Multiple sequence alignment - TraesCS4A01G286700

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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 TraesCS4A01G286700 chr4A 100.000 4358 0 0 1 4358 591918611 591922968 0.000000e+00 8048.0
1 TraesCS4A01G286700 chr4A 96.703 819 27 0 3540 4358 591927793 591928611 0.000000e+00 1363.0
2 TraesCS4A01G286700 chr4A 81.713 432 39 14 2282 2683 591671212 591670791 1.510000e-84 324.0
3 TraesCS4A01G286700 chr4A 81.481 432 40 15 2282 2683 591287753 591288174 7.030000e-83 318.0
4 TraesCS4A01G286700 chr4A 82.134 403 33 15 2282 2655 591413605 591413213 4.230000e-80 309.0
5 TraesCS4A01G286700 chr4B 92.517 1430 44 28 2163 3550 21148183 21149591 0.000000e+00 1989.0
6 TraesCS4A01G286700 chr4B 82.767 1236 96 61 902 2047 21146846 21148054 0.000000e+00 994.0
7 TraesCS4A01G286700 chr4B 86.538 312 27 7 3 313 21145924 21146221 3.250000e-86 329.0
8 TraesCS4A01G286700 chr4B 91.837 196 10 4 585 777 21146509 21146701 7.180000e-68 268.0
9 TraesCS4A01G286700 chr4D 91.281 1296 56 30 2163 3414 11080354 11081636 0.000000e+00 1714.0
10 TraesCS4A01G286700 chr4D 90.791 847 28 20 773 1575 11078982 11079822 0.000000e+00 1086.0
11 TraesCS4A01G286700 chr4D 91.000 500 27 5 1674 2164 11079818 11080308 0.000000e+00 658.0
12 TraesCS4A01G286700 chr4D 95.238 210 5 5 568 777 11078559 11078763 1.170000e-85 327.0
13 TraesCS4A01G286700 chr4D 96.454 141 2 3 3411 3550 11114037 11114175 3.390000e-56 230.0
14 TraesCS4A01G286700 chr4D 96.454 141 2 3 3411 3550 11130651 11130789 3.390000e-56 230.0
15 TraesCS4A01G286700 chr3A 96.940 817 25 0 3542 4358 603242589 603241773 0.000000e+00 1371.0
16 TraesCS4A01G286700 chr1A 96.695 817 27 0 3540 4356 32914335 32913519 0.000000e+00 1360.0
17 TraesCS4A01G286700 chr1A 85.260 346 29 9 962 1302 69141356 69141684 1.940000e-88 337.0
18 TraesCS4A01G286700 chr1A 85.260 346 29 9 962 1302 486125407 486125735 1.940000e-88 337.0
19 TraesCS4A01G286700 chr7A 96.468 821 29 0 3538 4358 573071449 573072269 0.000000e+00 1356.0
20 TraesCS4A01G286700 chr7A 96.112 823 32 0 3536 4358 721724297 721725119 0.000000e+00 1343.0
21 TraesCS4A01G286700 chr5A 96.359 824 29 1 3536 4358 653310053 653309230 0.000000e+00 1354.0
22 TraesCS4A01G286700 chr5A 96.459 819 29 0 3540 4358 30860945 30861763 0.000000e+00 1352.0
23 TraesCS4A01G286700 chr2A 96.215 819 31 0 3540 4358 111892773 111893591 0.000000e+00 1341.0
24 TraesCS4A01G286700 chr2A 93.289 149 9 1 1160 1308 317992873 317993020 7.340000e-53 219.0
25 TraesCS4A01G286700 chr2A 91.946 149 11 1 1160 1308 259612846 259612993 1.590000e-49 207.0
26 TraesCS4A01G286700 chr6A 96.215 819 29 2 3540 4358 592283939 592284755 0.000000e+00 1339.0
27 TraesCS4A01G286700 chr6A 85.838 346 27 9 962 1302 29281602 29281930 8.970000e-92 348.0
28 TraesCS4A01G286700 chr3B 87.359 443 32 9 1736 2164 360430044 360429612 1.820000e-133 486.0
29 TraesCS4A01G286700 chr3B 86.080 352 28 14 962 1308 706503651 706503316 4.140000e-95 359.0
30 TraesCS4A01G286700 chr3B 85.143 350 31 8 964 1308 62554503 62554170 5.400000e-89 339.0
31 TraesCS4A01G286700 chr3B 88.837 215 12 6 2163 2376 360429566 360429363 2.010000e-63 254.0
32 TraesCS4A01G286700 chr3B 83.708 178 10 10 1395 1554 360430249 360430073 2.720000e-32 150.0
33 TraesCS4A01G286700 chr5D 85.920 348 28 14 962 1305 326028007 326028337 6.930000e-93 351.0
34 TraesCS4A01G286700 chr5D 85.143 350 29 11 965 1308 47188824 47188492 1.940000e-88 337.0
35 TraesCS4A01G286700 chr3D 85.673 349 29 8 962 1305 63799632 63799964 8.970000e-92 348.0
36 TraesCS4A01G286700 chr1D 84.615 351 32 6 962 1308 330033161 330032829 3.250000e-86 329.0
37 TraesCS4A01G286700 chr1B 84.375 352 32 9 962 1308 600550971 600550638 1.510000e-84 324.0
38 TraesCS4A01G286700 chr1B 86.713 286 17 8 962 1242 562247341 562247610 9.160000e-77 298.0
39 TraesCS4A01G286700 chr1B 91.892 148 11 1 1161 1308 114007398 114007252 5.710000e-49 206.0
40 TraesCS4A01G286700 chr2B 84.722 72 6 4 358 425 777691246 777691176 2.810000e-07 67.6
41 TraesCS4A01G286700 chr2B 97.059 34 1 0 731 764 82309747 82309714 1.690000e-04 58.4


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 TraesCS4A01G286700 chr4A 591918611 591922968 4357 False 8048.000000 8048 100.000000 1 4358 1 chr4A.!!$F2 4357
