Multiple sequence alignment - TraesCS6B01G362700

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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 TraesCS6B01G362700 chr6B 100.000 4670 0 0 1 4670 634042992 634047661 0.000000e+00 8624.0
1 TraesCS6B01G362700 chr6D 90.978 3935 197 53 1 3870 420757189 420761030 0.000000e+00 5155.0
2 TraesCS6B01G362700 chr6D 89.198 648 46 8 3924 4562 420761101 420761733 0.000000e+00 787.0
3 TraesCS6B01G362700 chr6A 90.307 3322 175 59 484 3764 563730790 563727575 0.000000e+00 4215.0
4 TraesCS6B01G362700 chr6A 90.642 748 41 11 3924 4670 563741861 563742580 0.000000e+00 966.0
5 TraesCS6B01G362700 chr6A 88.158 76 7 2 368 443 563730878 563730805 6.440000e-14 89.8
6 TraesCS6B01G362700 chr4A 81.915 188 32 2 1198 1384 683258855 683258669 1.740000e-34 158.0
7 TraesCS6B01G362700 chr4A 79.679 187 38 0 1198 1384 682992080 682991894 8.150000e-28 135.0
8 TraesCS6B01G362700 chr4D 80.749 187 36 0 1198 1384 475954392 475954206 3.770000e-31 147.0
9 TraesCS6B01G362700 chr4B 80.749 187 36 0 1198 1384 600433039 600432853 3.770000e-31 147.0
10 TraesCS6B01G362700 chr5A 76.882 186 37 5 1198 1380 413220355 413220537 2.970000e-17 100.0


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 TraesCS6B01G362700 chr6B 634042992 634047661 4669 False 8624.0 8624 100.0000 1 4670 1 chr6B.!!$F1 4669
1 TraesCS6B01G362700 chr6D 420757189 420761733 4544 False 2971.0 5155 90.0880 1 4562 2 chr6D.!!$F1 4561
2 TraesCS6B01G362700 chr6A 563727575 563730878 3303 True 2152.4 4215 89.2325 368 3764 2 chr6A.!!$R1 3396
3 TraesCS6B01G362700 chr6A 563741861 563742580 719 False 966.0 966 90.6420 3924 4670 1 chr6A.!!$F1 746

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
982 1046 0.107831 CCTCCACGAAGTCCAACCAA 59.892 55.0 0.0 0.0 41.61 3.67 F
1298 1365 0.169009 GCCAGCGACCTCAAAATCAC 59.831 55.0 0.0 0.0 0.00 3.06 F
1712 1779 0.459585 GTGACGCGGCTCTGGAATAA 60.460 55.0 15.8 0.0 0.00 1.40 F
2260 2330 0.741326 CATCGAGTCCGTCATGTCCT 59.259 55.0 0.0 0.0 37.05 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2394 2467 1.003839 GTTGTCATGGTCCCTCGCA 60.004 57.895 0.00 0.00 0.00 5.10 R
3069 3142 0.396556 TAGGTAGGATCACGCAGGCA 60.397 55.000 0.00 0.00 0.00 4.75 R
3584 3661 0.247736 GTCCACGATGGCAGAGAAGT 59.752 55.000 0.00 0.00 37.47 3.01 R
3865 3954 0.108138 CTGAAAGCGTTCCGGATCCT 60.108 55.000 4.15 1.06 32.28 3.24 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 1.723003 GTACTTAACCGTTGCCGTCAG 59.277 52.381 0.00 0.00 0.00 3.51
36 38 3.557595 GCCGTCAGACCAAATCAAGATAG 59.442 47.826 0.00 0.00 0.00 2.08
144 150 1.923204 GTACGCAAGCATCTGTCTCTG 59.077 52.381 0.00 0.00 45.62 3.35
156 162 2.762887 TCTGTCTCTGATTCGCCTCAAT 59.237 45.455 0.00 0.00 0.00 2.57
157 163 3.196469 TCTGTCTCTGATTCGCCTCAATT 59.804 43.478 0.00 0.00 0.00 2.32
168 174 3.531538 TCGCCTCAATTCCATCAACTAC 58.468 45.455 0.00 0.00 0.00 2.73
169 175 2.285220 CGCCTCAATTCCATCAACTACG 59.715 50.000 0.00 0.00 0.00 3.51
171 177 3.689649 GCCTCAATTCCATCAACTACGTT 59.310 43.478 0.00 0.00 0.00 3.99
173 179 5.353123 GCCTCAATTCCATCAACTACGTTTA 59.647 40.000 0.00 0.00 0.00 2.01
174 180 6.128117 GCCTCAATTCCATCAACTACGTTTAA 60.128 38.462 0.00 0.00 0.00 1.52
175 181 7.464358 CCTCAATTCCATCAACTACGTTTAAG 58.536 38.462 0.00 0.00 0.00 1.85
178 184 9.491675 TCAATTCCATCAACTACGTTTAAGTTA 57.508 29.630 0.00 0.00 35.44 2.24
179 185 9.755064 CAATTCCATCAACTACGTTTAAGTTAG 57.245 33.333 0.00 0.00 35.44 2.34
182 188 9.630098 TTCCATCAACTACGTTTAAGTTAGTAG 57.370 33.333 0.00 6.35 41.49 2.57
183 189 8.246180 TCCATCAACTACGTTTAAGTTAGTAGG 58.754 37.037 0.00 0.00 40.43 3.18
215 226 3.789791 GCATATGTTGATGAGTTGTGGCG 60.790 47.826 4.29 0.00 0.00 5.69
216 227 1.167851 ATGTTGATGAGTTGTGGCGG 58.832 50.000 0.00 0.00 0.00 6.13
217 228 0.888736 TGTTGATGAGTTGTGGCGGG 60.889 55.000 0.00 0.00 0.00 6.13
218 229 1.971167 TTGATGAGTTGTGGCGGGC 60.971 57.895 0.00 0.00 0.00 6.13
219 230 3.499737 GATGAGTTGTGGCGGGCG 61.500 66.667 0.00 0.00 0.00 6.13
