Multiple sequence alignment - TraesCS2A01G000200

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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 TraesCS2A01G000200 chr2A 100.000 4954 0 0 1 4954 263109 258156 0.000000e+00 9149.0
1 TraesCS2A01G000200 chr2A 83.291 395 17 18 166 516 34480919 34481308 8.000000e-83 318.0
2 TraesCS2A01G000200 chr2D 95.303 4173 94 40 832 4954 273562 277682 0.000000e+00 6527.0
3 TraesCS2A01G000200 chr2D 82.038 373 17 22 249 580 272692 273055 6.320000e-69 272.0
4 TraesCS2A01G000200 chr2D 93.519 108 3 1 704 811 273166 273269 1.850000e-34 158.0
5 TraesCS2A01G000200 chr2B 92.660 3801 113 60 978 4719 11076062 11079755 0.000000e+00 5321.0
6 TraesCS2A01G000200 chr2B 78.923 427 26 24 125 526 11075085 11075472 1.070000e-56 231.0
7 TraesCS2A01G000200 chr2B 84.127 63 5 5 22 81 11074950 11075010 6.930000e-04 56.5
8 TraesCS2A01G000200 chr6B 79.577 284 53 4 1184 1463 562489849 562489567 1.090000e-46 198.0
9 TraesCS2A01G000200 chr6B 100.000 28 0 0 2784 2811 632180649 632180622 9.000000e-03 52.8
10 TraesCS2A01G000200 chr6A 79.505 283 55 2 1184 1463 517559719 517559437 1.090000e-46 198.0
11 TraesCS2A01G000200 chr6A 79.152 283 56 2 1184 1463 562688500 562688218 5.060000e-45 193.0
12 TraesCS2A01G000200 chr6A 100.000 28 0 0 2784 2811 562686924 562686897 9.000000e-03 52.8
13 TraesCS2A01G000200 chr5D 71.868 423 105 14 1205 1620 2671159 2670744 5.240000e-20 110.0
14 TraesCS2A01G000200 chr6D 100.000 28 0 0 2784 2811 419267067 419267040 9.000000e-03 52.8


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 TraesCS2A01G000200 chr2A 258156 263109 4953 True 9149.0 9149 100.000000 1 4954 1 chr2A.!!$R1 4953
1 TraesCS2A01G000200 chr2D 272692 277682 4990 False 2319.0 6527 90.286667 249 4954 3 chr2D.!!$F1 4705
2 TraesCS2A01G000200 chr2B 11074950 11079755 4805 False 1869.5 5321 85.236667 22 4719 3 chr2B.!!$F1 4697

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
90 92 0.177836 AACCAAACCAAACCAGCAGC 59.822 50.0 0.00 0.00 0.00 5.25 F
92 94 0.249573 CCAAACCAAACCAGCAGCAG 60.250 55.0 0.00 0.00 0.00 4.24 F
252 288 0.333993 CCCCCATCCATCCATCCATC 59.666 60.0 0.00 0.00 0.00 3.51 F
609 760 0.818296 ACTCGGATTTCGGTCAGAGG 59.182 55.0 14.13 2.41 42.41 3.69 F
1056 1599 0.984432 TCCCATGCTGCCTCATCTCA 60.984 55.0 0.00 0.00 0.00 3.27 F
3132 3697 0.310854 GTGGTTCAAACTGGGCGAAG 59.689 55.0 0.00 0.00 0.00 3.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1599 2142 0.103208 GGATAGTGTGCCTGTCGAGG 59.897 60.000 0.00 0.00 43.19 4.63 R
1626 2169 0.904865 TGGAGAGCTCGACCATGGTT 60.905 55.000 20.85 1.29 0.00 3.67 R
2244 2787 2.358267 CTCTGGATTCATGCTTTCCTGC 59.642 50.000 9.06 0.00 0.00 4.85 R
2871 3414 4.307032 AAGCATGGAGTCCAATACACTT 57.693 40.909 17.71 12.08 36.95 3.16 R
3150 3715 3.791973 CACTGTAACAAAAGTGGCCAA 57.208 42.857 7.24 0.00 40.12 4.52 R
4893 5541 0.179070 GGCTTGAGGAGGATTCGACC 60.179 60.000 0.00 0.00 0.00 4.79 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
37 38 2.553028 GGTCAGCTGGAGGAAAATGTGA 60.553 50.000 15.13 0.00 0.00 3.58
38 39 3.149196 GTCAGCTGGAGGAAAATGTGAA 58.851 45.455 15.13 0.00 0.00 3.18
39 40 3.190118 GTCAGCTGGAGGAAAATGTGAAG 59.810 47.826 15.13 0.00 0.00 3.02
40 41 3.072915 TCAGCTGGAGGAAAATGTGAAGA 59.927 43.478 15.13 0.00 0.00 2.87
41 42 3.190118 CAGCTGGAGGAAAATGTGAAGAC 59.810 47.826 5.57 0.00 0.00 3.01
42 43 2.489722 GCTGGAGGAAAATGTGAAGACC 59.510 50.000 0.00 0.00 0.00 3.85
44 45 3.754965 TGGAGGAAAATGTGAAGACCTG 58.245 45.455 0.00 0.00 0.00 4.00
45 46 3.138283 TGGAGGAAAATGTGAAGACCTGT 59.862 43.478 0.00 0.00 0.00 4.00
46 47 3.503748 GGAGGAAAATGTGAAGACCTGTG 59.496 47.826 0.00 0.00 0.00 3.66
47 48 2.887152 AGGAAAATGTGAAGACCTGTGC 59.113 45.455 0.00 0.00 0.00 4.57
