Multiple sequence alignment - TraesCS1D01G265200

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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 TraesCS1D01G265200 chr1D 100.000 7760 0 0 1 7760 361108810 361116569 0.000000e+00 14331
1 TraesCS1D01G265200 chr1D 77.994 309 50 15 211 504 245194357 245194662 2.230000e-40 178
2 TraesCS1D01G265200 chr1A 95.352 4669 132 37 2412 7042 460671567 460676188 0.000000e+00 7341
3 TraesCS1D01G265200 chr1A 90.937 971 63 16 1442 2404 460670507 460671460 0.000000e+00 1282
4 TraesCS1D01G265200 chr1A 85.866 941 67 28 505 1435 460669559 460670443 0.000000e+00 941
5 TraesCS1D01G265200 chr1A 89.959 727 34 15 7042 7760 460676374 460677069 0.000000e+00 902
6 TraesCS1D01G265200 chr1A 94.340 265 13 2 240 504 559607381 559607643 9.380000e-109 405
7 TraesCS1D01G265200 chr1A 93.208 265 16 2 240 504 559613077 559612815 9.440000e-104 388
8 TraesCS1D01G265200 chr1A 92.718 206 7 1 2 199 559613285 559613080 2.740000e-74 291
9 TraesCS1D01G265200 chr1A 91.748 206 9 1 2 199 559607173 559607378 5.930000e-71 279
10 TraesCS1D01G265200 chr1B 94.052 2606 124 8 2412 5009 483368553 483371135 0.000000e+00 3925
11 TraesCS1D01G265200 chr1B 91.541 2447 121 34 5359 7759 483371458 483373864 0.000000e+00 3293
12 TraesCS1D01G265200 chr1B 91.322 1936 75 36 501 2404 483366570 483368444 0.000000e+00 2558
13 TraesCS1D01G265200 chr1B 92.188 512 29 4 2 504 525805914 525805405 0.000000e+00 713
14 TraesCS1D01G265200 chr2A 92.141 509 30 3 2 502 49852635 49852129 0.000000e+00 710
15 TraesCS1D01G265200 chr2A 88.889 315 16 4 2 308 45100526 45100223 3.420000e-98 370
16 TraesCS1D01G265200 chr2A 93.600 125 8 0 348 472 45100225 45100101 3.700000e-43 187
17 TraesCS1D01G265200 chr7A 88.439 519 40 7 2 502 150583698 150583182 6.660000e-170 608
18 TraesCS1D01G265200 chr7A 79.935 309 43 9 211 504 222293964 222294268 7.890000e-50 209
19 TraesCS1D01G265200 chr3D 91.781 219 18 0 7192 7410 245534005 245533787 9.780000e-79 305
20 TraesCS1D01G265200 chr5A 80.156 257 37 10 258 504 708188631 708188379 6.190000e-41 180


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 TraesCS1D01G265200 chr1D 361108810 361116569 7759 False 14331.000000 14331 100.0000 1 7760 1 chr1D.!!$F2 7759
1 TraesCS1D01G265200 chr1A 460669559 460677069 7510 False 2616.500000 7341 90.5285 505 7760 4 chr1A.!!$F1 7255
2 TraesCS1D01G265200 chr1B 483366570 483373864 7294 False 3258.666667 3925 92.3050 501 7759 3 chr1B.!!$F1 7258
3 TraesCS1D01G265200 chr1B 525805405 525805914 509 True 713.000000 713 92.1880 2 504 1 chr1B.!!$R1 502
4 TraesCS1D01G265200 chr2A 49852129 49852635 506 True 710.000000 710 92.1410 2 502 1 chr2A.!!$R1 500
5 TraesCS1D01G265200 chr7A 150583182 150583698 516 True 608.000000 608 88.4390 2 502 1 chr7A.!!$R1 500

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
346 366 0.028902 GCGCAACCGTGAGAAAAAGT 59.971 50.000 0.30 0.0 36.67 2.66 F
1119 1172 0.179272 CGTTTCTTGCTTCGTCTCGC 60.179 55.000 0.00 0.0 0.00 5.03 F
1437 1504 0.109532 TCAATGCAACACCGGGAGAA 59.890 50.000 6.32 0.0 0.00 2.87 F
1900 2026 2.093181 TGGGGGTGATATCTCAACAACG 60.093 50.000 3.98 0.0 41.16 4.10 F
2958 3209 0.969409 GGCTTGGGAATGCTTCTGCT 60.969 55.000 0.00 0.0 40.48 4.24 F
3603 3858 0.972983 TCTAGTCTGGAGTGGCAGGC 60.973 60.000 0.00 0.0 0.00 4.85 F
3712 3967 1.216122 CTCTTGAGCTAAGCCGATGC 58.784 55.000 0.00 0.0 36.31 3.91 F
5184 5440 1.302993 GGGTCAACTAAGCCCGCAA 60.303 57.895 0.00 0.0 32.16 4.85 F
6317 6603 0.034574 TAGCCACATCCGCATTTGGT 60.035 50.000 0.00 0.0 32.92 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1186 1248 0.040958 GAAGCGCATTAGCATTCCCG 60.041 55.000 11.47 0.0 42.27 5.14 R
2867 3118 0.373024 GCTCGCTGCTTCTGCTTTAG 59.627 55.000 0.00 0.0 40.48 1.85 R
2880 3131 2.235898 AGGATTCTTTTCTCTGCTCGCT 59.764 45.455 0.00 0.0 0.00 4.93 R
