Multiple sequence alignment - TraesCS5A01G054200

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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 TraesCS5A01G054200 chr5A 100.000 4114 0 0 881 4994 50743456 50747569 0.000000e+00 7598.0
1 TraesCS5A01G054200 chr5A 100.000 641 0 0 1 641 50742576 50743216 0.000000e+00 1184.0
2 TraesCS5A01G054200 chr5D 91.571 2266 112 35 931 3144 60896685 60898923 0.000000e+00 3053.0
3 TraesCS5A01G054200 chr5D 91.382 1288 54 28 3182 4443 60898917 60900173 0.000000e+00 1711.0
4 TraesCS5A01G054200 chr5D 91.190 420 12 11 4443 4854 60900201 60900603 9.450000e-152 547.0
5 TraesCS5A01G054200 chr5D 82.063 669 68 28 1 641 60895651 60896295 1.590000e-144 523.0
6 TraesCS5A01G054200 chr5D 92.742 124 8 1 4838 4960 60900948 60901071 1.430000e-40 178.0
7 TraesCS5A01G054200 chr5B 91.658 1882 89 39 2997 4840 69857169 69855318 0.000000e+00 2543.0
8 TraesCS5A01G054200 chr5B 93.381 846 53 3 957 1801 69859506 69858663 0.000000e+00 1249.0
9 TraesCS5A01G054200 chr5B 93.758 785 42 7 1858 2638 69858467 69857686 0.000000e+00 1171.0
10 TraesCS5A01G054200 chr5B 88.336 643 45 12 8 641 69860479 69859858 0.000000e+00 745.0
11 TraesCS5A01G054200 chr5B 91.931 347 23 3 2628 2973 69857669 69857327 9.720000e-132 481.0
12 TraesCS5A01G054200 chr5B 89.076 119 10 3 5 122 69860633 69860517 1.450000e-30 145.0
13 TraesCS5A01G054200 chr5B 87.912 91 10 1 291 381 478745748 478745837 6.840000e-19 106.0
14 TraesCS5A01G054200 chr6B 83.041 171 22 7 225 392 177812145 177812311 1.120000e-31 148.0
15 TraesCS5A01G054200 chr6B 78.161 174 30 6 225 395 20776952 20777120 2.460000e-18 104.0
16 TraesCS5A01G054200 chr4B 79.570 186 24 10 216 395 498929306 498929129 2.440000e-23 121.0
17 TraesCS5A01G054200 chr1A 79.570 186 24 10 216 395 463430703 463430526 2.440000e-23 121.0
18 TraesCS5A01G054200 chr2A 79.191 173 26 9 228 395 144843092 144842925 1.470000e-20 111.0
19 TraesCS5A01G054200 chr7A 78.571 168 25 8 231 393 640450317 640450156 3.180000e-17 100.0
20 TraesCS5A01G054200 chr4D 93.023 43 2 1 228 269 213664880 213664838 1.500000e-05 62.1
21 TraesCS5A01G054200 chr7B 88.000 50 4 2 219 267 330756206 330756254 1.940000e-04 58.4
22 TraesCS5A01G054200 chr2B 88.000 50 4 2 219 267 128811332 128811284 1.940000e-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 TraesCS5A01G054200 chr5A 50742576 50747569 4993 False 4391.000000 7598 100.000000 1 4994 2 chr5A.!!$F1 4993
1 TraesCS5A01G054200 chr5D 60895651 60901071 5420 False 1202.400000 3053 89.789600 1 4960 5 chr5D.!!$F1 4959
2 TraesCS5A01G054200 chr5B 69855318 69860633 5315 True 1055.666667 2543 91.356667 5 4840 6 chr5B.!!$R1 4835

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
555 735 0.179026 GTCCCGAATCCTAAAGCCCC 60.179 60.000 0.00 0.0 0.00 5.80 F
1306 1812 1.002544 AGGTGCCTGAAGCTGTAAGTC 59.997 52.381 0.00 0.0 44.23 3.01 F
2179 2827 0.951040 GTTGTTCGACCAGCAGAGGG 60.951 60.000 0.00 0.0 0.00 4.30 F
3047 3860 0.313987 GGCAGTGTTTACAACTGGCC 59.686 55.000 16.68 0.0 46.89 5.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1944 2591 1.146041 GGGTATGCATGAGCGTGGA 59.854 57.895 10.16 0.00 46.23 4.02 R
2796 3474 0.533308 GTGTAGACCGGTGGTTTGCA 60.533 55.000 14.63 1.26 35.25 4.08 R
3838 4667 0.460284 ATGCCGTTCATCACCTCGAC 60.460 55.000 0.00 0.00 0.00 4.20 R
4672 5547 0.320421 AACGTCGACATCCCTGTTGG 60.320 55.000 17.16 0.00 37.37 3.77 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
28 176 3.055891 GGCAACAAACCCTATTTGCTCAT 60.056 43.478 5.25 0.00 43.20 2.90
83 241 2.735126 CGTTGCAACAAGGGCCATATTC 60.735 50.000 28.01 0.00 0.00 1.75
84 242 2.497273 GTTGCAACAAGGGCCATATTCT 59.503 45.455 24.52 0.00 0.00 2.40
113 273 5.178797 GGACTACATTGTATGAGTTGCTGT 58.821 41.667 0.00 0.00 0.00 4.40
116 276 3.754965 ACATTGTATGAGTTGCTGTGGT 58.245 40.909 0.00 0.00 0.00 4.16
130 290 1.459592 CTGTGGTCCGTTCGATCAAAC 59.540 52.381 0.00 0.00 31.83 2.93
