Multiple sequence alignment - TraesCS5A01G199400

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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 TraesCS5A01G199400 chr5A 100.000 4241 0 0 1 4241 404231549 404227309 0.000000e+00 7832.0
1 TraesCS5A01G199400 chr5A 81.699 153 17 7 4088 4239 664818426 664818284 2.680000e-22 117.0
2 TraesCS5A01G199400 chr5B 95.842 2814 102 7 943 3750 356718987 356716183 0.000000e+00 4534.0
3 TraesCS5A01G199400 chr5B 85.362 567 33 18 1 553 356720039 356719509 3.730000e-150 542.0
4 TraesCS5A01G199400 chr5B 95.738 305 12 1 3938 4241 356716190 356715886 1.370000e-134 490.0
5 TraesCS5A01G199400 chr5B 86.624 157 13 5 641 789 356719279 356719123 2.620000e-37 167.0
6 TraesCS5A01G199400 chr5D 94.833 2632 104 12 1120 3737 310696789 310694176 0.000000e+00 4078.0
7 TraesCS5A01G199400 chr5D 86.126 555 28 22 10 552 310698162 310697645 1.720000e-153 553.0
8 TraesCS5A01G199400 chr3A 85.395 2013 272 19 1181 3178 657615636 657613631 0.000000e+00 2069.0
9 TraesCS5A01G199400 chr3A 98.942 189 0 1 3749 3937 75962041 75962227 1.890000e-88 337.0
10 TraesCS5A01G199400 chr3A 98.429 191 1 1 3751 3941 329511723 329511535 6.790000e-88 335.0
11 TraesCS5A01G199400 chr3A 91.139 79 6 1 4160 4237 544984175 544984253 5.800000e-19 106.0
12 TraesCS5A01G199400 chr3B 85.288 2012 278 14 1181 3178 689420459 689418452 0.000000e+00 2060.0
13 TraesCS5A01G199400 chr3B 98.039 204 1 3 3741 3942 542124090 542123888 6.750000e-93 351.0
14 TraesCS5A01G199400 chr3D 85.141 2019 270 21 1182 3178 522950488 522948478 0.000000e+00 2039.0
15 TraesCS5A01G199400 chr7B 77.424 1289 239 32 1930 3174 3087848 3086568 0.000000e+00 721.0
16 TraesCS5A01G199400 chr7B 80.218 733 119 18 1217 1927 3093540 3092812 1.040000e-145 527.0
17 TraesCS5A01G199400 chr7B 98.942 189 0 1 3750 3938 51073644 51073830 1.890000e-88 337.0
18 TraesCS5A01G199400 chr6B 98.942 189 0 1 3749 3937 259289862 259290048 1.890000e-88 337.0
19 TraesCS5A01G199400 chr2B 96.585 205 4 2 3751 3954 66807725 66807523 1.890000e-88 337.0
20 TraesCS5A01G199400 chr2B 98.429 191 1 1 3751 3941 294040081 294040269 6.790000e-88 335.0
21 TraesCS5A01G199400 chr1B 98.429 191 1 1 3751 3941 288394631 288394443 6.790000e-88 335.0
22 TraesCS5A01G199400 chr1B 93.243 74 5 0 4166 4239 522745451 522745524 4.480000e-20 110.0
23 TraesCS5A01G199400 chr4A 96.985 199 2 3 3745 3942 278350763 278350568 8.790000e-87 331.0
24 TraesCS5A01G199400 chr4A 88.372 86 10 0 4154 4239 689667002 689667087 2.090000e-18 104.0
25 TraesCS5A01G199400 chr4D 82.237 152 18 5 4089 4239 4126344 4126487 5.760000e-24 122.0
26 TraesCS5A01G199400 chr6D 80.519 154 21 4 4087 4239 316824190 316824045 4.480000e-20 110.0
27 TraesCS5A01G199400 chr6A 89.333 75 6 2 4154 4227 421467582 421467655 4.520000e-15 93.5
28 TraesCS5A01G199400 chr7A 85.714 77 8 3 4166 4239 550051543 550051619 1.260000e-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 TraesCS5A01G199400 chr5A 404227309 404231549 4240 True 7832.00 7832 100.0000 1 4241 1 chr5A.!!$R1 4240
1 TraesCS5A01G199400 chr5B 356715886 356720039 4153 True 1433.25 4534 90.8915 1 4241 4 chr5B.!!$R1 4240
2 TraesCS5A01G199400 chr5D 310694176 310698162 3986 True 2315.50 4078 90.4795 10 3737 2 chr5D.!!$R1 3727
3 TraesCS5A01G199400 chr3A 657613631 657615636 2005 True 2069.00 2069 85.3950 1181 3178 1 chr3A.!!$R2 1997
4 TraesCS5A01G199400 chr3B 689418452 689420459 2007 True 2060.00 2060 85.2880 1181 3178 1 chr3B.!!$R2 1997
5 TraesCS5A01G199400 chr3D 522948478 522950488 2010 True 2039.00 2039 85.1410 1182 3178 1 chr3D.!!$R1 1996
6 TraesCS5A01G199400 chr7B 3086568 3087848 1280 True 721.00 721 77.4240 1930 3174 1 chr7B.!!$R1 1244
7 TraesCS5A01G199400 chr7B 3092812 3093540 728 True 527.00 527 80.2180 1217 1927 1 chr7B.!!$R2 710

