Multiple sequence alignment - TraesCS2D01G569700

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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 TraesCS2D01G569700 chr2D 100.000 2963 0 0 1 2963 637423912 637420950 0.000000e+00 5472
1 TraesCS2D01G569700 chr2D 81.738 564 56 30 201 758 577522453 577522975 7.590000e-116 427
2 TraesCS2D01G569700 chr2D 79.004 462 53 27 201 657 131967173 131966751 2.910000e-70 276
3 TraesCS2D01G569700 chr2D 96.364 165 4 1 2489 2653 637391019 637390857 1.350000e-68 270
4 TraesCS2D01G569700 chr2A 85.691 1838 121 61 609 2362 762644951 762646730 0.000000e+00 1807
5 TraesCS2D01G569700 chr2A 89.453 256 24 2 1 253 762644443 762644698 1.330000e-83 320
6 TraesCS2D01G569700 chr2A 80.769 312 55 3 2656 2963 353482673 353482983 3.820000e-59 239
7 TraesCS2D01G569700 chr2A 79.412 238 35 8 1853 2087 762722230 762722456 3.950000e-34 156
8 TraesCS2D01G569700 chrUn 84.165 1863 125 72 588 2354 234386359 234388147 0.000000e+00 1650
9 TraesCS2D01G569700 chrUn 85.091 550 45 15 4 547 234385506 234386024 7.270000e-146 527
10 TraesCS2D01G569700 chrUn 85.371 499 47 8 2489 2963 39590420 39590916 7.380000e-136 494
11 TraesCS2D01G569700 chrUn 93.220 177 11 1 2489 2665 39595704 39595879 2.930000e-65 259
12 TraesCS2D01G569700 chrUn 93.617 94 3 2 2376 2469 234388222 234388312 1.430000e-28 137
13 TraesCS2D01G569700 chr5D 89.648 483 42 2 2489 2963 204284086 204284568 2.530000e-170 608
14 TraesCS2D01G569700 chr5D 79.654 462 50 28 201 657 444011028 444010606 2.890000e-75 292
15 TraesCS2D01G569700 chr5D 83.168 303 24 16 359 657 507902487 507902208 4.900000e-63 252
16 TraesCS2D01G569700 chr4D 86.785 507 34 22 2489 2963 478098822 478099327 4.350000e-148 534
17 TraesCS2D01G569700 chr4D 88.889 261 23 5 2489 2745 47982461 47982719 1.710000e-82 316
18 TraesCS2D01G569700 chr4D 86.555 119 6 6 548 657 373890991 373891108 4.010000e-24 122
19 TraesCS2D01G569700 chr1D 83.202 506 46 21 2489 2963 33961610 33962107 7.590000e-116 427
20 TraesCS2D01G569700 chr1D 79.221 462 52 28 201 657 120851759 120851337 6.250000e-72 281
21 TraesCS2D01G569700 chr1D 83.775 302 25 13 359 657 5743837 5743557 6.300000e-67 265
22 TraesCS2D01G569700 chr7D 80.492 569 55 32 201 758 620009756 620010279 4.630000e-103 385
23 TraesCS2D01G569700 chr6D 86.817 311 38 1 2656 2963 395366984 395367294 7.860000e-91 344
24 TraesCS2D01G569700 chr3A 79.002 481 83 15 2489 2961 534336559 534337029 2.220000e-81 313
25 TraesCS2D01G569700 chr3A 85.374 294 40 1 2656 2946 358289670 358289377 4.800000e-78 302
26 TraesCS2D01G569700 chr3A 91.489 188 11 4 359 543 731329662 731329477 1.360000e-63 254
27 TraesCS2D01G569700 chr7A 84.731 334 19 20 2489 2790 192882937 192883270 3.710000e-79 305
28 TraesCS2D01G569700 chr7A 83.775 302 23 15 359 657 178997028 178996750 2.260000e-66 263
29 TraesCS2D01G569700 chr1A 85.417 288 38 4 2504 2787 123052922 123052635 2.230000e-76 296
30 TraesCS2D01G569700 chr5B 83.175 315 47 6 2653 2963 146262690 146262378 1.740000e-72 283
31 TraesCS2D01G569700 chr4A 78.747 447 47 31 218 657 201030599 201030194 3.790000e-64 255
32 TraesCS2D01G569700 chr7B 86.441 118 7 6 548 657 248170619 248170735 1.440000e-23 121


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 TraesCS2D01G569700 chr2D 637420950 637423912 2962 True 5472.000000 5472 100.000000 1 2963 1 chr2D.!!$R3 2962
1 TraesCS2D01G569700 chr2D 577522453 577522975 522 False 427.000000 427 81.738000 201 758 1 chr2D.!!$F1 557
2 TraesCS2D01G569700 chr2A 762644443 762646730 2287 False 1063.500000 1807 87.572000 1 2362 2 chr2A.!!$F3 2361
3 TraesCS2D01G569700 chrUn 234385506 234388312 2806 False 771.333333 1650 87.624333 4 2469 3 chrUn.!!$F3 2465
4 TraesCS2D01G569700 chr4D 478098822 478099327 505 False 534.000000 534 86.785000 2489 2963 1 chr4D.!!$F3 474
5 TraesCS2D01G569700 chr7D 620009756 620010279 523 False 385.000000 385 80.492000 201 758 1 chr7D.!!$F1 557

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
