Multiple sequence alignment - TraesCS1D01G326900

Loading Multiple Alignment...

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 TraesCS1D01G326900 chr1D 100.000 2300 0 0 1 2300 419297396 419295097 0.000000e+00 4248.0
1 TraesCS1D01G326900 chr1D 94.972 895 24 6 529 1422 418756294 418755420 0.000000e+00 1384.0
2 TraesCS1D01G326900 chr1D 94.737 798 24 8 1414 2207 418755371 418754588 0.000000e+00 1225.0
3 TraesCS1D01G326900 chr1D 87.251 902 69 19 529 1412 418880465 418879592 0.000000e+00 987.0
4 TraesCS1D01G326900 chr1D 88.889 702 48 12 715 1412 418670465 418669790 0.000000e+00 837.0
5 TraesCS1D01G326900 chr1D 83.481 902 84 27 529 1422 419172856 419172012 0.000000e+00 780.0
6 TraesCS1D01G326900 chr1D 96.212 264 10 0 270 533 405382399 405382662 1.260000e-117 433.0
7 TraesCS1D01G326900 chr1D 89.238 223 11 1 2 211 418757705 418757483 1.350000e-67 267.0
8 TraesCS1D01G326900 chr1D 95.833 96 4 0 2205 2300 418754518 418754423 3.060000e-34 156.0
9 TraesCS1D01G326900 chr1D 93.684 95 5 1 529 622 418670688 418670594 8.570000e-30 141.0
10 TraesCS1D01G326900 chr1D 92.941 85 6 0 1414 1498 418669731 418669647 8.630000e-25 124.0
11 TraesCS1D01G326900 chr1D 80.588 170 26 5 1633 1796 418755310 418755142 8.630000e-25 124.0
12 TraesCS1D01G326900 chr1D 90.588 85 8 0 1414 1498 418879533 418879449 1.870000e-21 113.0
13 TraesCS1D01G326900 chr1D 97.143 35 1 0 1414 1448 419171986 419171952 2.470000e-05 60.2
14 TraesCS1D01G326900 chr1B 87.953 855 73 14 529 1380 566251428 566250601 0.000000e+00 981.0
15 TraesCS1D01G326900 chr1B 89.757 576 38 6 701 1275 566389063 566388508 0.000000e+00 717.0
16 TraesCS1D01G326900 chr1B 88.641 493 33 10 1672 2163 566375485 566375015 1.530000e-161 579.0
17 TraesCS1D01G326900 chr1B 84.581 454 57 11 1414 1862 566375806 566375361 2.710000e-119 438.0
18 TraesCS1D01G326900 chr1B 96.023 176 7 0 529 704 566405237 566405062 1.040000e-73 287.0
19 TraesCS1D01G326900 chr1B 96.753 154 5 0 1269 1422 566376008 566375855 8.150000e-65 257.0
20 TraesCS1D01G326900 chr1B 80.066 301 36 19 655 939 566184381 566184089 3.870000e-48 202.0
21 TraesCS1D01G326900 chr1B 94.792 96 5 0 2205 2300 566372136 566372041 1.420000e-32 150.0
22 TraesCS1D01G326900 chr1B 93.023 86 6 0 1416 1501 566250425 566250340 2.400000e-25 126.0
23 TraesCS1D01G326900 chr1B 93.548 62 4 0 576 637 566184489 566184428 2.430000e-15 93.5
24 TraesCS1D01G326900 chr6D 97.744 266 6 0 268 533 82644511 82644776 2.080000e-125 459.0
25 TraesCS1D01G326900 chr4D 97.753 267 5 1 268 533 468205832 468205566 2.080000e-125 459.0
26 TraesCS1D01G326900 chr7D 97.368 266 6 1 269 533 575956909 575956644 3.480000e-123 451.0
27 TraesCS1D01G326900 chr7D 97.358 265 7 0 269 533 634780425 634780689 3.480000e-123 451.0
28 TraesCS1D01G326900 chr7D 96.591 264 9 0 270 533 460523890 460524153 2.710000e-119 438.0
29 TraesCS1D01G326900 chr7D 76.081 393 65 20 797 1171 80466969 80467350 6.530000e-41 178.0
30 TraesCS1D01G326900 chr7D 85.149 101 12 3 1669 1767 446371257 446371356 1.450000e-17 100.0
31 TraesCS1D01G326900 chr5D 96.970 264 8 0 270 533 525792472 525792735 5.830000e-121 444.0
32 TraesCS1D01G326900 chr3D 96.617 266 9 0 268 533 15392218 15391953 2.100000e-120 442.0
33 TraesCS1D01G326900 chr2D 96.226 265 10 0 269 533 648643072 648643336 3.510000e-118 435.0
34 TraesCS1D01G326900 chr1A 77.711 498 75 23 1673 2163 516147924 516147456 2.910000e-69 272.0
35 TraesCS1D01G326900 chr1A 95.833 72 3 0 1095 1166 516048249 516048178 1.440000e-22 117.0
36 TraesCS1D01G326900 chr1A 96.774 62 2 0 576 637 516041580 516041519 1.120000e-18 104.0
37 TraesCS1D01G326900 chr1A 93.333 45 3 0 1378 1422 516048172 516048128 1.470000e-07 67.6
38 TraesCS1D01G326900 chr1A 82.278 79 11 3 1686 1761 516148043 516147965 5.300000e-07 65.8
39 TraesCS1D01G326900 chr7B 76.179 403 70 20 788 1171 27493865 27494260 3.020000e-44 189.0
40 TraesCS1D01G326900 chr5A 74.884 430 67 26 1537 1939 414413673 414414088 8.510000e-35 158.0
41 TraesCS1D01G326900 chr2A 76.923 143 21 10 1671 1805 392848233 392848371 1.140000e-08 71.3
42 TraesCS1D01G326900 chr2A 81.319 91 13 3 1666 1752 501290474 501290384 1.140000e-08 71.3


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 TraesCS1D01G326900 chr1D 419295097 419297396 2299 True 4248.000000 4248 100.00000 1 2300 1 chr1D.!!$R1 2299
1 TraesCS1D01G326900 chr1D 418754423 418757705 3282 True 631.200000 1384 91.07360 2 2300 5 chr1D.!!$R3 2298
2 TraesCS1D01G326900 chr1D 418879449 418880465 1016 True 550.000000 987 88.91950 529 1498 2 chr1D.!!$R4 969