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
671 889 1.002900 TGCCGCGTTTTCTTCTTCTTG 60.003 47.619 4.92 0.0 0.0 3.02 F
1017 1291 0.391130 CGATGCGGAGGTGGAAGAAA 60.391 55.000 0.00 0.0 0.0 2.52 F
2847 3373 0.748005 ACTTCAGCAGCAACAACCGT 60.748 50.000 0.00 0.0 0.0 4.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1884 2379 2.361610 ATGCAGAAGGGGCGGTTG 60.362 61.111 0.0 0.0 0.00 3.77 R
2856 3382 1.227823 CTTGTTCGCCCACAGGACA 60.228 57.895 0.0 0.0 33.47 4.02 R
3757 4297 0.108041 CGCCTTAGGGACGCCTTTAA 60.108 55.000 0.0 0.0 33.58 1.52 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
31 32 6.038714 GCTTGGGATTTCCTGATAACAACTAG 59.961 42.308 0.00 0.00 36.20 2.57
84 88 9.627123 TCTTTCTTTTCTTTCCTTGTGAAGATA 57.373 29.630 0.00 0.00 33.63 1.98
85 89 9.670719 CTTTCTTTTCTTTCCTTGTGAAGATAC 57.329 33.333 0.00 0.00 33.63 2.24
86 90 7.421530 TCTTTTCTTTCCTTGTGAAGATACG 57.578 36.000 0.00 0.00 33.63 3.06
109 113 1.006813 ATGGAGCAACCCCACCATTA 58.993 50.000 0.00 0.00 39.69 1.90
206 221 2.184167 CAACGAACACCAACGGCCT 61.184 57.895 0.00 0.00 0.00 5.19
208 223 1.033202 AACGAACACCAACGGCCTTT 61.033 50.000 0.00 0.00 0.00 3.11
253 268 1.916697 GCAAGCAAGGGAGAAGCGAC 61.917 60.000 0.00 0.00 0.00 5.19
255 270 2.788191 AAGCAAGGGAGAAGCGACGG 62.788 60.000 0.00 0.00 0.00 4.79
289 304 2.919387 GCCATCGCCATGATTCATTTCG 60.919 50.000 0.00 3.95 34.13 3.46
350 365 1.154413 CACGTTTCGGTGATGCTGC 60.154 57.895 0.00 0.00 40.38 5.25
356 371 3.490759 CGGTGATGCTGCGGTGAC 61.491 66.667 0.00 0.00 0.00 3.67
415 430 1.214062 CTTCTCGCGCTCCTCAACT 59.786 57.895 5.56 0.00 0.00 3.16
419 434 1.347817 CTCGCGCTCCTCAACTCAAC 61.348 60.000 5.56 0.00 0.00 3.18
420 435 1.373497 CGCGCTCCTCAACTCAACT 60.373 57.895 5.56 0.00 0.00 3.16
472 493 3.971032 GCAAGTTGCGAGGCTAATAAT 57.029 42.857 12.95 0.00 31.71 1.28
474 495 5.418310 GCAAGTTGCGAGGCTAATAATAA 57.582 39.130 12.95 0.00 31.71 1.40
475 496 6.002062 GCAAGTTGCGAGGCTAATAATAAT 57.998 37.500 12.95 0.00 31.71 1.28
476 497 7.129109 GCAAGTTGCGAGGCTAATAATAATA 57.871 36.000 12.95 0.00 31.71 0.98
477 498 7.237173 GCAAGTTGCGAGGCTAATAATAATAG 58.763 38.462 12.95 0.00 31.71 1.73
481 502 9.420551 AGTTGCGAGGCTAATAATAATAGTAAC 57.579 33.333 0.00 0.00 0.00 2.50
537 558 2.024176 ACGCAACCACTCCATCATAC 57.976 50.000 0.00 0.00 0.00 2.39
581 708 5.517411 CGAGAATAACAAGGTACGTGCATTA 59.483 40.000 2.60 0.00 42.85 1.90
582 709 6.200286 CGAGAATAACAAGGTACGTGCATTAT 59.800 38.462 2.60 0.00 42.85 1.28
583 710 7.478520 AGAATAACAAGGTACGTGCATTATC 57.521 36.000 2.60 0.00 42.85 1.75
602 802 2.622436 TCTTGTTTTTGGCGTTTTGGG 58.378 42.857 0.00 0.00 0.00 4.12
608 808 1.112113 TTTGGCGTTTTGGGTAAGCA 58.888 45.000 0.00 0.00 0.00 3.91
613 813 2.065512 GCGTTTTGGGTAAGCAAATGG 58.934 47.619 0.00 0.00 0.00 3.16
650 868 6.238759 GGAAATATCTTTCTTCCCCATGTTCG 60.239 42.308 3.86 0.00 40.55 3.95
671 889 1.002900 TGCCGCGTTTTCTTCTTCTTG 60.003 47.619 4.92 0.00 0.00 3.02
673 891 1.663161 CCGCGTTTTCTTCTTCTTGCC 60.663 52.381 4.92 0.00 0.00 4.52
730 951 1.063412 TCGCGTCAATCTCACGTTCG 61.063 55.000 5.77 0.00 39.54 3.95
763 989 2.041928 AGCCAGGAAGGGAGGGAG 59.958 66.667 0.00 0.00 38.09 4.30
770 996 4.332543 AAGGGAGGGAGGGACGCA 62.333 66.667 0.00 0.00 0.00 5.24
801 1027 4.147449 ACGCAGCGGCTATGCTCA 62.147 61.111 21.15 0.00 45.23 4.26
804 1030 2.817423 GCAGCGGCTATGCTCACAC 61.817 63.158 0.26 0.00 45.23 3.82
805 1031 1.448365 CAGCGGCTATGCTCACACA 60.448 57.895 0.26 0.00 45.23 3.72
811 1082 2.162208 CGGCTATGCTCACACACAAAAT 59.838 45.455 0.00 0.00 0.00 1.82
812 1083 3.504863 GGCTATGCTCACACACAAAATG 58.495 45.455 0.00 0.00 0.00 2.32
813 1084 3.191162 GGCTATGCTCACACACAAAATGA 59.809 43.478 0.00 0.00 0.00 2.57
817 1088 6.183360 GCTATGCTCACACACAAAATGAAATG 60.183 38.462 0.00 0.00 0.00 2.32