48 49 2.350772 GGAAAATGTGAAGACCTGTGCG 60.351 50.000 0.00 0.00 0.00 5.34
51 52 0.671781 ATGTGAAGACCTGTGCGCTC 60.672 55.000 9.73 5.51 0.00 5.03
81 83 4.642466 AAACCAAAGGAAACCAAACCAA 57.358 36.364 0.00 0.00 0.00 3.67
82 84 4.642466 AACCAAAGGAAACCAAACCAAA 57.358 36.364 0.00 0.00 0.00 3.28
83 85 3.945346 ACCAAAGGAAACCAAACCAAAC 58.055 40.909 0.00 0.00 0.00 2.93
84 86 3.275143 CCAAAGGAAACCAAACCAAACC 58.725 45.455 0.00 0.00 0.00 3.27
85 87 3.307762 CCAAAGGAAACCAAACCAAACCA 60.308 43.478 0.00 0.00 0.00 3.67
86 88 3.904800 AAGGAAACCAAACCAAACCAG 57.095 42.857 0.00 0.00 0.00 4.00
87 89 1.484653 AGGAAACCAAACCAAACCAGC 59.515 47.619 0.00 0.00 0.00 4.85
88 90 1.208293 GGAAACCAAACCAAACCAGCA 59.792 47.619 0.00 0.00 0.00 4.41
89 91 2.549926 GAAACCAAACCAAACCAGCAG 58.450 47.619 0.00 0.00 0.00 4.24
90 92 0.177836 AACCAAACCAAACCAGCAGC 59.822 50.000 0.00 0.00 0.00 5.25
91 93 0.975040 ACCAAACCAAACCAGCAGCA 60.975 50.000 0.00 0.00 0.00 4.41
92 94 0.249573 CCAAACCAAACCAGCAGCAG 60.250 55.000 0.00 0.00 0.00 4.24
93 95 0.877213 CAAACCAAACCAGCAGCAGC 60.877 55.000 0.00 0.00 42.56 5.25
106 108 2.753446 GCAGCTGCTTCCCTTCCC 60.753 66.667 31.33 0.00 38.21 3.97
109 111 0.679321 CAGCTGCTTCCCTTCCCTTC 60.679 60.000 0.00 0.00 0.00 3.46
111 113 1.304617 CTGCTTCCCTTCCCTTCCC 59.695 63.158 0.00 0.00 0.00 3.97
113 115 0.776080 TGCTTCCCTTCCCTTCCCTT 60.776 55.000 0.00 0.00 0.00 3.95
115 117 1.675007 CTTCCCTTCCCTTCCCTTCT 58.325 55.000 0.00 0.00 0.00 2.85
116 118 1.996291 CTTCCCTTCCCTTCCCTTCTT 59.004 52.381 0.00 0.00 0.00 2.52
117 119 2.149521 TCCCTTCCCTTCCCTTCTTT 57.850 50.000 0.00 0.00 0.00 2.52
118 120 1.710809 TCCCTTCCCTTCCCTTCTTTG 59.289 52.381 0.00 0.00 0.00 2.77
119 121 1.272704 CCCTTCCCTTCCCTTCTTTGG 60.273 57.143 0.00 0.00 0.00 3.28
157 193 3.700350 CCTCCCCCACCTCCTCCT 61.700 72.222 0.00 0.00 0.00 3.69
163 199 1.229658 CCCACCTCCTCCTCACCTT 60.230 63.158 0.00 0.00 0.00 3.50
164 200 1.557269 CCCACCTCCTCCTCACCTTG 61.557 65.000 0.00 0.00 0.00 3.61
191 227 1.411787 GCCTCCCTGCTTCCTACTCTA 60.412 57.143 0.00 0.00 0.00 2.43
195 231 2.091775 TCCCTGCTTCCTACTCTACTCC 60.092 54.545 0.00 0.00 0.00 3.85
197 233 2.691011 CCTGCTTCCTACTCTACTCCAC 59.309 54.545 0.00 0.00 0.00 4.02
198 234 3.626222 CCTGCTTCCTACTCTACTCCACT 60.626 52.174 0.00 0.00 0.00 4.00
199 235 3.357203 TGCTTCCTACTCTACTCCACTG 58.643 50.000 0.00 0.00 0.00 3.66
200 236 3.245300 TGCTTCCTACTCTACTCCACTGT 60.245 47.826 0.00 0.00 0.00 3.55
201 237 4.018688 TGCTTCCTACTCTACTCCACTGTA 60.019 45.833 0.00 0.00 0.00 2.74
202 238 4.577283 GCTTCCTACTCTACTCCACTGTAG 59.423 50.000 0.00 0.00 40.75 2.74
203 239 4.774660 TCCTACTCTACTCCACTGTAGG 57.225 50.000 10.28 10.28 46.85 3.18
204 240 4.110072 TCCTACTCTACTCCACTGTAGGT 58.890 47.826 14.60 0.00 46.08 3.08
205 241 4.163839 TCCTACTCTACTCCACTGTAGGTC 59.836 50.000 14.60 0.00 46.08 3.85
206 242 2.988570 ACTCTACTCCACTGTAGGTCG 58.011 52.381 0.00 0.00 40.05 4.79
207 243 2.290464 CTCTACTCCACTGTAGGTCGG 58.710 57.143 0.00 0.00 40.05 4.79
208 244 1.632409 TCTACTCCACTGTAGGTCGGT 59.368 52.381 0.00 0.00 40.05 4.69
225 261 1.002502 GTCTGTAGCCCACCAACCC 60.003 63.158 0.00 0.00 0.00 4.11
250 286 2.472463 GCCCCCATCCATCCATCCA 61.472 63.158 0.00 0.00 0.00 3.41
251 287 1.807771 GCCCCCATCCATCCATCCAT 61.808 60.000 0.00 0.00 0.00 3.41
252 288 0.333993 CCCCCATCCATCCATCCATC 59.666 60.000 0.00 0.00 0.00 3.51
254 290 1.078115 CCCATCCATCCATCCATCCA 58.922 55.000 0.00 0.00 0.00 3.41
327 384 5.428184 TGAGAATCTCCTTTTCTCTTCCC 57.572 43.478 7.91 0.00 46.03 3.97
328 385 5.097234 TGAGAATCTCCTTTTCTCTTCCCT 58.903 41.667 7.91 0.00 46.03 4.20
329 386 5.549619 TGAGAATCTCCTTTTCTCTTCCCTT 59.450 40.000 7.91 0.00 46.03 3.95
330 387 6.061022 AGAATCTCCTTTTCTCTTCCCTTC 57.939 41.667 0.00 0.00 0.00 3.46
