Multiple sequence alignment - TraesCS6A01G077700

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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 TraesCS6A01G077700 chr6A 100.000 3804 0 0 1 3804 47883493 47887296 0.000000e+00 7025.0
1 TraesCS6A01G077700 chr6A 80.884 2103 298 60 1073 3156 48036613 48038630 0.000000e+00 1561.0
2 TraesCS6A01G077700 chr6A 79.713 1745 265 53 1088 2802 48057011 48055326 0.000000e+00 1179.0
3 TraesCS6A01G077700 chr6A 79.905 1259 194 37 1355 2585 47983559 47984786 0.000000e+00 869.0
4 TraesCS6A01G077700 chr6A 89.065 695 69 3 1372 2066 47702103 47702790 0.000000e+00 856.0
5 TraesCS6A01G077700 chr6A 96.053 228 8 1 1095 1321 47701873 47702100 1.670000e-98 370.0
6 TraesCS6A01G077700 chr6A 83.461 393 51 9 2573 2957 47984820 47985206 1.680000e-93 353.0
7 TraesCS6A01G077700 chr6A 90.857 175 13 2 3631 3804 503384649 503384477 8.220000e-57 231.0
8 TraesCS6A01G077700 chr6A 89.714 175 16 2 3631 3804 612558311 612558138 4.950000e-54 222.0
9 TraesCS6A01G077700 chr6A 80.000 120 22 2 2980 3097 34684242 34684123 1.880000e-13 87.9
10 TraesCS6A01G077700 chrUn 91.088 3310 194 56 4 3270 143845797 143849048 0.000000e+00 4385.0
11 TraesCS6A01G077700 chrUn 91.034 1383 109 8 1359 2734 26732982 26734356 0.000000e+00 1853.0
12 TraesCS6A01G077700 chrUn 89.149 1410 110 18 1372 2771 26518512 26517136 0.000000e+00 1716.0
13 TraesCS6A01G077700 chrUn 81.598 1652 232 39 1520 3156 153494453 153492859 0.000000e+00 1301.0
14 TraesCS6A01G077700 chrUn 78.716 1978 314 76 1132 3079 26726689 26728589 0.000000e+00 1221.0
15 TraesCS6A01G077700 chrUn 79.256 1721 257 62 1109 2802 153378132 153379779 0.000000e+00 1109.0
16 TraesCS6A01G077700 chrUn 80.132 1515 215 53 1098 2588 153436507 153435055 0.000000e+00 1051.0
17 TraesCS6A01G077700 chrUn 77.784 1769 284 59 1097 2804 26525600 26523880 0.000000e+00 989.0
18 TraesCS6A01G077700 chrUn 80.339 1180 150 40 1061 2210 153521021 153519894 0.000000e+00 819.0
19 TraesCS6A01G077700 chrUn 81.250 592 85 15 2573 3156 153435024 153434451 4.480000e-124 455.0
20 TraesCS6A01G077700 chrUn 85.675 363 27 6 960 1321 26518853 26518515 3.610000e-95 359.0
21 TraesCS6A01G077700 chrUn 94.690 226 11 1 1098 1323 26732768 26732992 2.170000e-92 350.0
22 TraesCS6A01G077700 chrUn 91.870 246 11 1 3303 3548 143849044 143849280 6.090000e-88 335.0
23 TraesCS6A01G077700 chrUn 97.183 71 1 1 3555 3624 143849314 143849384 6.680000e-23 119.0
24 TraesCS6A01G077700 chrUn 85.149 101 13 2 2968 3066 102560873 102560773 6.720000e-18 102.0
25 TraesCS6A01G077700 chrUn 80.833 120 21 2 2980 3097 102690892 102690773 4.050000e-15 93.5
26 TraesCS6A01G077700 chr6B 92.668 2796 135 25 866 3630 82958555 82955799 0.000000e+00 3964.0
27 TraesCS6A01G077700 chr6B 80.962 1518 196 54 1098 2585 84356915 84358369 0.000000e+00 1116.0
28 TraesCS6A01G077700 chr6B 80.742 1132 163 28 2032 3156 84492268 84493351 0.000000e+00 832.0
29 TraesCS6A01G077700 chr6B 83.479 799 83 29 858 1633 84075756 84076528 0.000000e+00 699.0
30 TraesCS6A01G077700 chr6B 83.913 460 69 4 1 459 82959742 82959287 5.840000e-118 435.0
31 TraesCS6A01G077700 chr6B 81.069 449 54 20 2573 3009 84358403 84358832 2.830000e-86 329.0
32 TraesCS6A01G077700 chr6B 84.810 316 35 8 533 846 82959244 82958940 4.770000e-79 305.0
33 TraesCS6A01G077700 chr6B 84.516 155 19 4 1381 1534 64008768 64008618 8.510000e-32 148.0
34 TraesCS6A01G077700 chr6B 85.263 95 12 2 2973 3066 63581569 63581476 3.130000e-16 97.1
35 TraesCS6A01G077700 chr1B 92.000 175 12 2 3631 3804 375862143 375862316 1.060000e-60 244.0
36 TraesCS6A01G077700 chr1B 89.385 179 16 3 3628 3804 198593024 198592847 4.950000e-54 222.0
37 TraesCS6A01G077700 chr7B 91.176 170 13 2 3635 3804 720817860 720818027 2.960000e-56 230.0
38 TraesCS6A01G077700 chr1A 90.230 174 15 2 3632 3804 53913203 53913031 3.820000e-55 226.0
39 TraesCS6A01G077700 chr7D 89.941 169 15 2 3630 3797 66539395 66539228 2.300000e-52 217.0
40 TraesCS6A01G077700 chr5A 89.205 176 15 3 3631 3804 635379150 635379323 2.300000e-52 217.0
41 TraesCS6A01G077700 chr5A 88.571 175 17 3 3631 3804 326718093 326718265 3.850000e-50 209.0