818 1089 5.259832 TGCTCACACACAAAATGAAATGA 57.740 34.783 0.00 0.00 0.00 2.57
848 1119 2.034999 GCCCGGTCAAACATCCCA 59.965 61.111 0.00 0.00 0.00 4.37
849 1120 2.340328 GCCCGGTCAAACATCCCAC 61.340 63.158 0.00 0.00 0.00 4.61
850 1121 2.038269 CCCGGTCAAACATCCCACG 61.038 63.158 0.00 0.00 0.00 4.94
855 1126 2.033550 CGGTCAAACATCCCACGAAAAA 59.966 45.455 0.00 0.00 0.00 1.94
856 1127 3.377439 GGTCAAACATCCCACGAAAAAC 58.623 45.455 0.00 0.00 0.00 2.43
857 1128 3.181485 GGTCAAACATCCCACGAAAAACA 60.181 43.478 0.00 0.00 0.00 2.83
892 1166 5.445964 GGAACAGCCTAGAAAATATCCCAA 58.554 41.667 0.00 0.00 0.00 4.12
897 1171 9.487442 AACAGCCTAGAAAATATCCCAAAAATA 57.513 29.630 0.00 0.00 0.00 1.40
898 1172 8.914011 ACAGCCTAGAAAATATCCCAAAAATAC 58.086 33.333 0.00 0.00 0.00 1.89
899 1173 8.360390 CAGCCTAGAAAATATCCCAAAAATACC 58.640 37.037 0.00 0.00 0.00 2.73
913 1187 9.785982 TCCCAAAAATACCTTTTTATTTGAAGG 57.214 29.630 0.80 0.80 46.27 3.46
914 1188 9.785982 CCCAAAAATACCTTTTTATTTGAAGGA 57.214 29.630 8.97 0.00 44.15 3.36
960 1234 6.409524 AAACAGATCAGATCAAGCCAAAAA 57.590 33.333 13.14 0.00 0.00 1.94
961 1235 6.600882 AACAGATCAGATCAAGCCAAAAAT 57.399 33.333 13.14 0.00 0.00 1.82
962 1236 6.205101 ACAGATCAGATCAAGCCAAAAATC 57.795 37.500 13.14 0.00 0.00 2.17
963 1237 5.163683 ACAGATCAGATCAAGCCAAAAATCG 60.164 40.000 13.14 0.00 0.00 3.34
964 1238 5.065602 CAGATCAGATCAAGCCAAAAATCGA 59.934 40.000 13.14 0.00 0.00 3.59
965 1239 4.952262 TCAGATCAAGCCAAAAATCGAG 57.048 40.909 0.00 0.00 0.00 4.04
966 1240 4.578871 TCAGATCAAGCCAAAAATCGAGA 58.421 39.130 0.00 0.00 0.00 4.04
967 1241 5.188434 TCAGATCAAGCCAAAAATCGAGAT 58.812 37.500 0.00 0.00 0.00 2.75
968 1242 5.295292 TCAGATCAAGCCAAAAATCGAGATC 59.705 40.000 0.00 0.00 0.00 2.75
969 1243 5.296283 CAGATCAAGCCAAAAATCGAGATCT 59.704 40.000 0.00 0.00 40.97 2.75
970 1244 4.952262 TCAAGCCAAAAATCGAGATCTG 57.048 40.909 0.00 0.00 0.00 2.90
1017 1291 0.391130 CGATGCGGAGGTGGAAGAAA 60.391 55.000 0.00 0.00 0.00 2.52
1018 1292 1.087501 GATGCGGAGGTGGAAGAAAC 58.912 55.000 0.00 0.00 0.00 2.78
1033 1307 3.372422 AAACAGCTGGGCCACACCA 62.372 57.895 19.93 0.00 42.05 4.17
1058 1332 1.079057 GCCTCGTCTCCTCCAAACC 60.079 63.158 0.00 0.00 0.00 3.27
1074 1348 2.075355 AACCCCCATTCAACCTCGCA 62.075 55.000 0.00 0.00 0.00 5.10
1076 1350 1.315257 CCCCCATTCAACCTCGCAAG 61.315 60.000 0.00 0.00 0.00 4.01
1141 1603 2.537560 CCGCATTCATCTCACCCGC 61.538 63.158 0.00 0.00 0.00 6.13
1142 1604 2.537560 CGCATTCATCTCACCCGCC 61.538 63.158 0.00 0.00 0.00 6.13
1543 2023 0.961358 CGTCACCCTCGACTTCTCCT 60.961 60.000 0.00 0.00 33.54 3.69
1965 2460 4.660938 GCCAACCCGCTCCACCTT 62.661 66.667 0.00 0.00 0.00 3.50
1975 2470 3.672295 CTCCACCTTCGGCTGCTCC 62.672 68.421 0.00 0.00 0.00 4.70
2685 3199 1.084370 GCACGAGCGAGGCTGTTAAT 61.084 55.000 0.00 0.00 39.88 1.40
2691 3205 3.134458 GAGCGAGGCTGTTAATGCTTAT 58.866 45.455 0.00 0.00 39.88 1.73
2847 3373 0.748005 ACTTCAGCAGCAACAACCGT 60.748 50.000 0.00 0.00 0.00 4.83
2850 3376 1.298563 CAGCAGCAACAACCGTGTG 60.299 57.895 0.00 0.00 38.27 3.82
2949 3475 4.527583 CAGCTCCTGCCGCTCCTC 62.528 72.222 0.00 0.00 40.80 3.71
2958 3484 2.835431 CCGCTCCTCCCGATCAGT 60.835 66.667 0.00 0.00 0.00 3.41
3078 3610 2.690881 TATGCGCTGGAGGGGGTT 60.691 61.111 9.73 0.00 0.00 4.11
3225 3757 1.522355 CAGGTGCTGCTGGTATCGG 60.522 63.158 0.00 0.00 0.00 4.18
3254 3786 0.578683 CATTGATGGCGCTGAGTACG 59.421 55.000 7.64 0.00 0.00 3.67
3277 3809 3.089838 CTGGGGAGGTGGAATGCA 58.910 61.111 0.00 0.00 0.00 3.96
3280 3812 1.384191 GGGGAGGTGGAATGCACTT 59.616 57.895 4.63 0.00 0.00 3.16
3327 3859 0.966179 AAAATGCCCGGGTTTCAGAC 59.034 50.000 24.63 3.28 0.00 3.51
3348 3880 1.891919 TGAGTGTTGCTGGTTCGGC 60.892 57.895 0.00 0.00 36.10 5.54