3850 4105 1.879380 CCGTGAACTGAATGCCTTTGA 59.121 47.619 0.00 0.0 0.00 2.69 R
4361 4616 1.076705 GGTCCAGGAATCCCAAGCC 60.077 63.158 0.00 0.0 33.88 4.35 R
5218 5474 0.106918 TGCTTCTGGGGTTTTCACGT 60.107 50.000 0.00 0.0 0.00 4.49 R
5222 5478 1.344114 TGCATTGCTTCTGGGGTTTTC 59.656 47.619 10.49 0.0 0.00 2.29 R
6399 6685 0.179018 AGTTCCAGGCTTTCGCAAGT 60.179 50.000 0.00 0.0 38.10 3.16 R
7372 7857 2.125633 GTCCTTCGGGTTCGGCTC 60.126 66.667 0.00 0.0 36.95 4.70 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
61 63 3.145551 GCGGCCTTCGTCCTCCTA 61.146 66.667 0.00 0.00 41.72 2.94
137 155 1.405256 GGCTGCTATCTCCATCATCGG 60.405 57.143 0.00 0.00 0.00 4.18
157 175 1.133976 GCTCCTTGCTCACCATATGGT 60.134 52.381 22.23 22.23 43.79 3.55
186 204 3.164269 CCCGGCTGCATCTACCCT 61.164 66.667 0.50 0.00 0.00 4.34
222 240 2.482142 GCAGGCTATAGCTCGTCAACTT 60.482 50.000 23.53 0.00 41.70 2.66
236 254 3.133365 AACTTGCCGCCACCTTCCT 62.133 57.895 0.00 0.00 0.00 3.36
238 256 1.002624 CTTGCCGCCACCTTCCTAA 60.003 57.895 0.00 0.00 0.00 2.69
285 303 2.622436 GATCTGTGAGGAAAGGGAACG 58.378 52.381 0.00 0.00 0.00 3.95
345 365 2.783440 GCGCAACCGTGAGAAAAAG 58.217 52.632 0.30 0.00 36.67 2.27
346 366 0.028902 GCGCAACCGTGAGAAAAAGT 59.971 50.000 0.30 0.00 36.67 2.66
454 474 5.076873 CAACTTCAGGGATTTAAAGGTGGA 58.923 41.667 0.00 0.00 33.72 4.02
522 542 1.660607 CATGATCCGTGTTGAGGTTCG 59.339 52.381 0.00 0.00 31.77 3.95
546 566 7.018826 CGCTTTAAATCGAGTGACCAAATTAA 58.981 34.615 5.54 0.00 0.00 1.40
595 616 7.122650 CCTGTGTATTTTACTCCCAAATCACAT 59.877 37.037 0.00 0.00 34.64 3.21
700 737 2.872245 GTCTCTCTCTCTCCACTGATCG 59.128 54.545 0.00 0.00 0.00 3.69
724 761 4.570079 CCTCACTCCACCCTCTCTACTTTA 60.570 50.000 0.00 0.00 0.00 1.85
725 762 4.342359 TCACTCCACCCTCTCTACTTTAC 58.658 47.826 0.00 0.00 0.00 2.01
726 763 4.044317 TCACTCCACCCTCTCTACTTTACT 59.956 45.833 0.00 0.00 0.00 2.24
727 764 4.773149 CACTCCACCCTCTCTACTTTACTT 59.227 45.833 0.00 0.00 0.00 2.24
732 769 5.393243 CCACCCTCTCTACTTTACTTTCTCG 60.393 48.000 0.00 0.00 0.00 4.04
733 770 5.183522 CACCCTCTCTACTTTACTTTCTCGT 59.816 44.000 0.00 0.00 0.00 4.18
736 773 6.183360 CCCTCTCTACTTTACTTTCTCGTCTC 60.183 46.154 0.00 0.00 0.00 3.36
739 776 5.568392 TCTACTTTACTTTCTCGTCTCCCT 58.432 41.667 0.00 0.00 0.00 4.20
740 777 6.715280 TCTACTTTACTTTCTCGTCTCCCTA 58.285 40.000 0.00 0.00 0.00 3.53
741 778 5.641783 ACTTTACTTTCTCGTCTCCCTAC 57.358 43.478 0.00 0.00 0.00 3.18
742 779 4.462132 ACTTTACTTTCTCGTCTCCCTACC 59.538 45.833 0.00 0.00 0.00 3.18
743 780 1.461559 ACTTTCTCGTCTCCCTACCG 58.538 55.000 0.00 0.00 0.00 4.02
744 781 1.271817 ACTTTCTCGTCTCCCTACCGT 60.272 52.381 0.00 0.00 0.00 4.83
745 782 1.817447 CTTTCTCGTCTCCCTACCGTT 59.183 52.381 0.00 0.00 0.00 4.44
746 783 1.457346 TTCTCGTCTCCCTACCGTTC 58.543 55.000 0.00 0.00 0.00 3.95
747 784 0.742281 TCTCGTCTCCCTACCGTTCG 60.742 60.000 0.00 0.00 0.00 3.95
748 785 2.101770 CGTCTCCCTACCGTTCGC 59.898 66.667 0.00 0.00 0.00 4.70
749 786 2.493501 GTCTCCCTACCGTTCGCC 59.506 66.667 0.00 0.00 0.00 5.54
750 787 2.757099 TCTCCCTACCGTTCGCCC 60.757 66.667 0.00 0.00 0.00 6.13
751 788 3.846430 CTCCCTACCGTTCGCCCC 61.846 72.222 0.00 0.00 0.00 5.80
752 789 4.387343 TCCCTACCGTTCGCCCCT 62.387 66.667 0.00 0.00 0.00 4.79
753 790 3.846430 CCCTACCGTTCGCCCCTC 61.846 72.222 0.00 0.00 0.00 4.30
754 791 3.846430 CCTACCGTTCGCCCCTCC 61.846 72.222 0.00 0.00 0.00 4.30
755 792 3.846430 CTACCGTTCGCCCCTCCC 61.846 72.222 0.00 0.00 0.00 4.30
1111 1155 1.897560 CTTCTCCCCGTTTCTTGCTT 58.102 50.000 0.00 0.00 0.00 3.91
1119 1172 0.179272 CGTTTCTTGCTTCGTCTCGC 60.179 55.000 0.00 0.00 0.00 5.03
1219 1281 2.124151 CTTCGGGGATTGGGCTGG 60.124 66.667 0.00 0.00 0.00 4.85
1228 1290 1.753073 GGATTGGGCTGGATTGAACAG 59.247 52.381 0.00 0.00 38.95 3.16
1264 1327 1.865340 GCGCCTTCTTTAATCGTAGGG 59.135 52.381 0.00 0.00 0.00 3.53
