Multiple sequence alignment - TraesCS2B01G245100

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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 TraesCS2B01G245100 chr2B 100.000 4168 0 0 1 4168 249261706 249265873 0.000000e+00 7697
1 TraesCS2B01G245100 chr2A 90.721 2759 119 50 1479 4168 207053842 207056532 0.000000e+00 3550
2 TraesCS2B01G245100 chr2A 90.334 1407 77 27 1 1387 207052433 207053800 0.000000e+00 1790
3 TraesCS2B01G245100 chr2D 90.295 2545 110 54 1693 4168 193118446 193120922 0.000000e+00 3205
4 TraesCS2B01G245100 chr2D 91.366 1413 48 26 1 1387 193116850 193118214 0.000000e+00 1866
5 TraesCS2B01G245100 chr2D 94.241 191 6 2 1479 1664 193118255 193118445 1.900000e-73 287


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 TraesCS2B01G245100 chr2B 249261706 249265873 4167 False 7697 7697 100.000000 1 4168 1 chr2B.!!$F1 4167
1 TraesCS2B01G245100 chr2A 207052433 207056532 4099 False 2670 3550 90.527500 1 4168 2 chr2A.!!$F1 4167
2 TraesCS2B01G245100 chr2D 193116850 193120922 4072 False 1786 3205 91.967333 1 4168 3 chr2D.!!$F1 4167


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
505 535 0.036306 GTCCCCTTTCGGTCATGTGT 59.964 55.0 0.00 0.00 0.00 3.72 F
821 851 0.179062 ATGGTGCACTAGCTAGCTGC 60.179 55.0 27.68 27.44 42.74 5.25 F
1835 1903 0.034476 ATGCATCCGCGACATCATCT 59.966 50.0 8.23 0.00 42.97 2.90 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1820 1888 0.319040 CCGAAGATGATGTCGCGGAT 60.319 55.0 6.13 0.0 46.03 4.18 R
2740 2815 0.179156 GATCACGCCCTGCATGTTTG 60.179 55.0 0.00 0.0 0.00 2.93 R
3445 3589 0.615331 AACGGCACCTGATCTGATGT 59.385 50.0 0.38 0.0 0.00 3.06 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
29 30 9.462606 AGATAAAACCAACCCTATAAGAACTTG 57.537 33.333 0.00 0.00 0.00 3.16
40 41 9.755122 ACCCTATAAGAACTTGCTTAAAAAGAT 57.245 29.630 4.91 0.00 34.33 2.40
102 103 0.901827 TTCTTCTGCATCTACCGCCA 59.098 50.000 0.00 0.00 0.00 5.69
171 192 3.222603 ACCCAGTAGTTTGAAAAGGCAG 58.777 45.455 0.00 0.00 0.00 4.85
185 206 2.372690 GGCAGTGTACTGTGTCGCG 61.373 63.158 13.08 0.00 45.45 5.87
187 208 1.007734 CAGTGTACTGTGTCGCGGT 60.008 57.895 6.13 2.87 39.09 5.68
234 259 5.924356 TGTCTCAACAAGAACCTGTTATCA 58.076 37.500 0.00 0.00 37.43 2.15
235 260 6.533730 TGTCTCAACAAGAACCTGTTATCAT 58.466 36.000 0.00 0.00 37.43 2.45
236 261 6.998074 TGTCTCAACAAGAACCTGTTATCATT 59.002 34.615 0.00 0.00 37.43 2.57
237 262 7.173218 TGTCTCAACAAGAACCTGTTATCATTC 59.827 37.037 0.00 0.00 37.43 2.67
253 278 4.436113 TCATTCCAGCATATGTTAGCCA 57.564 40.909 4.29 0.00 0.00 4.75
255 280 3.643199 TTCCAGCATATGTTAGCCACA 57.357 42.857 4.29 0.00 40.71 4.17
261 286 2.138320 CATATGTTAGCCACAGCGAGG 58.862 52.381 0.00 0.00 46.67 4.63
317 343 4.595781 TGGGGTTACCTAATAGGCATACAG 59.404 45.833 6.17 0.00 39.63 2.74
330 356 2.279741 GCATACAGATCCAGCGTGAAA 58.720 47.619 0.00 0.00 0.00 2.69
386 416 3.117794 CTGGTGCACACTTTGAACATTG 58.882 45.455 20.43 0.00 34.97 2.82
395 425 4.037208 ACACTTTGAACATTGAGAAGCAGG 59.963 41.667 0.00 0.00 0.00 4.85
396 426 3.005155 ACTTTGAACATTGAGAAGCAGGC 59.995 43.478 0.00 0.00 0.00 4.85
397 427 2.275134 TGAACATTGAGAAGCAGGCA 57.725 45.000 0.00 0.00 0.00 4.75
398 428 2.585330 TGAACATTGAGAAGCAGGCAA 58.415 42.857 0.00 0.00 0.00 4.52
399 429 2.555325 TGAACATTGAGAAGCAGGCAAG 59.445 45.455 0.00 0.00 0.00 4.01
400 430 0.886563 ACATTGAGAAGCAGGCAAGC 59.113 50.000 0.00 0.00 0.00 4.01
401 431 0.885879 CATTGAGAAGCAGGCAAGCA 59.114 50.000 4.78 0.00 36.85 3.91
402 432 1.135373 CATTGAGAAGCAGGCAAGCAG 60.135 52.381 4.78 0.00 36.85 4.24
403 433 1.521450 TTGAGAAGCAGGCAAGCAGC 61.521 55.000 4.78 0.00 44.65 5.25
417 447 2.567497 GCAGCAACCACCATGCACT 61.567 57.895 0.00 0.00 46.22 4.40
505 535 0.036306 GTCCCCTTTCGGTCATGTGT 59.964 55.000 0.00 0.00 0.00 3.72
511 541 4.509616 CCCTTTCGGTCATGTGTTGTATA 58.490 43.478 0.00 0.00 0.00 1.47
542 572 8.845227 CATAATATGTGCCCAGTTTGTTACATA 58.155 33.333 0.00 0.00 36.02 2.29
615 645 3.131933 CAGCTGAGCCACTAATCTACACT 59.868 47.826 8.42 0.00 0.00 3.55
616 646 3.383185 AGCTGAGCCACTAATCTACACTC 59.617 47.826 0.00 0.00 0.00 3.51