1 TraesCS4A01G286700 chr4A 591927793 591928611 818 False 1363.000000 1363 96.703000 3540 4358 1 chr4A.!!$F3 818
2 TraesCS4A01G286700 chr4B 21145924 21149591 3667 False 895.000000 1989 88.414750 3 3550 4 chr4B.!!$F1 3547
3 TraesCS4A01G286700 chr4D 11078559 11081636 3077 False 946.250000 1714 92.077500 568 3414 4 chr4D.!!$F3 2846
4 TraesCS4A01G286700 chr3A 603241773 603242589 816 True 1371.000000 1371 96.940000 3542 4358 1 chr3A.!!$R1 816
5 TraesCS4A01G286700 chr1A 32913519 32914335 816 True 1360.000000 1360 96.695000 3540 4356 1 chr1A.!!$R1 816
6 TraesCS4A01G286700 chr7A 573071449 573072269 820 False 1356.000000 1356 96.468000 3538 4358 1 chr7A.!!$F1 820
7 TraesCS4A01G286700 chr7A 721724297 721725119 822 False 1343.000000 1343 96.112000 3536 4358 1 chr7A.!!$F2 822
8 TraesCS4A01G286700 chr5A 653309230 653310053 823 True 1354.000000 1354 96.359000 3536 4358 1 chr5A.!!$R1 822
9 TraesCS4A01G286700 chr5A 30860945 30861763 818 False 1352.000000 1352 96.459000 3540 4358 1 chr5A.!!$F1 818
10 TraesCS4A01G286700 chr2A 111892773 111893591 818 False 1341.000000 1341 96.215000 3540 4358 1 chr2A.!!$F1 818
11 TraesCS4A01G286700 chr6A 592283939 592284755 816 False 1339.000000 1339 96.215000 3540 4358 1 chr6A.!!$F2 818
12 TraesCS4A01G286700 chr3B 360429363 360430249 886 True 296.666667 486 86.634667 1395 2376 3 chr3B.!!$R3 981

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
272 273 0.388134 ATTGTACGTGAGCGCGAGTT 60.388 50.0 12.10 0.00 42.83 3.01 F
1429 1837 0.249447 CATCAATGCATGCTGCTGGG 60.249 55.0 20.33 2.78 45.31 4.45 F
1913 2405 0.172352 AACCCACTTTGTTGTGCGTG 59.828 50.0 0.00 0.00 36.68 5.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1579 2029 0.175989 GACGAGGAGGCCGAGAAATT 59.824 55.000 0.00 0.00 0.0 1.82 R
2815 3427 0.036732 TGTGATGGCTCCAACCTGTC 59.963 55.000 0.00 0.00 0.0 3.51 R
3872 4520 1.215647 CTTCTTCCCCGACGTCCAG 59.784 63.158 10.58 1.17 0.0 3.86 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
38 39 2.677228 CCTCATGCCTTTCGGGGT 59.323 61.111 0.00 0.00 35.12 4.95
43 44 3.023832 CTCATGCCTTTCGGGGTAAAAT 58.976 45.455 0.00 0.00 35.12 1.82
44 45 3.020984 TCATGCCTTTCGGGGTAAAATC 58.979 45.455 0.00 0.00 35.12 2.17
45 46 2.588464 TGCCTTTCGGGGTAAAATCA 57.412 45.000 0.00 0.00 35.12 2.57
46 47 2.877866 TGCCTTTCGGGGTAAAATCAA 58.122 42.857 0.00 0.00 35.12 2.57
47 48 3.231818 TGCCTTTCGGGGTAAAATCAAA 58.768 40.909 0.00 0.00 35.12 2.69
48 49 3.641906 TGCCTTTCGGGGTAAAATCAAAA 59.358 39.130 0.00 0.00 35.12 2.44
49 50 4.101119 TGCCTTTCGGGGTAAAATCAAAAA 59.899 37.500 0.00 0.00 35.12 1.94
50 51 5.221742 TGCCTTTCGGGGTAAAATCAAAAAT 60.222 36.000 0.00 0.00 35.12 1.82
75 76 3.843999 CTCCGAAGAAGAAGTTCTCCTG 58.156 50.000 5.70 0.00 42.59 3.86
79 80 2.849294 AGAAGAAGTTCTCCTGTGCC 57.151 50.000 5.70 0.00 38.84 5.01
112 113 8.459911 TTTTCCCTAAGAAGTACTCCTTTTTG 57.540 34.615 0.00 0.00 35.40 2.44
128 129 5.369699 TCCTTTTTGGAAGAGAAGAAGAGGA 59.630 40.000 0.00 0.00 42.94 3.71
146 147 1.751924 GGATCTTCTACGCAGGAGTGT 59.248 52.381 0.00 0.00 42.14 3.55
151 152 0.956902 TCTACGCAGGAGTGTACGCA 60.957 55.000 9.48 0.00 39.61 5.24
199 200 2.160272 CGATAACTATGTTTCGCTCGCG 60.160 50.000 0.00 0.00 41.35 5.87
209 210 1.686566 TTCGCTCGCGCTGATTCTTG 61.687 55.000 5.56 0.00 39.59 3.02
213 214 1.005557 GCTCGCGCTGATTCTTGTTAG 60.006 52.381 5.56 0.00 0.00 2.34
214 215 1.590238 CTCGCGCTGATTCTTGTTAGG 59.410 52.381 5.56 0.00 0.00 2.69
218 219 3.302740 CGCGCTGATTCTTGTTAGGAATC 60.303 47.826 5.56 8.84 45.28 2.52
231 232 2.380081 GGAATCACCTACAACGCGG 58.620 57.895 12.47 0.00 35.41 6.46
234 235 1.019278 AATCACCTACAACGCGGCAG 61.019 55.000 12.47 1.42 0.00 4.85
241 242 1.087202 TACAACGCGGCAGCTATTGG 61.087 55.000 20.75 3.88 39.76 3.16
267 268 0.572590 CTAGCATTGTACGTGAGCGC 59.427 55.000 0.00 0.00 42.83 5.92
272 273 0.388134 ATTGTACGTGAGCGCGAGTT 60.388 50.000 12.10 0.00 42.83 3.01
274 275 0.595567 TGTACGTGAGCGCGAGTTTT 60.596 50.000 12.10 0.00 42.83 2.43
308 309 3.495434 TTTTGTTCGGGTATCCACTGT 57.505 42.857 0.00 0.00 0.00 3.55
312 313 4.620589 TGTTCGGGTATCCACTGTTTTA 57.379 40.909 0.00 0.00 0.00 1.52
313 314 4.571919 TGTTCGGGTATCCACTGTTTTAG 58.428 43.478 0.00 0.00 0.00 1.85
314 315 3.255969 TCGGGTATCCACTGTTTTAGC 57.744 47.619 0.00 0.00 0.00 3.09
315 316 2.568062 TCGGGTATCCACTGTTTTAGCA 59.432 45.455 0.00 0.00 0.00 3.49