1266 1329 3.491447 GCGCCTTCTTTAATCGTAGGGTA 60.491 47.826 0.00 0.00 0.00 3.69
1270 1333 5.068855 GCCTTCTTTAATCGTAGGGTAGTCT 59.931 44.000 0.00 0.00 0.00 3.24
1271 1334 6.264067 GCCTTCTTTAATCGTAGGGTAGTCTA 59.736 42.308 0.00 0.00 0.00 2.59
1290 1353 1.496060 ATATGTCGGCACCTCCTGAA 58.504 50.000 0.00 0.00 0.00 3.02
1361 1428 2.488545 TCTCGGTCAGTCTGTAGCTTTC 59.511 50.000 0.00 0.00 0.00 2.62
1362 1429 2.229062 CTCGGTCAGTCTGTAGCTTTCA 59.771 50.000 0.00 0.00 0.00 2.69
1366 1433 5.047590 TCGGTCAGTCTGTAGCTTTCAATTA 60.048 40.000 0.00 0.00 0.00 1.40
1373 1440 7.489757 CAGTCTGTAGCTTTCAATTACTCTACC 59.510 40.741 0.00 0.00 0.00 3.18
1412 1479 1.080161 CCGTGCCGAAAATTTGGGG 60.080 57.895 8.80 6.96 32.00 4.96
1429 1496 2.102252 TGGGGAACTTTCAATGCAACAC 59.898 45.455 0.00 0.00 0.00 3.32
1437 1504 0.109532 TCAATGCAACACCGGGAGAA 59.890 50.000 6.32 0.00 0.00 2.87
1477 1601 6.432607 TCTAGTCATGTTAGTGTTAGACCG 57.567 41.667 0.00 0.00 0.00 4.79
1500 1624 5.073311 ACACTCTTGCACGATTGTACTAT 57.927 39.130 13.51 0.00 0.00 2.12
1550 1674 6.079424 TGGTTCATTTTTAGAAAGAACCGG 57.921 37.500 21.44 0.00 44.78 5.28
1551 1675 4.921515 GGTTCATTTTTAGAAAGAACCGGC 59.078 41.667 16.74 0.00 39.86 6.13
1602 1726 8.907222 TCTTTATTGCAATGCTATCATACTCA 57.093 30.769 22.27 0.00 31.46 3.41
1603 1727 9.511272 TCTTTATTGCAATGCTATCATACTCAT 57.489 29.630 22.27 0.00 31.46 2.90
1611 1735 5.113502 TGCTATCATACTCATCAGTCACG 57.886 43.478 0.00 0.00 33.62 4.35
1638 1762 2.939103 GCTGGTGAACTATGCTACCAAG 59.061 50.000 0.00 0.00 42.19 3.61
1645 1769 5.007136 GTGAACTATGCTACCAAGATGCTTC 59.993 44.000 0.00 0.00 0.00 3.86
1807 1933 5.592688 CAGTTTCCTGGTTTTCCTTACTGAA 59.407 40.000 0.00 0.00 41.38 3.02
1882 2008 3.450817 AGGTGGTTTCTTTGTTCTTTGGG 59.549 43.478 0.00 0.00 0.00 4.12
1900 2026 2.093181 TGGGGGTGATATCTCAACAACG 60.093 50.000 3.98 0.00 41.16 4.10
2277 2404 7.502120 TTGAATCCTCTTTTCAGTTTCTCTG 57.498 36.000 0.00 0.00 44.85 3.35
2404 2531 7.228706 TGTTTTCCTCTCCACAAAAATACTCTC 59.771 37.037 0.00 0.00 0.00 3.20
2405 2532 6.688073 TTCCTCTCCACAAAAATACTCTCT 57.312 37.500 0.00 0.00 0.00 3.10
2406 2533 6.042638 TCCTCTCCACAAAAATACTCTCTG 57.957 41.667 0.00 0.00 0.00 3.35
2409 2536 6.351371 CCTCTCCACAAAAATACTCTCTGCTA 60.351 42.308 0.00 0.00 0.00 3.49
2550 2785 6.904463 TCCAACCAAGGAACCTTTTTATAC 57.096 37.500 3.10 0.00 33.93 1.47
2613 2848 7.280356 AGAATAATAATCTGCCTACGGTTTGT 58.720 34.615 0.00 0.00 0.00 2.83
2670 2905 8.113173 ACATTTTTATTTGTTTAGCGTCCCTA 57.887 30.769 0.00 0.00 0.00 3.53
2687 2938 9.032624 AGCGTCCCTACACTATATATATTTGTT 57.967 33.333 12.50 3.53 0.00 2.83
2755 3006 9.543783 GTAGTATGTAGGGATTTGTTTCCTTAG 57.456 37.037 0.00 0.00 35.97 2.18
2867 3118 2.630580 CTCACTATAGGGAGGAAGTGGC 59.369 54.545 22.43 0.00 39.80 5.01
2880 3131 2.154462 GAAGTGGCTAAAGCAGAAGCA 58.846 47.619 4.07 0.00 45.49 3.91
2958 3209 0.969409 GGCTTGGGAATGCTTCTGCT 60.969 55.000 0.00 0.00 40.48 4.24
2976 3227 4.400251 TCTGCTTTGGACATTGAATCATCC 59.600 41.667 0.00 0.00 0.00 3.51
3120 3371 7.494625 CGATTTGTATTCTTCCTAGGTTGCTAA 59.505 37.037 9.08 0.00 0.00 3.09
3221 3472 8.523915 ACATGGATTAGCATTTTGTAGATCAA 57.476 30.769 0.00 0.00 0.00 2.57
3463 3718 3.432186 GCACGGTTGCTTGGAGTT 58.568 55.556 0.00 0.00 46.17 3.01
3603 3858 0.972983 TCTAGTCTGGAGTGGCAGGC 60.973 60.000 0.00 0.00 0.00 4.85
3712 3967 1.216122 CTCTTGAGCTAAGCCGATGC 58.784 55.000 0.00 0.00 36.31 3.91
3850 4105 1.859302 CTCACCCCTGCTAGAGAGTT 58.141 55.000 0.00 0.00 0.00 3.01
3916 4171 2.887151 CCTTGGAAGGGTCTTGATGT 57.113 50.000 0.00 0.00 42.66 3.06
4361 4616 8.848474 ATCTTATATGAAATTTCCGGTGGTAG 57.152 34.615 15.48 4.98 0.00 3.18
5081 5336 2.348591 GCTTTTAGAATCCCGCGAATCG 60.349 50.000 8.23 0.00 38.08 3.34
5091 5346 3.030209 CGCGAATCGGAGTTTGAGA 57.970 52.632 0.00 0.00 33.78 3.27
5145 5401 1.876416 CGAAACACCCTGAACGATGGT 60.876 52.381 0.00 0.00 0.00 3.55
