Multiple sequence alignment - TraesCS4B01G323100

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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 TraesCS4B01G323100 chr4B 100.000 4212 0 0 1 4212 613698769 613702980 0.000000e+00 7779.0
1 TraesCS4B01G323100 chr5A 93.554 1086 41 12 2171 3238 663416576 663415502 0.000000e+00 1591.0
2 TraesCS4B01G323100 chr5A 90.625 736 37 20 780 1499 663418118 663417399 0.000000e+00 948.0
3 TraesCS4B01G323100 chr5A 79.554 807 112 25 1 782 663418953 663418175 1.040000e-145 527.0
4 TraesCS4B01G323100 chr5A 86.040 351 22 8 3279 3619 663415493 663415160 6.700000e-93 351.0
5 TraesCS4B01G323100 chr5A 79.769 519 57 34 1574 2079 663417299 663416816 2.430000e-87 333.0
6 TraesCS4B01G323100 chr5A 90.909 99 7 2 3619 3716 604826403 604826306 9.500000e-27 132.0
7 TraesCS4B01G323100 chr5A 97.143 70 2 0 3550 3619 663415078 663415009 7.400000e-23 119.0
8 TraesCS4B01G323100 chr4D 96.993 898 20 2 2170 3063 483473504 483472610 0.000000e+00 1502.0
9 TraesCS4B01G323100 chr4D 91.479 798 35 18 780 1554 483474776 483473989 0.000000e+00 1066.0
10 TraesCS4B01G323100 chr4D 80.277 649 81 24 161 782 483475449 483474821 2.990000e-121 446.0
11 TraesCS4B01G323100 chr4D 90.152 264 21 5 1 261 483475683 483475422 5.220000e-89 339.0
12 TraesCS4B01G323100 chr4D 81.443 291 21 17 3161 3427 483472486 483472205 1.530000e-49 207.0
13 TraesCS4B01G323100 chr3B 96.315 597 18 2 3620 4212 68200962 68200366 0.000000e+00 977.0
14 TraesCS4B01G323100 chr3B 91.601 381 28 3 3617 3995 752518345 752518723 1.340000e-144 523.0
15 TraesCS4B01G323100 chr3B 90.816 98 8 1 3620 3716 820193929 820194026 3.420000e-26 130.0
16 TraesCS4B01G323100 chr3B 87.719 57 5 2 2915 2970 708366500 708366445 9.770000e-07 65.8
17 TraesCS4B01G323100 chr6B 95.980 597 19 5 3620 4212 713913909 713914504 0.000000e+00 965.0
18 TraesCS4B01G323100 chr6B 84.211 608 74 15 3617 4212 52560391 52560988 4.720000e-159 571.0
19 TraesCS4B01G323100 chr1B 95.484 465 15 2 3754 4212 57703621 57703157 0.000000e+00 737.0
20 TraesCS4B01G323100 chr1B 89.011 182 7 1 3619 3800 57703788 57703620 3.300000e-51 213.0
21 TraesCS4B01G323100 chr2B 96.842 380 10 2 3834 4212 5765841 5766219 5.940000e-178 634.0
22 TraesCS4B01G323100 chr7B 92.191 397 29 2 3818 4212 596616640 596616244 1.020000e-155 560.0
23 TraesCS4B01G323100 chr7B 83.524 613 73 17 3619 4212 625896427 625895824 7.960000e-152 547.0
24 TraesCS4B01G323100 chr7B 92.118 203 14 1 3620 3822 596617183 596616983 6.890000e-73 285.0
25 TraesCS4B01G323100 chr3A 82.792 616 82 14 3616 4212 726392514 726393124 2.880000e-146 529.0
26 TraesCS4B01G323100 chr3A 89.474 57 4 2 2915 2970 671695755 671695700 2.100000e-08 71.3
27 TraesCS4B01G323100 chr5B 83.289 377 53 7 3841 4212 524362981 524363352 5.220000e-89 339.0
28 TraesCS4B01G323100 chr7A 91.129 124 8 3 19 141 671202878 671202999 9.370000e-37 165.0
29 TraesCS4B01G323100 chr6A 87.755 98 11 1 3620 3716 613386178 613386275 3.440000e-21 113.0
30 TraesCS4B01G323100 chr3D 90.244 82 7 1 3619 3699 2312025 2312106 5.760000e-19 106.0


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 TraesCS4B01G323100 chr4B 613698769 613702980 4211 False 7779.000000 7779 100.000000 1 4212 1 chr4B.!!$F1 4211
1 TraesCS4B01G323100 chr5A 663415009 663418953 3944 True 644.833333 1591 87.780833 1 3619 6 chr5A.!!$R2 3618
2 TraesCS4B01G323100 chr4D 483472205 483475683 3478 True 712.000000 1502 88.068800 1 3427 5 chr4D.!!$R1 3426
3 TraesCS4B01G323100 chr3B 68200366 68200962 596 True 977.000000 977 96.315000 3620 4212 1 chr3B.!!$R1 592
4 TraesCS4B01G323100 chr6B 713913909 713914504 595 False 965.000000 965 95.980000 3620 4212 1 chr6B.!!$F2 592
5 TraesCS4B01G323100 chr6B 52560391 52560988 597 False 571.000000 571 84.211000 3617 4212 1 chr6B.!!$F1 595
6 TraesCS4B01G323100 chr1B 57703157 57703788 631 True 475.000000 737 92.247500 3619 4212 2 chr1B.!!$R1 593
7 TraesCS4B01G323100 chr7B 625895824 625896427 603 True 547.000000 547 83.524000 3619 4212 1 chr7B.!!$R1 593
