Multiple sequence alignment - TraesCS3D01G537000

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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 TraesCS3D01G537000 chr3D 100.000 2670 0 0 1 2670 610208810 610206141 0.000000e+00 4931
1 TraesCS3D01G537000 chr3D 93.684 95 6 0 2137 2231 66523472 66523378 2.770000e-30 143
2 TraesCS3D01G537000 chr3B 92.231 1197 44 17 782 1947 822115465 822114287 0.000000e+00 1650
3 TraesCS3D01G537000 chr3B 92.160 625 43 4 2051 2670 822114227 822113604 0.000000e+00 878
4 TraesCS3D01G537000 chr3B 90.644 652 53 6 83 730 822116355 822115708 0.000000e+00 859
5 TraesCS3D01G537000 chr3B 92.523 107 3 5 1967 2069 175772585 175772690 5.960000e-32 148
6 TraesCS3D01G537000 chr3B 92.523 107 3 5 1967 2069 175773900 175774005 5.960000e-32 148
7 TraesCS3D01G537000 chr3A 90.765 1072 54 21 850 1907 744392806 744391766 0.000000e+00 1389
8 TraesCS3D01G537000 chr3A 91.091 449 30 7 2228 2670 744391627 744391183 1.370000e-167 599
9 TraesCS3D01G537000 chr1A 81.562 781 71 28 946 1706 6566184 6566911 6.410000e-161 577
10 TraesCS3D01G537000 chr1A 90.123 405 27 7 2270 2670 6550965 6550570 5.100000e-142 514
11 TraesCS3D01G537000 chr1A 88.835 412 26 10 2270 2670 6537398 6536996 3.090000e-134 488
12 TraesCS3D01G537000 chr1A 89.189 111 9 3 2129 2238 537097549 537097657 4.640000e-28 135
13 TraesCS3D01G537000 chr1B 89.474 456 32 8 2226 2670 475148060 475147610 1.790000e-156 562
14 TraesCS3D01G537000 chr1B 88.148 135 13 1 1816 1947 475148350 475148216 9.890000e-35 158
15 TraesCS3D01G537000 chr1B 93.069 101 7 0 1967 2067 465095405 465095505 5.960000e-32 148
16 TraesCS3D01G537000 chr1B 92.857 98 5 2 2142 2238 580632866 580632962 9.970000e-30 141
17 TraesCS3D01G537000 chr5B 86.288 423 32 11 2240 2657 55501867 55502268 1.130000e-118 436
18 TraesCS3D01G537000 chr5B 85.993 307 35 4 1372 1671 55501427 55501732 3.320000e-84 322
19 TraesCS3D01G537000 chr5B 94.845 97 5 0 1967 2063 623100550 623100454 4.600000e-33 152
20 TraesCS3D01G537000 chr1D 90.747 281 22 4 2292 2570 5397741 5398019 3.250000e-99 372
21 TraesCS3D01G537000 chr1D 80.625 160 9 11 1649 1801 5397511 5397655 1.310000e-18 104
22 TraesCS3D01G537000 chr7D 84.765 361 50 4 29 387 626362767 626362410 9.090000e-95 357
23 TraesCS3D01G537000 chr7D 86.232 138 10 5 2299 2427 251447 251584 9.970000e-30 141
24 TraesCS3D01G537000 chr6A 94.845 97 5 0 1967 2063 560694393 560694297 4.600000e-33 152
25 TraesCS3D01G537000 chr5D 94.898 98 4 1 1967 2064 86400951 86401047 4.600000e-33 152
26 TraesCS3D01G537000 chr5D 93.750 96 6 0 2145 2240 439643714 439643619 7.700000e-31 145
27 TraesCS3D01G537000 chr5A 94.845 97 5 0 1967 2063 227472578 227472482 4.600000e-33 152
28 TraesCS3D01G537000 chr5A 89.286 112 10 2 2127 2238 105686842 105686951 3.580000e-29 139
29 TraesCS3D01G537000 chr6B 93.939 99 6 0 1963 2061 435309951 435310049 1.660000e-32 150
30 TraesCS3D01G537000 chr6B 93.684 95 6 0 2143 2237 472612058 472612152 2.770000e-30 143
31 TraesCS3D01G537000 chr2D 93.137 102 5 2 1967 2067 367218184 367218084 5.960000e-32 148
32 TraesCS3D01G537000 chr2B 94.565 92 5 0 2144 2235 197957553 197957462 2.770000e-30 143
33 TraesCS3D01G537000 chr4A 93.684 95 5 1 2143 2237 428159976 428159883 9.970000e-30 141


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 TraesCS3D01G537000 chr3D 610206141 610208810 2669 True 4931 4931 100.000000 1 2670 1 chr3D.!!$R2 2669
1 TraesCS3D01G537000 chr3B 822113604 822116355 2751 True 1129 1650 91.678333 83 2670 3 chr3B.!!$R1 2587
2 TraesCS3D01G537000 chr3A 744391183 744392806 1623 True 994 1389 90.928000 850 2670 2 chr3A.!!$R1 1820
3 TraesCS3D01G537000 chr1A 6566184 6566911 727 False 577 577 81.562000 946 1706 1 chr1A.!!$F1 760
4 TraesCS3D01G537000 chr1B 475147610 475148350 740 True 360 562 88.811000 1816 2670 2 chr1B.!!$R1 854
5 TraesCS3D01G537000 chr5B 55501427 55502268 841 False 379 436 86.140500 1372 2657 2 chr5B.!!$F1 1285
6 TraesCS3D01G537000 chr1D 5397511 5398019 508 False 238 372 85.686000 1649 2570 2 chr1D.!!$F1 921

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
