Multiple sequence alignment - TraesCS4B01G126400

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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 TraesCS4B01G126400 chr4B 100.000 7810 0 0 1 7810 161559184 161551375 0.000000e+00 14423.0
1 TraesCS4B01G126400 chr4B 98.851 87 1 0 5941 6027 581904483 581904569 1.050000e-33 156.0
2 TraesCS4B01G126400 chr4B 93.069 101 5 2 5934 6033 161553152 161553251 6.320000e-31 147.0
3 TraesCS4B01G126400 chr4A 97.104 4385 106 11 1564 5943 428159321 428154953 0.000000e+00 7374.0
4 TraesCS4B01G126400 chr4A 95.233 1741 67 6 6025 7754 428154954 428153219 0.000000e+00 2741.0
5 TraesCS4B01G126400 chr4A 92.080 1250 58 13 1 1221 428161212 428159975 0.000000e+00 1722.0
6 TraesCS4B01G126400 chr4A 87.847 288 7 2 1225 1512 428159888 428159629 5.880000e-81 313.0
7 TraesCS4B01G126400 chr4A 92.381 105 6 2 5932 6035 69329846 69329949 1.760000e-31 148.0
8 TraesCS4B01G126400 chr4A 93.651 63 2 1 7750 7810 428147216 428147154 8.340000e-15 93.5
9 TraesCS4B01G126400 chr4D 97.097 3272 58 15 2704 5943 133475408 133478674 0.000000e+00 5481.0
10 TraesCS4B01G126400 chr4D 94.702 1793 60 15 6025 7810 133478673 133480437 0.000000e+00 2752.0
11 TraesCS4B01G126400 chr4D 95.942 1232 44 2 1475 2700 133474095 133475326 0.000000e+00 1993.0
12 TraesCS4B01G126400 chr4D 93.305 1195 45 10 309 1476 133472820 133474006 0.000000e+00 1731.0
13 TraesCS4B01G126400 chr4D 89.347 291 16 5 1 276 133472529 133472819 1.250000e-92 351.0
14 TraesCS4B01G126400 chr6D 95.582 747 17 5 3044 3779 58841025 58840284 0.000000e+00 1182.0
15 TraesCS4B01G126400 chr6D 86.911 191 14 3 1 180 58841377 58841187 3.690000e-48 204.0
16 TraesCS4B01G126400 chr6D 95.876 97 4 0 5930 6026 95294893 95294989 2.920000e-34 158.0
17 TraesCS4B01G126400 chr6D 94.737 57 3 0 1585 1641 411980998 411980942 1.080000e-13 89.8
18 TraesCS4B01G126400 chr6A 95.918 735 17 4 3054 3777 74823406 74822674 0.000000e+00 1179.0
19 TraesCS4B01G126400 chr6A 84.946 186 17 3 1 175 74887744 74887559 2.240000e-40 178.0
20 TraesCS4B01G126400 chr6B 93.421 380 13 4 3400 3779 132412150 132411783 3.180000e-153 553.0
21 TraesCS4B01G126400 chr6B 93.987 316 12 1 3102 3410 132412736 132412421 9.170000e-129 472.0
22 TraesCS4B01G126400 chr6B 87.912 91 11 0 1763 1853 687209250 687209160 2.980000e-19 108.0
23 TraesCS4B01G126400 chr7A 86.389 360 40 7 4224 4580 64130765 64130412 1.230000e-102 385.0
24 TraesCS4B01G126400 chr7A 84.375 352 40 7 4617 4964 64130411 64130071 1.620000e-86 331.0
25 TraesCS4B01G126400 chr7A 90.741 108 9 1 5211 5318 64129346 64129240 8.170000e-30 143.0
26 TraesCS4B01G126400 chr7A 83.333 150 24 1 5170 5319 80306031 80306179 3.800000e-28 137.0
27 TraesCS4B01G126400 chr7A 91.304 92 8 0 5211 5302 64119220 64119129 8.230000e-25 126.0
28 TraesCS4B01G126400 chr5A 75.000 804 167 28 4732 5517 129113454 129112667 2.700000e-89 340.0
29 TraesCS4B01G126400 chr5B 74.093 799 183 21 4732 5517 131320937 131320150 2.740000e-79 307.0
30 TraesCS4B01G126400 chr5B 92.308 104 4 4 5925 6026 625957549 625957448 2.270000e-30 145.0
31 TraesCS4B01G126400 chr5D 73.691 802 181 24 4732 5517 119007005 119006218 1.280000e-72 285.0
32 TraesCS4B01G126400 chr5D 88.889 117 6 7 5927 6039 15351076 15351189 3.800000e-28 137.0
33 TraesCS4B01G126400 chr1A 89.474 152 14 1 1703 1852 281893616 281893767 2.880000e-44 191.0
34 TraesCS4B01G126400 chr1A 94.118 102 3 3 5927 6026 448929841 448929741 1.360000e-32 152.0
35 TraesCS4B01G126400 chr7D 88.889 153 15 1 1703 1853 24847967 24847815 3.720000e-43 187.0
36 TraesCS4B01G126400 chr2A 83.938 193 27 2 5126 5314 38616925 38616733 1.730000e-41 182.0
37 TraesCS4B01G126400 chr2D 98.864 88 1 0 5939 6026 76538055 76538142 2.920000e-34 158.0
38 TraesCS4B01G126400 chr2B 95.789 95 4 0 5932 6026 435504861 435504955 3.770000e-33 154.0
39 TraesCS4B01G126400 chr3D 83.051 177 20 10 4224 4394 211692542 211692370 1.360000e-32 152.0
40 TraesCS4B01G126400 chr1B 88.571 105 12 0 5201 5305 641576166 641576270 2.290000e-25 128.0
