Multiple sequence alignment - TraesCS2B01G377000

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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 TraesCS2B01G377000 chr2B 100.000 8350 0 0 1 8350 539812397 539804048 0.000000e+00 15420
1 TraesCS2B01G377000 chr2B 95.702 605 26 0 7746 8350 194994333 194993729 0.000000e+00 974
2 TraesCS2B01G377000 chr2B 94.711 605 32 0 7746 8350 150532700 150532096 0.000000e+00 941
3 TraesCS2B01G377000 chr2A 95.300 7106 210 43 697 7731 602135433 602128381 0.000000e+00 11158
4 TraesCS2B01G377000 chr2A 92.169 779 33 13 1 754 602136090 602135315 0.000000e+00 1075
5 TraesCS2B01G377000 chr2D 95.045 7164 231 58 637 7731 458918554 458911446 0.000000e+00 11149
6 TraesCS2B01G377000 chr2D 91.156 848 40 20 1 813 458919344 458918497 0.000000e+00 1118
7 TraesCS2B01G377000 chr2D 90.909 176 15 1 638 813 458918612 458918438 1.400000e-57 235
8 TraesCS2B01G377000 chr2D 94.017 117 6 1 638 754 458918494 458918379 8.610000e-40 176
9 TraesCS2B01G377000 chr3B 95.537 605 27 0 7746 8350 583991196 583991800 0.000000e+00 968
10 TraesCS2B01G377000 chr4B 95.357 603 28 0 7746 8348 543360595 543359993 0.000000e+00 959
11 TraesCS2B01G377000 chr6B 95.207 605 29 0 7746 8350 64731453 64730849 0.000000e+00 957
12 TraesCS2B01G377000 chr4A 95.041 605 30 0 7746 8350 215029081 215029685 0.000000e+00 952
13 TraesCS2B01G377000 chr5D 95.025 603 29 1 7746 8348 340949790 340949189 0.000000e+00 946
14 TraesCS2B01G377000 chr5B 94.876 605 31 0 7746 8350 372565878 372565274 0.000000e+00 946
15 TraesCS2B01G377000 chr3A 94.876 605 31 0 7746 8350 125493653 125494257 0.000000e+00 946


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 TraesCS2B01G377000 chr2B 539804048 539812397 8349 True 15420.0 15420 100.00000 1 8350 1 chr2B.!!$R3 8349
1 TraesCS2B01G377000 chr2B 194993729 194994333 604 True 974.0 974 95.70200 7746 8350 1 chr2B.!!$R2 604
2 TraesCS2B01G377000 chr2B 150532096 150532700 604 True 941.0 941 94.71100 7746 8350 1 chr2B.!!$R1 604
3 TraesCS2B01G377000 chr2A 602128381 602136090 7709 True 6116.5 11158 93.73450 1 7731 2 chr2A.!!$R1 7730
4 TraesCS2B01G377000 chr2D 458911446 458919344 7898 True 3169.5 11149 92.78175 1 7731 4 chr2D.!!$R1 7730
5 TraesCS2B01G377000 chr3B 583991196 583991800 604 False 968.0 968 95.53700 7746 8350 1 chr3B.!!$F1 604
6 TraesCS2B01G377000 chr4B 543359993 543360595 602 True 959.0 959 95.35700 7746 8348 1 chr4B.!!$R1 602
7 TraesCS2B01G377000 chr6B 64730849 64731453 604 True 957.0 957 95.20700 7746 8350 1 chr6B.!!$R1 604
8 TraesCS2B01G377000 chr4A 215029081 215029685 604 False 952.0 952 95.04100 7746 8350 1 chr4A.!!$F1 604
9 TraesCS2B01G377000 chr5D 340949189 340949790 601 True 946.0 946 95.02500 7746 8348 1 chr5D.!!$R1 602
10 TraesCS2B01G377000 chr5B 372565274 372565878 604 True 946.0 946 94.87600 7746 8350 1 chr5B.!!$R1 604
11 TraesCS2B01G377000 chr3A 125493653 125494257 604 False 946.0 946 94.87600 7746 8350 1 chr3A.!!$F1 604

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
733 952 0.318445 CTTCCTTGCTGCAGTGCAAC 60.318 55.000 20.22 15.80 46.43 4.17 F
1371 1593 0.174845 TGCGGTGTAGCTACATCACC 59.825 55.000 31.18 24.36 45.46 4.02 F
1715 1942 1.214175 TCAGGGAGTGAACAAAGGCAA 59.786 47.619 0.00 0.00 29.64 4.52 F
2048 2282 1.817209 CTCTGGGACGAGTTAGCCC 59.183 63.158 0.00 0.00 42.38 5.19 F
2576 2810 2.044888 ATTGTTTGTAAAGCGTGCCG 57.955 45.000 0.00 0.00 0.00 5.69 F
3232 3469 2.160417 GCTGTTGATGCTACTTCCACAC 59.840 50.000 0.00 0.00 0.00 3.82 F
4982 5254 0.463116 AACACAACGTGGGGACAGTC 60.463 55.000 0.00 0.00 44.46 3.51 F
6380 6683 1.210931 CACAGACAATGGCTTGGCG 59.789 57.895 0.00 0.00 45.71 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2317 2551 0.179150 CCAGACTCGCACAGCTACTC 60.179 60.000 0.00 0.00 0.00 2.59 R
