Multiple sequence alignment - TraesCS3A01G523900

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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 TraesCS3A01G523900 chr3A 100.000 6499 0 0 1 6499 739151922 739158420 0.000000e+00 12002.0
1 TraesCS3A01G523900 chr3A 84.295 312 34 11 1651 1952 739153266 739153572 2.290000e-74 291.0
2 TraesCS3A01G523900 chr3A 84.295 312 34 11 1345 1651 739153572 739153873 2.290000e-74 291.0
3 TraesCS3A01G523900 chr3A 79.528 127 12 9 5907 6021 739157706 739157830 1.940000e-10 78.7
4 TraesCS3A01G523900 chr3A 79.528 127 12 9 5785 5909 739157828 739157942 1.940000e-10 78.7
5 TraesCS3A01G523900 chr3D 92.543 4774 197 63 208 4869 606889416 606894142 0.000000e+00 6697.0
6 TraesCS3A01G523900 chr3D 89.937 1431 84 18 5065 6448 606894437 606895854 0.000000e+00 1790.0
7 TraesCS3A01G523900 chr3D 88.065 310 28 7 1345 1651 606890916 606891219 6.200000e-95 359.0
8 TraesCS3A01G523900 chr3D 85.714 315 27 11 1651 1952 606890607 606890916 3.780000e-82 316.0
9 TraesCS3A01G523900 chr3D 92.000 150 12 0 1 150 606889137 606889286 1.840000e-50 211.0
10 TraesCS3A01G523900 chr3D 83.796 216 17 5 4868 5065 606894183 606894398 8.600000e-44 189.0
11 TraesCS3A01G523900 chr3D 85.806 155 20 2 5512 5666 606895565 606895717 5.210000e-36 163.0
12 TraesCS3A01G523900 chrUn 94.968 4094 142 27 1651 5719 42599411 42603465 0.000000e+00 6360.0
13 TraesCS3A01G523900 chrUn 85.640 1734 137 57 1 1651 42598010 42599714 0.000000e+00 1720.0
14 TraesCS3A01G523900 chrUn 89.651 773 44 16 5761 6497 42603475 42604247 0.000000e+00 952.0
15 TraesCS3A01G523900 chrUn 81.410 156 19 6 5512 5666 42603914 42604060 1.140000e-22 119.0
16 TraesCS3A01G523900 chr2D 100.000 36 0 0 5250 5285 59378499 59378534 4.210000e-07 67.6
17 TraesCS3A01G523900 chr6D 100.000 33 0 0 5253 5285 19283227 19283195 1.960000e-05 62.1
18 TraesCS3A01G523900 chr5D 97.143 35 1 0 5251 5285 471218085 471218119 7.040000e-05 60.2
19 TraesCS3A01G523900 chr7D 100.000 28 0 0 5259 5286 501837736 501837763 1.200000e-02 52.8


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 TraesCS3A01G523900 chr3A 739151922 739158420 6498 False 12002.000000 12002 100.000000 1 6499 1 chr3A.!!$F1 6498
1 TraesCS3A01G523900 chr3D 606889137 606895854 6717 False 1389.285714 6697 88.265857 1 6448 7 chr3D.!!$F1 6447
2 TraesCS3A01G523900 chrUn 42598010 42604247 6237 False 2287.750000 6360 87.917250 1 6497 4 chrUn.!!$F1 6496

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
127 128 0.103208 GGGAGATCAGCACCTGTACG 59.897 60.000 0.00 0.00 32.61 3.67 F
281 391 0.818296 AACAAGACTATCGGAGCGCT 59.182 50.000 11.27 11.27 0.00 5.92 F
1308 1563 0.040058 TGGGCTGATTTGGTGCTGAT 59.960 50.000 0.00 0.00 0.00 2.90 F
1309 1564 0.458669 GGGCTGATTTGGTGCTGATG 59.541 55.000 0.00 0.00 0.00 3.07 F
1311 1566 1.133790 GGCTGATTTGGTGCTGATGAC 59.866 52.381 0.00 0.00 0.00 3.06 F
1964 2245 1.269448 CTGTCGGTGTTGATTTTGGGG 59.731 52.381 0.00 0.00 0.00 4.96 F
1966 2247 2.158652 TGTCGGTGTTGATTTTGGGGTA 60.159 45.455 0.00 0.00 0.00 3.69 F
3020 3318 2.371179 CACTCCTGGCATGGTGATAGAT 59.629 50.000 10.59 0.00 32.12 1.98 F
4384 4683 1.120530 ACAAGGCGGGGTATACTGAG 58.879 55.000 2.25 0.00 0.00 3.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1190 1399 0.108709 CAAATGGCATCACCCAACGG 60.109 55.000 0.00 0.00 38.61 4.44 R
1346 1619 0.249489 ACGGCGGCATAGAGACATTC 60.249 55.000 13.24 0.00 0.00 2.67 R
2999 3283 1.764723 TCTATCACCATGCCAGGAGTG 59.235 52.381 0.00 0.00 0.00 3.51 R
3000 3284 2.180946 TCTATCACCATGCCAGGAGT 57.819 50.000 0.00 0.00 0.00 3.85 R
3001 3285 4.285517 ACTTATCTATCACCATGCCAGGAG 59.714 45.833 0.00 0.00 0.00 3.69 R
3750 4049 0.615544 CCCACCAACTGCCATGGAAT 60.616 55.000 18.40 0.00 40.56 3.01 R
