAGGCCAAAA 57.122 34.783 5.01 0.00 0.00 2.44
419 420 9.875691 GCTCCAATACATGATGTAGATGTATAA 57.124 33.333 11.32 0.00 43.26 0.98
421 422 7.910584 TGCTCCAATACATGATGTAGATGTAT 58.089 34.615 11.32 0.00 45.06 2.29
430 2719 4.621068 AACGTTGCTCCAATACATGATG 57.379 40.909 0.00 0.00 0.00 3.07
507 4077 3.610040 TGATAACCGTCAGTGCATCTT 57.390 42.857 0.00 0.00 0.00 2.40
514 6183 5.984725 TGGTTTATCATGATAACCGTCAGT 58.015 37.500 24.55 0.00 33.40 3.41
529 6198 7.038154 TGCCTATGCACTTTTATGGTTTATC 57.962 36.000 0.00 0.00 44.23 1.75
643 6320 7.702386 TGCATGTTATTTACGTTGCTGATATT 58.298 30.769 0.00 0.00 38.57 1.28
759 6438 4.134563 GTGAAAAGTAGGAAGGCTGTCAA 58.865 43.478 0.00 0.00 0.00 3.18
762 6441 3.496870 CCTGTGAAAAGTAGGAAGGCTGT 60.497 47.826 0.00 0.00 33.33 4.40
833 6514 4.015872 ACCCGCAAGAAAACAGAGATAA 57.984 40.909 0.00 0.00 43.02 1.75
838 6519 2.103432 TGAGTACCCGCAAGAAAACAGA 59.897 45.455 0.00 0.00 43.02 3.41
894 6575 8.951787 TTCTAGGCTAAGCGAACATATTTTTA 57.048 30.769 0.00 0.00 0.00 1.52
916 6597 4.993584 CACGCATATATCTTCCTTGCTTCT 59.006 41.667 0.00 0.00 0.00 2.85
966 11157 3.139584 TGGATGAACGTAGAGGAGGGATA 59.860 47.826 0.00 0.00 0.00 2.59
967 11158 2.091278 TGGATGAACGTAGAGGAGGGAT 60.091 50.000 0.00 0.00 0.00 3.85
980 11172 7.446319 TCAAGATGGATTGTATGATGGATGAAC 59.554 37.037 0.00 0.00 0.00 3.18
1092 11287 1.303888 CTGTGGCCACAAGGAGCAT 60.304 57.895 36.71 0.00 41.33 3.79
1221 11562 0.539051 CCTGCACTACTCCCTGGAAG 59.461 60.000 0.00 0.00 0.00 3.46
1232 11573 0.391130 CGCCAAAGCTACCTGCACTA 60.391 55.000 0.00 0.00 45.94 2.74
1344 11685 1.514678 GAATGCCGTCACACTTGCCA 61.515 55.000 0.00 0.00 0.00 4.92
1413 11754 2.223735 ACGGAAGCATGTACGTATCCAG 60.224 50.000 10.42 6.32 37.85 3.86
1450 11806 7.173735 TCACATATGGATCATACATGCAAAGAC 59.826 37.037 7.80 0.00 0.00 3.01
1454 11810 6.428771 CACTCACATATGGATCATACATGCAA 59.571 38.462 7.80 0.00 0.00 4.08
1467 11823 4.219507 CCTAGAGGTAGCACTCACATATGG 59.780 50.000 7.80 0.00 39.97 2.74
1502 11858 5.873179 ATCTTTTGCCTTCGTTTCGAATA 57.127 34.783 0.00 0.00 44.85 1.75
1552 12608 4.953579 TCCATTAATTAACTGGGCAACTCC 59.046 41.667 18.59 0.00 0.00 3.85
1720 14259 2.223377 CACACGACCTTTTTAGTCTGGC 59.777 50.000 0.00 0.00 31.83 4.85
1724 14279 3.725490 ACCTCACACGACCTTTTTAGTC 58.275 45.455 0.00 0.00 0.00 2.59
1746 14301 1.204704 TCTCGCACGGATCTTCATGTT 59.795 47.619 0.00 0.00 0.00 2.71
1781 14336 0.032130 TCGGAGCTGTGTTGTCTCAC 59.968 55.000 0.00 0.00 38.63 3.51
1803 14477 0.725686 CCTTCGTAGCTCTTCGTCGA 59.274 55.000 0.00 0.00 0.00 4.20
1901 14757 6.394809 TGCTATGAAATCGAAGTTGTAGTGA 58.605 36.000 0.00 0.00 0.00 3.41
1906 14762 5.940192 TGTTGCTATGAAATCGAAGTTGT 57.060 34.783 0.00 0.00 0.00 3.32
1909 14765 5.240623 TGGTTTGTTGCTATGAAATCGAAGT 59.759 36.000 0.00 0.00 0.00 3.01
1912 14768 4.379394 GCTGGTTTGTTGCTATGAAATCGA 60.379 41.667 0.00 0.00 0.00 3.59
1913 14769 3.853671 GCTGGTTTGTTGCTATGAAATCG 59.146 43.478 0.00 0.00 0.00 3.34
1915 14771 3.367292 CGGCTGGTTTGTTGCTATGAAAT 60.367 43.478 0.00 0.00 0.00 2.17
1916 14772 2.030363 CGGCTGGTTTGTTGCTATGAAA 60.030 45.455 0.00 0.00 0.00 2.69
1917 14773 1.539388 CGGCTGGTTTGTTGCTATGAA 59.461 47.619 0.00 0.00 0.00 2.57
1918 14774 1.164411 CGGCTGGTTTGTTGCTATGA 58.836 50.000 0.00 0.00 0.00 2.15
