Multiple sequence alignment - TraesCS5B01G425500

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS5B01G425500 chr5B 100.000 2795 0 0 1 2795 601343581 601346375 0.000000e+00 5162.0
1 TraesCS5B01G425500 chr5B 81.134 811 92 31 659 1423 601337405 601338200 6.670000e-166 593.0
2 TraesCS5B01G425500 chr5B 88.737 293 32 1 1678 1970 601338224 601338515 9.520000e-95 357.0
3 TraesCS5B01G425500 chr5B 90.094 212 21 0 1480 1691 601345024 601345235 2.740000e-70 276.0
4 TraesCS5B01G425500 chr5B 90.094 212 21 0 1444 1655 601345060 601345271 2.740000e-70 276.0
5 TraesCS5B01G425500 chr5B 88.288 222 23 3 428 648 600500982 600501201 2.130000e-66 263.0
6 TraesCS5B01G425500 chr5B 90.052 191 19 0 1516 1706 601345024 601345214 5.980000e-62 248.0
7 TraesCS5B01G425500 chr5B 90.052 191 19 0 1444 1634 601345096 601345286 5.980000e-62 248.0
8 TraesCS5B01G425500 chr5B 78.426 343 67 3 1536 1878 601394417 601394752 1.690000e-52 217.0
9 TraesCS5B01G425500 chr5B 87.500 128 15 1 1589 1715 601345025 601345152 2.240000e-31 147.0
10 TraesCS5B01G425500 chr5B 87.500 128 15 1 1445 1572 601345169 601345295 2.240000e-31 147.0
11 TraesCS5B01G425500 chr5B 80.851 94 18 0 1940 2033 405726922 405726829 1.070000e-09 75.0
12 TraesCS5B01G425500 chr5B 91.489 47 4 0 1660 1706 601345024 601345070 6.460000e-07 65.8
13 TraesCS5B01G425500 chr5B 91.489 47 4 0 1444 1490 601345240 601345286 6.460000e-07 65.8
14 TraesCS5B01G425500 chr5A 88.582 797 67 14 2020 2795 609212713 609213506 0.000000e+00 946.0
15 TraesCS5B01G425500 chr5A 85.408 932 81 20 656 1572 609211354 609212245 0.000000e+00 917.0
16 TraesCS5B01G425500 chr5A 91.753 679 23 18 1 648 505500135 505500811 0.000000e+00 913.0
17 TraesCS5B01G425500 chr5A 91.667 432 32 1 1595 2022 609212125 609212556 1.850000e-166 595.0
18 TraesCS5B01G425500 chr5A 78.810 840 101 48 649 1423 609240564 609241391 6.950000e-136 494.0
19 TraesCS5B01G425500 chr5A 79.310 116 23 1 1920 2035 445288944 445288830 2.310000e-11 80.5
20 TraesCS5B01G425500 chr5D 86.127 865 68 21 655 1490 488355338 488356179 0.000000e+00 885.0
21 TraesCS5B01G425500 chr5D 89.593 221 20 3 1804 2022 488356324 488356543 7.620000e-71 278.0
22 TraesCS5B01G425500 chr5D 89.888 178 12 4 1659 1833 488356132 488356306 1.010000e-54 224.0
23 TraesCS5B01G425500 chr5D 90.816 98 8 1 2698 2795 488356577 488356673 2.260000e-26 130.0
24 TraesCS5B01G425500 chr1B 89.626 588 24 20 1 587 377075889 377075338 0.000000e+00 713.0
25 TraesCS5B01G425500 chr1B 96.530 317 10 1 1 316 192699314 192699630 8.870000e-145 523.0
26 TraesCS5B01G425500 chr4B 93.388 484 14 12 1 479 82860863 82860393 0.000000e+00 701.0
27 TraesCS5B01G425500 chr4B 84.158 606 43 19 1 584 651966605 651966031 3.170000e-149 538.0
28 TraesCS5B01G425500 chr7A 84.194 620 55 34 3 587 4197174 4196563 1.880000e-156 562.0
29 TraesCS5B01G425500 chr7A 87.330 221 27 1 428 648 586322513 586322732 4.620000e-63 252.0
30 TraesCS5B01G425500 chr7A 87.273 220 27 1 428 647 372465576 372465358 1.660000e-62 250.0
31 TraesCS5B01G425500 chr7A 87.273 220 27 1 428 647 626987902 626987684 1.660000e-62 250.0
32 TraesCS5B01G425500 chr6B 92.113 355 14 11 1 344 440532647 440532998 3.240000e-134 488.0
33 TraesCS5B01G425500 chr6B 90.678 118 4 3 365 481 440532970 440533081 1.730000e-32 150.0
34 TraesCS5B01G425500 chr1A 80.959 688 57 37 1 648 96549067 96548414 7.000000e-131 477.0
35 TraesCS5B01G425500 chr4A 95.067 223 10 1 2 224 457287251 457287030 1.590000e-92 350.0
36 TraesCS5B01G425500 chr2B 94.144 222 7 6 398 617 719158639 719158422 1.600000e-87 333.0
37 TraesCS5B01G425500 chr2A 87.838 222 24 3 428 648 535150658 535150877 9.930000e-65 257.0
38 TraesCS5B01G425500 chr2A 79.577 142 17 10 335 466 10158622 10158483 1.070000e-14 91.6
39 TraesCS5B01G425500 chr6D 83.929 56 9 0 2582 2637 463466161 463466106 1.000000e-03 54.7


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 TraesCS5B01G425500 chr5B 601343581 601346375 2794 False 737.288889 5162 90.918889 1 2795 9 chr5B.!!$F4 2794
1 TraesCS5B01G425500 chr5B 601337405 601338515 1110 False 475.000000 593 84.935500 659 1970 2 chr5B.!!$F3 1311
2 TraesCS5B01G425500 chr5A 505500135 505500811 676 False 913.000000 913 91.753000 1 648 1 chr5A.!!$F1 647
3 TraesCS5B01G425500 chr5A 609211354 609213506 2152 False 819.333333 946 88.552333 656 2795 3 chr5A.!!$F3 2139
4 TraesCS5B01G425500 chr5A 609240564 609241391 827 False 494.000000 494 78.810000 649 1423 1 chr5A.!!$F2 774
5 TraesCS5B01G425500 chr5D 488355338 488356673 1335 False 379.250000 885 89.106000 655 2795 4 chr5D.!!$F1 2140
6 TraesCS5B01G425500 chr1B 377075338 377075889 551 True 713.000000 713 89.626000 1 587 1 chr1B.!!$R1 586
7 TraesCS5B01G425500 chr4B 651966031 651966605 574 True 538.000000 538 84.158000 1 584 1 chr4B.!!$R2 583
8 TraesCS5B01G425500 chr7A 4196563 4197174 611 True 562.000000 562 84.194000 3 587 1 chr7A.!!$R1 584
9 TraesCS5B01G425500 chr1A 96548414 96549067 653 True 477.000000 477 80.959000 1 648 1 chr1A.!!$R1 647

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