5153 5409 2.426522 CCTGAACGATGGTGTTGTCAT 58.573 47.619 0.00 0.00 30.75 3.06
5157 5413 5.123820 CCTGAACGATGGTGTTGTCATATTT 59.876 40.000 0.00 0.00 30.75 1.40
5182 5438 2.437895 GGGGTCAACTAAGCCCGC 60.438 66.667 0.00 0.00 46.44 6.13
5184 5440 1.302993 GGGTCAACTAAGCCCGCAA 60.303 57.895 0.00 0.00 32.16 4.85
5205 5461 4.535526 ACTTTGCAAAACCATCCCATAC 57.464 40.909 13.84 0.00 0.00 2.39
5214 5470 6.589907 GCAAAACCATCCCATACAAGTAAAAG 59.410 38.462 0.00 0.00 0.00 2.27
5218 5474 6.548321 ACCATCCCATACAAGTAAAAGTTCA 58.452 36.000 0.00 0.00 0.00 3.18
5222 5478 5.467399 TCCCATACAAGTAAAAGTTCACGTG 59.533 40.000 9.94 9.94 0.00 4.49
5227 5483 8.730427 CATACAAGTAAAAGTTCACGTGAAAAC 58.270 33.333 31.20 21.07 35.58 2.43
5239 5495 1.613437 CGTGAAAACCCCAGAAGCAAT 59.387 47.619 0.00 0.00 0.00 3.56
5246 5502 1.980036 ACCCCAGAAGCAATGCAATTT 59.020 42.857 8.35 0.00 31.22 1.82
5340 5596 7.231722 ACCGGCATTGGCAATAAATATTACTTA 59.768 33.333 13.23 0.00 43.71 2.24
5435 5696 9.708222 CTAAATTCATACAAGTACAGCATTGAC 57.292 33.333 0.00 0.00 0.00 3.18
5497 5779 1.162698 CAGCACTGACTGGTTCATGG 58.837 55.000 0.00 0.00 32.17 3.66
5561 5843 9.884465 CTGAACTTAAGTTAGGAATTTCTGTTG 57.116 33.333 20.58 0.00 38.56 3.33
5736 6018 1.613255 CGAGTTAAAGGTGGGTGCCAT 60.613 52.381 0.00 0.00 35.28 4.40
5737 6019 2.525368 GAGTTAAAGGTGGGTGCCATT 58.475 47.619 0.00 0.00 35.28 3.16
5755 6039 9.236006 GGTGCCATTATCTGAATTAGAACATAT 57.764 33.333 0.00 0.00 39.30 1.78
5777 6063 2.665165 TGAAGCCCTTTTCTCAAGCAA 58.335 42.857 0.00 0.00 0.00 3.91
6050 6336 4.694339 ACTTTTCAGTAAGAGCGTCAACT 58.306 39.130 0.00 0.00 0.00 3.16
6052 6338 6.278363 ACTTTTCAGTAAGAGCGTCAACTTA 58.722 36.000 0.00 0.00 0.00 2.24
6053 6339 6.200475 ACTTTTCAGTAAGAGCGTCAACTTAC 59.800 38.462 0.00 0.00 44.76 2.34
6068 6354 7.298122 CGTCAACTTACGGTTTTAGTACTCTA 58.702 38.462 0.00 0.00 39.19 2.43
6113 6399 4.636648 TGTGTTGATGAAAACTAACCGTGT 59.363 37.500 0.00 0.00 0.00 4.49
6292 6578 7.608308 ACTTGATGCTCAGAAAGTAAGAATC 57.392 36.000 0.00 0.00 31.26 2.52
6296 6582 9.896645 TTGATGCTCAGAAAGTAAGAATCTTAT 57.103 29.630 5.96 0.00 0.00 1.73
6301 6587 9.191995 GCTCAGAAAGTAAGAATCTTATCTAGC 57.808 37.037 5.96 10.25 0.00 3.42
6303 6589 9.201989 TCAGAAAGTAAGAATCTTATCTAGCCA 57.798 33.333 5.96 0.00 0.00 4.75
6304 6590 9.255304 CAGAAAGTAAGAATCTTATCTAGCCAC 57.745 37.037 5.96 0.00 0.00 5.01
6305 6591 8.982723 AGAAAGTAAGAATCTTATCTAGCCACA 58.017 33.333 5.96 0.00 0.00 4.17
6306 6592 9.771534 GAAAGTAAGAATCTTATCTAGCCACAT 57.228 33.333 5.96 0.00 0.00 3.21
6307 6593 9.771534 AAAGTAAGAATCTTATCTAGCCACATC 57.228 33.333 5.96 0.00 0.00 3.06
6309 6595 5.398603 AGAATCTTATCTAGCCACATCCG 57.601 43.478 0.00 0.00 0.00 4.18
6310 6596 3.601443 ATCTTATCTAGCCACATCCGC 57.399 47.619 0.00 0.00 0.00 5.54
6311 6597 2.316108 TCTTATCTAGCCACATCCGCA 58.684 47.619 0.00 0.00 0.00 5.69
6312 6598 2.899900 TCTTATCTAGCCACATCCGCAT 59.100 45.455 0.00 0.00 0.00 4.73
6314 6600 2.645838 ATCTAGCCACATCCGCATTT 57.354 45.000 0.00 0.00 0.00 2.32
6315 6601 1.667236 TCTAGCCACATCCGCATTTG 58.333 50.000 0.00 0.00 0.00 2.32
6316 6602 0.664761 CTAGCCACATCCGCATTTGG 59.335 55.000 0.00 0.00 33.43 3.28
6317 6603 0.034574 TAGCCACATCCGCATTTGGT 60.035 50.000 0.00 0.00 32.92 3.67
6318 6604 0.899717 AGCCACATCCGCATTTGGTT 60.900 50.000 0.00 0.00 32.92 3.67
6319 6605 0.737019 GCCACATCCGCATTTGGTTG 60.737 55.000 0.00 0.00 32.92 3.77
6320 6606 0.887247 CCACATCCGCATTTGGTTGA 59.113 50.000 0.00 0.00 33.73 3.18
6321 6607 1.271934 CCACATCCGCATTTGGTTGAA 59.728 47.619 0.00 0.00 33.73 2.69
6322 6608 2.094078 CCACATCCGCATTTGGTTGAAT 60.094 45.455 0.00 0.00 33.73 2.57
6323 6609 3.181397 CACATCCGCATTTGGTTGAATC 58.819 45.455 0.00 0.00 33.73 2.52
6324 6610 2.824936 ACATCCGCATTTGGTTGAATCA 59.175 40.909 0.00 0.00 33.73 2.57
