Multiple sequence alignment - TraesCS2A01G188500

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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 TraesCS2A01G188500 chr2A 100.000 1972 0 0 977 2948 153452268 153454239 0.000000e+00 3642.0
1 TraesCS2A01G188500 chr2A 100.000 494 0 0 1 494 153451292 153451785 0.000000e+00 913.0
2 TraesCS2A01G188500 chr2B 93.022 1519 60 18 977 2480 208211871 208210384 0.000000e+00 2176.0
3 TraesCS2A01G188500 chr2B 87.568 917 93 11 977 1887 573974789 573975690 0.000000e+00 1042.0
4 TraesCS2A01G188500 chr2B 89.655 464 45 2 1426 1887 573985068 573985530 3.270000e-164 588.0
5 TraesCS2A01G188500 chr2B 91.636 275 6 5 222 494 208212150 208211891 6.000000e-97 364.0
6 TraesCS2A01G188500 chr2B 82.500 240 23 11 1934 2158 573985877 573986112 3.000000e-45 193.0
7 TraesCS2A01G188500 chr2B 82.083 240 23 12 1934 2158 573976039 573976273 1.400000e-43 187.0
8 TraesCS2A01G188500 chr2B 90.083 121 8 4 19 138 208212631 208212514 1.410000e-33 154.0
9 TraesCS2A01G188500 chr2B 79.518 249 18 15 249 484 573938869 573939097 2.370000e-31 147.0
10 TraesCS2A01G188500 chr2B 79.518 249 18 15 249 484 573974524 573974752 2.370000e-31 147.0
11 TraesCS2A01G188500 chr2B 90.566 53 3 2 132 184 208212195 208212145 5.270000e-08 69.4
12 TraesCS2A01G188500 chr2D 95.531 1186 40 6 977 2153 148856437 148855256 0.000000e+00 1884.0
13 TraesCS2A01G188500 chr2D 86.551 751 67 18 1147 1889 490117855 490118579 0.000000e+00 797.0
14 TraesCS2A01G188500 chr2D 80.902 843 89 39 1934 2735 490118845 490119656 1.510000e-167 599.0
15 TraesCS2A01G188500 chr2D 91.273 275 6 6 222 494 148856723 148856465 2.790000e-95 359.0
16 TraesCS2A01G188500 chr2D 90.950 221 16 2 2260 2480 148816655 148816439 7.990000e-76 294.0
17 TraesCS2A01G188500 chr2D 91.848 184 6 6 1 184 148856892 148856718 6.310000e-62 248.0
18 TraesCS2A01G188500 chrUn 85.699 916 83 24 977 1889 13023467 13024337 0.000000e+00 922.0
19 TraesCS2A01G188500 chrUn 79.481 848 96 40 1934 2735 13024675 13025490 5.590000e-147 531.0
20 TraesCS2A01G188500 chr5B 92.727 55 2 2 2755 2807 466005016 466004962 8.760000e-11 78.7
21 TraesCS2A01G188500 chr7A 91.667 48 2 1 2762 2807 736674951 736674904 6.820000e-07 65.8
22 TraesCS2A01G188500 chr4D 92.683 41 1 2 2764 2802 335775706 335775666 1.140000e-04 58.4


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 TraesCS2A01G188500 chr2A 153451292 153454239 2947 False 2277.500000 3642 100.000000 1 2948 2 chr2A.!!$F1 2947
1 TraesCS2A01G188500 chr2B 208210384 208212631 2247 True 690.850000 2176 91.326750 19 2480 4 chr2B.!!$R1 2461
2 TraesCS2A01G188500 chr2B 573974524 573976273 1749 False 458.666667 1042 83.056333 249 2158 3 chr2B.!!$F2 1909
3 TraesCS2A01G188500 chr2B 573985068 573986112 1044 False 390.500000 588 86.077500 1426 2158 2 chr2B.!!$F3 732
4 TraesCS2A01G188500 chr2D 148855256 148856892 1636 True 830.333333 1884 92.884000 1 2153 3 chr2D.!!$R2 2152
5 TraesCS2A01G188500 chr2D 490117855 490119656 1801 False 698.000000 797 83.726500 1147 2735 2 chr2D.!!$F1 1588
6 TraesCS2A01G188500 chrUn 13023467 13025490 2023 False 726.500000 922 82.590000 977 2735 2 chrUn.!!$F1 1758


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
93 98 0.669318 GATCGTCAGCAAACACCCGA 60.669 55.000 0.0 0.0 0.00 5.14 F
237 567 1.002087 AGTGGTAGTACTTGGCTGCAC 59.998 52.381 0.0 0.0 0.00 4.57 F
1640 1998 0.234106 CTTGCACAAGCTGACTGACG 59.766 55.000 0.0 0.0 42.74 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1640 1998 0.101759 CAGCAACTGGCCATATGTGC 59.898 55.0 5.51 13.81 46.50 4.57 R
1654 2012 0.612229 CTCTCCTTCAGCCTCAGCAA 59.388 55.0 0.00 0.00 43.56 3.91 R
2835 3597 0.250234 TGCCACATGCCTGAGAGTAC 59.750 55.0 0.00 0.00 40.16 2.73 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
37 38 7.573843 CGGAAGAAATGCAGAACTCAGTAAATT 60.574 37.037 0.00 0.00 0.00 1.82
93 98 0.669318 GATCGTCAGCAAACACCCGA 60.669 55.000 0.00 0.00 0.00 5.14
140 470 1.663074 GAGAGCAGATAAGGGCGCG 60.663 63.158 0.00 0.00 34.87 6.86
174 504 4.342862 AGTGAGTGAGTGCAACAGTATT 57.657 40.909 0.00 0.00 41.43 1.89
175 505 5.468540 AGTGAGTGAGTGCAACAGTATTA 57.531 39.130 0.00 0.00 41.43 0.98
176 506 5.853936 AGTGAGTGAGTGCAACAGTATTAA 58.146 37.500 0.00 0.00 41.43 1.40
177 507 5.928839 AGTGAGTGAGTGCAACAGTATTAAG 59.071 40.000 0.00 0.00 41.43 1.85
178 508 5.696724 GTGAGTGAGTGCAACAGTATTAAGT 59.303 40.000 0.00 0.00 41.43 2.24