989 1201 0.392336 GCTGGACACCATTTGCCAAA 59.608 50.0 0.0 0.0 32.89 3.28 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2264 2756 0.108186 GGATCGTGGTCATGTGCTGA 60.108 55.0 0.0 0.0 0.0 4.26 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
657 827 1.896465 GCCAGCTATACCGAGGAGAAT 59.104 52.381 0.00 0.00 0.00 2.40
681 851 3.577313 GAAAGCAGATCGGCGCCC 61.577 66.667 23.46 7.02 39.27 6.13
713 888 1.219522 GCTGGTACGTGCGTGTCTTT 61.220 55.000 7.55 0.00 0.00 2.52
853 1035 3.698289 ACCTACCGATTTGAGTCTCTGA 58.302 45.455 0.65 0.00 0.00 3.27
903 1112 4.537433 GAGCTTCCGCCGGAGCAT 62.537 66.667 23.11 12.26 39.83 3.79
904 1113 3.151958 GAGCTTCCGCCGGAGCATA 62.152 63.158 23.11 3.03 39.83 3.14
905 1114 2.967615 GCTTCCGCCGGAGCATAC 60.968 66.667 18.50 0.95 39.83 2.39
906 1115 2.499205 CTTCCGCCGGAGCATACA 59.501 61.111 5.05 0.00 39.83 2.29
909 1118 2.845752 TTCCGCCGGAGCATACACAC 62.846 60.000 5.05 0.00 39.83 3.82
924 1133 6.016360 AGCATACACACACACACACATAAATT 60.016 34.615 0.00 0.00 0.00 1.82
977 1186 2.180769 CGTCGATTCCGCTGGACA 59.819 61.111 0.00 0.00 35.37 4.02
989 1201 0.392336 GCTGGACACCATTTGCCAAA 59.608 50.000 0.00 0.00 32.89 3.28
990 1202 1.202627 GCTGGACACCATTTGCCAAAA 60.203 47.619 0.00 0.00 32.89 2.44
991 1203 2.758009 CTGGACACCATTTGCCAAAAG 58.242 47.619 0.00 0.00 32.89 2.27
995 1207 3.431486 GGACACCATTTGCCAAAAGACAA 60.431 43.478 0.00 0.00 0.00 3.18
1022 1234 3.778618 TGAACAGCTCGATGAAGATCAG 58.221 45.455 0.00 0.00 0.00 2.90
1066 1293 4.472691 GCGCTAGCAAATCACATCAATA 57.527 40.909 16.45 0.00 44.35 1.90
1190 1444 2.445145 TGGATGTGGGGAACAAGAAGAA 59.555 45.455 0.00 0.00 43.61 2.52
1191 1445 3.084786 GGATGTGGGGAACAAGAAGAAG 58.915 50.000 0.00 0.00 43.61 2.85
1192 1446 3.244911 GGATGTGGGGAACAAGAAGAAGA 60.245 47.826 0.00 0.00 43.61 2.87
1193 1447 3.208747 TGTGGGGAACAAGAAGAAGAC 57.791 47.619 0.00 0.00 35.24 3.01
1194 1448 2.143925 GTGGGGAACAAGAAGAAGACG 58.856 52.381 0.00 0.00 0.00 4.18
1204 1458 5.293560 ACAAGAAGAAGACGAAGAAGAAGG 58.706 41.667 0.00 0.00 0.00 3.46
1210 1464 5.919755 AGAAGACGAAGAAGAAGGTTTTCT 58.080 37.500 0.00 0.00 45.51 2.52
1287 1547 1.687494 CGTCTCTGGCTAAACGCTGC 61.687 60.000 0.00 0.00 39.13 5.25
1399 1659 0.868406 CACGTTTGAAGCAGAGGTCC 59.132 55.000 0.00 0.00 0.00 4.46
1407 1667 1.333636 AAGCAGAGGTCCCCGATGAG 61.334 60.000 0.00 0.00 0.00 2.90
1416 1679 1.075226 CCCCGATGAGGAGGAGGAA 60.075 63.158 0.00 0.00 45.00 3.36
1417 1680 1.403687 CCCCGATGAGGAGGAGGAAC 61.404 65.000 0.00 0.00 45.00 3.62
1441 1704 0.523072 CACTTCGGTGGCAATTCCTG 59.477 55.000 0.00 0.00 41.88 3.86
1442 1705 0.110486 ACTTCGGTGGCAATTCCTGT 59.890 50.000 0.00 0.00 35.26 4.00
1443 1706 0.523072 CTTCGGTGGCAATTCCTGTG 59.477 55.000 0.00 0.00 35.26 3.66
1444 1707 0.893270 TTCGGTGGCAATTCCTGTGG 60.893 55.000 0.00 0.00 35.26 4.17
1445 1708 2.973082 GGTGGCAATTCCTGTGGC 59.027 61.111 0.00 0.00 41.71 5.01
1446 1709 2.568090 GTGGCAATTCCTGTGGCG 59.432 61.111 0.00 0.00 44.15 5.69
1447 1710 1.971167 GTGGCAATTCCTGTGGCGA 60.971 57.895 0.00 0.00 44.15 5.54
1448 1711 1.971167 TGGCAATTCCTGTGGCGAC 60.971 57.895 0.00 0.00 44.15 5.19
1449 1712 1.971167 GGCAATTCCTGTGGCGACA 60.971 57.895 0.33 0.33 38.70 4.35
1450 1713 1.315257 GGCAATTCCTGTGGCGACAT 61.315 55.000 0.69 0.00 46.14 3.06
1451 1714 0.099436 GCAATTCCTGTGGCGACATC 59.901 55.000 0.69 0.00 46.14 3.06
1452 1715 1.742761 CAATTCCTGTGGCGACATCT 58.257 50.000 0.69 0.00 46.14 2.90
1453 1716 2.086869 CAATTCCTGTGGCGACATCTT 58.913 47.619 0.69 0.00 46.14 2.40
1454 1717 2.489329 CAATTCCTGTGGCGACATCTTT 59.511 45.455 0.69 0.00 46.14 2.52
1455 1718 2.270352 TTCCTGTGGCGACATCTTTT 57.730 45.000 0.69 0.00 46.14 2.27
1456 1719 1.808411 TCCTGTGGCGACATCTTTTC 58.192 50.000 0.69 0.00 46.14 2.29
1457 1720 1.071542 TCCTGTGGCGACATCTTTTCA 59.928 47.619 0.69 0.00 46.14 2.69
1458 1721 1.197721 CCTGTGGCGACATCTTTTCAC 59.802 52.381 0.69 0.00 46.14 3.18
1459 1722 0.865111 TGTGGCGACATCTTTTCACG 59.135 50.000 0.00 0.00 46.14 4.35
1460 1723 0.165944 GTGGCGACATCTTTTCACGG 59.834 55.000 0.00 0.00 46.14 4.94
1461 1724 0.953471 TGGCGACATCTTTTCACGGG 60.953 55.000 0.00 0.00 33.40 5.28
1462 1725 1.644786 GGCGACATCTTTTCACGGGG 61.645 60.000 0.00 0.00 0.00 5.73
1463 1726 0.672401 GCGACATCTTTTCACGGGGA 60.672 55.000 0.00 0.00 0.00 4.81
1464 1727 1.359848 CGACATCTTTTCACGGGGAG 58.640 55.000 0.00 0.00 0.00 4.30
1465 1728 1.067142 CGACATCTTTTCACGGGGAGA 60.067 52.381 0.00 0.00 0.00 3.71
1466 1729 2.611971 CGACATCTTTTCACGGGGAGAA 60.612 50.000 0.00 0.00 0.00 2.87
1467 1730 3.003480 GACATCTTTTCACGGGGAGAAG 58.997 50.000 4.23 4.23 38.69 2.85
1468 1731 2.290323 ACATCTTTTCACGGGGAGAAGG 60.290 50.000 10.29 0.00 38.08 3.46
1469 1732 1.724545 TCTTTTCACGGGGAGAAGGA 58.275 50.000 10.29 0.00 38.08 3.36
1470 1733 2.266279 TCTTTTCACGGGGAGAAGGAT 58.734 47.619 10.29 0.00 38.08 3.24
1471 1734 2.027192 TCTTTTCACGGGGAGAAGGATG 60.027 50.000 10.29 0.00 38.08 3.51
1472 1735 1.651737 TTTCACGGGGAGAAGGATGA 58.348 50.000 0.00 0.00 0.00 2.92
1473 1736 1.879575 TTCACGGGGAGAAGGATGAT 58.120 50.000 0.00 0.00 0.00 2.45
1474 1737 1.123077 TCACGGGGAGAAGGATGATG 58.877 55.000 0.00 0.00 0.00 3.07
1475 1738 0.533755 CACGGGGAGAAGGATGATGC 60.534 60.000 0.00 0.00 0.00 3.91
