Multiple sequence alignment - TraesCS6B01G369600

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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 TraesCS6B01G369600 chr6B 100.000 2246 0 0 1 2246 643252582 643250337 0.000000e+00 4148.0
1 TraesCS6B01G369600 chr6B 96.296 108 4 0 2022 2129 643245155 643245048 6.370000e-41 178.0
2 TraesCS6B01G369600 chr6B 81.977 172 16 5 2012 2169 125080022 125079852 5.030000e-27 132.0
3 TraesCS6B01G369600 chr6D 88.172 1116 63 18 781 1875 427340707 427339640 0.000000e+00 1266.0
4 TraesCS6B01G369600 chr6D 82.677 254 35 4 10 261 58248700 58248454 1.350000e-52 217.0
5 TraesCS6B01G369600 chr6D 87.435 191 19 5 366 555 58248168 58247982 4.860000e-52 215.0
6 TraesCS6B01G369600 chr6D 92.537 134 5 2 1872 2004 427339511 427339382 1.060000e-43 187.0
7 TraesCS6B01G369600 chr6D 87.919 149 6 6 2102 2246 294414802 294414942 4.960000e-37 165.0
8 TraesCS6B01G369600 chr6D 93.103 58 4 0 723 780 427342403 427342346 3.970000e-13 86.1
9 TraesCS6B01G369600 chr6A 90.560 625 40 9 670 1281 572104374 572103756 0.000000e+00 809.0
10 TraesCS6B01G369600 chr6A 88.304 513 31 13 1500 2003 572103583 572103091 2.480000e-164 588.0
11 TraesCS6B01G369600 chr6A 84.643 280 40 2 266 542 532717393 532717672 2.200000e-70 276.0
12 TraesCS6B01G369600 chr6A 80.237 253 48 2 10 261 46560517 46560266 2.940000e-44 189.0
13 TraesCS6B01G369600 chr6A 95.122 82 3 1 542 623 572104456 572104376 6.510000e-26 128.0
14 TraesCS6B01G369600 chr4A 88.889 252 8 3 2009 2246 693896131 693895886 2.180000e-75 292.0
15 TraesCS6B01G369600 chr4A 85.514 214 17 10 2012 2220 693892598 693892394 6.280000e-51 211.0
16 TraesCS6B01G369600 chr2B 88.755 249 9 2 2012 2246 144028646 144028403 1.020000e-73 287.0
17 TraesCS6B01G369600 chr2B 89.565 230 5 3 2031 2246 144029622 144029846 7.900000e-70 274.0
18 TraesCS6B01G369600 chr2B 83.832 167 17 5 2083 2246 359070277 359070436 1.390000e-32 150.0
19 TraesCS6B01G369600 chr4B 88.259 247 10 2 2012 2244 289064282 289064041 6.110000e-71 278.0
20 TraesCS6B01G369600 chr5D 83.969 262 42 0 1 262 243809951 243809690 3.700000e-63 252.0
21 TraesCS6B01G369600 chr5D 87.363 182 18 5 366 544 243809464 243809285 1.050000e-48 204.0
22 TraesCS6B01G369600 chr7A 82.807 285 40 9 265 544 651695809 651695529 1.720000e-61 246.0
23 TraesCS6B01G369600 chr7D 82.890 263 44 1 1 262 88141763 88142025 3.730000e-58 235.0
24 TraesCS6B01G369600 chr7D 86.842 190 20 5 360 546 88142244 88142431 8.130000e-50 207.0
25 TraesCS6B01G369600 chr3D 82.824 262 44 1 1 262 93035493 93035233 1.340000e-57 233.0
26 TraesCS6B01G369600 chr3B 86.316 190 22 4 359 546 620133970 620133783 1.050000e-48 204.0
27 TraesCS6B01G369600 chr3B 86.387 191 21 5 359 548 787961019 787961205 1.050000e-48 204.0
28 TraesCS6B01G369600 chr4D 86.813 182 19 5 366 544 22992479 22992300 4.890000e-47 198.0
29 TraesCS6B01G369600 chr7B 85.484 186 23 4 359 543 593324101 593324283 8.190000e-45 191.0
30 TraesCS6B01G369600 chrUn 84.431 167 16 6 2083 2246 18201334 18201493 2.990000e-34 156.0
31 TraesCS6B01G369600 chrUn 88.800 125 8 2 2120 2244 319434388 319434270 5.000000e-32 148.0
32 TraesCS6B01G369600 chr3A 88.800 125 8 2 2120 2244 217980034 217979916 5.000000e-32 148.0


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 TraesCS6B01G369600 chr6B 643250337 643252582 2245 True 4148.000000 4148 100.000000 1 2246 1 chr6B.!!$R3 2245
1 TraesCS6B01G369600 chr6D 427339382 427342403 3021 True 513.033333 1266 91.270667 723 2004 3 chr6D.!!$R2 1281
2 TraesCS6B01G369600 chr6D 58247982 58248700 718 True 216.000000 217 85.056000 10 555 2 chr6D.!!$R1 545
3 TraesCS6B01G369600 chr6A 572103091 572104456 1365 True 508.333333 809 91.328667 542 2003 3 chr6A.!!$R2 1461
4 TraesCS6B01G369600 chr4A 693892394 693896131 3737 True 251.500000 292 87.201500 2009 2246 2 chr4A.!!$R1 237
5 TraesCS6B01G369600 chr5D 243809285 243809951 666 True 228.000000 252 85.666000 1 544 2 chr5D.!!$R1 543
6 TraesCS6B01G369600 chr7D 88141763 88142431 668 False 221.000000 235 84.866000 1 546 2 chr7D.!!$F1 545

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
336 524 0.033504 ATGTTTCCTGTGACGAGCGT 59.966 50.0 0.0 0.0 0.0 5.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1893 3886 0.106918 AGCCCGGTGTGAAGTTGAAA 60.107 50.0 0.0 0.0 0.0 2.69 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
