Multiple sequence alignment - TraesCS4B01G124800

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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 TraesCS4B01G124800 chr4B 100.000 4639 0 0 1 4639 150741509 150736871 0.000000e+00 8567.0
1 TraesCS4B01G124800 chr4B 98.913 460 4 1 1 460 38585857 38586315 0.000000e+00 821.0
2 TraesCS4B01G124800 chr4D 96.949 2491 58 11 1719 4198 195017294 195019777 0.000000e+00 4163.0
3 TraesCS4B01G124800 chr4D 90.687 1310 48 23 462 1725 195015987 195017268 0.000000e+00 1676.0
4 TraesCS4B01G124800 chr4D 96.744 430 14 0 4210 4639 195020301 195020730 0.000000e+00 717.0
5 TraesCS4B01G124800 chr4D 88.040 301 20 9 161 460 216530069 216530354 4.440000e-90 342.0
6 TraesCS4B01G124800 chr4D 94.012 167 10 0 1 167 216528950 216529116 2.140000e-63 254.0
7 TraesCS4B01G124800 chr4A 96.600 2000 57 3 1948 3936 248831560 248833559 0.000000e+00 3306.0
8 TraesCS4B01G124800 chr4A 90.375 1226 51 36 622 1803 248830022 248831224 0.000000e+00 1548.0
9 TraesCS4B01G124800 chr4A 97.313 707 17 1 3933 4639 248833663 248834367 0.000000e+00 1199.0
10 TraesCS4B01G124800 chr4A 84.524 168 7 5 467 634 248810520 248810668 1.040000e-31 148.0
11 TraesCS4B01G124800 chr1B 97.288 295 7 1 166 460 47914453 47914746 2.490000e-137 499.0
12 TraesCS4B01G124800 chr1B 87.459 303 24 5 161 461 34776587 34776877 2.070000e-88 337.0
13 TraesCS4B01G124800 chr1B 94.012 167 10 0 1 167 34775468 34775634 2.140000e-63 254.0
14 TraesCS4B01G124800 chr3A 93.709 302 18 1 161 461 559789537 559789236 7.080000e-123 451.0
15 TraesCS4B01G124800 chr6D 87.987 308 20 7 161 465 54378542 54378249 9.550000e-92 348.0
16 TraesCS4B01G124800 chr6D 94.012 167 10 0 1 167 393649642 393649808 2.140000e-63 254.0
17 TraesCS4B01G124800 chr7A 87.025 316 28 4 161 475 40780963 40781266 1.240000e-90 344.0
18 TraesCS4B01G124800 chr3D 88.079 302 21 6 161 461 497709802 497709515 1.240000e-90 344.0
19 TraesCS4B01G124800 chrUn 87.789 303 24 4 161 462 8432042 8432332 4.440000e-90 342.0
20 TraesCS4B01G124800 chr7D 94.611 167 9 0 1 167 166366914 166367080 4.600000e-65 259.0
21 TraesCS4B01G124800 chr2D 94.611 167 9 0 1 167 287838927 287838761 4.600000e-65 259.0
22 TraesCS4B01G124800 chr1A 94.611 167 9 0 1 167 99499083 99498917 4.600000e-65 259.0
23 TraesCS4B01G124800 chr1A 94.611 167 9 0 1 167 99875195 99875361 4.600000e-65 259.0
24 TraesCS4B01G124800 chr5D 94.012 167 10 0 1 167 443808026 443807860 2.140000e-63 254.0
25 TraesCS4B01G124800 chr5A 88.235 51 5 1 411 461 525080329 525080280 5.010000e-05 60.2


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 TraesCS4B01G124800 chr4B 150736871 150741509 4638 True 8567.000000 8567 100.000000 1 4639 1 chr4B.!!$R1 4638
1 TraesCS4B01G124800 chr4D 195015987 195020730 4743 False 2185.333333 4163 94.793333 462 4639 3 chr4D.!!$F1 4177
2 TraesCS4B01G124800 chr4D 216528950 216530354 1404 False 298.000000 342 91.026000 1 460 2 chr4D.!!$F2 459
3 TraesCS4B01G124800 chr4A 248830022 248834367 4345 False 2017.666667 3306 94.762667 622 4639 3 chr4A.!!$F2 4017
4 TraesCS4B01G124800 chr1B 34775468 34776877 1409 False 295.500000 337 90.735500 1 461 2 chr1B.!!$F2 460

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
439 1405 0.315568 TTTGTATGCCCCGTTGCAAC 59.684 50.000 19.89 19.89 45.84 4.17 F
460 1426 0.324552 TACGGGCCCTTGTGCTAGTA 60.325 55.000 22.43 9.10 0.00 1.82 F
1414 2402 0.450983 GGTCAGTCCCGTTCGTCTAG 59.549 60.000 0.00 0.00 0.00 2.43 F
1416 2404 1.135746 GTCAGTCCCGTTCGTCTAGTG 60.136 57.143 0.00 0.00 0.00 2.74 F
2321 3560 0.673437 CCAAACAATCCTTGTGGCGT 59.327 50.000 0.00 0.00 44.59 5.68 F
2406 3645 1.069636 GCTGCGTCCTGAAAACTGAAG 60.070 52.381 0.00 0.00 0.00 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2046 3285 0.251832 ACACATCAGACTCCCGGACT 60.252 55.000 0.73 0.00 0.00 3.85 R
2047 3286 0.608640 AACACATCAGACTCCCGGAC 59.391 55.000 0.73 0.00 0.00 4.79 R