1476 1739 1.301244 CGGGGAGAAGGATGATGCG 60.301 63.158 0.00 0.00 0.00 4.73
1477 1740 1.748329 CGGGGAGAAGGATGATGCGA 61.748 60.000 0.00 0.00 0.00 5.10
1478 1741 0.250081 GGGGAGAAGGATGATGCGAC 60.250 60.000 0.00 0.00 0.00 5.19
1479 1742 0.598680 GGGAGAAGGATGATGCGACG 60.599 60.000 0.00 0.00 0.00 5.12
1480 1743 0.598680 GGAGAAGGATGATGCGACGG 60.599 60.000 0.00 0.00 0.00 4.79
1481 1744 1.218230 GAGAAGGATGATGCGACGGC 61.218 60.000 0.00 0.00 40.52 5.68
1492 1755 3.001576 GCGACGGCAACATCTTTTC 57.998 52.632 0.00 0.00 39.62 2.29
1493 1756 0.237235 GCGACGGCAACATCTTTTCA 59.763 50.000 0.00 0.00 39.62 2.69
1494 1757 1.950472 CGACGGCAACATCTTTTCAC 58.050 50.000 0.00 0.00 0.00 3.18
1495 1758 1.721489 CGACGGCAACATCTTTTCACG 60.721 52.381 0.00 0.00 0.00 4.35
1496 1759 0.591170 ACGGCAACATCTTTTCACGG 59.409 50.000 0.00 0.00 0.00 4.94
1497 1760 0.109781 CGGCAACATCTTTTCACGGG 60.110 55.000 0.00 0.00 0.00 5.28
1498 1761 0.388520 GGCAACATCTTTTCACGGGC 60.389 55.000 0.00 0.00 0.00 6.13
1499 1762 0.313672 GCAACATCTTTTCACGGGCA 59.686 50.000 0.00 0.00 0.00 5.36
1500 1763 1.067635 GCAACATCTTTTCACGGGCAT 60.068 47.619 0.00 0.00 0.00 4.40
1501 1764 2.163412 GCAACATCTTTTCACGGGCATA 59.837 45.455 0.00 0.00 0.00 3.14
1502 1765 3.366883 GCAACATCTTTTCACGGGCATAA 60.367 43.478 0.00 0.00 0.00 1.90
1503 1766 4.804108 CAACATCTTTTCACGGGCATAAA 58.196 39.130 0.00 0.00 0.00 1.40
1504 1767 4.701956 ACATCTTTTCACGGGCATAAAG 57.298 40.909 0.00 0.00 0.00 1.85
1505 1768 4.331968 ACATCTTTTCACGGGCATAAAGA 58.668 39.130 10.46 10.46 39.93 2.52
1506 1769 4.949856 ACATCTTTTCACGGGCATAAAGAT 59.050 37.500 13.20 13.20 44.10 2.40
1507 1770 4.963276 TCTTTTCACGGGCATAAAGATG 57.037 40.909 5.65 0.00 33.13 2.90
1508 1771 4.584874 TCTTTTCACGGGCATAAAGATGA 58.415 39.130 5.65 0.00 34.73 2.92
1509 1772 5.192927 TCTTTTCACGGGCATAAAGATGAT 58.807 37.500 5.65 0.00 34.73 2.45
1510 1773 4.898829 TTTCACGGGCATAAAGATGATG 57.101 40.909 0.00 0.00 34.73 3.07
1519 1782 2.689553 TAAAGATGATGCAGCGGTGA 57.310 45.000 20.69 3.85 0.00 4.02
1521 1784 0.036105 AAGATGATGCAGCGGTGACA 60.036 50.000 20.69 16.00 0.00 3.58
1548 1811 0.982852 ACGGGGAGAAGGATGATGCA 60.983 55.000 0.00 0.00 0.00 3.96
1549 1812 0.181114 CGGGGAGAAGGATGATGCAA 59.819 55.000 0.00 0.00 0.00 4.08
1551 1814 1.685148 GGGAGAAGGATGATGCAACC 58.315 55.000 0.00 0.00 0.00 3.77
1552 1815 1.303309 GGAGAAGGATGATGCAACCG 58.697 55.000 0.00 0.00 31.34 4.44
1553 1816 0.659957 GAGAAGGATGATGCAACCGC 59.340 55.000 0.00 0.00 39.24 5.68
1554 1817 1.091771 AGAAGGATGATGCAACCGCG 61.092 55.000 0.00 0.00 42.97 6.46
1555 1818 1.078497 AAGGATGATGCAACCGCGA 60.078 52.632 8.23 0.00 42.97 5.87
1556 1819 1.369091 AAGGATGATGCAACCGCGAC 61.369 55.000 8.23 0.00 42.97 5.19
1557 1820 2.106074 GGATGATGCAACCGCGACA 61.106 57.895 8.23 0.00 42.97 4.35
1558 1821 1.439353 GGATGATGCAACCGCGACAT 61.439 55.000 8.23 5.55 42.97 3.06
1559 1822 0.041839 GATGATGCAACCGCGACATC 60.042 55.000 8.23 15.27 41.97 3.06
1560 1823 0.462581 ATGATGCAACCGCGACATCT 60.463 50.000 22.56 11.85 42.97 2.90
1561 1824 0.673333 TGATGCAACCGCGACATCTT 60.673 50.000 22.56 5.22 42.97 2.40
1562 1825 0.447801 GATGCAACCGCGACATCTTT 59.552 50.000 8.23 0.00 42.97 2.52
1563 1826 0.881118 ATGCAACCGCGACATCTTTT 59.119 45.000 8.23 0.00 42.97 2.27
1564 1827 0.237235 TGCAACCGCGACATCTTTTC 59.763 50.000 8.23 0.00 42.97 2.29
1565 1828 0.237235 GCAACCGCGACATCTTTTCA 59.763 50.000 8.23 0.00 0.00 2.69
1566 1829 1.950472 CAACCGCGACATCTTTTCAC 58.050 50.000 8.23 0.00 0.00 3.18
1567 1830 1.531149 CAACCGCGACATCTTTTCACT 59.469 47.619 8.23 0.00 0.00 3.41
1568 1831 1.148310 ACCGCGACATCTTTTCACTG 58.852 50.000 8.23 0.00 0.00 3.66
1569 1832 0.443869 CCGCGACATCTTTTCACTGG 59.556 55.000 8.23 0.00 0.00 4.00
1570 1833 0.443869 CGCGACATCTTTTCACTGGG 59.556 55.000 0.00 0.00 0.00 4.45
1571 1834 1.808411 GCGACATCTTTTCACTGGGA 58.192 50.000 0.00 0.00 0.00 4.37
1572 1835 1.734465 GCGACATCTTTTCACTGGGAG 59.266 52.381 0.00 0.00 0.00 4.30
1573 1836 2.612972 GCGACATCTTTTCACTGGGAGA 60.613 50.000 0.00 0.00 0.00 3.71
1574 1837 3.664107 CGACATCTTTTCACTGGGAGAA 58.336 45.455 0.00 0.00 0.00 2.87
1575 1838 3.681897 CGACATCTTTTCACTGGGAGAAG 59.318 47.826 3.91 3.91 38.69 2.85
1576 1839 4.006319 GACATCTTTTCACTGGGAGAAGG 58.994 47.826 9.97 0.00 38.08 3.46
1577 1840 3.652869 ACATCTTTTCACTGGGAGAAGGA 59.347 43.478 9.97 0.83 38.08 3.36
1578 1841 4.290722 ACATCTTTTCACTGGGAGAAGGAT 59.709 41.667 9.97 2.91 38.08 3.24
1579 1842 4.292186 TCTTTTCACTGGGAGAAGGATG 57.708 45.455 9.97 0.00 38.08 3.51
1580 1843 3.909995 TCTTTTCACTGGGAGAAGGATGA 59.090 43.478 9.97 0.00 38.08 2.92
1581 1844 4.537688 TCTTTTCACTGGGAGAAGGATGAT 59.462 41.667 9.97 0.00 38.08 2.45
1582 1845 3.920231 TTCACTGGGAGAAGGATGATG 57.080 47.619 0.00 0.00 0.00 3.07
1583 1846 1.487976 TCACTGGGAGAAGGATGATGC 59.512 52.381 0.00 0.00 0.00 3.91
1584 1847 1.211212 CACTGGGAGAAGGATGATGCA 59.789 52.381 0.00 0.00 0.00 3.96
1585 1848 1.918262 ACTGGGAGAAGGATGATGCAA 59.082 47.619 0.00 0.00 0.00 4.08
1586 1849 2.295885 CTGGGAGAAGGATGATGCAAC 58.704 52.381 0.00 0.00 0.00 4.17
1587 1850 1.064463 TGGGAGAAGGATGATGCAACC 60.064 52.381 0.00 0.00 0.00 3.77
