Multiple sequence alignment - TraesCS4D01G020300

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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 TraesCS4D01G020300 chr4D 100.000 3172 0 0 1295 4466 8777499 8780670 0.000000e+00 5858.0
1 TraesCS4D01G020300 chr4D 100.000 1045 0 0 1 1045 8776205 8777249 0.000000e+00 1930.0
2 TraesCS4D01G020300 chr4D 91.228 57 5 0 1945 2001 35478524 35478580 1.330000e-10 78.7
3 TraesCS4D01G020300 chr4B 92.465 2097 71 26 2373 4463 16387371 16389386 0.000000e+00 2916.0
4 TraesCS4D01G020300 chr4B 86.390 698 57 18 1635 2310 16386531 16387212 0.000000e+00 728.0
5 TraesCS4D01G020300 chr4B 94.839 310 11 4 1299 1604 16386223 16386531 3.120000e-131 479.0
6 TraesCS4D01G020300 chr4B 83.137 510 47 19 572 1045 16385706 16386212 3.190000e-116 429.0
7 TraesCS4D01G020300 chr4B 80.822 292 22 19 151 437 16383984 16384246 9.800000e-47 198.0
8 TraesCS4D01G020300 chr4B 91.228 57 5 0 1945 2001 51681198 51681254 1.330000e-10 78.7
9 TraesCS4D01G020300 chr4A 95.241 1849 61 12 2373 4212 594534178 594532348 0.000000e+00 2902.0
10 TraesCS4D01G020300 chr4A 89.378 1045 60 26 1295 2310 594535383 594534361 0.000000e+00 1267.0
11 TraesCS4D01G020300 chr4A 79.004 562 60 32 1 523 594536585 594536043 9.260000e-87 331.0
12 TraesCS4D01G020300 chr4A 81.384 419 33 24 665 1045 594535801 594535390 2.610000e-77 300.0
13 TraesCS4D01G020300 chr4A 90.000 60 6 0 1945 2004 567183871 567183812 1.330000e-10 78.7


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4D01G020300 chr4D 8776205 8780670 4465 False 3894 5858 100.00000 1 4466 2 chr4D.!!$F2 4465
1 TraesCS4D01G020300 chr4B 16383984 16389386 5402 False 950 2916 87.53060 151 4463 5 chr4B.!!$F2 4312
2 TraesCS4D01G020300 chr4A 594532348 594536585 4237 True 1200 2902 86.25175 1 4212 4 chr4A.!!$R2 4211

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
341 372 0.033642 GGCTCTTGCGGATAGGTACC 59.966 60.0 2.73 2.73 40.82 3.34 F
1953 3449 0.034670 GGAGCAAGATGCCCTTCACT 60.035 55.0 0.00 0.00 46.52 3.41 F
2635 4267 0.790814 GGAAGAACGCCAAAGAGACG 59.209 55.0 0.00 0.00 0.00 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2222 3727 0.037882 ATCACGTGCAGGACAGACAG 60.038 55.0 14.38 0.0 0.00 3.51 R
3102 4737 0.600057 GCTGGTTGCTTCTTTCCCAG 59.400 55.0 0.00 0.0 44.43 4.45 R
4312 5956 0.317186 CCGTACGGGCACAACAAAAC 60.317 55.0 27.00 0.0 0.00 2.43 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
59 67 2.722909 GCTAGAGCTACGCGTCGC 60.723 66.667 26.39 26.39 38.21 5.19
63 71 4.493747 GAGCTACGCGTCGCCCTT 62.494 66.667 29.27 13.60 0.00 3.95
169 193 4.122776 CAAGCATACAAGGGCACTAGTAG 58.877 47.826 0.00 0.00 0.00 2.57
170 194 2.700897 AGCATACAAGGGCACTAGTAGG 59.299 50.000 1.45 0.00 0.00 3.18
204 228 7.255590 CAGGTACTCACAAGGAAATTCATTGTT 60.256 37.037 21.28 11.39 42.83 2.83
213 237 5.883661 AGGAAATTCATTGTTGATAGCACG 58.116 37.500 0.00 0.00 0.00 5.34
214 238 5.415701 AGGAAATTCATTGTTGATAGCACGT 59.584 36.000 0.00 0.00 0.00 4.49
215 239 6.597672 AGGAAATTCATTGTTGATAGCACGTA 59.402 34.615 0.00 0.00 0.00 3.57
218 242 8.487313 AAATTCATTGTTGATAGCACGTACTA 57.513 30.769 0.00 0.00 0.00 1.82
219 243 6.880822 TTCATTGTTGATAGCACGTACTAC 57.119 37.500 0.00 0.00 0.00 2.73
229 253 1.831343 CACGTACTACCGCCATGTAC 58.169 55.000 0.00 0.00 34.80 2.90
269 297 1.275291 GCTCTGCTAGTACCACCACAA 59.725 52.381 0.00 0.00 0.00 3.33
297 328 0.532115 CAGCACCCCAACTAATTGCC 59.468 55.000 0.00 0.00 34.17 4.52
329 360 3.437795 CTGGCTTGCCGGCTCTTG 61.438 66.667 29.70 15.41 39.32 3.02
334 365 4.408821 TTGCCGGCTCTTGCGGAT 62.409 61.111 29.70 0.00 41.29 4.18
335 366 2.923426 CTTGCCGGCTCTTGCGGATA 62.923 60.000 29.70 0.00 41.29 2.59
336 367 2.663188 GCCGGCTCTTGCGGATAG 60.663 66.667 22.15 0.00 41.29 2.08
339 370 1.461091 CCGGCTCTTGCGGATAGGTA 61.461 60.000 0.00 0.00 41.29 3.08
