Multiple sequence alignment - TraesCS7B01G145800

Loading Multiple Alignment...

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 TraesCS7B01G145800 chr7B 100.000 4815 0 0 1 4815 189499944 189495130 0.000000e+00 8892.0
1 TraesCS7B01G145800 chr7D 90.945 4053 143 85 1 3957 212204108 212208032 0.000000e+00 5245.0
2 TraesCS7B01G145800 chr7D 91.837 196 9 2 4006 4194 212208030 212208225 2.860000e-67 267.0
3 TraesCS7B01G145800 chr7A 88.277 3122 150 87 946 3957 224035565 224038580 0.000000e+00 3539.0
4 TraesCS7B01G145800 chr7A 83.875 862 54 46 1 834 224034693 224035497 0.000000e+00 743.0
5 TraesCS7B01G145800 chr7A 100.000 41 0 0 922 962 224035529 224035569 5.170000e-10 76.8
6 TraesCS7B01G145800 chr2D 97.715 569 13 0 4192 4760 57155376 57154808 0.000000e+00 979.0
7 TraesCS7B01G145800 chr2D 100.000 58 0 0 4758 4815 57151305 57151248 1.830000e-19 108.0
8 TraesCS7B01G145800 chr2A 97.292 517 14 0 4283 4799 52218150 52217634 0.000000e+00 878.0
9 TraesCS7B01G145800 chr2A 96.518 517 18 0 4283 4799 52191707 52191191 0.000000e+00 856.0
10 TraesCS7B01G145800 chr2A 94.595 74 3 1 4192 4264 52218339 52218266 3.940000e-21 113.0
11 TraesCS7B01G145800 chr2A 93.151 73 3 2 4193 4264 52191894 52191823 6.590000e-19 106.0
12 TraesCS7B01G145800 chr1B 95.709 536 23 0 4280 4815 26983626 26983091 0.000000e+00 863.0
13 TraesCS7B01G145800 chr5D 91.150 113 10 0 2554 2666 375678426 375678538 2.320000e-33 154.0
14 TraesCS7B01G145800 chr5A 90.265 113 11 0 2554 2666 476837049 476837161 1.080000e-31 148.0
15 TraesCS7B01G145800 chr5A 91.176 68 6 0 1886 1953 476836386 476836453 5.130000e-15 93.5
16 TraesCS7B01G145800 chr5B 93.590 78 5 0 3005 3082 448467080 448467157 3.040000e-22 117.0
17 TraesCS7B01G145800 chr5B 87.500 88 11 0 1866 1953 448465896 448465983 8.530000e-18 102.0


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 TraesCS7B01G145800 chr7B 189495130 189499944 4814 True 8892.000000 8892 100.000000 1 4815 1 chr7B.!!$R1 4814
1 TraesCS7B01G145800 chr7D 212204108 212208225 4117 False 2756.000000 5245 91.391000 1 4194 2 chr7D.!!$F1 4193
2 TraesCS7B01G145800 chr7A 224034693 224038580 3887 False 1452.933333 3539 90.717333 1 3957 3 chr7A.!!$F1 3956
3 TraesCS7B01G145800 chr2D 57151248 57155376 4128 True 543.500000 979 98.857500 4192 4815 2 chr2D.!!$R1 623
4 TraesCS7B01G145800 chr2A 52217634 52218339 705 True 495.500000 878 95.943500 4192 4799 2 chr2A.!!$R2 607
5 TraesCS7B01G145800 chr2A 52191191 52191894 703 True 481.000000 856 94.834500 4193 4799 2 chr2A.!!$R1 606
6 TraesCS7B01G145800 chr1B 26983091 26983626 535 True 863.000000 863 95.709000 4280 4815 1 chr1B.!!$R1 535

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
742 788 0.536006 ACACCCAAGCTCAGTTCAGC 60.536 55.0 0.00 0.0 39.99 4.26 F
1058 1125 0.178981 AAAGCAGAGAAGCCAAGCCA 60.179 50.0 0.00 0.0 34.23 4.75 F
1381 1472 0.318441 TGGAGGAGTCACGCTTCTTG 59.682 55.0 0.00 0.0 31.80 3.02 F
1382 1473 0.603569 GGAGGAGTCACGCTTCTTGA 59.396 55.0 0.00 0.0 31.80 3.02 F
2743 2876 0.516877 TTGCACACGATTGCTGCTAC 59.483 50.0 12.93 0.0 43.41 3.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1744 1849 0.381089 GGAACATCATCTGCTGCTGC 59.619 55.000 8.89 8.89 40.20 5.25 R
2039 2154 0.603707 CAAGAACTGGCCAAGAGCGA 60.604 55.000 7.01 0.00 45.17 4.93 R
2252 2370 1.000385 GAGATCTGGGACATGAGCGAG 60.000 57.143 0.00 0.00 38.20 5.03 R
2776 2909 1.203994 GGCAAAGATCAGCAGCACATT 59.796 47.619 0.00 0.00 0.00 2.71 R
3919 4135 0.251341 AGACTTTTGGGCAAGCCGAT 60.251 50.000 4.80 0.00 36.85 4.18 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
41 42 2.464459 CCCTGCTCGAAATGGCGAC 61.464 63.158 0.00 0.00 36.17 5.19
160 163 2.979676 CAGCGGCACAGGCTCAAA 60.980 61.111 1.45 0.00 39.08 2.69
228 249 3.464494 GCCCTACCGCCGTACCTT 61.464 66.667 0.00 0.00 0.00 3.50
229 250 2.810403 CCCTACCGCCGTACCTTC 59.190 66.667 0.00 0.00 0.00 3.46
339 368 2.972348 TCTTCACCCCACTCTACTGTT 58.028 47.619 0.00 0.00 0.00 3.16
341 370 4.485875 TCTTCACCCCACTCTACTGTTTA 58.514 43.478 0.00 0.00 0.00 2.01
342 371 4.282703 TCTTCACCCCACTCTACTGTTTAC 59.717 45.833 0.00 0.00 0.00 2.01