140 300 4.868171 CCGTTCGATCAAACTTAGATCCAA 59.132 41.667 0.00 0.00 38.90 3.53
162 326 1.503542 CCATGAAGGCAGTCAACGC 59.496 57.895 0.00 0.00 0.00 4.84
163 327 1.133253 CATGAAGGCAGTCAACGCG 59.867 57.895 3.53 3.53 0.00 6.01
164 328 2.680913 ATGAAGGCAGTCAACGCGC 61.681 57.895 5.73 0.00 0.00 6.86
165 329 3.345808 GAAGGCAGTCAACGCGCA 61.346 61.111 5.73 0.00 0.00 6.09
166 330 2.892334 GAAGGCAGTCAACGCGCAA 61.892 57.895 5.73 0.00 0.00 4.85
167 331 2.387125 GAAGGCAGTCAACGCGCAAA 62.387 55.000 5.73 0.00 0.00 3.68
168 332 2.392613 AAGGCAGTCAACGCGCAAAG 62.393 55.000 5.73 0.00 0.00 2.77
169 333 2.631428 GCAGTCAACGCGCAAAGA 59.369 55.556 5.73 0.00 0.00 2.52
170 334 1.439365 GCAGTCAACGCGCAAAGAG 60.439 57.895 5.73 0.00 0.00 2.85
171 335 1.934463 CAGTCAACGCGCAAAGAGT 59.066 52.632 5.73 0.84 0.00 3.24
172 336 0.304705 CAGTCAACGCGCAAAGAGTT 59.695 50.000 5.73 0.00 43.66 3.01
173 337 1.525197 CAGTCAACGCGCAAAGAGTTA 59.475 47.619 5.73 0.00 40.91 2.24
174 338 2.157668 CAGTCAACGCGCAAAGAGTTAT 59.842 45.455 5.73 0.00 40.91 1.89
175 339 2.157668 AGTCAACGCGCAAAGAGTTATG 59.842 45.455 5.73 0.00 40.91 1.90
176 340 2.156891 GTCAACGCGCAAAGAGTTATGA 59.843 45.455 5.73 0.00 40.91 2.15
177 341 2.803386 TCAACGCGCAAAGAGTTATGAA 59.197 40.909 5.73 0.00 40.91 2.57
178 342 2.875080 ACGCGCAAAGAGTTATGAAC 57.125 45.000 5.73 0.00 0.00 3.18
187 351 6.199393 GCAAAGAGTTATGAACGACTGTTTT 58.801 36.000 0.00 0.00 37.29 2.43
204 368 7.420184 ACTGTTTTTGAGTGTTTTCCTTTTG 57.580 32.000 0.00 0.00 0.00 2.44
306 474 4.645535 ACAAGCGGATGCATATAGACATT 58.354 39.130 0.00 0.00 46.23 2.71
456 630 6.128526 GCGTAATTAAGATCACTAATGGCCTC 60.129 42.308 3.32 0.00 0.00 4.70
462 636 4.298626 AGATCACTAATGGCCTCCTTACA 58.701 43.478 3.32 0.00 0.00 2.41
491 668 3.371285 GCCGTAGAAAATCAGGAGTGAAC 59.629 47.826 0.00 0.00 35.88 3.18
555 735 0.179026 GTCCCGAATCCTAAAGCCCC 60.179 60.000 0.00 0.00 0.00 5.80
900 1080 3.299190 GAGCCCTCCGGATCCGAG 61.299 72.222 35.42 26.46 38.75 4.63
911 1091 4.414956 ATCCGAGGCCCCCACAGA 62.415 66.667 0.00 0.00 0.00 3.41
1129 1635 6.259167 ACTTTTTACCCTTTTCGGCAAAATTC 59.741 34.615 0.00 0.00 30.91 2.17
1170 1676 1.528248 CTTTTGGTTCGTTGCGTGCG 61.528 55.000 0.00 0.00 0.00 5.34
1199 1705 1.127343 CTCTGGGATTCCCTCTCACC 58.873 60.000 22.38 0.00 45.70 4.02
1306 1812 1.002544 AGGTGCCTGAAGCTGTAAGTC 59.997 52.381 0.00 0.00 44.23 3.01
1313 1819 1.067846 TGAAGCTGTAAGTCGCACGAT 60.068 47.619 0.00 0.00 35.30 3.73
1331 1837 2.159787 CGATTTTTCCACTGTCTCGCTG 60.160 50.000 0.00 0.00 0.00 5.18
1371 1877 1.460504 TGTCTCATCGTAGAACGCCT 58.539 50.000 0.00 0.00 43.58 5.52
1399 1906 2.645297 AGTGAGGGGAGAGATATAGCGA 59.355 50.000 0.00 0.00 0.00 4.93
1415 1922 1.005340 GCGAGCTTGGATTCTCAGTG 58.995 55.000 2.37 0.00 0.00 3.66
1445 1953 5.036737 CTAATTGTTTAGGAGCAATTGGCG 58.963 41.667 7.72 0.00 43.61 5.69
1495 2003 1.085091 CTGCAATGAGTCTGGTGCTC 58.915 55.000 12.42 0.00 37.87 4.26
1707 2215 7.647907 ATTTTACGTTCACCTGTACTTACTG 57.352 36.000 0.00 0.00 0.00 2.74
1741 2249 2.431454 TGTCACACACTTGAAGCACAA 58.569 42.857 0.00 0.00 36.97 3.33
1742 2250 3.016031 TGTCACACACTTGAAGCACAAT 58.984 40.909 0.00 0.00 37.88 2.71
1746 2254 6.033341 GTCACACACTTGAAGCACAATTAAA 58.967 36.000 0.00 0.00 37.88 1.52
1784 2292 4.711846 TGTGATTCTGGTCTAGCTGTACAT 59.288 41.667 0.00 0.00 0.00 2.29
1801 2309 1.275291 ACATAGCCTGCGTGTTAGTGT 59.725 47.619 0.00 0.00 0.00 3.55
1802 2310 2.494471 ACATAGCCTGCGTGTTAGTGTA 59.506 45.455 0.00 0.00 0.00 2.90
1804 2312 2.080286 AGCCTGCGTGTTAGTGTAAG 57.920 50.000 0.00 0.00 0.00 2.34
1806 2314 1.076332 CCTGCGTGTTAGTGTAAGGC 58.924 55.000 0.00 0.00 0.00 4.35
1807 2315 1.337823 CCTGCGTGTTAGTGTAAGGCT 60.338 52.381 0.00 0.00 0.00 4.58
1809 2317 2.409975 TGCGTGTTAGTGTAAGGCTTC 58.590 47.619 1.30 0.00 0.00 3.86
1810 2318 2.224090 TGCGTGTTAGTGTAAGGCTTCA 60.224 45.455 1.30 0.00 0.00 3.02
1812 2320 3.386486 CGTGTTAGTGTAAGGCTTCACA 58.614 45.455 22.73 15.07 37.07 3.58