41 TraesCS4B01G126400 chr1B 87.619 105 13 0 5201 5305 543851059 543851163 1.060000e-23 122.0
42 TraesCS4B01G126400 chr1B 94.595 37 2 0 1585 1621 565679208 565679172 3.040000e-04 58.4
43 TraesCS4B01G126400 chr3B 89.011 91 10 0 1763 1853 657600116 657600026 6.410000e-21 113.0
44 TraesCS4B01G126400 chr1D 92.982 57 4 0 1585 1641 380543517 380543461 5.020000e-12 84.2


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 TraesCS4B01G126400 chr4B 161551375 161559184 7809 True 14423.000000 14423 100.000000 1 7810 1 chr4B.!!$R1 7809
1 TraesCS4B01G126400 chr4A 428153219 428161212 7993 True 3037.500000 7374 93.066000 1 7754 4 chr4A.!!$R2 7753
2 TraesCS4B01G126400 chr4D 133472529 133480437 7908 False 2461.600000 5481 94.078600 1 7810 5 chr4D.!!$F1 7809
3 TraesCS4B01G126400 chr6D 58840284 58841377 1093 True 693.000000 1182 91.246500 1 3779 2 chr6D.!!$R2 3778
4 TraesCS4B01G126400 chr6A 74822674 74823406 732 True 1179.000000 1179 95.918000 3054 3777 1 chr6A.!!$R1 723
5 TraesCS4B01G126400 chr6B 132411783 132412736 953 True 512.500000 553 93.704000 3102 3779 2 chr6B.!!$R2 677
6 TraesCS4B01G126400 chr7A 64129240 64130765 1525 True 286.333333 385 87.168333 4224 5318 3 chr7A.!!$R2 1094
7 TraesCS4B01G126400 chr5A 129112667 129113454 787 True 340.000000 340 75.000000 4732 5517 1 chr5A.!!$R1 785
8 TraesCS4B01G126400 chr5B 131320150 131320937 787 True 307.000000 307 74.093000 4732 5517 1 chr5B.!!$R1 785
9 TraesCS4B01G126400 chr5D 119006218 119007005 787 True 285.000000 285 73.691000 4732 5517 1 chr5D.!!$R1 785

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
732 755 0.377203 GCTCCCATTTTTAGTCGCCG 59.623 55.000 0.00 0.00 0.00 6.46 F
1778 2265 0.179207 TAACGCAGTGTCGTCGCTAG 60.179 55.000 11.93 0.00 45.00 3.42 F
2010 2497 0.673644 CGAAGGTTGCATTCGTCCCT 60.674 55.000 11.79 0.00 43.42 4.20 F
2061 2548 1.067425 TGGTGATTTTGCATGCTGAGC 60.067 47.619 20.33 7.97 0.00 4.26 F
3397 3973 2.471743 CGGACGAAGAAGACAACAGTTC 59.528 50.000 0.00 0.00 0.00 3.01 F
4988 5903 3.244284 ACGTGGTGTTTTAGCTGATGGTA 60.244 43.478 0.00 0.00 0.00 3.25 F
5623 7043 0.452184 CTGCAGATTGCTTGCCTCAG 59.548 55.000 8.42 0.00 45.31 3.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1887 2374 1.266989 GGTTCTTCGGCAAGGTTCTTG 59.733 52.381 3.5 3.5 0.00 3.02 R
3407 3983 1.135774 TCGTCGTCCATCTTCTCGTTG 60.136 52.381 0.0 0.0 0.00 4.10 R
3870 4727 2.922740 ACAGCTTACGGTTTTCCTCA 57.077 45.000 0.0 0.0 37.95 3.86 R
4019 4876 8.277490 TCACTCGACAGTACACTCTAATATTT 57.723 34.615 0.0 0.0 0.00 1.40 R
5130 6061 0.819259 TGTGTTGTGCCTCCTTCAGC 60.819 55.000 0.0 0.0 0.00 4.26 R
6010 7431 0.635009 AAGATACTCCCTCCGTCCCA 59.365 55.000 0.0 0.0 0.00 4.37 R
7466 8898 0.654160 GTTTCGCAACGCTATACCCC 59.346 55.000 0.0 0.0 0.00 4.95 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
86 87 7.771361 TCATTTGACCAAAGTCTTACTACAACA 59.229 33.333 1.57 0.00 43.91 3.33
91 92 8.644216 TGACCAAAGTCTTACTACAACAGATTA 58.356 33.333 0.00 0.00 43.91 1.75
215 231 5.133941 TCTATTGGTGCTAACAAACCACAA 58.866 37.500 0.00 0.00 46.04 3.33
224 240 3.866883 AACAAACCACAAGTGACCAAG 57.133 42.857 0.94 0.00 0.00 3.61
318 335 4.678509 TTCCGTGCATGACTTGTTTATC 57.321 40.909 7.72 0.00 0.00 1.75
320 337 4.323417 TCCGTGCATGACTTGTTTATCTT 58.677 39.130 7.72 0.00 0.00 2.40
330 347 5.025986 ACTTGTTTATCTTGCGTAAACGG 57.974 39.130 4.49 0.00 42.25 4.44
337 354 1.952266 CTTGCGTAAACGGTCTCGGC 61.952 60.000 4.49 0.00 41.39 5.54
344 361 1.880819 AAACGGTCTCGGCGTACCAT 61.881 55.000 25.60 13.97 41.39 3.55
353 370 5.467705 GTCTCGGCGTACCATATTATTTCT 58.532 41.667 6.85 0.00 34.57 2.52
411 428 7.814587 TGCGTATATTCAAGAAAGATCGATGAT 59.185 33.333 0.54 0.00 0.00 2.45
488 505 6.349300 CAGTCAGTATACACCTAGCCAAATT 58.651 40.000 5.50 0.00 0.00 1.82
493 510 1.834188 ACACCTAGCCAAATTTCGGG 58.166 50.000 8.23 0.48 0.00 5.14
512 529 1.808343 GGAATACACGAAACACACCCC 59.192 52.381 0.00 0.00 0.00 4.95
545 562 2.681848 CGAGTTAGCTTAGAGTTCCCGA 59.318 50.000 0.00 0.00 0.00 5.14
546 563 3.315749 CGAGTTAGCTTAGAGTTCCCGAT 59.684 47.826 0.00 0.00 0.00 4.18