42 TraesCS6A01G077700 chr5B 82.558 172 30 0 1 172 691809617 691809788 6.580000e-33 152.0
43 TraesCS6A01G077700 chr6D 85.926 135 19 0 62 196 114222661 114222527 1.100000e-30 145.0
44 TraesCS6A01G077700 chr4A 81.395 172 32 0 1 172 618471084 618471255 1.420000e-29 141.0
45 TraesCS6A01G077700 chr2D 75.686 255 41 13 212 466 368001907 368001674 1.440000e-19 108.0
46 TraesCS6A01G077700 chr2B 87.356 87 10 1 206 291 437000574 437000488 8.700000e-17 99.0
47 TraesCS6A01G077700 chr2A 80.000 125 20 4 206 328 498097441 498097320 1.880000e-13 87.9


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 TraesCS6A01G077700 chr6A 47883493 47887296 3803 False 7025.0 7025 100.000000 1 3804 1 chr6A.!!$F1 3803
1 TraesCS6A01G077700 chr6A 48036613 48038630 2017 False 1561.0 1561 80.884000 1073 3156 1 chr6A.!!$F2 2083
2 TraesCS6A01G077700 chr6A 48055326 48057011 1685 True 1179.0 1179 79.713000 1088 2802 1 chr6A.!!$R2 1714
3 TraesCS6A01G077700 chr6A 47701873 47702790 917 False 613.0 856 92.559000 1095 2066 2 chr6A.!!$F3 971
4 TraesCS6A01G077700 chr6A 47983559 47985206 1647 False 611.0 869 81.683000 1355 2957 2 chr6A.!!$F4 1602
5 TraesCS6A01G077700 chrUn 143845797 143849384 3587 False 1613.0 4385 93.380333 4 3624 3 chrUn.!!$F4 3620
6 TraesCS6A01G077700 chrUn 153492859 153494453 1594 True 1301.0 1301 81.598000 1520 3156 1 chrUn.!!$R4 1636
7 TraesCS6A01G077700 chrUn 26726689 26728589 1900 False 1221.0 1221 78.716000 1132 3079 1 chrUn.!!$F1 1947
8 TraesCS6A01G077700 chrUn 153378132 153379779 1647 False 1109.0 1109 79.256000 1109 2802 1 chrUn.!!$F2 1693
9 TraesCS6A01G077700 chrUn 26732768 26734356 1588 False 1101.5 1853 92.862000 1098 2734 2 chrUn.!!$F3 1636
10 TraesCS6A01G077700 chrUn 26517136 26518853 1717 True 1037.5 1716 87.412000 960 2771 2 chrUn.!!$R6 1811
11 TraesCS6A01G077700 chrUn 26523880 26525600 1720 True 989.0 989 77.784000 1097 2804 1 chrUn.!!$R1 1707
12 TraesCS6A01G077700 chrUn 153519894 153521021 1127 True 819.0 819 80.339000 1061 2210 1 chrUn.!!$R5 1149
13 TraesCS6A01G077700 chrUn 153434451 153436507 2056 True 753.0 1051 80.691000 1098 3156 2 chrUn.!!$R7 2058
14 TraesCS6A01G077700 chr6B 82955799 82959742 3943 True 1568.0 3964 87.130333 1 3630 3 chr6B.!!$R3 3629
15 TraesCS6A01G077700 chr6B 84492268 84493351 1083 False 832.0 832 80.742000 2032 3156 1 chr6B.!!$F2 1124
16 TraesCS6A01G077700 chr6B 84356915 84358832 1917 False 722.5 1116 81.015500 1098 3009 2 chr6B.!!$F3 1911
17 TraesCS6A01G077700 chr6B 84075756 84076528 772 False 699.0 699 83.479000 858 1633 1 chr6B.!!$F1 775

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
563 567 0.179215 CGAAGCAACAAGATGGCGTC 60.179 55.0 0.0 0.0 33.59 5.19 F
671 676 0.318441 TCCTTCGCAGGAGACAACAG 59.682 55.0 0.0 0.0 45.20 3.16 F
1059 1462 0.458889 CGCCAAATCTTCCGTCCGTA 60.459 55.0 0.0 0.0 0.00 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2362 2945 1.084370 CGGGTCTCAAGGCATTCGAC 61.084 60.000 2.38 2.38 0.00 4.20 R
2669 3310 3.130516 CAGTGCAATCTTCAGGCATCAAT 59.869 43.478 0.00 0.00 40.05 2.57 R
2908 3563 0.041535 TACCAGCTCCCTCCGGTTAA 59.958 55.000 0.00 0.00 32.81 2.01 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
44 45 4.330250 CGATTGGGCTATGATCTCCAAAT 58.670 43.478 0.00 0.00 41.80 2.32
54 55 4.564782 TGATCTCCAAATGAGTGAGCTT 57.435 40.909 0.00 0.00 42.12 3.74
56 57 4.224594 TGATCTCCAAATGAGTGAGCTTCT 59.775 41.667 0.00 0.00 42.12 2.85
57 58 4.630644 TCTCCAAATGAGTGAGCTTCTT 57.369 40.909 0.00 0.00 42.12 2.52
58 59 5.745312 TCTCCAAATGAGTGAGCTTCTTA 57.255 39.130 0.00 0.00 42.12 2.10
60 61 6.111382 TCTCCAAATGAGTGAGCTTCTTATG 58.889 40.000 0.00 0.00 42.12 1.90
75 76 2.301870 TCTTATGCTTCCTTGACGTGGT 59.698 45.455 0.00 0.00 0.00 4.16
83 84 2.462723 TCCTTGACGTGGTATCCATCA 58.537 47.619 0.00 0.00 35.28 3.07
111 112 3.554934 GGTTCATGAACATGATAGCCCA 58.445 45.455 33.42 0.00 46.12 5.36
144 145 3.825328 TCTTCTCTTTTGCAAGCCTCTT 58.175 40.909 0.00 0.00 0.00 2.85
151 152 1.059098 TTGCAAGCCTCTTCTCCTCA 58.941 50.000 0.00 0.00 0.00 3.86
175 176 0.749649 CAATCCTACGCTCCTCTGCT 59.250 55.000 0.00 0.00 0.00 4.24
199 200 0.610687 CCTTCCTCTCTTCGGCTTGT 59.389 55.000 0.00 0.00 0.00 3.16
200 201 1.404851 CCTTCCTCTCTTCGGCTTGTC 60.405 57.143 0.00 0.00 0.00 3.18