902 1096 0.250124 CCGCTTACAGTGTGGTTCCA 60.25 55.0 5.88 0.0 0.0 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2592 2967 1.200948 GCCAGTGAAGATGAAACCTGC 59.799 52.381 0.0 0.0 0.0 4.85 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
23 24 6.741992 CAAGTTCTTAACTATGCATGACCA 57.258 37.500 10.16 0.00 41.91 4.02
24 25 7.325660 CAAGTTCTTAACTATGCATGACCAT 57.674 36.000 10.16 0.00 41.91 3.55
25 26 6.932356 AGTTCTTAACTATGCATGACCATG 57.068 37.500 10.16 5.67 40.69 3.66
26 27 5.824624 AGTTCTTAACTATGCATGACCATGG 59.175 40.000 11.19 11.19 40.69 3.66
27 28 5.628797 TCTTAACTATGCATGACCATGGA 57.371 39.130 21.47 9.18 43.22 3.41
29 30 7.315066 TCTTAACTATGCATGACCATGGATA 57.685 36.000 21.47 18.66 45.99 2.59
30 31 7.161404 TCTTAACTATGCATGACCATGGATAC 58.839 38.462 21.47 9.95 45.99 2.24
50 51 9.119418 TGGATACACATAATTCCACTACAAATG 57.881 33.333 0.00 0.00 46.17 2.32
51 52 8.076178 GGATACACATAATTCCACTACAAATGC 58.924 37.037 0.00 0.00 0.00 3.56
52 53 6.832520 ACACATAATTCCACTACAAATGCA 57.167 33.333 0.00 0.00 0.00 3.96
53 54 7.408756 ACACATAATTCCACTACAAATGCAT 57.591 32.000 0.00 0.00 0.00 3.96
54 55 8.518430 ACACATAATTCCACTACAAATGCATA 57.482 30.769 0.00 0.00 0.00 3.14
55 56 9.135189 ACACATAATTCCACTACAAATGCATAT 57.865 29.630 0.00 0.00 0.00 1.78
61 62 8.995027 ATTCCACTACAAATGCATATAAAGGA 57.005 30.769 0.00 0.00 0.00 3.36
62 63 7.801716 TCCACTACAAATGCATATAAAGGAC 57.198 36.000 0.00 0.00 0.00 3.85
63 64 7.342581 TCCACTACAAATGCATATAAAGGACA 58.657 34.615 0.00 0.00 0.00 4.02
64 65 7.998383 TCCACTACAAATGCATATAAAGGACAT 59.002 33.333 0.00 0.00 0.00 3.06
65 66 8.292448 CCACTACAAATGCATATAAAGGACATC 58.708 37.037 0.00 0.00 0.00 3.06
66 67 8.839343 CACTACAAATGCATATAAAGGACATCA 58.161 33.333 0.00 0.00 0.00 3.07
67 68 8.840321 ACTACAAATGCATATAAAGGACATCAC 58.160 33.333 0.00 0.00 0.00 3.06
68 69 7.643569 ACAAATGCATATAAAGGACATCACA 57.356 32.000 0.00 0.00 0.00 3.58
69 70 8.065473 ACAAATGCATATAAAGGACATCACAA 57.935 30.769 0.00 0.00 0.00 3.33
70 71 8.530311 ACAAATGCATATAAAGGACATCACAAA 58.470 29.630 0.00 0.00 0.00 2.83
71 72 9.537192 CAAATGCATATAAAGGACATCACAAAT 57.463 29.630 0.00 0.00 0.00 2.32
72 73 9.537192 AAATGCATATAAAGGACATCACAAATG 57.463 29.630 0.00 0.00 0.00 2.32
73 74 7.041635 TGCATATAAAGGACATCACAAATGG 57.958 36.000 0.00 0.00 0.00 3.16
74 75 6.832900 TGCATATAAAGGACATCACAAATGGA 59.167 34.615 0.00 0.00 0.00 3.41
75 76 7.013559 TGCATATAAAGGACATCACAAATGGAG 59.986 37.037 0.00 0.00 0.00 3.86
76 77 7.013655 GCATATAAAGGACATCACAAATGGAGT 59.986 37.037 0.00 0.00 0.00 3.85
77 78 8.906867 CATATAAAGGACATCACAAATGGAGTT 58.093 33.333 0.00 0.00 0.00 3.01
79 80 6.575162 AAAGGACATCACAAATGGAGTTAC 57.425 37.500 0.00 0.00 0.00 2.50
80 81 5.241403 AGGACATCACAAATGGAGTTACA 57.759 39.130 0.00 0.00 0.00 2.41
81 82 5.248640 AGGACATCACAAATGGAGTTACAG 58.751 41.667 0.00 0.00 0.00 2.74
135 136 3.072211 GGCTACAAGTGTAACCAGGAAC 58.928 50.000 6.11 0.00 36.88 3.62
136 137 3.244457 GGCTACAAGTGTAACCAGGAACT 60.244 47.826 6.11 0.00 36.88 3.01
158 159 4.686191 AAATGATGTTGGGAGCAACAAA 57.314 36.364 0.00 0.00 46.45 2.83
161 162 3.992643 TGATGTTGGGAGCAACAAATTG 58.007 40.909 0.00 0.00 46.45 2.32
198 199 5.376854 TTTCTAGAATGCAAGGTTTGAGC 57.623 39.130 5.89 0.00 0.00 4.26
205 206 1.531365 CAAGGTTTGAGCAGGCCCA 60.531 57.895 0.00 0.00 0.00 5.36
215 216 2.158490 TGAGCAGGCCCAAATGCATATA 60.158 45.455 16.24 0.00 45.01 0.86
267 268 4.836125 AAGTTGTGCATAGGACAAAGTG 57.164 40.909 5.67 0.00 35.15 3.16
317 318 4.734398 AACATGAGTTTGGTTTGCTCAA 57.266 36.364 0.00 0.00 41.75 3.02
358 359 5.634859 CACCACCAGAAACATAGCAAAATTC 59.365 40.000 0.00 0.00 0.00 2.17
391 392 8.320617 AGAAACATACACCATTTGCCAAATTAT 58.679 29.630 0.00 0.00 0.00 1.28
404 405 6.482898 TGCCAAATTATGTGCAAATCCTAT 57.517 33.333 0.00 0.00 33.91 2.57
415 416 1.331756 CAAATCCTATGCAGTGCCGAC 59.668 52.381 13.72 0.00 0.00 4.79
430 431 2.488937 TGCCGACTTATACTCAACGACA 59.511 45.455 0.00 0.00 0.00 4.35
432 433 3.106672 CCGACTTATACTCAACGACAGC 58.893 50.000 0.00 0.00 0.00 4.40
444 445 2.549754 CAACGACAGCTTTGAAGTCCAT 59.450 45.455 0.00 0.00 0.00 3.41
463 464 5.065731 GTCCATGAATCTCAAGTTCATCCAC 59.934 44.000 0.00 0.00 42.68 4.02
475 476 0.906775 TCATCCACTCATGCTCTGCA 59.093 50.000 0.00 0.00 44.86 4.41