548 565 5.012328 AGTTAGCTTAGAGTTCCCGATTG 57.988 43.478 0.00 0.00 0.00 2.67
575 592 2.949714 CTGTGCGTTTAAGTCCACAG 57.050 50.000 13.45 13.45 46.05 3.66
732 755 0.377203 GCTCCCATTTTTAGTCGCCG 59.623 55.000 0.00 0.00 0.00 6.46
1082 1123 2.076803 ACGGGGAAGGATTAGGGGC 61.077 63.158 0.00 0.00 0.00 5.80
1099 1140 2.368011 GCAGGAGGGGGTGTAGGTC 61.368 68.421 0.00 0.00 0.00 3.85
1166 1207 2.978010 GGTGGCCGGTGAGTTGTG 60.978 66.667 1.90 0.00 0.00 3.33
1351 1487 0.963962 CTCAAACAGTGCCAATGCCT 59.036 50.000 0.00 0.00 36.33 4.75
1352 1488 2.161855 CTCAAACAGTGCCAATGCCTA 58.838 47.619 0.00 0.00 36.33 3.93
1353 1489 2.756760 CTCAAACAGTGCCAATGCCTAT 59.243 45.455 0.00 0.00 36.33 2.57
1354 1490 3.947196 CTCAAACAGTGCCAATGCCTATA 59.053 43.478 0.00 0.00 36.33 1.31
1355 1491 4.535781 TCAAACAGTGCCAATGCCTATAT 58.464 39.130 0.00 0.00 36.33 0.86
1356 1492 5.689835 TCAAACAGTGCCAATGCCTATATA 58.310 37.500 0.00 0.00 36.33 0.86
1371 1507 5.573380 CCTATATATATGGGCATGGCAGT 57.427 43.478 22.06 11.05 0.00 4.40
1426 1562 7.889469 AGAATTACAGTCTTTTGCATGTTCAT 58.111 30.769 0.00 0.00 0.00 2.57
1446 1582 8.729756 TGTTCATCACAACGAATTCATCTTAAT 58.270 29.630 6.22 0.00 29.87 1.40
1507 1733 7.875316 ACCTTGTTCGATAATAAGATGATCG 57.125 36.000 0.46 0.46 42.96 3.69
1522 1749 0.463833 GATCGGATGACACCCCCAAC 60.464 60.000 0.00 0.00 0.00 3.77
1532 1759 1.076549 ACCCCCAACGCAATGATGT 59.923 52.632 0.00 0.00 0.00 3.06
1717 2199 7.341256 ACCAGTATTTCAGAATTCAAGCATCAT 59.659 33.333 8.44 0.00 0.00 2.45
1731 2218 5.422012 TCAAGCATCATCCTGTCAGTAACTA 59.578 40.000 0.00 0.00 0.00 2.24
1778 2265 0.179207 TAACGCAGTGTCGTCGCTAG 60.179 55.000 11.93 0.00 45.00 3.42
1795 2282 5.926542 GTCGCTAGCATATCTGAATTGGTTA 59.073 40.000 16.45 0.00 0.00 2.85
1887 2374 1.757340 AGTAGGGGTAGTCTGCGCC 60.757 63.158 15.18 15.18 38.99 6.53
2010 2497 0.673644 CGAAGGTTGCATTCGTCCCT 60.674 55.000 11.79 0.00 43.42 4.20
2061 2548 1.067425 TGGTGATTTTGCATGCTGAGC 60.067 47.619 20.33 7.97 0.00 4.26
2318 2805 3.689347 TGCCTCATACTGCACTTTCAAT 58.311 40.909 0.00 0.00 31.31 2.57
2382 2869 4.385825 TCTTTCGCCACAGTGAACTTAAT 58.614 39.130 0.62 0.00 42.09 1.40
2383 2870 4.819630 TCTTTCGCCACAGTGAACTTAATT 59.180 37.500 0.62 0.00 42.09 1.40
2491 2978 2.472488 GCAACTCGGCAAACAATCTTTG 59.528 45.455 0.00 0.00 0.00 2.77
2643 3130 7.112452 AGCAAACTTTAGGTCTTGATTGTTT 57.888 32.000 0.00 0.00 0.00 2.83
2644 3131 7.555965 AGCAAACTTTAGGTCTTGATTGTTTT 58.444 30.769 0.00 0.00 0.00 2.43
3219 3795 3.835395 GGAAGGTATCTATGGCTACAGCT 59.165 47.826 0.54 0.00 41.70 4.24
3224 3800 6.256819 AGGTATCTATGGCTACAGCTTATCA 58.743 40.000 0.54 0.00 41.70 2.15
3237 3813 8.997323 GCTACAGCTTATCATTATCTTGACATT 58.003 33.333 0.00 0.00 38.21 2.71
3397 3973 2.471743 CGGACGAAGAAGACAACAGTTC 59.528 50.000 0.00 0.00 0.00 3.01
3407 3983 6.043411 AGAAGACAACAGTTCTGTCACTAAC 58.957 40.000 5.91 5.16 44.68 2.34
3412 4269 4.380841 ACAGTTCTGTCACTAACAACGA 57.619 40.909 0.00 0.00 37.45 3.85
3558 4415 6.599638 GCTACAAAAGAAACAGATCCAGGTAT 59.400 38.462 0.00 0.00 0.00 2.73
3870 4727 6.122964 GGCTTCTGGGTATCATAAAGTTCTT 58.877 40.000 0.00 0.00 0.00 2.52
3970 4827 3.421919 TGATTGCAGACACATCCTTCA 57.578 42.857 0.00 0.00 0.00 3.02
4019 4876 3.374042 TTTTGTCCTTTGTCACCAGGA 57.626 42.857 0.00 0.00 36.80 3.86
4284 5143 9.577110 CAAATGACATGCATACTTTCATTACTT 57.423 29.630 18.21 7.11 36.18 2.24
4676 5536 7.658982 CCTTTGCTGCTGAATTAGATACTGATA 59.341 37.037 0.00 0.00 0.00 2.15
4988 5903 3.244284 ACGTGGTGTTTTAGCTGATGGTA 60.244 43.478 0.00 0.00 0.00 3.25
5130 6061 1.293498 CGAGGTTGTGGGAGACAGG 59.707 63.158 0.00 0.00 35.44 4.00
5204 6136 1.741770 CGTCCCTCGCCCAGAAAAG 60.742 63.158 0.00 0.00 0.00 2.27
5623 7043 0.452184 CTGCAGATTGCTTGCCTCAG 59.548 55.000 8.42 0.00 45.31 3.35
5723 7143 0.475475 GGATCAGTCATGCATCCCCA 59.525 55.000 0.00 0.00 31.85 4.96
5725 7145 1.419012 GATCAGTCATGCATCCCCAGA 59.581 52.381 0.00 0.00 0.00 3.86
5950 7371 8.596781 AGTGAACATACATATATACTCCCTCC 57.403 38.462 0.00 0.00 0.00 4.30
5951 7372 7.339721 AGTGAACATACATATATACTCCCTCCG 59.660 40.741 0.00 0.00 0.00 4.63