8 TraesCS4B01G323100 chr7B 596616244 596617183 939 True 422.500000 560 92.154500 3620 4212 2 chr7B.!!$R2 592
9 TraesCS4B01G323100 chr3A 726392514 726393124 610 False 529.000000 529 82.792000 3616 4212 1 chr3A.!!$F1 596

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
486 564 0.178068 CGGTGGATCCCAAATCGACT 59.822 55.000 9.90 0.00 34.18 4.18 F
500 578 0.659417 TCGACTGTCGACGCAACTTC 60.659 55.000 27.26 0.00 44.82 3.01 F
2168 2576 0.035820 TTACCAGAATCCACACGGGC 60.036 55.000 0.00 0.00 36.21 6.13 F
2193 2622 2.098298 GATTTGATGTGCGCGCGT 59.902 55.556 32.35 16.96 0.00 6.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2149 2442 0.035820 GCCCGTGTGGATTCTGGTAA 60.036 55.000 0.00 0.00 37.49 2.85 R
2193 2622 0.240145 CTCTCCTGCACGTACGAACA 59.760 55.000 24.41 17.52 0.00 3.18 R
3185 3699 0.991146 TCCACTTTATCCAGGCTGCA 59.009 50.000 9.56 0.00 0.00 4.41 R
4104 5217 1.000896 CACGCCCCTTCATTCCCTT 60.001 57.895 0.00 0.00 0.00 3.95 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
96 98 2.666272 TGCAACACCCCAAACTGATA 57.334 45.000 0.00 0.00 0.00 2.15
141 143 5.656416 CCAACTCCAATAGATGCCCTAAAAA 59.344 40.000 0.00 0.00 0.00 1.94
167 170 3.009723 CACCAGTATTGACGGAAATGCT 58.990 45.455 0.00 0.00 33.37 3.79
191 194 3.512516 GGCCTCCTTGACGCATGC 61.513 66.667 7.91 7.91 0.00 4.06
194 197 2.125552 CTCCTTGACGCATGCCGA 60.126 61.111 13.15 0.00 41.02 5.54
248 314 3.421844 GGTGTTGAAATGCCTAGGAAGT 58.578 45.455 14.75 0.00 0.00 3.01
263 329 1.700186 GGAAGTCCTCCTTGACACCTT 59.300 52.381 0.00 0.00 41.61 3.50
297 364 4.320608 TGACCAAAAATCTGGCAACTTC 57.679 40.909 0.00 0.00 40.45 3.01
299 366 2.035832 ACCAAAAATCTGGCAACTTCGG 59.964 45.455 0.00 0.00 40.45 4.30
315 391 2.662527 GGACGCCGACCGAAACAA 60.663 61.111 0.00 0.00 41.02 2.83
331 407 4.052229 AACGGCCACTCGACTCGG 62.052 66.667 2.24 0.00 0.00 4.63
395 473 1.303074 TCCAGCTACAGACGACGGT 60.303 57.895 0.00 0.00 0.00 4.83
425 503 4.564110 GGGGCATCACGGGCTACC 62.564 72.222 0.00 0.00 0.00 3.18
456 534 0.670546 AACAGTCGCATCACCCGAAG 60.671 55.000 0.00 0.00 36.36 3.79
460 538 3.853330 CGCATCACCCGAAGCACG 61.853 66.667 0.00 0.00 35.57 5.34
464 542 4.980805 TCACCCGAAGCACGCCAC 62.981 66.667 0.00 0.00 41.07 5.01
479 557 4.402528 CACCGCGGTGGATCCCAA 62.403 66.667 43.64 0.00 42.00 4.12
486 564 0.178068 CGGTGGATCCCAAATCGACT 59.822 55.000 9.90 0.00 34.18 4.18
500 578 0.659417 TCGACTGTCGACGCAACTTC 60.659 55.000 27.26 0.00 44.82 3.01
502 593 1.205657 GACTGTCGACGCAACTTCAA 58.794 50.000 11.62 0.00 0.00 2.69
519 611 1.024579 CAATGACGGGGTAGTGTGGC 61.025 60.000 0.00 0.00 0.00 5.01
520 612 1.485294 AATGACGGGGTAGTGTGGCA 61.485 55.000 0.00 0.00 0.00 4.92
523 615 3.000819 CGGGGTAGTGTGGCAGGA 61.001 66.667 0.00 0.00 0.00 3.86
529 621 2.348104 TAGTGTGGCAGGATCGCGT 61.348 57.895 5.77 0.00 0.00 6.01
536 628 2.831366 GCAGGATCGCGTCGGAGTA 61.831 63.158 5.77 0.00 0.00 2.59
575 668 2.281484 GGTTGTGGGCTTCGCAGA 60.281 61.111 0.00 0.00 37.18 4.26
576 669 1.675641 GGTTGTGGGCTTCGCAGAT 60.676 57.895 0.00 0.00 37.18 2.90
606 699 2.224159 AAGCGGTGGTCAGGTGGAT 61.224 57.895 0.00 0.00 0.00 3.41
613 706 1.065410 TGGTCAGGTGGATGGTTGGT 61.065 55.000 0.00 0.00 0.00 3.67
712 805 3.374042 TGGTGGTGGTGTATATTTGGG 57.626 47.619 0.00 0.00 0.00 4.12
716 809 4.325187 GGTGGTGGTGTATATTTGGGGTAA 60.325 45.833 0.00 0.00 0.00 2.85
717 810 5.262804 GTGGTGGTGTATATTTGGGGTAAA 58.737 41.667 0.00 0.00 0.00 2.01
718 811 5.125900 GTGGTGGTGTATATTTGGGGTAAAC 59.874 44.000 0.00 0.00 0.00 2.01
719 812 4.336153 GGTGGTGTATATTTGGGGTAAACG 59.664 45.833 0.00 0.00 0.00 3.60
721 814 5.065090 GTGGTGTATATTTGGGGTAAACGTC 59.935 44.000 0.00 0.00 0.00 4.34
821 977 2.663852 ACGCCGAAACGTGAAGGG 60.664 61.111 0.00 0.00 46.28 3.95
835 992 2.027653 GTGAAGGGCTCTCTGCTAAACT 60.028 50.000 0.00 0.00 42.39 2.66
898 1055 2.762745 GCTCGCCTTCCCGATATAAAA 58.237 47.619 0.00 0.00 36.54 1.52
903 1060 3.146847 GCCTTCCCGATATAAAACCAGG 58.853 50.000 0.00 0.00 0.00 4.45
1305 1469 1.022735 ATCAGTCGTAGTACGCCAGG 58.977 55.000 17.90 3.58 42.21 4.45