331 388 5.790096 AGAATCTCCTTTTCTCTTCCCTTCT 59.210 40.000 0.00 0.00 0.00 2.85
332 389 6.274436 AGAATCTCCTTTTCTCTTCCCTTCTT 59.726 38.462 0.00 0.00 0.00 2.52
395 452 4.664677 CCTAGCCGCCCCGATTCG 62.665 72.222 0.00 0.00 0.00 3.34
417 474 4.634703 ATCACCACCGCGCACCAA 62.635 61.111 8.75 0.00 0.00 3.67
431 488 2.509336 CCAAGGCGGTAGCTCGTG 60.509 66.667 0.00 0.00 44.37 4.35
436 493 4.735132 GCGGTAGCTCGTGCCACA 62.735 66.667 10.06 0.00 40.80 4.17
438 495 2.970639 GGTAGCTCGTGCCACAGA 59.029 61.111 10.06 0.00 40.80 3.41
449 506 3.313874 CCACAGAGGCCGGAGATT 58.686 61.111 5.05 0.00 0.00 2.40
450 507 1.144936 CCACAGAGGCCGGAGATTC 59.855 63.158 5.05 0.00 0.00 2.52
451 508 1.227089 CACAGAGGCCGGAGATTCG 60.227 63.158 5.05 0.00 0.00 3.34
452 509 2.279784 CAGAGGCCGGAGATTCGC 60.280 66.667 5.05 0.00 0.00 4.70
453 510 3.541713 AGAGGCCGGAGATTCGCC 61.542 66.667 5.05 0.00 0.00 5.54
454 511 3.541713 GAGGCCGGAGATTCGCCT 61.542 66.667 5.05 0.96 38.59 5.52
455 512 3.798954 GAGGCCGGAGATTCGCCTG 62.799 68.421 5.05 0.80 37.02 4.85
456 513 4.918201 GGCCGGAGATTCGCCTGG 62.918 72.222 5.05 8.53 0.00 4.45
458 515 4.918201 CCGGAGATTCGCCTGGCC 62.918 72.222 14.12 0.00 0.00 5.36
459 516 3.854669 CGGAGATTCGCCTGGCCT 61.855 66.667 14.12 3.70 0.00 5.19
460 517 2.110006 GGAGATTCGCCTGGCCTC 59.890 66.667 14.12 13.19 0.00 4.70
461 518 2.110006 GAGATTCGCCTGGCCTCC 59.890 66.667 14.12 0.00 0.00 4.30
462 519 2.366167 AGATTCGCCTGGCCTCCT 60.366 61.111 14.12 2.38 0.00 3.69
463 520 2.110006 GATTCGCCTGGCCTCCTC 59.890 66.667 14.12 1.25 0.00 3.71
464 521 3.468326 GATTCGCCTGGCCTCCTCC 62.468 68.421 14.12 0.00 0.00 4.30
465 522 4.722535 TTCGCCTGGCCTCCTCCT 62.723 66.667 14.12 0.00 0.00 3.69
492 590 2.520741 CCTCCTCCTCCTCCGCTC 60.521 72.222 0.00 0.00 0.00 5.03
582 721 9.796180 CTAGGACACTAGTATAAGTTGGTAGAT 57.204 37.037 0.00 0.00 41.46 1.98
602 753 8.493547 GGTAGATTTTATTTACTCGGATTTCGG 58.506 37.037 0.00 0.00 39.77 4.30
605 756 7.767198 AGATTTTATTTACTCGGATTTCGGTCA 59.233 33.333 0.00 0.00 39.77 4.02
606 757 6.897259 TTTATTTACTCGGATTTCGGTCAG 57.103 37.500 0.00 0.00 39.77 3.51
607 758 4.730949 ATTTACTCGGATTTCGGTCAGA 57.269 40.909 0.00 0.00 39.77 3.27
608 759 3.777465 TTACTCGGATTTCGGTCAGAG 57.223 47.619 10.24 10.24 43.32 3.35
609 760 0.818296 ACTCGGATTTCGGTCAGAGG 59.182 55.000 14.13 2.41 42.41 3.69
610 761 1.103803 CTCGGATTTCGGTCAGAGGA 58.896 55.000 5.93 0.00 36.97 3.71
611 762 1.683917 CTCGGATTTCGGTCAGAGGAT 59.316 52.381 5.93 0.00 36.97 3.24
612 763 2.101582 CTCGGATTTCGGTCAGAGGATT 59.898 50.000 5.93 0.00 36.97 3.01
613 764 2.100916 TCGGATTTCGGTCAGAGGATTC 59.899 50.000 0.00 0.00 39.77 2.52
615 766 3.723260 GGATTTCGGTCAGAGGATTCTC 58.277 50.000 0.00 0.00 40.25 2.87
616 767 6.000147 CGGATTTCGGTCAGAGGATTCTCT 62.000 50.000 0.00 0.00 42.07 3.10
617 768 7.408709 CGGATTTCGGTCAGAGGATTCTCTT 62.409 48.000 0.00 0.00 40.67 2.85
628 779 4.713553 GAGGATTCTCTTCTTTCATCCCC 58.286 47.826 0.00 0.00 34.94 4.81
630 781 4.411869 AGGATTCTCTTCTTTCATCCCCTC 59.588 45.833 0.00 0.00 34.94 4.30
631 782 4.411869 GGATTCTCTTCTTTCATCCCCTCT 59.588 45.833 0.00 0.00 0.00 3.69
632 783 5.104151 GGATTCTCTTCTTTCATCCCCTCTT 60.104 44.000 0.00 0.00 0.00 2.85
633 784 5.428184 TTCTCTTCTTTCATCCCCTCTTC 57.572 43.478 0.00 0.00 0.00 2.87
634 785 4.693420 TCTCTTCTTTCATCCCCTCTTCT 58.307 43.478 0.00 0.00 0.00 2.85
635 786 4.714308 TCTCTTCTTTCATCCCCTCTTCTC 59.286 45.833 0.00 0.00 0.00 2.87
636 787 4.693420 TCTTCTTTCATCCCCTCTTCTCT 58.307 43.478 0.00 0.00 0.00 3.10
637 788 5.097234 TCTTCTTTCATCCCCTCTTCTCTT 58.903 41.667 0.00 0.00 0.00 2.85
638 789 5.188751 TCTTCTTTCATCCCCTCTTCTCTTC 59.811 44.000 0.00 0.00 0.00 2.87
639 790 4.693420 TCTTTCATCCCCTCTTCTCTTCT 58.307 43.478 0.00 0.00 0.00 2.85
640 791 5.097234 TCTTTCATCCCCTCTTCTCTTCTT 58.903 41.667 0.00 0.00 0.00 2.52