326 336 0.610232 GAGCTGGCCACCAACATCTT 60.610 55.0 0.0 0.0 30.8 2.40 F
908 1283 0.634465 GGAGGAGGAGGAGAAGGAGT 59.366 60.0 0.0 0.0 0.0 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1195 1576 0.036952 CCGATTGTCAGGTGTGAGCT 60.037 55.0 0.0 0.0 31.53 4.09 R
2684 3259 0.115745 TGTAGGGAAACGAGGGAGGT 59.884 55.0 0.0 0.0 0.00 3.85 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
47 48 3.492337 ACTTCAGAGAGACCGTCTTCTT 58.508 45.455 1.71 0.00 34.71 2.52
51 52 0.806241 GAGAGACCGTCTTCTTCGCT 59.194 55.000 1.71 0.00 34.71 4.93
89 90 1.614317 CCAGCAAAACTTCCGAGGGAT 60.614 52.381 0.00 0.00 0.00 3.85
97 98 1.103803 CTTCCGAGGGATCGTCTTCA 58.896 55.000 0.00 0.00 0.00 3.02
124 125 1.065418 CCCCAAGCGAGGTTAAGTGAT 60.065 52.381 0.00 0.00 0.00 3.06
127 128 2.932614 CCAAGCGAGGTTAAGTGATCTG 59.067 50.000 0.00 0.00 0.00 2.90
130 131 1.207329 GCGAGGTTAAGTGATCTGGGT 59.793 52.381 0.00 0.00 0.00 4.51
262 272 2.320781 CCACTAGTGCACCCTATAGCT 58.679 52.381 17.86 0.00 0.00 3.32
287 297 1.209990 AGCTCTTGATTGAGGCTGAGG 59.790 52.381 0.00 0.00 34.82 3.86
293 303 2.923121 TGATTGAGGCTGAGGTTATGC 58.077 47.619 0.00 0.00 0.00 3.14
304 314 5.227238 CTGAGGTTATGCAGCAAGTAAAG 57.773 43.478 0.00 0.00 0.00 1.85
305 315 4.651778 TGAGGTTATGCAGCAAGTAAAGT 58.348 39.130 0.00 0.00 0.00 2.66
306 316 5.070001 TGAGGTTATGCAGCAAGTAAAGTT 58.930 37.500 0.00 0.00 0.00 2.66
307 317 5.048782 TGAGGTTATGCAGCAAGTAAAGTTG 60.049 40.000 0.00 0.00 0.00 3.16
308 318 5.070001 AGGTTATGCAGCAAGTAAAGTTGA 58.930 37.500 0.00 0.00 0.00 3.18
309 319 5.182001 AGGTTATGCAGCAAGTAAAGTTGAG 59.818 40.000 0.00 0.00 0.00 3.02
310 320 3.565905 ATGCAGCAAGTAAAGTTGAGC 57.434 42.857 0.00 5.37 33.24 4.26
311 321 2.575532 TGCAGCAAGTAAAGTTGAGCT 58.424 42.857 0.00 0.00 33.58 4.09
326 336 0.610232 GAGCTGGCCACCAACATCTT 60.610 55.000 0.00 0.00 30.80 2.40
327 337 0.698238 AGCTGGCCACCAACATCTTA 59.302 50.000 0.00 0.00 30.80 2.10
328 338 0.811281 GCTGGCCACCAACATCTTAC 59.189 55.000 0.00 0.00 30.80 2.34
330 340 2.726821 CTGGCCACCAACATCTTACAT 58.273 47.619 0.00 0.00 30.80 2.29
331 341 2.684881 CTGGCCACCAACATCTTACATC 59.315 50.000 0.00 0.00 30.80 3.06
332 342 2.308570 TGGCCACCAACATCTTACATCT 59.691 45.455 0.00 0.00 0.00 2.90
333 343 2.684881 GGCCACCAACATCTTACATCTG 59.315 50.000 0.00 0.00 0.00 2.90
342 352 7.387948 ACCAACATCTTACATCTGTGAAGTTAC 59.612 37.037 0.00 0.00 0.00 2.50
355 365 4.439057 GTGAAGTTACTCCACAGTTCACA 58.561 43.478 12.80 0.00 46.26 3.58
380 401 5.832060 TGGCCCATGAAAATGAAAATTTTGT 59.168 32.000 8.47 0.00 34.24 2.83
389 410 9.985318 TGAAAATGAAAATTTTGTTTGCTGTAG 57.015 25.926 8.47 0.00 34.24 2.74
578 610 8.284945 AGCAGCATTTTTAGATGATTGTTAGA 57.715 30.769 0.00 0.00 0.00 2.10
579 611 8.910944 AGCAGCATTTTTAGATGATTGTTAGAT 58.089 29.630 0.00 0.00 0.00 1.98
581 613 8.965172 CAGCATTTTTAGATGATTGTTAGATGC 58.035 33.333 0.00 0.00 36.25 3.91
585 942 8.593945 TTTTTAGATGATTGTTAGATGCCCTT 57.406 30.769 0.00 0.00 0.00 3.95
586 943 9.693739 TTTTTAGATGATTGTTAGATGCCCTTA 57.306 29.630 0.00 0.00 0.00 2.69
598 955 3.203040 AGATGCCCTTAATGTAGCTGGTT 59.797 43.478 0.00 0.00 0.00 3.67
644 1004 2.452116 CCTTGGTGTCAGTGAGGGA 58.548 57.895 0.00 0.00 0.00 4.20
653 1013 1.073923 GTCAGTGAGGGAATTGGGTGT 59.926 52.381 0.00 0.00 0.00 4.16
843 1214 2.464459 GCAGCAGCCACGTACATCC 61.464 63.158 0.00 0.00 33.58 3.51
908 1283 0.634465 GGAGGAGGAGGAGAAGGAGT 59.366 60.000 0.00 0.00 0.00 3.85
911 1286 2.499693 GAGGAGGAGGAGAAGGAGTTTG 59.500 54.545 0.00 0.00 0.00 2.93
1160 1541 1.183549 TCCTCCCTCGTAAGCTCAAC 58.816 55.000 0.00 0.00 37.18 3.18
1163 1544 2.359531 CCTCCCTCGTAAGCTCAACTAG 59.640 54.545 0.00 0.00 37.18 2.57
1178 1559 4.319177 TCAACTAGCTTGCTTCTTCTTCC 58.681 43.478 0.00 0.00 0.00 3.46
1190 1571 5.994668 TGCTTCTTCTTCCTTTCTTCTTCTC 59.005 40.000 0.00 0.00 0.00 2.87
1191 1572 5.411361 GCTTCTTCTTCCTTTCTTCTTCTCC 59.589 44.000 0.00 0.00 0.00 3.71
1192 1573 5.491323 TCTTCTTCCTTTCTTCTTCTCCC 57.509 43.478 0.00 0.00 0.00 4.30
1194 1575 5.608860 TCTTCTTCCTTTCTTCTTCTCCCTT 59.391 40.000 0.00 0.00 0.00 3.95