3 TraesCS1D01G326900 chr1D 419171952 419172856 904 True 420.100000 780 90.31200 529 1448 2 chr1D.!!$R5 919
4 TraesCS1D01G326900 chr1D 418669647 418670688 1041 True 367.333333 837 91.83800 529 1498 3 chr1D.!!$R2 969
5 TraesCS1D01G326900 chr1B 566388508 566389063 555 True 717.000000 717 89.75700 701 1275 1 chr1B.!!$R1 574
6 TraesCS1D01G326900 chr1B 566250340 566251428 1088 True 553.500000 981 90.48800 529 1501 2 chr1B.!!$R4 972
7 TraesCS1D01G326900 chr1B 566372041 566376008 3967 True 356.000000 579 91.19175 1269 2300 4 chr1B.!!$R5 1031

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
92 106 0.035152 CCATCACAGTAGCCTTGGCA 60.035 55.0 14.54 0.00 0.00 4.92 F
290 1422 0.115349 AGACTAGCCACAGTGGGAGT 59.885 55.0 21.77 2.87 38.19 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1236 2423 1.203441 TCTGGCACATCTGGCTTCCT 61.203 55.0 0.0 0.0 43.53 3.36 R
2207 5979 0.396556 AAAAGCCCAACCCGAGTGTT 60.397 50.0 0.0 0.0 0.00 3.32 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
45 46 3.119990 TGCTAGCGTTTGCAAATAAGGAC 60.120 43.478 16.21 0.41 46.23 3.85
92 106 0.035152 CCATCACAGTAGCCTTGGCA 60.035 55.000 14.54 0.00 0.00 4.92
99 113 2.042831 GTAGCCTTGGCAGCCACAG 61.043 63.158 15.89 14.54 30.78 3.66
111 125 0.461135 AGCCACAGCCACAGTTTTTG 59.539 50.000 0.00 0.00 41.25 2.44
112 126 0.459489 GCCACAGCCACAGTTTTTGA 59.541 50.000 0.00 0.00 0.00 2.69
123 137 5.928264 GCCACAGTTTTTGAGCATCTAATTT 59.072 36.000 0.00 0.00 34.92 1.82
140 154 8.821894 CATCTAATTTACCTTTCTCTCTTTCGG 58.178 37.037 0.00 0.00 0.00 4.30
170 184 5.850614 TCACCAGTAAAGTGTAGTTCTTCC 58.149 41.667 0.00 0.00 36.58 3.46
173 187 6.867293 CACCAGTAAAGTGTAGTTCTTCCTAC 59.133 42.308 0.00 0.00 38.23 3.18
226 1357 4.864704 TCAATACCTTCCAAAACAAGGC 57.135 40.909 0.00 0.00 43.96 4.35
242 1374 1.040339 AGGCCGATGTCAGGACTCTC 61.040 60.000 0.00 0.00 46.02 3.20
250 1382 1.884579 TGTCAGGACTCTCGTACAACC 59.115 52.381 0.65 0.00 0.00 3.77
279 1411 3.300239 TCTCCTCCACTTAGACTAGCC 57.700 52.381 0.00 0.00 0.00 3.93
281 1413 2.691011 CTCCTCCACTTAGACTAGCCAC 59.309 54.545 0.00 0.00 0.00 5.01
282 1414 2.042569 TCCTCCACTTAGACTAGCCACA 59.957 50.000 0.00 0.00 0.00 4.17
283 1415 2.428890 CCTCCACTTAGACTAGCCACAG 59.571 54.545 0.00 0.00 0.00 3.66
284 1416 3.093057 CTCCACTTAGACTAGCCACAGT 58.907 50.000 0.00 0.00 0.00 3.55
285 1417 2.826128 TCCACTTAGACTAGCCACAGTG 59.174 50.000 4.81 4.81 32.96 3.66
286 1418 2.093973 CCACTTAGACTAGCCACAGTGG 60.094 54.545 16.16 16.16 43.99 4.00
287 1419 2.093973 CACTTAGACTAGCCACAGTGGG 60.094 54.545 21.77 7.25 38.19 4.61
288 1420 2.225293 ACTTAGACTAGCCACAGTGGGA 60.225 50.000 21.77 0.00 38.19 4.37
289 1421 2.145397 TAGACTAGCCACAGTGGGAG 57.855 55.000 21.77 0.00 38.19 4.30
290 1422 0.115349 AGACTAGCCACAGTGGGAGT 59.885 55.000 21.77 2.87 38.19 3.85
291 1423 1.358103 AGACTAGCCACAGTGGGAGTA 59.642 52.381 21.77 0.00 38.19 2.59
292 1424 2.176889 GACTAGCCACAGTGGGAGTAA 58.823 52.381 21.77 0.00 38.19 2.24
293 1425 1.900486 ACTAGCCACAGTGGGAGTAAC 59.100 52.381 21.77 3.06 38.19 2.50
294 1426 2.180276 CTAGCCACAGTGGGAGTAACT 58.820 52.381 21.77 10.69 38.19 2.24
295 1427 1.435256 AGCCACAGTGGGAGTAACTT 58.565 50.000 21.77 0.00 38.19 2.66
296 1428 1.348036 AGCCACAGTGGGAGTAACTTC 59.652 52.381 21.77 0.78 38.19 3.01
297 1429 1.939838 GCCACAGTGGGAGTAACTTCG 60.940 57.143 21.77 0.00 38.19 3.79
298 1430 1.337823 CCACAGTGGGAGTAACTTCGG 60.338 57.143 12.40 0.00 32.67 4.30
299 1431 1.343465 CACAGTGGGAGTAACTTCGGT 59.657 52.381 0.00 0.00 0.00 4.69
300 1432 2.559668 CACAGTGGGAGTAACTTCGGTA 59.440 50.000 0.00 0.00 0.00 4.02
301 1433 2.560105 ACAGTGGGAGTAACTTCGGTAC 59.440 50.000 0.00 0.00 0.00 3.34
302 1434 2.824341 CAGTGGGAGTAACTTCGGTACT 59.176 50.000 0.00 0.00 0.00 2.73
303 1435 4.012374 CAGTGGGAGTAACTTCGGTACTA 58.988 47.826 0.00 0.00 0.00 1.82
304 1436 4.460382 CAGTGGGAGTAACTTCGGTACTAA 59.540 45.833 0.00 0.00 0.00 2.24
305 1437 4.460731 AGTGGGAGTAACTTCGGTACTAAC 59.539 45.833 0.00 0.00 0.00 2.34
306 1438 4.218417 GTGGGAGTAACTTCGGTACTAACA 59.782 45.833 0.00 0.00 0.00 2.41
307 1439 5.018809 TGGGAGTAACTTCGGTACTAACAT 58.981 41.667 0.00 0.00 0.00 2.71
308 1440 5.126061 TGGGAGTAACTTCGGTACTAACATC 59.874 44.000 0.00 0.00 0.00 3.06
309 1441 5.269313 GGAGTAACTTCGGTACTAACATCG 58.731 45.833 0.00 0.00 0.00 3.84
310 1442 5.065218 GGAGTAACTTCGGTACTAACATCGA 59.935 44.000 0.00 0.00 0.00 3.59
311 1443 6.116680 AGTAACTTCGGTACTAACATCGAG 57.883 41.667 0.00 0.00 33.11 4.04
312 1444 5.645497 AGTAACTTCGGTACTAACATCGAGT 59.355 40.000 0.00 0.00 33.11 4.18
