Multiple sequence alignment - TraesCS1B01G171300

Loading Multiple Alignment...

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 TraesCS1B01G171300 chr1B 100.000 4036 0 0 1 4036 304783045 304787080 0.000000e+00 7454.0
1 TraesCS1B01G171300 chr1B 92.469 239 13 1 3067 3300 229946118 229945880 1.800000e-88 337.0
2 TraesCS1B01G171300 chr1A 94.089 2081 93 13 910 2971 267356361 267354292 0.000000e+00 3134.0
3 TraesCS1B01G171300 chr1A 85.948 733 70 18 3319 4029 267346051 267345330 0.000000e+00 752.0
4 TraesCS1B01G171300 chr1D 93.659 1861 82 16 923 2774 211804693 211802860 0.000000e+00 2750.0
5 TraesCS1B01G171300 chr1D 85.753 744 78 12 3311 4036 211802143 211801410 0.000000e+00 761.0
6 TraesCS1B01G171300 chr1D 96.552 58 2 0 864 921 211806194 211806137 3.320000e-16 97.1
7 TraesCS1B01G171300 chr3B 97.251 873 21 3 1 872 431147255 431148125 0.000000e+00 1476.0
8 TraesCS1B01G171300 chr3B 92.469 239 13 1 3067 3300 514056128 514055890 1.800000e-88 337.0
9 TraesCS1B01G171300 chr3B 92.083 240 14 1 3067 3301 242276327 242276088 2.320000e-87 333.0
10 TraesCS1B01G171300 chr3B 91.736 242 15 1 3067 3303 244233842 244234083 8.360000e-87 331.0
11 TraesCS1B01G171300 chr6B 97.106 864 25 0 1 864 463406387 463407250 0.000000e+00 1458.0
12 TraesCS1B01G171300 chr6B 96.560 872 29 1 1 872 463405468 463406338 0.000000e+00 1443.0
13 TraesCS1B01G171300 chr6B 96.651 866 26 2 1 865 247057124 247056261 0.000000e+00 1435.0
14 TraesCS1B01G171300 chr6B 96.544 868 26 3 7 873 247004194 247005058 0.000000e+00 1434.0
15 TraesCS1B01G171300 chr6B 92.083 240 14 1 3067 3301 206666873 206666634 2.320000e-87 333.0
16 TraesCS1B01G171300 chr2B 96.560 872 30 0 1 872 150348376 150347505 0.000000e+00 1445.0
17 TraesCS1B01G171300 chr2B 96.301 865 32 0 1 865 605514608 605513744 0.000000e+00 1421.0
18 TraesCS1B01G171300 chr2B 92.083 240 14 1 3067 3301 176251983 176251744 2.320000e-87 333.0
19 TraesCS1B01G171300 chr7B 96.330 872 29 3 2 870 583157228 583156357 0.000000e+00 1430.0
20 TraesCS1B01G171300 chr7B 95.954 865 34 1 1 865 543849326 543850189 0.000000e+00 1402.0
21 TraesCS1B01G171300 chr5B 92.500 240 13 1 3067 3301 393769802 393770041 5.000000e-89 339.0
22 TraesCS1B01G171300 chrUn 92.469 239 13 1 3067 3300 59805325 59805087 1.800000e-88 337.0
23 TraesCS1B01G171300 chr4A 92.469 239 13 1 3067 3300 6641038 6640800 1.800000e-88 337.0


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 TraesCS1B01G171300 chr1B 304783045 304787080 4035 False 7454.0 7454 100.000 1 4036 1 chr1B.!!$F1 4035
1 TraesCS1B01G171300 chr1A 267354292 267356361 2069 True 3134.0 3134 94.089 910 2971 1 chr1A.!!$R2 2061
2 TraesCS1B01G171300 chr1A 267345330 267346051 721 True 752.0 752 85.948 3319 4029 1 chr1A.!!$R1 710
3 TraesCS1B01G171300 chr1D 211801410 211806194 4784 True 1202.7 2750 91.988 864 4036 3 chr1D.!!$R1 3172
4 TraesCS1B01G171300 chr3B 431147255 431148125 870 False 1476.0 1476 97.251 1 872 1 chr3B.!!$F2 871
5 TraesCS1B01G171300 chr6B 463405468 463407250 1782 False 1450.5 1458 96.833 1 872 2 chr6B.!!$F2 871
6 TraesCS1B01G171300 chr6B 247056261 247057124 863 True 1435.0 1435 96.651 1 865 1 chr6B.!!$R2 864
7 TraesCS1B01G171300 chr6B 247004194 247005058 864 False 1434.0 1434 96.544 7 873 1 chr6B.!!$F1 866
8 TraesCS1B01G171300 chr2B 150347505 150348376 871 True 1445.0 1445 96.560 1 872 1 chr2B.!!$R1 871
9 TraesCS1B01G171300 chr2B 605513744 605514608 864 True 1421.0 1421 96.301 1 865 1 chr2B.!!$R3 864
10 TraesCS1B01G171300 chr7B 583156357 583157228 871 True 1430.0 1430 96.330 2 870 1 chr7B.!!$R1 868
11 TraesCS1B01G171300 chr7B 543849326 543850189 863 False 1402.0 1402 95.954 1 865 1 chr7B.!!$F1 864

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
636 1557 0.560688 GAGGGAGAGGGAGGACAGAT 59.439 60.0 0.0 0.0 0.0 2.9 F
2225 4607 0.721718 GGAAAGATCTGCACGTTCGG 59.278 55.0 0.0 0.0 0.0 4.3 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2329 4711 1.570813 TGCAGATATGCGAACTTCGG 58.429 50.0 12.96 0.0 40.84 4.30 R
3272 5900 0.179092 CCGTCCGGGTTTACTGATCC 60.179 60.0 0.00 0.0 0.00 3.36 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
636 1557 0.560688 GAGGGAGAGGGAGGACAGAT 59.439 60.000 0.00 0.00 0.00 2.90
700 1621 5.968528 TTTGGTTTGTGTGAACACTAAGT 57.031 34.783 14.28 0.00 46.55 2.24
806 1727 2.096218 GTCTTGAGTGATGGTTGTTCGC 60.096 50.000 0.00 0.00 0.00 4.70