343 372 3.578978 TCACCCCACTCTACTGTTTACA 58.421 45.455 0.00 0.00 0.00 2.41
344 373 4.164981 TCACCCCACTCTACTGTTTACAT 58.835 43.478 0.00 0.00 0.00 2.29
345 374 4.595781 TCACCCCACTCTACTGTTTACATT 59.404 41.667 0.00 0.00 0.00 2.71
346 375 5.781306 TCACCCCACTCTACTGTTTACATTA 59.219 40.000 0.00 0.00 0.00 1.90
347 376 5.873164 CACCCCACTCTACTGTTTACATTAC 59.127 44.000 0.00 0.00 0.00 1.89
349 378 6.271624 ACCCCACTCTACTGTTTACATTACTT 59.728 38.462 0.00 0.00 0.00 2.24
350 379 6.817140 CCCCACTCTACTGTTTACATTACTTC 59.183 42.308 0.00 0.00 0.00 3.01
351 380 6.817140 CCCACTCTACTGTTTACATTACTTCC 59.183 42.308 0.00 0.00 0.00 3.46
352 381 6.817140 CCACTCTACTGTTTACATTACTTCCC 59.183 42.308 0.00 0.00 0.00 3.97
353 382 7.310485 CCACTCTACTGTTTACATTACTTCCCT 60.310 40.741 0.00 0.00 0.00 4.20
354 383 8.095169 CACTCTACTGTTTACATTACTTCCCTT 58.905 37.037 0.00 0.00 0.00 3.95
355 384 8.657712 ACTCTACTGTTTACATTACTTCCCTTT 58.342 33.333 0.00 0.00 0.00 3.11
415 444 0.796870 TCGTCGCTGCTGATGTTACG 60.797 55.000 0.00 0.00 0.00 3.18
416 445 1.071019 CGTCGCTGCTGATGTTACGT 61.071 55.000 0.00 0.00 0.00 3.57
528 565 0.973632 TGGGAGCTAGTTTTGCGAGA 59.026 50.000 0.00 0.00 35.28 4.04
626 663 1.008995 CCGCCACCGTCTTGTTTTG 60.009 57.895 0.00 0.00 0.00 2.44
634 672 2.997303 ACCGTCTTGTTTTGTTTTTGCC 59.003 40.909 0.00 0.00 0.00 4.52
696 737 5.789574 AGGATAACCCCTGTTGTAATTCA 57.210 39.130 0.00 0.00 35.87 2.57
711 752 7.793927 TTGTAATTCAACCAATCAAAAACCC 57.206 32.000 0.00 0.00 0.00 4.11
712 753 6.889198 TGTAATTCAACCAATCAAAAACCCA 58.111 32.000 0.00 0.00 0.00 4.51
713 754 7.338710 TGTAATTCAACCAATCAAAAACCCAA 58.661 30.769 0.00 0.00 0.00 4.12
714 755 6.691754 AATTCAACCAATCAAAAACCCAAC 57.308 33.333 0.00 0.00 0.00 3.77
715 756 5.428184 TTCAACCAATCAAAAACCCAACT 57.572 34.783 0.00 0.00 0.00 3.16
716 757 5.428184 TCAACCAATCAAAAACCCAACTT 57.572 34.783 0.00 0.00 0.00 2.66
717 758 5.810095 TCAACCAATCAAAAACCCAACTTT 58.190 33.333 0.00 0.00 0.00 2.66
718 759 6.241645 TCAACCAATCAAAAACCCAACTTTT 58.758 32.000 0.00 0.00 0.00 2.27
719 760 6.372937 TCAACCAATCAAAAACCCAACTTTTC 59.627 34.615 0.00 0.00 0.00 2.29
720 761 6.061022 ACCAATCAAAAACCCAACTTTTCT 57.939 33.333 0.00 0.00 0.00 2.52
721 762 5.879777 ACCAATCAAAAACCCAACTTTTCTG 59.120 36.000 0.00 0.00 0.00 3.02
737 778 1.228063 CTGCACACCCAAGCTCAGT 60.228 57.895 0.00 0.00 0.00 3.41
742 788 0.536006 ACACCCAAGCTCAGTTCAGC 60.536 55.000 0.00 0.00 39.99 4.26
1053 1120 1.518056 CCGCAAAAGCAGAGAAGCCA 61.518 55.000 0.00 0.00 34.23 4.75
1054 1121 0.311790 CGCAAAAGCAGAGAAGCCAA 59.688 50.000 0.00 0.00 34.23 4.52
1055 1122 1.665161 CGCAAAAGCAGAGAAGCCAAG 60.665 52.381 0.00 0.00 34.23 3.61
1056 1123 1.933949 GCAAAAGCAGAGAAGCCAAGC 60.934 52.381 0.00 0.00 34.23 4.01
1057 1124 0.964700 AAAAGCAGAGAAGCCAAGCC 59.035 50.000 0.00 0.00 34.23 4.35
1058 1125 0.178981 AAAGCAGAGAAGCCAAGCCA 60.179 50.000 0.00 0.00 34.23 4.75
1059 1126 0.892814 AAGCAGAGAAGCCAAGCCAC 60.893 55.000 0.00 0.00 34.23 5.01
1060 1127 2.338785 GCAGAGAAGCCAAGCCACC 61.339 63.158 0.00 0.00 0.00 4.61
1061 1128 1.073722 CAGAGAAGCCAAGCCACCA 59.926 57.895 0.00 0.00 0.00 4.17
1062 1129 1.073897 AGAGAAGCCAAGCCACCAC 59.926 57.895 0.00 0.00 0.00 4.16
1063 1130 1.973812 GAGAAGCCAAGCCACCACC 60.974 63.158 0.00 0.00 0.00 4.61
1196 1275 3.677190 AGTAGCATAGTAGTAGCTCGGG 58.323 50.000 0.00 0.00 39.68 5.14
1197 1276 2.953284 AGCATAGTAGTAGCTCGGGA 57.047 50.000 0.00 0.00 32.05 5.14
1213 1295 1.828660 GGAGGGAGATCGAGCGGAA 60.829 63.158 0.00 0.00 0.00 4.30
1227 1317 1.420138 AGCGGAAGGTGGAGAAAAGAA 59.580 47.619 0.00 0.00 42.35 2.52
1280 1371 6.265422 TGGAAAGTCTCCCATCTTTTCTTTTC 59.735 38.462 0.00 0.00 44.69 2.29
1381 1472 0.318441 TGGAGGAGTCACGCTTCTTG 59.682 55.000 0.00 0.00 31.80 3.02
1382 1473 0.603569 GGAGGAGTCACGCTTCTTGA 59.396 55.000 0.00 0.00 31.80 3.02
1384 1475 2.354203 GGAGGAGTCACGCTTCTTGATT 60.354 50.000 0.00 0.00 31.80 2.57
1385 1476 3.330267 GAGGAGTCACGCTTCTTGATTT 58.670 45.455 0.00 0.00 31.80 2.17
1386 1477 3.330267 AGGAGTCACGCTTCTTGATTTC 58.670 45.455 0.00 0.00 24.76 2.17