313 1445 4.612932 ACTTCGGTACTAACATCGAGTC 57.387 45.455 0.00 0.00 33.11 3.36
314 1446 3.376546 ACTTCGGTACTAACATCGAGTCC 59.623 47.826 0.00 0.00 33.11 3.85
315 1447 2.989909 TCGGTACTAACATCGAGTCCA 58.010 47.619 0.00 0.00 0.00 4.02
316 1448 3.346315 TCGGTACTAACATCGAGTCCAA 58.654 45.455 0.00 0.00 0.00 3.53
317 1449 3.127548 TCGGTACTAACATCGAGTCCAAC 59.872 47.826 0.00 0.00 0.00 3.77
318 1450 3.128242 CGGTACTAACATCGAGTCCAACT 59.872 47.826 0.00 0.00 0.00 3.16
319 1451 4.670347 GGTACTAACATCGAGTCCAACTC 58.330 47.826 0.00 0.00 41.71 3.01
320 1452 4.157289 GGTACTAACATCGAGTCCAACTCA 59.843 45.833 7.78 0.00 45.30 3.41
321 1453 4.442375 ACTAACATCGAGTCCAACTCAG 57.558 45.455 7.78 1.37 45.30 3.35
322 1454 2.086054 AACATCGAGTCCAACTCAGC 57.914 50.000 7.78 0.00 45.30 4.26
323 1455 0.969149 ACATCGAGTCCAACTCAGCA 59.031 50.000 7.78 0.00 45.30 4.41
324 1456 1.344438 ACATCGAGTCCAACTCAGCAA 59.656 47.619 7.78 0.00 45.30 3.91
325 1457 2.027745 ACATCGAGTCCAACTCAGCAAT 60.028 45.455 7.78 0.00 45.30 3.56
326 1458 2.839486 TCGAGTCCAACTCAGCAATT 57.161 45.000 7.78 0.00 45.30 2.32
327 1459 3.126001 TCGAGTCCAACTCAGCAATTT 57.874 42.857 7.78 0.00 45.30 1.82
328 1460 3.476552 TCGAGTCCAACTCAGCAATTTT 58.523 40.909 7.78 0.00 45.30 1.82
329 1461 3.250762 TCGAGTCCAACTCAGCAATTTTG 59.749 43.478 7.78 0.00 45.30 2.44
330 1462 3.311966 GAGTCCAACTCAGCAATTTTGC 58.688 45.455 7.19 7.19 44.45 3.68
345 1477 6.102006 CAATTTTGCTTATGTGGCAATGAG 57.898 37.500 2.01 0.00 46.81 2.90
346 1478 4.870123 TTTTGCTTATGTGGCAATGAGT 57.130 36.364 2.01 0.00 46.81 3.41
347 1479 4.870123 TTTGCTTATGTGGCAATGAGTT 57.130 36.364 2.01 0.00 46.81 3.01
348 1480 5.973899 TTTGCTTATGTGGCAATGAGTTA 57.026 34.783 2.01 0.00 46.81 2.24
349 1481 5.973899 TTGCTTATGTGGCAATGAGTTAA 57.026 34.783 0.00 0.00 43.50 2.01
350 1482 6.528537 TTGCTTATGTGGCAATGAGTTAAT 57.471 33.333 0.00 0.00 43.50 1.40
351 1483 7.637631 TTGCTTATGTGGCAATGAGTTAATA 57.362 32.000 0.00 0.00 43.50 0.98
352 1484 7.637631 TGCTTATGTGGCAATGAGTTAATAA 57.362 32.000 0.00 0.00 36.71 1.40
353 1485 7.706159 TGCTTATGTGGCAATGAGTTAATAAG 58.294 34.615 0.00 0.00 36.71 1.73
354 1486 7.141363 GCTTATGTGGCAATGAGTTAATAAGG 58.859 38.462 0.00 0.00 30.56 2.69
355 1487 7.013274 GCTTATGTGGCAATGAGTTAATAAGGA 59.987 37.037 0.00 0.00 30.56 3.36
356 1488 6.949352 ATGTGGCAATGAGTTAATAAGGAG 57.051 37.500 0.00 0.00 0.00 3.69
357 1489 6.061022 TGTGGCAATGAGTTAATAAGGAGA 57.939 37.500 0.00 0.00 0.00 3.71
358 1490 6.115446 TGTGGCAATGAGTTAATAAGGAGAG 58.885 40.000 0.00 0.00 0.00 3.20
359 1491 6.070251 TGTGGCAATGAGTTAATAAGGAGAGA 60.070 38.462 0.00 0.00 0.00 3.10
360 1492 6.995091 GTGGCAATGAGTTAATAAGGAGAGAT 59.005 38.462 0.00 0.00 0.00 2.75
361 1493 6.994496 TGGCAATGAGTTAATAAGGAGAGATG 59.006 38.462 0.00 0.00 0.00 2.90
362 1494 6.995091 GGCAATGAGTTAATAAGGAGAGATGT 59.005 38.462 0.00 0.00 0.00 3.06
363 1495 8.150945 GGCAATGAGTTAATAAGGAGAGATGTA 58.849 37.037 0.00 0.00 0.00 2.29
364 1496 9.202273 GCAATGAGTTAATAAGGAGAGATGTAG 57.798 37.037 0.00 0.00 0.00 2.74
379 1511 8.992073 GGAGAGATGTAGTACTAGTAACTTAGC 58.008 40.741 3.61 0.00 0.00 3.09
380 1512 9.768662 GAGAGATGTAGTACTAGTAACTTAGCT 57.231 37.037 3.61 0.33 0.00 3.32
397 1529 8.983307 AACTTAGCTAGTTACTGTAACATCAC 57.017 34.615 27.12 15.70 45.22 3.06
398 1530 8.118976 ACTTAGCTAGTTACTGTAACATCACA 57.881 34.615 27.12 10.61 41.07 3.58
399 1531 8.750298 ACTTAGCTAGTTACTGTAACATCACAT 58.250 33.333 27.12 11.85 41.07 3.21
400 1532 8.926715 TTAGCTAGTTACTGTAACATCACATG 57.073 34.615 27.12 12.57 41.07 3.21
402 1534 7.036220 AGCTAGTTACTGTAACATCACATGTC 58.964 38.462 27.12 9.51 44.07 3.06
403 1535 7.036220 GCTAGTTACTGTAACATCACATGTCT 58.964 38.462 27.12 9.43 44.07 3.41
404 1536 7.221067 GCTAGTTACTGTAACATCACATGTCTC 59.779 40.741 27.12 1.55 44.07 3.36
405 1537 6.993079 AGTTACTGTAACATCACATGTCTCA 58.007 36.000 27.12 0.00 44.07 3.27
406 1538 7.441836 AGTTACTGTAACATCACATGTCTCAA 58.558 34.615 27.12 0.00 44.07 3.02
407 1539 8.097038 AGTTACTGTAACATCACATGTCTCAAT 58.903 33.333 27.12 3.45 44.07 2.57
408 1540 6.732531 ACTGTAACATCACATGTCTCAATG 57.267 37.500 0.00 0.45 44.07 2.82
409 1541 5.122869 ACTGTAACATCACATGTCTCAATGC 59.877 40.000 0.00 0.00 44.07 3.56
410 1542 5.002516 TGTAACATCACATGTCTCAATGCA 58.997 37.500 0.00 0.00 44.07 3.96
411 1543 5.472820 TGTAACATCACATGTCTCAATGCAA 59.527 36.000 0.00 0.00 44.07 4.08
412 1544 5.654603 AACATCACATGTCTCAATGCAAT 57.345 34.783 0.00 0.00 44.07 3.56
413 1545 6.762702 AACATCACATGTCTCAATGCAATA 57.237 33.333 0.00 0.00 44.07 1.90