179 509 6.866770 GTGAGTGAGTGCAACAGTATTAAGTA 59.133 38.462 0.00 0.00 41.43 2.24
180 510 6.866770 TGAGTGAGTGCAACAGTATTAAGTAC 59.133 38.462 0.00 0.00 41.43 2.73
181 511 5.862323 AGTGAGTGCAACAGTATTAAGTACG 59.138 40.000 0.00 0.00 41.43 3.67
182 512 5.632347 GTGAGTGCAACAGTATTAAGTACGT 59.368 40.000 0.00 0.00 41.43 3.57
183 513 6.803320 GTGAGTGCAACAGTATTAAGTACGTA 59.197 38.462 0.00 0.00 41.43 3.57
184 514 7.008086 GTGAGTGCAACAGTATTAAGTACGTAG 59.992 40.741 0.00 0.00 41.43 3.51
185 515 6.917533 AGTGCAACAGTATTAAGTACGTAGT 58.082 36.000 0.00 0.00 43.47 2.73
186 516 8.044060 AGTGCAACAGTATTAAGTACGTAGTA 57.956 34.615 2.72 0.00 41.03 1.82
187 517 8.180267 AGTGCAACAGTATTAAGTACGTAGTAG 58.820 37.037 2.72 0.00 42.39 2.57
188 518 7.430502 GTGCAACAGTATTAAGTACGTAGTAGG 59.569 40.741 2.72 0.00 39.99 3.18
237 567 1.002087 AGTGGTAGTACTTGGCTGCAC 59.998 52.381 0.00 0.00 0.00 4.57
257 587 1.308998 CATACGTTTGCATCTCCCCC 58.691 55.000 0.00 0.00 0.00 5.40
359 693 7.926555 CCTTTGCCACCTATATATATTACTCCG 59.073 40.741 0.00 0.00 0.00 4.63
395 737 1.672356 CACGCACTCCCCTTCCTTG 60.672 63.158 0.00 0.00 0.00 3.61
1116 1465 3.028130 CATGCGATGATGCGGCTT 58.972 55.556 0.00 0.00 37.81 4.35
1540 1894 1.784358 CCATCCTCCACAAATGCCAT 58.216 50.000 0.00 0.00 0.00 4.40
1573 1929 1.298157 TATGCTTGCTCGCACACACC 61.298 55.000 2.66 0.00 43.61 4.16
1640 1998 0.234106 CTTGCACAAGCTGACTGACG 59.766 55.000 0.00 0.00 42.74 4.35
1654 2012 0.462581 CTGACGCACATATGGCCAGT 60.463 55.000 13.05 0.23 0.00 4.00
1866 2233 4.227134 CTGGGGCCGGACGATGAG 62.227 72.222 5.05 0.00 0.00 2.90
1932 2327 0.606604 TGGTCGAGTGGTTTAGCCTC 59.393 55.000 0.00 0.00 38.35 4.70
1974 2674 0.537188 ACGAGCTGGGTATCAACTGG 59.463 55.000 0.00 0.00 0.00 4.00
2035 2744 1.799933 AAGCTGGGGTGATCTCTAGG 58.200 55.000 0.00 0.00 0.00 3.02
2105 2820 4.461431 TGCAAGCTAGCAAGTGTAGTACTA 59.539 41.667 18.83 0.00 42.46 1.82
2106 2821 4.799428 GCAAGCTAGCAAGTGTAGTACTAC 59.201 45.833 23.58 23.58 39.18 2.73
2107 2822 5.393243 GCAAGCTAGCAAGTGTAGTACTACT 60.393 44.000 28.56 12.87 39.18 2.57
2141 2860 3.999001 TGAAGTTCAGAGATGATGTGTGC 59.001 43.478 0.08 0.00 0.00 4.57
2187 2906 6.256757 ACTTCAGCAATAAATAGTCTTCTCGC 59.743 38.462 0.00 0.00 0.00 5.03
2189 2908 4.051922 AGCAATAAATAGTCTTCTCGCGG 58.948 43.478 6.13 0.00 0.00 6.46
2190 2909 3.184581 GCAATAAATAGTCTTCTCGCGGG 59.815 47.826 6.13 1.01 0.00 6.13
2193 2912 1.033574 AATAGTCTTCTCGCGGGGAG 58.966 55.000 8.41 8.41 44.58 4.30
2228 2947 5.355071 TGTGCTAGTTGGCAATCATCTTAAG 59.645 40.000 1.92 0.00 44.18 1.85
2232 2951 6.203723 GCTAGTTGGCAATCATCTTAAGTAGG 59.796 42.308 1.92 0.00 0.00 3.18
2236 2955 6.313519 TGGCAATCATCTTAAGTAGGAGTT 57.686 37.500 1.63 0.00 0.00 3.01
2237 2956 6.721318 TGGCAATCATCTTAAGTAGGAGTTT 58.279 36.000 1.63 0.00 0.00 2.66
2238 2957 6.599244 TGGCAATCATCTTAAGTAGGAGTTTG 59.401 38.462 1.63 3.44 0.00 2.93
2239 2958 6.458888 GGCAATCATCTTAAGTAGGAGTTTGC 60.459 42.308 15.58 15.58 35.44 3.68
2240 2959 6.317391 GCAATCATCTTAAGTAGGAGTTTGCT 59.683 38.462 16.09 0.00 34.53 3.91
2241 2960 7.678218 GCAATCATCTTAAGTAGGAGTTTGCTG 60.678 40.741 16.09 0.00 34.53 4.41
2242 2961 5.178797 TCATCTTAAGTAGGAGTTTGCTGC 58.821 41.667 1.63 0.00 0.00 5.25
2243 2962 4.891992 TCTTAAGTAGGAGTTTGCTGCT 57.108 40.909 1.63 0.00 45.56 4.24
2244 2963 4.569943 TCTTAAGTAGGAGTTTGCTGCTG 58.430 43.478 1.63 0.00 43.45 4.41
2245 2964 2.938956 AAGTAGGAGTTTGCTGCTGT 57.061 45.000 0.00 0.00 43.45 4.40
2246 2965 2.938956 AGTAGGAGTTTGCTGCTGTT 57.061 45.000 0.00 0.00 43.45 3.16
2267 3000 8.997323 GCTGTTAGCTCTAAATATTGATGATGT 58.003 33.333 0.00 0.00 38.45 3.06
2286 3019 1.001378 GTTGATGTTGGTGGTGACTGC 60.001 52.381 0.00 0.00 0.00 4.40
2288 3021 0.877071 GATGTTGGTGGTGACTGCTG 59.123 55.000 0.00 0.00 0.00 4.41
2396 3129 6.633500 TTTCGAAAGGATGACACTTTTCAT 57.367 33.333 6.47 0.00 38.21 2.57
2414 3160 1.903877 ATGGCCACTGCGCTCTTACT 61.904 55.000 8.16 0.00 38.85 2.24
2415 3161 1.254975 TGGCCACTGCGCTCTTACTA 61.255 55.000 9.73 0.00 38.85 1.82
2416 3162 0.806492 GGCCACTGCGCTCTTACTAC 60.806 60.000 9.73 0.00 38.85 2.73
2420 3166 2.412089 CCACTGCGCTCTTACTACAAAC 59.588 50.000 9.73 0.00 0.00 2.93
2443 3193 2.122783 TGTATGTTAGCCCTTGTGCC 57.877 50.000 0.00 0.00 0.00 5.01
2499 3249 9.455847 GTTTATATCAGTTCATTTCTTCATGGC 57.544 33.333 0.00 0.00 0.00 4.40
2500 3250 8.985315 TTATATCAGTTCATTTCTTCATGGCT 57.015 30.769 0.00 0.00 0.00 4.75
2502 3252 6.690194 ATCAGTTCATTTCTTCATGGCTAC 57.310 37.500 0.00 0.00 0.00 3.58