893 1814 8.211629 ACTAATCTACCTTGGGCAAATAACTAG 58.788 37.037 0.00 0.00 0.00 2.57
917 1838 1.374758 CGGGCGCTTCAGACTTCTT 60.375 57.895 7.64 0.00 0.00 2.52
921 1842 2.079925 GGCGCTTCAGACTTCTTCATT 58.920 47.619 7.64 0.00 0.00 2.57
930 3293 5.087323 TCAGACTTCTTCATTGACTACCCT 58.913 41.667 0.00 0.00 0.00 4.34
933 3296 6.370166 CAGACTTCTTCATTGACTACCCTTTC 59.630 42.308 0.00 0.00 0.00 2.62
947 3310 2.365293 ACCCTTTCGTGTTTACCGTAGT 59.635 45.455 0.00 0.00 0.00 2.73
948 3311 3.572255 ACCCTTTCGTGTTTACCGTAGTA 59.428 43.478 0.00 0.00 0.00 1.82
949 3312 3.920412 CCCTTTCGTGTTTACCGTAGTAC 59.080 47.826 0.00 0.00 0.00 2.73
971 3338 0.928229 CCGTATTCGAGAAAAGGCCG 59.072 55.000 0.00 0.00 39.71 6.13
1176 3558 2.735772 GGAGCTCCGCATTGAGGGA 61.736 63.158 19.06 1.94 32.81 4.20
1263 3645 1.671054 CTTCTCCCCGCGCAAGAAA 60.671 57.895 8.75 0.00 43.02 2.52
1278 3660 3.243401 GCAAGAAAATGTTGGTCGACCTT 60.243 43.478 33.39 19.22 36.82 3.50
1353 3735 4.057428 AGCGCTTTCTCGTCGGCT 62.057 61.111 2.64 0.00 0.00 5.52
1464 3846 2.861006 GCGTTCTTGACTTCGCCC 59.139 61.111 0.00 0.00 42.33 6.13
1768 4150 2.755876 TCATCTCGCCGCCACTCT 60.756 61.111 0.00 0.00 0.00 3.24
1779 4161 2.685380 CCACTCTTCCTCCCGGCT 60.685 66.667 0.00 0.00 0.00 5.52
2094 4476 4.546829 TTCTTCGCCTGTTACTGGTAAT 57.453 40.909 9.93 0.00 0.00 1.89
2210 4592 2.589157 ATCAGTCACCGGCGGGAAA 61.589 57.895 31.78 12.23 36.97 3.13
2225 4607 0.721718 GGAAAGATCTGCACGTTCGG 59.278 55.000 0.00 0.00 0.00 4.30
2289 4671 2.562296 AGCCATTCCCACTTTCCTAGA 58.438 47.619 0.00 0.00 0.00 2.43
2290 4672 2.919602 AGCCATTCCCACTTTCCTAGAA 59.080 45.455 0.00 0.00 0.00 2.10
2311 4693 6.459923 AGAAGTCCATGTTCTCTCTGTTAAC 58.540 40.000 0.00 0.00 27.32 2.01
2329 4711 2.918712 ACCCGATCACCTGAATCATC 57.081 50.000 0.00 0.00 0.00 2.92
2346 4728 3.642705 TCATCCGAAGTTCGCATATCTG 58.357 45.455 19.86 9.50 38.82 2.90
2383 4770 0.881118 TTTGTTCAGCGATCCTTGGC 59.119 50.000 0.00 0.00 0.00 4.52
2386 4773 1.486310 TGTTCAGCGATCCTTGGCTAT 59.514 47.619 0.00 0.00 34.86 2.97
2404 4791 6.567050 TGGCTATTCAGAAAAATGAGCATTC 58.433 36.000 0.00 0.00 0.00 2.67
2500 4891 5.650266 TGCATCCGTCAGTTTAATGGTTAAT 59.350 36.000 0.00 0.00 0.00 1.40
2501 4892 5.971202 GCATCCGTCAGTTTAATGGTTAATG 59.029 40.000 0.00 0.00 0.00 1.90
2515 4906 1.363145 TTAATGCCGCTCGTTTCCGG 61.363 55.000 0.00 0.00 46.94 5.14
2516 4907 2.510064 TAATGCCGCTCGTTTCCGGT 62.510 55.000 0.00 0.00 45.98 5.28
2538 4929 3.072330 TGCCTCTTTCTGTCATGTTGGTA 59.928 43.478 0.00 0.00 0.00 3.25
2548 4939 4.720046 TGTCATGTTGGTAGTTTGCCTTA 58.280 39.130 0.00 0.00 0.00 2.69
2743 5134 2.306847 ACTTCGTCAATGGGTTGCTTT 58.693 42.857 0.00 0.00 35.26 3.51
2795 5221 0.445436 CTGCATTGTGCTCGGAACTC 59.555 55.000 3.41 0.00 45.31 3.01
2843 5269 3.008813 AGTGGACGGTTCTCTCTGTAGTA 59.991 47.826 0.00 0.00 0.00 1.82
2880 5307 6.603201 TCTTCTTGATTTGAACTGGAAAGTGT 59.397 34.615 0.00 0.00 0.00 3.55
2882 5309 6.563422 TCTTGATTTGAACTGGAAAGTGTTG 58.437 36.000 0.00 0.00 0.00 3.33
2959 5391 3.181496 GGTGATCTCCGCCATTTTCTTTC 60.181 47.826 0.00 0.00 44.82 2.62
2971 5403 5.635280 GCCATTTTCTTTCTTGTTTCTAGCC 59.365 40.000 0.00 0.00 0.00 3.93
2974 5406 6.767524 TTTTCTTTCTTGTTTCTAGCCACA 57.232 33.333 0.00 0.00 0.00 4.17
2975 5407 6.959639 TTTCTTTCTTGTTTCTAGCCACAT 57.040 33.333 0.00 0.00 0.00 3.21
2976 5408 6.959639 TTCTTTCTTGTTTCTAGCCACATT 57.040 33.333 0.00 0.00 0.00 2.71
2977 5409 6.959639 TCTTTCTTGTTTCTAGCCACATTT 57.040 33.333 0.00 0.00 0.00 2.32
2979 5411 7.781056 TCTTTCTTGTTTCTAGCCACATTTTT 58.219 30.769 0.00 0.00 0.00 1.94
3001 5433 6.877611 TTTTTCCACATTACTCTCCTGAAC 57.122 37.500 0.00 0.00 0.00 3.18
3003 5435 3.516586 TCCACATTACTCTCCTGAACCA 58.483 45.455 0.00 0.00 0.00 3.67
3004 5436 3.907474 TCCACATTACTCTCCTGAACCAA 59.093 43.478 0.00 0.00 0.00 3.67
3005 5437 4.536090 TCCACATTACTCTCCTGAACCAAT 59.464 41.667 0.00 0.00 0.00 3.16
3006 5438 5.014123 TCCACATTACTCTCCTGAACCAATT 59.986 40.000 0.00 0.00 0.00 2.32
3007 5439 5.355350 CCACATTACTCTCCTGAACCAATTC 59.645 44.000 0.00 0.00 35.18 2.17
3009 5441 5.014123 ACATTACTCTCCTGAACCAATTCCA 59.986 40.000 0.00 0.00 33.49 3.53
3011 5443 2.982488 ACTCTCCTGAACCAATTCCACT 59.018 45.455 0.00 0.00 33.49 4.00
3013 5445 2.028112 TCTCCTGAACCAATTCCACTCG 60.028 50.000 0.00 0.00 33.49 4.18
3014 5446 1.003118 TCCTGAACCAATTCCACTCGG 59.997 52.381 0.00 0.00 33.49 4.63
3015 5447 1.271379 CCTGAACCAATTCCACTCGGT 60.271 52.381 0.00 0.00 33.49 4.69