414 1546 6.954487 ACATCACATGTCTCAATGCAATAT 57.046 33.333 0.00 0.00 39.92 1.28
415 1547 6.735130 ACATCACATGTCTCAATGCAATATG 58.265 36.000 0.00 0.00 39.92 1.78
416 1548 6.544564 ACATCACATGTCTCAATGCAATATGA 59.455 34.615 0.00 0.00 39.92 2.15
417 1549 6.613755 TCACATGTCTCAATGCAATATGAG 57.386 37.500 17.01 17.01 43.51 2.90
418 1550 6.117488 TCACATGTCTCAATGCAATATGAGT 58.883 36.000 20.36 5.71 42.86 3.41
419 1551 6.259387 TCACATGTCTCAATGCAATATGAGTC 59.741 38.462 20.36 16.98 42.86 3.36
420 1552 6.260271 CACATGTCTCAATGCAATATGAGTCT 59.740 38.462 20.36 9.05 42.86 3.24
421 1553 7.440255 CACATGTCTCAATGCAATATGAGTCTA 59.560 37.037 20.36 12.13 42.86 2.59
422 1554 8.155510 ACATGTCTCAATGCAATATGAGTCTAT 58.844 33.333 20.36 13.30 42.86 1.98
423 1555 9.649167 CATGTCTCAATGCAATATGAGTCTATA 57.351 33.333 20.36 6.88 42.86 1.31
425 1557 9.481340 TGTCTCAATGCAATATGAGTCTATAAC 57.519 33.333 20.36 13.54 42.86 1.89
426 1558 8.642885 GTCTCAATGCAATATGAGTCTATAACG 58.357 37.037 20.36 0.00 42.86 3.18
427 1559 8.360390 TCTCAATGCAATATGAGTCTATAACGT 58.640 33.333 20.36 0.00 42.86 3.99
428 1560 9.626045 CTCAATGCAATATGAGTCTATAACGTA 57.374 33.333 15.59 0.00 38.57 3.57
429 1561 9.974980 TCAATGCAATATGAGTCTATAACGTAA 57.025 29.630 0.00 0.00 0.00 3.18
445 1577 9.929722 CTATAACGTAATAAATGAAGCTTTGCA 57.070 29.630 0.00 0.00 0.00 4.08
447 1579 7.510428 AACGTAATAAATGAAGCTTTGCATG 57.490 32.000 0.00 0.00 0.00 4.06
448 1580 6.620678 ACGTAATAAATGAAGCTTTGCATGT 58.379 32.000 0.00 0.00 0.00 3.21
449 1581 7.090173 ACGTAATAAATGAAGCTTTGCATGTT 58.910 30.769 0.00 1.51 0.00 2.71
450 1582 8.240682 ACGTAATAAATGAAGCTTTGCATGTTA 58.759 29.630 0.00 3.50 0.00 2.41
451 1583 8.523464 CGTAATAAATGAAGCTTTGCATGTTAC 58.477 33.333 0.00 9.77 0.00 2.50
452 1584 7.832503 AATAAATGAAGCTTTGCATGTTACC 57.167 32.000 0.00 0.00 0.00 2.85
453 1585 4.870123 AATGAAGCTTTGCATGTTACCA 57.130 36.364 0.00 0.00 0.00 3.25
454 1586 3.641437 TGAAGCTTTGCATGTTACCAC 57.359 42.857 0.00 0.00 0.00 4.16
455 1587 2.954989 TGAAGCTTTGCATGTTACCACA 59.045 40.909 0.00 0.00 37.31 4.17
456 1588 3.243367 TGAAGCTTTGCATGTTACCACAC 60.243 43.478 0.00 0.00 35.03 3.82
457 1589 2.586425 AGCTTTGCATGTTACCACACT 58.414 42.857 0.00 0.00 35.03 3.55
458 1590 2.958355 AGCTTTGCATGTTACCACACTT 59.042 40.909 0.00 0.00 35.03 3.16
459 1591 4.141287 AGCTTTGCATGTTACCACACTTA 58.859 39.130 0.00 0.00 35.03 2.24
460 1592 4.766891 AGCTTTGCATGTTACCACACTTAT 59.233 37.500 0.00 0.00 35.03 1.73
461 1593 4.858692 GCTTTGCATGTTACCACACTTATG 59.141 41.667 0.00 0.00 35.03 1.90
462 1594 5.564651 GCTTTGCATGTTACCACACTTATGT 60.565 40.000 0.00 0.00 40.80 2.29
463 1595 6.398234 TTTGCATGTTACCACACTTATGTT 57.602 33.333 0.00 0.00 36.72 2.71
464 1596 7.511959 TTTGCATGTTACCACACTTATGTTA 57.488 32.000 0.00 0.00 36.72 2.41
465 1597 6.489127 TGCATGTTACCACACTTATGTTAC 57.511 37.500 0.00 0.00 36.72 2.50
466 1598 6.234920 TGCATGTTACCACACTTATGTTACT 58.765 36.000 0.00 0.00 36.72 2.24
467 1599 7.387643 TGCATGTTACCACACTTATGTTACTA 58.612 34.615 0.00 0.00 36.72 1.82
468 1600 7.332430 TGCATGTTACCACACTTATGTTACTAC 59.668 37.037 0.00 0.00 36.72 2.73
469 1601 7.201582 GCATGTTACCACACTTATGTTACTACC 60.202 40.741 0.00 0.00 36.72 3.18
470 1602 6.700352 TGTTACCACACTTATGTTACTACCC 58.300 40.000 0.00 0.00 36.72 3.69
471 1603 6.269538 TGTTACCACACTTATGTTACTACCCA 59.730 38.462 0.00 0.00 36.72 4.51
472 1604 5.156608 ACCACACTTATGTTACTACCCAC 57.843 43.478 0.00 0.00 36.72 4.61
473 1605 4.842380 ACCACACTTATGTTACTACCCACT 59.158 41.667 0.00 0.00 36.72 4.00
474 1606 6.018469 ACCACACTTATGTTACTACCCACTA 58.982 40.000 0.00 0.00 36.72 2.74
475 1607 6.670902 ACCACACTTATGTTACTACCCACTAT 59.329 38.462 0.00 0.00 36.72 2.12
476 1608 7.181485 ACCACACTTATGTTACTACCCACTATT 59.819 37.037 0.00 0.00 36.72 1.73
477 1609 7.494625 CCACACTTATGTTACTACCCACTATTG 59.505 40.741 0.00 0.00 36.72 1.90
478 1610 8.255206 CACACTTATGTTACTACCCACTATTGA 58.745 37.037 0.00 0.00 36.72 2.57
479 1611 8.475639 ACACTTATGTTACTACCCACTATTGAG 58.524 37.037 0.00 0.00 34.46 3.02
480 1612 7.926555 CACTTATGTTACTACCCACTATTGAGG 59.073 40.741 0.00 0.00 0.00 3.86
481 1613 7.622479 ACTTATGTTACTACCCACTATTGAGGT 59.378 37.037 0.00 0.00 37.69 3.85
482 1614 9.139734 CTTATGTTACTACCCACTATTGAGGTA 57.860 37.037 0.00 0.00 35.02 3.08
489 1621 7.598759 CTACCCACTATTGAGGTAGTAACAT 57.401 40.000 14.91 0.00 45.39 2.71
490 1622 8.701908 CTACCCACTATTGAGGTAGTAACATA 57.298 38.462 14.91 0.00 45.39 2.29
491 1623 7.598759 ACCCACTATTGAGGTAGTAACATAG 57.401 40.000 0.00 0.00 33.29 2.23
492 1624 7.130775 ACCCACTATTGAGGTAGTAACATAGT 58.869 38.462 0.00 0.00 33.29 2.12