265 276 2.222213 CGCTGACACGTAATTTGTGGAA 59.778 45.455 13.19 2.79 41.64 3.53
266 277 3.303461 CGCTGACACGTAATTTGTGGAAA 60.303 43.478 13.19 0.00 41.64 3.13
267 278 4.219033 GCTGACACGTAATTTGTGGAAAG 58.781 43.478 13.19 9.00 41.64 2.62
281 292 2.640332 GTGGAAAGGAGGAAAGAGAGGT 59.360 50.000 0.00 0.00 0.00 3.85
297 308 4.436998 GTGCGGCGGCTACAGACT 62.437 66.667 17.76 0.00 40.82 3.24
298 309 3.691342 TGCGGCGGCTACAGACTT 61.691 61.111 17.76 0.00 40.82 3.01
299 310 3.188786 GCGGCGGCTACAGACTTG 61.189 66.667 9.78 0.00 35.83 3.16
300 311 2.261671 CGGCGGCTACAGACTTGT 59.738 61.111 7.61 0.00 41.39 3.16
301 312 1.374252 CGGCGGCTACAGACTTGTT 60.374 57.895 7.61 0.00 38.76 2.83
302 313 1.626654 CGGCGGCTACAGACTTGTTG 61.627 60.000 7.61 0.00 38.76 3.33
303 314 0.320421 GGCGGCTACAGACTTGTTGA 60.320 55.000 0.00 0.00 38.76 3.18
304 315 1.508632 GCGGCTACAGACTTGTTGAA 58.491 50.000 0.00 0.00 38.76 2.69
305 316 1.461127 GCGGCTACAGACTTGTTGAAG 59.539 52.381 0.00 0.00 38.76 3.02
306 317 2.866460 GCGGCTACAGACTTGTTGAAGA 60.866 50.000 0.00 0.00 38.76 2.87
313 324 4.451900 ACAGACTTGTTGAAGAAATCGGT 58.548 39.130 0.00 0.00 32.28 4.69
318 329 4.261031 ACTTGTTGAAGAAATCGGTTTCCG 60.261 41.667 17.41 1.45 43.82 4.30
339 351 4.636435 CCCCTGCGTTCCCGTTGT 62.636 66.667 0.00 0.00 36.15 3.32
340 352 3.047877 CCCTGCGTTCCCGTTGTC 61.048 66.667 0.00 0.00 36.15 3.18
345 357 1.593209 GCGTTCCCGTTGTCACAGA 60.593 57.895 0.00 0.00 36.15 3.41
346 358 1.155424 GCGTTCCCGTTGTCACAGAA 61.155 55.000 0.00 0.00 36.15 3.02
397 409 2.216046 GAGGAATTGATGCTGATGCGA 58.784 47.619 0.00 0.00 43.34 5.10
492 531 3.839432 CTTCGACGCTCCCTCCCC 61.839 72.222 0.00 0.00 0.00 4.81
538 580 2.602037 TTACGACGCTCGCTCGTACG 62.602 60.000 9.53 9.53 44.24 3.67
540 582 4.517703 GACGCTCGCTCGTACGCT 62.518 66.667 11.24 0.00 43.42 5.07
553 595 1.141019 TACGCTGATTCTCCGGCAC 59.859 57.895 0.00 0.00 38.30 5.01
554 596 1.320344 TACGCTGATTCTCCGGCACT 61.320 55.000 0.00 0.00 38.30 4.40
555 597 1.880340 CGCTGATTCTCCGGCACTC 60.880 63.158 0.00 0.00 38.30 3.51
556 598 1.880340 GCTGATTCTCCGGCACTCG 60.880 63.158 0.00 0.00 38.29 4.18
557 599 1.809869 CTGATTCTCCGGCACTCGA 59.190 57.895 0.00 0.00 42.43 4.04
575 617 4.041740 TCGATCACCCGAGTTTTATCTG 57.958 45.455 0.00 0.00 34.19 2.90
588 634 4.515191 AGTTTTATCTGCGCAACAAGAAGA 59.485 37.500 13.05 3.15 0.00 2.87
596 642 2.478539 GCGCAACAAGAAGATTCCCATC 60.479 50.000 0.30 0.00 0.00 3.51
616 662 5.130145 CCATCTACCTTCCTCTCTCAACATT 59.870 44.000 0.00 0.00 0.00 2.71
617 663 5.667539 TCTACCTTCCTCTCTCAACATTG 57.332 43.478 0.00 0.00 0.00 2.82
618 664 5.087323 TCTACCTTCCTCTCTCAACATTGT 58.913 41.667 0.00 0.00 0.00 2.71
619 665 4.713792 ACCTTCCTCTCTCAACATTGTT 57.286 40.909 0.00 0.00 0.00 2.83
655 701 4.395625 CCATGGATGCATACAAGTCAGAT 58.604 43.478 17.35 0.00 0.00 2.90
677 729 6.593382 AGATAGACAGAGATTGTTTCTTGCAC 59.407 38.462 0.00 0.00 41.05 4.57
689 741 1.110442 TCTTGCACCCAACCACAAAG 58.890 50.000 0.00 0.00 0.00 2.77
793 845 0.247460 TCTGCTTCCACGTCCTCATG 59.753 55.000 0.00 0.00 0.00 3.07
798 850 2.426024 GCTTCCACGTCCTCATGTACTA 59.574 50.000 0.00 0.00 0.00 1.82
825 883 5.896678 ACTAGTAGCCTTCATCTCTTCATGT 59.103 40.000 0.00 0.00 0.00 3.21
839 898 1.588674 TCATGTGTTGACCGTTGACC 58.411 50.000 0.00 0.00 0.00 4.02
886 946 2.030540 TCGACCTGTGGAAGTAGAAACG 60.031 50.000 0.00 0.00 0.00 3.60
900 964 1.061485 GAAACGTTCTCCAGCTCGTC 58.939 55.000 0.00 0.00 35.49 4.20
901 965 0.674534 AAACGTTCTCCAGCTCGTCT 59.325 50.000 0.00 0.00 35.49 4.18
939 1003 0.749454 AATCCAACGCCATCTCCTGC 60.749 55.000 0.00 0.00 0.00 4.85
982 1046 0.107831 CCTCCACGAAGTCCAACCAA 59.892 55.000 0.00 0.00 41.61 3.67
983 1047 1.512926 CTCCACGAAGTCCAACCAAG 58.487 55.000 0.00 0.00 41.61 3.61
984 1048 0.107831 TCCACGAAGTCCAACCAAGG 59.892 55.000 0.00 0.00 41.61 3.61
985 1049 0.179029 CCACGAAGTCCAACCAAGGT 60.179 55.000 0.00 0.00 41.61 3.50
986 1050 1.071071 CCACGAAGTCCAACCAAGGTA 59.929 52.381 0.00 0.00 41.61 3.08
1298 1365 0.169009 GCCAGCGACCTCAAAATCAC 59.831 55.000 0.00 0.00 0.00 3.06