1843 2356 3.812167 GCAATGGAGGGAACTGAGTTTCT 60.812 47.826 3.26 2.87 44.43 2.52
1883 2530 2.459644 TGGAAAAGATGGGGAATGCTG 58.540 47.619 0.00 0.00 0.00 4.41
1885 2532 2.428530 GGAAAAGATGGGGAATGCTGAC 59.571 50.000 0.00 0.00 0.00 3.51
1889 2536 3.463048 AGATGGGGAATGCTGACTTTT 57.537 42.857 0.00 0.00 0.00 2.27
1924 2571 1.326213 CCCACCCTGCACACACAAAA 61.326 55.000 0.00 0.00 0.00 2.44
1944 2591 9.778741 CACAAAACATACACCATACCTATCTAT 57.221 33.333 0.00 0.00 0.00 1.98
1959 2606 4.098501 CCTATCTATCCACGCTCATGCATA 59.901 45.833 0.00 0.00 39.64 3.14
1960 2607 3.303881 TCTATCCACGCTCATGCATAC 57.696 47.619 0.00 0.00 39.64 2.39
2032 2680 8.239314 ACTGTTGTACTGATCAATTGCTTTATG 58.761 33.333 0.00 0.00 0.00 1.90
2034 2682 8.236586 TGTTGTACTGATCAATTGCTTTATGTC 58.763 33.333 0.00 0.00 0.00 3.06
2035 2683 8.454106 GTTGTACTGATCAATTGCTTTATGTCT 58.546 33.333 0.00 0.00 0.00 3.41
2112 2760 4.941263 GCTGTGACCCATGTTATAACAAGA 59.059 41.667 21.57 2.75 43.03 3.02
2179 2827 0.951040 GTTGTTCGACCAGCAGAGGG 60.951 60.000 0.00 0.00 0.00 4.30
2231 2879 6.922407 TGTTCAAACATGACATGGTAAATGTG 59.078 34.615 19.39 7.95 33.65 3.21
2234 2882 7.815641 TCAAACATGACATGGTAAATGTGTAG 58.184 34.615 19.39 0.00 33.65 2.74
2266 2914 6.371548 CCTTGTTCTATTTTTGACGATCCTGA 59.628 38.462 0.00 0.00 0.00 3.86
2272 2920 8.873215 TCTATTTTTGACGATCCTGATACTTC 57.127 34.615 0.00 0.00 0.00 3.01
2274 2922 9.967346 CTATTTTTGACGATCCTGATACTTCTA 57.033 33.333 0.00 0.00 0.00 2.10
2277 2925 8.873215 TTTTGACGATCCTGATACTTCTATTC 57.127 34.615 0.00 0.00 0.00 1.75
2311 2960 7.854337 AGGAATTTGCAAGATACCAAATTGAT 58.146 30.769 13.94 2.70 46.09 2.57
2374 3023 6.763610 GCCTTAAGAAATACTGTGACTGCTAT 59.236 38.462 3.36 0.00 0.00 2.97
2383 3032 3.194542 ACTGTGACTGCTATCAGGTTCTC 59.805 47.826 0.00 0.00 44.54 2.87
2450 3099 9.315363 TCCTATTAGTTTTTCTCTTCTCTCAGT 57.685 33.333 0.00 0.00 0.00 3.41
2494 3143 1.971695 GTGTTTGAAGGGAGGGGCG 60.972 63.158 0.00 0.00 0.00 6.13
2597 3247 7.661437 TCTTGGAACTAGTGAACTACGTACTAA 59.339 37.037 0.00 0.00 0.00 2.24
2621 3271 4.488126 TGCAAGATGTTAAAGTCAGTGC 57.512 40.909 0.00 8.74 0.00 4.40
2638 3288 6.881065 AGTCAGTGCTGTGTAAAATGATATGT 59.119 34.615 0.00 0.00 0.00 2.29
2639 3289 6.963242 GTCAGTGCTGTGTAAAATGATATGTG 59.037 38.462 0.00 0.00 0.00 3.21
2640 3290 5.740569 CAGTGCTGTGTAAAATGATATGTGC 59.259 40.000 0.00 0.00 0.00 4.57
2645 3323 8.685427 TGCTGTGTAAAATGATATGTGCTATTT 58.315 29.630 0.00 0.00 0.00 1.40
2661 3339 4.475381 TGCTATTTGGTGGATGGGTAACTA 59.525 41.667 0.00 0.00 0.00 2.24
2679 3357 7.778382 GGGTAACTACTAATTCATGAATGGGTT 59.222 37.037 21.39 19.80 0.00 4.11
2699 3377 5.179742 GGGTTGTCACAATATGAACGTGTTA 59.820 40.000 0.00 0.00 39.72 2.41
2705 3383 8.227119 TGTCACAATATGAACGTGTTATCAAAG 58.773 33.333 0.00 0.00 39.72 2.77
2749 3427 6.142817 GTGTTTTTGCGTCTATGAGAACATT 58.857 36.000 0.00 0.00 37.87 2.71
2759 3437 8.840867 GCGTCTATGAGAACATTTTTGTTTTAG 58.159 33.333 0.00 0.00 37.87 1.85
2796 3474 7.759489 TGATTAAGAAAAGCACCACAGTTAT 57.241 32.000 0.00 0.00 0.00 1.89
2805 3483 2.862140 GCACCACAGTTATGCAAACCAC 60.862 50.000 0.00 0.00 39.23 4.16
2817 3495 1.880646 GCAAACCACCGGTCTACACAT 60.881 52.381 2.59 0.00 33.12 3.21
2819 3497 3.869065 CAAACCACCGGTCTACACATAT 58.131 45.455 2.59 0.00 33.12 1.78
2820 3498 3.536956 AACCACCGGTCTACACATATG 57.463 47.619 2.59 0.00 33.12 1.78
2821 3499 1.760613 ACCACCGGTCTACACATATGG 59.239 52.381 2.59 0.48 0.00 2.74
2831 3509 8.311836 CCGGTCTACACATATGGAATAGTATTT 58.688 37.037 7.80 0.00 28.50 1.40
2956 3634 4.048241 AGTGAAGATAAGCTAACTCGGC 57.952 45.455 0.00 0.00 0.00 5.54
3047 3860 0.313987 GGCAGTGTTTACAACTGGCC 59.686 55.000 16.68 0.00 46.89 5.36
3110 3923 2.489971 TGACCTCAGCTTTTTACCACG 58.510 47.619 0.00 0.00 0.00 4.94
3112 3925 3.069872 TGACCTCAGCTTTTTACCACGTA 59.930 43.478 0.00 0.00 0.00 3.57
3143 3956 0.458669 GGAATGCATGCTGGTTCAGG 59.541 55.000 20.33 0.00 31.21 3.86
3148 3961 1.304713 CATGCTGGTTCAGGGCCTT 60.305 57.895 1.32 0.00 31.21 4.35