2503 3253 5.559770 TCAGTTCATTTCTTCATGGCTACA 58.440 37.500 0.00 0.00 0.00 2.74
2504 3254 6.182627 TCAGTTCATTTCTTCATGGCTACAT 58.817 36.000 0.00 0.00 37.99 2.29
2509 3263 5.474532 TCATTTCTTCATGGCTACATATGGC 59.525 40.000 7.80 1.33 34.99 4.40
2522 3276 1.538512 CATATGGCCATTTCGCTCCTG 59.461 52.381 26.37 5.34 0.00 3.86
2528 3282 1.676014 GCCATTTCGCTCCTGTGTACT 60.676 52.381 0.00 0.00 0.00 2.73
2531 3285 4.442706 CCATTTCGCTCCTGTGTACTTAT 58.557 43.478 0.00 0.00 0.00 1.73
2532 3286 5.597806 CCATTTCGCTCCTGTGTACTTATA 58.402 41.667 0.00 0.00 0.00 0.98
2562 3316 4.724399 TGCTCCAACTTCATCTTTGGTAA 58.276 39.130 0.50 0.00 42.62 2.85
2568 3322 8.934023 TCCAACTTCATCTTTGGTAAAGTTAT 57.066 30.769 0.50 0.00 42.62 1.89
2570 3324 8.792633 CCAACTTCATCTTTGGTAAAGTTATGA 58.207 33.333 0.00 2.50 37.91 2.15
2575 3329 8.561738 TCATCTTTGGTAAAGTTATGAAGTCC 57.438 34.615 1.70 0.00 39.52 3.85
2576 3330 7.333423 TCATCTTTGGTAAAGTTATGAAGTCCG 59.667 37.037 1.70 0.00 39.52 4.79
2577 3331 6.761312 TCTTTGGTAAAGTTATGAAGTCCGA 58.239 36.000 1.70 0.00 39.52 4.55
2578 3332 7.218614 TCTTTGGTAAAGTTATGAAGTCCGAA 58.781 34.615 1.70 0.00 39.52 4.30
2579 3333 6.790285 TTGGTAAAGTTATGAAGTCCGAAC 57.210 37.500 0.00 0.00 0.00 3.95
2582 3336 7.092716 TGGTAAAGTTATGAAGTCCGAACTAC 58.907 38.462 0.00 0.00 33.48 2.73
2585 3339 6.585695 AAGTTATGAAGTCCGAACTACAGA 57.414 37.500 0.00 0.00 33.48 3.41
2587 3341 3.512033 ATGAAGTCCGAACTACAGAGC 57.488 47.619 0.00 0.00 33.48 4.09
2595 3349 2.534298 CGAACTACAGAGCACATGGAG 58.466 52.381 0.00 0.00 34.56 3.86
2611 3365 6.701400 GCACATGGAGTAACTTCAACAAATTT 59.299 34.615 0.00 0.00 0.00 1.82
2638 3396 6.176975 TGTAAGAACTGGTCGCAAAATATG 57.823 37.500 0.00 0.00 0.00 1.78
2684 3446 9.810870 ACTTTAGACCTAGACGGAGAATATTAT 57.189 33.333 0.00 0.00 36.31 1.28
2688 3450 6.151985 AGACCTAGACGGAGAATATTATGCAG 59.848 42.308 2.45 0.00 36.31 4.41
2708 3470 4.260948 GCAGCAGCTGTCATAAAATACTCC 60.261 45.833 23.60 0.00 37.91 3.85
2716 3478 7.345914 AGCTGTCATAAAATACTCCTCTAACCT 59.654 37.037 0.00 0.00 0.00 3.50
2771 3533 9.608718 AATAGCTCTCATATATAATACTCCCCC 57.391 37.037 0.00 0.00 0.00 5.40
2772 3534 6.998112 AGCTCTCATATATAATACTCCCCCA 58.002 40.000 0.00 0.00 0.00 4.96
2773 3535 7.609375 AGCTCTCATATATAATACTCCCCCAT 58.391 38.462 0.00 0.00 0.00 4.00
2774 3536 7.732593 AGCTCTCATATATAATACTCCCCCATC 59.267 40.741 0.00 0.00 0.00 3.51
2775 3537 7.038658 GCTCTCATATATAATACTCCCCCATCC 60.039 44.444 0.00 0.00 0.00 3.51
2776 3538 7.904322 TCTCATATATAATACTCCCCCATCCA 58.096 38.462 0.00 0.00 0.00 3.41
2777 3539 8.359118 TCTCATATATAATACTCCCCCATCCAA 58.641 37.037 0.00 0.00 0.00 3.53
2778 3540 8.941639 TCATATATAATACTCCCCCATCCAAA 57.058 34.615 0.00 0.00 0.00 3.28
2779 3541 9.357921 TCATATATAATACTCCCCCATCCAAAA 57.642 33.333 0.00 0.00 0.00 2.44
2784 3546 6.355588 AATACTCCCCCATCCAAAATAAGT 57.644 37.500 0.00 0.00 0.00 2.24
2785 3547 7.474474 AATACTCCCCCATCCAAAATAAGTA 57.526 36.000 0.00 0.00 0.00 2.24
2786 3548 7.663501 ATACTCCCCCATCCAAAATAAGTAT 57.336 36.000 0.00 0.00 0.00 2.12
2787 3549 5.953571 ACTCCCCCATCCAAAATAAGTATC 58.046 41.667 0.00 0.00 0.00 2.24
2788 3550 5.435041 ACTCCCCCATCCAAAATAAGTATCA 59.565 40.000 0.00 0.00 0.00 2.15
2789 3551 6.104691 ACTCCCCCATCCAAAATAAGTATCAT 59.895 38.462 0.00 0.00 0.00 2.45
2790 3552 6.314120 TCCCCCATCCAAAATAAGTATCATG 58.686 40.000 0.00 0.00 0.00 3.07
2791 3553 5.481473 CCCCCATCCAAAATAAGTATCATGG 59.519 44.000 0.00 0.00 0.00 3.66
2792 3554 6.077322 CCCCATCCAAAATAAGTATCATGGT 58.923 40.000 0.00 0.00 0.00 3.55
2793 3555 6.554605 CCCCATCCAAAATAAGTATCATGGTT 59.445 38.462 0.00 0.00 0.00 3.67
2794 3556 7.071071 CCCCATCCAAAATAAGTATCATGGTTT 59.929 37.037 0.00 0.00 0.00 3.27
2795 3557 8.485392 CCCATCCAAAATAAGTATCATGGTTTT 58.515 33.333 0.00 0.00 0.00 2.43
2812 3574 9.487790 TCATGGTTTTAGTTCAAATTTTGGATC 57.512 29.630 9.18 1.28 0.00 3.36
2813 3575 9.270640 CATGGTTTTAGTTCAAATTTTGGATCA 57.729 29.630 9.18 0.00 0.00 2.92
2814 3576 8.885494 TGGTTTTAGTTCAAATTTTGGATCAG 57.115 30.769 9.18 0.00 0.00 2.90
2815 3577 8.700051 TGGTTTTAGTTCAAATTTTGGATCAGA 58.300 29.630 9.18 0.00 0.00 3.27
2816 3578 9.196552 GGTTTTAGTTCAAATTTTGGATCAGAG 57.803 33.333 9.18 0.00 0.00 3.35
2817 3579 9.196552 GTTTTAGTTCAAATTTTGGATCAGAGG 57.803 33.333 9.18 0.00 0.00 3.69
2818 3580 5.990120 AGTTCAAATTTTGGATCAGAGGG 57.010 39.130 9.18 0.00 0.00 4.30
2819 3581 5.644188 AGTTCAAATTTTGGATCAGAGGGA 58.356 37.500 9.18 0.00 0.00 4.20