316 317 2.676342 CGGGTATCCACTGTTTTAGCAC 59.324 50.000 0.00 0.00 0.00 4.40
317 318 3.014623 GGGTATCCACTGTTTTAGCACC 58.985 50.000 0.00 0.00 0.00 5.01
318 319 2.676342 GGTATCCACTGTTTTAGCACCG 59.324 50.000 0.00 0.00 0.00 4.94
321 322 2.645802 TCCACTGTTTTAGCACCGTTT 58.354 42.857 0.00 0.00 0.00 3.60
322 323 3.018149 TCCACTGTTTTAGCACCGTTTT 58.982 40.909 0.00 0.00 0.00 2.43
323 324 3.065648 TCCACTGTTTTAGCACCGTTTTC 59.934 43.478 0.00 0.00 0.00 2.29
324 325 3.066203 CCACTGTTTTAGCACCGTTTTCT 59.934 43.478 0.00 0.00 0.00 2.52
325 326 4.439563 CCACTGTTTTAGCACCGTTTTCTT 60.440 41.667 0.00 0.00 0.00 2.52
326 327 5.099575 CACTGTTTTAGCACCGTTTTCTTT 58.900 37.500 0.00 0.00 0.00 2.52
327 328 5.004345 CACTGTTTTAGCACCGTTTTCTTTG 59.996 40.000 0.00 0.00 0.00 2.77
328 329 4.425520 TGTTTTAGCACCGTTTTCTTTGG 58.574 39.130 0.00 0.00 0.00 3.28
329 330 4.082136 TGTTTTAGCACCGTTTTCTTTGGT 60.082 37.500 0.00 0.00 36.10 3.67
330 331 4.722361 TTTAGCACCGTTTTCTTTGGTT 57.278 36.364 0.00 0.00 32.48 3.67
331 332 4.722361 TTAGCACCGTTTTCTTTGGTTT 57.278 36.364 0.00 0.00 32.48 3.27
332 333 3.603158 AGCACCGTTTTCTTTGGTTTT 57.397 38.095 0.00 0.00 32.48 2.43
333 334 3.932822 AGCACCGTTTTCTTTGGTTTTT 58.067 36.364 0.00 0.00 32.48 1.94
334 335 3.930229 AGCACCGTTTTCTTTGGTTTTTC 59.070 39.130 0.00 0.00 32.48 2.29
335 336 3.930229 GCACCGTTTTCTTTGGTTTTTCT 59.070 39.130 0.00 0.00 32.48 2.52
336 337 4.032445 GCACCGTTTTCTTTGGTTTTTCTC 59.968 41.667 0.00 0.00 32.48 2.87
337 338 5.407502 CACCGTTTTCTTTGGTTTTTCTCT 58.592 37.500 0.00 0.00 32.48 3.10
338 339 5.288472 CACCGTTTTCTTTGGTTTTTCTCTG 59.712 40.000 0.00 0.00 32.48 3.35
339 340 4.803613 CCGTTTTCTTTGGTTTTTCTCTGG 59.196 41.667 0.00 0.00 0.00 3.86
340 341 4.267690 CGTTTTCTTTGGTTTTTCTCTGGC 59.732 41.667 0.00 0.00 0.00 4.85
341 342 5.419542 GTTTTCTTTGGTTTTTCTCTGGCT 58.580 37.500 0.00 0.00 0.00 4.75
342 343 5.675684 TTTCTTTGGTTTTTCTCTGGCTT 57.324 34.783 0.00 0.00 0.00 4.35
343 344 5.675684 TTCTTTGGTTTTTCTCTGGCTTT 57.324 34.783 0.00 0.00 0.00 3.51
344 345 5.262588 TCTTTGGTTTTTCTCTGGCTTTC 57.737 39.130 0.00 0.00 0.00 2.62
345 346 4.956075 TCTTTGGTTTTTCTCTGGCTTTCT 59.044 37.500 0.00 0.00 0.00 2.52
346 347 5.422012 TCTTTGGTTTTTCTCTGGCTTTCTT 59.578 36.000 0.00 0.00 0.00 2.52
347 348 4.918810 TGGTTTTTCTCTGGCTTTCTTC 57.081 40.909 0.00 0.00 0.00 2.87
348 349 3.315191 TGGTTTTTCTCTGGCTTTCTTCG 59.685 43.478 0.00 0.00 0.00 3.79
349 350 3.304726 GGTTTTTCTCTGGCTTTCTTCGG 60.305 47.826 0.00 0.00 0.00 4.30
350 351 1.523758 TTTCTCTGGCTTTCTTCGGC 58.476 50.000 0.00 0.00 0.00 5.54
351 352 0.687354 TTCTCTGGCTTTCTTCGGCT 59.313 50.000 0.00 0.00 0.00 5.52
352 353 0.687354 TCTCTGGCTTTCTTCGGCTT 59.313 50.000 0.00 0.00 0.00 4.35
353 354 1.072331 TCTCTGGCTTTCTTCGGCTTT 59.928 47.619 0.00 0.00 0.00 3.51
354 355 1.466558 CTCTGGCTTTCTTCGGCTTTC 59.533 52.381 0.00 0.00 0.00 2.62
355 356 0.523519 CTGGCTTTCTTCGGCTTTCC 59.476 55.000 0.00 0.00 0.00 3.13
356 357 0.893727 TGGCTTTCTTCGGCTTTCCC 60.894 55.000 0.00 0.00 0.00 3.97
357 358 0.609406 GGCTTTCTTCGGCTTTCCCT 60.609 55.000 0.00 0.00 0.00 4.20
358 359 1.248486 GCTTTCTTCGGCTTTCCCTT 58.752 50.000 0.00 0.00 0.00 3.95
359 360 1.613925 GCTTTCTTCGGCTTTCCCTTT 59.386 47.619 0.00 0.00 0.00 3.11
360 361 2.035961 GCTTTCTTCGGCTTTCCCTTTT 59.964 45.455 0.00 0.00 0.00 2.27
361 362 3.492656 GCTTTCTTCGGCTTTCCCTTTTT 60.493 43.478 0.00 0.00 0.00 1.94
362 363 4.299155 CTTTCTTCGGCTTTCCCTTTTTC 58.701 43.478 0.00 0.00 0.00 2.29
363 364 3.223674 TCTTCGGCTTTCCCTTTTTCT 57.776 42.857 0.00 0.00 0.00 2.52
364 365 3.562182 TCTTCGGCTTTCCCTTTTTCTT 58.438 40.909 0.00 0.00 0.00 2.52
365 366 3.958147 TCTTCGGCTTTCCCTTTTTCTTT 59.042 39.130 0.00 0.00 0.00 2.52
366 367 4.404394 TCTTCGGCTTTCCCTTTTTCTTTT 59.596 37.500 0.00 0.00 0.00 2.27
367 368 4.316205 TCGGCTTTCCCTTTTTCTTTTC 57.684 40.909 0.00 0.00 0.00 2.29
368 369 3.958147 TCGGCTTTCCCTTTTTCTTTTCT 59.042 39.130 0.00 0.00 0.00 2.52
369 370 4.404394 TCGGCTTTCCCTTTTTCTTTTCTT 59.596 37.500 0.00 0.00 0.00 2.52
370 371 5.105106 TCGGCTTTCCCTTTTTCTTTTCTTT 60.105 36.000 0.00 0.00 0.00 2.52
371 372 5.584649 CGGCTTTCCCTTTTTCTTTTCTTTT 59.415 36.000 0.00 0.00 0.00 2.27
372 373 6.759356 CGGCTTTCCCTTTTTCTTTTCTTTTA 59.241 34.615 0.00 0.00 0.00 1.52
373 374 7.441157 CGGCTTTCCCTTTTTCTTTTCTTTTAT 59.559 33.333 0.00 0.00 0.00 1.40
