Multiple sequence alignment - TraesCS5D01G495300

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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 TraesCS5D01G495300 chr5D 100.000 2522 0 0 1 2522 526825913 526823392 0.000000e+00 4658
1 TraesCS5D01G495300 chr5D 85.271 129 19 0 1346 1474 526695879 526695751 1.570000e-27 134
2 TraesCS5D01G495300 chr5B 93.806 775 40 5 1 768 662597679 662596906 0.000000e+00 1158
3 TraesCS5D01G495300 chr5B 89.452 730 56 11 765 1482 662596826 662596106 0.000000e+00 902
4 TraesCS5D01G495300 chr5B 86.207 290 33 5 1036 1323 662462464 662462180 8.760000e-80 307
5 TraesCS5D01G495300 chr5B 85.417 144 11 8 1064 1205 662562046 662561911 9.410000e-30 141
6 TraesCS5D01G495300 chr5B 85.271 129 19 0 1346 1474 662462187 662462059 1.570000e-27 134
7 TraesCS5D01G495300 chr5A 94.464 578 27 3 1 576 653946242 653945668 0.000000e+00 885
8 TraesCS5D01G495300 chr5A 84.354 147 18 5 1341 1485 653856293 653856150 3.380000e-29 139
9 TraesCS5D01G495300 chr5A 80.556 180 33 2 36 215 653945435 653945258 1.220000e-28 137
10 TraesCS5D01G495300 chr1D 82.679 866 126 10 1674 2519 62440721 62439860 0.000000e+00 747
11 TraesCS5D01G495300 chr1D 82.593 540 88 5 1984 2521 465879420 465879955 2.940000e-129 472
12 TraesCS5D01G495300 chr6D 83.138 854 107 20 1671 2505 433362467 433361632 0.000000e+00 745
13 TraesCS5D01G495300 chr6D 81.149 801 123 13 1741 2521 382795361 382794569 3.560000e-173 617
14 TraesCS5D01G495300 chr6D 80.573 803 127 15 1739 2521 391566890 391567683 2.160000e-165 592
15 TraesCS5D01G495300 chr4D 83.766 770 105 8 1671 2420 16117767 16118536 0.000000e+00 712
16 TraesCS5D01G495300 chr4D 81.959 776 109 19 1765 2521 487063547 487062784 1.650000e-176 628
17 TraesCS5D01G495300 chr7B 81.807 841 131 9 1671 2492 705128816 705129653 0.000000e+00 686
18 TraesCS5D01G495300 chr7B 85.256 312 41 5 1670 1977 741860606 741860296 1.460000e-82 316
19 TraesCS5D01G495300 chr2D 81.443 873 127 15 1673 2521 88403577 88404438 0.000000e+00 682
20 TraesCS5D01G495300 chr2D 85.897 312 40 3 1670 1977 593354585 593354274 1.870000e-86 329
21 TraesCS5D01G495300 chr3D 81.453 771 120 14 1761 2521 565257399 565258156 5.960000e-171 610
22 TraesCS5D01G495300 chr2B 80.000 800 134 11 1739 2519 707976511 707977303 3.640000e-158 568
23 TraesCS5D01G495300 chr3B 78.271 879 153 19 1672 2521 12591920 12591051 4.780000e-147 531
24 TraesCS5D01G495300 chr7D 80.587 613 91 15 1906 2500 390181147 390180545 4.950000e-122 448
25 TraesCS5D01G495300 chr7D 84.577 402 43 7 1674 2057 628536569 628536169 5.090000e-102 381
26 TraesCS5D01G495300 chr7D 82.544 401 48 8 1673 2053 544855429 544855827 1.450000e-87 333
27 TraesCS5D01G495300 chr2A 86.495 311 37 4 1672 1978 745775368 745775059 1.120000e-88 337


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 TraesCS5D01G495300 chr5D 526823392 526825913 2521 True 4658 4658 100.000 1 2522 1 chr5D.!!$R2 2521
1 TraesCS5D01G495300 chr5B 662596106 662597679 1573 True 1030 1158 91.629 1 1482 2 chr5B.!!$R3 1481
2 TraesCS5D01G495300 chr5A 653945258 653946242 984 True 511 885 87.510 1 576 2 chr5A.!!$R2 575
3 TraesCS5D01G495300 chr1D 62439860 62440721 861 True 747 747 82.679 1674 2519 1 chr1D.!!$R1 845
4 TraesCS5D01G495300 chr1D 465879420 465879955 535 False 472 472 82.593 1984 2521 1 chr1D.!!$F1 537
5 TraesCS5D01G495300 chr6D 433361632 433362467 835 True 745 745 83.138 1671 2505 1 chr6D.!!$R2 834
6 TraesCS5D01G495300 chr6D 382794569 382795361 792 True 617 617 81.149 1741 2521 1 chr6D.!!$R1 780
7 TraesCS5D01G495300 chr6D 391566890 391567683 793 False 592 592 80.573 1739 2521 1 chr6D.!!$F1 782
8 TraesCS5D01G495300 chr4D 16117767 16118536 769 False 712 712 83.766 1671 2420 1 chr4D.!!$F1 749
9 TraesCS5D01G495300 chr4D 487062784 487063547 763 True 628 628 81.959 1765 2521 1 chr4D.!!$R1 756
10 TraesCS5D01G495300 chr7B 705128816 705129653 837 False 686 686 81.807 1671 2492 1 chr7B.!!$F1 821
11 TraesCS5D01G495300 chr2D 88403577 88404438 861 False 682 682 81.443 1673 2521 1 chr2D.!!$F1 848
12 TraesCS5D01G495300 chr3D 565257399 565258156 757 False 610 610 81.453 1761 2521 1 chr3D.!!$F1 760
13 TraesCS5D01G495300 chr2B 707976511 707977303 792 False 568 568 80.000 1739 2519 1 chr2B.!!$F1 780
14 TraesCS5D01G495300 chr3B 12591051 12591920 869 True 531 531 78.271 1672 2521 1 chr3B.!!$R1 849
15 TraesCS5D01G495300 chr7D 390180545 390181147 602 True 448 448 80.587 1906 2500 1 chr7D.!!$R1 594

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
873 1228 0.162294 CGCCGTTTACGACTTTGGTC 59.838 55.0 3.46 0.0 43.02 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2224 2613 0.106569 AAATGGCGCATGGATCCAGA 60.107 50.0 21.33 0.0 32.78 3.86 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
94 97 8.838649 ATTAAGCCCCTTTTGTCTTATGTAAT 57.161 30.769 0.00 0.00 0.00 1.89
254 259 5.070180 CCTCATCAGAATTAAGAGGCTCTCA 59.930 44.000 19.03 8.21 39.39 3.27
282 287 0.668401 GTGACATTGCCCAAGCTTGC 60.668 55.000 21.43 11.42 40.80 4.01
399 404 2.477825 CGATCGAGCACCAAATCAGAT 58.522 47.619 10.26 0.00 0.00 2.90
