Multiple sequence alignment - TraesCS3D01G361700

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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 TraesCS3D01G361700 chr3D 100.000 2516 0 0 2219 4734 475589328 475591843 0.000000e+00 4647.0
1 TraesCS3D01G361700 chr3D 100.000 2014 0 0 1 2014 475587110 475589123 0.000000e+00 3720.0
2 TraesCS3D01G361700 chr3D 88.332 1457 122 28 471 1906 475442131 475443560 0.000000e+00 1705.0
3 TraesCS3D01G361700 chr3D 85.094 1543 138 51 2492 4001 475443621 475445104 0.000000e+00 1491.0
4 TraesCS3D01G361700 chr3D 85.538 892 90 19 923 1804 475550496 475551358 0.000000e+00 896.0
5 TraesCS3D01G361700 chr3D 86.240 625 52 20 3383 3991 475552142 475552748 0.000000e+00 647.0
6 TraesCS3D01G361700 chr3D 90.724 442 33 4 2879 3319 475551710 475552144 2.460000e-162 582.0
7 TraesCS3D01G361700 chr3D 81.986 433 45 16 1 415 475549221 475549638 2.110000e-88 337.0
8 TraesCS3D01G361700 chr3D 91.489 141 11 1 471 610 475549977 475550117 4.830000e-45 193.0
9 TraesCS3D01G361700 chr3D 100.000 30 0 0 1932 1961 475443565 475443594 6.620000e-04 56.5
10 TraesCS3D01G361700 chr3B 94.256 1915 82 16 2486 4378 632549325 632551233 0.000000e+00 2902.0
11 TraesCS3D01G361700 chr3B 95.357 1809 47 12 215 2014 632547033 632548813 0.000000e+00 2841.0
12 TraesCS3D01G361700 chr3B 86.398 1588 151 35 340 1905 632119077 632120621 0.000000e+00 1676.0
13 TraesCS3D01G361700 chr3B 84.065 1299 131 36 624 1890 632202895 632204149 0.000000e+00 1182.0
14 TraesCS3D01G361700 chr3B 85.146 1131 108 27 2492 3608 632120681 632121765 0.000000e+00 1103.0
15 TraesCS3D01G361700 chr3B 88.534 689 58 14 2851 3535 632204429 632205100 0.000000e+00 815.0
16 TraesCS3D01G361700 chr3B 85.138 471 37 18 3560 4013 632121759 632122213 7.220000e-123 451.0
17 TraesCS3D01G361700 chr3B 92.742 248 16 2 3890 4136 632552332 632552578 1.620000e-94 357.0
18 TraesCS3D01G361700 chr3B 82.380 437 44 14 1 415 632202254 632202679 2.710000e-92 350.0
19 TraesCS3D01G361700 chr3B 94.211 190 10 1 28 216 632546816 632547005 5.990000e-74 289.0
20 TraesCS3D01G361700 chr3B 88.163 245 22 7 3568 3807 632205438 632205680 7.750000e-73 285.0
21 TraesCS3D01G361700 chr3B 92.188 192 14 1 4544 4734 632552055 632552246 2.170000e-68 270.0
22 TraesCS3D01G361700 chr3B 90.798 163 15 0 4381 4543 632551828 632551990 7.980000e-53 219.0
23 TraesCS3D01G361700 chr3B 88.235 187 13 7 3811 3994 632205798 632205978 1.030000e-51 215.0
24 TraesCS3D01G361700 chr3B 90.062 161 16 0 4386 4546 632600408 632600568 4.800000e-50 209.0
25 TraesCS3D01G361700 chr3B 91.489 141 11 1 471 610 632202710 632202850 4.830000e-45 193.0
26 TraesCS3D01G361700 chr3A 87.123 1460 134 26 471 1906 618163997 618165426 0.000000e+00 1605.0
27 TraesCS3D01G361700 chr3A 83.883 1545 145 50 2492 4013 618165486 618166949 0.000000e+00 1378.0
28 TraesCS3D01G361700 chr3A 100.000 30 0 0 1932 1961 618165430 618165459 6.620000e-04 56.5
29 TraesCS3D01G361700 chr5B 94.056 286 13 1 2851 3136 619136136 619135855 9.410000e-117 431.0