2820 3582 5.713861 AGTTCAAATTTTGGATCAGAGGGAG 59.286 40.000 9.18 0.00 0.00 4.30
2821 3583 5.261040 TCAAATTTTGGATCAGAGGGAGT 57.739 39.130 9.18 0.00 0.00 3.85
2822 3584 6.387192 TCAAATTTTGGATCAGAGGGAGTA 57.613 37.500 9.18 0.00 0.00 2.59
2823 3585 6.180472 TCAAATTTTGGATCAGAGGGAGTAC 58.820 40.000 9.18 0.00 0.00 2.73
2824 3586 5.779241 AATTTTGGATCAGAGGGAGTACA 57.221 39.130 0.00 0.00 0.00 2.90
2825 3587 5.779241 ATTTTGGATCAGAGGGAGTACAA 57.221 39.130 0.00 0.00 0.00 2.41
2826 3588 4.826274 TTTGGATCAGAGGGAGTACAAG 57.174 45.455 0.00 0.00 0.00 3.16
2827 3589 3.757947 TGGATCAGAGGGAGTACAAGA 57.242 47.619 0.00 0.00 0.00 3.02
2828 3590 4.061131 TGGATCAGAGGGAGTACAAGAA 57.939 45.455 0.00 0.00 0.00 2.52
2829 3591 4.624913 TGGATCAGAGGGAGTACAAGAAT 58.375 43.478 0.00 0.00 0.00 2.40
2830 3592 5.777449 TGGATCAGAGGGAGTACAAGAATA 58.223 41.667 0.00 0.00 0.00 1.75
2831 3593 5.835819 TGGATCAGAGGGAGTACAAGAATAG 59.164 44.000 0.00 0.00 0.00 1.73
2832 3594 6.071984 GGATCAGAGGGAGTACAAGAATAGA 58.928 44.000 0.00 0.00 0.00 1.98
2833 3595 6.551601 GGATCAGAGGGAGTACAAGAATAGAA 59.448 42.308 0.00 0.00 0.00 2.10
2834 3596 6.777213 TCAGAGGGAGTACAAGAATAGAAC 57.223 41.667 0.00 0.00 0.00 3.01
2835 3597 5.357314 TCAGAGGGAGTACAAGAATAGAACG 59.643 44.000 0.00 0.00 0.00 3.95
2836 3598 5.125739 CAGAGGGAGTACAAGAATAGAACGT 59.874 44.000 0.00 0.00 0.00 3.99
2837 3599 6.318144 CAGAGGGAGTACAAGAATAGAACGTA 59.682 42.308 0.00 0.00 0.00 3.57
2838 3600 6.318396 AGAGGGAGTACAAGAATAGAACGTAC 59.682 42.308 0.00 0.00 34.09 3.67
2839 3601 6.186234 AGGGAGTACAAGAATAGAACGTACT 58.814 40.000 0.00 0.00 44.03 2.73
2843 3605 7.918536 AGTACAAGAATAGAACGTACTCTCA 57.081 36.000 0.00 0.00 38.67 3.27
2844 3606 7.976826 AGTACAAGAATAGAACGTACTCTCAG 58.023 38.462 0.00 0.00 38.67 3.35
2845 3607 6.197364 ACAAGAATAGAACGTACTCTCAGG 57.803 41.667 0.00 0.00 0.00 3.86
2846 3608 4.904253 AGAATAGAACGTACTCTCAGGC 57.096 45.455 0.00 0.00 0.00 4.85
2847 3609 4.270834 AGAATAGAACGTACTCTCAGGCA 58.729 43.478 0.00 0.00 0.00 4.75
2848 3610 4.890581 AGAATAGAACGTACTCTCAGGCAT 59.109 41.667 0.00 0.00 0.00 4.40
2849 3611 2.949451 AGAACGTACTCTCAGGCATG 57.051 50.000 0.00 0.00 0.00 4.06
2850 3612 2.171840 AGAACGTACTCTCAGGCATGT 58.828 47.619 0.00 0.00 0.00 3.21
2851 3613 2.094494 AGAACGTACTCTCAGGCATGTG 60.094 50.000 0.00 0.00 0.00 3.21
2852 3614 0.532573 ACGTACTCTCAGGCATGTGG 59.467 55.000 0.00 0.00 0.00 4.17
2853 3615 0.807667 CGTACTCTCAGGCATGTGGC 60.808 60.000 0.00 0.00 43.74 5.01
2865 3627 3.591196 GCATGTGGCACCAAAATAGAA 57.409 42.857 16.26 0.00 43.97 2.10
2866 3628 4.127566 GCATGTGGCACCAAAATAGAAT 57.872 40.909 16.26 0.00 43.97 2.40
2867 3629 3.866910 GCATGTGGCACCAAAATAGAATG 59.133 43.478 16.26 9.58 43.97 2.67
2868 3630 4.621274 GCATGTGGCACCAAAATAGAATGT 60.621 41.667 16.26 0.00 43.97 2.71
2869 3631 5.394005 GCATGTGGCACCAAAATAGAATGTA 60.394 40.000 16.26 0.00 43.97 2.29
2870 3632 6.629128 CATGTGGCACCAAAATAGAATGTAA 58.371 36.000 16.26 0.00 0.00 2.41
2871 3633 6.849085 TGTGGCACCAAAATAGAATGTAAT 57.151 33.333 16.26 0.00 0.00 1.89
2872 3634 7.238486 TGTGGCACCAAAATAGAATGTAATT 57.762 32.000 16.26 0.00 40.93 1.40
2873 3635 8.354711 TGTGGCACCAAAATAGAATGTAATTA 57.645 30.769 16.26 0.00 36.07 1.40
2874 3636 8.807118 TGTGGCACCAAAATAGAATGTAATTAA 58.193 29.630 16.26 0.00 36.07 1.40
2875 3637 9.301153 GTGGCACCAAAATAGAATGTAATTAAG 57.699 33.333 6.29 0.00 36.07 1.85
2876 3638 9.030452 TGGCACCAAAATAGAATGTAATTAAGT 57.970 29.630 0.00 0.00 36.07 2.24
2877 3639 9.869757 GGCACCAAAATAGAATGTAATTAAGTT 57.130 29.630 0.00 0.00 36.07 2.66
2886 3648 9.956720 ATAGAATGTAATTAAGTTGCATCTTGC 57.043 29.630 18.31 5.86 41.50 4.01
2887 3649 8.059798 AGAATGTAATTAAGTTGCATCTTGCT 57.940 30.769 18.31 6.66 41.50 3.91
2888 3650 7.972277 AGAATGTAATTAAGTTGCATCTTGCTG 59.028 33.333 18.31 0.00 41.50 4.41
2889 3651 6.816134 TGTAATTAAGTTGCATCTTGCTGA 57.184 33.333 18.31 4.32 45.31 4.26
2890 3652 7.213216 TGTAATTAAGTTGCATCTTGCTGAA 57.787 32.000 18.31 6.60 45.31 3.02
2891 3653 7.829725 TGTAATTAAGTTGCATCTTGCTGAAT 58.170 30.769 18.31 8.42 45.31 2.57
2892 3654 8.306038 TGTAATTAAGTTGCATCTTGCTGAATT 58.694 29.630 18.31 16.54 45.31 2.17
2893 3655 9.143631 GTAATTAAGTTGCATCTTGCTGAATTT 57.856 29.630 18.31 5.36 45.31 1.82
2894 3656 7.591006 ATTAAGTTGCATCTTGCTGAATTTG 57.409 32.000 18.31 0.00 45.31 2.32
2895 3657 4.859304 AGTTGCATCTTGCTGAATTTGA 57.141 36.364 0.75 0.00 45.31 2.69