424 429 1.153369 CTCACCCGCGAATCATGGT 60.153 57.895 8.23 1.03 0.00 3.55
426 431 2.824041 ACCCGCGAATCATGGTGC 60.824 61.111 8.23 0.00 0.00 5.01
452 459 2.762535 AAATTCTGGACACGACCGAT 57.237 45.000 0.00 0.00 0.00 4.18
511 520 4.260212 GCACGAAACTATACACGCATGAAT 60.260 41.667 0.00 0.00 0.00 2.57
594 603 0.606401 GCCAAACCAGCAGAGCTACA 60.606 55.000 0.00 0.00 36.40 2.74
622 631 8.375493 TCAGTTTAGGTGATATACTGAAACCT 57.625 34.615 0.00 0.00 44.49 3.50
678 687 1.211949 ACATAGACCAAACCATCCCCG 59.788 52.381 0.00 0.00 0.00 5.73
686 695 2.026636 CCAAACCATCCCCGAAACTAGA 60.027 50.000 0.00 0.00 0.00 2.43
716 726 8.834465 TGGATATACTGTACTCTAGAACGTTTC 58.166 37.037 0.46 0.00 0.00 2.78
723 733 5.410746 TGTACTCTAGAACGTTTCGAGTCAT 59.589 40.000 22.69 9.04 34.00 3.06
846 1184 2.393768 GCGTGGATGTGCTGGTCTG 61.394 63.158 0.00 0.00 0.00 3.51
873 1228 0.162294 CGCCGTTTACGACTTTGGTC 59.838 55.000 3.46 0.00 43.02 4.02
890 1245 5.643379 TTGGTCTGTGGAATTTTATGCTC 57.357 39.130 0.00 0.00 0.00 4.26
891 1246 4.922206 TGGTCTGTGGAATTTTATGCTCT 58.078 39.130 0.00 0.00 0.00 4.09
892 1247 6.061022 TGGTCTGTGGAATTTTATGCTCTA 57.939 37.500 0.00 0.00 0.00 2.43
893 1248 6.480763 TGGTCTGTGGAATTTTATGCTCTAA 58.519 36.000 0.00 0.00 0.00 2.10
894 1249 6.945435 TGGTCTGTGGAATTTTATGCTCTAAA 59.055 34.615 0.00 0.00 0.00 1.85
895 1250 7.450014 TGGTCTGTGGAATTTTATGCTCTAAAA 59.550 33.333 7.08 7.08 0.00 1.52
896 1251 7.755373 GGTCTGTGGAATTTTATGCTCTAAAAC 59.245 37.037 6.85 0.00 30.38 2.43
897 1252 7.755373 GTCTGTGGAATTTTATGCTCTAAAACC 59.245 37.037 6.85 6.11 30.38 3.27
898 1253 7.450014 TCTGTGGAATTTTATGCTCTAAAACCA 59.550 33.333 6.85 7.95 30.38 3.67
899 1254 7.957002 TGTGGAATTTTATGCTCTAAAACCAA 58.043 30.769 12.05 5.34 31.12 3.67
900 1255 7.870445 TGTGGAATTTTATGCTCTAAAACCAAC 59.130 33.333 12.05 9.30 31.12 3.77
901 1256 7.330946 GTGGAATTTTATGCTCTAAAACCAACC 59.669 37.037 12.05 10.50 31.12 3.77
902 1257 6.530181 GGAATTTTATGCTCTAAAACCAACCG 59.470 38.462 6.85 0.00 30.38 4.44
903 1258 4.428615 TTTATGCTCTAAAACCAACCGC 57.571 40.909 0.00 0.00 0.00 5.68
904 1259 2.200373 ATGCTCTAAAACCAACCGCT 57.800 45.000 0.00 0.00 0.00 5.52
905 1260 1.234821 TGCTCTAAAACCAACCGCTG 58.765 50.000 0.00 0.00 0.00 5.18
906 1261 1.235724 GCTCTAAAACCAACCGCTGT 58.764 50.000 0.00 0.00 0.00 4.40
907 1262 1.069227 GCTCTAAAACCAACCGCTGTG 60.069 52.381 0.00 0.00 0.00 3.66
908 1263 1.535462 CTCTAAAACCAACCGCTGTGG 59.465 52.381 5.54 5.54 46.41 4.17
927 1282 2.790387 GGATACAACGTACAGTCCGAC 58.210 52.381 0.00 0.00 0.00 4.79
929 1284 3.486542 GGATACAACGTACAGTCCGACTC 60.487 52.174 0.00 0.00 0.00 3.36
932 1287 1.135746 CAACGTACAGTCCGACTCTCC 60.136 57.143 0.00 0.00 0.00 3.71
940 1295 1.216678 AGTCCGACTCTCCCATCTCAT 59.783 52.381 0.00 0.00 0.00 2.90
953 1308 3.626670 CCCATCTCATTTCAGTCAGCTTC 59.373 47.826 0.00 0.00 0.00 3.86
959 1314 2.325583 TTTCAGTCAGCTTCGTTGGT 57.674 45.000 0.00 0.00 0.00 3.67
964 1319 0.531974 GTCAGCTTCGTTGGTGGACA 60.532 55.000 8.99 0.00 36.25 4.02
981 1336 3.096541 CAGTGCATTTCGCTGTTGG 57.903 52.632 0.00 0.00 45.73 3.77
982 1337 1.005294 CAGTGCATTTCGCTGTTGGC 61.005 55.000 0.00 0.00 45.73 4.52
983 1338 1.734117 GTGCATTTCGCTGTTGGCC 60.734 57.895 0.00 0.00 43.06 5.36
984 1339 1.902918 TGCATTTCGCTGTTGGCCT 60.903 52.632 3.32 0.00 43.06 5.19
985 1340 1.444895 GCATTTCGCTGTTGGCCTG 60.445 57.895 3.32 0.00 37.77 4.85
986 1341 1.959085 CATTTCGCTGTTGGCCTGT 59.041 52.632 3.32 0.00 37.74 4.00
987 1342 0.314935 CATTTCGCTGTTGGCCTGTT 59.685 50.000 3.32 0.00 37.74 3.16
988 1343 0.314935 ATTTCGCTGTTGGCCTGTTG 59.685 50.000 3.32 0.00 37.74 3.33
993 1348 0.890996 GCTGTTGGCCTGTTGCTACT 60.891 55.000 3.32 0.00 40.92 2.57
995 1350 0.472044 TGTTGGCCTGTTGCTACTGA 59.528 50.000 3.32 0.00 40.92 3.41
1003 1358 3.119708 GCCTGTTGCTACTGAGAAAATGG 60.120 47.826 6.74 0.00 36.87 3.16
1025 1380 1.228228 GGCCAAGGCATCTGATCCA 59.772 57.895 13.87 0.00 44.11 3.41
1096 1451 2.586079 CGGCCATAGTCGTGCCTG 60.586 66.667 2.24 0.00 43.12 4.85
1097 1452 2.897350 GGCCATAGTCGTGCCTGC 60.897 66.667 0.00 0.00 42.01 4.85
1182 1537 1.301677 CGCTTCTCACCTTCAAGGCC 61.302 60.000 2.20 0.00 39.63 5.19
1211 1566 1.723220 GACCCGAGCAACTACCTTTC 58.277 55.000 0.00 0.00 0.00 2.62
1303 1658 0.035881 CAAGCTCCAGGTCAGAAGCA 59.964 55.000 0.17 0.00 0.00 3.91
1423 1778 3.283684 CCAACAACTTCGGCGGCA 61.284 61.111 10.53 0.00 0.00 5.69
1424 1779 2.718731 CAACAACTTCGGCGGCAA 59.281 55.556 10.53 1.56 0.00 4.52
1448 1803 0.976073 ATCCCGGAGTTCATCGGTGT 60.976 55.000 0.73 0.00 44.32 4.16
1464 1819 0.171455 GTGTACTCCAGAGCCTGACG 59.829 60.000 4.00 0.00 32.44 4.35
1465 1820 1.139947 GTACTCCAGAGCCTGACGC 59.860 63.158 4.00 0.00 32.44 5.19
1466 1821 1.304134 TACTCCAGAGCCTGACGCA 60.304 57.895 4.00 0.00 41.38 5.24
1467 1822 0.684479 TACTCCAGAGCCTGACGCAT 60.684 55.000 4.00 0.00 41.38 4.73
1468 1823 1.227205 CTCCAGAGCCTGACGCATC 60.227 63.158 4.00 0.00 41.38 3.91
1469 1824 1.674764 CTCCAGAGCCTGACGCATCT 61.675 60.000 4.00 0.00 41.38 2.90
1470 1825 1.227205 CCAGAGCCTGACGCATCTC 60.227 63.158 4.00 0.00 41.38 2.75
1471 1826 1.514553 CAGAGCCTGACGCATCTCA 59.485 57.895 0.00 0.00 41.38 3.27
1472 1827 0.805322 CAGAGCCTGACGCATCTCAC 60.805 60.000 0.00 0.00 41.38 3.51