2321 3560 1.676529 GATGCTGCGTAGAGTAGACCA 59.323 52.381 4.08 0.00 34.21 4.02 R
2932 4180 3.006659 TGCAAATTCGTTTGTGTAGGC 57.993 42.857 3.23 0.00 34.56 3.93 R
3632 4882 3.244911 ACCCTACATGGTGGTTTCAGAAG 60.245 47.826 0.00 0.00 37.20 2.85 R
3680 4930 4.040829 TCTGAGAACTGAAATCAGAAGCCA 59.959 41.667 16.93 8.28 44.80 4.75 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
70 71 4.006319 ACTGCTATGAAAGAAGAAGGCAC 58.994 43.478 0.00 0.00 33.95 5.01
72 73 4.005650 TGCTATGAAAGAAGAAGGCACAG 58.994 43.478 0.00 0.00 0.00 3.66
77 78 5.443185 TGAAAGAAGAAGGCACAGATTTG 57.557 39.130 0.00 0.00 0.00 2.32
120 121 3.678056 TGGCAGTGAGAACGAGTAAAT 57.322 42.857 0.00 0.00 0.00 1.40
126 127 7.014326 TGGCAGTGAGAACGAGTAAATATCTAT 59.986 37.037 0.00 0.00 0.00 1.98
127 128 7.327275 GGCAGTGAGAACGAGTAAATATCTATG 59.673 40.741 0.00 0.00 0.00 2.23
133 134 7.371936 AGAACGAGTAAATATCTATGACAGGC 58.628 38.462 0.00 0.00 0.00 4.85
188 1152 7.272948 GCAAAAATAGAATCTTCTCTGTTGCAG 59.727 37.037 17.11 0.00 38.89 4.41
263 1229 8.846943 TTAGTTGACAATGTTGATGTGTATCT 57.153 30.769 0.00 0.00 34.31 1.98
277 1243 6.714356 TGATGTGTATCTTTGACACCATTCAA 59.286 34.615 3.64 0.00 45.43 2.69
306 1272 8.573035 TGAACCACCAAATAATAGAAGTTGTTC 58.427 33.333 0.00 0.00 33.12 3.18
327 1293 8.764524 TGTTCGATTGGTAAAATATTTTTGGG 57.235 30.769 18.14 3.01 0.00 4.12
328 1294 8.368668 TGTTCGATTGGTAAAATATTTTTGGGT 58.631 29.630 18.14 2.66 0.00 4.51
329 1295 9.210329 GTTCGATTGGTAAAATATTTTTGGGTT 57.790 29.630 18.14 2.54 0.00 4.11
330 1296 9.780186 TTCGATTGGTAAAATATTTTTGGGTTT 57.220 25.926 18.14 1.09 0.00 3.27
331 1297 9.425577 TCGATTGGTAAAATATTTTTGGGTTTC 57.574 29.630 18.14 8.46 0.00 2.78
332 1298 9.430623 CGATTGGTAAAATATTTTTGGGTTTCT 57.569 29.630 18.14 0.00 0.00 2.52
342 1308 9.869757 AATATTTTTGGGTTTCTAAGTACATGC 57.130 29.630 0.00 0.00 0.00 4.06
343 1309 6.969993 TTTTTGGGTTTCTAAGTACATGCT 57.030 33.333 0.00 0.00 0.00 3.79
344 1310 6.969993 TTTTGGGTTTCTAAGTACATGCTT 57.030 33.333 0.00 0.00 0.00 3.91
345 1311 8.466617 TTTTTGGGTTTCTAAGTACATGCTTA 57.533 30.769 0.00 0.00 0.00 3.09
346 1312 8.644374 TTTTGGGTTTCTAAGTACATGCTTAT 57.356 30.769 0.00 0.00 31.42 1.73
347 1313 8.644374 TTTGGGTTTCTAAGTACATGCTTATT 57.356 30.769 0.00 0.00 31.42 1.40
348 1314 8.644374 TTGGGTTTCTAAGTACATGCTTATTT 57.356 30.769 0.00 0.00 31.42 1.40
349 1315 9.742144 TTGGGTTTCTAAGTACATGCTTATTTA 57.258 29.630 0.00 0.00 31.42 1.40
350 1316 9.914834 TGGGTTTCTAAGTACATGCTTATTTAT 57.085 29.630 0.00 0.00 31.42 1.40
369 1335 9.991388 TTATTTATTTTGTATCCACTGTAACGC 57.009 29.630 0.00 0.00 0.00 4.84
370 1336 7.436430 TTTATTTTGTATCCACTGTAACGCA 57.564 32.000 0.00 0.00 0.00 5.24
371 1337 7.618502 TTATTTTGTATCCACTGTAACGCAT 57.381 32.000 0.00 0.00 0.00 4.73
372 1338 4.937696 TTTGTATCCACTGTAACGCATG 57.062 40.909 0.00 0.00 0.00 4.06
373 1339 2.899976 TGTATCCACTGTAACGCATGG 58.100 47.619 0.00 0.00 0.00 3.66
374 1340 2.235155 TGTATCCACTGTAACGCATGGT 59.765 45.455 0.00 0.00 33.67 3.55
375 1341 2.024176 ATCCACTGTAACGCATGGTC 57.976 50.000 0.00 0.00 33.67 4.02
376 1342 0.973632 TCCACTGTAACGCATGGTCT 59.026 50.000 0.00 0.00 33.67 3.85
377 1343 1.346395 TCCACTGTAACGCATGGTCTT 59.654 47.619 0.00 0.00 33.67 3.01
378 1344 1.732259 CCACTGTAACGCATGGTCTTC 59.268 52.381 0.00 0.00 0.00 2.87
379 1345 2.612972 CCACTGTAACGCATGGTCTTCT 60.613 50.000 0.00 0.00 0.00 2.85
380 1346 3.368013 CCACTGTAACGCATGGTCTTCTA 60.368 47.826 0.00 0.00 0.00 2.10
381 1347 4.433615 CACTGTAACGCATGGTCTTCTAT 58.566 43.478 0.00 0.00 0.00 1.98
382 1348 4.268644 CACTGTAACGCATGGTCTTCTATG 59.731 45.833 0.00 0.00 35.96 2.23
395 1361 9.643693 CATGGTCTTCTATGCTTTTACAAAATT 57.356 29.630 0.00 0.00 0.00 1.82
397 1363 9.691362 TGGTCTTCTATGCTTTTACAAAATTTC 57.309 29.630 0.00 0.00 0.00 2.17
398 1364 9.691362 GGTCTTCTATGCTTTTACAAAATTTCA 57.309 29.630 0.00 0.00 0.00 2.69
402 1368 9.823647 TTCTATGCTTTTACAAAATTTCAACCA 57.176 25.926 0.00 0.00 0.00 3.67