493 1625 7.287235 ACCCACTATTGAGGTAGTAACATAGTC 59.713 40.741 0.00 0.00 33.29 2.59
494 1626 7.506261 CCCACTATTGAGGTAGTAACATAGTCT 59.494 40.741 0.00 0.00 33.29 3.24
495 1627 9.570468 CCACTATTGAGGTAGTAACATAGTCTA 57.430 37.037 0.00 0.00 33.29 2.59
497 1629 9.796180 ACTATTGAGGTAGTAACATAGTCTAGG 57.204 37.037 0.00 0.00 33.29 3.02
498 1630 9.233649 CTATTGAGGTAGTAACATAGTCTAGGG 57.766 40.741 0.00 0.00 0.00 3.53
499 1631 6.836714 TGAGGTAGTAACATAGTCTAGGGA 57.163 41.667 0.00 0.00 0.00 4.20
500 1632 7.217028 TGAGGTAGTAACATAGTCTAGGGAA 57.783 40.000 0.00 0.00 0.00 3.97
501 1633 7.645942 TGAGGTAGTAACATAGTCTAGGGAAA 58.354 38.462 0.00 0.00 0.00 3.13
502 1634 8.287350 TGAGGTAGTAACATAGTCTAGGGAAAT 58.713 37.037 0.00 0.00 0.00 2.17
503 1635 8.480133 AGGTAGTAACATAGTCTAGGGAAATG 57.520 38.462 0.00 0.00 0.00 2.32
504 1636 8.066247 AGGTAGTAACATAGTCTAGGGAAATGT 58.934 37.037 0.00 0.00 34.09 2.71
505 1637 8.142551 GGTAGTAACATAGTCTAGGGAAATGTG 58.857 40.741 0.00 0.00 33.44 3.21
506 1638 7.735326 AGTAACATAGTCTAGGGAAATGTGT 57.265 36.000 0.00 0.00 33.44 3.72
507 1639 8.834004 AGTAACATAGTCTAGGGAAATGTGTA 57.166 34.615 0.00 0.00 33.44 2.90
508 1640 9.435570 AGTAACATAGTCTAGGGAAATGTGTAT 57.564 33.333 0.00 0.00 33.44 2.29
509 1641 9.477484 GTAACATAGTCTAGGGAAATGTGTATG 57.523 37.037 0.00 0.00 33.44 2.39
510 1642 7.676683 ACATAGTCTAGGGAAATGTGTATGT 57.323 36.000 0.00 0.00 32.54 2.29
511 1643 8.090788 ACATAGTCTAGGGAAATGTGTATGTT 57.909 34.615 0.00 0.00 32.54 2.71
512 1644 9.209048 ACATAGTCTAGGGAAATGTGTATGTTA 57.791 33.333 0.00 0.00 32.54 2.41
513 1645 9.477484 CATAGTCTAGGGAAATGTGTATGTTAC 57.523 37.037 0.00 0.00 0.00 2.50
514 1646 7.735326 AGTCTAGGGAAATGTGTATGTTACT 57.265 36.000 0.00 0.00 0.00 2.24
515 1647 8.834004 AGTCTAGGGAAATGTGTATGTTACTA 57.166 34.615 0.00 0.00 0.00 1.82
516 1648 8.693625 AGTCTAGGGAAATGTGTATGTTACTAC 58.306 37.037 0.00 0.00 0.00 2.73
517 1649 8.693625 GTCTAGGGAAATGTGTATGTTACTACT 58.306 37.037 0.00 0.00 0.00 2.57
518 1650 8.910944 TCTAGGGAAATGTGTATGTTACTACTC 58.089 37.037 0.00 0.00 0.00 2.59
519 1651 7.735326 AGGGAAATGTGTATGTTACTACTCT 57.265 36.000 0.00 0.00 0.00 3.24
520 1652 8.834004 AGGGAAATGTGTATGTTACTACTCTA 57.166 34.615 0.00 0.00 0.00 2.43
521 1653 9.435570 AGGGAAATGTGTATGTTACTACTCTAT 57.564 33.333 0.00 0.00 0.00 1.98
522 1654 9.477484 GGGAAATGTGTATGTTACTACTCTATG 57.523 37.037 0.00 0.00 0.00 2.23
551 1683 1.545582 CAAATTGCCCGGTCAAGATGT 59.454 47.619 3.52 0.00 0.00 3.06
645 1793 6.205853 TGGTACAGTTTACCTAGTTGCAATTG 59.794 38.462 0.59 0.00 38.39 2.32
928 2115 4.676951 CCACCGCCAACCCCACAT 62.677 66.667 0.00 0.00 0.00 3.21
929 2116 3.061848 CACCGCCAACCCCACATC 61.062 66.667 0.00 0.00 0.00 3.06
930 2117 3.575247 ACCGCCAACCCCACATCA 61.575 61.111 0.00 0.00 0.00 3.07
931 2118 3.061848 CCGCCAACCCCACATCAC 61.062 66.667 0.00 0.00 0.00 3.06
932 2119 3.061848 CGCCAACCCCACATCACC 61.062 66.667 0.00 0.00 0.00 4.02
933 2120 2.117206 GCCAACCCCACATCACCA 59.883 61.111 0.00 0.00 0.00 4.17
934 2121 2.275380 GCCAACCCCACATCACCAC 61.275 63.158 0.00 0.00 0.00 4.16
935 2122 1.606313 CCAACCCCACATCACCACC 60.606 63.158 0.00 0.00 0.00 4.61
936 2123 1.460255 CAACCCCACATCACCACCT 59.540 57.895 0.00 0.00 0.00 4.00
937 2124 0.609131 CAACCCCACATCACCACCTC 60.609 60.000 0.00 0.00 0.00 3.85
938 2125 1.789576 AACCCCACATCACCACCTCC 61.790 60.000 0.00 0.00 0.00 4.30
939 2126 2.268920 CCCACATCACCACCTCCG 59.731 66.667 0.00 0.00 0.00 4.63
940 2127 2.268920 CCACATCACCACCTCCGG 59.731 66.667 0.00 0.00 0.00 5.14
941 2128 2.436646 CACATCACCACCTCCGGC 60.437 66.667 0.00 0.00 0.00 6.13
942 2129 4.082523 ACATCACCACCTCCGGCG 62.083 66.667 0.00 0.00 0.00 6.46
943 2130 3.770040 CATCACCACCTCCGGCGA 61.770 66.667 9.30 0.00 0.00 5.54
944 2131 3.771160 ATCACCACCTCCGGCGAC 61.771 66.667 9.30 0.00 0.00 5.19
1173 2360 2.049526 TGCGACGAGTGCAACGAT 60.050 55.556 18.81 5.70 45.86 3.73
1236 2423 2.427812 CTGCAATGGGTGTCATTATGCA 59.572 45.455 0.00 0.00 43.40 3.96
1444 2778 6.777213 TCCTCTTGTATTCCACTCTAGAAC 57.223 41.667 0.00 0.00 0.00 3.01
1699 3036 7.556733 AAGTTCACCGTGTATTAAAAACTGA 57.443 32.000 0.00 0.00 0.00 3.41
1809 3210 7.658575 TGTTCACCGTATACTAAAGAAAAGCTT 59.341 33.333 0.00 0.00 38.88 3.74
1885 3286 2.416893 GCAAAACGCACAAAAAGGGAAA 59.583 40.909 0.00 0.00 41.79 3.13
2001 3403 1.073199 AACCAGCAAGGGAAGGACG 59.927 57.895 0.04 0.00 43.89 4.79
2094 3506 1.826024 CTTCCTAGGCTCACGGCAT 59.174 57.895 2.96 0.00 44.01 4.40
2095 3507 0.531532 CTTCCTAGGCTCACGGCATG 60.532 60.000 2.96 0.00 44.01 4.06
2096 3508 1.264749 TTCCTAGGCTCACGGCATGT 61.265 55.000 2.96 0.00 44.01 3.21