341 372 0.033642 GGCTCTTGCGGATAGGTACC 59.966 60.000 2.73 2.73 40.82 3.34
397 429 6.982852 TCATTTCAAACGAGTACTCTCTCTT 58.017 36.000 20.34 5.70 38.45 2.85
402 434 5.411977 TCAAACGAGTACTCTCTCTTTCGAT 59.588 40.000 20.34 0.00 38.45 3.59
459 1702 9.696917 AAAAGCATGACCAACTTTATAGAAAAG 57.303 29.630 0.00 0.00 33.42 2.27
461 1705 8.273780 AGCATGACCAACTTTATAGAAAAGAG 57.726 34.615 0.00 0.00 0.00 2.85
462 1706 7.885399 AGCATGACCAACTTTATAGAAAAGAGT 59.115 33.333 0.00 0.00 0.00 3.24
466 1710 9.582431 TGACCAACTTTATAGAAAAGAGTATCG 57.418 33.333 4.59 0.00 42.67 2.92
475 1719 3.258372 AGAAAAGAGTATCGGCACTCACA 59.742 43.478 16.37 0.00 46.15 3.58
478 1722 3.170791 AGAGTATCGGCACTCACAATG 57.829 47.619 16.37 0.00 46.15 2.82
488 1732 2.658325 GCACTCACAATGCGAAATCAAC 59.342 45.455 0.00 0.00 32.45 3.18
492 1736 3.746089 TCACAATGCGAAATCAACATCG 58.254 40.909 0.00 0.00 41.81 3.84
505 1749 1.686325 AACATCGCTAGACGGGCCAT 61.686 55.000 4.39 0.00 43.89 4.40
511 1755 1.798813 CGCTAGACGGGCCATTAATTC 59.201 52.381 4.39 0.00 38.44 2.17
523 1767 7.872483 ACGGGCCATTAATTCAATTTTCATATC 59.128 33.333 4.39 0.00 0.00 1.63
524 1768 7.331687 CGGGCCATTAATTCAATTTTCATATCC 59.668 37.037 4.39 0.00 0.00 2.59
525 1769 7.331687 GGGCCATTAATTCAATTTTCATATCCG 59.668 37.037 4.39 0.00 0.00 4.18
526 1770 7.331687 GGCCATTAATTCAATTTTCATATCCGG 59.668 37.037 0.00 0.00 0.00 5.14
527 1771 8.087750 GCCATTAATTCAATTTTCATATCCGGA 58.912 33.333 6.61 6.61 0.00 5.14
528 1772 9.630098 CCATTAATTCAATTTTCATATCCGGAG 57.370 33.333 11.34 0.00 0.00 4.63
553 1797 3.695830 AAAGACTTTCATAGACGGGCA 57.304 42.857 0.00 0.00 0.00 5.36
554 1798 3.914426 AAGACTTTCATAGACGGGCAT 57.086 42.857 0.00 0.00 0.00 4.40
555 1799 3.914426 AGACTTTCATAGACGGGCATT 57.086 42.857 0.00 0.00 0.00 3.56
556 1800 3.798202 AGACTTTCATAGACGGGCATTC 58.202 45.455 0.00 0.00 0.00 2.67
558 1802 3.938963 GACTTTCATAGACGGGCATTCAA 59.061 43.478 0.00 0.00 0.00 2.69
559 1803 4.526970 ACTTTCATAGACGGGCATTCAAT 58.473 39.130 0.00 0.00 0.00 2.57
560 1804 4.949856 ACTTTCATAGACGGGCATTCAATT 59.050 37.500 0.00 0.00 0.00 2.32
562 1806 5.913137 TTCATAGACGGGCATTCAATTTT 57.087 34.783 0.00 0.00 0.00 1.82
563 1807 5.499139 TCATAGACGGGCATTCAATTTTC 57.501 39.130 0.00 0.00 0.00 2.29
567 1959 7.448161 TCATAGACGGGCATTCAATTTTCATAT 59.552 33.333 0.00 0.00 0.00 1.78
571 1966 6.042143 ACGGGCATTCAATTTTCATATTCAC 58.958 36.000 0.00 0.00 0.00 3.18
589 1987 9.318041 CATATTCACTTTTTAGTGTTCGACTTG 57.682 33.333 5.32 0.00 40.45 3.16
590 1988 5.728351 TCACTTTTTAGTGTTCGACTTGG 57.272 39.130 5.32 0.00 40.45 3.61
648 2046 1.812571 AGTACTCCGCAAAATGCTTGG 59.187 47.619 0.43 0.00 42.25 3.61
654 2052 1.332997 CCGCAAAATGCTTGGCAAAAA 59.667 42.857 0.00 0.00 43.62 1.94
656 2054 2.730069 GCAAAATGCTTGGCAAAAACC 58.270 42.857 0.00 0.00 43.62 3.27
657 2055 2.358582 GCAAAATGCTTGGCAAAAACCT 59.641 40.909 0.00 0.00 43.62 3.50
658 2056 3.563390 GCAAAATGCTTGGCAAAAACCTA 59.437 39.130 0.00 0.00 43.62 3.08
660 2058 4.687901 AAATGCTTGGCAAAAACCTAGT 57.312 36.364 0.00 0.00 43.62 2.57
662 2060 1.686052 TGCTTGGCAAAAACCTAGTGG 59.314 47.619 0.00 0.00 34.76 4.00
663 2061 1.000843 GCTTGGCAAAAACCTAGTGGG 59.999 52.381 0.00 0.00 41.89 4.61
773 2171 3.120025 TGCAGTGTAAATACGTGCCATTG 60.120 43.478 0.00 0.00 37.74 2.82
778 2176 3.445450 TGTAAATACGTGCCATTGCCATT 59.555 39.130 0.00 0.00 36.33 3.16
825 2251 1.135689 GCCACTAAAGCACCAACGATG 60.136 52.381 0.00 0.00 0.00 3.84
830 2256 3.997021 ACTAAAGCACCAACGATGAAGAG 59.003 43.478 0.00 0.00 0.00 2.85
854 2280 4.096382 AGAAAGAAAACGAGAGCAAAGCAA 59.904 37.500 0.00 0.00 0.00 3.91
855 2281 4.574599 AAGAAAACGAGAGCAAAGCAAT 57.425 36.364 0.00 0.00 0.00 3.56
856 2282 4.152607 AGAAAACGAGAGCAAAGCAATC 57.847 40.909 0.00 0.00 0.00 2.67
857 2283 2.997485 AAACGAGAGCAAAGCAATCC 57.003 45.000 0.00 0.00 0.00 3.01