6325 6611 3.181397 CATCCGCATTTGGTTGAATCAC 58.819 45.455 0.00 0.00 31.58 3.06
6326 6612 2.234143 TCCGCATTTGGTTGAATCACA 58.766 42.857 0.00 0.00 0.00 3.58
6327 6613 2.824936 TCCGCATTTGGTTGAATCACAT 59.175 40.909 0.00 0.00 0.00 3.21
6328 6614 3.119531 TCCGCATTTGGTTGAATCACATC 60.120 43.478 0.00 0.00 0.00 3.06
6329 6615 3.181397 CGCATTTGGTTGAATCACATCC 58.819 45.455 0.00 0.00 38.47 3.51
6330 6616 3.119388 CGCATTTGGTTGAATCACATCCT 60.119 43.478 0.00 0.00 38.70 3.24
6331 6617 4.427312 GCATTTGGTTGAATCACATCCTC 58.573 43.478 0.00 0.00 38.70 3.71
6332 6618 4.082081 GCATTTGGTTGAATCACATCCTCA 60.082 41.667 0.00 0.00 38.70 3.86
6336 6622 4.018490 TGGTTGAATCACATCCTCATTGG 58.982 43.478 0.00 0.00 38.70 3.16
6343 6629 1.475280 CACATCCTCATTGGTGCCTTG 59.525 52.381 0.00 0.00 37.07 3.61
6371 6657 3.699038 TCCCACTTCCAAGACAAAAACTG 59.301 43.478 0.00 0.00 0.00 3.16
6384 6670 6.789262 AGACAAAAACTGAGATGACACTTTG 58.211 36.000 0.00 0.00 0.00 2.77
6399 6685 1.064017 ACTTTGTTCAGGGGCTTCACA 60.064 47.619 0.00 0.00 0.00 3.58
6441 6727 2.036346 ACTAAAGAAAGTACACCGCCGT 59.964 45.455 0.00 0.00 0.00 5.68
6821 7107 6.589907 CACTTGTACTGTAGTGAATACATGCA 59.410 38.462 14.32 0.00 43.44 3.96
6908 7201 2.404265 TCATGTTTCAAGTGCAAGCG 57.596 45.000 0.00 0.00 0.00 4.68
7038 7337 5.957842 TCAAAGACCACGAAGCAAATTAT 57.042 34.783 0.00 0.00 0.00 1.28
7086 7571 2.962569 TCGAGGACGAGCTGGTTG 59.037 61.111 1.83 0.00 43.81 3.77
7190 7675 3.129502 CATCACCGTGCCCAGCAG 61.130 66.667 0.00 0.00 40.08 4.24
7620 8108 4.527157 GCGCTTGCACGATGAGGC 62.527 66.667 0.00 0.00 38.92 4.70
7655 8149 2.866762 GGCGAGAAGATGTGGTGATAAC 59.133 50.000 0.00 0.00 0.00 1.89
7717 8212 7.441458 GTGTTCTTGTAGTTGTAGGAATGAACT 59.559 37.037 0.00 0.00 33.51 3.01
7740 8242 3.504906 ACAGCTTGGATGATTGTCTGTTG 59.495 43.478 0.00 0.00 30.08 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
137 155 1.602311 CCATATGGTGAGCAAGGAGC 58.398 55.000 14.09 0.00 46.19 4.70
222 240 1.899437 CTCTTAGGAAGGTGGCGGCA 61.899 60.000 7.97 7.97 0.00 5.69
236 254 4.981812 TGTCTATCGGGTAGATGCTCTTA 58.018 43.478 0.56 0.00 41.33 2.10
238 256 3.510531 TGTCTATCGGGTAGATGCTCT 57.489 47.619 0.56 0.00 41.33 4.09
285 303 1.075600 CTCCCACCTCTCTCCTCCC 60.076 68.421 0.00 0.00 0.00 4.30
344 364 0.252284 ATCCTGACCGGGAACTCACT 60.252 55.000 6.32 0.00 39.02 3.41
345 365 0.613777 AATCCTGACCGGGAACTCAC 59.386 55.000 6.32 0.00 39.02 3.51
346 366 0.613260 CAATCCTGACCGGGAACTCA 59.387 55.000 6.32 0.00 39.02 3.41
454 474 5.421056 TGTAGAGGTCGACATGAATAAACCT 59.579 40.000 18.91 0.72 39.76 3.50
522 542 8.736751 TTTAATTTGGTCACTCGATTTAAAGC 57.263 30.769 0.00 0.00 0.00 3.51
595 616 1.827399 GAGACACGGGGGCTCTTTCA 61.827 60.000 5.67 0.00 0.00 2.69
700 737 0.033011 TAGAGAGGGTGGAGTGAGGC 60.033 60.000 0.00 0.00 0.00 4.70
724 761 1.271817 ACGGTAGGGAGACGAGAAAGT 60.272 52.381 0.00 0.00 0.00 2.66
725 762 1.461559 ACGGTAGGGAGACGAGAAAG 58.538 55.000 0.00 0.00 0.00 2.62
726 763 1.815003 GAACGGTAGGGAGACGAGAAA 59.185 52.381 0.00 0.00 0.00 2.52
727 764 1.457346 GAACGGTAGGGAGACGAGAA 58.543 55.000 0.00 0.00 0.00 2.87
732 769 2.493501 GGCGAACGGTAGGGAGAC 59.506 66.667 0.00 0.00 0.00 3.36
733 770 2.757099 GGGCGAACGGTAGGGAGA 60.757 66.667 0.00 0.00 0.00 3.71
736 773 3.846430 GAGGGGCGAACGGTAGGG 61.846 72.222 0.00 0.00 0.00 3.53
767 804 0.390860 CCCGTAATGGAGCAGAGAGG 59.609 60.000 0.00 0.00 42.00 3.69
793 830 0.968901 TTCCGTCTATGGTGTCGGCT 60.969 55.000 0.00 0.00 42.28 5.52
1186 1248 0.040958 GAAGCGCATTAGCATTCCCG 60.041 55.000 11.47 0.00 42.27 5.14
1219 1281 3.091545 TGGGATTCTTGGCTGTTCAATC 58.908 45.455 0.00 0.00 0.00 2.67
1228 1290 0.807275 GCGCATTTGGGATTCTTGGC 60.807 55.000 0.30 0.00 0.00 4.52
1231 1293 1.478105 GAAGGCGCATTTGGGATTCTT 59.522 47.619 9.39 0.00 0.00 2.52
1233 1295 1.106285 AGAAGGCGCATTTGGGATTC 58.894 50.000 9.39 0.00 0.00 2.52
1236 1298 2.208132 TAAAGAAGGCGCATTTGGGA 57.792 45.000 9.39 0.00 0.00 4.37