374 375 9.120538 GGCTTTCCCTTTTTCTTTTCTTTTATT 57.879 29.630 0.00 0.00 0.00 1.40
785 1133 8.454106 GTGAATATATTTTATGTAGCCAGCCTG 58.546 37.037 0.00 0.00 0.00 4.85
860 1208 2.491022 GCGGGACATAGACTCGGCT 61.491 63.158 0.00 0.00 0.00 5.52
920 1268 3.814615 CTGGCTGACACGGCACACT 62.815 63.158 4.98 0.00 37.51 3.55
985 1338 3.121030 CGCTCCGAGCCAACCAAG 61.121 66.667 14.85 0.00 38.18 3.61
1164 1565 2.193536 GCGCTCCTCTCCTCTCCTC 61.194 68.421 0.00 0.00 0.00 3.71
1165 1566 1.528309 CGCTCCTCTCCTCTCCTCC 60.528 68.421 0.00 0.00 0.00 4.30
1166 1567 1.152546 GCTCCTCTCCTCTCCTCCC 60.153 68.421 0.00 0.00 0.00 4.30
1167 1568 1.541672 CTCCTCTCCTCTCCTCCCC 59.458 68.421 0.00 0.00 0.00 4.81
1168 1569 0.998945 CTCCTCTCCTCTCCTCCCCT 60.999 65.000 0.00 0.00 0.00 4.79
1413 1821 1.893808 CGTGCCCCAGGTATGCATC 60.894 63.158 0.19 0.00 37.34 3.91
1414 1822 1.227102 GTGCCCCAGGTATGCATCA 59.773 57.895 0.19 0.00 37.34 3.07
1417 1825 0.963962 GCCCCAGGTATGCATCAATG 59.036 55.000 0.19 0.00 0.00 2.82
1429 1837 0.249447 CATCAATGCATGCTGCTGGG 60.249 55.000 20.33 2.78 45.31 4.45
1434 1854 2.433664 GCATGCTGCTGGGTTTGC 60.434 61.111 11.37 0.00 40.96 3.68
1579 2029 5.880164 TGGTAGTATTACATGCTGCCTTA 57.120 39.130 9.66 0.00 45.39 2.69
1580 2030 6.241882 TGGTAGTATTACATGCTGCCTTAA 57.758 37.500 9.66 0.00 45.39 1.85
1581 2031 6.837312 TGGTAGTATTACATGCTGCCTTAAT 58.163 36.000 9.66 0.29 45.39 1.40
1582 2032 7.287061 TGGTAGTATTACATGCTGCCTTAATT 58.713 34.615 9.66 0.00 45.39 1.40
1593 2043 1.309950 GCCTTAATTTCTCGGCCTCC 58.690 55.000 0.00 0.00 36.56 4.30
1609 2063 2.545532 GCCTCCTCGTCTCATTCTCATG 60.546 54.545 0.00 0.00 0.00 3.07
1610 2064 2.692557 CCTCCTCGTCTCATTCTCATGT 59.307 50.000 0.00 0.00 0.00 3.21
1613 2069 5.250235 TCCTCGTCTCATTCTCATGTTAC 57.750 43.478 0.00 0.00 0.00 2.50
1622 2078 6.479990 TCTCATTCTCATGTTACCAATTAGCG 59.520 38.462 0.00 0.00 0.00 4.26
1630 2086 2.745281 GTTACCAATTAGCGCCAACTGA 59.255 45.455 2.29 0.00 0.00 3.41
1632 2088 2.446435 ACCAATTAGCGCCAACTGAAT 58.554 42.857 2.29 0.00 0.00 2.57
1633 2089 2.825532 ACCAATTAGCGCCAACTGAATT 59.174 40.909 2.29 0.00 0.00 2.17
1634 2090 4.013728 ACCAATTAGCGCCAACTGAATTA 58.986 39.130 2.29 0.00 0.00 1.40
1635 2091 4.644685 ACCAATTAGCGCCAACTGAATTAT 59.355 37.500 2.29 0.00 0.00 1.28
1636 2092 5.825679 ACCAATTAGCGCCAACTGAATTATA 59.174 36.000 2.29 0.00 0.00 0.98
1637 2093 6.320164 ACCAATTAGCGCCAACTGAATTATAA 59.680 34.615 2.29 0.00 0.00 0.98
1638 2094 6.857964 CCAATTAGCGCCAACTGAATTATAAG 59.142 38.462 2.29 0.00 0.00 1.73
1639 2095 3.971032 AGCGCCAACTGAATTATAAGC 57.029 42.857 2.29 0.00 0.00 3.09
1641 2097 3.561725 AGCGCCAACTGAATTATAAGCTC 59.438 43.478 2.29 0.00 0.00 4.09
1642 2098 3.561725 GCGCCAACTGAATTATAAGCTCT 59.438 43.478 0.00 0.00 0.00 4.09
1643 2099 4.750098 GCGCCAACTGAATTATAAGCTCTA 59.250 41.667 0.00 0.00 0.00 2.43
1644 2100 5.409826 GCGCCAACTGAATTATAAGCTCTAT 59.590 40.000 0.00 0.00 0.00 1.98
1645 2101 6.073003 GCGCCAACTGAATTATAAGCTCTATT 60.073 38.462 0.00 0.00 0.00 1.73
1646 2102 7.520614 GCGCCAACTGAATTATAAGCTCTATTT 60.521 37.037 0.00 0.00 0.00 1.40
1647 2103 8.988934 CGCCAACTGAATTATAAGCTCTATTTA 58.011 33.333 0.00 0.00 0.00 1.40
1668 2143 4.630894 ATTTCATCTAAATCGCCGCAAA 57.369 36.364 0.00 0.00 32.00 3.68
1687 2162 5.851047 CAAATGGTTGCTGAATTTTCCTC 57.149 39.130 0.00 0.00 0.00 3.71
1719 2202 7.063898 GGTACCAAATCGTTTAACTAGTTCTCC 59.936 40.741 12.39 0.00 0.00 3.71
1794 2285 6.842163 AGCTACTGAATTACGAAATTTGTGG 58.158 36.000 0.00 0.00 35.41 4.17
1872 2363 3.145286 GCCTGAAGCTCTTGGAATATCC 58.855 50.000 0.00 0.00 38.99 2.59
1913 2405 0.172352 AACCCACTTTGTTGTGCGTG 59.828 50.000 0.00 0.00 36.68 5.34
1929 2421 1.002033 GCGTGATTGGGATCTTCATGC 60.002 52.381 13.10 13.10 42.98 4.06
1945 2439 5.470098 TCTTCATGCTCCTTACTGTCAAAAC 59.530 40.000 0.00 0.00 0.00 2.43
1979 2474 5.916883 CGGTACTAGTACAATTATTGTCCCG 59.083 44.000 29.38 17.44 44.12 5.14
2049 2565 7.453393 TGTCAGATGATCCAGTTAAGTTTCTT 58.547 34.615 0.00 0.00 0.00 2.52
2050 2566 7.939039 TGTCAGATGATCCAGTTAAGTTTCTTT 59.061 33.333 0.00 0.00 0.00 2.52
2051 2567 8.787852 GTCAGATGATCCAGTTAAGTTTCTTTT 58.212 33.333 0.00 0.00 0.00 2.27
2052 2568 9.354673 TCAGATGATCCAGTTAAGTTTCTTTTT 57.645 29.630 0.00 0.00 0.00 1.94
2053 2569 9.403110 CAGATGATCCAGTTAAGTTTCTTTTTG 57.597 33.333 0.00 0.00 0.00 2.44