26 28 3.213206 TGCCCTGATAATTACTGGCAG 57.787 47.619 14.16 14.16 0.00 4.85
47 49 4.697352 CAGTTCTTTGCTTGGTGCTATACT 59.303 41.667 0.00 0.00 43.37 2.12
55 57 5.560724 TGCTTGGTGCTATACTTTTCTTCT 58.439 37.500 0.00 0.00 43.37 2.85
56 58 6.003950 TGCTTGGTGCTATACTTTTCTTCTT 58.996 36.000 0.00 0.00 43.37 2.52
59 61 4.700213 TGGTGCTATACTTTTCTTCTTGGC 59.300 41.667 0.00 0.00 0.00 4.52
71 73 2.171003 CTTCTTGGCGGGGAGAAATTT 58.829 47.619 0.00 0.00 31.99 1.82
79 81 2.031420 GCGGGGAGAAATTTTATACGGC 60.031 50.000 0.00 0.00 0.00 5.68
83 85 3.004419 GGGAGAAATTTTATACGGCTGGC 59.996 47.826 0.00 0.00 0.00 4.85
86 88 3.632145 AGAAATTTTATACGGCTGGCCTG 59.368 43.478 3.32 4.26 0.00 4.85
107 109 1.526575 CGGCTGACTGTTGGGCAATT 61.527 55.000 0.00 0.00 29.31 2.32
116 118 2.205843 TTGGGCAATTTGGCTCGCA 61.206 52.632 20.71 9.18 43.20 5.10
125 127 0.808125 TTTGGCTCGCACGCAATAAT 59.192 45.000 0.00 0.00 0.00 1.28
127 129 0.742635 TGGCTCGCACGCAATAATGA 60.743 50.000 0.00 0.00 0.00 2.57
130 132 2.416547 GGCTCGCACGCAATAATGATAT 59.583 45.455 0.00 0.00 0.00 1.63
134 136 5.515548 TCGCACGCAATAATGATATCTTC 57.484 39.130 3.98 0.00 0.00 2.87
140 142 7.533222 GCACGCAATAATGATATCTTCAAGAAG 59.467 37.037 3.98 3.43 38.03 2.85
155 158 7.071014 CTTCAAGAAGAAGCAGATTAAGTCC 57.929 40.000 3.76 0.00 46.54 3.85
167 170 6.498303 AGCAGATTAAGTCCCCTTTTGAAATT 59.502 34.615 0.00 0.00 31.89 1.82
173 176 5.692115 AGTCCCCTTTTGAAATTGTGTTT 57.308 34.783 0.00 0.00 0.00 2.83
192 195 5.460091 GTGTTTTCCATGTGCTCTTTTCTTC 59.540 40.000 0.00 0.00 0.00 2.87
206 209 6.372659 GCTCTTTTCTTCTGTATTGGACATGA 59.627 38.462 0.00 0.00 37.45 3.07
212 215 4.284829 TCTGTATTGGACATGACTGCAA 57.715 40.909 0.00 0.00 37.45 4.08
228 231 1.503818 GCAAAAAGGAGACGACGCCA 61.504 55.000 10.46 0.00 38.45 5.69
263 385 1.040646 GTGCCGAGATGATCAGGGTA 58.959 55.000 0.09 0.00 0.00 3.69
273 395 2.981921 TGATCAGGGTAGCCATCATCT 58.018 47.619 14.62 0.00 0.00 2.90
274 396 2.636403 TGATCAGGGTAGCCATCATCTG 59.364 50.000 14.62 1.21 0.00 2.90
277 399 1.302033 GGGTAGCCATCATCTGCGG 60.302 63.158 5.96 0.00 0.00 5.69
294 418 2.084546 GCGGAGTAGATTGCTTTTGGT 58.915 47.619 0.00 0.00 0.00 3.67
296 420 3.687698 GCGGAGTAGATTGCTTTTGGTTA 59.312 43.478 0.00 0.00 0.00 2.85
297 421 4.201822 GCGGAGTAGATTGCTTTTGGTTAG 60.202 45.833 0.00 0.00 0.00 2.34
300 424 6.018669 CGGAGTAGATTGCTTTTGGTTAGATC 60.019 42.308 0.00 0.00 0.00 2.75
301 425 6.261158 GGAGTAGATTGCTTTTGGTTAGATCC 59.739 42.308 0.00 0.00 0.00 3.36
308 434 4.245660 GCTTTTGGTTAGATCCTTTTGGC 58.754 43.478 0.00 0.00 40.12 4.52
312 438 1.132453 GGTTAGATCCTTTTGGCGTGC 59.868 52.381 0.00 0.00 40.12 5.34
317 505 0.322456 ATCCTTTTGGCGTGCTAGCA 60.322 50.000 14.93 14.93 40.12 3.49
321 509 0.958091 TTTTGGCGTGCTAGCATGTT 59.042 45.000 31.97 0.00 39.27 2.71
325 513 1.026718 GGCGTGCTAGCATGTTTCCT 61.027 55.000 31.97 0.00 39.27 3.36
326 514 0.097674 GCGTGCTAGCATGTTTCCTG 59.902 55.000 31.97 11.84 35.52 3.86
328 516 1.129251 CGTGCTAGCATGTTTCCTGTG 59.871 52.381 25.87 1.85 0.00 3.66
329 517 2.426522 GTGCTAGCATGTTTCCTGTGA 58.573 47.619 22.51 0.00 0.00 3.58
330 518 2.160417 GTGCTAGCATGTTTCCTGTGAC 59.840 50.000 22.51 0.00 0.00 3.67
334 522 0.166814 GCATGTTTCCTGTGACGAGC 59.833 55.000 0.00 0.00 0.00 5.03
335 523 0.439985 CATGTTTCCTGTGACGAGCG 59.560 55.000 0.00 0.00 0.00 5.03
336 524 0.033504 ATGTTTCCTGTGACGAGCGT 59.966 50.000 0.00 0.00 0.00 5.07
340 528 0.669619 TTCCTGTGACGAGCGTTGTA 59.330 50.000 0.00 0.00 0.00 2.41
345 533 1.268625 TGTGACGAGCGTTGTATGAGT 59.731 47.619 0.00 0.00 0.00 3.41
350 538 2.288579 ACGAGCGTTGTATGAGTTTGGA 60.289 45.455 0.00 0.00 0.00 3.53
351 539 2.734606 CGAGCGTTGTATGAGTTTGGAA 59.265 45.455 0.00 0.00 0.00 3.53
354 542 4.134563 AGCGTTGTATGAGTTTGGAACTT 58.865 39.130 0.00 0.00 43.03 2.66
355 543 4.213482 AGCGTTGTATGAGTTTGGAACTTC 59.787 41.667 0.00 0.00 43.03 3.01
357 545 5.504994 GCGTTGTATGAGTTTGGAACTTCAA 60.505 40.000 0.00 0.00 43.03 2.69
362 550 8.740123 TGTATGAGTTTGGAACTTCAAAACTA 57.260 30.769 20.04 11.51 43.03 2.24
364 552 9.612620 GTATGAGTTTGGAACTTCAAAACTATG 57.387 33.333 20.04 0.00 43.03 2.23
442 630 1.824852 GGGTTTCCTGGTAATGCTTGG 59.175 52.381 0.00 0.00 0.00 3.61
450 638 1.291132 GGTAATGCTTGGACTCGCTC 58.709 55.000 0.00 0.00 0.00 5.03
454 642 1.186200 ATGCTTGGACTCGCTCTACA 58.814 50.000 0.00 0.00 0.00 2.74