1919 14775 1.131126 CTCGGCTGGTTTGTTGCTATG 59.869 52.381 0.00 0.00 0.00 2.23
1920 14776 1.453155 CTCGGCTGGTTTGTTGCTAT 58.547 50.000 0.00 0.00 0.00 2.97
2065 14937 3.064324 GCCGGGCATCAACAAGCT 61.064 61.111 15.62 0.00 0.00 3.74
2072 14944 1.925285 ATCTTTGGAGCCGGGCATCA 61.925 55.000 23.09 15.61 0.00 3.07
2170 15168 2.021068 ATGGATCTGGTCGTCGCTGG 62.021 60.000 0.00 0.00 0.00 4.85
2308 15310 2.748058 GATGTGTGGCGGAGGGTGTT 62.748 60.000 0.00 0.00 0.00 3.32
2332 15344 3.055719 CTTGCCGGCGTTGGTGAT 61.056 61.111 23.90 0.00 0.00 3.06
2333 15345 4.243008 TCTTGCCGGCGTTGGTGA 62.243 61.111 23.90 10.18 0.00 4.02
2426 15449 4.666253 GCTGGTGGAGCTTGGCCA 62.666 66.667 0.00 0.00 45.21 5.36
2434 15457 4.007644 TGCCTCGTGCTGGTGGAG 62.008 66.667 1.74 0.00 42.00 3.86
2435 15458 4.314440 GTGCCTCGTGCTGGTGGA 62.314 66.667 1.74 0.00 42.00 4.02
2468 15491 0.376152 GCGGTCTTACGTCTGATCGA 59.624 55.000 22.01 0.00 38.91 3.59
2470 15493 0.591741 CGGCGGTCTTACGTCTGATC 60.592 60.000 0.00 0.00 36.09 2.92
2477 15500 0.317603 CTACATCCGGCGGTCTTACG 60.318 60.000 27.32 11.19 0.00 3.18
2481 15504 3.900892 CGCTACATCCGGCGGTCT 61.901 66.667 27.32 12.08 46.42 3.85
2489 15512 2.711924 GCAGCTTGCGCTACATCC 59.288 61.111 9.73 0.00 46.99 3.51
2508 15531 3.574074 ATGGTGCTCAGTGGGGTGC 62.574 63.158 0.00 0.00 0.00 5.01
2509 15532 1.676635 CATGGTGCTCAGTGGGGTG 60.677 63.158 0.00 0.00 0.00 4.61
2510 15533 2.759114 CATGGTGCTCAGTGGGGT 59.241 61.111 0.00 0.00 0.00 4.95
2511 15534 2.753043 GCATGGTGCTCAGTGGGG 60.753 66.667 0.00 0.00 40.96 4.96
2512 15535 2.753043 GGCATGGTGCTCAGTGGG 60.753 66.667 1.64 0.00 44.28 4.61
2513 15536 2.034532 TGGCATGGTGCTCAGTGG 59.965 61.111 1.64 0.00 44.28 4.00
2514 15537 2.697761 GCTGGCATGGTGCTCAGTG 61.698 63.158 16.26 0.00 44.28 3.66
2515 15538 2.360852 GCTGGCATGGTGCTCAGT 60.361 61.111 16.26 0.00 44.28 3.41
2516 15539 2.360726 TGCTGGCATGGTGCTCAG 60.361 61.111 12.85 12.85 44.28 3.35
2517 15540 2.674033 GTGCTGGCATGGTGCTCA 60.674 61.111 0.00 0.00 44.28 4.26
2518 15541 3.807538 CGTGCTGGCATGGTGCTC 61.808 66.667 6.87 0.00 44.28 4.26
2519 15542 3.252627 TACGTGCTGGCATGGTGCT 62.253 57.895 17.43 1.20 44.28 4.40
2520 15543 2.745884 TACGTGCTGGCATGGTGC 60.746 61.111 17.43 0.00 44.08 5.01
2521 15544 0.108377 TACTACGTGCTGGCATGGTG 60.108 55.000 17.43 11.94 37.27 4.17
2522 15545 0.175760 CTACTACGTGCTGGCATGGT 59.824 55.000 17.43 12.03 37.27 3.55
2523 15546 0.459899 TCTACTACGTGCTGGCATGG 59.540 55.000 17.43 7.26 37.27 3.66
2524 15547 1.536922 CCTCTACTACGTGCTGGCATG 60.537 57.143 12.54 12.54 38.78 4.06
2525 15548 0.747255 CCTCTACTACGTGCTGGCAT 59.253 55.000 0.00 0.00 0.00 4.40
2526 15549 0.323087 TCCTCTACTACGTGCTGGCA 60.323 55.000 0.00 0.00 0.00 4.92
2527 15550 0.382515 CTCCTCTACTACGTGCTGGC 59.617 60.000 0.00 0.00 0.00 4.85
2528 15551 0.382515 GCTCCTCTACTACGTGCTGG 59.617 60.000 0.00 0.00 0.00 4.85
2529 15552 0.028242 CGCTCCTCTACTACGTGCTG 59.972 60.000 0.00 0.00 0.00 4.41
2530 15553 1.716826 GCGCTCCTCTACTACGTGCT 61.717 60.000 0.00 0.00 0.00 4.40
2531 15554 1.298488 GCGCTCCTCTACTACGTGC 60.298 63.158 0.00 0.00 0.00 5.34


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

AutoCloner maintained by Alex Coulton.