858 2284 1.896220 AACGAGAGCAAAGCAATCCA 58.104 45.000 0.00 0.00 0.00 3.41
859 2285 1.896220 ACGAGAGCAAAGCAATCCAA 58.104 45.000 0.00 0.00 0.00 3.53
860 2286 2.229792 ACGAGAGCAAAGCAATCCAAA 58.770 42.857 0.00 0.00 0.00 3.28
861 2287 2.227388 ACGAGAGCAAAGCAATCCAAAG 59.773 45.455 0.00 0.00 0.00 2.77
862 2288 2.603953 GAGAGCAAAGCAATCCAAAGC 58.396 47.619 0.00 0.00 0.00 3.51
863 2289 1.965643 AGAGCAAAGCAATCCAAAGCA 59.034 42.857 0.00 0.00 0.00 3.91
871 2297 1.431496 CAATCCAAAGCAAAAGGCCG 58.569 50.000 0.00 0.00 46.50 6.13
953 2404 3.289211 TGCCTCCCCCTCCCAGTA 61.289 66.667 0.00 0.00 0.00 2.74
1468 2936 2.896443 GCTCCTCCCTCTTCCACG 59.104 66.667 0.00 0.00 0.00 4.94
1576 3051 9.949174 CCATGTTCAAAAATAAAAGGAAAAAGG 57.051 29.630 0.00 0.00 0.00 3.11
1579 3054 9.726438 TGTTCAAAAATAAAAGGAAAAAGGTCA 57.274 25.926 0.00 0.00 0.00 4.02
1610 3085 3.949754 CACTTGATGAGCTCTCTCTCTCT 59.050 47.826 16.19 0.00 40.03 3.10
1612 3087 3.929955 TGATGAGCTCTCTCTCTCTCA 57.070 47.619 16.19 2.59 40.03 3.27
1613 3088 3.544684 TGATGAGCTCTCTCTCTCTCAC 58.455 50.000 16.19 0.00 38.25 3.51
1614 3089 3.200605 TGATGAGCTCTCTCTCTCTCACT 59.799 47.826 16.19 0.00 38.25 3.41
1615 3090 3.266510 TGAGCTCTCTCTCTCTCACTC 57.733 52.381 16.19 0.00 40.03 3.51
1616 3091 2.571202 TGAGCTCTCTCTCTCTCACTCA 59.429 50.000 16.19 0.00 40.03 3.41
1627 3102 3.407698 TCTCTCACTCACTCTCACTCAC 58.592 50.000 0.00 0.00 0.00 3.51
1680 3155 3.748568 GGATTTGCTCGAATCTACCCATC 59.251 47.826 9.11 0.00 36.50 3.51
1718 3194 1.986210 GGCCAAGGCTGCTCCATTT 60.986 57.895 11.40 0.00 41.60 2.32
1824 3315 6.772716 ACGCATGGATATTTTCAAGATAAGGT 59.227 34.615 0.00 0.00 0.00 3.50
1902 3398 4.144297 TGCATCTAGGTATGGATTTTGGC 58.856 43.478 0.00 0.00 0.00 4.52
1953 3449 0.034670 GGAGCAAGATGCCCTTCACT 60.035 55.000 0.00 0.00 46.52 3.41
2029 3525 0.853586 AAAGGCCCCCATACCTTCCA 60.854 55.000 0.00 0.00 45.62 3.53
2052 3548 2.640184 CTGCTCATCTCCATCAGCAAA 58.360 47.619 0.00 0.00 41.27 3.68
2083 3579 3.462579 ACCCTCCTCCGATAGAAGTAAGA 59.537 47.826 0.00 0.00 39.76 2.10
2113 3616 5.182001 GCCAAAAACATGTACTCACATCTCT 59.818 40.000 0.00 0.00 43.73 3.10
2141 3645 6.817765 TTTTTACTGAGGTAGAAATGCAGG 57.182 37.500 0.00 0.00 30.45 4.85
2151 3655 2.226330 AGAAATGCAGGCAACGTTGTA 58.774 42.857 27.78 11.11 46.39 2.41
2161 3665 5.924254 GCAGGCAACGTTGTATGTAGATATA 59.076 40.000 27.78 0.00 46.39 0.86
2164 3668 7.652105 CAGGCAACGTTGTATGTAGATATAACT 59.348 37.037 27.78 5.34 46.39 2.24
2183 3687 2.162208 ACTTGCCTGTAAATGTGATGCG 59.838 45.455 0.00 0.00 0.00 4.73
2195 3699 5.741388 AATGTGATGCGGTAAAAGATCTC 57.259 39.130 0.00 0.00 0.00 2.75
2210 3714 9.171877 GTAAAAGATCTCTCTTGATGGAAATGT 57.828 33.333 0.00 0.00 40.93 2.71
2215 3719 5.975282 TCTCTCTTGATGGAAATGTGAGAG 58.025 41.667 9.91 9.91 44.11 3.20
2222 3727 7.604164 TCTTGATGGAAATGTGAGAGAAAGTAC 59.396 37.037 0.00 0.00 0.00 2.73
2313 3823 7.689299 TCCCCAATAAGAATACATATCACTGG 58.311 38.462 0.00 0.00 0.00 4.00
2314 3824 7.294720 TCCCCAATAAGAATACATATCACTGGT 59.705 37.037 0.00 0.00 0.00 4.00
2315 3825 7.944554 CCCCAATAAGAATACATATCACTGGTT 59.055 37.037 0.00 0.00 0.00 3.67
2366 3930 8.712285 TGTATCAAGCACAACCTTAATACTAC 57.288 34.615 0.00 0.00 30.53 2.73
2635 4267 0.790814 GGAAGAACGCCAAAGAGACG 59.209 55.000 0.00 0.00 0.00 4.18
2766 4401 5.789643 AACAGGTTTGTATGCACTGAATT 57.210 34.783 6.86 0.00 36.23 2.17
2772 4407 7.538678 CAGGTTTGTATGCACTGAATTTTAGTC 59.461 37.037 0.00 0.00 0.00 2.59
2814 4449 4.623932 TTTCACAGCTATGGAGTGACTT 57.376 40.909 3.48 0.00 41.53 3.01
2815 4450 4.623932 TTCACAGCTATGGAGTGACTTT 57.376 40.909 3.48 0.00 41.53 2.66
2864 4499 4.759183 AGGCAAAGAAACAAGCAAAAACAA 59.241 33.333 0.00 0.00 0.00 2.83
2869 4504 8.787884 GCAAAGAAACAAGCAAAAACAATTAAG 58.212 29.630 0.00 0.00 0.00 1.85
3102 4737 5.437060 TCCTCAAATACAGTATTGAAGCCC 58.563 41.667 6.57 0.00 35.31 5.19