474 662 3.913163 ACATCTTTCCCTTCTCCTGACTT 59.087 43.478 0.00 0.00 0.00 3.01
478 666 4.166144 TCTTTCCCTTCTCCTGACTTTGTT 59.834 41.667 0.00 0.00 0.00 2.83
480 668 3.820557 TCCCTTCTCCTGACTTTGTTTG 58.179 45.455 0.00 0.00 0.00 2.93
481 669 3.202151 TCCCTTCTCCTGACTTTGTTTGT 59.798 43.478 0.00 0.00 0.00 2.83
483 671 4.199310 CCTTCTCCTGACTTTGTTTGTGA 58.801 43.478 0.00 0.00 0.00 3.58
489 677 5.007034 TCCTGACTTTGTTTGTGAAACTGA 58.993 37.500 0.00 0.00 41.90 3.41
499 687 9.868277 TTTGTTTGTGAAACTGATTGTATTTCT 57.132 25.926 0.00 0.00 41.90 2.52
503 691 9.515020 TTTGTGAAACTGATTGTATTTCTGTTC 57.485 29.630 0.00 0.00 38.04 3.18
525 714 8.478877 TGTTCTTTTGCAATAGAAAAGGGTAAA 58.521 29.630 27.06 6.09 39.75 2.01
577 766 1.741770 GGCAAGGCGATATAGGGCG 60.742 63.158 0.00 0.00 34.74 6.13
618 807 6.042552 ACACCACTATGAAGATCCATCCTTAG 59.957 42.308 0.00 0.00 0.00 2.18
623 812 3.657610 TGAAGATCCATCCTTAGCCTCA 58.342 45.455 0.00 0.00 0.00 3.86
624 813 3.389329 TGAAGATCCATCCTTAGCCTCAC 59.611 47.826 0.00 0.00 0.00 3.51
625 814 1.967066 AGATCCATCCTTAGCCTCACG 59.033 52.381 0.00 0.00 0.00 4.35
626 815 0.394565 ATCCATCCTTAGCCTCACGC 59.605 55.000 0.00 0.00 37.98 5.34
627 816 1.592669 CCATCCTTAGCCTCACGCG 60.593 63.158 3.53 3.53 44.76 6.01
628 817 1.437573 CATCCTTAGCCTCACGCGA 59.562 57.895 15.93 0.00 44.76 5.87
629 818 0.872021 CATCCTTAGCCTCACGCGAC 60.872 60.000 15.93 0.00 44.76 5.19
630 819 1.320344 ATCCTTAGCCTCACGCGACA 61.320 55.000 15.93 0.00 44.76 4.35
631 820 1.805945 CCTTAGCCTCACGCGACAC 60.806 63.158 15.93 0.00 44.76 3.67
632 821 1.080772 CTTAGCCTCACGCGACACA 60.081 57.895 15.93 0.00 44.76 3.72
633 822 0.666274 CTTAGCCTCACGCGACACAA 60.666 55.000 15.93 0.00 44.76 3.33
634 823 0.666274 TTAGCCTCACGCGACACAAG 60.666 55.000 15.93 1.85 44.76 3.16
635 824 4.077188 GCCTCACGCGACACAAGC 62.077 66.667 15.93 3.73 0.00 4.01
636 825 3.414700 CCTCACGCGACACAAGCC 61.415 66.667 15.93 0.00 0.00 4.35
637 826 2.661537 CTCACGCGACACAAGCCA 60.662 61.111 15.93 0.00 0.00 4.75
638 827 2.661537 TCACGCGACACAAGCCAG 60.662 61.111 15.93 0.00 0.00 4.85
639 828 4.374702 CACGCGACACAAGCCAGC 62.375 66.667 15.93 0.00 0.00 4.85
642 831 3.649986 GCGACACAAGCCAGCGTT 61.650 61.111 0.00 0.00 0.00 4.84
643 832 2.314647 GCGACACAAGCCAGCGTTA 61.315 57.895 0.00 0.00 0.00 3.18
644 833 1.635663 GCGACACAAGCCAGCGTTAT 61.636 55.000 0.00 0.00 0.00 1.89
645 834 0.370273 CGACACAAGCCAGCGTTATC 59.630 55.000 0.00 0.00 0.00 1.75
646 835 0.727398 GACACAAGCCAGCGTTATCC 59.273 55.000 0.00 0.00 0.00 2.59
647 836 0.676782 ACACAAGCCAGCGTTATCCC 60.677 55.000 0.00 0.00 0.00 3.85
648 837 0.392998 CACAAGCCAGCGTTATCCCT 60.393 55.000 0.00 0.00 0.00 4.20
649 838 0.392998 ACAAGCCAGCGTTATCCCTG 60.393 55.000 0.00 0.00 0.00 4.45
650 839 1.452108 AAGCCAGCGTTATCCCTGC 60.452 57.895 0.00 0.00 0.00 4.85
651 840 2.124736 GCCAGCGTTATCCCTGCA 60.125 61.111 0.00 0.00 0.00 4.41
652 841 1.748879 GCCAGCGTTATCCCTGCAA 60.749 57.895 0.00 0.00 0.00 4.08
653 842 1.993369 GCCAGCGTTATCCCTGCAAC 61.993 60.000 0.00 0.00 0.00 4.17
654 843 0.392998 CCAGCGTTATCCCTGCAACT 60.393 55.000 0.00 0.00 0.00 3.16
655 844 1.009829 CAGCGTTATCCCTGCAACTC 58.990 55.000 0.00 0.00 0.00 3.01
656 845 0.905357 AGCGTTATCCCTGCAACTCT 59.095 50.000 0.00 0.00 0.00 3.24
657 846 1.279271 AGCGTTATCCCTGCAACTCTT 59.721 47.619 0.00 0.00 0.00 2.85
658 847 1.398390 GCGTTATCCCTGCAACTCTTG 59.602 52.381 0.00 0.00 0.00 3.02
659 848 2.935238 GCGTTATCCCTGCAACTCTTGA 60.935 50.000 0.00 0.00 0.00 3.02
660 849 2.932614 CGTTATCCCTGCAACTCTTGAG 59.067 50.000 0.00 0.00 0.00 3.02
661 850 3.274288 GTTATCCCTGCAACTCTTGAGG 58.726 50.000 2.55 0.00 0.00 3.86
662 851 0.622665 ATCCCTGCAACTCTTGAGGG 59.377 55.000 0.00 0.00 43.56 4.30
663 852 0.473694 TCCCTGCAACTCTTGAGGGA 60.474 55.000 13.76 13.76 46.02 4.20
664 853 0.035630 CCCTGCAACTCTTGAGGGAG 60.036 60.000 0.00 0.00 44.27 4.30
665 854 0.035630 CCTGCAACTCTTGAGGGAGG 60.036 60.000 2.55 1.99 37.63 4.30
666 855 0.979665 CTGCAACTCTTGAGGGAGGA 59.020 55.000 2.55 0.00 37.63 3.71
667 856 0.687354 TGCAACTCTTGAGGGAGGAC 59.313 55.000 2.55 0.00 37.63 3.85
668 857 0.035915 GCAACTCTTGAGGGAGGACC 60.036 60.000 2.55 0.00 37.63 4.46
674 863 0.749649 CTTGAGGGAGGACCAGATCG 59.250 60.000 0.00 0.00 43.89 3.69
685 874 1.126846 GACCAGATCGCGAAACACAAG 59.873 52.381 15.24 0.71 0.00 3.16