1710 1777 2.125512 GTGACGCGGCTCTGGAAT 60.126 61.111 15.80 0.00 0.00 3.01
1712 1779 0.459585 GTGACGCGGCTCTGGAATAA 60.460 55.000 15.80 0.00 0.00 1.40
1714 1781 1.152383 GACGCGGCTCTGGAATAACC 61.152 60.000 12.47 0.00 39.54 2.85
1767 1837 2.170434 GCTGCTGCTCTTCTACGCC 61.170 63.158 8.53 0.00 36.03 5.68
1838 1908 3.056628 GGAAGATGTCCGTCTGCAG 57.943 57.895 7.63 7.63 36.40 4.41
2047 2117 2.437895 GCATCCTGCAGCAGCTGA 60.438 61.111 27.39 10.33 44.26 4.26
2109 2179 4.344865 ACCAACCCGCGCTCCATT 62.345 61.111 5.56 0.00 0.00 3.16
2260 2330 0.741326 CATCGAGTCCGTCATGTCCT 59.259 55.000 0.00 0.00 37.05 3.85
2352 2425 2.228059 CCAGACCGGATGTACGACTAT 58.772 52.381 9.46 0.00 36.56 2.12
2360 2433 3.497262 CGGATGTACGACTATCTGCAGTA 59.503 47.826 14.67 4.80 35.47 2.74
2394 2467 3.341823 CCTGCACATACTCAAGAAGCTT 58.658 45.455 0.00 0.00 0.00 3.74
2397 2470 2.475187 GCACATACTCAAGAAGCTTGCG 60.475 50.000 2.10 0.00 0.00 4.85
2637 2710 3.050275 GTGAGCAACCTCCGTGGC 61.050 66.667 0.00 0.00 39.48 5.01
2700 2773 2.036731 ATGGACGTCCTCACCGGA 59.963 61.111 33.39 13.52 40.30 5.14
2763 2836 1.515954 GGGCGTAGTCAAGCTGCTA 59.484 57.895 0.90 0.00 0.00 3.49
2766 2839 1.272781 GCGTAGTCAAGCTGCTACTG 58.727 55.000 13.89 5.28 36.39 2.74
2946 3019 4.208632 CTCAACGCCATGAGGGTC 57.791 61.111 0.00 0.00 42.52 4.46
3026 3099 4.109675 GGCCATGCCCACGGTACT 62.110 66.667 0.00 0.00 44.06 2.73
3027 3100 2.737881 GGCCATGCCCACGGTACTA 61.738 63.158 0.00 0.00 44.06 1.82
3043 3116 6.256539 CACGGTACTACGACATCTCTTACTTA 59.743 42.308 0.00 0.00 37.61 2.24
3071 3144 9.542462 TTGGTCATGTTATACTAGTATTTCTGC 57.458 33.333 20.21 7.55 0.00 4.26
3100 3173 5.365895 GTGATCCTACCTAACCTAACCATGT 59.634 44.000 0.00 0.00 0.00 3.21
3130 3203 9.196552 ACACAATCTTAAACCGTACTTACTTAC 57.803 33.333 0.00 0.00 0.00 2.34
3132 3205 9.987272 ACAATCTTAAACCGTACTTACTTACTT 57.013 29.630 0.00 0.00 0.00 2.24
3265 3342 1.337167 CGACACAGATCTGCAGGTTCA 60.337 52.381 22.83 0.00 0.00 3.18
3423 3500 2.366533 CAGCAGATTGTCTGGCTCATT 58.633 47.619 8.85 0.00 44.43 2.57
3428 3505 3.553511 CAGATTGTCTGGCTCATTACGAC 59.446 47.826 0.00 0.00 40.71 4.34
3429 3506 1.990799 TTGTCTGGCTCATTACGACG 58.009 50.000 0.00 0.00 0.00 5.12
3430 3507 1.170442 TGTCTGGCTCATTACGACGA 58.830 50.000 0.00 0.00 0.00 4.20
3431 3508 1.132453 TGTCTGGCTCATTACGACGAG 59.868 52.381 0.00 0.00 0.00 4.18
3446 3523 4.838486 GAGCTCACGTCGAGGCGG 62.838 72.222 9.40 0.00 42.55 6.13
3564 3641 3.672295 CTTCTCTGGCAGCGTCCCC 62.672 68.421 10.34 0.00 0.00 4.81
3664 3747 2.291043 GGGGGAGGAGAAAGCGTCA 61.291 63.158 0.00 0.00 0.00 4.35
3678 3761 1.991430 CGTCAGCTGAATCGAACGG 59.009 57.895 20.19 0.00 0.00 4.44
3697 3786 1.674221 GGAAGACTGCAATGACGCTCT 60.674 52.381 0.00 0.00 0.00 4.09
3702 3791 0.096628 CTGCAATGACGCTCTGAAGC 59.903 55.000 0.00 0.00 45.56 3.86
3718 3807 2.026356 TGAAGCGGGAGGATTGAATCAA 60.026 45.455 7.56 0.00 0.00 2.57
3725 3814 4.202295 CGGGAGGATTGAATCAAGAGATGA 60.202 45.833 7.56 0.00 43.67 2.92
3733 3822 9.206870 GGATTGAATCAAGAGATGAGATTAGTC 57.793 37.037 7.56 0.00 42.53 2.59
3752 3841 2.746362 GTCAAGGGAGTTGAGCATTCTG 59.254 50.000 0.00 0.00 46.18 3.02
3775 3864 8.585881 TCTGTTCCTAGTATATATTGCAAGACC 58.414 37.037 4.94 0.00 0.00 3.85
3776 3865 8.257602 TGTTCCTAGTATATATTGCAAGACCA 57.742 34.615 4.94 0.00 0.00 4.02
3777 3866 8.148351 TGTTCCTAGTATATATTGCAAGACCAC 58.852 37.037 4.94 0.00 0.00 4.16
3781 3870 9.337396 CCTAGTATATATTGCAAGACCACAAAA 57.663 33.333 4.94 0.00 0.00 2.44
3783 3872 8.807948 AGTATATATTGCAAGACCACAAAACT 57.192 30.769 4.94 0.00 0.00 2.66
3784 3873 9.899661 AGTATATATTGCAAGACCACAAAACTA 57.100 29.630 4.94 0.00 0.00 2.24
3785 3874 9.931210 GTATATATTGCAAGACCACAAAACTAC 57.069 33.333 4.94 0.00 0.00 2.73
3786 3875 8.807948 ATATATTGCAAGACCACAAAACTACT 57.192 30.769 4.94 0.00 0.00 2.57
3787 3876 5.852282 ATTGCAAGACCACAAAACTACTT 57.148 34.783 4.94 0.00 0.00 2.24
3788 3877 6.952773 ATTGCAAGACCACAAAACTACTTA 57.047 33.333 4.94 0.00 0.00 2.24
3789 3878 6.952773 TTGCAAGACCACAAAACTACTTAT 57.047 33.333 0.00 0.00 0.00 1.73