1390 1481 3.430218 AGTCACGCTTCTTGATTTCTTCG 59.570 43.478 0.00 0.00 0.00 3.79
1391 1482 2.736721 TCACGCTTCTTGATTTCTTCGG 59.263 45.455 0.00 0.00 0.00 4.30
1398 1494 2.076863 CTTGATTTCTTCGGTTCGGCT 58.923 47.619 0.00 0.00 0.00 5.52
1440 1536 2.764547 GGGAGGAAGGAGGGGTCG 60.765 72.222 0.00 0.00 0.00 4.79
1732 1837 2.190313 GATGACTCCGCCATGGCA 59.810 61.111 34.93 16.95 42.06 4.92
1735 1840 2.969238 GACTCCGCCATGGCATCG 60.969 66.667 34.93 23.14 42.06 3.84
1744 1849 3.209812 ATGGCATCGCAGCAGCAG 61.210 61.111 0.82 0.00 42.27 4.24
1766 1871 0.737219 GCAGCAGATGATGTTCCACC 59.263 55.000 0.00 0.00 33.30 4.61
1774 1882 1.678970 GATGTTCCACCCCCAGCAC 60.679 63.158 0.00 0.00 0.00 4.40
1785 1893 4.584518 CCAGCACCAGCACCACCA 62.585 66.667 0.00 0.00 45.49 4.17
1786 1894 3.289834 CAGCACCAGCACCACCAC 61.290 66.667 0.00 0.00 45.49 4.16
1787 1895 4.586235 AGCACCAGCACCACCACC 62.586 66.667 0.00 0.00 45.49 4.61
1788 1896 4.892965 GCACCAGCACCACCACCA 62.893 66.667 0.00 0.00 41.58 4.17
1789 1897 2.906897 CACCAGCACCACCACCAC 60.907 66.667 0.00 0.00 0.00 4.16
1939 2047 5.066375 CGGCTTCCTCAATCATTTGAACATA 59.934 40.000 0.00 0.00 41.22 2.29
1967 2081 2.485302 GGTCGGTACTACTCCTCTCCTC 60.485 59.091 0.00 0.00 0.00 3.71
1969 2083 1.489649 CGGTACTACTCCTCTCCTCCA 59.510 57.143 0.00 0.00 0.00 3.86
2019 2134 1.269621 CCGCGGTTCCATAGTTCCTAG 60.270 57.143 19.50 0.00 0.00 3.02
2039 2154 1.597663 GTCGCCGCAATTATTACAGCT 59.402 47.619 0.00 0.00 0.00 4.24
2091 2206 4.855298 TCCATTTCGGGAACTAAATCCT 57.145 40.909 0.00 0.00 39.57 3.24
2094 2209 2.018542 TTCGGGAACTAAATCCTGCG 57.981 50.000 0.00 0.00 44.24 5.18
2123 2238 1.404986 CCGCTCAATTCAGGGTACGAA 60.405 52.381 0.00 0.00 0.00 3.85
2451 2569 4.680237 CTGCCCAGGTGCGTCGAA 62.680 66.667 0.00 0.00 0.00 3.71
2489 2613 0.670546 CCTTGTCGTGAGCACCGAAT 60.671 55.000 0.00 0.00 35.89 3.34
2503 2627 1.211709 CGAATTGACGGGGTTTGGC 59.788 57.895 0.00 0.00 0.00 4.52
2504 2628 1.241315 CGAATTGACGGGGTTTGGCT 61.241 55.000 0.00 0.00 0.00 4.75
2506 2630 0.678950 AATTGACGGGGTTTGGCTTG 59.321 50.000 0.00 0.00 0.00 4.01
2682 2806 2.675889 CGGGTAAGTAAATCCACGCTGT 60.676 50.000 0.00 0.00 0.00 4.40
2685 2809 4.251268 GGTAAGTAAATCCACGCTGTTCT 58.749 43.478 0.00 0.00 0.00 3.01
2686 2810 4.694037 GGTAAGTAAATCCACGCTGTTCTT 59.306 41.667 0.00 0.00 0.00 2.52
2687 2811 4.749245 AAGTAAATCCACGCTGTTCTTG 57.251 40.909 0.00 0.00 0.00 3.02
2694 2818 3.701530 CGCTGTTCTTGCGCACGA 61.702 61.111 11.12 12.30 46.72 4.35
2695 2819 2.863153 GCTGTTCTTGCGCACGAT 59.137 55.556 17.97 0.00 0.00 3.73
2696 2820 1.207593 GCTGTTCTTGCGCACGATT 59.792 52.632 17.97 0.00 0.00 3.34
2697 2821 1.061799 GCTGTTCTTGCGCACGATTG 61.062 55.000 17.97 11.35 0.00 2.67
2698 2822 1.061799 CTGTTCTTGCGCACGATTGC 61.062 55.000 17.97 11.27 46.21 3.56
2741 2874 1.283793 GTTGCACACGATTGCTGCT 59.716 52.632 12.93 0.00 43.41 4.24
2743 2876 0.516877 TTGCACACGATTGCTGCTAC 59.483 50.000 12.93 0.00 43.41 3.58
2981 3118 3.067601 CACACCCAAAACTAACTTGTCCC 59.932 47.826 0.00 0.00 0.00 4.46
2983 3120 3.702045 CACCCAAAACTAACTTGTCCCAA 59.298 43.478 0.00 0.00 0.00 4.12
3197 3340 2.642311 TGGCCAGTGAGGTCTAAATCAA 59.358 45.455 0.00 0.00 44.59 2.57
3410 3570 2.380249 TGGTTGAGAGAAGAGAGAGGGA 59.620 50.000 0.00 0.00 0.00 4.20
3411 3571 3.023832 GGTTGAGAGAAGAGAGAGGGAG 58.976 54.545 0.00 0.00 0.00 4.30
3412 3572 3.308832 GGTTGAGAGAAGAGAGAGGGAGA 60.309 52.174 0.00 0.00 0.00 3.71
3413 3573 4.536765 GTTGAGAGAAGAGAGAGGGAGAT 58.463 47.826 0.00 0.00 0.00 2.75
3414 3574 4.437682 TGAGAGAAGAGAGAGGGAGATC 57.562 50.000 0.00 0.00 0.00 2.75
3415 3575 3.181455 TGAGAGAAGAGAGAGGGAGATCG 60.181 52.174 0.00 0.00 0.00 3.69
3417 3577 1.850345 AGAAGAGAGAGGGAGATCGGT 59.150 52.381 0.00 0.00 0.00 4.69
3418 3578 1.953686 GAAGAGAGAGGGAGATCGGTG 59.046 57.143 0.00 0.00 0.00 4.94
3559 3736 3.056313 GAGGAAGGGTGCGCAATGC 62.056 63.158 14.00 4.20 46.70 3.56
3612 3797 0.772124 AGGGTGGAGAAGGGAGCAAA 60.772 55.000 0.00 0.00 0.00 3.68
3613 3798 0.322906 GGGTGGAGAAGGGAGCAAAG 60.323 60.000 0.00 0.00 0.00 2.77
3614 3799 0.322906 GGTGGAGAAGGGAGCAAAGG 60.323 60.000 0.00 0.00 0.00 3.11