30 TraesCS3D01G361700 chr5B 94.056 286 13 1 2851 3136 619189307 619189026 9.410000e-117 431.0
31 TraesCS3D01G361700 chr5B 93.471 291 15 1 2851 3141 619105289 619105003 3.380000e-116 429.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS3D01G361700 chr3D 475587110 475591843 4733 False 4183.500000 4647 100.000000 1 4734 2 chr3D.!!$F3 4733
1 TraesCS3D01G361700 chr3D 475442131 475445104 2973 False 1084.166667 1705 91.142000 471 4001 3 chr3D.!!$F1 3530
2 TraesCS3D01G361700 chr3D 475549221 475552748 3527 False 531.000000 896 87.195400 1 3991 5 chr3D.!!$F2 3990
3 TraesCS3D01G361700 chr3B 632546816 632552578 5762 False 1146.333333 2902 93.258667 28 4734 6 chr3B.!!$F4 4706
4 TraesCS3D01G361700 chr3B 632119077 632122213 3136 False 1076.666667 1676 85.560667 340 4013 3 chr3B.!!$F2 3673
5 TraesCS3D01G361700 chr3B 632202254 632205978 3724 False 506.666667 1182 87.144333 1 3994 6 chr3B.!!$F3 3993
6 TraesCS3D01G361700 chr3A 618163997 618166949 2952 False 1013.166667 1605 90.335333 471 4013 3 chr3A.!!$F1 3542

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
965 1417 0.753111 AATTCCATCCCCTTCGCAGC 60.753 55.0 0.00 0.0 0.00 5.25 F
2328 2865 0.036952 TTCTAGAGTCGTCGTCGGGT 60.037 55.0 1.55 0.0 37.69 5.28 F
2468 3005 0.030369 CGGATCTAGTTTAGCGGCGT 59.970 55.0 9.37 0.0 0.00 5.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2449 2986 0.030369 ACGCCGCTAAACTAGATCCG 59.970 55.0 0.0 0.0 0.00 4.18 R
3346 3946 0.328258 AGGGCACGCTTAGGTTCATT 59.672 50.0 0.0 0.0 0.00 2.57 R
4368 5456 0.392461 GAGCACCGATGGTTTAGGCA 60.392 55.0 0.0 0.0 36.44 4.75 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
144 148 6.643360 ACAAATTTGGCGTGGTAAAGATTTAC 59.357 34.615 21.74 6.88 41.68 2.01
337 382 8.213518 TGTATCAAATGAGCTTGACTAATTCC 57.786 34.615 0.00 0.00 38.12 3.01
338 383 7.828717 TGTATCAAATGAGCTTGACTAATTCCA 59.171 33.333 0.00 0.00 38.12 3.53
441 814 6.788684 TTTACGATCAAATTCCACTCGAAA 57.211 33.333 0.00 0.00 33.08 3.46
495 868 9.764363 AGAATTCCACTGGAAAAAGTTTTAATC 57.236 29.630 14.66 0.00 45.41 1.75
515 893 1.757118 CGGGATCTTACTGGCAAGAGA 59.243 52.381 0.00 0.00 37.93 3.10
731 1146 1.309013 AGATGGGATCCAAGGGCCA 60.309 57.895 15.23 0.77 36.95 5.36
843 1258 1.763968 GGAAATTAAAGGCCGAGGCT 58.236 50.000 14.33 0.00 41.24 4.58
935 1386 1.271652 ACACTTCCTCTCTCTCGCTCA 60.272 52.381 0.00 0.00 0.00 4.26
965 1417 0.753111 AATTCCATCCCCTTCGCAGC 60.753 55.000 0.00 0.00 0.00 5.25
968 1420 4.883354 CATCCCCTTCGCAGCCCC 62.883 72.222 0.00 0.00 0.00 5.80
1210 1663 1.142465 CTCCCTCCACCTTCATCATGG 59.858 57.143 0.00 0.00 34.58 3.66
1276 1729 2.758327 TGGAGATCCCCGTGGTCG 60.758 66.667 0.00 0.00 34.29 4.79
1434 1887 7.814107 TGTTGTTCTCCTTTAATTGATCAATGC 59.186 33.333 21.39 3.64 0.00 3.56
1483 1937 3.558746 GGAGATTGGTAGATGAGCATGGG 60.559 52.174 0.00 0.00 34.92 4.00
1614 2069 4.811024 TCGCAGCTTATAGTCTTGATTTGG 59.189 41.667 0.00 0.00 0.00 3.28
1638 2093 6.238402 GGTTCTAATTAGCCGAAATCTTCCAC 60.238 42.308 7.67 0.00 0.00 4.02
1769 2242 4.692228 TGAATAGTTCGTCATGCTGCATA 58.308 39.130 15.78 0.00 0.00 3.14
