Multiple sequence alignment - TraesCS2A01G094100

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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 TraesCS2A01G094100 chr2A 100.000 2252 0 0 1 2252 47912696 47914947 0.000000e+00 4159.0
1 TraesCS2A01G094100 chr2B 83.382 1709 106 74 58 1667 69416514 69418143 0.000000e+00 1419.0
2 TraesCS2A01G094100 chr2B 89.167 240 12 8 2022 2252 69418642 69418876 1.020000e-73 287.0
3 TraesCS2A01G094100 chr2B 84.974 193 20 7 1964 2151 69632057 69632245 1.060000e-43 187.0
4 TraesCS2A01G094100 chr2B 86.076 79 1 2 1880 1949 69418394 69418471 2.400000e-10 76.8
5 TraesCS2A01G094100 chr2B 100.000 29 0 0 2198 2226 69628533 69628561 1.000000e-03 54.7
6 TraesCS2A01G094100 chr2B 100.000 28 0 0 1910 1937 69631955 69631982 4.000000e-03 52.8
7 TraesCS2A01G094100 chr2D 85.023 1095 60 43 605 1651 44082313 44083351 0.000000e+00 1018.0
8 TraesCS2A01G094100 chr2D 90.756 595 41 7 1 586 44081556 44082145 0.000000e+00 782.0
9 TraesCS2A01G094100 chr2D 91.810 232 17 2 2022 2252 44083838 44084068 2.790000e-84 322.0
10 TraesCS2A01G094100 chr2D 90.435 230 14 5 1 225 491586456 491586682 1.690000e-76 296.0
11 TraesCS2A01G094100 chr2D 86.713 143 12 3 1807 1949 44083535 44083670 3.870000e-33 152.0
12 TraesCS2A01G094100 chr2D 94.737 38 1 1 2215 2252 608008626 608008662 8.690000e-05 58.4
13 TraesCS2A01G094100 chr6D 90.870 230 15 5 1 225 415727292 415727064 1.010000e-78 303.0
14 TraesCS2A01G094100 chr6D 90.435 230 14 5 1 225 335166427 335166201 1.690000e-76 296.0
15 TraesCS2A01G094100 chr3D 90.435 230 14 5 1 225 8766008 8765782 1.690000e-76 296.0
16 TraesCS2A01G094100 chr3D 90.000 230 17 4 1 225 515325446 515325218 2.190000e-75 292.0
17 TraesCS2A01G094100 chr1D 90.435 230 14 5 1 225 293924142 293923916 1.690000e-76 296.0
18 TraesCS2A01G094100 chr1D 90.435 230 14 5 1 225 368919134 368919360 1.690000e-76 296.0
19 TraesCS2A01G094100 chr4D 90.000 230 15 5 1 225 54783039 54782813 7.870000e-75 291.0
20 TraesCS2A01G094100 chrUn 98.734 79 1 0 2021 2099 354341706 354341784 8.390000e-30 141.0
21 TraesCS2A01G094100 chr7D 98.734 79 1 0 2021 2099 44403280 44403358 8.390000e-30 141.0
22 TraesCS2A01G094100 chr7D 98.734 79 1 0 2021 2099 58626396 58626474 8.390000e-30 141.0
23 TraesCS2A01G094100 chr7D 94.565 92 2 3 2024 2114 45271642 45271553 3.020000e-29 139.0
24 TraesCS2A01G094100 chr5D 98.734 79 1 0 2021 2099 459067144 459067222 8.390000e-30 141.0
25 TraesCS2A01G094100 chr7A 93.478 92 3 2 2006 2097 62888352 62888440 1.400000e-27 134.0
26 TraesCS2A01G094100 chr3B 97.222 36 0 1 2217 2252 77226389 77226423 2.420000e-05 60.2
27 TraesCS2A01G094100 chr7B 94.595 37 2 0 2214 2250 22613535 22613571 8.690000e-05 58.4
28 TraesCS2A01G094100 chr7B 94.595 37 2 0 2214 2250 22792921 22792957 8.690000e-05 58.4
29 TraesCS2A01G094100 chr7B 94.595 37 2 0 2214 2250 22839643 22839679 8.690000e-05 58.4
30 TraesCS2A01G094100 chr7B 94.444 36 2 0 2214 2249 700790458 700790493 3.120000e-04 56.5
31 TraesCS2A01G094100 chr5B 94.595 37 2 0 2216 2252 86241684 86241720 8.690000e-05 58.4


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 TraesCS2A01G094100 chr2A 47912696 47914947 2251 False 4159.000000 4159 100.000000 1 2252 1 chr2A.!!$F1 2251
1 TraesCS2A01G094100 chr2B 69416514 69418876 2362 False 594.266667 1419 86.208333 58 2252 3 chr2B.!!$F1 2194
2 TraesCS2A01G094100 chr2D 44081556 44084068 2512 False 568.500000 1018 88.575500 1 2252 4 chr2D.!!$F3 2251

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
994 1209 0.036388 CTGCCCTCCAGCGAAGTAAA 60.036 55.0 0.0 0.0 34.21 2.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1946 2319 0.177836 GCAAAAGTGGGGTTTGTGCT 59.822 50.0 0.0 0.0 38.09 4.4 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
20 21 2.949177 TATTCAGCGCCCATATGGTT 57.051 45.000 20.46 0.49 36.04 3.67
36 37 3.060736 TGGTTACAAGTGTGTGTGTGT 57.939 42.857 0.00 0.00 38.82 3.72
37 38 3.413327 TGGTTACAAGTGTGTGTGTGTT 58.587 40.909 0.00 0.00 38.82 3.32
114 117 8.863872 ACTTCCAGTTGTTTACTAGCAATATT 57.136 30.769 0.00 0.00 34.56 1.28
254 287 7.747809 AATATCTCCCTCTGTTCTCTTTTCT 57.252 36.000 0.00 0.00 0.00 2.52