204 205 1.423395 CTCTCTTCGGCTTGTCACAC 58.577 55.000 0.00 0.00 0.00 3.82
252 254 1.480137 CAACAAGCTCAAACCCCACAA 59.520 47.619 0.00 0.00 0.00 3.33
265 267 0.313672 CCCACAACCACAAACCATCG 59.686 55.000 0.00 0.00 0.00 3.84
267 269 1.407258 CCACAACCACAAACCATCGTT 59.593 47.619 0.00 0.00 0.00 3.85
276 278 4.023622 CCACAAACCATCGTTAATGTGTCA 60.024 41.667 7.10 0.00 38.33 3.58
278 280 5.049749 CACAAACCATCGTTAATGTGTCAGA 60.050 40.000 1.22 0.00 36.56 3.27
280 282 4.265904 ACCATCGTTAATGTGTCAGACA 57.734 40.909 0.00 0.00 39.53 3.41
321 323 9.739276 AAAAAGATACCTCTATGACATTTCACA 57.261 29.630 0.00 0.00 33.38 3.58
400 403 2.751688 GTGTAGGGGTGGCCGAAA 59.248 61.111 0.00 0.00 0.00 3.46
419 422 1.722034 ACAGGGCTATGATCCATCGT 58.278 50.000 0.00 0.00 0.00 3.73
422 425 4.610333 ACAGGGCTATGATCCATCGTATA 58.390 43.478 0.00 0.00 0.00 1.47
435 438 4.058817 CCATCGTATAAGAAGAAGGTGGC 58.941 47.826 0.00 0.00 0.00 5.01
439 442 3.675228 CGTATAAGAAGAAGGTGGCGTGT 60.675 47.826 0.00 0.00 0.00 4.49
441 444 0.535102 AAGAAGAAGGTGGCGTGTGG 60.535 55.000 0.00 0.00 0.00 4.17
463 466 1.003233 GGCGTGGCCTTCTTCTTCT 60.003 57.895 3.32 0.00 46.69 2.85
464 467 0.606673 GGCGTGGCCTTCTTCTTCTT 60.607 55.000 3.32 0.00 46.69 2.52
465 468 0.799393 GCGTGGCCTTCTTCTTCTTC 59.201 55.000 3.32 0.00 0.00 2.87
466 469 1.609320 GCGTGGCCTTCTTCTTCTTCT 60.609 52.381 3.32 0.00 0.00 2.85
467 470 2.772287 CGTGGCCTTCTTCTTCTTCTT 58.228 47.619 3.32 0.00 0.00 2.52
468 471 2.739379 CGTGGCCTTCTTCTTCTTCTTC 59.261 50.000 3.32 0.00 0.00 2.87
469 472 3.556004 CGTGGCCTTCTTCTTCTTCTTCT 60.556 47.826 3.32 0.00 0.00 2.85
470 473 4.393834 GTGGCCTTCTTCTTCTTCTTCTT 58.606 43.478 3.32 0.00 0.00 2.52
471 474 4.454161 GTGGCCTTCTTCTTCTTCTTCTTC 59.546 45.833 3.32 0.00 0.00 2.87
472 475 4.349342 TGGCCTTCTTCTTCTTCTTCTTCT 59.651 41.667 3.32 0.00 0.00 2.85
473 476 5.163152 TGGCCTTCTTCTTCTTCTTCTTCTT 60.163 40.000 3.32 0.00 0.00 2.52
474 477 5.411361 GGCCTTCTTCTTCTTCTTCTTCTTC 59.589 44.000 0.00 0.00 0.00 2.87
475 478 6.230472 GCCTTCTTCTTCTTCTTCTTCTTCT 58.770 40.000 0.00 0.00 0.00 2.85
476 479 6.710295 GCCTTCTTCTTCTTCTTCTTCTTCTT 59.290 38.462 0.00 0.00 0.00 2.52
485 488 2.293399 TCTTCTTCTTCTTTTTGCCGCC 59.707 45.455 0.00 0.00 0.00 6.13
487 490 0.310854 CTTCTTCTTTTTGCCGCCGT 59.689 50.000 0.00 0.00 0.00 5.68
489 492 0.816018 TCTTCTTTTTGCCGCCGTCA 60.816 50.000 0.00 0.00 0.00 4.35
516 519 4.838152 GCGCCTTCATCGCCTCCA 62.838 66.667 0.00 0.00 46.18 3.86
517 520 2.892425 CGCCTTCATCGCCTCCAC 60.892 66.667 0.00 0.00 0.00 4.02
520 523 2.202932 CTTCATCGCCTCCACCGG 60.203 66.667 0.00 0.00 0.00 5.28
563 567 0.179215 CGAAGCAACAAGATGGCGTC 60.179 55.000 0.00 0.00 33.59 5.19
574 579 3.780173 TGGCGTCCGGCATCATCA 61.780 61.111 12.15 0.00 45.85 3.07
579 584 1.149174 GTCCGGCATCATCATGGGT 59.851 57.895 0.00 0.00 0.00 4.51
610 615 1.002134 CCACGGGCCTTTGATGTCT 60.002 57.895 0.84 0.00 0.00 3.41
616 621 2.787249 CCTTTGATGTCTGCGCGG 59.213 61.111 10.86 10.86 0.00 6.46
661 666 0.674895 CCCAACCTCTTCCTTCGCAG 60.675 60.000 0.00 0.00 0.00 5.18
671 676 0.318441 TCCTTCGCAGGAGACAACAG 59.682 55.000 0.00 0.00 45.20 3.16
685 690 0.460284 CAACAGAGGGGTCGATTCCG 60.460 60.000 0.00 0.00 37.07 4.30
728 735 3.125573 CAGCGAGGTCGGAGTCGA 61.126 66.667 12.56 0.00 43.86 4.20
741 748 2.668457 CGGAGTCGACTTCCAATTTCAG 59.332 50.000 21.08 1.12 39.00 3.02
743 750 3.433615 GGAGTCGACTTCCAATTTCAGTG 59.566 47.826 21.08 0.00 0.00 3.66
806 814 8.598924 CACACTAGCTCATTATTTGTCAGTTAG 58.401 37.037 0.00 0.00 0.00 2.34
830 838 2.226330 TGGAGTTTTGGTGATGGTTCG 58.774 47.619 0.00 0.00 0.00 3.95
968 1355 0.652592 CAAAACCTAGCGCTCCATCG 59.347 55.000 16.34 0.00 0.00 3.84
1058 1461 1.740296 CGCCAAATCTTCCGTCCGT 60.740 57.895 0.00 0.00 0.00 4.69
1059 1462 0.458889 CGCCAAATCTTCCGTCCGTA 60.459 55.000 0.00 0.00 0.00 4.02
1604 2100 0.745486 TGTCGCCAAGATCAGCCATG 60.745 55.000 0.00 0.00 0.00 3.66
2003 2527 4.015084 AGGGTCATCTTTGAATCTTGCTG 58.985 43.478 0.00 0.00 32.48 4.41
2484 3067 8.902040 CAAAGGTGCTAGACAAAATAGAATTC 57.098 34.615 0.00 0.00 0.00 2.17
2640 3277 3.871006 GCGTATCCATGATTTGTCAGTGA 59.129 43.478 0.00 0.00 0.00 3.41
2669 3310 1.560505 TCAGACAGCCATAGACAGCA 58.439 50.000 0.00 0.00 0.00 4.41