1397 1578 0.883153 TGTTGCTTCTTGCGCATGAT 59.117 45.000 24.53 0.00 46.63 2.45
1414 1595 0.813821 GATCACCAGAAAAGCAGGGC 59.186 55.000 0.00 0.00 0.00 5.19
1467 1652 3.888930 CTCCTCTCGCTTAGAATTCCTCT 59.111 47.826 0.65 0.00 38.28 3.69
1473 1664 3.118738 TCGCTTAGAATTCCTCTTCCACC 60.119 47.826 0.65 0.00 35.41 4.61
1489 1680 6.467677 TCTTCCACCAGAGTTAATTCTGAAG 58.532 40.000 25.00 19.60 45.95 3.02
1490 1681 5.165961 TCCACCAGAGTTAATTCTGAAGG 57.834 43.478 25.00 23.20 45.95 3.46
1493 1684 4.946157 CACCAGAGTTAATTCTGAAGGCAT 59.054 41.667 25.00 4.83 45.95 4.40
1494 1685 6.115446 CACCAGAGTTAATTCTGAAGGCATA 58.885 40.000 25.00 0.00 45.95 3.14
1508 1716 4.275689 TGAAGGCATATTAATTGTGGCGAG 59.724 41.667 16.22 0.00 42.54 5.03
1543 1773 2.016961 CATGCAAACCTCGATCGGG 58.983 57.895 16.41 12.63 0.00 5.14
1557 1788 3.056678 TCGATCGGGTTTTACAGCAGTAA 60.057 43.478 16.41 0.00 38.40 2.24
1558 1789 3.869246 CGATCGGGTTTTACAGCAGTAAT 59.131 43.478 7.38 0.00 39.78 1.89
1559 1790 5.045215 CGATCGGGTTTTACAGCAGTAATA 58.955 41.667 7.38 0.00 39.78 0.98
1560 1791 5.521010 CGATCGGGTTTTACAGCAGTAATAA 59.479 40.000 7.38 0.00 39.78 1.40
1561 1792 6.202188 CGATCGGGTTTTACAGCAGTAATAAT 59.798 38.462 7.38 0.00 39.78 1.28
1562 1793 6.913873 TCGGGTTTTACAGCAGTAATAATC 57.086 37.500 2.24 1.68 39.78 1.75
1563 1794 6.646267 TCGGGTTTTACAGCAGTAATAATCT 58.354 36.000 2.24 0.00 39.78 2.40
1564 1795 6.537301 TCGGGTTTTACAGCAGTAATAATCTG 59.463 38.462 2.24 6.22 39.78 2.90
1565 1796 6.537301 CGGGTTTTACAGCAGTAATAATCTGA 59.463 38.462 2.24 0.00 39.78 3.27
1566 1797 7.065324 CGGGTTTTACAGCAGTAATAATCTGAA 59.935 37.037 2.24 0.00 39.78 3.02
1567 1798 8.398665 GGGTTTTACAGCAGTAATAATCTGAAG 58.601 37.037 2.24 0.00 39.78 3.02
1568 1799 8.398665 GGTTTTACAGCAGTAATAATCTGAAGG 58.601 37.037 2.24 0.00 39.78 3.46
1569 1800 8.398665 GTTTTACAGCAGTAATAATCTGAAGGG 58.601 37.037 2.24 0.00 39.78 3.95
1570 1801 4.455606 ACAGCAGTAATAATCTGAAGGGC 58.544 43.478 0.00 0.00 35.20 5.19
1571 1802 3.817647 CAGCAGTAATAATCTGAAGGGCC 59.182 47.826 0.00 0.00 35.20 5.80
1572 1803 3.149981 GCAGTAATAATCTGAAGGGCCC 58.850 50.000 16.46 16.46 35.20 5.80
1609 1840 6.939163 GTCCTCCATTAGCTCATGAAACATAT 59.061 38.462 9.53 0.00 0.00 1.78
1687 1929 7.716799 ATATTTCAGACTGCCAAATTAACCA 57.283 32.000 7.27 0.00 0.00 3.67
1694 1936 6.482973 CAGACTGCCAAATTAACCAACAATTT 59.517 34.615 0.00 0.00 36.31 1.82
1695 1937 7.655328 CAGACTGCCAAATTAACCAACAATTTA 59.345 33.333 0.00 0.00 34.61 1.40
1696 1938 8.207545 AGACTGCCAAATTAACCAACAATTTAA 58.792 29.630 0.00 0.00 34.61 1.52
1697 1939 8.916628 ACTGCCAAATTAACCAACAATTTAAT 57.083 26.923 0.00 0.00 34.61 1.40
1719 1961 1.960040 GCCAGGGCCAAGTTATTGCC 61.960 60.000 6.18 0.00 34.91 4.52
1778 2026 2.407859 CCGTTTTTACGCGTGCAATTTG 60.408 45.455 24.59 6.07 0.00 2.32
1804 2052 9.405587 GTAATTTGTTGCAAAGCTAATTACTGA 57.594 29.630 23.86 6.52 0.00 3.41
1839 2087 5.125900 TGTGCTATTGTGCATGAATTTAGCT 59.874 36.000 0.00 0.00 45.23 3.32
1840 2088 5.684626 GTGCTATTGTGCATGAATTTAGCTC 59.315 40.000 0.00 0.00 45.23 4.09
1841 2089 5.591472 TGCTATTGTGCATGAATTTAGCTCT 59.409 36.000 0.00 0.00 38.12 4.09
1842 2090 6.095860 TGCTATTGTGCATGAATTTAGCTCTT 59.904 34.615 0.00 0.00 38.12 2.85
1843 2091 6.976925 GCTATTGTGCATGAATTTAGCTCTTT 59.023 34.615 0.00 0.00 0.00 2.52
1844 2092 7.490402 GCTATTGTGCATGAATTTAGCTCTTTT 59.510 33.333 0.00 0.00 0.00 2.27
1845 2093 9.362539 CTATTGTGCATGAATTTAGCTCTTTTT 57.637 29.630 0.00 0.00 0.00 1.94
1874 2122 9.920133 TTGAGACATATGAATTTAGCTAGCTAG 57.080 33.333 23.03 16.84 0.00 3.42
1885 2133 1.132643 AGCTAGCTAGTCGTGGAAACG 59.867 52.381 17.69 0.00 0.00 3.60
1914 2163 0.729116 CCCAAAGAGCATGCAGTACG 59.271 55.000 21.98 4.93 0.00 3.67
1918 2193 3.871006 CCAAAGAGCATGCAGTACGATAA 59.129 43.478 21.98 0.00 0.00 1.75
1942 2217 2.162338 TTGGTTCGGTAGGCCACGAG 62.162 60.000 5.01 0.00 40.51 4.18
1944 2219 1.139095 GTTCGGTAGGCCACGAGAG 59.861 63.158 5.01 0.00 40.51 3.20
1953 2228 1.079503 GGCCACGAGAGTTTCACATC 58.920 55.000 0.00 0.00 46.40 3.06