1473 1828 1.520342 GAGCCTGACGCATCTCACC 60.520 63.158 0.00 0.00 41.38 4.02
1474 1829 1.954362 GAGCCTGACGCATCTCACCT 61.954 60.000 0.00 0.00 41.38 4.00
1475 1830 1.812922 GCCTGACGCATCTCACCTG 60.813 63.158 0.00 0.00 37.47 4.00
1476 1831 1.812922 CCTGACGCATCTCACCTGC 60.813 63.158 0.00 0.00 36.26 4.85
1477 1832 1.079612 CTGACGCATCTCACCTGCA 60.080 57.895 0.00 0.00 39.64 4.41
1478 1833 0.671472 CTGACGCATCTCACCTGCAA 60.671 55.000 0.00 0.00 39.64 4.08
1479 1834 0.250252 TGACGCATCTCACCTGCAAA 60.250 50.000 0.00 0.00 39.64 3.68
1480 1835 0.166814 GACGCATCTCACCTGCAAAC 59.833 55.000 0.00 0.00 39.64 2.93
1481 1836 0.250467 ACGCATCTCACCTGCAAACT 60.250 50.000 0.00 0.00 39.64 2.66
1482 1837 1.001974 ACGCATCTCACCTGCAAACTA 59.998 47.619 0.00 0.00 39.64 2.24
1483 1838 1.394917 CGCATCTCACCTGCAAACTAC 59.605 52.381 0.00 0.00 39.64 2.73
1484 1839 2.704572 GCATCTCACCTGCAAACTACT 58.295 47.619 0.00 0.00 39.46 2.57
1485 1840 2.417933 GCATCTCACCTGCAAACTACTG 59.582 50.000 0.00 0.00 39.46 2.74
1486 1841 3.866066 GCATCTCACCTGCAAACTACTGA 60.866 47.826 0.00 0.00 39.46 3.41
1487 1842 3.667497 TCTCACCTGCAAACTACTGAG 57.333 47.619 0.00 0.00 0.00 3.35
1488 1843 2.965831 TCTCACCTGCAAACTACTGAGT 59.034 45.455 0.00 0.00 37.59 3.41
1490 1845 4.587262 TCTCACCTGCAAACTACTGAGTTA 59.413 41.667 0.00 0.00 45.50 2.24
1491 1846 5.246203 TCTCACCTGCAAACTACTGAGTTAT 59.754 40.000 0.00 0.00 45.50 1.89
1492 1847 5.237815 TCACCTGCAAACTACTGAGTTATG 58.762 41.667 0.00 0.00 45.50 1.90
1493 1848 5.011635 TCACCTGCAAACTACTGAGTTATGA 59.988 40.000 0.00 0.00 45.50 2.15
1494 1849 5.349817 CACCTGCAAACTACTGAGTTATGAG 59.650 44.000 0.00 0.00 45.50 2.90
1495 1850 5.246203 ACCTGCAAACTACTGAGTTATGAGA 59.754 40.000 0.00 0.00 45.50 3.27
1496 1851 6.166279 CCTGCAAACTACTGAGTTATGAGAA 58.834 40.000 0.00 0.00 45.50 2.87
1497 1852 6.091441 CCTGCAAACTACTGAGTTATGAGAAC 59.909 42.308 0.00 0.00 45.50 3.01
1498 1853 6.521162 TGCAAACTACTGAGTTATGAGAACA 58.479 36.000 0.00 0.00 45.50 3.18
1499 1854 6.989759 TGCAAACTACTGAGTTATGAGAACAA 59.010 34.615 0.00 0.00 45.50 2.83
1500 1855 7.042051 TGCAAACTACTGAGTTATGAGAACAAC 60.042 37.037 0.00 0.00 45.50 3.32
1501 1856 7.571428 GCAAACTACTGAGTTATGAGAACAACC 60.571 40.741 0.00 0.00 45.50 3.77
1502 1857 6.038997 ACTACTGAGTTATGAGAACAACCC 57.961 41.667 0.00 0.00 28.61 4.11
1503 1858 4.974645 ACTGAGTTATGAGAACAACCCA 57.025 40.909 0.00 0.00 0.00 4.51
1504 1859 4.642429 ACTGAGTTATGAGAACAACCCAC 58.358 43.478 0.00 0.00 0.00 4.61
1505 1860 4.003648 CTGAGTTATGAGAACAACCCACC 58.996 47.826 0.00 0.00 0.00 4.61
1506 1861 3.650942 TGAGTTATGAGAACAACCCACCT 59.349 43.478 0.00 0.00 0.00 4.00
1507 1862 4.003648 GAGTTATGAGAACAACCCACCTG 58.996 47.826 0.00 0.00 0.00 4.00
1508 1863 2.488153 GTTATGAGAACAACCCACCTGC 59.512 50.000 0.00 0.00 0.00 4.85
1509 1864 0.478072 ATGAGAACAACCCACCTGCA 59.522 50.000 0.00 0.00 0.00 4.41
1510 1865 0.257328 TGAGAACAACCCACCTGCAA 59.743 50.000 0.00 0.00 0.00 4.08
1511 1866 1.341482 TGAGAACAACCCACCTGCAAA 60.341 47.619 0.00 0.00 0.00 3.68
1512 1867 1.067060 GAGAACAACCCACCTGCAAAC 59.933 52.381 0.00 0.00 0.00 2.93
1513 1868 0.104120 GAACAACCCACCTGCAAACC 59.896 55.000 0.00 0.00 0.00 3.27
1514 1869 1.334384 AACAACCCACCTGCAAACCC 61.334 55.000 0.00 0.00 0.00 4.11
1515 1870 2.123033 AACCCACCTGCAAACCCC 60.123 61.111 0.00 0.00 0.00 4.95
1516 1871 3.767044 AACCCACCTGCAAACCCCC 62.767 63.158 0.00 0.00 0.00 5.40
1517 1872 3.914713 CCCACCTGCAAACCCCCT 61.915 66.667 0.00 0.00 0.00 4.79
1518 1873 2.283173 CCACCTGCAAACCCCCTC 60.283 66.667 0.00 0.00 0.00 4.30
1519 1874 2.845345 CCACCTGCAAACCCCCTCT 61.845 63.158 0.00 0.00 0.00 3.69
1520 1875 1.497309 CCACCTGCAAACCCCCTCTA 61.497 60.000 0.00 0.00 0.00 2.43
1521 1876 0.404040 CACCTGCAAACCCCCTCTAA 59.596 55.000 0.00 0.00 0.00 2.10
1522 1877 1.154430 ACCTGCAAACCCCCTCTAAA 58.846 50.000 0.00 0.00 0.00 1.85
1523 1878 1.716503 ACCTGCAAACCCCCTCTAAAT 59.283 47.619 0.00 0.00 0.00 1.40
1524 1879 2.111792 ACCTGCAAACCCCCTCTAAATT 59.888 45.455 0.00 0.00 0.00 1.82
1525 1880 3.335484 ACCTGCAAACCCCCTCTAAATTA 59.665 43.478 0.00 0.00 0.00 1.40
1526 1881 4.016572 ACCTGCAAACCCCCTCTAAATTAT 60.017 41.667 0.00 0.00 0.00 1.28
1527 1882 4.962362 CCTGCAAACCCCCTCTAAATTATT 59.038 41.667 0.00 0.00 0.00 1.40
1528 1883 5.163416 CCTGCAAACCCCCTCTAAATTATTG 60.163 44.000 0.00 0.00 0.00 1.90
1529 1884 4.714308 TGCAAACCCCCTCTAAATTATTGG 59.286 41.667 0.00 0.00 0.00 3.16
1530 1885 4.100963 GCAAACCCCCTCTAAATTATTGGG 59.899 45.833 0.00 0.00 37.68 4.12
1531 1886 5.524535 CAAACCCCCTCTAAATTATTGGGA 58.475 41.667 10.67 0.00 40.23 4.37
1532 1887 5.403558 AACCCCCTCTAAATTATTGGGAG 57.596 43.478 10.67 2.60 40.23 4.30
1533 1888 4.652628 ACCCCCTCTAAATTATTGGGAGA 58.347 43.478 10.67 0.00 40.23 3.71
1534 1889 4.665483 ACCCCCTCTAAATTATTGGGAGAG 59.335 45.833 10.67 4.42 40.23 3.20
1535 1890 4.507512 CCCCCTCTAAATTATTGGGAGAGC 60.508 50.000 10.67 0.00 40.23 4.09
1536 1891 4.507512 CCCCTCTAAATTATTGGGAGAGCC 60.508 50.000 10.67 0.00 40.23 4.70
1548 1903 2.755952 GGAGAGCCCCAATAACCATT 57.244 50.000 0.00 0.00 0.00 3.16
1549 1904 2.587522 GGAGAGCCCCAATAACCATTC 58.412 52.381 0.00 0.00 0.00 2.67