1890 2392 5.391312 AGACAATGGCCAAACATTAGTTC 57.609 39.130 10.96 0.00 38.94 3.01
1891 2393 5.079643 AGACAATGGCCAAACATTAGTTCT 58.920 37.500 10.96 0.00 38.94 3.01
1892 2394 6.245408 AGACAATGGCCAAACATTAGTTCTA 58.755 36.000 10.96 0.00 38.94 2.10
1893 2395 6.891908 AGACAATGGCCAAACATTAGTTCTAT 59.108 34.615 10.96 0.00 38.94 1.98
1894 2396 8.052748 AGACAATGGCCAAACATTAGTTCTATA 58.947 33.333 10.96 0.00 38.94 1.31
1895 2397 7.996385 ACAATGGCCAAACATTAGTTCTATAC 58.004 34.615 10.96 0.00 38.94 1.47
1896 2398 7.068226 ACAATGGCCAAACATTAGTTCTATACC 59.932 37.037 10.96 0.00 38.94 2.73
1897 2399 6.068461 TGGCCAAACATTAGTTCTATACCA 57.932 37.500 0.61 0.00 36.84 3.25
1898 2400 6.668645 TGGCCAAACATTAGTTCTATACCAT 58.331 36.000 0.61 0.00 36.84 3.55
1899 2401 7.122715 TGGCCAAACATTAGTTCTATACCATT 58.877 34.615 0.61 0.00 36.84 3.16
1900 2402 7.617723 TGGCCAAACATTAGTTCTATACCATTT 59.382 33.333 0.61 0.00 36.84 2.32
1901 2403 8.474831 GGCCAAACATTAGTTCTATACCATTTT 58.525 33.333 0.00 0.00 36.84 1.82
1902 2404 9.869757 GCCAAACATTAGTTCTATACCATTTTT 57.130 29.630 0.00 0.00 36.84 1.94
1979 2515 0.588252 CCGCAAGTTTCAGTGGACTG 59.412 55.000 0.00 0.00 45.08 3.51
2271 2808 5.364778 ACGCTCATAGTTTATACATGCCAA 58.635 37.500 0.00 0.00 0.00 4.52
2272 2809 5.997746 ACGCTCATAGTTTATACATGCCAAT 59.002 36.000 0.00 0.00 0.00 3.16
2273 2810 6.486657 ACGCTCATAGTTTATACATGCCAATT 59.513 34.615 0.00 0.00 0.00 2.32
2274 2811 7.013274 ACGCTCATAGTTTATACATGCCAATTT 59.987 33.333 0.00 0.00 0.00 1.82
2275 2812 7.862372 CGCTCATAGTTTATACATGCCAATTTT 59.138 33.333 0.00 0.00 0.00 1.82
2276 2813 8.971321 GCTCATAGTTTATACATGCCAATTTTG 58.029 33.333 0.00 0.00 0.00 2.44
2282 2819 9.777297 AGTTTATACATGCCAATTTTGAACTTT 57.223 25.926 0.00 0.00 0.00 2.66
2284 2821 9.770097 TTTATACATGCCAATTTTGAACTTTCA 57.230 25.926 0.00 0.00 34.92 2.69
2285 2822 9.770097 TTATACATGCCAATTTTGAACTTTCAA 57.230 25.926 0.07 0.07 44.78 2.69
2286 2823 8.851541 ATACATGCCAATTTTGAACTTTCAAT 57.148 26.923 5.26 0.00 45.65 2.57
2287 2824 9.941325 ATACATGCCAATTTTGAACTTTCAATA 57.059 25.926 5.26 1.66 45.65 1.90
2288 2825 8.851541 ACATGCCAATTTTGAACTTTCAATAT 57.148 26.923 5.26 3.90 45.65 1.28
2289 2826 9.941325 ACATGCCAATTTTGAACTTTCAATATA 57.059 25.926 5.26 0.00 45.65 0.86
2314 2851 6.712241 ATCGAATGTCACACAAGTTTCTAG 57.288 37.500 0.00 0.00 0.00 2.43
2324 2861 3.907194 CACAAGTTTCTAGAGTCGTCGTC 59.093 47.826 0.00 0.00 0.00 4.20
2328 2865 0.036952 TTCTAGAGTCGTCGTCGGGT 60.037 55.000 1.55 0.00 37.69 5.28
2356 2893 1.143305 CGATGGCTGATGAATCGGAC 58.857 55.000 3.23 0.36 41.74 4.79
2361 2898 1.203928 GCTGATGAATCGGACGTGAG 58.796 55.000 0.00 0.00 35.13 3.51
2383 2920 1.603425 CGTGACGTCAATGGTGGTACA 60.603 52.381 21.95 0.00 0.00 2.90
2403 2940 9.688091 TGGTACACCATATTTTATGTGTGTTAT 57.312 29.630 18.29 5.69 42.01 1.89
2404 2941 9.944663 GGTACACCATATTTTATGTGTGTTATG 57.055 33.333 18.29 0.00 36.05 1.90
2414 2951 7.389803 TTTATGTGTGTTATGATTGGTCAGG 57.610 36.000 0.00 0.00 37.87 3.86
2416 2953 4.323417 TGTGTGTTATGATTGGTCAGGTC 58.677 43.478 0.00 0.00 37.87 3.85