737 767 1.799519 CTCTGCTCGCACGACTCAC 60.800 63.158 0.00 0.00 0.00 3.51
820 850 1.137675 TGATGGTGCACTAGCTAGCTG 59.862 52.381 27.68 18.34 42.74 4.24
821 851 0.179062 ATGGTGCACTAGCTAGCTGC 60.179 55.000 27.68 27.44 42.74 5.25
960 998 4.619973 CTCTCTGCTGCTAATACCTTCAG 58.380 47.826 0.00 0.00 0.00 3.02
983 1021 2.917971 GAGCTAGCCGCAGAAATATACG 59.082 50.000 12.13 0.00 42.61 3.06
986 1024 3.852536 GCTAGCCGCAGAAATATACGTAG 59.147 47.826 2.29 0.00 38.92 3.51
1011 1049 0.680921 AAATCAGGATGGGTGGTGCG 60.681 55.000 0.00 0.00 36.16 5.34
1044 1082 4.728102 TACGGCGCGGTGGTTCTG 62.728 66.667 28.47 0.00 0.00 3.02
1071 1109 0.469494 TCATGTACTCCGGCATGCAT 59.531 50.000 21.36 8.36 41.44 3.96
1098 1136 1.139654 AGCAAGATAGCGCTGGATCAA 59.860 47.619 22.90 0.00 37.02 2.57
1161 1199 4.512914 GCCCTGGTGCTCATCCCC 62.513 72.222 0.00 0.00 0.00 4.81
1164 1202 1.616921 CCTGGTGCTCATCCCCATT 59.383 57.895 0.00 0.00 0.00 3.16
1190 1228 1.829849 TGCTCTGGAGAGGTGAGATTG 59.170 52.381 5.82 0.00 42.29 2.67
1205 1243 1.002900 AGATTGTTGTTTGACACCGCG 60.003 47.619 0.00 0.00 0.00 6.46
1206 1244 0.593773 ATTGTTGTTTGACACCGCGC 60.594 50.000 0.00 0.00 0.00 6.86
1207 1245 2.720750 GTTGTTTGACACCGCGCG 60.721 61.111 25.67 25.67 0.00 6.86
1208 1246 4.599434 TTGTTTGACACCGCGCGC 62.599 61.111 27.36 23.91 0.00 6.86
1222 1260 2.537560 CGCGCCTTGATCCATGTCC 61.538 63.158 0.00 0.00 0.00 4.02
1228 1266 1.293924 CTTGATCCATGTCCGTCTGC 58.706 55.000 0.00 0.00 0.00 4.26
1233 1271 1.672030 CCATGTCCGTCTGCTTGCA 60.672 57.895 0.00 0.00 0.00 4.08
1236 1274 1.651240 ATGTCCGTCTGCTTGCATGC 61.651 55.000 17.19 17.19 0.00 4.06
1240 1278 2.747460 GTCTGCTTGCATGCCCGA 60.747 61.111 20.65 14.23 0.00 5.14
1251 1289 1.741770 ATGCCCGACTCGCTGTTTC 60.742 57.895 0.00 0.00 0.00 2.78
1259 1297 3.428452 CCGACTCGCTGTTTCATAACCTA 60.428 47.826 0.00 0.00 33.15 3.08
1260 1298 3.546670 CGACTCGCTGTTTCATAACCTAC 59.453 47.826 0.00 0.00 33.15 3.18
1322 1362 3.978687 AGACTAAACCTGTGACGTTGAG 58.021 45.455 0.00 0.00 0.00 3.02
1344 1384 3.531538 GATTGCAGGGAAGATGTTCGTA 58.468 45.455 0.00 0.00 32.92 3.43
1353 1393 3.504863 GAAGATGTTCGTACACGCCTTA 58.495 45.455 0.00 0.00 37.03 2.69
1365 1405 4.699925 ACACGCCTTATATGGGTATGTT 57.300 40.909 6.78 0.00 0.00 2.71
1366 1406 5.811796 ACACGCCTTATATGGGTATGTTA 57.188 39.130 6.78 0.00 0.00 2.41
1387 1427 7.149973 TGTTATAAGTTGTTCTAGCGTGAGTT 58.850 34.615 0.00 0.00 0.00 3.01
1388 1428 7.327761 TGTTATAAGTTGTTCTAGCGTGAGTTC 59.672 37.037 0.00 0.00 0.00 3.01
1389 1429 4.323553 AAGTTGTTCTAGCGTGAGTTCT 57.676 40.909 0.00 0.00 0.00 3.01
1390 1430 5.449107 AAGTTGTTCTAGCGTGAGTTCTA 57.551 39.130 0.00 0.00 0.00 2.10
1391 1431 5.449107 AGTTGTTCTAGCGTGAGTTCTAA 57.551 39.130 0.00 0.00 0.00 2.10
1392 1432 5.462405 AGTTGTTCTAGCGTGAGTTCTAAG 58.538 41.667 0.00 0.00 0.00 2.18
1393 1433 5.009811 AGTTGTTCTAGCGTGAGTTCTAAGT 59.990 40.000 0.00 0.00 0.00 2.24
1394 1434 6.206243 AGTTGTTCTAGCGTGAGTTCTAAGTA 59.794 38.462 0.00 0.00 0.00 2.24
1395 1435 6.754702 TGTTCTAGCGTGAGTTCTAAGTAT 57.245 37.500 0.00 0.00 0.00 2.12
1396 1436 7.154435 TGTTCTAGCGTGAGTTCTAAGTATT 57.846 36.000 0.00 0.00 0.00 1.89
1397 1437 7.027760 TGTTCTAGCGTGAGTTCTAAGTATTG 58.972 38.462 0.00 0.00 0.00 1.90
1398 1438 6.754702 TCTAGCGTGAGTTCTAAGTATTGT 57.245 37.500 0.00 0.00 0.00 2.71
1399 1439 6.552629 TCTAGCGTGAGTTCTAAGTATTGTG 58.447 40.000 0.00 0.00 0.00 3.33
1400 1440 4.495422 AGCGTGAGTTCTAAGTATTGTGG 58.505 43.478 0.00 0.00 0.00 4.17
1401 1441 3.062234 GCGTGAGTTCTAAGTATTGTGGC 59.938 47.826 0.00 0.00 0.00 5.01
1402 1442 4.242475 CGTGAGTTCTAAGTATTGTGGCA 58.758 43.478 0.00 0.00 0.00 4.92
1423 1463 2.025981 AGGCACATAGTTCATGCAGGAA 60.026 45.455 10.22 10.22 41.27 3.36
1424 1464 2.357009 GGCACATAGTTCATGCAGGAAG 59.643 50.000 15.13 5.26 41.27 3.46
1439 1480 3.616821 GCAGGAAGTGTTGTTTTGTTTCC 59.383 43.478 0.00 0.00 35.46 3.13
1441 1482 3.119280 AGGAAGTGTTGTTTTGTTTCCGG 60.119 43.478 0.00 0.00 39.18 5.14
1443 1484 3.775661 AGTGTTGTTTTGTTTCCGGAG 57.224 42.857 3.34 0.00 0.00 4.63
1444 1485 3.349022 AGTGTTGTTTTGTTTCCGGAGA 58.651 40.909 3.34 0.00 0.00 3.71