3349 3881 1.598130 GAGTGTTGCTGGTTCGGCT 60.598 57.895 0.30 0.00 36.58 5.52
3369 3901 4.870991 GGCTTAAGATACAGAGTGGTTGTC 59.129 45.833 6.67 0.00 0.00 3.18
3377 3909 4.640771 ACAGAGTGGTTGTCCATTGTAT 57.359 40.909 0.00 0.00 46.20 2.29
3456 3988 3.715628 AAATCAAGTTGGTGTCACAGC 57.284 42.857 5.12 0.00 0.00 4.40
3575 4110 8.966155 TGGGTATAATAGACTGATTCCACATA 57.034 34.615 0.00 0.00 0.00 2.29
3576 4111 9.035890 TGGGTATAATAGACTGATTCCACATAG 57.964 37.037 0.00 0.00 0.00 2.23
3650 4188 0.959867 TGGTCACATGATGCAACCGG 60.960 55.000 0.00 0.00 30.38 5.28
3690 4228 6.815641 CACTGCTGATATGTTCTGACTTTAGT 59.184 38.462 0.00 0.00 0.00 2.24
3742 4282 3.274288 GGAAGGCCTCATCTTGTGTAAG 58.726 50.000 5.23 0.00 35.16 2.34
3743 4283 3.055094 GGAAGGCCTCATCTTGTGTAAGA 60.055 47.826 5.23 0.00 46.32 2.10
3758 4298 9.772973 TCTTGTGTAAGATGTGTACTATGTTTT 57.227 29.630 0.00 0.00 37.99 2.43
3764 4304 9.983804 GTAAGATGTGTACTATGTTTTAAAGGC 57.016 33.333 0.00 0.00 0.00 4.35
3765 4305 7.303634 AGATGTGTACTATGTTTTAAAGGCG 57.696 36.000 0.00 0.00 0.00 5.52
3766 4306 6.877322 AGATGTGTACTATGTTTTAAAGGCGT 59.123 34.615 0.00 0.00 0.00 5.68
3767 4307 6.470557 TGTGTACTATGTTTTAAAGGCGTC 57.529 37.500 0.00 0.00 0.00 5.19
3768 4308 5.409214 TGTGTACTATGTTTTAAAGGCGTCC 59.591 40.000 0.00 0.00 0.00 4.79
3769 4309 4.937015 TGTACTATGTTTTAAAGGCGTCCC 59.063 41.667 0.00 0.00 0.00 4.46
3770 4310 4.296621 ACTATGTTTTAAAGGCGTCCCT 57.703 40.909 0.00 0.00 45.77 4.20
3771 4311 5.425196 ACTATGTTTTAAAGGCGTCCCTA 57.575 39.130 0.00 0.00 41.90 3.53
3772 4312 5.807909 ACTATGTTTTAAAGGCGTCCCTAA 58.192 37.500 0.00 0.00 41.90 2.69
3773 4313 5.878669 ACTATGTTTTAAAGGCGTCCCTAAG 59.121 40.000 0.00 0.00 41.90 2.18
3774 4314 3.414269 TGTTTTAAAGGCGTCCCTAAGG 58.586 45.455 0.00 0.00 41.90 2.69
3775 4315 2.118313 TTTAAAGGCGTCCCTAAGGC 57.882 50.000 0.00 0.00 41.90 4.35
3776 4316 0.108041 TTAAAGGCGTCCCTAAGGCG 60.108 55.000 0.00 0.00 41.90 5.52
3777 4317 0.971959 TAAAGGCGTCCCTAAGGCGA 60.972 55.000 0.00 0.00 41.90 5.54
3778 4318 2.517484 AAAGGCGTCCCTAAGGCGAC 62.517 60.000 0.00 0.00 41.90 5.19
3815 4355 4.516195 GTCGAAGCGCTCCCCCTC 62.516 72.222 12.06 2.47 0.00 4.30
3823 4363 4.803908 GCTCCCCCTCCGCTTTGG 62.804 72.222 0.00 0.00 40.09 3.28
3833 4373 1.161843 TCCGCTTTGGAAAATCGACC 58.838 50.000 0.00 0.00 46.38 4.79
3834 4374 0.179200 CCGCTTTGGAAAATCGACCG 60.179 55.000 0.00 0.00 42.00 4.79
3835 4375 0.793104 CGCTTTGGAAAATCGACCGC 60.793 55.000 0.00 0.00 0.00 5.68
3836 4376 0.521735 GCTTTGGAAAATCGACCGCT 59.478 50.000 0.00 0.00 0.00 5.52
3837 4377 1.068541 GCTTTGGAAAATCGACCGCTT 60.069 47.619 0.00 0.00 0.00 4.68
3838 4378 2.607038 GCTTTGGAAAATCGACCGCTTT 60.607 45.455 0.00 0.00 0.00 3.51
3839 4379 2.697431 TTGGAAAATCGACCGCTTTG 57.303 45.000 0.00 0.00 0.00 2.77
3840 4380 0.878416 TGGAAAATCGACCGCTTTGG 59.122 50.000 0.00 0.00 46.41 3.28
3841 4381 0.170339 GGAAAATCGACCGCTTTGGG 59.830 55.000 0.00 0.00 44.64 4.12
3842 4382 0.456142 GAAAATCGACCGCTTTGGGC 60.456 55.000 0.00 0.00 45.45 5.36
3860 4400 3.195698 GCCTAGGCGTCCAAAGCG 61.196 66.667 20.16 0.00 35.00 4.68
3868 4408 4.770874 GTCCAAAGCGCCCGCCTA 62.771 66.667 2.29 0.00 43.17 3.93
3869 4409 4.467084 TCCAAAGCGCCCGCCTAG 62.467 66.667 2.29 0.00 43.17 3.02
3913 4453 4.817909 CCCCCTCCCTAAGGCGGT 62.818 72.222 0.00 0.00 44.71 5.68
3914 4454 2.284493 CCCCTCCCTAAGGCGGTA 59.716 66.667 0.00 0.00 44.71 4.02
3915 4455 1.383525 CCCCTCCCTAAGGCGGTAA 60.384 63.158 0.00 0.00 44.71 2.85
3916 4456 1.408453 CCCCTCCCTAAGGCGGTAAG 61.408 65.000 0.00 0.00 44.71 2.34
3917 4457 1.408453 CCCTCCCTAAGGCGGTAAGG 61.408 65.000 0.00 0.00 44.71 2.69
3936 4476 3.047613 GGCGTCGCCTTAAAAACATAG 57.952 47.619 28.98 0.00 46.69 2.23
3969 4509 6.833933 AGCTTAAAATCCACAATTAGGTAGGG 59.166 38.462 0.00 0.00 0.00 3.53