3743 3936 0.670162 GCCATTGTTGTCAGCACTGT 59.330 50.000 6.34 0.00 0.00 3.55
3815 4028 7.968405 GGTCACACTCCATCAACAATAAAATAC 59.032 37.037 0.00 0.00 0.00 1.89
3821 4034 4.497340 CCATCAACAATAAAATACCGCGCT 60.497 41.667 5.56 0.00 0.00 5.92
3842 4056 1.678101 GGCTTTGCTTCTGTGTCTTGT 59.322 47.619 0.00 0.00 0.00 3.16
3880 4096 1.068895 CTGGCACCAATTTTGTGCTGA 59.931 47.619 22.45 12.70 43.02 4.26
3919 4135 3.996363 CGATCAGGTCAGATGTGTTCAAA 59.004 43.478 0.00 0.00 0.00 2.69
3922 4138 3.996363 TCAGGTCAGATGTGTTCAAATCG 59.004 43.478 0.00 0.00 0.00 3.34
3933 4149 1.043816 TTCAAATCGGCTTGCCCAAA 58.956 45.000 6.02 0.00 0.00 3.28
3935 4151 1.000731 TCAAATCGGCTTGCCCAAAAG 59.999 47.619 6.02 0.00 0.00 2.27
3936 4152 1.047801 AAATCGGCTTGCCCAAAAGT 58.952 45.000 6.02 0.00 0.00 2.66
3937 4153 0.603065 AATCGGCTTGCCCAAAAGTC 59.397 50.000 6.02 0.00 0.00 3.01
3957 4176 0.257328 TGGGTTGACAGTGAAAGGCA 59.743 50.000 0.00 0.00 0.00 4.75
3958 4177 0.954452 GGGTTGACAGTGAAAGGCAG 59.046 55.000 0.00 0.00 0.00 4.85
3959 4178 1.680338 GGTTGACAGTGAAAGGCAGT 58.320 50.000 0.00 0.00 0.00 4.40
3967 4186 4.410492 CAGTGAAAGGCAGTGTGATTAC 57.590 45.455 0.00 0.00 41.95 1.89
3968 4187 3.067106 AGTGAAAGGCAGTGTGATTACG 58.933 45.455 0.00 0.00 0.00 3.18
3969 4188 3.064207 GTGAAAGGCAGTGTGATTACGA 58.936 45.455 0.00 0.00 0.00 3.43
3970 4189 3.684788 GTGAAAGGCAGTGTGATTACGAT 59.315 43.478 0.00 0.00 0.00 3.73
3971 4190 4.154195 GTGAAAGGCAGTGTGATTACGATT 59.846 41.667 0.00 0.00 0.00 3.34
3972 4191 5.350365 GTGAAAGGCAGTGTGATTACGATTA 59.650 40.000 0.00 0.00 0.00 1.75
3973 4192 5.350365 TGAAAGGCAGTGTGATTACGATTAC 59.650 40.000 0.00 0.00 0.00 1.89
3974 4193 3.793559 AGGCAGTGTGATTACGATTACC 58.206 45.455 0.00 0.00 0.00 2.85
3975 4194 2.538449 GGCAGTGTGATTACGATTACCG 59.462 50.000 0.00 0.00 45.44 4.02
3976 4195 3.441163 GCAGTGTGATTACGATTACCGA 58.559 45.455 0.00 0.00 41.76 4.69
3977 4196 4.049186 GCAGTGTGATTACGATTACCGAT 58.951 43.478 0.00 0.00 41.76 4.18
3978 4197 4.506654 GCAGTGTGATTACGATTACCGATT 59.493 41.667 0.00 0.00 41.76 3.34
3979 4198 5.006358 GCAGTGTGATTACGATTACCGATTT 59.994 40.000 0.00 0.00 41.76 2.17
3980 4199 6.456449 GCAGTGTGATTACGATTACCGATTTT 60.456 38.462 0.00 0.00 41.76 1.82
3981 4200 6.899771 CAGTGTGATTACGATTACCGATTTTG 59.100 38.462 0.00 0.00 41.76 2.44
3982 4201 6.592607 AGTGTGATTACGATTACCGATTTTGT 59.407 34.615 0.00 0.00 41.76 2.83
3983 4202 6.681178 GTGTGATTACGATTACCGATTTTGTG 59.319 38.462 0.00 0.00 41.76 3.33
3984 4203 5.675444 GTGATTACGATTACCGATTTTGTGC 59.325 40.000 0.00 0.00 41.76 4.57
3985 4204 5.351740 TGATTACGATTACCGATTTTGTGCA 59.648 36.000 0.00 0.00 41.76 4.57
3986 4205 5.804692 TTACGATTACCGATTTTGTGCAT 57.195 34.783 0.00 0.00 41.76 3.96
3987 4206 4.695217 ACGATTACCGATTTTGTGCATT 57.305 36.364 0.00 0.00 41.76 3.56
3988 4207 4.658071 ACGATTACCGATTTTGTGCATTC 58.342 39.130 0.00 0.00 41.76 2.67
3989 4208 4.035017 CGATTACCGATTTTGTGCATTCC 58.965 43.478 0.00 0.00 41.76 3.01
3990 4209 4.201910 CGATTACCGATTTTGTGCATTCCT 60.202 41.667 0.00 0.00 41.76 3.36
3991 4210 5.650543 GATTACCGATTTTGTGCATTCCTT 58.349 37.500 0.00 0.00 0.00 3.36
3992 4211 5.461032 TTACCGATTTTGTGCATTCCTTT 57.539 34.783 0.00 0.00 0.00 3.11
3993 4212 4.335400 ACCGATTTTGTGCATTCCTTTT 57.665 36.364 0.00 0.00 0.00 2.27
3994 4213 4.057432 ACCGATTTTGTGCATTCCTTTTG 58.943 39.130 0.00 0.00 0.00 2.44
3995 4214 3.120580 CCGATTTTGTGCATTCCTTTTGC 60.121 43.478 0.00 0.00 40.55 3.68
3996 4215 3.742369 CGATTTTGTGCATTCCTTTTGCT 59.258 39.130 0.00 0.00 40.77 3.91
3997 4216 4.211794 CGATTTTGTGCATTCCTTTTGCTT 59.788 37.500 0.00 0.00 40.77 3.91
3998 4217 5.277442 CGATTTTGTGCATTCCTTTTGCTTT 60.277 36.000 0.00 0.00 40.77 3.51
3999 4218 4.879104 TTTGTGCATTCCTTTTGCTTTG 57.121 36.364 0.00 0.00 40.77 2.77
4000 4219 3.815856 TGTGCATTCCTTTTGCTTTGA 57.184 38.095 0.00 0.00 40.77 2.69
4001 4220 4.339872 TGTGCATTCCTTTTGCTTTGAT 57.660 36.364 0.00 0.00 40.77 2.57
4002 4221 4.059511 TGTGCATTCCTTTTGCTTTGATG 58.940 39.130 0.00 0.00 40.77 3.07
4003 4222 4.202233 TGTGCATTCCTTTTGCTTTGATGA 60.202 37.500 0.00 0.00 40.77 2.92