2666 2900 2.484264 GCGGAATGCGAATAAATAGGCT 59.516 45.455 0.00 0.00 0.00 4.58 R
2921 3155 3.133721 AGACAGTTGCAACTCTCTCAAGT 59.866 43.478 28.97 20.81 37.08 3.16 R
3969 4232 1.046204 TCCCATTTTGCATGCACACA 58.954 45.000 22.58 7.56 0.00 3.72 R
4174 4442 2.168521 GCACCAGACTATGAGCTACCAA 59.831 50.000 0.00 0.00 0.00 3.67 R
5196 5473 1.589803 ACTGCACGAGTTGGTTAACC 58.410 50.000 18.27 18.27 37.52 2.85 R
6937 7241 0.693049 AGACCGCAGACCCTTGAAAT 59.307 50.000 0.00 0.00 0.00 2.17 R
8073 8384 0.036105 TGCTGCAAGATGTGGTCGAT 60.036 50.000 0.00 0.00 34.07 3.59 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
21 22 4.855715 GCTATAAGCCATTTTTCCTCCC 57.144 45.455 0.00 0.00 34.48 4.30
150 156 2.508439 GACGATTTCAGCCGCCGA 60.508 61.111 0.00 0.00 0.00 5.54
180 186 2.658593 CCGCTAATCCGTGGCTCG 60.659 66.667 1.28 1.28 39.52 5.03
195 201 3.746949 CTCGGCCCAGCATCAGGTC 62.747 68.421 0.00 0.00 0.00 3.85
343 349 0.667993 CGTCTCTGCTCTGATCCTCC 59.332 60.000 0.00 0.00 0.00 4.30
345 351 0.467106 TCTCTGCTCTGATCCTCCCG 60.467 60.000 0.00 0.00 0.00 5.14
368 374 5.368989 GTCTTCGGTTATTCCAATCCAGAT 58.631 41.667 0.00 0.00 35.57 2.90
386 392 4.333372 CCAGATATTTGGGCATTTTTGCAC 59.667 41.667 4.29 0.00 39.00 4.57
436 442 2.280524 CTTGGTGCGGACGGAACA 60.281 61.111 0.00 0.00 0.00 3.18
454 490 5.177511 CGGAACATTCGATACTGTTGCATAT 59.822 40.000 19.74 0.00 41.94 1.78
518 554 1.065998 GTGTAGGATTGGTTGGCGGTA 60.066 52.381 0.00 0.00 0.00 4.02
722 941 7.550906 ACAATCTTCTGATAGTAACTTCCTTGC 59.449 37.037 0.00 0.00 31.70 4.01
723 942 6.859112 TCTTCTGATAGTAACTTCCTTGCT 57.141 37.500 0.00 0.00 0.00 3.91
724 943 6.634805 TCTTCTGATAGTAACTTCCTTGCTG 58.365 40.000 0.00 0.00 0.00 4.41
725 944 4.759782 TCTGATAGTAACTTCCTTGCTGC 58.240 43.478 0.00 0.00 0.00 5.25
726 945 4.222810 TCTGATAGTAACTTCCTTGCTGCA 59.777 41.667 0.00 0.00 0.00 4.41
727 946 4.507710 TGATAGTAACTTCCTTGCTGCAG 58.492 43.478 10.11 10.11 0.00 4.41
728 947 2.938956 AGTAACTTCCTTGCTGCAGT 57.061 45.000 16.64 0.00 0.00 4.40
729 948 2.498167 AGTAACTTCCTTGCTGCAGTG 58.502 47.619 16.64 6.07 0.00 3.66
730 949 1.068954 GTAACTTCCTTGCTGCAGTGC 60.069 52.381 16.64 8.58 0.00 4.40
731 950 0.752743 AACTTCCTTGCTGCAGTGCA 60.753 50.000 18.58 18.58 41.65 4.57
733 952 0.318445 CTTCCTTGCTGCAGTGCAAC 60.318 55.000 20.22 15.80 46.43 4.17
747 966 3.923017 GTGCAACTCAAGCTTATTGGT 57.077 42.857 15.32 3.99 0.00 3.67
748 967 4.243007 GTGCAACTCAAGCTTATTGGTT 57.757 40.909 15.32 8.70 36.75 3.67
749 968 5.371115 GTGCAACTCAAGCTTATTGGTTA 57.629 39.130 15.32 0.00 34.66 2.85
750 969 5.954335 GTGCAACTCAAGCTTATTGGTTAT 58.046 37.500 15.32 0.00 34.66 1.89
751 970 7.083875 GTGCAACTCAAGCTTATTGGTTATA 57.916 36.000 15.32 3.49 34.66 0.98
752 971 7.707104 GTGCAACTCAAGCTTATTGGTTATAT 58.293 34.615 15.32 0.00 34.66 0.86
753 972 8.190784 GTGCAACTCAAGCTTATTGGTTATATT 58.809 33.333 15.32 0.00 34.66 1.28
754 973 8.190122 TGCAACTCAAGCTTATTGGTTATATTG 58.810 33.333 15.32 4.72 34.66 1.90
755 974 8.405531 GCAACTCAAGCTTATTGGTTATATTGA 58.594 33.333 15.32 0.00 34.66 2.57
756 975 9.722056 CAACTCAAGCTTATTGGTTATATTGAC 57.278 33.333 0.00 0.00 34.66 3.18
757 976 9.461312 AACTCAAGCTTATTGGTTATATTGACA 57.539 29.630 0.00 0.00 34.66 3.58
758 977 9.461312 ACTCAAGCTTATTGGTTATATTGACAA 57.539 29.630 0.00 0.00 34.66 3.18
808 1027 5.571741 CAGTGCAAGTCAAGCTTATTGATTG 59.428 40.000 17.70 11.48 42.86 2.67
873 1092 2.456000 CGTAGTCACGCCTGCAATT 58.544 52.632 0.00 0.00 42.05 2.32
874 1093 1.635844 CGTAGTCACGCCTGCAATTA 58.364 50.000 0.00 0.00 42.05 1.40
894 1115 8.218338 CAATTAATGCTAGAGAATCAAGGTGT 57.782 34.615 0.00 0.00 37.82 4.16
905 1126 1.358152 TCAAGGTGTCCGGGAAGAAT 58.642 50.000 0.00 0.00 0.00 2.40
907 1128 3.112263 TCAAGGTGTCCGGGAAGAATAT 58.888 45.455 0.00 0.00 0.00 1.28