3160 3973 2.578021 TCAGGGCCTTCAGAATAGCTTT 59.422 45.455 1.32 0.00 0.00 3.51
3161 3974 2.686915 CAGGGCCTTCAGAATAGCTTTG 59.313 50.000 1.32 0.00 0.00 2.77
3162 3975 1.406898 GGGCCTTCAGAATAGCTTTGC 59.593 52.381 0.84 0.00 0.00 3.68
3221 4034 7.493320 GGAATTTGCTTGATGAATTCTATTGCA 59.507 33.333 7.05 8.07 38.92 4.08
3234 4047 8.730680 TGAATTCTATTGCAGTACCTTTTCTTC 58.269 33.333 7.05 0.00 0.00 2.87
3247 4060 9.274206 AGTACCTTTTCTTCTTACAAAGATGTC 57.726 33.333 0.00 0.00 41.05 3.06
3249 4062 8.384607 ACCTTTTCTTCTTACAAAGATGTCTC 57.615 34.615 0.00 0.00 41.05 3.36
3250 4063 7.993183 ACCTTTTCTTCTTACAAAGATGTCTCA 59.007 33.333 0.00 0.00 41.05 3.27
3251 4064 9.007901 CCTTTTCTTCTTACAAAGATGTCTCAT 57.992 33.333 0.00 0.00 41.05 2.90
3252 4065 9.823098 CTTTTCTTCTTACAAAGATGTCTCATG 57.177 33.333 0.00 0.00 41.05 3.07
3253 4066 8.908786 TTTCTTCTTACAAAGATGTCTCATGT 57.091 30.769 0.00 6.64 41.05 3.21
3254 4067 8.539770 TTCTTCTTACAAAGATGTCTCATGTC 57.460 34.615 5.12 0.00 41.05 3.06
3255 4068 6.808704 TCTTCTTACAAAGATGTCTCATGTCG 59.191 38.462 5.12 0.00 41.05 4.35
3268 4081 6.223120 TGTCTCATGTCGGACATAATATTGG 58.777 40.000 22.26 9.29 36.53 3.16
3279 4092 9.594936 TCGGACATAATATTGGGGATTTATTTT 57.405 29.630 0.00 0.00 0.00 1.82
3303 4117 2.360165 CTGATGATTTGCTTGCTACCCC 59.640 50.000 0.00 0.00 0.00 4.95
3308 4122 3.953612 TGATTTGCTTGCTACCCCTAATG 59.046 43.478 0.00 0.00 0.00 1.90
3323 4137 3.539604 CCTAATGGGAGAAGCTGACTTG 58.460 50.000 0.00 0.00 34.66 3.16
3330 4144 3.430651 GGGAGAAGCTGACTTGATCTCAG 60.431 52.174 10.62 6.17 35.82 3.35
3335 4149 7.201866 GGAGAAGCTGACTTGATCTCAGTTATA 60.202 40.741 10.62 0.00 37.96 0.98
3336 4150 8.072321 AGAAGCTGACTTGATCTCAGTTATAA 57.928 34.615 11.01 0.00 37.96 0.98
3339 4153 9.678260 AAGCTGACTTGATCTCAGTTATAATTT 57.322 29.630 11.01 0.00 37.96 1.82
3348 4162 9.739276 TGATCTCAGTTATAATTTTTGGTCTGT 57.261 29.630 0.00 0.00 0.00 3.41
3362 4182 6.998968 TTTGGTCTGTACCTAAAAACGAAA 57.001 33.333 0.00 0.00 46.91 3.46
3375 4195 8.989980 ACCTAAAAACGAAATTTTGTTTGTTCA 58.010 25.926 28.90 14.11 42.40 3.18
3380 4200 8.652592 AAACGAAATTTTGTTTGTTCATGTTG 57.347 26.923 28.05 0.00 41.83 3.33
3421 4241 4.638421 TGGATGGTAAAAGTATTCTTGCCG 59.362 41.667 0.00 0.00 33.79 5.69
3432 4252 4.954970 CTTGCCGCACCCACACCT 62.955 66.667 0.00 0.00 0.00 4.00
3433 4253 3.545124 CTTGCCGCACCCACACCTA 62.545 63.158 0.00 0.00 0.00 3.08
3434 4254 3.835790 TTGCCGCACCCACACCTAC 62.836 63.158 0.00 0.00 0.00 3.18
3438 4258 3.253838 GCACCCACACCTACCCCA 61.254 66.667 0.00 0.00 0.00 4.96
3440 4260 1.847686 CACCCACACCTACCCCAAA 59.152 57.895 0.00 0.00 0.00 3.28
3453 4279 3.274281 ACCCCAAATGAAAGGAATGGT 57.726 42.857 0.00 0.00 0.00 3.55
3454 4280 2.905736 ACCCCAAATGAAAGGAATGGTG 59.094 45.455 0.00 0.00 0.00 4.17
3480 4306 6.927936 CGGAAGTTATCTCAAGTGATGATGAT 59.072 38.462 0.00 0.00 37.44 2.45
3483 4309 9.491675 GAAGTTATCTCAAGTGATGATGATGAT 57.508 33.333 0.00 0.00 37.44 2.45
3486 4312 9.438228 GTTATCTCAAGTGATGATGATGATGAT 57.562 33.333 0.00 0.00 37.44 2.45
3547 4373 3.577556 CCCCCATCTCCAGTATCCA 57.422 57.895 0.00 0.00 0.00 3.41
3564 4390 5.598005 AGTATCCAGAGAGTCTTCATTCCAG 59.402 44.000 0.00 0.00 0.00 3.86
3690 4516 2.427245 CGAGGAAGCACGGGGAGAT 61.427 63.158 0.00 0.00 0.00 2.75
3753 4579 2.045926 GCCATGGAAGGACACGCT 60.046 61.111 18.40 0.00 0.00 5.07
3782 4608 5.581479 CCAAGTTTCATCATCAGAGAGACAG 59.419 44.000 0.00 0.00 0.00 3.51
3798 4627 2.226437 AGACAGCAACAATAAACAGCGG 59.774 45.455 0.00 0.00 0.00 5.52
3806 4635 0.618458 AATAAACAGCGGGAGAGCCA 59.382 50.000 0.00 0.00 38.01 4.75
3867 4696 4.344865 AACGGCATGGCGGACCTT 62.345 61.111 39.57 24.77 36.63 3.50
3894 4723 4.373116 GACAAGTCGCTCGCCCCA 62.373 66.667 0.00 0.00 0.00 4.96
3972 4801 1.375908 GACCATGTGGCTGAAGCGA 60.376 57.895 0.00 0.00 43.26 4.93
4095 4928 6.374333 GCTGTAGATATCCCTAGTCTCTTCTG 59.626 46.154 0.00 0.00 0.00 3.02
4207 5050 3.372206 CAGTAAGTTTGCCCTGATCTTCG 59.628 47.826 0.00 0.00 0.00 3.79