3144 4779 0.110644 GCAGCAAGGACGTTTCTTCG 60.111 55.000 0.00 0.00 0.00 3.79
3220 4855 5.052481 TGCATAAGAATGACAAGATCGAGG 58.948 41.667 0.00 0.00 34.84 4.63
3262 4897 5.412594 TCAGTGCCATCAACTTTCTATTCAC 59.587 40.000 0.00 0.00 0.00 3.18
3478 5113 5.090652 TGAAATGTGAGTTCGCAGTAAAC 57.909 39.130 1.63 0.00 39.97 2.01
3592 5227 7.120285 TGCTTGTTCTTCTCTCCATATTTTCAG 59.880 37.037 0.00 0.00 0.00 3.02
3649 5284 3.942130 AGTGTTTAGGAATTTGGCTGC 57.058 42.857 0.00 0.00 0.00 5.25
3801 5443 5.221621 CCCATAACACCAATGGTTCTGTTTT 60.222 40.000 11.24 2.52 42.06 2.43
3818 5460 4.019858 TGTTTTGTCAATGTCCAAGACCA 58.980 39.130 0.00 0.00 0.00 4.02
3819 5461 4.142271 TGTTTTGTCAATGTCCAAGACCAC 60.142 41.667 0.00 0.00 0.00 4.16
3820 5462 3.289407 TTGTCAATGTCCAAGACCACA 57.711 42.857 0.00 0.00 0.00 4.17
3821 5463 3.507162 TGTCAATGTCCAAGACCACAT 57.493 42.857 0.00 0.00 34.58 3.21
3822 5464 3.411446 TGTCAATGTCCAAGACCACATC 58.589 45.455 0.00 0.00 31.79 3.06
3823 5465 3.181446 TGTCAATGTCCAAGACCACATCA 60.181 43.478 0.00 0.00 31.79 3.07
3824 5466 4.012374 GTCAATGTCCAAGACCACATCAT 58.988 43.478 0.00 0.00 31.79 2.45
3825 5467 4.095483 GTCAATGTCCAAGACCACATCATC 59.905 45.833 0.00 0.00 31.79 2.92
3826 5468 4.011698 CAATGTCCAAGACCACATCATCA 58.988 43.478 0.00 0.00 31.79 3.07
3827 5469 3.786368 TGTCCAAGACCACATCATCAA 57.214 42.857 0.00 0.00 0.00 2.57
3828 5470 4.097551 TGTCCAAGACCACATCATCAAA 57.902 40.909 0.00 0.00 0.00 2.69
3829 5471 4.468713 TGTCCAAGACCACATCATCAAAA 58.531 39.130 0.00 0.00 0.00 2.44
3830 5472 4.892345 TGTCCAAGACCACATCATCAAAAA 59.108 37.500 0.00 0.00 0.00 1.94
3831 5473 5.221224 TGTCCAAGACCACATCATCAAAAAC 60.221 40.000 0.00 0.00 0.00 2.43
3832 5474 4.280677 TCCAAGACCACATCATCAAAAACC 59.719 41.667 0.00 0.00 0.00 3.27
3839 5481 7.888021 AGACCACATCATCAAAAACCATAACTA 59.112 33.333 0.00 0.00 0.00 2.24
3924 5566 5.766150 TTCAAATCGTCCTGACAAACATT 57.234 34.783 0.00 0.00 0.00 2.71
3930 5572 2.810400 CGTCCTGACAAACATTGAGGGT 60.810 50.000 0.00 0.00 0.00 4.34
3964 5606 1.873591 AGCCTTGAACAACTTACTGCG 59.126 47.619 0.00 0.00 0.00 5.18
4014 5656 9.396022 AGTACAATTATACAGTCAATTTCTGGG 57.604 33.333 10.79 0.00 37.25 4.45
4020 5662 8.561738 TTATACAGTCAATTTCTGGGAACTTC 57.438 34.615 10.79 0.00 37.25 3.01
4028 5670 9.566432 GTCAATTTCTGGGAACTTCTATCATAT 57.434 33.333 0.00 0.00 0.00 1.78
4191 5835 7.121315 CAGAGATACGTATCAATAGGACATCCA 59.879 40.741 31.52 0.00 35.26 3.41
4192 5836 7.670140 AGAGATACGTATCAATAGGACATCCAA 59.330 37.037 31.52 0.00 35.26 3.53
4225 5869 6.390048 ACAGTATCCAGCTAGCTACCTATA 57.610 41.667 18.86 9.78 0.00 1.31
4231 5875 3.759618 CCAGCTAGCTACCTATACAGGAC 59.240 52.174 18.86 0.00 45.91 3.85
4232 5876 3.437395 CAGCTAGCTACCTATACAGGACG 59.563 52.174 18.86 0.00 45.91 4.79
4233 5877 3.327172 AGCTAGCTACCTATACAGGACGA 59.673 47.826 17.69 0.00 45.91 4.20
4242 5886 5.632118 ACCTATACAGGACGATCATACAGT 58.368 41.667 0.00 0.00 45.91 3.55
4248 5892 4.133820 CAGGACGATCATACAGTCTCTCT 58.866 47.826 0.00 0.00 35.42 3.10
4257 5901 0.616111 ACAGTCTCTCTTGGGCCGAT 60.616 55.000 0.00 0.00 0.00 4.18
4265 5909 2.503765 TCTCTTGGGCCGATGTTATTCA 59.496 45.455 0.00 0.00 0.00 2.57
4329 5974 2.563471 TTGTTTTGTTGTGCCCGTAC 57.437 45.000 0.00 0.00 0.00 3.67
4341 5986 2.286025 GTGCCCGTACGGAAATATCAAC 59.714 50.000 35.41 15.84 37.50 3.18
4351 5996 6.598753 ACGGAAATATCAACCATAAGAACG 57.401 37.500 0.00 0.00 0.00 3.95
4364 6009 7.921786 ACCATAAGAACGATTTTGATCTCAA 57.078 32.000 0.00 0.00 0.00 3.02
4398 6043 9.878667 TGAAAATGCAAAGTGAATATGATGAAT 57.121 25.926 0.00 0.00 0.00 2.57
4449 6094 7.490079 TGCAAATGCATGAGAATCAAGAAATAC 59.510 33.333 0.00 0.00 45.06 1.89
4463 6108 8.877864 ATCAAGAAATACACAGGGTTGAAATA 57.122 30.769 0.00 0.00 0.00 1.40
4464 6109 8.698973 TCAAGAAATACACAGGGTTGAAATAA 57.301 30.769 0.00 0.00 0.00 1.40