2694 3335 0.807496 GCCTGAAGATTGCACTGTCC 59.193 55.000 0.00 0.00 0.00 4.02
2895 3550 4.217510 TGGGGAGGAATGCAGAAATATTG 58.782 43.478 0.00 0.00 0.00 1.90
2908 3563 5.163513 CAGAAATATTGCTGCCGAAAGTTT 58.836 37.500 10.60 0.00 0.00 2.66
2938 3594 2.399580 GGAGCTGGTAGGTGATAACCT 58.600 52.381 7.05 7.05 43.62 3.50
2962 3618 4.871933 TCTGCTGAAACTACTCACATCA 57.128 40.909 0.00 0.00 0.00 3.07
3132 3795 8.813282 CGTACACATAGCATTTGTTTGATACTA 58.187 33.333 0.00 0.00 0.00 1.82
3211 3876 6.969473 GCTATCAGGTTGAAGTTTTGCTAATC 59.031 38.462 0.00 0.00 0.00 1.75
3323 3988 9.968743 CCGATTGACTTATTACTAAAGTTTGAC 57.031 33.333 0.00 0.00 37.31 3.18
3361 4026 7.944061 TGAAATTGATTGTCATCTTGTCTTGT 58.056 30.769 0.00 0.00 0.00 3.16
3362 4027 9.065798 TGAAATTGATTGTCATCTTGTCTTGTA 57.934 29.630 0.00 0.00 0.00 2.41
3363 4028 9.552114 GAAATTGATTGTCATCTTGTCTTGTAG 57.448 33.333 0.00 0.00 0.00 2.74
3364 4029 7.621428 ATTGATTGTCATCTTGTCTTGTAGG 57.379 36.000 0.00 0.00 0.00 3.18
3365 4030 6.358974 TGATTGTCATCTTGTCTTGTAGGA 57.641 37.500 0.00 0.00 0.00 2.94
3366 4031 6.401394 TGATTGTCATCTTGTCTTGTAGGAG 58.599 40.000 0.00 0.00 0.00 3.69
3367 4032 5.808366 TTGTCATCTTGTCTTGTAGGAGT 57.192 39.130 0.00 0.00 0.00 3.85
3368 4033 6.911250 TTGTCATCTTGTCTTGTAGGAGTA 57.089 37.500 0.00 0.00 0.00 2.59
3369 4034 6.516739 TGTCATCTTGTCTTGTAGGAGTAG 57.483 41.667 0.00 0.00 0.00 2.57
3462 4127 2.598394 GGCTTTGGCAGTGGCAGA 60.598 61.111 19.65 14.57 43.71 4.26
3488 4153 3.119849 CCTTGTGTGTACTGCTTAATGCC 60.120 47.826 0.00 0.00 42.00 4.40
3503 4168 6.183360 TGCTTAATGCCTGTCAACTTGTTTTA 60.183 34.615 0.00 0.00 42.00 1.52
3525 4190 9.988815 TTTTATGCATAAAACTATGTGTGGTTT 57.011 25.926 31.38 0.00 40.26 3.27
3542 4207 3.279434 GGTTTCGAGCCAATATCCTTGT 58.721 45.455 3.58 0.00 0.00 3.16
3543 4208 3.694566 GGTTTCGAGCCAATATCCTTGTT 59.305 43.478 3.58 0.00 0.00 2.83
3544 4209 4.438744 GGTTTCGAGCCAATATCCTTGTTG 60.439 45.833 3.58 0.00 0.00 3.33
3545 4210 2.288666 TCGAGCCAATATCCTTGTTGC 58.711 47.619 0.00 0.00 0.00 4.17
3546 4211 1.334869 CGAGCCAATATCCTTGTTGCC 59.665 52.381 0.00 0.00 0.00 4.52
3547 4212 2.378038 GAGCCAATATCCTTGTTGCCA 58.622 47.619 0.00 0.00 0.00 4.92
3548 4213 2.961062 GAGCCAATATCCTTGTTGCCAT 59.039 45.455 0.00 0.00 0.00 4.40
3626 4326 2.169769 TCTTACTTATGGGAAGGTGGCG 59.830 50.000 0.00 0.00 0.00 5.69
3630 4330 2.550699 TTATGGGAAGGTGGCGGCAG 62.551 60.000 13.91 0.00 0.00 4.85
3634 4334 4.344865 GAAGGTGGCGGCAGGGAA 62.345 66.667 13.91 0.00 0.00 3.97
3635 4335 3.860930 GAAGGTGGCGGCAGGGAAA 62.861 63.158 13.91 0.00 0.00 3.13
3636 4336 3.224007 AAGGTGGCGGCAGGGAAAT 62.224 57.895 13.91 0.00 0.00 2.17
3637 4337 1.858739 AAGGTGGCGGCAGGGAAATA 61.859 55.000 13.91 0.00 0.00 1.40
3638 4338 1.152756 GGTGGCGGCAGGGAAATAT 60.153 57.895 13.91 0.00 0.00 1.28
3639 4339 1.172812 GGTGGCGGCAGGGAAATATC 61.173 60.000 13.91 0.00 0.00 1.63
3640 4340 0.179018 GTGGCGGCAGGGAAATATCT 60.179 55.000 13.91 0.00 0.00 1.98
3641 4341 0.179020 TGGCGGCAGGGAAATATCTG 60.179 55.000 7.97 0.00 0.00 2.90
3642 4342 0.890996 GGCGGCAGGGAAATATCTGG 60.891 60.000 3.07 0.00 0.00 3.86
3643 4343 0.179018 GCGGCAGGGAAATATCTGGT 60.179 55.000 0.00 0.00 0.00 4.00
3644 4344 1.597742 CGGCAGGGAAATATCTGGTG 58.402 55.000 0.00 0.00 0.00 4.17
3645 4345 1.322442 GGCAGGGAAATATCTGGTGC 58.678 55.000 0.00 0.00 0.00 5.01
3646 4346 1.410083 GGCAGGGAAATATCTGGTGCA 60.410 52.381 0.00 0.00 31.36 4.57
3647 4347 1.678101 GCAGGGAAATATCTGGTGCAC 59.322 52.381 8.80 8.80 0.00 4.57
3648 4348 2.301346 CAGGGAAATATCTGGTGCACC 58.699 52.381 29.67 29.67 0.00 5.01
3649 4349 1.134098 AGGGAAATATCTGGTGCACCG 60.134 52.381 30.07 23.48 39.43 4.94
3650 4350 1.308998 GGAAATATCTGGTGCACCGG 58.691 55.000 35.06 35.06 43.86 5.28
3651 4351 1.408266 GGAAATATCTGGTGCACCGGT 60.408 52.381 37.57 27.76 43.01 5.28
3652 4352 1.670811 GAAATATCTGGTGCACCGGTG 59.329 52.381 37.57 30.66 43.01 4.94
3662 4362 3.964875 CACCGGTGCTTGTGGTGC 61.965 66.667 24.02 0.00 45.85 5.01
3663 4363 4.189580 ACCGGTGCTTGTGGTGCT 62.190 61.111 6.12 0.00 33.91 4.40
3664 4364 2.031919 CCGGTGCTTGTGGTGCTA 59.968 61.111 0.00 0.00 0.00 3.49
3665 4365 2.325082 CCGGTGCTTGTGGTGCTAC 61.325 63.158 0.00 0.00 0.00 3.58