3016 5448 2.504367 CTGAACCAATTCCACTCGGTT 58.496 47.619 0.00 0.00 44.34 4.44
3017 5449 2.884639 CTGAACCAATTCCACTCGGTTT 59.115 45.455 0.00 0.00 41.76 3.27
3018 5450 3.292460 TGAACCAATTCCACTCGGTTTT 58.708 40.909 0.00 0.00 41.76 2.43
3019 5451 3.702045 TGAACCAATTCCACTCGGTTTTT 59.298 39.130 0.00 0.00 41.76 1.94
3021 5453 3.562182 ACCAATTCCACTCGGTTTTTCT 58.438 40.909 0.00 0.00 0.00 2.52
3023 5455 4.760204 ACCAATTCCACTCGGTTTTTCTAG 59.240 41.667 0.00 0.00 0.00 2.43
3024 5456 4.379499 CCAATTCCACTCGGTTTTTCTAGC 60.379 45.833 0.00 0.00 0.00 3.42
3025 5457 2.467566 TCCACTCGGTTTTTCTAGCC 57.532 50.000 0.00 0.00 0.00 3.93
3026 5458 1.076332 CCACTCGGTTTTTCTAGCCG 58.924 55.000 0.00 0.00 46.12 5.52
3033 5465 2.774687 GGTTTTTCTAGCCGAGGTTGA 58.225 47.619 0.00 0.00 0.00 3.18
3034 5466 3.143728 GGTTTTTCTAGCCGAGGTTGAA 58.856 45.455 0.00 0.00 0.00 2.69
3035 5467 3.566742 GGTTTTTCTAGCCGAGGTTGAAA 59.433 43.478 7.97 7.97 34.36 2.69
3036 5468 4.037089 GGTTTTTCTAGCCGAGGTTGAAAA 59.963 41.667 15.45 15.45 40.58 2.29
3040 5668 7.513371 TTTTCTAGCCGAGGTTGAAAATAAA 57.487 32.000 15.45 2.17 38.78 1.40
3043 5671 8.795842 TTCTAGCCGAGGTTGAAAATAAAATA 57.204 30.769 0.00 0.00 0.00 1.40
3044 5672 8.795842 TCTAGCCGAGGTTGAAAATAAAATAA 57.204 30.769 0.00 0.00 0.00 1.40
3076 5704 8.202137 TCCCTTTGTAAAGAAATACTATCTCCG 58.798 37.037 5.95 0.00 38.28 4.63
3078 5706 9.032420 CCTTTGTAAAGAAATACTATCTCCGTC 57.968 37.037 5.95 0.00 38.28 4.79
3080 5708 7.893124 TGTAAAGAAATACTATCTCCGTCCT 57.107 36.000 0.00 0.00 0.00 3.85
3081 5709 7.713750 TGTAAAGAAATACTATCTCCGTCCTG 58.286 38.462 0.00 0.00 0.00 3.86
3082 5710 5.793030 AAGAAATACTATCTCCGTCCTGG 57.207 43.478 0.00 0.00 40.09 4.45
3083 5711 4.805744 AGAAATACTATCTCCGTCCTGGT 58.194 43.478 0.00 0.00 39.52 4.00
3084 5712 5.209659 AGAAATACTATCTCCGTCCTGGTT 58.790 41.667 0.00 0.00 39.52 3.67
3088 5716 8.716674 AAATACTATCTCCGTCCTGGTTTATA 57.283 34.615 0.00 0.00 39.52 0.98
3089 5717 7.941431 ATACTATCTCCGTCCTGGTTTATAG 57.059 40.000 0.00 0.00 39.52 1.31
3092 5720 3.294214 TCTCCGTCCTGGTTTATAGGTC 58.706 50.000 0.00 0.00 39.52 3.85
3093 5721 2.364647 CTCCGTCCTGGTTTATAGGTCC 59.635 54.545 0.00 0.00 39.52 4.46
3094 5722 1.415289 CCGTCCTGGTTTATAGGTCCC 59.585 57.143 0.00 0.00 36.67 4.46
3095 5723 1.415289 CGTCCTGGTTTATAGGTCCCC 59.585 57.143 0.00 0.00 36.67 4.81
3098 5726 3.526430 GTCCTGGTTTATAGGTCCCCTTT 59.474 47.826 0.00 0.00 36.67 3.11
3099 5727 3.526019 TCCTGGTTTATAGGTCCCCTTTG 59.474 47.826 0.00 0.00 36.67 2.77
3101 5729 4.475747 CCTGGTTTATAGGTCCCCTTTGTA 59.524 45.833 0.00 0.00 34.61 2.41
3102 5730 5.397559 CCTGGTTTATAGGTCCCCTTTGTAG 60.398 48.000 0.00 0.00 34.61 2.74
3104 5732 5.190330 TGGTTTATAGGTCCCCTTTGTAGTC 59.810 44.000 0.00 0.00 34.61 2.59
3105 5733 5.427806 GGTTTATAGGTCCCCTTTGTAGTCT 59.572 44.000 0.00 0.00 34.61 3.24
3106 5734 6.346896 GTTTATAGGTCCCCTTTGTAGTCTG 58.653 44.000 0.00 0.00 34.61 3.51
3107 5735 2.417719 AGGTCCCCTTTGTAGTCTGT 57.582 50.000 0.00 0.00 0.00 3.41
3109 5737 1.610886 GGTCCCCTTTGTAGTCTGTGC 60.611 57.143 0.00 0.00 0.00 4.57
3110 5738 0.690762 TCCCCTTTGTAGTCTGTGCC 59.309 55.000 0.00 0.00 0.00 5.01
3111 5739 0.400213 CCCCTTTGTAGTCTGTGCCA 59.600 55.000 0.00 0.00 0.00 4.92
3112 5740 1.202879 CCCCTTTGTAGTCTGTGCCAA 60.203 52.381 0.00 0.00 0.00 4.52
3114 5742 3.157087 CCCTTTGTAGTCTGTGCCAAAT 58.843 45.455 0.00 0.00 0.00 2.32
3115 5743 3.573967 CCCTTTGTAGTCTGTGCCAAATT 59.426 43.478 0.00 0.00 0.00 1.82
3117 5745 5.453198 CCCTTTGTAGTCTGTGCCAAATTTT 60.453 40.000 0.00 0.00 0.00 1.82
3119 5747 5.843673 TTGTAGTCTGTGCCAAATTTTGA 57.156 34.783 10.72 0.00 0.00 2.69
3120 5748 5.181690 TGTAGTCTGTGCCAAATTTTGAC 57.818 39.130 10.72 0.00 0.00 3.18
3121 5749 4.887071 TGTAGTCTGTGCCAAATTTTGACT 59.113 37.500 10.72 7.29 37.17 3.41
3122 5750 6.058833 TGTAGTCTGTGCCAAATTTTGACTA 58.941 36.000 10.72 6.41 35.36 2.59
3123 5751 6.544197 TGTAGTCTGTGCCAAATTTTGACTAA 59.456 34.615 10.72 0.00 37.32 2.24
3124 5752 6.463995 AGTCTGTGCCAAATTTTGACTAAA 57.536 33.333 10.72 0.00 32.44 1.85
3125 5753 6.507023 AGTCTGTGCCAAATTTTGACTAAAG 58.493 36.000 10.72 1.89 32.44 1.85
3127 5755 7.014615 AGTCTGTGCCAAATTTTGACTAAAGAT 59.985 33.333 10.72 0.00 32.44 2.40
3129 5757 8.203485 TCTGTGCCAAATTTTGACTAAAGATTT 58.797 29.630 10.72 0.00 0.00 2.17
3130 5758 9.474920 CTGTGCCAAATTTTGACTAAAGATTTA 57.525 29.630 10.72 0.00 0.00 1.40