2054 2570 9.136323 AGATGATCCAGTTAAGTTTCTTTTTGT 57.864 29.630 0.00 0.00 0.00 2.83
2055 2571 9.750125 GATGATCCAGTTAAGTTTCTTTTTGTT 57.250 29.630 0.00 0.00 0.00 2.83
2134 2656 4.501400 GCAACTGTTGGACCAAGCTTTATT 60.501 41.667 21.01 0.00 0.00 1.40
2135 2657 5.278758 GCAACTGTTGGACCAAGCTTTATTA 60.279 40.000 21.01 0.00 0.00 0.98
2136 2658 5.959618 ACTGTTGGACCAAGCTTTATTAC 57.040 39.130 7.31 0.00 0.00 1.89
2137 2659 5.381757 ACTGTTGGACCAAGCTTTATTACA 58.618 37.500 7.31 0.00 0.00 2.41
2238 2824 2.693591 TCAAGGTCGACTTCAACTCTGT 59.306 45.455 16.46 0.00 37.29 3.41
2239 2825 3.053455 CAAGGTCGACTTCAACTCTGTC 58.947 50.000 16.46 0.00 37.29 3.51
2240 2826 2.588620 AGGTCGACTTCAACTCTGTCT 58.411 47.619 16.46 0.00 0.00 3.41
2241 2827 2.294791 AGGTCGACTTCAACTCTGTCTG 59.705 50.000 16.46 0.00 0.00 3.51
2242 2828 2.608261 GGTCGACTTCAACTCTGTCTGG 60.608 54.545 16.46 0.00 0.00 3.86
2262 2848 5.248477 TCTGGTACTCTAGAATTGCCAACTT 59.752 40.000 10.80 0.00 0.00 2.66
2273 2859 6.643388 AGAATTGCCAACTTCTTTCAGTTTT 58.357 32.000 0.00 0.00 34.60 2.43
2280 2866 6.417930 GCCAACTTCTTTCAGTTTTATCACAC 59.582 38.462 0.00 0.00 34.60 3.82
2328 2917 5.010933 CCTATACAGGACGAGGACATATGT 58.989 45.833 8.43 8.43 45.91 2.29
2331 2920 7.339721 CCTATACAGGACGAGGACATATGTTAT 59.660 40.741 10.30 1.38 45.91 1.89
2376 2970 5.227569 TCTACCTCTGCAAACTGAAATCA 57.772 39.130 0.00 0.00 0.00 2.57
2378 2972 4.778534 ACCTCTGCAAACTGAAATCATG 57.221 40.909 0.00 0.00 0.00 3.07
2379 2973 4.147321 ACCTCTGCAAACTGAAATCATGT 58.853 39.130 0.00 0.00 0.00 3.21
2390 2984 5.845103 ACTGAAATCATGTTGATGTTGCAA 58.155 33.333 0.00 0.00 37.15 4.08
2396 2990 8.780846 AAATCATGTTGATGTTGCAATTGTAT 57.219 26.923 0.59 0.00 37.15 2.29
2434 3028 4.082245 GGCTATGCTTTGTTATGTGTTGGT 60.082 41.667 0.00 0.00 0.00 3.67
2502 3096 3.663908 CAAGCAATTCTCTTAAGACGCG 58.336 45.455 3.53 3.53 30.42 6.01
2506 3100 5.109903 AGCAATTCTCTTAAGACGCGTAAT 58.890 37.500 13.97 6.62 30.42 1.89
2513 3107 7.218145 TCTCTTAAGACGCGTAATGAATTTC 57.782 36.000 13.97 0.00 0.00 2.17
2514 3108 7.033791 TCTCTTAAGACGCGTAATGAATTTCT 58.966 34.615 13.97 0.00 0.00 2.52
2515 3109 8.186163 TCTCTTAAGACGCGTAATGAATTTCTA 58.814 33.333 13.97 0.00 0.00 2.10
2516 3110 8.336498 TCTTAAGACGCGTAATGAATTTCTAG 57.664 34.615 13.97 0.00 0.00 2.43
2517 3111 7.972277 TCTTAAGACGCGTAATGAATTTCTAGT 59.028 33.333 13.97 0.00 0.00 2.57
2662 3274 9.238368 TGTAAGTATAGCCAACTTTGCTTATTT 57.762 29.630 1.77 0.00 40.23 1.40
2675 3287 3.674997 TGCTTATTTGAGAAGAGCGGTT 58.325 40.909 0.00 0.00 36.17 4.44
2678 3290 4.154195 GCTTATTTGAGAAGAGCGGTTTCA 59.846 41.667 10.59 1.58 0.00 2.69
2720 3332 8.267183 TCTCTCCTTAAATATGTGCATCTTTCA 58.733 33.333 0.00 0.00 0.00 2.69
2730 3342 4.114073 TGTGCATCTTTCAAACTTTGCTG 58.886 39.130 0.00 0.00 0.00 4.41
2812 3424 0.313043 GGGAGACGAGTGAAACGTGA 59.687 55.000 0.00 0.00 45.86 4.35
2815 3427 2.044860 GAGACGAGTGAAACGTGACTG 58.955 52.381 0.00 0.00 45.86 3.51
2967 3588 5.443185 TGATTTGCAAGTGGAGAAAGAAG 57.557 39.130 0.00 0.00 0.00 2.85
2974 3595 5.066505 TGCAAGTGGAGAAAGAAGAGAAAAC 59.933 40.000 0.00 0.00 0.00 2.43
2976 3597 6.404734 GCAAGTGGAGAAAGAAGAGAAAACAA 60.405 38.462 0.00 0.00 0.00 2.83
2997 3619 0.034670 AAGACCCCTCTGCTCAATGC 60.035 55.000 0.00 0.00 43.25 3.56
3155 3781 5.749109 CCTACTTATTTAGCACCTCAACTCG 59.251 44.000 0.00 0.00 0.00 4.18
3174 3800 3.325870 TCGATCTTGAGTGCAACGAAAT 58.674 40.909 0.00 0.00 45.86 2.17
3196 3826 2.684843 GCTTCTGGCTGTGAAGGCG 61.685 63.158 13.91 0.00 40.70 5.52
3300 3947 9.203421 CAACATACATTTCTAATGGTAGCGATA 57.797 33.333 4.61 0.00 0.00 2.92
3301 3948 9.944376 AACATACATTTCTAATGGTAGCGATAT 57.056 29.630 4.61 0.00 0.00 1.63
3417 4065 2.050144 ACGGTGCTCATCCTTGGATAT 58.950 47.619 1.37 0.00 0.00 1.63
3524 4172 2.953640 TCAACGACGCATTACAAACC 57.046 45.000 0.00 0.00 0.00 3.27
3757 4405 5.721960 ACATGTGTAGGACAAGGACTAGAAT 59.278 40.000 0.00 0.00 38.36 2.40
3769 4417 6.497259 ACAAGGACTAGAATAAGGAACTGTGA 59.503 38.462 0.00 0.00 40.86 3.58
3801 4449 1.940613 ACAGGAAAGACAAGAACACGC 59.059 47.619 0.00 0.00 0.00 5.34
3872 4520 1.433879 CATGTCGTCGAGGAGGTCC 59.566 63.158 8.30 0.00 0.00 4.46
3916 4564 2.042831 CGGGGAAGTAGTCGTCGGT 61.043 63.158 0.00 0.00 0.00 4.69
4265 4914 1.407721 CGCGCCGTTCGAATTCAGTA 61.408 55.000 0.00 0.00 41.67 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 39 9.787532 CTTCTTCGGAGCATATTTTTGATTTTA 57.212 29.630 0.00 0.00 0.00 1.52