1602 1865 1.950472 CAACCGCGACATCTTTTCAC 58.050 50.000 8.23 0.00 0.00 3.18
1604 1867 1.289109 ACCGCGACATCTTTTCACGG 61.289 55.000 8.23 0.00 43.03 4.94
1623 1886 1.685148 GGGAGAAGGATGATGCAACC 58.315 55.000 0.00 0.00 0.00 3.77
1624 1887 1.303309 GGAGAAGGATGATGCAACCG 58.697 55.000 0.00 0.00 31.34 4.44
1625 1888 0.659957 GAGAAGGATGATGCAACCGC 59.340 55.000 0.00 0.00 39.24 5.68
1626 1889 1.091771 AGAAGGATGATGCAACCGCG 61.092 55.000 0.00 0.00 42.97 6.46
1627 1890 1.078497 AAGGATGATGCAACCGCGA 60.078 52.632 8.23 0.00 42.97 5.87
1628 1891 1.369091 AAGGATGATGCAACCGCGAC 61.369 55.000 8.23 0.00 42.97 5.19
1629 1892 2.106074 GGATGATGCAACCGCGACA 61.106 57.895 8.23 0.00 42.97 4.35
1630 1893 1.439353 GGATGATGCAACCGCGACAT 61.439 55.000 8.23 5.55 42.97 3.06
1631 1894 0.041839 GATGATGCAACCGCGACATC 60.042 55.000 8.23 15.27 41.97 3.06
1632 1895 0.462581 ATGATGCAACCGCGACATCT 60.463 50.000 22.56 11.85 42.97 2.90
1633 1896 0.673333 TGATGCAACCGCGACATCTT 60.673 50.000 22.56 5.22 42.97 2.40
1634 1897 0.447801 GATGCAACCGCGACATCTTT 59.552 50.000 8.23 0.00 42.97 2.52
1635 1898 0.881118 ATGCAACCGCGACATCTTTT 59.119 45.000 8.23 0.00 42.97 2.27
1636 1899 0.237235 TGCAACCGCGACATCTTTTC 59.763 50.000 8.23 0.00 42.97 2.29
1637 1900 0.237235 GCAACCGCGACATCTTTTCA 59.763 50.000 8.23 0.00 0.00 2.69
1638 1901 1.950472 CAACCGCGACATCTTTTCAC 58.050 50.000 8.23 0.00 0.00 3.18
1639 1902 0.511221 AACCGCGACATCTTTTCACG 59.489 50.000 8.23 0.00 0.00 4.35
1640 1903 1.289109 ACCGCGACATCTTTTCACGG 61.289 55.000 8.23 0.00 43.03 4.94
1641 1904 1.419922 CGCGACATCTTTTCACGGG 59.580 57.895 0.00 0.00 0.00 5.28
1642 1905 1.011968 CGCGACATCTTTTCACGGGA 61.012 55.000 0.00 0.00 38.73 5.14
1643 1906 1.153353 GCGACATCTTTTCACGGGAA 58.847 50.000 0.00 0.00 0.00 3.97
1644 1907 1.128692 GCGACATCTTTTCACGGGAAG 59.871 52.381 0.00 0.00 33.82 3.46
1645 1908 2.683968 CGACATCTTTTCACGGGAAGA 58.316 47.619 0.00 0.00 36.43 2.87
1646 1909 3.064207 CGACATCTTTTCACGGGAAGAA 58.936 45.455 0.00 0.00 35.69 2.52
1647 1910 3.123621 CGACATCTTTTCACGGGAAGAAG 59.876 47.826 0.00 7.97 35.69 2.85
1648 1911 3.412386 ACATCTTTTCACGGGAAGAAGG 58.588 45.455 16.87 5.91 35.69 3.46
1649 1912 3.072476 ACATCTTTTCACGGGAAGAAGGA 59.928 43.478 16.87 4.84 35.69 3.36
1650 1913 4.263506 ACATCTTTTCACGGGAAGAAGGAT 60.264 41.667 16.87 6.67 35.69 3.24
1651 1914 3.674997 TCTTTTCACGGGAAGAAGGATG 58.325 45.455 16.87 0.63 33.82 3.51
1652 1915 3.326588 TCTTTTCACGGGAAGAAGGATGA 59.673 43.478 16.87 2.65 33.82 2.92
1653 1916 4.019321 TCTTTTCACGGGAAGAAGGATGAT 60.019 41.667 16.87 0.00 33.82 2.45
1654 1917 2.988010 TCACGGGAAGAAGGATGATG 57.012 50.000 0.00 0.00 0.00 3.07
1655 1918 2.187958 TCACGGGAAGAAGGATGATGT 58.812 47.619 0.00 0.00 0.00 3.06
1656 1919 2.093500 TCACGGGAAGAAGGATGATGTG 60.093 50.000 0.00 0.00 0.00 3.21
1657 1920 2.093500 CACGGGAAGAAGGATGATGTGA 60.093 50.000 0.00 0.00 0.00 3.58
1722 1985 5.615289 ACATCTTCTCCTTGGATTATTCCG 58.385 41.667 0.00 0.00 45.89 4.30
1752 2015 1.024579 GCCGAAGAAGATTTCGCCCA 61.025 55.000 2.84 0.00 46.36 5.36
1845 2159 8.079809 TGTTTTAGTTTTAGCTGTTGGATTAGC 58.920 33.333 0.00 0.00 40.18 3.09
1910 2225 0.390472 GGCCTAGACTGTGCAGTGAC 60.390 60.000 9.80 0.00 42.66 3.67
1911 2226 0.318441 GCCTAGACTGTGCAGTGACA 59.682 55.000 9.80 0.00 42.66 3.58
1934 2249 6.536582 ACATGTACACTGATCTTAACTGATGC 59.463 38.462 0.00 0.00 0.00 3.91
1986 2301 2.742053 CGAGGGTTGGTTCTACACATTG 59.258 50.000 0.00 0.00 0.00 2.82
2015 2330 3.000727 GGTCATTGTACCAACTCTTCCG 58.999 50.000 0.00 0.00 39.50 4.30
2069 2543 2.553602 TCCTTGACATGCACATTGTGAC 59.446 45.455 20.77 11.80 35.23 3.67
2074 2548 0.244450 CATGCACATTGTGACCCCAC 59.756 55.000 20.77 2.15 43.46 4.61
2087 2578 2.081462 GACCCCACAAATTGTAGGTCG 58.919 52.381 23.17 8.07 40.70 4.79
2100 2591 0.390124 TAGGTCGGTGGTGTGTTCAC 59.610 55.000 0.00 0.00 43.19 3.18
2120 2611 5.076182 TCACCCTAATGTTCTTCATTGCAA 58.924 37.500 0.00 0.00 45.14 4.08
2126 2617 3.988379 TGTTCTTCATTGCAACACTCC 57.012 42.857 0.00 0.00 0.00 3.85
2138 2629 0.878961 AACACTCCGCCGACAAGTTC 60.879 55.000 0.00 0.00 0.00 3.01
2157 2648 5.999044 AGTTCCTCATAGACAATCATGCTT 58.001 37.500 0.00 0.00 0.00 3.91
2159 2650 5.619132 TCCTCATAGACAATCATGCTTCA 57.381 39.130 0.00 0.00 0.00 3.02
2160 2651 5.608449 TCCTCATAGACAATCATGCTTCAG 58.392 41.667 0.00 0.00 0.00 3.02
2167 2658 4.694509 AGACAATCATGCTTCAGACAACTC 59.305 41.667 0.00 0.00 0.00 3.01
2184 2675 0.108138 CTCCTACAAGGGCAAGGTCG 60.108 60.000 0.00 0.00 35.59 4.79
2188 2679 1.412453 TACAAGGGCAAGGTCGTGGT 61.412 55.000 0.00 0.00 0.00 4.16
2198 2689 1.218316 GGTCGTGGTAGAAGGCAGG 59.782 63.158 0.00 0.00 0.00 4.85
2246 2737 4.819105 ACGAATGTTGGATCTACTTCCA 57.181 40.909 0.00 0.00 44.08 3.53
2263 2755 2.199208 TCCAATCTCTGATGCCTTCCA 58.801 47.619 0.00 0.00 0.00 3.53
2264 2756 2.781757 TCCAATCTCTGATGCCTTCCAT 59.218 45.455 0.00 0.00 36.70 3.41
2278 2770 1.741706 CTTCCATCAGCACATGACCAC 59.258 52.381 0.00 0.00 41.91 4.16
2322 2814 5.657474 TCAAGACGAACAACACTTTCTAGT 58.343 37.500 0.00 0.00 34.00 2.57
2343 2835 0.916086 TTGAGGTGGTGGTGAAGTGT 59.084 50.000 0.00 0.00 0.00 3.55
2395 2888 9.817809 GATTGAGGATGTGTAATGTTTACTCTA 57.182 33.333 0.00 0.00 0.00 2.43
