Multiple sequence alignment - TraesCS5B01G266300

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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 TraesCS5B01G266300 chr5B 100.000 3304 0 0 1 3304 450775912 450772609 0.000000e+00 6102.0
1 TraesCS5B01G266300 chr5B 94.118 136 7 1 2839 2974 662456395 662456261 4.320000e-49 206.0
2 TraesCS5B01G266300 chr5D 95.215 2299 77 17 558 2841 377489131 377486851 0.000000e+00 3605.0
3 TraesCS5B01G266300 chr5D 88.079 302 31 4 1 300 377526615 377526317 1.460000e-93 353.0
4 TraesCS5B01G266300 chr5D 85.274 292 27 7 2962 3243 377486843 377486558 1.500000e-73 287.0
5 TraesCS5B01G266300 chr5D 85.938 256 33 3 297 550 377490039 377489785 1.510000e-68 270.0
6 TraesCS5B01G266300 chr5A 91.508 2367 137 33 492 2841 478020071 478017752 0.000000e+00 3199.0
7 TraesCS5B01G266300 chr5A 88.596 342 27 7 2959 3295 478017747 478017413 3.970000e-109 405.0
8 TraesCS5B01G266300 chr5A 88.199 322 34 3 1 320 478021913 478021594 6.690000e-102 381.0
9 TraesCS5B01G266300 chr7B 75.636 747 149 21 1023 1760 185390940 185390218 1.140000e-89 340.0
10 TraesCS5B01G266300 chr7B 94.574 129 7 0 2839 2967 668203317 668203189 2.010000e-47 200.0
11 TraesCS5B01G266300 chr7A 75.472 742 147 23 1019 1750 227958978 227958262 2.460000e-86 329.0
12 TraesCS5B01G266300 chr1B 97.541 122 3 0 2839 2960 417425274 417425153 3.340000e-50 209.0
13 TraesCS5B01G266300 chrUn 96.721 122 4 0 2839 2960 48417752 48417631 1.550000e-48 204.0
14 TraesCS5B01G266300 chr2B 95.276 127 6 0 2839 2965 655599873 655599747 5.590000e-48 202.0
15 TraesCS5B01G266300 chr2B 94.574 129 7 0 2839 2967 185104941 185105069 2.010000e-47 200.0
16 TraesCS5B01G266300 chr2B 94.574 129 7 0 2839 2967 662686163 662686291 2.010000e-47 200.0
17 TraesCS5B01G266300 chr3B 94.574 129 7 0 2839 2967 383716612 383716484 2.010000e-47 200.0
18 TraesCS5B01G266300 chr6B 93.284 134 8 1 2829 2961 353299503 353299636 2.600000e-46 196.0
19 TraesCS5B01G266300 chr2D 84.146 82 11 2 326 406 34270983 34271063 9.830000e-11 78.7


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5B01G266300 chr5B 450772609 450775912 3303 True 6102.000000 6102 100.000000 1 3304 1 chr5B.!!$R1 3303
1 TraesCS5B01G266300 chr5D 377486558 377490039 3481 True 1387.333333 3605 88.809000 297 3243 3 chr5D.!!$R2 2946
2 TraesCS5B01G266300 chr5A 478017413 478021913 4500 True 1328.333333 3199 89.434333 1 3295 3 chr5A.!!$R1 3294
3 TraesCS5B01G266300 chr7B 185390218 185390940 722 True 340.000000 340 75.636000 1023 1760 1 chr7B.!!$R1 737
4 TraesCS5B01G266300 chr7A 227958262 227958978 716 True 329.000000 329 75.472000 1019 1750 1 chr7A.!!$R1 731

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
30 31 0.036765 TCAAAACCATACGCGCTCCT 60.037 50.0 5.73 0.0 0.00 3.69 F
653 2690 0.892755 ACTCGCTCCACCGATTTACA 59.107 50.0 0.00 0.0 36.54 2.41 F
778 2816 0.898326 GTTCCGCCTCCACCCATTTT 60.898 55.0 0.00 0.0 0.00 1.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1805 3860 2.089696 AGAATTCCTCTCCCTGGGCTAT 60.090 50.0 8.22 0.00 0.00 2.97 R
2100 4155 0.725117 AAGCACTAACGCGGTAATGC 59.275 50.0 28.58 28.58 36.85 3.56 R
2400 4458 1.396653 AGCAATCATAGCAACCAGGC 58.603 50.0 0.00 0.00 0.00 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 0.725117 GCGACCCTCAAAACCATACG 59.275 55.000 0.00 0.00 0.00 3.06
28 29 0.373716 CCTCAAAACCATACGCGCTC 59.626 55.000 5.73 0.00 0.00 5.03
30 31 0.036765 TCAAAACCATACGCGCTCCT 60.037 50.000 5.73 0.00 0.00 3.69
45 46 1.649664 CTCCTTCAAGTCCATCAGCG 58.350 55.000 0.00 0.00 0.00 5.18
66 67 4.473199 CGAGAACAAATGAGACGTCTACA 58.527 43.478 20.09 17.85 0.00 2.74
69 70 6.745907 CGAGAACAAATGAGACGTCTACATTA 59.254 38.462 27.95 13.12 34.48 1.90
70 71 7.272731 CGAGAACAAATGAGACGTCTACATTAA 59.727 37.037 27.95 11.29 34.48 1.40
71 72 8.827177 AGAACAAATGAGACGTCTACATTAAA 57.173 30.769 27.95 9.95 34.48 1.52
76 77 9.318041 CAAATGAGACGTCTACATTAAACTTTG 57.682 33.333 27.95 21.73 34.48 2.77
77 78 7.596749 ATGAGACGTCTACATTAAACTTTGG 57.403 36.000 20.09 0.00 0.00 3.28
93 95 1.857049 TGGCCAACCATCCAAAGGA 59.143 52.632 0.61 0.00 42.67 3.36
101 103 1.428912 ACCATCCAAAGGAGGCTTTCA 59.571 47.619 0.00 0.00 34.05 2.69
110 112 1.065854 AGGAGGCTTTCATCGGACTTG 60.066 52.381 0.00 0.00 0.00 3.16
116 118 2.476854 GCTTTCATCGGACTTGTGCATC 60.477 50.000 0.00 0.00 0.00 3.91
124 126 2.670905 CGGACTTGTGCATCGACAATAA 59.329 45.455 0.00 0.00 35.32 1.40
132 134 4.627035 TGTGCATCGACAATAACTCTCTTG 59.373 41.667 0.00 0.00 0.00 3.02