2896 3658 5.204409 AGTTGCATCTTGCTGAATTTGAA 57.796 34.783 0.75 0.00 45.31 2.69
2897 3659 5.603596 AGTTGCATCTTGCTGAATTTGAAA 58.396 33.333 0.75 0.00 45.31 2.69
2898 3660 6.050432 AGTTGCATCTTGCTGAATTTGAAAA 58.950 32.000 0.75 0.00 45.31 2.29
2899 3661 6.708949 AGTTGCATCTTGCTGAATTTGAAAAT 59.291 30.769 0.75 0.00 45.31 1.82
2900 3662 7.227910 AGTTGCATCTTGCTGAATTTGAAAATT 59.772 29.630 0.68 0.68 45.31 1.82
2901 3663 7.499321 TGCATCTTGCTGAATTTGAAAATTT 57.501 28.000 2.71 0.00 45.31 1.82
2902 3664 7.932335 TGCATCTTGCTGAATTTGAAAATTTT 58.068 26.923 2.28 2.28 45.31 1.82
2903 3665 7.858382 TGCATCTTGCTGAATTTGAAAATTTTG 59.142 29.630 8.47 0.00 45.31 2.44
2904 3666 7.858879 GCATCTTGCTGAATTTGAAAATTTTGT 59.141 29.630 8.47 0.00 40.96 2.83
2905 3667 9.165014 CATCTTGCTGAATTTGAAAATTTTGTG 57.835 29.630 8.47 0.00 38.64 3.33
2906 3668 7.188157 TCTTGCTGAATTTGAAAATTTTGTGC 58.812 30.769 8.47 0.00 38.64 4.57
2907 3669 6.432607 TGCTGAATTTGAAAATTTTGTGCA 57.567 29.167 8.47 0.00 38.64 4.57
2908 3670 7.028926 TGCTGAATTTGAAAATTTTGTGCAT 57.971 28.000 8.47 0.00 38.64 3.96
2909 3671 7.133513 TGCTGAATTTGAAAATTTTGTGCATC 58.866 30.769 8.47 2.38 38.64 3.91
2910 3672 7.133513 GCTGAATTTGAAAATTTTGTGCATCA 58.866 30.769 8.47 6.64 38.64 3.07
2911 3673 7.644551 GCTGAATTTGAAAATTTTGTGCATCAA 59.355 29.630 8.47 2.39 38.64 2.57
2912 3674 9.504710 CTGAATTTGAAAATTTTGTGCATCAAA 57.495 25.926 8.47 11.42 43.24 2.69
2938 3700 9.639601 ATTCTTAGTAATAAATGATGCGATCGA 57.360 29.630 21.57 4.34 0.00 3.59
2939 3701 9.471084 TTCTTAGTAATAAATGATGCGATCGAA 57.529 29.630 21.57 9.49 0.00 3.71
2940 3702 9.639601 TCTTAGTAATAAATGATGCGATCGAAT 57.360 29.630 21.57 15.43 0.00 3.34
2944 3706 8.773645 AGTAATAAATGATGCGATCGAATTTCA 58.226 29.630 21.57 10.87 0.00 2.69
2945 3707 9.381027 GTAATAAATGATGCGATCGAATTTCAA 57.619 29.630 21.57 1.61 0.00 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
75 80 0.250124 TTCGGGTGTTTGCTGACGAT 60.250 50.000 0.00 0.00 0.00 3.73
101 106 1.789464 GTTGCTGACGAACTCTCTGTG 59.211 52.381 0.00 0.00 0.00 3.66
102 107 2.141535 GTTGCTGACGAACTCTCTGT 57.858 50.000 0.00 0.00 0.00 3.41
140 470 3.708220 CTCACTTCCTCGCTCGCCC 62.708 68.421 0.00 0.00 0.00 6.13
206 536 7.147976 CCAAGTACTACCACTACGTACTTTTT 58.852 38.462 10.36 0.00 46.54 1.94
207 537 6.681777 CCAAGTACTACCACTACGTACTTTT 58.318 40.000 10.36 0.00 46.54 2.27
208 538 5.335976 GCCAAGTACTACCACTACGTACTTT 60.336 44.000 10.36 0.00 46.54 2.66
210 540 3.691609 GCCAAGTACTACCACTACGTACT 59.308 47.826 0.00 0.00 44.00 2.73
211 541 3.691609 AGCCAAGTACTACCACTACGTAC 59.308 47.826 0.00 0.00 35.05 3.67
212 542 3.691118 CAGCCAAGTACTACCACTACGTA 59.309 47.826 0.00 0.00 0.00 3.57
213 543 2.490903 CAGCCAAGTACTACCACTACGT 59.509 50.000 0.00 0.00 0.00 3.57
214 544 2.734492 GCAGCCAAGTACTACCACTACG 60.734 54.545 0.00 0.00 0.00 3.51
215 545 2.232941 TGCAGCCAAGTACTACCACTAC 59.767 50.000 0.00 0.00 0.00 2.73
216 546 2.232941 GTGCAGCCAAGTACTACCACTA 59.767 50.000 0.00 0.00 0.00 2.74
217 547 1.002087 GTGCAGCCAAGTACTACCACT 59.998 52.381 0.00 0.00 0.00 4.00
218 548 1.439679 GTGCAGCCAAGTACTACCAC 58.560 55.000 0.00 0.00 0.00 4.16
219 549 0.323629 GGTGCAGCCAAGTACTACCA 59.676 55.000 4.03 0.00 37.17 3.25
220 550 0.323629 TGGTGCAGCCAAGTACTACC 59.676 55.000 14.36 0.00 45.94 3.18
237 567 1.308998 GGGGAGATGCAAACGTATGG 58.691 55.000 0.00 0.00 0.00 2.74
395 737 4.800471 GCAAGGCACTATTTGATGTTAAGC 59.200 41.667 0.00 0.00 38.49 3.09
1086 1435 0.385849 TCGCATGCGCAAAGAAACAG 60.386 50.000 34.45 4.77 38.40 3.16
1176 1528 0.531090 TGCACCTACACACACGGAAC 60.531 55.000 0.00 0.00 0.00 3.62
1285 1639 1.460305 ATCCCCTCCTCCGTCCATG 60.460 63.158 0.00 0.00 0.00 3.66
1387 1741 1.021390 CGGCAGCGAGATGAACCTTT 61.021 55.000 0.00 0.00 0.00 3.11
1573 1929 1.881973 GCCATATGTATGCCAGTGTGG 59.118 52.381 1.24 0.00 41.55 4.17
1640 1998 0.101759 CAGCAACTGGCCATATGTGC 59.898 55.000 5.51 13.81 46.50 4.57
1654 2012 0.612229 CTCTCCTTCAGCCTCAGCAA 59.388 55.000 0.00 0.00 43.56 3.91
1866 2233 2.182842 GGGGACGCACATCATCAGC 61.183 63.158 0.00 0.00 0.00 4.26
1932 2327 7.012327 TCGTCTCAATTTCAAATTAGCCCATAG 59.988 37.037 0.00 0.00 0.00 2.23
2035 2744 3.775661 ACATAATTAAACAGGCACGCC 57.224 42.857 0.00 0.00 0.00 5.68
2105 2820 3.898123 TGAACTTCAAGAGAGCTACCAGT 59.102 43.478 0.00 0.00 0.00 4.00
2106 2821 4.219507 TCTGAACTTCAAGAGAGCTACCAG 59.780 45.833 0.00 0.00 0.00 4.00
2107 2822 4.152647 TCTGAACTTCAAGAGAGCTACCA 58.847 43.478 0.00 0.00 0.00 3.25