641 792 5.549619 TCTTTCATCCCCTCTTCTCTTCTTT 59.450 40.000 0.00 0.00 0.00 2.52
642 793 6.730977 TCTTTCATCCCCTCTTCTCTTCTTTA 59.269 38.462 0.00 0.00 0.00 1.85
643 794 5.941555 TCATCCCCTCTTCTCTTCTTTAC 57.058 43.478 0.00 0.00 0.00 2.01
644 795 5.594777 TCATCCCCTCTTCTCTTCTTTACT 58.405 41.667 0.00 0.00 0.00 2.24
645 796 6.742756 TCATCCCCTCTTCTCTTCTTTACTA 58.257 40.000 0.00 0.00 0.00 1.82
646 797 6.836527 TCATCCCCTCTTCTCTTCTTTACTAG 59.163 42.308 0.00 0.00 0.00 2.57
647 798 5.520751 TCCCCTCTTCTCTTCTTTACTAGG 58.479 45.833 0.00 0.00 0.00 3.02
648 799 5.255679 TCCCCTCTTCTCTTCTTTACTAGGA 59.744 44.000 0.00 0.00 0.00 2.94
649 800 5.361571 CCCCTCTTCTCTTCTTTACTAGGAC 59.638 48.000 0.00 0.00 0.00 3.85
653 804 7.148137 CCTCTTCTCTTCTTTACTAGGACACTC 60.148 44.444 0.00 0.00 0.00 3.51
702 877 6.376581 AGACATCAATTTTGGTCAGAGGATTC 59.623 38.462 0.00 0.00 32.79 2.52
866 1365 1.902508 CCTTCCTTGAGCCAGTCAGTA 59.097 52.381 0.00 0.00 36.21 2.74
1056 1599 0.984432 TCCCATGCTGCCTCATCTCA 60.984 55.000 0.00 0.00 0.00 3.27
1134 1677 2.034879 CGATTTCAGCCACTGCGGT 61.035 57.895 0.00 0.00 44.33 5.68
1599 2142 1.144936 CCAGGAGATCCGCAAGTCC 59.855 63.158 0.00 0.00 42.08 3.85
1614 2157 2.203640 TCCCTCGACAGGCACACT 60.204 61.111 0.00 0.00 38.72 3.55
1625 2168 3.639094 GACAGGCACACTATCCTCTACAT 59.361 47.826 0.00 0.00 0.00 2.29
1626 2169 4.804597 ACAGGCACACTATCCTCTACATA 58.195 43.478 0.00 0.00 0.00 2.29
1740 2283 6.439487 TCATCTCAGAGAAAGGGAGATAACT 58.561 40.000 3.63 0.00 44.35 2.24
2127 2670 1.900498 GCAGCACAGGGACTTGCTT 60.900 57.895 0.00 0.00 45.37 3.91
2244 2787 1.599171 GGTCTCGTCTCGATGATGCAG 60.599 57.143 0.00 0.00 34.61 4.41
2947 3493 3.356290 TGTTGATCCTCATCTGTCTCGA 58.644 45.455 0.00 0.00 0.00 4.04
3010 3571 8.840321 AGGCTAGCATGTAGTTACAATTATTTG 58.160 33.333 18.24 0.00 39.99 2.32
3032 3597 9.950680 ATTTGTTTGAAAGACATGTAGTTACAG 57.049 29.630 0.00 0.00 39.92 2.74
3057 3622 3.976169 TGAAACTGCCAAATTACACTGC 58.024 40.909 0.00 0.00 0.00 4.40
3132 3697 0.310854 GTGGTTCAAACTGGGCGAAG 59.689 55.000 0.00 0.00 0.00 3.79
3146 3711 8.570068 AACTGGGCGAAGTAAGATTTTATTTA 57.430 30.769 0.00 0.00 0.00 1.40
3504 4075 4.975490 TGGCTCTCCAGTTCCAGA 57.025 55.556 0.00 0.00 37.47 3.86
3620 4191 0.602638 GTGATGACACCAACCGAGCA 60.603 55.000 0.00 0.00 40.74 4.26
3641 4212 1.059584 TCACCCACAAGCTCCTGGAA 61.060 55.000 10.61 0.00 0.00 3.53
4022 4596 5.475719 AGTAGTTGATTCCGTTTTGATCGA 58.524 37.500 0.00 0.00 0.00 3.59
4023 4597 6.106673 AGTAGTTGATTCCGTTTTGATCGAT 58.893 36.000 0.00 0.00 0.00 3.59
4024 4598 5.880054 AGTTGATTCCGTTTTGATCGATT 57.120 34.783 0.00 0.00 0.00 3.34
4301 4887 0.833834 ACCAGGTCAGGTCAGGTCAG 60.834 60.000 0.00 0.00 37.28 3.51
4303 4889 0.833834 CAGGTCAGGTCAGGTCAGGT 60.834 60.000 0.00 0.00 0.00 4.00
4304 4890 0.543174 AGGTCAGGTCAGGTCAGGTC 60.543 60.000 0.00 0.00 0.00 3.85
4305 4891 0.832135 GGTCAGGTCAGGTCAGGTCA 60.832 60.000 0.00 0.00 0.00 4.02
4505 5105 5.163405 TGACTGACTAGGAGTATTTGATGCC 60.163 44.000 0.00 0.00 0.00 4.40
4625 5251 6.875972 ATGAGTGTTAGGAGGTGTAGAAAT 57.124 37.500 0.00 0.00 0.00 2.17
4646 5272 0.401356 TTGCAGCTGAGGTTCCATCA 59.599 50.000 20.43 0.00 0.00 3.07
4758 5384 1.527433 GGAGACACTTGGCAAAGGGC 61.527 60.000 1.91 0.00 40.82 5.19
4805 5453 2.628465 TCCTCCTCCCCCATCCCT 60.628 66.667 0.00 0.00 0.00 4.20
4807 5455 3.174265 CTCCTCCCCCATCCCTGC 61.174 72.222 0.00 0.00 0.00 4.85
4808 5456 4.843331 TCCTCCCCCATCCCTGCC 62.843 72.222 0.00 0.00 0.00 4.85
4810 5458 3.813724 CTCCCCCATCCCTGCCAC 61.814 72.222 0.00 0.00 0.00 5.01
4893 5541 0.898320 AGGTCCCTGTTGTCTGATCG 59.102 55.000 0.00 0.00 0.00 3.69
4910 5558 1.103803 TCGGTCGAATCCTCCTCAAG 58.896 55.000 0.00 0.00 0.00 3.02
4913 5561 0.528684 GTCGAATCCTCCTCAAGCCG 60.529 60.000 0.00 0.00 0.00 5.52