137 139 5.060662 TCGACAATAACTCTCTTGTGGAG 57.939 43.478 0.00 0.00 43.12 3.86
156 158 1.880027 AGATTCTTTGTGGCGGACAAC 59.120 47.619 0.00 0.00 44.53 3.32
177 180 7.784037 ACAACCATGCACATATGATAAAACAT 58.216 30.769 10.38 0.98 0.00 2.71
231 234 4.638304 TGTCGATCAATCATCATGAGCAT 58.362 39.130 0.09 0.00 32.91 3.79
237 240 4.204012 TCAATCATCATGAGCATGCTGAA 58.796 39.130 28.27 13.96 44.10 3.02
240 243 4.411256 TCATCATGAGCATGCTGAAGTA 57.589 40.909 28.27 6.94 39.93 2.24
242 245 4.814771 TCATCATGAGCATGCTGAAGTAAG 59.185 41.667 28.27 9.46 39.93 2.34
250 253 3.671928 GCATGCTGAAGTAAGTGCAAAAG 59.328 43.478 11.37 0.00 38.96 2.27
254 257 4.202010 TGCTGAAGTAAGTGCAAAAGAACC 60.202 41.667 0.00 0.00 32.12 3.62
255 258 4.527564 CTGAAGTAAGTGCAAAAGAACCG 58.472 43.478 0.00 0.00 0.00 4.44
295 298 4.163458 GGTGGAGGTACCTTATCATGAACA 59.837 45.833 17.53 1.95 37.74 3.18
306 309 7.348815 ACCTTATCATGAACAATCTCATTCCA 58.651 34.615 0.00 0.00 33.66 3.53
317 320 8.455903 AACAATCTCATTCCATATGTACCAAG 57.544 34.615 1.24 0.00 0.00 3.61
320 323 8.944029 CAATCTCATTCCATATGTACCAAGATC 58.056 37.037 1.24 0.00 0.00 2.75
322 325 8.267620 TCTCATTCCATATGTACCAAGATCTT 57.732 34.615 0.88 0.88 0.00 2.40
327 330 7.616528 TCCATATGTACCAAGATCTTCATGA 57.383 36.000 4.57 0.00 0.00 3.07
334 337 9.857656 ATGTACCAAGATCTTCATGACATATTT 57.142 29.630 4.57 0.00 0.00 1.40
390 393 2.356069 CGGAGCTGAATTTTAAGGAGGC 59.644 50.000 0.00 0.00 0.00 4.70
391 394 3.356290 GGAGCTGAATTTTAAGGAGGCA 58.644 45.455 0.00 0.00 0.00 4.75
402 405 1.719063 AAGGAGGCAAGCAGTCCCAA 61.719 55.000 8.58 0.00 0.00 4.12
418 422 2.310349 TCCCAAACAGGCCTAAAGCATA 59.690 45.455 3.98 0.00 46.50 3.14
427 431 4.279420 CAGGCCTAAAGCATAATCTTTCCC 59.721 45.833 3.98 0.00 46.50 3.97
433 437 3.386932 AGCATAATCTTTCCCCTGCAA 57.613 42.857 0.00 0.00 32.18 4.08
434 438 3.294214 AGCATAATCTTTCCCCTGCAAG 58.706 45.455 0.00 0.00 32.18 4.01
435 439 3.026694 GCATAATCTTTCCCCTGCAAGT 58.973 45.455 0.00 0.00 0.00 3.16
439 443 6.466812 CATAATCTTTCCCCTGCAAGTTTTT 58.533 36.000 0.00 0.00 0.00 1.94
488 493 6.315393 ACCATAATGTATCAACAAGAACCGTC 59.685 38.462 0.00 0.00 39.58 4.79
489 494 6.238374 CCATAATGTATCAACAAGAACCGTCC 60.238 42.308 0.00 0.00 39.58 4.79
508 1890 1.178276 CGGGTCAGTCAGAGCTAGTT 58.822 55.000 0.00 0.00 44.16 2.24
514 1896 5.105752 GGTCAGTCAGAGCTAGTTAATGTG 58.894 45.833 0.00 0.00 41.51 3.21
519 1901 6.095580 CAGTCAGAGCTAGTTAATGTGAGGTA 59.904 42.308 0.00 0.00 0.00 3.08
523 1905 8.198109 TCAGAGCTAGTTAATGTGAGGTAAATC 58.802 37.037 0.00 0.00 0.00 2.17
550 2581 2.619074 CCAGAAGGTTGGATCCAAGGAC 60.619 54.545 27.73 19.41 40.87 3.85
554 2585 1.210478 AGGTTGGATCCAAGGACATCG 59.790 52.381 27.73 0.00 36.52 3.84
555 2586 1.209504 GGTTGGATCCAAGGACATCGA 59.790 52.381 27.73 0.00 36.52 3.59
556 2587 2.555199 GTTGGATCCAAGGACATCGAG 58.445 52.381 27.73 0.00 36.52 4.04
593 2630 1.200716 ACATTCAAACCATGCTGAGCG 59.799 47.619 0.00 0.00 0.00 5.03
622 2659 7.283127 ACTGATCTGGTACATTTATCGCAAAAT 59.717 33.333 4.49 0.00 38.20 1.82
627 2664 8.300286 TCTGGTACATTTATCGCAAAATCAAAA 58.700 29.630 0.00 0.00 38.20 2.44
628 2665 8.818141 TGGTACATTTATCGCAAAATCAAAAA 57.182 26.923 0.00 0.00 0.00 1.94
653 2690 0.892755 ACTCGCTCCACCGATTTACA 59.107 50.000 0.00 0.00 36.54 2.41
657 2694 1.860950 CGCTCCACCGATTTACATGAG 59.139 52.381 0.00 0.00 0.00 2.90
670 2707 7.413438 CCGATTTACATGAGTGAGAAAGGAAAG 60.413 40.741 0.00 0.00 0.00 2.62
671 2708 7.413438 CGATTTACATGAGTGAGAAAGGAAAGG 60.413 40.741 0.00 0.00 0.00 3.11
677 2714 5.705400 TGAGTGAGAAAGGAAAGGGAAAAT 58.295 37.500 0.00 0.00 0.00 1.82
684 2721 3.412237 AGGAAAGGGAAAATTCGACGA 57.588 42.857 0.00 0.00 0.00 4.20
778 2816 0.898326 GTTCCGCCTCCACCCATTTT 60.898 55.000 0.00 0.00 0.00 1.82
1017 3057 4.109656 CCTAGCCACCCCCTCCCT 62.110 72.222 0.00 0.00 0.00 4.20
1172 3212 4.649705 TCTCCACCGCCTTCCCCA 62.650 66.667 0.00 0.00 0.00 4.96
2110 4165 1.429148 GGAAGTGAGGCATTACCGCG 61.429 60.000 0.00 0.00 46.52 6.46
2264 4321 1.286354 TTTTCCATGTCGGTCGTCGC 61.286 55.000 0.00 0.00 39.05 5.19
2311 4369 2.095853 CCTGCGTATTCGTCTTTGCAAT 59.904 45.455 0.00 0.00 39.49 3.56
2400 4458 5.221126 GCTATTCTGGAGGCATTTTGGTAAG 60.221 44.000 0.00 0.00 0.00 2.34
2451 4509 3.768757 TGGAGGCATTTTGGTAATCTTGG 59.231 43.478 0.00 0.00 0.00 3.61
2454 4512 4.159557 AGGCATTTTGGTAATCTTGGTGT 58.840 39.130 0.00 0.00 0.00 4.16
2583 4641 2.299993 TGAATGATCTGACTCCGCAC 57.700 50.000 0.00 0.00 0.00 5.34
2598 4656 4.272504 ACTCCGCACATATTAAATTCCGTG 59.727 41.667 0.00 0.00 0.00 4.94