3846 3935 6.401394 TGGTCAATGTGATTAGAGAGTTCAG 58.599 40.000 0.00 0.00 0.00 3.02
3847 3936 5.293079 GGTCAATGTGATTAGAGAGTTCAGC 59.707 44.000 0.00 0.00 0.00 4.26
3851 3940 3.255888 TGTGATTAGAGAGTTCAGCGTGT 59.744 43.478 0.00 0.00 0.00 4.49
3864 3953 5.178809 AGTTCAGCGTGTATAGTTCCAAAAC 59.821 40.000 0.00 0.00 35.50 2.43
3865 3954 4.633175 TCAGCGTGTATAGTTCCAAAACA 58.367 39.130 0.00 0.00 37.88 2.83
3866 3955 4.688879 TCAGCGTGTATAGTTCCAAAACAG 59.311 41.667 0.00 0.00 37.88 3.16
3868 3957 3.998341 GCGTGTATAGTTCCAAAACAGGA 59.002 43.478 0.00 0.00 37.88 3.86
3869 3958 4.634443 GCGTGTATAGTTCCAAAACAGGAT 59.366 41.667 0.00 0.00 37.56 3.24
3870 3959 5.220605 GCGTGTATAGTTCCAAAACAGGATC 60.221 44.000 0.00 0.00 37.56 3.36
3871 3960 5.293569 CGTGTATAGTTCCAAAACAGGATCC 59.706 44.000 2.48 2.48 37.56 3.36
3873 3962 2.200373 AGTTCCAAAACAGGATCCGG 57.800 50.000 10.69 10.69 37.56 5.14
3874 3963 1.702957 AGTTCCAAAACAGGATCCGGA 59.297 47.619 19.55 6.61 37.56 5.14
3875 3964 2.107552 AGTTCCAAAACAGGATCCGGAA 59.892 45.455 19.55 14.89 37.56 4.30
3876 3965 2.194201 TCCAAAACAGGATCCGGAAC 57.806 50.000 19.55 5.41 31.23 3.62
3877 3966 1.609580 TCCAAAACAGGATCCGGAACG 60.610 52.381 19.55 0.00 42.40 3.95
3900 4028 4.822026 CTTTCAGACCGAACAGATTAGGT 58.178 43.478 0.00 0.00 45.63 3.08
3905 4033 3.594603 ACCGAACAGATTAGGTCACAG 57.405 47.619 0.00 0.00 39.42 3.66
3906 4034 2.897969 ACCGAACAGATTAGGTCACAGT 59.102 45.455 0.00 0.00 39.42 3.55
3907 4035 3.323979 ACCGAACAGATTAGGTCACAGTT 59.676 43.478 0.00 0.00 39.42 3.16
3908 4036 3.927142 CCGAACAGATTAGGTCACAGTTC 59.073 47.826 0.00 0.00 34.66 3.01
3909 4037 4.556233 CGAACAGATTAGGTCACAGTTCA 58.444 43.478 0.00 0.00 36.24 3.18
3910 4038 5.171476 CGAACAGATTAGGTCACAGTTCAT 58.829 41.667 0.00 0.00 36.24 2.57
3911 4039 5.062683 CGAACAGATTAGGTCACAGTTCATG 59.937 44.000 0.00 0.00 36.24 3.07
3912 4040 4.836825 ACAGATTAGGTCACAGTTCATGG 58.163 43.478 0.00 0.00 0.00 3.66
3913 4041 3.624861 CAGATTAGGTCACAGTTCATGGC 59.375 47.826 0.00 0.00 0.00 4.40
3914 4042 3.264193 AGATTAGGTCACAGTTCATGGCA 59.736 43.478 0.00 0.00 0.00 4.92
3915 4043 3.500448 TTAGGTCACAGTTCATGGCAA 57.500 42.857 0.00 0.00 0.00 4.52
3916 4044 2.592102 AGGTCACAGTTCATGGCAAT 57.408 45.000 0.00 0.00 0.00 3.56
3917 4045 2.165167 AGGTCACAGTTCATGGCAATG 58.835 47.619 0.00 0.00 34.88 2.82
3918 4046 1.403249 GGTCACAGTTCATGGCAATGC 60.403 52.381 0.00 0.00 33.47 3.56
3919 4047 1.270274 GTCACAGTTCATGGCAATGCA 59.730 47.619 7.79 0.00 33.47 3.96
3920 4048 1.962100 TCACAGTTCATGGCAATGCAA 59.038 42.857 7.79 0.00 33.47 4.08
3921 4049 2.029739 TCACAGTTCATGGCAATGCAAG 60.030 45.455 7.79 0.00 33.47 4.01
3922 4050 1.965643 ACAGTTCATGGCAATGCAAGT 59.034 42.857 7.79 0.00 33.47 3.16
3931 4059 4.439305 TGGCAATGCAAGTTACAAGATC 57.561 40.909 7.79 0.00 0.00 2.75
4034 4162 3.303881 TCATCCACACAACTTCGAGAG 57.696 47.619 0.00 0.00 0.00 3.20
4103 4239 3.625853 TCATCCAGATGACTCGAGAACT 58.374 45.455 21.68 9.29 42.42 3.01
4104 4240 3.379688 TCATCCAGATGACTCGAGAACTG 59.620 47.826 21.68 19.29 42.42 3.16
4105 4241 2.095461 TCCAGATGACTCGAGAACTGG 58.905 52.381 27.76 27.76 44.02 4.00
4106 4242 1.470632 CCAGATGACTCGAGAACTGGC 60.471 57.143 21.68 3.13 38.40 4.85
4130 4266 0.906756 TTCAGGAGGAGGCAGGAGTG 60.907 60.000 0.00 0.00 0.00 3.51
4205 4341 2.815589 GCCTTCTCCCTTGAACACATGT 60.816 50.000 0.00 0.00 0.00 3.21
4270 4406 0.107312 CCATCAGGGTCAGGCTGAAG 60.107 60.000 20.62 9.79 0.00 3.02
4271 4407 0.617413 CATCAGGGTCAGGCTGAAGT 59.383 55.000 20.62 3.54 0.00 3.01
4272 4408 0.617413 ATCAGGGTCAGGCTGAAGTG 59.383 55.000 20.62 16.14 0.00 3.16
4273 4409 0.471780 TCAGGGTCAGGCTGAAGTGA 60.472 55.000 20.62 18.14 0.00 3.41
4274 4410 0.397941 CAGGGTCAGGCTGAAGTGAA 59.602 55.000 20.62 0.00 0.00 3.18
4306 4442 6.183360 GGAACATGGTACCATTCAGTATGTTG 60.183 42.308 25.25 13.43 33.61 3.33
4307 4443 5.815581 ACATGGTACCATTCAGTATGTTGT 58.184 37.500 25.25 14.09 33.61 3.32
4310 4446 6.614694 TGGTACCATTCAGTATGTTGTACT 57.385 37.500 11.60 0.00 34.72 2.73
4368 4505 3.502211 AGTAAATGAACGGCTGTTGAAGG 59.498 43.478 17.49 0.00 38.78 3.46