5952 7373 7.122353 GTGAACATACATATATACTCCCTCCGT 59.878 40.741 0.00 0.00 0.00 4.69
5953 7374 7.338703 TGAACATACATATATACTCCCTCCGTC 59.661 40.741 0.00 0.00 0.00 4.79
5954 7375 6.127793 ACATACATATATACTCCCTCCGTCC 58.872 44.000 0.00 0.00 0.00 4.79
5955 7376 3.978610 ACATATATACTCCCTCCGTCCC 58.021 50.000 0.00 0.00 0.00 4.46
5956 7377 3.335786 ACATATATACTCCCTCCGTCCCA 59.664 47.826 0.00 0.00 0.00 4.37
5957 7378 4.016479 ACATATATACTCCCTCCGTCCCAT 60.016 45.833 0.00 0.00 0.00 4.00
5958 7379 5.195146 ACATATATACTCCCTCCGTCCCATA 59.805 44.000 0.00 0.00 0.00 2.74
5959 7380 4.687262 ATATACTCCCTCCGTCCCATAA 57.313 45.455 0.00 0.00 0.00 1.90
5960 7381 3.562108 ATACTCCCTCCGTCCCATAAT 57.438 47.619 0.00 0.00 0.00 1.28
5961 7382 4.687262 ATACTCCCTCCGTCCCATAATA 57.313 45.455 0.00 0.00 0.00 0.98
5962 7383 3.562108 ACTCCCTCCGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
5963 7384 4.687262 ACTCCCTCCGTCCCATAATATA 57.313 45.455 0.00 0.00 0.00 0.86
5964 7385 5.019657 ACTCCCTCCGTCCCATAATATAA 57.980 43.478 0.00 0.00 0.00 0.98
5965 7386 5.024118 ACTCCCTCCGTCCCATAATATAAG 58.976 45.833 0.00 0.00 0.00 1.73
5966 7387 5.222484 ACTCCCTCCGTCCCATAATATAAGA 60.222 44.000 0.00 0.00 0.00 2.10
5967 7388 5.657446 TCCCTCCGTCCCATAATATAAGAA 58.343 41.667 0.00 0.00 0.00 2.52
5968 7389 5.482878 TCCCTCCGTCCCATAATATAAGAAC 59.517 44.000 0.00 0.00 0.00 3.01
5969 7390 5.408356 CCTCCGTCCCATAATATAAGAACG 58.592 45.833 0.00 0.00 0.00 3.95
5970 7391 5.047519 CCTCCGTCCCATAATATAAGAACGT 60.048 44.000 0.00 0.00 0.00 3.99
5971 7392 6.409524 TCCGTCCCATAATATAAGAACGTT 57.590 37.500 0.00 0.00 0.00 3.99
5972 7393 6.819284 TCCGTCCCATAATATAAGAACGTTT 58.181 36.000 0.46 0.00 0.00 3.60
5973 7394 7.274447 TCCGTCCCATAATATAAGAACGTTTT 58.726 34.615 0.46 0.00 0.00 2.43
5974 7395 7.769970 TCCGTCCCATAATATAAGAACGTTTTT 59.230 33.333 9.22 9.22 0.00 1.94
5975 7396 7.853929 CCGTCCCATAATATAAGAACGTTTTTG 59.146 37.037 13.87 0.00 0.00 2.44
5976 7397 7.375017 CGTCCCATAATATAAGAACGTTTTTGC 59.625 37.037 13.87 0.00 0.00 3.68
5977 7398 7.646526 GTCCCATAATATAAGAACGTTTTTGCC 59.353 37.037 13.87 0.00 0.00 4.52
5978 7399 7.339721 TCCCATAATATAAGAACGTTTTTGCCA 59.660 33.333 13.87 0.01 0.00 4.92
5979 7400 7.434013 CCCATAATATAAGAACGTTTTTGCCAC 59.566 37.037 13.87 0.00 0.00 5.01
5980 7401 8.188139 CCATAATATAAGAACGTTTTTGCCACT 58.812 33.333 13.87 0.00 0.00 4.00
5983 7404 7.916914 ATATAAGAACGTTTTTGCCACTAGT 57.083 32.000 13.87 0.00 0.00 2.57
5984 7405 3.963383 AGAACGTTTTTGCCACTAGTG 57.037 42.857 16.34 16.34 0.00 2.74
5985 7406 3.275999 AGAACGTTTTTGCCACTAGTGT 58.724 40.909 21.18 0.00 0.00 3.55
5986 7407 4.444536 AGAACGTTTTTGCCACTAGTGTA 58.555 39.130 21.18 7.50 0.00 2.90
5987 7408 4.510340 AGAACGTTTTTGCCACTAGTGTAG 59.490 41.667 21.18 8.35 0.00 2.74
5988 7409 3.800531 ACGTTTTTGCCACTAGTGTAGT 58.199 40.909 21.18 6.55 40.28 2.73
5999 7420 3.800531 ACTAGTGTAGTGGCAAAAACGT 58.199 40.909 0.00 0.00 37.69 3.99
6000 7421 4.193865 ACTAGTGTAGTGGCAAAAACGTT 58.806 39.130 0.00 0.00 37.69 3.99
6001 7422 3.685836 AGTGTAGTGGCAAAAACGTTC 57.314 42.857 0.00 0.00 0.00 3.95
6002 7423 3.275999 AGTGTAGTGGCAAAAACGTTCT 58.724 40.909 0.00 0.00 0.00 3.01
6003 7424 3.692593 AGTGTAGTGGCAAAAACGTTCTT 59.307 39.130 0.00 0.00 0.00 2.52
6004 7425 4.877251 AGTGTAGTGGCAAAAACGTTCTTA 59.123 37.500 0.00 0.00 0.00 2.10
6005 7426 5.529800 AGTGTAGTGGCAAAAACGTTCTTAT 59.470 36.000 0.00 0.00 0.00 1.73
6006 7427 6.707161 AGTGTAGTGGCAAAAACGTTCTTATA 59.293 34.615 0.00 0.00 0.00 0.98
6007 7428 7.389607 AGTGTAGTGGCAAAAACGTTCTTATAT 59.610 33.333 0.00 0.00 0.00 0.86
6008 7429 8.019094 GTGTAGTGGCAAAAACGTTCTTATATT 58.981 33.333 0.00 0.00 0.00 1.28
6009 7430 9.217278 TGTAGTGGCAAAAACGTTCTTATATTA 57.783 29.630 0.00 0.00 0.00 0.98
6012 7433 8.188139 AGTGGCAAAAACGTTCTTATATTATGG 58.812 33.333 0.00 0.00 0.00 2.74
6013 7434 7.434013 GTGGCAAAAACGTTCTTATATTATGGG 59.566 37.037 0.00 0.00 0.00 4.00
6014 7435 7.339721 TGGCAAAAACGTTCTTATATTATGGGA 59.660 33.333 0.00 0.00 0.00 4.37