1550 1905 2.091885 GGAGAGCCCCAATAACCATTCA 60.092 50.000 0.00 0.00 0.00 2.57
1551 1906 3.437052 GGAGAGCCCCAATAACCATTCAT 60.437 47.826 0.00 0.00 0.00 2.57
1552 1907 4.218312 GAGAGCCCCAATAACCATTCATT 58.782 43.478 0.00 0.00 0.00 2.57
1553 1908 4.218312 AGAGCCCCAATAACCATTCATTC 58.782 43.478 0.00 0.00 0.00 2.67
1554 1909 2.958355 AGCCCCAATAACCATTCATTCG 59.042 45.455 0.00 0.00 0.00 3.34
1555 1910 2.035832 GCCCCAATAACCATTCATTCGG 59.964 50.000 0.00 0.00 0.00 4.30
1556 1911 2.627699 CCCCAATAACCATTCATTCGGG 59.372 50.000 0.00 0.00 0.00 5.14
1557 1912 2.627699 CCCAATAACCATTCATTCGGGG 59.372 50.000 0.00 0.00 0.00 5.73
1558 1913 3.561143 CCAATAACCATTCATTCGGGGA 58.439 45.455 0.00 0.00 0.00 4.81
1559 1914 3.569701 CCAATAACCATTCATTCGGGGAG 59.430 47.826 0.00 0.00 0.00 4.30
1560 1915 4.207165 CAATAACCATTCATTCGGGGAGT 58.793 43.478 0.00 0.00 0.00 3.85
1561 1916 5.373222 CAATAACCATTCATTCGGGGAGTA 58.627 41.667 0.00 0.00 0.00 2.59
1562 1917 5.843019 ATAACCATTCATTCGGGGAGTAT 57.157 39.130 0.00 0.00 0.00 2.12
1563 1918 4.519906 AACCATTCATTCGGGGAGTATT 57.480 40.909 0.00 0.00 0.00 1.89
1564 1919 4.519906 ACCATTCATTCGGGGAGTATTT 57.480 40.909 0.00 0.00 0.00 1.40
1565 1920 4.461198 ACCATTCATTCGGGGAGTATTTC 58.539 43.478 0.00 0.00 0.00 2.17
1566 1921 4.166144 ACCATTCATTCGGGGAGTATTTCT 59.834 41.667 0.00 0.00 0.00 2.52
1567 1922 5.368523 ACCATTCATTCGGGGAGTATTTCTA 59.631 40.000 0.00 0.00 0.00 2.10
1568 1923 6.044404 ACCATTCATTCGGGGAGTATTTCTAT 59.956 38.462 0.00 0.00 0.00 1.98
1569 1924 6.372659 CCATTCATTCGGGGAGTATTTCTATG 59.627 42.308 0.00 0.00 0.00 2.23
1570 1925 6.494666 TTCATTCGGGGAGTATTTCTATGT 57.505 37.500 0.00 0.00 0.00 2.29
1571 1926 7.606135 TTCATTCGGGGAGTATTTCTATGTA 57.394 36.000 0.00 0.00 0.00 2.29
1572 1927 6.989659 TCATTCGGGGAGTATTTCTATGTAC 58.010 40.000 0.00 0.00 0.00 2.90
1573 1928 5.796424 TTCGGGGAGTATTTCTATGTACC 57.204 43.478 0.00 0.00 0.00 3.34
1574 1929 5.070823 TCGGGGAGTATTTCTATGTACCT 57.929 43.478 0.00 0.00 0.00 3.08
1575 1930 5.075493 TCGGGGAGTATTTCTATGTACCTC 58.925 45.833 0.00 0.00 0.00 3.85
1576 1931 5.078256 CGGGGAGTATTTCTATGTACCTCT 58.922 45.833 0.00 0.00 0.00 3.69
1577 1932 5.539193 CGGGGAGTATTTCTATGTACCTCTT 59.461 44.000 0.00 0.00 0.00 2.85
1578 1933 6.718454 CGGGGAGTATTTCTATGTACCTCTTA 59.282 42.308 0.00 0.00 0.00 2.10
1579 1934 7.232127 CGGGGAGTATTTCTATGTACCTCTTAA 59.768 40.741 0.00 0.00 0.00 1.85
1580 1935 8.931568 GGGGAGTATTTCTATGTACCTCTTAAA 58.068 37.037 0.00 0.00 0.00 1.52
1581 1936 9.984190 GGGAGTATTTCTATGTACCTCTTAAAG 57.016 37.037 0.00 0.00 0.00 1.85
1593 1948 9.939424 ATGTACCTCTTAAAGATACTCTTAGGT 57.061 33.333 11.72 11.72 41.81 3.08
1594 1949 9.186837 TGTACCTCTTAAAGATACTCTTAGGTG 57.813 37.037 14.89 1.65 40.24 4.00
1595 1950 7.114866 ACCTCTTAAAGATACTCTTAGGTGC 57.885 40.000 7.83 0.00 39.18 5.01
1596 1951 6.898521 ACCTCTTAAAGATACTCTTAGGTGCT 59.101 38.462 7.83 0.00 39.18 4.40
1597 1952 7.400627 ACCTCTTAAAGATACTCTTAGGTGCTT 59.599 37.037 7.83 0.00 39.18 3.91
1598 1953 7.708752 CCTCTTAAAGATACTCTTAGGTGCTTG 59.291 40.741 0.00 0.00 35.27 4.01
1599 1954 8.135382 TCTTAAAGATACTCTTAGGTGCTTGT 57.865 34.615 0.00 0.00 35.27 3.16
1600 1955 8.594550 TCTTAAAGATACTCTTAGGTGCTTGTT 58.405 33.333 0.00 0.00 35.27 2.83
1601 1956 8.773404 TTAAAGATACTCTTAGGTGCTTGTTC 57.227 34.615 0.00 0.00 35.27 3.18
1602 1957 5.346181 AGATACTCTTAGGTGCTTGTTCC 57.654 43.478 0.00 0.00 0.00 3.62
1603 1958 4.777896 AGATACTCTTAGGTGCTTGTTCCA 59.222 41.667 0.00 0.00 0.00 3.53
1604 1959 3.857157 ACTCTTAGGTGCTTGTTCCAA 57.143 42.857 0.00 0.00 0.00 3.53
1605 1960 4.164843 ACTCTTAGGTGCTTGTTCCAAA 57.835 40.909 0.00 0.00 0.00 3.28
1606 1961 3.883489 ACTCTTAGGTGCTTGTTCCAAAC 59.117 43.478 0.00 0.00 0.00 2.93
1607 1962 3.882888 CTCTTAGGTGCTTGTTCCAAACA 59.117 43.478 0.00 0.00 40.21 2.83
1622 1977 9.549078 TTGTTCCAAACAAGTAAAAAGAAAAGT 57.451 25.926 1.27 0.00 45.79 2.66
1623 1978 9.549078 TGTTCCAAACAAGTAAAAAGAAAAGTT 57.451 25.926 0.00 0.00 38.72 2.66
1625 1980 9.990360 TTCCAAACAAGTAAAAAGAAAAGTTCT 57.010 25.926 0.00 0.00 43.15 3.01
1626 1981 9.418045 TCCAAACAAGTAAAAAGAAAAGTTCTG 57.582 29.630 0.00 0.00 40.59 3.02
1627 1982 9.203421 CCAAACAAGTAAAAAGAAAAGTTCTGT 57.797 29.630 0.00 0.00 40.59 3.41
1635 1990 9.783256 GTAAAAAGAAAAGTTCTGTTTAGAGCA 57.217 29.630 11.82 0.00 45.41 4.26
1637 1992 8.862550 AAAAGAAAAGTTCTGTTTAGAGCATG 57.137 30.769 0.00 0.00 40.59 4.06
1638 1993 7.573968 AAGAAAAGTTCTGTTTAGAGCATGT 57.426 32.000 0.00 0.00 40.59 3.21
1639 1994 8.677148 AAGAAAAGTTCTGTTTAGAGCATGTA 57.323 30.769 0.00 0.00 40.59 2.29
1640 1995 8.854614 AGAAAAGTTCTGTTTAGAGCATGTAT 57.145 30.769 0.00 0.00 38.91 2.29
1641 1996 9.944376 AGAAAAGTTCTGTTTAGAGCATGTATA 57.056 29.630 0.00 0.00 38.91 1.47
1643 1998 7.778470 AAGTTCTGTTTAGAGCATGTATAGC 57.222 36.000 0.00 0.00 36.69 2.97
1644 1999 6.284459 AGTTCTGTTTAGAGCATGTATAGCC 58.716 40.000 0.00 0.00 36.69 3.93
1645 2000 4.871513 TCTGTTTAGAGCATGTATAGCCG 58.128 43.478 0.00 0.00 0.00 5.52
1646 2001 4.341235 TCTGTTTAGAGCATGTATAGCCGT 59.659 41.667 0.00 0.00 0.00 5.68
1647 2002 4.368315 TGTTTAGAGCATGTATAGCCGTG 58.632 43.478 0.00 0.00 0.00 4.94