2399 2892 8.234136 AGGATGTGTAATGTTTACTCTATCGA 57.766 34.615 0.00 0.00 0.00 3.59
2423 2916 6.791867 TCATGTACAACTCTGCCTATAACT 57.208 37.500 0.00 0.00 0.00 2.24
2453 2946 9.754382 TTTATCACTATTATGTCGGTCCTAAAC 57.246 33.333 0.00 0.00 0.00 2.01
2458 2951 7.328737 CACTATTATGTCGGTCCTAAACTATGC 59.671 40.741 0.00 0.00 0.00 3.14
2460 2953 4.755266 ATGTCGGTCCTAAACTATGCTT 57.245 40.909 0.00 0.00 0.00 3.91
2480 2974 6.794374 TGCTTATTAATGTGTATGCTTGTGG 58.206 36.000 0.00 0.00 0.00 4.17
2488 2982 4.252878 TGTGTATGCTTGTGGTATGACTG 58.747 43.478 0.00 0.00 0.00 3.51
2502 2996 8.983789 TGTGGTATGACTGTGGTTTAATCTATA 58.016 33.333 0.00 0.00 0.00 1.31
2536 3030 6.116126 AGTGCTTTAATCTATGTTCCTCACC 58.884 40.000 0.00 0.00 0.00 4.02
2539 3033 5.234543 GCTTTAATCTATGTTCCTCACCGTC 59.765 44.000 0.00 0.00 0.00 4.79
2566 3061 4.513692 GTGTTGTTGTTGTGCCTATGACTA 59.486 41.667 0.00 0.00 0.00 2.59
2573 3068 4.020662 TGTTGTGCCTATGACTATGTGTGA 60.021 41.667 0.00 0.00 0.00 3.58
2574 3069 5.118990 GTTGTGCCTATGACTATGTGTGAT 58.881 41.667 0.00 0.00 0.00 3.06
2575 3070 4.696455 TGTGCCTATGACTATGTGTGATG 58.304 43.478 0.00 0.00 0.00 3.07
2576 3071 4.060900 GTGCCTATGACTATGTGTGATGG 58.939 47.826 0.00 0.00 0.00 3.51
2577 3072 3.711190 TGCCTATGACTATGTGTGATGGT 59.289 43.478 0.00 0.00 0.00 3.55
2579 3074 5.365314 TGCCTATGACTATGTGTGATGGTAA 59.635 40.000 0.00 0.00 0.00 2.85
2580 3075 6.043127 TGCCTATGACTATGTGTGATGGTAAT 59.957 38.462 0.00 0.00 0.00 1.89
2598 3093 5.506708 GGTAATTAACCTCACCACTCCAAT 58.493 41.667 0.00 0.00 45.75 3.16
2610 3105 3.197116 ACCACTCCAATAAGAGGTTACCG 59.803 47.826 0.00 0.00 36.96 4.02
2639 3134 5.347342 CATGTCTTGCTTGTAACCAAACAA 58.653 37.500 0.00 0.00 35.01 2.83
2688 3183 5.656480 TGATTGCAATCAAACATCATCCTG 58.344 37.500 34.23 0.00 42.11 3.86
2715 3210 2.777114 TCTGCTATAATGCAACCTGGGA 59.223 45.455 0.00 0.00 42.83 4.37
2728 3223 1.278537 CCTGGGATTTTGTGGGCAAT 58.721 50.000 0.00 0.00 34.18 3.56
2730 3225 0.894141 TGGGATTTTGTGGGCAATCG 59.106 50.000 0.00 0.00 34.18 3.34
2774 3269 6.775594 TTAGAGTCTGCATTAGCTTAGACA 57.224 37.500 1.86 0.00 42.91 3.41
2777 3272 4.026744 AGTCTGCATTAGCTTAGACAGGA 58.973 43.478 0.00 0.00 42.91 3.86
2781 3276 4.953667 TGCATTAGCTTAGACAGGATCAG 58.046 43.478 0.00 0.00 42.74 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
657 827 1.626356 CCGATCTGCTTTCTCCCCCA 61.626 60.000 0.00 0.00 0.00 4.96
709 884 7.411486 ACAGAGGAATCGAAGAGATAAAAGA 57.589 36.000 0.00 0.00 43.63 2.52
713 888 9.221933 GTATCTACAGAGGAATCGAAGAGATAA 57.778 37.037 0.00 0.00 43.63 1.75
853 1035 0.179000 GGATCTGCACAGGAATCGGT 59.821 55.000 0.00 0.00 0.00 4.69
901 1110 7.114670 CCAAATTTATGTGTGTGTGTGTGTATG 59.885 37.037 0.00 0.00 0.00 2.39
902 1111 7.144661 CCAAATTTATGTGTGTGTGTGTGTAT 58.855 34.615 0.00 0.00 0.00 2.29
903 1112 6.460261 CCCAAATTTATGTGTGTGTGTGTGTA 60.460 38.462 0.00 0.00 0.00 2.90
904 1113 5.347342 CCAAATTTATGTGTGTGTGTGTGT 58.653 37.500 0.00 0.00 0.00 3.72
905 1114 4.744137 CCCAAATTTATGTGTGTGTGTGTG 59.256 41.667 0.00 0.00 0.00 3.82
906 1115 4.404073 ACCCAAATTTATGTGTGTGTGTGT 59.596 37.500 0.00 0.00 0.00 3.72
909 1118 5.221880 CAGACCCAAATTTATGTGTGTGTG 58.778 41.667 7.75 0.00 0.00 3.82
924 1133 1.306141 AGGCGATCTCCAGACCCAA 60.306 57.895 4.19 0.00 0.00 4.12
977 1186 2.771372 AGGTTGTCTTTTGGCAAATGGT 59.229 40.909 21.33 2.46 46.41 3.55
1022 1234 4.024556 CCTCTGTTTCCATATTGACATCGC 60.025 45.833 0.00 0.00 0.00 4.58
1080 1319 2.471255 GGTGGCCTTCATCGAACTG 58.529 57.895 3.32 0.00 0.00 3.16
1190 1444 4.811557 CACAGAAAACCTTCTTCTTCGTCT 59.188 41.667 0.00 0.00 40.05 4.18
1191 1445 4.571176 ACACAGAAAACCTTCTTCTTCGTC 59.429 41.667 0.00 0.00 40.05 4.20
1192 1446 4.332819 CACACAGAAAACCTTCTTCTTCGT 59.667 41.667 0.00 0.00 40.05 3.85
1193 1447 4.786609 GCACACAGAAAACCTTCTTCTTCG 60.787 45.833 0.00 0.00 40.05 3.79
1194 1448 4.498177 GGCACACAGAAAACCTTCTTCTTC 60.498 45.833 0.00 0.00 40.05 2.87
1204 1458 1.008538 CCTGCGGCACACAGAAAAC 60.009 57.895 0.00 0.00 41.72 2.43
1210 1464 4.007644 CTCCTCCTGCGGCACACA 62.008 66.667 0.00 0.00 0.00 3.72
1261 1521 1.192146 TTAGCCAGAGACGCCCAAGT 61.192 55.000 0.00 0.00 0.00 3.16
1287 1547 3.744719 TCGCCGACGAGTGAAGGG 61.745 66.667 0.00 0.00 45.12 3.95
1399 1659 0.687757 TGTTCCTCCTCCTCATCGGG 60.688 60.000 0.00 0.00 0.00 5.14
1407 1667 2.610727 CGAAGTGTCTTGTTCCTCCTCC 60.611 54.545 0.00 0.00 0.00 4.30
1416 1679 0.107410 TTGCCACCGAAGTGTCTTGT 60.107 50.000 0.00 0.00 42.88 3.16
1417 1680 1.238439 ATTGCCACCGAAGTGTCTTG 58.762 50.000 0.00 0.00 42.88 3.02
1434 1697 2.496899 AAGATGTCGCCACAGGAATT 57.503 45.000 0.00 0.00 35.41 2.17
1441 1704 0.165944 CCGTGAAAAGATGTCGCCAC 59.834 55.000 0.00 0.00 0.00 5.01
1442 1705 0.953471 CCCGTGAAAAGATGTCGCCA 60.953 55.000 0.00 0.00 0.00 5.69
1443 1706 1.644786 CCCCGTGAAAAGATGTCGCC 61.645 60.000 0.00 0.00 0.00 5.54
1444 1707 0.672401 TCCCCGTGAAAAGATGTCGC 60.672 55.000 0.00 0.00 0.00 5.19
1445 1708 1.067142 TCTCCCCGTGAAAAGATGTCG 60.067 52.381 0.00 0.00 0.00 4.35
1446 1709 2.762535 TCTCCCCGTGAAAAGATGTC 57.237 50.000 0.00 0.00 0.00 3.06
1447 1710 2.290323 CCTTCTCCCCGTGAAAAGATGT 60.290 50.000 0.00 0.00 0.00 3.06