2097 3509 1.221840 CCTAGGCTCACGGCATGTT 59.778 57.895 0.00 0.00 44.01 2.71
2098 3510 0.392998 CCTAGGCTCACGGCATGTTT 60.393 55.000 0.00 0.00 44.01 2.83
2099 3511 1.453155 CTAGGCTCACGGCATGTTTT 58.547 50.000 0.00 0.00 44.01 2.43
2100 3512 1.131126 CTAGGCTCACGGCATGTTTTG 59.869 52.381 0.00 0.00 44.01 2.44
2207 5979 4.100808 CCCCCTGAACTTGTCAAAAATTGA 59.899 41.667 0.00 0.00 35.22 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
45 46 0.240945 GGACCATGGCAACTTGTTCG 59.759 55.000 13.04 0.00 40.00 3.95
92 106 0.461135 CAAAAACTGTGGCTGTGGCT 59.539 50.000 0.00 0.00 38.73 4.75
99 113 4.503741 TTAGATGCTCAAAAACTGTGGC 57.496 40.909 0.00 0.00 0.00 5.01
105 119 9.914131 AGAAAGGTAAATTAGATGCTCAAAAAC 57.086 29.630 0.00 0.00 0.00 2.43
111 125 8.956533 AAGAGAGAAAGGTAAATTAGATGCTC 57.043 34.615 0.00 0.00 0.00 4.26
112 126 9.389755 GAAAGAGAGAAAGGTAAATTAGATGCT 57.610 33.333 0.00 0.00 0.00 3.79
123 137 3.571401 ACGTTCCGAAAGAGAGAAAGGTA 59.429 43.478 0.73 0.00 0.00 3.08
140 154 4.870221 ACACTTTACTGGTGAAACGTTC 57.130 40.909 0.00 0.00 38.12 3.95
211 225 1.067635 CATCGGCCTTGTTTTGGAAGG 60.068 52.381 0.00 0.00 42.68 3.46
226 1357 2.483441 ACGAGAGTCCTGACATCGG 58.517 57.895 21.17 9.56 44.19 4.18
276 1408 1.348036 GAAGTTACTCCCACTGTGGCT 59.652 52.381 21.47 8.83 35.79 4.75
277 1409 1.809684 GAAGTTACTCCCACTGTGGC 58.190 55.000 21.47 6.54 35.79 5.01
279 1411 1.343465 ACCGAAGTTACTCCCACTGTG 59.657 52.381 0.00 0.00 0.00 3.66
281 1413 2.824341 AGTACCGAAGTTACTCCCACTG 59.176 50.000 0.00 0.00 0.00 3.66
282 1414 3.166560 AGTACCGAAGTTACTCCCACT 57.833 47.619 0.00 0.00 0.00 4.00
283 1415 4.218417 TGTTAGTACCGAAGTTACTCCCAC 59.782 45.833 0.00 0.00 0.00 4.61
284 1416 4.406456 TGTTAGTACCGAAGTTACTCCCA 58.594 43.478 0.00 0.00 0.00 4.37
285 1417 5.586339 GATGTTAGTACCGAAGTTACTCCC 58.414 45.833 0.00 0.00 0.00 4.30
286 1418 5.065218 TCGATGTTAGTACCGAAGTTACTCC 59.935 44.000 0.00 0.00 0.00 3.85
287 1419 6.111768 TCGATGTTAGTACCGAAGTTACTC 57.888 41.667 0.00 0.00 0.00 2.59
288 1420 5.645497 ACTCGATGTTAGTACCGAAGTTACT 59.355 40.000 0.00 0.00 0.00 2.24
289 1421 5.873732 ACTCGATGTTAGTACCGAAGTTAC 58.126 41.667 0.00 0.00 0.00 2.50
290 1422 5.065218 GGACTCGATGTTAGTACCGAAGTTA 59.935 44.000 0.00 0.00 0.00 2.24
291 1423 4.142513 GGACTCGATGTTAGTACCGAAGTT 60.143 45.833 0.00 0.00 0.00 2.66
292 1424 3.376546 GGACTCGATGTTAGTACCGAAGT 59.623 47.826 0.00 0.00 0.00 3.01
293 1425 3.376234 TGGACTCGATGTTAGTACCGAAG 59.624 47.826 0.00 0.00 0.00 3.79
294 1426 3.346315 TGGACTCGATGTTAGTACCGAA 58.654 45.455 0.00 0.00 0.00 4.30
295 1427 2.989909 TGGACTCGATGTTAGTACCGA 58.010 47.619 0.00 0.00 0.00 4.69
296 1428 3.128242 AGTTGGACTCGATGTTAGTACCG 59.872 47.826 0.00 0.00 0.00 4.02
297 1429 4.670347 GAGTTGGACTCGATGTTAGTACC 58.330 47.826 0.00 0.00 35.28 3.34
328 1460 7.201812 CCTTATTAACTCATTGCCACATAAGCA 60.202 37.037 0.00 0.00 38.81 3.91
329 1461 7.013274 TCCTTATTAACTCATTGCCACATAAGC 59.987 37.037 0.00 0.00 0.00 3.09
330 1462 8.450578 TCCTTATTAACTCATTGCCACATAAG 57.549 34.615 0.00 0.00 0.00 1.73
331 1463 8.271458 TCTCCTTATTAACTCATTGCCACATAA 58.729 33.333 0.00 0.00 0.00 1.90
332 1464 7.801104 TCTCCTTATTAACTCATTGCCACATA 58.199 34.615 0.00 0.00 0.00 2.29
333 1465 6.662755 TCTCCTTATTAACTCATTGCCACAT 58.337 36.000 0.00 0.00 0.00 3.21
334 1466 6.061022 TCTCCTTATTAACTCATTGCCACA 57.939 37.500 0.00 0.00 0.00 4.17
335 1467 6.349300 TCTCTCCTTATTAACTCATTGCCAC 58.651 40.000 0.00 0.00 0.00 5.01
336 1468 6.560003 TCTCTCCTTATTAACTCATTGCCA 57.440 37.500 0.00 0.00 0.00 4.92
337 1469 6.995091 ACATCTCTCCTTATTAACTCATTGCC 59.005 38.462 0.00 0.00 0.00 4.52
338 1470 9.202273 CTACATCTCTCCTTATTAACTCATTGC 57.798 37.037 0.00 0.00 0.00 3.56
353 1485 8.992073 GCTAAGTTACTAGTACTACATCTCTCC 58.008 40.741 0.91 0.00 0.00 3.71
354 1486 9.768662 AGCTAAGTTACTAGTACTACATCTCTC 57.231 37.037 0.91 0.00 0.00 3.20
373 1505 8.118976 TGTGATGTTACAGTAACTAGCTAAGT 57.881 34.615 21.56 0.00 41.49 2.24
374 1506 9.025020 CATGTGATGTTACAGTAACTAGCTAAG 57.975 37.037 21.56 6.36 39.38 2.18
375 1507 8.528643 ACATGTGATGTTACAGTAACTAGCTAA 58.471 33.333 21.56 3.59 41.63 3.09
376 1508 8.063200 ACATGTGATGTTACAGTAACTAGCTA 57.937 34.615 21.56 4.25 41.63 3.32
377 1509 6.936279 ACATGTGATGTTACAGTAACTAGCT 58.064 36.000 21.56 6.57 41.63 3.32
378 1510 7.036220 AGACATGTGATGTTACAGTAACTAGC 58.964 38.462 21.56 12.59 45.03 3.42
379 1511 8.244113 TGAGACATGTGATGTTACAGTAACTAG 58.756 37.037 21.56 8.25 45.03 2.57
380 1512 8.117813 TGAGACATGTGATGTTACAGTAACTA 57.882 34.615 21.56 10.50 45.03 2.24