255 288 4.881019 TCTCCCTCTGTTCTCTTTTCTG 57.119 45.455 0.00 0.00 0.00 3.02
275 315 4.688879 TCTGTAGACAATAAAGCAACACCG 59.311 41.667 0.00 0.00 0.00 4.94
280 320 4.214758 AGACAATAAAGCAACACCGTAACC 59.785 41.667 0.00 0.00 0.00 2.85
325 368 5.506317 GCAAGGCATATACATGTGTTCCTTC 60.506 44.000 9.11 6.63 31.99 3.46
386 429 1.949257 CAGCCTTTGTTGTCGTCCC 59.051 57.895 0.00 0.00 0.00 4.46
388 431 2.613506 GCCTTTGTTGTCGTCCCCG 61.614 63.158 0.00 0.00 0.00 5.73
486 535 3.367743 CACGCCATGCCTTGCACT 61.368 61.111 0.00 0.00 43.04 4.40
490 539 1.676635 GCCATGCCTTGCACTCAGA 60.677 57.895 0.00 0.00 43.04 3.27
494 543 0.689055 ATGCCTTGCACTCAGACTCA 59.311 50.000 0.00 0.00 43.04 3.41
500 549 1.189752 TGCACTCAGACTCATCTCCC 58.810 55.000 0.00 0.00 30.42 4.30
505 554 2.043664 ACTCAGACTCATCTCCCTTCCA 59.956 50.000 0.00 0.00 30.42 3.53
522 571 2.503375 ATTCGTGTCCGTCGACGC 60.503 61.111 31.73 19.56 44.53 5.19
593 695 9.146586 ACCACTCCAGTAAAATATTACGGTATA 57.853 33.333 0.00 0.00 44.97 1.47
630 833 6.670233 TGTATAAAATTGGTGAAACGGACAC 58.330 36.000 0.00 0.00 38.12 3.67
752 956 2.125350 GAGTGAGCCCTGCTTCCG 60.125 66.667 0.00 0.00 39.88 4.30
814 1018 2.357517 CGCCATATGACCCGAGGC 60.358 66.667 3.65 0.00 41.86 4.70
880 1095 2.538861 CTCTTGATATCACGCACAGCAG 59.461 50.000 4.48 0.00 0.00 4.24
973 1188 1.293683 ACCTCCCTCTCCTCTCTCCC 61.294 65.000 0.00 0.00 0.00 4.30
975 1190 2.015726 TCCCTCTCCTCTCTCCCCC 61.016 68.421 0.00 0.00 0.00 5.40
976 1191 2.018086 CCCTCTCCTCTCTCCCCCT 61.018 68.421 0.00 0.00 0.00 4.79
977 1192 1.232792 CCTCTCCTCTCTCCCCCTG 59.767 68.421 0.00 0.00 0.00 4.45
981 1196 4.101077 CCTCTCTCCCCCTGCCCT 62.101 72.222 0.00 0.00 0.00 5.19
982 1197 2.445654 CTCTCTCCCCCTGCCCTC 60.446 72.222 0.00 0.00 0.00 4.30
984 1199 4.421554 CTCTCCCCCTGCCCTCCA 62.422 72.222 0.00 0.00 0.00 3.86
990 1205 4.479993 CCCTGCCCTCCAGCGAAG 62.480 72.222 0.00 0.00 40.36 3.79
991 1206 3.710722 CCTGCCCTCCAGCGAAGT 61.711 66.667 0.00 0.00 40.36 3.01
992 1207 2.359169 CCTGCCCTCCAGCGAAGTA 61.359 63.158 0.00 0.00 40.36 2.24
994 1209 0.036388 CTGCCCTCCAGCGAAGTAAA 60.036 55.000 0.00 0.00 34.21 2.01
1286 1525 6.311690 CGTCTTCTTCTTCTTCCTTGGTATTC 59.688 42.308 0.00 0.00 0.00 1.75
1288 1527 5.740290 TCTTCTTCTTCCTTGGTATTCGT 57.260 39.130 0.00 0.00 0.00 3.85
1289 1528 5.721232 TCTTCTTCTTCCTTGGTATTCGTC 58.279 41.667 0.00 0.00 0.00 4.20
1290 1529 4.467198 TCTTCTTCCTTGGTATTCGTCC 57.533 45.455 0.00 0.00 0.00 4.79
1291 1530 4.094476 TCTTCTTCCTTGGTATTCGTCCT 58.906 43.478 0.00 0.00 0.00 3.85
1292 1531 4.159879 TCTTCTTCCTTGGTATTCGTCCTC 59.840 45.833 0.00 0.00 0.00 3.71
1293 1532 2.764572 TCTTCCTTGGTATTCGTCCTCC 59.235 50.000 0.00 0.00 0.00 4.30
1294 1533 2.544844 TCCTTGGTATTCGTCCTCCT 57.455 50.000 0.00 0.00 0.00 3.69
1304 1543 2.899505 GTCCTCCTCCTGCTCTGC 59.100 66.667 0.00 0.00 0.00 4.26
1342 1581 2.985847 GCTCCACCACCACCTTGC 60.986 66.667 0.00 0.00 0.00 4.01
1343 1582 2.669569 CTCCACCACCACCTTGCG 60.670 66.667 0.00 0.00 0.00 4.85
1353 1593 3.649986 ACCTTGCGTTGCGTGCTC 61.650 61.111 0.00 0.00 0.00 4.26
1354 1594 3.349006 CCTTGCGTTGCGTGCTCT 61.349 61.111 0.00 0.00 0.00 4.09
1368 1608 2.075338 GTGCTCTTCTTTCTCTGCCTG 58.925 52.381 0.00 0.00 0.00 4.85
1369 1609 1.085893 GCTCTTCTTTCTCTGCCTGC 58.914 55.000 0.00 0.00 0.00 4.85
1370 1610 1.736612 CTCTTCTTTCTCTGCCTGCC 58.263 55.000 0.00 0.00 0.00 4.85
1371 1611 1.278699 CTCTTCTTTCTCTGCCTGCCT 59.721 52.381 0.00 0.00 0.00 4.75
1372 1612 1.002888 TCTTCTTTCTCTGCCTGCCTG 59.997 52.381 0.00 0.00 0.00 4.85
1373 1613 0.607489 TTCTTTCTCTGCCTGCCTGC 60.607 55.000 0.00 0.00 0.00 4.85
1374 1614 2.034687 TTTCTCTGCCTGCCTGCC 59.965 61.111 0.00 0.00 0.00 4.85
1375 1615 2.481307 CTTTCTCTGCCTGCCTGCCT 62.481 60.000 0.00 0.00 0.00 4.75
1377 1617 4.486503 CTCTGCCTGCCTGCCTCC 62.487 72.222 0.00 0.00 0.00 4.30
1381 1621 3.550431 GCCTGCCTGCCTCCGATA 61.550 66.667 0.00 0.00 0.00 2.92
1383 1623 1.294780 CCTGCCTGCCTCCGATATC 59.705 63.158 0.00 0.00 0.00 1.63
1385 1625 0.037512 CTGCCTGCCTCCGATATCTG 60.038 60.000 0.34 0.00 0.00 2.90
1386 1626 1.294780 GCCTGCCTCCGATATCTGG 59.705 63.158 0.34 4.35 0.00 3.86