3952 4251 4.891260 TCATATAATCACAGCAGGCAGAG 58.109 43.478 0.00 0.00 0.00 3.35 R
4623 4922 0.031817 ATTCCTGGATGCAAAGGGGG 60.032 55.000 12.16 2.47 34.08 5.40 R
5741 6150 0.317269 CGAGCACAACAAAGGCACAG 60.317 55.000 0.00 0.00 0.00 3.66 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
40 41 7.254932 GCTGAGTAACCAAAGCCTATGATTAAG 60.255 40.741 0.00 0.00 0.00 1.85
73 74 3.819337 CCCGAATCTGATGCATGAAGAAT 59.181 43.478 2.46 0.00 0.00 2.40
74 75 4.277672 CCCGAATCTGATGCATGAAGAATT 59.722 41.667 2.46 4.03 0.00 2.17
117 118 8.368668 ACCTATAATCGTTTTTAGGGAGATCAG 58.631 37.037 20.20 1.60 39.52 2.90
127 128 0.103208 GGGAGATCAGCACCTGTACG 59.897 60.000 0.00 0.00 32.61 3.67
159 268 6.377912 ACTGATACAGGCTAGATAAGAAGGT 58.622 40.000 0.00 0.00 35.51 3.50
221 331 7.174772 AGCATATGAATTACGGCAATGTTGATA 59.825 33.333 6.97 0.00 0.00 2.15
260 370 2.097036 CCCAAGAATTCATGCTGCTGA 58.903 47.619 8.44 0.00 0.00 4.26
277 387 4.245660 TGCTGAAAACAAGACTATCGGAG 58.754 43.478 0.00 0.00 0.00 4.63
281 391 0.818296 AACAAGACTATCGGAGCGCT 59.182 50.000 11.27 11.27 0.00 5.92
286 396 1.202663 AGACTATCGGAGCGCTGACTA 60.203 52.381 18.48 0.00 30.79 2.59
296 406 1.967597 GCGCTGACTAACGAAAGGCC 61.968 60.000 0.00 0.00 0.00 5.19
336 446 2.158325 ACCCCAGGTTTGACACATGAAT 60.158 45.455 0.00 0.00 39.73 2.57
337 447 2.231964 CCCCAGGTTTGACACATGAATG 59.768 50.000 0.00 0.00 39.73 2.67
354 464 5.545063 TGAATGTGAAGAACAGGTCAGTA 57.455 39.130 0.00 0.00 43.64 2.74
436 587 7.692460 TTTGATCATGAAGCAAGACTTATGT 57.308 32.000 0.00 0.00 39.29 2.29
473 626 7.437267 CCTATGAATTGCAGCTTAATTTTCCAG 59.563 37.037 7.04 3.99 0.00 3.86
582 744 4.828925 GTGCGCCAGGCTCTCTCC 62.829 72.222 10.54 0.00 44.05 3.71
585 747 3.222855 CGCCAGGCTCTCTCCGAT 61.223 66.667 10.54 0.00 0.00 4.18
613 775 4.144727 GAGGCGAGGAGGAGGGGA 62.145 72.222 0.00 0.00 0.00 4.81
633 801 2.811317 GAGAGCGACCACGGCTTG 60.811 66.667 0.00 0.00 40.15 4.01
650 818 2.509336 GCCACCACCAGATCGACG 60.509 66.667 0.00 0.00 0.00 5.12
671 839 2.295253 ACGAATCACCGTCATTCTCC 57.705 50.000 0.00 0.00 38.56 3.71
827 1000 2.280628 CCTCCTAACATTCTTCACCGC 58.719 52.381 0.00 0.00 0.00 5.68
828 1001 2.280628 CTCCTAACATTCTTCACCGCC 58.719 52.381 0.00 0.00 0.00 6.13
883 1059 1.486726 CGCCCCCTCTCCATATATTCC 59.513 57.143 0.00 0.00 0.00 3.01
947 1123 1.510480 GCTGTTGCCGCTCTTGTTCT 61.510 55.000 0.00 0.00 0.00 3.01
949 1125 0.944386 TGTTGCCGCTCTTGTTCTTC 59.056 50.000 0.00 0.00 0.00 2.87
950 1126 1.230324 GTTGCCGCTCTTGTTCTTCT 58.770 50.000 0.00 0.00 0.00 2.85
952 1128 1.229428 TGCCGCTCTTGTTCTTCTTG 58.771 50.000 0.00 0.00 0.00 3.02
953 1129 1.230324 GCCGCTCTTGTTCTTCTTGT 58.770 50.000 0.00 0.00 0.00 3.16
954 1130 1.604278 GCCGCTCTTGTTCTTCTTGTT 59.396 47.619 0.00 0.00 0.00 2.83
955 1131 2.603173 GCCGCTCTTGTTCTTCTTGTTG 60.603 50.000 0.00 0.00 0.00 3.33
974 1152 3.818787 CGGTGCTGCTGGATTGGC 61.819 66.667 0.00 0.00 0.00 4.52
1128 1306 2.666812 CACGGTAACCACCCTCCC 59.333 66.667 0.00 0.00 42.43 4.30
1129 1307 1.916777 CACGGTAACCACCCTCCCT 60.917 63.158 0.00 0.00 42.43 4.20
1130 1308 1.611556 ACGGTAACCACCCTCCCTC 60.612 63.158 0.00 0.00 42.43 4.30
1131 1309 1.305887 CGGTAACCACCCTCCCTCT 60.306 63.158 0.00 0.00 42.43 3.69
1132 1310 1.328430 CGGTAACCACCCTCCCTCTC 61.328 65.000 0.00 0.00 42.43 3.20
1135 1313 1.089978 TAACCACCCTCCCTCTCTCA 58.910 55.000 0.00 0.00 0.00 3.27
1156 1365 1.957591 GCTCTCTGCCTCTGACCTGTA 60.958 57.143 0.00 0.00 35.15 2.74
1168 1377 1.294659 GACCTGTAGCACAGCACAGC 61.295 60.000 9.88 0.00 44.63 4.40
1186 1395 2.357034 ACGACATGCCGTGTGTCC 60.357 61.111 6.17 0.00 42.36 4.02
1187 1396 3.118454 CGACATGCCGTGTGTCCC 61.118 66.667 0.00 0.00 42.36 4.46
1188 1397 2.031919 GACATGCCGTGTGTCCCA 59.968 61.111 0.00 0.00 42.36 4.37