1264 1327 3.190953 GGAGGTGCCGACATATAGACTAC 59.809 52.174 0.00 0.00 0.00 2.73
1266 1329 2.158445 AGGAGGTGCCGACATATAGACT 60.158 50.000 0.00 0.00 43.43 3.24
1270 1333 2.364324 GTTCAGGAGGTGCCGACATATA 59.636 50.000 0.00 0.00 43.43 0.86
1271 1334 1.139058 GTTCAGGAGGTGCCGACATAT 59.861 52.381 0.00 0.00 43.43 1.78
1290 1353 5.931441 GCATAATTTCTGCCTAGATTCGT 57.069 39.130 0.00 0.00 33.44 3.85
1348 1415 7.548967 GGTAGAGTAATTGAAAGCTACAGACT 58.451 38.462 0.00 0.00 32.11 3.24
1373 1440 2.931320 GCTCCTACCCAAGTTCAACTCG 60.931 54.545 0.00 0.00 0.00 4.18
1401 1468 5.530543 TGCATTGAAAGTTCCCCAAATTTTC 59.469 36.000 0.00 0.00 41.50 2.29
1412 1479 2.393764 CCGGTGTTGCATTGAAAGTTC 58.606 47.619 0.00 0.00 0.00 3.01
1429 1496 0.878416 TGCAATTTTCGTTCTCCCGG 59.122 50.000 0.00 0.00 0.00 5.73
1437 1504 5.295787 TGACTAGAACAGTTGCAATTTTCGT 59.704 36.000 0.59 0.77 37.72 3.85
1477 1601 3.318017 AGTACAATCGTGCAAGAGTGTC 58.682 45.455 32.84 24.13 44.77 3.67
1500 1624 2.877786 TGCGCTTCTCTGAATTGACAAA 59.122 40.909 9.73 0.00 0.00 2.83
1550 1674 2.893489 AGATGAGGAACAAAAACCAGGC 59.107 45.455 0.00 0.00 0.00 4.85
1551 1675 3.891366 ACAGATGAGGAACAAAAACCAGG 59.109 43.478 0.00 0.00 0.00 4.45
1559 1683 8.786898 CAATAAAGAAAGACAGATGAGGAACAA 58.213 33.333 0.00 0.00 0.00 2.83
1564 1688 6.748333 TGCAATAAAGAAAGACAGATGAGG 57.252 37.500 0.00 0.00 0.00 3.86
1598 1722 2.028658 AGCATGTTCGTGACTGATGAGT 60.029 45.455 0.00 0.00 33.98 3.41
1599 1723 2.347755 CAGCATGTTCGTGACTGATGAG 59.652 50.000 0.00 0.00 29.88 2.90
1600 1724 2.340337 CAGCATGTTCGTGACTGATGA 58.660 47.619 0.00 0.00 29.88 2.92
1601 1725 1.395954 CCAGCATGTTCGTGACTGATG 59.604 52.381 13.63 0.00 0.00 3.07
1602 1726 1.002430 ACCAGCATGTTCGTGACTGAT 59.998 47.619 13.63 0.32 0.00 2.90
1603 1727 0.392706 ACCAGCATGTTCGTGACTGA 59.607 50.000 13.63 0.00 0.00 3.41
1611 1735 3.012518 AGCATAGTTCACCAGCATGTTC 58.987 45.455 0.00 0.00 0.00 3.18
1638 1762 7.953710 GCAGTGAAAATAAACATTTGAAGCATC 59.046 33.333 0.00 0.00 0.00 3.91
1645 1769 5.689514 TGTCCGCAGTGAAAATAAACATTTG 59.310 36.000 0.00 0.00 0.00 2.32
1807 1933 3.951680 ACGATTGTGGTCTTCAGGTTTTT 59.048 39.130 0.00 0.00 0.00 1.94
1882 2008 1.940613 GCCGTTGTTGAGATATCACCC 59.059 52.381 5.32 0.00 0.00 4.61
1900 2026 2.096496 CCATTTCTCGAATGACTGTGCC 59.904 50.000 0.00 0.00 46.59 5.01
2277 2404 6.456501 TGTTCTCTAGTTAACTCTGGAAAGC 58.543 40.000 12.39 5.11 0.00 3.51
2379 2506 7.445707 AGAGAGTATTTTTGTGGAGAGGAAAAC 59.554 37.037 0.00 0.00 0.00 2.43
2404 2531 9.832445 TTAGGTTTTAAAGGATGAGTATAGCAG 57.168 33.333 0.00 0.00 0.00 4.24
2405 2532 9.609346 GTTAGGTTTTAAAGGATGAGTATAGCA 57.391 33.333 0.00 0.00 0.00 3.49
2406 2533 9.833917 AGTTAGGTTTTAAAGGATGAGTATAGC 57.166 33.333 0.00 0.00 0.00 2.97
2409 2536 8.832735 TCCAGTTAGGTTTTAAAGGATGAGTAT 58.167 33.333 0.00 0.00 39.02 2.12
2525 2759 7.511028 TGTATAAAAAGGTTCCTTGGTTGGAAT 59.489 33.333 4.77 0.00 46.36 3.01
2526 2760 6.839657 TGTATAAAAAGGTTCCTTGGTTGGAA 59.160 34.615 4.77 0.00 43.16 3.53
2537 2771 9.124807 CCATCGTTCTTTTGTATAAAAAGGTTC 57.875 33.333 9.90 3.96 37.72 3.62
2541 2775 7.807907 ACTGCCATCGTTCTTTTGTATAAAAAG 59.192 33.333 4.54 4.54 35.50 2.27
2550 2785 3.120199 CCTGTACTGCCATCGTTCTTTTG 60.120 47.826 0.00 0.00 0.00 2.44
2613 2848 5.362430 GCCATCATGGGTAATTGGTTTTCTA 59.638 40.000 5.62 0.00 38.19 2.10
2755 3006 5.972107 AGCTTATGATCATTTATGTGGCC 57.028 39.130 14.65 0.00 0.00 5.36
2867 3118 0.373024 GCTCGCTGCTTCTGCTTTAG 59.627 55.000 0.00 0.00 40.48 1.85
2880 3131 2.235898 AGGATTCTTTTCTCTGCTCGCT 59.764 45.455 0.00 0.00 0.00 4.93
2958 3209 2.426738 GCCGGATGATTCAATGTCCAAA 59.573 45.455 5.05 0.00 0.00 3.28
2976 3227 3.067180 ACAGCATATTCCATGAAAAGCCG 59.933 43.478 0.00 0.00 0.00 5.52
3463 3718 3.445805 TCGCATATACTTGTGGTGTCTGA 59.554 43.478 0.00 0.00 0.00 3.27