693 882 1.130955 GCGAAACACAAGCACCAATG 58.869 50.000 0.00 0.00 0.00 2.82
707 896 4.702131 AGCACCAATGTTACATCTTCCTTC 59.298 41.667 0.00 0.00 0.00 3.46
708 897 4.458989 GCACCAATGTTACATCTTCCTTCA 59.541 41.667 0.00 0.00 0.00 3.02
710 899 6.678900 GCACCAATGTTACATCTTCCTTCATC 60.679 42.308 0.00 0.00 0.00 2.92
715 904 5.168569 TGTTACATCTTCCTTCATCGTGTC 58.831 41.667 0.00 0.00 0.00 3.67
757 946 5.258622 GCGAATACTAGCTCAACAATTGTG 58.741 41.667 12.82 6.76 0.00 3.33
824 2655 1.593787 CCTTCTTGCTCTGCTCGGA 59.406 57.895 0.00 0.00 0.00 4.55
826 2657 1.074752 CTTCTTGCTCTGCTCGGAAC 58.925 55.000 0.00 0.00 0.00 3.62
829 2660 1.075425 CTTGCTCTGCTCGGAACTCG 61.075 60.000 0.00 0.00 40.90 4.18
865 2698 1.067565 TGCTAGCCTGAACGTGAGAAG 60.068 52.381 13.29 0.00 0.00 2.85
885 2718 2.177594 CTCTGCTCCCCGTTTGCTCT 62.178 60.000 0.00 0.00 0.00 4.09
927 2760 0.181587 TTTTGCACCTCCCGTCTTCA 59.818 50.000 0.00 0.00 0.00 3.02
930 2763 2.261671 CACCTCCCGTCTTCACCG 59.738 66.667 0.00 0.00 0.00 4.94
943 2776 4.383602 CACCGGTCCTTTTGCGCG 62.384 66.667 2.59 0.00 0.00 6.86
946 2779 2.173382 CGGTCCTTTTGCGCGAAG 59.827 61.111 12.10 12.77 0.00 3.79
963 2796 1.557269 AAGCAGCTCCATCCCGTCTT 61.557 55.000 0.00 0.00 0.00 3.01
975 2808 3.599584 CGTCTTCCACGCTCCCTA 58.400 61.111 0.00 0.00 42.87 3.53
987 2820 2.124151 TCCCTACCCTACGACGCC 60.124 66.667 0.00 0.00 0.00 5.68
1005 2838 1.607801 CCAGAGGAGGCGACATGTCA 61.608 60.000 24.93 0.00 0.00 3.58
1232 3071 2.693864 CCACCCCCAGCCAGATCT 60.694 66.667 0.00 0.00 0.00 2.75
1250 3089 2.853430 TCTCCCCAAAACCTAGCCATA 58.147 47.619 0.00 0.00 0.00 2.74
1257 3096 3.541632 CAAAACCTAGCCATACATCGGT 58.458 45.455 0.00 0.00 0.00 4.69
1299 3138 4.027634 CGCGCTTCGAGCTTTTTC 57.972 55.556 5.56 0.00 39.60 2.29
1300 3139 1.854879 CGCGCTTCGAGCTTTTTCG 60.855 57.895 5.56 0.00 39.60 3.46
1313 3152 3.057946 AGCTTTTTCGAATCACAAGAGGC 60.058 43.478 0.00 0.00 0.00 4.70
1320 3159 1.390463 GAATCACAAGAGGCGTTCGTC 59.610 52.381 0.00 0.00 0.00 4.20
1328 3167 0.591741 GAGGCGTTCGTCCACTATCG 60.592 60.000 7.95 0.00 0.00 2.92
1348 3187 1.064979 GGAGCAAAGGGGATCGGTTTA 60.065 52.381 0.00 0.00 0.00 2.01
1358 3199 2.752903 GGGATCGGTTTATTTGTGTGCT 59.247 45.455 0.00 0.00 0.00 4.40
1404 3247 1.550524 CAAAGGGGACGACTGAGATGA 59.449 52.381 0.00 0.00 0.00 2.92
1405 3248 1.479709 AAGGGGACGACTGAGATGAG 58.520 55.000 0.00 0.00 0.00 2.90
1406 3249 0.626382 AGGGGACGACTGAGATGAGA 59.374 55.000 0.00 0.00 0.00 3.27
1407 3250 1.216678 AGGGGACGACTGAGATGAGAT 59.783 52.381 0.00 0.00 0.00 2.75
1408 3251 1.339610 GGGGACGACTGAGATGAGATG 59.660 57.143 0.00 0.00 0.00 2.90
1409 3252 1.339610 GGGACGACTGAGATGAGATGG 59.660 57.143 0.00 0.00 0.00 3.51
1410 3253 1.269517 GGACGACTGAGATGAGATGGC 60.270 57.143 0.00 0.00 0.00 4.40
1411 3254 0.749649 ACGACTGAGATGAGATGGCC 59.250 55.000 0.00 0.00 0.00 5.36
1412 3255 0.749049 CGACTGAGATGAGATGGCCA 59.251 55.000 8.56 8.56 0.00 5.36
1413 3256 1.537776 CGACTGAGATGAGATGGCCAC 60.538 57.143 8.16 1.58 0.00 5.01
1414 3257 0.835941 ACTGAGATGAGATGGCCACC 59.164 55.000 8.16 0.00 0.00 4.61
1415 3258 0.249784 CTGAGATGAGATGGCCACCG 60.250 60.000 8.16 0.00 0.00 4.94
1416 3259 1.070445 GAGATGAGATGGCCACCGG 59.930 63.158 8.16 0.00 0.00 5.28
1419 3271 2.257409 GATGAGATGGCCACCGGTGT 62.257 60.000 31.80 14.76 0.00 4.16
1453 3309 6.098679 TGTATGAATTGTGGTGCTAATTTGC 58.901 36.000 4.83 4.83 0.00 3.68
1481 3337 7.955918 AGCTGTAATTTTTCAACTGATTCCTT 58.044 30.769 0.00 0.00 0.00 3.36
1514 3370 0.107508 AATGCTGCCGAGTGCTGTAT 60.108 50.000 0.00 0.00 44.02 2.29
1523 3379 3.490933 GCCGAGTGCTGTATCATGACTTA 60.491 47.826 0.00 0.00 36.87 2.24
1524 3380 4.294232 CCGAGTGCTGTATCATGACTTAG 58.706 47.826 0.00 0.00 0.00 2.18
1525 3381 4.202060 CCGAGTGCTGTATCATGACTTAGT 60.202 45.833 0.00 0.00 0.00 2.24
1528 3384 7.142021 CGAGTGCTGTATCATGACTTAGTTAT 58.858 38.462 0.00 0.00 0.00 1.89
1561 3417 6.066690 AGCTAAATGGCAGTGATACATTCAT 58.933 36.000 0.00 0.00 34.00 2.57
1562 3418 7.226441 AGCTAAATGGCAGTGATACATTCATA 58.774 34.615 0.00 0.00 34.00 2.15
1563 3419 7.173907 AGCTAAATGGCAGTGATACATTCATAC 59.826 37.037 0.00 0.00 34.00 2.39
1564 3420 7.173907 GCTAAATGGCAGTGATACATTCATACT 59.826 37.037 0.00 0.00 36.54 2.12
1565 3421 9.710900 CTAAATGGCAGTGATACATTCATACTA 57.289 33.333 0.00 0.00 36.54 1.82
1664 3521 2.642311 TCTGCAACTCTAATGGGTTCCA 59.358 45.455 0.00 0.00 38.19 3.53