1195 1576 6.787957 TCTTCTTCCTTTCTTCTTCTCCCTTA 59.212 38.462 0.00 0.00 0.00 2.69
1196 1577 6.613153 TCTTCCTTTCTTCTTCTCCCTTAG 57.387 41.667 0.00 0.00 0.00 2.18
1198 1579 4.430441 TCCTTTCTTCTTCTCCCTTAGCT 58.570 43.478 0.00 0.00 0.00 3.32
1199 1580 4.468153 TCCTTTCTTCTTCTCCCTTAGCTC 59.532 45.833 0.00 0.00 0.00 4.09
1200 1581 4.223923 CCTTTCTTCTTCTCCCTTAGCTCA 59.776 45.833 0.00 0.00 0.00 4.26
1201 1582 4.810191 TTCTTCTTCTCCCTTAGCTCAC 57.190 45.455 0.00 0.00 0.00 3.51
1203 1584 3.511934 TCTTCTTCTCCCTTAGCTCACAC 59.488 47.826 0.00 0.00 0.00 3.82
1206 1587 1.561643 TCTCCCTTAGCTCACACCTG 58.438 55.000 0.00 0.00 0.00 4.00
1209 1590 0.976641 CCCTTAGCTCACACCTGACA 59.023 55.000 0.00 0.00 0.00 3.58
1211 1596 2.026822 CCCTTAGCTCACACCTGACAAT 60.027 50.000 0.00 0.00 0.00 2.71
1213 1598 2.654749 TAGCTCACACCTGACAATCG 57.345 50.000 0.00 0.00 0.00 3.34
1217 1602 0.037326 TCACACCTGACAATCGGAGC 60.037 55.000 0.00 0.00 0.00 4.70
1222 1607 2.434185 TGACAATCGGAGCGGCAC 60.434 61.111 1.45 0.00 0.00 5.01
1226 1611 2.040544 CAATCGGAGCGGCACCTTT 61.041 57.895 14.50 5.43 0.00 3.11
1228 1613 0.893727 AATCGGAGCGGCACCTTTTT 60.894 50.000 14.50 2.75 0.00 1.94
1230 1615 1.966451 CGGAGCGGCACCTTTTTCT 60.966 57.895 14.50 0.00 0.00 2.52
1231 1616 1.581447 GGAGCGGCACCTTTTTCTG 59.419 57.895 9.34 0.00 0.00 3.02
1232 1617 1.081175 GAGCGGCACCTTTTTCTGC 60.081 57.895 1.45 0.00 0.00 4.26
1299 1686 2.356313 CGAAGCTGACGGTGCAGT 60.356 61.111 5.79 0.00 38.17 4.40
1358 1745 2.029844 GAGCCACTGCGACTTCACC 61.030 63.158 0.00 0.00 44.33 4.02
1514 1901 3.349006 CACCTGCACTGCCACGTC 61.349 66.667 0.00 0.00 0.00 4.34
1653 2040 4.147449 CCGAGCTCATGGACGCCA 62.147 66.667 15.40 1.01 38.19 5.69
1655 2042 2.202987 GAGCTCATGGACGCCAGG 60.203 66.667 9.40 4.47 36.75 4.45
1658 2045 2.124983 CTCATGGACGCCAGGGTG 60.125 66.667 9.95 0.00 36.75 4.61
1736 2123 4.077184 CGCGAGGCCACCAAGGTA 62.077 66.667 5.01 0.00 40.61 3.08
1737 2124 2.125106 GCGAGGCCACCAAGGTAG 60.125 66.667 5.01 0.00 40.61 3.18
1738 2125 2.955881 GCGAGGCCACCAAGGTAGT 61.956 63.158 5.01 0.00 40.61 2.73
1739 2126 1.079127 CGAGGCCACCAAGGTAGTG 60.079 63.158 5.01 0.00 40.61 2.74
1740 2127 1.377333 GAGGCCACCAAGGTAGTGC 60.377 63.158 5.01 0.00 40.61 4.40
1741 2128 1.842381 GAGGCCACCAAGGTAGTGCT 61.842 60.000 5.01 0.00 40.61 4.40
1742 2129 1.074951 GGCCACCAAGGTAGTGCTT 59.925 57.895 0.00 0.00 40.61 3.91
1743 2130 0.960861 GGCCACCAAGGTAGTGCTTC 60.961 60.000 0.00 0.00 40.61 3.86
1744 2131 0.036875 GCCACCAAGGTAGTGCTTCT 59.963 55.000 0.00 0.00 40.61 2.85
1745 2132 1.545651 GCCACCAAGGTAGTGCTTCTT 60.546 52.381 0.00 0.00 40.61 2.52
1746 2133 2.427506 CCACCAAGGTAGTGCTTCTTC 58.572 52.381 0.00 0.00 33.75 2.87
1747 2134 2.224523 CCACCAAGGTAGTGCTTCTTCA 60.225 50.000 0.00 0.00 33.75 3.02
1748 2135 3.560025 CCACCAAGGTAGTGCTTCTTCAT 60.560 47.826 0.00 0.00 33.75 2.57
1762 2149 4.162131 GCTTCTTCATCTTCTTCCTCCTCT 59.838 45.833 0.00 0.00 0.00 3.69
1772 2159 3.102972 TCTTCCTCCTCTTCTGTCATGG 58.897 50.000 0.00 0.00 0.00 3.66
1786 2204 6.048732 TCTGTCATGGTTTGCATCTACTAA 57.951 37.500 0.00 0.00 0.00 2.24
1788 2206 7.112122 TCTGTCATGGTTTGCATCTACTAATT 58.888 34.615 0.00 0.00 0.00 1.40
1791 2209 6.968904 GTCATGGTTTGCATCTACTAATTGTG 59.031 38.462 0.00 0.00 0.00 3.33
1792 2210 6.883756 TCATGGTTTGCATCTACTAATTGTGA 59.116 34.615 0.00 0.00 0.00 3.58
1793 2211 7.392953 TCATGGTTTGCATCTACTAATTGTGAA 59.607 33.333 0.00 0.00 0.00 3.18
1794 2212 7.701539 TGGTTTGCATCTACTAATTGTGAAT 57.298 32.000 0.00 0.00 0.00 2.57
1838 2256 1.084018 ATTCTGATGTGGTTGGGGGT 58.916 50.000 0.00 0.00 0.00 4.95
1839 2257 0.856982 TTCTGATGTGGTTGGGGGTT 59.143 50.000 0.00 0.00 0.00 4.11
1912 2330 1.098129 CCAGAGCGAGATCACCGAGA 61.098 60.000 11.02 0.00 0.00 4.04
1920 2338 1.332375 GAGATCACCGAGAGACGAAGG 59.668 57.143 0.00 0.00 45.77 3.46
1967 2385 2.034685 TCTCGTTTCTGCTATGATCGGG 59.965 50.000 0.00 0.00 0.00 5.14
2023 2459 5.923204 TGAGAAAGATTTGAGAGATAGGGC 58.077 41.667 0.00 0.00 0.00 5.19