2637 4695 3.231298 GGAATGGTCCTCGGAGGG 58.769 66.667 23.39 5.73 41.24 4.30
2697 4765 5.237127 CACAGTAAGATGCTTCTTTGTGTGA 59.763 40.000 29.84 11.35 45.84 3.58
2700 4768 6.000219 AGTAAGATGCTTCTTTGTGTGATGT 59.000 36.000 18.84 0.00 42.29 3.06
2702 4770 5.368256 AGATGCTTCTTTGTGTGATGTTC 57.632 39.130 0.00 0.00 0.00 3.18
2703 4771 4.823442 AGATGCTTCTTTGTGTGATGTTCA 59.177 37.500 0.00 0.00 0.00 3.18
2705 4773 3.947196 TGCTTCTTTGTGTGATGTTCAGT 59.053 39.130 0.00 0.00 0.00 3.41
2706 4774 5.122519 TGCTTCTTTGTGTGATGTTCAGTA 58.877 37.500 0.00 0.00 0.00 2.74
2707 4775 5.007626 TGCTTCTTTGTGTGATGTTCAGTAC 59.992 40.000 0.00 0.00 0.00 2.73
2708 4776 5.007626 GCTTCTTTGTGTGATGTTCAGTACA 59.992 40.000 0.00 0.00 41.97 2.90
2716 4790 6.015434 TGTGTGATGTTCAGTACAGTACTCAT 60.015 38.462 10.54 11.08 40.83 2.90
2719 4793 8.027189 TGTGATGTTCAGTACAGTACTCATTAC 58.973 37.037 19.24 19.24 40.83 1.89
2760 4834 2.169789 CGATGCTCCTGTCGCCTTG 61.170 63.158 0.00 0.00 0.00 3.61
2775 4849 0.036732 CCTTGGTCTGCTTGCTGGTA 59.963 55.000 0.00 0.00 0.00 3.25
2801 4875 4.292186 TCTGAAGCTAACCTTTGCATCT 57.708 40.909 0.00 0.00 32.78 2.90
2847 4921 2.039137 AGGTTCCTCCTCCGTCCC 59.961 66.667 0.00 0.00 44.42 4.46
2848 4922 3.459063 GGTTCCTCCTCCGTCCCG 61.459 72.222 0.00 0.00 0.00 5.14
2849 4923 2.362120 GTTCCTCCTCCGTCCCGA 60.362 66.667 0.00 0.00 0.00 5.14
2850 4924 1.980772 GTTCCTCCTCCGTCCCGAA 60.981 63.158 0.00 0.00 0.00 4.30
2851 4925 1.228956 TTCCTCCTCCGTCCCGAAA 60.229 57.895 0.00 0.00 0.00 3.46
2852 4926 0.616679 TTCCTCCTCCGTCCCGAAAT 60.617 55.000 0.00 0.00 0.00 2.17
2853 4927 0.616679 TCCTCCTCCGTCCCGAAATT 60.617 55.000 0.00 0.00 0.00 1.82
2854 4928 0.179081 CCTCCTCCGTCCCGAAATTC 60.179 60.000 0.00 0.00 0.00 2.17
2855 4929 0.824759 CTCCTCCGTCCCGAAATTCT 59.175 55.000 0.00 0.00 0.00 2.40
2856 4930 1.207329 CTCCTCCGTCCCGAAATTCTT 59.793 52.381 0.00 0.00 0.00 2.52
2857 4931 1.066430 TCCTCCGTCCCGAAATTCTTG 60.066 52.381 0.00 0.00 0.00 3.02
2858 4932 1.338769 CCTCCGTCCCGAAATTCTTGT 60.339 52.381 0.00 0.00 0.00 3.16
2859 4933 2.000447 CTCCGTCCCGAAATTCTTGTC 59.000 52.381 0.00 0.00 0.00 3.18
2860 4934 1.621814 TCCGTCCCGAAATTCTTGTCT 59.378 47.619 0.00 0.00 0.00 3.41
2861 4935 2.038033 TCCGTCCCGAAATTCTTGTCTT 59.962 45.455 0.00 0.00 0.00 3.01
2862 4936 2.159627 CCGTCCCGAAATTCTTGTCTTG 59.840 50.000 0.00 0.00 0.00 3.02
2863 4937 2.159627 CGTCCCGAAATTCTTGTCTTGG 59.840 50.000 0.00 0.00 0.00 3.61
2864 4938 3.408634 GTCCCGAAATTCTTGTCTTGGA 58.591 45.455 0.00 0.00 0.00 3.53
2865 4939 4.010349 GTCCCGAAATTCTTGTCTTGGAT 58.990 43.478 0.00 0.00 0.00 3.41
2866 4940 4.459337 GTCCCGAAATTCTTGTCTTGGATT 59.541 41.667 0.00 0.00 0.00 3.01
2867 4941 5.048013 GTCCCGAAATTCTTGTCTTGGATTT 60.048 40.000 0.00 0.00 0.00 2.17
2868 4942 5.048083 TCCCGAAATTCTTGTCTTGGATTTG 60.048 40.000 0.00 0.00 0.00 2.32
2869 4943 5.278957 CCCGAAATTCTTGTCTTGGATTTGT 60.279 40.000 0.00 0.00 0.00 2.83
2870 4944 5.858581 CCGAAATTCTTGTCTTGGATTTGTC 59.141 40.000 0.00 0.00 0.00 3.18
2871 4945 6.294176 CCGAAATTCTTGTCTTGGATTTGTCT 60.294 38.462 0.00 0.00 0.00 3.41
2872 4946 7.094805 CCGAAATTCTTGTCTTGGATTTGTCTA 60.095 37.037 0.00 0.00 0.00 2.59
2873 4947 7.959651 CGAAATTCTTGTCTTGGATTTGTCTAG 59.040 37.037 0.00 0.00 0.00 2.43
2874 4948 8.924511 AAATTCTTGTCTTGGATTTGTCTAGA 57.075 30.769 0.00 0.00 0.00 2.43
2875 4949 9.525826 AAATTCTTGTCTTGGATTTGTCTAGAT 57.474 29.630 0.00 0.00 0.00 1.98
2877 4951 9.606631 ATTCTTGTCTTGGATTTGTCTAGATAC 57.393 33.333 0.00 0.00 0.00 2.24
2878 4952 7.258441 TCTTGTCTTGGATTTGTCTAGATACG 58.742 38.462 0.00 0.00 0.00 3.06
2879 4953 5.902681 TGTCTTGGATTTGTCTAGATACGG 58.097 41.667 0.00 0.00 0.00 4.02
2880 4954 5.655090 TGTCTTGGATTTGTCTAGATACGGA 59.345 40.000 0.00 0.00 0.00 4.69
2881 4955 6.323996 TGTCTTGGATTTGTCTAGATACGGAT 59.676 38.462 0.00 0.00 0.00 4.18
2882 4956 6.642950 GTCTTGGATTTGTCTAGATACGGATG 59.357 42.308 0.00 0.00 0.00 3.51
2883 4957 6.323996 TCTTGGATTTGTCTAGATACGGATGT 59.676 38.462 0.00 0.00 0.00 3.06
2884 4958 7.504574 TCTTGGATTTGTCTAGATACGGATGTA 59.495 37.037 0.00 0.00 34.45 2.29
2885 4959 6.978338 TGGATTTGTCTAGATACGGATGTAC 58.022 40.000 0.00 0.00 32.26 2.90
2886 4960 6.015688 TGGATTTGTCTAGATACGGATGTACC 60.016 42.308 0.00 0.00 32.26 3.34
2887 4961 6.208994 GGATTTGTCTAGATACGGATGTACCT 59.791 42.308 0.00 0.00 36.31 3.08
2888 4962 7.392673 GGATTTGTCTAGATACGGATGTACCTA 59.607 40.741 0.00 0.00 36.31 3.08
2889 4963 8.701908 ATTTGTCTAGATACGGATGTACCTAA 57.298 34.615 0.00 0.00 36.31 2.69