4230 5073 4.396478 GGCTAGAAATGAAGTTCTTCACCC 59.604 45.833 15.98 9.12 38.75 4.61
4231 5074 5.249420 GCTAGAAATGAAGTTCTTCACCCT 58.751 41.667 15.98 14.41 38.75 4.34
4232 5075 5.123027 GCTAGAAATGAAGTTCTTCACCCTG 59.877 44.000 15.98 7.30 38.75 4.45
4233 5076 3.823304 AGAAATGAAGTTCTTCACCCTGC 59.177 43.478 15.98 4.72 34.03 4.85
4234 5077 3.515602 AATGAAGTTCTTCACCCTGCT 57.484 42.857 15.98 0.00 33.23 4.24
4235 5078 2.260844 TGAAGTTCTTCACCCTGCTG 57.739 50.000 10.67 0.00 0.00 4.41
4236 5079 0.877743 GAAGTTCTTCACCCTGCTGC 59.122 55.000 7.57 0.00 0.00 5.25
4237 5080 0.475906 AAGTTCTTCACCCTGCTGCT 59.524 50.000 0.00 0.00 0.00 4.24
4238 5081 0.250640 AGTTCTTCACCCTGCTGCTG 60.251 55.000 0.00 0.00 0.00 4.41
4239 5082 1.601759 TTCTTCACCCTGCTGCTGC 60.602 57.895 8.89 8.89 40.20 5.25
4240 5083 2.033757 CTTCACCCTGCTGCTGCT 59.966 61.111 17.00 0.00 40.48 4.24
4241 5084 2.281970 TTCACCCTGCTGCTGCTG 60.282 61.111 17.00 15.58 40.48 4.41
4262 5105 2.181521 GCTGCTGCTGCCTGATCTC 61.182 63.158 19.30 0.00 38.71 2.75
4265 5108 1.227615 GCTGCTGCCTGATCTCCTC 60.228 63.158 3.85 0.00 0.00 3.71
4293 5140 5.053145 GGTTCATGTATCATCTGTCTGTCC 58.947 45.833 0.00 0.00 0.00 4.02
4409 5256 0.889994 TGCAACCCTGATGATGCAAC 59.110 50.000 0.00 0.00 45.04 4.17
4581 5456 2.273449 CATGGAGGAGTGCCCCAC 59.727 66.667 0.00 0.00 37.34 4.61
4705 5584 4.804665 TGTCGACGTTCAGTAACATTTTCA 59.195 37.500 11.62 0.00 35.16 2.69
4706 5585 5.291371 TGTCGACGTTCAGTAACATTTTCAA 59.709 36.000 11.62 0.00 35.16 2.69
4760 5640 0.174389 CTCCAGATCACTGTCCGTGG 59.826 60.000 0.00 0.00 43.94 4.94
4767 5647 0.603065 TCACTGTCCGTGGTCATCTG 59.397 55.000 0.00 0.00 43.94 2.90
4770 5657 1.000955 ACTGTCCGTGGTCATCTGTTC 59.999 52.381 0.00 0.00 0.00 3.18
4776 5663 2.289694 CCGTGGTCATCTGTTCTCCTTT 60.290 50.000 0.00 0.00 0.00 3.11
4868 6116 0.037326 GATGTCGGTGCTCAGGAACA 60.037 55.000 0.00 0.00 0.00 3.18
4870 6118 0.396435 TGTCGGTGCTCAGGAACATT 59.604 50.000 0.00 0.00 0.00 2.71
4873 6121 1.879380 TCGGTGCTCAGGAACATTTTG 59.121 47.619 0.00 0.00 0.00 2.44
4912 6161 4.553330 TCAAGGGGAGACATACTTGTTC 57.447 45.455 0.00 0.00 40.74 3.18
4929 6178 0.886938 TTCACCGCGAAAATCTGGCA 60.887 50.000 8.23 0.00 0.00 4.92
4960 6209 1.601166 GTTCCAAACGTGGCCTTAGT 58.399 50.000 3.32 0.00 45.54 2.24
4961 6210 1.951602 GTTCCAAACGTGGCCTTAGTT 59.048 47.619 3.32 4.66 45.54 2.24
4962 6211 2.351706 TCCAAACGTGGCCTTAGTTT 57.648 45.000 14.85 14.85 45.54 2.66
4963 6212 2.657143 TCCAAACGTGGCCTTAGTTTT 58.343 42.857 17.01 2.75 45.54 2.43
4964 6213 3.025262 TCCAAACGTGGCCTTAGTTTTT 58.975 40.909 17.01 1.55 45.54 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 202 1.643868 CGGCTTCAAGCGCAATACCA 61.644 55.000 11.47 0.00 43.62 3.25
48 206 1.081242 CAACGGCTTCAAGCGCAAT 60.081 52.632 11.47 0.00 43.62 3.56
83 241 8.873830 CAACTCATACAATGTAGTCCAGTTTAG 58.126 37.037 0.00 0.00 0.00 1.85
84 242 7.333423 GCAACTCATACAATGTAGTCCAGTTTA 59.667 37.037 0.00 0.00 0.00 2.01
113 273 2.536761 AAGTTTGATCGAACGGACCA 57.463 45.000 18.19 0.00 34.74 4.02
116 276 4.158949 TGGATCTAAGTTTGATCGAACGGA 59.841 41.667 18.19 16.90 40.71 4.69
130 290 2.620251 TCATGGCCGTTGGATCTAAG 57.380 50.000 0.00 0.00 0.00 2.18
161 325 2.412089 AGTCGTTCATAACTCTTTGCGC 59.588 45.455 0.00 0.00 0.00 6.09
162 326 3.428870 ACAGTCGTTCATAACTCTTTGCG 59.571 43.478 0.00 0.00 0.00 4.85
163 327 4.992381 ACAGTCGTTCATAACTCTTTGC 57.008 40.909 0.00 0.00 0.00 3.68
164 328 7.908082 TCAAAAACAGTCGTTCATAACTCTTTG 59.092 33.333 0.00 0.00 32.91 2.77
165 329 7.981142 TCAAAAACAGTCGTTCATAACTCTTT 58.019 30.769 0.00 0.00 32.91 2.52
166 330 7.280205 ACTCAAAAACAGTCGTTCATAACTCTT 59.720 33.333 0.00 0.00 32.91 2.85
167 331 6.761714 ACTCAAAAACAGTCGTTCATAACTCT 59.238 34.615 0.00 0.00 32.91 3.24
168 332 6.846283 CACTCAAAAACAGTCGTTCATAACTC 59.154 38.462 0.00 0.00 32.91 3.01
169 333 6.315393 ACACTCAAAAACAGTCGTTCATAACT 59.685 34.615 0.00 0.00 32.91 2.24
170 334 6.483687 ACACTCAAAAACAGTCGTTCATAAC 58.516 36.000 0.00 0.00 32.91 1.89