2024 2460 4.954875 AGAAAGATTTGAGAGATAGGGCG 58.045 43.478 0.00 0.00 0.00 6.13
2025 2461 2.829741 AGATTTGAGAGATAGGGCGC 57.170 50.000 0.00 0.00 0.00 6.53
2046 2505 5.546434 CGCGAAAGAGAGAAAGAAAGAATC 58.454 41.667 0.00 0.00 0.00 2.52
2133 2595 5.544176 AGGAACTCTAGACACCATTCTTCAA 59.456 40.000 0.00 0.00 0.00 2.69
2141 2603 6.814506 AGACACCATTCTTCAATTCTTGAG 57.185 37.500 0.00 0.00 41.38 3.02
2153 2621 9.383519 TCTTCAATTCTTGAGATGTACATTACC 57.616 33.333 10.30 3.22 41.38 2.85
2154 2622 9.166173 CTTCAATTCTTGAGATGTACATTACCA 57.834 33.333 10.30 5.81 41.38 3.25
2155 2623 9.513906 TTCAATTCTTGAGATGTACATTACCAA 57.486 29.630 10.30 12.64 41.38 3.67
2157 2625 7.865706 ATTCTTGAGATGTACATTACCAACC 57.134 36.000 10.30 0.00 0.00 3.77
2159 2627 6.774673 TCTTGAGATGTACATTACCAACCAA 58.225 36.000 10.30 6.17 0.00 3.67
2160 2628 7.227873 TCTTGAGATGTACATTACCAACCAAA 58.772 34.615 10.30 0.00 0.00 3.28
2161 2629 7.390440 TCTTGAGATGTACATTACCAACCAAAG 59.610 37.037 10.30 6.22 0.00 2.77
2162 2630 6.539173 TGAGATGTACATTACCAACCAAAGT 58.461 36.000 10.30 0.00 0.00 2.66
2202 2685 3.011708 AGCATTTCACCCCCTGTTTATCT 59.988 43.478 0.00 0.00 0.00 1.98
2207 2690 5.789574 TTCACCCCCTGTTTATCTAATGT 57.210 39.130 0.00 0.00 0.00 2.71
2209 2692 6.147437 TCACCCCCTGTTTATCTAATGTTT 57.853 37.500 0.00 0.00 0.00 2.83
2232 2715 8.487176 GTTTACGACATTTGCTGATTTGATTTT 58.513 29.630 0.00 0.00 0.00 1.82
2237 2720 8.862074 CGACATTTGCTGATTTGATTTTGATTA 58.138 29.630 0.00 0.00 0.00 1.75
2244 2727 9.932207 TGCTGATTTGATTTTGATTATTGTTCT 57.068 25.926 0.00 0.00 0.00 3.01
2256 2739 5.803461 TGATTATTGTTCTTCAGTACCGTCG 59.197 40.000 0.00 0.00 0.00 5.12
2268 2751 4.083643 TCAGTACCGTCGTCTGTTTTCTAG 60.084 45.833 8.42 0.00 0.00 2.43
2269 2752 3.817647 AGTACCGTCGTCTGTTTTCTAGT 59.182 43.478 0.00 0.00 0.00 2.57
2270 2753 4.997395 AGTACCGTCGTCTGTTTTCTAGTA 59.003 41.667 0.00 0.00 0.00 1.82
2272 2755 4.979388 ACCGTCGTCTGTTTTCTAGTATC 58.021 43.478 0.00 0.00 0.00 2.24
2275 2758 6.091437 CCGTCGTCTGTTTTCTAGTATCTTT 58.909 40.000 0.00 0.00 0.00 2.52
2276 2759 7.094634 ACCGTCGTCTGTTTTCTAGTATCTTTA 60.095 37.037 0.00 0.00 0.00 1.85
2278 2761 7.961827 CGTCGTCTGTTTTCTAGTATCTTTACT 59.038 37.037 0.00 0.00 41.57 2.24
2284 2776 9.360093 CTGTTTTCTAGTATCTTTACTCACCAG 57.640 37.037 0.00 0.00 39.42 4.00
2295 2787 0.533755 ACTCACCAGTCTTGCTGCAC 60.534 55.000 0.00 0.00 43.71 4.57
2316 2808 9.149225 CTGCACATTTCTCAAGATATATACCTC 57.851 37.037 0.00 0.00 0.00 3.85
2317 2809 8.097038 TGCACATTTCTCAAGATATATACCTCC 58.903 37.037 0.00 0.00 0.00 4.30
2318 2810 7.276658 GCACATTTCTCAAGATATATACCTCCG 59.723 40.741 0.00 0.00 0.00 4.63
2319 2811 8.523658 CACATTTCTCAAGATATATACCTCCGA 58.476 37.037 0.00 0.00 0.00 4.55
2320 2812 9.261035 ACATTTCTCAAGATATATACCTCCGAT 57.739 33.333 0.00 0.00 0.00 4.18
2328 2820 8.478066 CAAGATATATACCTCCGATCCAATTGA 58.522 37.037 7.12 0.00 0.00 2.57
2346 2838 6.094603 CCAATTGAGTTTCAGGACTGGATAAG 59.905 42.308 7.12 0.00 0.00 1.73
2354 2852 1.842562 AGGACTGGATAAGCACAGCAT 59.157 47.619 0.00 0.00 38.25 3.79
2355 2853 1.945394 GGACTGGATAAGCACAGCATG 59.055 52.381 0.00 0.00 46.00 4.06
2373 2908 6.286758 CAGCATGTGTCTTAATCCTCTATGT 58.713 40.000 0.00 0.00 0.00 2.29
2380 2915 9.197306 TGTGTCTTAATCCTCTATGTTAAGCTA 57.803 33.333 0.00 0.00 36.09 3.32
2381 2916 9.685828 GTGTCTTAATCCTCTATGTTAAGCTAG 57.314 37.037 0.00 0.00 36.09 3.42
2382 2917 8.361139 TGTCTTAATCCTCTATGTTAAGCTAGC 58.639 37.037 6.62 6.62 36.09 3.42
2383 2918 8.581578 GTCTTAATCCTCTATGTTAAGCTAGCT 58.418 37.037 12.68 12.68 36.09 3.32
2384 2919 8.580720 TCTTAATCCTCTATGTTAAGCTAGCTG 58.419 37.037 20.16 3.56 36.09 4.24
2385 2920 4.592485 TCCTCTATGTTAAGCTAGCTGC 57.408 45.455 20.16 12.31 43.29 5.25
2435 2978 2.276201 GTTTCAAGGTTTGTTGGTGGC 58.724 47.619 0.00 0.00 0.00 5.01
2450 2993 2.890311 TGGTGGCAAATTTACAGTCAGG 59.110 45.455 0.00 0.00 0.00 3.86
2469 3012 3.312421 CAGGTTAGATTGTTGCGTATGGG 59.688 47.826 0.00 0.00 0.00 4.00
2470 3013 2.032924 GGTTAGATTGTTGCGTATGGGC 59.967 50.000 0.00 0.00 0.00 5.36