1387 1627 1.476007 GCCTGCCTCCGATATCTGGT 61.476 60.000 11.65 0.00 0.00 4.00
1388 1628 0.605589 CCTGCCTCCGATATCTGGTC 59.394 60.000 11.65 4.60 0.00 4.02
1389 1629 1.626686 CTGCCTCCGATATCTGGTCT 58.373 55.000 11.65 0.00 0.00 3.85
1390 1630 1.271934 CTGCCTCCGATATCTGGTCTG 59.728 57.143 11.65 5.18 0.00 3.51
1391 1631 0.605589 GCCTCCGATATCTGGTCTGG 59.394 60.000 11.65 12.42 0.00 3.86
1392 1632 2.002505 CCTCCGATATCTGGTCTGGT 57.997 55.000 11.65 0.00 0.00 4.00
1393 1633 1.889829 CCTCCGATATCTGGTCTGGTC 59.110 57.143 11.65 0.00 0.00 4.02
1394 1634 2.489985 CCTCCGATATCTGGTCTGGTCT 60.490 54.545 11.65 0.00 0.00 3.85
1395 1635 2.817258 CTCCGATATCTGGTCTGGTCTC 59.183 54.545 11.65 0.00 0.00 3.36
1396 1636 2.174854 TCCGATATCTGGTCTGGTCTCA 59.825 50.000 11.65 0.00 0.00 3.27
1397 1637 3.161067 CCGATATCTGGTCTGGTCTCAT 58.839 50.000 0.34 0.00 0.00 2.90
1398 1638 4.042934 TCCGATATCTGGTCTGGTCTCATA 59.957 45.833 11.65 0.00 0.00 2.15
1399 1639 4.156922 CCGATATCTGGTCTGGTCTCATAC 59.843 50.000 0.34 0.00 0.00 2.39
1410 1650 3.708631 CTGGTCTCATACTCTCATGGGTT 59.291 47.826 0.00 0.00 0.00 4.11
1411 1651 4.104086 TGGTCTCATACTCTCATGGGTTT 58.896 43.478 0.00 0.00 0.00 3.27
1426 1666 1.745489 GTTTTGGCTCGCCGGATCT 60.745 57.895 5.05 0.00 39.42 2.75
1438 1678 1.377725 CGGATCTTGCAGGTGGCTT 60.378 57.895 0.00 0.00 45.15 4.35
1450 1700 1.689273 AGGTGGCTTATCAGGATCGAC 59.311 52.381 0.00 0.00 0.00 4.20
1457 1707 0.753848 TATCAGGATCGACGGTGGCA 60.754 55.000 0.00 0.00 0.00 4.92
1462 1712 1.084370 GGATCGACGGTGGCAAGAAG 61.084 60.000 0.00 0.00 0.00 2.85
1479 1740 3.620785 GGGATGCGCGAGGGAGAT 61.621 66.667 12.10 0.00 0.00 2.75
1482 1743 4.615815 ATGCGCGAGGGAGATGGC 62.616 66.667 12.10 0.00 0.00 4.40
1488 1749 1.370437 CGAGGGAGATGGCCTCATG 59.630 63.158 3.32 0.00 43.76 3.07
1493 1754 1.703014 GGAGATGGCCTCATGGAGCA 61.703 60.000 3.32 0.00 43.76 4.26
1516 1777 4.902443 TCCTTGCGAGTAGATTAGTCAG 57.098 45.455 0.00 0.00 0.00 3.51
1545 1808 5.516059 AAGATCATCATATGCATGGGTCT 57.484 39.130 10.16 2.00 32.61 3.85
1548 1811 5.944599 AGATCATCATATGCATGGGTCTTTC 59.055 40.000 10.16 0.00 32.61 2.62
1551 1814 5.766670 TCATCATATGCATGGGTCTTTCTTC 59.233 40.000 10.16 0.00 32.61 2.87
1552 1815 5.378230 TCATATGCATGGGTCTTTCTTCT 57.622 39.130 10.16 0.00 32.61 2.85
1553 1816 5.759059 TCATATGCATGGGTCTTTCTTCTT 58.241 37.500 10.16 0.00 32.61 2.52
1554 1817 5.824624 TCATATGCATGGGTCTTTCTTCTTC 59.175 40.000 10.16 0.00 32.61 2.87
1555 1818 3.795688 TGCATGGGTCTTTCTTCTTCT 57.204 42.857 0.00 0.00 0.00 2.85
1556 1819 4.104383 TGCATGGGTCTTTCTTCTTCTT 57.896 40.909 0.00 0.00 0.00 2.52
1557 1820 4.074970 TGCATGGGTCTTTCTTCTTCTTC 58.925 43.478 0.00 0.00 0.00 2.87
1558 1821 4.202503 TGCATGGGTCTTTCTTCTTCTTCT 60.203 41.667 0.00 0.00 0.00 2.85
1559 1822 4.764308 GCATGGGTCTTTCTTCTTCTTCTT 59.236 41.667 0.00 0.00 0.00 2.52
1560 1823 5.106357 GCATGGGTCTTTCTTCTTCTTCTTC 60.106 44.000 0.00 0.00 0.00 2.87
1561 1824 5.896073 TGGGTCTTTCTTCTTCTTCTTCT 57.104 39.130 0.00 0.00 0.00 2.85
1562 1825 6.253946 TGGGTCTTTCTTCTTCTTCTTCTT 57.746 37.500 0.00 0.00 0.00 2.52
1563 1826 6.292150 TGGGTCTTTCTTCTTCTTCTTCTTC 58.708 40.000 0.00 0.00 0.00 2.87
1564 1827 6.100424 TGGGTCTTTCTTCTTCTTCTTCTTCT 59.900 38.462 0.00 0.00 0.00 2.85
1565 1828 6.995686 GGGTCTTTCTTCTTCTTCTTCTTCTT 59.004 38.462 0.00 0.00 0.00 2.52
1566 1829 7.172532 GGGTCTTTCTTCTTCTTCTTCTTCTTC 59.827 40.741 0.00 0.00 0.00 2.87
1621 1902 1.886542 AGAGAATGTTTGTTTCCGGGC 59.113 47.619 0.00 0.00 0.00 6.13
1622 1903 0.966179 AGAATGTTTGTTTCCGGGCC 59.034 50.000 0.00 0.00 0.00 5.80
1623 1904 0.388006 GAATGTTTGTTTCCGGGCCG 60.388 55.000 21.46 21.46 0.00 6.13
1636 1917 3.922640 GGCCGGGTTGCAAGCAAA 61.923 61.111 28.22 0.00 37.70 3.68
1648 1929 1.338389 GCAAGCAAAGTTGGCCATCAT 60.338 47.619 16.12 0.68 0.00 2.45
1649 1930 2.613691 CAAGCAAAGTTGGCCATCATC 58.386 47.619 16.12 3.37 0.00 2.92
1650 1931 1.927487 AGCAAAGTTGGCCATCATCA 58.073 45.000 16.12 0.00 0.00 3.07
1651 1932 1.547372 AGCAAAGTTGGCCATCATCAC 59.453 47.619 16.12 6.49 0.00 3.06
1653 1934 2.927871 GCAAAGTTGGCCATCATCACAC 60.928 50.000 16.12 4.95 0.00 3.82
1654 1935 1.167851 AAGTTGGCCATCATCACACG 58.832 50.000 16.12 0.00 0.00 4.49