914 1135 1.843851 TCCGGGAAGAATATGCACCTT 59.156 47.619 0.00 0.00 0.00 3.50
922 1143 5.065731 GGAAGAATATGCACCTTTGAGTCTG 59.934 44.000 0.00 0.00 0.00 3.51
923 1144 3.944015 AGAATATGCACCTTTGAGTCTGC 59.056 43.478 0.00 0.00 0.00 4.26
945 1166 2.037121 CCATGGTCTGTGACACTGTACA 59.963 50.000 2.57 10.02 33.68 2.90
976 1197 1.277557 GACTTGAGGCAGTGATCAGGT 59.722 52.381 11.67 11.67 38.33 4.00
1220 1442 3.502920 GTGAGGTAGTCATGTGAACTCG 58.497 50.000 0.00 0.00 37.56 4.18
1224 1446 5.163652 TGAGGTAGTCATGTGAACTCGTATG 60.164 44.000 0.00 0.00 0.00 2.39
1238 1460 2.333926 TCGTATGTTCAGAGTTTGGCG 58.666 47.619 0.00 0.00 0.00 5.69
1265 1487 1.322442 GCCTGTTCTTGGCTGAGTTT 58.678 50.000 0.00 0.00 46.38 2.66
1344 1566 6.179040 GGATCTTAGCCAGCAGATATTCAAT 58.821 40.000 0.00 0.00 29.41 2.57
1370 1592 1.278238 GTGCGGTGTAGCTACATCAC 58.722 55.000 31.18 28.35 37.15 3.06
1371 1593 0.174845 TGCGGTGTAGCTACATCACC 59.825 55.000 31.18 24.36 45.46 4.02
1424 1646 4.141846 TGCTTTGCAGGTGAAATTTTGGTA 60.142 37.500 0.00 0.00 33.32 3.25
1523 1745 3.752747 GGAAAATTCCCCACTGCATTTTG 59.247 43.478 0.43 0.00 41.62 2.44
1524 1746 4.388485 GAAAATTCCCCACTGCATTTTGT 58.612 39.130 0.00 0.00 30.66 2.83
1531 1753 5.303971 TCCCCACTGCATTTTGTTTTATTG 58.696 37.500 0.00 0.00 0.00 1.90
1707 1934 6.640518 TCTTGTGTATTATCAGGGAGTGAAC 58.359 40.000 0.00 0.00 39.19 3.18
1715 1942 1.214175 TCAGGGAGTGAACAAAGGCAA 59.786 47.619 0.00 0.00 29.64 4.52
1716 1943 2.158475 TCAGGGAGTGAACAAAGGCAAT 60.158 45.455 0.00 0.00 29.64 3.56
1717 1944 3.073798 TCAGGGAGTGAACAAAGGCAATA 59.926 43.478 0.00 0.00 29.64 1.90
1718 1945 3.826157 CAGGGAGTGAACAAAGGCAATAA 59.174 43.478 0.00 0.00 0.00 1.40
1719 1946 4.082125 AGGGAGTGAACAAAGGCAATAAG 58.918 43.478 0.00 0.00 0.00 1.73
1720 1947 3.193479 GGGAGTGAACAAAGGCAATAAGG 59.807 47.826 0.00 0.00 0.00 2.69
1721 1948 3.367395 GGAGTGAACAAAGGCAATAAGGC 60.367 47.826 0.00 0.00 44.61 4.35
1738 1965 7.516481 CAATAAGGCATCTTATCAGACATTCG 58.484 38.462 0.00 0.00 43.31 3.34
2022 2256 6.108687 CCAGAAAAGAAAACTTGAAGGCTTT 58.891 36.000 0.00 0.00 0.00 3.51
2048 2282 1.817209 CTCTGGGACGAGTTAGCCC 59.183 63.158 0.00 0.00 42.38 5.19
2317 2551 7.295952 GTCAGGTAAGTGATGACAATAGTTG 57.704 40.000 0.00 0.00 42.30 3.16
2571 2805 4.444056 CCTGAACCAATTGTTTGTAAAGCG 59.556 41.667 4.43 0.00 37.29 4.68
2576 2810 2.044888 ATTGTTTGTAAAGCGTGCCG 57.955 45.000 0.00 0.00 0.00 5.69
2666 2900 5.439721 AGTCACTATAAGAATTGGCATGCA 58.560 37.500 21.36 0.00 0.00 3.96
2859 3093 6.875076 TCTTCTATGGCTAGTCTAAACCAAC 58.125 40.000 5.59 0.00 35.41 3.77
2921 3155 6.872020 CCTTCTCCTTGTGTAGATTTTACGAA 59.128 38.462 0.00 0.00 0.00 3.85
2958 3192 5.284079 CAACTGTCTTGCTGCAAAATAAGT 58.716 37.500 16.74 13.64 0.00 2.24
3187 3424 9.474313 TTGTTTGGAAGCTATATCAGGTTTTAT 57.526 29.630 0.00 0.00 44.94 1.40
3229 3466 2.616256 CCTGCTGTTGATGCTACTTCCA 60.616 50.000 0.00 0.00 0.00 3.53
3230 3467 2.417933 CTGCTGTTGATGCTACTTCCAC 59.582 50.000 0.00 0.00 0.00 4.02
3232 3469 2.160417 GCTGTTGATGCTACTTCCACAC 59.840 50.000 0.00 0.00 0.00 3.82
3368 3629 4.872664 AGTTACCGCAGCAGTCTTATATC 58.127 43.478 0.00 0.00 0.00 1.63
3968 4231 8.997323 ACTCTTTGTTACTTTCTGAGATCATTG 58.003 33.333 0.00 0.00 0.00 2.82
3969 4232 8.908786 TCTTTGTTACTTTCTGAGATCATTGT 57.091 30.769 0.00 0.00 0.00 2.71
3970 4233 8.777413 TCTTTGTTACTTTCTGAGATCATTGTG 58.223 33.333 0.00 0.00 0.00 3.33
3971 4234 8.450578 TTTGTTACTTTCTGAGATCATTGTGT 57.549 30.769 0.00 0.00 0.00 3.72
3972 4235 7.425577 TGTTACTTTCTGAGATCATTGTGTG 57.574 36.000 0.00 0.00 0.00 3.82
3973 4236 6.992123 TGTTACTTTCTGAGATCATTGTGTGT 59.008 34.615 0.00 0.00 0.00 3.72
4174 4442 5.242795 ACACCCTTTTATAGCTCACTGTT 57.757 39.130 0.00 0.00 0.00 3.16
4186 4454 3.515502 AGCTCACTGTTTGGTAGCTCATA 59.484 43.478 0.00 0.00 39.23 2.15