3603 3858 2.823196 TTCTGCGGCATGTTTTATCG 57.177 45.000 1.75 0.00 0.00 2.92
3712 3967 5.606348 AGCAGTACCTCATTAGAAGAAGG 57.394 43.478 0.00 0.00 0.00 3.46
3850 4105 1.879380 CCGTGAACTGAATGCCTTTGA 59.121 47.619 0.00 0.00 0.00 2.69
3882 4137 4.202245 TCCAAGGGATGAAGAAGTAACG 57.798 45.455 0.00 0.00 0.00 3.18
4143 4398 4.259356 CATCTGCTTTTCCTGACATGAGA 58.741 43.478 0.00 0.00 0.00 3.27
4361 4616 1.076705 GGTCCAGGAATCCCAAGCC 60.077 63.158 0.00 0.00 33.88 4.35
4961 5216 1.458064 ACGTTTGTTTGATCGCTACCG 59.542 47.619 0.00 0.00 0.00 4.02
5013 5268 4.731720 TGTAAATTTGTGATGTCATGCCG 58.268 39.130 0.00 0.00 0.00 5.69
5134 5390 5.801350 AATATGACAACACCATCGTTCAG 57.199 39.130 0.00 0.00 0.00 3.02
5145 5401 4.704540 CCCCACAGCTTAAATATGACAACA 59.295 41.667 0.00 0.00 0.00 3.33
5153 5409 4.650972 AGTTGACCCCACAGCTTAAATA 57.349 40.909 0.00 0.00 0.00 1.40
5157 5413 2.290071 GCTTAGTTGACCCCACAGCTTA 60.290 50.000 0.00 0.00 33.71 3.09
5182 5438 3.191078 TGGGATGGTTTTGCAAAGTTG 57.809 42.857 12.41 0.00 0.00 3.16
5184 5440 3.900601 TGTATGGGATGGTTTTGCAAAGT 59.099 39.130 12.41 0.20 0.00 2.66
5205 5461 5.513849 GGGTTTTCACGTGAACTTTTACTTG 59.486 40.000 29.74 0.00 33.13 3.16
5214 5470 1.670791 TCTGGGGTTTTCACGTGAAC 58.329 50.000 29.74 20.02 33.13 3.18
5218 5474 0.106918 TGCTTCTGGGGTTTTCACGT 60.107 50.000 0.00 0.00 0.00 4.49
5222 5478 1.344114 TGCATTGCTTCTGGGGTTTTC 59.656 47.619 10.49 0.00 0.00 2.29
5227 5483 2.773993 AAATTGCATTGCTTCTGGGG 57.226 45.000 10.49 0.00 0.00 4.96
5239 5495 7.591057 CACTGAGTTCGAGAAAATAAAATTGCA 59.409 33.333 0.00 0.00 0.00 4.08
5246 5502 6.801539 ATTGCACTGAGTTCGAGAAAATAA 57.198 33.333 0.00 0.00 0.00 1.40
5340 5596 6.291377 ACTTGACTACACAACACAATCAGAT 58.709 36.000 0.00 0.00 0.00 2.90
5426 5687 4.713824 ATGAGGTTGAATGTCAATGCTG 57.286 40.909 0.00 0.00 38.79 4.41
5427 5688 7.414222 AAATATGAGGTTGAATGTCAATGCT 57.586 32.000 0.00 0.00 38.79 3.79
5435 5696 5.247507 TCGGCAAAATATGAGGTTGAATG 57.752 39.130 0.00 0.00 0.00 2.67
5497 5779 4.023193 CCAAACACAAGTCAACCTCATACC 60.023 45.833 0.00 0.00 0.00 2.73
5561 5843 3.871006 TCGACATCAACCTATTGCATCAC 59.129 43.478 0.00 0.00 35.63 3.06
5755 6039 4.032960 TGCTTGAGAAAAGGGCTTCATA 57.967 40.909 0.00 0.00 0.00 2.15
5763 6047 5.059833 ACTCACTAGTTGCTTGAGAAAAGG 58.940 41.667 12.79 0.00 39.36 3.11
5777 6063 8.532186 AGTTATTCATCATCAGACTCACTAGT 57.468 34.615 0.00 0.00 39.21 2.57
6089 6375 5.124138 ACACGGTTAGTTTTCATCAACACAA 59.876 36.000 0.00 0.00 0.00 3.33
6091 6377 5.164606 ACACGGTTAGTTTTCATCAACAC 57.835 39.130 0.00 0.00 0.00 3.32
6093 6379 7.803724 AGATAACACGGTTAGTTTTCATCAAC 58.196 34.615 0.00 0.00 31.90 3.18
6094 6380 7.148705 CGAGATAACACGGTTAGTTTTCATCAA 60.149 37.037 0.00 0.00 31.90 2.57
6095 6381 6.309494 CGAGATAACACGGTTAGTTTTCATCA 59.691 38.462 0.00 0.00 31.90 3.07
6096 6382 6.309737 ACGAGATAACACGGTTAGTTTTCATC 59.690 38.462 0.00 0.00 34.68 2.92
6097 6383 6.090358 CACGAGATAACACGGTTAGTTTTCAT 59.910 38.462 0.00 0.00 34.68 2.57
6098 6384 5.403166 CACGAGATAACACGGTTAGTTTTCA 59.597 40.000 0.00 0.00 34.68 2.69
6105 6391 2.488937 TCTGCACGAGATAACACGGTTA 59.511 45.455 0.00 0.00 34.68 2.85
6113 6399 6.391227 TCATCACTAATCTGCACGAGATAA 57.609 37.500 0.00 0.00 40.89 1.75
6292 6578 2.820059 TGCGGATGTGGCTAGATAAG 57.180 50.000 0.00 0.00 0.00 1.73
6296 6582 1.667236 CAAATGCGGATGTGGCTAGA 58.333 50.000 0.00 0.00 0.00 2.43
6299 6585 0.899717 AACCAAATGCGGATGTGGCT 60.900 50.000 24.88 11.30 40.41 4.75
6300 6586 0.737019 CAACCAAATGCGGATGTGGC 60.737 55.000 24.88 0.00 40.41 5.01
6301 6587 0.887247 TCAACCAAATGCGGATGTGG 59.113 50.000 23.52 23.52 42.31 4.17
6303 6589 2.824936 TGATTCAACCAAATGCGGATGT 59.175 40.909 0.00 0.00 31.10 3.06
6304 6590 3.181397 GTGATTCAACCAAATGCGGATG 58.819 45.455 0.00 0.00 0.00 3.51
6305 6591 2.824936 TGTGATTCAACCAAATGCGGAT 59.175 40.909 0.00 0.00 0.00 4.18