4031 4571 6.654793 ATTCACGAGCTTGAAAGAGTAATC 57.345 37.500 8.31 0.00 38.95 1.75
4054 4594 0.394938 TAAACGCCACTTCAGCTCCA 59.605 50.000 0.00 0.00 0.00 3.86
4068 4608 3.192001 TCAGCTCCATTGATCAGCAAAAC 59.808 43.478 6.65 0.00 40.48 2.43
4086 4626 2.713967 CCCCATGCCTTTTGCTCCG 61.714 63.158 0.00 0.00 42.00 4.63
4117 4657 4.335594 GGGGGCATAAATATATTCTCGTGC 59.664 45.833 0.00 7.01 0.00 5.34
4138 4678 2.679336 CTGCAACATCAATCATGTCCGA 59.321 45.455 0.00 0.00 45.77 4.55
4224 4765 1.341089 GGGTAGGGAAGGCAAGGAAAG 60.341 57.143 0.00 0.00 0.00 2.62
4235 4776 6.646653 GGAAGGCAAGGAAAGTTTTGATTTAG 59.353 38.462 0.00 0.00 0.00 1.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
74 78 3.733988 GCTCCATCGTCGTATCTTCACAA 60.734 47.826 0.00 0.00 0.00 3.33
84 88 2.264794 GGGTTGCTCCATCGTCGT 59.735 61.111 0.00 0.00 38.11 4.34
85 89 2.511600 GGGGTTGCTCCATCGTCG 60.512 66.667 1.43 0.00 38.11 5.12
86 90 1.745489 GTGGGGTTGCTCCATCGTC 60.745 63.158 0.00 0.00 36.58 4.20
109 113 2.264794 GTCGACCGGAGCAATGGT 59.735 61.111 9.46 0.00 42.42 3.55
206 221 2.122901 AAGCCAGGGCAAGCCAAA 60.123 55.556 13.63 0.00 44.88 3.28
215 230 2.444700 CTTGCAAAGCCAAGCCAGGG 62.445 60.000 0.00 0.00 36.98 4.45
239 254 2.815647 GCCGTCGCTTCTCCCTTG 60.816 66.667 0.00 0.00 0.00 3.61
240 255 4.436998 CGCCGTCGCTTCTCCCTT 62.437 66.667 0.00 0.00 0.00 3.95
242 257 4.856607 CTCGCCGTCGCTTCTCCC 62.857 72.222 0.00 0.00 35.26 4.30
243 258 4.856607 CCTCGCCGTCGCTTCTCC 62.857 72.222 0.00 0.00 35.26 3.71
244 259 4.856607 CCCTCGCCGTCGCTTCTC 62.857 72.222 0.00 0.00 35.26 2.87
289 304 1.248486 GGGAGAGCAAGGAACCAAAC 58.752 55.000 0.00 0.00 0.00 2.93
370 385 0.400213 TTGTCCCACCCAAGTAGCAG 59.600 55.000 0.00 0.00 0.00 4.24
376 391 1.001181 CAAGCATTTGTCCCACCCAAG 59.999 52.381 0.00 0.00 0.00 3.61
377 392 1.047002 CAAGCATTTGTCCCACCCAA 58.953 50.000 0.00 0.00 0.00 4.12
378 393 1.470996 GCAAGCATTTGTCCCACCCA 61.471 55.000 0.00 0.00 36.65 4.51
415 430 3.557898 GGCAGGATTGAGTTGAGAGTTGA 60.558 47.826 0.00 0.00 0.00 3.18
419 434 1.407989 GGGGCAGGATTGAGTTGAGAG 60.408 57.143 0.00 0.00 0.00 3.20
420 435 0.620556 GGGGCAGGATTGAGTTGAGA 59.379 55.000 0.00 0.00 0.00 3.27
472 493 6.761242 CCAAGTGTGCTATGCTGTTACTATTA 59.239 38.462 0.00 0.00 0.00 0.98
473 494 5.586243 CCAAGTGTGCTATGCTGTTACTATT 59.414 40.000 0.00 0.00 0.00 1.73
474 495 5.118990 CCAAGTGTGCTATGCTGTTACTAT 58.881 41.667 0.00 0.00 0.00 2.12
475 496 4.503910 CCAAGTGTGCTATGCTGTTACTA 58.496 43.478 0.00 0.00 0.00 1.82
476 497 3.338249 CCAAGTGTGCTATGCTGTTACT 58.662 45.455 0.00 0.00 0.00 2.24
477 498 2.420022 CCCAAGTGTGCTATGCTGTTAC 59.580 50.000 0.00 0.00 0.00 2.50
481 502 0.035152 TCCCCAAGTGTGCTATGCTG 60.035 55.000 0.00 0.00 0.00 4.41
525 546 3.136763 GCTGATGTGGTATGATGGAGTG 58.863 50.000 0.00 0.00 0.00 3.51
537 558 1.457346 GAACCTGGAAGCTGATGTGG 58.543 55.000 0.00 0.00 0.00 4.17
581 708 3.202097 CCCAAAACGCCAAAAACAAGAT 58.798 40.909 0.00 0.00 0.00 2.40
582 709 2.028020 ACCCAAAACGCCAAAAACAAGA 60.028 40.909 0.00 0.00 0.00 3.02
583 710 2.351455 ACCCAAAACGCCAAAAACAAG 58.649 42.857 0.00 0.00 0.00 3.16
602 802 5.351189 CCTTTACCAATTGCCATTTGCTTAC 59.649 40.000 0.00 0.00 42.00 2.34
608 808 8.771286 AGATATTTCCTTTACCAATTGCCATTT 58.229 29.630 0.00 0.00 0.00 2.32
613 813 9.875691 AAGAAAGATATTTCCTTTACCAATTGC 57.124 29.630 9.16 0.00 34.33 3.56
650 868 0.586802 AGAAGAAGAAAACGCGGCAC 59.413 50.000 12.47 0.00 0.00 5.01
671 889 1.099689 TTAACGGCTAAGGCATTGGC 58.900 50.000 11.30 11.30 41.86 4.52
673 891 4.320494 GGATGATTAACGGCTAAGGCATTG 60.320 45.833 0.00 0.00 40.87 2.82
730 951 1.154654 GCTGCGCGTAGACAAACAC 60.155 57.895 28.86 4.08 0.00 3.32
748 969 2.367512 CCCTCCCTCCCTTCCTGG 60.368 72.222 0.00 0.00 0.00 4.45
749 970 1.690985 GTCCCTCCCTCCCTTCCTG 60.691 68.421 0.00 0.00 0.00 3.86