1445 1486 3.759618 AGTGTTGTTTTGTTTCCGGAGAA 59.240 39.130 3.34 0.00 0.00 2.87
1446 1487 4.218852 AGTGTTGTTTTGTTTCCGGAGAAA 59.781 37.500 3.34 2.62 39.70 2.52
1447 1488 4.561213 GTGTTGTTTTGTTTCCGGAGAAAG 59.439 41.667 3.34 0.00 42.60 2.62
1448 1489 3.430333 TGTTTTGTTTCCGGAGAAAGC 57.570 42.857 3.34 8.25 42.60 3.51
1449 1490 3.020984 TGTTTTGTTTCCGGAGAAAGCT 58.979 40.909 3.34 0.00 42.60 3.74
1450 1491 3.445805 TGTTTTGTTTCCGGAGAAAGCTT 59.554 39.130 3.34 0.00 42.60 3.74
1451 1492 4.081917 TGTTTTGTTTCCGGAGAAAGCTTT 60.082 37.500 12.53 12.53 42.60 3.51
1452 1493 4.729227 TTTGTTTCCGGAGAAAGCTTTT 57.271 36.364 14.05 3.35 42.60 2.27
1453 1494 4.729227 TTGTTTCCGGAGAAAGCTTTTT 57.271 36.364 14.05 7.69 42.60 1.94
1500 1541 0.744874 AAGCTAATGCATGCAGGCTG 59.255 50.000 31.60 20.85 42.74 4.85
1514 1555 3.987404 GCTGTGTGGCCTAGTTGG 58.013 61.111 3.32 0.00 39.35 3.77
1560 1606 5.695851 ATCAAGCTTTGTGTACCTTTCAG 57.304 39.130 0.00 0.00 0.00 3.02
1580 1626 6.247229 TCAGTATAAATATGGGCACACACT 57.753 37.500 0.00 0.00 0.00 3.55
1581 1627 6.658849 TCAGTATAAATATGGGCACACACTT 58.341 36.000 0.00 0.00 0.00 3.16
1582 1628 6.765989 TCAGTATAAATATGGGCACACACTTC 59.234 38.462 0.00 0.00 0.00 3.01
1583 1629 6.017109 CAGTATAAATATGGGCACACACTTCC 60.017 42.308 0.00 0.00 0.00 3.46
1633 1681 5.363580 TGAGATCTTCCAGTGTGCATGTATA 59.636 40.000 0.00 0.00 0.00 1.47
1687 1735 2.498726 CTCTCCCTGAAGCCGCTC 59.501 66.667 0.00 0.00 0.00 5.03
1690 1738 1.003355 CTCCCTGAAGCCGCTCAAA 60.003 57.895 0.00 0.00 0.00 2.69
1691 1739 0.393537 CTCCCTGAAGCCGCTCAAAT 60.394 55.000 0.00 0.00 0.00 2.32
1712 1760 9.887406 TCAAATAAACTTACAACTTTCGGATTC 57.113 29.630 0.00 0.00 0.00 2.52
1718 1766 8.441312 AACTTACAACTTTCGGATTCTAAACA 57.559 30.769 0.00 0.00 0.00 2.83
1719 1767 8.617290 ACTTACAACTTTCGGATTCTAAACAT 57.383 30.769 0.00 0.00 0.00 2.71
1720 1768 9.063615 ACTTACAACTTTCGGATTCTAAACATT 57.936 29.630 0.00 0.00 0.00 2.71
1721 1769 9.893305 CTTACAACTTTCGGATTCTAAACATTT 57.107 29.630 0.00 0.00 0.00 2.32
1722 1770 9.887406 TTACAACTTTCGGATTCTAAACATTTC 57.113 29.630 0.00 0.00 0.00 2.17
1723 1771 7.936584 ACAACTTTCGGATTCTAAACATTTCA 58.063 30.769 0.00 0.00 0.00 2.69
1724 1772 8.076178 ACAACTTTCGGATTCTAAACATTTCAG 58.924 33.333 0.00 0.00 0.00 3.02
1725 1773 6.612306 ACTTTCGGATTCTAAACATTTCAGC 58.388 36.000 0.00 0.00 0.00 4.26
1726 1774 6.431234 ACTTTCGGATTCTAAACATTTCAGCT 59.569 34.615 0.00 0.00 0.00 4.24
1727 1775 6.422776 TTCGGATTCTAAACATTTCAGCTC 57.577 37.500 0.00 0.00 0.00 4.09
1728 1776 4.876107 TCGGATTCTAAACATTTCAGCTCC 59.124 41.667 0.00 0.00 0.00 4.70
1729 1777 4.635765 CGGATTCTAAACATTTCAGCTCCA 59.364 41.667 0.00 0.00 0.00 3.86
1730 1778 5.297776 CGGATTCTAAACATTTCAGCTCCAT 59.702 40.000 0.00 0.00 0.00 3.41
1731 1779 6.512415 CGGATTCTAAACATTTCAGCTCCATC 60.512 42.308 0.00 0.00 0.00 3.51
1732 1780 6.319658 GGATTCTAAACATTTCAGCTCCATCA 59.680 38.462 0.00 0.00 0.00 3.07
1733 1781 6.748333 TTCTAAACATTTCAGCTCCATCAG 57.252 37.500 0.00 0.00 0.00 2.90
1734 1782 5.809001 TCTAAACATTTCAGCTCCATCAGT 58.191 37.500 0.00 0.00 0.00 3.41
1735 1783 5.877012 TCTAAACATTTCAGCTCCATCAGTC 59.123 40.000 0.00 0.00 0.00 3.51
1736 1784 2.996631 ACATTTCAGCTCCATCAGTCC 58.003 47.619 0.00 0.00 0.00 3.85
1737 1785 2.575279 ACATTTCAGCTCCATCAGTCCT 59.425 45.455 0.00 0.00 0.00 3.85
1738 1786 3.776969 ACATTTCAGCTCCATCAGTCCTA 59.223 43.478 0.00 0.00 0.00 2.94
1739 1787 4.141756 ACATTTCAGCTCCATCAGTCCTAG 60.142 45.833 0.00 0.00 0.00 3.02
1740 1788 2.836636 TCAGCTCCATCAGTCCTAGT 57.163 50.000 0.00 0.00 0.00 2.57
1741 1789 2.660572 TCAGCTCCATCAGTCCTAGTC 58.339 52.381 0.00 0.00 0.00 2.59
1746 1794 3.319689 GCTCCATCAGTCCTAGTCTAACC 59.680 52.174 0.00 0.00 0.00 2.85
1748 1796 4.537751 TCCATCAGTCCTAGTCTAACCTG 58.462 47.826 0.00 0.00 0.00 4.00
1753 1801 5.577100 TCAGTCCTAGTCTAACCTGCTTAA 58.423 41.667 0.00 0.00 0.00 1.85
1757 1805 6.497606 AGTCCTAGTCTAACCTGCTTAACTTT 59.502 38.462 0.00 0.00 0.00 2.66
1759 1807 7.660617 GTCCTAGTCTAACCTGCTTAACTTTTT 59.339 37.037 0.00 0.00 0.00 1.94
1761 1809 7.878644 CCTAGTCTAACCTGCTTAACTTTTTCT 59.121 37.037 0.00 0.00 0.00 2.52