1189 1398 2.032528 ACATGCCGTGTGTCCCAG 59.967 61.111 0.00 0.00 40.28 4.45
1190 1399 3.434319 CATGCCGTGTGTCCCAGC 61.434 66.667 0.00 0.00 0.00 4.85
1191 1400 4.722700 ATGCCGTGTGTCCCAGCC 62.723 66.667 0.00 0.00 0.00 4.85
1194 1403 4.619227 CCGTGTGTCCCAGCCGTT 62.619 66.667 0.00 0.00 0.00 4.44
1195 1404 3.345808 CGTGTGTCCCAGCCGTTG 61.346 66.667 0.00 0.00 0.00 4.10
1214 1465 3.395054 TGGGTGATGCCATTTGGATTA 57.605 42.857 0.00 0.00 39.65 1.75
1308 1563 0.040058 TGGGCTGATTTGGTGCTGAT 59.960 50.000 0.00 0.00 0.00 2.90
1309 1564 0.458669 GGGCTGATTTGGTGCTGATG 59.541 55.000 0.00 0.00 0.00 3.07
1311 1566 1.133790 GGCTGATTTGGTGCTGATGAC 59.866 52.381 0.00 0.00 0.00 3.06
1346 1619 7.212274 AGTCCAAAAATCAAATTGACTCCTTG 58.788 34.615 0.00 0.44 0.00 3.61
1372 1645 2.422479 TCTCTATGCCGCCGTATGTATC 59.578 50.000 0.00 0.00 0.00 2.24
1409 1686 7.413438 CCAGTTAGCAATCTGTAGAAACATGTC 60.413 40.741 0.00 0.00 34.37 3.06
1410 1687 7.118245 CAGTTAGCAATCTGTAGAAACATGTCA 59.882 37.037 0.00 0.00 34.37 3.58
1420 1697 7.012327 TCTGTAGAAACATGTCAACCTGAAAAG 59.988 37.037 0.00 0.00 34.37 2.27
1468 1745 7.550551 CAGTATGTAGGACAGAATTGACATGTT 59.449 37.037 0.00 0.00 0.00 2.71
1472 1749 6.873605 TGTAGGACAGAATTGACATGTTGTAG 59.126 38.462 0.00 0.00 0.00 2.74
1489 1766 9.388506 CATGTTGTAGTCTCTGATTTATCCTTT 57.611 33.333 0.00 0.00 0.00 3.11
1494 1771 8.470805 TGTAGTCTCTGATTTATCCTTTGAGAC 58.529 37.037 10.98 10.98 45.18 3.36
1496 1773 6.441924 AGTCTCTGATTTATCCTTTGAGACCA 59.558 38.462 14.16 0.00 45.65 4.02
1499 1776 7.619698 TCTCTGATTTATCCTTTGAGACCACTA 59.380 37.037 0.00 0.00 0.00 2.74
1502 1779 8.964476 TGATTTATCCTTTGAGACCACTAATC 57.036 34.615 0.00 0.00 0.00 1.75
1521 1798 7.116948 CACTAATCTACAGTGTTTCTTGGACTG 59.883 40.741 0.00 0.00 42.39 3.51
1564 1841 8.738645 AGTTCTCTTTAATTTTCTCTGTGTGT 57.261 30.769 0.00 0.00 0.00 3.72
1590 1867 6.019801 CGTCCTGCATACACAATAGTAGAAAC 60.020 42.308 0.00 0.00 0.00 2.78
1638 1915 1.271762 ACTGAAGAGGCATGCATGTGT 60.272 47.619 26.79 14.93 0.00 3.72
1667 1944 4.634004 TGTTGGTTAAATGTCTCTATGCCG 59.366 41.667 0.00 0.00 0.00 5.69
1681 1958 4.204799 TCTATGCCGCCGTATGTATCTAT 58.795 43.478 0.00 0.00 0.00 1.98
1753 2030 9.189156 ACTGGCATTTTCTCTTTTAGCAATATA 57.811 29.630 0.00 0.00 0.00 0.86
1772 2049 7.201679 GCAATATATGTAGGAGAATGGACATGC 60.202 40.741 0.00 0.00 34.46 4.06
1821 2098 7.543868 AGATCGCTGATATATAGTGTTTCTTGC 59.456 37.037 0.00 0.00 0.00 4.01
1926 2203 6.818644 TGAATAAGATGCACTTCTGGTTACTC 59.181 38.462 5.04 0.00 39.72 2.59
1936 2213 5.064452 CACTTCTGGTTACTCAAGATGCATC 59.936 44.000 19.37 19.37 0.00 3.91
1964 2245 1.269448 CTGTCGGTGTTGATTTTGGGG 59.731 52.381 0.00 0.00 0.00 4.96
1966 2247 2.158652 TGTCGGTGTTGATTTTGGGGTA 60.159 45.455 0.00 0.00 0.00 3.69
1969 2250 3.318557 TCGGTGTTGATTTTGGGGTAAAC 59.681 43.478 0.00 0.00 0.00 2.01
1974 2255 6.110033 GTGTTGATTTTGGGGTAAACTGTTT 58.890 36.000 10.98 10.98 0.00 2.83
1989 2270 4.077300 ACTGTTTGCAGATGAAGTGAGA 57.923 40.909 1.30 0.00 45.28 3.27
2289 2570 6.292150 AGGAAATACTACTTTGGATGCTAGC 58.708 40.000 8.10 8.10 0.00 3.42
2371 2654 3.637998 AATGACTTGAGCTTTGCTGTG 57.362 42.857 0.00 0.00 39.88 3.66
2499 2783 5.483811 TCGTTTCAACTATACATCAAGCCA 58.516 37.500 0.00 0.00 0.00 4.75
2787 3071 6.072112 TGAGGCAAGTGTTTATTCAACTTC 57.928 37.500 0.00 0.00 36.21 3.01
2792 3076 6.071616 GGCAAGTGTTTATTCAACTTCCCATA 60.072 38.462 0.00 0.00 36.21 2.74
2999 3283 9.696917 CAGCCATAACCTCATAAATTAATTTCC 57.303 33.333 16.56 0.00 0.00 3.13
3000 3284 9.432982 AGCCATAACCTCATAAATTAATTTCCA 57.567 29.630 16.56 1.33 0.00 3.53
3001 3285 9.476202 GCCATAACCTCATAAATTAATTTCCAC 57.524 33.333 16.56 0.00 0.00 4.02
3020 3318 2.371179 CACTCCTGGCATGGTGATAGAT 59.629 50.000 10.59 0.00 32.12 1.98
3028 3326 4.067896 GGCATGGTGATAGATAAGTGTGG 58.932 47.826 0.00 0.00 0.00 4.17