6015 7436 7.646526 GGCAAAAACGTTCTTATATTATGGGAC 59.353 37.037 0.00 0.00 0.00 4.46
6016 7437 7.375017 GCAAAAACGTTCTTATATTATGGGACG 59.625 37.037 0.00 9.33 0.00 4.79
6017 7438 7.486802 AAAACGTTCTTATATTATGGGACGG 57.513 36.000 0.00 1.76 0.00 4.79
6018 7439 6.409524 AACGTTCTTATATTATGGGACGGA 57.590 37.500 0.00 0.00 0.00 4.69
6019 7440 6.022163 ACGTTCTTATATTATGGGACGGAG 57.978 41.667 13.18 0.00 0.00 4.63
6020 7441 5.047519 ACGTTCTTATATTATGGGACGGAGG 60.048 44.000 13.18 0.00 0.00 4.30
6021 7442 5.623824 CGTTCTTATATTATGGGACGGAGGG 60.624 48.000 0.00 0.00 0.00 4.30
6022 7443 5.279562 TCTTATATTATGGGACGGAGGGA 57.720 43.478 0.00 0.00 0.00 4.20
6023 7444 5.269991 TCTTATATTATGGGACGGAGGGAG 58.730 45.833 0.00 0.00 0.00 4.30
6024 7445 3.562108 ATATTATGGGACGGAGGGAGT 57.438 47.619 0.00 0.00 0.00 3.85
6025 7446 4.687262 ATATTATGGGACGGAGGGAGTA 57.313 45.455 0.00 0.00 0.00 2.59
6128 7549 5.114423 GCCGAACAACTTTAAATACAACGTG 59.886 40.000 0.00 0.00 0.00 4.49
6210 7631 0.539986 TCCGAAGCAATGGTACTCCC 59.460 55.000 0.00 0.00 0.00 4.30
6317 7738 1.134098 CAATACCCGGTTGAGGAGCAT 60.134 52.381 0.00 0.00 0.00 3.79
6318 7739 1.213296 ATACCCGGTTGAGGAGCATT 58.787 50.000 0.00 0.00 0.00 3.56
6324 7745 3.278574 CCGGTTGAGGAGCATTAATTCA 58.721 45.455 0.00 0.00 0.00 2.57
6383 7804 3.372206 GCATTGTATCAACGAAGCAGTCT 59.628 43.478 0.00 0.00 34.49 3.24
6412 7833 4.828296 GGAGTCGGGCCGGGTCTA 62.828 72.222 27.98 2.30 0.00 2.59
6435 7856 2.480244 CGCGACAGAGGATTCAGATGAA 60.480 50.000 0.00 0.00 38.56 2.57
6474 7895 5.311265 ACTTGCTCATCAGAACAAGATTCA 58.689 37.500 13.65 0.00 46.14 2.57
6547 7968 0.752658 AGTTGCAAAGAAGGCCCAAC 59.247 50.000 0.00 4.75 36.83 3.77
6552 7973 1.127343 CAAAGAAGGCCCAACCCAAA 58.873 50.000 0.00 0.00 40.58 3.28
6796 8223 7.654022 AGAAAACTCCAAATGGTAAAGTGAA 57.346 32.000 0.00 0.00 36.34 3.18
6821 8248 9.899661 AACACCAAGAAGTAAGCAATACATATA 57.100 29.630 2.99 0.00 36.94 0.86
6957 8385 4.142381 GGGTTACTGGATTTTGAGTGATGC 60.142 45.833 0.00 0.00 0.00 3.91
7134 8566 8.912988 TCTATGTACATTGTAGTCATGTCATGA 58.087 33.333 14.77 11.62 36.84 3.07
7137 8569 5.095145 ACATTGTAGTCATGTCATGAGCT 57.905 39.130 15.96 16.50 40.53 4.09
7244 8676 0.183014 TTTCCCCGGTGTGTTTGCTA 59.817 50.000 0.00 0.00 0.00 3.49
7245 8677 0.183014 TTCCCCGGTGTGTTTGCTAA 59.817 50.000 0.00 0.00 0.00 3.09
7375 8807 7.415206 GCTTGGAATCGGTGTATCTTTTTATGT 60.415 37.037 0.00 0.00 0.00 2.29
7376 8808 7.931578 TGGAATCGGTGTATCTTTTTATGTT 57.068 32.000 0.00 0.00 0.00 2.71
7426 8858 0.603065 GGCCACACTTGATTTCCACC 59.397 55.000 0.00 0.00 0.00 4.61
7452 8884 0.608640 AAGAACGACGAATGGAGGCT 59.391 50.000 0.00 0.00 0.00 4.58
7458 8890 1.860950 CGACGAATGGAGGCTTGTATG 59.139 52.381 0.00 0.00 0.00 2.39
7466 8898 6.515272 AATGGAGGCTTGTATGTTTTACAG 57.485 37.500 0.00 0.00 0.00 2.74
7477 8909 4.765813 ATGTTTTACAGGGGTATAGCGT 57.234 40.909 0.00 0.00 0.00 5.07
7498 8930 2.147150 TGCGAAACGACAATCCAATCA 58.853 42.857 0.00 0.00 0.00 2.57
7563 8995 9.985730 ATTCAAGATAATTGCTCAAGACAAAAA 57.014 25.926 0.00 0.00 0.00 1.94
7582 9014 6.925165 ACAAAAACAAGGCATACAATGAAGAG 59.075 34.615 0.00 0.00 0.00 2.85
7738 9170 4.483950 TCCCCAATAAATTGTTGGTGACA 58.516 39.130 18.07 0.00 43.65 3.58
7745 9177 4.669206 AAATTGTTGGTGACATCTGCAA 57.331 36.364 0.00 0.00 42.32 4.08
7766 9198 1.141019 GATGGCGGCGTCTCTAACA 59.859 57.895 22.88 0.00 0.00 2.41
7794 9226 7.112565 CGTTTTCTTCTCAAGACATCATTGTTG 59.887 37.037 0.00 0.00 37.23 3.33
7797 9229 7.895975 TCTTCTCAAGACATCATTGTTGTAG 57.104 36.000 0.43 0.00 35.79 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
86 87 5.789643 TTTTGTTTCCAAGCTGCTAATCT 57.210 34.783 0.90 0.00 0.00 2.40
91 92 4.800582 GCCTAATTTTGTTTCCAAGCTGCT 60.801 41.667 0.00 0.00 0.00 4.24
111 112 1.981256 ACTTCGTTTGGATTGTGCCT 58.019 45.000 0.00 0.00 0.00 4.75
112 113 3.907894 TTACTTCGTTTGGATTGTGCC 57.092 42.857 0.00 0.00 0.00 5.01
113 114 4.602995 TGTTTACTTCGTTTGGATTGTGC 58.397 39.130 0.00 0.00 0.00 4.57
114 115 7.692908 ATTTGTTTACTTCGTTTGGATTGTG 57.307 32.000 0.00 0.00 0.00 3.33
115 116 9.458374 CTAATTTGTTTACTTCGTTTGGATTGT 57.542 29.630 0.00 0.00 0.00 2.71