1448 1711 2.027192 TCCTTCTCCCCGTGAAAAGATG 60.027 50.000 0.00 0.00 0.00 2.90
1449 1712 2.266279 TCCTTCTCCCCGTGAAAAGAT 58.734 47.619 0.00 0.00 0.00 2.40
1450 1713 1.724545 TCCTTCTCCCCGTGAAAAGA 58.275 50.000 0.00 0.00 0.00 2.52
1451 1714 2.027192 TCATCCTTCTCCCCGTGAAAAG 60.027 50.000 0.00 0.00 0.00 2.27
1452 1715 1.982226 TCATCCTTCTCCCCGTGAAAA 59.018 47.619 0.00 0.00 0.00 2.29
1453 1716 1.651737 TCATCCTTCTCCCCGTGAAA 58.348 50.000 0.00 0.00 0.00 2.69
1454 1717 1.486310 CATCATCCTTCTCCCCGTGAA 59.514 52.381 0.00 0.00 0.00 3.18
1455 1718 1.123077 CATCATCCTTCTCCCCGTGA 58.877 55.000 0.00 0.00 0.00 4.35
1456 1719 0.533755 GCATCATCCTTCTCCCCGTG 60.534 60.000 0.00 0.00 0.00 4.94
1457 1720 1.832912 GCATCATCCTTCTCCCCGT 59.167 57.895 0.00 0.00 0.00 5.28
1458 1721 1.301244 CGCATCATCCTTCTCCCCG 60.301 63.158 0.00 0.00 0.00 5.73
1459 1722 0.250081 GTCGCATCATCCTTCTCCCC 60.250 60.000 0.00 0.00 0.00 4.81
1460 1723 0.598680 CGTCGCATCATCCTTCTCCC 60.599 60.000 0.00 0.00 0.00 4.30
1461 1724 0.598680 CCGTCGCATCATCCTTCTCC 60.599 60.000 0.00 0.00 0.00 3.71
1462 1725 1.218230 GCCGTCGCATCATCCTTCTC 61.218 60.000 0.00 0.00 34.03 2.87
1463 1726 1.227380 GCCGTCGCATCATCCTTCT 60.227 57.895 0.00 0.00 34.03 2.85
1464 1727 1.089481 TTGCCGTCGCATCATCCTTC 61.089 55.000 0.00 0.00 46.67 3.46
1465 1728 1.078497 TTGCCGTCGCATCATCCTT 60.078 52.632 0.00 0.00 46.67 3.36
1466 1729 1.815421 GTTGCCGTCGCATCATCCT 60.815 57.895 0.00 0.00 46.67 3.24
1467 1730 2.106074 TGTTGCCGTCGCATCATCC 61.106 57.895 0.00 0.00 46.67 3.51
1468 1731 3.485110 TGTTGCCGTCGCATCATC 58.515 55.556 0.00 0.00 46.67 2.92
1469 1732 4.223800 ATGTTGCCGTCGCATCAT 57.776 50.000 4.87 4.87 46.67 2.45
1470 1733 0.673333 AAGATGTTGCCGTCGCATCA 60.673 50.000 11.50 7.70 46.67 3.07
1471 1734 0.447801 AAAGATGTTGCCGTCGCATC 59.552 50.000 3.25 3.25 46.67 3.91
1472 1735 0.881118 AAAAGATGTTGCCGTCGCAT 59.119 45.000 0.00 0.00 46.67 4.73
1473 1736 0.237235 GAAAAGATGTTGCCGTCGCA 59.763 50.000 0.00 0.00 45.49 5.10
1474 1737 0.237235 TGAAAAGATGTTGCCGTCGC 59.763 50.000 0.00 0.00 0.00 5.19
1475 1738 1.721489 CGTGAAAAGATGTTGCCGTCG 60.721 52.381 0.00 0.00 0.00 5.12
1476 1739 1.399727 CCGTGAAAAGATGTTGCCGTC 60.400 52.381 0.00 0.00 0.00 4.79
1477 1740 0.591170 CCGTGAAAAGATGTTGCCGT 59.409 50.000 0.00 0.00 0.00 5.68
1478 1741 0.109781 CCCGTGAAAAGATGTTGCCG 60.110 55.000 0.00 0.00 0.00 5.69
1479 1742 0.388520 GCCCGTGAAAAGATGTTGCC 60.389 55.000 0.00 0.00 0.00 4.52
1480 1743 0.313672 TGCCCGTGAAAAGATGTTGC 59.686 50.000 0.00 0.00 0.00 4.17
1481 1744 4.433186 TTATGCCCGTGAAAAGATGTTG 57.567 40.909 0.00 0.00 0.00 3.33
1482 1745 4.764823 TCTTTATGCCCGTGAAAAGATGTT 59.235 37.500 0.00 0.00 34.05 2.71
1483 1746 4.331968 TCTTTATGCCCGTGAAAAGATGT 58.668 39.130 0.00 0.00 34.05 3.06
1484 1747 4.963276 TCTTTATGCCCGTGAAAAGATG 57.037 40.909 0.00 0.00 34.05 2.90
1485 1748 5.192927 TCATCTTTATGCCCGTGAAAAGAT 58.807 37.500 3.88 3.88 45.13 2.40
1486 1749 4.584874 TCATCTTTATGCCCGTGAAAAGA 58.415 39.130 0.00 0.00 40.96 2.52
1487 1750 4.963276 TCATCTTTATGCCCGTGAAAAG 57.037 40.909 0.00 0.00 32.76 2.27
1488 1751 4.439974 GCATCATCTTTATGCCCGTGAAAA 60.440 41.667 0.00 0.00 43.17 2.29
1489 1752 3.066621 GCATCATCTTTATGCCCGTGAAA 59.933 43.478 0.00 0.00 43.17 2.69
1490 1753 2.618241 GCATCATCTTTATGCCCGTGAA 59.382 45.455 0.00 0.00 43.17 3.18
1491 1754 2.221169 GCATCATCTTTATGCCCGTGA 58.779 47.619 0.00 0.00 43.17 4.35
1492 1755 2.693797 GCATCATCTTTATGCCCGTG 57.306 50.000 0.00 0.00 43.17 4.94
1498 1761 2.874086 TCACCGCTGCATCATCTTTATG 59.126 45.455 0.00 0.00 0.00 1.90
1499 1762 2.874701 GTCACCGCTGCATCATCTTTAT 59.125 45.455 0.00 0.00 0.00 1.40
1500 1763 2.279741 GTCACCGCTGCATCATCTTTA 58.720 47.619 0.00 0.00 0.00 1.85
1501 1764 1.089920 GTCACCGCTGCATCATCTTT 58.910 50.000 0.00 0.00 0.00 2.52
1502 1765 0.036105 TGTCACCGCTGCATCATCTT 60.036 50.000 0.00 0.00 0.00 2.40
1503 1766 0.179702 ATGTCACCGCTGCATCATCT 59.820 50.000 0.00 0.00 0.00 2.90
1504 1767 0.585357 GATGTCACCGCTGCATCATC 59.415 55.000 0.00 2.60 38.92 2.92
1505 1768 0.179702 AGATGTCACCGCTGCATCAT 59.820 50.000 13.77 0.00 40.86 2.45
1506 1769 0.036105 AAGATGTCACCGCTGCATCA 60.036 50.000 13.77 0.00 40.86 3.07
1507 1770 1.089920 AAAGATGTCACCGCTGCATC 58.910 50.000 0.00 6.90 39.26 3.91
1508 1771 1.470098 GAAAAGATGTCACCGCTGCAT 59.530 47.619 0.00 0.00 0.00 3.96
1509 1772 0.874390 GAAAAGATGTCACCGCTGCA 59.126 50.000 0.00 0.00 0.00 4.41
1510 1773 0.874390 TGAAAAGATGTCACCGCTGC 59.126 50.000 0.00 0.00 0.00 5.25
1519 1782 2.290323 CCTTCTCCCCGTGAAAAGATGT 60.290 50.000 0.00 0.00 0.00 3.06
1521 1784 2.266279 TCCTTCTCCCCGTGAAAAGAT 58.734 47.619 0.00 0.00 0.00 2.40
1548 1811 1.531149 CAGTGAAAAGATGTCGCGGTT 59.469 47.619 6.13 0.00 0.00 4.44
1549 1812 1.148310 CAGTGAAAAGATGTCGCGGT 58.852 50.000 6.13 0.00 0.00 5.68
1551 1814 0.443869 CCCAGTGAAAAGATGTCGCG 59.556 55.000 0.00 0.00 0.00 5.87
1552 1815 1.734465 CTCCCAGTGAAAAGATGTCGC 59.266 52.381 0.00 0.00 0.00 5.19
1553 1816 3.319137 TCTCCCAGTGAAAAGATGTCG 57.681 47.619 0.00 0.00 0.00 4.35
1554 1817 4.006319 CCTTCTCCCAGTGAAAAGATGTC 58.994 47.826 0.00 0.00 0.00 3.06