1764 1812 7.556635 AGTCTAACCTGCTTAACTTTTTCTTGT 59.443 33.333 0.00 0.00 0.00 3.16
1767 1815 5.578776 ACCTGCTTAACTTTTTCTTGTTCG 58.421 37.500 0.00 0.00 0.00 3.95
1820 1888 3.788227 AACCTTGGTCTCAACTATGCA 57.212 42.857 0.00 0.00 0.00 3.96
1835 1903 0.034476 ATGCATCCGCGACATCATCT 59.966 50.000 8.23 0.00 42.97 2.90
1850 1918 2.063266 TCATCTTCGGCGTTGTACAAC 58.937 47.619 25.73 25.73 37.92 3.32
1893 1961 0.916086 TCTGGCGGTCATAATTGGGT 59.084 50.000 0.00 0.00 0.00 4.51
1894 1962 2.120312 TCTGGCGGTCATAATTGGGTA 58.880 47.619 0.00 0.00 0.00 3.69
1895 1963 2.506231 TCTGGCGGTCATAATTGGGTAA 59.494 45.455 0.00 0.00 0.00 2.85
1896 1964 3.137544 TCTGGCGGTCATAATTGGGTAAT 59.862 43.478 0.00 0.00 0.00 1.89
1916 1984 9.191995 GGGTAATTAATTCAAGTGTTGTTTCTG 57.808 33.333 3.39 0.00 0.00 3.02
1958 2027 5.865085 ACTTGTCCTGTAACTAAGCATTCA 58.135 37.500 0.00 0.00 0.00 2.57
2066 2138 4.752101 ACAGAGTTCAGAACATGCACTTAC 59.248 41.667 15.85 0.00 35.36 2.34
2068 2140 6.159293 CAGAGTTCAGAACATGCACTTACTA 58.841 40.000 15.85 0.00 35.36 1.82
2069 2141 6.646653 CAGAGTTCAGAACATGCACTTACTAA 59.353 38.462 15.85 0.00 35.36 2.24
2070 2142 7.171508 CAGAGTTCAGAACATGCACTTACTAAA 59.828 37.037 15.85 0.00 35.36 1.85
2071 2143 7.171678 AGAGTTCAGAACATGCACTTACTAAAC 59.828 37.037 15.85 0.00 35.36 2.01
2114 2188 1.117142 TGTCGGTCGGTTCCTTTCCT 61.117 55.000 0.00 0.00 0.00 3.36
2116 2190 0.319405 TCGGTCGGTTCCTTTCCTTC 59.681 55.000 0.00 0.00 0.00 3.46
2120 2194 0.475048 TCGGTTCCTTTCCTTCCCCT 60.475 55.000 0.00 0.00 0.00 4.79
2121 2195 1.203338 TCGGTTCCTTTCCTTCCCCTA 60.203 52.381 0.00 0.00 0.00 3.53
2144 2218 5.712152 AAGAACAAATTCCCTGTGATGTC 57.288 39.130 0.00 0.00 35.18 3.06
2164 2238 4.777366 TGTCACAGGATGGAGTCTATGAAA 59.223 41.667 0.00 0.00 43.62 2.69
2256 2330 0.539986 TTCTACGAGGGGCCAATGTC 59.460 55.000 4.39 0.00 0.00 3.06
2381 2455 3.937706 CCTCATGACACTCTCCAACATTC 59.062 47.826 0.00 0.00 0.00 2.67
2498 2573 4.045636 ACTGCAACTTGTTGATGGTTTC 57.954 40.909 16.57 0.00 0.00 2.78
2568 2643 2.593134 GCAGATCTCATGCGCGTCC 61.593 63.158 8.43 0.00 33.31 4.79
2661 2736 1.537638 CTCGCCGCTATCATCTACAGT 59.462 52.381 0.00 0.00 0.00 3.55
2668 2743 4.212150 CGCTATCATCTACAGTGTACGTG 58.788 47.826 0.00 1.61 0.00 4.49
2669 2744 4.260661 CGCTATCATCTACAGTGTACGTGT 60.261 45.833 0.00 6.01 0.00 4.49
2672 2747 7.361127 GCTATCATCTACAGTGTACGTGTAAT 58.639 38.462 0.00 3.57 30.04 1.89
2699 2774 4.687483 GCCTCAGAAACAATGTTCATTTGG 59.313 41.667 0.00 1.44 0.00 3.28
2738 2813 2.726821 TGATTTGCTTCTCCATGGGAC 58.273 47.619 13.02 0.00 0.00 4.46
2837 2912 2.191375 CTCGCCATGTCCATGCCT 59.809 61.111 1.64 0.00 37.49 4.75
2867 2942 7.813627 ACTCTGATCTTCACAATCATCATATCG 59.186 37.037 0.00 0.00 32.91 2.92
2912 2987 1.226888 CCTAGGAAGGTACGTGCGC 60.227 63.158 1.05 0.00 38.19 6.09
2913 2988 1.509463 CTAGGAAGGTACGTGCGCA 59.491 57.895 5.66 5.66 31.45 6.09
2914 2989 0.108992 CTAGGAAGGTACGTGCGCAA 60.109 55.000 14.00 0.00 31.45 4.85
2915 2990 0.533491 TAGGAAGGTACGTGCGCAAT 59.467 50.000 14.00 6.07 31.45 3.56
2916 2991 0.533491 AGGAAGGTACGTGCGCAATA 59.467 50.000 14.00 4.82 31.45 1.90
2917 2992 1.138266 AGGAAGGTACGTGCGCAATAT 59.862 47.619 14.00 2.47 31.45 1.28
2918 2993 2.363038 AGGAAGGTACGTGCGCAATATA 59.637 45.455 14.00 1.27 31.45 0.86
2945 3042 6.280855 TGTGCAATTAAGCTCTAGTCTACA 57.719 37.500 0.00 0.00 34.99 2.74
3023 3128 8.754080 AGTATAATTGCTGGGATACTACTGATC 58.246 37.037 0.00 0.00 34.18 2.92
3106 3211 2.360726 GGGTGGCGGTAAACCTGG 60.361 66.667 0.00 0.00 36.64 4.45
3322 3440 1.647545 CGCCATTGCTGTACCCACTG 61.648 60.000 0.00 0.00 34.43 3.66
3330 3448 0.247736 CTGTACCCACTGTCTGCCTC 59.752 60.000 0.00 0.00 0.00 4.70
3445 3589 1.996898 CAGCACGCACTATTTTACGGA 59.003 47.619 0.00 0.00 0.00 4.69
3501 3645 1.952990 CTGTGTGTTTGCCACCATGTA 59.047 47.619 0.00 0.00 43.85 2.29
3502 3646 2.557924 CTGTGTGTTTGCCACCATGTAT 59.442 45.455 0.00 0.00 43.85 2.29
3503 3647 2.295629 TGTGTGTTTGCCACCATGTATG 59.704 45.455 0.00 0.00 43.85 2.39
3504 3648 2.295909 GTGTGTTTGCCACCATGTATGT 59.704 45.455 0.00 0.00 43.85 2.29
3577 3722 3.451178 GGCTACTGATGACTGGTTAGGAA 59.549 47.826 0.00 0.00 0.00 3.36