4369 4506 2.270352 AATGAACGGCTGTTGAAGGA 57.730 45.000 17.49 0.00 38.78 3.36
4370 4507 2.270352 ATGAACGGCTGTTGAAGGAA 57.730 45.000 17.49 0.00 38.78 3.36
4371 4508 1.593196 TGAACGGCTGTTGAAGGAAG 58.407 50.000 17.49 0.00 38.78 3.46
4398 4535 0.982852 TCCTGTGTATGGCTCCAGGG 60.983 60.000 4.82 0.00 43.77 4.45
4530 4667 2.283388 TACTCGCCTGTTCCCGGT 60.283 61.111 0.00 0.00 0.00 5.28
4556 4693 1.599542 GGATCGCAATGTGAGGTTAGC 59.400 52.381 2.12 0.00 0.00 3.09
4562 4699 3.667960 CGCAATGTGAGGTTAGCTTGAAC 60.668 47.826 0.00 0.00 0.00 3.18
4563 4700 3.503748 GCAATGTGAGGTTAGCTTGAACT 59.496 43.478 0.00 0.00 0.00 3.01
4564 4701 4.022849 GCAATGTGAGGTTAGCTTGAACTT 60.023 41.667 0.00 0.00 0.00 2.66
4565 4702 5.455392 CAATGTGAGGTTAGCTTGAACTTG 58.545 41.667 0.00 0.00 0.00 3.16
4566 4703 4.415881 TGTGAGGTTAGCTTGAACTTGA 57.584 40.909 0.00 0.00 0.00 3.02
4567 4704 4.776349 TGTGAGGTTAGCTTGAACTTGAA 58.224 39.130 0.00 0.00 0.00 2.69
4577 4714 0.592637 TGAACTTGAAGGCATGTGCG 59.407 50.000 0.00 0.00 43.26 5.34
4578 4715 0.874390 GAACTTGAAGGCATGTGCGA 59.126 50.000 0.00 0.00 43.26 5.10
4579 4716 0.877071 AACTTGAAGGCATGTGCGAG 59.123 50.000 0.00 0.00 43.26 5.03
4608 4745 4.627035 GCTGGCACCATTTTCAGAAATTAC 59.373 41.667 0.00 0.00 33.25 1.89
4612 4749 6.705381 TGGCACCATTTTCAGAAATTACTTTG 59.295 34.615 0.00 0.00 33.25 2.77
4616 4753 6.420604 ACCATTTTCAGAAATTACTTTGCACG 59.579 34.615 0.00 0.00 33.25 5.34
4617 4754 6.420604 CCATTTTCAGAAATTACTTTGCACGT 59.579 34.615 0.00 0.00 33.25 4.49
4623 4760 4.578928 AGAAATTACTTTGCACGTCAGGTT 59.421 37.500 0.00 0.00 0.00 3.50
4632 4769 2.946329 TGCACGTCAGGTTACAAACAAT 59.054 40.909 0.00 0.00 0.00 2.71
4636 4773 3.562557 ACGTCAGGTTACAAACAATGGTC 59.437 43.478 0.00 0.00 0.00 4.02
4643 4780 4.023536 GGTTACAAACAATGGTCGTCATGT 60.024 41.667 0.00 0.00 35.99 3.21
4660 4797 5.220854 CGTCATGTTGGAACTTCAGAGTTTT 60.221 40.000 0.00 0.00 45.88 2.43
4662 4799 5.885352 TCATGTTGGAACTTCAGAGTTTTGA 59.115 36.000 0.00 0.00 45.88 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 5.011090 TCTATCTTGATTTGGTCTGACGG 57.989 43.478 1.07 0.00 0.00 4.79
17 18 6.536941 GGAACTCTATCTTGATTTGGTCTGAC 59.463 42.308 0.00 0.00 0.00 3.51
21 22 7.106239 TGAAGGAACTCTATCTTGATTTGGTC 58.894 38.462 0.00 0.00 38.49 4.02
36 38 5.046231 AGGGAGTAAGACAATGAAGGAACTC 60.046 44.000 0.00 0.00 38.49 3.01
113 119 1.727880 GCTTGCGTACAACGTCCATAA 59.272 47.619 1.07 0.00 44.73 1.90
118 124 1.068474 AGATGCTTGCGTACAACGTC 58.932 50.000 1.07 0.00 44.73 4.34
133 139 2.100418 TGAGGCGAATCAGAGACAGATG 59.900 50.000 0.00 0.00 0.00 2.90
144 150 3.629398 AGTTGATGGAATTGAGGCGAATC 59.371 43.478 0.00 0.00 0.00 2.52
191 202 4.142315 GCCACAACTCATCAACATATGCTT 60.142 41.667 1.58 0.00 0.00 3.91
197 208 1.167851 CCGCCACAACTCATCAACAT 58.832 50.000 0.00 0.00 0.00 2.71
236 247 1.272784 TACGTGTCAGCGTGAAAGCG 61.273 55.000 0.00 0.00 45.33 4.68
246 257 4.513692 TCCTTTCCACAAATTACGTGTCAG 59.486 41.667 0.00 0.00 32.26 3.51
249 260 3.818773 CCTCCTTTCCACAAATTACGTGT 59.181 43.478 0.00 0.00 32.26 4.49
265 276 0.610687 CGCACCTCTCTTTCCTCCTT 59.389 55.000 0.00 0.00 0.00 3.36
266 277 1.261238 CCGCACCTCTCTTTCCTCCT 61.261 60.000 0.00 0.00 0.00 3.69
267 278 1.219393 CCGCACCTCTCTTTCCTCC 59.781 63.158 0.00 0.00 0.00 4.30
281 292 3.691342 AAGTCTGTAGCCGCCGCA 61.691 61.111 0.00 0.00 37.52 5.69
313 324 4.572571 ACGCAGGGGCAACGGAAA 62.573 61.111 0.00 0.00 41.24 3.13
339 351 1.472878 CGGGTCGATCTTCTTCTGTGA 59.527 52.381 0.00 0.00 0.00 3.58
340 352 1.469940 CCGGGTCGATCTTCTTCTGTG 60.470 57.143 0.00 0.00 0.00 3.66
345 357 2.732619 GGCCCGGGTCGATCTTCTT 61.733 63.158 24.63 0.00 0.00 2.52
346 358 3.155167 GGCCCGGGTCGATCTTCT 61.155 66.667 24.63 0.00 0.00 2.85
380 392 2.835883 CGATCGCATCAGCATCAATTC 58.164 47.619 0.26 0.00 42.27 2.17
397 409 2.680913 GCAAACGGCAGACTGCGAT 61.681 57.895 20.82 8.75 46.21 4.58
492 531 0.796312 CACAGACCAATCGAAACGGG 59.204 55.000 0.00 0.00 0.00 5.28
526 568 1.533165 GAATCAGCGTACGAGCGAGC 61.533 60.000 21.65 0.00 43.00 5.03