403 1369 9.255304 TCTATGCTTTTACAAAATTTCAACCAC 57.745 29.630 0.00 0.00 0.00 4.16
404 1370 9.260002 CTATGCTTTTACAAAATTTCAACCACT 57.740 29.630 0.00 0.00 0.00 4.00
406 1372 8.641499 TGCTTTTACAAAATTTCAACCACTAG 57.359 30.769 0.00 0.00 0.00 2.57
407 1373 8.470805 TGCTTTTACAAAATTTCAACCACTAGA 58.529 29.630 0.00 0.00 0.00 2.43
408 1374 9.308318 GCTTTTACAAAATTTCAACCACTAGAA 57.692 29.630 0.00 0.00 0.00 2.10
412 1378 9.589111 TTACAAAATTTCAACCACTAGAAAACC 57.411 29.630 0.00 0.00 37.30 3.27
413 1379 7.616313 ACAAAATTTCAACCACTAGAAAACCA 58.384 30.769 0.00 0.00 37.30 3.67
414 1380 7.547722 ACAAAATTTCAACCACTAGAAAACCAC 59.452 33.333 0.00 0.00 37.30 4.16
415 1381 7.418337 AAATTTCAACCACTAGAAAACCACT 57.582 32.000 0.00 0.00 37.30 4.00
416 1382 8.528044 AAATTTCAACCACTAGAAAACCACTA 57.472 30.769 0.00 0.00 37.30 2.74
417 1383 8.528044 AATTTCAACCACTAGAAAACCACTAA 57.472 30.769 0.00 0.00 37.30 2.24
418 1384 7.941431 TTTCAACCACTAGAAAACCACTAAA 57.059 32.000 0.00 0.00 31.35 1.85
419 1385 7.941431 TTCAACCACTAGAAAACCACTAAAA 57.059 32.000 0.00 0.00 0.00 1.52
420 1386 8.528044 TTCAACCACTAGAAAACCACTAAAAT 57.472 30.769 0.00 0.00 0.00 1.82
421 1387 8.528044 TCAACCACTAGAAAACCACTAAAATT 57.472 30.769 0.00 0.00 0.00 1.82
422 1388 8.973182 TCAACCACTAGAAAACCACTAAAATTT 58.027 29.630 0.00 0.00 0.00 1.82
423 1389 9.030301 CAACCACTAGAAAACCACTAAAATTTG 57.970 33.333 0.00 0.00 0.00 2.32
424 1390 8.301252 ACCACTAGAAAACCACTAAAATTTGT 57.699 30.769 0.00 0.00 0.00 2.83
425 1391 9.411189 ACCACTAGAAAACCACTAAAATTTGTA 57.589 29.630 0.00 0.00 0.00 2.41
428 1394 9.908152 ACTAGAAAACCACTAAAATTTGTATGC 57.092 29.630 0.00 0.00 0.00 3.14
429 1395 9.353999 CTAGAAAACCACTAAAATTTGTATGCC 57.646 33.333 0.00 0.00 0.00 4.40
430 1396 7.158697 AGAAAACCACTAAAATTTGTATGCCC 58.841 34.615 0.00 0.00 0.00 5.36
431 1397 5.414789 AACCACTAAAATTTGTATGCCCC 57.585 39.130 0.00 0.00 0.00 5.80
432 1398 3.445805 ACCACTAAAATTTGTATGCCCCG 59.554 43.478 0.00 0.00 0.00 5.73
433 1399 3.445805 CCACTAAAATTTGTATGCCCCGT 59.554 43.478 0.00 0.00 0.00 5.28
434 1400 4.081917 CCACTAAAATTTGTATGCCCCGTT 60.082 41.667 0.00 0.00 0.00 4.44
435 1401 4.862018 CACTAAAATTTGTATGCCCCGTTG 59.138 41.667 0.00 0.00 0.00 4.10
436 1402 2.378445 AAATTTGTATGCCCCGTTGC 57.622 45.000 0.00 0.00 0.00 4.17
437 1403 1.261480 AATTTGTATGCCCCGTTGCA 58.739 45.000 0.00 0.00 46.94 4.08
438 1404 1.261480 ATTTGTATGCCCCGTTGCAA 58.739 45.000 0.00 0.00 45.84 4.08
439 1405 0.315568 TTTGTATGCCCCGTTGCAAC 59.684 50.000 19.89 19.89 45.84 4.17
448 1414 4.079748 CGTTGCAACGTACGGGCC 62.080 66.667 37.16 13.47 46.63 5.80
449 1415 3.729698 GTTGCAACGTACGGGCCC 61.730 66.667 24.90 13.57 0.00 5.80
450 1416 3.943691 TTGCAACGTACGGGCCCT 61.944 61.111 22.43 9.76 0.00 5.19
451 1417 3.479127 TTGCAACGTACGGGCCCTT 62.479 57.895 22.43 14.45 0.00 3.95
452 1418 3.428282 GCAACGTACGGGCCCTTG 61.428 66.667 22.43 18.05 0.00 3.61
453 1419 2.031465 CAACGTACGGGCCCTTGT 59.969 61.111 22.43 14.34 0.00 3.16
454 1420 2.031465 AACGTACGGGCCCTTGTG 59.969 61.111 22.43 10.19 0.00 3.33
455 1421 4.692475 ACGTACGGGCCCTTGTGC 62.692 66.667 22.43 14.03 0.00 4.57
456 1422 4.388499 CGTACGGGCCCTTGTGCT 62.388 66.667 22.43 0.00 0.00 4.40
457 1423 2.983791 GTACGGGCCCTTGTGCTA 59.016 61.111 22.43 0.00 0.00 3.49
458 1424 1.153429 GTACGGGCCCTTGTGCTAG 60.153 63.158 22.43 3.46 0.00 3.42
459 1425 1.611261 TACGGGCCCTTGTGCTAGT 60.611 57.895 22.43 10.23 0.00 2.57
460 1426 0.324552 TACGGGCCCTTGTGCTAGTA 60.325 55.000 22.43 9.10 0.00 1.82
476 1442 7.723324 TGTGCTAGTACAGACTAAAAAGAACT 58.277 34.615 9.84 0.00 37.72 3.01
480 1446 7.542824 GCTAGTACAGACTAAAAAGAACTGGAG 59.457 40.741 0.00 0.00 37.72 3.86
502 1468 9.432982 TGGAGGGAGCAATAACATTTTATATTT 57.567 29.630 0.00 0.00 0.00 1.40
570 1536 4.326504 AAAACATGGGTTGCTTGAGAAG 57.673 40.909 0.00 0.00 37.30 2.85
572 1538 2.233271 ACATGGGTTGCTTGAGAAGTG 58.767 47.619 0.00 0.00 0.00 3.16
573 1539 1.542915 CATGGGTTGCTTGAGAAGTGG 59.457 52.381 0.00 0.00 0.00 4.00