3578 3723 4.101741 GGCTACTGATGACTGGTTAGGAAT 59.898 45.833 0.00 0.00 0.00 3.01
3579 3724 5.304614 GGCTACTGATGACTGGTTAGGAATA 59.695 44.000 0.00 0.00 0.00 1.75
3580 3725 6.451393 GCTACTGATGACTGGTTAGGAATAG 58.549 44.000 0.00 0.00 0.00 1.73
3581 3726 5.878406 ACTGATGACTGGTTAGGAATAGG 57.122 43.478 0.00 0.00 0.00 2.57
3582 3727 5.529289 ACTGATGACTGGTTAGGAATAGGA 58.471 41.667 0.00 0.00 0.00 2.94
3667 3822 5.481824 TGGAGCACATAGGAGGAGTAATATG 59.518 44.000 0.00 0.00 0.00 1.78
3679 3834 8.494433 AGGAGGAGTAATATGTATTTGCAGAAA 58.506 33.333 0.00 0.00 0.00 2.52
3796 3951 1.811965 CGCCCACTGTTGATTGATTGA 59.188 47.619 0.00 0.00 0.00 2.57
3797 3952 2.228582 CGCCCACTGTTGATTGATTGAA 59.771 45.455 0.00 0.00 0.00 2.69
3798 3953 3.119388 CGCCCACTGTTGATTGATTGAAT 60.119 43.478 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 9.755122 ATCTTTTTAAGCAAGTTCTTATAGGGT 57.245 29.630 0.00 0.00 0.00 4.34
40 41 9.303116 TCCAAGGACTTGCTAATAATTTGTTAA 57.697 29.630 6.54 0.00 39.16 2.01
44 45 7.630242 TCTCCAAGGACTTGCTAATAATTTG 57.370 36.000 6.54 0.00 39.16 2.32
124 143 2.771763 AAGGTTGCTCCGCTGAGACG 62.772 60.000 9.60 0.00 41.42 4.18
140 159 4.642885 TCAAACTACTGGGTTTCAACAAGG 59.357 41.667 0.00 0.00 37.32 3.61
148 167 4.027437 TGCCTTTTCAAACTACTGGGTTT 58.973 39.130 0.00 0.00 39.62 3.27
171 192 1.002250 CTCACCGCGACACAGTACAC 61.002 60.000 8.23 0.00 0.00 2.90
185 206 0.102300 AAGTTTTTGCACGGCTCACC 59.898 50.000 0.00 0.00 0.00 4.02
187 208 1.919918 CAAAGTTTTTGCACGGCTCA 58.080 45.000 0.00 0.00 0.00 4.26
234 259 4.139786 CTGTGGCTAACATATGCTGGAAT 58.860 43.478 1.58 0.00 38.39 3.01
235 260 3.544684 CTGTGGCTAACATATGCTGGAA 58.455 45.455 1.58 0.00 38.39 3.53
236 261 2.746142 GCTGTGGCTAACATATGCTGGA 60.746 50.000 1.58 0.00 38.39 3.86
237 262 1.605710 GCTGTGGCTAACATATGCTGG 59.394 52.381 1.58 0.00 38.39 4.85
253 278 2.477176 TTTTTGCACGCCTCGCTGT 61.477 52.632 0.00 0.00 0.00 4.40
255 280 1.724582 AAGTTTTTGCACGCCTCGCT 61.725 50.000 0.00 0.00 0.00 4.93
307 333 1.341209 CACGCTGGATCTGTATGCCTA 59.659 52.381 0.00 0.00 0.00 3.93
317 343 3.935203 TGAGAATTCTTTCACGCTGGATC 59.065 43.478 9.87 0.00 34.08 3.36
386 416 1.521450 TTGCTGCTTGCCTGCTTCTC 61.521 55.000 0.00 0.00 42.00 2.87
395 425 1.373748 CATGGTGGTTGCTGCTTGC 60.374 57.895 0.00 0.00 43.25 4.01
396 426 1.373748 GCATGGTGGTTGCTGCTTG 60.374 57.895 0.00 0.00 37.14 4.01
397 427 1.833492 TGCATGGTGGTTGCTGCTT 60.833 52.632 0.00 0.00 40.77 3.91
398 428 2.203523 TGCATGGTGGTTGCTGCT 60.204 55.556 0.00 0.00 40.77 4.24
399 429 2.048877 GTGCATGGTGGTTGCTGC 60.049 61.111 0.00 0.00 40.77 5.25
400 430 0.319211 CAAGTGCATGGTGGTTGCTG 60.319 55.000 0.00 0.00 40.77 4.41
401 431 2.043625 CAAGTGCATGGTGGTTGCT 58.956 52.632 0.00 0.00 40.77 3.91
402 432 1.665599 GCAAGTGCATGGTGGTTGC 60.666 57.895 0.00 0.00 41.59 4.17
403 433 1.005867 GGCAAGTGCATGGTGGTTG 60.006 57.895 5.52 0.00 44.36 3.77
404 434 0.760189 AAGGCAAGTGCATGGTGGTT 60.760 50.000 5.52 0.00 44.36 3.67
452 482 1.228956 TGATGGGGCAAGCAAGCTT 60.229 52.632 0.59 0.59 36.60 3.74
505 535 7.401246 TGGGCACATATTATGCAGATATACAA 58.599 34.615 10.20 0.00 45.27 2.41
511 541 4.377762 ACTGGGCACATATTATGCAGAT 57.622 40.909 12.94 0.00 45.27 2.90
542 572 1.021968 GTGGAAAACGCAGAGGTTGT 58.978 50.000 0.00 0.00 0.00 3.32
615 645 9.760077 GAGTCGATCCCAACTAATTATTTAAGA 57.240 33.333 0.00 0.00 0.00 2.10
616 646 9.542462 TGAGTCGATCCCAACTAATTATTTAAG 57.458 33.333 0.00 0.00 0.00 1.85
737 767 1.039233 AGCGGATGGAAAATGCTGGG 61.039 55.000 0.00 0.00 33.99 4.45
778 808 3.072211 CCTAATCAGTGATGCATGCGAT 58.928 45.455 14.09 7.77 0.00 4.58
779 809 2.158914 ACCTAATCAGTGATGCATGCGA 60.159 45.455 14.09 2.93 0.00 5.10
780 810 2.032290 CACCTAATCAGTGATGCATGCG 60.032 50.000 14.09 0.00 37.42 4.73
781 811 3.208594 TCACCTAATCAGTGATGCATGC 58.791 45.455 11.82 11.82 39.29 4.06
820 850 1.961277 CGGATAATCCCAGGCACGC 60.961 63.158 0.00 0.00 31.13 5.34
821 851 0.880278 CACGGATAATCCCAGGCACG 60.880 60.000 0.00 0.00 31.13 5.34
822 852 0.180406 ACACGGATAATCCCAGGCAC 59.820 55.000 0.00 0.00 31.13 5.01
826 856 2.224066 GGAGTGACACGGATAATCCCAG 60.224 54.545 0.00 0.00 31.13 4.45