2890 4964 8.701908 TTTGTCTAGATACGGATGTACCTAAT 57.298 34.615 0.00 0.00 36.31 1.73
2891 4965 9.797642 TTTGTCTAGATACGGATGTACCTAATA 57.202 33.333 0.00 0.00 36.31 0.98
2892 4966 8.783833 TGTCTAGATACGGATGTACCTAATAC 57.216 38.462 0.00 0.00 36.31 1.89
2893 4967 8.600668 TGTCTAGATACGGATGTACCTAATACT 58.399 37.037 0.00 0.00 34.56 2.12
2899 4973 9.334693 GATACGGATGTACCTAATACTAAAACG 57.665 37.037 0.00 0.00 34.56 3.60
2900 4974 7.100458 ACGGATGTACCTAATACTAAAACGT 57.900 36.000 0.00 0.00 34.56 3.99
2901 4975 6.974622 ACGGATGTACCTAATACTAAAACGTG 59.025 38.462 0.00 0.00 34.56 4.49
2902 4976 7.148086 ACGGATGTACCTAATACTAAAACGTGA 60.148 37.037 0.00 0.00 34.56 4.35
2903 4977 7.166473 CGGATGTACCTAATACTAAAACGTGAC 59.834 40.741 0.00 0.00 34.56 3.67
2904 4978 8.193438 GGATGTACCTAATACTAAAACGTGACT 58.807 37.037 0.00 0.00 34.56 3.41
2905 4979 9.578439 GATGTACCTAATACTAAAACGTGACTT 57.422 33.333 0.00 0.00 34.56 3.01
2906 4980 8.970691 TGTACCTAATACTAAAACGTGACTTC 57.029 34.615 0.00 0.00 34.56 3.01
2907 4981 8.575589 TGTACCTAATACTAAAACGTGACTTCA 58.424 33.333 0.00 0.00 34.56 3.02
2908 4982 9.578439 GTACCTAATACTAAAACGTGACTTCAT 57.422 33.333 0.00 0.00 0.00 2.57
2910 4984 9.578439 ACCTAATACTAAAACGTGACTTCATAC 57.422 33.333 0.00 0.00 0.00 2.39
2911 4985 9.577110 CCTAATACTAAAACGTGACTTCATACA 57.423 33.333 0.00 0.00 0.00 2.29
2914 4988 9.871238 AATACTAAAACGTGACTTCATACATCT 57.129 29.630 0.00 0.00 0.00 2.90
2915 4989 7.582435 ACTAAAACGTGACTTCATACATCTG 57.418 36.000 0.00 0.00 0.00 2.90
2916 4990 7.152645 ACTAAAACGTGACTTCATACATCTGT 58.847 34.615 0.00 0.00 0.00 3.41
2917 4991 8.301720 ACTAAAACGTGACTTCATACATCTGTA 58.698 33.333 0.00 0.00 34.67 2.74
2918 4992 9.302345 CTAAAACGTGACTTCATACATCTGTAT 57.698 33.333 0.00 0.00 41.58 2.29
2919 4993 8.547967 AAAACGTGACTTCATACATCTGTATT 57.452 30.769 0.06 0.00 39.06 1.89
2920 4994 8.547967 AAACGTGACTTCATACATCTGTATTT 57.452 30.769 0.06 0.00 39.06 1.40
2921 4995 7.525688 ACGTGACTTCATACATCTGTATTTG 57.474 36.000 0.06 0.00 39.06 2.32
2922 4996 6.535150 ACGTGACTTCATACATCTGTATTTGG 59.465 38.462 0.06 0.00 39.06 3.28
2923 4997 6.756542 CGTGACTTCATACATCTGTATTTGGA 59.243 38.462 0.06 0.00 39.06 3.53
2924 4998 7.254117 CGTGACTTCATACATCTGTATTTGGAC 60.254 40.741 0.06 0.00 39.06 4.02
2925 4999 7.549134 GTGACTTCATACATCTGTATTTGGACA 59.451 37.037 0.06 0.00 39.06 4.02
2926 5000 8.100164 TGACTTCATACATCTGTATTTGGACAA 58.900 33.333 0.06 0.00 39.06 3.18
2927 5001 8.862325 ACTTCATACATCTGTATTTGGACAAA 57.138 30.769 0.00 0.00 39.06 2.83
2928 5002 9.466497 ACTTCATACATCTGTATTTGGACAAAT 57.534 29.630 14.02 14.02 42.95 2.32
2929 5003 9.941664 CTTCATACATCTGTATTTGGACAAATC 57.058 33.333 13.07 6.84 40.99 2.17
2930 5004 9.685276 TTCATACATCTGTATTTGGACAAATCT 57.315 29.630 13.07 0.00 40.99 2.40
2935 5009 9.167311 ACATCTGTATTTGGACAAATCTAAGAC 57.833 33.333 13.07 7.02 40.99 3.01
2936 5010 9.166173 CATCTGTATTTGGACAAATCTAAGACA 57.834 33.333 13.07 10.66 40.99 3.41
2937 5011 9.739276 ATCTGTATTTGGACAAATCTAAGACAA 57.261 29.630 13.07 4.95 40.99 3.18
2938 5012 9.219603 TCTGTATTTGGACAAATCTAAGACAAG 57.780 33.333 13.07 6.98 40.99 3.16
2939 5013 9.219603 CTGTATTTGGACAAATCTAAGACAAGA 57.780 33.333 13.07 0.00 40.99 3.02
2940 5014 9.567776 TGTATTTGGACAAATCTAAGACAAGAA 57.432 29.630 13.07 0.00 40.99 2.52
2945 5019 9.748708 TTGGACAAATCTAAGACAAGAATTTTG 57.251 29.630 0.00 0.00 34.13 2.44
2946 5020 8.359642 TGGACAAATCTAAGACAAGAATTTTGG 58.640 33.333 0.00 0.00 33.04 3.28
2947 5021 7.814587 GGACAAATCTAAGACAAGAATTTTGGG 59.185 37.037 0.00 0.00 33.04 4.12
2948 5022 8.477419 ACAAATCTAAGACAAGAATTTTGGGA 57.523 30.769 0.00 0.00 33.04 4.37
2949 5023 8.360390 ACAAATCTAAGACAAGAATTTTGGGAC 58.640 33.333 0.00 0.00 33.04 4.46
2950 5024 6.743575 ATCTAAGACAAGAATTTTGGGACG 57.256 37.500 5.68 0.00 0.00 4.79
2951 5025 5.001232 TCTAAGACAAGAATTTTGGGACGG 58.999 41.667 0.00 0.00 0.00 4.79
2952 5026 3.502123 AGACAAGAATTTTGGGACGGA 57.498 42.857 0.00 0.00 0.00 4.69
2953 5027 3.412386 AGACAAGAATTTTGGGACGGAG 58.588 45.455 0.00 0.00 0.00 4.63
2954 5028 2.488153 GACAAGAATTTTGGGACGGAGG 59.512 50.000 0.00 0.00 0.00 4.30
2955 5029 1.818674 CAAGAATTTTGGGACGGAGGG 59.181 52.381 0.00 0.00 0.00 4.30
2956 5030 1.368374 AGAATTTTGGGACGGAGGGA 58.632 50.000 0.00 0.00 0.00 4.20
2957 5031 1.282157 AGAATTTTGGGACGGAGGGAG 59.718 52.381 0.00 0.00 0.00 4.30
2966 5040 2.767960 GGGACGGAGGGAGTACAAAATA 59.232 50.000 0.00 0.00 0.00 1.40
2985 5059 8.199449 ACAAAATAGATGCAAATATTGGTCTGG 58.801 33.333 7.35 0.00 0.00 3.86