1655 1936 1.137404 GTTGGCCATCATCACACGC 59.863 57.895 6.09 0.00 0.00 5.34
1678 2010 4.377841 CGATTCCTTTCTGCTTCACTTCAC 60.378 45.833 0.00 0.00 0.00 3.18
1706 2038 1.814394 CTGCAAAGCAAGCATACCTGA 59.186 47.619 0.00 0.00 41.82 3.86
1719 2053 3.334691 CATACCTGATTGTTGTGTCCGT 58.665 45.455 0.00 0.00 0.00 4.69
1725 2059 4.221342 CTGATTGTTGTGTCCGTTTGATG 58.779 43.478 0.00 0.00 0.00 3.07
1728 2062 1.333308 TGTTGTGTCCGTTTGATGCTG 59.667 47.619 0.00 0.00 0.00 4.41
1749 2094 5.556947 GCTGAGTGCTTGCAAAACAAATTAC 60.557 40.000 12.94 0.00 37.96 1.89
1750 2095 5.659463 TGAGTGCTTGCAAAACAAATTACT 58.341 33.333 12.94 2.80 37.96 2.24
1753 2098 4.808364 GTGCTTGCAAAACAAATTACTCCA 59.192 37.500 0.00 0.00 37.96 3.86
1754 2099 4.808364 TGCTTGCAAAACAAATTACTCCAC 59.192 37.500 0.00 0.00 37.96 4.02
1755 2100 4.808364 GCTTGCAAAACAAATTACTCCACA 59.192 37.500 0.00 0.00 37.96 4.17
1756 2101 5.050837 GCTTGCAAAACAAATTACTCCACAG 60.051 40.000 0.00 0.00 37.96 3.66
1757 2102 5.590530 TGCAAAACAAATTACTCCACAGT 57.409 34.783 0.00 0.00 36.55 3.55
1758 2103 5.971763 TGCAAAACAAATTACTCCACAGTT 58.028 33.333 0.00 0.00 33.62 3.16
1760 2105 6.039616 GCAAAACAAATTACTCCACAGTTGA 58.960 36.000 0.00 0.00 33.62 3.18
1761 2106 6.533367 GCAAAACAAATTACTCCACAGTTGAA 59.467 34.615 0.00 0.00 33.62 2.69
1762 2107 7.224557 GCAAAACAAATTACTCCACAGTTGAAT 59.775 33.333 0.00 0.00 33.62 2.57
1763 2108 9.097257 CAAAACAAATTACTCCACAGTTGAATT 57.903 29.630 0.00 0.00 33.62 2.17
1770 2115 8.877864 ATTACTCCACAGTTGAATTAAATCCA 57.122 30.769 0.00 0.00 33.62 3.41
1771 2116 8.877864 TTACTCCACAGTTGAATTAAATCCAT 57.122 30.769 0.00 0.00 33.62 3.41
1772 2117 7.396540 ACTCCACAGTTGAATTAAATCCATC 57.603 36.000 0.00 0.00 0.00 3.51
1773 2118 6.094048 ACTCCACAGTTGAATTAAATCCATCG 59.906 38.462 0.00 0.00 0.00 3.84
1774 2119 5.036737 CCACAGTTGAATTAAATCCATCGC 58.963 41.667 0.00 0.00 0.00 4.58
1775 2120 4.730042 CACAGTTGAATTAAATCCATCGCG 59.270 41.667 0.00 0.00 0.00 5.87
1776 2121 3.725740 CAGTTGAATTAAATCCATCGCGC 59.274 43.478 0.00 0.00 0.00 6.86
1777 2122 3.376859 AGTTGAATTAAATCCATCGCGCA 59.623 39.130 8.75 0.00 0.00 6.09
1778 2123 4.101942 GTTGAATTAAATCCATCGCGCAA 58.898 39.130 8.75 0.00 0.00 4.85
1779 2124 4.566545 TGAATTAAATCCATCGCGCAAT 57.433 36.364 8.75 0.00 0.00 3.56
1780 2125 4.289342 TGAATTAAATCCATCGCGCAATG 58.711 39.130 8.75 4.24 0.00 2.82
1781 2126 2.772568 TTAAATCCATCGCGCAATGG 57.227 45.000 21.72 21.72 46.44 3.16
1782 2127 0.310543 TAAATCCATCGCGCAATGGC 59.689 50.000 22.88 0.00 44.98 4.40
1783 2128 1.665264 AAATCCATCGCGCAATGGCA 61.665 50.000 22.88 11.84 44.98 4.92
1784 2129 2.340453 AATCCATCGCGCAATGGCAC 62.340 55.000 22.88 0.00 44.98 5.01
1785 2130 4.892379 CCATCGCGCAATGGCACG 62.892 66.667 15.67 0.00 46.38 5.34
1790 2135 3.174573 GCGCAATGGCACGAAAGC 61.175 61.111 0.30 0.00 41.24 3.51
1791 2136 2.254951 CGCAATGGCACGAAAGCA 59.745 55.556 0.00 0.00 41.24 3.91
1792 2137 2.082366 CGCAATGGCACGAAAGCAC 61.082 57.895 0.00 0.00 41.24 4.40
1793 2138 2.082366 GCAATGGCACGAAAGCACG 61.082 57.895 0.00 0.00 40.72 5.34
1794 2139 2.082366 CAATGGCACGAAAGCACGC 61.082 57.895 0.00 0.00 36.70 5.34
1795 2140 3.593551 AATGGCACGAAAGCACGCG 62.594 57.895 3.53 3.53 36.70 6.01
1799 2144 4.724697 CACGAAAGCACGCGCAGG 62.725 66.667 5.73 0.00 42.27 4.85
1820 2165 6.110707 CAGGGGAAATCAAGAATGAAAATGG 58.889 40.000 0.00 0.00 39.49 3.16
1827 2172 9.525409 GAAATCAAGAATGAAAATGGATCGAAT 57.475 29.630 0.00 0.00 39.49 3.34
1846 2191 2.740055 GCACACGCTCCAGTCCAG 60.740 66.667 0.00 0.00 34.30 3.86
1847 2192 3.051210 CACACGCTCCAGTCCAGA 58.949 61.111 0.00 0.00 0.00 3.86
1848 2193 1.367471 CACACGCTCCAGTCCAGAA 59.633 57.895 0.00 0.00 0.00 3.02
1849 2194 0.036952 CACACGCTCCAGTCCAGAAT 60.037 55.000 0.00 0.00 0.00 2.40
1850 2195 0.247736 ACACGCTCCAGTCCAGAATC 59.752 55.000 0.00 0.00 0.00 2.52
1851 2196 0.247460 CACGCTCCAGTCCAGAATCA 59.753 55.000 0.00 0.00 0.00 2.57
1853 2198 0.803768 CGCTCCAGTCCAGAATCACG 60.804 60.000 0.00 0.00 0.00 4.35
1854 2199 0.460987 GCTCCAGTCCAGAATCACGG 60.461 60.000 0.00 0.00 0.00 4.94
1956 2329 2.946762 GCTCGTCAGCACAAACCC 59.053 61.111 0.00 0.00 46.06 4.11