476 477 1.015109 CATCCACTCATGCTCTGCAC 58.985 55.000 0.00 0.00 43.04 4.57
494 495 2.073816 CACGAGGTTGAATGGTGTACC 58.926 52.381 0.00 0.00 0.00 3.34
505 506 3.703001 ATGGTGTACCTGAGTTTCTGG 57.297 47.619 2.32 1.01 40.80 3.86
511 514 5.394333 GGTGTACCTGAGTTTCTGGTCTATC 60.394 48.000 10.40 0.16 44.03 2.08
549 552 1.081277 GTCTTGGGGTCCCTCTCCT 59.919 63.158 8.15 0.00 37.63 3.69
550 553 0.338814 GTCTTGGGGTCCCTCTCCTA 59.661 60.000 8.15 0.00 37.63 2.94
587 590 7.656412 TCTTGAGAATAGTGTAGAGATGATGC 58.344 38.462 0.00 0.00 0.00 3.91
589 592 5.244851 TGAGAATAGTGTAGAGATGATGCCC 59.755 44.000 0.00 0.00 0.00 5.36
607 610 1.547372 CCCTGGAAAATGCAGAACCTG 59.453 52.381 0.00 0.00 38.14 4.00
618 621 2.907910 CAGAACCTGCAAATTCTCGG 57.092 50.000 8.77 0.00 32.77 4.63
630 633 1.614241 ATTCTCGGTCCTTGTCGGGG 61.614 60.000 0.00 0.00 0.00 5.73
631 634 3.771160 CTCGGTCCTTGTCGGGGG 61.771 72.222 0.00 0.00 0.00 5.40
648 651 2.506438 GCGTACCCTCGACTGCAC 60.506 66.667 0.00 0.00 0.00 4.57
659 662 3.575351 GACTGCACCTTCGGCGACT 62.575 63.158 10.16 0.00 0.00 4.18
668 671 1.566018 CTTCGGCGACTGTGTTTCCC 61.566 60.000 10.16 0.00 0.00 3.97
678 681 3.699538 GACTGTGTTTCCCAAACCTCTTT 59.300 43.478 0.00 0.00 40.67 2.52
682 685 4.159506 TGTGTTTCCCAAACCTCTTTCTTG 59.840 41.667 0.00 0.00 40.67 3.02
683 686 3.132111 TGTTTCCCAAACCTCTTTCTTGC 59.868 43.478 0.00 0.00 40.67 4.01
688 691 3.253432 CCCAAACCTCTTTCTTGCAGTAC 59.747 47.826 0.00 0.00 0.00 2.73
702 705 2.670905 TGCAGTACGATTTCAACATCCG 59.329 45.455 0.00 0.00 0.00 4.18
704 707 3.369756 GCAGTACGATTTCAACATCCGAA 59.630 43.478 0.00 0.00 0.00 4.30
716 719 2.427245 ATCCGAACTCCAGGCGAGG 61.427 63.158 0.00 0.00 43.57 4.63
730 733 1.090052 GCGAGGTAGTTGTGCCCATC 61.090 60.000 0.00 0.00 0.00 3.51
732 735 1.338674 CGAGGTAGTTGTGCCCATCAA 60.339 52.381 0.00 0.00 0.00 2.57
733 736 2.680805 CGAGGTAGTTGTGCCCATCAAT 60.681 50.000 0.00 0.00 0.00 2.57
734 737 2.684881 GAGGTAGTTGTGCCCATCAATG 59.315 50.000 0.00 0.00 0.00 2.82
735 738 1.134946 GGTAGTTGTGCCCATCAATGC 59.865 52.381 0.00 0.00 0.00 3.56
737 740 2.512692 AGTTGTGCCCATCAATGCTA 57.487 45.000 0.00 0.00 0.00 3.49
738 741 2.806434 AGTTGTGCCCATCAATGCTAA 58.194 42.857 0.00 0.00 0.00 3.09
741 773 2.806434 TGTGCCCATCAATGCTAAGTT 58.194 42.857 0.00 0.00 0.00 2.66
743 775 2.754552 GTGCCCATCAATGCTAAGTTCA 59.245 45.455 0.00 0.00 0.00 3.18
745 777 3.193267 TGCCCATCAATGCTAAGTTCAAC 59.807 43.478 0.00 0.00 0.00 3.18
746 778 3.193267 GCCCATCAATGCTAAGTTCAACA 59.807 43.478 0.00 0.00 0.00 3.33
750 782 6.875195 CCCATCAATGCTAAGTTCAACAAATT 59.125 34.615 0.00 0.00 0.00 1.82
751 783 7.063780 CCCATCAATGCTAAGTTCAACAAATTC 59.936 37.037 0.00 0.00 0.00 2.17
754 786 9.768662 ATCAATGCTAAGTTCAACAAATTCTTT 57.231 25.926 0.00 0.00 0.00 2.52
755 787 9.033481 TCAATGCTAAGTTCAACAAATTCTTTG 57.967 29.630 0.00 0.00 45.95 2.77
796 990 1.219393 CTCGAAGTCCAGGGGCTTC 59.781 63.158 20.18 20.18 38.11 3.86
902 1096 0.250124 CCGCTTACAGTGTGGTTCCA 60.250 55.000 5.88 0.00 0.00 3.53
940 1134 0.257616 CTCCTCCTCCTCTCCGTCTT 59.742 60.000 0.00 0.00 0.00 3.01
1140 1372 3.295093 TGCAAATCTTGGTTGTTCCTGA 58.705 40.909 0.00 0.00 37.07 3.86
1235 1473 3.910490 ATCTCCGCTGCTCTCCGC 61.910 66.667 0.00 0.00 39.77 5.54
1302 1541 2.230266 TCAGCTCACTACGTATGTGCAA 59.770 45.455 22.20 13.48 38.68 4.08
1354 1593 7.601856 ACATTGAAATTGAACCGAATGTATGT 58.398 30.769 0.00 0.00 33.40 2.29
1368 1617 0.745845 GTATGTCCTGCCCTGCTGTG 60.746 60.000 0.00 0.00 0.00 3.66
1477 1731 0.250513 ACGGCAAGAAGATCTGGTCC 59.749 55.000 0.00 0.00 0.00 4.46
1609 1863 0.872388 AGTTTGCTTTTACGCGGAGG 59.128 50.000 12.47 0.00 0.00 4.30
1688 1951 1.981256 AGAAAAGGGAATGTGCGTGT 58.019 45.000 0.00 0.00 0.00 4.49
1689 1952 3.134574 AGAAAAGGGAATGTGCGTGTA 57.865 42.857 0.00 0.00 0.00 2.90
1805 2078 8.037166 GGCTCTTTTGTTATCCTGAAATGAAAT 58.963 33.333 0.00 0.00 0.00 2.17
1806 2079 8.866956 GCTCTTTTGTTATCCTGAAATGAAATG 58.133 33.333 0.00 0.00 0.00 2.32
1865 2148 1.493022 TCAGTTGGTGCTAACTTGGGT 59.507 47.619 0.00 0.00 38.78 4.51
1866 2149 1.880027 CAGTTGGTGCTAACTTGGGTC 59.120 52.381 0.00 0.00 38.78 4.46
1871 2154 2.092103 TGGTGCTAACTTGGGTCTTGTT 60.092 45.455 0.00 0.00 0.00 2.83