3173 5801 8.361889 TGCATGTCAAGAAATATTATCCCATTG 58.638 33.333 0.00 0.00 0.00 2.82
3174 5802 8.579006 GCATGTCAAGAAATATTATCCCATTGA 58.421 33.333 0.00 0.00 0.00 2.57
3188 5816 9.965824 ATTATCCCATTGAATTCGTATTTGAAC 57.034 29.630 0.04 0.00 0.00 3.18
3189 5817 6.825944 TCCCATTGAATTCGTATTTGAACA 57.174 33.333 0.04 0.00 0.00 3.18
3190 5818 7.403312 TCCCATTGAATTCGTATTTGAACAT 57.597 32.000 0.04 0.00 0.00 2.71
3191 5819 8.512966 TCCCATTGAATTCGTATTTGAACATA 57.487 30.769 0.04 0.00 0.00 2.29
3258 5886 8.592809 AGTTTAATCTATGGTCAAAATTTGGCA 58.407 29.630 12.62 0.00 36.88 4.92
3259 5887 8.655970 GTTTAATCTATGGTCAAAATTTGGCAC 58.344 33.333 12.62 1.03 36.88 5.01
3260 5888 5.999205 ATCTATGGTCAAAATTTGGCACA 57.001 34.783 12.62 8.10 36.88 4.57
3276 5904 5.070770 TGGCACAAAATACAATGTGGATC 57.929 39.130 7.87 0.00 45.46 3.36
3277 5905 4.525874 TGGCACAAAATACAATGTGGATCA 59.474 37.500 7.87 0.00 45.46 2.92
3278 5906 5.104374 GGCACAAAATACAATGTGGATCAG 58.896 41.667 7.87 0.00 45.46 2.90
3279 5907 5.336690 GGCACAAAATACAATGTGGATCAGT 60.337 40.000 7.87 0.00 45.46 3.41
3280 5908 6.127758 GGCACAAAATACAATGTGGATCAGTA 60.128 38.462 7.87 0.00 45.46 2.74
3281 5909 7.312154 GCACAAAATACAATGTGGATCAGTAA 58.688 34.615 7.87 0.00 45.46 2.24
3282 5910 7.812191 GCACAAAATACAATGTGGATCAGTAAA 59.188 33.333 7.87 0.00 45.46 2.01
3283 5911 9.128107 CACAAAATACAATGTGGATCAGTAAAC 57.872 33.333 0.00 0.00 42.46 2.01
3284 5912 8.303876 ACAAAATACAATGTGGATCAGTAAACC 58.696 33.333 0.00 0.00 0.00 3.27
3285 5913 7.404671 AAATACAATGTGGATCAGTAAACCC 57.595 36.000 0.00 0.00 0.00 4.11
3286 5914 3.343617 ACAATGTGGATCAGTAAACCCG 58.656 45.455 0.00 0.00 0.00 5.28
3287 5915 2.682856 CAATGTGGATCAGTAAACCCGG 59.317 50.000 0.00 0.00 0.00 5.73
3288 5916 1.646912 TGTGGATCAGTAAACCCGGA 58.353 50.000 0.73 0.00 0.00 5.14
3289 5917 1.276989 TGTGGATCAGTAAACCCGGAC 59.723 52.381 0.73 0.00 0.00 4.79
3290 5918 0.533491 TGGATCAGTAAACCCGGACG 59.467 55.000 0.73 0.00 0.00 4.79
3291 5919 0.179092 GGATCAGTAAACCCGGACGG 60.179 60.000 0.73 3.25 37.81 4.79
3292 5920 0.819582 GATCAGTAAACCCGGACGGA 59.180 55.000 13.13 0.00 37.50 4.69
3293 5921 0.822164 ATCAGTAAACCCGGACGGAG 59.178 55.000 13.13 5.04 37.50 4.63
3294 5922 0.251297 TCAGTAAACCCGGACGGAGA 60.251 55.000 13.13 0.00 37.50 3.71
3295 5923 0.822164 CAGTAAACCCGGACGGAGAT 59.178 55.000 13.13 0.00 37.50 2.75
3296 5924 2.026641 CAGTAAACCCGGACGGAGATA 58.973 52.381 13.13 0.00 37.50 1.98
3297 5925 2.034305 CAGTAAACCCGGACGGAGATAG 59.966 54.545 13.13 0.00 37.50 2.08
3298 5926 2.027385 GTAAACCCGGACGGAGATAGT 58.973 52.381 13.13 0.00 37.50 2.12
3299 5927 2.442236 AAACCCGGACGGAGATAGTA 57.558 50.000 13.13 0.00 37.50 1.82
3300 5928 2.671896 AACCCGGACGGAGATAGTAT 57.328 50.000 13.13 0.00 37.50 2.12
3301 5929 3.795688 AACCCGGACGGAGATAGTATA 57.204 47.619 13.13 0.00 37.50 1.47
3302 5930 3.795688 ACCCGGACGGAGATAGTATAA 57.204 47.619 13.13 0.00 37.50 0.98
3303 5931 3.683802 ACCCGGACGGAGATAGTATAAG 58.316 50.000 13.13 0.00 37.50 1.73
3304 5932 3.328931 ACCCGGACGGAGATAGTATAAGA 59.671 47.826 13.13 0.00 37.50 2.10
3305 5933 3.940221 CCCGGACGGAGATAGTATAAGAG 59.060 52.174 13.13 0.00 37.50 2.85
3306 5934 4.565236 CCCGGACGGAGATAGTATAAGAGT 60.565 50.000 13.13 0.00 37.50 3.24
3307 5935 4.392445 CCGGACGGAGATAGTATAAGAGTG 59.608 50.000 4.40 0.00 37.50 3.51
3308 5936 4.392445 CGGACGGAGATAGTATAAGAGTGG 59.608 50.000 0.00 0.00 0.00 4.00
3309 5937 4.701171 GGACGGAGATAGTATAAGAGTGGG 59.299 50.000 0.00 0.00 0.00 4.61
3344 5972 8.194769 TGAGAACTAATTCCAAACTTCAAAACC 58.805 33.333 0.00 0.00 35.18 3.27
3348 5976 1.770294 TCCAAACTTCAAAACCGGCT 58.230 45.000 0.00 0.00 0.00 5.52
3350 5978 1.537990 CCAAACTTCAAAACCGGCTGG 60.538 52.381 11.02 11.02 42.84 4.85
3361 5989 4.028490 CGGCTGGCCCACACCTTA 62.028 66.667 0.00 0.00 0.00 2.69
3380 6008 4.142469 CCTTAAATTAAGCACCCGGTTCAG 60.142 45.833 7.22 0.00 34.46 3.02
3407 6035 1.843851 ACCCTGAGTGGTTTTGACTCA 59.156 47.619 0.00 0.00 46.01 3.41
3410 6038 3.545703 CCTGAGTGGTTTTGACTCACTT 58.454 45.455 0.00 0.00 43.89 3.16
3414 6042 1.681264 GTGGTTTTGACTCACTTGGGG 59.319 52.381 0.00 0.00 0.00 4.96
3434 6062 0.452122 CGGTTTTGATCGCGTTGACC 60.452 55.000 5.77 6.40 0.00 4.02
3436 6064 0.233848 GTTTTGATCGCGTTGACCGT 59.766 50.000 5.77 0.00 39.32 4.83
3447 6075 0.889186 GTTGACCGTTGACTGGGCAT 60.889 55.000 2.29 0.00 46.05 4.40
3490 6119 2.436173 GCCAATTGAGCTAGTAGGGAGT 59.564 50.000 7.12 0.00 0.00 3.85