2111 2404 4.921470 ATTTTACAGTCGATTGGTCACG 57.079 40.909 12.90 0.00 0.00 4.35
2113 2406 3.861276 TTACAGTCGATTGGTCACGAT 57.139 42.857 12.90 0.00 40.50 3.73
2114 2407 2.279582 ACAGTCGATTGGTCACGATC 57.720 50.000 12.90 0.00 40.50 3.69
2116 2409 2.188524 CAGTCGATTGGTCACGATCTG 58.811 52.381 0.00 0.00 40.50 2.90
2117 2410 1.819288 AGTCGATTGGTCACGATCTGT 59.181 47.619 0.00 0.00 40.50 3.41
2119 2412 2.599082 GTCGATTGGTCACGATCTGTTC 59.401 50.000 0.00 0.00 40.50 3.18
2122 2415 3.679980 CGATTGGTCACGATCTGTTCTTT 59.320 43.478 0.00 0.00 35.67 2.52
2123 2416 4.152402 CGATTGGTCACGATCTGTTCTTTT 59.848 41.667 0.00 0.00 35.67 2.27
2125 2418 5.418310 TTGGTCACGATCTGTTCTTTTTC 57.582 39.130 0.00 0.00 0.00 2.29
2126 2419 4.703897 TGGTCACGATCTGTTCTTTTTCT 58.296 39.130 0.00 0.00 0.00 2.52
2127 2420 5.123227 TGGTCACGATCTGTTCTTTTTCTT 58.877 37.500 0.00 0.00 0.00 2.52
2128 2421 5.588648 TGGTCACGATCTGTTCTTTTTCTTT 59.411 36.000 0.00 0.00 0.00 2.52
2129 2422 6.136743 GGTCACGATCTGTTCTTTTTCTTTC 58.863 40.000 0.00 0.00 0.00 2.62
2133 2426 7.910162 TCACGATCTGTTCTTTTTCTTTCTTTG 59.090 33.333 0.00 0.00 0.00 2.77
2134 2427 7.910162 CACGATCTGTTCTTTTTCTTTCTTTGA 59.090 33.333 0.00 0.00 0.00 2.69
2135 2428 8.125448 ACGATCTGTTCTTTTTCTTTCTTTGAG 58.875 33.333 0.00 0.00 0.00 3.02
2136 2429 8.338259 CGATCTGTTCTTTTTCTTTCTTTGAGA 58.662 33.333 0.00 0.00 0.00 3.27
2139 2432 9.793252 TCTGTTCTTTTTCTTTCTTTGAGATTG 57.207 29.630 0.00 0.00 0.00 2.67
2140 2433 8.411318 TGTTCTTTTTCTTTCTTTGAGATTGC 57.589 30.769 0.00 0.00 0.00 3.56
2143 2436 6.980397 TCTTTTTCTTTCTTTGAGATTGCCAC 59.020 34.615 0.00 0.00 0.00 5.01
2144 2437 4.853924 TTCTTTCTTTGAGATTGCCACC 57.146 40.909 0.00 0.00 0.00 4.61
2145 2438 2.813754 TCTTTCTTTGAGATTGCCACCG 59.186 45.455 0.00 0.00 0.00 4.94
2146 2439 2.270352 TTCTTTGAGATTGCCACCGT 57.730 45.000 0.00 0.00 0.00 4.83
2147 2440 1.522668 TCTTTGAGATTGCCACCGTG 58.477 50.000 0.00 0.00 0.00 4.94
2148 2441 0.523072 CTTTGAGATTGCCACCGTGG 59.477 55.000 13.71 13.71 41.55 4.94
2149 2442 0.179004 TTTGAGATTGCCACCGTGGT 60.179 50.000 18.95 0.00 40.46 4.16
2150 2443 0.179004 TTGAGATTGCCACCGTGGTT 60.179 50.000 18.95 4.58 40.46 3.67
2151 2444 0.687920 TGAGATTGCCACCGTGGTTA 59.312 50.000 18.95 7.72 40.46 2.85
2156 2564 1.697082 TTGCCACCGTGGTTACCAGA 61.697 55.000 18.95 0.00 40.46 3.86
2167 2575 1.677820 GGTTACCAGAATCCACACGGG 60.678 57.143 0.00 0.00 38.37 5.28
2168 2576 0.035820 TTACCAGAATCCACACGGGC 60.036 55.000 0.00 0.00 36.21 6.13
2193 2622 2.098298 GATTTGATGTGCGCGCGT 59.902 55.556 32.35 16.96 0.00 6.01
2196 2625 2.456594 ATTTGATGTGCGCGCGTGTT 62.457 50.000 32.35 14.01 0.00 3.32
2240 2673 3.749064 GACGTGAGGCTGGAGCGA 61.749 66.667 0.00 0.00 43.26 4.93
2762 3195 3.101209 TACCGCTACTGGTACGCG 58.899 61.111 3.53 3.53 43.56 6.01
2765 3198 4.189188 CGCTACTGGTACGCGGCT 62.189 66.667 12.47 0.00 42.88 5.52
2831 3264 3.771160 AAGGCCGACCGCTACCTG 61.771 66.667 0.00 0.00 42.76 4.00
3065 3498 2.360350 CCACGGAACTGCAGGCAT 60.360 61.111 19.93 3.34 0.00 4.40
3066 3499 2.693762 CCACGGAACTGCAGGCATG 61.694 63.158 19.93 11.15 0.00 4.06
3081 3522 3.192844 CAGGCATGTTGCTTTCTGAATCT 59.807 43.478 0.00 0.00 44.28 2.40
3184 3698 1.133598 CATGTGATGGTCGCTTTGCAT 59.866 47.619 0.00 0.00 0.00 3.96
3185 3699 1.246649 TGTGATGGTCGCTTTGCATT 58.753 45.000 0.00 0.00 0.00 3.56
3186 3700 1.068402 TGTGATGGTCGCTTTGCATTG 60.068 47.619 0.00 0.00 0.00 2.82
3187 3701 0.109179 TGATGGTCGCTTTGCATTGC 60.109 50.000 0.46 0.46 0.00 3.56
3188 3702 0.109179 GATGGTCGCTTTGCATTGCA 60.109 50.000 7.38 7.38 36.47 4.08
3245 3762 8.593679 TGAGGATCATTTGTTACTACAGAAGAA 58.406 33.333 0.00 0.00 42.56 2.52
3247 3764 9.388506 AGGATCATTTGTTACTACAGAAGAATG 57.611 33.333 0.00 0.00 35.28 2.67
3248 3765 8.616076 GGATCATTTGTTACTACAGAAGAATGG 58.384 37.037 0.00 0.00 33.01 3.16
3312 3836 2.418910 CGAGGAGACATGGAGGCGT 61.419 63.158 0.00 0.00 0.00 5.68
3313 3837 1.142748 GAGGAGACATGGAGGCGTG 59.857 63.158 0.00 0.00 0.00 5.34
3314 3838 1.608717 GAGGAGACATGGAGGCGTGT 61.609 60.000 0.00 0.00 0.00 4.49