1917 2200 4.634012 TTTAGCTTCCAGCCTAACTTGA 57.366 40.909 0.00 0.00 43.77 3.02
1951 2280 7.864108 TGGAACACAGGACAAATATATCTTG 57.136 36.000 6.26 6.26 0.00 3.02
1957 2286 5.590259 ACAGGACAAATATATCTTGGTGTGC 59.410 40.000 10.43 0.00 0.00 4.57
1966 2295 9.646522 AAATATATCTTGGTGTGCCTATCTTTT 57.353 29.630 0.00 0.00 35.27 2.27
1968 2297 9.726438 ATATATCTTGGTGTGCCTATCTTTTAC 57.274 33.333 0.00 0.00 35.27 2.01
1969 2298 5.499004 TCTTGGTGTGCCTATCTTTTACT 57.501 39.130 0.00 0.00 35.27 2.24
1970 2299 5.488341 TCTTGGTGTGCCTATCTTTTACTC 58.512 41.667 0.00 0.00 35.27 2.59
1971 2300 4.216411 TGGTGTGCCTATCTTTTACTCC 57.784 45.455 0.00 0.00 35.27 3.85
1972 2301 3.054655 TGGTGTGCCTATCTTTTACTCCC 60.055 47.826 0.00 0.00 35.27 4.30
1973 2302 3.200165 GGTGTGCCTATCTTTTACTCCCT 59.800 47.826 0.00 0.00 0.00 4.20
1974 2303 4.443621 GTGTGCCTATCTTTTACTCCCTC 58.556 47.826 0.00 0.00 0.00 4.30
1975 2304 3.454812 TGTGCCTATCTTTTACTCCCTCC 59.545 47.826 0.00 0.00 0.00 4.30
1976 2305 2.698797 TGCCTATCTTTTACTCCCTCCG 59.301 50.000 0.00 0.00 0.00 4.63
1977 2306 2.699321 GCCTATCTTTTACTCCCTCCGT 59.301 50.000 0.00 0.00 0.00 4.69
1978 2307 3.134262 GCCTATCTTTTACTCCCTCCGTT 59.866 47.826 0.00 0.00 0.00 4.44
1979 2308 4.740034 GCCTATCTTTTACTCCCTCCGTTC 60.740 50.000 0.00 0.00 0.00 3.95
1980 2309 3.908643 ATCTTTTACTCCCTCCGTTCC 57.091 47.619 0.00 0.00 0.00 3.62
1981 2310 2.612000 TCTTTTACTCCCTCCGTTCCA 58.388 47.619 0.00 0.00 0.00 3.53
1982 2311 3.178865 TCTTTTACTCCCTCCGTTCCAT 58.821 45.455 0.00 0.00 0.00 3.41
1983 2312 4.355549 TCTTTTACTCCCTCCGTTCCATA 58.644 43.478 0.00 0.00 0.00 2.74
1984 2313 4.778958 TCTTTTACTCCCTCCGTTCCATAA 59.221 41.667 0.00 0.00 0.00 1.90
1985 2314 5.427481 TCTTTTACTCCCTCCGTTCCATAAT 59.573 40.000 0.00 0.00 0.00 1.28
1986 2315 6.612456 TCTTTTACTCCCTCCGTTCCATAATA 59.388 38.462 0.00 0.00 0.00 0.98
1987 2316 6.415206 TTTACTCCCTCCGTTCCATAATAG 57.585 41.667 0.00 0.00 0.00 1.73
1988 2317 4.194678 ACTCCCTCCGTTCCATAATAGA 57.805 45.455 0.00 0.00 0.00 1.98
1989 2318 4.753186 ACTCCCTCCGTTCCATAATAGAT 58.247 43.478 0.00 0.00 0.00 1.98
1990 2319 4.528596 ACTCCCTCCGTTCCATAATAGATG 59.471 45.833 0.00 0.00 0.00 2.90
1991 2320 4.747583 TCCCTCCGTTCCATAATAGATGA 58.252 43.478 0.00 0.00 0.00 2.92
1992 2321 4.527038 TCCCTCCGTTCCATAATAGATGAC 59.473 45.833 0.00 0.00 0.00 3.06
1993 2322 4.528596 CCCTCCGTTCCATAATAGATGACT 59.471 45.833 0.00 0.00 0.00 3.41
1994 2323 5.336849 CCCTCCGTTCCATAATAGATGACTC 60.337 48.000 0.00 0.00 0.00 3.36
1995 2324 5.243954 CCTCCGTTCCATAATAGATGACTCA 59.756 44.000 0.00 0.00 0.00 3.41
1996 2325 6.239317 CCTCCGTTCCATAATAGATGACTCAA 60.239 42.308 0.00 0.00 0.00 3.02
1997 2326 6.513180 TCCGTTCCATAATAGATGACTCAAC 58.487 40.000 0.00 0.00 0.00 3.18
1998 2327 6.323996 TCCGTTCCATAATAGATGACTCAACT 59.676 38.462 0.00 0.00 0.00 3.16
1999 2328 6.986817 CCGTTCCATAATAGATGACTCAACTT 59.013 38.462 0.00 0.00 0.00 2.66
2000 2329 7.495934 CCGTTCCATAATAGATGACTCAACTTT 59.504 37.037 0.00 0.00 0.00 2.66
2001 2330 8.331022 CGTTCCATAATAGATGACTCAACTTTG 58.669 37.037 0.00 0.00 0.00 2.77
2002 2331 9.167311 GTTCCATAATAGATGACTCAACTTTGT 57.833 33.333 0.00 0.00 0.00 2.83
2004 2333 9.817809 TCCATAATAGATGACTCAACTTTGTAC 57.182 33.333 0.00 0.00 0.00 2.90
2005 2334 9.823647 CCATAATAGATGACTCAACTTTGTACT 57.176 33.333 0.00 0.00 0.00 2.73
2028 2357 8.983702 ACTAACTTTAGTACAAAATTGGGTCA 57.016 30.769 0.00 0.00 41.92 4.02
2029 2358 9.582648 ACTAACTTTAGTACAAAATTGGGTCAT 57.417 29.630 0.00 0.00 41.92 3.06
2031 2360 8.706322 AACTTTAGTACAAAATTGGGTCATCT 57.294 30.769 0.00 0.00 0.00 2.90
2041 2370 7.877612 ACAAAATTGGGTCATCTATTTTGGAAC 59.122 33.333 19.76 0.00 45.43 3.62
2042 2371 5.835113 ATTGGGTCATCTATTTTGGAACG 57.165 39.130 0.00 0.00 0.00 3.95
2044 2373 3.264706 TGGGTCATCTATTTTGGAACGGA 59.735 43.478 0.00 0.00 0.00 4.69
2045 2374 3.877508 GGGTCATCTATTTTGGAACGGAG 59.122 47.826 0.00 0.00 0.00 4.63
2046 2375 3.877508 GGTCATCTATTTTGGAACGGAGG 59.122 47.826 0.00 0.00 0.00 4.30
2048 2377 3.778075 TCATCTATTTTGGAACGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
2049 2378 3.906720 TCTATTTTGGAACGGAGGGAG 57.093 47.619 0.00 0.00 0.00 4.30
2069 2421 5.927115 GGGAGTAGCTATTAGTATGTTGTGC 59.073 44.000 0.00 0.00 0.00 4.57