757 978 3.462678 GGAGTGCGTCCCTCCCTC 61.463 72.222 6.03 0.00 42.29 4.30
786 1012 2.512286 TGTGAGCATAGCCGCTGC 60.512 61.111 2.16 0.00 44.01 5.25
789 1015 1.298157 TTGTGTGTGAGCATAGCCGC 61.298 55.000 0.00 0.00 0.00 6.53
790 1016 1.155889 TTTGTGTGTGAGCATAGCCG 58.844 50.000 0.00 0.00 0.00 5.52
791 1017 3.191162 TCATTTTGTGTGTGAGCATAGCC 59.809 43.478 0.00 0.00 0.00 3.93
792 1018 4.424061 TCATTTTGTGTGTGAGCATAGC 57.576 40.909 0.00 0.00 0.00 2.97
793 1019 7.085746 TCATTTCATTTTGTGTGTGAGCATAG 58.914 34.615 0.00 0.00 0.00 2.23
794 1020 6.979465 TCATTTCATTTTGTGTGTGAGCATA 58.021 32.000 0.00 0.00 0.00 3.14
795 1021 5.845103 TCATTTCATTTTGTGTGTGAGCAT 58.155 33.333 0.00 0.00 0.00 3.79
796 1022 5.163530 ACTCATTTCATTTTGTGTGTGAGCA 60.164 36.000 0.00 0.00 36.28 4.26
798 1024 6.267817 ACACTCATTTCATTTTGTGTGTGAG 58.732 36.000 11.76 0.00 44.39 3.51
799 1025 6.206395 ACACTCATTTCATTTTGTGTGTGA 57.794 33.333 11.76 0.00 44.39 3.58
801 1027 6.531240 GTGAACACTCATTTCATTTTGTGTGT 59.469 34.615 5.27 5.27 46.61 3.72
804 1030 6.019640 GGTGTGAACACTCATTTCATTTTGTG 60.020 38.462 12.99 0.00 45.73 3.33
805 1031 6.042143 GGTGTGAACACTCATTTCATTTTGT 58.958 36.000 12.99 0.00 45.73 2.83
811 1082 2.618241 GCTGGTGTGAACACTCATTTCA 59.382 45.455 12.99 1.45 45.73 2.69
812 1083 2.030805 GGCTGGTGTGAACACTCATTTC 60.031 50.000 12.99 0.00 45.73 2.17
813 1084 1.956477 GGCTGGTGTGAACACTCATTT 59.044 47.619 12.99 0.00 45.73 2.32
817 1088 1.961277 CGGGCTGGTGTGAACACTC 60.961 63.158 12.99 4.00 45.73 3.51
818 1089 2.111043 CGGGCTGGTGTGAACACT 59.889 61.111 12.99 0.00 45.73 3.55
842 1113 6.595772 TTTGAAAATGTTTTTCGTGGGATG 57.404 33.333 7.88 0.00 0.00 3.51
843 1114 7.617041 TTTTTGAAAATGTTTTTCGTGGGAT 57.383 28.000 7.88 0.00 0.00 3.85
869 1143 5.048846 TGGGATATTTTCTAGGCTGTTCC 57.951 43.478 0.00 0.00 0.00 3.62
870 1144 7.404671 TTTTGGGATATTTTCTAGGCTGTTC 57.595 36.000 0.00 0.00 0.00 3.18
887 1161 9.785982 CCTTCAAATAAAAAGGTATTTTTGGGA 57.214 29.630 8.55 0.22 45.80 4.37
930 1204 9.241919 TGGCTTGATCTGATCTGTTTTATTTTA 57.758 29.630 17.82 0.00 0.00 1.52
931 1205 8.125978 TGGCTTGATCTGATCTGTTTTATTTT 57.874 30.769 17.82 0.00 0.00 1.82
932 1206 7.707624 TGGCTTGATCTGATCTGTTTTATTT 57.292 32.000 17.82 0.00 0.00 1.40
933 1207 7.707624 TTGGCTTGATCTGATCTGTTTTATT 57.292 32.000 17.82 0.00 0.00 1.40
934 1208 7.707624 TTTGGCTTGATCTGATCTGTTTTAT 57.292 32.000 17.82 0.00 0.00 1.40
935 1209 7.523293 TTTTGGCTTGATCTGATCTGTTTTA 57.477 32.000 17.82 0.00 0.00 1.52
936 1210 6.409524 TTTTGGCTTGATCTGATCTGTTTT 57.590 33.333 17.82 0.00 0.00 2.43
937 1211 6.409524 TTTTTGGCTTGATCTGATCTGTTT 57.590 33.333 17.82 0.00 0.00 2.83
938 1212 6.600882 ATTTTTGGCTTGATCTGATCTGTT 57.399 33.333 17.82 0.00 0.00 3.16
941 1215 5.188434 TCGATTTTTGGCTTGATCTGATCT 58.812 37.500 17.82 0.00 0.00 2.75
961 1235 8.577296 CCTCCTTTTTATATACACAGATCTCGA 58.423 37.037 0.00 0.00 0.00 4.04
962 1236 8.577296 TCCTCCTTTTTATATACACAGATCTCG 58.423 37.037 0.00 0.00 0.00 4.04
963 1237 9.699703 GTCCTCCTTTTTATATACACAGATCTC 57.300 37.037 0.00 0.00 0.00 2.75
964 1238 8.361139 CGTCCTCCTTTTTATATACACAGATCT 58.639 37.037 0.00 0.00 0.00 2.75
965 1239 7.599245 CCGTCCTCCTTTTTATATACACAGATC 59.401 40.741 0.00 0.00 0.00 2.75
966 1240 7.289317 TCCGTCCTCCTTTTTATATACACAGAT 59.711 37.037 0.00 0.00 0.00 2.90
967 1241 6.608405 TCCGTCCTCCTTTTTATATACACAGA 59.392 38.462 0.00 0.00 0.00 3.41
968 1242 6.700520 GTCCGTCCTCCTTTTTATATACACAG 59.299 42.308 0.00 0.00 0.00 3.66
969 1243 6.381994 AGTCCGTCCTCCTTTTTATATACACA 59.618 38.462 0.00 0.00 0.00 3.72
970 1244 6.814043 AGTCCGTCCTCCTTTTTATATACAC 58.186 40.000 0.00 0.00 0.00 2.90
1007 1281 1.527433 GCCCAGCTGTTTCTTCCACC 61.527 60.000 13.81 0.00 0.00 4.61
1017 1291 3.574074 GATGGTGTGGCCCAGCTGT 62.574 63.158 13.81 11.31 42.19 4.40