381 1513 6.993079 TGAGACATGTGATGTTACAGTAACT 58.007 36.000 21.56 9.41 45.03 2.24
382 1514 7.652300 TTGAGACATGTGATGTTACAGTAAC 57.348 36.000 15.58 15.58 45.03 2.50
383 1515 7.148423 GCATTGAGACATGTGATGTTACAGTAA 60.148 37.037 1.15 0.00 45.03 2.24
384 1516 6.313658 GCATTGAGACATGTGATGTTACAGTA 59.686 38.462 1.15 0.00 45.03 2.74
385 1517 5.122869 GCATTGAGACATGTGATGTTACAGT 59.877 40.000 1.15 0.00 45.03 3.55
386 1518 5.122711 TGCATTGAGACATGTGATGTTACAG 59.877 40.000 1.15 0.00 45.03 2.74
387 1519 5.002516 TGCATTGAGACATGTGATGTTACA 58.997 37.500 1.15 0.00 45.03 2.41
388 1520 5.550232 TGCATTGAGACATGTGATGTTAC 57.450 39.130 1.15 0.00 45.03 2.50
389 1521 6.762702 ATTGCATTGAGACATGTGATGTTA 57.237 33.333 1.15 0.00 45.03 2.41
390 1522 5.654603 ATTGCATTGAGACATGTGATGTT 57.345 34.783 1.15 0.00 45.03 2.71
392 1524 6.966021 TCATATTGCATTGAGACATGTGATG 58.034 36.000 1.15 3.48 0.00 3.07
393 1525 6.771267 ACTCATATTGCATTGAGACATGTGAT 59.229 34.615 21.77 0.00 41.53 3.06
394 1526 6.117488 ACTCATATTGCATTGAGACATGTGA 58.883 36.000 21.77 9.32 41.53 3.58
395 1527 6.260271 AGACTCATATTGCATTGAGACATGTG 59.740 38.462 21.77 5.93 41.53 3.21
396 1528 6.354938 AGACTCATATTGCATTGAGACATGT 58.645 36.000 21.77 0.00 41.53 3.21
397 1529 6.862711 AGACTCATATTGCATTGAGACATG 57.137 37.500 21.77 5.67 41.53 3.21
399 1531 9.481340 GTTATAGACTCATATTGCATTGAGACA 57.519 33.333 21.77 10.72 41.53 3.41
400 1532 8.642885 CGTTATAGACTCATATTGCATTGAGAC 58.357 37.037 21.77 17.18 41.53 3.36
401 1533 8.360390 ACGTTATAGACTCATATTGCATTGAGA 58.640 33.333 21.77 6.70 41.53 3.27
402 1534 8.526218 ACGTTATAGACTCATATTGCATTGAG 57.474 34.615 16.15 16.15 43.97 3.02
403 1535 9.974980 TTACGTTATAGACTCATATTGCATTGA 57.025 29.630 0.00 0.00 0.00 2.57
419 1551 9.929722 TGCAAAGCTTCATTTATTACGTTATAG 57.070 29.630 0.00 0.00 0.00 1.31
421 1553 9.236691 CATGCAAAGCTTCATTTATTACGTTAT 57.763 29.630 0.00 0.00 0.00 1.89
422 1554 8.240682 ACATGCAAAGCTTCATTTATTACGTTA 58.759 29.630 0.00 0.00 0.00 3.18
423 1555 7.090173 ACATGCAAAGCTTCATTTATTACGTT 58.910 30.769 0.00 0.00 0.00 3.99
424 1556 6.620678 ACATGCAAAGCTTCATTTATTACGT 58.379 32.000 0.00 0.00 0.00 3.57
425 1557 7.510428 AACATGCAAAGCTTCATTTATTACG 57.490 32.000 0.00 0.00 0.00 3.18
426 1558 8.807581 GGTAACATGCAAAGCTTCATTTATTAC 58.192 33.333 0.00 8.32 0.00 1.89
427 1559 8.526978 TGGTAACATGCAAAGCTTCATTTATTA 58.473 29.630 0.00 0.00 46.17 0.98
428 1560 7.385267 TGGTAACATGCAAAGCTTCATTTATT 58.615 30.769 0.00 0.00 46.17 1.40
429 1561 6.934056 TGGTAACATGCAAAGCTTCATTTAT 58.066 32.000 0.00 0.00 46.17 1.40
430 1562 6.338214 TGGTAACATGCAAAGCTTCATTTA 57.662 33.333 0.00 0.18 46.17 1.40
431 1563 5.212532 TGGTAACATGCAAAGCTTCATTT 57.787 34.783 0.00 1.04 46.17 2.32
432 1564 4.870123 TGGTAACATGCAAAGCTTCATT 57.130 36.364 0.00 0.00 46.17 2.57
447 1579 6.591448 GTGGGTAGTAACATAAGTGTGGTAAC 59.409 42.308 0.00 0.00 38.92 2.50
448 1580 6.497954 AGTGGGTAGTAACATAAGTGTGGTAA 59.502 38.462 0.00 0.00 38.92 2.85
449 1581 6.018469 AGTGGGTAGTAACATAAGTGTGGTA 58.982 40.000 0.00 0.00 38.92 3.25
450 1582 4.842380 AGTGGGTAGTAACATAAGTGTGGT 59.158 41.667 0.00 0.00 38.92 4.16
451 1583 5.416271 AGTGGGTAGTAACATAAGTGTGG 57.584 43.478 0.00 0.00 38.92 4.17
452 1584 8.255206 TCAATAGTGGGTAGTAACATAAGTGTG 58.745 37.037 0.00 0.00 38.92 3.82
453 1585 8.370266 TCAATAGTGGGTAGTAACATAAGTGT 57.630 34.615 0.00 0.00 41.28 3.55
454 1586 7.926555 CCTCAATAGTGGGTAGTAACATAAGTG 59.073 40.741 0.00 0.00 0.00 3.16
455 1587 7.622479 ACCTCAATAGTGGGTAGTAACATAAGT 59.378 37.037 2.07 0.00 32.64 2.24
456 1588 8.019656 ACCTCAATAGTGGGTAGTAACATAAG 57.980 38.462 2.07 0.00 32.64 1.73
457 1589 7.983166 ACCTCAATAGTGGGTAGTAACATAA 57.017 36.000 2.07 0.00 32.64 1.90
458 1590 8.701908 CTACCTCAATAGTGGGTAGTAACATA 57.298 38.462 20.63 0.31 40.39 2.29
459 1591 7.598759 CTACCTCAATAGTGGGTAGTAACAT 57.401 40.000 20.63 0.00 40.39 2.71
465 1597 7.598759 ATGTTACTACCTCAATAGTGGGTAG 57.401 40.000 24.28 24.28 45.24 3.18
466 1598 8.284435 ACTATGTTACTACCTCAATAGTGGGTA 58.716 37.037 9.29 9.29 36.09 3.69
467 1599 7.130775 ACTATGTTACTACCTCAATAGTGGGT 58.869 38.462 8.14 8.14 36.09 4.51
468 1600 7.506261 AGACTATGTTACTACCTCAATAGTGGG 59.494 40.741 0.00 0.00 36.09 4.61
469 1601 8.466617 AGACTATGTTACTACCTCAATAGTGG 57.533 38.462 0.00 0.00 36.09 4.00
471 1603 9.796180 CCTAGACTATGTTACTACCTCAATAGT 57.204 37.037 0.00 0.00 38.89 2.12
472 1604 9.233649 CCCTAGACTATGTTACTACCTCAATAG 57.766 40.741 0.00 0.00 0.00 1.73
473 1605 8.952602 TCCCTAGACTATGTTACTACCTCAATA 58.047 37.037 0.00 0.00 0.00 1.90