171 335 6.671614 ACACTCAAAAACAGTCGTTCATAA 57.328 33.333 0.00 0.00 32.91 1.90
172 336 6.671614 AACACTCAAAAACAGTCGTTCATA 57.328 33.333 0.00 0.00 32.91 2.15
173 337 5.560966 AACACTCAAAAACAGTCGTTCAT 57.439 34.783 0.00 0.00 32.91 2.57
174 338 5.365403 AAACACTCAAAAACAGTCGTTCA 57.635 34.783 0.00 0.00 32.91 3.18
175 339 5.285370 GGAAAACACTCAAAAACAGTCGTTC 59.715 40.000 0.00 0.00 32.91 3.95
176 340 5.048294 AGGAAAACACTCAAAAACAGTCGTT 60.048 36.000 0.00 0.00 36.73 3.85
177 341 4.457949 AGGAAAACACTCAAAAACAGTCGT 59.542 37.500 0.00 0.00 0.00 4.34
178 342 4.981794 AGGAAAACACTCAAAAACAGTCG 58.018 39.130 0.00 0.00 0.00 4.18
187 351 6.790232 AATCTCCAAAAGGAAAACACTCAA 57.210 33.333 0.00 0.00 0.00 3.02
216 380 9.603921 AACGGAGGAAGTATTTATCGAATTTAA 57.396 29.630 0.00 0.00 0.00 1.52
223 387 5.197682 AGGAACGGAGGAAGTATTTATCG 57.802 43.478 0.00 0.00 0.00 2.92
274 442 4.513442 TGCATCCGCTTGTAGTTCTTATT 58.487 39.130 0.00 0.00 39.64 1.40
282 450 4.809673 TGTCTATATGCATCCGCTTGTAG 58.190 43.478 0.19 0.00 37.95 2.74
381 551 7.721399 CCTAGTACTAAATTACTCCCTCCGTTA 59.279 40.741 3.76 0.00 34.10 3.18
462 636 3.947834 CCTGATTTTCTACGGCAAGGATT 59.052 43.478 0.00 0.00 0.00 3.01
491 668 0.107165 GGGTCCTCTTTTGATCCCGG 60.107 60.000 0.00 0.00 0.00 5.73
893 1073 3.866582 CTGTGGGGGCCTCGGATC 61.867 72.222 0.84 0.00 0.00 3.36
990 1495 2.202932 AGCGCCATAGCTTCGGTG 60.203 61.111 2.29 9.68 46.80 4.94
1129 1635 1.702491 GAAATCGGAGGCGAAACCCG 61.702 60.000 0.00 0.00 44.22 5.28
1170 1676 4.720046 GGGAATCCCAGAGAAAATACTCC 58.280 47.826 14.67 0.00 44.65 3.85
1199 1705 2.421424 CGGGAGAGAAAATGAAAGGCTG 59.579 50.000 0.00 0.00 0.00 4.85
1306 1812 1.531149 AGACAGTGGAAAAATCGTGCG 59.469 47.619 0.00 0.00 0.00 5.34
1313 1819 1.134220 ACCAGCGAGACAGTGGAAAAA 60.134 47.619 0.00 0.00 35.17 1.94
1371 1877 7.179338 GCTATATCTCTCCCCTCACTAAATTCA 59.821 40.741 0.00 0.00 0.00 2.57
1399 1906 2.239150 AGATGCACTGAGAATCCAAGCT 59.761 45.455 0.00 0.00 0.00 3.74
1415 1922 6.683974 TGCTCCTAAACAATTAGAAGATGC 57.316 37.500 0.00 0.00 40.90 3.91
1445 1953 3.071479 TGAACTAGTGCCGGATCAAAAC 58.929 45.455 5.05 0.00 0.00 2.43
1662 2170 8.617761 AAAATTGAAACAACAAATCAACATGC 57.382 26.923 0.00 0.00 36.03 4.06
1707 2215 1.879380 TGTGACATTGCAGCAGTAACC 59.121 47.619 0.00 0.00 0.00 2.85
1715 2223 3.624900 CTTCAAGTGTGTGACATTGCAG 58.375 45.455 0.00 0.00 0.00 4.41
1746 2254 6.769822 CCAGAATCACAGCCAATCTACTAATT 59.230 38.462 0.00 0.00 0.00 1.40
1763 2271 5.010112 GCTATGTACAGCTAGACCAGAATCA 59.990 44.000 0.33 0.00 38.57 2.57
1784 2292 2.094390 CCTTACACTAACACGCAGGCTA 60.094 50.000 0.00 0.00 0.00 3.93
1801 2309 2.771089 CAAGAGTGCTGTGAAGCCTTA 58.229 47.619 0.00 0.00 0.00 2.69
1802 2310 1.602311 CAAGAGTGCTGTGAAGCCTT 58.398 50.000 0.00 0.00 0.00 4.35
1843 2356 3.660571 CATCACCACCCCCTGCCA 61.661 66.667 0.00 0.00 0.00 4.92
1924 2571 6.377429 CGTGGATAGATAGGTATGGTGTATGT 59.623 42.308 0.00 0.00 0.00 2.29
1944 2591 1.146041 GGGTATGCATGAGCGTGGA 59.854 57.895 10.16 0.00 46.23 4.02
1959 2606 7.722949 AGAAATCATAAATCATGTTGTGGGT 57.277 32.000 0.00 0.00 35.96 4.51
1960 2607 9.520204 GTAAGAAATCATAAATCATGTTGTGGG 57.480 33.333 0.00 0.00 35.96 4.61
2003 2651 7.928307 AGCAATTGATCAGTACAACAGTAAT 57.072 32.000 10.34 0.00 0.00 1.89
2006 2654 6.639632 AAAGCAATTGATCAGTACAACAGT 57.360 33.333 10.34 0.00 0.00 3.55
2007 2655 8.239314 ACATAAAGCAATTGATCAGTACAACAG 58.761 33.333 10.34 0.00 0.00 3.16
2032 2680 3.315191 ACACACACAATAACTGCCAAGAC 59.685 43.478 0.00 0.00 0.00 3.01
2034 2682 3.988379 ACACACACAATAACTGCCAAG 57.012 42.857 0.00 0.00 0.00 3.61
2035 2683 4.727507 AAACACACACAATAACTGCCAA 57.272 36.364 0.00 0.00 0.00 4.52
2072 2720 4.455533 TCACAGCCACATAATTCAGAACAC 59.544 41.667 0.00 0.00 0.00 3.32
2112 2760 7.882791 TGTATTCTGTTGAACACCATGAATAGT 59.117 33.333 14.28 0.00 34.71 2.12
2179 2827 5.554822 TTATACCGCTGAATTTTGACCAC 57.445 39.130 0.00 0.00 0.00 4.16