1648 2003 4.098807 TGTTTAGAGCATGTATAGCCGTGA 59.901 41.667 0.00 0.00 0.00 4.35
1649 2004 5.221441 TGTTTAGAGCATGTATAGCCGTGAT 60.221 40.000 0.00 0.00 0.00 3.06
1650 2005 3.309961 AGAGCATGTATAGCCGTGATG 57.690 47.619 0.00 0.00 0.00 3.07
1651 2006 2.028658 AGAGCATGTATAGCCGTGATGG 60.029 50.000 0.00 0.00 42.50 3.51
1652 2007 1.970640 AGCATGTATAGCCGTGATGGA 59.029 47.619 0.00 0.00 42.00 3.41
1653 2008 2.069273 GCATGTATAGCCGTGATGGAC 58.931 52.381 0.00 0.00 42.00 4.02
1654 2009 2.547855 GCATGTATAGCCGTGATGGACA 60.548 50.000 0.00 0.00 42.00 4.02
1655 2010 3.727726 CATGTATAGCCGTGATGGACAA 58.272 45.455 0.00 0.00 42.00 3.18
1656 2011 3.897141 TGTATAGCCGTGATGGACAAA 57.103 42.857 0.00 0.00 42.00 2.83
1657 2012 4.415881 TGTATAGCCGTGATGGACAAAT 57.584 40.909 0.00 0.00 42.00 2.32
1658 2013 4.377021 TGTATAGCCGTGATGGACAAATC 58.623 43.478 0.00 0.00 42.00 2.17
1659 2014 2.325583 TAGCCGTGATGGACAAATCC 57.674 50.000 0.00 0.00 46.48 3.01
1667 2022 2.674754 GGACAAATCCGGCCCTCA 59.325 61.111 0.00 0.00 34.48 3.86
1668 2023 1.227383 GGACAAATCCGGCCCTCAT 59.773 57.895 0.00 0.00 34.48 2.90
1669 2024 0.395724 GGACAAATCCGGCCCTCATT 60.396 55.000 0.00 0.00 34.48 2.57
1693 2048 6.472887 TCGGACACCTCAAATTAGAAATCTT 58.527 36.000 0.00 0.00 0.00 2.40
1964 2331 0.247735 GACGAGTCGACGACATCCAG 60.248 60.000 28.31 16.19 34.60 3.86
1966 2333 1.583967 GAGTCGACGACATCCAGCG 60.584 63.158 28.31 0.00 34.60 5.18
2114 2502 3.214123 CGTCGGACGAGGCCCATA 61.214 66.667 25.29 0.00 46.05 2.74
2132 2520 1.241990 TAGTGCGTCCTGAAGCTCGT 61.242 55.000 6.62 0.00 36.75 4.18
2133 2521 1.664965 GTGCGTCCTGAAGCTCGTT 60.665 57.895 6.62 0.00 36.75 3.85
2222 2611 1.566018 GGCAGCGACAACACACCTAC 61.566 60.000 0.00 0.00 0.00 3.18
2224 2613 0.033504 CAGCGACAACACACCTACCT 59.966 55.000 0.00 0.00 0.00 3.08
2365 2754 1.225704 GAGGCCTTGTGGGATGAGG 59.774 63.158 6.77 0.00 37.23 3.86
2412 2802 3.842923 CTCGGATCTGCTGCCCGT 61.843 66.667 18.28 0.00 43.40 5.28
2429 2819 4.032452 TCATGCCGAAGCCAGCCA 62.032 61.111 0.00 0.00 38.69 4.75
2430 2820 3.063704 CATGCCGAAGCCAGCCAA 61.064 61.111 0.00 0.00 38.69 4.52
2510 2910 0.822164 CTAGGGTTTGGTCCGACGAT 59.178 55.000 0.00 0.00 0.00 3.73
2521 2921 2.335369 CGACGATCGGATGGGGAC 59.665 66.667 20.98 0.00 36.00 4.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
94 97 4.292186 ACTTAGATGGCAAAGAAGAGCA 57.708 40.909 11.25 0.00 0.00 4.26
167 170 6.017934 GGTAATACAGCCATACACATGTCTTG 60.018 42.308 0.00 0.00 0.00 3.02
254 259 1.620822 GGCAATGTCACCTCAGGTTT 58.379 50.000 0.00 0.00 31.02 3.27
264 269 0.828762 AGCAAGCTTGGGCAATGTCA 60.829 50.000 27.10 0.00 41.70 3.58
282 287 2.873472 GCTCTGAATTCTGATGAGGCAG 59.127 50.000 14.57 3.87 37.24 4.85
399 404 2.364002 TGATTCGCGGGTGAGATAATCA 59.636 45.455 6.13 8.90 34.79 2.57
436 443 0.963225 TGAATCGGTCGTGTCCAGAA 59.037 50.000 0.00 0.00 0.00 3.02
437 444 0.242825 GTGAATCGGTCGTGTCCAGA 59.757 55.000 0.00 0.00 0.00 3.86
448 455 0.893270 TTGGTGCCAAGGTGAATCGG 60.893 55.000 0.00 0.00 0.00 4.18
452 459 2.485795 GCGTTGGTGCCAAGGTGAA 61.486 57.895 20.34 0.00 41.95 3.18
475 482 1.098712 TTCGTGCCAAAGGTGTGGTC 61.099 55.000 0.00 0.00 41.12 4.02
511 520 4.159693 CCAGCTCCATGTAGTAAGTGTGTA 59.840 45.833 0.00 0.00 0.00 2.90
659 668 1.488812 TCGGGGATGGTTTGGTCTATG 59.511 52.381 0.00 0.00 0.00 2.23
661 670 1.659022 TTCGGGGATGGTTTGGTCTA 58.341 50.000 0.00 0.00 0.00 2.59
663 672 0.885879 GTTTCGGGGATGGTTTGGTC 59.114 55.000 0.00 0.00 0.00 4.02
678 687 9.122779 AGTACAGTATATCCAGTGTCTAGTTTC 57.877 37.037 0.00 0.00 34.03 2.78
686 695 7.441760 CGTTCTAGAGTACAGTATATCCAGTGT 59.558 40.741 0.00 0.00 36.13 3.55
716 726 3.365868 GCTAGCACTCCATCTATGACTCG 60.366 52.174 10.63 0.00 0.00 4.18
723 733 4.666412 ATCCTAGCTAGCACTCCATCTA 57.334 45.455 18.83 0.00 0.00 1.98
813 1149 3.117171 CGCACTGCTGTCTCTGCC 61.117 66.667 0.00 0.00 0.00 4.85
819 1155 1.669115 ACATCCACGCACTGCTGTC 60.669 57.895 0.00 0.00 0.00 3.51
821 1157 2.865308 CACATCCACGCACTGCTG 59.135 61.111 0.00 0.00 0.00 4.41
846 1184 1.154543 CGTAAACGGCGGCAAGTTC 60.155 57.895 13.24 2.54 35.37 3.01
873 1228 7.601856 TGGTTTTAGAGCATAAAATTCCACAG 58.398 34.615 9.30 0.00 0.00 3.66
890 1245 1.600023 TCCACAGCGGTTGGTTTTAG 58.400 50.000 13.14 0.00 35.57 1.85
891 1246 2.279935 ATCCACAGCGGTTGGTTTTA 57.720 45.000 13.14 0.00 35.57 1.52
892 1247 1.883926 GTATCCACAGCGGTTGGTTTT 59.116 47.619 13.14 5.44 35.57 2.43
893 1248 1.202830 TGTATCCACAGCGGTTGGTTT 60.203 47.619 13.14 7.19 35.57 3.27
894 1249 0.398696 TGTATCCACAGCGGTTGGTT 59.601 50.000 13.14 9.10 35.57 3.67
895 1250 0.398696 TTGTATCCACAGCGGTTGGT 59.601 50.000 13.14 0.00 35.67 3.67
896 1251 0.802494 GTTGTATCCACAGCGGTTGG 59.198 55.000 8.85 8.85 35.67 3.77
902 1257 2.921754 GACTGTACGTTGTATCCACAGC 59.078 50.000 11.33 2.79 40.17 4.40
903 1258 3.508762 GGACTGTACGTTGTATCCACAG 58.491 50.000 10.12 10.12 41.83 3.66
904 1259 2.095110 CGGACTGTACGTTGTATCCACA 60.095 50.000 3.77 0.00 0.00 4.17
905 1260 2.162208 TCGGACTGTACGTTGTATCCAC 59.838 50.000 12.80 0.00 0.00 4.02
906 1261 2.162208 GTCGGACTGTACGTTGTATCCA 59.838 50.000 12.80 0.00 0.00 3.41