4918 5566 0.904865 ATCCTCCTCAAGCCGTCACA 60.905 55.000 0.00 0.00 0.00 3.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.822350 AGCTGACCTACCAAGAAAAGAAAC 59.178 41.667 0.00 0.00 0.00 2.78
1 2 4.821805 CAGCTGACCTACCAAGAAAAGAAA 59.178 41.667 8.42 0.00 0.00 2.52
2 3 4.389374 CAGCTGACCTACCAAGAAAAGAA 58.611 43.478 8.42 0.00 0.00 2.52
3 4 3.244561 CCAGCTGACCTACCAAGAAAAGA 60.245 47.826 17.39 0.00 0.00 2.52
4 5 3.077359 CCAGCTGACCTACCAAGAAAAG 58.923 50.000 17.39 0.00 0.00 2.27
5 6 2.708861 TCCAGCTGACCTACCAAGAAAA 59.291 45.455 17.39 0.00 0.00 2.29
6 7 2.303022 CTCCAGCTGACCTACCAAGAAA 59.697 50.000 17.39 0.00 0.00 2.52
7 8 1.902508 CTCCAGCTGACCTACCAAGAA 59.097 52.381 17.39 0.00 0.00 2.52
8 9 1.561643 CTCCAGCTGACCTACCAAGA 58.438 55.000 17.39 0.00 0.00 3.02
9 10 0.539051 CCTCCAGCTGACCTACCAAG 59.461 60.000 17.39 0.00 0.00 3.61
10 11 0.116342 TCCTCCAGCTGACCTACCAA 59.884 55.000 17.39 0.00 0.00 3.67
11 12 0.116342 TTCCTCCAGCTGACCTACCA 59.884 55.000 17.39 0.00 0.00 3.25
12 13 1.276622 TTTCCTCCAGCTGACCTACC 58.723 55.000 17.39 0.00 0.00 3.18
13 14 3.274288 CATTTTCCTCCAGCTGACCTAC 58.726 50.000 17.39 0.00 0.00 3.18
14 15 2.912956 ACATTTTCCTCCAGCTGACCTA 59.087 45.455 17.39 0.00 0.00 3.08
15 16 1.707427 ACATTTTCCTCCAGCTGACCT 59.293 47.619 17.39 0.00 0.00 3.85
16 17 1.815003 CACATTTTCCTCCAGCTGACC 59.185 52.381 17.39 0.00 0.00 4.02
17 18 2.783135 TCACATTTTCCTCCAGCTGAC 58.217 47.619 17.39 0.00 0.00 3.51
18 19 3.072915 TCTTCACATTTTCCTCCAGCTGA 59.927 43.478 17.39 0.00 0.00 4.26
19 20 3.190118 GTCTTCACATTTTCCTCCAGCTG 59.810 47.826 6.78 6.78 0.00 4.24
20 21 3.416156 GTCTTCACATTTTCCTCCAGCT 58.584 45.455 0.00 0.00 0.00 4.24
37 38 2.044806 AACAGGAGCGCACAGGTCTT 62.045 55.000 11.47 0.00 46.05 3.01
38 39 2.511452 AACAGGAGCGCACAGGTCT 61.511 57.895 11.47 0.00 46.05 3.85
39 40 2.031163 AACAGGAGCGCACAGGTC 59.969 61.111 11.47 0.00 46.08 3.85
40 41 2.281070 CAACAGGAGCGCACAGGT 60.281 61.111 11.47 1.94 0.00 4.00
41 42 3.730761 GCAACAGGAGCGCACAGG 61.731 66.667 11.47 1.19 0.00 4.00
42 43 2.062361 TTTGCAACAGGAGCGCACAG 62.062 55.000 11.47 2.08 34.87 3.66
44 45 1.065600 TTTTGCAACAGGAGCGCAC 59.934 52.632 11.47 1.97 34.87 5.34
45 46 1.065600 GTTTTGCAACAGGAGCGCA 59.934 52.632 11.47 0.00 32.54 6.09
46 47 1.661509 GGTTTTGCAACAGGAGCGC 60.662 57.895 0.00 0.00 34.15 5.92
47 48 0.102120 TTGGTTTTGCAACAGGAGCG 59.898 50.000 0.00 0.00 34.15 5.03
48 49 2.204237 CTTTGGTTTTGCAACAGGAGC 58.796 47.619 0.00 0.00 34.15 4.70
51 52 2.977772 TCCTTTGGTTTTGCAACAGG 57.022 45.000 0.00 0.00 34.15 4.00
89 91 2.753446 GGGAAGGGAAGCAGCTGC 60.753 66.667 31.53 31.53 42.49 5.25
90 92 0.679321 GAAGGGAAGGGAAGCAGCTG 60.679 60.000 10.11 10.11 0.00 4.24
91 93 1.688211 GAAGGGAAGGGAAGCAGCT 59.312 57.895 0.00 0.00 0.00 4.24
92 94 1.379176 GGAAGGGAAGGGAAGCAGC 60.379 63.158 0.00 0.00 0.00 5.25
93 95 1.210885 AGGGAAGGGAAGGGAAGCAG 61.211 60.000 0.00 0.00 0.00 4.24
96 98 1.675007 AGAAGGGAAGGGAAGGGAAG 58.325 55.000 0.00 0.00 0.00 3.46
99 101 1.272704 CCAAAGAAGGGAAGGGAAGGG 60.273 57.143 0.00 0.00 0.00 3.95
111 113 0.317160 GGCCGGAAAACCCAAAGAAG 59.683 55.000 5.05 0.00 34.14 2.85
113 115 1.899534 CGGCCGGAAAACCCAAAGA 60.900 57.895 20.10 0.00 34.14 2.52
115 117 2.913060 CCGGCCGGAAAACCCAAA 60.913 61.111 41.82 0.00 37.50 3.28
145 178 1.229658 AAGGTGAGGAGGAGGTGGG 60.230 63.158 0.00 0.00 0.00 4.61
146 179 1.986413 CAAGGTGAGGAGGAGGTGG 59.014 63.158 0.00 0.00 0.00 4.61
148 181 1.152030 TGCAAGGTGAGGAGGAGGT 60.152 57.895 0.00 0.00 0.00 3.85
149 182 1.197430 AGTGCAAGGTGAGGAGGAGG 61.197 60.000 0.00 0.00 0.00 4.30
164 200 3.265272 AAGCAGGGAGGCAGAGTGC 62.265 63.158 0.00 0.00 44.08 4.40
191 227 0.404812 AGACCGACCTACAGTGGAGT 59.595 55.000 0.61 0.00 0.00 3.85
195 231 1.132643 GCTACAGACCGACCTACAGTG 59.867 57.143 0.00 0.00 0.00 3.66