3315 3839 1.153549 GGAGACATGGAGGCGTGTC 60.154 63.158 0.00 0.00 43.85 3.67
3348 3882 1.873591 GTTCTGACAACATCGGTGCTT 59.126 47.619 0.00 0.00 34.95 3.91
3349 3883 2.254546 TCTGACAACATCGGTGCTTT 57.745 45.000 0.00 0.00 34.95 3.51
3356 3890 3.880490 ACAACATCGGTGCTTTCTTGTTA 59.120 39.130 0.00 0.00 0.00 2.41
3357 3891 4.219033 CAACATCGGTGCTTTCTTGTTAC 58.781 43.478 0.00 0.00 0.00 2.50
3358 3892 3.740115 ACATCGGTGCTTTCTTGTTACT 58.260 40.909 0.00 0.00 0.00 2.24
3359 3893 4.890088 ACATCGGTGCTTTCTTGTTACTA 58.110 39.130 0.00 0.00 0.00 1.82
3360 3894 4.929808 ACATCGGTGCTTTCTTGTTACTAG 59.070 41.667 0.00 0.00 0.00 2.57
3361 3895 4.595762 TCGGTGCTTTCTTGTTACTAGT 57.404 40.909 0.00 0.00 0.00 2.57
3372 3906 2.288666 TGTTACTAGTACCGTAGCCCG 58.711 52.381 0.91 0.00 0.00 6.13
3435 3979 2.508526 AGTGACCCTGCTCAAATTGAC 58.491 47.619 0.00 0.00 0.00 3.18
3445 3989 5.142061 TGCTCAAATTGACTGATTGCAAT 57.858 34.783 12.83 12.83 36.35 3.56
3470 4014 7.909267 TCGAATGTAATCAAGTGCTAATTGAG 58.091 34.615 5.54 0.00 39.86 3.02
3482 4026 3.665173 CTAATTGAGCTGCTTTCCGAC 57.335 47.619 2.53 0.00 0.00 4.79
3533 4082 9.750882 CTGCTTTTCTTTTCTTTTCTTTTTGAG 57.249 29.630 0.00 0.00 0.00 3.02
3534 4083 9.487790 TGCTTTTCTTTTCTTTTCTTTTTGAGA 57.512 25.926 0.00 0.00 0.00 3.27
3539 4088 9.860898 TTCTTTTCTTTTCTTTTTGAGAAGAGG 57.139 29.630 6.51 0.00 43.69 3.69
3540 4089 9.025041 TCTTTTCTTTTCTTTTTGAGAAGAGGT 57.975 29.630 6.51 0.00 43.69 3.85
3541 4090 8.986477 TTTTCTTTTCTTTTTGAGAAGAGGTG 57.014 30.769 6.51 0.00 43.69 4.00
3542 4091 7.703058 TTCTTTTCTTTTTGAGAAGAGGTGT 57.297 32.000 6.51 0.00 43.69 4.16
3547 4096 5.694995 TCTTTTTGAGAAGAGGTGTGGAAT 58.305 37.500 0.00 0.00 32.19 3.01
3588 4288 4.919754 CAGAAACCAAGCAACTTAATCAGC 59.080 41.667 0.00 0.00 0.00 4.26
3845 4950 3.162666 TCGAACCACAGACCTCTTACAT 58.837 45.455 0.00 0.00 0.00 2.29
3890 4995 3.325870 TGAGCCGACTAATGTTTGTGAG 58.674 45.455 0.00 0.00 0.00 3.51
3947 5052 2.028385 ACGGATTTATCGGGCCTATGAC 60.028 50.000 0.84 0.00 0.00 3.06
4104 5217 2.881513 CGCTAGCTTCCATAGAGAGACA 59.118 50.000 13.93 0.00 0.00 3.41
4118 5231 1.918957 AGAGACAAGGGAATGAAGGGG 59.081 52.381 0.00 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 3.323403 AGATGCTCTAACCCTGATAGCAC 59.677 47.826 0.00 0.00 45.18 4.40
6 7 3.576118 GAGATGCTCTAACCCTGATAGCA 59.424 47.826 0.00 0.00 46.30 3.49
7 8 3.056179 GGAGATGCTCTAACCCTGATAGC 60.056 52.174 0.00 0.00 0.00 2.97
8 9 4.155709 TGGAGATGCTCTAACCCTGATAG 58.844 47.826 0.00 0.00 0.00 2.08
9 10 4.199002 TGGAGATGCTCTAACCCTGATA 57.801 45.455 0.00 0.00 0.00 2.15
10 11 3.051940 TGGAGATGCTCTAACCCTGAT 57.948 47.619 0.00 0.00 0.00 2.90
11 12 2.550277 TGGAGATGCTCTAACCCTGA 57.450 50.000 0.00 0.00 0.00 3.86
96 98 5.205056 TGGAGGTCTTTGGTGTTGTAAAAT 58.795 37.500 0.00 0.00 0.00 1.82
141 143 0.035439 CCGTCAATACTGGTGCCCTT 60.035 55.000 0.00 0.00 0.00 3.95
149 151 5.116180 TCCTAAGCATTTCCGTCAATACTG 58.884 41.667 0.00 0.00 0.00 2.74
153 155 3.885297 CCATCCTAAGCATTTCCGTCAAT 59.115 43.478 0.00 0.00 0.00 2.57
159 161 2.234143 GAGGCCATCCTAAGCATTTCC 58.766 52.381 5.01 0.00 44.46 3.13
209 212 2.507944 GGCATGGCGACCATCTCT 59.492 61.111 2.41 0.00 43.15 3.10
281 347 2.031157 CGTCCGAAGTTGCCAGATTTTT 60.031 45.455 0.00 0.00 0.00 1.94
287 353 3.423154 GGCGTCCGAAGTTGCCAG 61.423 66.667 0.00 0.00 46.76 4.85
299 366 2.547798 GTTGTTTCGGTCGGCGTC 59.452 61.111 6.85 0.00 0.00 5.19
312 388 2.338984 GAGTCGAGTGGCCGTTGT 59.661 61.111 0.00 0.00 0.00 3.32
365 443 2.243774 TAGCTGGACTAGGGGCTGCT 62.244 60.000 0.00 7.63 36.40 4.24
368 446 0.397816 CTGTAGCTGGACTAGGGGCT 60.398 60.000 0.00 0.62 38.62 5.19
372 450 1.671845 GTCGTCTGTAGCTGGACTAGG 59.328 57.143 0.00 0.00 0.00 3.02
425 503 4.988598 ACTGTTGGCCGGAGCACG 62.989 66.667 5.05 0.00 42.56 5.34
464 542 2.124320 ATTTGGGATCCACCGCGG 60.124 61.111 26.86 26.86 40.11 6.46
465 543 2.534019 CGATTTGGGATCCACCGCG 61.534 63.158 15.23 0.00 40.11 6.46
470 548 1.134818 CGACAGTCGATTTGGGATCCA 60.135 52.381 18.63 0.00 43.74 3.41