4465 6110 8.792633 TCAAGAAATACACAGGGTTGAAATAAG 58.207 33.333 0.00 0.00 0.00 1.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 3.359950 CATTCTTTCCCTAGGCTTGCTT 58.640 45.455 2.05 0.00 0.00 3.91
49 57 0.248743 TAATGAAGGGCGACGCGTAG 60.249 55.000 13.97 14.84 0.00 3.51
50 58 0.173029 TTAATGAAGGGCGACGCGTA 59.827 50.000 13.97 0.00 0.00 4.42
51 59 1.079681 TTAATGAAGGGCGACGCGT 60.080 52.632 13.85 13.85 0.00 6.01
52 60 1.347221 GTTAATGAAGGGCGACGCG 59.653 57.895 14.61 3.53 0.00 6.01
59 67 1.822186 CCCGGGCGTTAATGAAGGG 60.822 63.158 8.08 3.69 0.00 3.95
169 193 3.343941 TGTGAGTACCTGCAATTACCC 57.656 47.619 0.00 0.00 0.00 3.69
170 194 3.689649 CCTTGTGAGTACCTGCAATTACC 59.310 47.826 0.00 0.00 0.00 2.85
204 228 0.664761 GGCGGTAGTACGTGCTATCA 59.335 55.000 21.56 0.00 35.98 2.15
205 229 0.664761 TGGCGGTAGTACGTGCTATC 59.335 55.000 16.59 14.93 35.98 2.08
206 230 1.000607 CATGGCGGTAGTACGTGCTAT 60.001 52.381 16.59 11.16 35.98 2.97
209 233 0.101040 TACATGGCGGTAGTACGTGC 59.899 55.000 0.00 0.00 35.98 5.34
211 235 1.755179 AGTACATGGCGGTAGTACGT 58.245 50.000 0.00 0.00 42.12 3.57
213 237 4.279169 TCCATAAGTACATGGCGGTAGTAC 59.721 45.833 7.25 0.00 44.47 2.73
214 238 4.472496 TCCATAAGTACATGGCGGTAGTA 58.528 43.478 7.25 0.00 44.47 1.82
215 239 3.302161 TCCATAAGTACATGGCGGTAGT 58.698 45.455 7.25 0.00 44.47 2.73
218 242 3.740115 GATTCCATAAGTACATGGCGGT 58.260 45.455 7.25 0.00 44.47 5.68
219 243 2.736721 CGATTCCATAAGTACATGGCGG 59.263 50.000 7.25 0.00 44.47 6.13
229 253 3.047796 GCAAGCAATGCGATTCCATAAG 58.952 45.455 0.00 0.00 46.87 1.73
269 297 2.709397 AGTTGGGGTGCTGTAGTAACTT 59.291 45.455 0.00 0.00 0.00 2.66
318 349 3.445518 CTATCCGCAAGAGCCGGCA 62.446 63.158 31.54 4.96 43.02 5.69
319 350 2.663188 CTATCCGCAAGAGCCGGC 60.663 66.667 21.89 21.89 43.02 6.13
320 351 1.461091 TACCTATCCGCAAGAGCCGG 61.461 60.000 0.00 0.00 43.02 6.13
321 352 0.318784 GTACCTATCCGCAAGAGCCG 60.319 60.000 0.00 0.00 43.02 5.52
322 353 0.033642 GGTACCTATCCGCAAGAGCC 59.966 60.000 4.06 0.00 43.02 4.70
324 355 1.754803 TGTGGTACCTATCCGCAAGAG 59.245 52.381 14.36 0.00 41.60 2.85
325 356 1.855295 TGTGGTACCTATCCGCAAGA 58.145 50.000 14.36 0.00 41.60 3.02
326 357 2.684001 TTGTGGTACCTATCCGCAAG 57.316 50.000 14.36 0.00 46.21 4.01
328 359 1.563924 ACTTGTGGTACCTATCCGCA 58.436 50.000 14.36 0.00 42.62 5.69
329 360 3.089573 GTACTTGTGGTACCTATCCGC 57.910 52.381 14.36 0.00 43.53 5.54
339 370 5.669164 AAAATGTTGGTTGTACTTGTGGT 57.331 34.783 0.00 0.00 0.00 4.16
376 408 5.913514 CGAAAGAGAGAGTACTCGTTTGAAA 59.086 40.000 17.07 0.00 46.64 2.69
377 409 5.237996 TCGAAAGAGAGAGTACTCGTTTGAA 59.762 40.000 17.07 4.31 46.64 2.69
378 410 4.753610 TCGAAAGAGAGAGTACTCGTTTGA 59.246 41.667 17.07 12.67 46.64 2.69
379 411 5.032100 TCGAAAGAGAGAGTACTCGTTTG 57.968 43.478 17.07 10.89 46.64 2.93
416 464 4.651503 TGCTTTTTATGGGGTTTGACTTCA 59.348 37.500 0.00 0.00 0.00 3.02
427 475 4.806640 AGTTGGTCATGCTTTTTATGGG 57.193 40.909 0.00 0.00 0.00 4.00
459 1702 1.594862 GCATTGTGAGTGCCGATACTC 59.405 52.381 10.83 10.83 45.71 2.59
461 1705 0.301687 CGCATTGTGAGTGCCGATAC 59.698 55.000 0.00 0.00 39.39 2.24
462 1706 0.174617 TCGCATTGTGAGTGCCGATA 59.825 50.000 0.00 0.00 39.39 2.92
466 1710 1.199789 TGATTTCGCATTGTGAGTGCC 59.800 47.619 0.00 0.00 39.39 5.01
488 1732 0.317160 TAATGGCCCGTCTAGCGATG 59.683 55.000 0.00 1.40 44.77 3.84
492 1736 2.846193 TGAATTAATGGCCCGTCTAGC 58.154 47.619 0.00 0.00 0.00 3.42
531 1775 4.394729 TGCCCGTCTATGAAAGTCTTTTT 58.605 39.130 0.00 0.00 0.00 1.94
532 1776 4.015872 TGCCCGTCTATGAAAGTCTTTT 57.984 40.909 0.00 0.00 0.00 2.27
533 1777 3.695830 TGCCCGTCTATGAAAGTCTTT 57.304 42.857 0.00 0.00 0.00 2.52
534 1778 3.914426 ATGCCCGTCTATGAAAGTCTT 57.086 42.857 0.00 0.00 0.00 3.01
535 1779 3.197766 TGAATGCCCGTCTATGAAAGTCT 59.802 43.478 0.00 0.00 0.00 3.24
536 1780 3.531538 TGAATGCCCGTCTATGAAAGTC 58.468 45.455 0.00 0.00 0.00 3.01