3106 3404 4.519906 AAGTGAAAGTGGAAAGGGAAGA 57.480 40.909 0.00 0.00 0.00 2.87
3174 3472 4.934356 AGGTACCAATGAACATGAATGGT 58.066 39.130 15.94 12.32 45.81 3.55
3271 3570 7.643569 TGAATTCTTATTGATGCAGCCTTAA 57.356 32.000 7.05 0.00 0.00 1.85
3522 3821 9.381033 TGAAAGCATTTTGAATGAAGAAAAGAA 57.619 25.926 4.92 0.00 39.27 2.52
3525 3824 8.897872 AGCATTTTGAATGAAGAAAAGAATGT 57.102 26.923 4.92 0.00 0.00 2.71
3526 3825 8.770828 AGCATTTTGAATGAAGAAAAGAATGTG 58.229 29.630 4.92 0.00 0.00 3.21
3527 3826 7.532884 GCATTTTGAATGAAGAAAAGAATGTGC 59.467 33.333 4.92 0.00 0.00 4.57
3851 4150 7.820331 TAAACCCTGCATCTCTGCTGAGTTC 62.820 48.000 18.82 10.39 43.87 3.01
3859 4158 6.889721 GCATCTCTGCTGAGTTCTGACTCTA 61.890 48.000 18.82 0.00 45.16 2.43
3872 4171 7.179269 AGTTCTGACTCTATCTACCTCTGTTT 58.821 38.462 0.00 0.00 0.00 2.83
4181 4480 9.429359 GTCTATGAAGTATTGACTTATCATGGG 57.571 37.037 0.00 0.00 46.23 4.00
4384 4683 1.120530 ACAAGGCGGGGTATACTGAG 58.879 55.000 2.25 0.00 0.00 3.35
4396 4695 6.073314 GGGGTATACTGAGTGTAACCTATCA 58.927 44.000 20.64 0.00 37.20 2.15
4431 4730 5.699915 CCCTATGAGTCAATGCTTCTATGTG 59.300 44.000 0.00 0.00 0.00 3.21
4438 4737 5.877012 AGTCAATGCTTCTATGTGTAGTTGG 59.123 40.000 0.00 0.00 0.00 3.77
4623 4922 4.064388 GAGATCTGAGCTATGCTTTTCCC 58.936 47.826 0.00 0.00 39.88 3.97
4757 5057 8.831715 AATTGGTTTCATTTTCCAAGTATCAC 57.168 30.769 0.00 0.00 43.12 3.06
4761 5062 8.260818 TGGTTTCATTTTCCAAGTATCACAAAA 58.739 29.630 0.00 0.00 0.00 2.44
4762 5063 9.271828 GGTTTCATTTTCCAAGTATCACAAAAT 57.728 29.630 0.00 0.00 0.00 1.82
4803 5104 4.759516 AAATGGTGGAACGTTGTATCAC 57.240 40.909 5.00 8.68 38.12 3.06
4836 5137 9.225436 GAGGAGATCTCAAGTGATTTAGTTTTT 57.775 33.333 23.85 0.00 42.02 1.94
4949 5292 2.162408 GGAGGCTTGACAGTGTAATTGC 59.838 50.000 0.00 0.00 0.00 3.56
5021 5382 5.497474 ACTCCGTTCCTATTGCAGTAAAAT 58.503 37.500 0.00 0.00 0.00 1.82
5065 5426 5.048083 TGCAGTACATTCAAATTCTTCACCC 60.048 40.000 0.00 0.00 0.00 4.61
5083 5483 6.126863 TCACCCTAGAAGTTGACATTTGAT 57.873 37.500 0.00 0.00 0.00 2.57
5113 5513 8.918202 CTAATAAGTTAGCACATTTATGGGGA 57.082 34.615 0.00 0.00 31.63 4.81
5114 5514 9.520515 CTAATAAGTTAGCACATTTATGGGGAT 57.479 33.333 0.00 0.00 31.63 3.85
5115 5515 7.765695 ATAAGTTAGCACATTTATGGGGATG 57.234 36.000 0.00 0.00 0.00 3.51
5116 5516 5.387113 AGTTAGCACATTTATGGGGATGA 57.613 39.130 0.00 0.00 0.00 2.92
5117 5517 5.133221 AGTTAGCACATTTATGGGGATGAC 58.867 41.667 0.00 0.00 0.00 3.06
5118 5518 3.668141 AGCACATTTATGGGGATGACA 57.332 42.857 0.00 0.00 0.00 3.58
5203 5603 8.945195 TGCCTGATATTCTCAAATTGGATTAT 57.055 30.769 0.00 0.00 32.14 1.28
5205 5605 9.635520 GCCTGATATTCTCAAATTGGATTATTG 57.364 33.333 0.00 0.00 32.14 1.90
5234 5637 9.326339 CCAGTTTACTTCGTAAATTAAAAGCTC 57.674 33.333 2.91 0.00 39.64 4.09
5312 5715 4.952262 GCTAGATGCTGACATGTCAAAA 57.048 40.909 27.63 19.07 39.39 2.44
5313 5716 5.300969 GCTAGATGCTGACATGTCAAAAA 57.699 39.130 27.63 16.71 39.39 1.94
5315 5718 7.019774 GCTAGATGCTGACATGTCAAAAATA 57.980 36.000 27.63 15.74 39.39 1.40
5316 5719 7.475015 GCTAGATGCTGACATGTCAAAAATAA 58.525 34.615 27.63 12.39 39.39 1.40
5658 6064 4.272018 GGCATCATCTGTCACATCTTACAC 59.728 45.833 0.00 0.00 0.00 2.90
5698 6104 1.701847 ACCAAGCAAGGAGTCATCACT 59.298 47.619 1.01 0.00 34.57 3.41
5714 6120 7.250569 AGTCATCACTTGTTTGTAACTGTTTG 58.749 34.615 0.00 0.00 0.00 2.93
5720 6129 9.562583 TCACTTGTTTGTAACTGTTTGTAAATC 57.437 29.630 0.00 0.00 0.00 2.17
5738 6147 9.844790 TTGTAAATCATGCTTGTAAAAGATCAG 57.155 29.630 0.00 0.00 0.00 2.90
5740 6149 9.282247 GTAAATCATGCTTGTAAAAGATCAGTG 57.718 33.333 0.00 0.00 0.00 3.66
5741 6150 5.300969 TCATGCTTGTAAAAGATCAGTGC 57.699 39.130 0.00 0.00 0.00 4.40