3502 6133 1.567175 GTAGGGAGTCACCTCTCTCCT 59.433 57.143 10.39 7.44 45.92 3.69
3505 6136 0.333312 GGAGTCACCTCTCTCCTCCA 59.667 60.000 0.00 0.00 44.68 3.86
3507 6138 0.040499 AGTCACCTCTCTCCTCCACC 59.960 60.000 0.00 0.00 0.00 4.61
3554 6185 1.273606 CTTCCCTCACACATCAGTCGT 59.726 52.381 0.00 0.00 0.00 4.34
3563 6194 0.683179 ACATCAGTCGTCGATCCCCA 60.683 55.000 0.00 0.00 0.00 4.96
3564 6195 0.459899 CATCAGTCGTCGATCCCCAA 59.540 55.000 0.00 0.00 0.00 4.12
3587 6218 2.944409 TAGAGGGAGAGACCGCTCGC 62.944 65.000 9.19 9.19 45.98 5.03
3655 6286 1.333636 CCTCTCCTTCTGGATGCCGT 61.334 60.000 0.00 0.00 42.29 5.68
3695 6342 2.509336 CGGTCACGCATGGGAGAC 60.509 66.667 25.41 25.41 0.00 3.36
3696 6343 2.662596 GGTCACGCATGGGAGACA 59.337 61.111 30.99 3.99 32.79 3.41
3715 6362 3.731728 GTGGCTGGCTGGGGATGA 61.732 66.667 2.00 0.00 0.00 2.92
3739 6386 1.135859 GGTCGTGTCGTCGTACTGAAT 60.136 52.381 0.00 0.00 0.00 2.57
3745 6392 2.161012 TGTCGTCGTACTGAATGGAGAC 59.839 50.000 0.00 0.00 0.00 3.36
3776 6423 1.375396 GTGCATGTCGTGGGCTACA 60.375 57.895 0.88 0.00 0.00 2.74
3778 6425 0.035534 TGCATGTCGTGGGCTACAAT 60.036 50.000 0.88 0.00 0.00 2.71
3798 6445 2.327325 AGGAAGGACAAGTAGCTGGA 57.673 50.000 0.00 0.00 0.00 3.86
3799 6446 2.183679 AGGAAGGACAAGTAGCTGGAG 58.816 52.381 0.00 0.00 0.00 3.86
3800 6447 1.208293 GGAAGGACAAGTAGCTGGAGG 59.792 57.143 0.00 0.00 0.00 4.30
3806 6453 1.538876 AAGTAGCTGGAGGGCCACA 60.539 57.895 6.18 3.07 39.92 4.17
3807 6454 1.842381 AAGTAGCTGGAGGGCCACAC 61.842 60.000 6.18 0.00 39.92 3.82
3834 6481 2.264480 CCGTGTCGGGAGATTGCA 59.736 61.111 0.00 0.00 44.15 4.08
3902 6549 1.968493 GTAGGATGGCGGGAGATGTTA 59.032 52.381 0.00 0.00 0.00 2.41
3903 6550 0.759346 AGGATGGCGGGAGATGTTAC 59.241 55.000 0.00 0.00 0.00 2.50
3944 6591 3.645660 TCACGCTTCCATGCCCCA 61.646 61.111 0.00 0.00 0.00 4.96
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
495 1416 8.822805 TCCCTATATGATTATAGTGGGTGTTTC 58.177 37.037 13.65 0.00 36.89 2.78
636 1557 2.838813 TCCTAAGACGTCTCTCTCTCCA 59.161 50.000 20.33 0.00 0.00 3.86
723 1644 1.904287 TGTGTTGCCGCTTATCCTTT 58.096 45.000 0.00 0.00 0.00 3.11
893 1814 0.097150 GTCTGAAGCGCCCGAAAATC 59.903 55.000 2.29 0.00 0.00 2.17
930 3293 5.615984 CGGTAGTACTACGGTAAACACGAAA 60.616 44.000 24.97 0.00 36.94 3.46
933 3296 3.124636 ACGGTAGTACTACGGTAAACACG 59.875 47.826 32.90 24.75 44.32 4.49
947 3310 4.202050 GGCCTTTTCTCGAATACGGTAGTA 60.202 45.833 0.00 0.00 40.21 1.82
948 3311 3.429960 GGCCTTTTCTCGAATACGGTAGT 60.430 47.826 0.00 0.00 40.21 2.73
949 3312 3.121544 GGCCTTTTCTCGAATACGGTAG 58.878 50.000 0.00 0.00 40.21 3.18
1263 3645 0.037734 GGGGAAGGTCGACCAACATT 59.962 55.000 35.00 21.03 38.89 2.71
1340 3722 0.794981 CGACAGAGCCGACGAGAAAG 60.795 60.000 0.00 0.00 0.00 2.62
1552 3934 4.699522 GCCGGTTCCGTTGGAGCT 62.700 66.667 1.90 0.00 33.37 4.09
1753 4135 2.496817 GAAGAGTGGCGGCGAGAT 59.503 61.111 12.98 0.00 0.00 2.75
2191 4573 2.796483 TTTCCCGCCGGTGACTGATG 62.796 60.000 18.79 0.00 0.00 3.07
2210 4592 1.738099 GTGCCGAACGTGCAGATCT 60.738 57.895 0.00 0.00 39.87 2.75
2276 4658 3.264450 ACATGGACTTCTAGGAAAGTGGG 59.736 47.826 1.75 0.00 39.55 4.61
2289 4671 5.513267 GGGTTAACAGAGAGAACATGGACTT 60.513 44.000 8.10 0.00 0.00 3.01
2290 4672 4.020128 GGGTTAACAGAGAGAACATGGACT 60.020 45.833 8.10 0.00 0.00 3.85
2311 4693 1.606480 CGGATGATTCAGGTGATCGGG 60.606 57.143 0.00 0.00 0.00 5.14
2329 4711 1.570813 TGCAGATATGCGAACTTCGG 58.429 50.000 12.96 0.00 40.84 4.30
2346 4728 5.173774 ACAAAACGATCATGGTGATATGC 57.826 39.130 0.00 0.00 37.20 3.14
2415 4802 7.539022 GCATTCTCGAGTGATTTCTTATCGATA 59.461 37.037 13.13 0.00 41.12 2.92
2417 4804 5.687730 GCATTCTCGAGTGATTTCTTATCGA 59.312 40.000 13.13 0.00 39.85 3.59
2515 4906 2.227388 CCAACATGACAGAAAGAGGCAC 59.773 50.000 0.00 0.00 0.00 5.01
2516 4907 2.158623 ACCAACATGACAGAAAGAGGCA 60.159 45.455 0.00 0.00 0.00 4.75
2538 4929 6.485648 AGTGTAGATTTCGTTTAAGGCAAACT 59.514 34.615 0.00 0.00 43.72 2.66
2548 4939 5.048504 TCCTGTACGAGTGTAGATTTCGTTT 60.049 40.000 4.03 0.00 44.30 3.60
2820 5246 1.705873 ACAGAGAGAACCGTCCACTT 58.294 50.000 0.00 0.00 0.00 3.16
2843 5269 3.795688 TCAAGAAGAAACAGCAGGGAT 57.204 42.857 0.00 0.00 0.00 3.85
2880 5307 3.309682 CACAAGCGTCTTTGACTCTTCAA 59.690 43.478 0.65 0.00 35.76 2.69
2882 5309 2.866762 ACACAAGCGTCTTTGACTCTTC 59.133 45.455 0.65 0.00 35.76 2.87
2979 5411 5.163141 TGGTTCAGGAGAGTAATGTGGAAAA 60.163 40.000 0.00 0.00 0.00 2.29