1957 2330 2.617274 GCTCGTCAGCACAAACCCC 61.617 63.158 0.00 0.00 46.06 4.95
1958 2331 1.227823 CTCGTCAGCACAAACCCCA 60.228 57.895 0.00 0.00 0.00 4.96
1959 2332 1.507141 CTCGTCAGCACAAACCCCAC 61.507 60.000 0.00 0.00 0.00 4.61
1960 2333 1.525995 CGTCAGCACAAACCCCACT 60.526 57.895 0.00 0.00 0.00 4.00
1961 2334 1.101049 CGTCAGCACAAACCCCACTT 61.101 55.000 0.00 0.00 0.00 3.16
1962 2335 1.111277 GTCAGCACAAACCCCACTTT 58.889 50.000 0.00 0.00 0.00 2.66
1970 2363 1.695114 AAACCCCACTTTTGCCTGCC 61.695 55.000 0.00 0.00 0.00 4.85
1971 2364 2.523902 CCCCACTTTTGCCTGCCA 60.524 61.111 0.00 0.00 0.00 4.92
1975 2368 1.950630 CACTTTTGCCTGCCAACGC 60.951 57.895 0.00 0.00 31.97 4.84
1979 2372 4.617520 TTGCCTGCCAACGCGAGA 62.618 61.111 15.93 0.00 38.08 4.04
1980 2373 4.617520 TGCCTGCCAACGCGAGAA 62.618 61.111 15.93 0.00 38.08 2.87
2007 2400 1.290203 ATGCATCCTACTTTGACGCG 58.710 50.000 3.53 3.53 0.00 6.01
2008 2401 0.245266 TGCATCCTACTTTGACGCGA 59.755 50.000 15.93 0.00 0.00 5.87
2010 2403 1.730064 GCATCCTACTTTGACGCGAAA 59.270 47.619 15.93 3.53 0.00 3.46
2040 2521 3.849574 TCAATTGGAGAAGTGGGGTATCA 59.150 43.478 5.42 0.00 0.00 2.15
2102 2588 2.036992 CTGAGCTACATCCCCTTGCTAG 59.963 54.545 0.00 0.00 33.83 3.42
2103 2589 2.043227 GAGCTACATCCCCTTGCTAGT 58.957 52.381 0.00 0.00 33.83 2.57
2106 2592 2.698797 GCTACATCCCCTTGCTAGTACA 59.301 50.000 0.00 0.00 0.00 2.90
2111 2597 7.093465 GCTACATCCCCTTGCTAGTACATAATA 60.093 40.741 0.00 0.00 0.00 0.98
2141 2627 7.978414 TCTTCAGCTTATGTACAGAATCAAGAG 59.022 37.037 2.91 0.91 0.00 2.85
2143 2629 5.236047 CAGCTTATGTACAGAATCAAGAGCC 59.764 44.000 2.91 0.00 0.00 4.70
2167 2656 9.225436 GCCTTGTTGATTTTTATTTTATTCCCA 57.775 29.630 0.00 0.00 0.00 4.37
2219 2708 2.070783 TGGTCGACGATAAGGCAAAAC 58.929 47.619 9.92 0.00 0.00 2.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 5.373222 ACACACACACACTTGTAACCATAT 58.627 37.500 0.00 0.00 33.30 1.78
17 18 4.428615 AAACACACACACACTTGTAACC 57.571 40.909 0.00 0.00 33.30 2.85
20 21 5.335269 CCAAGAAAACACACACACACTTGTA 60.335 40.000 0.00 0.00 33.30 2.41
36 37 4.349365 AGAACCTCAAACCACCAAGAAAA 58.651 39.130 0.00 0.00 0.00 2.29
37 38 3.976015 AGAACCTCAAACCACCAAGAAA 58.024 40.909 0.00 0.00 0.00 2.52
114 117 3.420893 CCTCTGATTGCAACTGGGTAAA 58.579 45.455 0.00 0.00 0.00 2.01
243 260 8.774586 TGCTTTATTGTCTACAGAAAAGAGAAC 58.225 33.333 16.93 5.97 34.27 3.01
253 286 4.451096 ACGGTGTTGCTTTATTGTCTACAG 59.549 41.667 0.00 0.00 0.00 2.74
254 287 4.382291 ACGGTGTTGCTTTATTGTCTACA 58.618 39.130 0.00 0.00 0.00 2.74
255 288 6.301861 GTTACGGTGTTGCTTTATTGTCTAC 58.698 40.000 0.00 0.00 0.00 2.59
275 315 4.439837 CGTAAGAGAACTGCTAGGGGTTAC 60.440 50.000 0.00 0.00 43.02 2.50
325 368 0.462581 TTCAGCTTGGCGGCTATGAG 60.463 55.000 11.43 4.26 41.00 2.90
386 429 1.903183 GGAGATATCTTTCCCCTCCGG 59.097 57.143 6.70 0.00 34.75 5.14
388 431 1.903183 CCGGAGATATCTTTCCCCTCC 59.097 57.143 6.70 0.80 39.88 4.30
486 535 2.928036 TGGAAGGGAGATGAGTCTGA 57.072 50.000 0.00 0.00 33.97 3.27
490 539 2.169352 CACGAATGGAAGGGAGATGAGT 59.831 50.000 0.00 0.00 0.00 3.41
494 543 1.486726 GGACACGAATGGAAGGGAGAT 59.513 52.381 0.00 0.00 0.00 2.75
500 549 0.109458 TCGACGGACACGAATGGAAG 60.109 55.000 0.00 0.00 44.60 3.46
505 554 2.503375 GCGTCGACGGACACGAAT 60.503 61.111 36.13 0.00 43.61 3.34
522 571 3.061295 CAGATCGATGTTCAACTTGTCCG 59.939 47.826 0.54 0.00 0.00 4.79
565 614 8.026396 ACCGTAATATTTTACTGGAGTGGTAT 57.974 34.615 17.12 0.00 36.37 2.73
618 821 2.223479 ACAAGCAATGTGTCCGTTTCAC 60.223 45.455 0.00 0.00 41.93 3.18
630 833 1.057822 CGCGTCGAGACAAGCAATG 59.942 57.895 0.00 0.00 0.00 2.82
684 887 2.513065 CTTTCCGCGTCACATGCCAC 62.513 60.000 4.92 0.00 0.00 5.01
752 956 1.671261 CGATCGGGAATCTGATGCCTC 60.671 57.143 14.38 3.72 39.00 4.70
794 998 1.373497 CTCGGGTCATATGGCGCTC 60.373 63.158 20.50 0.00 0.00 5.03
973 1188 4.479993 CTTCGCTGGAGGGCAGGG 62.480 72.222 0.00 0.00 0.00 4.45
975 1190 0.036388 TTTACTTCGCTGGAGGGCAG 60.036 55.000 0.00 0.00 0.00 4.85
976 1191 0.036388 CTTTACTTCGCTGGAGGGCA 60.036 55.000 0.00 0.00 0.00 5.36
977 1192 0.249398 TCTTTACTTCGCTGGAGGGC 59.751 55.000 0.00 0.00 0.00 5.19