3666 4366 2.325082 CGGTGCTTGTGGTGCTACC 61.325 63.158 0.00 0.00 39.22 3.18
3667 4367 2.325082 GGTGCTTGTGGTGCTACCG 61.325 63.158 0.00 0.00 42.58 4.02
3668 4368 2.031919 TGCTTGTGGTGCTACCGG 59.968 61.111 0.00 0.00 42.58 5.28
3669 4369 2.032071 GCTTGTGGTGCTACCGGT 59.968 61.111 13.98 13.98 42.58 5.28
3670 4370 2.325082 GCTTGTGGTGCTACCGGTG 61.325 63.158 19.93 8.61 42.58 4.94
3671 4371 2.281208 TTGTGGTGCTACCGGTGC 60.281 61.111 19.93 19.04 42.58 5.01
3672 4372 3.108288 TTGTGGTGCTACCGGTGCA 62.108 57.895 19.93 21.51 42.58 4.57
3684 4384 2.946762 GGTGCACCGAACTCAAGC 59.053 61.111 22.49 0.00 0.00 4.01
3685 4385 2.617274 GGTGCACCGAACTCAAGCC 61.617 63.158 22.49 0.00 0.00 4.35
3686 4386 2.664851 TGCACCGAACTCAAGCCG 60.665 61.111 0.00 0.00 0.00 5.52
3687 4387 4.090057 GCACCGAACTCAAGCCGC 62.090 66.667 0.00 0.00 0.00 6.53
3688 4388 2.664851 CACCGAACTCAAGCCGCA 60.665 61.111 0.00 0.00 0.00 5.69
3689 4389 2.110213 ACCGAACTCAAGCCGCAA 59.890 55.556 0.00 0.00 0.00 4.85
3690 4390 1.525077 ACCGAACTCAAGCCGCAAA 60.525 52.632 0.00 0.00 0.00 3.68
3691 4391 0.889186 ACCGAACTCAAGCCGCAAAT 60.889 50.000 0.00 0.00 0.00 2.32
3692 4392 0.240945 CCGAACTCAAGCCGCAAATT 59.759 50.000 0.00 0.00 0.00 1.82
3693 4393 1.335872 CCGAACTCAAGCCGCAAATTT 60.336 47.619 0.00 0.00 0.00 1.82
3694 4394 2.393764 CGAACTCAAGCCGCAAATTTT 58.606 42.857 0.00 0.00 0.00 1.82
3695 4395 3.560503 CGAACTCAAGCCGCAAATTTTA 58.439 40.909 0.00 0.00 0.00 1.52
3696 4396 3.978217 CGAACTCAAGCCGCAAATTTTAA 59.022 39.130 0.00 0.00 0.00 1.52
3697 4397 4.442733 CGAACTCAAGCCGCAAATTTTAAA 59.557 37.500 0.00 0.00 0.00 1.52
3698 4398 5.118510 CGAACTCAAGCCGCAAATTTTAAAT 59.881 36.000 0.00 0.00 0.00 1.40
3699 4399 5.844301 ACTCAAGCCGCAAATTTTAAATG 57.156 34.783 0.00 0.00 0.00 2.32
3700 4400 5.296748 ACTCAAGCCGCAAATTTTAAATGT 58.703 33.333 0.00 0.00 0.00 2.71
3701 4401 5.757808 ACTCAAGCCGCAAATTTTAAATGTT 59.242 32.000 0.00 0.00 0.00 2.71
3702 4402 6.259829 ACTCAAGCCGCAAATTTTAAATGTTT 59.740 30.769 0.00 0.00 0.00 2.83
3703 4403 6.425504 TCAAGCCGCAAATTTTAAATGTTTG 58.574 32.000 16.37 16.37 36.26 2.93
3704 4404 5.355467 AGCCGCAAATTTTAAATGTTTGG 57.645 34.783 19.66 13.23 34.34 3.28
3705 4405 5.059833 AGCCGCAAATTTTAAATGTTTGGA 58.940 33.333 19.66 0.00 34.34 3.53
3706 4406 5.529060 AGCCGCAAATTTTAAATGTTTGGAA 59.471 32.000 19.66 0.00 34.34 3.53
3707 4407 6.038714 AGCCGCAAATTTTAAATGTTTGGAAA 59.961 30.769 19.66 0.00 34.34 3.13
3708 4408 6.860539 GCCGCAAATTTTAAATGTTTGGAAAT 59.139 30.769 19.66 0.00 34.34 2.17
3709 4409 7.380870 GCCGCAAATTTTAAATGTTTGGAAATT 59.619 29.630 19.66 7.78 34.34 1.82
3710 4410 9.242477 CCGCAAATTTTAAATGTTTGGAAATTT 57.758 25.926 19.66 14.49 37.51 1.82
3742 4442 5.710513 AATGTAGCACATTGACACAACAT 57.289 34.783 11.96 0.00 46.18 2.71
3743 4443 5.710513 ATGTAGCACATTGACACAACATT 57.289 34.783 0.00 0.00 34.67 2.71
3744 4444 6.816134 ATGTAGCACATTGACACAACATTA 57.184 33.333 0.00 0.00 34.67 1.90
3745 4445 6.625873 TGTAGCACATTGACACAACATTAA 57.374 33.333 0.00 0.00 0.00 1.40
3746 4446 7.213216 TGTAGCACATTGACACAACATTAAT 57.787 32.000 0.00 0.00 0.00 1.40
3747 4447 7.083230 TGTAGCACATTGACACAACATTAATG 58.917 34.615 14.01 14.01 35.47 1.90
3748 4448 6.088016 AGCACATTGACACAACATTAATGT 57.912 33.333 15.47 15.47 44.20 2.71
3749 4449 7.213216 AGCACATTGACACAACATTAATGTA 57.787 32.000 21.07 4.54 40.80 2.29
3750 4450 7.307694 AGCACATTGACACAACATTAATGTAG 58.692 34.615 21.07 15.64 40.80 2.74
3751 4451 7.174772 AGCACATTGACACAACATTAATGTAGA 59.825 33.333 21.07 3.76 40.80 2.59
3752 4452 7.970061 GCACATTGACACAACATTAATGTAGAT 59.030 33.333 21.07 7.75 40.80 1.98
3753 4453 9.844790 CACATTGACACAACATTAATGTAGATT 57.155 29.630 21.07 6.92 40.80 2.40
3754 4454 9.844790 ACATTGACACAACATTAATGTAGATTG 57.155 29.630 21.07 16.98 40.80 2.67
3755 4455 9.844790 CATTGACACAACATTAATGTAGATTGT 57.155 29.630 21.07 17.59 40.80 2.71
3772 4472 9.658475 TGTAGATTGTTACAAAATTTCAAGTCG 57.342 29.630 0.66 0.00 30.94 4.18
3773 4473 9.872757 GTAGATTGTTACAAAATTTCAAGTCGA 57.127 29.630 0.66 0.00 0.00 4.20
3779 4479 8.738554 TGTTACAAAATTTCAAGTCGAAAATCG 58.261 29.630 0.00 0.00 46.48 3.34
3780 4480 8.949953 GTTACAAAATTTCAAGTCGAAAATCGA 58.050 29.630 0.00 0.00 46.48 3.59