4360 4630 7.981789 TGCTAATATCGAAATTCTTGAGACACT 59.018 33.333 0.00 0.00 0.00 3.55
4562 4834 2.176546 ACGCACGTGAATGCATGC 59.823 55.556 22.23 11.82 46.47 4.06
4609 4881 3.265791 AGAAGGCGCAGATCTTACAAAG 58.734 45.455 10.83 0.00 0.00 2.77
4736 5008 6.271488 TCAAGAAAGATGGCTGGTATTTTG 57.729 37.500 0.00 0.00 0.00 2.44
4746 5018 4.100808 TGGCTGGTATTTTGTCTTTTTGCT 59.899 37.500 0.00 0.00 0.00 3.91
4747 5019 4.448732 GGCTGGTATTTTGTCTTTTTGCTG 59.551 41.667 0.00 0.00 0.00 4.41
4957 5229 3.493334 TGAATCGTGGATCCGGTATACT 58.507 45.455 7.39 0.00 0.00 2.12
4982 5254 0.463116 AACACAACGTGGGGACAGTC 60.463 55.000 0.00 0.00 44.46 3.51
5161 5438 8.996651 TGTCTCACTTCATCTCCTATTACATA 57.003 34.615 0.00 0.00 0.00 2.29
5196 5473 3.123050 TGTCGAATAGTGCAATCATCGG 58.877 45.455 17.63 4.08 0.00 4.18
5219 5496 4.319261 GGTTAACCAACTCGTGCAGTTTAG 60.319 45.833 20.12 0.00 43.38 1.85
5323 5600 4.427312 CCTGCAGAAATTTGTATTGAGCC 58.573 43.478 17.39 0.00 0.00 4.70
5460 5737 2.622942 CTGTTCTGTAGGCCTTTTGCAA 59.377 45.455 12.58 0.00 43.89 4.08
5652 5931 5.232463 ACATTATTCTTGCTGCTTTTGTGG 58.768 37.500 0.00 0.00 0.00 4.17
5733 6030 4.390297 GGAATATATCTTGTCGGCTTCTGC 59.610 45.833 0.00 0.00 38.76 4.26
5811 6108 2.102252 TGTTTTCATCTTGGTGGCCAAC 59.898 45.455 15.99 15.99 38.75 3.77
6200 6498 7.907389 TGAGGTTTATGTGTCTGAACTCTTAT 58.093 34.615 0.00 0.00 0.00 1.73
6300 6603 8.525316 TCTCTTTTACAGTGATTACGGACATTA 58.475 33.333 0.00 0.00 0.00 1.90
6380 6683 1.210931 CACAGACAATGGCTTGGCG 59.789 57.895 0.00 0.00 45.71 5.69
6586 6889 1.376037 CTCTTCGGGGCACTTCCAC 60.376 63.158 0.00 0.00 36.21 4.02
6621 6924 5.880054 AAGATTCCGTATTTCCACTGTTG 57.120 39.130 0.00 0.00 0.00 3.33
6636 6939 5.071788 TCCACTGTTGACCTTTCTAGTGATT 59.928 40.000 0.00 0.00 38.16 2.57
6671 6974 8.276060 TGTCGTTTATAAAATTTGTGAACTGC 57.724 30.769 0.00 2.84 0.00 4.40
6734 7037 4.626042 GGTGTTGCAATAATTTGTGGTCA 58.374 39.130 0.59 0.00 35.17 4.02
6738 7041 6.423302 GTGTTGCAATAATTTGTGGTCATTCA 59.577 34.615 0.59 0.00 35.17 2.57
6749 7052 4.206375 TGTGGTCATTCAGATGTGTTTGT 58.794 39.130 0.00 0.00 34.77 2.83
6805 7108 2.110967 CAATGCAGCTCTCACCGGG 61.111 63.158 6.32 0.00 0.00 5.73
6872 7175 4.319177 GACAAACTGCCTCAGATGTAAGT 58.681 43.478 0.29 0.00 36.12 2.24
6878 7181 1.734465 GCCTCAGATGTAAGTGTGCAC 59.266 52.381 10.75 10.75 0.00 4.57
6937 7241 6.878923 CCTAACATGGTTGTCACTATTTCAGA 59.121 38.462 0.00 0.00 34.06 3.27
6963 7267 2.716017 GGTCTGCGGTCTCTGGAGG 61.716 68.421 0.00 0.00 0.00 4.30
6983 7287 1.221840 CTGCGGTGGGCTAATCACT 59.778 57.895 0.00 0.00 44.05 3.41
6986 7290 0.179045 GCGGTGGGCTAATCACTGAT 60.179 55.000 7.17 0.00 42.42 2.90
7089 7393 2.511659 TGGAGATAATCTCGGGTACGG 58.488 52.381 0.00 0.00 44.28 4.02
7090 7394 2.158564 TGGAGATAATCTCGGGTACGGT 60.159 50.000 0.00 0.00 44.28 4.83
7122 7427 1.232119 TCTTTCTTTCGTTTCCCCGC 58.768 50.000 0.00 0.00 0.00 6.13
7129 7434 0.179040 TTCGTTTCCCCGCAACTTCT 60.179 50.000 0.00 0.00 0.00 2.85
7160 7465 9.159254 TGATCCTCACAGTTATATATCCTTGTT 57.841 33.333 0.00 0.00 0.00 2.83
7193 7498 1.337823 GCTTTGGTCTCGCTGAACCTA 60.338 52.381 0.00 0.00 0.00 3.08
7585 7896 6.612247 TGGTATGTAAAATGTAATGGCTCG 57.388 37.500 0.00 0.00 0.00 5.03
7591 7902 4.593597 AAAATGTAATGGCTCGTGTACG 57.406 40.909 0.00 0.00 41.45 3.67
7616 7927 2.929398 CAGTTGGTGTTTGCCAAGTTTC 59.071 45.455 2.73 0.00 46.76 2.78
7622 7933 1.010574 TTTGCCAAGTTTCGTCGCG 60.011 52.632 0.00 0.00 0.00 5.87
7644 7955 1.755380 GGTGCTACGATCCTGGTTACT 59.245 52.381 0.00 0.00 0.00 2.24
7731 8042 4.523173 TGGTACCAAACAACTCACAAACAA 59.477 37.500 13.60 0.00 0.00 2.83
7732 8043 4.860352 GGTACCAAACAACTCACAAACAAC 59.140 41.667 7.15 0.00 0.00 3.32
7733 8044 4.864704 ACCAAACAACTCACAAACAACT 57.135 36.364 0.00 0.00 0.00 3.16