981 1196 1.933021 TCCCTCTTTACTTCGCTGGA 58.067 50.000 0.00 0.00 0.00 3.86
982 1197 2.555199 CATCCCTCTTTACTTCGCTGG 58.445 52.381 0.00 0.00 0.00 4.85
984 1199 1.134371 GCCATCCCTCTTTACTTCGCT 60.134 52.381 0.00 0.00 0.00 4.93
986 1201 1.571919 CGCCATCCCTCTTTACTTCG 58.428 55.000 0.00 0.00 0.00 3.79
987 1202 1.300481 GCGCCATCCCTCTTTACTTC 58.700 55.000 0.00 0.00 0.00 3.01
988 1203 0.107165 GGCGCCATCCCTCTTTACTT 60.107 55.000 24.80 0.00 0.00 2.24
990 1205 1.887707 CGGCGCCATCCCTCTTTAC 60.888 63.158 28.98 0.00 0.00 2.01
991 1206 2.061578 TCGGCGCCATCCCTCTTTA 61.062 57.895 28.98 0.00 0.00 1.85
992 1207 3.399181 TCGGCGCCATCCCTCTTT 61.399 61.111 28.98 0.00 0.00 2.52
1038 1269 4.003788 ACCTTCCGCTCCACCACG 62.004 66.667 0.00 0.00 0.00 4.94
1040 1271 4.329545 GCACCTTCCGCTCCACCA 62.330 66.667 0.00 0.00 0.00 4.17
1262 1494 6.311690 CGAATACCAAGGAAGAAGAAGAAGAC 59.688 42.308 0.00 0.00 0.00 3.01
1263 1495 6.014499 ACGAATACCAAGGAAGAAGAAGAAGA 60.014 38.462 0.00 0.00 0.00 2.87
1265 1497 6.110411 ACGAATACCAAGGAAGAAGAAGAA 57.890 37.500 0.00 0.00 0.00 2.52
1286 1525 3.074999 GCAGAGCAGGAGGAGGACG 62.075 68.421 0.00 0.00 0.00 4.79
1288 1527 2.364842 GGCAGAGCAGGAGGAGGA 60.365 66.667 0.00 0.00 0.00 3.71
1289 1528 2.365370 AGGCAGAGCAGGAGGAGG 60.365 66.667 0.00 0.00 0.00 4.30
1290 1529 2.433994 GGAGGCAGAGCAGGAGGAG 61.434 68.421 0.00 0.00 0.00 3.69
1291 1530 2.364842 GGAGGCAGAGCAGGAGGA 60.365 66.667 0.00 0.00 0.00 3.71
1292 1531 3.478274 GGGAGGCAGAGCAGGAGG 61.478 72.222 0.00 0.00 0.00 4.30
1293 1532 2.071262 ATGGGAGGCAGAGCAGGAG 61.071 63.158 0.00 0.00 0.00 3.69
1294 1533 2.041762 ATGGGAGGCAGAGCAGGA 59.958 61.111 0.00 0.00 0.00 3.86
1304 1543 1.451936 GGTCCGAATCCATGGGAGG 59.548 63.158 13.02 10.37 34.05 4.30
1339 1578 1.436195 AAGAAGAGCACGCAACGCAA 61.436 50.000 0.00 0.00 0.00 4.85
1342 1581 0.861837 AGAAAGAAGAGCACGCAACG 59.138 50.000 0.00 0.00 0.00 4.10
1343 1582 2.096516 CAGAGAAAGAAGAGCACGCAAC 60.097 50.000 0.00 0.00 0.00 4.17
1353 1593 1.451067 CAGGCAGGCAGAGAAAGAAG 58.549 55.000 0.00 0.00 0.00 2.85
1354 1594 0.607489 GCAGGCAGGCAGAGAAAGAA 60.607 55.000 0.00 0.00 0.00 2.52
1368 1608 1.294780 CCAGATATCGGAGGCAGGC 59.705 63.158 4.24 0.00 0.00 4.85
1369 1609 0.605589 GACCAGATATCGGAGGCAGG 59.394 60.000 17.05 6.39 0.00 4.85
1370 1610 1.271934 CAGACCAGATATCGGAGGCAG 59.728 57.143 17.05 0.00 0.00 4.85
1371 1611 1.332195 CAGACCAGATATCGGAGGCA 58.668 55.000 17.05 0.00 0.00 4.75
1372 1612 0.605589 CCAGACCAGATATCGGAGGC 59.394 60.000 17.05 4.41 0.00 4.70
1373 1613 1.889829 GACCAGACCAGATATCGGAGG 59.110 57.143 17.05 13.32 0.00 4.30
1374 1614 2.817258 GAGACCAGACCAGATATCGGAG 59.183 54.545 17.05 4.77 0.00 4.63
1375 1615 2.174854 TGAGACCAGACCAGATATCGGA 59.825 50.000 17.05 0.00 0.00 4.55
1377 1617 5.007034 AGTATGAGACCAGACCAGATATCG 58.993 45.833 0.00 0.00 35.21 2.92
1379 1619 6.183361 TGAGAGTATGAGACCAGACCAGATAT 60.183 42.308 0.00 0.00 35.21 1.63
1381 1621 4.079500 TGAGAGTATGAGACCAGACCAGAT 60.080 45.833 0.00 0.00 35.21 2.90
1383 1623 3.625853 TGAGAGTATGAGACCAGACCAG 58.374 50.000 0.00 0.00 35.21 4.00
1385 1625 3.320541 CCATGAGAGTATGAGACCAGACC 59.679 52.174 0.00 0.00 35.21 3.85
1386 1626 3.320541 CCCATGAGAGTATGAGACCAGAC 59.679 52.174 0.00 0.00 34.87 3.51
1387 1627 3.052566 ACCCATGAGAGTATGAGACCAGA 60.053 47.826 0.00 0.00 0.00 3.86
1388 1628 3.303938 ACCCATGAGAGTATGAGACCAG 58.696 50.000 0.00 0.00 0.00 4.00
1389 1629 3.404869 ACCCATGAGAGTATGAGACCA 57.595 47.619 0.00 0.00 0.00 4.02
1390 1630 4.762289 AAACCCATGAGAGTATGAGACC 57.238 45.455 0.00 0.00 0.00 3.85
1391 1631 4.878397 CCAAAACCCATGAGAGTATGAGAC 59.122 45.833 0.00 0.00 0.00 3.36
1392 1632 4.626287 GCCAAAACCCATGAGAGTATGAGA 60.626 45.833 0.00 0.00 0.00 3.27
1393 1633 3.629398 GCCAAAACCCATGAGAGTATGAG 59.371 47.826 0.00 0.00 0.00 2.90
1394 1634 3.266772 AGCCAAAACCCATGAGAGTATGA 59.733 43.478 0.00 0.00 0.00 2.15
1395 1635 3.624777 AGCCAAAACCCATGAGAGTATG 58.375 45.455 0.00 0.00 0.00 2.39
1396 1636 3.682718 CGAGCCAAAACCCATGAGAGTAT 60.683 47.826 0.00 0.00 0.00 2.12
1397 1637 2.354704 CGAGCCAAAACCCATGAGAGTA 60.355 50.000 0.00 0.00 0.00 2.59
1398 1638 1.611673 CGAGCCAAAACCCATGAGAGT 60.612 52.381 0.00 0.00 0.00 3.24