2994 5068 1.920734 TATTGGTCTGGCATGGGCGT 61.921 55.000 0.00 0.00 42.47 5.68
2997 5071 2.731571 GGTCTGGCATGGGCGTCTA 61.732 63.158 0.00 0.00 42.47 2.59
2998 5072 1.220749 GTCTGGCATGGGCGTCTAA 59.779 57.895 0.00 0.00 42.47 2.10
3001 5075 0.947244 CTGGCATGGGCGTCTAATTC 59.053 55.000 0.00 0.00 42.47 2.17
3039 5114 8.989653 TTTAGGAACAGTTGGTTTAAAACTTG 57.010 30.769 4.60 3.48 40.63 3.16
3047 5122 5.127519 AGTTGGTTTAAAACTTGGGTGTACC 59.872 40.000 4.60 0.00 34.16 3.34
3121 5204 6.255887 CCAGAACAAAGATTGACGGTAGATAC 59.744 42.308 0.00 0.00 0.00 2.24
3145 5230 4.566759 GCACTCGTAGATTCATTTGCAGTA 59.433 41.667 0.00 0.00 33.89 2.74
3162 5247 3.005791 GCAGTAAAAACAGGAGGTTGCAT 59.994 43.478 0.00 0.00 40.35 3.96
3197 5282 0.668706 CCTGTCAGTCAGCGAACCAG 60.669 60.000 0.00 0.00 42.38 4.00
3205 5290 2.164624 AGTCAGCGAACCAGATAGACAC 59.835 50.000 0.00 0.00 0.00 3.67
3206 5291 1.476891 TCAGCGAACCAGATAGACACC 59.523 52.381 0.00 0.00 0.00 4.16
3207 5292 0.456221 AGCGAACCAGATAGACACCG 59.544 55.000 0.00 0.00 0.00 4.94
3208 5293 1.146358 GCGAACCAGATAGACACCGC 61.146 60.000 0.00 0.00 34.71 5.68
3228 5313 1.202336 CCCGCTTGCCAGATTCAAATC 60.202 52.381 0.00 0.00 35.64 2.17
3285 5370 1.889105 CATCAGGCGTTCCGATGGG 60.889 63.158 0.00 0.00 38.52 4.00
3286 5371 2.367202 ATCAGGCGTTCCGATGGGT 61.367 57.895 0.00 0.00 37.47 4.51
3287 5372 2.311688 ATCAGGCGTTCCGATGGGTC 62.312 60.000 0.00 0.00 37.47 4.46
3288 5373 3.000819 AGGCGTTCCGATGGGTCA 61.001 61.111 0.00 0.00 37.47 4.02
3289 5374 2.511600 GGCGTTCCGATGGGTCAG 60.512 66.667 0.00 0.00 33.83 3.51
3290 5375 2.577059 GCGTTCCGATGGGTCAGA 59.423 61.111 0.00 0.00 33.83 3.27
3291 5376 1.810030 GCGTTCCGATGGGTCAGAC 60.810 63.158 0.00 0.00 33.83 3.51
3292 5377 1.589630 CGTTCCGATGGGTCAGACA 59.410 57.895 2.17 0.00 33.83 3.41
3293 5378 0.736325 CGTTCCGATGGGTCAGACAC 60.736 60.000 2.17 0.00 33.83 3.67
3294 5379 0.608640 GTTCCGATGGGTCAGACACT 59.391 55.000 3.96 0.00 33.83 3.55
3295 5380 0.608130 TTCCGATGGGTCAGACACTG 59.392 55.000 3.96 0.00 33.83 3.66
3296 5381 1.448540 CCGATGGGTCAGACACTGC 60.449 63.158 3.96 0.00 0.00 4.40
3297 5382 1.593787 CGATGGGTCAGACACTGCT 59.406 57.895 3.96 0.00 0.00 4.24
3298 5383 0.036952 CGATGGGTCAGACACTGCTT 60.037 55.000 3.96 0.00 0.00 3.91
3299 5384 1.609061 CGATGGGTCAGACACTGCTTT 60.609 52.381 3.96 0.00 0.00 3.51
3300 5385 1.808945 GATGGGTCAGACACTGCTTTG 59.191 52.381 3.96 0.00 0.00 2.77
3301 5386 0.179020 TGGGTCAGACACTGCTTTGG 60.179 55.000 3.96 0.00 0.00 3.28
3302 5387 0.108585 GGGTCAGACACTGCTTTGGA 59.891 55.000 2.17 0.00 0.00 3.53
3303 5388 1.271597 GGGTCAGACACTGCTTTGGAT 60.272 52.381 2.17 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 0.391661 TGATGGACTTGAAGGAGCGC 60.392 55.000 0.00 0.00 0.00 5.92
28 29 1.205655 TCTCGCTGATGGACTTGAAGG 59.794 52.381 0.00 0.00 0.00 3.46
30 31 2.037121 TGTTCTCGCTGATGGACTTGAA 59.963 45.455 0.00 0.00 0.00 2.69
45 46 6.952935 AATGTAGACGTCTCATTTGTTCTC 57.047 37.500 23.89 1.98 0.00 2.87
76 77 0.972471 CCTCCTTTGGATGGTTGGCC 60.972 60.000 0.00 0.00 0.00 5.36
77 78 1.607801 GCCTCCTTTGGATGGTTGGC 61.608 60.000 0.00 0.00 37.78 4.52
87 89 1.740025 GTCCGATGAAAGCCTCCTTTG 59.260 52.381 0.00 0.00 41.22 2.77
93 95 1.813513 CACAAGTCCGATGAAAGCCT 58.186 50.000 0.00 0.00 0.00 4.58
101 103 0.246360 TGTCGATGCACAAGTCCGAT 59.754 50.000 0.00 0.00 0.00 4.18
110 112 4.627467 ACAAGAGAGTTATTGTCGATGCAC 59.373 41.667 0.00 0.00 33.69 4.57
132 134 0.804989 CCGCCACAAAGAATCTCCAC 59.195 55.000 0.00 0.00 0.00 4.02
137 139 1.068541 GGTTGTCCGCCACAAAGAATC 60.069 52.381 0.15 0.00 46.90 2.52
156 158 7.223260 AGGATGTTTTATCATATGTGCATGG 57.777 36.000 1.90 0.00 0.00 3.66
197 200 5.127682 TGATTGATCGACATCCAGAAGAAGA 59.872 40.000 0.00 0.00 0.00 2.87
231 234 4.202010 GGTTCTTTTGCACTTACTTCAGCA 60.202 41.667 0.00 0.00 34.79 4.41
237 240 3.942748 TCAACGGTTCTTTTGCACTTACT 59.057 39.130 0.00 0.00 0.00 2.24
240 243 3.013921 TCTCAACGGTTCTTTTGCACTT 58.986 40.909 0.00 0.00 0.00 3.16
242 245 3.626028 ATCTCAACGGTTCTTTTGCAC 57.374 42.857 0.00 0.00 0.00 4.57
250 253 4.273480 CCCATTGATGTATCTCAACGGTTC 59.727 45.833 0.00 0.00 36.89 3.62
254 257 3.561310 CCACCCATTGATGTATCTCAACG 59.439 47.826 0.00 0.00 37.93 4.10
255 258 4.780815 TCCACCCATTGATGTATCTCAAC 58.219 43.478 0.00 0.00 37.93 3.18
273 276 5.353394 TGTTCATGATAAGGTACCTCCAC 57.647 43.478 16.64 9.83 39.02 4.02
295 298 8.888419 AGATCTTGGTACATATGGAATGAGATT 58.112 33.333 7.80 0.57 39.30 2.40
322 325 6.479990 CGAGGTAGCTTCAAAATATGTCATGA 59.520 38.462 0.00 0.00 0.00 3.07