718 1684 5.837829 ACTTGTAAATCTCTCCCTCTCTCT 58.162 41.667 0.00 0.00 0.00 3.10
719 1685 6.260663 ACTTGTAAATCTCTCCCTCTCTCTT 58.739 40.000 0.00 0.00 0.00 2.85
781 1748 2.281761 CTGCAGTGAAAGCCCGGT 60.282 61.111 5.25 0.00 0.00 5.28
841 1808 2.221169 GTTCTGACCATCACTTGTGCA 58.779 47.619 0.00 0.00 0.00 4.57
844 1811 1.741706 CTGACCATCACTTGTGCATCC 59.258 52.381 0.00 0.00 0.00 3.51
974 1945 4.039004 CCTCTCTCTCTCTCTCTCTCTCTG 59.961 54.167 0.00 0.00 0.00 3.35
976 1947 4.403752 TCTCTCTCTCTCTCTCTCTCTGTG 59.596 50.000 0.00 0.00 0.00 3.66
978 1949 4.081476 TCTCTCTCTCTCTCTCTCTGTGTG 60.081 50.000 0.00 0.00 0.00 3.82
1369 2357 4.752879 TTGGACTGCTACGCGCCC 62.753 66.667 5.73 0.00 38.05 6.13
1410 2398 3.677648 CCGGTCAGTCCCGTTCGT 61.678 66.667 0.00 0.00 46.66 3.85
1411 2399 2.126580 CGGTCAGTCCCGTTCGTC 60.127 66.667 0.00 0.00 43.07 4.20
1412 2400 2.623915 CGGTCAGTCCCGTTCGTCT 61.624 63.158 0.00 0.00 43.07 4.18
1413 2401 1.300971 CGGTCAGTCCCGTTCGTCTA 61.301 60.000 0.00 0.00 43.07 2.59
1414 2402 0.450983 GGTCAGTCCCGTTCGTCTAG 59.549 60.000 0.00 0.00 0.00 2.43
1415 2403 1.163554 GTCAGTCCCGTTCGTCTAGT 58.836 55.000 0.00 0.00 0.00 2.57
1416 2404 1.135746 GTCAGTCCCGTTCGTCTAGTG 60.136 57.143 0.00 0.00 0.00 2.74
1418 2406 1.743958 CAGTCCCGTTCGTCTAGTGAT 59.256 52.381 0.00 0.00 0.00 3.06
1419 2407 2.941064 CAGTCCCGTTCGTCTAGTGATA 59.059 50.000 0.00 0.00 0.00 2.15
1420 2408 3.002451 CAGTCCCGTTCGTCTAGTGATAG 59.998 52.174 0.00 0.00 0.00 2.08
1421 2409 2.290093 GTCCCGTTCGTCTAGTGATAGG 59.710 54.545 0.00 0.00 0.00 2.57
1432 2420 6.039493 TCGTCTAGTGATAGGATGTTTCTTCC 59.961 42.308 0.00 0.00 0.00 3.46
1438 2426 6.013379 AGTGATAGGATGTTTCTTCCACTTGA 60.013 38.462 0.00 0.00 35.59 3.02
1442 2430 5.799213 AGGATGTTTCTTCCACTTGACTAG 58.201 41.667 4.87 0.00 35.59 2.57
1452 2440 4.922206 TCCACTTGACTAGCCAATCAAAT 58.078 39.130 0.00 0.00 34.52 2.32
1453 2441 5.324409 TCCACTTGACTAGCCAATCAAATT 58.676 37.500 0.00 0.00 34.52 1.82
1462 2454 9.905713 TGACTAGCCAATCAAATTATTCTAGTT 57.094 29.630 0.00 0.00 36.58 2.24
1467 2459 9.189156 AGCCAATCAAATTATTCTAGTTAAGCA 57.811 29.630 0.00 0.00 0.00 3.91
1468 2460 9.801873 GCCAATCAAATTATTCTAGTTAAGCAA 57.198 29.630 0.00 0.00 0.00 3.91
1485 2477 9.830975 AGTTAAGCAACATTTAATTCCAAAACT 57.169 25.926 0.00 0.00 37.10 2.66
1509 2501 6.607735 TTTTAGTAGAGGTTTCGTTGGTTG 57.392 37.500 0.00 0.00 0.00 3.77
1526 2518 6.291637 CGTTGGTTGCATCGAAATACTAGTAG 60.292 42.308 8.85 0.00 0.00 2.57
1527 2519 6.459670 TGGTTGCATCGAAATACTAGTAGA 57.540 37.500 8.85 0.46 0.00 2.59
1531 2546 7.167801 GGTTGCATCGAAATACTAGTAGAACTC 59.832 40.741 8.85 1.75 0.00 3.01
1545 2560 6.849085 AGTAGAACTCTCACATCATCTTGT 57.151 37.500 0.00 0.00 0.00 3.16
1744 2792 3.939740 AACAGGATATGCAGACCACAT 57.060 42.857 8.83 0.00 0.00 3.21
1848 2896 6.531503 TCCCAATACAACAAAACTTTGACA 57.468 33.333 9.12 0.00 40.55 3.58
1849 2897 6.568869 TCCCAATACAACAAAACTTTGACAG 58.431 36.000 9.12 1.54 40.55 3.51
1884 2932 4.699522 ACGCCCCCGAGAGTTTGC 62.700 66.667 0.00 0.00 38.29 3.68
1885 2933 4.697756 CGCCCCCGAGAGTTTGCA 62.698 66.667 0.00 0.00 36.29 4.08
2174 3413 1.615262 GCTTTGCCCCCTATGAGGT 59.385 57.895 0.00 0.00 31.93 3.85
2321 3560 0.673437 CCAAACAATCCTTGTGGCGT 59.327 50.000 0.00 0.00 44.59 5.68
2406 3645 1.069636 GCTGCGTCCTGAAAACTGAAG 60.070 52.381 0.00 0.00 0.00 3.02
2527 3766 4.191544 TGATTTACTGGCATAGCACTGAC 58.808 43.478 0.00 0.00 0.00 3.51
2571 3819 3.096092 TGAAACTGCAAAAGAGTTGGGT 58.904 40.909 0.00 0.00 33.85 4.51
2806 4054 3.009805 TCTCCATTGCTGGCTATATGCAT 59.990 43.478 3.79 3.79 45.15 3.96
2932 4180 9.326413 AGGATCCTATTACGAAACAATGTTTAG 57.674 33.333 14.27 13.91 0.00 1.85
3084 4334 3.936372 CTCTACGGAAGAGTGAACCAA 57.064 47.619 8.48 0.00 45.85 3.67
3096 4346 5.136105 AGAGTGAACCAAATTGAAGCTCTT 58.864 37.500 0.00 0.00 0.00 2.85
3458 4708 8.233190 GCGTTCTTAAGTACTAGTCTTGTTCTA 58.767 37.037 0.00 0.00 0.00 2.10
3515 4765 1.545651 CCAGGTTCTGTCCTTGGGTTC 60.546 57.143 0.00 0.00 35.37 3.62