1399 1639 1.089920 CGAGCCAAAACCCATGAGAG 58.910 55.000 0.00 0.00 0.00 3.20
1410 1650 1.745115 CAAGATCCGGCGAGCCAAA 60.745 57.895 9.30 1.28 35.37 3.28
1411 1651 2.125147 CAAGATCCGGCGAGCCAA 60.125 61.111 9.30 1.67 35.37 4.52
1426 1666 0.991146 TCCTGATAAGCCACCTGCAA 59.009 50.000 0.00 0.00 44.83 4.08
1438 1678 0.753848 TGCCACCGTCGATCCTGATA 60.754 55.000 0.00 0.00 0.00 2.15
1450 1700 2.409870 GCATCCCTTCTTGCCACCG 61.410 63.158 0.00 0.00 32.66 4.94
1457 1707 2.187946 CCTCGCGCATCCCTTCTT 59.812 61.111 8.75 0.00 0.00 2.52
1462 1712 3.620785 ATCTCCCTCGCGCATCCC 61.621 66.667 8.75 0.00 0.00 3.85
1479 1740 1.228228 GGAATGCTCCATGAGGCCA 59.772 57.895 5.01 0.00 41.96 5.36
1493 1754 5.361285 ACTGACTAATCTACTCGCAAGGAAT 59.639 40.000 0.00 0.00 38.47 3.01
1516 1777 7.279536 CCCATGCATATGATGATCTTACACTAC 59.720 40.741 6.97 0.00 36.36 2.73
1585 1848 5.235186 ACATTCTCTCTCGACAACACAAAAG 59.765 40.000 0.00 0.00 0.00 2.27
1590 1853 4.508124 ACAAACATTCTCTCTCGACAACAC 59.492 41.667 0.00 0.00 0.00 3.32
1621 1902 0.875474 CAACTTTGCTTGCAACCCGG 60.875 55.000 7.60 0.00 0.00 5.73
1622 1903 0.875474 CCAACTTTGCTTGCAACCCG 60.875 55.000 7.60 2.77 0.00 5.28
1623 1904 1.159713 GCCAACTTTGCTTGCAACCC 61.160 55.000 7.60 0.00 0.00 4.11
1624 1905 1.159713 GGCCAACTTTGCTTGCAACC 61.160 55.000 7.60 1.43 0.00 3.77
1636 1917 1.308069 GCGTGTGATGATGGCCAACT 61.308 55.000 10.96 0.00 0.00 3.16
1648 1929 1.428448 CAGAAAGGAATCGCGTGTGA 58.572 50.000 5.77 0.00 0.00 3.58
1649 1930 0.179215 GCAGAAAGGAATCGCGTGTG 60.179 55.000 5.77 0.00 0.00 3.82
1650 1931 0.320771 AGCAGAAAGGAATCGCGTGT 60.321 50.000 5.77 0.00 0.00 4.49
1651 1932 0.798776 AAGCAGAAAGGAATCGCGTG 59.201 50.000 5.77 0.00 0.00 5.34
1653 1934 1.078709 TGAAGCAGAAAGGAATCGCG 58.921 50.000 0.00 0.00 0.00 5.87
1654 1935 2.079925 AGTGAAGCAGAAAGGAATCGC 58.920 47.619 0.00 0.00 0.00 4.58
1655 1936 3.748048 TGAAGTGAAGCAGAAAGGAATCG 59.252 43.478 0.00 0.00 0.00 3.34
1693 2025 3.057315 ACACAACAATCAGGTATGCTTGC 60.057 43.478 0.00 0.00 36.26 4.01
1696 2028 3.347216 GGACACAACAATCAGGTATGCT 58.653 45.455 0.00 0.00 0.00 3.79
1697 2029 2.095853 CGGACACAACAATCAGGTATGC 59.904 50.000 0.00 0.00 0.00 3.14
1698 2030 3.334691 ACGGACACAACAATCAGGTATG 58.665 45.455 0.00 0.00 0.00 2.39
1699 2031 3.695830 ACGGACACAACAATCAGGTAT 57.304 42.857 0.00 0.00 0.00 2.73
1706 2038 2.622942 AGCATCAAACGGACACAACAAT 59.377 40.909 0.00 0.00 0.00 2.71
1725 2059 1.925229 TTGTTTTGCAAGCACTCAGC 58.075 45.000 0.00 0.00 46.19 4.26
1728 2062 5.175673 GGAGTAATTTGTTTTGCAAGCACTC 59.824 40.000 0.00 5.84 38.65 3.51
1749 2094 6.489675 CGATGGATTTAATTCAACTGTGGAG 58.510 40.000 0.00 0.00 0.00 3.86
1750 2095 5.163663 GCGATGGATTTAATTCAACTGTGGA 60.164 40.000 0.00 0.00 0.00 4.02
1753 2098 4.730613 GCGCGATGGATTTAATTCAACTGT 60.731 41.667 12.10 0.00 0.00 3.55
1754 2099 3.725740 GCGCGATGGATTTAATTCAACTG 59.274 43.478 12.10 0.00 0.00 3.16
1755 2100 3.376859 TGCGCGATGGATTTAATTCAACT 59.623 39.130 12.10 0.00 0.00 3.16
1756 2101 3.690422 TGCGCGATGGATTTAATTCAAC 58.310 40.909 12.10 0.00 0.00 3.18
1757 2102 4.362932 TTGCGCGATGGATTTAATTCAA 57.637 36.364 12.10 0.00 0.00 2.69
1758 2103 4.289342 CATTGCGCGATGGATTTAATTCA 58.711 39.130 27.09 0.00 0.00 2.57
1773 2118 3.174573 GCTTTCGTGCCATTGCGC 61.175 61.111 0.00 0.00 44.62 6.09
1774 2119 2.082366 GTGCTTTCGTGCCATTGCG 61.082 57.895 0.00 0.00 41.78 4.85
1775 2120 2.082366 CGTGCTTTCGTGCCATTGC 61.082 57.895 0.00 0.00 38.26 3.56
1776 2121 2.082366 GCGTGCTTTCGTGCCATTG 61.082 57.895 0.00 0.00 0.00 2.82
1777 2122 2.255252 GCGTGCTTTCGTGCCATT 59.745 55.556 0.00 0.00 0.00 3.16
1778 2123 4.088762 CGCGTGCTTTCGTGCCAT 62.089 61.111 0.00 0.00 34.73 4.40
1782 2127 4.724697 CCTGCGCGTGCTTTCGTG 62.725 66.667 23.16 5.25 43.34 4.35
1786 2131 4.947147 TTCCCCTGCGCGTGCTTT 62.947 61.111 23.16 0.00 43.34 3.51
1787 2132 4.947147 TTTCCCCTGCGCGTGCTT 62.947 61.111 23.16 0.00 43.34 3.91
1788 2133 4.722700 ATTTCCCCTGCGCGTGCT 62.723 61.111 23.16 0.00 43.34 4.40
1789 2134 4.179579 GATTTCCCCTGCGCGTGC 62.180 66.667 15.48 15.48 43.20 5.34
1790 2135 2.257286 CTTGATTTCCCCTGCGCGTG 62.257 60.000 8.43 0.36 0.00 5.34