327 330 6.653320 TCAAACGAGGTAGCTTCAAAATATGT 59.347 34.615 0.00 0.00 0.00 2.29
333 336 4.067972 AGTCAAACGAGGTAGCTTCAAA 57.932 40.909 0.00 0.00 0.00 2.69
334 337 3.746045 AGTCAAACGAGGTAGCTTCAA 57.254 42.857 0.00 0.00 0.00 2.69
384 387 1.719063 TTTGGGACTGCTTGCCTCCT 61.719 55.000 6.44 0.00 36.40 3.69
389 392 1.662044 CCTGTTTGGGACTGCTTGC 59.338 57.895 0.00 0.00 0.00 4.01
390 393 1.662044 GCCTGTTTGGGACTGCTTG 59.338 57.895 0.00 0.00 36.00 4.01
391 394 1.531602 GGCCTGTTTGGGACTGCTT 60.532 57.895 0.00 0.00 36.00 3.91
402 405 5.360999 GGAAAGATTATGCTTTAGGCCTGTT 59.639 40.000 17.99 0.00 38.16 3.16
464 469 6.238374 GGACGGTTCTTGTTGATACATTATGG 60.238 42.308 0.00 0.00 33.44 2.74
488 493 0.681564 ACTAGCTCTGACTGACCCGG 60.682 60.000 0.00 0.00 0.00 5.73
489 494 1.178276 AACTAGCTCTGACTGACCCG 58.822 55.000 0.00 0.00 0.00 5.28
494 499 5.105554 ACCTCACATTAACTAGCTCTGACTG 60.106 44.000 0.00 0.00 0.00 3.51
499 504 7.203910 CGATTTACCTCACATTAACTAGCTCT 58.796 38.462 0.00 0.00 0.00 4.09
508 1890 4.141597 TGGGATGCGATTTACCTCACATTA 60.142 41.667 0.00 0.00 0.00 1.90
514 1896 2.910688 TCTGGGATGCGATTTACCTC 57.089 50.000 0.00 0.00 0.00 3.85
519 1901 2.094675 CAACCTTCTGGGATGCGATTT 58.905 47.619 0.00 0.00 38.76 2.17
523 1905 0.107017 ATCCAACCTTCTGGGATGCG 60.107 55.000 0.00 0.00 39.87 4.73
550 2581 1.313772 ACTGATCGTCCTCCTCGATG 58.686 55.000 5.58 0.00 45.90 3.84
554 2585 2.753452 TGTGTAACTGATCGTCCTCCTC 59.247 50.000 0.00 0.00 38.04 3.71
555 2586 2.803956 TGTGTAACTGATCGTCCTCCT 58.196 47.619 0.00 0.00 38.04 3.69
556 2587 3.802948 ATGTGTAACTGATCGTCCTCC 57.197 47.619 0.00 0.00 38.04 4.30
593 2630 5.634020 GCGATAAATGTACCAGATCAGTACC 59.366 44.000 18.25 5.95 39.49 3.34
627 2664 1.342174 TCGGTGGAGCGAGTACTTTTT 59.658 47.619 0.00 0.00 0.00 1.94
628 2665 0.963962 TCGGTGGAGCGAGTACTTTT 59.036 50.000 0.00 0.00 0.00 2.27
637 2674 1.860950 CTCATGTAAATCGGTGGAGCG 59.139 52.381 0.00 0.00 0.00 5.03
653 2690 5.324832 TTTCCCTTTCCTTTCTCACTCAT 57.675 39.130 0.00 0.00 0.00 2.90
657 2694 5.240844 TCGAATTTTCCCTTTCCTTTCTCAC 59.759 40.000 0.00 0.00 0.00 3.51
670 2707 3.426323 GCTGATTTCGTCGAATTTTCCC 58.574 45.455 8.78 0.00 0.00 3.97
671 2708 3.091417 CGCTGATTTCGTCGAATTTTCC 58.909 45.455 8.78 0.00 0.00 3.13
677 2714 2.350899 TTACCGCTGATTTCGTCGAA 57.649 45.000 2.90 2.90 0.00 3.71
684 2721 3.549221 CCACACGTTTTTACCGCTGATTT 60.549 43.478 0.00 0.00 0.00 2.17
778 2816 5.582953 AGGAGGATGAATGGAATTGAAACA 58.417 37.500 0.00 0.00 36.07 2.83
901 2939 3.999297 TATTTGAACGGCGGGGGCC 62.999 63.158 13.24 0.00 0.00 5.80
902 2940 2.438795 TATTTGAACGGCGGGGGC 60.439 61.111 13.24 0.00 0.00 5.80
940 2978 2.694616 CGGGGATGGGGAGGGAAA 60.695 66.667 0.00 0.00 0.00 3.13
941 2979 2.577421 ATTCGGGGATGGGGAGGGAA 62.577 60.000 0.00 0.00 0.00 3.97
1017 3057 2.763039 TGATGGAGGCCTTCATAGTGA 58.237 47.619 27.31 8.39 33.63 3.41
1021 3061 3.117888 GGAACTTGATGGAGGCCTTCATA 60.118 47.826 27.31 11.52 37.50 2.15
1455 3501 4.489771 GGCCCTCATGGTCGTGGG 62.490 72.222 0.00 0.00 41.77 4.61
1697 3752 2.979676 CAGCTTGCTGACGGCCAA 60.980 61.111 16.78 0.00 40.92 4.52
1805 3860 2.089696 AGAATTCCTCTCCCTGGGCTAT 60.090 50.000 8.22 0.00 0.00 2.97
1975 4030 2.110721 AGGGAAAGGATTTTGCAGAGGT 59.889 45.455 0.00 0.00 39.27 3.85
2100 4155 0.725117 AAGCACTAACGCGGTAATGC 59.275 50.000 28.58 28.58 36.85 3.56
2110 4165 2.030893 TGCAATGTCAGCAAGCACTAAC 60.031 45.455 0.00 0.00 39.39 2.34
2193 4250 2.571212 TGTCGTTTGCTTCCACTCAAT 58.429 42.857 0.00 0.00 0.00 2.57
2257 4314 2.286595 TGACATATCCTAACGCGACGAC 60.287 50.000 15.93 0.00 0.00 4.34
2297 4354 4.853924 ACAGGAAATTGCAAAGACGAAT 57.146 36.364 1.71 0.00 0.00 3.34
2311 4369 9.538508 GTTGAAACTTCTACTACTAACAGGAAA 57.461 33.333 0.00 0.00 31.64 3.13
2347 4405 6.041409 TGGCCAACAGAAGAATTTTGAACATA 59.959 34.615 0.61 0.00 0.00 2.29
2400 4458 1.396653 AGCAATCATAGCAACCAGGC 58.603 50.000 0.00 0.00 0.00 4.85
2451 4509 4.093408 CACACTTGCACATAGATACCACAC 59.907 45.833 0.00 0.00 0.00 3.82
2700 4768 8.179615 CACGTATGTAATGAGTACTGTACTGAA 58.820 37.037 24.15 12.83 39.59 3.02
2702 4770 6.414109 GCACGTATGTAATGAGTACTGTACTG 59.586 42.308 24.15 8.77 39.59 2.74
2703 4771 6.094464 TGCACGTATGTAATGAGTACTGTACT 59.906 38.462 19.79 19.79 42.86 2.73
2705 4773 6.094464 ACTGCACGTATGTAATGAGTACTGTA 59.906 38.462 0.00 0.00 33.46 2.74
2706 4774 5.105877 ACTGCACGTATGTAATGAGTACTGT 60.106 40.000 0.00 0.00 33.46 3.55
2707 4775 5.340803 ACTGCACGTATGTAATGAGTACTG 58.659 41.667 0.00 0.00 33.46 2.74
2708 4776 5.578005 ACTGCACGTATGTAATGAGTACT 57.422 39.130 0.00 0.00 33.46 2.73