3668 4918 5.106157 CCATGTAGGGTTTTTGTTAGCTCAG 60.106 44.000 0.00 0.00 0.00 3.35
3684 4934 8.210946 TGTTAGCTCAGTAACATTTATATGGCT 58.789 33.333 0.00 0.00 37.86 4.75
3803 5053 6.588348 AAAAGTCTGCAACAAATTTACAGC 57.412 33.333 0.00 0.00 0.00 4.40
3863 5113 4.886489 TGCATAGCAGCAATACAATTACCA 59.114 37.500 0.00 0.00 42.46 3.25
3900 5150 3.498774 AACAAGTGAGCCACAAGATCT 57.501 42.857 7.86 0.00 36.74 2.75
3946 5303 7.895759 ACAACCATTGTAAGAAGTGCATAATT 58.104 30.769 0.00 0.00 43.27 1.40
4102 5459 5.023533 ACAGGCATGTAAGGTATGTACAG 57.976 43.478 0.06 0.00 38.09 2.74
4208 5565 3.817647 AGACATTGAACAAAGACCAGCTC 59.182 43.478 0.00 0.00 0.00 4.09
4330 6199 6.723977 TGGAAGCCTGGTTATTCTTATTTGTT 59.276 34.615 0.00 0.00 0.00 2.83
4408 6277 1.344763 AGCAGCGTAGACAAAGGAAGT 59.655 47.619 0.00 0.00 0.00 3.01
4559 6428 4.144297 TGTTTAGTGCTTCTGCCTTCAAT 58.856 39.130 0.00 0.00 38.71 2.57
4563 6432 2.307098 AGTGCTTCTGCCTTCAATACCT 59.693 45.455 0.00 0.00 38.71 3.08
4589 6458 1.081892 CACGGTCCTTCTCAGCATTG 58.918 55.000 0.00 0.00 0.00 2.82
4595 6464 3.133003 GGTCCTTCTCAGCATTGTAGCTA 59.867 47.826 0.00 0.00 44.54 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
70 71 2.997986 GCAATTCCACAAGGCAAATCTG 59.002 45.455 0.00 0.00 33.74 2.90
72 73 2.289569 TGGCAATTCCACAAGGCAAATC 60.290 45.455 0.00 0.00 40.72 2.17
77 78 1.474077 CTACTGGCAATTCCACAAGGC 59.526 52.381 0.00 0.00 40.72 4.35
126 127 7.035004 GCTTCAAAATAATGTATTGCCTGTCA 58.965 34.615 0.00 0.00 0.00 3.58
127 128 7.260603 AGCTTCAAAATAATGTATTGCCTGTC 58.739 34.615 0.00 0.00 0.00 3.51
188 1152 3.559238 GTCATGTGACATGTTCCCAAC 57.441 47.619 23.39 10.69 44.18 3.77
200 1164 1.205655 GCCAGCTCAGTAGTCATGTGA 59.794 52.381 0.00 0.00 0.00 3.58
262 1228 6.018832 GTGGTTCAAATTGAATGGTGTCAAAG 60.019 38.462 11.87 0.00 40.76 2.77
263 1229 5.814705 GTGGTTCAAATTGAATGGTGTCAAA 59.185 36.000 11.87 0.00 40.76 2.69
277 1243 9.927668 CAACTTCTATTATTTGGTGGTTCAAAT 57.072 29.630 7.75 7.75 45.76 2.32
306 1272 9.430623 AGAAACCCAAAAATATTTTACCAATCG 57.569 29.630 13.68 1.41 0.00 3.34
318 1284 8.644374 AGCATGTACTTAGAAACCCAAAAATA 57.356 30.769 0.00 0.00 0.00 1.40
319 1285 7.539034 AGCATGTACTTAGAAACCCAAAAAT 57.461 32.000 0.00 0.00 0.00 1.82
320 1286 6.969993 AGCATGTACTTAGAAACCCAAAAA 57.030 33.333 0.00 0.00 0.00 1.94
321 1287 6.969993 AAGCATGTACTTAGAAACCCAAAA 57.030 33.333 0.00 0.00 0.00 2.44
322 1288 8.644374 AATAAGCATGTACTTAGAAACCCAAA 57.356 30.769 0.00 0.00 35.67 3.28
323 1289 8.644374 AAATAAGCATGTACTTAGAAACCCAA 57.356 30.769 0.00 0.00 35.67 4.12
324 1290 9.914834 ATAAATAAGCATGTACTTAGAAACCCA 57.085 29.630 0.00 0.00 35.67 4.51
354 1320 2.864343 GACCATGCGTTACAGTGGATAC 59.136 50.000 0.00 0.00 33.58 2.24
355 1321 2.764010 AGACCATGCGTTACAGTGGATA 59.236 45.455 0.00 0.00 33.58 2.59
356 1322 1.555075 AGACCATGCGTTACAGTGGAT 59.445 47.619 0.00 0.00 33.58 3.41
357 1323 0.973632 AGACCATGCGTTACAGTGGA 59.026 50.000 0.00 0.00 33.58 4.02
358 1324 1.732259 GAAGACCATGCGTTACAGTGG 59.268 52.381 0.00 0.00 34.77 4.00
359 1325 2.688507 AGAAGACCATGCGTTACAGTG 58.311 47.619 0.00 0.00 0.00 3.66
360 1326 4.433615 CATAGAAGACCATGCGTTACAGT 58.566 43.478 0.00 0.00 0.00 3.55
361 1327 3.246226 GCATAGAAGACCATGCGTTACAG 59.754 47.826 0.00 0.00 38.31 2.74
362 1328 3.194861 GCATAGAAGACCATGCGTTACA 58.805 45.455 0.00 0.00 38.31 2.41
363 1329 3.861569 GCATAGAAGACCATGCGTTAC 57.138 47.619 0.00 0.00 38.31 2.50
368 1334 5.818136 TGTAAAAGCATAGAAGACCATGC 57.182 39.130 0.00 0.00 46.35 4.06
369 1335 9.643693 AATTTTGTAAAAGCATAGAAGACCATG 57.356 29.630 0.00 0.00 0.00 3.66
371 1337 9.691362 GAAATTTTGTAAAAGCATAGAAGACCA 57.309 29.630 0.00 0.00 0.00 4.02
372 1338 9.691362 TGAAATTTTGTAAAAGCATAGAAGACC 57.309 29.630 0.00 0.00 0.00 3.85
376 1342 9.823647 TGGTTGAAATTTTGTAAAAGCATAGAA 57.176 25.926 0.00 0.00 0.00 2.10
377 1343 9.255304 GTGGTTGAAATTTTGTAAAAGCATAGA 57.745 29.630 0.00 0.00 0.00 1.98