4004 4223 4.933400 GTGCATTCCTTTTGCTTTGATGAT 59.067 37.500 0.00 0.00 40.77 2.45
4005 4224 4.932799 TGCATTCCTTTTGCTTTGATGATG 59.067 37.500 0.00 0.00 40.77 3.07
4006 4225 4.331717 GCATTCCTTTTGCTTTGATGATGG 59.668 41.667 0.00 0.00 37.14 3.51
4007 4226 4.540359 TTCCTTTTGCTTTGATGATGGG 57.460 40.909 0.00 0.00 0.00 4.00
4062 4281 0.955919 CACGGAACAAGGAAGGAGGC 60.956 60.000 0.00 0.00 0.00 4.70
4088 4308 1.469703 CAATGAACGGCTGAGAATGCA 59.530 47.619 0.00 0.00 0.00 3.96
4092 4312 0.322816 AACGGCTGAGAATGCATGGT 60.323 50.000 0.00 0.00 0.00 3.55
4100 4320 5.300286 GGCTGAGAATGCATGGTTACTTTAT 59.700 40.000 0.00 0.00 0.00 1.40
4112 4332 1.868713 TACTTTATCGCCAGGGGTCA 58.131 50.000 2.89 0.00 0.00 4.02
4263 4489 3.362706 TCCACTTCTTATGGCGTCTAGT 58.637 45.455 0.00 0.00 37.13 2.57
4343 4667 3.933332 ACGATGCCTAGTTTGCTTTAGAC 59.067 43.478 0.00 0.00 0.00 2.59
4432 4756 3.853355 ATGGAACCTATCAGGCTGAAG 57.147 47.619 22.84 18.25 39.63 3.02
4736 5060 3.254411 TGCATTTCACAAAGGAACGCATA 59.746 39.130 0.00 0.00 33.13 3.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
41 42 1.757340 GAGGACCAGACCTACCCGG 60.757 68.421 0.00 0.00 40.73 5.73
228 249 1.917872 ATGGGGCTTTAAACAAGCGA 58.082 45.000 0.65 0.00 43.89 4.93
229 250 2.336667 CAATGGGGCTTTAAACAAGCG 58.663 47.619 0.65 0.00 43.89 4.68
321 349 3.968649 TGTAAACAGTAGAGTGGGGTGAA 59.031 43.478 0.00 0.00 0.00 3.18
324 352 5.783875 AGTAATGTAAACAGTAGAGTGGGGT 59.216 40.000 0.00 0.00 0.00 4.95
325 353 6.295719 AGTAATGTAAACAGTAGAGTGGGG 57.704 41.667 0.00 0.00 0.00 4.96
327 355 6.817140 GGGAAGTAATGTAAACAGTAGAGTGG 59.183 42.308 0.00 0.00 0.00 4.00
343 372 9.780186 CCGAAATCTAATCTAAAGGGAAGTAAT 57.220 33.333 0.00 0.00 0.00 1.89
344 373 7.713942 GCCGAAATCTAATCTAAAGGGAAGTAA 59.286 37.037 0.00 0.00 0.00 2.24
345 374 7.215085 GCCGAAATCTAATCTAAAGGGAAGTA 58.785 38.462 0.00 0.00 0.00 2.24
346 375 6.056236 GCCGAAATCTAATCTAAAGGGAAGT 58.944 40.000 0.00 0.00 0.00 3.01
347 376 5.177696 CGCCGAAATCTAATCTAAAGGGAAG 59.822 44.000 0.00 0.00 0.00 3.46
349 378 4.502604 CCGCCGAAATCTAATCTAAAGGGA 60.503 45.833 0.00 0.00 0.00 4.20
350 379 3.746492 CCGCCGAAATCTAATCTAAAGGG 59.254 47.826 0.00 0.00 0.00 3.95
351 380 4.211374 CACCGCCGAAATCTAATCTAAAGG 59.789 45.833 0.00 0.00 0.00 3.11
352 381 4.318831 GCACCGCCGAAATCTAATCTAAAG 60.319 45.833 0.00 0.00 0.00 1.85
353 382 3.558418 GCACCGCCGAAATCTAATCTAAA 59.442 43.478 0.00 0.00 0.00 1.85
354 383 3.128349 GCACCGCCGAAATCTAATCTAA 58.872 45.455 0.00 0.00 0.00 2.10
355 384 2.750948 GCACCGCCGAAATCTAATCTA 58.249 47.619 0.00 0.00 0.00 1.98
356 385 1.583054 GCACCGCCGAAATCTAATCT 58.417 50.000 0.00 0.00 0.00 2.40
357 386 0.232303 CGCACCGCCGAAATCTAATC 59.768 55.000 0.00 0.00 0.00 1.75
358 387 1.157870 CCGCACCGCCGAAATCTAAT 61.158 55.000 0.00 0.00 0.00 1.73
359 388 1.812093 CCGCACCGCCGAAATCTAA 60.812 57.895 0.00 0.00 0.00 2.10
415 444 9.124807 CGGTCATTTTAAATTTGGAGTTTCTAC 57.875 33.333 0.00 0.00 0.00 2.59
416 445 7.810759 GCGGTCATTTTAAATTTGGAGTTTCTA 59.189 33.333 0.00 0.00 0.00 2.10
528 565 4.328440 CGCTGAATTCTCGATCAGTTTTCT 59.672 41.667 13.70 0.00 43.91 2.52
626 663 2.517650 TCATGAAACGGGGCAAAAAC 57.482 45.000 0.00 0.00 0.00 2.43
634 672 4.395854 TGAACTGAATCATCATGAAACGGG 59.604 41.667 0.00 0.00 34.37 5.28
696 737 6.374053 CAGAAAAGTTGGGTTTTTGATTGGTT 59.626 34.615 0.00 0.00 29.58 3.67
708 749 1.111277 GGTGTGCAGAAAAGTTGGGT 58.889 50.000 0.00 0.00 0.00 4.51
709 750 0.389025 GGGTGTGCAGAAAAGTTGGG 59.611 55.000 0.00 0.00 0.00 4.12
710 751 1.110442 TGGGTGTGCAGAAAAGTTGG 58.890 50.000 0.00 0.00 0.00 3.77
711 752 2.813061 CTTGGGTGTGCAGAAAAGTTG 58.187 47.619 0.00 0.00 0.00 3.16
712 753 1.136891 GCTTGGGTGTGCAGAAAAGTT 59.863 47.619 0.00 0.00 0.00 2.66
713 754 0.746659 GCTTGGGTGTGCAGAAAAGT 59.253 50.000 0.00 0.00 0.00 2.66
714 755 1.000938 GAGCTTGGGTGTGCAGAAAAG 60.001 52.381 0.00 0.00 0.00 2.27
715 756 1.032014 GAGCTTGGGTGTGCAGAAAA 58.968 50.000 0.00 0.00 0.00 2.29
716 757 0.106769 TGAGCTTGGGTGTGCAGAAA 60.107 50.000 0.00 0.00 0.00 2.52
717 758 0.535780 CTGAGCTTGGGTGTGCAGAA 60.536 55.000 0.00 0.00 0.00 3.02