215 231 0.675633 GCATTTGCCACTTGGTCACT 59.324 50.000 0.00 0.00 37.57 3.41
224 240 1.202336 GCATGGTCTAGCATTTGCCAC 60.202 52.381 0.00 0.00 43.38 5.01
320 337 2.431260 GCCGAGACCGTTTACGCA 60.431 61.111 0.00 0.00 38.18 5.24
330 347 5.467705 AGAAATAATATGGTACGCCGAGAC 58.532 41.667 0.00 0.00 37.67 3.36
378 395 8.262715 TCTTTCTTGAATATACGCAATGTTGA 57.737 30.769 0.00 0.00 0.00 3.18
411 428 5.596772 TGTCCCGTGTCTCAAATGATATCTA 59.403 40.000 3.98 0.00 0.00 1.98
488 505 2.801679 GTGTGTTTCGTGTATTCCCGAA 59.198 45.455 0.00 0.00 40.94 4.30
493 510 1.461897 CGGGGTGTGTTTCGTGTATTC 59.538 52.381 0.00 0.00 0.00 1.75
545 562 1.538047 AACGCACAGAGATTGGCAAT 58.462 45.000 13.54 13.54 0.00 3.56
546 563 1.317613 AAACGCACAGAGATTGGCAA 58.682 45.000 0.68 0.68 0.00 4.52
548 565 2.484264 ACTTAAACGCACAGAGATTGGC 59.516 45.455 0.00 0.00 0.00 4.52
732 755 4.896482 ACTCCATATATCGCTAGGGGATTC 59.104 45.833 6.99 0.00 36.61 2.52
1082 1123 0.546747 TTGACCTACACCCCCTCCTG 60.547 60.000 0.00 0.00 0.00 3.86
1099 1140 0.679002 CTCCCCATCACCAGCACTTG 60.679 60.000 0.00 0.00 0.00 3.16
1223 1359 4.577693 TCCAAGCATCATCAATCAACTAGC 59.422 41.667 0.00 0.00 0.00 3.42
1351 1487 7.092219 TGGTTTACTGCCATGCCCATATATATA 60.092 37.037 0.00 0.00 0.00 0.86
1352 1488 6.129179 GGTTTACTGCCATGCCCATATATAT 58.871 40.000 0.00 0.00 0.00 0.86
1353 1489 5.014649 TGGTTTACTGCCATGCCCATATATA 59.985 40.000 0.00 0.00 0.00 0.86
1354 1490 4.202663 TGGTTTACTGCCATGCCCATATAT 60.203 41.667 0.00 0.00 0.00 0.86
1355 1491 3.139211 TGGTTTACTGCCATGCCCATATA 59.861 43.478 0.00 0.00 0.00 0.86
1356 1492 2.091389 TGGTTTACTGCCATGCCCATAT 60.091 45.455 0.00 0.00 0.00 1.78
1371 1507 2.104451 TGTCGGCTAAAGGTGTGGTTTA 59.896 45.455 0.00 0.00 0.00 2.01
1446 1582 1.600023 CTCCACTTGCCGGTAACAAA 58.400 50.000 0.00 0.00 0.00 2.83
1507 1733 2.750237 GCGTTGGGGGTGTCATCC 60.750 66.667 0.00 0.00 0.00 3.51
1522 1749 2.615447 AGCATGGTCTAACATCATTGCG 59.385 45.455 0.00 0.00 0.00 4.85
1532 1759 7.040686 GGAAAAAGTTACTGAAGCATGGTCTAA 60.041 37.037 0.00 0.00 0.00 2.10
1678 2160 8.151596 TCTGAAATACTGGTACACAACACATTA 58.848 33.333 0.00 0.00 0.00 1.90
1717 2199 9.031537 TGTTCAGATTAATAGTTACTGACAGGA 57.968 33.333 7.51 0.00 37.34 3.86
1800 2287 5.461032 TTATCAACCCGAAACAAGCAATT 57.539 34.783 0.00 0.00 0.00 2.32
1801 2288 5.461032 TTTATCAACCCGAAACAAGCAAT 57.539 34.783 0.00 0.00 0.00 3.56
1802 2289 4.920640 TTTATCAACCCGAAACAAGCAA 57.079 36.364 0.00 0.00 0.00 3.91
1887 2374 1.266989 GGTTCTTCGGCAAGGTTCTTG 59.733 52.381 3.50 3.50 0.00 3.02
2061 2548 4.115516 CTCCACAACCTAGAATCATCACG 58.884 47.826 0.00 0.00 0.00 4.35
2226 2713 9.907576 GACGTCTAGATTTAACTGAAAATGATG 57.092 33.333 8.70 0.00 0.00 3.07
2318 2805 2.034939 CACAAGCTGAAGCAACATTCCA 59.965 45.455 4.90 0.00 45.16 3.53
2491 2978 2.682836 ACAATGCCGCCATGTTTAAAC 58.317 42.857 11.54 11.54 0.00 2.01
2643 3130 2.367567 ACTGTTTCAGCGGGTTCTAGAA 59.632 45.455 0.00 0.00 34.37 2.10
2644 3131 1.968493 ACTGTTTCAGCGGGTTCTAGA 59.032 47.619 0.00 0.00 34.37 2.43
2700 3187 7.813148 TGAAGTAAGAGCCGCAAATATATAGAC 59.187 37.037 0.00 0.00 0.00 2.59
2783 3348 4.019501 AGCATTCTGATGGAGTCTGAAGTT 60.020 41.667 0.00 0.00 44.61 2.66
3109 3678 6.885952 TGAGCTACTGTCATTAGGATCTAC 57.114 41.667 0.00 0.00 0.00 2.59
3397 3973 4.623167 CCATCTTCTCGTTGTTAGTGACAG 59.377 45.833 0.00 0.00 39.94 3.51
3407 3983 1.135774 TCGTCGTCCATCTTCTCGTTG 60.136 52.381 0.00 0.00 0.00 4.10
3412 4269 3.017442 TGATCTTCGTCGTCCATCTTCT 58.983 45.455 0.00 0.00 0.00 2.85
3558 4415 9.139174 CAGAAAAGAAGCTTGAACTTTACAAAA 57.861 29.630 2.10 0.00 34.18 2.44
3870 4727 2.922740 ACAGCTTACGGTTTTCCTCA 57.077 45.000 0.00 0.00 37.95 3.86
4019 4876 8.277490 TCACTCGACAGTACACTCTAATATTT 57.723 34.615 0.00 0.00 0.00 1.40
4204 5061 5.352643 AATAACACGGTAGAACAACTTGC 57.647 39.130 0.00 0.00 0.00 4.01
4284 5143 1.135373 GTCAACGAAGATCTCCGCTGA 60.135 52.381 3.09 3.09 0.00 4.26
4676 5536 5.392487 CGATGACTACTGACAGTCTGACATT 60.392 44.000 12.39 3.60 44.41 2.71
4988 5903 5.590259 ACACAACTGTAAAGTGCATTTCTCT 59.410 36.000 0.00 0.00 36.76 3.10