2417 2954 4.041567 TGTGTGTTATGATTGGTCAGGTCT 59.958 41.667 0.00 0.00 37.87 3.85
2418 2955 4.393062 GTGTGTTATGATTGGTCAGGTCTG 59.607 45.833 0.00 0.00 37.87 3.51
2419 2956 3.375299 GTGTTATGATTGGTCAGGTCTGC 59.625 47.826 0.00 0.00 37.87 4.26
2420 2957 2.945668 GTTATGATTGGTCAGGTCTGCC 59.054 50.000 0.00 0.00 37.87 4.85
2421 2958 0.107508 ATGATTGGTCAGGTCTGCCG 60.108 55.000 0.00 0.00 37.87 5.69
2422 2959 1.450312 GATTGGTCAGGTCTGCCGG 60.450 63.158 0.00 0.00 40.50 6.13
2426 2963 2.741092 GTCAGGTCTGCCGGTTGA 59.259 61.111 1.90 0.00 40.50 3.18
2430 2967 2.359850 GGTCTGCCGGTTGATGCA 60.360 61.111 1.90 0.00 35.86 3.96
2431 2968 2.690778 GGTCTGCCGGTTGATGCAC 61.691 63.158 1.90 0.00 33.17 4.57
2432 2969 1.672356 GTCTGCCGGTTGATGCACT 60.672 57.895 1.90 0.00 33.17 4.40
2433 2970 1.073025 TCTGCCGGTTGATGCACTT 59.927 52.632 1.90 0.00 33.17 3.16
2434 2971 0.955428 TCTGCCGGTTGATGCACTTC 60.955 55.000 1.90 0.00 33.17 3.01
2435 2972 1.228094 TGCCGGTTGATGCACTTCA 60.228 52.632 1.90 0.00 31.31 3.02
2436 2973 0.608856 TGCCGGTTGATGCACTTCAT 60.609 50.000 1.90 0.00 38.32 2.57
2440 2977 2.291465 CCGGTTGATGCACTTCATATGG 59.709 50.000 2.13 0.00 35.05 2.74
2441 2978 2.287188 CGGTTGATGCACTTCATATGGC 60.287 50.000 2.13 0.00 35.05 4.40
2442 2979 2.287188 GGTTGATGCACTTCATATGGCG 60.287 50.000 2.13 0.00 35.05 5.69
2443 2980 1.596603 TGATGCACTTCATATGGCGG 58.403 50.000 2.13 0.00 35.05 6.13
2445 2982 1.532868 GATGCACTTCATATGGCGGTC 59.467 52.381 2.13 0.00 35.05 4.79
2447 2984 0.179045 GCACTTCATATGGCGGTCCT 60.179 55.000 2.13 0.00 0.00 3.85
2448 2985 1.871080 CACTTCATATGGCGGTCCTC 58.129 55.000 2.13 0.00 0.00 3.71
2449 2986 0.759346 ACTTCATATGGCGGTCCTCC 59.241 55.000 2.13 0.00 0.00 4.30
2463 3000 2.296752 GGTCCTCCGGATCTAGTTTAGC 59.703 54.545 3.57 0.00 32.73 3.09
2464 3001 2.030981 GTCCTCCGGATCTAGTTTAGCG 60.031 54.545 3.57 0.00 32.73 4.26
2465 3002 1.269998 CCTCCGGATCTAGTTTAGCGG 59.730 57.143 3.57 0.00 32.48 5.52
2467 3004 0.663568 CCGGATCTAGTTTAGCGGCG 60.664 60.000 0.51 0.51 0.00 6.46
2468 3005 0.030369 CGGATCTAGTTTAGCGGCGT 59.970 55.000 9.37 0.00 0.00 5.68
2470 3007 1.488527 GATCTAGTTTAGCGGCGTGG 58.511 55.000 9.37 0.00 0.00 4.94
2471 3008 0.822164 ATCTAGTTTAGCGGCGTGGT 59.178 50.000 9.37 0.00 0.00 4.16
2472 3009 0.108992 TCTAGTTTAGCGGCGTGGTG 60.109 55.000 9.37 0.00 0.00 4.17
2473 3010 1.079681 TAGTTTAGCGGCGTGGTGG 60.080 57.895 9.37 0.00 0.00 4.61
2474 3011 4.097863 GTTTAGCGGCGTGGTGGC 62.098 66.667 9.37 0.00 40.44 5.01
2482 3019 3.497879 GCGTGGTGGCCTATTGTC 58.502 61.111 3.32 0.00 0.00 3.18
2483 3020 2.112815 GCGTGGTGGCCTATTGTCC 61.113 63.158 3.32 0.00 0.00 4.02
2484 3021 1.298340 CGTGGTGGCCTATTGTCCA 59.702 57.895 3.32 0.18 0.00 4.02
2485 3022 0.107214 CGTGGTGGCCTATTGTCCAT 60.107 55.000 3.32 0.00 34.47 3.41
2486 3023 1.392589 GTGGTGGCCTATTGTCCATG 58.607 55.000 3.32 0.00 34.47 3.66
2487 3024 0.258484 TGGTGGCCTATTGTCCATGG 59.742 55.000 4.97 4.97 34.47 3.66
2489 3026 1.152984 TGGCCTATTGTCCATGGCG 60.153 57.895 6.96 0.00 45.75 5.69