718 759 1.071987 CTGAGCTTGGGTGTGCAGA 59.928 57.895 0.00 0.00 0.00 4.26
719 760 0.820891 AACTGAGCTTGGGTGTGCAG 60.821 55.000 0.00 0.00 0.00 4.41
720 761 0.819259 GAACTGAGCTTGGGTGTGCA 60.819 55.000 0.00 0.00 0.00 4.57
721 762 0.819259 TGAACTGAGCTTGGGTGTGC 60.819 55.000 0.00 0.00 0.00 4.57
742 788 2.759783 CCATGTCGGCTCAACTGAG 58.240 57.895 2.17 2.17 44.75 3.35
779 825 1.000646 GTTTACCGGAATGCCCCCA 60.001 57.895 9.46 0.00 0.00 4.96
811 857 4.179579 GGTGCGCCGATGCTTTCC 62.180 66.667 4.18 0.00 35.36 3.13
836 882 4.554036 GAGAGATGCCGGGGGTGC 62.554 72.222 2.18 0.00 0.00 5.01
837 883 2.765807 AGAGAGATGCCGGGGGTG 60.766 66.667 2.18 0.00 0.00 4.61
838 884 2.444895 GAGAGAGATGCCGGGGGT 60.445 66.667 2.18 0.00 0.00 4.95
839 885 2.123077 AGAGAGAGATGCCGGGGG 60.123 66.667 2.18 0.00 0.00 5.40
840 886 1.152567 AGAGAGAGAGATGCCGGGG 60.153 63.158 2.18 0.00 0.00 5.73
841 887 0.178992 AGAGAGAGAGAGATGCCGGG 60.179 60.000 2.18 0.00 0.00 5.73
842 888 1.238439 GAGAGAGAGAGAGATGCCGG 58.762 60.000 0.00 0.00 0.00 6.13
843 889 1.238439 GGAGAGAGAGAGAGATGCCG 58.762 60.000 0.00 0.00 0.00 5.69
844 890 1.145738 AGGGAGAGAGAGAGAGATGCC 59.854 57.143 0.00 0.00 0.00 4.40
845 891 2.508526 GAGGGAGAGAGAGAGAGATGC 58.491 57.143 0.00 0.00 0.00 3.91
846 892 2.224867 GGGAGGGAGAGAGAGAGAGATG 60.225 59.091 0.00 0.00 0.00 2.90
847 893 2.065799 GGGAGGGAGAGAGAGAGAGAT 58.934 57.143 0.00 0.00 0.00 2.75
1014 1081 3.869246 CGGAACTAGTTTAATCCACGCAT 59.131 43.478 10.02 0.00 32.08 4.73
1016 1083 2.030091 GCGGAACTAGTTTAATCCACGC 59.970 50.000 10.02 12.76 36.46 5.34
1061 1128 4.658786 AAGGAGGGAGGCGGTGGT 62.659 66.667 0.00 0.00 0.00 4.16
1062 1129 4.101448 CAAGGAGGGAGGCGGTGG 62.101 72.222 0.00 0.00 0.00 4.61
1063 1130 4.101448 CCAAGGAGGGAGGCGGTG 62.101 72.222 0.00 0.00 0.00 4.94
1181 1258 2.306512 CTCCCTCCCGAGCTACTACTAT 59.693 54.545 0.00 0.00 0.00 2.12
1185 1262 1.351683 GATCTCCCTCCCGAGCTACTA 59.648 57.143 0.00 0.00 0.00 1.82
1196 1275 1.657556 CTTCCGCTCGATCTCCCTC 59.342 63.158 0.00 0.00 0.00 4.30
1197 1276 1.830408 CCTTCCGCTCGATCTCCCT 60.830 63.158 0.00 0.00 0.00 4.20
1213 1295 3.503748 CGATTGCTTTCTTTTCTCCACCT 59.496 43.478 0.00 0.00 0.00 4.00
1216 1298 4.214119 CACTCGATTGCTTTCTTTTCTCCA 59.786 41.667 0.00 0.00 0.00 3.86
1220 1306 6.141369 CAGAAACACTCGATTGCTTTCTTTTC 59.859 38.462 20.21 13.93 30.80 2.29
1227 1317 2.481952 GAGCAGAAACACTCGATTGCTT 59.518 45.455 2.19 0.00 41.52 3.91
1280 1371 0.685458 CAATTCAGCTTCCCCAGGGG 60.685 60.000 20.55 20.55 46.11 4.79
1358 1449 1.544691 GAAGCGTGACTCCTCCACTAA 59.455 52.381 0.00 0.00 32.64 2.24
1359 1450 1.174783 GAAGCGTGACTCCTCCACTA 58.825 55.000 0.00 0.00 32.64 2.74
1381 1472 1.007580 GGAGCCGAACCGAAGAAATC 58.992 55.000 0.00 0.00 0.00 2.17
1382 1473 3.154589 GGAGCCGAACCGAAGAAAT 57.845 52.632 0.00 0.00 0.00 2.17
1398 1494 1.760613 ACCAATAATTCTCCGCTCGGA 59.239 47.619 10.84 10.84 42.90 4.55
1404 1500 4.013728 TCCCAAACACCAATAATTCTCCG 58.986 43.478 0.00 0.00 0.00 4.63
1440 1536 0.534652 CATCAGCTAGCTTGCTCCCC 60.535 60.000 20.13 0.00 41.98 4.81
1744 1849 0.381089 GGAACATCATCTGCTGCTGC 59.619 55.000 8.89 8.89 40.20 5.25
1774 1882 4.202574 TGGTGGTGGTGGTGCTGG 62.203 66.667 0.00 0.00 0.00 4.85
1783 1891 2.753043 GGCATCTGCTGGTGGTGG 60.753 66.667 5.95 0.00 41.70 4.61
1784 1892 2.753043 GGGCATCTGCTGGTGGTG 60.753 66.667 5.95 0.00 41.70 4.17
1785 1893 4.052518 GGGGCATCTGCTGGTGGT 62.053 66.667 5.95 0.00 41.70 4.16
1786 1894 4.828296 GGGGGCATCTGCTGGTGG 62.828 72.222 5.95 0.00 41.70 4.61
1939 2047 2.079925 GAGTAGTACCGACCGTTGTCT 58.920 52.381 0.00 0.00 39.47 3.41
1967 2081 3.214696 AGAAGGCCGAATTAAGGATGG 57.785 47.619 0.00 0.00 0.00 3.51
1969 2083 4.402474 CCAAAAGAAGGCCGAATTAAGGAT 59.598 41.667 0.00 0.00 0.00 3.24
2019 2134 2.018717 GCTGTAATAATTGCGGCGAC 57.981 50.000 12.98 2.02 37.88 5.19
2039 2154 0.603707 CAAGAACTGGCCAAGAGCGA 60.604 55.000 7.01 0.00 45.17 4.93
2094 2209 3.682292 AATTGAGCGGCGGGAGGAC 62.682 63.158 9.78 0.00 0.00 3.85
2252 2370 1.000385 GAGATCTGGGACATGAGCGAG 60.000 57.143 0.00 0.00 38.20 5.03