474 1606 7.823635 TCCCTAGACTATGTTACTACCTCAAT 58.176 38.462 0.00 0.00 0.00 2.57
475 1607 7.217028 TCCCTAGACTATGTTACTACCTCAA 57.783 40.000 0.00 0.00 0.00 3.02
476 1608 6.836714 TCCCTAGACTATGTTACTACCTCA 57.163 41.667 0.00 0.00 0.00 3.86
477 1609 8.578151 CATTTCCCTAGACTATGTTACTACCTC 58.422 40.741 0.00 0.00 0.00 3.85
478 1610 8.066247 ACATTTCCCTAGACTATGTTACTACCT 58.934 37.037 0.00 0.00 28.04 3.08
479 1611 8.142551 CACATTTCCCTAGACTATGTTACTACC 58.857 40.741 0.00 0.00 29.39 3.18
480 1612 8.693625 ACACATTTCCCTAGACTATGTTACTAC 58.306 37.037 0.00 0.00 29.39 2.73
481 1613 8.834004 ACACATTTCCCTAGACTATGTTACTA 57.166 34.615 0.00 0.00 29.39 1.82
482 1614 7.735326 ACACATTTCCCTAGACTATGTTACT 57.265 36.000 0.00 0.00 29.39 2.24
483 1615 9.477484 CATACACATTTCCCTAGACTATGTTAC 57.523 37.037 0.00 0.00 29.39 2.50
484 1616 9.209048 ACATACACATTTCCCTAGACTATGTTA 57.791 33.333 0.00 0.00 29.39 2.41
485 1617 8.090788 ACATACACATTTCCCTAGACTATGTT 57.909 34.615 0.00 0.00 29.39 2.71
486 1618 7.676683 ACATACACATTTCCCTAGACTATGT 57.323 36.000 0.00 0.00 31.07 2.29
487 1619 9.477484 GTAACATACACATTTCCCTAGACTATG 57.523 37.037 0.00 0.00 0.00 2.23
488 1620 9.435570 AGTAACATACACATTTCCCTAGACTAT 57.564 33.333 0.00 0.00 0.00 2.12
489 1621 8.834004 AGTAACATACACATTTCCCTAGACTA 57.166 34.615 0.00 0.00 0.00 2.59
490 1622 7.735326 AGTAACATACACATTTCCCTAGACT 57.265 36.000 0.00 0.00 0.00 3.24
491 1623 8.693625 AGTAGTAACATACACATTTCCCTAGAC 58.306 37.037 0.00 0.00 0.00 2.59
492 1624 8.834004 AGTAGTAACATACACATTTCCCTAGA 57.166 34.615 0.00 0.00 0.00 2.43
493 1625 8.915036 AGAGTAGTAACATACACATTTCCCTAG 58.085 37.037 0.00 0.00 0.00 3.02
494 1626 8.834004 AGAGTAGTAACATACACATTTCCCTA 57.166 34.615 0.00 0.00 0.00 3.53
495 1627 7.735326 AGAGTAGTAACATACACATTTCCCT 57.265 36.000 0.00 0.00 0.00 4.20
496 1628 9.477484 CATAGAGTAGTAACATACACATTTCCC 57.523 37.037 0.00 0.00 0.00 3.97
507 1639 9.705103 TTGGGTAGTAACATAGAGTAGTAACAT 57.295 33.333 0.00 0.00 0.00 2.71
508 1640 9.532494 TTTGGGTAGTAACATAGAGTAGTAACA 57.468 33.333 0.00 0.00 0.00 2.41
512 1644 7.985752 GCAATTTGGGTAGTAACATAGAGTAGT 59.014 37.037 0.00 0.00 0.00 2.73
513 1645 7.441458 GGCAATTTGGGTAGTAACATAGAGTAG 59.559 40.741 0.00 0.00 0.00 2.57
514 1646 7.277396 GGCAATTTGGGTAGTAACATAGAGTA 58.723 38.462 0.00 0.00 0.00 2.59
515 1647 6.120220 GGCAATTTGGGTAGTAACATAGAGT 58.880 40.000 0.00 0.00 0.00 3.24
516 1648 5.531287 GGGCAATTTGGGTAGTAACATAGAG 59.469 44.000 0.00 0.00 0.00 2.43
517 1649 5.442391 GGGCAATTTGGGTAGTAACATAGA 58.558 41.667 0.00 0.00 0.00 1.98
518 1650 4.274950 CGGGCAATTTGGGTAGTAACATAG 59.725 45.833 0.00 0.00 0.00 2.23
519 1651 4.200874 CGGGCAATTTGGGTAGTAACATA 58.799 43.478 0.00 0.00 0.00 2.29
520 1652 3.020984 CGGGCAATTTGGGTAGTAACAT 58.979 45.455 0.00 0.00 0.00 2.71
521 1653 2.438411 CGGGCAATTTGGGTAGTAACA 58.562 47.619 0.00 0.00 0.00 2.41
522 1654 1.746787 CCGGGCAATTTGGGTAGTAAC 59.253 52.381 0.00 0.00 0.00 2.50
523 1655 1.355043 ACCGGGCAATTTGGGTAGTAA 59.645 47.619 6.32 0.00 0.00 2.24
524 1656 0.993470 ACCGGGCAATTTGGGTAGTA 59.007 50.000 6.32 0.00 0.00 1.82
525 1657 0.323087 GACCGGGCAATTTGGGTAGT 60.323 55.000 0.00 0.00 31.66 2.73
526 1658 0.322997 TGACCGGGCAATTTGGGTAG 60.323 55.000 8.12 0.00 31.66 3.18
527 1659 0.112606 TTGACCGGGCAATTTGGGTA 59.887 50.000 21.83 0.00 31.66 3.69
567 1707 9.546909 CATGTTACAAGTTTGACTTCACATATC 57.453 33.333 0.00 0.00 36.03 1.63
645 1793 9.819267 AGGTGTAGCAAATTAGTAGAGATAAAC 57.181 33.333 0.00 0.00 0.00 2.01
941 2128 3.041940 GAGGTGGTGGCAACGTCG 61.042 66.667 0.00 0.00 42.51 5.12
942 2129 2.668550 GGAGGTGGTGGCAACGTC 60.669 66.667 0.00 0.43 42.51 4.34
943 2130 4.619227 CGGAGGTGGTGGCAACGT 62.619 66.667 0.00 0.00 42.51 3.99
1173 2360 1.340889 GCACATTTGAAGTTGGGAGCA 59.659 47.619 0.00 0.00 0.00 4.26
1236 2423 1.203441 TCTGGCACATCTGGCTTCCT 61.203 55.000 0.00 0.00 43.53 3.36
1444 2778 5.452078 TGCCCTTACAGAAGTGAAATTTG 57.548 39.130 0.00 0.00 0.00 2.32
1767 3168 7.754625 ACGGTGAACATTTTAATATACACACC 58.245 34.615 0.00 0.00 40.06 4.16
1848 3249 4.201970 CGTTTTGCAATATACGGGGAACAT 60.202 41.667 16.77 0.00 0.00 2.71
1976 3378 2.373335 TCCCTTGCTGGTTGCTTTTA 57.627 45.000 0.00 0.00 43.37 1.52
1977 3379 1.413812 CTTCCCTTGCTGGTTGCTTTT 59.586 47.619 0.00 0.00 43.37 2.27
2123 3535 4.326826 CAAACAATAGAAGCCTGAGTCCA 58.673 43.478 0.00 0.00 0.00 4.02
2207 5979 0.396556 AAAAGCCCAACCCGAGTGTT 60.397 50.000 0.00 0.00 0.00 3.32
2268 6517 3.009143 AGGCTGAAAAATACTCTCCCGTT 59.991 43.478 0.00 0.00 0.00 4.44


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

AutoCloner maintained by Alex Coulton.