2611 3192 2.725221 ATGAATTGCTGGAGGACCTC 57.275 50.000 13.60 13.60 37.04 3.85
2612 3193 1.661463 TGAATTGCTGGAGGACCTCT 58.339 50.000 20.97 0.00 37.04 3.69
2696 3278 5.129320 TCCTGATGCTATTAGAGTTTCAGCA 59.871 40.000 0.00 0.00 45.51 4.41
3277 3874 3.869272 GCAATGCTGGCCGTCTCG 61.869 66.667 0.00 0.00 0.00 4.04
3279 3876 1.741401 CAATGCTGGCCGTCTCGAA 60.741 57.895 0.00 0.00 0.00 3.71
3341 3941 1.002624 GGGTCATCGTCCCAAGCAA 60.003 57.895 0.00 0.00 44.05 3.91
3346 3946 2.115427 TCATCGTCCCAAGCAAGGATA 58.885 47.619 0.00 0.00 35.38 2.59
3355 3955 4.476846 TCCCAAGCAAGGATAATGAACCTA 59.523 41.667 0.00 0.00 35.25 3.08
3416 4016 1.537638 AGATGCTGGAGCGATACTACG 59.462 52.381 0.00 0.00 45.83 3.51
3483 4083 0.034670 GGACCAGAGCCTGCATTTCT 60.035 55.000 0.00 0.00 0.00 2.52
3659 4606 2.896443 CCTCGAGGGAGTTCCAGC 59.104 66.667 24.62 0.00 38.70 4.85
3660 4607 1.684049 CCTCGAGGGAGTTCCAGCT 60.684 63.158 24.62 0.00 38.70 4.24
3666 4624 1.920835 GGGAGTTCCAGCTGGACCT 60.921 63.158 35.26 33.07 45.39 3.85
3678 4636 3.289525 GGACCTCACTGGACCTCG 58.710 66.667 0.00 0.00 45.31 4.63
3744 4708 8.903820 AGTACCTATCCATTGATTTTAGTTTGC 58.096 33.333 0.00 0.00 32.18 3.68
3939 5027 4.448210 GAGAACCTTTGTTGTACCTGTGA 58.552 43.478 0.00 0.00 33.97 3.58
3948 5036 6.612247 TTGTTGTACCTGTGATGTTTGTAG 57.388 37.500 0.00 0.00 0.00 2.74
4044 5132 3.670377 AAAGGGTGCGCGGCTTTC 61.670 61.111 8.83 0.00 0.00 2.62
4053 5141 3.033764 GCGGCTTTCGTCACGTGA 61.034 61.111 15.76 15.76 41.72 4.35
4063 5151 1.668151 GTCACGTGACAGGGCCTTC 60.668 63.158 37.16 12.10 44.18 3.46
4079 5167 4.742201 TCAGTTCTGCTCGCGGGC 62.742 66.667 27.48 27.48 0.00 6.13
4110 5198 4.974368 ACAGAGAAGATAGAGTCGGTTG 57.026 45.455 0.00 0.00 0.00 3.77
4120 5208 2.280797 GTCGGTTGTCTGGCTGCA 60.281 61.111 0.50 0.00 0.00 4.41
4140 5228 1.674322 GCCACCAGCGGTTGTATGT 60.674 57.895 0.00 0.00 31.02 2.29
4149 5237 1.207329 GCGGTTGTATGTTCTCTCCCT 59.793 52.381 0.00 0.00 0.00 4.20
4159 5247 3.157087 TGTTCTCTCCCTTGGCAATTTC 58.843 45.455 0.00 0.00 0.00 2.17
4168 5256 3.392882 CCTTGGCAATTTCACTTTGTCC 58.607 45.455 0.00 0.00 0.00 4.02
4184 5272 1.753078 TCCGCATGCTCCTCTACGT 60.753 57.895 17.13 0.00 0.00 3.57
4197 5285 0.811915 TCTACGTCTGCAAGCTCCTC 59.188 55.000 0.00 0.00 0.00 3.71
4200 5288 2.947532 CGTCTGCAAGCTCCTCCCA 61.948 63.158 0.00 0.00 0.00 4.37
4215 5303 5.355630 GCTCCTCCCAGAAAAATAAGAGAAC 59.644 44.000 0.00 0.00 0.00 3.01
4218 5306 6.942576 TCCTCCCAGAAAAATAAGAGAACTTG 59.057 38.462 0.00 0.00 37.53 3.16
4254 5342 8.297426 TGTTAATTAATACAATTGCACGTGGAA 58.703 29.630 25.00 25.00 0.00 3.53
4260 5348 2.425312 ACAATTGCACGTGGAAAACTGA 59.575 40.909 26.45 2.54 0.00 3.41
4261 5349 3.044986 CAATTGCACGTGGAAAACTGAG 58.955 45.455 26.45 8.96 0.00 3.35
4262 5350 0.380378 TTGCACGTGGAAAACTGAGC 59.620 50.000 20.84 0.00 0.00 4.26
4268 5356 2.687935 ACGTGGAAAACTGAGCATTGTT 59.312 40.909 0.00 0.00 0.00 2.83
4321 5409 8.454570 AAAAGAAAAGACAAACGGTATTAGGA 57.545 30.769 0.00 0.00 29.05 2.94
4327 5415 8.907222 AAAGACAAACGGTATTAGGAAAACTA 57.093 30.769 0.00 0.00 29.05 2.24