1018 1292 2.753043 GATGGTGTGGCCCAGCTG 60.753 66.667 19.70 6.78 42.19 4.24
1033 1307 2.519780 GGAGACGAGGCGGGAGAT 60.520 66.667 0.00 0.00 0.00 2.75
1042 1316 1.597461 GGGGTTTGGAGGAGACGAG 59.403 63.158 0.00 0.00 0.00 4.18
1058 1332 1.315257 CCTTGCGAGGTTGAATGGGG 61.315 60.000 12.40 0.00 38.32 4.96
1420 1882 0.250513 AAGGTCTGGATGTCGAAGGC 59.749 55.000 0.00 0.00 0.00 4.35
1884 2379 2.361610 ATGCAGAAGGGGCGGTTG 60.362 61.111 0.00 0.00 0.00 3.77
1975 2470 4.477975 GACGGAGCAGTCGTCGGG 62.478 72.222 9.90 0.00 45.53 5.14
2331 2838 3.689832 GAAGCCATTCCCCTGGAAA 57.310 52.632 0.00 0.00 45.41 3.13
2637 3151 4.514577 CGCCCATCGCCGAACTCT 62.515 66.667 0.00 0.00 0.00 3.24
2847 3373 2.802724 CCACAGGACACCGACCACA 61.803 63.158 0.00 0.00 0.00 4.17
2850 3376 4.699522 GCCCACAGGACACCGACC 62.700 72.222 0.00 0.00 33.47 4.79
2856 3382 1.227823 CTTGTTCGCCCACAGGACA 60.228 57.895 0.00 0.00 33.47 4.02
2949 3475 2.765807 AGGGCCTCACTGATCGGG 60.766 66.667 0.00 0.00 0.00 5.14
2958 3484 4.005978 TCCGGGAAGAGGGCCTCA 62.006 66.667 33.86 9.94 32.06 3.86
3191 3723 3.309436 CTGCCGGATCCGACAACCA 62.309 63.158 35.42 20.13 42.83 3.67
3192 3724 2.511600 CTGCCGGATCCGACAACC 60.512 66.667 35.42 16.88 42.83 3.77
3225 3757 2.024918 CCATCAATGGCCGTACTGC 58.975 57.895 0.00 0.00 41.75 4.40
3254 3786 1.779061 TTCCACCTCCCCAGCAACTC 61.779 60.000 0.00 0.00 0.00 3.01
3277 3809 4.777896 AGGTACACATGACATACCTGAAGT 59.222 41.667 19.70 3.47 45.64 3.01
3327 3859 0.583438 CGAACCAGCAACACTCACAG 59.417 55.000 0.00 0.00 0.00 3.66
3348 3880 6.037786 TGGACAACCACTCTGTATCTTAAG 57.962 41.667 0.00 0.00 41.77 1.85
3456 3988 5.653769 ACAATGTAACCTCCTGATGAATTGG 59.346 40.000 0.00 0.00 0.00 3.16
3575 4110 2.391678 ACGTTATATCCCGGTTGTCCT 58.608 47.619 0.00 0.00 0.00 3.85
3576 4111 2.896745 ACGTTATATCCCGGTTGTCC 57.103 50.000 0.00 0.00 0.00 4.02
3616 4151 2.912345 GTGACCAACAAAACAACGTGTC 59.088 45.455 0.00 0.00 0.00 3.67
3650 4188 3.013276 GCAGTGGCTTCCTTTGTTTAC 57.987 47.619 0.00 0.00 36.96 2.01
3690 4228 7.281324 TCACTTTTCGTTTGGAAGAGTATTCAA 59.719 33.333 0.00 0.00 45.43 2.69
3742 4282 7.068692 ACGCCTTTAAAACATAGTACACATC 57.931 36.000 0.00 0.00 0.00 3.06
3743 4283 6.093082 GGACGCCTTTAAAACATAGTACACAT 59.907 38.462 0.00 0.00 0.00 3.21
3744 4284 5.409214 GGACGCCTTTAAAACATAGTACACA 59.591 40.000 0.00 0.00 0.00 3.72
3745 4285 5.163824 GGGACGCCTTTAAAACATAGTACAC 60.164 44.000 0.00 0.00 0.00 2.90
3746 4286 4.937015 GGGACGCCTTTAAAACATAGTACA 59.063 41.667 0.00 0.00 0.00 2.90
3747 4287 5.181009 AGGGACGCCTTTAAAACATAGTAC 58.819 41.667 0.00 0.00 0.00 2.73
3748 4288 5.425196 AGGGACGCCTTTAAAACATAGTA 57.575 39.130 0.00 0.00 0.00 1.82
3749 4289 4.296621 AGGGACGCCTTTAAAACATAGT 57.703 40.909 0.00 0.00 0.00 2.12
3750 4290 5.296035 CCTTAGGGACGCCTTTAAAACATAG 59.704 44.000 0.00 0.00 33.58 2.23
3751 4291 5.187687 CCTTAGGGACGCCTTTAAAACATA 58.812 41.667 0.00 0.00 33.58 2.29
3752 4292 4.014406 CCTTAGGGACGCCTTTAAAACAT 58.986 43.478 0.00 0.00 33.58 2.71
3753 4293 3.414269 CCTTAGGGACGCCTTTAAAACA 58.586 45.455 0.00 0.00 33.58 2.83
3754 4294 2.163010 GCCTTAGGGACGCCTTTAAAAC 59.837 50.000 0.00 0.00 33.58 2.43
3755 4295 2.439409 GCCTTAGGGACGCCTTTAAAA 58.561 47.619 0.00 0.00 33.58 1.52
3756 4296 1.676615 CGCCTTAGGGACGCCTTTAAA 60.677 52.381 0.00 0.00 33.58 1.52
3757 4297 0.108041 CGCCTTAGGGACGCCTTTAA 60.108 55.000 0.00 0.00 33.58 1.52
3758 4298 0.971959 TCGCCTTAGGGACGCCTTTA 60.972 55.000 0.00 0.00 34.09 1.85
3759 4299 2.267961 CGCCTTAGGGACGCCTTT 59.732 61.111 0.00 0.00 33.58 3.11
3760 4300 2.682494 TCGCCTTAGGGACGCCTT 60.682 61.111 0.00 0.00 34.09 4.35
3761 4301 3.459063 GTCGCCTTAGGGACGCCT 61.459 66.667 0.00 0.00 44.82 5.52
3798 4338 4.516195 GAGGGGGAGCGCTTCGAC 62.516 72.222 13.26 5.82 0.00 4.20
3806 4346 4.803908 CCAAAGCGGAGGGGGAGC 62.804 72.222 0.00 0.00 36.56 4.70