907 1262 2.421424 AGTCGGACTGTACGTTGTATCC 59.579 50.000 12.80 0.00 0.00 2.59
908 1263 3.373439 AGAGTCGGACTGTACGTTGTATC 59.627 47.826 16.72 4.91 0.00 2.24
916 1271 1.677052 GATGGGAGAGTCGGACTGTAC 59.323 57.143 16.72 12.56 0.00 2.90
917 1272 1.564818 AGATGGGAGAGTCGGACTGTA 59.435 52.381 16.72 0.00 0.00 2.74
925 1280 4.161189 TGACTGAAATGAGATGGGAGAGTC 59.839 45.833 0.00 0.00 0.00 3.36
927 1282 4.695396 CTGACTGAAATGAGATGGGAGAG 58.305 47.826 0.00 0.00 0.00 3.20
929 1284 3.118334 AGCTGACTGAAATGAGATGGGAG 60.118 47.826 0.00 0.00 0.00 4.30
932 1287 3.309138 CGAAGCTGACTGAAATGAGATGG 59.691 47.826 0.00 0.00 0.00 3.51
940 1295 1.939934 CACCAACGAAGCTGACTGAAA 59.060 47.619 0.00 0.00 0.00 2.69
953 1308 0.667993 AAATGCACTGTCCACCAACG 59.332 50.000 0.00 0.00 0.00 4.10
981 1336 3.119708 CCATTTTCTCAGTAGCAACAGGC 60.120 47.826 0.00 0.00 45.30 4.85
982 1337 3.119708 GCCATTTTCTCAGTAGCAACAGG 60.120 47.826 0.00 0.00 0.00 4.00
983 1338 3.425359 CGCCATTTTCTCAGTAGCAACAG 60.425 47.826 0.00 0.00 0.00 3.16
984 1339 2.483877 CGCCATTTTCTCAGTAGCAACA 59.516 45.455 0.00 0.00 0.00 3.33
985 1340 2.742053 TCGCCATTTTCTCAGTAGCAAC 59.258 45.455 0.00 0.00 0.00 4.17
986 1341 3.002791 CTCGCCATTTTCTCAGTAGCAA 58.997 45.455 0.00 0.00 0.00 3.91
987 1342 2.621338 CTCGCCATTTTCTCAGTAGCA 58.379 47.619 0.00 0.00 0.00 3.49
988 1343 1.936547 CCTCGCCATTTTCTCAGTAGC 59.063 52.381 0.00 0.00 0.00 3.58
1003 1358 2.955022 ATCAGATGCCTTGGCCTCGC 62.955 60.000 3.32 2.94 0.00 5.03
1025 1380 2.237392 GCTAGGAGGATCACCACAACTT 59.763 50.000 10.13 0.00 38.94 2.66
1275 1630 1.364626 CCTGGAGCTTGATGACGTGC 61.365 60.000 0.00 0.00 0.00 5.34
1278 1633 0.247460 TGACCTGGAGCTTGATGACG 59.753 55.000 0.00 0.00 0.00 4.35
1282 1637 1.065564 GCTTCTGACCTGGAGCTTGAT 60.066 52.381 0.00 0.00 0.00 2.57
1303 1658 3.396951 CACCTTCCGAGTTGGTGTT 57.603 52.632 0.00 0.00 44.35 3.32
1335 1690 5.740513 GCTTATCTCACCTCCAATGGTAGTC 60.741 48.000 0.00 0.00 38.45 2.59
1423 1778 1.281925 ATGAACTCCGGGATGGGCTT 61.282 55.000 0.00 0.00 38.76 4.35
1424 1779 1.694169 ATGAACTCCGGGATGGGCT 60.694 57.895 0.00 0.00 38.76 5.19
1448 1803 0.684479 ATGCGTCAGGCTCTGGAGTA 60.684 55.000 2.86 0.00 44.05 2.59
1453 1808 0.805322 GTGAGATGCGTCAGGCTCTG 60.805 60.000 8.99 0.00 44.05 3.35
1454 1809 1.515020 GTGAGATGCGTCAGGCTCT 59.485 57.895 8.99 0.00 44.05 4.09
1464 1819 2.417933 CAGTAGTTTGCAGGTGAGATGC 59.582 50.000 0.00 0.00 44.11 3.91
1465 1820 3.930336 TCAGTAGTTTGCAGGTGAGATG 58.070 45.455 0.00 0.00 0.00 2.90
1466 1821 3.580458 ACTCAGTAGTTTGCAGGTGAGAT 59.420 43.478 12.92 0.44 35.91 2.75
1467 1822 2.965831 ACTCAGTAGTTTGCAGGTGAGA 59.034 45.455 12.92 0.00 35.91 3.27
1468 1823 3.393089 ACTCAGTAGTTTGCAGGTGAG 57.607 47.619 0.00 0.00 37.91 3.51
1469 1824 3.838244 AACTCAGTAGTTTGCAGGTGA 57.162 42.857 0.00 0.00 43.60 4.02
1470 1825 5.237815 TCATAACTCAGTAGTTTGCAGGTG 58.762 41.667 0.00 0.00 43.60 4.00
1471 1826 5.246203 TCTCATAACTCAGTAGTTTGCAGGT 59.754 40.000 0.00 0.00 43.60 4.00
1472 1827 5.724328 TCTCATAACTCAGTAGTTTGCAGG 58.276 41.667 0.00 0.00 43.60 4.85
1473 1828 6.646653 TGTTCTCATAACTCAGTAGTTTGCAG 59.353 38.462 0.00 0.00 43.60 4.41
1474 1829 6.521162 TGTTCTCATAACTCAGTAGTTTGCA 58.479 36.000 0.00 0.00 43.60 4.08
1475 1830 7.291567 GTTGTTCTCATAACTCAGTAGTTTGC 58.708 38.462 0.00 0.00 43.60 3.68
1476 1831 7.095187 GGGTTGTTCTCATAACTCAGTAGTTTG 60.095 40.741 0.00 0.00 43.60 2.93
1477 1832 6.935208 GGGTTGTTCTCATAACTCAGTAGTTT 59.065 38.462 0.00 0.00 43.60 2.66
1479 1834 5.542635 TGGGTTGTTCTCATAACTCAGTAGT 59.457 40.000 0.00 0.00 32.65 2.73
1480 1835 5.869888 GTGGGTTGTTCTCATAACTCAGTAG 59.130 44.000 0.00 0.00 37.91 2.57
1481 1836 5.279809 GGTGGGTTGTTCTCATAACTCAGTA 60.280 44.000 0.00 0.00 37.91 2.74
1482 1837 4.505039 GGTGGGTTGTTCTCATAACTCAGT 60.505 45.833 0.00 0.00 37.91 3.41
1483 1838 4.003648 GGTGGGTTGTTCTCATAACTCAG 58.996 47.826 0.00 0.00 37.91 3.35
1484 1839 3.650942 AGGTGGGTTGTTCTCATAACTCA 59.349 43.478 0.00 0.00 35.06 3.41
1485 1840 4.003648 CAGGTGGGTTGTTCTCATAACTC 58.996 47.826 0.00 0.00 0.00 3.01
1486 1841 3.810743 GCAGGTGGGTTGTTCTCATAACT 60.811 47.826 0.00 0.00 0.00 2.24
1487 1842 2.488153 GCAGGTGGGTTGTTCTCATAAC 59.512 50.000 0.00 0.00 0.00 1.89
1488 1843 2.107378 TGCAGGTGGGTTGTTCTCATAA 59.893 45.455 0.00 0.00 0.00 1.90
1489 1844 1.702401 TGCAGGTGGGTTGTTCTCATA 59.298 47.619 0.00 0.00 0.00 2.15
1490 1845 0.478072 TGCAGGTGGGTTGTTCTCAT 59.522 50.000 0.00 0.00 0.00 2.90
1491 1846 0.257328 TTGCAGGTGGGTTGTTCTCA 59.743 50.000 0.00 0.00 0.00 3.27
1492 1847 1.067060 GTTTGCAGGTGGGTTGTTCTC 59.933 52.381 0.00 0.00 0.00 2.87
1493 1848 1.111277 GTTTGCAGGTGGGTTGTTCT 58.889 50.000 0.00 0.00 0.00 3.01
1494 1849 0.104120 GGTTTGCAGGTGGGTTGTTC 59.896 55.000 0.00 0.00 0.00 3.18
1495 1850 1.334384 GGGTTTGCAGGTGGGTTGTT 61.334 55.000 0.00 0.00 0.00 2.83
1496 1851 1.760480 GGGTTTGCAGGTGGGTTGT 60.760 57.895 0.00 0.00 0.00 3.32
1497 1852 2.506957 GGGGTTTGCAGGTGGGTTG 61.507 63.158 0.00 0.00 0.00 3.77
1498 1853 2.123033 GGGGTTTGCAGGTGGGTT 60.123 61.111 0.00 0.00 0.00 4.11
1499 1854 4.233558 GGGGGTTTGCAGGTGGGT 62.234 66.667 0.00 0.00 0.00 4.51
1500 1855 3.886550 GAGGGGGTTTGCAGGTGGG 62.887 68.421 0.00 0.00 0.00 4.61