4345 5433 9.600646 GGAAAACTAGAGAAATTTCTTCGAAAG 57.399 33.333 21.33 15.32 37.73 2.62
4359 5447 4.528596 TCTTCGAAAGGTCTTCAAGATCCT 59.471 41.667 0.00 0.00 30.52 3.24
4364 5452 5.625656 CGAAAGGTCTTCAAGATCCTAAGCT 60.626 44.000 8.47 0.00 29.62 3.74
4368 5456 7.444703 AGGTCTTCAAGATCCTAAGCTAAAT 57.555 36.000 6.73 0.00 28.51 1.40
4378 5466 5.444744 TCCTAAGCTAAATGCCTAAACCA 57.555 39.130 0.00 0.00 44.23 3.67
4380 5468 6.062095 TCCTAAGCTAAATGCCTAAACCATC 58.938 40.000 0.00 0.00 44.23 3.51
4417 6097 1.522580 GATGGAAGGCCTCGAGCAC 60.523 63.158 5.23 1.23 46.50 4.40
4421 6101 1.004440 GAAGGCCTCGAGCACTTGT 60.004 57.895 20.16 2.37 46.50 3.16
4422 6102 0.603975 GAAGGCCTCGAGCACTTGTT 60.604 55.000 20.16 3.20 46.50 2.83
4429 6109 2.032549 CCTCGAGCACTTGTTCAAGTTG 60.033 50.000 14.43 11.36 0.00 3.16
4437 6117 1.377366 TTGTTCAAGTTGGCGGCGAA 61.377 50.000 12.98 0.00 0.00 4.70
4442 6122 2.677003 AAGTTGGCGGCGAATCACG 61.677 57.895 12.98 0.00 45.66 4.35
4451 6131 3.084579 CGAATCACGGACTGCTGC 58.915 61.111 0.00 0.00 38.46 5.25
4453 6133 2.045926 AATCACGGACTGCTGCCC 60.046 61.111 0.00 0.00 0.00 5.36
4478 6158 0.036875 GGCAAGGAGGGGATTATCCG 59.963 60.000 5.03 0.00 40.73 4.18
4481 6161 2.838202 GCAAGGAGGGGATTATCCGATA 59.162 50.000 5.03 0.00 40.73 2.92
4556 6300 2.787601 TGTCGATGTAACGCTATCCC 57.212 50.000 0.00 0.00 0.00 3.85
4560 6304 4.155462 TGTCGATGTAACGCTATCCCTATC 59.845 45.833 0.00 0.00 0.00 2.08
4563 6307 3.936372 TGTAACGCTATCCCTATCTGC 57.064 47.619 0.00 0.00 0.00 4.26
4570 6314 2.094078 GCTATCCCTATCTGCTGCTCTG 60.094 54.545 0.00 0.00 0.00 3.35
4588 6332 1.209504 CTGAAGATCGGGTGGGCTTAA 59.790 52.381 0.00 0.00 0.00 1.85
4610 6354 0.670546 CGCGATGGGATGGGATGTAC 60.671 60.000 0.00 0.00 0.00 2.90
4619 6363 2.103263 GGATGGGATGTACAGTGGAGAC 59.897 54.545 0.33 0.00 0.00 3.36
4622 6366 3.248024 TGGGATGTACAGTGGAGACTTT 58.752 45.455 0.33 0.00 0.00 2.66
4664 6408 5.869888 GTCTACCATTGACGATCAAGAAACT 59.130 40.000 0.00 0.00 40.05 2.66
4694 6438 2.604914 CACAATTTCAGGAGATCGTCGG 59.395 50.000 0.00 0.00 0.00 4.79
4716 6461 0.876342 GGATCGCTAGGAAGTTGCCG 60.876 60.000 0.00 0.00 0.00 5.69
4725 6470 0.388520 GGAAGTTGCCGAATTGGTGC 60.389 55.000 0.00 0.00 41.21 5.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
98 102 8.938801 TTTGTATGATAAGCATCCAATACCAT 57.061 30.769 0.00 0.00 33.55 3.55
329 370 4.263727 TGGTACAGTGCCATTGGAATTAGT 60.264 41.667 6.22 0.00 0.00 2.24
334 379 1.423541 AGTGGTACAGTGCCATTGGAA 59.576 47.619 14.19 0.00 42.47 3.53
335 380 1.064003 AGTGGTACAGTGCCATTGGA 58.936 50.000 14.19 0.00 42.47 3.53
336 381 2.779755 TAGTGGTACAGTGCCATTGG 57.220 50.000 14.19 0.00 44.58 3.16
337 382 3.937814 TCTTAGTGGTACAGTGCCATTG 58.062 45.455 14.19 4.98 44.58 2.82
338 383 4.634012 TTCTTAGTGGTACAGTGCCATT 57.366 40.909 14.19 12.24 44.58 3.16
492 865 2.771943 TCTTGCCAGTAAGATCCCGATT 59.228 45.455 0.00 0.00 32.02 3.34
495 868 1.757118 TCTCTTGCCAGTAAGATCCCG 59.243 52.381 0.00 0.00 36.21 5.14
515 893 2.556257 TGTCCGTATGCGCATAAATGT 58.444 42.857 30.50 8.03 36.67 2.71
649 1060 1.394917 GGAGTCAGTTATTGCGCACTG 59.605 52.381 11.12 15.02 41.65 3.66