6306 6592 2.234143 TGTGATTCAACCAAATGCGGA 58.766 42.857 0.00 0.00 0.00 5.54
6307 6593 2.721274 TGTGATTCAACCAAATGCGG 57.279 45.000 0.00 0.00 0.00 5.69
6309 6595 4.082081 TGAGGATGTGATTCAACCAAATGC 60.082 41.667 8.00 0.00 40.80 3.56
6310 6596 5.648178 TGAGGATGTGATTCAACCAAATG 57.352 39.130 8.00 0.00 40.80 2.32
6311 6597 6.351541 CCAATGAGGATGTGATTCAACCAAAT 60.352 38.462 8.00 0.00 40.80 2.32
6312 6598 5.047164 CCAATGAGGATGTGATTCAACCAAA 60.047 40.000 8.00 0.00 40.80 3.28
6314 6600 4.018490 CCAATGAGGATGTGATTCAACCA 58.982 43.478 8.00 0.00 40.80 3.67
6315 6601 4.019174 ACCAATGAGGATGTGATTCAACC 58.981 43.478 0.00 0.00 41.22 3.77
6316 6602 4.676196 GCACCAATGAGGATGTGATTCAAC 60.676 45.833 0.00 0.00 41.22 3.18
6317 6603 3.444742 GCACCAATGAGGATGTGATTCAA 59.555 43.478 0.00 0.00 41.22 2.69
6318 6604 3.018856 GCACCAATGAGGATGTGATTCA 58.981 45.455 0.00 0.00 41.22 2.57
6319 6605 2.360165 GGCACCAATGAGGATGTGATTC 59.640 50.000 0.00 0.00 41.22 2.52
6320 6606 2.024655 AGGCACCAATGAGGATGTGATT 60.025 45.455 0.00 0.00 41.22 2.57
6321 6607 1.567649 AGGCACCAATGAGGATGTGAT 59.432 47.619 0.00 0.00 41.22 3.06
6322 6608 0.994247 AGGCACCAATGAGGATGTGA 59.006 50.000 0.00 0.00 41.22 3.58
6323 6609 1.475280 CAAGGCACCAATGAGGATGTG 59.525 52.381 0.00 0.00 41.22 3.21
6324 6610 1.076024 ACAAGGCACCAATGAGGATGT 59.924 47.619 0.00 0.00 41.22 3.06
6325 6611 1.843368 ACAAGGCACCAATGAGGATG 58.157 50.000 0.00 0.00 41.22 3.51
6326 6612 2.578021 AGTACAAGGCACCAATGAGGAT 59.422 45.455 0.00 0.00 41.22 3.24
6327 6613 1.985159 AGTACAAGGCACCAATGAGGA 59.015 47.619 0.00 0.00 41.22 3.71
6328 6614 2.496899 AGTACAAGGCACCAATGAGG 57.503 50.000 0.00 0.00 45.67 3.86
6329 6615 3.191371 GGAAAGTACAAGGCACCAATGAG 59.809 47.826 0.00 0.00 0.00 2.90
6330 6616 3.153919 GGAAAGTACAAGGCACCAATGA 58.846 45.455 0.00 0.00 0.00 2.57
6331 6617 2.231235 GGGAAAGTACAAGGCACCAATG 59.769 50.000 0.00 0.00 0.00 2.82
6332 6618 2.158385 TGGGAAAGTACAAGGCACCAAT 60.158 45.455 0.00 0.00 0.00 3.16
6336 6622 2.271944 AGTGGGAAAGTACAAGGCAC 57.728 50.000 0.00 0.00 0.00 5.01
6343 6629 4.081322 TGTCTTGGAAGTGGGAAAGTAC 57.919 45.455 0.00 0.00 0.00 2.73
6371 6657 3.077359 CCCCTGAACAAAGTGTCATCTC 58.923 50.000 0.00 0.00 0.00 2.75
6384 6670 0.954452 CAAGTGTGAAGCCCCTGAAC 59.046 55.000 0.00 0.00 0.00 3.18
6399 6685 0.179018 AGTTCCAGGCTTTCGCAAGT 60.179 50.000 0.00 0.00 38.10 3.16
6534 6820 1.450312 CGGGCACACCTTCATCTCC 60.450 63.158 0.00 0.00 36.97 3.71
6752 7038 7.542130 ACAACAAAAGAACAACAGATCAGAAAC 59.458 33.333 0.00 0.00 0.00 2.78
6753 7039 7.601856 ACAACAAAAGAACAACAGATCAGAAA 58.398 30.769 0.00 0.00 0.00 2.52
6821 7107 3.181433 CCTAAAGTTGGGTTCCTCTTGGT 60.181 47.826 0.00 0.00 34.23 3.67
6908 7201 1.467374 CCGAATCCCGAACATTTGTGC 60.467 52.381 0.00 0.00 41.76 4.57
7038 7337 0.830444 ACGTCCTCCACTAGCAACCA 60.830 55.000 0.00 0.00 0.00 3.67
7372 7857 2.125633 GTCCTTCGGGTTCGGCTC 60.126 66.667 0.00 0.00 36.95 4.70
7604 8092 4.214383 CGCCTCATCGTGCAAGCG 62.214 66.667 0.00 0.00 37.39 4.68
7634 8122 2.866762 GTTATCACCACATCTTCTCGCC 59.133 50.000 0.00 0.00 0.00 5.54
7655 8149 2.789917 GCATCCAGCAACTCAGCG 59.210 61.111 0.00 0.00 44.79 5.18
7676 8170 3.349927 AGAACACACACCATGGATGATG 58.650 45.455 21.47 17.02 0.00 3.07
7677 8171 3.726557 AGAACACACACCATGGATGAT 57.273 42.857 21.47 5.66 0.00 2.45
7678 8172 3.148412 CAAGAACACACACCATGGATGA 58.852 45.455 21.47 0.00 0.00 2.92
7679 8173 2.886523 ACAAGAACACACACCATGGATG 59.113 45.455 21.47 18.27 0.00 3.51
7680 8174 3.228188 ACAAGAACACACACCATGGAT 57.772 42.857 21.47 2.53 0.00 3.41
7681 8175 2.727123 ACAAGAACACACACCATGGA 57.273 45.000 21.47 0.00 0.00 3.41
7682 8176 3.476552 ACTACAAGAACACACACCATGG 58.523 45.455 11.19 11.19 0.00 3.66
7717 8212 4.558226 ACAGACAATCATCCAAGCTGTA 57.442 40.909 0.00 0.00 33.78 2.74


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

AutoCloner maintained by Alex Coulton.