5836 6245 0.828762 TTTGCCTGCATGCTGGTTCT 60.829 50.000 35.31 0.00 37.37 3.01
5837 6246 1.246056 TTGCCTGCATGCTGGTTCTC 61.246 55.000 35.31 23.07 37.37 2.87
5845 6257 1.134280 CATGCTGGTTCTCCGGAATCT 60.134 52.381 5.23 0.00 42.46 2.40
5852 6264 1.993370 GTTCTCCGGAATCTTGTCACG 59.007 52.381 5.23 0.00 33.71 4.35
5900 6312 3.556999 TGGCTAAAACTTGTGGCACTTA 58.443 40.909 19.83 7.58 0.00 2.24
5902 6314 5.317808 TGGCTAAAACTTGTGGCACTTATA 58.682 37.500 19.83 0.00 0.00 0.98
5966 6378 2.097825 GCATGCTGATTCCTCTTTGGT 58.902 47.619 11.37 0.00 37.07 3.67
6027 6440 6.884295 TGTGGCACTTCTAAGCTAATTATGTT 59.116 34.615 19.83 0.00 0.00 2.71
6034 6447 9.853177 ACTTCTAAGCTAATTATGTTGGCTAAT 57.147 29.630 4.41 0.00 35.11 1.73
6080 6493 7.707893 GCTGCCAATTATTATGACTGATGTTTT 59.292 33.333 0.00 0.00 0.00 2.43
6109 6522 3.319137 TGTGAAAAGATGTAGCTCGCT 57.681 42.857 0.00 0.00 0.00 4.93
6160 6573 0.250901 ACAGGCCATCCAGTGACAAC 60.251 55.000 5.01 0.00 30.18 3.32
6190 6603 6.040842 AGCACCAGAAACATGTACTGAAATTT 59.959 34.615 24.90 4.97 34.07 1.82
6193 6606 7.706179 CACCAGAAACATGTACTGAAATTTTGT 59.294 33.333 24.90 14.30 34.07 2.83
6211 6624 2.582052 TGTTGAACAATTCGGGCTTCT 58.418 42.857 0.00 0.00 0.00 2.85
6222 6635 6.183360 ACAATTCGGGCTTCTTAAAGTTTTCA 60.183 34.615 0.00 0.00 34.79 2.69
6223 6636 4.823790 TCGGGCTTCTTAAAGTTTTCAC 57.176 40.909 0.00 0.00 34.79 3.18
6256 6685 0.615331 CAGGCAAAGGTAGGCTCAGA 59.385 55.000 0.00 0.00 40.22 3.27
6353 6804 3.366374 GCTGTTGAATGTGGTTAAGAGGC 60.366 47.826 0.00 0.00 0.00 4.70
6365 6816 3.454812 GGTTAAGAGGCCAGTTATCAGGA 59.545 47.826 5.01 0.00 0.00 3.86
6460 6911 3.632604 GTGGGGCCTAGCTAAAAGAAATC 59.367 47.826 0.84 0.00 0.00 2.17
6497 6949 9.347934 CAATATTAACGTGTCAATTTGCCTTTA 57.652 29.630 0.00 0.00 0.00 1.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 3.476552 CTTTGGTTACTCAGCACTCCAA 58.523 45.455 0.00 0.00 33.90 3.53
9 10 1.807142 GCTTTGGTTACTCAGCACTCC 59.193 52.381 0.00 0.00 30.58 3.85
18 19 7.770897 CAGTCTTAATCATAGGCTTTGGTTACT 59.229 37.037 9.76 4.94 0.00 2.24
40 41 1.134965 CAGATTCGGGTCCTGACAGTC 60.135 57.143 0.00 0.00 0.00 3.51
117 118 2.729882 CAGTTAACTGACGTACAGGTGC 59.270 50.000 28.17 7.97 46.95 5.01
159 268 3.771479 AGTACAGGATGCTGTGATCTCAA 59.229 43.478 28.10 4.87 42.53 3.02
186 295 7.174772 TGCCGTAATTCATATGCTGTAATGATT 59.825 33.333 0.00 0.00 32.40 2.57
233 343 4.831155 CAGCATGAATTCTTGGGGTATCAT 59.169 41.667 19.61 0.00 39.69 2.45
240 350 2.097036 TCAGCAGCATGAATTCTTGGG 58.903 47.619 19.61 3.37 39.69 4.12
260 370 2.000447 GCGCTCCGATAGTCTTGTTTT 59.000 47.619 0.00 0.00 0.00 2.43
277 387 1.420312 GCCTTTCGTTAGTCAGCGC 59.580 57.895 0.00 0.00 0.00 5.92
281 391 3.695830 ATCTTGGCCTTTCGTTAGTCA 57.304 42.857 3.32 0.00 0.00 3.41
286 396 6.339587 TGAATTTAATCTTGGCCTTTCGTT 57.660 33.333 3.32 0.00 0.00 3.85
296 406 5.893255 TGGGGTCCTCATGAATTTAATCTTG 59.107 40.000 0.00 0.00 0.00 3.02
336 446 6.628175 GCTGATATACTGACCTGTTCTTCACA 60.628 42.308 0.00 0.00 0.00 3.58
337 447 5.751028 GCTGATATACTGACCTGTTCTTCAC 59.249 44.000 0.00 0.00 0.00 3.18
436 587 5.555966 TGCAATTCATAGGCCGTAATGATA 58.444 37.500 16.16 9.71 32.40 2.15
473 626 1.154599 CGTGCGTGCACACAGAATC 60.155 57.895 23.26 0.18 46.47 2.52
578 740 0.107268 TCGGTGGTATCGATCGGAGA 59.893 55.000 16.41 0.00 45.75 3.71
580 742 0.887836 CCTCGGTGGTATCGATCGGA 60.888 60.000 16.41 2.25 36.01 4.55
582 744 1.081376 GCCTCGGTGGTATCGATCG 60.081 63.158 9.36 9.36 38.35 3.69
583 745 1.081376 CGCCTCGGTGGTATCGATC 60.081 63.158 0.00 0.00 38.35 3.69
584 746 1.516365 CTCGCCTCGGTGGTATCGAT 61.516 60.000 2.16 2.16 38.35 3.59
585 747 2.124612 TCGCCTCGGTGGTATCGA 60.125 61.111 0.00 0.00 38.35 3.59
611 773 2.766400 CCGTGGTCGCTCTCTCTCC 61.766 68.421 0.00 0.00 35.54 3.71
613 775 3.444805 GCCGTGGTCGCTCTCTCT 61.445 66.667 0.00 0.00 35.54 3.10