2980 5412 4.349636 TGGTTCAGGAGAGTAATGTGGAAA 59.650 41.667 0.00 0.00 0.00 3.13
2982 5414 3.516586 TGGTTCAGGAGAGTAATGTGGA 58.483 45.455 0.00 0.00 0.00 4.02
2984 5416 5.355350 GGAATTGGTTCAGGAGAGTAATGTG 59.645 44.000 0.00 0.00 36.01 3.21
2985 5417 5.014123 TGGAATTGGTTCAGGAGAGTAATGT 59.986 40.000 0.00 0.00 36.01 2.71
2986 5418 5.355350 GTGGAATTGGTTCAGGAGAGTAATG 59.645 44.000 0.00 0.00 36.01 1.90
2987 5419 5.251700 AGTGGAATTGGTTCAGGAGAGTAAT 59.748 40.000 0.00 0.00 36.01 1.89
2988 5420 4.597507 AGTGGAATTGGTTCAGGAGAGTAA 59.402 41.667 0.00 0.00 36.01 2.24
2989 5421 4.168101 AGTGGAATTGGTTCAGGAGAGTA 58.832 43.478 0.00 0.00 36.01 2.59
2990 5422 2.982488 AGTGGAATTGGTTCAGGAGAGT 59.018 45.455 0.00 0.00 36.01 3.24
2991 5423 3.604582 GAGTGGAATTGGTTCAGGAGAG 58.395 50.000 0.00 0.00 36.01 3.20
2993 5425 2.350522 CGAGTGGAATTGGTTCAGGAG 58.649 52.381 0.00 0.00 36.01 3.69
2994 5426 1.003118 CCGAGTGGAATTGGTTCAGGA 59.997 52.381 0.00 0.00 37.49 3.86
2995 5427 1.271379 ACCGAGTGGAATTGGTTCAGG 60.271 52.381 0.00 0.00 39.21 3.86
2997 5429 2.649531 AACCGAGTGGAATTGGTTCA 57.350 45.000 0.00 0.00 42.30 3.18
2998 5430 4.037565 AGAAAAACCGAGTGGAATTGGTTC 59.962 41.667 0.00 0.00 44.71 3.62
3000 5432 3.562182 AGAAAAACCGAGTGGAATTGGT 58.438 40.909 0.00 0.00 38.72 3.67
3001 5433 4.379499 GCTAGAAAAACCGAGTGGAATTGG 60.379 45.833 0.00 0.00 39.21 3.16
3003 5435 3.756963 GGCTAGAAAAACCGAGTGGAATT 59.243 43.478 0.00 0.00 39.21 2.17
3004 5436 3.344515 GGCTAGAAAAACCGAGTGGAAT 58.655 45.455 0.00 0.00 39.21 3.01
3005 5437 2.774687 GGCTAGAAAAACCGAGTGGAA 58.225 47.619 0.00 0.00 39.21 3.53
3006 5438 2.467566 GGCTAGAAAAACCGAGTGGA 57.532 50.000 0.00 0.00 39.21 4.02
3013 5445 2.774687 TCAACCTCGGCTAGAAAAACC 58.225 47.619 0.00 0.00 0.00 3.27
3014 5446 4.823790 TTTCAACCTCGGCTAGAAAAAC 57.176 40.909 0.00 0.00 0.00 2.43
3015 5447 7.513371 TTATTTTCAACCTCGGCTAGAAAAA 57.487 32.000 11.92 0.00 40.32 1.94
3016 5448 7.513371 TTTATTTTCAACCTCGGCTAGAAAA 57.487 32.000 0.00 10.90 40.93 2.29
3017 5449 7.513371 TTTTATTTTCAACCTCGGCTAGAAA 57.487 32.000 0.00 0.00 0.00 2.52
3018 5450 7.696992 ATTTTATTTTCAACCTCGGCTAGAA 57.303 32.000 0.00 0.00 0.00 2.10
3019 5451 8.795842 TTATTTTATTTTCAACCTCGGCTAGA 57.204 30.769 0.00 0.00 0.00 2.43
3051 5679 7.985752 ACGGAGATAGTATTTCTTTACAAAGGG 59.014 37.037 2.04 0.00 36.67 3.95
3053 5681 9.032420 GGACGGAGATAGTATTTCTTTACAAAG 57.968 37.037 1.09 0.00 37.36 2.77
3057 5685 7.146648 CCAGGACGGAGATAGTATTTCTTTAC 58.853 42.308 1.09 0.00 36.56 2.01
3059 5687 5.661759 ACCAGGACGGAGATAGTATTTCTTT 59.338 40.000 0.00 0.00 38.63 2.52
3063 5691 5.952347 AAACCAGGACGGAGATAGTATTT 57.048 39.130 0.00 0.00 38.63 1.40
3064 5692 7.396623 CCTATAAACCAGGACGGAGATAGTATT 59.603 40.741 0.00 0.00 38.63 1.89
3068 5696 5.078256 ACCTATAAACCAGGACGGAGATAG 58.922 45.833 0.00 0.00 38.63 2.08
3069 5697 5.070823 ACCTATAAACCAGGACGGAGATA 57.929 43.478 0.00 0.00 38.63 1.98
3070 5698 3.896272 GACCTATAAACCAGGACGGAGAT 59.104 47.826 0.00 0.00 38.63 2.75
3073 5701 2.391678 GGACCTATAAACCAGGACGGA 58.608 52.381 0.00 0.00 38.63 4.69
3074 5702 1.415289 GGGACCTATAAACCAGGACGG 59.585 57.143 0.00 0.00 42.50 4.79
3092 5720 0.400213 TGGCACAGACTACAAAGGGG 59.600 55.000 0.00 0.00 0.00 4.79
3093 5721 2.270352 TTGGCACAGACTACAAAGGG 57.730 50.000 0.00 0.00 42.39 3.95
3094 5722 4.853924 AATTTGGCACAGACTACAAAGG 57.146 40.909 0.00 0.00 42.39 3.11
3095 5723 6.198966 GTCAAAATTTGGCACAGACTACAAAG 59.801 38.462 5.33 0.00 42.39 2.77
3098 5726 4.887071 AGTCAAAATTTGGCACAGACTACA 59.113 37.500 13.11 0.00 42.39 2.74
3099 5727 5.438761 AGTCAAAATTTGGCACAGACTAC 57.561 39.130 13.11 0.00 42.39 2.73
3101 5729 6.321181 TCTTTAGTCAAAATTTGGCACAGACT 59.679 34.615 13.11 6.87 42.39 3.24
3102 5730 6.503524 TCTTTAGTCAAAATTTGGCACAGAC 58.496 36.000 13.11 0.00 42.39 3.51
3104 5732 7.951530 AATCTTTAGTCAAAATTTGGCACAG 57.048 32.000 13.11 5.27 42.39 3.66
3105 5733 9.823647 TTAAATCTTTAGTCAAAATTTGGCACA 57.176 25.926 13.11 0.00 37.85 4.57
3145 5773 8.481492 TGGGATAATATTTCTTGACATGCATT 57.519 30.769 0.00 0.00 0.00 3.56
3146 5774 8.660295 ATGGGATAATATTTCTTGACATGCAT 57.340 30.769 0.00 0.00 0.00 3.96
3147 5775 8.361889 CAATGGGATAATATTTCTTGACATGCA 58.638 33.333 0.00 0.00 0.00 3.96
3148 5776 8.579006 TCAATGGGATAATATTTCTTGACATGC 58.421 33.333 0.00 0.00 0.00 4.06
3162 5790 9.965824 GTTCAAATACGAATTCAATGGGATAAT 57.034 29.630 6.22 0.00 0.00 1.28