378 1344 9.260002 AGTGGTTGAAATTTTGTAAAAGCATAG 57.740 29.630 0.00 0.00 0.00 2.23
380 1346 9.260002 CTAGTGGTTGAAATTTTGTAAAAGCAT 57.740 29.630 0.00 0.00 0.00 3.79
381 1347 8.470805 TCTAGTGGTTGAAATTTTGTAAAAGCA 58.529 29.630 0.00 0.00 0.00 3.91
382 1348 8.865590 TCTAGTGGTTGAAATTTTGTAAAAGC 57.134 30.769 0.00 0.00 0.00 3.51
386 1352 9.589111 GGTTTTCTAGTGGTTGAAATTTTGTAA 57.411 29.630 0.00 0.00 33.04 2.41
387 1353 8.750298 TGGTTTTCTAGTGGTTGAAATTTTGTA 58.250 29.630 0.00 0.00 33.04 2.41
388 1354 7.547722 GTGGTTTTCTAGTGGTTGAAATTTTGT 59.452 33.333 0.00 0.00 33.04 2.83
389 1355 7.763985 AGTGGTTTTCTAGTGGTTGAAATTTTG 59.236 33.333 0.00 0.00 33.04 2.44
390 1356 7.847096 AGTGGTTTTCTAGTGGTTGAAATTTT 58.153 30.769 0.00 0.00 33.04 1.82
391 1357 7.418337 AGTGGTTTTCTAGTGGTTGAAATTT 57.582 32.000 0.00 0.00 33.04 1.82
392 1358 8.528044 TTAGTGGTTTTCTAGTGGTTGAAATT 57.472 30.769 0.00 0.00 33.04 1.82
393 1359 8.528044 TTTAGTGGTTTTCTAGTGGTTGAAAT 57.472 30.769 0.00 0.00 33.04 2.17
394 1360 7.941431 TTTAGTGGTTTTCTAGTGGTTGAAA 57.059 32.000 0.00 0.00 0.00 2.69
395 1361 7.941431 TTTTAGTGGTTTTCTAGTGGTTGAA 57.059 32.000 0.00 0.00 0.00 2.69
396 1362 8.528044 AATTTTAGTGGTTTTCTAGTGGTTGA 57.472 30.769 0.00 0.00 0.00 3.18
397 1363 9.030301 CAAATTTTAGTGGTTTTCTAGTGGTTG 57.970 33.333 0.00 0.00 0.00 3.77
398 1364 8.755028 ACAAATTTTAGTGGTTTTCTAGTGGTT 58.245 29.630 0.00 0.00 0.00 3.67
399 1365 8.301252 ACAAATTTTAGTGGTTTTCTAGTGGT 57.699 30.769 0.00 0.00 0.00 4.16
402 1368 9.908152 GCATACAAATTTTAGTGGTTTTCTAGT 57.092 29.630 0.00 0.00 0.00 2.57
403 1369 9.353999 GGCATACAAATTTTAGTGGTTTTCTAG 57.646 33.333 0.00 0.00 0.00 2.43
404 1370 8.308207 GGGCATACAAATTTTAGTGGTTTTCTA 58.692 33.333 0.00 0.00 0.00 2.10
405 1371 7.158697 GGGCATACAAATTTTAGTGGTTTTCT 58.841 34.615 0.00 0.00 0.00 2.52
406 1372 6.370442 GGGGCATACAAATTTTAGTGGTTTTC 59.630 38.462 0.00 0.00 0.00 2.29
407 1373 6.234920 GGGGCATACAAATTTTAGTGGTTTT 58.765 36.000 0.00 0.00 0.00 2.43
408 1374 5.567823 CGGGGCATACAAATTTTAGTGGTTT 60.568 40.000 0.00 0.00 0.00 3.27
409 1375 4.081917 CGGGGCATACAAATTTTAGTGGTT 60.082 41.667 0.00 0.00 0.00 3.67
410 1376 3.445805 CGGGGCATACAAATTTTAGTGGT 59.554 43.478 0.00 0.00 0.00 4.16
411 1377 3.445805 ACGGGGCATACAAATTTTAGTGG 59.554 43.478 0.00 0.00 0.00 4.00
412 1378 4.712122 ACGGGGCATACAAATTTTAGTG 57.288 40.909 0.00 0.00 0.00 2.74
413 1379 4.619628 GCAACGGGGCATACAAATTTTAGT 60.620 41.667 0.00 0.00 0.00 2.24
414 1380 3.862845 GCAACGGGGCATACAAATTTTAG 59.137 43.478 0.00 0.00 0.00 1.85
415 1381 3.258372 TGCAACGGGGCATACAAATTTTA 59.742 39.130 0.00 0.00 39.25 1.52
416 1382 2.037772 TGCAACGGGGCATACAAATTTT 59.962 40.909 0.00 0.00 39.25 1.82
417 1383 1.620819 TGCAACGGGGCATACAAATTT 59.379 42.857 0.00 0.00 39.25 1.82
418 1384 1.261480 TGCAACGGGGCATACAAATT 58.739 45.000 0.00 0.00 39.25 1.82
419 1385 1.067213 GTTGCAACGGGGCATACAAAT 60.067 47.619 14.90 0.00 44.48 2.32
420 1386 0.315568 GTTGCAACGGGGCATACAAA 59.684 50.000 14.90 0.00 44.48 2.83
421 1387 1.960612 GTTGCAACGGGGCATACAA 59.039 52.632 14.90 0.00 44.48 2.41
422 1388 3.674906 GTTGCAACGGGGCATACA 58.325 55.556 14.90 0.00 44.48 2.29
432 1398 3.729698 GGGCCCGTACGTTGCAAC 61.730 66.667 19.89 19.89 0.00 4.17
433 1399 3.479127 AAGGGCCCGTACGTTGCAA 62.479 57.895 18.44 0.00 0.00 4.08
434 1400 3.943691 AAGGGCCCGTACGTTGCA 61.944 61.111 18.44 0.00 0.00 4.08
435 1401 3.428282 CAAGGGCCCGTACGTTGC 61.428 66.667 18.44 15.76 0.00 4.17
436 1402 2.031465 ACAAGGGCCCGTACGTTG 59.969 61.111 18.44 17.59 39.04 4.10
437 1403 2.031465 CACAAGGGCCCGTACGTT 59.969 61.111 18.44 0.59 0.00 3.99
438 1404 4.692475 GCACAAGGGCCCGTACGT 62.692 66.667 18.44 9.52 0.00 3.57
439 1405 2.901051 CTAGCACAAGGGCCCGTACG 62.901 65.000 18.44 8.69 0.00 3.67
440 1406 1.153429 CTAGCACAAGGGCCCGTAC 60.153 63.158 18.44 3.70 0.00 3.67
441 1407 0.324552 TACTAGCACAAGGGCCCGTA 60.325 55.000 18.44 6.99 0.00 4.02
442 1408 1.611261 TACTAGCACAAGGGCCCGT 60.611 57.895 18.44 11.44 0.00 5.28