43 44 6.655003 ACTTCTTCTTCGGAGCATATTTTTGA 59.345 34.615 0.00 0.00 0.00 2.69
44 45 6.846350 ACTTCTTCTTCGGAGCATATTTTTG 58.154 36.000 0.00 0.00 0.00 2.44
45 46 7.391833 AGAACTTCTTCTTCGGAGCATATTTTT 59.608 33.333 0.00 0.00 32.29 1.94
46 47 6.881602 AGAACTTCTTCTTCGGAGCATATTTT 59.118 34.615 0.00 0.00 32.29 1.82
47 48 6.410540 AGAACTTCTTCTTCGGAGCATATTT 58.589 36.000 0.00 0.00 32.29 1.40
48 49 5.983540 AGAACTTCTTCTTCGGAGCATATT 58.016 37.500 0.00 0.00 32.29 1.28
49 50 5.452636 GGAGAACTTCTTCTTCGGAGCATAT 60.453 44.000 0.00 0.00 36.82 1.78
50 51 4.142138 GGAGAACTTCTTCTTCGGAGCATA 60.142 45.833 0.00 0.00 36.82 3.14
90 91 5.847817 TCCAAAAAGGAGTACTTCTTAGGGA 59.152 40.000 17.01 18.67 43.07 4.20
91 92 6.123045 TCCAAAAAGGAGTACTTCTTAGGG 57.877 41.667 17.01 16.90 43.07 3.53
106 107 7.167535 AGATCCTCTTCTTCTCTTCCAAAAAG 58.832 38.462 0.00 0.00 0.00 2.27
128 129 2.355132 CGTACACTCCTGCGTAGAAGAT 59.645 50.000 0.53 0.00 0.00 2.40
132 133 0.956902 TGCGTACACTCCTGCGTAGA 60.957 55.000 0.53 0.00 0.00 2.59
136 137 1.073216 CTCTTGCGTACACTCCTGCG 61.073 60.000 0.00 0.00 0.00 5.18
151 152 3.639541 CTCGCTCGTGCAGGCTCTT 62.640 63.158 10.43 0.00 39.64 2.85
213 214 1.702491 GCCGCGTTGTAGGTGATTCC 61.702 60.000 4.92 0.00 0.00 3.01
214 215 1.017177 TGCCGCGTTGTAGGTGATTC 61.017 55.000 4.92 0.00 0.00 2.52
218 219 2.829043 TAGCTGCCGCGTTGTAGGTG 62.829 60.000 13.53 0.00 42.32 4.00
234 235 2.032681 CTAGCCCGGCCCAATAGC 59.967 66.667 5.55 0.00 0.00 2.97
241 242 1.892391 GTACAATGCTAGCCCGGCC 60.892 63.158 13.29 0.00 0.00 6.13
243 244 1.143183 ACGTACAATGCTAGCCCGG 59.857 57.895 13.29 0.00 0.00 5.73
247 248 0.572590 CGCTCACGTACAATGCTAGC 59.427 55.000 8.10 8.10 33.53 3.42
274 275 4.691216 CCGAACAAAAACCAACAGGAAAAA 59.309 37.500 0.00 0.00 0.00 1.94
280 281 2.951457 ACCCGAACAAAAACCAACAG 57.049 45.000 0.00 0.00 0.00 3.16
281 282 3.318557 GGATACCCGAACAAAAACCAACA 59.681 43.478 0.00 0.00 0.00 3.33
282 283 3.318557 TGGATACCCGAACAAAAACCAAC 59.681 43.478 0.00 0.00 34.29 3.77
284 285 2.885894 GTGGATACCCGAACAAAAACCA 59.114 45.455 0.00 0.00 34.29 3.67
286 287 3.566742 ACAGTGGATACCCGAACAAAAAC 59.433 43.478 0.00 0.00 34.29 2.43
287 288 3.822940 ACAGTGGATACCCGAACAAAAA 58.177 40.909 0.00 0.00 34.29 1.94
292 293 3.373130 GCTAAAACAGTGGATACCCGAAC 59.627 47.826 0.00 0.00 34.29 3.95
293 294 3.008157 TGCTAAAACAGTGGATACCCGAA 59.992 43.478 0.00 0.00 34.29 4.30
308 309 4.722361 ACCAAAGAAAACGGTGCTAAAA 57.278 36.364 0.00 0.00 0.00 1.52
312 313 3.603158 AAAACCAAAGAAAACGGTGCT 57.397 38.095 0.00 0.00 31.94 4.40
313 314 3.930229 AGAAAAACCAAAGAAAACGGTGC 59.070 39.130 0.00 0.00 31.94 5.01
314 315 5.288472 CAGAGAAAAACCAAAGAAAACGGTG 59.712 40.000 0.00 0.00 31.94 4.94
315 316 5.407502 CAGAGAAAAACCAAAGAAAACGGT 58.592 37.500 0.00 0.00 33.32 4.83
316 317 4.803613 CCAGAGAAAAACCAAAGAAAACGG 59.196 41.667 0.00 0.00 0.00 4.44
317 318 4.267690 GCCAGAGAAAAACCAAAGAAAACG 59.732 41.667 0.00 0.00 0.00 3.60
318 319 5.419542 AGCCAGAGAAAAACCAAAGAAAAC 58.580 37.500 0.00 0.00 0.00 2.43
321 322 5.422012 AGAAAGCCAGAGAAAAACCAAAGAA 59.578 36.000 0.00 0.00 0.00 2.52
322 323 4.956075 AGAAAGCCAGAGAAAAACCAAAGA 59.044 37.500 0.00 0.00 0.00 2.52
323 324 5.268118 AGAAAGCCAGAGAAAAACCAAAG 57.732 39.130 0.00 0.00 0.00 2.77
324 325 5.660460 GAAGAAAGCCAGAGAAAAACCAAA 58.340 37.500 0.00 0.00 0.00 3.28
325 326 4.202010 CGAAGAAAGCCAGAGAAAAACCAA 60.202 41.667 0.00 0.00 0.00 3.67
326 327 3.315191 CGAAGAAAGCCAGAGAAAAACCA 59.685 43.478 0.00 0.00 0.00 3.67
327 328 3.304726 CCGAAGAAAGCCAGAGAAAAACC 60.305 47.826 0.00 0.00 0.00 3.27
328 329 3.853676 GCCGAAGAAAGCCAGAGAAAAAC 60.854 47.826 0.00 0.00 0.00 2.43
329 330 2.293399 GCCGAAGAAAGCCAGAGAAAAA 59.707 45.455 0.00 0.00 0.00 1.94
330 331 1.880027 GCCGAAGAAAGCCAGAGAAAA 59.120 47.619 0.00 0.00 0.00 2.29
331 332 1.072331 AGCCGAAGAAAGCCAGAGAAA 59.928 47.619 0.00 0.00 0.00 2.52
332 333 0.687354 AGCCGAAGAAAGCCAGAGAA 59.313 50.000 0.00 0.00 0.00 2.87
333 334 0.687354 AAGCCGAAGAAAGCCAGAGA 59.313 50.000 0.00 0.00 0.00 3.10
334 335 1.466558 GAAAGCCGAAGAAAGCCAGAG 59.533 52.381 0.00 0.00 0.00 3.35
335 336 1.523758 GAAAGCCGAAGAAAGCCAGA 58.476 50.000 0.00 0.00 0.00 3.86
336 337 0.523519 GGAAAGCCGAAGAAAGCCAG 59.476 55.000 0.00 0.00 0.00 4.85