1691 3548 4.437239 CAGTGTTCAGACTTCAGAGTTGT 58.563 43.478 0.00 0.00 35.88 3.32
1712 3569 1.723542 GCGATCGCACATCTTCCATAG 59.276 52.381 33.89 0.00 41.49 2.23
1731 3588 5.449553 CATAGAAAGCTAATGGGTTCCCTT 58.550 41.667 9.43 0.00 34.22 3.95
1738 3595 3.130516 GCTAATGGGTTCCCTTGCTAAAC 59.869 47.826 9.43 0.00 0.00 2.01
1766 3623 7.233757 AGGGATATCCACTCTATGTTACAGTTC 59.766 40.741 23.27 0.00 38.24 3.01
1790 3647 4.040936 ACCCAATTACCACAAGCATGTA 57.959 40.909 0.00 0.00 37.82 2.29
1791 3648 3.761752 ACCCAATTACCACAAGCATGTAC 59.238 43.478 0.00 0.00 37.82 2.90
1807 3664 7.744087 AGCATGTACATGTTTGAACTTCTAA 57.256 32.000 31.10 0.00 40.80 2.10
1824 3681 3.020274 TCTAAAAGTTGGCTGTGCACAA 58.980 40.909 21.98 2.78 0.00 3.33
1830 3687 2.048877 GGCTGTGCACAACATGGC 60.049 61.111 21.98 19.26 38.39 4.40
1853 3714 5.928264 GCCTGCAACTCTCAATGTTTTTATT 59.072 36.000 0.00 0.00 0.00 1.40
1893 3886 7.445096 TGTTCTTCATCTAACAATGTCATGTGT 59.555 33.333 0.00 0.00 32.86 3.72
1995 3991 5.143369 GCTATGAATCATTTCCCTTTCCCT 58.857 41.667 0.00 0.00 0.00 4.20
1996 3992 5.010415 GCTATGAATCATTTCCCTTTCCCTG 59.990 44.000 0.00 0.00 0.00 4.45
1997 3993 4.673328 TGAATCATTTCCCTTTCCCTGA 57.327 40.909 0.00 0.00 0.00 3.86
1998 3994 4.344104 TGAATCATTTCCCTTTCCCTGAC 58.656 43.478 0.00 0.00 0.00 3.51
1999 3995 4.202663 TGAATCATTTCCCTTTCCCTGACA 60.203 41.667 0.00 0.00 0.00 3.58
2000 3996 3.154827 TCATTTCCCTTTCCCTGACAC 57.845 47.619 0.00 0.00 0.00 3.67
2001 3997 2.716424 TCATTTCCCTTTCCCTGACACT 59.284 45.455 0.00 0.00 0.00 3.55
2004 4000 2.951229 TCCCTTTCCCTGACACTTTC 57.049 50.000 0.00 0.00 0.00 2.62
2005 4001 2.131854 TCCCTTTCCCTGACACTTTCA 58.868 47.619 0.00 0.00 0.00 2.69
2006 4002 2.512056 TCCCTTTCCCTGACACTTTCAA 59.488 45.455 0.00 0.00 32.21 2.69
2007 4003 3.140144 TCCCTTTCCCTGACACTTTCAAT 59.860 43.478 0.00 0.00 32.21 2.57
2011 4007 4.365514 TTCCCTGACACTTTCAATGCTA 57.634 40.909 0.00 0.00 32.21 3.49
2023 4019 5.648092 ACTTTCAATGCTATGTTAGGGACAC 59.352 40.000 0.00 0.00 42.04 3.67
2028 4024 5.950544 ATGCTATGTTAGGGACACACTAA 57.049 39.130 0.00 0.00 42.04 2.24
2047 4043 8.420222 CACACTAAGGATCTCTTGATTACTCAT 58.580 37.037 6.68 0.00 36.93 2.90
2118 4128 1.687996 GCTGGAGGTAGGAGAAGAGCT 60.688 57.143 0.00 0.00 0.00 4.09
2141 4151 2.478746 CGCCGGGTTTCGTTGATG 59.521 61.111 2.18 0.00 37.11 3.07
2158 4168 1.771255 GATGCACTGGATACCCTCCTT 59.229 52.381 0.00 0.00 45.21 3.36
2234 4244 2.599578 CCAGCCCAGCCCATATGC 60.600 66.667 0.00 0.00 0.00 3.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 3.754965 TGCCAGTAATTATCAGGGCATC 58.245 45.455 14.50 0.00 45.69 3.91
8 9 5.041191 AGAACTGCCAGTAATTATCAGGG 57.959 43.478 0.00 0.00 0.00 4.45
17 18 2.622942 CCAAGCAAAGAACTGCCAGTAA 59.377 45.455 0.00 0.00 43.73 2.24
47 49 0.768622 TCTCCCCGCCAAGAAGAAAA 59.231 50.000 0.00 0.00 0.00 2.29
55 57 3.628487 CGTATAAAATTTCTCCCCGCCAA 59.372 43.478 0.00 0.00 0.00 4.52
56 58 3.207778 CGTATAAAATTTCTCCCCGCCA 58.792 45.455 0.00 0.00 0.00 5.69
59 61 3.250040 CAGCCGTATAAAATTTCTCCCCG 59.750 47.826 0.00 0.00 0.00 5.73
71 73 2.508928 GCCAGGCCAGCCGTATAA 59.491 61.111 5.01 0.00 41.95 0.98
83 85 3.052082 CAACAGTCAGCCGCCAGG 61.052 66.667 0.00 0.00 41.62 4.45
89 91 0.681175 AAATTGCCCAACAGTCAGCC 59.319 50.000 0.00 0.00 0.00 4.85
92 94 0.392336 GCCAAATTGCCCAACAGTCA 59.608 50.000 0.00 0.00 0.00 3.41
94 96 0.681175 GAGCCAAATTGCCCAACAGT 59.319 50.000 0.00 0.00 0.00 3.55
95 97 0.388907 CGAGCCAAATTGCCCAACAG 60.389 55.000 0.00 0.00 0.00 3.16
98 100 2.205843 TGCGAGCCAAATTGCCCAA 61.206 52.632 0.00 0.00 0.00 4.12
107 109 0.098552 CATTATTGCGTGCGAGCCAA 59.901 50.000 0.00 0.00 36.02 4.52
116 118 8.893219 TCTTCTTGAAGATATCATTATTGCGT 57.107 30.769 8.80 0.00 38.03 5.24
134 136 4.637977 GGGGACTTAATCTGCTTCTTCTTG 59.362 45.833 0.00 0.00 0.00 3.02
155 158 6.318396 ACATGGAAAACACAATTTCAAAAGGG 59.682 34.615 0.00 0.00 40.34 3.95
167 170 4.402155 AGAAAAGAGCACATGGAAAACACA 59.598 37.500 0.00 0.00 0.00 3.72
173 176 4.464008 ACAGAAGAAAAGAGCACATGGAA 58.536 39.130 0.00 0.00 0.00 3.53
192 195 5.375417 TTTTGCAGTCATGTCCAATACAG 57.625 39.130 0.00 0.00 42.70 2.74
206 209 1.217882 CGTCGTCTCCTTTTTGCAGT 58.782 50.000 0.00 0.00 0.00 4.40
212 215 0.179067 TGTTGGCGTCGTCTCCTTTT 60.179 50.000 0.00 0.00 0.00 2.27
263 385 0.678395 CTACTCCGCAGATGATGGCT 59.322 55.000 0.00 0.00 0.00 4.75