2171 2890 3.228453 TCCCCGCGAGAAGACTATTTAT 58.772 45.455 8.23 0.00 0.00 1.40
2187 2906 1.153369 CATACACAGTGCCTCCCCG 60.153 63.158 0.00 0.00 0.00 5.73
2189 2908 3.159298 CACATACACAGTGCCTCCC 57.841 57.895 0.00 0.00 0.00 4.30
2228 2947 2.416893 GCTAACAGCAGCAAACTCCTAC 59.583 50.000 0.00 0.00 41.89 3.18
2232 2951 2.421619 AGAGCTAACAGCAGCAAACTC 58.578 47.619 0.00 0.00 45.56 3.01
2236 2955 6.823182 TCAATATTTAGAGCTAACAGCAGCAA 59.177 34.615 0.00 0.00 45.56 3.91
2237 2956 6.348498 TCAATATTTAGAGCTAACAGCAGCA 58.652 36.000 0.00 0.00 45.56 4.41
2238 2957 6.851222 TCAATATTTAGAGCTAACAGCAGC 57.149 37.500 0.38 0.00 45.56 5.25
2239 2958 8.599055 TCATCAATATTTAGAGCTAACAGCAG 57.401 34.615 0.38 0.00 45.56 4.24
2240 2959 8.996271 CATCATCAATATTTAGAGCTAACAGCA 58.004 33.333 0.38 0.00 45.56 4.41
2241 2960 8.997323 ACATCATCAATATTTAGAGCTAACAGC 58.003 33.333 0.00 0.00 42.84 4.40
2267 3000 1.133823 AGCAGTCACCACCAACATCAA 60.134 47.619 0.00 0.00 0.00 2.57
2270 3003 0.473755 TCAGCAGTCACCACCAACAT 59.526 50.000 0.00 0.00 0.00 2.71
2286 3019 9.175060 CAGATCGAAATTGTATACTGTACTCAG 57.825 37.037 4.17 0.00 46.18 3.35
2288 3021 9.171701 GACAGATCGAAATTGTATACTGTACTC 57.828 37.037 4.17 0.00 37.45 2.59
2373 3106 6.437928 CATGAAAAGTGTCATCCTTTCGAAA 58.562 36.000 10.71 10.71 36.04 3.46
2377 3110 4.488879 GCCATGAAAAGTGTCATCCTTTC 58.511 43.478 0.00 0.00 36.04 2.62
2396 3129 1.254975 TAGTAAGAGCGCAGTGGCCA 61.255 55.000 11.47 0.00 36.38 5.36
2416 3162 6.420604 CACAAGGGCTAACATACAAAAGTTTG 59.579 38.462 2.22 2.22 43.62 2.93
2420 3166 4.485163 GCACAAGGGCTAACATACAAAAG 58.515 43.478 0.00 0.00 0.00 2.27
2498 3248 2.154462 AGCGAAATGGCCATATGTAGC 58.846 47.619 21.15 19.19 0.00 3.58
2499 3249 2.744202 GGAGCGAAATGGCCATATGTAG 59.256 50.000 21.15 10.23 0.00 2.74
2500 3250 2.371841 AGGAGCGAAATGGCCATATGTA 59.628 45.455 21.15 0.00 0.00 2.29
2501 3251 1.143684 AGGAGCGAAATGGCCATATGT 59.856 47.619 21.15 7.51 0.00 2.29
2502 3252 1.538512 CAGGAGCGAAATGGCCATATG 59.461 52.381 21.15 12.93 0.00 1.78
2503 3253 1.143684 ACAGGAGCGAAATGGCCATAT 59.856 47.619 21.15 6.63 0.00 1.78
2504 3254 0.546122 ACAGGAGCGAAATGGCCATA 59.454 50.000 21.15 0.00 0.00 2.74
2509 3263 2.386661 AGTACACAGGAGCGAAATGG 57.613 50.000 0.00 0.00 0.00 3.16
2510 3264 8.988064 ATATATAAGTACACAGGAGCGAAATG 57.012 34.615 0.00 0.00 0.00 2.32
2532 3286 9.499479 CAAAGATGAAGTTGGAGCAGTATATAT 57.501 33.333 0.00 0.00 0.00 0.86
2550 3304 7.333423 CGGACTTCATAACTTTACCAAAGATGA 59.667 37.037 5.69 3.07 41.02 2.92
2551 3305 7.333423 TCGGACTTCATAACTTTACCAAAGATG 59.667 37.037 5.69 0.94 41.02 2.90
2552 3306 7.391620 TCGGACTTCATAACTTTACCAAAGAT 58.608 34.615 5.69 0.00 41.02 2.40
2553 3307 6.761312 TCGGACTTCATAACTTTACCAAAGA 58.239 36.000 5.69 0.00 41.02 2.52
2562 3316 6.585695 TCTGTAGTTCGGACTTCATAACTT 57.414 37.500 0.00 0.00 37.33 2.66
2568 3322 2.030185 GTGCTCTGTAGTTCGGACTTCA 60.030 50.000 0.00 1.39 37.33 3.02
2570 3324 1.961394 TGTGCTCTGTAGTTCGGACTT 59.039 47.619 0.00 0.00 37.33 3.01
2571 3325 1.617322 TGTGCTCTGTAGTTCGGACT 58.383 50.000 0.00 0.00 39.97 3.85
2572 3326 2.263077 CATGTGCTCTGTAGTTCGGAC 58.737 52.381 0.00 0.00 0.00 4.79
2573 3327 1.204704 CCATGTGCTCTGTAGTTCGGA 59.795 52.381 0.00 0.00 0.00 4.55
2575 3329 2.094494 ACTCCATGTGCTCTGTAGTTCG 60.094 50.000 0.00 0.00 0.00 3.95
2576 3330 3.601443 ACTCCATGTGCTCTGTAGTTC 57.399 47.619 0.00 0.00 0.00 3.01
2577 3331 4.528596 AGTTACTCCATGTGCTCTGTAGTT 59.471 41.667 0.00 0.00 0.00 2.24
2578 3332 4.090090 AGTTACTCCATGTGCTCTGTAGT 58.910 43.478 0.00 0.00 0.00 2.73
2579 3333 4.727507 AGTTACTCCATGTGCTCTGTAG 57.272 45.455 0.00 0.00 0.00 2.74
2582 3336 3.930336 TGAAGTTACTCCATGTGCTCTG 58.070 45.455 0.00 0.00 0.00 3.35
2585 3339 4.085357 TGTTGAAGTTACTCCATGTGCT 57.915 40.909 0.00 0.00 0.00 4.40
2587 3341 9.743057 TTAAATTTGTTGAAGTTACTCCATGTG 57.257 29.630 0.00 0.00 28.43 3.21
2611 3365 6.621316 TTTTGCGACCAGTTCTTACAATTA 57.379 33.333 0.00 0.00 0.00 1.40
2614 3368 6.205853 ACATATTTTGCGACCAGTTCTTACAA 59.794 34.615 0.00 0.00 0.00 2.41
2638 3396 6.619801 AAGTCCTAACAATGTGACTTTCAC 57.380 37.500 10.58 0.00 43.54 3.18
2644 3402 6.465084 AGGTCTAAAGTCCTAACAATGTGAC 58.535 40.000 0.00 0.00 31.87 3.67
2648 3406 6.973474 CGTCTAGGTCTAAAGTCCTAACAATG 59.027 42.308 4.84 0.00 35.87 2.82
2656 3414 3.883669 TCTCCGTCTAGGTCTAAAGTCC 58.116 50.000 0.00 0.00 41.99 3.85
2664 3422 6.268825 TGCATAATATTCTCCGTCTAGGTC 57.731 41.667 0.00 0.00 41.99 3.85