537 1781 3.627395 TGAATGCCCGTCTATGAAAGT 57.373 42.857 0.00 0.00 0.00 2.66
538 1782 5.505173 AATTGAATGCCCGTCTATGAAAG 57.495 39.130 0.00 0.00 0.00 2.62
539 1783 5.913137 AAATTGAATGCCCGTCTATGAAA 57.087 34.783 0.00 0.00 0.00 2.69
540 1784 5.417266 TGAAAATTGAATGCCCGTCTATGAA 59.583 36.000 0.00 0.00 0.00 2.57
541 1785 4.946772 TGAAAATTGAATGCCCGTCTATGA 59.053 37.500 0.00 0.00 0.00 2.15
543 1787 7.765695 ATATGAAAATTGAATGCCCGTCTAT 57.234 32.000 0.00 0.00 0.00 1.98
545 1789 6.096705 TGAATATGAAAATTGAATGCCCGTCT 59.903 34.615 0.00 0.00 0.00 4.18
546 1790 6.198966 GTGAATATGAAAATTGAATGCCCGTC 59.801 38.462 0.00 0.00 0.00 4.79
547 1791 6.042143 GTGAATATGAAAATTGAATGCCCGT 58.958 36.000 0.00 0.00 0.00 5.28
560 1804 9.872757 GTCGAACACTAAAAAGTGAATATGAAA 57.127 29.630 12.23 0.00 42.02 2.69
562 1806 8.827177 AGTCGAACACTAAAAAGTGAATATGA 57.173 30.769 12.23 0.95 42.02 2.15
563 1807 9.318041 CAAGTCGAACACTAAAAAGTGAATATG 57.682 33.333 12.23 0.00 42.02 1.78
567 1959 5.065474 CCCAAGTCGAACACTAAAAAGTGAA 59.935 40.000 12.23 0.00 42.02 3.18
571 1966 4.573201 TGTCCCAAGTCGAACACTAAAAAG 59.427 41.667 0.00 0.00 32.30 2.27
577 1972 2.702592 TTTGTCCCAAGTCGAACACT 57.297 45.000 0.00 0.00 36.64 3.55
589 1987 5.470047 ACTCCGTCTATGATATTTGTCCC 57.530 43.478 0.00 0.00 0.00 4.46
590 1988 8.882415 TTTTACTCCGTCTATGATATTTGTCC 57.118 34.615 0.00 0.00 0.00 4.02
617 2015 1.614160 GGAGTACTCCCTCCGGTCT 59.386 63.158 28.87 0.00 43.94 3.85
636 2034 2.358582 AGGTTTTTGCCAAGCATTTTGC 59.641 40.909 0.00 0.00 45.46 3.68
637 2035 4.815846 ACTAGGTTTTTGCCAAGCATTTTG 59.184 37.500 0.00 0.00 38.76 2.44
638 2036 4.815846 CACTAGGTTTTTGCCAAGCATTTT 59.184 37.500 0.00 0.00 38.76 1.82
648 2046 4.953579 TGATATTCCCCACTAGGTTTTTGC 59.046 41.667 0.00 0.00 0.00 3.68
654 2052 2.706190 GTGCTGATATTCCCCACTAGGT 59.294 50.000 0.00 0.00 0.00 3.08
656 2054 3.389329 ACAGTGCTGATATTCCCCACTAG 59.611 47.826 6.17 0.00 35.20 2.57
657 2055 3.384168 ACAGTGCTGATATTCCCCACTA 58.616 45.455 6.17 0.00 35.20 2.74
658 2056 2.200081 ACAGTGCTGATATTCCCCACT 58.800 47.619 6.17 0.00 37.24 4.00
660 2058 3.384168 AGTACAGTGCTGATATTCCCCA 58.616 45.455 6.17 0.00 0.00 4.96
662 2060 4.141711 TGGAAGTACAGTGCTGATATTCCC 60.142 45.833 20.08 10.40 37.63 3.97
663 2061 5.023533 TGGAAGTACAGTGCTGATATTCC 57.976 43.478 18.05 18.05 38.23 3.01
773 2171 0.175531 GTGGTGGTAATGGCAATGGC 59.824 55.000 0.00 0.00 40.13 4.40
778 2176 1.376683 GCGAGTGGTGGTAATGGCA 60.377 57.895 0.00 0.00 0.00 4.92
810 2209 4.021456 TCTCTCTTCATCGTTGGTGCTTTA 60.021 41.667 0.00 0.00 0.00 1.85
825 2251 4.985409 TGCTCTCGTTTTCTTTCTCTCTTC 59.015 41.667 0.00 0.00 0.00 2.87
830 2256 4.215201 GCTTTGCTCTCGTTTTCTTTCTC 58.785 43.478 0.00 0.00 0.00 2.87
854 2280 1.293179 GCGGCCTTTTGCTTTGGAT 59.707 52.632 0.00 0.00 40.92 3.41
855 2281 2.086251 CTGCGGCCTTTTGCTTTGGA 62.086 55.000 0.00 0.00 40.92 3.53
856 2282 1.665599 CTGCGGCCTTTTGCTTTGG 60.666 57.895 0.00 0.00 40.92 3.28
857 2283 1.067916 ACTGCGGCCTTTTGCTTTG 59.932 52.632 0.00 0.00 40.92 2.77
858 2284 1.067916 CACTGCGGCCTTTTGCTTT 59.932 52.632 0.00 0.00 40.92 3.51
859 2285 1.391157 TTCACTGCGGCCTTTTGCTT 61.391 50.000 0.00 0.00 40.92 3.91
860 2286 1.391157 TTTCACTGCGGCCTTTTGCT 61.391 50.000 0.00 0.00 40.92 3.91
861 2287 0.529555 TTTTCACTGCGGCCTTTTGC 60.530 50.000 0.00 0.00 40.16 3.68
862 2288 1.066908 TCTTTTCACTGCGGCCTTTTG 59.933 47.619 0.00 0.00 0.00 2.44
863 2289 1.067060 GTCTTTTCACTGCGGCCTTTT 59.933 47.619 0.00 0.00 0.00 2.27
871 2297 1.166531 ACGGCCTGTCTTTTCACTGC 61.167 55.000 0.00 0.00 0.00 4.40
951 2402 0.543749 ATTGCTGGAGCTGGAGGTAC 59.456 55.000 0.00 0.00 42.66 3.34
953 2404 1.302285 CATTGCTGGAGCTGGAGGT 59.698 57.895 0.00 0.00 42.66 3.85
1468 2936 5.331087 GCGAAGATCATGCGAAAAATAAAGC 60.331 40.000 0.00 0.00 0.00 3.51
1576 3051 2.294233 TCATCAAGTGCTGGCTTTTGAC 59.706 45.455 11.92 0.00 32.90 3.18