1555 1818 3.652869 TCCTTCTCCCAGTGAAAAGATGT 59.347 43.478 0.00 0.00 0.00 3.06
1556 1819 4.292186 TCCTTCTCCCAGTGAAAAGATG 57.708 45.455 0.00 0.00 0.00 2.90
1557 1820 4.537688 TCATCCTTCTCCCAGTGAAAAGAT 59.462 41.667 0.00 0.00 0.00 2.40
1558 1821 3.909995 TCATCCTTCTCCCAGTGAAAAGA 59.090 43.478 0.00 0.00 0.00 2.52
1559 1822 4.292186 TCATCCTTCTCCCAGTGAAAAG 57.708 45.455 0.00 0.00 0.00 2.27
1560 1823 4.592942 CATCATCCTTCTCCCAGTGAAAA 58.407 43.478 0.00 0.00 0.00 2.29
1561 1824 3.623203 GCATCATCCTTCTCCCAGTGAAA 60.623 47.826 0.00 0.00 0.00 2.69
1562 1825 2.092753 GCATCATCCTTCTCCCAGTGAA 60.093 50.000 0.00 0.00 0.00 3.18
1563 1826 1.487976 GCATCATCCTTCTCCCAGTGA 59.512 52.381 0.00 0.00 0.00 3.41
1564 1827 1.211212 TGCATCATCCTTCTCCCAGTG 59.789 52.381 0.00 0.00 0.00 3.66
1565 1828 1.588239 TGCATCATCCTTCTCCCAGT 58.412 50.000 0.00 0.00 0.00 4.00
1566 1829 2.295885 GTTGCATCATCCTTCTCCCAG 58.704 52.381 0.00 0.00 0.00 4.45
1567 1830 1.064463 GGTTGCATCATCCTTCTCCCA 60.064 52.381 0.00 0.00 0.00 4.37
1568 1831 1.685148 GGTTGCATCATCCTTCTCCC 58.315 55.000 0.00 0.00 0.00 4.30
1569 1832 1.303309 CGGTTGCATCATCCTTCTCC 58.697 55.000 0.00 0.00 0.00 3.71
1570 1833 0.659957 GCGGTTGCATCATCCTTCTC 59.340 55.000 0.00 0.00 42.15 2.87
1571 1834 1.091771 CGCGGTTGCATCATCCTTCT 61.092 55.000 0.00 0.00 42.97 2.85
1572 1835 1.089481 TCGCGGTTGCATCATCCTTC 61.089 55.000 6.13 0.00 42.97 3.46
1573 1836 1.078497 TCGCGGTTGCATCATCCTT 60.078 52.632 6.13 0.00 42.97 3.36
1574 1837 1.815421 GTCGCGGTTGCATCATCCT 60.815 57.895 6.13 0.00 42.97 3.24
1575 1838 1.439353 ATGTCGCGGTTGCATCATCC 61.439 55.000 6.13 0.00 42.97 3.51
1576 1839 0.041839 GATGTCGCGGTTGCATCATC 60.042 55.000 20.26 13.28 42.97 2.92
1577 1840 0.462581 AGATGTCGCGGTTGCATCAT 60.463 50.000 24.02 12.18 42.97 2.45
1578 1841 0.673333 AAGATGTCGCGGTTGCATCA 60.673 50.000 24.02 9.02 42.97 3.07
1579 1842 0.447801 AAAGATGTCGCGGTTGCATC 59.552 50.000 6.13 14.82 42.97 3.91
1580 1843 0.881118 AAAAGATGTCGCGGTTGCAT 59.119 45.000 6.13 6.17 42.97 3.96
1581 1844 0.237235 GAAAAGATGTCGCGGTTGCA 59.763 50.000 6.13 0.69 42.97 4.08
1582 1845 0.237235 TGAAAAGATGTCGCGGTTGC 59.763 50.000 6.13 0.00 37.91 4.17
1583 1846 1.721489 CGTGAAAAGATGTCGCGGTTG 60.721 52.381 6.13 0.00 43.48 3.77
1584 1847 0.511221 CGTGAAAAGATGTCGCGGTT 59.489 50.000 6.13 0.00 43.48 4.44
1585 1848 2.150424 CGTGAAAAGATGTCGCGGT 58.850 52.632 6.13 0.00 43.48 5.68
1587 1850 1.419922 CCCGTGAAAAGATGTCGCG 59.580 57.895 0.00 0.00 46.03 5.87
1602 1865 0.181114 TTGCATCATCCTTCTCCCCG 59.819 55.000 0.00 0.00 0.00 5.73
1604 1867 1.685148 GGTTGCATCATCCTTCTCCC 58.315 55.000 0.00 0.00 0.00 4.30
1623 1886 1.011968 TCCCGTGAAAAGATGTCGCG 61.012 55.000 0.00 0.00 46.03 5.87
1624 1887 1.128692 CTTCCCGTGAAAAGATGTCGC 59.871 52.381 0.00 0.00 0.00 5.19
1625 1888 2.683968 TCTTCCCGTGAAAAGATGTCG 58.316 47.619 0.00 0.00 0.00 4.35
1626 1889 3.437049 CCTTCTTCCCGTGAAAAGATGTC 59.563 47.826 4.88 0.00 31.89 3.06
1627 1890 3.072476 TCCTTCTTCCCGTGAAAAGATGT 59.928 43.478 4.88 0.00 31.89 3.06
1628 1891 3.674997 TCCTTCTTCCCGTGAAAAGATG 58.325 45.455 4.88 0.00 31.89 2.90
1629 1892 4.019321 TCATCCTTCTTCCCGTGAAAAGAT 60.019 41.667 4.88 0.00 31.89 2.40
1630 1893 3.326588 TCATCCTTCTTCCCGTGAAAAGA 59.673 43.478 4.88 0.00 0.00 2.52
1631 1894 3.674997 TCATCCTTCTTCCCGTGAAAAG 58.325 45.455 0.00 0.00 0.00 2.27
1632 1895 3.780804 TCATCCTTCTTCCCGTGAAAA 57.219 42.857 0.00 0.00 0.00 2.29
1633 1896 3.009033 ACATCATCCTTCTTCCCGTGAAA 59.991 43.478 0.00 0.00 0.00 2.69
1634 1897 2.571653 ACATCATCCTTCTTCCCGTGAA 59.428 45.455 0.00 0.00 0.00 3.18
1635 1898 2.093500 CACATCATCCTTCTTCCCGTGA 60.093 50.000 0.00 0.00 0.00 4.35
1636 1899 2.093500 TCACATCATCCTTCTTCCCGTG 60.093 50.000 0.00 0.00 0.00 4.94
1637 1900 2.093447 GTCACATCATCCTTCTTCCCGT 60.093 50.000 0.00 0.00 0.00 5.28
1638 1901 2.555199 GTCACATCATCCTTCTTCCCG 58.445 52.381 0.00 0.00 0.00 5.14
1639 1902 2.555199 CGTCACATCATCCTTCTTCCC 58.445 52.381 0.00 0.00 0.00 3.97
1640 1903 2.555199 CCGTCACATCATCCTTCTTCC 58.445 52.381 0.00 0.00 0.00 3.46
1641 1904 1.936547 GCCGTCACATCATCCTTCTTC 59.063 52.381 0.00 0.00 0.00 2.87
1642 1905 1.740380 CGCCGTCACATCATCCTTCTT 60.740 52.381 0.00 0.00 0.00 2.52
1643 1906 0.179100 CGCCGTCACATCATCCTTCT 60.179 55.000 0.00 0.00 0.00 2.85
1644 1907 0.179111 TCGCCGTCACATCATCCTTC 60.179 55.000 0.00 0.00 0.00 3.46
1645 1908 0.460284 GTCGCCGTCACATCATCCTT 60.460 55.000 0.00 0.00 0.00 3.36
1646 1909 1.141881 GTCGCCGTCACATCATCCT 59.858 57.895 0.00 0.00 0.00 3.24
1647 1910 0.530650 ATGTCGCCGTCACATCATCC 60.531 55.000 0.00 0.00 27.49 3.51
1648 1911 0.855349 GATGTCGCCGTCACATCATC 59.145 55.000 12.45 3.01 46.48 2.92
1649 1912 2.977700 GATGTCGCCGTCACATCAT 58.022 52.632 12.45 0.00 46.48 2.45
1650 1913 4.494811 GATGTCGCCGTCACATCA 57.505 55.556 12.45 0.00 46.48 3.07
1652 1915 1.732259 GAAAAGATGTCGCCGTCACAT 59.268 47.619 0.00 0.00 37.18 3.21
1653 1916 1.144969 GAAAAGATGTCGCCGTCACA 58.855 50.000 0.00 0.00 0.00 3.58
1654 1917 1.136336 GTGAAAAGATGTCGCCGTCAC 60.136 52.381 0.00 0.00 0.00 3.67
1655 1918 1.144969 GTGAAAAGATGTCGCCGTCA 58.855 50.000 0.00 0.00 0.00 4.35
1656 1919 0.093026 CGTGAAAAGATGTCGCCGTC 59.907 55.000 0.00 0.00 0.00 4.79