486 564 1.525197 GTCATTGAAGTTGCGTCGACA 59.475 47.619 17.16 0.00 0.00 4.35
494 572 2.742053 CACTACCCCGTCATTGAAGTTG 59.258 50.000 0.00 0.00 0.00 3.16
495 573 2.370849 ACACTACCCCGTCATTGAAGTT 59.629 45.455 0.00 0.00 0.00 2.66
500 578 1.024579 GCCACACTACCCCGTCATTG 61.025 60.000 0.00 0.00 0.00 2.82
502 593 1.899437 CTGCCACACTACCCCGTCAT 61.899 60.000 0.00 0.00 0.00 3.06
519 611 1.280142 CTACTCCGACGCGATCCTG 59.720 63.158 15.93 1.99 0.00 3.86
520 612 1.892862 CCTACTCCGACGCGATCCT 60.893 63.158 15.93 0.00 0.00 3.24
523 615 2.905880 CCCCTACTCCGACGCGAT 60.906 66.667 15.93 0.00 0.00 4.58
529 621 4.153330 GCCCTCCCCCTACTCCGA 62.153 72.222 0.00 0.00 0.00 4.55
573 666 1.741706 CCGCTTGCTGTGATTTCATCT 59.258 47.619 0.00 0.00 0.00 2.90
575 668 1.200716 CACCGCTTGCTGTGATTTCAT 59.799 47.619 10.87 0.00 34.37 2.57
576 669 0.592637 CACCGCTTGCTGTGATTTCA 59.407 50.000 10.87 0.00 34.37 2.69
588 681 2.224159 ATCCACCTGACCACCGCTT 61.224 57.895 0.00 0.00 0.00 4.68
589 682 2.607750 ATCCACCTGACCACCGCT 60.608 61.111 0.00 0.00 0.00 5.52
712 805 8.408601 TGTCCTATATCTGTAAAGACGTTTACC 58.591 37.037 7.49 0.00 45.19 2.85
716 809 6.606395 AGGTGTCCTATATCTGTAAAGACGTT 59.394 38.462 0.00 0.00 28.47 3.99
717 810 6.127793 AGGTGTCCTATATCTGTAAAGACGT 58.872 40.000 0.00 0.00 28.47 4.34
718 811 6.636562 AGGTGTCCTATATCTGTAAAGACG 57.363 41.667 0.00 0.00 28.47 4.18
719 812 9.915629 CAATAGGTGTCCTATATCTGTAAAGAC 57.084 37.037 8.48 0.00 45.14 3.01
721 814 8.367911 TGCAATAGGTGTCCTATATCTGTAAAG 58.632 37.037 8.48 0.00 45.14 1.85
864 1021 1.846849 GCGAGCGATCGATCTCTCCA 61.847 60.000 30.10 0.00 35.73 3.86
870 1027 1.731257 GGAAGGCGAGCGATCGATC 60.731 63.158 29.29 22.90 34.64 3.69
1315 1484 1.236616 TGGACTCTTTGCATGGCGTG 61.237 55.000 1.31 1.31 0.00 5.34
1397 1578 1.600636 CGCCCTGCTTTTCTGGTGA 60.601 57.895 0.00 0.00 32.38 4.02
1414 1595 0.604578 TGGTCCTAAAGAACCGGACG 59.395 55.000 9.46 0.00 46.35 4.79
1467 1652 5.560724 CCTTCAGAATTAACTCTGGTGGAA 58.439 41.667 13.60 0.55 42.68 3.53
1489 1680 2.351738 GGCTCGCCACAATTAATATGCC 60.352 50.000 2.41 0.00 35.81 4.40
1490 1681 2.665519 CGGCTCGCCACAATTAATATGC 60.666 50.000 8.87 0.00 35.37 3.14
1493 1684 2.605837 TCGGCTCGCCACAATTAATA 57.394 45.000 8.87 0.00 35.37 0.98
1494 1685 1.603802 CATCGGCTCGCCACAATTAAT 59.396 47.619 8.87 0.00 35.37 1.40
1508 1716 0.820891 ATGCAGGATCAACCATCGGC 60.821 55.000 0.00 0.00 42.04 5.54
1543 1773 8.398665 CCCTTCAGATTATTACTGCTGTAAAAC 58.601 37.037 18.52 10.78 41.36 2.43
1557 1788 5.165652 TCAGATTAGGGCCCTTCAGATTAT 58.834 41.667 34.04 12.02 0.00 1.28
1558 1789 4.566837 TCAGATTAGGGCCCTTCAGATTA 58.433 43.478 34.04 6.90 0.00 1.75
1559 1790 3.397527 TCAGATTAGGGCCCTTCAGATT 58.602 45.455 34.04 8.18 0.00 2.40
1560 1791 3.066208 TCAGATTAGGGCCCTTCAGAT 57.934 47.619 34.04 18.95 0.00 2.90
1561 1792 2.568546 TCAGATTAGGGCCCTTCAGA 57.431 50.000 34.04 21.83 0.00 3.27
1562 1793 3.484407 CATTCAGATTAGGGCCCTTCAG 58.516 50.000 34.04 19.68 0.00 3.02
1563 1794 2.175499 CCATTCAGATTAGGGCCCTTCA 59.825 50.000 34.04 18.64 0.00 3.02
1564 1795 2.175715 ACCATTCAGATTAGGGCCCTTC 59.824 50.000 34.04 23.32 0.00 3.46
1565 1796 2.175715 GACCATTCAGATTAGGGCCCTT 59.824 50.000 34.04 14.27 0.00 3.95
1566 1797 1.777272 GACCATTCAGATTAGGGCCCT 59.223 52.381 31.35 31.35 0.00 5.19
1567 1798 1.202940 GGACCATTCAGATTAGGGCCC 60.203 57.143 16.46 16.46 43.97 5.80
1568 1799 2.278332 GGACCATTCAGATTAGGGCC 57.722 55.000 0.00 0.00 43.32 5.80
1569 1800 2.224646 GGAGGACCATTCAGATTAGGGC 60.225 54.545 0.00 0.00 35.97 5.19
1570 1801 3.048600 TGGAGGACCATTCAGATTAGGG 58.951 50.000 0.00 0.00 41.77 3.53
1675 1917 9.767684 GCTAATTAAATTGTTGGTTAATTTGGC 57.232 29.630 6.68 8.01 39.46 4.52
1687 1929 4.100373 TGGCCCTGGCTAATTAAATTGTT 58.900 39.130 8.29 0.00 41.60 2.83
1694 1936 4.806952 ATAACTTGGCCCTGGCTAATTA 57.193 40.909 7.46 8.85 40.64 1.40
1695 1937 3.688049 ATAACTTGGCCCTGGCTAATT 57.312 42.857 7.46 0.00 40.64 1.40
1696 1938 3.299503 CAATAACTTGGCCCTGGCTAAT 58.700 45.455 7.46 0.00 40.64 1.73
1697 1939 2.733956 CAATAACTTGGCCCTGGCTAA 58.266 47.619 8.29 7.49 41.60 3.09