3790 4490 3.788434 TCGAAAATCGAAACACAGCTC 57.212 42.857 0.00 0.00 46.90 4.09
3791 4491 2.478894 TCGAAAATCGAAACACAGCTCC 59.521 45.455 0.00 0.00 46.90 4.70
3792 4492 2.480419 CGAAAATCGAAACACAGCTCCT 59.520 45.455 0.00 0.00 43.74 3.69
3793 4493 3.678072 CGAAAATCGAAACACAGCTCCTA 59.322 43.478 0.00 0.00 43.74 2.94
3794 4494 4.151689 CGAAAATCGAAACACAGCTCCTAA 59.848 41.667 0.00 0.00 43.74 2.69
3795 4495 5.333798 CGAAAATCGAAACACAGCTCCTAAA 60.334 40.000 0.00 0.00 43.74 1.85
3796 4496 6.385649 AAAATCGAAACACAGCTCCTAAAA 57.614 33.333 0.00 0.00 0.00 1.52
3797 4497 5.358298 AATCGAAACACAGCTCCTAAAAC 57.642 39.130 0.00 0.00 0.00 2.43
3798 4498 3.799366 TCGAAACACAGCTCCTAAAACA 58.201 40.909 0.00 0.00 0.00 2.83
3799 4499 4.193090 TCGAAACACAGCTCCTAAAACAA 58.807 39.130 0.00 0.00 0.00 2.83
3800 4500 4.636648 TCGAAACACAGCTCCTAAAACAAA 59.363 37.500 0.00 0.00 0.00 2.83
3801 4501 5.124138 TCGAAACACAGCTCCTAAAACAAAA 59.876 36.000 0.00 0.00 0.00 2.44
3802 4502 5.802956 CGAAACACAGCTCCTAAAACAAAAA 59.197 36.000 0.00 0.00 0.00 1.94
3803 4503 6.475402 CGAAACACAGCTCCTAAAACAAAAAT 59.525 34.615 0.00 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 45 3.517100 AGGAAGCATAAGAAGCTCACTCA 59.483 43.478 0.00 0.00 42.53 3.41
54 55 2.301870 ACCACGTCAAGGAAGCATAAGA 59.698 45.455 0.00 0.00 0.00 2.10
56 57 2.851263 ACCACGTCAAGGAAGCATAA 57.149 45.000 0.00 0.00 0.00 1.90
57 58 3.181469 GGATACCACGTCAAGGAAGCATA 60.181 47.826 0.00 0.00 0.00 3.14
58 59 2.420129 GGATACCACGTCAAGGAAGCAT 60.420 50.000 0.00 0.00 0.00 3.79
60 61 1.066430 TGGATACCACGTCAAGGAAGC 60.066 52.381 0.00 0.00 0.00 3.86
111 112 1.931635 AGAGAAGAAGGCCGAAGAGT 58.068 50.000 0.00 0.00 0.00 3.24
144 145 2.690497 CGTAGGATTGCTCTTGAGGAGA 59.310 50.000 0.00 0.00 44.45 3.71
175 176 1.544825 CCGAAGAGAGGAAGGTGGCA 61.545 60.000 0.00 0.00 0.00 4.92
252 254 3.886505 ACACATTAACGATGGTTTGTGGT 59.113 39.130 21.84 10.39 43.94 4.16
309 311 3.553508 GCCAAGTGCTTGTGAAATGTCAT 60.554 43.478 10.56 0.00 38.85 3.06
377 380 1.923909 GCCACCCCTACACCTCCTT 60.924 63.158 0.00 0.00 0.00 3.36
400 403 1.722034 ACGATGGATCATAGCCCTGT 58.278 50.000 0.00 0.00 0.00 4.00
409 412 6.239317 CCACCTTCTTCTTATACGATGGATCA 60.239 42.308 0.00 0.00 0.00 2.92
419 422 3.369052 CCACACGCCACCTTCTTCTTATA 60.369 47.826 0.00 0.00 0.00 0.98
422 425 0.535102 CCACACGCCACCTTCTTCTT 60.535 55.000 0.00 0.00 0.00 2.52
463 466 3.243401 GGCGGCAAAAAGAAGAAGAAGAA 60.243 43.478 3.07 0.00 0.00 2.52
464 467 2.293399 GGCGGCAAAAAGAAGAAGAAGA 59.707 45.455 3.07 0.00 0.00 2.87
465 468 2.666026 GGCGGCAAAAAGAAGAAGAAG 58.334 47.619 3.07 0.00 0.00 2.85
466 469 1.001815 CGGCGGCAAAAAGAAGAAGAA 60.002 47.619 10.53 0.00 0.00 2.52
467 470 0.591170 CGGCGGCAAAAAGAAGAAGA 59.409 50.000 10.53 0.00 0.00 2.87
468 471 0.310854 ACGGCGGCAAAAAGAAGAAG 59.689 50.000 13.24 0.00 0.00 2.85
469 472 0.309612 GACGGCGGCAAAAAGAAGAA 59.690 50.000 8.47 0.00 0.00 2.52
470 473 0.816018 TGACGGCGGCAAAAAGAAGA 60.816 50.000 15.88 0.00 0.00 2.87
471 474 0.660300 GTGACGGCGGCAAAAAGAAG 60.660 55.000 21.17 0.00 0.00 2.85
472 475 1.357334 GTGACGGCGGCAAAAAGAA 59.643 52.632 21.17 0.00 0.00 2.52
473 476 2.548295 GGTGACGGCGGCAAAAAGA 61.548 57.895 21.17 0.00 0.00 2.52
474 477 2.050442 GGTGACGGCGGCAAAAAG 60.050 61.111 21.17 0.00 0.00 2.27
475 478 2.517402 AGGTGACGGCGGCAAAAA 60.517 55.556 21.17 0.00 0.00 1.94
476 479 2.975799 GAGGTGACGGCGGCAAAA 60.976 61.111 21.17 0.00 0.00 2.44
489 492 4.070552 GAAGGCGCTCACCGAGGT 62.071 66.667 7.64 0.00 40.02 3.85
543 547 1.512734 CGCCATCTTGTTGCTTCGC 60.513 57.895 0.00 0.00 0.00 4.70
546 550 1.577328 CGGACGCCATCTTGTTGCTT 61.577 55.000 0.00 0.00 0.00 3.91
552 556 2.514592 ATGCCGGACGCCATCTTG 60.515 61.111 5.05 0.00 36.24 3.02
553 557 2.203070 GATGCCGGACGCCATCTT 60.203 61.111 5.05 0.00 36.24 2.40
554 558 2.721971 GATGATGCCGGACGCCATCT 62.722 60.000 15.23 3.10 34.85 2.90
563 567 2.558286 GCACCCATGATGATGCCGG 61.558 63.158 9.62 0.00 31.71 6.13
574 579 3.010144 CAAGGCCCTAGCACCCAT 58.990 61.111 0.00 0.00 42.56 4.00
596 601 3.056313 GCGCAGACATCAAAGGCCC 62.056 63.158 0.30 0.00 0.00 5.80
616 621 0.589708 AAAAACTTGCTCCGTACCGC 59.410 50.000 0.00 0.00 0.00 5.68
661 666 0.898789 TCGACCCCTCTGTTGTCTCC 60.899 60.000 0.00 0.00 0.00 3.71