2471 3014 2.680841 GTTAGATTGTTGCGTATGGGCA 59.319 45.455 0.00 0.00 42.12 5.36
2472 3015 2.057137 AGATTGTTGCGTATGGGCAT 57.943 45.000 0.00 0.00 43.52 4.40
2473 3016 1.677576 AGATTGTTGCGTATGGGCATG 59.322 47.619 0.00 0.00 43.52 4.06
2474 3017 0.746063 ATTGTTGCGTATGGGCATGG 59.254 50.000 0.00 0.00 43.52 3.66
2475 3018 1.943116 TTGTTGCGTATGGGCATGGC 61.943 55.000 11.56 11.56 43.52 4.40
2476 3019 2.120909 GTTGCGTATGGGCATGGCT 61.121 57.895 19.78 2.39 43.52 4.75
2477 3020 1.823470 TTGCGTATGGGCATGGCTC 60.823 57.895 19.78 9.85 43.52 4.70
2478 3021 2.203195 GCGTATGGGCATGGCTCA 60.203 61.111 19.78 15.27 45.75 4.26
2479 3022 2.256591 GCGTATGGGCATGGCTCAG 61.257 63.158 19.78 7.67 44.52 3.35
2480 3023 1.447217 CGTATGGGCATGGCTCAGA 59.553 57.895 19.78 9.87 44.52 3.27
2481 3024 0.882042 CGTATGGGCATGGCTCAGAC 60.882 60.000 19.78 19.22 44.52 3.51
2482 3025 0.471617 GTATGGGCATGGCTCAGACT 59.528 55.000 19.78 3.77 46.25 3.24
2483 3026 0.471191 TATGGGCATGGCTCAGACTG 59.529 55.000 19.78 0.00 44.52 3.51
2484 3027 1.569030 ATGGGCATGGCTCAGACTGT 61.569 55.000 19.78 0.00 44.52 3.55
2485 3028 1.001641 GGGCATGGCTCAGACTGTT 60.002 57.895 19.78 0.00 0.00 3.16
2486 3029 0.253044 GGGCATGGCTCAGACTGTTA 59.747 55.000 19.78 0.00 0.00 2.41
2487 3030 1.133976 GGGCATGGCTCAGACTGTTAT 60.134 52.381 19.78 0.00 0.00 1.89
2492 3035 0.464554 GGCTCAGACTGTTATGCCCC 60.465 60.000 15.39 0.96 34.81 5.80
2521 3064 3.951663 AGTTTAGCCCGCAAGTTATCTT 58.048 40.909 0.00 0.00 0.00 2.40
2642 3185 1.918467 AACCCTAAACCCTAGCCGCC 61.918 60.000 0.00 0.00 0.00 6.13
2647 3190 1.209747 CTAAACCCTAGCCGCCTCTTT 59.790 52.381 0.00 0.00 0.00 2.52
2648 3191 0.035343 AAACCCTAGCCGCCTCTTTC 60.035 55.000 0.00 0.00 0.00 2.62
2653 3196 0.537188 CTAGCCGCCTCTTTCCTTCA 59.463 55.000 0.00 0.00 0.00 3.02
2654 3197 0.537188 TAGCCGCCTCTTTCCTTCAG 59.463 55.000 0.00 0.00 0.00 3.02
2696 3271 4.016706 CGCCCACCTCCCTCGTTT 62.017 66.667 0.00 0.00 0.00 3.60
2704 3279 0.824759 CCTCCCTCGTTTCCCTACAG 59.175 60.000 0.00 0.00 0.00 2.74
2719 3294 0.251354 TACAGCCTACGTCCGAGACT 59.749 55.000 0.00 0.00 0.00 3.24
2770 3345 2.370281 TCAGCTAGCTTGGTTTCGAG 57.630 50.000 16.46 0.00 0.00 4.04
2793 3368 1.385347 TCCTCACCACCACCAACCT 60.385 57.895 0.00 0.00 0.00 3.50
2795 3370 1.301716 CTCACCACCACCAACCTCG 60.302 63.158 0.00 0.00 0.00 4.63
2838 3413 2.104132 CCGTGACATCGCCGATCA 59.896 61.111 0.00 0.00 0.00 2.92
2842 3417 0.530650 GTGACATCGCCGATCACCAT 60.531 55.000 9.19 0.00 37.39 3.55
2947 3522 2.272146 GCCATCACCGTCCACCAT 59.728 61.111 0.00 0.00 0.00 3.55
2951 3526 3.680620 ATCACCGTCCACCATGCCG 62.681 63.158 0.00 0.00 0.00 5.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 3.961414 GGTGGCCGGAACTTGGGA 61.961 66.667 5.05 0.00 0.00 4.37
9 10 1.529713 GTTTTCCTGGTGGCCGGAA 60.530 57.895 5.05 5.78 35.57 4.30
47 48 4.722700 GGAAGCTTGGGGCAGCGA 62.723 66.667 2.10 0.00 45.24 4.93
51 52 3.506743 TGGTGGAAGCTTGGGGCA 61.507 61.111 2.10 0.00 44.79 5.36
65 66 0.106918 TCGGAAGTTTTGCTGGTGGT 60.107 50.000 0.00 0.00 0.00 4.16
89 90 3.998672 GGGCGGTGGTGAAGACGA 61.999 66.667 0.00 0.00 0.00 4.20
124 125 0.251165 GCAAAGGCTACCAACCCAGA 60.251 55.000 0.00 0.00 36.96 3.86
130 131 9.802468 AACATGAGTTCTAGCAAAGGCTACCAA 62.802 40.741 0.00 0.00 46.65 3.67
148 149 0.998928 TGCACCCCCATAACATGAGT 59.001 50.000 0.00 0.00 0.00 3.41
156 157 3.752622 TGCTCATGCACCCCCATA 58.247 55.556 0.00 0.00 45.31 2.74
240 249 2.320781 CTATAGGGTGCACTAGTGGCT 58.679 52.381 23.95 4.00 0.00 4.75
262 272 2.238144 AGCCTCAATCAAGAGCTGCTAA 59.762 45.455 0.15 0.00 33.33 3.09
287 297 4.853743 GCTCAACTTTACTTGCTGCATAAC 59.146 41.667 1.84 0.00 0.00 1.89
293 303 2.351157 GCCAGCTCAACTTTACTTGCTG 60.351 50.000 0.00 0.00 44.97 4.41
300 310 0.476338 TGGTGGCCAGCTCAACTTTA 59.524 50.000 33.29 9.88 0.00 1.85
301 311 0.396974 TTGGTGGCCAGCTCAACTTT 60.397 50.000 33.29 0.00 33.81 2.66
302 312 1.109323 GTTGGTGGCCAGCTCAACTT 61.109 55.000 33.29 0.00 37.21 2.66
304 314 1.181098 ATGTTGGTGGCCAGCTCAAC 61.181 55.000 33.29 29.45 39.68 3.18