1577 3052 2.555325 CTCATCAAGTGCTGGCTTTTGA 59.445 45.455 12.02 12.02 34.42 2.69
1578 3053 2.925306 GCTCATCAAGTGCTGGCTTTTG 60.925 50.000 0.00 0.00 34.02 2.44
1579 3054 1.271656 GCTCATCAAGTGCTGGCTTTT 59.728 47.619 0.00 0.00 34.02 2.27
1583 3058 0.392729 AGAGCTCATCAAGTGCTGGC 60.393 55.000 17.77 0.00 46.35 4.85
1584 3059 1.207570 AGAGAGCTCATCAAGTGCTGG 59.792 52.381 17.77 0.00 46.35 4.85
1610 3085 2.234143 CTGGTGAGTGAGAGTGAGTGA 58.766 52.381 0.00 0.00 0.00 3.41
1612 3087 0.965439 GCTGGTGAGTGAGAGTGAGT 59.035 55.000 0.00 0.00 0.00 3.41
1613 3088 0.109365 CGCTGGTGAGTGAGAGTGAG 60.109 60.000 0.00 0.00 0.00 3.51
1614 3089 1.959848 CGCTGGTGAGTGAGAGTGA 59.040 57.895 0.00 0.00 0.00 3.41
1615 3090 1.735920 GCGCTGGTGAGTGAGAGTG 60.736 63.158 0.00 0.00 0.00 3.51
1616 3091 2.653702 GCGCTGGTGAGTGAGAGT 59.346 61.111 0.00 0.00 0.00 3.24
1645 3120 1.045407 CAAATCCCCATGGCCATGAG 58.955 55.000 41.32 31.29 41.20 2.90
1700 3176 1.953231 GAAATGGAGCAGCCTTGGCC 61.953 60.000 8.17 0.00 37.63 5.36
1718 3194 8.796475 AGATAAAGCAGTAAAAAGAAGCAATGA 58.204 29.630 0.00 0.00 0.00 2.57
1796 3282 8.669946 TTATCTTGAAAATATCCATGCGTGTA 57.330 30.769 4.96 0.00 0.00 2.90
1798 3284 7.080099 CCTTATCTTGAAAATATCCATGCGTG 58.920 38.462 0.00 0.00 0.00 5.34
1902 3398 0.747283 GCCTCTGCTCATTGGACCTG 60.747 60.000 0.00 0.00 33.53 4.00
1953 3449 0.615331 GCTCCATCCACTGTGAAGGA 59.385 55.000 9.86 11.73 38.50 3.36
2029 3525 0.759959 CTGATGGAGATGAGCAGGCT 59.240 55.000 0.00 0.00 0.00 4.58
2052 3548 1.261238 CGGAGGAGGGTCTGAAGCTT 61.261 60.000 0.00 0.00 0.00 3.74
2083 3579 4.832266 TGAGTACATGTTTTTGGCAGGATT 59.168 37.500 2.30 0.00 0.00 3.01
2141 3645 7.792508 GCAAGTTATATCTACATACAACGTTGC 59.207 37.037 27.61 3.91 33.68 4.17
2161 3665 3.366273 CGCATCACATTTACAGGCAAGTT 60.366 43.478 0.00 0.00 0.00 2.66
2164 3668 1.472082 CCGCATCACATTTACAGGCAA 59.528 47.619 0.00 0.00 0.00 4.52
2183 3687 8.619546 CATTTCCATCAAGAGAGATCTTTTACC 58.380 37.037 0.00 0.00 0.00 2.85
2195 3699 6.654161 ACTTTCTCTCACATTTCCATCAAGAG 59.346 38.462 0.00 0.00 0.00 2.85
2210 3714 4.520874 CAGGACAGACAGTACTTTCTCTCA 59.479 45.833 14.01 0.00 38.68 3.27
2215 3719 3.060602 GTGCAGGACAGACAGTACTTTC 58.939 50.000 0.47 0.47 38.68 2.62
2222 3727 0.037882 ATCACGTGCAGGACAGACAG 60.038 55.000 14.38 0.00 0.00 3.51
2289 3799 7.461749 ACCAGTGATATGTATTCTTATTGGGG 58.538 38.462 0.00 0.00 0.00 4.96
2307 3817 9.967451 TTGTTTGGAATATATTCTAACCAGTGA 57.033 29.630 20.26 5.99 37.06 3.41
2309 3819 9.975218 ACTTGTTTGGAATATATTCTAACCAGT 57.025 29.630 24.84 24.84 37.06 4.00
2323 3833 9.912634 CTTGATACATGTTAACTTGTTTGGAAT 57.087 29.630 26.38 16.14 36.02 3.01
2324 3834 7.865385 GCTTGATACATGTTAACTTGTTTGGAA 59.135 33.333 26.38 12.71 36.02 3.53
2325 3835 7.013750 TGCTTGATACATGTTAACTTGTTTGGA 59.986 33.333 26.38 13.03 36.02 3.53
2330 3892 6.875948 TGTGCTTGATACATGTTAACTTGT 57.124 33.333 25.07 25.07 37.83 3.16
2382 4014 5.879777 TGCTCTGCTTGCATTTATAGTTGTA 59.120 36.000 0.00 0.00 35.31 2.41
2384 4016 5.239359 TGCTCTGCTTGCATTTATAGTTG 57.761 39.130 0.00 0.00 35.31 3.16
2869 4504 8.682128 TCGAAATTATGACCTTGCAATAAAAC 57.318 30.769 0.00 0.00 0.00 2.43
3102 4737 0.600057 GCTGGTTGCTTCTTTCCCAG 59.400 55.000 0.00 0.00 44.43 4.45
3144 4779 2.296480 GCGATCATGGAGCGTCGTC 61.296 63.158 5.76 0.00 43.63 4.20
3220 4855 4.443394 CACTGAAGCATTGTTTTTCTGAGC 59.557 41.667 0.00 0.00 0.00 4.26
3275 4910 0.824595 TGCAAGGCAGCTGATGTGTT 60.825 50.000 20.43 0.00 33.32 3.32
3499 5134 4.559153 CATTGTTCCCTTCCATGTTGAAC 58.441 43.478 0.00 0.00 36.67 3.18
3504 5139 2.173519 CAGCATTGTTCCCTTCCATGT 58.826 47.619 0.00 0.00 0.00 3.21
3592 5227 9.654663 ACTACTGGATATTACAAAACAGAAGAC 57.345 33.333 0.00 0.00 0.00 3.01
3649 5284 7.472334 AGGCAAGCCATAATATTTTAGGATG 57.528 36.000 14.40 0.00 38.92 3.51