2665 3423 5.336849 GCTGCATAATATTCTCCGTCTAGGT 60.337 44.000 0.00 0.00 41.99 3.08
2684 3446 4.264253 AGTATTTTATGACAGCTGCTGCA 58.736 39.130 28.39 24.93 42.74 4.41
2685 3447 4.260948 GGAGTATTTTATGACAGCTGCTGC 60.261 45.833 28.39 20.56 34.37 5.25
2688 3450 5.363939 AGAGGAGTATTTTATGACAGCTGC 58.636 41.667 15.27 7.45 0.00 5.25
2745 3507 9.608718 GGGGGAGTATTATATATGAGAGCTATT 57.391 37.037 0.00 0.00 0.00 1.73
2746 3508 8.747264 TGGGGGAGTATTATATATGAGAGCTAT 58.253 37.037 0.00 0.00 0.00 2.97
2747 3509 8.126241 TGGGGGAGTATTATATATGAGAGCTA 57.874 38.462 0.00 0.00 0.00 3.32
2748 3510 6.998112 TGGGGGAGTATTATATATGAGAGCT 58.002 40.000 0.00 0.00 0.00 4.09
2749 3511 7.038658 GGATGGGGGAGTATTATATATGAGAGC 60.039 44.444 0.00 0.00 0.00 4.09
2750 3512 8.013072 TGGATGGGGGAGTATTATATATGAGAG 58.987 40.741 0.00 0.00 0.00 3.20
2751 3513 7.904322 TGGATGGGGGAGTATTATATATGAGA 58.096 38.462 0.00 0.00 0.00 3.27
2752 3514 8.567198 TTGGATGGGGGAGTATTATATATGAG 57.433 38.462 0.00 0.00 0.00 2.90
2753 3515 8.941639 TTTGGATGGGGGAGTATTATATATGA 57.058 34.615 0.00 0.00 0.00 2.15
2758 3520 9.189750 ACTTATTTTGGATGGGGGAGTATTATA 57.810 33.333 0.00 0.00 0.00 0.98
2759 3521 8.068891 ACTTATTTTGGATGGGGGAGTATTAT 57.931 34.615 0.00 0.00 0.00 1.28
2760 3522 7.474474 ACTTATTTTGGATGGGGGAGTATTA 57.526 36.000 0.00 0.00 0.00 0.98
2761 3523 6.355588 ACTTATTTTGGATGGGGGAGTATT 57.644 37.500 0.00 0.00 0.00 1.89
2762 3524 7.297108 TGATACTTATTTTGGATGGGGGAGTAT 59.703 37.037 0.00 0.00 32.29 2.12
2763 3525 6.621931 TGATACTTATTTTGGATGGGGGAGTA 59.378 38.462 0.00 0.00 0.00 2.59
2764 3526 5.435041 TGATACTTATTTTGGATGGGGGAGT 59.565 40.000 0.00 0.00 0.00 3.85
2765 3527 5.952387 TGATACTTATTTTGGATGGGGGAG 58.048 41.667 0.00 0.00 0.00 4.30
2766 3528 6.314120 CATGATACTTATTTTGGATGGGGGA 58.686 40.000 0.00 0.00 0.00 4.81
2767 3529 5.481473 CCATGATACTTATTTTGGATGGGGG 59.519 44.000 0.00 0.00 0.00 5.40
2768 3530 6.077322 ACCATGATACTTATTTTGGATGGGG 58.923 40.000 0.00 0.00 34.58 4.96
2769 3531 7.601705 AACCATGATACTTATTTTGGATGGG 57.398 36.000 0.00 0.00 34.58 4.00
2786 3548 9.487790 GATCCAAAATTTGAACTAAAACCATGA 57.512 29.630 7.37 0.00 0.00 3.07
2787 3549 9.270640 TGATCCAAAATTTGAACTAAAACCATG 57.729 29.630 7.37 0.00 0.00 3.66
2788 3550 9.492973 CTGATCCAAAATTTGAACTAAAACCAT 57.507 29.630 7.37 0.00 0.00 3.55
2789 3551 8.700051 TCTGATCCAAAATTTGAACTAAAACCA 58.300 29.630 7.37 0.00 0.00 3.67
2790 3552 9.196552 CTCTGATCCAAAATTTGAACTAAAACC 57.803 33.333 7.37 0.00 0.00 3.27
2791 3553 9.196552 CCTCTGATCCAAAATTTGAACTAAAAC 57.803 33.333 7.37 0.00 0.00 2.43
2792 3554 8.367156 CCCTCTGATCCAAAATTTGAACTAAAA 58.633 33.333 7.37 0.00 0.00 1.52
2793 3555 7.728083 TCCCTCTGATCCAAAATTTGAACTAAA 59.272 33.333 7.37 0.00 0.00 1.85
2794 3556 7.237982 TCCCTCTGATCCAAAATTTGAACTAA 58.762 34.615 7.37 0.00 0.00 2.24
2795 3557 6.789268 TCCCTCTGATCCAAAATTTGAACTA 58.211 36.000 7.37 0.00 0.00 2.24
2796 3558 5.644188 TCCCTCTGATCCAAAATTTGAACT 58.356 37.500 7.37 0.00 0.00 3.01
2797 3559 5.478332 ACTCCCTCTGATCCAAAATTTGAAC 59.522 40.000 7.37 0.00 0.00 3.18
2798 3560 5.644188 ACTCCCTCTGATCCAAAATTTGAA 58.356 37.500 7.37 0.00 0.00 2.69
2799 3561 5.261040 ACTCCCTCTGATCCAAAATTTGA 57.739 39.130 7.37 0.00 0.00 2.69
2800 3562 5.945784 TGTACTCCCTCTGATCCAAAATTTG 59.054 40.000 0.00 0.00 0.00 2.32
2801 3563 6.139679 TGTACTCCCTCTGATCCAAAATTT 57.860 37.500 0.00 0.00 0.00 1.82
2802 3564 5.779241 TGTACTCCCTCTGATCCAAAATT 57.221 39.130 0.00 0.00 0.00 1.82
2803 3565 5.488919 TCTTGTACTCCCTCTGATCCAAAAT 59.511 40.000 0.00 0.00 0.00 1.82
2804 3566 4.844085 TCTTGTACTCCCTCTGATCCAAAA 59.156 41.667 0.00 0.00 0.00 2.44
2805 3567 4.425772 TCTTGTACTCCCTCTGATCCAAA 58.574 43.478 0.00 0.00 0.00 3.28
2806 3568 4.061131 TCTTGTACTCCCTCTGATCCAA 57.939 45.455 0.00 0.00 0.00 3.53
2807 3569 3.757947 TCTTGTACTCCCTCTGATCCA 57.242 47.619 0.00 0.00 0.00 3.41
2808 3570 6.071984 TCTATTCTTGTACTCCCTCTGATCC 58.928 44.000 0.00 0.00 0.00 3.36
2809 3571 7.430441 GTTCTATTCTTGTACTCCCTCTGATC 58.570 42.308 0.00 0.00 0.00 2.92
2810 3572 6.039941 CGTTCTATTCTTGTACTCCCTCTGAT 59.960 42.308 0.00 0.00 0.00 2.90
2811 3573 5.357314 CGTTCTATTCTTGTACTCCCTCTGA 59.643 44.000 0.00 0.00 0.00 3.27
2812 3574 5.125739 ACGTTCTATTCTTGTACTCCCTCTG 59.874 44.000 0.00 0.00 0.00 3.35
2813 3575 5.262804 ACGTTCTATTCTTGTACTCCCTCT 58.737 41.667 0.00 0.00 0.00 3.69
2814 3576 5.579564 ACGTTCTATTCTTGTACTCCCTC 57.420 43.478 0.00 0.00 0.00 4.30