2339 2457 2.520982 CTCATCGGGTAGCCGGGA 60.521 66.667 31.34 25.72 0.00 5.14
2423 2541 3.972971 CTGGGCAGCAGGCTCTGAC 62.973 68.421 15.26 12.85 46.01 3.51
2449 2567 8.462016 ACAAGGAATGAAATGCTAGTGTAATTC 58.538 33.333 0.00 0.00 0.00 2.17
2451 2569 7.201644 CGACAAGGAATGAAATGCTAGTGTAAT 60.202 37.037 0.00 0.00 0.00 1.89
2489 2613 1.830408 CCAAGCCAAACCCCGTCAA 60.830 57.895 0.00 0.00 0.00 3.18
2503 2627 3.726517 CGTTCTGCACCGGCCAAG 61.727 66.667 0.00 0.00 40.13 3.61
2693 2817 6.620678 TGGCAATCTAAAACAACTAGCAATC 58.379 36.000 0.00 0.00 0.00 2.67
2694 2818 6.209391 ACTGGCAATCTAAAACAACTAGCAAT 59.791 34.615 0.00 0.00 0.00 3.56
2695 2819 5.534654 ACTGGCAATCTAAAACAACTAGCAA 59.465 36.000 0.00 0.00 0.00 3.91
2696 2820 5.070001 ACTGGCAATCTAAAACAACTAGCA 58.930 37.500 0.00 0.00 0.00 3.49
2697 2821 5.629079 ACTGGCAATCTAAAACAACTAGC 57.371 39.130 0.00 0.00 0.00 3.42
2698 2822 8.730680 ACAATACTGGCAATCTAAAACAACTAG 58.269 33.333 0.00 0.00 0.00 2.57
2699 2823 8.630054 ACAATACTGGCAATCTAAAACAACTA 57.370 30.769 0.00 0.00 0.00 2.24
2700 2824 7.524717 ACAATACTGGCAATCTAAAACAACT 57.475 32.000 0.00 0.00 0.00 3.16
2701 2825 7.359181 GCAACAATACTGGCAATCTAAAACAAC 60.359 37.037 0.00 0.00 0.00 3.32
2702 2826 6.644592 GCAACAATACTGGCAATCTAAAACAA 59.355 34.615 0.00 0.00 0.00 2.83
2703 2827 6.155827 GCAACAATACTGGCAATCTAAAACA 58.844 36.000 0.00 0.00 0.00 2.83
2704 2828 6.089417 GTGCAACAATACTGGCAATCTAAAAC 59.911 38.462 0.00 0.00 38.10 2.43
2705 2829 6.155827 GTGCAACAATACTGGCAATCTAAAA 58.844 36.000 0.00 0.00 38.10 1.52
2741 2874 8.988546 ATCAGCTTGATCTAGAAAGACTAGTA 57.011 34.615 8.45 0.00 46.15 1.82
2776 2909 1.203994 GGCAAAGATCAGCAGCACATT 59.796 47.619 0.00 0.00 0.00 2.71
2981 3118 5.416952 AGAGAAATATGGAGTTGCAGGTTTG 59.583 40.000 0.00 0.00 0.00 2.93
2983 3120 4.946157 CAGAGAAATATGGAGTTGCAGGTT 59.054 41.667 0.00 0.00 0.00 3.50
3125 3266 6.024552 ACTAGACGTCGGTTTATTTTACCA 57.975 37.500 10.46 0.00 35.31 3.25
3197 3340 2.116125 AGGGCAAAAGCGGCTTCT 59.884 55.556 16.70 5.36 0.00 2.85
3406 3566 1.216678 AGAGATGACACCGATCTCCCT 59.783 52.381 7.28 0.00 44.82 4.20
3410 3570 5.042463 TCTTCTAGAGATGACACCGATCT 57.958 43.478 0.00 0.00 32.63 2.75
3411 3571 5.757886 CTTCTTCTAGAGATGACACCGATC 58.242 45.833 0.00 0.00 33.49 3.69
3412 3572 4.037446 GCTTCTTCTAGAGATGACACCGAT 59.963 45.833 0.00 0.00 33.49 4.18
3413 3573 3.378742 GCTTCTTCTAGAGATGACACCGA 59.621 47.826 0.00 0.00 33.49 4.69
3414 3574 3.380004 AGCTTCTTCTAGAGATGACACCG 59.620 47.826 0.00 0.00 33.49 4.94
3415 3575 4.202111 GGAGCTTCTTCTAGAGATGACACC 60.202 50.000 0.00 0.00 33.49 4.16
3417 3577 4.400884 GTGGAGCTTCTTCTAGAGATGACA 59.599 45.833 0.00 0.00 33.49 3.58
3418 3578 4.644685 AGTGGAGCTTCTTCTAGAGATGAC 59.355 45.833 0.00 0.00 33.49 3.06
3559 3736 0.738975 CCTTGATGATGCCACTGCTG 59.261 55.000 0.00 0.00 38.71 4.41
3612 3797 2.770048 CGGCCTCCATCTTCCCCT 60.770 66.667 0.00 0.00 0.00 4.79
3613 3798 3.878667 CCGGCCTCCATCTTCCCC 61.879 72.222 0.00 0.00 0.00 4.81
3614 3799 2.768344 TCCGGCCTCCATCTTCCC 60.768 66.667 0.00 0.00 0.00 3.97
3694 3884 3.181329 TCTATGGGAATGCACCGGATAT 58.819 45.455 9.46 0.00 0.00 1.63
3743 3936 3.558674 GCCTAGAGCTCCTTTGCAA 57.441 52.632 10.93 0.00 38.99 4.08
3815 4028 4.766088 GAAGCAAAGCCAGCGCGG 62.766 66.667 8.83 12.98 41.18 6.46
3821 4034 1.677576 CAAGACACAGAAGCAAAGCCA 59.322 47.619 0.00 0.00 0.00 4.75
3866 4082 7.324135 GCACAAAATTAATCAGCACAAAATTGG 59.676 33.333 0.00 0.00 0.00 3.16
3880 4096 5.163622 CCTGATCGTCCAGCACAAAATTAAT 60.164 40.000 0.00 0.00 32.97 1.40
3919 4135 0.251341 AGACTTTTGGGCAAGCCGAT 60.251 50.000 4.80 0.00 36.85 4.18
3922 4138 1.667722 CCAGACTTTTGGGCAAGCC 59.332 57.895 1.52 1.52 34.46 4.35
3933 4149 3.545703 CTTTCACTGTCAACCCAGACTT 58.454 45.455 0.00 0.00 39.27 3.01
3935 4151 2.222027 CCTTTCACTGTCAACCCAGAC 58.778 52.381 0.00 0.00 38.99 3.51
3936 4152 1.476833 GCCTTTCACTGTCAACCCAGA 60.477 52.381 0.00 0.00 36.30 3.86
3937 4153 0.954452 GCCTTTCACTGTCAACCCAG 59.046 55.000 0.00 0.00 38.45 4.45
3941 4160 2.017049 ACACTGCCTTTCACTGTCAAC 58.983 47.619 0.00 0.00 0.00 3.18
3946 4165 3.120546 CGTAATCACACTGCCTTTCACTG 60.121 47.826 0.00 0.00 0.00 3.66