828 858 1.269621 CGGAGTGACACGGATAATCCC 60.270 57.143 0.00 0.00 31.13 3.85
829 859 2.135664 CGGAGTGACACGGATAATCC 57.864 55.000 0.00 0.00 0.00 3.01
938 976 4.340666 TCTGAAGGTATTAGCAGCAGAGAG 59.659 45.833 11.33 0.00 0.00 3.20
983 1021 4.576463 CACCCATCCTGATTTTGCTACTAC 59.424 45.833 0.00 0.00 0.00 2.73
986 1024 2.689983 CCACCCATCCTGATTTTGCTAC 59.310 50.000 0.00 0.00 0.00 3.58
1044 1082 1.341531 CCGGAGTACATGACCCTGATC 59.658 57.143 0.00 0.00 0.00 2.92
1071 1109 3.582780 CAGCGCTATCTTGCTCATGATA 58.417 45.455 10.99 5.66 40.03 2.15
1086 1124 1.822613 CATGCCTTGATCCAGCGCT 60.823 57.895 2.64 2.64 0.00 5.92
1098 1136 1.201429 AGACGAAGGGGTTCATGCCT 61.201 55.000 0.00 0.00 0.00 4.75
1161 1199 2.163815 CCTCTCCAGAGCAAAAGCAATG 59.836 50.000 0.00 0.00 40.75 2.82
1164 1202 0.767375 ACCTCTCCAGAGCAAAAGCA 59.233 50.000 0.00 0.00 40.75 3.91
1190 1228 2.720750 CGCGCGGTGTCAAACAAC 60.721 61.111 24.84 0.00 31.00 3.32
1205 1243 2.537560 CGGACATGGATCAAGGCGC 61.538 63.158 0.00 0.00 0.00 6.53
1206 1244 1.153369 ACGGACATGGATCAAGGCG 60.153 57.895 0.00 0.00 0.00 5.52
1207 1245 0.179000 AGACGGACATGGATCAAGGC 59.821 55.000 0.00 0.00 0.00 4.35
1208 1246 1.945387 CAGACGGACATGGATCAAGG 58.055 55.000 0.00 0.00 0.00 3.61
1216 1254 0.098200 CATGCAAGCAGACGGACATG 59.902 55.000 0.00 0.00 0.00 3.21
1222 1260 4.170062 CGGGCATGCAAGCAGACG 62.170 66.667 21.36 12.74 35.83 4.18
1228 1266 3.869272 GCGAGTCGGGCATGCAAG 61.869 66.667 21.36 12.68 0.00 4.01
1233 1271 1.741770 GAAACAGCGAGTCGGGCAT 60.742 57.895 15.52 0.00 0.00 4.40
1236 1274 1.659098 GTTATGAAACAGCGAGTCGGG 59.341 52.381 15.52 0.00 35.56 5.14
1240 1278 4.803098 AGTAGGTTATGAAACAGCGAGT 57.197 40.909 0.00 0.00 37.34 4.18
1271 1310 3.313526 GCGCAACAAGAGAATCATGGTAT 59.686 43.478 0.30 0.00 38.31 2.73
1322 1362 1.672881 CGAACATCTTCCCTGCAATCC 59.327 52.381 0.00 0.00 0.00 3.01
1344 1384 4.699925 AACATACCCATATAAGGCGTGT 57.300 40.909 0.00 0.00 0.00 4.49
1365 1405 7.154435 AGAACTCACGCTAGAACAACTTATA 57.846 36.000 0.00 0.00 0.00 0.98
1366 1406 6.026947 AGAACTCACGCTAGAACAACTTAT 57.973 37.500 0.00 0.00 0.00 1.73
1387 1427 2.985896 GTGCCTGCCACAATACTTAGA 58.014 47.619 0.00 0.00 44.06 2.10
1397 1437 1.402968 CATGAACTATGTGCCTGCCAC 59.597 52.381 0.00 0.00 44.90 5.01
1398 1438 1.753930 CATGAACTATGTGCCTGCCA 58.246 50.000 0.00 0.00 31.92 4.92
1399 1439 0.383231 GCATGAACTATGTGCCTGCC 59.617 55.000 0.00 0.00 39.08 4.85
1400 1440 1.065102 CTGCATGAACTATGTGCCTGC 59.935 52.381 0.00 0.01 39.08 4.85
1401 1441 1.674441 CCTGCATGAACTATGTGCCTG 59.326 52.381 0.00 0.00 39.08 4.85
1402 1442 1.561076 TCCTGCATGAACTATGTGCCT 59.439 47.619 0.00 0.00 39.08 4.75
1423 1463 3.349022 TCTCCGGAAACAAAACAACACT 58.651 40.909 5.23 0.00 0.00 3.55
1424 1464 3.768468 TCTCCGGAAACAAAACAACAC 57.232 42.857 5.23 0.00 0.00 3.32
1466 1507 0.405973 AGCTTTCTCTGGAAACCCCC 59.594 55.000 0.00 0.00 36.63 5.40
1467 1508 3.434940 TTAGCTTTCTCTGGAAACCCC 57.565 47.619 0.00 0.00 36.63 4.95
1468 1509 3.129462 GCATTAGCTTTCTCTGGAAACCC 59.871 47.826 0.00 0.00 36.63 4.11
1469 1510 3.758554 TGCATTAGCTTTCTCTGGAAACC 59.241 43.478 0.00 0.00 42.74 3.27
1470 1511 5.338365 CATGCATTAGCTTTCTCTGGAAAC 58.662 41.667 0.00 0.00 42.74 2.78
1471 1512 4.142315 GCATGCATTAGCTTTCTCTGGAAA 60.142 41.667 14.21 0.00 42.74 3.13
1472 1513 3.379372 GCATGCATTAGCTTTCTCTGGAA 59.621 43.478 14.21 0.00 42.74 3.53
1473 1514 2.947652 GCATGCATTAGCTTTCTCTGGA 59.052 45.455 14.21 0.00 42.74 3.86
1474 1515 2.686405 TGCATGCATTAGCTTTCTCTGG 59.314 45.455 18.46 0.00 42.74 3.86
1475 1516 3.243101 CCTGCATGCATTAGCTTTCTCTG 60.243 47.826 22.97 4.20 42.74 3.35
1476 1517 2.950309 CCTGCATGCATTAGCTTTCTCT 59.050 45.455 22.97 0.00 42.74 3.10
1477 1518 2.543238 GCCTGCATGCATTAGCTTTCTC 60.543 50.000 22.97 0.00 42.74 2.87
1514 1555 1.555075 TCTCCACACAGGACTATTGGC 59.445 52.381 0.00 0.00 43.07 4.52
1560 1606 5.240844 GGGAAGTGTGTGCCCATATTTATAC 59.759 44.000 0.00 0.00 41.64 1.47
1580 1626 2.676750 CGATCGGACACTTGATTGGGAA 60.677 50.000 7.38 0.00 0.00 3.97
1581 1627 1.134818 CGATCGGACACTTGATTGGGA 60.135 52.381 7.38 0.00 0.00 4.37