197 233 0.739561 GGCTACAGACCGACCTACAG 59.260 60.000 0.00 0.00 0.00 2.74
198 234 0.682209 GGGCTACAGACCGACCTACA 60.682 60.000 0.00 0.00 30.66 2.74
199 235 2.113767 GGGCTACAGACCGACCTAC 58.886 63.158 0.00 0.00 30.66 3.18
200 236 4.672251 GGGCTACAGACCGACCTA 57.328 61.111 0.00 0.00 30.66 3.08
206 242 1.002502 GGTTGGTGGGCTACAGACC 60.003 63.158 2.66 6.31 45.93 3.85
207 243 1.002502 GGGTTGGTGGGCTACAGAC 60.003 63.158 2.66 0.33 0.00 3.51
208 244 2.228480 GGGGTTGGTGGGCTACAGA 61.228 63.158 2.66 0.00 0.00 3.41
229 265 0.829182 GATGGATGGATGGGGGCAAC 60.829 60.000 0.00 0.00 0.00 4.17
230 266 1.543184 GATGGATGGATGGGGGCAA 59.457 57.895 0.00 0.00 0.00 4.52
231 267 2.472463 GGATGGATGGATGGGGGCA 61.472 63.158 0.00 0.00 0.00 5.36
232 268 1.807771 ATGGATGGATGGATGGGGGC 61.808 60.000 0.00 0.00 0.00 5.80
279 317 3.462199 CTCCCGCCGATTTCCCCTC 62.462 68.421 0.00 0.00 0.00 4.30
327 384 6.930722 AGAGCAAGAAGAAGAAGAAGAAGAAG 59.069 38.462 0.00 0.00 0.00 2.85
328 385 6.825610 AGAGCAAGAAGAAGAAGAAGAAGAA 58.174 36.000 0.00 0.00 0.00 2.52
329 386 6.418057 AGAGCAAGAAGAAGAAGAAGAAGA 57.582 37.500 0.00 0.00 0.00 2.87
330 387 7.354257 CAAAGAGCAAGAAGAAGAAGAAGAAG 58.646 38.462 0.00 0.00 0.00 2.85
331 388 6.261826 CCAAAGAGCAAGAAGAAGAAGAAGAA 59.738 38.462 0.00 0.00 0.00 2.52
332 389 5.762218 CCAAAGAGCAAGAAGAAGAAGAAGA 59.238 40.000 0.00 0.00 0.00 2.87
415 472 3.188786 GCACGAGCTACCGCCTTG 61.189 66.667 0.00 0.00 37.91 3.61
416 473 4.452733 GGCACGAGCTACCGCCTT 62.453 66.667 11.54 0.00 41.50 4.35
423 480 3.288484 CCTCTGTGGCACGAGCTA 58.712 61.111 24.40 0.00 41.70 3.32
433 490 1.227089 CGAATCTCCGGCCTCTGTG 60.227 63.158 0.00 0.00 0.00 3.66
434 491 3.082579 GCGAATCTCCGGCCTCTGT 62.083 63.158 0.00 0.00 0.00 3.41
441 498 4.918201 GGCCAGGCGAATCTCCGG 62.918 72.222 5.00 0.00 0.00 5.14
442 499 3.798954 GAGGCCAGGCGAATCTCCG 62.799 68.421 5.01 0.00 0.00 4.63
444 501 2.110006 GGAGGCCAGGCGAATCTC 59.890 66.667 5.01 6.10 0.00 2.75
445 502 2.366167 AGGAGGCCAGGCGAATCT 60.366 61.111 5.01 0.00 0.00 2.40
446 503 2.110006 GAGGAGGCCAGGCGAATC 59.890 66.667 5.01 3.24 0.00 2.52
447 504 3.483869 GGAGGAGGCCAGGCGAAT 61.484 66.667 5.01 0.00 0.00 3.34
448 505 4.722535 AGGAGGAGGCCAGGCGAA 62.723 66.667 5.01 0.00 0.00 4.70
451 508 4.814041 AGGAGGAGGAGGCCAGGC 62.814 72.222 5.01 1.26 0.00 4.85
452 509 2.445654 GAGGAGGAGGAGGCCAGG 60.446 72.222 5.01 0.00 0.00 4.45
453 510 2.445654 GGAGGAGGAGGAGGCCAG 60.446 72.222 5.01 0.00 0.00 4.85
454 511 2.955246 AGGAGGAGGAGGAGGCCA 60.955 66.667 5.01 0.00 0.00 5.36
455 512 2.123033 GAGGAGGAGGAGGAGGCC 60.123 72.222 0.00 0.00 0.00 5.19
456 513 2.123033 GGAGGAGGAGGAGGAGGC 60.123 72.222 0.00 0.00 0.00 4.70
457 514 1.541672 GAGGAGGAGGAGGAGGAGG 59.458 68.421 0.00 0.00 0.00 4.30
458 515 0.998945 AGGAGGAGGAGGAGGAGGAG 60.999 65.000 0.00 0.00 0.00 3.69
459 516 0.996762 GAGGAGGAGGAGGAGGAGGA 60.997 65.000 0.00 0.00 0.00 3.71
460 517 1.541672 GAGGAGGAGGAGGAGGAGG 59.458 68.421 0.00 0.00 0.00 4.30
461 518 0.998945 AGGAGGAGGAGGAGGAGGAG 60.999 65.000 0.00 0.00 0.00 3.69
462 519 0.996762 GAGGAGGAGGAGGAGGAGGA 60.997 65.000 0.00 0.00 0.00 3.71
463 520 1.541672 GAGGAGGAGGAGGAGGAGG 59.458 68.421 0.00 0.00 0.00 4.30
464 521 0.998945 AGGAGGAGGAGGAGGAGGAG 60.999 65.000 0.00 0.00 0.00 3.69
465 522 0.996762 GAGGAGGAGGAGGAGGAGGA 60.997 65.000 0.00 0.00 0.00 3.71
466 523 1.541672 GAGGAGGAGGAGGAGGAGG 59.458 68.421 0.00 0.00 0.00 4.30
492 590 3.119029 CCAGCCACAAATTACATCCCTTG 60.119 47.826 0.00 0.00 0.00 3.61
528 629 3.418068 GTCTGACCTGCGTGCTGC 61.418 66.667 0.00 0.00 46.70 5.25
529 630 2.740055 GGTCTGACCTGCGTGCTG 60.740 66.667 19.53 0.00 34.73 4.41
581 720 7.767198 TCTGACCGAAATCCGAGTAAATAAAAT 59.233 33.333 0.00 0.00 41.76 1.82