305 315 0.895100 GATGTTGGTGGCCAGCTCAA 60.895 55.000 33.29 21.42 35.72 3.02
306 316 1.303561 GATGTTGGTGGCCAGCTCA 60.304 57.895 33.29 29.15 35.72 4.26
307 317 0.610232 AAGATGTTGGTGGCCAGCTC 60.610 55.000 33.29 25.15 35.72 4.09
308 318 0.698238 TAAGATGTTGGTGGCCAGCT 59.302 50.000 33.29 15.37 35.72 4.24
309 319 0.811281 GTAAGATGTTGGTGGCCAGC 59.189 55.000 28.15 28.15 33.81 4.85
310 320 2.198827 TGTAAGATGTTGGTGGCCAG 57.801 50.000 5.11 0.00 33.81 4.85
311 321 2.308570 AGATGTAAGATGTTGGTGGCCA 59.691 45.455 0.00 0.00 0.00 5.36
312 322 2.684881 CAGATGTAAGATGTTGGTGGCC 59.315 50.000 0.00 0.00 0.00 5.36
327 337 4.955811 TGTGGAGTAACTTCACAGATGT 57.044 40.909 5.02 0.00 44.11 3.06
332 342 4.081365 TGTGAACTGTGGAGTAACTTCACA 60.081 41.667 8.57 8.57 46.44 3.58
333 343 4.439057 TGTGAACTGTGGAGTAACTTCAC 58.561 43.478 0.00 0.00 40.21 3.18
342 352 0.962356 GGGCCATGTGAACTGTGGAG 60.962 60.000 4.39 0.00 34.94 3.86
355 365 6.494146 ACAAAATTTTCATTTTCATGGGCCAT 59.506 30.769 14.78 14.78 40.09 4.40
422 449 5.309806 AGGAGTACAATGAGTTTACAGGGTT 59.690 40.000 0.00 0.00 0.00 4.11
552 584 9.394767 TCTAACAATCATCTAAAAATGCTGCTA 57.605 29.630 0.00 0.00 0.00 3.49
553 585 8.284945 TCTAACAATCATCTAAAAATGCTGCT 57.715 30.769 0.00 0.00 0.00 4.24
554 586 8.965172 CATCTAACAATCATCTAAAAATGCTGC 58.035 33.333 0.00 0.00 0.00 5.25
555 587 8.965172 GCATCTAACAATCATCTAAAAATGCTG 58.035 33.333 0.00 0.00 33.62 4.41
556 588 8.139989 GGCATCTAACAATCATCTAAAAATGCT 58.860 33.333 0.00 0.00 35.97 3.79
557 589 7.383300 GGGCATCTAACAATCATCTAAAAATGC 59.617 37.037 0.00 0.00 35.17 3.56
558 590 8.636213 AGGGCATCTAACAATCATCTAAAAATG 58.364 33.333 0.00 0.00 0.00 2.32
559 591 8.773033 AGGGCATCTAACAATCATCTAAAAAT 57.227 30.769 0.00 0.00 0.00 1.82
560 592 8.593945 AAGGGCATCTAACAATCATCTAAAAA 57.406 30.769 0.00 0.00 0.00 1.94
561 593 9.693739 TTAAGGGCATCTAACAATCATCTAAAA 57.306 29.630 0.00 0.00 0.00 1.52
562 594 9.866655 ATTAAGGGCATCTAACAATCATCTAAA 57.133 29.630 0.00 0.00 0.00 1.85
563 595 9.288576 CATTAAGGGCATCTAACAATCATCTAA 57.711 33.333 0.00 0.00 0.00 2.10
576 608 2.780010 ACCAGCTACATTAAGGGCATCT 59.220 45.455 0.00 0.00 0.00 2.90
577 609 3.214696 ACCAGCTACATTAAGGGCATC 57.785 47.619 0.00 0.00 0.00 3.91
578 610 3.669939 AACCAGCTACATTAAGGGCAT 57.330 42.857 0.00 0.00 0.00 4.40
579 611 3.088532 CAAACCAGCTACATTAAGGGCA 58.911 45.455 0.00 0.00 0.00 5.36
581 613 4.843728 TCTCAAACCAGCTACATTAAGGG 58.156 43.478 0.00 0.00 0.00 3.95
585 942 6.206634 CCAGTTTTCTCAAACCAGCTACATTA 59.793 38.462 0.00 0.00 43.08 1.90
586 943 5.010012 CCAGTTTTCTCAAACCAGCTACATT 59.990 40.000 0.00 0.00 43.08 2.71
598 955 2.374184 CACCACACCCAGTTTTCTCAA 58.626 47.619 0.00 0.00 0.00 3.02
644 1004 2.520069 TGGATAACGCAACACCCAATT 58.480 42.857 0.00 0.00 0.00 2.32
653 1013 1.202279 GCACATGCATGGATAACGCAA 60.202 47.619 29.41 0.00 39.48 4.85
753 1113 2.685743 TGCCGCTTGCCCCTAGTA 60.686 61.111 0.00 0.00 40.16 1.82
1160 1541 5.244755 AGAAAGGAAGAAGAAGCAAGCTAG 58.755 41.667 0.00 0.00 0.00 3.42
1163 1544 4.518590 AGAAGAAAGGAAGAAGAAGCAAGC 59.481 41.667 0.00 0.00 0.00 4.01
1178 1559 5.175127 GTGAGCTAAGGGAGAAGAAGAAAG 58.825 45.833 0.00 0.00 0.00 2.62
1190 1571 0.976641 TGTCAGGTGTGAGCTAAGGG 59.023 55.000 0.00 0.00 31.53 3.95
1191 1572 2.839486 TTGTCAGGTGTGAGCTAAGG 57.161 50.000 0.00 0.00 31.53 2.69
1192 1573 2.926200 CGATTGTCAGGTGTGAGCTAAG 59.074 50.000 0.00 0.00 31.53 2.18
1194 1575 1.204704 CCGATTGTCAGGTGTGAGCTA 59.795 52.381 0.00 0.00 31.53 3.32
1195 1576 0.036952 CCGATTGTCAGGTGTGAGCT 60.037 55.000 0.00 0.00 31.53 4.09
1196 1577 0.037326 TCCGATTGTCAGGTGTGAGC 60.037 55.000 0.00 0.00 31.53 4.26
1198 1579 0.037326 GCTCCGATTGTCAGGTGTGA 60.037 55.000 0.00 0.00 0.00 3.58
1199 1580 1.354337 CGCTCCGATTGTCAGGTGTG 61.354 60.000 0.00 0.00 0.00 3.82
1200 1581 1.079819 CGCTCCGATTGTCAGGTGT 60.080 57.895 0.00 0.00 0.00 4.16
1201 1582 1.811266 CCGCTCCGATTGTCAGGTG 60.811 63.158 0.00 0.00 0.00 4.00
1203 1584 2.892425 GCCGCTCCGATTGTCAGG 60.892 66.667 0.00 0.00 0.00 3.86
1206 1587 3.195698 GGTGCCGCTCCGATTGTC 61.196 66.667 0.00 0.00 0.00 3.18