3163 5791 8.961634 TGTTCAAATACGAATTCAATGGGATAA 58.038 29.630 6.22 0.00 0.00 1.75
3166 5794 6.825944 TGTTCAAATACGAATTCAATGGGA 57.174 33.333 6.22 0.00 0.00 4.37
3167 5795 8.405531 ACTATGTTCAAATACGAATTCAATGGG 58.594 33.333 6.22 0.00 0.00 4.00
3168 5796 9.787532 AACTATGTTCAAATACGAATTCAATGG 57.212 29.630 6.22 0.00 0.00 3.16
3232 5860 8.592809 TGCCAAATTTTGACCATAGATTAAACT 58.407 29.630 10.72 0.00 0.00 2.66
3234 5862 8.370940 TGTGCCAAATTTTGACCATAGATTAAA 58.629 29.630 10.72 0.00 0.00 1.52
3235 5863 7.901029 TGTGCCAAATTTTGACCATAGATTAA 58.099 30.769 10.72 0.00 0.00 1.40
3239 5867 5.798125 TTGTGCCAAATTTTGACCATAGA 57.202 34.783 10.72 0.00 0.00 1.98
3240 5868 6.857777 TTTTGTGCCAAATTTTGACCATAG 57.142 33.333 10.72 0.00 0.00 2.23
3241 5869 7.933577 TGTATTTTGTGCCAAATTTTGACCATA 59.066 29.630 10.72 3.51 0.00 2.74
3244 5872 6.610741 TGTATTTTGTGCCAAATTTTGACC 57.389 33.333 10.72 2.35 0.00 4.02
3245 5873 8.127954 ACATTGTATTTTGTGCCAAATTTTGAC 58.872 29.630 10.72 0.00 0.00 3.18
3246 5874 8.127327 CACATTGTATTTTGTGCCAAATTTTGA 58.873 29.630 10.72 0.00 37.08 2.69
3248 5876 7.284034 TCCACATTGTATTTTGTGCCAAATTTT 59.716 29.630 1.89 0.00 41.47 1.82
3251 5879 5.862845 TCCACATTGTATTTTGTGCCAAAT 58.137 33.333 1.89 0.00 41.47 2.32
3252 5880 5.282055 TCCACATTGTATTTTGTGCCAAA 57.718 34.783 0.00 0.00 41.47 3.28
3253 5881 4.944619 TCCACATTGTATTTTGTGCCAA 57.055 36.364 0.00 0.00 41.47 4.52
3254 5882 4.525874 TGATCCACATTGTATTTTGTGCCA 59.474 37.500 0.00 0.00 41.47 4.92
3255 5883 5.070770 TGATCCACATTGTATTTTGTGCC 57.929 39.130 0.00 0.00 41.47 5.01
3256 5884 5.713025 ACTGATCCACATTGTATTTTGTGC 58.287 37.500 0.00 0.00 41.47 4.57
3257 5885 9.128107 GTTTACTGATCCACATTGTATTTTGTG 57.872 33.333 0.00 0.00 42.25 3.33
3258 5886 8.303876 GGTTTACTGATCCACATTGTATTTTGT 58.696 33.333 0.00 0.00 0.00 2.83
3259 5887 7.759433 GGGTTTACTGATCCACATTGTATTTTG 59.241 37.037 0.00 0.00 0.00 2.44
3260 5888 7.362574 CGGGTTTACTGATCCACATTGTATTTT 60.363 37.037 0.00 0.00 0.00 1.82
3261 5889 6.094881 CGGGTTTACTGATCCACATTGTATTT 59.905 38.462 0.00 0.00 0.00 1.40
3262 5890 5.588648 CGGGTTTACTGATCCACATTGTATT 59.411 40.000 0.00 0.00 0.00 1.89
3263 5891 5.123227 CGGGTTTACTGATCCACATTGTAT 58.877 41.667 0.00 0.00 0.00 2.29
3264 5892 4.509616 CGGGTTTACTGATCCACATTGTA 58.490 43.478 0.00 0.00 0.00 2.41
3265 5893 3.343617 CGGGTTTACTGATCCACATTGT 58.656 45.455 0.00 0.00 0.00 2.71
3266 5894 2.682856 CCGGGTTTACTGATCCACATTG 59.317 50.000 0.00 0.00 0.00 2.82
3267 5895 2.574369 TCCGGGTTTACTGATCCACATT 59.426 45.455 0.00 0.00 0.00 2.71
3268 5896 2.093128 GTCCGGGTTTACTGATCCACAT 60.093 50.000 0.00 0.00 0.00 3.21
3269 5897 1.276989 GTCCGGGTTTACTGATCCACA 59.723 52.381 0.00 0.00 0.00 4.17
3270 5898 1.738030 CGTCCGGGTTTACTGATCCAC 60.738 57.143 0.00 0.00 0.00 4.02
3271 5899 0.533491 CGTCCGGGTTTACTGATCCA 59.467 55.000 0.00 0.00 0.00 3.41
3272 5900 0.179092 CCGTCCGGGTTTACTGATCC 60.179 60.000 0.00 0.00 0.00 3.36
3273 5901 0.819582 TCCGTCCGGGTTTACTGATC 59.180 55.000 0.00 0.00 37.00 2.92
3274 5902 0.822164 CTCCGTCCGGGTTTACTGAT 59.178 55.000 0.00 0.00 37.00 2.90
3275 5903 0.251297 TCTCCGTCCGGGTTTACTGA 60.251 55.000 0.00 0.00 37.00 3.41
3276 5904 0.822164 ATCTCCGTCCGGGTTTACTG 59.178 55.000 0.00 0.00 37.00 2.74
3277 5905 2.305009 CTATCTCCGTCCGGGTTTACT 58.695 52.381 0.00 0.00 37.00 2.24
3278 5906 2.027385 ACTATCTCCGTCCGGGTTTAC 58.973 52.381 0.00 0.00 37.00 2.01
3279 5907 2.442236 ACTATCTCCGTCCGGGTTTA 57.558 50.000 0.00 0.00 37.00 2.01
3280 5908 2.442236 TACTATCTCCGTCCGGGTTT 57.558 50.000 0.00 0.00 37.00 3.27
3281 5909 2.671896 ATACTATCTCCGTCCGGGTT 57.328 50.000 0.00 0.00 37.00 4.11
3282 5910 3.328931 TCTTATACTATCTCCGTCCGGGT 59.671 47.826 0.00 0.00 37.00 5.28
3283 5911 3.940221 CTCTTATACTATCTCCGTCCGGG 59.060 52.174 0.00 0.00 35.59 5.73
3284 5912 4.392445 CACTCTTATACTATCTCCGTCCGG 59.608 50.000 0.00 0.00 0.00 5.14
3285 5913 4.392445 CCACTCTTATACTATCTCCGTCCG 59.608 50.000 0.00 0.00 0.00 4.79
3286 5914 4.701171 CCCACTCTTATACTATCTCCGTCC 59.299 50.000 0.00 0.00 0.00 4.79
3287 5915 5.412286 GTCCCACTCTTATACTATCTCCGTC 59.588 48.000 0.00 0.00 0.00 4.79
3288 5916 5.073417 AGTCCCACTCTTATACTATCTCCGT 59.927 44.000 0.00 0.00 0.00 4.69
3289 5917 5.562635 AGTCCCACTCTTATACTATCTCCG 58.437 45.833 0.00 0.00 0.00 4.63
3290 5918 6.544650 TGAGTCCCACTCTTATACTATCTCC 58.455 44.000 5.31 0.00 45.27 3.71