582 721 7.098477 TCTGACCGAAATCCGAGTAAATAAAA 58.902 34.615 0.00 0.00 41.76 1.52
606 757 4.411869 AGGGGATGAAAGAAGAGAATCCTC 59.588 45.833 0.00 0.00 38.05 3.71
607 758 4.378961 AGGGGATGAAAGAAGAGAATCCT 58.621 43.478 0.00 0.00 37.53 3.24
608 759 4.411869 AGAGGGGATGAAAGAAGAGAATCC 59.588 45.833 0.00 0.00 36.80 3.01
609 760 5.628797 AGAGGGGATGAAAGAAGAGAATC 57.371 43.478 0.00 0.00 0.00 2.52
610 761 5.730697 AGAAGAGGGGATGAAAGAAGAGAAT 59.269 40.000 0.00 0.00 0.00 2.40
611 762 5.097234 AGAAGAGGGGATGAAAGAAGAGAA 58.903 41.667 0.00 0.00 0.00 2.87
612 763 4.693420 AGAAGAGGGGATGAAAGAAGAGA 58.307 43.478 0.00 0.00 0.00 3.10
613 764 4.716287 AGAGAAGAGGGGATGAAAGAAGAG 59.284 45.833 0.00 0.00 0.00 2.85
615 766 5.189539 AGAAGAGAAGAGGGGATGAAAGAAG 59.810 44.000 0.00 0.00 0.00 2.85
616 767 5.097234 AGAAGAGAAGAGGGGATGAAAGAA 58.903 41.667 0.00 0.00 0.00 2.52
617 768 4.693420 AGAAGAGAAGAGGGGATGAAAGA 58.307 43.478 0.00 0.00 0.00 2.52
619 770 5.850046 AAAGAAGAGAAGAGGGGATGAAA 57.150 39.130 0.00 0.00 0.00 2.69
621 772 5.594777 AGTAAAGAAGAGAAGAGGGGATGA 58.405 41.667 0.00 0.00 0.00 2.92
623 774 6.068140 TCCTAGTAAAGAAGAGAAGAGGGGAT 60.068 42.308 0.00 0.00 0.00 3.85
625 776 5.361571 GTCCTAGTAAAGAAGAGAAGAGGGG 59.638 48.000 0.00 0.00 0.00 4.79
627 778 6.661805 AGTGTCCTAGTAAAGAAGAGAAGAGG 59.338 42.308 0.00 0.00 0.00 3.69
628 779 7.413657 CGAGTGTCCTAGTAAAGAAGAGAAGAG 60.414 44.444 0.00 0.00 0.00 2.85
630 781 6.372103 TCGAGTGTCCTAGTAAAGAAGAGAAG 59.628 42.308 0.00 0.00 0.00 2.85
631 782 6.236409 TCGAGTGTCCTAGTAAAGAAGAGAA 58.764 40.000 0.00 0.00 0.00 2.87
632 783 5.802465 TCGAGTGTCCTAGTAAAGAAGAGA 58.198 41.667 0.00 0.00 0.00 3.10
633 784 6.497785 TTCGAGTGTCCTAGTAAAGAAGAG 57.502 41.667 0.00 0.00 0.00 2.85
634 785 6.713903 TCTTTCGAGTGTCCTAGTAAAGAAGA 59.286 38.462 0.00 0.00 30.78 2.87
635 786 6.910995 TCTTTCGAGTGTCCTAGTAAAGAAG 58.089 40.000 0.00 0.00 30.78 2.85
636 787 6.889301 TCTTTCGAGTGTCCTAGTAAAGAA 57.111 37.500 0.00 0.00 30.78 2.52
637 788 6.889301 TTCTTTCGAGTGTCCTAGTAAAGA 57.111 37.500 0.00 0.00 31.58 2.52
638 789 7.368833 TCTTTCTTTCGAGTGTCCTAGTAAAG 58.631 38.462 0.00 0.00 0.00 1.85
639 790 7.281040 TCTTTCTTTCGAGTGTCCTAGTAAA 57.719 36.000 0.00 0.00 0.00 2.01
640 791 6.889301 TCTTTCTTTCGAGTGTCCTAGTAA 57.111 37.500 0.00 0.00 0.00 2.24
641 792 6.889301 TTCTTTCTTTCGAGTGTCCTAGTA 57.111 37.500 0.00 0.00 0.00 1.82
642 793 5.786264 TTCTTTCTTTCGAGTGTCCTAGT 57.214 39.130 0.00 0.00 0.00 2.57
643 794 6.448006 TCTTTCTTTCTTTCGAGTGTCCTAG 58.552 40.000 0.00 0.00 0.00 3.02
644 795 6.401047 TCTTTCTTTCTTTCGAGTGTCCTA 57.599 37.500 0.00 0.00 0.00 2.94
645 796 5.277857 TCTTTCTTTCTTTCGAGTGTCCT 57.722 39.130 0.00 0.00 0.00 3.85
646 797 5.986004 TTCTTTCTTTCTTTCGAGTGTCC 57.014 39.130 0.00 0.00 0.00 4.02
647 798 7.235430 TCTTTCTTTCTTTCTTTCGAGTGTC 57.765 36.000 0.00 0.00 0.00 3.67
648 799 7.611213 TTCTTTCTTTCTTTCTTTCGAGTGT 57.389 32.000 0.00 0.00 0.00 3.55
649 800 8.391106 TCTTTCTTTCTTTCTTTCTTTCGAGTG 58.609 33.333 0.00 0.00 0.00 3.51
653 804 9.774742 TCTTTCTTTCTTTCTTTCTTTCTTTCG 57.225 29.630 0.00 0.00 0.00 3.46
680 831 6.770746 AGAATCCTCTGACCAAAATTGATG 57.229 37.500 0.00 0.00 0.00 3.07
702 877 7.475840 AGTAAGAAACAGAAAAGCAACAAGAG 58.524 34.615 0.00 0.00 0.00 2.85
739 932 3.572642 TCTTTTTCCCTCCCAAAGTTCC 58.427 45.455 0.00 0.00 0.00 3.62
741 934 5.277250 TCTTTCTTTTTCCCTCCCAAAGTT 58.723 37.500 0.00 0.00 0.00 2.66
743 936 5.869649 TTCTTTCTTTTTCCCTCCCAAAG 57.130 39.130 0.00 0.00 0.00 2.77
744 937 5.961421 TCTTTCTTTCTTTTTCCCTCCCAAA 59.039 36.000 0.00 0.00 0.00 3.28
745 938 5.524535 TCTTTCTTTCTTTTTCCCTCCCAA 58.475 37.500 0.00 0.00 0.00 4.12
746 939 5.137412 TCTTTCTTTCTTTTTCCCTCCCA 57.863 39.130 0.00 0.00 0.00 4.37
866 1365 2.034878 TGCTGACTGACTGACTGACTT 58.965 47.619 0.00 0.00 0.00 3.01