528 570 0.027716 GAGAATCAGCGTACGAGCGA 59.972 55.000 21.65 11.75 43.00 4.93
530 572 0.930742 CGGAGAATCAGCGTACGAGC 60.931 60.000 21.65 1.24 36.25 5.03
532 574 1.725665 CCGGAGAATCAGCGTACGA 59.274 57.895 21.65 0.00 36.25 3.43
538 580 1.880340 CGAGTGCCGGAGAATCAGC 60.880 63.158 5.05 0.00 36.25 4.26
540 582 0.385751 GATCGAGTGCCGGAGAATCA 59.614 55.000 5.05 0.00 39.14 2.57
554 596 3.737047 GCAGATAAAACTCGGGTGATCGA 60.737 47.826 0.00 0.00 37.60 3.59
555 597 2.540101 GCAGATAAAACTCGGGTGATCG 59.460 50.000 0.00 0.00 0.00 3.69
556 598 2.540101 CGCAGATAAAACTCGGGTGATC 59.460 50.000 0.00 0.00 0.00 2.92
557 599 2.550978 CGCAGATAAAACTCGGGTGAT 58.449 47.619 0.00 0.00 0.00 3.06
575 617 0.881118 TGGGAATCTTCTTGTTGCGC 59.119 50.000 0.00 0.00 0.00 6.09
588 634 4.078336 TGAGAGAGGAAGGTAGATGGGAAT 60.078 45.833 0.00 0.00 0.00 3.01
596 642 5.413309 ACAATGTTGAGAGAGGAAGGTAG 57.587 43.478 0.00 0.00 0.00 3.18
655 701 4.997395 GGTGCAAGAAACAATCTCTGTCTA 59.003 41.667 0.00 0.00 37.23 2.59
659 705 2.886523 TGGGTGCAAGAAACAATCTCTG 59.113 45.455 0.00 0.00 37.42 3.35
663 715 2.102252 TGGTTGGGTGCAAGAAACAATC 59.898 45.455 8.41 2.41 0.00 2.67
677 729 3.354678 CCGAGCTTTGTGGTTGGG 58.645 61.111 0.00 0.00 42.58 4.12
689 741 4.142600 GCATATTATTCCATTCCACCGAGC 60.143 45.833 0.00 0.00 0.00 5.03
798 850 6.664714 TGAAGAGATGAAGGCTACTAGTAGT 58.335 40.000 26.76 10.94 35.65 2.73
825 883 1.525077 GCTGGGTCAACGGTCAACA 60.525 57.895 0.00 0.00 0.00 3.33
886 946 0.793250 GCAAAGACGAGCTGGAGAAC 59.207 55.000 1.44 0.00 0.00 3.01
939 1003 3.411517 ACGGATGGGAAGCCAGGG 61.412 66.667 0.00 0.00 0.00 4.45
970 1034 3.064931 CGTCTTACCTTGGTTGGACTTC 58.935 50.000 16.43 0.00 0.00 3.01
982 1046 4.125695 GGCGCCGTCGTCTTACCT 62.126 66.667 12.58 0.00 37.34 3.08
983 1047 3.711541 ATGGCGCCGTCGTCTTACC 62.712 63.158 23.90 0.00 41.64 2.85
984 1048 2.202703 ATGGCGCCGTCGTCTTAC 60.203 61.111 23.90 0.00 41.64 2.34
985 1049 2.202690 CATGGCGCCGTCGTCTTA 60.203 61.111 20.90 0.00 41.64 2.10
986 1050 3.583276 TTCATGGCGCCGTCGTCTT 62.583 57.895 20.90 0.00 41.64 3.01
1298 1365 2.460330 GTGATGCACCAGAAGTCGG 58.540 57.895 0.00 0.00 0.00 4.79
1710 1777 1.134907 GCCTCGTCGAAATCCTGGTTA 60.135 52.381 0.00 0.00 0.00 2.85
1712 1779 1.218316 GCCTCGTCGAAATCCTGGT 59.782 57.895 0.00 0.00 0.00 4.00
1714 1781 0.391130 TTGGCCTCGTCGAAATCCTG 60.391 55.000 3.32 0.00 0.00 3.86
1716 1783 0.108329 TCTTGGCCTCGTCGAAATCC 60.108 55.000 3.32 0.00 0.00 3.01
1838 1908 3.655810 CTCACCTGGTCGAGCAGCC 62.656 68.421 33.72 10.94 0.00 4.85
2172 2242 3.934391 CTTGGACACGACCTCGGCC 62.934 68.421 0.00 0.00 44.95 6.13
2260 2330 4.752879 GCGGCCGGTGTAGAGCAA 62.753 66.667 29.38 0.00 0.00 3.91
2343 2416 4.096081 AGGTTGTACTGCAGATAGTCGTAC 59.904 45.833 23.35 11.79 32.19 3.67
2352 2425 1.347707 CCCAGAAGGTTGTACTGCAGA 59.652 52.381 23.35 0.48 0.00 4.26
2360 2433 2.116125 GCAGGCCCAGAAGGTTGT 59.884 61.111 0.00 0.00 38.26 3.32
2394 2467 1.003839 GTTGTCATGGTCCCTCGCA 60.004 57.895 0.00 0.00 0.00 5.10
2397 2470 1.021390 CGCAGTTGTCATGGTCCCTC 61.021 60.000 0.00 0.00 0.00 4.30
2700 2773 1.528824 CCTCTCGTCCATGGCCATT 59.471 57.895 17.92 0.00 0.00 3.16
2751 2824 1.248486 TCGACAGTAGCAGCTTGACT 58.752 50.000 0.00 0.00 0.00 3.41
2763 2836 3.187700 GGCGTTGAAGAATATCGACAGT 58.812 45.455 0.00 0.00 33.99 3.55
2766 2839 1.521423 CCGGCGTTGAAGAATATCGAC 59.479 52.381 6.01 0.00 0.00 4.20
2998 3071 2.048603 GCATGGCCTTGGTCACCTC 61.049 63.158 19.47 0.00 0.00 3.85
2999 3072 2.036256 GCATGGCCTTGGTCACCT 59.964 61.111 19.47 0.00 0.00 4.00
3025 3098 7.086230 ACCAAGTAAGTAAGAGATGTCGTAG 57.914 40.000 0.00 0.00 0.00 3.51
3026 3099 6.656270 TGACCAAGTAAGTAAGAGATGTCGTA 59.344 38.462 0.00 0.00 0.00 3.43
3027 3100 5.475909 TGACCAAGTAAGTAAGAGATGTCGT 59.524 40.000 0.00 0.00 0.00 4.34
3068 3141 1.227380 GGTAGGATCACGCAGGCAG 60.227 63.158 0.00 0.00 0.00 4.85
3069 3142 0.396556 TAGGTAGGATCACGCAGGCA 60.397 55.000 0.00 0.00 0.00 4.75
3070 3143 0.750850 TTAGGTAGGATCACGCAGGC 59.249 55.000 0.00 0.00 0.00 4.85