7734 8045 4.805219 ACCAAACAACTCACAAACAACTC 58.195 39.130 0.00 0.00 0.00 3.01
7735 8046 4.279671 ACCAAACAACTCACAAACAACTCA 59.720 37.500 0.00 0.00 0.00 3.41
7736 8047 4.621034 CCAAACAACTCACAAACAACTCAC 59.379 41.667 0.00 0.00 0.00 3.51
7737 8048 5.218885 CAAACAACTCACAAACAACTCACA 58.781 37.500 0.00 0.00 0.00 3.58
7738 8049 5.643379 AACAACTCACAAACAACTCACAT 57.357 34.783 0.00 0.00 0.00 3.21
7739 8050 6.751514 AACAACTCACAAACAACTCACATA 57.248 33.333 0.00 0.00 0.00 2.29
7740 8051 6.751514 ACAACTCACAAACAACTCACATAA 57.248 33.333 0.00 0.00 0.00 1.90
7741 8052 6.785191 ACAACTCACAAACAACTCACATAAG 58.215 36.000 0.00 0.00 0.00 1.73
7742 8053 6.183360 ACAACTCACAAACAACTCACATAAGG 60.183 38.462 0.00 0.00 0.00 2.69
7743 8054 5.680619 ACTCACAAACAACTCACATAAGGA 58.319 37.500 0.00 0.00 0.00 3.36
7744 8055 6.299141 ACTCACAAACAACTCACATAAGGAT 58.701 36.000 0.00 0.00 0.00 3.24
7765 8076 1.971357 CCTATGCACGGAGGGTCTTAT 59.029 52.381 0.00 0.00 0.00 1.73
7821 8132 5.324409 AGGTTCAATTGGATGCTCAAACTA 58.676 37.500 5.42 0.00 0.00 2.24
7906 8217 2.708861 TGCTTTGTGAGGGAGGAGTTAA 59.291 45.455 0.00 0.00 0.00 2.01
7939 8250 5.713792 TTCGGAGCAATTTGGAAATGTTA 57.286 34.783 0.00 0.00 0.00 2.41
7942 8253 4.082245 CGGAGCAATTTGGAAATGTTAGGT 60.082 41.667 0.00 0.00 0.00 3.08
8053 8364 7.665559 AGACCAAACATCAAAATGCTACTTCTA 59.334 33.333 0.00 0.00 36.26 2.10
8073 8384 5.193679 TCTATGATCAAGAGGAAGACACGA 58.806 41.667 0.00 0.00 0.00 4.35
8102 8413 3.181473 ACATCTTGCAGCAATGTGTGTTT 60.181 39.130 19.36 1.50 32.58 2.83
8285 8596 3.416156 GACACTTTGGAAGCAGAGGAAT 58.584 45.455 0.00 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 1.275421 GGAGGAGGAAAGGTGGGGAG 61.275 65.000 0.00 0.00 0.00 4.30
195 201 4.473520 AATCAGGCCACCGGAGCG 62.474 66.667 9.46 0.00 30.24 5.03
345 351 4.766375 TCTGGATTGGAATAACCGAAGAC 58.234 43.478 0.00 0.00 42.61 3.01
368 374 3.993081 CGAAGTGCAAAAATGCCCAAATA 59.007 39.130 0.00 0.00 0.00 1.40
386 392 2.357517 ACGGCAGGCAGAACGAAG 60.358 61.111 0.00 0.00 0.00 3.79
436 442 6.091305 CGGATGAATATGCAACAGTATCGAAT 59.909 38.462 0.00 0.00 0.00 3.34
454 490 2.075355 AACCAACCCCTGCGGATGAA 62.075 55.000 0.00 0.00 36.51 2.57
518 554 1.378514 GGGCGTCCAATCACCACAT 60.379 57.895 0.00 0.00 0.00 3.21
657 758 1.160137 GAGTTGCACTGCAGTAAGGG 58.840 55.000 21.20 8.42 40.61 3.95
722 941 0.666913 AAGCTTGAGTTGCACTGCAG 59.333 50.000 13.48 13.48 40.61 4.41
723 942 1.965935 TAAGCTTGAGTTGCACTGCA 58.034 45.000 9.86 0.00 36.47 4.41
724 943 3.240069 CAATAAGCTTGAGTTGCACTGC 58.760 45.455 9.86 0.00 0.00 4.40
725 944 3.254166 ACCAATAAGCTTGAGTTGCACTG 59.746 43.478 9.86 2.20 0.00 3.66
726 945 3.490348 ACCAATAAGCTTGAGTTGCACT 58.510 40.909 9.86 0.00 0.00 4.40
727 946 3.923017 ACCAATAAGCTTGAGTTGCAC 57.077 42.857 9.86 0.00 0.00 4.57
728 947 7.880160 ATATAACCAATAAGCTTGAGTTGCA 57.120 32.000 9.86 0.00 0.00 4.08
729 948 8.405531 TCAATATAACCAATAAGCTTGAGTTGC 58.594 33.333 9.86 0.00 0.00 4.17
730 949 9.722056 GTCAATATAACCAATAAGCTTGAGTTG 57.278 33.333 9.86 11.09 0.00 3.16
731 950 9.461312 TGTCAATATAACCAATAAGCTTGAGTT 57.539 29.630 9.86 9.49 0.00 3.01
732 951 9.461312 TTGTCAATATAACCAATAAGCTTGAGT 57.539 29.630 9.86 0.00 0.00 3.41
755 974 9.771534 GCTAGGAAATTACTATCAGAAGATTGT 57.228 33.333 0.00 0.00 41.82 2.71
756 975 9.995003 AGCTAGGAAATTACTATCAGAAGATTG 57.005 33.333 0.00 0.00 35.67 2.67
757 976 9.995003 CAGCTAGGAAATTACTATCAGAAGATT 57.005 33.333 0.00 0.00 35.67 2.40
758 977 8.093927 GCAGCTAGGAAATTACTATCAGAAGAT 58.906 37.037 0.00 0.00 38.29 2.40
759 978 7.069950 TGCAGCTAGGAAATTACTATCAGAAGA 59.930 37.037 0.00 0.00 0.00 2.87
760 979 7.212976 TGCAGCTAGGAAATTACTATCAGAAG 58.787 38.462 0.00 0.00 0.00 2.85
761 980 7.124573 TGCAGCTAGGAAATTACTATCAGAA 57.875 36.000 0.00 0.00 0.00 3.02