2716 4790 7.549839 ACTCCTTAAATACTGCACGTATGTAA 58.450 34.615 13.64 13.64 38.78 2.41
2719 4793 5.173312 CGACTCCTTAAATACTGCACGTATG 59.827 44.000 8.85 0.00 38.78 2.39
2760 4834 3.507622 AGATTTTTACCAGCAAGCAGACC 59.492 43.478 0.00 0.00 0.00 3.85
2775 4849 6.160576 TGCAAAGGTTAGCTTCAGATTTTT 57.839 33.333 0.00 0.00 0.00 1.94
2843 4917 3.408634 TCCAAGACAAGAATTTCGGGAC 58.591 45.455 0.00 0.00 0.00 4.46
2844 4918 3.780804 TCCAAGACAAGAATTTCGGGA 57.219 42.857 0.00 0.00 0.00 5.14
2845 4919 5.163513 CAAATCCAAGACAAGAATTTCGGG 58.836 41.667 0.00 0.00 0.00 5.14
2846 4920 5.772521 ACAAATCCAAGACAAGAATTTCGG 58.227 37.500 0.00 0.00 0.00 4.30
2847 4921 6.672147 AGACAAATCCAAGACAAGAATTTCG 58.328 36.000 0.00 0.00 0.00 3.46
2848 4922 9.003658 TCTAGACAAATCCAAGACAAGAATTTC 57.996 33.333 0.00 0.00 0.00 2.17
2849 4923 8.924511 TCTAGACAAATCCAAGACAAGAATTT 57.075 30.769 0.00 0.00 0.00 1.82
2851 4925 9.606631 GTATCTAGACAAATCCAAGACAAGAAT 57.393 33.333 0.00 0.00 0.00 2.40
2852 4926 7.759886 CGTATCTAGACAAATCCAAGACAAGAA 59.240 37.037 0.00 0.00 0.00 2.52
2853 4927 7.258441 CGTATCTAGACAAATCCAAGACAAGA 58.742 38.462 0.00 0.00 0.00 3.02
2854 4928 6.477033 CCGTATCTAGACAAATCCAAGACAAG 59.523 42.308 0.00 0.00 0.00 3.16
2855 4929 6.153851 TCCGTATCTAGACAAATCCAAGACAA 59.846 38.462 0.00 0.00 0.00 3.18
2856 4930 5.655090 TCCGTATCTAGACAAATCCAAGACA 59.345 40.000 0.00 0.00 0.00 3.41
2857 4931 6.145338 TCCGTATCTAGACAAATCCAAGAC 57.855 41.667 0.00 0.00 0.00 3.01
2858 4932 6.323996 ACATCCGTATCTAGACAAATCCAAGA 59.676 38.462 0.00 0.00 0.00 3.02
2859 4933 6.516718 ACATCCGTATCTAGACAAATCCAAG 58.483 40.000 0.00 0.00 0.00 3.61
2860 4934 6.479972 ACATCCGTATCTAGACAAATCCAA 57.520 37.500 0.00 0.00 0.00 3.53
2861 4935 6.015688 GGTACATCCGTATCTAGACAAATCCA 60.016 42.308 0.00 0.00 0.00 3.41
2862 4936 6.208994 AGGTACATCCGTATCTAGACAAATCC 59.791 42.308 0.00 0.00 37.29 3.01
2863 4937 7.216973 AGGTACATCCGTATCTAGACAAATC 57.783 40.000 0.00 0.00 37.29 2.17
2864 4938 8.701908 TTAGGTACATCCGTATCTAGACAAAT 57.298 34.615 0.00 0.00 41.33 2.32
2865 4939 8.701908 ATTAGGTACATCCGTATCTAGACAAA 57.298 34.615 0.00 0.00 41.33 2.83
2866 4940 9.224267 GTATTAGGTACATCCGTATCTAGACAA 57.776 37.037 0.00 0.00 41.33 3.18
2867 4941 8.600668 AGTATTAGGTACATCCGTATCTAGACA 58.399 37.037 0.00 0.00 41.33 3.41
2873 4947 9.334693 CGTTTTAGTATTAGGTACATCCGTATC 57.665 37.037 0.00 0.00 41.99 2.24
2874 4948 8.850156 ACGTTTTAGTATTAGGTACATCCGTAT 58.150 33.333 0.00 0.00 41.99 3.06
2875 4949 8.128582 CACGTTTTAGTATTAGGTACATCCGTA 58.871 37.037 0.00 0.00 41.99 4.02
2876 4950 6.974622 CACGTTTTAGTATTAGGTACATCCGT 59.025 38.462 0.00 0.00 41.99 4.69
2877 4951 7.166473 GTCACGTTTTAGTATTAGGTACATCCG 59.834 40.741 0.00 0.00 41.99 4.18
2878 4952 8.193438 AGTCACGTTTTAGTATTAGGTACATCC 58.807 37.037 0.00 0.00 35.67 3.51
2879 4953 9.578439 AAGTCACGTTTTAGTATTAGGTACATC 57.422 33.333 0.00 0.00 35.67 3.06
2880 4954 9.578439 GAAGTCACGTTTTAGTATTAGGTACAT 57.422 33.333 0.00 0.00 35.67 2.29
2881 4955 8.575589 TGAAGTCACGTTTTAGTATTAGGTACA 58.424 33.333 0.00 0.00 35.67 2.90
2882 4956 8.970691 TGAAGTCACGTTTTAGTATTAGGTAC 57.029 34.615 0.00 0.00 0.00 3.34
2884 4958 9.578439 GTATGAAGTCACGTTTTAGTATTAGGT 57.422 33.333 0.00 0.00 0.00 3.08
2885 4959 9.577110 TGTATGAAGTCACGTTTTAGTATTAGG 57.423 33.333 0.00 0.00 0.00 2.69
2888 4962 9.871238 AGATGTATGAAGTCACGTTTTAGTATT 57.129 29.630 0.00 0.00 0.00 1.89
2889 4963 9.302345 CAGATGTATGAAGTCACGTTTTAGTAT 57.698 33.333 0.00 0.00 0.00 2.12
2890 4964 8.301720 ACAGATGTATGAAGTCACGTTTTAGTA 58.698 33.333 0.00 0.00 0.00 1.82
2891 4965 7.152645 ACAGATGTATGAAGTCACGTTTTAGT 58.847 34.615 0.00 0.00 0.00 2.24
2892 4966 7.582435 ACAGATGTATGAAGTCACGTTTTAG 57.418 36.000 0.00 0.00 0.00 1.85
2893 4967 9.647797 AATACAGATGTATGAAGTCACGTTTTA 57.352 29.630 6.26 0.00 40.78 1.52
2894 4968 8.547967 AATACAGATGTATGAAGTCACGTTTT 57.452 30.769 6.26 0.00 40.78 2.43
2895 4969 8.443160 CAAATACAGATGTATGAAGTCACGTTT 58.557 33.333 6.26 0.00 40.78 3.60
2896 4970 7.064609 CCAAATACAGATGTATGAAGTCACGTT 59.935 37.037 6.26 0.00 40.78 3.99
2897 4971 6.535150 CCAAATACAGATGTATGAAGTCACGT 59.465 38.462 6.26 0.00 40.78 4.49
2898 4972 6.756542 TCCAAATACAGATGTATGAAGTCACG 59.243 38.462 6.26 0.00 40.78 4.35
2899 4973 7.549134 TGTCCAAATACAGATGTATGAAGTCAC 59.451 37.037 6.26 1.26 40.78 3.67
2900 4974 7.619965 TGTCCAAATACAGATGTATGAAGTCA 58.380 34.615 6.26 2.47 40.78 3.41
2901 4975 8.492673 TTGTCCAAATACAGATGTATGAAGTC 57.507 34.615 6.26 0.26 40.78 3.01