1501 1856 1.497309 TAGAGGGGGTTTGCAGGTGG 61.497 60.000 0.00 0.00 0.00 4.61
1502 1857 0.404040 TTAGAGGGGGTTTGCAGGTG 59.596 55.000 0.00 0.00 0.00 4.00
1503 1858 1.154430 TTTAGAGGGGGTTTGCAGGT 58.846 50.000 0.00 0.00 0.00 4.00
1504 1859 2.532250 ATTTAGAGGGGGTTTGCAGG 57.468 50.000 0.00 0.00 0.00 4.85
1505 1860 5.163416 CCAATAATTTAGAGGGGGTTTGCAG 60.163 44.000 0.00 0.00 0.00 4.41
1506 1861 4.714308 CCAATAATTTAGAGGGGGTTTGCA 59.286 41.667 0.00 0.00 0.00 4.08
1507 1862 4.100963 CCCAATAATTTAGAGGGGGTTTGC 59.899 45.833 7.70 0.00 35.83 3.68
1508 1863 5.524535 TCCCAATAATTTAGAGGGGGTTTG 58.475 41.667 13.25 0.00 40.02 2.93
1509 1864 5.498373 TCTCCCAATAATTTAGAGGGGGTTT 59.502 40.000 12.97 0.00 40.99 3.27
1510 1865 5.050685 TCTCCCAATAATTTAGAGGGGGTT 58.949 41.667 12.97 0.00 40.99 4.11
1511 1866 4.652628 TCTCCCAATAATTTAGAGGGGGT 58.347 43.478 12.97 0.00 40.99 4.95
1512 1867 4.507512 GCTCTCCCAATAATTTAGAGGGGG 60.508 50.000 13.25 11.11 41.58 5.40
1513 1868 4.507512 GGCTCTCCCAATAATTTAGAGGGG 60.508 50.000 13.25 8.91 40.02 4.79
1514 1869 4.657013 GGCTCTCCCAATAATTTAGAGGG 58.343 47.826 8.87 8.87 40.98 4.30
1529 1884 2.091885 TGAATGGTTATTGGGGCTCTCC 60.092 50.000 0.00 0.00 0.00 3.71
1530 1885 3.297134 TGAATGGTTATTGGGGCTCTC 57.703 47.619 0.00 0.00 0.00 3.20
1531 1886 3.979501 ATGAATGGTTATTGGGGCTCT 57.020 42.857 0.00 0.00 0.00 4.09
1532 1887 3.004734 CGAATGAATGGTTATTGGGGCTC 59.995 47.826 0.00 0.00 0.00 4.70
1533 1888 2.958355 CGAATGAATGGTTATTGGGGCT 59.042 45.455 0.00 0.00 0.00 5.19
1534 1889 2.035832 CCGAATGAATGGTTATTGGGGC 59.964 50.000 0.00 0.00 31.06 5.80
1535 1890 2.627699 CCCGAATGAATGGTTATTGGGG 59.372 50.000 0.00 0.00 43.06 4.96
1536 1891 2.627699 CCCCGAATGAATGGTTATTGGG 59.372 50.000 0.00 0.00 33.50 4.12
1537 1892 3.561143 TCCCCGAATGAATGGTTATTGG 58.439 45.455 0.00 0.00 0.00 3.16
1538 1893 4.207165 ACTCCCCGAATGAATGGTTATTG 58.793 43.478 0.00 0.00 0.00 1.90
1539 1894 4.519906 ACTCCCCGAATGAATGGTTATT 57.480 40.909 0.00 0.00 0.00 1.40
1540 1895 5.843019 ATACTCCCCGAATGAATGGTTAT 57.157 39.130 0.00 0.00 0.00 1.89
1541 1896 5.640158 AATACTCCCCGAATGAATGGTTA 57.360 39.130 0.00 0.00 0.00 2.85
1542 1897 4.519906 AATACTCCCCGAATGAATGGTT 57.480 40.909 0.00 0.00 0.00 3.67
1543 1898 4.166144 AGAAATACTCCCCGAATGAATGGT 59.834 41.667 0.00 0.00 0.00 3.55
1544 1899 4.718961 AGAAATACTCCCCGAATGAATGG 58.281 43.478 0.00 0.00 0.00 3.16
1545 1900 6.936900 ACATAGAAATACTCCCCGAATGAATG 59.063 38.462 0.00 0.00 0.00 2.67
1546 1901 7.079451 ACATAGAAATACTCCCCGAATGAAT 57.921 36.000 0.00 0.00 0.00 2.57
1547 1902 6.494666 ACATAGAAATACTCCCCGAATGAA 57.505 37.500 0.00 0.00 0.00 2.57
1548 1903 6.014840 GGTACATAGAAATACTCCCCGAATGA 60.015 42.308 0.00 0.00 0.00 2.57
1549 1904 6.014499 AGGTACATAGAAATACTCCCCGAATG 60.014 42.308 0.00 0.00 0.00 2.67
1550 1905 6.082707 AGGTACATAGAAATACTCCCCGAAT 58.917 40.000 0.00 0.00 0.00 3.34
1551 1906 5.461327 AGGTACATAGAAATACTCCCCGAA 58.539 41.667 0.00 0.00 0.00 4.30
1552 1907 5.070823 AGGTACATAGAAATACTCCCCGA 57.929 43.478 0.00 0.00 0.00 5.14
1553 1908 5.078256 AGAGGTACATAGAAATACTCCCCG 58.922 45.833 0.00 0.00 0.00 5.73
1554 1909 6.997942 AAGAGGTACATAGAAATACTCCCC 57.002 41.667 0.00 0.00 0.00 4.81
1555 1910 9.984190 CTTTAAGAGGTACATAGAAATACTCCC 57.016 37.037 0.00 0.00 0.00 4.30
1580 1935 4.777896 TGGAACAAGCACCTAAGAGTATCT 59.222 41.667 0.00 0.00 43.38 1.98
1581 1936 5.086104 TGGAACAAGCACCTAAGAGTATC 57.914 43.478 0.00 0.00 31.92 2.24
1597 1952 9.549078 AACTTTTCTTTTTACTTGTTTGGAACA 57.451 25.926 0.00 0.00 40.21 3.18
1599 1954 9.990360 AGAACTTTTCTTTTTACTTGTTTGGAA 57.010 25.926 0.00 0.00 36.36 3.53
1600 1955 9.418045 CAGAACTTTTCTTTTTACTTGTTTGGA 57.582 29.630 0.00 0.00 38.11 3.53
1601 1956 9.203421 ACAGAACTTTTCTTTTTACTTGTTTGG 57.797 29.630 0.00 0.00 38.11 3.28
1609 1964 9.783256 TGCTCTAAACAGAACTTTTCTTTTTAC 57.217 29.630 4.04 0.00 39.58 2.01
1611 1966 9.305925 CATGCTCTAAACAGAACTTTTCTTTTT 57.694 29.630 5.61 5.61 41.22 1.94
1612 1967 8.470002 ACATGCTCTAAACAGAACTTTTCTTTT 58.530 29.630 0.00 0.00 38.11 2.27
1613 1968 8.000780 ACATGCTCTAAACAGAACTTTTCTTT 57.999 30.769 0.00 0.00 38.11 2.52
1614 1969 7.573968 ACATGCTCTAAACAGAACTTTTCTT 57.426 32.000 0.00 0.00 38.11 2.52
1615 1970 8.854614 ATACATGCTCTAAACAGAACTTTTCT 57.145 30.769 0.00 0.00 41.70 2.52
1617 1972 8.669243 GCTATACATGCTCTAAACAGAACTTTT 58.331 33.333 0.00 0.00 0.00 2.27
1618 1973 7.281100 GGCTATACATGCTCTAAACAGAACTTT 59.719 37.037 0.00 0.00 0.00 2.66
1619 1974 6.763610 GGCTATACATGCTCTAAACAGAACTT 59.236 38.462 0.00 0.00 0.00 2.66
1620 1975 6.284459 GGCTATACATGCTCTAAACAGAACT 58.716 40.000 0.00 0.00 0.00 3.01
1621 1976 5.175856 CGGCTATACATGCTCTAAACAGAAC 59.824 44.000 0.00 0.00 0.00 3.01
1622 1977 5.163447 ACGGCTATACATGCTCTAAACAGAA 60.163 40.000 0.00 0.00 0.00 3.02
1623 1978 4.341235 ACGGCTATACATGCTCTAAACAGA 59.659 41.667 0.00 0.00 0.00 3.41
1624 1979 4.445718 CACGGCTATACATGCTCTAAACAG 59.554 45.833 0.00 0.00 0.00 3.16
1625 1980 4.098807 TCACGGCTATACATGCTCTAAACA 59.901 41.667 0.00 0.00 0.00 2.83
1626 1981 4.617959 TCACGGCTATACATGCTCTAAAC 58.382 43.478 0.00 0.00 0.00 2.01