273 395 2.083774 CCAAAAGCAATCTACTCCGCA 58.916 47.619 0.00 0.00 0.00 5.69
274 396 2.084546 ACCAAAAGCAATCTACTCCGC 58.915 47.619 0.00 0.00 0.00 5.54
277 399 7.051000 AGGATCTAACCAAAAGCAATCTACTC 58.949 38.462 0.00 0.00 0.00 2.59
283 407 6.466812 CCAAAAGGATCTAACCAAAAGCAAT 58.533 36.000 0.00 0.00 0.00 3.56
286 410 4.245660 GCCAAAAGGATCTAACCAAAAGC 58.754 43.478 0.00 0.00 0.00 3.51
294 418 2.489938 AGCACGCCAAAAGGATCTAA 57.510 45.000 0.00 0.00 0.00 2.10
296 420 2.014068 GCTAGCACGCCAAAAGGATCT 61.014 52.381 10.63 0.00 0.00 2.75
297 421 0.378610 GCTAGCACGCCAAAAGGATC 59.621 55.000 10.63 0.00 0.00 3.36
300 424 0.179156 CATGCTAGCACGCCAAAAGG 60.179 55.000 22.07 0.00 0.00 3.11
301 425 0.523072 ACATGCTAGCACGCCAAAAG 59.477 50.000 22.07 5.25 0.00 2.27
308 434 1.129251 CACAGGAAACATGCTAGCACG 59.871 52.381 22.07 15.79 0.00 5.34
312 438 2.926200 CTCGTCACAGGAAACATGCTAG 59.074 50.000 0.00 0.00 0.00 3.42
317 505 0.033504 ACGCTCGTCACAGGAAACAT 59.966 50.000 0.00 0.00 0.00 2.71
321 509 0.669619 TACAACGCTCGTCACAGGAA 59.330 50.000 0.00 0.00 0.00 3.36
325 513 1.268625 ACTCATACAACGCTCGTCACA 59.731 47.619 0.00 0.00 0.00 3.58
326 514 1.978542 ACTCATACAACGCTCGTCAC 58.021 50.000 0.00 0.00 0.00 3.67
328 516 2.092211 CCAAACTCATACAACGCTCGTC 59.908 50.000 0.00 0.00 0.00 4.20
329 517 2.066262 CCAAACTCATACAACGCTCGT 58.934 47.619 0.00 0.00 0.00 4.18
330 518 2.333926 TCCAAACTCATACAACGCTCG 58.666 47.619 0.00 0.00 0.00 5.03
334 522 5.666969 TGAAGTTCCAAACTCATACAACG 57.333 39.130 0.00 0.00 41.91 4.10
335 523 7.973944 AGTTTTGAAGTTCCAAACTCATACAAC 59.026 33.333 22.86 7.58 41.91 3.32
336 524 8.062065 AGTTTTGAAGTTCCAAACTCATACAA 57.938 30.769 22.86 0.00 41.91 2.41
340 528 8.137437 CACATAGTTTTGAAGTTCCAAACTCAT 58.863 33.333 28.69 19.88 41.91 2.90
345 533 7.164230 ACACACATAGTTTTGAAGTTCCAAA 57.836 32.000 0.00 0.00 34.56 3.28
350 538 7.201785 CCTGGTAACACACATAGTTTTGAAGTT 60.202 37.037 0.00 0.00 46.17 2.66
351 539 6.262273 CCTGGTAACACACATAGTTTTGAAGT 59.738 38.462 0.00 0.00 46.17 3.01
354 542 5.686753 ACCTGGTAACACACATAGTTTTGA 58.313 37.500 0.00 0.00 46.17 2.69
355 543 6.385649 AACCTGGTAACACACATAGTTTTG 57.614 37.500 0.00 0.00 46.17 2.44
357 545 6.238538 CGAAAACCTGGTAACACACATAGTTT 60.239 38.462 0.00 0.00 46.17 2.66
362 550 2.292292 GCGAAAACCTGGTAACACACAT 59.708 45.455 0.00 0.00 46.17 3.21
364 552 1.002142 GGCGAAAACCTGGTAACACAC 60.002 52.381 0.00 0.00 46.17 3.82
405 593 1.671054 CCACTGCCATTTCGGTCGT 60.671 57.895 0.00 0.00 36.97 4.34
412 600 1.341080 CAGGAAACCCACTGCCATTT 58.659 50.000 0.00 0.00 0.00 2.32
442 630 2.691011 AGGGAAAGATGTAGAGCGAGTC 59.309 50.000 0.00 0.00 0.00 3.36
450 638 4.714308 AGTCAGGAGAAGGGAAAGATGTAG 59.286 45.833 0.00 0.00 0.00 2.74
454 642 4.352298 ACAAAGTCAGGAGAAGGGAAAGAT 59.648 41.667 0.00 0.00 0.00 2.40
474 662 9.299963 CAGAAATACAATCAGTTTCACAAACAA 57.700 29.630 2.16 0.00 43.79 2.83
478 666 8.902806 AGAACAGAAATACAATCAGTTTCACAA 58.097 29.630 0.00 0.00 35.00 3.33
480 668 9.736023 AAAGAACAGAAATACAATCAGTTTCAC 57.264 29.630 0.00 0.00 35.00 3.18
483 671 9.034544 GCAAAAGAACAGAAATACAATCAGTTT 57.965 29.630 0.00 0.00 28.23 2.66
499 687 6.478512 ACCCTTTTCTATTGCAAAAGAACA 57.521 33.333 1.71 0.00 41.52 3.18
503 691 6.368791 GGCTTTACCCTTTTCTATTGCAAAAG 59.631 38.462 1.71 1.61 39.57 2.27
577 766 0.872021 GTGTCGACATCTGGATCGCC 60.872 60.000 23.12 0.14 38.24 5.54
618 807 4.077188 GCTTGTGTCGCGTGAGGC 62.077 66.667 5.77 0.75 38.69 4.70
625 814 1.635663 ATAACGCTGGCTTGTGTCGC 61.636 55.000 0.00 0.00 0.00 5.19
626 815 0.370273 GATAACGCTGGCTTGTGTCG 59.630 55.000 0.00 0.00 0.00 4.35
627 816 0.727398 GGATAACGCTGGCTTGTGTC 59.273 55.000 0.00 0.00 0.00 3.67
628 817 0.676782 GGGATAACGCTGGCTTGTGT 60.677 55.000 0.00 0.00 0.00 3.72
629 818 0.392998 AGGGATAACGCTGGCTTGTG 60.393 55.000 0.00 0.00 37.89 3.33
630 819 1.991230 AGGGATAACGCTGGCTTGT 59.009 52.632 0.00 0.00 37.89 3.16
631 820 4.963878 AGGGATAACGCTGGCTTG 57.036 55.556 0.00 0.00 37.89 4.01
637 826 0.905357 AGAGTTGCAGGGATAACGCT 59.095 50.000 0.00 0.00 39.90 5.07
638 827 1.398390 CAAGAGTTGCAGGGATAACGC 59.602 52.381 0.00 0.00 32.24 4.84
639 828 2.932614 CTCAAGAGTTGCAGGGATAACG 59.067 50.000 0.00 0.00 32.24 3.18
640 829 3.274288 CCTCAAGAGTTGCAGGGATAAC 58.726 50.000 0.00 0.00 0.00 1.89
641 830 2.239654 CCCTCAAGAGTTGCAGGGATAA 59.760 50.000 14.34 0.00 44.27 1.75