2070 2422 5.927115 GGAGTAGCTATTAGTATGTTGTGCC 59.073 44.000 0.00 0.00 0.00 5.01
2080 2432 3.511146 AGTATGTTGTGCCCAATTTCCAG 59.489 43.478 0.00 0.00 32.11 3.86
2084 2436 2.365293 GTTGTGCCCAATTTCCAGTCTT 59.635 45.455 0.00 0.00 32.11 3.01
2105 2458 9.300681 AGTCTTCATTTTGAAAATGGATGTCTA 57.699 29.630 25.29 6.37 35.73 2.59
2157 2516 9.931698 TTCTTATTAGATTGTACTCCCTCTGTA 57.068 33.333 0.00 0.00 0.00 2.74
2172 2531 8.425703 ACTCCCTCTGTAAAGAAATATAAGAGC 58.574 37.037 0.00 0.00 0.00 4.09
2173 2532 8.319057 TCCCTCTGTAAAGAAATATAAGAGCA 57.681 34.615 0.00 0.00 0.00 4.26
2322 2686 5.413833 GCAATCTGAATTCAACCTCTTCTCA 59.586 40.000 9.88 0.00 0.00 3.27
2336 2700 5.049167 CCTCTTCTCATGTGCATTACTCTC 58.951 45.833 0.00 0.00 0.00 3.20
2368 2737 6.346096 TCACTGTAGCCCATTTATCTTGTAC 58.654 40.000 0.00 0.00 0.00 2.90
2432 2801 8.458052 TCGTGATAACCGTAAAGTTGTAGATTA 58.542 33.333 0.00 0.00 0.00 1.75
2505 2876 3.005050 AGAGGTGACGTGTCAAATCGTAA 59.995 43.478 3.92 0.00 41.85 3.18
2592 2967 2.813908 GGTTCTAGTGCCGCACGG 60.814 66.667 17.64 14.20 39.64 4.94
2631 3008 4.343231 TGGCAAATCTGTCACATGGTTAT 58.657 39.130 0.00 0.00 30.26 1.89
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.741992 TGGTCATGCATAGTTAAGAACTTG 57.258 37.500 0.00 0.00 42.81 3.16
1 2 6.319658 CCATGGTCATGCATAGTTAAGAACTT 59.680 38.462 2.57 0.00 38.88 2.66
2 3 5.824624 CCATGGTCATGCATAGTTAAGAACT 59.175 40.000 2.57 0.00 40.14 3.01
3 4 5.822519 TCCATGGTCATGCATAGTTAAGAAC 59.177 40.000 12.58 0.00 37.49 3.01
4 5 6.000246 TCCATGGTCATGCATAGTTAAGAA 58.000 37.500 12.58 0.00 37.49 2.52
5 6 5.628797 TCCATGGTCATGCATAGTTAAGA 57.371 39.130 12.58 0.00 37.49 2.10
6 7 6.936335 TGTATCCATGGTCATGCATAGTTAAG 59.064 38.462 12.58 0.00 37.49 1.85
7 8 6.710295 GTGTATCCATGGTCATGCATAGTTAA 59.290 38.462 12.58 0.00 37.49 2.01
8 9 6.183361 TGTGTATCCATGGTCATGCATAGTTA 60.183 38.462 12.58 0.00 37.49 2.24
9 10 5.065914 GTGTATCCATGGTCATGCATAGTT 58.934 41.667 12.58 0.00 37.49 2.24
10 11 4.102996 TGTGTATCCATGGTCATGCATAGT 59.897 41.667 12.58 0.00 37.49 2.12
11 12 4.644498 TGTGTATCCATGGTCATGCATAG 58.356 43.478 12.58 0.00 37.49 2.23
12 13 4.703379 TGTGTATCCATGGTCATGCATA 57.297 40.909 12.58 4.29 37.49 3.14
13 14 3.581265 TGTGTATCCATGGTCATGCAT 57.419 42.857 12.58 0.00 37.49 3.96
14 15 3.581265 ATGTGTATCCATGGTCATGCA 57.419 42.857 12.58 5.86 37.49 3.96
15 16 6.349611 GGAATTATGTGTATCCATGGTCATGC 60.350 42.308 12.58 2.97 37.49 4.06
16 17 6.716173 TGGAATTATGTGTATCCATGGTCATG 59.284 38.462 12.58 4.09 37.05 3.07
17 18 6.716628 GTGGAATTATGTGTATCCATGGTCAT 59.283 38.462 12.58 11.75 43.41 3.06
18 19 6.061441 GTGGAATTATGTGTATCCATGGTCA 58.939 40.000 12.58 7.25 43.41 4.02
19 20 6.299141 AGTGGAATTATGTGTATCCATGGTC 58.701 40.000 12.58 4.59 43.41 4.02
20 21 6.266131 AGTGGAATTATGTGTATCCATGGT 57.734 37.500 12.58 1.59 43.41 3.55
21 22 7.223584 TGTAGTGGAATTATGTGTATCCATGG 58.776 38.462 4.97 4.97 43.41 3.66
22 23 8.675705 TTGTAGTGGAATTATGTGTATCCATG 57.324 34.615 0.00 0.00 43.41 3.66
23 24 9.866655 ATTTGTAGTGGAATTATGTGTATCCAT 57.133 29.630 0.00 0.00 43.41 3.41
24 25 9.119418 CATTTGTAGTGGAATTATGTGTATCCA 57.881 33.333 0.00 0.00 39.57 3.41
25 26 8.076178 GCATTTGTAGTGGAATTATGTGTATCC 58.924 37.037 0.00 0.00 0.00 2.59
26 27 8.620416 TGCATTTGTAGTGGAATTATGTGTATC 58.380 33.333 0.00 0.00 0.00 2.24
27 28 8.518430 TGCATTTGTAGTGGAATTATGTGTAT 57.482 30.769 0.00 0.00 0.00 2.29
28 29 7.929941 TGCATTTGTAGTGGAATTATGTGTA 57.070 32.000 0.00 0.00 0.00 2.90
29 30 6.832520 TGCATTTGTAGTGGAATTATGTGT 57.167 33.333 0.00 0.00 0.00 3.72
35 36 9.420118 TCCTTTATATGCATTTGTAGTGGAATT 57.580 29.630 3.54 0.00 0.00 2.17
36 37 8.850156 GTCCTTTATATGCATTTGTAGTGGAAT 58.150 33.333 3.54 0.00 0.00 3.01
37 38 7.831690 TGTCCTTTATATGCATTTGTAGTGGAA 59.168 33.333 3.54 0.00 0.00 3.53
38 39 7.342581 TGTCCTTTATATGCATTTGTAGTGGA 58.657 34.615 3.54 2.06 0.00 4.02
39 40 7.566760 TGTCCTTTATATGCATTTGTAGTGG 57.433 36.000 3.54 0.00 0.00 4.00
40 41 8.839343 TGATGTCCTTTATATGCATTTGTAGTG 58.161 33.333 3.54 0.00 0.00 2.74
41 42 8.840321 GTGATGTCCTTTATATGCATTTGTAGT 58.160 33.333 3.54 0.00 0.00 2.73
42 43 8.839343 TGTGATGTCCTTTATATGCATTTGTAG 58.161 33.333 3.54 0.00 0.00 2.74