2815 3577 6.186234 AGTACGTTCTATTCTTGTACTCCCT 58.814 40.000 0.00 0.00 41.20 4.20
2816 3578 6.448207 AGTACGTTCTATTCTTGTACTCCC 57.552 41.667 0.00 0.00 41.20 4.30
2819 3581 7.066043 CCTGAGAGTACGTTCTATTCTTGTACT 59.934 40.741 0.00 3.23 46.04 2.73
2820 3582 7.188157 CCTGAGAGTACGTTCTATTCTTGTAC 58.812 42.308 0.00 0.00 36.52 2.90
2821 3583 6.183360 GCCTGAGAGTACGTTCTATTCTTGTA 60.183 42.308 0.00 0.00 0.00 2.41
2822 3584 5.393243 GCCTGAGAGTACGTTCTATTCTTGT 60.393 44.000 0.00 0.00 0.00 3.16
2823 3585 5.038033 GCCTGAGAGTACGTTCTATTCTTG 58.962 45.833 0.00 0.00 0.00 3.02
2824 3586 4.705507 TGCCTGAGAGTACGTTCTATTCTT 59.294 41.667 0.00 0.00 0.00 2.52
2825 3587 4.270834 TGCCTGAGAGTACGTTCTATTCT 58.729 43.478 0.00 0.00 0.00 2.40
2826 3588 4.634184 TGCCTGAGAGTACGTTCTATTC 57.366 45.455 0.00 0.00 0.00 1.75
2827 3589 4.402793 ACATGCCTGAGAGTACGTTCTATT 59.597 41.667 0.00 0.00 0.00 1.73
2828 3590 3.954904 ACATGCCTGAGAGTACGTTCTAT 59.045 43.478 0.00 0.00 0.00 1.98
2829 3591 3.128764 CACATGCCTGAGAGTACGTTCTA 59.871 47.826 0.00 0.00 0.00 2.10
2830 3592 2.094494 CACATGCCTGAGAGTACGTTCT 60.094 50.000 0.00 0.00 0.00 3.01
2831 3593 2.263077 CACATGCCTGAGAGTACGTTC 58.737 52.381 0.00 0.00 0.00 3.95
2832 3594 1.066858 CCACATGCCTGAGAGTACGTT 60.067 52.381 0.00 0.00 0.00 3.99
2833 3595 0.532573 CCACATGCCTGAGAGTACGT 59.467 55.000 0.00 0.00 0.00 3.57
2834 3596 0.807667 GCCACATGCCTGAGAGTACG 60.808 60.000 0.00 0.00 0.00 3.67
2835 3597 0.250234 TGCCACATGCCTGAGAGTAC 59.750 55.000 0.00 0.00 40.16 2.73
2836 3598 0.250234 GTGCCACATGCCTGAGAGTA 59.750 55.000 0.00 0.00 40.16 2.59
2837 3599 1.002868 GTGCCACATGCCTGAGAGT 60.003 57.895 0.00 0.00 40.16 3.24
2838 3600 1.748122 GGTGCCACATGCCTGAGAG 60.748 63.158 0.00 0.00 40.16 3.20
2839 3601 2.066700 TTGGTGCCACATGCCTGAGA 62.067 55.000 0.00 0.00 40.16 3.27
2840 3602 1.180456 TTTGGTGCCACATGCCTGAG 61.180 55.000 0.00 0.00 40.16 3.35
2841 3603 0.758310 TTTTGGTGCCACATGCCTGA 60.758 50.000 0.00 0.00 40.16 3.86
2842 3604 0.322322 ATTTTGGTGCCACATGCCTG 59.678 50.000 0.00 0.00 40.16 4.85
2843 3605 1.826720 CTATTTTGGTGCCACATGCCT 59.173 47.619 0.00 0.00 40.16 4.75
2844 3606 1.824230 TCTATTTTGGTGCCACATGCC 59.176 47.619 0.00 0.00 40.16 4.40
2845 3607 3.591196 TTCTATTTTGGTGCCACATGC 57.409 42.857 0.00 0.00 41.77 4.06
2846 3608 5.075858 ACATTCTATTTTGGTGCCACATG 57.924 39.130 0.00 0.00 0.00 3.21
2847 3609 6.849085 TTACATTCTATTTTGGTGCCACAT 57.151 33.333 0.00 0.00 0.00 3.21
2848 3610 6.849085 ATTACATTCTATTTTGGTGCCACA 57.151 33.333 0.00 0.00 0.00 4.17
2849 3611 9.301153 CTTAATTACATTCTATTTTGGTGCCAC 57.699 33.333 0.00 0.00 0.00 5.01
2850 3612 9.030452 ACTTAATTACATTCTATTTTGGTGCCA 57.970 29.630 0.00 0.00 0.00 4.92
2851 3613 9.869757 AACTTAATTACATTCTATTTTGGTGCC 57.130 29.630 0.00 0.00 0.00 5.01
2860 3622 9.956720 GCAAGATGCAACTTAATTACATTCTAT 57.043 29.630 9.09 0.00 44.26 1.98
2874 3636 7.227910 AATTTTCAAATTCAGCAAGATGCAACT 59.772 29.630 5.01 0.00 38.90 3.16
2875 3637 7.357303 AATTTTCAAATTCAGCAAGATGCAAC 58.643 30.769 5.01 0.00 38.90 4.17
2876 3638 7.499321 AATTTTCAAATTCAGCAAGATGCAA 57.501 28.000 5.01 0.00 38.90 4.08
2877 3639 7.499321 AAATTTTCAAATTCAGCAAGATGCA 57.501 28.000 5.01 0.00 40.73 3.96
2878 3640 7.858879 ACAAAATTTTCAAATTCAGCAAGATGC 59.141 29.630 0.00 0.00 39.55 3.91
2879 3641 9.165014 CACAAAATTTTCAAATTCAGCAAGATG 57.835 29.630 0.00 0.00 37.62 2.90
2880 3642 7.858879 GCACAAAATTTTCAAATTCAGCAAGAT 59.141 29.630 0.00 0.00 37.62 2.40
2881 3643 7.148289 TGCACAAAATTTTCAAATTCAGCAAGA 60.148 29.630 0.00 0.00 37.62 3.02
2882 3644 6.967767 TGCACAAAATTTTCAAATTCAGCAAG 59.032 30.769 0.00 0.00 37.62 4.01
2883 3645 6.849502 TGCACAAAATTTTCAAATTCAGCAA 58.150 28.000 0.00 0.00 37.62 3.91
2884 3646 6.432607 TGCACAAAATTTTCAAATTCAGCA 57.567 29.167 0.00 4.45 37.62 4.41
2885 3647 7.133513 TGATGCACAAAATTTTCAAATTCAGC 58.866 30.769 0.00 0.00 37.62 4.26
2886 3648 9.504710 TTTGATGCACAAAATTTTCAAATTCAG 57.495 25.926 0.00 0.00 44.16 3.02
2912 3674 9.639601 TCGATCGCATCATTTATTACTAAGAAT 57.360 29.630 11.09 0.00 0.00 2.40
2913 3675 9.471084 TTCGATCGCATCATTTATTACTAAGAA 57.529 29.630 11.09 0.00 0.00 2.52
2914 3676 9.639601 ATTCGATCGCATCATTTATTACTAAGA 57.360 29.630 11.09 0.00 0.00 2.10
2918 3680 8.773645 TGAAATTCGATCGCATCATTTATTACT 58.226 29.630 11.09 0.00 0.00 2.24
2919 3681 8.933438 TGAAATTCGATCGCATCATTTATTAC 57.067 30.769 11.09 1.94 0.00 1.89



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

AutoCloner maintained by Alex Coulton.