663 668 1.550976 GAATCGACCCCTCTGTTGTCT 59.449 52.381 0.00 0.00 0.00 3.41
667 672 1.614241 CCGGAATCGACCCCTCTGTT 61.614 60.000 0.00 0.00 39.00 3.16
671 676 4.587189 CGCCGGAATCGACCCCTC 62.587 72.222 5.05 0.00 39.00 4.30
709 714 4.500116 GACTCCGACCTCGCTGGC 62.500 72.222 0.00 0.00 40.22 4.85
710 715 4.180946 CGACTCCGACCTCGCTGG 62.181 72.222 0.00 0.00 42.93 4.85
728 735 1.880027 GACCGCACTGAAATTGGAAGT 59.120 47.619 0.00 0.00 0.00 3.01
741 748 2.412325 CCAAAAGTAACATCGACCGCAC 60.412 50.000 0.00 0.00 0.00 5.34
743 750 1.802365 ACCAAAAGTAACATCGACCGC 59.198 47.619 0.00 0.00 0.00 5.68
806 814 4.400529 ACCATCACCAAAACTCCAAAAC 57.599 40.909 0.00 0.00 0.00 2.43
846 854 8.788325 ATGTCCTGTACCTATTTAAGTGAAAC 57.212 34.615 0.00 0.00 0.00 2.78
945 1332 3.382591 GAGCGCTAGGTTTTGCCGC 62.383 63.158 11.50 1.06 43.70 6.53
1005 1406 4.838486 GCTCCTCGTCGACAGCCG 62.838 72.222 17.16 0.96 40.25 5.52
1058 1461 3.071602 GCAGCCTCCTTATTCTCCATGTA 59.928 47.826 0.00 0.00 0.00 2.29
1059 1462 2.158696 GCAGCCTCCTTATTCTCCATGT 60.159 50.000 0.00 0.00 0.00 3.21
1473 1963 4.767255 AAAGCCAGCTCTCCGCCG 62.767 66.667 0.00 0.00 40.39 6.46
1604 2100 3.202706 GGCCGGCTCGAAATCACC 61.203 66.667 28.56 0.41 0.00 4.02
2003 2527 1.593006 CATGTAGAAATGCCGACCGAC 59.407 52.381 0.00 0.00 0.00 4.79
2349 2932 2.159099 GCATTCGACTGGATGTAGTGGA 60.159 50.000 4.82 0.00 34.26 4.02
2362 2945 1.084370 CGGGTCTCAAGGCATTCGAC 61.084 60.000 2.38 2.38 0.00 4.20
2484 3067 5.864474 ACTGCTGTACTGATTTCTTACTTCG 59.136 40.000 3.61 0.00 0.00 3.79
2640 3277 3.322466 CTGTCTGAAGGGGCCGGT 61.322 66.667 1.90 0.00 0.00 5.28
2669 3310 3.130516 CAGTGCAATCTTCAGGCATCAAT 59.869 43.478 0.00 0.00 40.05 2.57
2694 3335 3.609373 CGCCATTTACAAAATGAGCACAG 59.391 43.478 12.73 0.00 0.00 3.66
2851 3506 4.038271 TCAGAGATTTCCCAAAGTGCAT 57.962 40.909 0.00 0.00 0.00 3.96
2895 3550 1.664874 CCGGTTAAAACTTTCGGCAGC 60.665 52.381 0.00 0.00 34.17 5.25
2908 3563 0.041535 TACCAGCTCCCTCCGGTTAA 59.958 55.000 0.00 0.00 32.81 2.01
2938 3594 4.871933 TGTGAGTAGTTTCAGCAGATGA 57.128 40.909 0.00 0.00 35.62 2.92
2962 3618 3.139606 TGCATAGGGTAAGGGTAAGGT 57.860 47.619 0.00 0.00 0.00 3.50
3132 3795 5.112129 AGTCTACAGGTTGACCTTTTGTT 57.888 39.130 9.78 0.00 46.09 2.83
3211 3876 5.824624 AGCCACAATTACATACTCCTTGATG 59.175 40.000 0.00 0.00 0.00 3.07
3342 4007 6.014242 ACTCCTACAAGACAAGATGACAATCA 60.014 38.462 0.00 0.00 35.03 2.57
3361 4026 6.415206 ACTTGCAAGTTTGTACTACTCCTA 57.585 37.500 26.36 0.00 35.21 2.94
3362 4027 5.291905 ACTTGCAAGTTTGTACTACTCCT 57.708 39.130 26.36 0.00 35.21 3.69
3363 4028 7.668525 ATTACTTGCAAGTTTGTACTACTCC 57.331 36.000 35.20 0.00 40.37 3.85
3364 4029 9.946165 AAAATTACTTGCAAGTTTGTACTACTC 57.054 29.630 35.20 0.00 40.37 2.59
3410 4075 2.421529 GGTCCTTAGCCGAATCCAATGT 60.422 50.000 0.00 0.00 0.00 2.71
3462 4127 5.483685 TTAAGCAGTACACACAAGGATCT 57.516 39.130 0.00 0.00 0.00 2.75
3503 4168 6.150307 TCGAAACCACACATAGTTTTATGCAT 59.850 34.615 3.79 3.79 40.30 3.96
3515 4180 1.909700 ATTGGCTCGAAACCACACAT 58.090 45.000 6.34 0.00 36.76 3.21
3525 4190 2.288666 GCAACAAGGATATTGGCTCGA 58.711 47.619 0.00 0.00 0.00 4.04
3544 4209 0.179092 GGCTGATCTTGGCAAATGGC 60.179 55.000 0.00 0.00 43.74 4.40
3545 4210 1.187974 TGGCTGATCTTGGCAAATGG 58.812 50.000 0.00 0.00 37.05 3.16
3546 4211 3.382227 TGTATGGCTGATCTTGGCAAATG 59.618 43.478 16.37 0.00 43.05 2.32
3547 4212 3.382546 GTGTATGGCTGATCTTGGCAAAT 59.617 43.478 16.37 0.00 43.05 2.32
3548 4213 2.754552 GTGTATGGCTGATCTTGGCAAA 59.245 45.455 16.37 6.10 43.05 3.68
3626 4326 1.322442 GCACCAGATATTTCCCTGCC 58.678 55.000 0.00 0.00 0.00 4.85
3630 4330 1.308998 CGGTGCACCAGATATTTCCC 58.691 55.000 34.16 3.99 35.14 3.97
3631 4331 1.308998 CCGGTGCACCAGATATTTCC 58.691 55.000 34.16 4.55 35.14 3.13
3632 4332 1.670811 CACCGGTGCACCAGATATTTC 59.329 52.381 34.16 5.28 35.14 2.17
3633 4333 1.750193 CACCGGTGCACCAGATATTT 58.250 50.000 34.16 4.93 35.14 1.40
3634 4334 3.476740 CACCGGTGCACCAGATATT 57.523 52.632 34.16 5.34 35.14 1.28
3646 4346 2.813726 TAGCACCACAAGCACCGGT 61.814 57.895 0.00 0.00 0.00 5.28
3647 4347 2.031919 TAGCACCACAAGCACCGG 59.968 61.111 0.00 0.00 0.00 5.28
3648 4348 2.325082 GGTAGCACCACAAGCACCG 61.325 63.158 1.01 0.00 38.42 4.94