3689 5324 7.683437 AGTTTACCTGTTAAAAGATGTAGCC 57.317 36.000 0.00 0.00 31.22 3.93
3766 5408 7.015098 CCATTGGTGTTATGGGCTCAAATAATA 59.985 37.037 0.00 0.00 39.11 0.98
3801 5443 3.181446 TGATGTGGTCTTGGACATTGACA 60.181 43.478 0.00 0.00 32.85 3.58
3818 5460 7.701539 TGCTAGTTATGGTTTTTGATGATGT 57.298 32.000 0.00 0.00 0.00 3.06
3819 5461 8.246180 AGTTGCTAGTTATGGTTTTTGATGATG 58.754 33.333 0.00 0.00 0.00 3.07
3820 5462 8.353423 AGTTGCTAGTTATGGTTTTTGATGAT 57.647 30.769 0.00 0.00 0.00 2.45
3821 5463 7.665559 AGAGTTGCTAGTTATGGTTTTTGATGA 59.334 33.333 0.00 0.00 0.00 2.92
3822 5464 7.820648 AGAGTTGCTAGTTATGGTTTTTGATG 58.179 34.615 0.00 0.00 0.00 3.07
3823 5465 8.409358 AAGAGTTGCTAGTTATGGTTTTTGAT 57.591 30.769 0.00 0.00 0.00 2.57
3824 5466 7.500892 TGAAGAGTTGCTAGTTATGGTTTTTGA 59.499 33.333 0.00 0.00 0.00 2.69
3825 5467 7.648142 TGAAGAGTTGCTAGTTATGGTTTTTG 58.352 34.615 0.00 0.00 0.00 2.44
3826 5468 7.719633 TCTGAAGAGTTGCTAGTTATGGTTTTT 59.280 33.333 0.00 0.00 0.00 1.94
3827 5469 7.224297 TCTGAAGAGTTGCTAGTTATGGTTTT 58.776 34.615 0.00 0.00 0.00 2.43
3828 5470 6.769512 TCTGAAGAGTTGCTAGTTATGGTTT 58.230 36.000 0.00 0.00 0.00 3.27
3829 5471 6.360370 TCTGAAGAGTTGCTAGTTATGGTT 57.640 37.500 0.00 0.00 0.00 3.67
3830 5472 6.360370 TTCTGAAGAGTTGCTAGTTATGGT 57.640 37.500 0.00 0.00 0.00 3.55
3831 5473 5.814705 CCTTCTGAAGAGTTGCTAGTTATGG 59.185 44.000 18.68 0.00 0.00 2.74
3832 5474 6.634805 TCCTTCTGAAGAGTTGCTAGTTATG 58.365 40.000 18.68 0.00 0.00 1.90
3839 5481 5.869579 TGTTATTCCTTCTGAAGAGTTGCT 58.130 37.500 18.68 0.61 36.14 3.91
3924 5566 4.016444 GCTTGATAACCAAATGACCCTCA 58.984 43.478 0.00 0.00 33.76 3.86
3930 5572 5.538053 TGTTCAAGGCTTGATAACCAAATGA 59.462 36.000 28.98 8.69 39.84 2.57
3964 5606 4.532834 TGATTACTGGGCTCATTTAACCC 58.467 43.478 0.00 0.00 44.52 4.11
4028 5670 9.605275 CAGAGATGATAAACTGTCCTCATAAAA 57.395 33.333 0.00 0.00 0.00 1.52
4032 5674 5.664908 ACCAGAGATGATAAACTGTCCTCAT 59.335 40.000 0.00 0.94 0.00 2.90
4125 5769 5.430886 TGTATCAATCCTGTCCTGAACATG 58.569 41.667 0.00 0.00 37.23 3.21
4191 5835 6.552445 AGCTGGATACTGTTCTTATCTGTT 57.448 37.500 0.00 0.00 37.92 3.16
4192 5836 6.239176 GCTAGCTGGATACTGTTCTTATCTGT 60.239 42.308 7.70 0.00 37.92 3.41
4225 5869 3.880490 GAGAGACTGTATGATCGTCCTGT 59.120 47.826 0.00 0.00 0.00 4.00
4231 5875 3.551863 GCCCAAGAGAGACTGTATGATCG 60.552 52.174 0.00 0.00 0.00 3.69
4232 5876 3.244044 GGCCCAAGAGAGACTGTATGATC 60.244 52.174 0.00 0.00 0.00 2.92
4233 5877 2.703007 GGCCCAAGAGAGACTGTATGAT 59.297 50.000 0.00 0.00 0.00 2.45
4242 5886 1.860641 TAACATCGGCCCAAGAGAGA 58.139 50.000 0.00 0.00 0.00 3.10
4248 5892 5.174395 CAAAATTGAATAACATCGGCCCAA 58.826 37.500 0.00 0.00 0.00 4.12
4257 5901 7.495901 TGAGAAACTGGCAAAATTGAATAACA 58.504 30.769 0.00 0.00 0.00 2.41
4265 5909 7.332678 GCTTCATAATGAGAAACTGGCAAAATT 59.667 33.333 0.00 0.00 0.00 1.82
4306 5950 1.472376 CGGGCACAACAAAACAATGGT 60.472 47.619 0.00 0.00 0.00 3.55
4309 5953 2.541999 CGTACGGGCACAACAAAACAAT 60.542 45.455 7.57 0.00 0.00 2.71
4312 5956 0.317186 CCGTACGGGCACAACAAAAC 60.317 55.000 27.00 0.00 0.00 2.43
4314 5958 0.463295 TTCCGTACGGGCACAACAAA 60.463 50.000 32.80 15.04 34.94 2.83
4317 5961 1.724429 TATTTCCGTACGGGCACAAC 58.276 50.000 32.80 0.00 34.94 3.32
4329 5974 6.838198 TCGTTCTTATGGTTGATATTTCCG 57.162 37.500 0.00 0.00 0.00 4.30
4341 5986 8.615211 TGATTGAGATCAAAATCGTTCTTATGG 58.385 33.333 12.91 0.00 39.29 2.74
4351 5996 8.975410 TTTCATGTGTGATTGAGATCAAAATC 57.025 30.769 11.53 11.53 43.58 2.17
4364 6009 5.845103 TCACTTTGCATTTTCATGTGTGAT 58.155 33.333 0.00 0.00 33.56 3.06
4398 6043 9.716531 CAAACTAGATTAGGCAGATATGATCAA 57.283 33.333 0.00 0.00 0.00 2.57
4409 6054 4.997565 GCATTTGCAAACTAGATTAGGCA 58.002 39.130 15.41 0.00 41.59 4.75


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

AutoCloner maintained by Alex Coulton.