5130 6061 0.819259 TGTGTTGTGCCTCCTTCAGC 60.819 55.000 0.00 0.00 0.00 4.26
5204 6136 1.423845 CGGTAAGGAACATGCGCAC 59.576 57.895 14.90 0.00 0.00 5.34
5723 7143 3.411517 CCTGGGTGCCCGGATTCT 61.412 66.667 17.37 0.00 45.10 2.40
5943 7364 5.269991 TCTTATATTATGGGACGGAGGGAG 58.730 45.833 0.00 0.00 0.00 4.30
5944 7365 5.279562 TCTTATATTATGGGACGGAGGGA 57.720 43.478 0.00 0.00 0.00 4.20
5945 7366 5.623824 CGTTCTTATATTATGGGACGGAGGG 60.624 48.000 0.00 0.00 0.00 4.30
5946 7367 5.047519 ACGTTCTTATATTATGGGACGGAGG 60.048 44.000 13.18 0.00 0.00 4.30
5947 7368 6.022163 ACGTTCTTATATTATGGGACGGAG 57.978 41.667 13.18 0.00 0.00 4.63
5948 7369 6.409524 AACGTTCTTATATTATGGGACGGA 57.590 37.500 0.00 0.00 0.00 4.69
5949 7370 7.486802 AAAACGTTCTTATATTATGGGACGG 57.513 36.000 0.00 1.76 0.00 4.79
5950 7371 7.375017 GCAAAAACGTTCTTATATTATGGGACG 59.625 37.037 0.00 9.33 0.00 4.79
5951 7372 7.646526 GGCAAAAACGTTCTTATATTATGGGAC 59.353 37.037 0.00 0.00 0.00 4.46
5952 7373 7.339721 TGGCAAAAACGTTCTTATATTATGGGA 59.660 33.333 0.00 0.00 0.00 4.37
5953 7374 7.434013 GTGGCAAAAACGTTCTTATATTATGGG 59.566 37.037 0.00 0.00 0.00 4.00
5954 7375 8.188139 AGTGGCAAAAACGTTCTTATATTATGG 58.812 33.333 0.00 0.00 0.00 2.74
5957 7378 9.439500 ACTAGTGGCAAAAACGTTCTTATATTA 57.561 29.630 0.00 0.00 0.00 0.98
5958 7379 8.234546 CACTAGTGGCAAAAACGTTCTTATATT 58.765 33.333 15.49 0.00 0.00 1.28
5959 7380 7.389607 ACACTAGTGGCAAAAACGTTCTTATAT 59.610 33.333 26.12 0.00 34.19 0.86
5960 7381 6.707161 ACACTAGTGGCAAAAACGTTCTTATA 59.293 34.615 26.12 0.00 34.19 0.98
5961 7382 5.529800 ACACTAGTGGCAAAAACGTTCTTAT 59.470 36.000 26.12 0.00 34.19 1.73
5962 7383 4.877251 ACACTAGTGGCAAAAACGTTCTTA 59.123 37.500 26.12 0.00 34.19 2.10
5963 7384 3.692593 ACACTAGTGGCAAAAACGTTCTT 59.307 39.130 26.12 0.00 34.19 2.52
5964 7385 3.275999 ACACTAGTGGCAAAAACGTTCT 58.724 40.909 26.12 0.00 34.19 3.01
5965 7386 3.685836 ACACTAGTGGCAAAAACGTTC 57.314 42.857 26.12 0.00 34.19 3.95
5966 7387 4.193865 ACTACACTAGTGGCAAAAACGTT 58.806 39.130 26.12 0.00 37.69 3.99
5967 7388 3.800531 ACTACACTAGTGGCAAAAACGT 58.199 40.909 26.12 5.03 37.69 3.99
5978 7399 3.800531 ACGTTTTTGCCACTACACTAGT 58.199 40.909 0.00 0.00 40.28 2.57
5979 7400 4.510340 AGAACGTTTTTGCCACTACACTAG 59.490 41.667 0.46 0.00 0.00 2.57
5980 7401 4.444536 AGAACGTTTTTGCCACTACACTA 58.555 39.130 0.46 0.00 0.00 2.74
5981 7402 3.275999 AGAACGTTTTTGCCACTACACT 58.724 40.909 0.46 0.00 0.00 3.55
5982 7403 3.685836 AGAACGTTTTTGCCACTACAC 57.314 42.857 0.46 0.00 0.00 2.90
5983 7404 7.675962 ATATAAGAACGTTTTTGCCACTACA 57.324 32.000 13.87 0.00 0.00 2.74
5986 7407 8.188139 CCATAATATAAGAACGTTTTTGCCACT 58.812 33.333 13.87 0.00 0.00 4.00
5987 7408 7.434013 CCCATAATATAAGAACGTTTTTGCCAC 59.566 37.037 13.87 0.00 0.00 5.01
5988 7409 7.339721 TCCCATAATATAAGAACGTTTTTGCCA 59.660 33.333 13.87 0.01 0.00 4.92
5989 7410 7.646526 GTCCCATAATATAAGAACGTTTTTGCC 59.353 37.037 13.87 0.00 0.00 4.52
5990 7411 7.375017 CGTCCCATAATATAAGAACGTTTTTGC 59.625 37.037 13.87 0.00 0.00 3.68
5991 7412 7.853929 CCGTCCCATAATATAAGAACGTTTTTG 59.146 37.037 13.87 0.00 0.00 2.44
5992 7413 7.769970 TCCGTCCCATAATATAAGAACGTTTTT 59.230 33.333 9.22 9.22 0.00 1.94
5993 7414 7.274447 TCCGTCCCATAATATAAGAACGTTTT 58.726 34.615 0.46 0.00 0.00 2.43
5994 7415 6.819284 TCCGTCCCATAATATAAGAACGTTT 58.181 36.000 0.46 0.00 0.00 3.60
5995 7416 6.409524 TCCGTCCCATAATATAAGAACGTT 57.590 37.500 0.00 0.00 0.00 3.99
5996 7417 5.047519 CCTCCGTCCCATAATATAAGAACGT 60.048 44.000 0.00 0.00 0.00 3.99
5997 7418 5.408356 CCTCCGTCCCATAATATAAGAACG 58.592 45.833 0.00 0.00 0.00 3.95
5998 7419 5.482878 TCCCTCCGTCCCATAATATAAGAAC 59.517 44.000 0.00 0.00 0.00 3.01
5999 7420 5.657446 TCCCTCCGTCCCATAATATAAGAA 58.343 41.667 0.00 0.00 0.00 2.52
6000 7421 5.222484 ACTCCCTCCGTCCCATAATATAAGA 60.222 44.000 0.00 0.00 0.00 2.10
6001 7422 5.024118 ACTCCCTCCGTCCCATAATATAAG 58.976 45.833 0.00 0.00 0.00 1.73
6002 7423 5.019657 ACTCCCTCCGTCCCATAATATAA 57.980 43.478 0.00 0.00 0.00 0.98