2234 2882 8.234546 TCGTCAAAAATAGAACAAGGAAATAGC 58.765 33.333 0.00 0.00 0.00 2.97
2272 2920 7.621428 TGCAAATTCCTTGAGAGAAGAATAG 57.379 36.000 0.00 0.00 37.17 1.73
2274 2922 6.718454 TCTTGCAAATTCCTTGAGAGAAGAAT 59.282 34.615 0.00 0.00 37.17 2.40
2277 2925 5.954296 TCTTGCAAATTCCTTGAGAGAAG 57.046 39.130 0.00 0.00 37.17 2.85
2374 3023 6.071984 GGATAGAGTTGGATAGAGAACCTGA 58.928 44.000 0.00 0.00 0.00 3.86
2413 3062 7.985752 AGAAAAACTAATAGGATAGGGTTGTCG 59.014 37.037 0.00 0.00 0.00 4.35
2478 3127 2.361230 CCGCCCCTCCCTTCAAAC 60.361 66.667 0.00 0.00 0.00 2.93
2597 3247 5.922544 GCACTGACTTTAACATCTTGCAATT 59.077 36.000 0.00 0.00 0.00 2.32
2621 3271 9.454585 CCAAATAGCACATATCATTTTACACAG 57.545 33.333 0.00 0.00 0.00 3.66
2638 3288 3.268334 AGTTACCCATCCACCAAATAGCA 59.732 43.478 0.00 0.00 0.00 3.49
2639 3289 3.898482 AGTTACCCATCCACCAAATAGC 58.102 45.455 0.00 0.00 0.00 2.97
2640 3290 6.248569 AGTAGTTACCCATCCACCAAATAG 57.751 41.667 0.00 0.00 0.00 1.73
2645 3323 5.727279 TGAATTAGTAGTTACCCATCCACCA 59.273 40.000 0.00 0.00 0.00 4.17
2661 3339 6.009589 TGTGACAACCCATTCATGAATTAGT 58.990 36.000 18.41 14.93 0.00 2.24
2679 3357 7.659652 TTGATAACACGTTCATATTGTGACA 57.340 32.000 0.00 0.00 36.32 3.58
2779 3457 3.641437 TGCATAACTGTGGTGCTTTTC 57.359 42.857 15.64 0.00 39.52 2.29
2784 3462 1.339610 TGGTTTGCATAACTGTGGTGC 59.660 47.619 9.84 9.84 39.26 5.01
2796 3474 0.533308 GTGTAGACCGGTGGTTTGCA 60.533 55.000 14.63 1.26 35.25 4.08
2805 3483 5.723672 ACTATTCCATATGTGTAGACCGG 57.276 43.478 0.00 0.00 0.00 5.28
2831 3509 9.809395 ACAACCTATAGAATGTAGAGTATAGCA 57.191 33.333 0.00 0.00 0.00 3.49
2837 3515 8.280084 TGGAGTACAACCTATAGAATGTAGAGT 58.720 37.037 14.29 6.18 0.00 3.24
2878 3556 6.961359 TGTGCAGTGTATATAGTTCACAAC 57.039 37.500 7.20 0.00 34.94 3.32
2881 3559 8.765219 CCTTATTGTGCAGTGTATATAGTTCAC 58.235 37.037 0.00 1.10 0.00 3.18
3047 3860 8.596271 TTGATAATGTACCGTAACACCATATG 57.404 34.615 0.00 0.00 30.75 1.78
3110 3923 6.708054 AGCATGCATTCCAGAGTTAGTATTAC 59.292 38.462 21.98 0.00 0.00 1.89
3112 3925 5.530171 CAGCATGCATTCCAGAGTTAGTATT 59.470 40.000 21.98 0.00 0.00 1.89
3143 3956 2.373224 AGCAAAGCTATTCTGAAGGCC 58.627 47.619 0.00 0.00 36.99 5.19
3201 4014 6.038603 GGTACTGCAATAGAATTCATCAAGCA 59.961 38.462 8.44 9.81 0.00 3.91
3221 4034 9.274206 GACATCTTTGTAAGAAGAAAAGGTACT 57.726 33.333 0.00 0.00 41.63 2.73
3234 4047 5.289675 GTCCGACATGAGACATCTTTGTAAG 59.710 44.000 0.00 0.00 35.79 2.34
3247 4060 4.937620 CCCCAATATTATGTCCGACATGAG 59.062 45.833 22.00 4.21 39.53 2.90
3249 4062 4.905429 TCCCCAATATTATGTCCGACATG 58.095 43.478 22.00 7.33 39.53 3.21
3250 4063 5.779241 ATCCCCAATATTATGTCCGACAT 57.221 39.130 17.92 17.92 42.35 3.06
3251 4064 5.576563 AATCCCCAATATTATGTCCGACA 57.423 39.130 3.10 3.10 0.00 4.35
3252 4065 8.575649 AATAAATCCCCAATATTATGTCCGAC 57.424 34.615 0.00 0.00 0.00 4.79
3253 4066 9.594936 AAAATAAATCCCCAATATTATGTCCGA 57.405 29.630 0.00 0.00 0.00 4.55
3279 4092 4.158394 GGGTAGCAAGCAAATCATCAGAAA 59.842 41.667 0.00 0.00 0.00 2.52
3285 4098 2.834638 AGGGGTAGCAAGCAAATCAT 57.165 45.000 0.00 0.00 0.00 2.45
3303 4117 4.478206 TCAAGTCAGCTTCTCCCATTAG 57.522 45.455 0.00 0.00 31.49 1.73
3308 4122 2.499289 TGAGATCAAGTCAGCTTCTCCC 59.501 50.000 6.83 0.00 31.49 4.30
3341 4155 7.916450 CAAAATTTCGTTTTTAGGTACAGACCA 59.084 33.333 0.00 0.00 42.08 4.02
3343 4157 8.845942 ACAAAATTTCGTTTTTAGGTACAGAC 57.154 30.769 0.00 0.00 37.93 3.51
3345 4159 9.894439 CAAACAAAATTTCGTTTTTAGGTACAG 57.106 29.630 4.49 0.00 37.93 2.74
3350 4164 9.980780 ATGAACAAACAAAATTTCGTTTTTAGG 57.019 25.926 4.49 0.00 37.93 2.69
3357 4177 7.232994 CACAACATGAACAAACAAAATTTCGT 58.767 30.769 0.00 0.00 0.00 3.85
3358 4178 6.192500 GCACAACATGAACAAACAAAATTTCG 59.808 34.615 0.00 0.00 0.00 3.46
3359 4179 7.020010 TGCACAACATGAACAAACAAAATTTC 58.980 30.769 0.00 0.00 0.00 2.17
3362 4182 5.642919 ACTGCACAACATGAACAAACAAAAT 59.357 32.000 0.00 0.00 0.00 1.82
3374 4194 2.582728 AACACCAACTGCACAACATG 57.417 45.000 0.00 0.00 0.00 3.21