762 981 6.325028 ACTGCAGCTAGGAAATTACTATCAGA 59.675 38.462 15.27 0.00 0.00 3.27
763 982 6.423302 CACTGCAGCTAGGAAATTACTATCAG 59.577 42.308 15.27 0.00 0.00 2.90
764 983 6.283694 CACTGCAGCTAGGAAATTACTATCA 58.716 40.000 15.27 0.00 0.00 2.15
765 984 5.178438 GCACTGCAGCTAGGAAATTACTATC 59.822 44.000 15.27 0.00 0.00 2.08
766 985 5.059833 GCACTGCAGCTAGGAAATTACTAT 58.940 41.667 15.27 0.00 0.00 2.12
767 986 4.081142 TGCACTGCAGCTAGGAAATTACTA 60.081 41.667 15.27 0.00 33.32 1.82
768 987 3.274288 GCACTGCAGCTAGGAAATTACT 58.726 45.455 15.27 0.00 0.00 2.24
769 988 3.009723 TGCACTGCAGCTAGGAAATTAC 58.990 45.455 15.27 0.00 33.32 1.89
770 989 3.348647 TGCACTGCAGCTAGGAAATTA 57.651 42.857 15.27 0.00 33.32 1.40
771 990 2.205022 TGCACTGCAGCTAGGAAATT 57.795 45.000 15.27 0.00 33.32 1.82
772 991 2.089980 CTTGCACTGCAGCTAGGAAAT 58.910 47.619 15.27 0.00 40.61 2.17
773 992 1.202806 ACTTGCACTGCAGCTAGGAAA 60.203 47.619 15.27 0.94 40.61 3.13
774 993 0.397941 ACTTGCACTGCAGCTAGGAA 59.602 50.000 15.27 10.70 40.61 3.36
775 994 0.036952 GACTTGCACTGCAGCTAGGA 60.037 55.000 15.27 2.12 40.61 2.94
776 995 0.321034 TGACTTGCACTGCAGCTAGG 60.321 55.000 15.27 3.26 40.61 3.02
777 996 1.463831 CTTGACTTGCACTGCAGCTAG 59.536 52.381 15.27 10.71 40.61 3.42
778 997 1.516161 CTTGACTTGCACTGCAGCTA 58.484 50.000 15.27 0.00 40.61 3.32
779 998 1.793134 GCTTGACTTGCACTGCAGCT 61.793 55.000 15.27 0.00 40.61 4.24
780 999 1.371389 GCTTGACTTGCACTGCAGC 60.371 57.895 15.27 1.39 40.61 5.25
869 1088 8.218338 ACACCTTGATTCTCTAGCATTAATTG 57.782 34.615 0.00 0.00 0.00 2.32
873 1092 5.451937 CGGACACCTTGATTCTCTAGCATTA 60.452 44.000 0.00 0.00 0.00 1.90
874 1093 4.681781 CGGACACCTTGATTCTCTAGCATT 60.682 45.833 0.00 0.00 0.00 3.56
882 1101 1.279271 CTTCCCGGACACCTTGATTCT 59.721 52.381 0.73 0.00 0.00 2.40
888 1107 2.421529 GCATATTCTTCCCGGACACCTT 60.422 50.000 0.73 0.00 0.00 3.50
894 1115 1.507140 AGGTGCATATTCTTCCCGGA 58.493 50.000 0.73 0.00 0.00 5.14
905 1126 1.340017 GGGCAGACTCAAAGGTGCATA 60.340 52.381 0.00 0.00 37.68 3.14
907 1128 1.228245 GGGCAGACTCAAAGGTGCA 60.228 57.895 0.00 0.00 37.68 4.57
914 1135 0.325933 CAGACCATGGGCAGACTCAA 59.674 55.000 22.78 0.00 0.00 3.02
922 1143 0.957395 CAGTGTCACAGACCATGGGC 60.957 60.000 18.09 14.76 29.64 5.36
923 1144 0.397941 ACAGTGTCACAGACCATGGG 59.602 55.000 18.09 0.00 0.00 4.00
945 1166 3.321039 TGCCTCAAGTCTATGGATGGAT 58.679 45.455 0.00 0.00 0.00 3.41
976 1197 3.730662 GCGAGTTCTTGCACTGAACAAAA 60.731 43.478 24.66 0.00 44.30 2.44
1098 1320 4.360027 CTGCGTGACAGCGTGTGC 62.360 66.667 0.00 0.00 40.19 4.57
1170 1392 1.101049 CCACGCAAAGTTCCACCAGT 61.101 55.000 0.00 0.00 0.00 4.00
1216 1438 3.326747 GCCAAACTCTGAACATACGAGT 58.673 45.455 0.00 0.00 39.53 4.18
1220 1442 3.424962 GCTTCGCCAAACTCTGAACATAC 60.425 47.826 0.00 0.00 0.00 2.39
1224 1446 0.944386 TGCTTCGCCAAACTCTGAAC 59.056 50.000 0.00 0.00 0.00 3.18
1238 1460 2.358939 CCAAGAACAGGCATTGCTTC 57.641 50.000 8.82 4.88 0.00 3.86
1250 1472 3.191371 CCCACATAAACTCAGCCAAGAAC 59.809 47.826 0.00 0.00 0.00 3.01
1265 1487 1.632920 TGTCCTGCAATCACCCACATA 59.367 47.619 0.00 0.00 0.00 2.29
1344 1566 1.301401 GCTACACCGCACCAGTTCA 60.301 57.895 0.00 0.00 0.00 3.18
1370 1592 2.581354 CTCCCAGCAACTCCTCGG 59.419 66.667 0.00 0.00 0.00 4.63
1371 1593 2.125350 GCTCCCAGCAACTCCTCG 60.125 66.667 0.00 0.00 41.89 4.63
1531 1753 9.950496 ATCATTCTTCTGTACATAACCCATATC 57.050 33.333 0.00 0.00 0.00 1.63
1566 1788 7.056844 ACAGGGATAAGCTAGACTTGTATTC 57.943 40.000 8.98 2.93 39.58 1.75
1682 1907 6.867519 TCACTCCCTGATAATACACAAGAA 57.132 37.500 0.00 0.00 0.00 2.52
1707 1934 6.263842 TCTGATAAGATGCCTTATTGCCTTTG 59.736 38.462 0.00 0.00 43.59 2.77
1715 1942 6.763355 ACGAATGTCTGATAAGATGCCTTAT 58.237 36.000 0.00 0.00 45.57 1.73
1716 1943 6.161855 ACGAATGTCTGATAAGATGCCTTA 57.838 37.500 0.00 0.00 39.04 2.69