43 44 8.744568 TGTGATGTCCTTTATATGCATTTGTA 57.255 30.769 3.54 0.00 0.00 2.41
44 45 7.643569 TGTGATGTCCTTTATATGCATTTGT 57.356 32.000 3.54 0.00 0.00 2.83
45 46 8.929827 TTTGTGATGTCCTTTATATGCATTTG 57.070 30.769 3.54 0.00 0.00 2.32
46 47 9.537192 CATTTGTGATGTCCTTTATATGCATTT 57.463 29.630 3.54 0.00 0.00 2.32
47 48 8.145767 CCATTTGTGATGTCCTTTATATGCATT 58.854 33.333 3.54 0.00 0.00 3.56
48 49 7.506599 TCCATTTGTGATGTCCTTTATATGCAT 59.493 33.333 3.79 3.79 0.00 3.96
49 50 6.832900 TCCATTTGTGATGTCCTTTATATGCA 59.167 34.615 0.00 0.00 0.00 3.96
50 51 7.013655 ACTCCATTTGTGATGTCCTTTATATGC 59.986 37.037 0.00 0.00 0.00 3.14
51 52 8.455903 ACTCCATTTGTGATGTCCTTTATATG 57.544 34.615 0.00 0.00 0.00 1.78
53 54 9.391006 GTAACTCCATTTGTGATGTCCTTTATA 57.609 33.333 0.00 0.00 0.00 0.98
54 55 7.888021 TGTAACTCCATTTGTGATGTCCTTTAT 59.112 33.333 0.00 0.00 0.00 1.40
55 56 7.227873 TGTAACTCCATTTGTGATGTCCTTTA 58.772 34.615 0.00 0.00 0.00 1.85
56 57 6.068010 TGTAACTCCATTTGTGATGTCCTTT 58.932 36.000 0.00 0.00 0.00 3.11
57 58 5.630121 TGTAACTCCATTTGTGATGTCCTT 58.370 37.500 0.00 0.00 0.00 3.36
58 59 5.013079 TCTGTAACTCCATTTGTGATGTCCT 59.987 40.000 0.00 0.00 0.00 3.85
59 60 5.245531 TCTGTAACTCCATTTGTGATGTCC 58.754 41.667 0.00 0.00 0.00 4.02
60 61 6.428159 AGTTCTGTAACTCCATTTGTGATGTC 59.572 38.462 0.00 0.00 42.42 3.06
61 62 6.299141 AGTTCTGTAACTCCATTTGTGATGT 58.701 36.000 0.00 0.00 42.42 3.06
62 63 6.808008 AGTTCTGTAACTCCATTTGTGATG 57.192 37.500 0.00 0.00 42.42 3.07
77 78 9.338622 TGTTTCGATCATATCTAGAGTTCTGTA 57.661 33.333 0.00 0.00 0.00 2.74
78 79 8.226819 TGTTTCGATCATATCTAGAGTTCTGT 57.773 34.615 0.00 0.00 0.00 3.41
79 80 9.179552 CTTGTTTCGATCATATCTAGAGTTCTG 57.820 37.037 0.00 0.00 0.00 3.02
80 81 9.126151 TCTTGTTTCGATCATATCTAGAGTTCT 57.874 33.333 0.00 0.00 0.00 3.01
81 82 9.737427 TTCTTGTTTCGATCATATCTAGAGTTC 57.263 33.333 0.00 0.00 0.00 3.01
95 96 4.003648 AGCCTTTCGATTCTTGTTTCGAT 58.996 39.130 0.00 0.00 43.23 3.59
161 162 7.967178 CATTCTAGAAATGCAAATGGTTTTCC 58.033 34.615 9.71 0.00 41.14 3.13
198 199 7.215789 TGTATTTTTATATGCATTTGGGCCTG 58.784 34.615 3.54 0.00 0.00 4.85
215 216 8.429237 TCCTTTGTACAATCCCATGTATTTTT 57.571 30.769 9.56 0.00 38.03 1.94
232 233 4.642437 TGCACAACTTTCACATCCTTTGTA 59.358 37.500 0.00 0.00 36.57 2.41
238 239 4.009675 TCCTATGCACAACTTTCACATCC 58.990 43.478 0.00 0.00 0.00 3.51
317 318 4.432712 GTGGTGCACTTTGTTCTCAAATT 58.567 39.130 17.98 0.00 41.77 1.82
334 335 4.582701 TTTTGCTATGTTTCTGGTGGTG 57.417 40.909 0.00 0.00 0.00 4.17
358 359 5.964958 AATGGTGTATGTTTCTTGACCAG 57.035 39.130 0.00 0.00 36.93 4.00
374 375 4.001652 TGCACATAATTTGGCAAATGGTG 58.998 39.130 29.26 29.26 34.27 4.17
391 392 1.473677 GCACTGCATAGGATTTGCACA 59.526 47.619 0.00 0.00 44.73 4.57
399 400 1.480789 TAAGTCGGCACTGCATAGGA 58.519 50.000 2.82 0.00 31.06 2.94
404 405 1.822371 TGAGTATAAGTCGGCACTGCA 59.178 47.619 2.82 0.00 31.06 4.41
408 409 2.850647 GTCGTTGAGTATAAGTCGGCAC 59.149 50.000 0.00 0.00 0.00 5.01
415 416 6.366332 ACTTCAAAGCTGTCGTTGAGTATAAG 59.634 38.462 0.00 0.00 40.68 1.73
430 431 4.914983 TGAGATTCATGGACTTCAAAGCT 58.085 39.130 0.00 0.00 0.00 3.74
432 433 6.814506 ACTTGAGATTCATGGACTTCAAAG 57.185 37.500 4.15 0.00 0.00 2.77
444 445 5.488262 TGAGTGGATGAACTTGAGATTCA 57.512 39.130 0.00 0.00 40.25 2.57
475 476 1.975680 AGGTACACCATTCAACCTCGT 59.024 47.619 0.38 0.00 37.87 4.18
476 477 2.028476 TCAGGTACACCATTCAACCTCG 60.028 50.000 0.38 0.00 40.39 4.63
494 495 5.395103 CCTGAAGGATAGACCAGAAACTCAG 60.395 48.000 0.00 0.00 42.04 3.35
505 506 5.372373 CTTGGATTTCCCTGAAGGATAGAC 58.628 45.833 0.00 0.00 46.94 2.59
511 514 2.310052 ACTCCTTGGATTTCCCTGAAGG 59.690 50.000 7.56 7.56 37.79 3.46
527 530 1.081277 GAGGGACCCCAAGACTCCT 59.919 63.158 7.00 0.00 38.92 3.69
528 531 0.978667 GAGAGGGACCCCAAGACTCC 60.979 65.000 7.00 0.00 38.92 3.85
575 578 3.845781 TTTCCAGGGCATCATCTCTAC 57.154 47.619 0.00 0.00 0.00 2.59
576 579 4.722220 CATTTTCCAGGGCATCATCTCTA 58.278 43.478 0.00 0.00 0.00 2.43
585 588 0.968405 GTTCTGCATTTTCCAGGGCA 59.032 50.000 0.00 0.00 34.66 5.36
587 590 1.547372 CAGGTTCTGCATTTTCCAGGG 59.453 52.381 0.00 0.00 0.00 4.45