1582 1628 1.290203 CGATCGGACACTTGATTGGG 58.710 55.000 7.38 0.00 0.00 4.12
1583 1629 1.660607 CACGATCGGACACTTGATTGG 59.339 52.381 20.98 0.00 31.47 3.16
1687 1735 9.893305 AGAATCCGAAAGTTGTAAGTTTATTTG 57.107 29.630 0.00 0.00 32.00 2.32
1712 1760 5.065731 GGACTGATGGAGCTGAAATGTTTAG 59.934 44.000 0.00 0.00 0.00 1.85
1717 1765 3.278668 AGGACTGATGGAGCTGAAATG 57.721 47.619 0.00 0.00 0.00 2.32
1718 1766 4.036518 ACTAGGACTGATGGAGCTGAAAT 58.963 43.478 0.00 0.00 0.00 2.17
1719 1767 3.445008 ACTAGGACTGATGGAGCTGAAA 58.555 45.455 0.00 0.00 0.00 2.69
1720 1768 3.027412 GACTAGGACTGATGGAGCTGAA 58.973 50.000 0.00 0.00 0.00 3.02
1721 1769 2.243478 AGACTAGGACTGATGGAGCTGA 59.757 50.000 0.00 0.00 0.00 4.26
1722 1770 2.665165 AGACTAGGACTGATGGAGCTG 58.335 52.381 0.00 0.00 0.00 4.24
1723 1771 4.211920 GTTAGACTAGGACTGATGGAGCT 58.788 47.826 0.00 0.00 0.00 4.09
1724 1772 3.319689 GGTTAGACTAGGACTGATGGAGC 59.680 52.174 0.00 0.00 0.00 4.70
1725 1773 4.582656 CAGGTTAGACTAGGACTGATGGAG 59.417 50.000 0.00 0.00 0.00 3.86
1726 1774 4.537751 CAGGTTAGACTAGGACTGATGGA 58.462 47.826 0.00 0.00 0.00 3.41
1727 1775 3.068873 GCAGGTTAGACTAGGACTGATGG 59.931 52.174 11.90 0.00 0.00 3.51
1728 1776 3.957497 AGCAGGTTAGACTAGGACTGATG 59.043 47.826 11.90 0.22 0.00 3.07
1729 1777 4.258457 AGCAGGTTAGACTAGGACTGAT 57.742 45.455 11.90 5.22 0.00 2.90
1730 1778 3.741245 AGCAGGTTAGACTAGGACTGA 57.259 47.619 11.90 0.00 0.00 3.41
1731 1779 5.419471 AGTTAAGCAGGTTAGACTAGGACTG 59.581 44.000 0.00 6.03 0.00 3.51
1732 1780 5.581975 AGTTAAGCAGGTTAGACTAGGACT 58.418 41.667 0.00 0.00 0.00 3.85
1733 1781 5.918426 AGTTAAGCAGGTTAGACTAGGAC 57.082 43.478 0.00 0.00 0.00 3.85
1734 1782 6.930068 AAAGTTAAGCAGGTTAGACTAGGA 57.070 37.500 0.00 0.00 0.00 2.94
1735 1783 7.878644 AGAAAAAGTTAAGCAGGTTAGACTAGG 59.121 37.037 0.00 0.00 0.00 3.02
1736 1784 8.834749 AGAAAAAGTTAAGCAGGTTAGACTAG 57.165 34.615 7.30 0.00 0.00 2.57
1737 1785 9.052759 CAAGAAAAAGTTAAGCAGGTTAGACTA 57.947 33.333 7.30 0.00 0.00 2.59
1738 1786 7.556635 ACAAGAAAAAGTTAAGCAGGTTAGACT 59.443 33.333 0.00 0.00 0.00 3.24
1739 1787 7.704271 ACAAGAAAAAGTTAAGCAGGTTAGAC 58.296 34.615 0.00 0.00 0.00 2.59
1740 1788 7.875327 ACAAGAAAAAGTTAAGCAGGTTAGA 57.125 32.000 0.00 0.00 0.00 2.10
1741 1789 7.376072 CGAACAAGAAAAAGTTAAGCAGGTTAG 59.624 37.037 0.00 0.00 0.00 2.34
1746 1794 6.578919 GGATCGAACAAGAAAAAGTTAAGCAG 59.421 38.462 0.00 0.00 0.00 4.24
1748 1796 5.856986 GGGATCGAACAAGAAAAAGTTAAGC 59.143 40.000 0.00 0.00 0.00 3.09
1753 1801 3.821033 CCTGGGATCGAACAAGAAAAAGT 59.179 43.478 0.00 0.00 0.00 2.66
1757 1805 1.702957 ACCCTGGGATCGAACAAGAAA 59.297 47.619 22.23 0.00 0.00 2.52
1759 1807 2.235402 GTTACCCTGGGATCGAACAAGA 59.765 50.000 22.23 0.00 0.00 3.02
1761 1809 1.979308 TGTTACCCTGGGATCGAACAA 59.021 47.619 22.23 6.26 0.00 2.83
1764 1812 0.539986 GCTGTTACCCTGGGATCGAA 59.460 55.000 22.23 4.89 0.00 3.71
1767 1815 1.212935 ACATGCTGTTACCCTGGGATC 59.787 52.381 22.23 9.51 0.00 3.36
1820 1888 0.319040 CCGAAGATGATGTCGCGGAT 60.319 55.000 6.13 0.00 46.03 4.18
1850 1918 2.237416 GGTAACCACCGGTTGAACG 58.763 57.895 13.50 0.00 46.35 3.95
1895 1963 9.520204 CAGAACAGAAACAACACTTGAATTAAT 57.480 29.630 0.00 0.00 0.00 1.40
1896 1964 8.735315 TCAGAACAGAAACAACACTTGAATTAA 58.265 29.630 0.00 0.00 0.00 1.40
1910 1978 3.063485 GAGCAGAGGTCAGAACAGAAAC 58.937 50.000 0.00 0.00 0.00 2.78
1916 1984 2.685897 AGTATCGAGCAGAGGTCAGAAC 59.314 50.000 0.00 0.00 0.00 3.01
1967 2039 9.727859 TGTACTACTAGTTTATTTTGATGCCAA 57.272 29.630 0.00 0.00 0.00 4.52
1968 2040 9.899661 ATGTACTACTAGTTTATTTTGATGCCA 57.100 29.630 0.00 0.00 0.00 4.92
1970 2042 9.651718 GCATGTACTACTAGTTTATTTTGATGC 57.348 33.333 0.00 2.25 0.00 3.91
1978 2050 9.973450 CAGAGAATGCATGTACTACTAGTTTAT 57.027 33.333 0.00 0.00 0.00 1.40
2005 2077 3.987220 CGGTTTTTGATTTGGTAAGCCAG 59.013 43.478 0.00 0.00 46.91 4.85
2066 2138 4.319549 GCTTTTCCGTCCAGACTTGTTTAG 60.320 45.833 0.00 0.00 0.00 1.85
2068 2140 2.357952 GCTTTTCCGTCCAGACTTGTTT 59.642 45.455 0.00 0.00 0.00 2.83
2069 2141 1.947456 GCTTTTCCGTCCAGACTTGTT 59.053 47.619 0.00 0.00 0.00 2.83
2070 2142 1.141053 AGCTTTTCCGTCCAGACTTGT 59.859 47.619 0.00 0.00 0.00 3.16