3957 4176 6.592607 ACAAAATCGGTAATCGTAATCACACT 59.407 34.615 0.00 0.00 40.32 3.55
3958 4177 6.681178 CACAAAATCGGTAATCGTAATCACAC 59.319 38.462 0.00 0.00 40.32 3.82
3959 4178 6.673556 GCACAAAATCGGTAATCGTAATCACA 60.674 38.462 0.00 0.00 40.32 3.58
3960 4179 5.675444 GCACAAAATCGGTAATCGTAATCAC 59.325 40.000 0.00 0.00 40.32 3.06
3961 4180 5.351740 TGCACAAAATCGGTAATCGTAATCA 59.648 36.000 0.00 0.00 40.32 2.57
3962 4181 5.802064 TGCACAAAATCGGTAATCGTAATC 58.198 37.500 0.00 0.00 40.32 1.75
3963 4182 5.804692 TGCACAAAATCGGTAATCGTAAT 57.195 34.783 0.00 0.00 40.32 1.89
3964 4183 5.804692 ATGCACAAAATCGGTAATCGTAA 57.195 34.783 0.00 0.00 40.32 3.18
3965 4184 5.220700 GGAATGCACAAAATCGGTAATCGTA 60.221 40.000 0.00 0.00 40.32 3.43
3966 4185 4.438200 GGAATGCACAAAATCGGTAATCGT 60.438 41.667 0.00 0.00 40.32 3.73
3967 4186 4.035017 GGAATGCACAAAATCGGTAATCG 58.965 43.478 0.00 0.00 40.90 3.34
3968 4187 5.248870 AGGAATGCACAAAATCGGTAATC 57.751 39.130 0.00 0.00 0.00 1.75
3969 4188 5.659440 AAGGAATGCACAAAATCGGTAAT 57.341 34.783 0.00 0.00 0.00 1.89
3970 4189 5.461032 AAAGGAATGCACAAAATCGGTAA 57.539 34.783 0.00 0.00 0.00 2.85
3971 4190 5.226396 CAAAAGGAATGCACAAAATCGGTA 58.774 37.500 0.00 0.00 0.00 4.02
3972 4191 4.057432 CAAAAGGAATGCACAAAATCGGT 58.943 39.130 0.00 0.00 0.00 4.69
3973 4192 3.120580 GCAAAAGGAATGCACAAAATCGG 60.121 43.478 0.00 0.00 43.29 4.18
3974 4193 3.742369 AGCAAAAGGAATGCACAAAATCG 59.258 39.130 0.00 0.00 46.22 3.34
3975 4194 5.678132 AAGCAAAAGGAATGCACAAAATC 57.322 34.783 0.00 0.00 46.22 2.17
3976 4195 5.589452 TCAAAGCAAAAGGAATGCACAAAAT 59.411 32.000 0.00 0.00 46.22 1.82
3977 4196 4.940046 TCAAAGCAAAAGGAATGCACAAAA 59.060 33.333 0.00 0.00 46.22 2.44
3978 4197 4.511527 TCAAAGCAAAAGGAATGCACAAA 58.488 34.783 0.00 0.00 46.22 2.83
3979 4198 4.134379 TCAAAGCAAAAGGAATGCACAA 57.866 36.364 0.00 0.00 46.22 3.33
3980 4199 3.815856 TCAAAGCAAAAGGAATGCACA 57.184 38.095 0.00 0.00 46.22 4.57
3981 4200 4.309099 TCATCAAAGCAAAAGGAATGCAC 58.691 39.130 0.00 0.00 46.22 4.57
3982 4201 4.603989 TCATCAAAGCAAAAGGAATGCA 57.396 36.364 0.00 0.00 46.22 3.96
3983 4202 4.331717 CCATCATCAAAGCAAAAGGAATGC 59.668 41.667 0.00 0.00 44.15 3.56
3984 4203 4.873827 CCCATCATCAAAGCAAAAGGAATG 59.126 41.667 0.00 0.00 0.00 2.67
3985 4204 4.624604 GCCCATCATCAAAGCAAAAGGAAT 60.625 41.667 0.00 0.00 0.00 3.01
3986 4205 3.306919 GCCCATCATCAAAGCAAAAGGAA 60.307 43.478 0.00 0.00 0.00 3.36
3987 4206 2.234414 GCCCATCATCAAAGCAAAAGGA 59.766 45.455 0.00 0.00 0.00 3.36
3988 4207 2.624636 GCCCATCATCAAAGCAAAAGG 58.375 47.619 0.00 0.00 0.00 3.11
3989 4208 2.264813 CGCCCATCATCAAAGCAAAAG 58.735 47.619 0.00 0.00 0.00 2.27
3990 4209 1.067000 CCGCCCATCATCAAAGCAAAA 60.067 47.619 0.00 0.00 0.00 2.44
3991 4210 0.531657 CCGCCCATCATCAAAGCAAA 59.468 50.000 0.00 0.00 0.00 3.68
3992 4211 1.321805 CCCGCCCATCATCAAAGCAA 61.322 55.000 0.00 0.00 0.00 3.91
3993 4212 1.753848 CCCGCCCATCATCAAAGCA 60.754 57.895 0.00 0.00 0.00 3.91
3994 4213 2.492773 CCCCGCCCATCATCAAAGC 61.493 63.158 0.00 0.00 0.00 3.51
3995 4214 2.492773 GCCCCGCCCATCATCAAAG 61.493 63.158 0.00 0.00 0.00 2.77
3996 4215 2.441901 GCCCCGCCCATCATCAAA 60.442 61.111 0.00 0.00 0.00 2.69
3997 4216 4.873810 CGCCCCGCCCATCATCAA 62.874 66.667 0.00 0.00 0.00 2.57
3999 4218 4.996434 CTCGCCCCGCCCATCATC 62.996 72.222 0.00 0.00 0.00 2.92
4048 4267 2.125766 GACGGGCCTCCTTCCTTGTT 62.126 60.000 0.84 0.00 0.00 2.83
4051 4270 3.009714 GGACGGGCCTCCTTCCTT 61.010 66.667 0.84 0.00 45.27 3.36
4088 4308 2.158667 CCCCTGGCGATAAAGTAACCAT 60.159 50.000 0.00 0.00 0.00 3.55
4092 4312 2.093341 GTGACCCCTGGCGATAAAGTAA 60.093 50.000 0.00 0.00 0.00 2.24
4100 4320 3.311110 GACAGTGACCCCTGGCGA 61.311 66.667 0.00 0.00 36.75 5.54
4112 4332 4.022155 CGATGATGATGATGGAGAGACAGT 60.022 45.833 0.00 0.00 0.00 3.55
4343 4667 0.841961 TGCCCTCCATCCTCATCAAG 59.158 55.000 0.00 0.00 0.00 3.02
4736 5060 1.203570 AGTAAACCCCCATCCTCCAGT 60.204 52.381 0.00 0.00 0.00 4.00


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

AutoCloner maintained by Alex Coulton.