607 610 1.128692 CGACAAGGACCGAGAATTTGC 59.871 52.381 0.00 0.00 0.00 3.68
608 611 1.732259 CCGACAAGGACCGAGAATTTG 59.268 52.381 0.00 0.00 45.00 2.32
611 614 1.614241 CCCCGACAAGGACCGAGAAT 61.614 60.000 0.00 0.00 45.00 2.40
618 621 3.384532 TACGCCCCCGACAAGGAC 61.385 66.667 0.00 0.00 45.00 3.85
630 633 3.755628 TGCAGTCGAGGGTACGCC 61.756 66.667 6.27 0.00 0.00 5.68
631 634 2.506438 GTGCAGTCGAGGGTACGC 60.506 66.667 0.77 0.77 0.00 4.42
632 635 1.874345 AAGGTGCAGTCGAGGGTACG 61.874 60.000 0.00 0.00 0.00 3.67
633 636 0.108756 GAAGGTGCAGTCGAGGGTAC 60.109 60.000 0.00 0.00 0.00 3.34
634 637 1.592400 CGAAGGTGCAGTCGAGGGTA 61.592 60.000 8.32 0.00 39.64 3.69
659 662 3.976015 AGAAAGAGGTTTGGGAAACACA 58.024 40.909 0.00 0.00 43.15 3.72
668 671 3.807622 TCGTACTGCAAGAAAGAGGTTTG 59.192 43.478 0.00 0.00 37.43 2.93
678 681 4.391830 GGATGTTGAAATCGTACTGCAAGA 59.608 41.667 0.00 0.00 37.43 3.02
682 685 2.927477 TCGGATGTTGAAATCGTACTGC 59.073 45.455 0.00 0.00 0.00 4.40
683 686 4.625742 AGTTCGGATGTTGAAATCGTACTG 59.374 41.667 0.00 0.00 0.00 2.74
688 691 3.000041 TGGAGTTCGGATGTTGAAATCG 59.000 45.455 0.00 0.00 40.35 3.34
702 705 0.896226 AACTACCTCGCCTGGAGTTC 59.104 55.000 0.00 0.00 41.46 3.01
704 707 0.542232 ACAACTACCTCGCCTGGAGT 60.542 55.000 0.00 0.00 41.46 3.85
716 719 2.094675 AGCATTGATGGGCACAACTAC 58.905 47.619 0.00 0.00 0.00 2.73
759 791 9.174166 ACTTCGAGTAAATTTGTATGGCTTTAT 57.826 29.630 0.00 0.00 0.00 1.40
766 798 6.037172 CCCTGGACTTCGAGTAAATTTGTATG 59.963 42.308 0.00 0.00 0.00 2.39
769 801 4.324267 CCCTGGACTTCGAGTAAATTTGT 58.676 43.478 0.00 0.00 0.00 2.83
770 802 3.689649 CCCCTGGACTTCGAGTAAATTTG 59.310 47.826 0.00 0.00 0.00 2.32
771 803 3.872630 GCCCCTGGACTTCGAGTAAATTT 60.873 47.826 0.00 0.00 0.00 1.82
773 805 1.209747 GCCCCTGGACTTCGAGTAAAT 59.790 52.381 0.00 0.00 0.00 1.40
774 806 0.611714 GCCCCTGGACTTCGAGTAAA 59.388 55.000 0.00 0.00 0.00 2.01
780 812 0.462759 GATGAAGCCCCTGGACTTCG 60.463 60.000 18.50 0.00 44.24 3.79
796 990 4.889832 AAAGGAGCTAATCTTTGCGATG 57.110 40.909 7.97 0.00 32.63 3.84
824 1018 2.094675 CCAGGCCTATTTTCCTGTGTG 58.905 52.381 3.98 0.00 46.43 3.82
830 1024 2.175715 AGATGGACCAGGCCTATTTTCC 59.824 50.000 3.98 9.61 0.00 3.13
838 1032 0.842635 AGATGAAGATGGACCAGGCC 59.157 55.000 0.00 0.00 0.00 5.19
845 1039 1.866015 ACCCGTCAGATGAAGATGGA 58.134 50.000 3.10 0.00 43.43 3.41
902 1096 4.495690 GAGGAGCAAATCTTCCTTACCT 57.504 45.455 0.00 0.00 31.88 3.08
1140 1372 3.614092 ACAAATCAGATCAACATCGGCT 58.386 40.909 0.00 0.00 33.75 5.52
1246 1484 2.209064 TACCTGAAGGCGCGAGTGAC 62.209 60.000 12.10 0.00 39.32 3.67
1302 1541 4.737946 GCGGATCAGCTAGTTATCTGTGTT 60.738 45.833 10.86 0.00 0.00 3.32
1354 1593 3.170672 ACACACAGCAGGGCAGGA 61.171 61.111 0.00 0.00 0.00 3.86
1368 1617 1.353103 GAGCTGCACACACACACAC 59.647 57.895 1.02 0.00 0.00 3.82
1477 1731 1.372087 GCAGAATGGAAGACCTGCGG 61.372 60.000 0.00 0.00 41.86 5.69
1519 1773 3.994392 GAGTCTTGCCGTTGTAAATGAGA 59.006 43.478 0.00 0.00 33.73 3.27
1688 1951 7.788026 ACAATATCGTAACCTCACCTTTCATA 58.212 34.615 0.00 0.00 0.00 2.15
1689 1952 6.650120 ACAATATCGTAACCTCACCTTTCAT 58.350 36.000 0.00 0.00 0.00 2.57
1805 2078 3.572255 AGCCGCAACTAAAGGAAATTTCA 59.428 39.130 19.49 0.00 32.01 2.69
1806 2079 3.920412 CAGCCGCAACTAAAGGAAATTTC 59.080 43.478 9.83 9.83 32.01 2.17
1807 2080 3.306019 CCAGCCGCAACTAAAGGAAATTT 60.306 43.478 0.00 0.00 34.72 1.82
1808 2081 2.231235 CCAGCCGCAACTAAAGGAAATT 59.769 45.455 0.00 0.00 0.00 1.82
1809 2082 1.818674 CCAGCCGCAACTAAAGGAAAT 59.181 47.619 0.00 0.00 0.00 2.17
1917 2200 4.042062 TGTCCTGTGTTCCATCATTTCTCT 59.958 41.667 0.00 0.00 0.00 3.10
1943 2226 8.934697 AGTAAAAGATAGGCACACCAAGATATA 58.065 33.333 0.00 0.00 39.06 0.86
1951 2280 3.200165 AGGGAGTAAAAGATAGGCACACC 59.800 47.826 0.00 0.00 0.00 4.16
1957 2286 4.202233 GGAACGGAGGGAGTAAAAGATAGG 60.202 50.000 0.00 0.00 0.00 2.57
1966 2295 5.329191 TCTATTATGGAACGGAGGGAGTA 57.671 43.478 0.00 0.00 0.00 2.59
1967 2296 4.194678 TCTATTATGGAACGGAGGGAGT 57.805 45.455 0.00 0.00 0.00 3.85
1968 2297 4.772624 TCATCTATTATGGAACGGAGGGAG 59.227 45.833 0.00 0.00 0.00 4.30
1969 2298 4.527038 GTCATCTATTATGGAACGGAGGGA 59.473 45.833 0.00 0.00 0.00 4.20