1627 1982 4.929819 TCACGGCTATACATGCTCTAAA 57.070 40.909 0.00 0.00 0.00 1.85
1628 1983 4.321974 CCATCACGGCTATACATGCTCTAA 60.322 45.833 0.00 0.00 0.00 2.10
1629 1984 3.193479 CCATCACGGCTATACATGCTCTA 59.807 47.826 0.00 0.00 0.00 2.43
1630 1985 2.028658 CCATCACGGCTATACATGCTCT 60.029 50.000 0.00 0.00 0.00 4.09
1631 1986 2.029020 TCCATCACGGCTATACATGCTC 60.029 50.000 0.00 0.00 33.14 4.26
1632 1987 1.970640 TCCATCACGGCTATACATGCT 59.029 47.619 0.00 0.00 33.14 3.79
1633 1988 2.069273 GTCCATCACGGCTATACATGC 58.931 52.381 0.00 0.00 33.14 4.06
1634 1989 3.385193 TGTCCATCACGGCTATACATG 57.615 47.619 0.00 0.00 33.14 3.21
1635 1990 4.415881 TTTGTCCATCACGGCTATACAT 57.584 40.909 0.00 0.00 33.14 2.29
1636 1991 3.897141 TTTGTCCATCACGGCTATACA 57.103 42.857 0.00 0.00 33.14 2.29
1637 1992 3.746492 GGATTTGTCCATCACGGCTATAC 59.254 47.826 0.00 0.00 33.14 1.47
1638 1993 3.554129 CGGATTTGTCCATCACGGCTATA 60.554 47.826 0.00 0.00 33.14 1.31
1639 1994 2.806745 CGGATTTGTCCATCACGGCTAT 60.807 50.000 0.00 0.00 33.14 2.97
1640 1995 1.472552 CGGATTTGTCCATCACGGCTA 60.473 52.381 0.00 0.00 33.14 3.93
1641 1996 0.744414 CGGATTTGTCCATCACGGCT 60.744 55.000 0.00 0.00 33.14 5.52
1642 1997 1.714899 CCGGATTTGTCCATCACGGC 61.715 60.000 0.00 0.00 33.26 5.68
1643 1998 1.714899 GCCGGATTTGTCCATCACGG 61.715 60.000 5.05 0.00 38.77 4.94
1644 1999 1.714899 GGCCGGATTTGTCCATCACG 61.715 60.000 5.05 0.00 0.00 4.35
1645 2000 1.384222 GGGCCGGATTTGTCCATCAC 61.384 60.000 5.05 0.00 0.00 3.06
1646 2001 1.077068 GGGCCGGATTTGTCCATCA 60.077 57.895 5.05 0.00 0.00 3.07
1647 2002 0.819666 GAGGGCCGGATTTGTCCATC 60.820 60.000 5.05 0.00 0.00 3.51
1648 2003 1.227383 GAGGGCCGGATTTGTCCAT 59.773 57.895 5.05 0.00 0.00 3.41
1649 2004 1.570857 ATGAGGGCCGGATTTGTCCA 61.571 55.000 5.05 0.00 0.00 4.02
1650 2005 0.395724 AATGAGGGCCGGATTTGTCC 60.396 55.000 5.05 0.00 0.00 4.02
1651 2006 1.025041 GAATGAGGGCCGGATTTGTC 58.975 55.000 5.05 0.00 0.00 3.18
1652 2007 0.748005 CGAATGAGGGCCGGATTTGT 60.748 55.000 5.05 0.00 0.00 2.83
1653 2008 1.447317 CCGAATGAGGGCCGGATTTG 61.447 60.000 5.05 4.39 45.58 2.32
1654 2009 1.152963 CCGAATGAGGGCCGGATTT 60.153 57.895 5.05 0.00 45.58 2.17
1655 2010 2.070039 TCCGAATGAGGGCCGGATT 61.070 57.895 5.05 0.00 46.17 3.01
1656 2011 2.445845 TCCGAATGAGGGCCGGAT 60.446 61.111 5.05 0.00 46.17 4.18
1658 2013 3.781307 TGTCCGAATGAGGGCCGG 61.781 66.667 0.00 0.00 44.22 6.13
1659 2014 2.511600 GTGTCCGAATGAGGGCCG 60.512 66.667 0.00 0.00 34.30 6.13
1660 2015 2.124695 GGTGTCCGAATGAGGGCC 60.125 66.667 0.00 0.00 34.30 5.80
1661 2016 1.153349 GAGGTGTCCGAATGAGGGC 60.153 63.158 0.00 0.00 36.18 5.19
1662 2017 0.613260 TTGAGGTGTCCGAATGAGGG 59.387 55.000 0.00 0.00 0.00 4.30
1663 2018 2.472695 TTTGAGGTGTCCGAATGAGG 57.527 50.000 0.00 0.00 0.00 3.86
1664 2019 5.419542 TCTAATTTGAGGTGTCCGAATGAG 58.580 41.667 0.00 0.00 0.00 2.90
1665 2020 5.414789 TCTAATTTGAGGTGTCCGAATGA 57.585 39.130 0.00 0.00 0.00 2.57
1666 2021 6.494893 TTTCTAATTTGAGGTGTCCGAATG 57.505 37.500 0.00 0.00 0.00 2.67
1667 2022 7.112779 AGATTTCTAATTTGAGGTGTCCGAAT 58.887 34.615 0.00 0.00 0.00 3.34
1668 2023 6.472887 AGATTTCTAATTTGAGGTGTCCGAA 58.527 36.000 0.00 0.00 0.00 4.30
1669 2024 6.049955 AGATTTCTAATTTGAGGTGTCCGA 57.950 37.500 0.00 0.00 0.00 4.55
1709 2064 9.625747 TGATTAGATTAGGTTTCATGTTGCATA 57.374 29.630 0.00 0.00 0.00 3.14
1733 2094 2.831894 TAGAACCGGGCGAGCTCTGA 62.832 60.000 12.85 0.00 0.00 3.27
1908 2274 1.254026 TCGATCTGACTTTCACGGGT 58.746 50.000 0.00 0.00 0.00 5.28
1911 2277 3.488678 CCATCATCGATCTGACTTTCACG 59.511 47.826 0.00 0.00 0.00 4.35
1915 2281 4.560311 CGGATCCATCATCGATCTGACTTT 60.560 45.833 13.41 0.00 43.16 2.66
1917 2283 2.491298 CGGATCCATCATCGATCTGACT 59.509 50.000 13.41 0.00 43.16 3.41
1954 2321 2.583319 CATCGCGCTGGATGTCGT 60.583 61.111 14.86 0.00 39.15 4.34
1966 2333 2.371923 GGTGCAAAAACCGCATCGC 61.372 57.895 0.00 0.00 42.32 4.58
1977 2344 0.256177 TATGCCCCGTATGGTGCAAA 59.744 50.000 15.44 0.00 41.62 3.68
1996 2377 0.616111 AGGCGGAGTCACATTCTCCT 60.616 55.000 9.74 0.00 46.49 3.69
2078 2460 2.126888 GAACATGGCACGGCGTTG 60.127 61.111 11.19 9.15 0.00 4.10
2079 2461 2.281484 AGAACATGGCACGGCGTT 60.281 55.556 11.19 0.00 0.00 4.84
2114 2502 2.088674 AACGAGCTTCAGGACGCACT 62.089 55.000 0.52 0.00 0.00 4.40
2132 2520 3.521765 AACCCCTCCATTGGCGCAA 62.522 57.895 10.83 0.00 0.00 4.85
2133 2521 3.978193 AACCCCTCCATTGGCGCA 61.978 61.111 10.83 0.00 0.00 6.09
2141 2530 3.948719 GGACGTGCAACCCCTCCA 61.949 66.667 0.63 0.00 0.00 3.86
2222 2611 2.281345 GGCGCATGGATCCAGAGG 60.281 66.667 21.33 13.05 0.00 3.69
2224 2613 0.106569 AAATGGCGCATGGATCCAGA 60.107 50.000 21.33 0.00 32.78 3.86
2303 2692 2.897350 GCTTTGCCGATCCCGAGG 60.897 66.667 0.00 0.00 38.22 4.63
2365 2754 0.179045 CCAGATCCATCAACCCCGAC 60.179 60.000 0.00 0.00 0.00 4.79
2412 2802 3.565961 TTGGCTGGCTTCGGCATGA 62.566 57.895 0.00 0.00 44.32 3.07
2429 2819 0.538746 ATTCACCTCCGGCGGTTTTT 60.539 50.000 27.32 6.03 34.29 1.94
2430 2820 0.538746 AATTCACCTCCGGCGGTTTT 60.539 50.000 27.32 5.37 34.29 2.43


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

AutoCloner maintained by Alex Coulton.