3071 3144 1.068741 GGTTAGGTAGGATCACGCAGG 59.931 57.143 0.00 0.00 0.00 4.85
3100 3173 6.092955 AGTACGGTTTAAGATTGTGTCAGA 57.907 37.500 0.00 0.00 0.00 3.27
3130 3203 9.933723 TCATCCACATGTCATGTCTAATATAAG 57.066 33.333 15.73 1.72 42.70 1.73
3132 3205 8.869109 TGTCATCCACATGTCATGTCTAATATA 58.131 33.333 15.73 0.00 42.70 0.86
3133 3206 7.738847 TGTCATCCACATGTCATGTCTAATAT 58.261 34.615 15.73 2.96 42.70 1.28
3134 3207 7.069826 TCTGTCATCCACATGTCATGTCTAATA 59.930 37.037 15.73 0.00 42.70 0.98
3135 3208 5.993055 TGTCATCCACATGTCATGTCTAAT 58.007 37.500 15.73 6.91 42.70 1.73
3136 3209 5.187576 TCTGTCATCCACATGTCATGTCTAA 59.812 40.000 15.73 4.87 42.70 2.10
3137 3210 4.711355 TCTGTCATCCACATGTCATGTCTA 59.289 41.667 15.73 7.30 42.70 2.59
3138 3211 3.516700 TCTGTCATCCACATGTCATGTCT 59.483 43.478 15.73 1.26 42.70 3.41
3141 3214 3.373130 GTGTCTGTCATCCACATGTCATG 59.627 47.826 11.41 11.41 33.23 3.07
3237 3314 1.135257 CAGATCTGTGTCGTCAGTCCC 60.135 57.143 14.95 0.00 36.85 4.46
3321 3398 4.112341 ACCAGCCGCTCGACGTAC 62.112 66.667 0.00 0.00 41.42 3.67
3361 3438 1.142748 GCACTCTGATCTCCGGGTG 59.857 63.158 0.00 0.00 0.00 4.61
3429 3506 4.838486 CCGCCTCGACGTGAGCTC 62.838 72.222 6.82 6.82 43.82 4.09
3584 3661 0.247736 GTCCACGATGGCAGAGAAGT 59.752 55.000 0.00 0.00 37.47 3.01
3645 3725 3.372554 GACGCTTTCTCCTCCCCCG 62.373 68.421 0.00 0.00 0.00 5.73
3648 3728 1.448717 GCTGACGCTTTCTCCTCCC 60.449 63.158 0.00 0.00 0.00 4.30
3664 3747 1.546476 AGTCTTCCGTTCGATTCAGCT 59.454 47.619 0.00 0.00 0.00 4.24
3673 3756 1.126846 CGTCATTGCAGTCTTCCGTTC 59.873 52.381 0.00 0.00 0.00 3.95
3678 3761 1.392853 CAGAGCGTCATTGCAGTCTTC 59.607 52.381 0.00 0.00 37.31 2.87
3697 3786 1.559219 TGATTCAATCCTCCCGCTTCA 59.441 47.619 0.00 0.00 0.00 3.02
3702 3791 3.827008 TCTCTTGATTCAATCCTCCCG 57.173 47.619 0.00 0.00 0.00 5.14
3718 3807 5.776358 ACTCCCTTGACTAATCTCATCTCT 58.224 41.667 0.00 0.00 0.00 3.10
3725 3814 3.840666 TGCTCAACTCCCTTGACTAATCT 59.159 43.478 0.00 0.00 33.65 2.40
3733 3822 2.787994 ACAGAATGCTCAACTCCCTTG 58.212 47.619 0.00 0.00 42.53 3.61
3752 3841 8.148351 TGTGGTCTTGCAATATATACTAGGAAC 58.852 37.037 0.00 0.00 0.00 3.62
3766 3855 6.952773 ATAAGTAGTTTTGTGGTCTTGCAA 57.047 33.333 0.00 0.00 0.00 4.08
3846 3935 3.998341 TCCTGTTTTGGAACTATACACGC 59.002 43.478 0.00 0.00 36.70 5.34
3847 3936 5.293569 GGATCCTGTTTTGGAACTATACACG 59.706 44.000 3.84 0.00 39.85 4.49
3851 3940 4.717778 TCCGGATCCTGTTTTGGAACTATA 59.282 41.667 10.75 0.00 39.85 1.31
3864 3953 0.391130 TGAAAGCGTTCCGGATCCTG 60.391 55.000 4.15 2.93 32.28 3.86
3865 3954 0.108138 CTGAAAGCGTTCCGGATCCT 60.108 55.000 4.15 1.06 32.28 3.24
3866 3955 0.108329 TCTGAAAGCGTTCCGGATCC 60.108 55.000 4.15 0.00 32.28 3.36
3868 3957 0.391263 GGTCTGAAAGCGTTCCGGAT 60.391 55.000 4.15 0.00 32.28 4.18
3869 3958 1.005394 GGTCTGAAAGCGTTCCGGA 60.005 57.895 0.00 0.00 32.28 5.14
3870 3959 2.380410 CGGTCTGAAAGCGTTCCGG 61.380 63.158 9.96 0.00 43.74 5.14
3871 3960 3.156334 CGGTCTGAAAGCGTTCCG 58.844 61.111 9.96 3.67 43.74 4.30
3877 3966 3.619038 CCTAATCTGTTCGGTCTGAAAGC 59.381 47.826 0.00 0.00 38.60 3.51
3900 4028 1.618487 TGCATTGCCATGAACTGTGA 58.382 45.000 6.12 0.00 31.07 3.58
3901 4029 2.288579 ACTTGCATTGCCATGAACTGTG 60.289 45.455 6.12 0.00 31.07 3.66
3902 4030 1.965643 ACTTGCATTGCCATGAACTGT 59.034 42.857 6.12 0.00 31.07 3.55
3903 4031 2.736144 ACTTGCATTGCCATGAACTG 57.264 45.000 6.12 0.00 31.07 3.16
3904 4032 3.573538 TGTAACTTGCATTGCCATGAACT 59.426 39.130 6.12 0.00 31.07 3.01
3905 4033 3.911868 TGTAACTTGCATTGCCATGAAC 58.088 40.909 6.12 0.26 31.07 3.18
3906 4034 4.280425 TCTTGTAACTTGCATTGCCATGAA 59.720 37.500 6.12 0.00 31.07 2.57
3907 4035 3.825585 TCTTGTAACTTGCATTGCCATGA 59.174 39.130 6.12 1.08 31.07 3.07
3908 4036 4.177165 TCTTGTAACTTGCATTGCCATG 57.823 40.909 6.12 0.00 0.00 3.66
3909 4037 4.463539 TGATCTTGTAACTTGCATTGCCAT 59.536 37.500 6.12 0.00 0.00 4.40
3910 4038 3.825585 TGATCTTGTAACTTGCATTGCCA 59.174 39.130 6.12 0.00 0.00 4.92
3911 4039 4.439305 TGATCTTGTAACTTGCATTGCC 57.561 40.909 6.12 0.00 0.00 4.52