1970 2299 4.528596 AGTCATCTATTATGGAACGGAGGG 59.471 45.833 0.00 0.00 0.00 4.30
1971 2300 5.243954 TGAGTCATCTATTATGGAACGGAGG 59.756 44.000 0.00 0.00 0.00 4.30
1972 2301 6.332735 TGAGTCATCTATTATGGAACGGAG 57.667 41.667 0.00 0.00 0.00 4.63
1973 2302 6.323996 AGTTGAGTCATCTATTATGGAACGGA 59.676 38.462 1.70 0.00 0.00 4.69
1974 2303 6.516718 AGTTGAGTCATCTATTATGGAACGG 58.483 40.000 1.70 0.00 0.00 4.44
1975 2304 8.331022 CAAAGTTGAGTCATCTATTATGGAACG 58.669 37.037 4.14 0.00 0.00 3.95
1976 2305 9.167311 ACAAAGTTGAGTCATCTATTATGGAAC 57.833 33.333 4.14 0.00 0.00 3.62
1978 2307 9.817809 GTACAAAGTTGAGTCATCTATTATGGA 57.182 33.333 4.14 0.00 0.00 3.41
1979 2308 9.823647 AGTACAAAGTTGAGTCATCTATTATGG 57.176 33.333 4.14 0.00 0.00 2.74
2003 2332 8.983702 TGACCCAATTTTGTACTAAAGTTAGT 57.016 30.769 8.41 8.67 45.39 2.24
2005 2334 9.802039 AGATGACCCAATTTTGTACTAAAGTTA 57.198 29.630 8.41 0.00 0.00 2.24
2006 2335 8.706322 AGATGACCCAATTTTGTACTAAAGTT 57.294 30.769 8.41 1.83 0.00 2.66
2007 2336 9.975218 ATAGATGACCCAATTTTGTACTAAAGT 57.025 29.630 8.41 2.98 0.00 2.66
2012 2341 8.531146 CCAAAATAGATGACCCAATTTTGTACT 58.469 33.333 14.67 0.00 43.14 2.73
2013 2342 8.527810 TCCAAAATAGATGACCCAATTTTGTAC 58.472 33.333 14.67 0.00 43.14 2.90
2014 2343 8.657387 TCCAAAATAGATGACCCAATTTTGTA 57.343 30.769 14.67 1.18 43.14 2.41
2015 2344 7.552050 TCCAAAATAGATGACCCAATTTTGT 57.448 32.000 14.67 0.00 43.14 2.83
2016 2345 7.063308 CGTTCCAAAATAGATGACCCAATTTTG 59.937 37.037 10.80 10.80 43.77 2.44
2017 2346 7.096551 CGTTCCAAAATAGATGACCCAATTTT 58.903 34.615 0.00 0.00 33.07 1.82
2018 2347 6.350949 CCGTTCCAAAATAGATGACCCAATTT 60.351 38.462 0.00 0.00 0.00 1.82
2019 2348 5.127031 CCGTTCCAAAATAGATGACCCAATT 59.873 40.000 0.00 0.00 0.00 2.32
2020 2349 4.644685 CCGTTCCAAAATAGATGACCCAAT 59.355 41.667 0.00 0.00 0.00 3.16
2021 2350 4.013728 CCGTTCCAAAATAGATGACCCAA 58.986 43.478 0.00 0.00 0.00 4.12
2022 2351 3.264706 TCCGTTCCAAAATAGATGACCCA 59.735 43.478 0.00 0.00 0.00 4.51
2023 2352 3.877508 CTCCGTTCCAAAATAGATGACCC 59.122 47.826 0.00 0.00 0.00 4.46
2024 2353 3.877508 CCTCCGTTCCAAAATAGATGACC 59.122 47.826 0.00 0.00 0.00 4.02
2025 2354 3.877508 CCCTCCGTTCCAAAATAGATGAC 59.122 47.826 0.00 0.00 0.00 3.06
2026 2355 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
2027 2356 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
2028 2357 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
2029 2358 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
2030 2359 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
2031 2360 3.118519 GCTACTCCCTCCGTTCCAAAATA 60.119 47.826 0.00 0.00 0.00 1.40
2041 2370 5.254901 ACATACTAATAGCTACTCCCTCCG 58.745 45.833 0.00 0.00 0.00 4.63
2042 2371 6.494146 ACAACATACTAATAGCTACTCCCTCC 59.506 42.308 0.00 0.00 0.00 4.30
2044 2373 6.239345 GCACAACATACTAATAGCTACTCCCT 60.239 42.308 0.00 0.00 0.00 4.20
2045 2374 5.927115 GCACAACATACTAATAGCTACTCCC 59.073 44.000 0.00 0.00 0.00 4.30
2046 2375 5.927115 GGCACAACATACTAATAGCTACTCC 59.073 44.000 0.00 0.00 0.00 3.85
2048 2377 5.365605 TGGGCACAACATACTAATAGCTACT 59.634 40.000 0.00 0.00 0.00 2.57
2049 2378 5.607477 TGGGCACAACATACTAATAGCTAC 58.393 41.667 0.00 0.00 0.00 3.58
2069 2421 6.100404 TCAAAATGAAGACTGGAAATTGGG 57.900 37.500 0.00 0.00 0.00 4.12
2070 2422 8.436046 TTTTCAAAATGAAGACTGGAAATTGG 57.564 30.769 0.00 0.00 37.70 3.16
2080 2432 9.565213 CTAGACATCCATTTTCAAAATGAAGAC 57.435 33.333 22.25 12.01 37.70 3.01
2084 2436 9.177608 CTACCTAGACATCCATTTTCAAAATGA 57.822 33.333 22.25 10.15 0.00 2.57
2234 2593 9.573133 CTGATCTTTTTGGTATGGTAATGAAAC 57.427 33.333 0.00 0.00 0.00 2.78
2267 2630 3.517901 TGATCTACCCAACCAATCTTCGT 59.482 43.478 0.00 0.00 0.00 3.85
2322 2686 7.446625 AGTGAAGAAAAAGAGAGTAATGCACAT 59.553 33.333 0.00 0.00 0.00 3.21
2336 2700 5.712152 AATGGGCTACAGTGAAGAAAAAG 57.288 39.130 0.00 0.00 0.00 2.27
2368 2737 3.221771 TGTCCAGAGGTTGAAATTGTGG 58.778 45.455 0.00 0.00 0.00 4.17
2592 2967 1.200948 GCCAGTGAAGATGAAACCTGC 59.799 52.381 0.00 0.00 0.00 4.85
2631 3008 1.966901 AACGTCACAGTCACCTGCCA 61.967 55.000 0.00 0.00 42.81 4.92


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

AutoCloner maintained by Alex Coulton.