3375 4195 4.935352 AATAACACCAACTGCACAACAT 57.065 36.364 0.00 0.00 0.00 2.71
3380 4200 4.314740 TCCAAAATAACACCAACTGCAC 57.685 40.909 0.00 0.00 0.00 4.57
3421 4241 2.360439 TTTGGGGTAGGTGTGGGTGC 62.360 60.000 0.00 0.00 0.00 5.01
3432 4252 4.093011 CACCATTCCTTTCATTTGGGGTA 58.907 43.478 0.00 0.00 0.00 3.69
3433 4253 2.905736 CACCATTCCTTTCATTTGGGGT 59.094 45.455 0.00 0.00 0.00 4.95
3434 4254 2.355007 GCACCATTCCTTTCATTTGGGG 60.355 50.000 0.00 0.00 33.87 4.96
3435 4255 2.674747 CGCACCATTCCTTTCATTTGGG 60.675 50.000 0.00 0.00 0.00 4.12
3438 4258 2.524306 TCCGCACCATTCCTTTCATTT 58.476 42.857 0.00 0.00 0.00 2.32
3440 4260 2.094675 CTTCCGCACCATTCCTTTCAT 58.905 47.619 0.00 0.00 0.00 2.57
3453 4279 3.953712 TCACTTGAGATAACTTCCGCA 57.046 42.857 0.00 0.00 0.00 5.69
3454 4280 4.433615 TCATCACTTGAGATAACTTCCGC 58.566 43.478 0.00 0.00 0.00 5.54
3534 4360 5.103728 TGAAGACTCTCTGGATACTGGAGAT 60.104 44.000 7.13 0.00 42.13 2.75
3547 4373 2.500910 CCTGCTGGAATGAAGACTCTCT 59.499 50.000 2.92 0.00 34.57 3.10
3564 4390 1.819905 GCCCACTAGAGTCTCCTGC 59.180 63.158 0.00 0.00 0.00 4.85
3690 4516 0.829990 TCCTCATGTAGCGCCATTGA 59.170 50.000 2.29 1.38 0.00 2.57
3738 4564 1.021390 GGTCAGCGTGTCCTTCCATG 61.021 60.000 0.00 0.00 0.00 3.66
3753 4579 3.330405 TCTGATGATGAAACTTGGGGTCA 59.670 43.478 0.00 0.00 0.00 4.02
3782 4608 1.810151 TCTCCCGCTGTTTATTGTTGC 59.190 47.619 0.00 0.00 0.00 4.17
3798 4627 2.109126 GTTGTCGGCATGGCTCTCC 61.109 63.158 18.09 2.77 0.00 3.71
3806 4635 1.237285 GCTGAACCTGTTGTCGGCAT 61.237 55.000 0.00 0.00 0.00 4.40
3810 4639 0.798776 GGATGCTGAACCTGTTGTCG 59.201 55.000 0.00 0.00 0.00 4.35
3838 4667 0.460284 ATGCCGTTCATCACCTCGAC 60.460 55.000 0.00 0.00 0.00 4.20
3867 4696 2.029964 GACTTGTCCACCGGCGAA 59.970 61.111 9.30 0.00 0.00 4.70
3972 4801 3.840666 TCTACACAAGGCTCCTCATCTTT 59.159 43.478 0.00 0.00 0.00 2.52
4113 4946 3.288092 AGTCGGTGCTAGATACACATCA 58.712 45.455 0.00 0.00 39.87 3.07
4180 5021 2.265182 GGGCAAACTTACTGCGGCA 61.265 57.895 1.29 1.29 40.88 5.69
4258 5101 5.901853 TGATACATGAACCTTGAGAGGAGAT 59.098 40.000 0.00 0.00 46.74 2.75
4265 5108 6.479331 CAGACAGATGATACATGAACCTTGAG 59.521 42.308 0.00 0.00 0.00 3.02
4409 5256 2.082231 CTGTCAACCTCATGCTTCAGG 58.918 52.381 0.00 0.00 35.69 3.86
4480 5355 0.947244 GACCTGTCTTGGTGCTGTTG 59.053 55.000 0.00 0.00 41.00 3.33
4488 5363 1.528129 GAGCAAAGGACCTGTCTTGG 58.472 55.000 0.00 0.00 0.00 3.61
4659 5534 1.202927 CCTGTTGGCCAAGGAAGAAGA 60.203 52.381 21.21 0.00 0.00 2.87
4660 5535 1.251251 CCTGTTGGCCAAGGAAGAAG 58.749 55.000 21.21 9.56 0.00 2.85
4662 5537 1.065410 TCCCTGTTGGCCAAGGAAGA 61.065 55.000 23.05 13.50 30.39 2.87
4666 5541 0.967380 GACATCCCTGTTGGCCAAGG 60.967 60.000 21.21 18.05 35.14 3.61
4667 5542 1.308069 CGACATCCCTGTTGGCCAAG 61.308 60.000 21.21 8.16 35.14 3.61
4668 5543 1.303236 CGACATCCCTGTTGGCCAA 60.303 57.895 16.05 16.05 35.14 4.52
4670 5545 1.745489 GTCGACATCCCTGTTGGCC 60.745 63.158 11.55 0.00 35.66 5.36
4671 5546 2.100631 CGTCGACATCCCTGTTGGC 61.101 63.158 17.16 0.00 37.92 4.52
4672 5547 0.320421 AACGTCGACATCCCTGTTGG 60.320 55.000 17.16 0.00 37.37 3.77
4705 5584 3.963428 ACTAGAACGGAAGCTCATGTT 57.037 42.857 0.00 0.00 0.00 2.71
4706 5585 4.270834 TCTACTAGAACGGAAGCTCATGT 58.729 43.478 0.00 0.00 0.00 3.21
4770 5657 3.571401 AGGTGCACAAATCTCAAAAGGAG 59.429 43.478 20.43 0.00 45.49 3.69
4776 5663 5.451798 GGAAGAAAAGGTGCACAAATCTCAA 60.452 40.000 20.43 0.00 0.00 3.02
4854 5741 1.068333 CCAAAATGTTCCTGAGCACCG 60.068 52.381 0.00 0.00 0.00 4.94
4868 6116 4.154942 AGAACAGAACCTCATGCCAAAAT 58.845 39.130 0.00 0.00 0.00 1.82
4870 6118 3.228188 AGAACAGAACCTCATGCCAAA 57.772 42.857 0.00 0.00 0.00 3.28
4873 6121 2.783135 TGAAGAACAGAACCTCATGCC 58.217 47.619 0.00 0.00 0.00 4.40
4912 6161 1.013596 TATGCCAGATTTTCGCGGTG 58.986 50.000 6.13 0.00 0.00 4.94


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

AutoCloner maintained by Alex Coulton.