650 1061 1.276421 AGGAGTCAGTTATTGCGCACT 59.724 47.619 11.12 7.82 0.00 4.40
651 1062 1.394917 CAGGAGTCAGTTATTGCGCAC 59.605 52.381 11.12 0.00 0.00 5.34
659 1070 4.654262 ACCAAGTTTCTCAGGAGTCAGTTA 59.346 41.667 0.00 0.00 0.00 2.24
731 1146 1.448540 CACCGGAGCAGCGAAGATT 60.449 57.895 9.46 0.00 0.00 2.40
843 1258 4.020751 GCATCATATAGAGGAGGAAGTGCA 60.021 45.833 0.00 0.00 0.00 4.57
935 1386 2.677914 GGATGGAATTTCGGGGGAATT 58.322 47.619 0.00 0.00 0.00 2.17
1434 1887 3.438360 AGTCTGCAAACAAAAGAAAGCG 58.562 40.909 0.00 0.00 0.00 4.68
1483 1937 3.050275 GTCGCCCACTTGTGCTCC 61.050 66.667 0.00 0.00 0.00 4.70
1614 2069 6.509677 CGTGGAAGATTTCGGCTAATTAGAAC 60.510 42.308 16.85 7.06 0.00 3.01
1638 2093 6.443934 AGACTTCCGAATCATATAGATCCG 57.556 41.667 0.00 0.00 35.39 4.18
1914 2416 8.300286 TCTGCAATTCGACAAAAATAAATGGTA 58.700 29.630 0.00 0.00 0.00 3.25
1916 2418 7.579589 TCTGCAATTCGACAAAAATAAATGG 57.420 32.000 0.00 0.00 0.00 3.16
1979 2515 1.339535 CCCCTTCTGTCCTCTCAAAGC 60.340 57.143 0.00 0.00 0.00 3.51
2225 2761 9.562583 GCGTAATTAATTGGTTCATACTCAAAA 57.437 29.630 11.05 0.00 0.00 2.44
2226 2762 8.952278 AGCGTAATTAATTGGTTCATACTCAAA 58.048 29.630 11.05 0.00 0.00 2.69
2227 2763 8.500753 AGCGTAATTAATTGGTTCATACTCAA 57.499 30.769 11.05 0.00 0.00 3.02
2228 2764 7.766738 TGAGCGTAATTAATTGGTTCATACTCA 59.233 33.333 11.05 8.90 0.00 3.41
2229 2765 8.138365 TGAGCGTAATTAATTGGTTCATACTC 57.862 34.615 11.05 6.82 0.00 2.59
2230 2766 8.677148 ATGAGCGTAATTAATTGGTTCATACT 57.323 30.769 21.09 8.18 30.21 2.12
2232 2768 9.772973 ACTATGAGCGTAATTAATTGGTTCATA 57.227 29.630 23.39 23.39 32.40 2.15
2233 2769 8.677148 ACTATGAGCGTAATTAATTGGTTCAT 57.323 30.769 23.56 23.56 33.58 2.57
2234 2770 8.500753 AACTATGAGCGTAATTAATTGGTTCA 57.499 30.769 16.86 16.86 0.00 3.18
2248 2784 4.956085 TGGCATGTATAAACTATGAGCGT 58.044 39.130 0.00 0.00 0.00 5.07
2250 2786 8.971321 CAAAATTGGCATGTATAAACTATGAGC 58.029 33.333 0.00 0.00 0.00 4.26
2282 2819 9.981114 ACTTGTGTGACATTCGATATATATTGA 57.019 29.630 8.39 8.39 0.00 2.57
2287 2824 8.948631 AGAAACTTGTGTGACATTCGATATAT 57.051 30.769 0.00 0.00 0.00 0.86
2288 2825 9.516314 CTAGAAACTTGTGTGACATTCGATATA 57.484 33.333 0.00 0.00 0.00 0.86
2289 2826 8.251026 TCTAGAAACTTGTGTGACATTCGATAT 58.749 33.333 0.00 0.00 0.00 1.63
2290 2827 7.599171 TCTAGAAACTTGTGTGACATTCGATA 58.401 34.615 0.00 0.00 0.00 2.92
2291 2828 6.455647 TCTAGAAACTTGTGTGACATTCGAT 58.544 36.000 0.00 0.00 0.00 3.59
2292 2829 5.838529 TCTAGAAACTTGTGTGACATTCGA 58.161 37.500 0.00 0.00 0.00 3.71
2293 2830 5.692204 ACTCTAGAAACTTGTGTGACATTCG 59.308 40.000 0.00 0.00 0.00 3.34
2298 2835 4.608951 ACGACTCTAGAAACTTGTGTGAC 58.391 43.478 0.00 0.00 0.00 3.67
2304 2841 3.154489 CGACGACGACTCTAGAAACTTG 58.846 50.000 0.00 0.00 42.66 3.16
2305 2842 2.159234 CCGACGACGACTCTAGAAACTT 59.841 50.000 9.28 0.00 42.66 2.66
2314 2851 1.728426 CACAACCCGACGACGACTC 60.728 63.158 9.28 0.00 42.66 3.36
2324 2861 3.430862 CATCGCACCCACAACCCG 61.431 66.667 0.00 0.00 0.00 5.28