633 801 2.509336 CGTCGATCTGGTGGTGGC 60.509 66.667 0.00 0.00 0.00 5.01
659 827 0.336737 AGGAGGAGGAGAATGACGGT 59.663 55.000 0.00 0.00 0.00 4.83
660 828 1.036707 GAGGAGGAGGAGAATGACGG 58.963 60.000 0.00 0.00 0.00 4.79
662 830 2.316108 GAGGAGGAGGAGGAGAATGAC 58.684 57.143 0.00 0.00 0.00 3.06
663 831 1.219213 GGAGGAGGAGGAGGAGAATGA 59.781 57.143 0.00 0.00 0.00 2.57
664 832 1.715785 GGAGGAGGAGGAGGAGAATG 58.284 60.000 0.00 0.00 0.00 2.67
665 833 0.187361 CGGAGGAGGAGGAGGAGAAT 59.813 60.000 0.00 0.00 0.00 2.40
666 834 1.615814 CGGAGGAGGAGGAGGAGAA 59.384 63.158 0.00 0.00 0.00 2.87
667 835 3.063197 GCGGAGGAGGAGGAGGAGA 62.063 68.421 0.00 0.00 0.00 3.71
668 836 2.520741 GCGGAGGAGGAGGAGGAG 60.521 72.222 0.00 0.00 0.00 3.69
669 837 4.507916 CGCGGAGGAGGAGGAGGA 62.508 72.222 0.00 0.00 0.00 3.71
709 877 1.017701 GCATTGCCTTGCCTTGCTTC 61.018 55.000 0.00 0.00 36.60 3.86
827 1000 9.183368 AGCCAAGAGAGAATTTTTATAAAGAGG 57.817 33.333 0.00 0.00 0.00 3.69
947 1123 2.844451 GCAGCACCGGCAACAAGAA 61.844 57.895 0.00 0.00 44.61 2.52
949 1125 3.289834 AGCAGCACCGGCAACAAG 61.290 61.111 0.00 0.00 44.61 3.16
950 1126 3.594775 CAGCAGCACCGGCAACAA 61.595 61.111 0.00 0.00 44.61 2.83
953 1129 3.866379 AATCCAGCAGCACCGGCAA 62.866 57.895 0.00 0.00 44.61 4.52
954 1130 4.349503 AATCCAGCAGCACCGGCA 62.350 61.111 0.00 0.00 44.61 5.69
955 1131 3.818787 CAATCCAGCAGCACCGGC 61.819 66.667 0.00 0.00 41.61 6.13
991 1169 1.667154 CCGTTCTCCATCTCAGGCGA 61.667 60.000 0.00 0.00 0.00 5.54
996 1174 0.178767 CATGCCCGTTCTCCATCTCA 59.821 55.000 0.00 0.00 0.00 3.27
1128 1306 1.027357 GAGGCAGAGAGCTGAGAGAG 58.973 60.000 0.00 0.00 45.17 3.20
1129 1307 0.625316 AGAGGCAGAGAGCTGAGAGA 59.375 55.000 0.00 0.00 45.17 3.10
1130 1308 0.742505 CAGAGGCAGAGAGCTGAGAG 59.257 60.000 0.00 0.00 45.17 3.20
1131 1309 0.330941 TCAGAGGCAGAGAGCTGAGA 59.669 55.000 0.00 0.00 45.17 3.27
1132 1310 0.457035 GTCAGAGGCAGAGAGCTGAG 59.543 60.000 0.00 0.00 45.17 3.35
1135 1313 0.971959 CAGGTCAGAGGCAGAGAGCT 60.972 60.000 0.00 0.00 44.79 4.09
1156 1365 2.969238 GTCGTGCTGTGCTGTGCT 60.969 61.111 0.00 0.00 0.00 4.40
1186 1395 3.443045 GCATCACCCAACGGCTGG 61.443 66.667 0.00 0.00 45.97 4.85
1187 1396 3.443045 GGCATCACCCAACGGCTG 61.443 66.667 0.00 0.00 0.00 4.85
1188 1397 2.786512 AATGGCATCACCCAACGGCT 62.787 55.000 0.00 0.00 38.61 5.52
1189 1398 1.887344 AAATGGCATCACCCAACGGC 61.887 55.000 0.00 0.00 38.61 5.68
1190 1399 0.108709 CAAATGGCATCACCCAACGG 60.109 55.000 0.00 0.00 38.61 4.44
1191 1400 0.108709 CCAAATGGCATCACCCAACG 60.109 55.000 0.00 0.00 38.61 4.10
1192 1401 1.265236 TCCAAATGGCATCACCCAAC 58.735 50.000 0.00 0.00 38.61 3.77
1193 1402 2.250921 ATCCAAATGGCATCACCCAA 57.749 45.000 0.00 0.00 38.61 4.12
1194 1403 2.250921 AATCCAAATGGCATCACCCA 57.749 45.000 0.00 0.00 39.65 4.51
1195 1404 3.068590 CAGTAATCCAAATGGCATCACCC 59.931 47.826 0.00 0.00 37.83 4.61
1196 1405 3.068590 CCAGTAATCCAAATGGCATCACC 59.931 47.826 0.00 0.00 39.84 4.02
1197 1406 3.701040 ACCAGTAATCCAAATGGCATCAC 59.299 43.478 0.00 0.00 36.21 3.06
1198 1407 3.979911 ACCAGTAATCCAAATGGCATCA 58.020 40.909 0.00 0.00 36.21 3.07
1199 1408 5.127682 AGAAACCAGTAATCCAAATGGCATC 59.872 40.000 0.00 0.00 36.21 3.91
1200 1409 5.025453 AGAAACCAGTAATCCAAATGGCAT 58.975 37.500 0.00 0.00 36.21 4.40
1214 1465 3.023832 CCCAAAACAGACAGAAACCAGT 58.976 45.455 0.00 0.00 0.00 4.00
1308 1563 4.365514 TTTTGGACTATTCTGCTGGTCA 57.634 40.909 0.00 0.00 0.00 4.02
1309 1564 5.415701 TGATTTTTGGACTATTCTGCTGGTC 59.584 40.000 0.00 0.00 0.00 4.02
1311 1566 5.902613 TGATTTTTGGACTATTCTGCTGG 57.097 39.130 0.00 0.00 0.00 4.85
1315 1570 9.918630 AGTCAATTTGATTTTTGGACTATTCTG 57.081 29.630 1.78 0.00 0.00 3.02
1317 1572 9.358872 GGAGTCAATTTGATTTTTGGACTATTC 57.641 33.333 1.78 0.00 0.00 1.75