1717 1944 5.028549 ACGAATGTCTGATAAGATGCCTT 57.971 39.130 0.00 0.00 36.43 4.35
1718 1945 4.679373 ACGAATGTCTGATAAGATGCCT 57.321 40.909 0.00 0.00 0.00 4.75
1719 1946 4.572389 ACAACGAATGTCTGATAAGATGCC 59.428 41.667 0.00 0.00 37.96 4.40
1720 1947 5.725110 ACAACGAATGTCTGATAAGATGC 57.275 39.130 0.00 0.00 37.96 3.91
1721 1948 6.092670 ACCAACAACGAATGTCTGATAAGATG 59.907 38.462 0.00 0.00 42.99 2.90
1722 1949 6.173339 ACCAACAACGAATGTCTGATAAGAT 58.827 36.000 0.00 0.00 42.99 2.40
1738 1965 5.234752 AGTGAACCTTGAAAAACCAACAAC 58.765 37.500 0.00 0.00 0.00 3.32
2022 2256 2.060004 CTCGTCCCAGAGCGCGATAA 62.060 60.000 12.10 0.00 32.79 1.75
2048 2282 8.562892 GTGGAAGATCAATTGGTTGTCATATAG 58.437 37.037 5.42 0.00 36.69 1.31
2316 2550 0.523519 CAGACTCGCACAGCTACTCA 59.476 55.000 0.00 0.00 0.00 3.41
2317 2551 0.179150 CCAGACTCGCACAGCTACTC 60.179 60.000 0.00 0.00 0.00 2.59
2351 2585 9.926751 GAAGACACACATCATACATCATAAAAG 57.073 33.333 0.00 0.00 0.00 2.27
2571 2805 5.298276 TGGAATAAATTAGGTGATTCGGCAC 59.702 40.000 0.00 0.00 38.05 5.01
2618 2852 9.225201 CTACAAACAAATGTATGTATCACATGC 57.775 33.333 2.07 1.51 39.53 4.06
2666 2900 2.484264 GCGGAATGCGAATAAATAGGCT 59.516 45.455 0.00 0.00 0.00 4.58
2705 2939 4.202010 GCAACAGAGGCAAGTAGTTTTTCA 60.202 41.667 0.00 0.00 0.00 2.69
2921 3155 3.133721 AGACAGTTGCAACTCTCTCAAGT 59.866 43.478 28.97 20.81 37.08 3.16
2958 3192 6.768483 TCTCAGATAAGAAACACCACAATCA 58.232 36.000 0.00 0.00 0.00 2.57
3187 3424 5.544176 CAGGGTGCTCTATAAGGAAAGGATA 59.456 44.000 0.00 0.00 0.00 2.59
3229 3466 5.193679 AGACTAAGCCAAAGAAACTTGTGT 58.806 37.500 0.00 0.00 0.00 3.72
3230 3467 5.757850 AGACTAAGCCAAAGAAACTTGTG 57.242 39.130 0.00 0.00 0.00 3.33
3232 3469 5.973565 CACAAGACTAAGCCAAAGAAACTTG 59.026 40.000 0.00 0.00 38.34 3.16
3776 4039 2.012673 CCAGATAGTGAGCTTGCAACC 58.987 52.381 0.00 0.00 0.00 3.77
3968 4231 1.149987 CCCATTTTGCATGCACACAC 58.850 50.000 22.58 0.00 0.00 3.82
3969 4232 1.046204 TCCCATTTTGCATGCACACA 58.954 45.000 22.58 7.56 0.00 3.72
3970 4233 2.389962 ATCCCATTTTGCATGCACAC 57.610 45.000 22.58 0.00 0.00 3.82
3971 4234 2.830321 TGTATCCCATTTTGCATGCACA 59.170 40.909 22.58 12.14 0.00 4.57
3972 4235 3.523606 TGTATCCCATTTTGCATGCAC 57.476 42.857 22.58 5.19 0.00 4.57
3973 4236 3.451540 ACATGTATCCCATTTTGCATGCA 59.548 39.130 18.46 18.46 37.73 3.96
4174 4442 2.168521 GCACCAGACTATGAGCTACCAA 59.831 50.000 0.00 0.00 0.00 3.67
4186 4454 2.282040 GCAAGGCAGCACCAGACT 60.282 61.111 0.00 0.00 43.14 3.24
4349 4619 3.081804 TGCGTAGATGAGTGTCTCAAGA 58.918 45.455 3.58 0.00 44.04 3.02
4360 4630 2.480037 CACTTGTTGCTTGCGTAGATGA 59.520 45.455 0.00 0.00 0.00 2.92
4560 4832 7.389607 GGTACTTTCTTCTACTACAAAATGGCA 59.610 37.037 0.00 0.00 0.00 4.92
4562 4834 7.816031 TCGGTACTTTCTTCTACTACAAAATGG 59.184 37.037 0.00 0.00 0.00 3.16
4609 4881 3.974871 TCGTTTGGGTTTTCTAGTTGC 57.025 42.857 0.00 0.00 0.00 4.17
4957 5229 2.422832 GTCCCCACGTTGTGTTGTTTAA 59.577 45.455 0.00 0.00 0.00 1.52
4982 5254 7.041508 GGAAGGAGCAAAGAACATCATATACAG 60.042 40.741 0.00 0.00 0.00 2.74
5122 5399 6.433093 TGAAGTGAGACATGCTACTACAGTTA 59.567 38.462 0.00 0.00 0.00 2.24
5196 5473 1.589803 ACTGCACGAGTTGGTTAACC 58.410 50.000 18.27 18.27 37.52 2.85
5219 5496 4.924305 ATCATATGCCATTCCACAACAC 57.076 40.909 0.00 0.00 0.00 3.32
5323 5600 5.313623 CGCTAAAATCGTCTAACCACAAAG 58.686 41.667 0.00 0.00 0.00 2.77
5652 5931 4.446719 CAGCAGAAGCAAGTTCAATTTTCC 59.553 41.667 0.00 0.00 45.49 3.13
5705 5984 4.588951 AGCCGACAAGATATATTCCAGTGA 59.411 41.667 0.00 0.00 0.00 3.41
5837 6134 0.777446 AGGTAGGCAGCCCAGAAAAA 59.223 50.000 8.22 0.00 0.00 1.94
6300 6603 3.225104 TGCCAGCAATTTTCTTCAGACT 58.775 40.909 0.00 0.00 0.00 3.24
6380 6683 5.358442 TCTGAGAGACATACTTGTAAGAGCC 59.642 44.000 0.00 0.00 35.79 4.70