337 338 0.893727 GGGAAAGCCGAAGAAAGCCA 60.894 55.000 0.00 0.00 33.83 4.75
338 339 0.609406 AGGGAAAGCCGAAGAAAGCC 60.609 55.000 0.00 0.00 33.83 4.35
339 340 1.248486 AAGGGAAAGCCGAAGAAAGC 58.752 50.000 0.00 0.00 33.83 3.51
340 341 4.038042 AGAAAAAGGGAAAGCCGAAGAAAG 59.962 41.667 0.00 0.00 33.83 2.62
341 342 3.958147 AGAAAAAGGGAAAGCCGAAGAAA 59.042 39.130 0.00 0.00 33.83 2.52
342 343 3.562182 AGAAAAAGGGAAAGCCGAAGAA 58.438 40.909 0.00 0.00 33.83 2.52
343 344 3.223674 AGAAAAAGGGAAAGCCGAAGA 57.776 42.857 0.00 0.00 33.83 2.87
344 345 4.322080 AAAGAAAAAGGGAAAGCCGAAG 57.678 40.909 0.00 0.00 33.83 3.79
345 346 4.404394 AGAAAAGAAAAAGGGAAAGCCGAA 59.596 37.500 0.00 0.00 33.83 4.30
346 347 3.958147 AGAAAAGAAAAAGGGAAAGCCGA 59.042 39.130 0.00 0.00 33.83 5.54
347 348 4.322080 AGAAAAGAAAAAGGGAAAGCCG 57.678 40.909 0.00 0.00 33.83 5.52
348 349 8.677148 ATAAAAGAAAAGAAAAAGGGAAAGCC 57.323 30.769 0.00 0.00 0.00 4.35
406 407 9.474313 ACATAGGGAAAATGTACAATGTGTATT 57.526 29.630 0.00 0.00 35.82 1.89
425 426 6.515272 AAAAACATTCTGCTGTACATAGGG 57.485 37.500 0.00 0.00 0.00 3.53
429 430 9.008965 TGTGTATAAAAACATTCTGCTGTACAT 57.991 29.630 0.00 0.00 0.00 2.29
430 431 8.384607 TGTGTATAAAAACATTCTGCTGTACA 57.615 30.769 0.00 0.00 0.00 2.90
431 432 9.840427 AATGTGTATAAAAACATTCTGCTGTAC 57.160 29.630 4.61 0.00 41.96 2.90
785 1133 4.384547 GCCCATTAAACATTGTGTTTCGTC 59.615 41.667 10.97 0.00 46.61 4.20
1123 1523 4.090588 TTAGGACAAGCCGCGGGG 62.091 66.667 29.38 15.40 43.43 5.73
1166 1567 1.077212 CATGCCACCCAAGGAGAGG 60.077 63.158 0.00 0.00 0.00 3.69
1167 1568 1.751927 GCATGCCACCCAAGGAGAG 60.752 63.158 6.36 0.00 0.00 3.20
1168 1569 2.356278 GCATGCCACCCAAGGAGA 59.644 61.111 6.36 0.00 0.00 3.71
1418 1826 0.389426 GAAGCAAACCCAGCAGCATG 60.389 55.000 0.00 0.00 40.87 4.06
1419 1827 1.870055 CGAAGCAAACCCAGCAGCAT 61.870 55.000 0.00 0.00 0.00 3.79
1420 1828 2.554636 CGAAGCAAACCCAGCAGCA 61.555 57.895 0.00 0.00 0.00 4.41
1421 1829 2.256461 CGAAGCAAACCCAGCAGC 59.744 61.111 0.00 0.00 0.00 5.25
1579 2029 0.175989 GACGAGGAGGCCGAGAAATT 59.824 55.000 0.00 0.00 0.00 1.82
1580 2030 0.684805 AGACGAGGAGGCCGAGAAAT 60.685 55.000 0.00 0.00 0.00 2.17
1581 2031 1.304217 AGACGAGGAGGCCGAGAAA 60.304 57.895 0.00 0.00 0.00 2.52
1582 2032 1.749638 GAGACGAGGAGGCCGAGAA 60.750 63.158 0.00 0.00 0.00 2.87
1593 2043 4.998788 TGGTAACATGAGAATGAGACGAG 58.001 43.478 0.00 0.00 46.17 4.18
1609 2063 2.745281 TCAGTTGGCGCTAATTGGTAAC 59.255 45.455 24.75 5.34 0.00 2.50
1610 2064 3.060736 TCAGTTGGCGCTAATTGGTAA 57.939 42.857 24.75 6.93 0.00 2.85
1613 2069 3.508744 AATTCAGTTGGCGCTAATTGG 57.491 42.857 24.75 11.43 0.00 3.16
1637 2093 8.940952 GGCGATTTAGATGAAATAAATAGAGCT 58.059 33.333 0.00 0.00 37.90 4.09
1638 2094 7.900352 CGGCGATTTAGATGAAATAAATAGAGC 59.100 37.037 0.00 0.00 37.90 4.09
1639 2095 7.900352 GCGGCGATTTAGATGAAATAAATAGAG 59.100 37.037 12.98 0.00 37.90 2.43
1641 2097 7.518161 TGCGGCGATTTAGATGAAATAAATAG 58.482 34.615 12.98 0.00 37.90 1.73
1642 2098 7.428282 TGCGGCGATTTAGATGAAATAAATA 57.572 32.000 12.98 0.00 37.90 1.40
1643 2099 6.312399 TGCGGCGATTTAGATGAAATAAAT 57.688 33.333 12.98 0.00 37.90 1.40
1644 2100 5.743026 TGCGGCGATTTAGATGAAATAAA 57.257 34.783 12.98 0.00 37.90 1.40
1645 2101 5.743026 TTGCGGCGATTTAGATGAAATAA 57.257 34.783 12.98 0.00 37.90 1.40
1646 2102 5.743026 TTTGCGGCGATTTAGATGAAATA 57.257 34.783 12.98 0.00 37.90 1.40
1647 2103 4.630894 TTTGCGGCGATTTAGATGAAAT 57.369 36.364 12.98 0.00 40.62 2.17
1649 2105 3.243035 CCATTTGCGGCGATTTAGATGAA 60.243 43.478 12.98 0.00 0.00 2.57
1650 2106 2.290367 CCATTTGCGGCGATTTAGATGA 59.710 45.455 12.98 0.00 0.00 2.92
1651 2107 2.033299 ACCATTTGCGGCGATTTAGATG 59.967 45.455 12.98 5.16 0.00 2.90
1652 2108 2.297701 ACCATTTGCGGCGATTTAGAT 58.702 42.857 12.98 0.00 0.00 1.98
1653 2109 1.745232 ACCATTTGCGGCGATTTAGA 58.255 45.000 12.98 0.00 0.00 2.10
1654 2110 2.184448 CAACCATTTGCGGCGATTTAG 58.816 47.619 12.98 0.00 0.00 1.85
1657 2113 4.887290 CAACCATTTGCGGCGATT 57.113 50.000 12.98 0.00 0.00 3.34
1668 2143 5.574188 ACTAGAGGAAAATTCAGCAACCAT 58.426 37.500 0.00 0.00 0.00 3.55
1687 2162 7.662604 AGTTAAACGATTTGGTACCAACTAG 57.337 36.000 27.08 22.54 35.46 2.57
1794 2285 1.470098 CTGGTGCAGCAACCTGATTAC 59.530 52.381 20.60 0.00 41.77 1.89
1872 2363 0.526524 CCTGCTCTCTTAAGTCGGCG 60.527 60.000 0.00 0.00 0.00 6.46