911 1410 8.044060 TGACTCTTGTGGTATCAAATCAAATC 57.956 34.615 0.00 0.00 0.00 2.17
912 1411 7.667219 ACTGACTCTTGTGGTATCAAATCAAAT 59.333 33.333 0.00 0.00 0.00 2.32
913 1412 6.998074 ACTGACTCTTGTGGTATCAAATCAAA 59.002 34.615 0.00 0.00 0.00 2.69
914 1413 6.533730 ACTGACTCTTGTGGTATCAAATCAA 58.466 36.000 0.00 0.00 0.00 2.57
1032 1575 4.453892 AGGCAGCATGGGAAGGGC 62.454 66.667 0.00 0.00 35.86 5.19
1047 1590 1.090625 GCAGCAGCAGTGAGATGAGG 61.091 60.000 5.58 0.00 41.58 3.86
1164 1707 1.021390 GGATGTTGTCCGTGCTCCAG 61.021 60.000 0.00 0.00 37.23 3.86
1572 2115 1.722034 GGATCTCCTGGGTGAGCATA 58.278 55.000 8.78 0.00 32.22 3.14
1599 2142 0.103208 GGATAGTGTGCCTGTCGAGG 59.897 60.000 0.00 0.00 43.19 4.63
1614 2157 5.637127 TCGACCATGGTTATGTAGAGGATA 58.363 41.667 20.85 0.00 32.21 2.59
1625 2168 1.112113 GGAGAGCTCGACCATGGTTA 58.888 55.000 20.85 9.80 0.00 2.85
1626 2169 0.904865 TGGAGAGCTCGACCATGGTT 60.905 55.000 20.85 1.29 0.00 3.67
1836 2379 3.644606 CACCTGCTGGCAGTCCCT 61.645 66.667 17.16 0.00 42.15 4.20
2127 2670 4.007457 GCCTCATGCTTTGCCTGA 57.993 55.556 0.00 0.00 36.87 3.86
2244 2787 2.358267 CTCTGGATTCATGCTTTCCTGC 59.642 50.000 9.06 0.00 0.00 4.85
2871 3414 4.307032 AAGCATGGAGTCCAATACACTT 57.693 40.909 17.71 12.08 36.95 3.16
2872 3415 5.636903 ATAAGCATGGAGTCCAATACACT 57.363 39.130 17.71 6.46 36.95 3.55
2873 3416 5.822519 TCAATAAGCATGGAGTCCAATACAC 59.177 40.000 17.71 4.10 36.95 2.90
3032 3597 6.089417 GCAGTGTAATTTGGCAGTTTCATAAC 59.911 38.462 0.00 0.00 34.36 1.89
3044 3609 4.389687 GCAGGAAAATGCAGTGTAATTTGG 59.610 41.667 0.00 0.00 45.77 3.28
3057 3622 4.178540 CAAAGTATGCTGGCAGGAAAATG 58.821 43.478 14.16 4.63 0.00 2.32
3146 3711 5.584251 CACTGTAACAAAAGTGGCCAAAAAT 59.416 36.000 7.24 0.00 40.12 1.82
3150 3715 3.791973 CACTGTAACAAAAGTGGCCAA 57.208 42.857 7.24 0.00 40.12 4.52
3504 4075 0.112995 ACAGGGGTCACATGTTGCAT 59.887 50.000 0.00 0.00 42.25 3.96
3620 4191 1.757306 CAGGAGCTTGTGGGTGACT 59.243 57.895 0.00 0.00 0.00 3.41
3641 4212 1.600916 GACTCGGCACCCAAGCTTT 60.601 57.895 0.00 0.00 34.17 3.51
3647 4218 1.301401 CGAAAAGACTCGGCACCCA 60.301 57.895 0.00 0.00 35.14 4.51
3812 4383 4.148825 GCGAGGGCCACGATCAGT 62.149 66.667 27.54 0.00 0.00 3.41
3872 4443 0.831307 GGAGCAGACCGTTTATCCCT 59.169 55.000 0.00 0.00 0.00 4.20
4022 4596 4.667858 TGGGACCTAACCTGGCATAATAAT 59.332 41.667 0.00 0.00 0.00 1.28
4023 4597 4.048600 TGGGACCTAACCTGGCATAATAA 58.951 43.478 0.00 0.00 0.00 1.40
4024 4598 3.671079 TGGGACCTAACCTGGCATAATA 58.329 45.455 0.00 0.00 0.00 0.98
4591 5217 5.240891 TCCTAACACTCATTCAAAGCAGAG 58.759 41.667 0.00 0.00 0.00 3.35
4596 5222 5.308825 ACACCTCCTAACACTCATTCAAAG 58.691 41.667 0.00 0.00 0.00 2.77
4625 5251 1.888512 GATGGAACCTCAGCTGCAAAA 59.111 47.619 9.47 0.00 0.00 2.44
4646 5272 4.763355 TGCCTTGGATCCTACTACCATAT 58.237 43.478 14.23 0.00 33.56 1.78
4774 5400 0.325203 GGAGGAGAGGCAGAAGAGGT 60.325 60.000 0.00 0.00 0.00 3.85
4779 5427 1.002274 GGGAGGAGGAGAGGCAGAA 59.998 63.158 0.00 0.00 0.00 3.02
4841 5489 1.228063 CGGCCATTGGGAGGAGATG 60.228 63.158 2.24 0.00 35.59 2.90
4842 5490 2.455565 CCGGCCATTGGGAGGAGAT 61.456 63.158 2.24 0.00 36.08 2.75
4866 5514 3.192103 AACAGGGACCTTCGGCCAC 62.192 63.158 2.24 0.00 0.00 5.01
4880 5528 2.347697 TTCGACCGATCAGACAACAG 57.652 50.000 0.00 0.00 0.00 3.16
4884 5532 1.676529 GAGGATTCGACCGATCAGACA 59.323 52.381 0.00 0.00 34.73 3.41
4888 5536 1.319541 GAGGAGGATTCGACCGATCA 58.680 55.000 0.00 0.00 34.73 2.92
4893 5541 0.179070 GGCTTGAGGAGGATTCGACC 60.179 60.000 0.00 0.00 0.00 4.79
4913 5561 0.320771 AGAGGTGGCATCGTTGTGAC 60.321 55.000 0.00 0.00 0.00 3.67
4918 5566 2.990479 GGGAGAGGTGGCATCGTT 59.010 61.111 0.00 0.00 0.00 3.85


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

AutoCloner maintained by Alex Coulton.