3912 4040 5.684626 GCTATGATCTTGTAACTTGCATTGC 59.315 40.000 0.46 0.46 0.00 3.56
3913 4041 6.039047 AGGCTATGATCTTGTAACTTGCATTG 59.961 38.462 0.00 0.00 0.00 2.82
3914 4042 6.039047 CAGGCTATGATCTTGTAACTTGCATT 59.961 38.462 0.00 0.00 0.00 3.56
3915 4043 5.530171 CAGGCTATGATCTTGTAACTTGCAT 59.470 40.000 0.00 0.00 0.00 3.96
3916 4044 4.877823 CAGGCTATGATCTTGTAACTTGCA 59.122 41.667 0.00 0.00 0.00 4.08
3917 4045 4.274459 CCAGGCTATGATCTTGTAACTTGC 59.726 45.833 0.00 0.00 0.00 4.01
3918 4046 5.431765 ACCAGGCTATGATCTTGTAACTTG 58.568 41.667 0.00 0.00 0.00 3.16
3919 4047 5.700402 ACCAGGCTATGATCTTGTAACTT 57.300 39.130 0.00 0.00 0.00 2.66
3920 4048 5.700402 AACCAGGCTATGATCTTGTAACT 57.300 39.130 0.00 0.00 0.00 2.24
3921 4049 6.821665 TGTTAACCAGGCTATGATCTTGTAAC 59.178 38.462 2.48 0.00 0.00 2.50
3922 4050 6.953101 TGTTAACCAGGCTATGATCTTGTAA 58.047 36.000 2.48 0.00 0.00 2.41
3931 4059 6.407202 AGTTTCTACTGTTAACCAGGCTATG 58.593 40.000 2.48 0.00 46.06 2.23
4034 4162 4.766375 TGATTAGGTTCCAGAATCCGTTC 58.234 43.478 11.37 0.00 34.46 3.95
4089 4225 0.526524 CGGCCAGTTCTCGAGTCATC 60.527 60.000 13.13 1.88 0.00 2.92
4103 4239 2.040442 TCCTCCTGAATCCGGCCA 59.960 61.111 2.24 0.00 0.00 5.36
4104 4240 2.812619 CCTCCTCCTGAATCCGGCC 61.813 68.421 0.00 0.00 0.00 6.13
4105 4241 2.825264 CCTCCTCCTGAATCCGGC 59.175 66.667 0.00 0.00 0.00 6.13
4106 4242 2.037620 CTGCCTCCTCCTGAATCCGG 62.038 65.000 0.00 0.00 0.00 5.14
4130 4266 3.003275 TCAACAGCGTTTCCATCAAGTTC 59.997 43.478 0.00 0.00 0.00 3.01
4270 4406 2.306847 ACCATGTTCCCTTGTGTTCAC 58.693 47.619 0.00 0.00 0.00 3.18
4271 4407 2.746279 ACCATGTTCCCTTGTGTTCA 57.254 45.000 0.00 0.00 0.00 3.18
4272 4408 2.817844 GGTACCATGTTCCCTTGTGTTC 59.182 50.000 7.15 0.00 0.00 3.18
4273 4409 2.175931 TGGTACCATGTTCCCTTGTGTT 59.824 45.455 11.60 0.00 0.00 3.32
4274 4410 1.777878 TGGTACCATGTTCCCTTGTGT 59.222 47.619 11.60 0.00 0.00 3.72
4351 4488 2.154462 CTTCCTTCAACAGCCGTTCAT 58.846 47.619 0.00 0.00 31.13 2.57
4368 4505 2.953466 TACACAGGACGGTATGCTTC 57.047 50.000 0.00 0.00 0.00 3.86
4369 4506 2.158957 CCATACACAGGACGGTATGCTT 60.159 50.000 0.00 0.00 43.39 3.91
4370 4507 1.412710 CCATACACAGGACGGTATGCT 59.587 52.381 0.00 0.00 43.39 3.79
4371 4508 1.865865 CCATACACAGGACGGTATGC 58.134 55.000 0.00 0.00 43.39 3.14
4398 4535 2.188207 GCCTTCTTCGAGGGGCTC 59.812 66.667 7.44 0.00 41.20 4.70
4401 4538 4.162690 CCGGCCTTCTTCGAGGGG 62.163 72.222 0.00 0.00 37.29 4.79
4404 4541 4.082523 TGGCCGGCCTTCTTCGAG 62.083 66.667 43.34 0.00 36.94 4.04
4530 4667 2.419990 CCTCACATTGCGATCCAGGTTA 60.420 50.000 0.00 0.00 0.00 2.85
4556 4693 2.669364 GCACATGCCTTCAAGTTCAAG 58.331 47.619 0.00 0.00 34.31 3.02
4562 4699 0.725686 CTCTCGCACATGCCTTCAAG 59.274 55.000 0.00 0.00 37.91 3.02
4563 4700 1.300971 GCTCTCGCACATGCCTTCAA 61.301 55.000 0.00 0.00 37.91 2.69
4564 4701 1.742880 GCTCTCGCACATGCCTTCA 60.743 57.895 0.00 0.00 37.91 3.02
4565 4702 1.742880 TGCTCTCGCACATGCCTTC 60.743 57.895 0.00 0.00 42.25 3.46
4566 4703 2.348620 TGCTCTCGCACATGCCTT 59.651 55.556 0.00 0.00 42.25 4.35
4577 4714 1.035932 AATGGTGCCAGCATGCTCTC 61.036 55.000 19.68 12.94 36.31 3.20
4578 4715 0.613853 AAATGGTGCCAGCATGCTCT 60.614 50.000 19.68 0.00 36.31 4.09
4579 4716 0.248289 AAAATGGTGCCAGCATGCTC 59.752 50.000 19.68 8.52 36.31 4.26
4608 4745 3.181505 TGTTTGTAACCTGACGTGCAAAG 60.182 43.478 0.00 0.00 33.54 2.77
4612 4749 3.296628 CATTGTTTGTAACCTGACGTGC 58.703 45.455 0.00 0.00 0.00 5.34
4616 4753 3.562557 ACGACCATTGTTTGTAACCTGAC 59.437 43.478 0.00 0.00 0.00 3.51
4617 4754 3.810941 GACGACCATTGTTTGTAACCTGA 59.189 43.478 0.00 0.00 0.00 3.86
4623 4760 4.023622 CCAACATGACGACCATTGTTTGTA 60.024 41.667 0.00 0.00 31.94 2.41
4632 4769 2.158885 TGAAGTTCCAACATGACGACCA 60.159 45.455 0.00 0.00 0.00 4.02
4636 4773 3.393800 ACTCTGAAGTTCCAACATGACG 58.606 45.455 0.00 0.00 28.74 4.35
4643 4780 4.827284 GGGATCAAAACTCTGAAGTTCCAA 59.173 41.667 0.00 0.00 45.07 3.53


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

AutoCloner maintained by Alex Coulton.