642 831 1.839994 CCCTCAAGAGTTGCAGGGATA 59.160 52.381 14.34 0.00 44.27 2.59
643 832 0.622665 CCCTCAAGAGTTGCAGGGAT 59.377 55.000 14.34 0.00 44.27 3.85
644 833 0.473694 TCCCTCAAGAGTTGCAGGGA 60.474 55.000 16.59 16.59 46.02 4.20
645 834 0.035630 CTCCCTCAAGAGTTGCAGGG 60.036 60.000 13.73 13.73 43.56 4.45
646 835 0.035630 CCTCCCTCAAGAGTTGCAGG 60.036 60.000 0.00 0.00 31.53 4.85
647 836 0.979665 TCCTCCCTCAAGAGTTGCAG 59.020 55.000 0.00 0.00 31.53 4.41
648 837 0.687354 GTCCTCCCTCAAGAGTTGCA 59.313 55.000 0.00 0.00 31.53 4.08
649 838 0.035915 GGTCCTCCCTCAAGAGTTGC 60.036 60.000 0.00 0.00 31.53 4.17
650 839 1.277557 CTGGTCCTCCCTCAAGAGTTG 59.722 57.143 0.00 0.00 31.53 3.16
651 840 1.150135 TCTGGTCCTCCCTCAAGAGTT 59.850 52.381 0.00 0.00 31.53 3.01
652 841 0.787084 TCTGGTCCTCCCTCAAGAGT 59.213 55.000 0.00 0.00 31.53 3.24
653 842 2.038659 GATCTGGTCCTCCCTCAAGAG 58.961 57.143 0.00 0.00 0.00 2.85
654 843 1.686428 CGATCTGGTCCTCCCTCAAGA 60.686 57.143 0.00 0.00 0.00 3.02
655 844 0.749649 CGATCTGGTCCTCCCTCAAG 59.250 60.000 0.00 0.00 0.00 3.02
656 845 1.330655 GCGATCTGGTCCTCCCTCAA 61.331 60.000 0.00 0.00 0.00 3.02
657 846 1.758514 GCGATCTGGTCCTCCCTCA 60.759 63.158 0.00 0.00 0.00 3.86
658 847 2.851071 CGCGATCTGGTCCTCCCTC 61.851 68.421 0.00 0.00 0.00 4.30
659 848 2.835431 CGCGATCTGGTCCTCCCT 60.835 66.667 0.00 0.00 0.00 4.20
660 849 1.956629 TTTCGCGATCTGGTCCTCCC 61.957 60.000 10.88 0.00 0.00 4.30
661 850 0.806492 GTTTCGCGATCTGGTCCTCC 60.806 60.000 10.88 0.00 0.00 4.30
662 851 0.108804 TGTTTCGCGATCTGGTCCTC 60.109 55.000 10.88 0.00 0.00 3.71
663 852 0.389948 GTGTTTCGCGATCTGGTCCT 60.390 55.000 10.88 0.00 0.00 3.85
664 853 0.669318 TGTGTTTCGCGATCTGGTCC 60.669 55.000 10.88 0.00 0.00 4.46
665 854 1.126846 CTTGTGTTTCGCGATCTGGTC 59.873 52.381 10.88 0.00 0.00 4.02
666 855 1.148310 CTTGTGTTTCGCGATCTGGT 58.852 50.000 10.88 0.00 0.00 4.00
667 856 0.179215 GCTTGTGTTTCGCGATCTGG 60.179 55.000 10.88 0.00 0.00 3.86
668 857 0.512518 TGCTTGTGTTTCGCGATCTG 59.487 50.000 10.88 0.00 0.00 2.90
674 863 1.130955 CATTGGTGCTTGTGTTTCGC 58.869 50.000 0.00 0.00 0.00 4.70
685 874 4.458989 TGAAGGAAGATGTAACATTGGTGC 59.541 41.667 0.00 0.00 0.00 5.01
693 882 5.411781 AGACACGATGAAGGAAGATGTAAC 58.588 41.667 0.00 0.00 0.00 2.50
707 896 8.673626 ATTAACAGCAAATTAAAGACACGATG 57.326 30.769 0.00 0.00 0.00 3.84
708 897 7.692291 CGATTAACAGCAAATTAAAGACACGAT 59.308 33.333 0.00 0.00 0.00 3.73
710 899 6.236941 GCGATTAACAGCAAATTAAAGACACG 60.237 38.462 0.00 0.00 0.00 4.49
715 904 6.846870 TTCGCGATTAACAGCAAATTAAAG 57.153 33.333 10.88 0.00 0.00 1.85
757 946 0.709467 TACGTGTGCAATTCGTACGC 59.291 50.000 11.24 0.00 38.23 4.42
865 2698 3.435186 GCAAACGGGGAGCAGAGC 61.435 66.667 0.00 0.00 0.00 4.09
885 2718 2.049156 CTTGGCGTGTCGAGAGCA 60.049 61.111 8.61 0.00 0.00 4.26
927 2760 4.612412 TCGCGCAAAAGGACCGGT 62.612 61.111 6.92 6.92 0.00 5.28
930 2763 2.126850 GCTTCGCGCAAAAGGACC 60.127 61.111 18.10 1.93 38.92 4.46
943 2776 1.522580 GACGGGATGGAGCTGCTTC 60.523 63.158 12.06 12.06 0.00 3.86
946 2779 1.522580 GAAGACGGGATGGAGCTGC 60.523 63.158 0.00 0.00 0.00 5.25
963 2796 1.076485 GTAGGGTAGGGAGCGTGGA 60.076 63.158 0.00 0.00 0.00 4.02
975 2808 2.754658 CCTCTGGCGTCGTAGGGT 60.755 66.667 0.00 0.00 0.00 4.34
987 2820 0.463204 ATGACATGTCGCCTCCTCTG 59.537 55.000 20.54 0.00 0.00 3.35
1232 3071 2.280103 TGTATGGCTAGGTTTTGGGGA 58.720 47.619 0.00 0.00 0.00 4.81
1298 3137 1.710013 GAACGCCTCTTGTGATTCGA 58.290 50.000 0.00 0.00 0.00 3.71
1299 3138 0.366871 CGAACGCCTCTTGTGATTCG 59.633 55.000 0.00 0.00 34.36 3.34
1300 3139 1.390463 GACGAACGCCTCTTGTGATTC 59.610 52.381 0.00 0.00 0.00 2.52
1302 3141 0.389948 GGACGAACGCCTCTTGTGAT 60.390 55.000 0.00 0.00 0.00 3.06
1303 3142 1.006571 GGACGAACGCCTCTTGTGA 60.007 57.895 0.00 0.00 0.00 3.58
1304 3143 1.300620 TGGACGAACGCCTCTTGTG 60.301 57.895 0.00 0.00 0.00 3.33
1305 3144 1.300697 GTGGACGAACGCCTCTTGT 60.301 57.895 0.00 0.00 0.00 3.16
1308 3147 0.739561 GATAGTGGACGAACGCCTCT 59.260 55.000 13.17 13.17 34.04 3.69
1313 3152 0.591741 GCTCCGATAGTGGACGAACG 60.592 60.000 0.00 0.00 33.48 3.95
1320 3159 0.179045 CCCCTTTGCTCCGATAGTGG 60.179 60.000 0.00 0.00 0.00 4.00
1328 3167 0.323451 AAACCGATCCCCTTTGCTCC 60.323 55.000 0.00 0.00 0.00 4.70
1358 3199 7.171337 GCTAAAGAAATTCCAATGTGCAAAGAA 59.829 33.333 0.00 0.00 0.00 2.52