1209 1590 0.893727 AAAAAGGTGCCGCTCCGATT 60.894 50.000 5.84 3.26 0.00 3.34
1211 1596 1.964373 GAAAAAGGTGCCGCTCCGA 60.964 57.895 5.84 0.00 0.00 4.55
1213 1598 1.581447 CAGAAAAAGGTGCCGCTCC 59.419 57.895 3.10 3.10 0.00 4.70
1217 1602 0.239347 CAGAGCAGAAAAAGGTGCCG 59.761 55.000 0.00 0.00 40.81 5.69
1222 1607 2.157738 CCTGGACAGAGCAGAAAAAGG 58.842 52.381 0.00 0.00 0.00 3.11
1226 1611 1.004560 CGCCTGGACAGAGCAGAAA 60.005 57.895 0.00 0.00 0.00 2.52
1228 1613 3.385384 CCGCCTGGACAGAGCAGA 61.385 66.667 0.00 0.00 37.49 4.26
1376 1763 1.153823 CGTGATGGTCTCCGACACC 60.154 63.158 0.00 0.00 33.68 4.16
1436 1823 1.153745 CTCCTTCCACTCGGCGAAG 60.154 63.158 12.13 4.63 36.13 3.79
1481 1868 2.685017 TGCAGCGTCATCTCCCCT 60.685 61.111 0.00 0.00 0.00 4.79
1547 1934 4.421365 ACGTAGTAGCGGAACCCA 57.579 55.556 0.00 0.00 41.94 4.51
1653 2040 2.515901 GAAGTGCACCCACACCCT 59.484 61.111 14.63 0.00 44.53 4.34
1655 2042 2.194597 TGGAAGTGCACCCACACC 59.805 61.111 14.63 10.46 44.53 4.16
1736 2123 4.323409 GGAGGAAGAAGATGAAGAAGCACT 60.323 45.833 0.00 0.00 0.00 4.40
1737 2124 3.938334 GGAGGAAGAAGATGAAGAAGCAC 59.062 47.826 0.00 0.00 0.00 4.40
1738 2125 3.843027 AGGAGGAAGAAGATGAAGAAGCA 59.157 43.478 0.00 0.00 0.00 3.91
1739 2126 4.162131 AGAGGAGGAAGAAGATGAAGAAGC 59.838 45.833 0.00 0.00 0.00 3.86
1740 2127 5.937975 AGAGGAGGAAGAAGATGAAGAAG 57.062 43.478 0.00 0.00 0.00 2.85
1741 2128 6.022315 AGAAGAGGAGGAAGAAGATGAAGAA 58.978 40.000 0.00 0.00 0.00 2.52
1742 2129 5.421693 CAGAAGAGGAGGAAGAAGATGAAGA 59.578 44.000 0.00 0.00 0.00 2.87
1743 2130 5.187576 ACAGAAGAGGAGGAAGAAGATGAAG 59.812 44.000 0.00 0.00 0.00 3.02
1744 2131 5.090139 ACAGAAGAGGAGGAAGAAGATGAA 58.910 41.667 0.00 0.00 0.00 2.57
1745 2132 4.682563 ACAGAAGAGGAGGAAGAAGATGA 58.317 43.478 0.00 0.00 0.00 2.92
1746 2133 4.465660 TGACAGAAGAGGAGGAAGAAGATG 59.534 45.833 0.00 0.00 0.00 2.90
1747 2134 4.682563 TGACAGAAGAGGAGGAAGAAGAT 58.317 43.478 0.00 0.00 0.00 2.40
1748 2135 4.119556 TGACAGAAGAGGAGGAAGAAGA 57.880 45.455 0.00 0.00 0.00 2.87
1762 2149 4.910195 AGTAGATGCAAACCATGACAGAA 58.090 39.130 0.00 0.00 33.29 3.02
1772 2159 9.410556 ACAAATTCACAATTAGTAGATGCAAAC 57.589 29.630 0.00 0.00 0.00 2.93
1838 2256 7.520798 ACTCCTCTGCAATCCATTCATATAAA 58.479 34.615 0.00 0.00 0.00 1.40
1839 2257 7.016957 AGACTCCTCTGCAATCCATTCATATAA 59.983 37.037 0.00 0.00 0.00 0.98
1912 2330 5.104941 TGAATATGTTCCATGTCCTTCGTCT 60.105 40.000 0.00 0.00 33.26 4.18
1920 2338 4.949856 AGGGTGTTGAATATGTTCCATGTC 59.050 41.667 0.00 0.00 33.26 3.06
1939 2357 1.179814 AGCAGAAACGAGACGAGGGT 61.180 55.000 0.00 0.00 0.00 4.34
1984 2407 1.078988 TCAATGTTACCCGGACCGC 60.079 57.895 8.86 0.00 0.00 5.68
2023 2459 4.974103 TTCTTTCTTTCTCTCTTTCGCG 57.026 40.909 0.00 0.00 0.00 5.87
2024 2460 6.473397 TGATTCTTTCTTTCTCTCTTTCGC 57.527 37.500 0.00 0.00 0.00 4.70
2025 2461 6.960431 GCATGATTCTTTCTTTCTCTCTTTCG 59.040 38.462 0.00 0.00 0.00 3.46
2046 2505 7.117812 AGAGCAAAAGAATGAAATGAAAGCATG 59.882 33.333 0.00 0.00 34.26 4.06
2133 2595 7.402054 TGGTTGGTAATGTACATCTCAAGAAT 58.598 34.615 9.23 0.00 0.00 2.40
2141 2603 6.569179 ACACTTTGGTTGGTAATGTACATC 57.431 37.500 9.23 0.00 0.00 3.06
2153 2621 4.186856 AACAAGGTGAACACTTTGGTTG 57.813 40.909 25.24 14.28 44.43 3.77
2154 2622 5.623596 GCTTAACAAGGTGAACACTTTGGTT 60.624 40.000 25.24 19.70 44.43 3.67
2187 2669 6.037830 CGTAAACATTAGATAAACAGGGGGTG 59.962 42.308 0.00 0.00 0.00 4.61
2207 2690 8.486383 CAAAATCAAATCAGCAAATGTCGTAAA 58.514 29.630 0.00 0.00 0.00 2.01
2209 2692 7.366513 TCAAAATCAAATCAGCAAATGTCGTA 58.633 30.769 0.00 0.00 0.00 3.43
2232 2715 5.803461 CGACGGTACTGAAGAACAATAATCA 59.197 40.000 9.17 0.00 0.00 2.57
2237 2720 3.255149 AGACGACGGTACTGAAGAACAAT 59.745 43.478 9.17 0.00 0.00 2.71
2238 2721 2.620115 AGACGACGGTACTGAAGAACAA 59.380 45.455 9.17 0.00 0.00 2.83
2240 2723 2.031333 ACAGACGACGGTACTGAAGAAC 60.031 50.000 19.81 2.72 35.85 3.01
2241 2724 2.224606 ACAGACGACGGTACTGAAGAA 58.775 47.619 19.81 0.00 35.85 2.52