1346 1619 0.249489 ACGGCGGCATAGAGACATTC 60.249 55.000 13.24 0.00 0.00 2.67
1372 1645 2.627945 TGCTAACTGGAAATGCCGTAG 58.372 47.619 0.00 0.00 40.66 3.51
1377 1654 4.708726 ACAGATTGCTAACTGGAAATGC 57.291 40.909 9.94 0.00 38.30 3.56
1409 1686 4.202141 TGGAAATGTCAGCTTTTCAGGTTG 60.202 41.667 10.06 0.00 39.25 3.77
1410 1687 3.960102 TGGAAATGTCAGCTTTTCAGGTT 59.040 39.130 10.06 0.00 39.25 3.50
1420 1697 6.127897 ACTGCTAATTAAGTGGAAATGTCAGC 60.128 38.462 0.00 0.00 0.00 4.26
1460 1737 7.981789 GGATAAATCAGAGACTACAACATGTCA 59.018 37.037 0.00 0.00 35.81 3.58
1468 1745 8.470805 GTCTCAAAGGATAAATCAGAGACTACA 58.529 37.037 17.49 0.00 44.20 2.74
1472 1749 6.536941 GTGGTCTCAAAGGATAAATCAGAGAC 59.463 42.308 16.99 16.99 45.86 3.36
1489 1766 6.493802 AGAAACACTGTAGATTAGTGGTCTCA 59.506 38.462 9.61 0.00 44.86 3.27
1496 1773 7.015292 TCAGTCCAAGAAACACTGTAGATTAGT 59.985 37.037 0.00 0.00 38.94 2.24
1499 1776 6.174720 TCAGTCCAAGAAACACTGTAGATT 57.825 37.500 0.00 0.00 38.94 2.40
1502 1779 4.950050 ACTCAGTCCAAGAAACACTGTAG 58.050 43.478 0.00 0.00 38.94 2.74
1505 1782 4.635765 TCAAACTCAGTCCAAGAAACACTG 59.364 41.667 0.00 0.00 39.18 3.66
1521 1798 8.446599 AGAGAACTCTAGCTAGTATCAAACTC 57.553 38.462 20.10 17.50 37.65 3.01
1564 1841 4.885325 TCTACTATTGTGTATGCAGGACGA 59.115 41.667 0.00 0.00 0.00 4.20
1590 1867 8.344098 ACCAAAAGTGCATATTGTTCAAATTTG 58.656 29.630 12.15 12.15 0.00 2.32
1600 1877 7.592938 TCTTCAGTAACCAAAAGTGCATATTG 58.407 34.615 0.00 0.00 0.00 1.90
1638 1915 3.561143 AGACATTTAACCAACAGGTGCA 58.439 40.909 0.00 0.00 35.32 4.57
1667 1944 6.163476 TGGAAATGTCATAGATACATACGGC 58.837 40.000 0.00 0.00 36.56 5.68
1681 1958 5.316167 ACAGATTGCTAACTGGAAATGTCA 58.684 37.500 9.94 0.00 38.30 3.58
1753 2030 3.457380 ACTGCATGTCCATTCTCCTACAT 59.543 43.478 0.00 0.00 32.91 2.29
1754 2031 2.840038 ACTGCATGTCCATTCTCCTACA 59.160 45.455 0.00 0.00 0.00 2.74
1772 2049 4.956700 TCAAGGATAACCCAGAGACTACTG 59.043 45.833 0.00 0.00 37.41 2.74
1821 2098 7.328277 ACTCTAGCTAGTATCAAACTCACTG 57.672 40.000 20.10 0.00 39.80 3.66
1905 2182 5.738619 TGAGTAACCAGAAGTGCATCTTA 57.261 39.130 0.00 0.00 36.40 2.10
1908 2185 4.569943 TCTTGAGTAACCAGAAGTGCATC 58.430 43.478 0.00 0.00 0.00 3.91
1917 2194 4.331992 CACAGATGCATCTTGAGTAACCAG 59.668 45.833 26.70 13.35 34.22 4.00
1948 2229 3.319689 AGTTTACCCCAAAATCAACACCG 59.680 43.478 0.00 0.00 0.00 4.94
1964 2245 6.017934 TCTCACTTCATCTGCAAACAGTTTAC 60.018 38.462 0.00 0.00 44.77 2.01
1966 2247 4.883585 TCTCACTTCATCTGCAAACAGTTT 59.116 37.500 0.00 0.00 44.77 2.66
1969 2250 5.048921 ACATTCTCACTTCATCTGCAAACAG 60.049 40.000 0.00 0.00 45.95 3.16
1974 2255 3.340928 CCACATTCTCACTTCATCTGCA 58.659 45.455 0.00 0.00 0.00 4.41
2034 2315 3.500448 TGTGCTTGGTTAATGGACTCA 57.500 42.857 0.00 0.00 0.00 3.41
2102 2383 3.994392 CGTTACTGTACAAGTCATTGCCT 59.006 43.478 0.00 0.00 40.27 4.75
2166 2447 5.123936 GGTTCCAAGCTTAATACCAGGTAG 58.876 45.833 14.74 0.00 0.00 3.18
2371 2654 5.163513 CAAAAGGGACAAACATATCTGTGC 58.836 41.667 0.00 0.00 35.22 4.57
2473 2757 7.766738 TGGCTTGATGTATAGTTGAAACGATAA 59.233 33.333 0.00 0.00 30.17 1.75
2499 2783 7.037438 GGACAATTATCTGACAACATGCAAAT 58.963 34.615 0.00 0.00 0.00 2.32
2535 2819 3.496507 GTCTTTGACTGAGAAAGCCAGAC 59.503 47.826 0.00 0.00 35.69 3.51
2787 3071 7.444183 TGAAGGCTATAAGAAATTTCGTATGGG 59.556 37.037 26.92 21.19 34.50 4.00
2792 3076 5.006746 CGCTGAAGGCTATAAGAAATTTCGT 59.993 40.000 12.42 11.89 39.13 3.85
2999 3283 1.764723 TCTATCACCATGCCAGGAGTG 59.235 52.381 0.00 0.00 0.00 3.51
3000 3284 2.180946 TCTATCACCATGCCAGGAGT 57.819 50.000 0.00 0.00 0.00 3.85
3001 3285 4.285517 ACTTATCTATCACCATGCCAGGAG 59.714 45.833 0.00 0.00 0.00 3.69
3040 3338 9.139174 CGACTTGGCAATTGTAGAAATTTAAAT 57.861 29.630 7.40 0.00 0.00 1.40