2071 2143 1.884235 AGCTTTTCCGTCCAGACTTG 58.116 50.000 0.00 0.00 0.00 3.16
2114 2188 5.083821 CAGGGAATTTGTTCTTTAGGGGAA 58.916 41.667 0.00 0.00 0.00 3.97
2116 2190 4.220602 CACAGGGAATTTGTTCTTTAGGGG 59.779 45.833 0.00 0.00 0.00 4.79
2120 2194 6.775142 TGACATCACAGGGAATTTGTTCTTTA 59.225 34.615 0.00 0.00 0.00 1.85
2121 2195 5.598005 TGACATCACAGGGAATTTGTTCTTT 59.402 36.000 0.00 0.00 0.00 2.52
2144 2218 5.105187 TCAGTTTCATAGACTCCATCCTGTG 60.105 44.000 0.00 0.00 0.00 3.66
2164 2238 0.694771 TGCCATGGAGCTTCTTCAGT 59.305 50.000 18.40 0.00 0.00 3.41
2256 2330 2.679837 CGGTGATGGTTGAAAGATCTGG 59.320 50.000 0.00 0.00 0.00 3.86
2381 2455 0.322975 ACAGTCCACAAGCCTGCTAG 59.677 55.000 0.00 0.00 0.00 3.42
2435 2509 6.294955 GGGTCTGAAGCTCTGAAAAATGAAAT 60.295 38.462 0.00 0.00 0.00 2.17
2436 2510 5.010012 GGGTCTGAAGCTCTGAAAAATGAAA 59.990 40.000 0.00 0.00 0.00 2.69
2568 2643 4.003788 ACCACGAAGGCCTGGACG 62.004 66.667 15.38 18.26 43.14 4.79
2661 2736 3.508402 TCTGAGGCTCAATTACACGTACA 59.492 43.478 19.29 0.00 0.00 2.90
2668 2743 6.259550 ACATTGTTTCTGAGGCTCAATTAC 57.740 37.500 19.29 15.42 0.00 1.89
2669 2744 6.489700 TGAACATTGTTTCTGAGGCTCAATTA 59.510 34.615 19.29 4.20 0.00 1.40
2672 2747 4.206375 TGAACATTGTTTCTGAGGCTCAA 58.794 39.130 19.29 6.96 0.00 3.02
2738 2813 1.372004 CACGCCCTGCATGTTTGTG 60.372 57.895 0.00 0.00 0.00 3.33
2740 2815 0.179156 GATCACGCCCTGCATGTTTG 60.179 55.000 0.00 0.00 0.00 2.93
2837 2912 5.990120 TGATTGTGAAGATCAGAGTGAGA 57.010 39.130 0.00 0.00 0.00 3.27
2867 2942 1.991264 GCCTCTCCTAAAACGAACGAC 59.009 52.381 0.14 0.00 0.00 4.34
2916 2991 9.401058 AGACTAGAGCTTAATTGCACATTTTAT 57.599 29.630 0.00 0.00 34.99 1.40
2917 2992 8.792830 AGACTAGAGCTTAATTGCACATTTTA 57.207 30.769 0.00 0.00 34.99 1.52
2918 2993 7.693969 AGACTAGAGCTTAATTGCACATTTT 57.306 32.000 0.00 0.00 34.99 1.82
2984 3089 5.363939 GCAATTATACTGCTCAGGAGAGTT 58.636 41.667 0.00 0.00 44.00 3.01
2985 3090 4.954875 GCAATTATACTGCTCAGGAGAGT 58.045 43.478 0.00 3.98 44.00 3.24
3023 3128 1.445582 GACGTTGTACAGGCCTCCG 60.446 63.158 0.00 0.00 0.00 4.63
3106 3211 1.228245 TTGTCTTGCACCTCCTGGC 60.228 57.895 0.00 0.00 36.63 4.85
3114 3219 1.860484 GCCTGCTCCTTGTCTTGCAC 61.860 60.000 0.00 0.00 0.00 4.57
3256 3361 2.562912 GCCAGTTCACGGTGCATG 59.437 61.111 2.51 1.93 0.00 4.06
3257 3362 3.049674 CGCCAGTTCACGGTGCAT 61.050 61.111 2.51 0.00 0.00 3.96
3322 3440 2.206576 AAGGAAACCATGAGGCAGAC 57.793 50.000 0.00 0.00 39.06 3.51
3330 3448 3.507622 GGGAGACTTGAAAGGAAACCATG 59.492 47.826 0.00 0.00 0.00 3.66
3400 3538 1.134580 CACCCACATAGGAGCTCACTG 60.135 57.143 17.19 11.58 41.22 3.66
3445 3589 0.615331 AACGGCACCTGATCTGATGT 59.385 50.000 0.38 0.00 0.00 3.06
3504 3648 1.002069 AGGACTTTGGCCATCATGGA 58.998 50.000 8.30 0.00 40.96 3.41
3577 3722 8.774586 GTTTACGCAAGATATTGTCAATCCTAT 58.225 33.333 0.07 0.00 43.62 2.57
3578 3723 7.766738 TGTTTACGCAAGATATTGTCAATCCTA 59.233 33.333 0.07 0.00 43.62 2.94
3579 3724 6.597672 TGTTTACGCAAGATATTGTCAATCCT 59.402 34.615 0.07 0.00 43.62 3.24
3580 3725 6.781138 TGTTTACGCAAGATATTGTCAATCC 58.219 36.000 0.07 0.00 43.62 3.01
3581 3726 8.575454 GTTTGTTTACGCAAGATATTGTCAATC 58.425 33.333 0.07 0.00 43.62 2.67
3582 3727 8.079203 TGTTTGTTTACGCAAGATATTGTCAAT 58.921 29.630 3.06 3.06 43.62 2.57
3679 3834 7.148272 GCATGTGAGAGCTTCTTAATTCTTTCT 60.148 37.037 0.00 0.00 0.00 2.52
3796 3951 7.316393 TCCAACTCAGGATCCGATTAATATT 57.684 36.000 5.98 0.00 31.23 1.28
3797 3952 6.935240 TCCAACTCAGGATCCGATTAATAT 57.065 37.500 5.98 0.00 31.23 1.28
3798 3953 6.740944 TTCCAACTCAGGATCCGATTAATA 57.259 37.500 5.98 0.00 37.56 0.98
3856 4016 1.268899 ACGAGTCCAGTTTCTACACGG 59.731 52.381 0.00 0.00 32.59 4.94
4001 4161 1.016130 AAGCCACACGCGATCTTGAG 61.016 55.000 15.93 0.00 44.76 3.02
4004 4164 2.680913 GCAAGCCACACGCGATCTT 61.681 57.895 15.93 5.18 44.76 2.40
4005 4165 3.121030 GCAAGCCACACGCGATCT 61.121 61.111 15.93 0.00 44.76 2.75
4007 4167 3.726517 GTGCAAGCCACACGCGAT 61.727 61.111 15.93 0.00 44.06 4.58



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

AutoCloner maintained by Alex Coulton.