1719 1961 3.604772 GCAGTTTCAACTTGCGAGTAGTG 60.605 47.826 7.13 6.07 37.08 2.74
1758 2000 2.214467 ACAAATTGCACGCGTAAAAACG 59.786 40.909 13.44 0.00 0.00 3.60
1778 2026 9.405587 TCAGTAATTAGCTTTGCAACAAATTAC 57.594 29.630 22.47 22.47 0.00 1.89
1804 2052 4.993584 GCACAATAGCACAGCTGAGTATAT 59.006 41.667 23.35 12.31 40.10 0.86
1807 2055 2.028203 TGCACAATAGCACAGCTGAGTA 60.028 45.455 23.35 8.78 40.10 2.59
1809 2057 1.445871 TGCACAATAGCACAGCTGAG 58.554 50.000 23.35 14.77 40.10 3.35
1846 2094 9.618890 AGCTAGCTAAATTCATATGTCTCAAAA 57.381 29.630 17.69 0.00 0.00 2.44
1848 2096 9.920133 CTAGCTAGCTAAATTCATATGTCTCAA 57.080 33.333 24.20 0.00 0.00 3.02
1849 2097 9.083422 ACTAGCTAGCTAAATTCATATGTCTCA 57.917 33.333 24.20 0.00 0.00 3.27
1850 2098 9.567848 GACTAGCTAGCTAAATTCATATGTCTC 57.432 37.037 24.20 0.76 0.00 3.36
1851 2099 8.240682 CGACTAGCTAGCTAAATTCATATGTCT 58.759 37.037 24.20 0.00 0.00 3.41
1852 2100 8.024285 ACGACTAGCTAGCTAAATTCATATGTC 58.976 37.037 24.20 20.63 0.00 3.06
1853 2101 7.810282 CACGACTAGCTAGCTAAATTCATATGT 59.190 37.037 24.20 15.10 0.00 2.29
1854 2102 7.274468 CCACGACTAGCTAGCTAAATTCATATG 59.726 40.741 24.20 16.37 0.00 1.78
1855 2103 7.176865 TCCACGACTAGCTAGCTAAATTCATAT 59.823 37.037 24.20 7.73 0.00 1.78
1856 2104 6.489022 TCCACGACTAGCTAGCTAAATTCATA 59.511 38.462 24.20 6.84 0.00 2.15
1857 2105 5.302059 TCCACGACTAGCTAGCTAAATTCAT 59.698 40.000 24.20 7.98 0.00 2.57
1858 2106 4.643334 TCCACGACTAGCTAGCTAAATTCA 59.357 41.667 24.20 4.16 0.00 2.57
1859 2107 5.184340 TCCACGACTAGCTAGCTAAATTC 57.816 43.478 24.20 18.28 0.00 2.17
1860 2108 5.593679 TTCCACGACTAGCTAGCTAAATT 57.406 39.130 24.20 12.19 0.00 1.82
1861 2109 5.349809 GTTTCCACGACTAGCTAGCTAAAT 58.650 41.667 24.20 15.73 0.00 1.40
1862 2110 4.741342 GTTTCCACGACTAGCTAGCTAAA 58.259 43.478 24.20 12.61 0.00 1.85
1863 2111 4.367386 GTTTCCACGACTAGCTAGCTAA 57.633 45.455 24.20 7.04 0.00 3.09
1865 2113 2.943449 GTTTCCACGACTAGCTAGCT 57.057 50.000 23.12 23.12 0.00 3.32
1885 2133 1.271597 TGCTCTTTGGGCCTCTTTCTC 60.272 52.381 4.53 0.00 0.00 2.87
1914 2163 4.201980 GGCCTACCGAACCAAAACATTATC 60.202 45.833 0.00 0.00 0.00 1.75
1918 2193 1.202952 TGGCCTACCGAACCAAAACAT 60.203 47.619 3.32 0.00 39.70 2.71
1953 2228 3.181485 ACCGGTTTTGGTTACACAATGTG 60.181 43.478 12.40 12.40 39.99 3.21
1966 2244 1.080569 GCATGAGCCACCGGTTTTG 60.081 57.895 2.97 0.00 33.58 2.44
2088 2368 5.574055 TCGTGACCAATCGACTGTAAAATAC 59.426 40.000 0.00 0.00 0.00 1.89
2096 2389 2.188524 CAGATCGTGACCAATCGACTG 58.811 52.381 0.00 0.00 38.85 3.51
2106 2399 6.949449 AGAAAGAAAAAGAACAGATCGTGAC 58.051 36.000 0.02 0.00 0.00 3.67
2108 2401 7.910162 TCAAAGAAAGAAAAAGAACAGATCGTG 59.090 33.333 0.00 0.00 0.00 4.35
2109 2402 7.985476 TCAAAGAAAGAAAAAGAACAGATCGT 58.015 30.769 0.00 0.00 0.00 3.73
2113 2406 9.793252 CAATCTCAAAGAAAGAAAAAGAACAGA 57.207 29.630 0.00 0.00 0.00 3.41
2114 2407 8.538039 GCAATCTCAAAGAAAGAAAAAGAACAG 58.462 33.333 0.00 0.00 0.00 3.16
2116 2409 7.492344 TGGCAATCTCAAAGAAAGAAAAAGAAC 59.508 33.333 0.00 0.00 0.00 3.01
2117 2410 7.492344 GTGGCAATCTCAAAGAAAGAAAAAGAA 59.508 33.333 0.00 0.00 0.00 2.52
2119 2412 6.201615 GGTGGCAATCTCAAAGAAAGAAAAAG 59.798 38.462 0.00 0.00 0.00 2.27
2122 2415 4.261572 CGGTGGCAATCTCAAAGAAAGAAA 60.262 41.667 0.00 0.00 0.00 2.52
2123 2416 3.253188 CGGTGGCAATCTCAAAGAAAGAA 59.747 43.478 0.00 0.00 0.00 2.52
2125 2418 2.554032 ACGGTGGCAATCTCAAAGAAAG 59.446 45.455 0.00 0.00 0.00 2.62
2126 2419 2.293122 CACGGTGGCAATCTCAAAGAAA 59.707 45.455 0.00 0.00 0.00 2.52
2127 2420 1.879380 CACGGTGGCAATCTCAAAGAA 59.121 47.619 0.00 0.00 0.00 2.52
2128 2421 1.522668 CACGGTGGCAATCTCAAAGA 58.477 50.000 0.00 0.00 0.00 2.52
2129 2422 0.523072 CCACGGTGGCAATCTCAAAG 59.477 55.000 15.29 0.00 0.00 2.77
2133 2426 1.084289 GTAACCACGGTGGCAATCTC 58.916 55.000 26.62 8.12 42.67 2.75
2134 2427 0.322187 GGTAACCACGGTGGCAATCT 60.322 55.000 26.62 4.09 42.67 2.40
2135 2428 0.606944 TGGTAACCACGGTGGCAATC 60.607 55.000 26.62 15.39 42.67 2.67