3174 3472 9.033481 CAAGAATTGTTTCACATTTTTCTGCTA 57.967 29.630 0.00 0.00 42.34 3.49
3526 3825 1.224075 AGACTATGCGATGCACATGC 58.776 50.000 0.00 0.00 43.04 4.06
3527 3826 4.687483 TCATAAGACTATGCGATGCACATG 59.313 41.667 0.00 0.00 43.04 3.21
3750 4049 0.615544 CCCACCAACTGCCATGGAAT 60.616 55.000 18.40 0.00 40.56 3.01
3851 4150 8.514330 ACTTAAACAGAGGTAGATAGAGTCAG 57.486 38.462 0.00 0.00 0.00 3.51
3859 4158 8.822805 TGTTTGGATACTTAAACAGAGGTAGAT 58.177 33.333 0.00 0.00 40.65 1.98
3872 4171 5.192927 CAGGGCATCTTGTTTGGATACTTA 58.807 41.667 0.00 0.00 37.61 2.24
3952 4251 4.891260 TCATATAATCACAGCAGGCAGAG 58.109 43.478 0.00 0.00 0.00 3.35
4384 4683 5.163754 GGTCATGCACTTTGATAGGTTACAC 60.164 44.000 0.00 0.00 0.00 2.90
4396 4695 3.264193 TGACTCATAGGGTCATGCACTTT 59.736 43.478 0.00 0.00 38.57 2.66
4431 4730 4.632538 AACAGCAGTTTCAACCAACTAC 57.367 40.909 0.00 0.00 35.10 2.73
4438 4737 3.612423 GGTTCACAAACAGCAGTTTCAAC 59.388 43.478 3.98 7.91 45.80 3.18
4623 4922 0.031817 ATTCCTGGATGCAAAGGGGG 60.032 55.000 12.16 2.47 34.08 5.40
4676 4976 9.120538 AGTTTTCACAACATTATACACTGAGTT 57.879 29.630 0.00 0.00 0.00 3.01
4720 5020 9.790344 AAAATGAAACCAATTTATCCAACATGA 57.210 25.926 0.00 0.00 0.00 3.07
4927 5270 3.679389 CAATTACACTGTCAAGCCTCCT 58.321 45.455 0.00 0.00 0.00 3.69
4949 5292 4.424626 TCATGCTTAGCAGAAGTAACTCG 58.575 43.478 13.74 0.00 43.65 4.18
5065 5426 6.906659 AGCAACATCAAATGTCAACTTCTAG 58.093 36.000 0.00 0.00 44.07 2.43
5188 5588 4.618635 TGGGCCAATAATCCAATTTGAGA 58.381 39.130 2.13 0.00 0.00 3.27
5234 5637 9.188588 GCATCAAACCAACATATATGATTTCAG 57.811 33.333 19.63 4.47 0.00 3.02
5698 6104 8.812329 GCATGATTTACAAACAGTTACAAACAA 58.188 29.630 0.00 0.00 0.00 2.83
5714 6120 9.282247 CACTGATCTTTTACAAGCATGATTTAC 57.718 33.333 0.00 0.00 0.00 2.01
5720 6129 5.093457 CAGCACTGATCTTTTACAAGCATG 58.907 41.667 0.00 0.00 0.00 4.06
5738 6147 1.147557 GCACAACAAAGGCACAGCAC 61.148 55.000 0.00 0.00 0.00 4.40
5740 6149 0.595825 GAGCACAACAAAGGCACAGC 60.596 55.000 0.00 0.00 0.00 4.40
5741 6150 0.317269 CGAGCACAACAAAGGCACAG 60.317 55.000 0.00 0.00 0.00 3.66
5802 6211 4.272489 CAGGCAAAGATTCCCAGTAATGA 58.728 43.478 0.00 0.00 0.00 2.57
5806 6215 1.354031 TGCAGGCAAAGATTCCCAGTA 59.646 47.619 0.00 0.00 0.00 2.74
5836 6245 0.682852 AACCGTGACAAGATTCCGGA 59.317 50.000 0.00 0.00 41.08 5.14
5837 6246 1.076332 GAACCGTGACAAGATTCCGG 58.924 55.000 0.00 0.00 44.06 5.14
5845 6257 2.963548 TACACACAGAACCGTGACAA 57.036 45.000 0.00 0.00 39.34 3.18
5852 6264 3.436704 CCACATGTCATACACACAGAACC 59.563 47.826 0.00 0.00 38.04 3.62
5900 6312 6.717997 TCATGCTGATGCCAATGTTAGATTAT 59.282 34.615 0.00 0.00 38.71 1.28
5902 6314 4.891168 TCATGCTGATGCCAATGTTAGATT 59.109 37.500 0.00 0.00 38.71 2.40
6027 6440 5.045140 AGTTAGGCAGGAGTTTAATTAGCCA 60.045 40.000 11.06 0.00 42.90 4.75
6080 6493 7.041107 AGCTACATCTTTTCACAAAAGCAAAA 58.959 30.769 4.18 0.00 45.79 2.44
6127 6540 0.811281 GCCTGTAGGTGCACCAAATC 59.189 55.000 36.39 22.12 38.89 2.17
6160 6573 2.165167 ACATGTTTCTGGTGCTGGATG 58.835 47.619 0.00 0.00 0.00 3.51
6190 6603 2.955660 AGAAGCCCGAATTGTTCAACAA 59.044 40.909 5.18 5.18 42.95 2.83
6193 6606 5.300792 ACTTTAAGAAGCCCGAATTGTTCAA 59.699 36.000 0.00 0.00 36.29 2.69
6222 6635 5.497474 CTTTGCCTGGTATTACAAGGTAGT 58.503 41.667 17.01 0.00 0.00 2.73
6223 6636 4.881850 CCTTTGCCTGGTATTACAAGGTAG 59.118 45.833 17.01 12.00 0.00 3.18
6256 6685 8.462016 GCCACAAATGAATACATCTAGAACTTT 58.538 33.333 0.00 0.00 35.50 2.66
6353 6804 8.209584 CCTGGATTGATATATCCTGATAACTGG 58.790 40.741 10.25 7.82 43.75 4.00
6365 6816 6.208007 CACATGTTGCACCTGGATTGATATAT 59.792 38.462 0.00 0.00 0.00 0.86


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

AutoCloner maintained by Alex Coulton.