6003 7424 4.687262 ACTCCCTCCGTCCCATAATATA 57.313 45.455 0.00 0.00 0.00 0.86
6004 7425 3.562108 ACTCCCTCCGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
6005 7426 4.294168 AGATACTCCCTCCGTCCCATAATA 59.706 45.833 0.00 0.00 0.00 0.98
6006 7427 3.077695 AGATACTCCCTCCGTCCCATAAT 59.922 47.826 0.00 0.00 0.00 1.28
6007 7428 2.449730 AGATACTCCCTCCGTCCCATAA 59.550 50.000 0.00 0.00 0.00 1.90
6008 7429 2.071372 AGATACTCCCTCCGTCCCATA 58.929 52.381 0.00 0.00 0.00 2.74
6009 7430 0.861155 AGATACTCCCTCCGTCCCAT 59.139 55.000 0.00 0.00 0.00 4.00
6010 7431 0.635009 AAGATACTCCCTCCGTCCCA 59.365 55.000 0.00 0.00 0.00 4.37
6011 7432 1.041437 CAAGATACTCCCTCCGTCCC 58.959 60.000 0.00 0.00 0.00 4.46
6012 7433 1.777941 ACAAGATACTCCCTCCGTCC 58.222 55.000 0.00 0.00 0.00 4.79
6013 7434 2.293955 GCTACAAGATACTCCCTCCGTC 59.706 54.545 0.00 0.00 0.00 4.79
6014 7435 2.308690 GCTACAAGATACTCCCTCCGT 58.691 52.381 0.00 0.00 0.00 4.69
6015 7436 2.307768 TGCTACAAGATACTCCCTCCG 58.692 52.381 0.00 0.00 0.00 4.63
6016 7437 3.643792 ACATGCTACAAGATACTCCCTCC 59.356 47.826 0.00 0.00 0.00 4.30
6017 7438 4.946478 ACATGCTACAAGATACTCCCTC 57.054 45.455 0.00 0.00 0.00 4.30
6018 7439 8.671987 ATAATACATGCTACAAGATACTCCCT 57.328 34.615 0.00 0.00 0.00 4.20
6025 7446 9.051259 ACCCTCATATAATACATGCTACAAGAT 57.949 33.333 0.00 0.00 0.00 2.40
6128 7549 1.932511 GTGCTAGCTCTGTTGATGCTC 59.067 52.381 17.23 0.00 38.15 4.26
6136 7557 5.360999 TGATTATACTGTGTGCTAGCTCTGT 59.639 40.000 17.23 16.59 0.00 3.41
6186 7607 2.039879 AGTACCATTGCTTCGGACCTTT 59.960 45.455 0.00 0.00 0.00 3.11
6210 7631 3.359002 GGCTTGGTCTGCCTTGTG 58.641 61.111 0.00 0.00 46.38 3.33
6272 7693 2.824936 CCATTACAACCATCAAGCCACA 59.175 45.455 0.00 0.00 0.00 4.17
6317 7738 7.341769 CAGGTCCCAATTCTGGTAATGAATTAA 59.658 37.037 0.00 0.00 40.76 1.40
6318 7739 6.833416 CAGGTCCCAATTCTGGTAATGAATTA 59.167 38.462 0.00 0.00 40.76 1.40
6324 7745 4.796606 CATCAGGTCCCAATTCTGGTAAT 58.203 43.478 0.00 0.00 41.72 1.89
6383 7804 1.544537 CCCGACTCCATTGTTGGTCAA 60.545 52.381 0.00 0.00 44.06 3.18
6412 7833 1.393603 TCTGAATCCTCTGTCGCGAT 58.606 50.000 14.06 0.00 0.00 4.58
6435 7856 3.821033 AGCAAGTAGTTTCAAATTCGCCT 59.179 39.130 0.00 0.00 0.00 5.52
6496 7917 3.119708 CCATTGGCAGTAACAGAAGCTTC 60.120 47.826 19.11 19.11 0.00 3.86
6547 7968 7.090953 TGTCTGTACTTTTTACACTTTTGGG 57.909 36.000 0.00 0.00 0.00 4.12
6552 7973 7.280356 ACCTGATGTCTGTACTTTTTACACTT 58.720 34.615 0.00 0.00 0.00 3.16
6796 8223 9.547753 CTATATGTATTGCTTACTTCTTGGTGT 57.452 33.333 0.00 0.00 0.00 4.16
6821 8248 2.800250 CAACAAAATCCAGCTCCTCCT 58.200 47.619 0.00 0.00 0.00 3.69
7095 8527 7.068226 ACAATGTACATAGAAAATTACCCAGCC 59.932 37.037 9.21 0.00 0.00 4.85
7134 8566 4.286297 TCACAAAGGTGTTGCTATAGCT 57.714 40.909 24.61 0.98 45.45 3.32
7137 8569 5.804639 ACTGATCACAAAGGTGTTGCTATA 58.195 37.500 0.00 0.00 45.45 1.31
7402 8834 1.178534 AAATCAAGTGTGGCCGGTGG 61.179 55.000 1.90 0.00 0.00 4.61
7426 8858 3.496884 TCCATTCGTCGTTCTTTTTCCAG 59.503 43.478 0.00 0.00 0.00 3.86
7439 8871 2.906354 ACATACAAGCCTCCATTCGTC 58.094 47.619 0.00 0.00 0.00 4.20
7452 8884 6.050432 CGCTATACCCCTGTAAAACATACAA 58.950 40.000 0.00 0.00 0.00 2.41
7458 8890 3.064408 GCAACGCTATACCCCTGTAAAAC 59.936 47.826 0.00 0.00 0.00 2.43
7466 8898 0.654160 GTTTCGCAACGCTATACCCC 59.346 55.000 0.00 0.00 0.00 4.95
7477 8909 2.550180 TGATTGGATTGTCGTTTCGCAA 59.450 40.909 0.00 0.00 0.00 4.85
7498 8930 2.086869 CATCTTTCTCACCAATGCCGT 58.913 47.619 0.00 0.00 0.00 5.68
7563 8995 5.186198 GGTACTCTTCATTGTATGCCTTGT 58.814 41.667 0.00 0.00 0.00 3.16
7582 9014 0.953471 TTGCACATCAGCGTGGGTAC 60.953 55.000 0.00 0.00 37.37 3.34
7642 9074 0.837272 TATTGGAGAAAGGGAGCCGG 59.163 55.000 0.00 0.00 0.00 6.13
7738 9170 1.737816 GCCGCCATCATTTGCAGAT 59.262 52.632 0.00 0.00 0.00 2.90
7745 9177 0.464036 TTAGAGACGCCGCCATCATT 59.536 50.000 0.00 0.00 0.00 2.57
7766 9198 7.173907 ACAATGATGTCTTGAGAAGAAAACGAT 59.826 33.333 0.00 0.00 39.67 3.73


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

AutoCloner maintained by Alex Coulton.