2902 4976 8.862325 TTTGTCCAAATACAGATGTATGAAGT 57.138 30.769 6.26 0.00 40.78 3.01
2903 4977 9.941664 GATTTGTCCAAATACAGATGTATGAAG 57.058 33.333 6.26 0.71 40.77 3.02
2904 4978 9.685276 AGATTTGTCCAAATACAGATGTATGAA 57.315 29.630 6.26 0.00 40.77 2.57
2909 4983 9.167311 GTCTTAGATTTGTCCAAATACAGATGT 57.833 33.333 5.29 0.00 40.77 3.06
2910 4984 9.166173 TGTCTTAGATTTGTCCAAATACAGATG 57.834 33.333 5.29 0.00 40.77 2.90
2911 4985 9.739276 TTGTCTTAGATTTGTCCAAATACAGAT 57.261 29.630 5.29 0.00 40.77 2.90
2912 4986 9.219603 CTTGTCTTAGATTTGTCCAAATACAGA 57.780 33.333 5.29 5.04 40.77 3.41
2913 4987 9.219603 TCTTGTCTTAGATTTGTCCAAATACAG 57.780 33.333 5.29 3.08 40.77 2.74
2914 4988 9.567776 TTCTTGTCTTAGATTTGTCCAAATACA 57.432 29.630 5.29 3.80 40.77 2.29
2919 4993 9.748708 CAAAATTCTTGTCTTAGATTTGTCCAA 57.251 29.630 0.00 0.00 0.00 3.53
2920 4994 8.359642 CCAAAATTCTTGTCTTAGATTTGTCCA 58.640 33.333 0.00 0.00 28.79 4.02
2921 4995 7.814587 CCCAAAATTCTTGTCTTAGATTTGTCC 59.185 37.037 0.00 0.00 28.79 4.02
2922 4996 8.576442 TCCCAAAATTCTTGTCTTAGATTTGTC 58.424 33.333 0.00 0.00 28.79 3.18
2923 4997 8.360390 GTCCCAAAATTCTTGTCTTAGATTTGT 58.640 33.333 0.00 0.00 28.79 2.83
2924 4998 7.538678 CGTCCCAAAATTCTTGTCTTAGATTTG 59.461 37.037 0.00 0.00 29.84 2.32
2925 4999 7.309194 CCGTCCCAAAATTCTTGTCTTAGATTT 60.309 37.037 0.00 0.00 0.00 2.17
2926 5000 6.151144 CCGTCCCAAAATTCTTGTCTTAGATT 59.849 38.462 0.00 0.00 0.00 2.40
2927 5001 5.648092 CCGTCCCAAAATTCTTGTCTTAGAT 59.352 40.000 0.00 0.00 0.00 1.98
2928 5002 5.001232 CCGTCCCAAAATTCTTGTCTTAGA 58.999 41.667 0.00 0.00 0.00 2.10
2929 5003 5.001232 TCCGTCCCAAAATTCTTGTCTTAG 58.999 41.667 0.00 0.00 0.00 2.18
2930 5004 4.975631 TCCGTCCCAAAATTCTTGTCTTA 58.024 39.130 0.00 0.00 0.00 2.10
2931 5005 3.821033 CTCCGTCCCAAAATTCTTGTCTT 59.179 43.478 0.00 0.00 0.00 3.01
2932 5006 3.412386 CTCCGTCCCAAAATTCTTGTCT 58.588 45.455 0.00 0.00 0.00 3.41
2933 5007 2.488153 CCTCCGTCCCAAAATTCTTGTC 59.512 50.000 0.00 0.00 0.00 3.18
2934 5008 2.514803 CCTCCGTCCCAAAATTCTTGT 58.485 47.619 0.00 0.00 0.00 3.16
2935 5009 1.818674 CCCTCCGTCCCAAAATTCTTG 59.181 52.381 0.00 0.00 0.00 3.02
2936 5010 1.708551 TCCCTCCGTCCCAAAATTCTT 59.291 47.619 0.00 0.00 0.00 2.52
2937 5011 1.282157 CTCCCTCCGTCCCAAAATTCT 59.718 52.381 0.00 0.00 0.00 2.40
2938 5012 1.004394 ACTCCCTCCGTCCCAAAATTC 59.996 52.381 0.00 0.00 0.00 2.17
2939 5013 1.073098 ACTCCCTCCGTCCCAAAATT 58.927 50.000 0.00 0.00 0.00 1.82
2940 5014 1.558294 GTACTCCCTCCGTCCCAAAAT 59.442 52.381 0.00 0.00 0.00 1.82
2941 5015 0.978907 GTACTCCCTCCGTCCCAAAA 59.021 55.000 0.00 0.00 0.00 2.44
2942 5016 0.178926 TGTACTCCCTCCGTCCCAAA 60.179 55.000 0.00 0.00 0.00 3.28
2943 5017 0.178926 TTGTACTCCCTCCGTCCCAA 60.179 55.000 0.00 0.00 0.00 4.12
2944 5018 0.178926 TTTGTACTCCCTCCGTCCCA 60.179 55.000 0.00 0.00 0.00 4.37
2945 5019 0.978907 TTTTGTACTCCCTCCGTCCC 59.021 55.000 0.00 0.00 0.00 4.46
2946 5020 3.703052 TCTATTTTGTACTCCCTCCGTCC 59.297 47.826 0.00 0.00 0.00 4.79
2947 5021 4.996788 TCTATTTTGTACTCCCTCCGTC 57.003 45.455 0.00 0.00 0.00 4.79
2948 5022 4.443034 GCATCTATTTTGTACTCCCTCCGT 60.443 45.833 0.00 0.00 0.00 4.69
2949 5023 4.058817 GCATCTATTTTGTACTCCCTCCG 58.941 47.826 0.00 0.00 0.00 4.63
2950 5024 5.036117 TGCATCTATTTTGTACTCCCTCC 57.964 43.478 0.00 0.00 0.00 4.30
2951 5025 7.573968 ATTTGCATCTATTTTGTACTCCCTC 57.426 36.000 0.00 0.00 0.00 4.30
2952 5026 9.646522 AATATTTGCATCTATTTTGTACTCCCT 57.353 29.630 0.00 0.00 0.00 4.20
2953 5027 9.683069 CAATATTTGCATCTATTTTGTACTCCC 57.317 33.333 0.00 0.00 0.00 4.30
2954 5028 9.683069 CCAATATTTGCATCTATTTTGTACTCC 57.317 33.333 0.00 0.00 0.00 3.85
2966 5040 3.634504 TGCCAGACCAATATTTGCATCT 58.365 40.909 0.00 0.00 0.00 2.90
2985 5059 3.179048 GTTTTGAATTAGACGCCCATGC 58.821 45.455 0.00 0.00 0.00 4.06
3047 5122 4.039245 TCAAGTAGTGAGTTCAGGGTTCTG 59.961 45.833 0.00 0.00 42.21 3.02
3079 5154 5.994054 TGTTCTGGATGAAAGAGTGAAGAAG 59.006 40.000 0.00 0.00 36.30 2.85
3121 5204 2.348362 TGCAAATGAATCTACGAGTGCG 59.652 45.455 0.00 0.00 44.79 5.34
3145 5230 1.970640 GGGATGCAACCTCCTGTTTTT 59.029 47.619 13.30 0.00 34.00 1.94
3197 5282 1.883084 CAAGCGGGCGGTGTCTATC 60.883 63.158 0.00 0.00 0.00 2.08
3207 5292 1.876497 TTTGAATCTGGCAAGCGGGC 61.876 55.000 0.00 0.00 43.73 6.13
3208 5293 0.819582 ATTTGAATCTGGCAAGCGGG 59.180 50.000 0.00 0.00 0.00 6.13
3282 5367 0.179020 CCAAAGCAGTGTCTGACCCA 60.179 55.000 5.17 0.00 32.44 4.51


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

AutoCloner maintained by Alex Coulton.