443 1409 1.153429 GTACTAGCACAAGGGCCCG 60.153 63.158 18.44 5.44 0.00 6.13
444 1410 0.107654 CTGTACTAGCACAAGGGCCC 60.108 60.000 16.46 16.46 0.00 5.80
445 1411 0.902531 TCTGTACTAGCACAAGGGCC 59.097 55.000 0.00 0.00 0.00 5.80
446 1412 1.550976 AGTCTGTACTAGCACAAGGGC 59.449 52.381 0.00 0.00 32.84 5.19
447 1413 5.401531 TTTAGTCTGTACTAGCACAAGGG 57.598 43.478 0.00 0.00 39.36 3.95
448 1414 7.152645 TCTTTTTAGTCTGTACTAGCACAAGG 58.847 38.462 0.00 0.00 39.36 3.61
449 1415 8.488764 GTTCTTTTTAGTCTGTACTAGCACAAG 58.511 37.037 0.00 0.00 39.36 3.16
450 1416 8.202137 AGTTCTTTTTAGTCTGTACTAGCACAA 58.798 33.333 0.00 0.00 39.36 3.33
451 1417 7.652105 CAGTTCTTTTTAGTCTGTACTAGCACA 59.348 37.037 0.00 0.00 39.36 4.57
452 1418 7.116519 CCAGTTCTTTTTAGTCTGTACTAGCAC 59.883 40.741 0.00 0.00 39.36 4.40
453 1419 7.014905 TCCAGTTCTTTTTAGTCTGTACTAGCA 59.985 37.037 0.00 0.00 39.36 3.49
454 1420 7.376615 TCCAGTTCTTTTTAGTCTGTACTAGC 58.623 38.462 0.00 0.00 39.36 3.42
455 1421 8.030106 CCTCCAGTTCTTTTTAGTCTGTACTAG 58.970 40.741 0.00 0.00 39.36 2.57
456 1422 7.039223 CCCTCCAGTTCTTTTTAGTCTGTACTA 60.039 40.741 0.00 0.00 37.15 1.82
457 1423 6.239629 CCCTCCAGTTCTTTTTAGTCTGTACT 60.240 42.308 0.00 0.00 39.91 2.73
458 1424 5.932883 CCCTCCAGTTCTTTTTAGTCTGTAC 59.067 44.000 0.00 0.00 0.00 2.90
459 1425 5.842328 TCCCTCCAGTTCTTTTTAGTCTGTA 59.158 40.000 0.00 0.00 0.00 2.74
460 1426 4.658901 TCCCTCCAGTTCTTTTTAGTCTGT 59.341 41.667 0.00 0.00 0.00 3.41
476 1442 9.432982 AAATATAAAATGTTATTGCTCCCTCCA 57.567 29.630 0.00 0.00 32.10 3.86
505 1471 9.706691 GATGAATACTTCCTCCGTTTCATAATA 57.293 33.333 0.00 0.00 34.81 0.98
506 1472 8.210946 TGATGAATACTTCCTCCGTTTCATAAT 58.789 33.333 0.00 0.00 34.81 1.28
507 1473 7.561251 TGATGAATACTTCCTCCGTTTCATAA 58.439 34.615 0.00 0.00 34.81 1.90
508 1474 7.119709 TGATGAATACTTCCTCCGTTTCATA 57.880 36.000 0.00 0.00 34.81 2.15
535 1501 4.520492 CCCATGTTTTTCACTAGTCTGCTT 59.480 41.667 0.00 0.00 0.00 3.91
663 1629 2.097464 TGGATGCAAAAGCCAAGAGCA 61.097 47.619 0.00 0.00 42.89 4.26
781 1748 2.290287 TTGGCTAGCTCCTTCCGCA 61.290 57.895 15.72 0.00 0.00 5.69
974 1945 1.328680 CAGACTCTGCACACAACACAC 59.671 52.381 0.00 0.00 0.00 3.82
1059 2047 5.192176 TGAGGCATGCACATTAATAACTGA 58.808 37.500 21.36 0.00 0.00 3.41
1398 2386 1.162698 TCACTAGACGAACGGGACTG 58.837 55.000 0.00 0.00 0.00 3.51
1401 2389 2.171237 TCCTATCACTAGACGAACGGGA 59.829 50.000 0.00 0.16 0.00 5.14
1402 2390 2.569059 TCCTATCACTAGACGAACGGG 58.431 52.381 0.00 0.00 0.00 5.28
1405 2393 6.797454 AGAAACATCCTATCACTAGACGAAC 58.203 40.000 0.00 0.00 0.00 3.95
1406 2394 7.406031 AAGAAACATCCTATCACTAGACGAA 57.594 36.000 0.00 0.00 0.00 3.85
1408 2396 6.183360 TGGAAGAAACATCCTATCACTAGACG 60.183 42.308 0.00 0.00 37.85 4.18
1409 2397 6.981559 GTGGAAGAAACATCCTATCACTAGAC 59.018 42.308 0.00 0.00 37.85 2.59
1410 2398 6.897966 AGTGGAAGAAACATCCTATCACTAGA 59.102 38.462 0.00 0.00 37.85 2.43
1411 2399 7.118496 AGTGGAAGAAACATCCTATCACTAG 57.882 40.000 0.00 0.00 37.85 2.57
1412 2400 7.180229 TCAAGTGGAAGAAACATCCTATCACTA 59.820 37.037 0.00 0.00 37.85 2.74
1413 2401 6.013379 TCAAGTGGAAGAAACATCCTATCACT 60.013 38.462 0.00 0.00 37.85 3.41
1414 2402 6.092807 GTCAAGTGGAAGAAACATCCTATCAC 59.907 42.308 0.00 0.00 37.85 3.06
1415 2403 6.013379 AGTCAAGTGGAAGAAACATCCTATCA 60.013 38.462 0.00 0.00 37.85 2.15
1416 2404 6.410540 AGTCAAGTGGAAGAAACATCCTATC 58.589 40.000 0.00 0.00 37.85 2.08
1418 2406 5.825593 AGTCAAGTGGAAGAAACATCCTA 57.174 39.130 0.00 0.00 37.85 2.94
1419 2407 4.713792 AGTCAAGTGGAAGAAACATCCT 57.286 40.909 0.00 0.00 37.85 3.24
1420 2408 4.393371 GCTAGTCAAGTGGAAGAAACATCC 59.607 45.833 0.00 0.00 37.48 3.51
1421 2409 4.393371 GGCTAGTCAAGTGGAAGAAACATC 59.607 45.833 0.00 0.00 0.00 3.06
1432 2420 8.680903 AGAATAATTTGATTGGCTAGTCAAGTG 58.319 33.333 16.07 0.00 35.91 3.16
1442 2430 9.801873 TTGCTTAACTAGAATAATTTGATTGGC 57.198 29.630 0.00 0.00 0.00 4.52