2136 2429 0.608035 CTGGTAACCACGGTGGCAAT 60.608 55.000 26.62 15.38 42.67 3.56
2137 2430 1.228003 CTGGTAACCACGGTGGCAA 60.228 57.895 26.62 12.34 42.67 4.52
2138 2431 1.697082 TTCTGGTAACCACGGTGGCA 61.697 55.000 26.62 15.03 42.67 4.92
2139 2432 0.322187 ATTCTGGTAACCACGGTGGC 60.322 55.000 26.62 11.08 42.67 5.01
2140 2433 1.677820 GGATTCTGGTAACCACGGTGG 60.678 57.143 25.21 25.21 45.02 4.61
2143 2436 1.734163 GTGGATTCTGGTAACCACGG 58.266 55.000 0.00 0.00 42.20 4.94
2146 2439 1.002659 CCGTGTGGATTCTGGTAACCA 59.997 52.381 0.00 0.00 37.49 3.67
2147 2440 1.677820 CCCGTGTGGATTCTGGTAACC 60.678 57.143 0.00 0.00 37.49 2.85
2148 2441 1.734163 CCCGTGTGGATTCTGGTAAC 58.266 55.000 0.00 0.00 37.49 2.50
2149 2442 0.035820 GCCCGTGTGGATTCTGGTAA 60.036 55.000 0.00 0.00 37.49 2.85
2150 2443 1.195442 TGCCCGTGTGGATTCTGGTA 61.195 55.000 0.00 0.00 37.49 3.25
2151 2444 2.351276 GCCCGTGTGGATTCTGGT 59.649 61.111 0.00 0.00 37.49 4.00
2156 2564 2.047274 CTCGTGCCCGTGTGGATT 60.047 61.111 0.00 0.00 37.49 3.01
2167 2575 1.792993 GCACATCAAATCAGCTCGTGC 60.793 52.381 0.07 0.07 41.12 5.34
2168 2576 1.528400 CGCACATCAAATCAGCTCGTG 60.528 52.381 0.00 0.00 0.00 4.35
2193 2622 0.240145 CTCTCCTGCACGTACGAACA 59.760 55.000 24.41 17.52 0.00 3.18
2196 2625 2.875485 GCTCTCCTGCACGTACGA 59.125 61.111 24.41 0.00 0.00 3.43
2840 3273 3.735037 GAACCTGATCCGGACGCCC 62.735 68.421 6.12 0.00 0.00 6.13
2847 3280 0.460987 GTGCTGAGGAACCTGATCCG 60.461 60.000 0.00 0.00 44.60 4.18
3063 3496 6.387465 ACAATGAGATTCAGAAAGCAACATG 58.613 36.000 0.00 0.00 0.00 3.21
3065 3498 6.395426 AACAATGAGATTCAGAAAGCAACA 57.605 33.333 0.00 0.00 0.00 3.33
3066 3499 6.698766 ACAAACAATGAGATTCAGAAAGCAAC 59.301 34.615 0.00 0.00 0.00 4.17
3081 3522 5.574891 ACAGTAGCACAAACAAACAATGA 57.425 34.783 0.00 0.00 0.00 2.57
3184 3698 1.354031 TCCACTTTATCCAGGCTGCAA 59.646 47.619 9.56 0.00 0.00 4.08
3185 3699 0.991146 TCCACTTTATCCAGGCTGCA 59.009 50.000 9.56 0.00 0.00 4.41
3186 3700 1.673168 CTCCACTTTATCCAGGCTGC 58.327 55.000 9.56 0.00 0.00 5.25
3187 3701 1.839994 TCCTCCACTTTATCCAGGCTG 59.160 52.381 7.75 7.75 0.00 4.85
3188 3702 2.122768 CTCCTCCACTTTATCCAGGCT 58.877 52.381 0.00 0.00 0.00 4.58
3247 3764 2.861360 GCATACGAATCCGGTGTCTACC 60.861 54.545 0.00 0.00 43.89 3.18
3248 3765 2.391879 GCATACGAATCCGGTGTCTAC 58.608 52.381 0.00 0.00 40.78 2.59
3312 3836 6.345298 TGTCAGAACACAATCTTTACAGACA 58.655 36.000 0.00 0.00 29.84 3.41
3313 3837 6.844696 TGTCAGAACACAATCTTTACAGAC 57.155 37.500 0.00 0.00 0.00 3.51
3314 3838 6.821160 TGTTGTCAGAACACAATCTTTACAGA 59.179 34.615 0.00 0.00 38.53 3.41
3315 3839 7.015226 TGTTGTCAGAACACAATCTTTACAG 57.985 36.000 0.00 0.00 38.53 2.74
3348 3882 4.399303 GGGCTACGGTACTAGTAACAAGAA 59.601 45.833 17.91 0.00 0.00 2.52
3349 3883 3.947834 GGGCTACGGTACTAGTAACAAGA 59.052 47.826 17.91 1.45 0.00 3.02
3411 3952 1.729586 TTTGAGCAGGGTCACTAGGT 58.270 50.000 0.00 0.00 0.00 3.08
3435 3979 7.165318 CACTTGATTACATTCGATTGCAATCAG 59.835 37.037 32.72 25.34 39.39 2.90
3445 3989 7.841915 TCAATTAGCACTTGATTACATTCGA 57.158 32.000 0.00 0.00 0.00 3.71
3470 4014 1.068954 CAAAAGGAGTCGGAAAGCAGC 60.069 52.381 0.00 0.00 0.00 5.25
3474 4018 4.993905 ACAAAACAAAAGGAGTCGGAAAG 58.006 39.130 0.00 0.00 0.00 2.62
3482 4026 7.007117 GTCAAAACGAAACAAAACAAAAGGAG 58.993 34.615 0.00 0.00 0.00 3.69
3533 4082 3.166489 CGTAGGATTCCACACCTCTTC 57.834 52.381 5.29 0.00 37.68 2.87
3547 4096 4.039488 TTTCTGCTAACTGAAACCGTAGGA 59.961 41.667 0.00 0.00 43.48 2.94
3588 4288 6.652481 TCTTTCATTAGAGAGCTTTGGTTGAG 59.348 38.462 0.00 0.00 0.00 3.02
3777 4535 4.390909 GTGAATTTTTACATCTCGGGTCGT 59.609 41.667 0.00 0.00 0.00 4.34
3845 4950 8.154203 TCAATTGGTGAGTGACTAAACTTCATA 58.846 33.333 5.42 0.00 0.00 2.15
4036 5144 1.097232 GTAGCCATTGCATGCACAGA 58.903 50.000 22.58 6.42 41.13 3.41
4104 5217 1.000896 CACGCCCCTTCATTCCCTT 60.001 57.895 0.00 0.00 0.00 3.95
4118 5231 1.408474 GCTGCTGCATTTAAGCACGC 61.408 55.000 11.11 0.00 45.50 5.34


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

AutoCloner maintained by Alex Coulton.