6586 6889 2.379005 GGAATCTTAGGGGCAAGGTTG 58.621 52.381 0.00 0.00 28.92 3.77
6655 6958 6.593382 GCCCATATTGCAGTTCACAAATTTTA 59.407 34.615 0.00 0.00 0.00 1.52
6657 6960 4.937015 GCCCATATTGCAGTTCACAAATTT 59.063 37.500 0.00 0.00 0.00 1.82
6660 6963 2.896044 TGCCCATATTGCAGTTCACAAA 59.104 40.909 0.00 0.00 34.05 2.83
6734 7037 8.795513 TGATGTTATGAACAAACACATCTGAAT 58.204 29.630 17.18 0.00 45.86 2.57
6738 7041 6.204688 ACGTGATGTTATGAACAAACACATCT 59.795 34.615 21.26 9.30 45.86 2.90
6749 7052 5.703592 ACTTTAGCCAACGTGATGTTATGAA 59.296 36.000 0.00 0.00 39.29 2.57
6805 7108 4.679654 CCAAAAAGATCAAGGTGCGTTAAC 59.320 41.667 0.00 0.00 0.00 2.01
6872 7175 6.493449 TGATCTTTGATTTAATCGTGCACA 57.507 33.333 18.64 4.45 0.00 4.57
6937 7241 0.693049 AGACCGCAGACCCTTGAAAT 59.307 50.000 0.00 0.00 0.00 2.17
6963 7267 1.090052 GTGATTAGCCCACCGCAGAC 61.090 60.000 0.00 0.00 41.38 3.51
6983 7287 3.008266 TGATGTTCTTCACTCCAGCATCA 59.992 43.478 0.00 0.00 38.87 3.07
6986 7290 3.405831 CTTGATGTTCTTCACTCCAGCA 58.594 45.455 0.00 0.00 0.00 4.41
7089 7393 5.506138 CGAAAGAAAGAATGCGAAAGATGAC 59.494 40.000 0.00 0.00 0.00 3.06
7090 7394 5.179368 ACGAAAGAAAGAATGCGAAAGATGA 59.821 36.000 0.00 0.00 0.00 2.92
7160 7465 4.269523 AAAGCGGTCAGGCCTGCA 62.270 61.111 28.91 14.20 38.58 4.41
7193 7498 3.148279 GACACCCGGGAGCTCGAT 61.148 66.667 32.02 1.53 0.00 3.59
7229 7534 4.399395 TTCTGCAGCGGCCTCAGG 62.399 66.667 9.47 0.00 40.13 3.86
7359 7664 2.284625 AGATGGACGGAGGTGCCA 60.285 61.111 0.00 0.00 35.94 4.92
7585 7896 4.580528 CAAACACCAACTGTTACGTACAC 58.419 43.478 0.00 0.00 42.70 2.90
7591 7902 3.119280 ACTTGGCAAACACCAACTGTTAC 60.119 43.478 0.00 0.00 44.80 2.50
7609 7920 1.083657 CACCACGCGACGAAACTTG 60.084 57.895 15.93 0.00 0.00 3.16
7622 7933 0.249398 AACCAGGATCGTAGCACCAC 59.751 55.000 0.00 0.00 0.00 4.16
7644 7955 4.944249 CGATCCGCGCTGAGAATA 57.056 55.556 5.56 0.00 0.00 1.75
7731 8042 4.262207 CGTGCATAGGATCCTTATGTGAGT 60.262 45.833 22.03 0.00 0.00 3.41
7732 8043 4.240888 CGTGCATAGGATCCTTATGTGAG 58.759 47.826 22.03 11.72 0.00 3.51
7733 8044 3.006859 CCGTGCATAGGATCCTTATGTGA 59.993 47.826 22.03 0.00 0.00 3.58
7734 8045 3.006859 TCCGTGCATAGGATCCTTATGTG 59.993 47.826 22.03 14.60 31.86 3.21
7735 8046 3.239449 TCCGTGCATAGGATCCTTATGT 58.761 45.455 22.03 0.90 31.86 2.29
7736 8047 3.368843 CCTCCGTGCATAGGATCCTTATG 60.369 52.174 22.03 20.17 37.13 1.90
7737 8048 2.834549 CCTCCGTGCATAGGATCCTTAT 59.165 50.000 22.03 8.66 37.13 1.73
7738 8049 2.248248 CCTCCGTGCATAGGATCCTTA 58.752 52.381 22.03 6.48 37.13 2.69
7739 8050 1.051812 CCTCCGTGCATAGGATCCTT 58.948 55.000 22.03 5.03 37.13 3.36
7740 8051 0.833834 CCCTCCGTGCATAGGATCCT 60.834 60.000 20.48 20.48 37.13 3.24
7741 8052 1.122019 ACCCTCCGTGCATAGGATCC 61.122 60.000 13.29 2.48 37.13 3.36
7742 8053 0.318762 GACCCTCCGTGCATAGGATC 59.681 60.000 13.29 3.18 37.13 3.36
7743 8054 0.105453 AGACCCTCCGTGCATAGGAT 60.105 55.000 13.29 0.00 37.13 3.24
7744 8055 0.325296 AAGACCCTCCGTGCATAGGA 60.325 55.000 12.46 12.46 34.58 2.94
7768 8079 1.278127 TCTCCCAAAGTCCGATGAACC 59.722 52.381 0.00 0.00 0.00 3.62
7906 8217 5.712152 AATTGCTCCGAAAGAGTGAAATT 57.288 34.783 0.00 0.00 45.21 1.82
8053 8364 4.498850 CGATCGTGTCTTCCTCTTGATCAT 60.499 45.833 7.03 0.00 32.36 2.45
8057 8368 2.161808 GTCGATCGTGTCTTCCTCTTGA 59.838 50.000 15.94 0.00 0.00 3.02
8073 8384 0.036105 TGCTGCAAGATGTGGTCGAT 60.036 50.000 0.00 0.00 34.07 3.59
8102 8413 2.719531 TGTACCACACTTGCCTTGAA 57.280 45.000 0.00 0.00 0.00 2.69
8290 8601 5.902681 TGATTTGACTCGATCCGAATACTT 58.097 37.500 0.00 0.00 34.74 2.24
8306 8617 6.376299 CAGTCTCCCATTCATTCTTGATTTGA 59.624 38.462 0.00 0.00 0.00 2.69


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

AutoCloner maintained by Alex Coulton.