3649 4349 2.325082 CGGTAGCACCACAAGCACC 61.325 63.158 6.21 0.00 38.47 5.01
3650 4350 2.325082 CCGGTAGCACCACAAGCAC 61.325 63.158 0.00 0.00 38.47 4.40
3651 4351 2.031919 CCGGTAGCACCACAAGCA 59.968 61.111 0.00 0.00 38.47 3.91
3652 4352 2.032071 ACCGGTAGCACCACAAGC 59.968 61.111 4.49 0.00 38.47 4.01
3653 4353 2.325082 GCACCGGTAGCACCACAAG 61.325 63.158 19.85 0.99 38.47 3.16
3654 4354 2.281208 GCACCGGTAGCACCACAA 60.281 61.111 19.85 0.00 38.47 3.33
3655 4355 3.551407 TGCACCGGTAGCACCACA 61.551 61.111 22.47 5.12 38.47 4.17
3667 4367 2.617274 GGCTTGAGTTCGGTGCACC 61.617 63.158 26.78 26.78 0.00 5.01
3668 4368 2.946762 GGCTTGAGTTCGGTGCAC 59.053 61.111 8.80 8.80 0.00 4.57
3669 4369 2.664851 CGGCTTGAGTTCGGTGCA 60.665 61.111 0.00 0.00 0.00 4.57
3670 4370 4.090057 GCGGCTTGAGTTCGGTGC 62.090 66.667 0.00 0.00 0.00 5.01
3671 4371 1.781025 TTTGCGGCTTGAGTTCGGTG 61.781 55.000 0.00 0.00 0.00 4.94
3672 4372 0.889186 ATTTGCGGCTTGAGTTCGGT 60.889 50.000 0.00 0.00 0.00 4.69
3673 4373 0.240945 AATTTGCGGCTTGAGTTCGG 59.759 50.000 0.00 0.00 0.00 4.30
3674 4374 2.050477 AAATTTGCGGCTTGAGTTCG 57.950 45.000 0.00 0.00 0.00 3.95
3675 4375 5.898630 TTTAAAATTTGCGGCTTGAGTTC 57.101 34.783 0.00 0.00 0.00 3.01
3676 4376 5.757808 ACATTTAAAATTTGCGGCTTGAGTT 59.242 32.000 0.00 0.00 0.00 3.01
3677 4377 5.296748 ACATTTAAAATTTGCGGCTTGAGT 58.703 33.333 0.00 0.00 0.00 3.41
3678 4378 5.844301 ACATTTAAAATTTGCGGCTTGAG 57.156 34.783 0.00 0.00 0.00 3.02
3679 4379 6.425504 CAAACATTTAAAATTTGCGGCTTGA 58.574 32.000 12.67 0.00 0.00 3.02
3680 4380 5.624491 CCAAACATTTAAAATTTGCGGCTTG 59.376 36.000 17.04 1.18 32.98 4.01
3681 4381 5.529060 TCCAAACATTTAAAATTTGCGGCTT 59.471 32.000 17.04 0.00 32.98 4.35
3682 4382 5.059833 TCCAAACATTTAAAATTTGCGGCT 58.940 33.333 17.04 0.00 32.98 5.52
3683 4383 5.349824 TCCAAACATTTAAAATTTGCGGC 57.650 34.783 17.04 0.00 32.98 6.53
3684 4384 8.794308 AATTTCCAAACATTTAAAATTTGCGG 57.206 26.923 17.04 9.17 32.98 5.69
3717 4417 6.336566 TGTTGTGTCAATGTGCTACATTTTT 58.663 32.000 10.56 0.00 45.80 1.94
3718 4418 5.900425 TGTTGTGTCAATGTGCTACATTTT 58.100 33.333 10.56 0.00 45.80 1.82
3719 4419 5.512753 TGTTGTGTCAATGTGCTACATTT 57.487 34.783 10.56 0.00 45.80 2.32
3721 4421 5.710513 AATGTTGTGTCAATGTGCTACAT 57.289 34.783 0.00 0.00 41.31 2.29
3722 4422 6.625873 TTAATGTTGTGTCAATGTGCTACA 57.374 33.333 0.00 0.00 0.00 2.74
3723 4423 7.083858 ACATTAATGTTGTGTCAATGTGCTAC 58.916 34.615 15.47 0.00 38.16 3.58
3724 4424 7.213216 ACATTAATGTTGTGTCAATGTGCTA 57.787 32.000 15.47 0.00 38.16 3.49
3725 4425 6.088016 ACATTAATGTTGTGTCAATGTGCT 57.912 33.333 15.47 0.00 38.16 4.40
3726 4426 7.304735 TCTACATTAATGTTGTGTCAATGTGC 58.695 34.615 25.31 0.00 41.97 4.57
3727 4427 9.844790 AATCTACATTAATGTTGTGTCAATGTG 57.155 29.630 25.31 0.00 41.97 3.21
3728 4428 9.844790 CAATCTACATTAATGTTGTGTCAATGT 57.155 29.630 25.31 1.92 41.97 2.71
3729 4429 9.844790 ACAATCTACATTAATGTTGTGTCAATG 57.155 29.630 25.31 16.96 41.97 2.82
3746 4446 9.658475 CGACTTGAAATTTTGTAACAATCTACA 57.342 29.630 0.00 0.00 0.00 2.74
3747 4447 9.872757 TCGACTTGAAATTTTGTAACAATCTAC 57.127 29.630 0.00 0.00 0.00 2.59
3749 4449 9.796120 TTTCGACTTGAAATTTTGTAACAATCT 57.204 25.926 0.00 0.00 41.59 2.40
3753 4453 8.738554 CGATTTTCGACTTGAAATTTTGTAACA 58.261 29.630 0.00 0.00 45.62 2.41
3754 4454 8.949953 TCGATTTTCGACTTGAAATTTTGTAAC 58.050 29.630 0.00 0.00 44.82 2.50
3771 4471 2.480419 AGGAGCTGTGTTTCGATTTTCG 59.520 45.455 0.00 0.00 42.10 3.46
3772 4472 5.607119 TTAGGAGCTGTGTTTCGATTTTC 57.393 39.130 0.00 0.00 0.00 2.29
3773 4473 6.183360 TGTTTTAGGAGCTGTGTTTCGATTTT 60.183 34.615 0.00 0.00 0.00 1.82
3774 4474 5.298276 TGTTTTAGGAGCTGTGTTTCGATTT 59.702 36.000 0.00 0.00 0.00 2.17
3775 4475 4.819630 TGTTTTAGGAGCTGTGTTTCGATT 59.180 37.500 0.00 0.00 0.00 3.34
3776 4476 4.385825 TGTTTTAGGAGCTGTGTTTCGAT 58.614 39.130 0.00 0.00 0.00 3.59
3777 4477 3.799366 TGTTTTAGGAGCTGTGTTTCGA 58.201 40.909 0.00 0.00 0.00 3.71
3778 4478 4.545823 TTGTTTTAGGAGCTGTGTTTCG 57.454 40.909 0.00 0.00 0.00 3.46
3779 4479 7.770801 ATTTTTGTTTTAGGAGCTGTGTTTC 57.229 32.000 0.00 0.00 0.00 2.78


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

AutoCloner maintained by Alex Coulton.