1657 1920 1.289109 CCGTGAAAAGATGTCGCCGT 61.289 55.000 0.00 0.00 0.00 5.68
1722 1985 4.840005 CTTCGGCCTCTTCCCCGC 62.840 72.222 0.00 0.00 44.01 6.13
1752 2015 0.106708 TTGCTTGCTTGACGACTCCT 59.893 50.000 0.00 0.00 0.00 3.69
1791 2054 7.991460 ACCAAAAATGATAACTACTAGGCCTAC 59.009 37.037 8.91 0.00 0.00 3.18
1845 2159 2.930040 CACTACCATAAACTGCGTCCAG 59.070 50.000 0.00 0.00 44.80 3.86
1869 2184 6.924060 GGCCTAAGTTATACTACATGACACAG 59.076 42.308 0.00 0.00 0.00 3.66
1910 2225 6.292008 CGCATCAGTTAAGATCAGTGTACATG 60.292 42.308 0.00 0.00 0.00 3.21
1911 2226 5.750547 CGCATCAGTTAAGATCAGTGTACAT 59.249 40.000 0.00 0.00 0.00 2.29
1934 2249 3.738982 TCACCCTAATACATGGATTGCG 58.261 45.455 13.77 4.28 0.00 4.85
2007 2322 4.462834 TGATGTCATGTAGAACGGAAGAGT 59.537 41.667 0.00 0.00 0.00 3.24
2036 2510 1.557371 TGTCAAGGATGATGGCCGTTA 59.443 47.619 0.00 0.00 38.01 3.18
2037 2511 0.327924 TGTCAAGGATGATGGCCGTT 59.672 50.000 0.00 0.00 38.01 4.44
2074 2548 2.225491 CACACCACCGACCTACAATTTG 59.775 50.000 0.00 0.00 0.00 2.32
2076 2550 1.418637 ACACACCACCGACCTACAATT 59.581 47.619 0.00 0.00 0.00 2.32
2100 2591 5.047802 AGTGTTGCAATGAAGAACATTAGGG 60.048 40.000 0.59 0.00 46.01 3.53
2107 2598 2.918131 GCGGAGTGTTGCAATGAAGAAC 60.918 50.000 0.59 0.00 0.00 3.01
2120 2611 1.300697 GAACTTGTCGGCGGAGTGT 60.301 57.895 7.21 0.00 0.00 3.55
2126 2617 1.134367 TCTATGAGGAACTTGTCGGCG 59.866 52.381 0.00 0.00 41.55 6.46
2138 2629 5.466058 GTCTGAAGCATGATTGTCTATGAGG 59.534 44.000 0.00 0.00 0.00 3.86
2157 2648 1.623811 GCCCTTGTAGGAGTTGTCTGA 59.376 52.381 0.00 0.00 37.67 3.27
2159 2650 1.729586 TGCCCTTGTAGGAGTTGTCT 58.270 50.000 0.00 0.00 37.67 3.41
2160 2651 2.427506 CTTGCCCTTGTAGGAGTTGTC 58.572 52.381 0.00 0.00 37.67 3.18
2167 2658 0.673644 CACGACCTTGCCCTTGTAGG 60.674 60.000 0.00 0.00 34.30 3.18
2184 2675 2.272471 GGCCCTGCCTTCTACCAC 59.728 66.667 0.00 0.00 46.69 4.16
2206 2697 4.883354 GGCCTCCCCGATGCCTTG 62.883 72.222 0.00 0.00 39.64 3.61
2215 2706 1.304134 AACATTCGTTGGCCTCCCC 60.304 57.895 3.32 0.00 32.81 4.81
2263 2755 1.473965 GGATCGTGGTCATGTGCTGAT 60.474 52.381 0.00 0.00 35.97 2.90
2264 2756 0.108186 GGATCGTGGTCATGTGCTGA 60.108 55.000 0.00 0.00 0.00 4.26
2278 2770 3.264897 CGGCTTCGCTTGGGATCG 61.265 66.667 0.00 0.00 0.00 3.69
2322 2814 0.916086 ACTTCACCACCACCTCAACA 59.084 50.000 0.00 0.00 0.00 3.33
2323 2815 1.308998 CACTTCACCACCACCTCAAC 58.691 55.000 0.00 0.00 0.00 3.18
2357 2849 2.811410 TCCTCAATCATTGCAAGGCTT 58.189 42.857 6.15 0.00 0.00 4.35
2359 2851 2.429610 ACATCCTCAATCATTGCAAGGC 59.570 45.455 6.15 0.00 0.00 4.35
2395 2888 3.386078 AGGCAGAGTTGTACATGATCGAT 59.614 43.478 0.00 0.00 0.00 3.59
2399 2892 7.147655 ACAGTTATAGGCAGAGTTGTACATGAT 60.148 37.037 0.00 0.00 0.00 2.45
2407 2900 9.764363 TGATAAATACAGTTATAGGCAGAGTTG 57.236 33.333 0.00 0.00 0.00 3.16
2408 2901 9.765795 GTGATAAATACAGTTATAGGCAGAGTT 57.234 33.333 0.00 0.00 0.00 3.01
2423 2916 9.085645 AGGACCGACATAATAGTGATAAATACA 57.914 33.333 0.00 0.00 0.00 2.29
2430 2923 7.598759 AGTTTAGGACCGACATAATAGTGAT 57.401 36.000 0.00 0.00 0.00 3.06
2453 2946 9.603298 CACAAGCATACACATTAATAAGCATAG 57.397 33.333 0.00 0.00 0.00 2.23
2458 2951 9.882996 CATACCACAAGCATACACATTAATAAG 57.117 33.333 0.00 0.00 0.00 1.73
2460 2953 9.051679 GTCATACCACAAGCATACACATTAATA 57.948 33.333 0.00 0.00 0.00 0.98
2475 2969 6.539173 AGATTAAACCACAGTCATACCACAA 58.461 36.000 0.00 0.00 0.00 3.33
2508 3002 9.733556 TGAGGAACATAGATTAAAGCACTTTAA 57.266 29.630 15.78 15.78 45.56 1.52
2536 3030 2.362313 CACAACAACAACACATCGACG 58.638 47.619 0.00 0.00 0.00 5.12
2539 3033 1.065401 AGGCACAACAACAACACATCG 59.935 47.619 0.00 0.00 0.00 3.84
2576 3071 8.044908 TCTTATTGGAGTGGTGAGGTTAATTAC 58.955 37.037 0.00 0.00 0.00 1.89
2577 3072 8.153221 TCTTATTGGAGTGGTGAGGTTAATTA 57.847 34.615 0.00 0.00 0.00 1.40
2579 3074 6.353082 CCTCTTATTGGAGTGGTGAGGTTAAT 60.353 42.308 0.00 0.00 36.00 1.40
2580 3075 5.045869 CCTCTTATTGGAGTGGTGAGGTTAA 60.046 44.000 0.00 0.00 36.00 2.01
2598 3093 1.216178 GCGGTGCGGTAACCTCTTA 59.784 57.895 0.00 0.00 38.14 2.10
2626 3121 7.283625 ACAATATGCTCTTGTTTGGTTACAA 57.716 32.000 0.00 0.00 33.10 2.41
2627 3122 6.892658 ACAATATGCTCTTGTTTGGTTACA 57.107 33.333 0.00 0.00 33.10 2.41
2628 3123 8.893727 AGATACAATATGCTCTTGTTTGGTTAC 58.106 33.333 4.81 0.00 37.89 2.50
2639 3134 3.262915 GCTCCCCAGATACAATATGCTCT 59.737 47.826 0.00 0.00 0.00 4.09
2642 3137 3.423539 TGCTCCCCAGATACAATATGC 57.576 47.619 0.00 0.00 0.00 3.14
2645 3140 7.341030 CAATCATATGCTCCCCAGATACAATA 58.659 38.462 0.00 0.00 0.00 1.90
2685 3180 3.947196 TGCATTATAGCAGAAACACCAGG 59.053 43.478 0.00 0.00 40.11 4.45
2688 3183 4.399303 AGGTTGCATTATAGCAGAAACACC 59.601 41.667 0.00 0.00 46.54 4.16
2715 3210 3.742433 TTGTTCGATTGCCCACAAAAT 57.258 38.095 0.00 0.00 39.77 1.82
2728 3223 9.658475 CTAAACAATGTTCTACATTTTGTTCGA 57.342 29.630 0.00 0.00 45.80 3.71
2774 3269 2.865598 CGATGGCTCGGCTGATCCT 61.866 63.158 16.20 2.38 41.27 3.24
2777 3272 3.464522 ATCGATGGCTCGGCTGAT 58.535 55.556 0.00 0.00 45.10 2.90


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

AutoCloner maintained by Alex Coulton.