1929 2421 5.163794 ACACAAACGTTTTGACAGTAAGGAG 60.164 40.000 21.76 7.21 0.00 3.69
1945 2439 1.774639 ACTAGTACCGCACACAAACG 58.225 50.000 0.00 0.00 0.00 3.60
1979 2474 8.110612 CACAAACGACATAACTAATCAGATCAC 58.889 37.037 0.00 0.00 0.00 3.06
2134 2656 3.191162 ACAATAGGTTACTGCGACGTGTA 59.809 43.478 0.00 0.00 0.00 2.90
2135 2657 2.029649 ACAATAGGTTACTGCGACGTGT 60.030 45.455 0.00 0.00 0.00 4.49
2136 2658 2.602878 ACAATAGGTTACTGCGACGTG 58.397 47.619 0.00 0.00 0.00 4.49
2137 2659 3.308438 AACAATAGGTTACTGCGACGT 57.692 42.857 0.00 0.00 38.15 4.34
2238 2824 4.777896 AGTTGGCAATTCTAGAGTACCAGA 59.222 41.667 1.92 0.00 0.00 3.86
2239 2825 5.091261 AGTTGGCAATTCTAGAGTACCAG 57.909 43.478 1.92 0.00 0.00 4.00
2240 2826 5.248477 AGAAGTTGGCAATTCTAGAGTACCA 59.752 40.000 17.53 5.98 34.04 3.25
2241 2827 5.735766 AGAAGTTGGCAATTCTAGAGTACC 58.264 41.667 17.53 0.00 34.04 3.34
2242 2828 7.387948 TGAAAGAAGTTGGCAATTCTAGAGTAC 59.612 37.037 18.62 10.87 34.71 2.73
2262 2848 6.128661 CCGATTCGTGTGATAAAACTGAAAGA 60.129 38.462 5.20 0.00 37.43 2.52
2273 2859 0.526739 CGCACCCGATTCGTGTGATA 60.527 55.000 22.98 0.00 42.96 2.15
2280 2866 1.591594 ACATAGCGCACCCGATTCG 60.592 57.895 11.47 0.00 36.29 3.34
2316 2905 5.096169 CGAAGCCTATAACATATGTCCTCG 58.904 45.833 9.23 2.94 0.00 4.63
2317 2906 5.864474 CACGAAGCCTATAACATATGTCCTC 59.136 44.000 9.23 0.00 0.00 3.71
2318 2907 5.538813 TCACGAAGCCTATAACATATGTCCT 59.461 40.000 9.23 2.12 0.00 3.85
2319 2908 5.779922 TCACGAAGCCTATAACATATGTCC 58.220 41.667 9.23 0.00 0.00 4.02
2320 2909 7.598869 TGATTCACGAAGCCTATAACATATGTC 59.401 37.037 9.23 0.00 0.00 3.06
2321 2910 7.441836 TGATTCACGAAGCCTATAACATATGT 58.558 34.615 1.41 1.41 0.00 2.29
2328 2917 9.725019 AATCATAATGATTCACGAAGCCTATAA 57.275 29.630 0.00 0.00 43.03 0.98
2376 2970 4.871557 GCCATACAATTGCAACATCAACAT 59.128 37.500 0.00 0.00 0.00 2.71
2378 2972 4.497300 AGCCATACAATTGCAACATCAAC 58.503 39.130 0.00 0.00 0.00 3.18
2379 2973 4.804868 AGCCATACAATTGCAACATCAA 57.195 36.364 0.00 0.00 0.00 2.57
2390 2984 4.026052 CCCTGAAAAGGAAGCCATACAAT 58.974 43.478 0.00 0.00 0.00 2.71
2396 2990 1.072266 TAGCCCTGAAAAGGAAGCCA 58.928 50.000 0.00 0.00 0.00 4.75
2434 3028 5.032846 ACTTCAAGATCAGAGGATGGGTAA 58.967 41.667 0.00 0.00 32.67 2.85
2547 3145 6.073602 CGCAATCATCGGAATTCAGAAGAATA 60.074 38.462 15.62 0.00 43.52 1.75
2662 3274 2.839486 ACATGAAACCGCTCTTCTCA 57.161 45.000 0.00 0.00 0.00 3.27
2675 3287 2.311542 AGAGGGGTGCCAATAACATGAA 59.688 45.455 0.00 0.00 0.00 2.57
2678 3290 2.173569 GAGAGAGGGGTGCCAATAACAT 59.826 50.000 0.00 0.00 0.00 2.71
2720 3332 5.335191 GGTCGATTTCATCTCAGCAAAGTTT 60.335 40.000 0.00 0.00 0.00 2.66
2730 3342 2.873133 AGACGGGTCGATTTCATCTC 57.127 50.000 0.00 0.00 34.09 2.75
2812 3424 0.326264 GATGGCTCCAACCTGTCAGT 59.674 55.000 0.00 0.00 0.00 3.41
2815 3427 0.036732 TGTGATGGCTCCAACCTGTC 59.963 55.000 0.00 0.00 0.00 3.51
2876 3492 2.338500 GTACCGCTGAAAAGAGTGGAG 58.662 52.381 7.12 0.00 45.19 3.86
2967 3588 4.499865 GCAGAGGGGTCTTTTTGTTTTCTC 60.500 45.833 0.00 0.00 0.00 2.87
2974 3595 2.276732 TGAGCAGAGGGGTCTTTTTG 57.723 50.000 0.00 0.00 44.40 2.44
2976 3597 2.800250 CATTGAGCAGAGGGGTCTTTT 58.200 47.619 0.00 0.00 44.40 2.27
3155 3781 4.668576 TCATTTCGTTGCACTCAAGATC 57.331 40.909 0.00 0.00 31.93 2.75
3196 3826 2.875933 TCAACATCAACTGAAACGTCCC 59.124 45.455 0.00 0.00 0.00 4.46
3300 3947 6.552445 AACTTCTGAGTTGTGCTCCTATAT 57.448 37.500 0.00 0.00 44.27 0.86
3302 3949 4.899352 AACTTCTGAGTTGTGCTCCTAT 57.101 40.909 0.00 0.00 44.27 2.57
3417 4065 5.341872 TCTTTTCCCGTATTTCGTATCCA 57.658 39.130 0.00 0.00 37.94 3.41
3487 4135 3.859411 TGAACCATTTTATTCACCGCC 57.141 42.857 0.00 0.00 29.89 6.13
3630 4278 5.470047 TTTACCTTCTCTCTGTCAGAACC 57.530 43.478 3.67 0.00 0.00 3.62
3757 4405 5.367945 AAAGGTTCTGTCACAGTTCCTTA 57.632 39.130 25.10 0.00 40.86 2.69
3801 4449 4.994471 TGCTGCTGCTGTCCCGTG 62.994 66.667 17.00 0.00 40.48 4.94
3872 4520 1.215647 CTTCTTCCCCGACGTCCAG 59.784 63.158 10.58 1.17 0.00 3.86
4048 4697 3.216985 TTTCCCATCCCGGCTTGCA 62.217 57.895 0.00 0.00 0.00 4.08
4148 4797 5.313506 TCTCCTGTGCCTATATAAGAGAGGA 59.686 44.000 0.00 0.00 39.07 3.71
4265 4914 8.617290 AGTTGAAACGTTTTTCTATAGTGGAT 57.383 30.769 15.89 0.00 41.64 3.41


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

AutoCloner maintained by Alex Coulton.