1478 2470 7.700505 ACGAAACCTCTACTAAAAAGTTTTGG 58.299 34.615 0.61 0.00 34.39 3.28
1479 2471 9.006215 CAACGAAACCTCTACTAAAAAGTTTTG 57.994 33.333 0.61 0.00 35.61 2.44
1480 2472 8.186163 CCAACGAAACCTCTACTAAAAAGTTTT 58.814 33.333 0.00 0.00 0.00 2.43
1481 2473 7.337689 ACCAACGAAACCTCTACTAAAAAGTTT 59.662 33.333 0.00 0.00 0.00 2.66
1482 2474 6.825213 ACCAACGAAACCTCTACTAAAAAGTT 59.175 34.615 0.00 0.00 0.00 2.66
1483 2475 6.351711 ACCAACGAAACCTCTACTAAAAAGT 58.648 36.000 0.00 0.00 0.00 2.66
1484 2476 6.856135 ACCAACGAAACCTCTACTAAAAAG 57.144 37.500 0.00 0.00 0.00 2.27
1485 2477 6.458615 GCAACCAACGAAACCTCTACTAAAAA 60.459 38.462 0.00 0.00 0.00 1.94
1486 2478 5.007921 GCAACCAACGAAACCTCTACTAAAA 59.992 40.000 0.00 0.00 0.00 1.52
1487 2479 4.512571 GCAACCAACGAAACCTCTACTAAA 59.487 41.667 0.00 0.00 0.00 1.85
1488 2480 4.060205 GCAACCAACGAAACCTCTACTAA 58.940 43.478 0.00 0.00 0.00 2.24
1489 2481 3.069872 TGCAACCAACGAAACCTCTACTA 59.930 43.478 0.00 0.00 0.00 1.82
1490 2482 2.158871 TGCAACCAACGAAACCTCTACT 60.159 45.455 0.00 0.00 0.00 2.57
1491 2483 2.215196 TGCAACCAACGAAACCTCTAC 58.785 47.619 0.00 0.00 0.00 2.59
1509 2501 7.588488 GTGAGAGTTCTACTAGTATTTCGATGC 59.412 40.741 2.33 0.00 0.00 3.91
1526 2518 7.869800 AGAAAAACAAGATGATGTGAGAGTTC 58.130 34.615 0.00 0.00 32.81 3.01
1527 2519 7.814264 AGAAAAACAAGATGATGTGAGAGTT 57.186 32.000 0.00 0.00 32.81 3.01
1531 2546 6.973843 TGGAAGAAAAACAAGATGATGTGAG 58.026 36.000 0.00 0.00 32.81 3.51
1545 2560 5.495640 AGGTGTTGCAAAATGGAAGAAAAA 58.504 33.333 0.00 0.00 0.00 1.94
1744 2792 2.008242 ATGGTTAGCTTTGTTGGGCA 57.992 45.000 0.00 0.00 0.00 5.36
1848 2896 3.846360 CGTCTCGGTTTACAGGATTTCT 58.154 45.455 0.00 0.00 0.00 2.52
1849 2897 2.347755 GCGTCTCGGTTTACAGGATTTC 59.652 50.000 0.00 0.00 0.00 2.17
1884 2932 9.778993 AACATCGTTTTCATCATCTTTAGAATG 57.221 29.630 0.00 0.00 0.00 2.67
2046 3285 0.251832 ACACATCAGACTCCCGGACT 60.252 55.000 0.73 0.00 0.00 3.85
2047 3286 0.608640 AACACATCAGACTCCCGGAC 59.391 55.000 0.73 0.00 0.00 4.79
2174 3413 2.181777 CGACAAGCTCGCAGGCTA 59.818 61.111 0.76 0.00 42.24 3.93
2280 3519 3.354948 TTGATGACAACTATGGCTGCT 57.645 42.857 0.00 0.00 34.75 4.24
2321 3560 1.676529 GATGCTGCGTAGAGTAGACCA 59.323 52.381 4.08 0.00 34.21 4.02
2527 3766 6.070366 TCAGCAATCTATAGATCAAGGGATGG 60.070 42.308 15.62 0.00 32.67 3.51
2571 3819 5.084519 ACCTCATCCGCTATTACTGGAATA 58.915 41.667 0.00 0.00 34.97 1.75
2806 4054 7.066887 ACAAAATTATGGATCTGCGTACATGAA 59.933 33.333 0.00 0.00 0.00 2.57
2932 4180 3.006659 TGCAAATTCGTTTGTGTAGGC 57.993 42.857 3.23 0.00 34.56 3.93
3096 4346 3.338249 GTGAGGCTTTGAGTAGCATTGA 58.662 45.455 0.00 0.00 43.02 2.57
3327 4577 7.254863 GGTCATACTAGTAAGAGAAAGACGGAG 60.255 44.444 6.70 0.00 0.00 4.63
3404 4654 5.539955 AGCCACTACAAGATCAACCATTTTT 59.460 36.000 0.00 0.00 0.00 1.94
3515 4765 7.067494 CCAAAGAATATCCTAACCCAGTTCTTG 59.933 40.741 0.00 0.00 35.38 3.02
3632 4882 3.244911 ACCCTACATGGTGGTTTCAGAAG 60.245 47.826 0.00 0.00 37.20 2.85
3648 4898 6.484308 TGTTACTGAGCTAACAAAAACCCTAC 59.516 38.462 0.00 0.00 34.38 3.18
3680 4930 4.040829 TCTGAGAACTGAAATCAGAAGCCA 59.959 41.667 16.93 8.28 44.80 4.75
3863 5113 8.121305 TCACTTGTTATTTGCAACCAATAGAT 57.879 30.769 0.00 0.00 0.00 1.98
3900 5150 7.279313 GGTTGTAGCTCGATTGGAAATAAAGTA 59.721 37.037 0.00 0.00 0.00 2.24
4062 5419 4.804261 GCCTGTTGGATCGGCTCTATAAAT 60.804 45.833 1.67 0.00 40.62 1.40
4102 5459 6.495181 TCTGATAGGATAATGAGAACCTGTCC 59.505 42.308 0.00 0.00 39.01 4.02
4208 5565 4.815308 TGTTTGCATGTTTTCCTGGAATTG 59.185 37.500 10.45 7.29 0.00 2.32
4408 6277 2.202690 CGACTGTTATCGCCGCCA 60.203 61.111 0.00 0.00 34.90 5.69
4559 6428 1.933021 AGGACCGTGACATTGAGGTA 58.067 50.000 0.00 0.00 37.07 3.08
4563 6432 1.967779 TGAGAAGGACCGTGACATTGA 59.032 47.619 0.00 0.00 0.00 2.57
4595 6464 1.005215 CTGAACCTTGGGGAGCTTGAT 59.995 52.381 0.00 0.00 36.25 2.57


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

AutoCloner maintained by Alex Coulton.