2244 2727 3.067180 AGAAAACAGACGACGGTACTGAA 59.933 43.478 19.81 0.00 35.85 3.02
2245 2728 2.620115 AGAAAACAGACGACGGTACTGA 59.380 45.455 19.81 0.00 35.85 3.41
2246 2729 3.009301 AGAAAACAGACGACGGTACTG 57.991 47.619 14.15 14.15 37.62 2.74
2256 2739 9.356433 GGTGAGTAAAGATACTAGAAAACAGAC 57.644 37.037 0.00 0.00 42.47 3.51
2268 2751 5.725362 AGCAAGACTGGTGAGTAAAGATAC 58.275 41.667 0.00 0.00 30.16 2.24
2270 2753 4.899352 AGCAAGACTGGTGAGTAAAGAT 57.101 40.909 0.00 0.00 30.16 2.40
2284 2776 3.251729 TCTTGAGAAATGTGCAGCAAGAC 59.748 43.478 0.00 0.00 37.43 3.01
2295 2787 9.743057 GATCGGAGGTATATATCTTGAGAAATG 57.257 37.037 0.00 0.00 0.00 2.32
2316 2808 3.375299 GTCCTGAAACTCAATTGGATCGG 59.625 47.826 5.42 4.42 0.00 4.18
2317 2809 4.093998 CAGTCCTGAAACTCAATTGGATCG 59.906 45.833 5.42 0.00 0.00 3.69
2318 2810 4.397417 CCAGTCCTGAAACTCAATTGGATC 59.603 45.833 5.42 0.18 0.00 3.36
2319 2811 4.043310 TCCAGTCCTGAAACTCAATTGGAT 59.957 41.667 5.42 0.00 0.00 3.41
2320 2812 3.394274 TCCAGTCCTGAAACTCAATTGGA 59.606 43.478 5.42 0.00 0.00 3.53
2328 2820 3.327757 TGTGCTTATCCAGTCCTGAAACT 59.672 43.478 0.00 0.00 0.00 2.66
2354 2852 8.079211 AGCTTAACATAGAGGATTAAGACACA 57.921 34.615 7.07 0.00 37.89 3.72
2355 2853 9.685828 CTAGCTTAACATAGAGGATTAAGACAC 57.314 37.037 0.00 0.00 37.89 3.67
2356 2854 8.361139 GCTAGCTTAACATAGAGGATTAAGACA 58.639 37.037 7.70 0.00 37.89 3.41
2357 2855 8.581578 AGCTAGCTTAACATAGAGGATTAAGAC 58.418 37.037 12.68 0.29 37.89 3.01
2358 2856 8.580720 CAGCTAGCTTAACATAGAGGATTAAGA 58.419 37.037 16.46 0.00 37.89 2.10
2359 2857 7.330700 GCAGCTAGCTTAACATAGAGGATTAAG 59.669 40.741 16.46 0.00 41.15 1.85
2360 2858 7.155328 GCAGCTAGCTTAACATAGAGGATTAA 58.845 38.462 16.46 0.00 41.15 1.40
2362 2860 5.546526 GCAGCTAGCTTAACATAGAGGATT 58.453 41.667 16.46 0.00 41.15 3.01
2381 2916 2.738013 AATCAAAGAAAGCCAGCAGC 57.262 45.000 0.00 0.00 44.25 5.25
2382 2917 6.459298 CCATACTAATCAAAGAAAGCCAGCAG 60.459 42.308 0.00 0.00 0.00 4.24
2383 2918 5.357878 CCATACTAATCAAAGAAAGCCAGCA 59.642 40.000 0.00 0.00 0.00 4.41
2384 2919 5.590259 TCCATACTAATCAAAGAAAGCCAGC 59.410 40.000 0.00 0.00 0.00 4.85
2385 2920 6.599244 TGTCCATACTAATCAAAGAAAGCCAG 59.401 38.462 0.00 0.00 0.00 4.85
2386 2921 6.480763 TGTCCATACTAATCAAAGAAAGCCA 58.519 36.000 0.00 0.00 0.00 4.75
2387 2922 7.573968 ATGTCCATACTAATCAAAGAAAGCC 57.426 36.000 0.00 0.00 0.00 4.35
2416 2959 1.902508 TGCCACCAACAAACCTTGAAA 59.097 42.857 0.00 0.00 0.00 2.69
2435 2978 9.398170 CAACAATCTAACCTGACTGTAAATTTG 57.602 33.333 0.00 0.00 0.00 2.32
2450 2993 2.680841 TGCCCATACGCAACAATCTAAC 59.319 45.455 0.00 0.00 35.32 2.34
2469 3012 1.332997 GCATAACAGTCTGAGCCATGC 59.667 52.381 6.91 10.99 0.00 4.06
2470 3013 1.945394 GGCATAACAGTCTGAGCCATG 59.055 52.381 18.56 11.67 41.63 3.66
2471 3014 1.133976 GGGCATAACAGTCTGAGCCAT 60.134 52.381 22.21 4.44 43.72 4.40
2472 3015 0.253044 GGGCATAACAGTCTGAGCCA 59.747 55.000 22.21 2.67 43.72 4.75
2473 3016 0.464554 GGGGCATAACAGTCTGAGCC 60.465 60.000 6.91 13.21 41.29 4.70
2474 3017 0.464554 GGGGGCATAACAGTCTGAGC 60.465 60.000 6.91 4.96 0.00 4.26
2475 3018 3.788672 GGGGGCATAACAGTCTGAG 57.211 57.895 6.91 0.00 0.00 3.35
2502 3045 5.093849 ACTAAGATAACTTGCGGGCTAAA 57.906 39.130 0.00 0.00 37.53 1.85
2642 3185 2.103042 CCGGCGCTGAAGGAAAGAG 61.103 63.158 20.25 0.00 0.00 2.85
2684 3259 0.115745 TGTAGGGAAACGAGGGAGGT 59.884 55.000 0.00 0.00 0.00 3.85
2696 3271 1.452651 CGGACGTAGGCTGTAGGGA 60.453 63.158 0.00 0.00 0.00 4.20
2704 3279 2.772691 CCCAGTCTCGGACGTAGGC 61.773 68.421 0.00 0.00 37.67 3.93
2740 3315 2.472029 AGCTAGCTGATACCAAGGTGT 58.528 47.619 18.57 0.00 0.00 4.16
2770 3345 1.675641 GGTGGTGGTGAGGACATGC 60.676 63.158 0.00 0.00 0.00 4.06
2824 3399 0.530431 CATGGTGATCGGCGATGTCA 60.530 55.000 29.20 18.39 0.00 3.58
2826 3401 1.227645 CCATGGTGATCGGCGATGT 60.228 57.895 29.20 4.46 0.00 3.06
2929 3504 2.601702 ATGGTGGACGGTGATGGCA 61.602 57.895 0.00 0.00 0.00 4.92


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

AutoCloner maintained by Alex Coulton.