1404 3247 0.180406 GATAACACCGGTGGCCATCT 59.820 55.000 36.47 13.60 34.19 2.90
1405 3248 0.180406 AGATAACACCGGTGGCCATC 59.820 55.000 36.47 30.21 34.19 3.51
1406 3249 0.180406 GAGATAACACCGGTGGCCAT 59.820 55.000 36.47 25.12 34.19 4.40
1407 3250 1.600107 GAGATAACACCGGTGGCCA 59.400 57.895 36.47 21.70 34.19 5.36
1408 3251 1.153229 GGAGATAACACCGGTGGCC 60.153 63.158 36.47 22.36 34.19 5.36
1409 3252 0.179081 GAGGAGATAACACCGGTGGC 60.179 60.000 36.47 22.25 34.19 5.01
1410 3253 1.137086 CAGAGGAGATAACACCGGTGG 59.863 57.143 36.47 19.58 34.19 4.61
1411 3254 1.825474 ACAGAGGAGATAACACCGGTG 59.175 52.381 32.83 32.83 32.13 4.94
1412 3255 2.233305 ACAGAGGAGATAACACCGGT 57.767 50.000 0.00 0.00 32.13 5.28
1413 3256 3.889538 TCATACAGAGGAGATAACACCGG 59.110 47.826 0.00 0.00 32.13 5.28
1414 3257 5.515797 TTCATACAGAGGAGATAACACCG 57.484 43.478 0.00 0.00 32.13 4.94
1415 3258 7.225538 CACAATTCATACAGAGGAGATAACACC 59.774 40.741 0.00 0.00 0.00 4.16
1416 3259 7.225538 CCACAATTCATACAGAGGAGATAACAC 59.774 40.741 0.00 0.00 0.00 3.32
1419 3271 7.275183 CACCACAATTCATACAGAGGAGATAA 58.725 38.462 0.00 0.00 0.00 1.75
1453 3309 9.346725 GGAATCAGTTGAAAAATTACAGCTAAG 57.653 33.333 0.00 0.00 0.00 2.18
1481 3337 2.415168 GCAGCATTACTAAACTGCGACA 59.585 45.455 10.00 0.00 45.23 4.35
1533 3389 4.653801 TGTATCACTGCCATTTAGCTAGGA 59.346 41.667 1.75 0.00 0.00 2.94
1561 3417 2.169769 GCACAGCACCCTGGTAATAGTA 59.830 50.000 0.00 0.00 43.53 1.82
1562 3418 1.065418 GCACAGCACCCTGGTAATAGT 60.065 52.381 0.00 0.00 43.53 2.12
1563 3419 1.668419 GCACAGCACCCTGGTAATAG 58.332 55.000 0.00 0.00 43.53 1.73
1564 3420 0.254747 GGCACAGCACCCTGGTAATA 59.745 55.000 0.00 0.00 43.53 0.98
1565 3421 1.000896 GGCACAGCACCCTGGTAAT 60.001 57.895 0.00 0.00 43.53 1.89
1566 3422 1.715019 AAGGCACAGCACCCTGGTAA 61.715 55.000 0.00 0.00 43.53 2.85
1631 3488 9.809096 CATTAGAGTTGCAGATCTAGTCTTTAA 57.191 33.333 6.64 4.92 34.00 1.52
1664 3521 3.118629 TCTGAAGTCTGAACACTGCTGTT 60.119 43.478 0.00 0.00 43.71 3.16
1691 3548 6.525653 TTCTATGGAAGATGTGCGATCGCA 62.526 45.833 37.21 37.21 40.70 5.10
1731 3588 3.305720 AGTGGATATCCCTCGTTTAGCA 58.694 45.455 19.34 0.00 35.38 3.49
1738 3595 5.710567 TGTAACATAGAGTGGATATCCCTCG 59.289 44.000 23.57 16.56 37.95 4.63
1766 3623 3.080300 TGCTTGTGGTAATTGGGTAGG 57.920 47.619 0.00 0.00 0.00 3.18
1807 3664 0.894141 TGTTGTGCACAGCCAACTTT 59.106 45.000 27.89 0.00 39.03 2.66
1813 3670 2.048877 GCCATGTTGTGCACAGCC 60.049 61.111 27.89 19.02 39.40 4.85
1824 3681 0.111061 TTGAGAGTTGCAGGCCATGT 59.889 50.000 5.01 0.00 0.00 3.21
1830 3687 9.474920 TTTAATAAAAACATTGAGAGTTGCAGG 57.525 29.630 0.00 0.00 0.00 4.85
1853 3714 5.512753 TGAAGAACATGCTGTTTGCTTTA 57.487 34.783 0.00 0.00 41.28 1.85
1861 3722 6.432162 ACATTGTTAGATGAAGAACATGCTGT 59.568 34.615 0.00 0.00 39.56 4.40
1893 3886 0.106918 AGCCCGGTGTGAAGTTGAAA 60.107 50.000 0.00 0.00 0.00 2.69
1995 3991 5.647658 CCCTAACATAGCATTGAAAGTGTCA 59.352 40.000 0.00 0.00 0.00 3.58
1996 3992 5.880332 TCCCTAACATAGCATTGAAAGTGTC 59.120 40.000 0.00 0.00 0.00 3.67
1997 3993 5.648092 GTCCCTAACATAGCATTGAAAGTGT 59.352 40.000 0.00 0.00 0.00 3.55
1998 3994 5.647658 TGTCCCTAACATAGCATTGAAAGTG 59.352 40.000 0.00 0.00 31.20 3.16
1999 3995 5.648092 GTGTCCCTAACATAGCATTGAAAGT 59.352 40.000 0.00 0.00 40.80 2.66
2000 3996 5.647658 TGTGTCCCTAACATAGCATTGAAAG 59.352 40.000 0.00 0.00 40.80 2.62
2001 3997 5.414454 GTGTGTCCCTAACATAGCATTGAAA 59.586 40.000 0.00 0.00 40.80 2.69
2004 4000 4.517285 AGTGTGTCCCTAACATAGCATTG 58.483 43.478 0.00 0.00 40.80 2.82
2005 4001 4.844349 AGTGTGTCCCTAACATAGCATT 57.156 40.909 0.00 0.00 40.80 3.56
2006 4002 5.163301 CCTTAGTGTGTCCCTAACATAGCAT 60.163 44.000 0.00 0.00 40.80 3.79
2007 4003 4.161565 CCTTAGTGTGTCCCTAACATAGCA 59.838 45.833 0.00 0.00 40.80 3.49
2011 4007 5.281314 AGATCCTTAGTGTGTCCCTAACAT 58.719 41.667 0.00 0.00 40.80 2.71
2028 4024 8.311395 TGTGTAATGAGTAATCAAGAGATCCT 57.689 34.615 0.00 0.00 31.90 3.24
2133 4143 1.134521 GGGTATCCAGTGCATCAACGA 60.135 52.381 0.00 0.00 0.00 3.85
2158 4168 1.623811 GTAAGTGGAGAGGAGGCAACA 59.376 52.381 0.00 0.00 41.41 3.33
2225 4235 1.893808 CCGTGGACAGCATATGGGC 60.894 63.158 4.56 0.00 0.00 5.36
2226 4236 1.227943 CCCGTGGACAGCATATGGG 60.228 63.158 4.56 0.00 34.52 4.00


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

AutoCloner maintained by Alex Coulton.