3807 4347 3.009115 TCCAAAGCGGAGGGGGAG 61.009 66.667 0.00 0.00 39.64 4.30
3814 4354 1.161843 GGTCGATTTTCCAAAGCGGA 58.838 50.000 7.00 0.00 44.40 5.54
3815 4355 0.179200 CGGTCGATTTTCCAAAGCGG 60.179 55.000 7.00 0.00 0.00 5.52
3816 4356 0.793104 GCGGTCGATTTTCCAAAGCG 60.793 55.000 0.54 0.54 0.00 4.68
3817 4357 0.521735 AGCGGTCGATTTTCCAAAGC 59.478 50.000 0.00 0.00 0.00 3.51
3818 4358 2.979813 CAAAGCGGTCGATTTTCCAAAG 59.020 45.455 3.79 0.00 30.80 2.77
3819 4359 2.287909 CCAAAGCGGTCGATTTTCCAAA 60.288 45.455 3.79 0.00 30.80 3.28
3820 4360 1.268352 CCAAAGCGGTCGATTTTCCAA 59.732 47.619 3.79 0.00 30.80 3.53
3821 4361 0.878416 CCAAAGCGGTCGATTTTCCA 59.122 50.000 3.79 0.00 30.80 3.53
3822 4362 0.170339 CCCAAAGCGGTCGATTTTCC 59.830 55.000 3.79 0.00 30.80 3.13
3823 4363 0.456142 GCCCAAAGCGGTCGATTTTC 60.456 55.000 3.79 0.00 30.80 2.29
3824 4364 1.584495 GCCCAAAGCGGTCGATTTT 59.416 52.632 3.79 0.00 30.80 1.82
3825 4365 3.274067 GCCCAAAGCGGTCGATTT 58.726 55.556 0.55 0.55 33.72 2.17
3843 4383 3.195698 CGCTTTGGACGCCTAGGC 61.196 66.667 24.75 24.75 37.85 3.93
3851 4391 4.770874 TAGGCGGGCGCTTTGGAC 62.771 66.667 7.64 0.00 41.60 4.02
3852 4392 4.467084 CTAGGCGGGCGCTTTGGA 62.467 66.667 7.64 0.00 41.60 3.53
3900 4440 1.446366 GCCTTACCGCCTTAGGGAG 59.554 63.158 0.00 0.00 35.02 4.30
3901 4441 2.428925 CGCCTTACCGCCTTAGGGA 61.429 63.158 0.00 0.00 35.02 4.20
3902 4442 2.108362 CGCCTTACCGCCTTAGGG 59.892 66.667 0.00 0.00 35.02 3.53
3903 4443 1.227176 GACGCCTTACCGCCTTAGG 60.227 63.158 0.00 0.00 37.30 2.69
3904 4444 1.588139 CGACGCCTTACCGCCTTAG 60.588 63.158 0.00 0.00 0.00 2.18
3905 4445 2.491152 CGACGCCTTACCGCCTTA 59.509 61.111 0.00 0.00 0.00 2.69
3917 4457 2.674357 TCCTATGTTTTTAAGGCGACGC 59.326 45.455 12.43 12.43 0.00 5.19
3918 4458 4.331717 ACATCCTATGTTTTTAAGGCGACG 59.668 41.667 0.00 0.00 41.63 5.12
3919 4459 5.123344 ACACATCCTATGTTTTTAAGGCGAC 59.877 40.000 0.00 0.00 42.70 5.19
3920 4460 5.250200 ACACATCCTATGTTTTTAAGGCGA 58.750 37.500 0.00 0.00 42.70 5.54
3921 4461 5.560966 ACACATCCTATGTTTTTAAGGCG 57.439 39.130 0.00 0.00 42.70 5.52
3922 4462 6.318900 AGCTACACATCCTATGTTTTTAAGGC 59.681 38.462 0.00 0.00 42.70 4.35
3923 4463 7.865706 AGCTACACATCCTATGTTTTTAAGG 57.134 36.000 0.00 0.00 42.70 2.69
3929 4469 8.903820 GGATTTTAAGCTACACATCCTATGTTT 58.096 33.333 7.40 0.00 42.70 2.83
3930 4470 8.052748 TGGATTTTAAGCTACACATCCTATGTT 58.947 33.333 13.37 0.00 42.70 2.71
3931 4471 7.499232 GTGGATTTTAAGCTACACATCCTATGT 59.501 37.037 13.37 0.00 46.22 2.29
3932 4472 7.498900 TGTGGATTTTAAGCTACACATCCTATG 59.501 37.037 13.37 0.00 30.76 2.23
3933 4473 7.573710 TGTGGATTTTAAGCTACACATCCTAT 58.426 34.615 13.37 0.00 30.76 2.57
3934 4474 6.953101 TGTGGATTTTAAGCTACACATCCTA 58.047 36.000 13.37 3.76 30.76 2.94
3935 4475 5.815581 TGTGGATTTTAAGCTACACATCCT 58.184 37.500 13.37 0.00 30.76 3.24
3936 4476 6.509418 TTGTGGATTTTAAGCTACACATCC 57.491 37.500 5.51 7.63 35.53 3.51
3969 4509 4.275936 CCAGCAATTGTGGTACTAATAGCC 59.724 45.833 7.40 0.00 33.05 3.93
4014 4554 7.515371 CGTTTATCCGATTACTCTTTCAAGCTC 60.515 40.741 0.00 0.00 0.00 4.09
4031 4571 0.373716 GCTGAAGTGGCGTTTATCCG 59.626 55.000 0.00 0.00 0.00 4.18
4054 4594 2.093341 GCATGGGGTTTTGCTGATCAAT 60.093 45.455 0.00 0.00 35.95 2.57
4086 4626 0.534873 ATTTATGCCCCCGTTGCAAC 59.465 50.000 19.89 19.89 42.92 4.17
4095 4635 5.065218 CAGCACGAGAATATATTTATGCCCC 59.935 44.000 15.11 0.00 32.19 5.80
4117 4657 2.679336 TCGGACATGATTGATGTTGCAG 59.321 45.455 0.00 0.00 45.90 4.41
4138 4678 7.926555 CGGTGAATGTAACCTATTCTAGATTGT 59.073 37.037 0.00 0.00 35.94 2.71
4193 4733 3.962718 CCTTCCCTACCCGTACTCAAATA 59.037 47.826 0.00 0.00 0.00 1.40


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

AutoCloner maintained by Alex Coulton.