3291 5919 7.228590 ACTGAGTCCCACTCTTATACTATCTC 58.771 42.308 5.31 0.00 45.27 2.75
3292 5920 7.156694 ACTGAGTCCCACTCTTATACTATCT 57.843 40.000 5.31 0.00 45.27 1.98
3293 5921 7.826918 AACTGAGTCCCACTCTTATACTATC 57.173 40.000 5.31 0.00 45.27 2.08
3294 5922 7.839705 TCAAACTGAGTCCCACTCTTATACTAT 59.160 37.037 5.31 0.00 45.27 2.12
3295 5923 7.179966 TCAAACTGAGTCCCACTCTTATACTA 58.820 38.462 5.31 0.00 45.27 1.82
3296 5924 6.017192 TCAAACTGAGTCCCACTCTTATACT 58.983 40.000 5.31 0.00 45.27 2.12
3297 5925 6.153000 TCTCAAACTGAGTCCCACTCTTATAC 59.847 42.308 5.31 0.00 45.27 1.47
3298 5926 6.253758 TCTCAAACTGAGTCCCACTCTTATA 58.746 40.000 5.31 0.00 45.27 0.98
3299 5927 5.087323 TCTCAAACTGAGTCCCACTCTTAT 58.913 41.667 5.31 0.00 45.27 1.73
3300 5928 4.480115 TCTCAAACTGAGTCCCACTCTTA 58.520 43.478 5.31 0.00 45.27 2.10
3301 5929 3.309296 TCTCAAACTGAGTCCCACTCTT 58.691 45.455 5.31 0.00 45.27 2.85
3302 5930 2.964209 TCTCAAACTGAGTCCCACTCT 58.036 47.619 5.31 0.00 45.27 3.24
3303 5931 3.070302 AGTTCTCAAACTGAGTCCCACTC 59.930 47.826 3.71 0.00 44.13 3.51
3304 5932 3.041946 AGTTCTCAAACTGAGTCCCACT 58.958 45.455 3.71 0.76 44.13 4.00
3305 5933 3.477210 AGTTCTCAAACTGAGTCCCAC 57.523 47.619 3.71 0.00 44.13 4.61
3306 5934 5.825593 ATTAGTTCTCAAACTGAGTCCCA 57.174 39.130 3.71 0.00 45.37 4.37
3307 5935 6.729391 GAATTAGTTCTCAAACTGAGTCCC 57.271 41.667 3.71 0.00 45.37 4.46
3309 5937 7.730364 TTGGAATTAGTTCTCAAACTGAGTC 57.270 36.000 3.71 0.00 45.37 3.36
3325 5953 4.342665 AGCCGGTTTTGAAGTTTGGAATTA 59.657 37.500 1.90 0.00 0.00 1.40
3344 5972 3.561120 TTAAGGTGTGGGCCAGCCG 62.561 63.158 6.40 0.00 42.69 5.52
3348 5976 2.829120 GCTTAATTTAAGGTGTGGGCCA 59.171 45.455 16.02 0.00 36.31 5.36
3350 5978 3.368013 GGTGCTTAATTTAAGGTGTGGGC 60.368 47.826 16.02 3.54 36.31 5.36
3361 5989 2.167662 CCTGAACCGGGTGCTTAATTT 58.832 47.619 6.32 0.00 0.00 1.82
3380 6008 2.453242 ACCACTCAGGGTTGACTCC 58.547 57.895 0.00 0.00 43.89 3.85
3394 6022 1.681264 CCCCAAGTGAGTCAAAACCAC 59.319 52.381 0.00 0.00 0.00 4.16
3407 6035 1.241315 CGATCAAAACCGCCCCAAGT 61.241 55.000 0.00 0.00 0.00 3.16
3410 6038 3.059386 GCGATCAAAACCGCCCCA 61.059 61.111 0.00 0.00 45.06 4.96
3434 6062 2.568090 GGCAATGCCCAGTCAACG 59.432 61.111 14.47 0.00 44.06 4.10
3447 6075 3.225798 GCCTTGCTGGTGTGGCAA 61.226 61.111 0.00 0.00 45.70 4.52
3465 6093 2.939103 CCTACTAGCTCAATTGGCACAC 59.061 50.000 17.54 0.32 39.29 3.82
3466 6094 2.092968 CCCTACTAGCTCAATTGGCACA 60.093 50.000 17.54 7.15 0.00 4.57
3490 6119 1.149782 AGGGTGGAGGAGAGAGGTGA 61.150 60.000 0.00 0.00 0.00 4.02
3502 6133 3.076937 TCGGGAATGAGATATAGGGTGGA 59.923 47.826 0.00 0.00 0.00 4.02
3505 6136 3.100671 GCTCGGGAATGAGATATAGGGT 58.899 50.000 0.00 0.00 38.28 4.34
3507 6138 2.432510 GGGCTCGGGAATGAGATATAGG 59.567 54.545 0.00 0.00 38.28 2.57
3535 6166 1.272490 GACGACTGATGTGTGAGGGAA 59.728 52.381 0.00 0.00 0.00 3.97
3540 6171 1.132453 GGATCGACGACTGATGTGTGA 59.868 52.381 0.00 0.00 0.00 3.58
3554 6185 1.133450 CCCTCTAGACTTGGGGATCGA 60.133 57.143 8.80 0.00 41.25 3.59
3563 6194 1.409101 GCGGTCTCTCCCTCTAGACTT 60.409 57.143 0.00 0.00 41.53 3.01
3564 6195 0.181824 GCGGTCTCTCCCTCTAGACT 59.818 60.000 0.00 0.00 41.53 3.24
3618 6249 2.393768 GCGACACATGACCTGGCTG 61.394 63.158 0.00 0.00 0.00 4.85
3655 6286 1.895238 GGCCACGCCTTCTAGTACA 59.105 57.895 0.00 0.00 46.69 2.90
3715 6362 0.445436 GTACGACGACACGACCTCAT 59.555 55.000 0.00 0.00 37.03 2.90
3739 6386 2.264480 CGATGTTGGCCGTCTCCA 59.736 61.111 0.00 0.00 0.00 3.86
3745 6392 2.689785 ATGCACACGATGTTGGCCG 61.690 57.895 0.00 0.00 0.00 6.13
3776 6423 4.362677 TCCAGCTACTTGTCCTTCCTATT 58.637 43.478 0.00 0.00 0.00 1.73
3778 6425 3.366396 CTCCAGCTACTTGTCCTTCCTA 58.634 50.000 0.00 0.00 0.00 2.94
3799 6446 4.740822 ATTCCTGCGGTGTGGCCC 62.741 66.667 0.00 0.00 0.00 5.80
3800 6447 3.134127 GATTCCTGCGGTGTGGCC 61.134 66.667 0.00 0.00 0.00 5.36
3806 6453 2.264794 GACACGGATTCCTGCGGT 59.735 61.111 0.30 0.00 41.00 5.68
3807 6454 2.885644 CGACACGGATTCCTGCGG 60.886 66.667 0.30 0.00 41.00 5.69
3861 6508 1.889105 CACCACTGTTGCAGCGAGT 60.889 57.895 0.00 0.00 34.37 4.18
3871 6518 0.615331 CCATCCTACTGCACCACTGT 59.385 55.000 0.00 0.00 0.00 3.55
3934 6581 1.151760 AGCAAGATATGGGGCATGGA 58.848 50.000 0.00 0.00 0.00 3.41
3936 6583 1.884579 GTCAGCAAGATATGGGGCATG 59.115 52.381 0.00 0.00 0.00 4.06


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

AutoCloner maintained by Alex Coulton.