1791 2136 2.033448 TTGATTTCCCCTGCGCGT 59.967 55.556 8.43 0.00 0.00 6.01
1792 2137 1.305219 TTCTTGATTTCCCCTGCGCG 61.305 55.000 0.00 0.00 0.00 6.86
1793 2138 1.106285 ATTCTTGATTTCCCCTGCGC 58.894 50.000 0.00 0.00 0.00 6.09
1794 2139 2.368439 TCATTCTTGATTTCCCCTGCG 58.632 47.619 0.00 0.00 0.00 5.18
1795 2140 4.806640 TTTCATTCTTGATTTCCCCTGC 57.193 40.909 0.00 0.00 0.00 4.85
1796 2141 6.070653 TCCATTTTCATTCTTGATTTCCCCTG 60.071 38.462 0.00 0.00 0.00 4.45
1797 2142 6.024893 TCCATTTTCATTCTTGATTTCCCCT 58.975 36.000 0.00 0.00 0.00 4.79
1798 2143 6.298441 TCCATTTTCATTCTTGATTTCCCC 57.702 37.500 0.00 0.00 0.00 4.81
1799 2144 6.698766 CGATCCATTTTCATTCTTGATTTCCC 59.301 38.462 0.00 0.00 0.00 3.97
1800 2145 7.483307 TCGATCCATTTTCATTCTTGATTTCC 58.517 34.615 0.00 0.00 0.00 3.13
1801 2146 8.915871 TTCGATCCATTTTCATTCTTGATTTC 57.084 30.769 0.00 0.00 0.00 2.17
1804 2149 8.295288 GCTATTCGATCCATTTTCATTCTTGAT 58.705 33.333 0.00 0.00 0.00 2.57
1805 2150 7.282901 TGCTATTCGATCCATTTTCATTCTTGA 59.717 33.333 0.00 0.00 0.00 3.02
1808 2153 6.543465 TGTGCTATTCGATCCATTTTCATTCT 59.457 34.615 0.00 0.00 0.00 2.40
1842 2187 1.271163 GGTTTGTCCCGTGATTCTGGA 60.271 52.381 0.00 0.00 0.00 3.86
1843 2188 1.165270 GGTTTGTCCCGTGATTCTGG 58.835 55.000 0.00 0.00 0.00 3.86
1854 2199 2.551912 CGTGCCACAGGGTTTGTCC 61.552 63.158 0.00 0.00 38.16 4.02
1857 2202 2.721231 CACGTGCCACAGGGTTTG 59.279 61.111 0.82 0.00 36.17 2.93
1914 2278 1.444119 CCGTGTGGACAACCTGTTGG 61.444 60.000 14.05 0.00 44.45 3.77
1942 2315 1.101049 AAGTGGGGTTTGTGCTGACG 61.101 55.000 0.00 0.00 0.00 4.35
1943 2316 1.111277 AAAGTGGGGTTTGTGCTGAC 58.889 50.000 0.00 0.00 0.00 3.51
1944 2317 1.480137 CAAAAGTGGGGTTTGTGCTGA 59.520 47.619 0.00 0.00 32.43 4.26
1945 2318 1.938625 CAAAAGTGGGGTTTGTGCTG 58.061 50.000 0.00 0.00 32.43 4.41
1946 2319 0.177836 GCAAAAGTGGGGTTTGTGCT 59.822 50.000 0.00 0.00 38.09 4.40
1947 2320 0.813610 GGCAAAAGTGGGGTTTGTGC 60.814 55.000 0.00 0.00 38.09 4.57
1949 2322 0.829990 CAGGCAAAAGTGGGGTTTGT 59.170 50.000 0.00 0.00 38.09 2.83
1950 2323 0.532640 GCAGGCAAAAGTGGGGTTTG 60.533 55.000 0.00 0.00 38.69 2.93
1951 2324 1.695114 GGCAGGCAAAAGTGGGGTTT 61.695 55.000 0.00 0.00 0.00 3.27
1952 2325 2.140138 GGCAGGCAAAAGTGGGGTT 61.140 57.895 0.00 0.00 0.00 4.11
1953 2326 2.524148 GGCAGGCAAAAGTGGGGT 60.524 61.111 0.00 0.00 0.00 4.95
1956 2329 1.300080 CGTTGGCAGGCAAAAGTGG 60.300 57.895 11.69 0.00 0.00 4.00
1957 2330 1.950630 GCGTTGGCAGGCAAAAGTG 60.951 57.895 11.69 3.25 39.62 3.16
1958 2331 2.417097 GCGTTGGCAGGCAAAAGT 59.583 55.556 11.69 0.00 39.62 2.66
1959 2332 2.730604 CGCGTTGGCAGGCAAAAG 60.731 61.111 11.69 9.82 39.92 2.27
1960 2333 3.192954 CTCGCGTTGGCAGGCAAAA 62.193 57.895 11.69 0.00 39.92 2.44
1961 2334 3.659092 CTCGCGTTGGCAGGCAAA 61.659 61.111 11.69 0.00 39.92 3.68
1962 2335 4.617520 TCTCGCGTTGGCAGGCAA 62.618 61.111 5.77 5.03 39.92 4.52
1990 2383 1.355971 TTCGCGTCAAAGTAGGATGC 58.644 50.000 5.77 0.00 42.47 3.91
1991 2384 4.398549 TTTTTCGCGTCAAAGTAGGATG 57.601 40.909 5.77 0.00 0.00 3.51
2010 2403 4.344968 CCACTTCTCCAATTGAACCCTTTT 59.655 41.667 7.12 0.00 0.00 2.27
2013 2406 2.225117 CCCACTTCTCCAATTGAACCCT 60.225 50.000 7.12 0.00 0.00 4.34
2014 2407 2.171003 CCCACTTCTCCAATTGAACCC 58.829 52.381 7.12 0.00 0.00 4.11
2015 2408 2.171003 CCCCACTTCTCCAATTGAACC 58.829 52.381 7.12 0.00 0.00 3.62
2016 2409 2.876581 ACCCCACTTCTCCAATTGAAC 58.123 47.619 7.12 0.00 0.00 3.18
2019 2412 4.235079 TGATACCCCACTTCTCCAATTG 57.765 45.455 0.00 0.00 0.00 2.32
2020 2413 4.946160 TTGATACCCCACTTCTCCAATT 57.054 40.909 0.00 0.00 0.00 2.32
2040 2521 1.349026 CATGCGAGAGGTATGGGGATT 59.651 52.381 0.00 0.00 35.35 3.01
2111 2597 8.481314 TGATTCTGTACATAAGCTGAAGAGAAT 58.519 33.333 10.13 4.91 33.27 2.40
2141 2627 9.225436 TGGGAATAAAATAAAAATCAACAAGGC 57.775 29.630 0.00 0.00 0.00 4.35
2161 2650 6.399639 ACTCAACAACGTTTATTTGGGAAT 57.600 33.333 16.95 0.00 0.00 3.01
2167 2656 5.450826 GGTGGGAACTCAACAACGTTTATTT 60.451 40.000 0.00 0.00 0.00 1.40
2219 2708 4.701956 TTAGTTTACGAAGGGAGTACCG 57.298 45.455 0.00 0.00 46.96 4.02


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

AutoCloner maintained by Alex Coulton.