2328 2865 2.482796 ATCAGCCATCGCACCCACAA 62.483 55.000 0.00 0.00 37.52 3.33
2361 2898 0.599204 ACCACCATTGACGTCACGAC 60.599 55.000 19.90 0.00 0.00 4.34
2389 2926 7.450014 ACCTGACCAATCATAACACACATAAAA 59.550 33.333 0.00 0.00 33.22 1.52
2390 2927 6.945435 ACCTGACCAATCATAACACACATAAA 59.055 34.615 0.00 0.00 33.22 1.40
2391 2928 6.480763 ACCTGACCAATCATAACACACATAA 58.519 36.000 0.00 0.00 33.22 1.90
2392 2929 6.061022 ACCTGACCAATCATAACACACATA 57.939 37.500 0.00 0.00 33.22 2.29
2393 2930 4.922206 ACCTGACCAATCATAACACACAT 58.078 39.130 0.00 0.00 33.22 3.21
2394 2931 4.041567 AGACCTGACCAATCATAACACACA 59.958 41.667 0.00 0.00 33.22 3.72
2395 2932 4.393062 CAGACCTGACCAATCATAACACAC 59.607 45.833 0.00 0.00 33.22 3.82
2396 2933 4.578871 CAGACCTGACCAATCATAACACA 58.421 43.478 0.00 0.00 33.22 3.72
2397 2934 3.375299 GCAGACCTGACCAATCATAACAC 59.625 47.826 0.47 0.00 33.22 3.32
2398 2935 3.609853 GCAGACCTGACCAATCATAACA 58.390 45.455 0.47 0.00 33.22 2.41
2399 2936 2.945668 GGCAGACCTGACCAATCATAAC 59.054 50.000 0.47 0.00 33.22 1.89
2400 2937 2.419990 CGGCAGACCTGACCAATCATAA 60.420 50.000 0.47 0.00 34.34 1.90
2401 2938 1.138859 CGGCAGACCTGACCAATCATA 59.861 52.381 0.47 0.00 34.34 2.15
2402 2939 0.107508 CGGCAGACCTGACCAATCAT 60.108 55.000 0.47 0.00 34.34 2.45
2403 2940 1.296392 CGGCAGACCTGACCAATCA 59.704 57.895 0.47 0.00 34.34 2.57
2404 2941 1.450312 CCGGCAGACCTGACCAATC 60.450 63.158 0.47 0.00 34.34 2.67
2405 2942 1.779061 AACCGGCAGACCTGACCAAT 61.779 55.000 0.00 0.00 34.34 3.16
2406 2943 2.448582 AACCGGCAGACCTGACCAA 61.449 57.895 0.00 0.00 34.34 3.67
2407 2944 2.847234 AACCGGCAGACCTGACCA 60.847 61.111 0.00 0.00 34.34 4.02
2408 2945 2.185310 ATCAACCGGCAGACCTGACC 62.185 60.000 0.00 1.35 34.34 4.02
2409 2946 1.021390 CATCAACCGGCAGACCTGAC 61.021 60.000 0.00 0.00 34.56 3.51
2410 2947 1.296392 CATCAACCGGCAGACCTGA 59.704 57.895 0.00 0.00 0.00 3.86
2411 2948 2.401766 GCATCAACCGGCAGACCTG 61.402 63.158 0.00 0.00 0.00 4.00
2412 2949 2.045926 GCATCAACCGGCAGACCT 60.046 61.111 0.00 0.00 0.00 3.85
2413 2950 2.359850 TGCATCAACCGGCAGACC 60.360 61.111 0.00 0.00 34.58 3.85
2414 2951 1.237285 AAGTGCATCAACCGGCAGAC 61.237 55.000 0.00 0.00 41.35 3.51
2416 2953 1.236616 TGAAGTGCATCAACCGGCAG 61.237 55.000 0.00 0.00 41.35 4.85
2417 2954 0.608856 ATGAAGTGCATCAACCGGCA 60.609 50.000 0.00 0.00 37.77 5.69
2418 2955 1.378531 TATGAAGTGCATCAACCGGC 58.621 50.000 0.00 0.00 38.44 6.13
2419 2956 2.291465 CCATATGAAGTGCATCAACCGG 59.709 50.000 3.65 0.00 38.44 5.28
2420 2957 2.287188 GCCATATGAAGTGCATCAACCG 60.287 50.000 3.65 0.00 38.44 4.44
2421 2958 2.287188 CGCCATATGAAGTGCATCAACC 60.287 50.000 3.65 0.00 38.44 3.77
2422 2959 2.287188 CCGCCATATGAAGTGCATCAAC 60.287 50.000 3.65 0.00 38.44 3.18
2426 2963 1.597742 GACCGCCATATGAAGTGCAT 58.402 50.000 3.65 0.00 41.08 3.96
2430 2967 0.759346 GGAGGACCGCCATATGAAGT 59.241 55.000 9.78 0.00 36.29 3.01
2431 2968 3.614399 GGAGGACCGCCATATGAAG 57.386 57.895 9.78 0.00 36.29 3.02
2447 2984 0.672342 GCCGCTAAACTAGATCCGGA 59.328 55.000 6.61 6.61 38.04 5.14
2448 2985 0.663568 CGCCGCTAAACTAGATCCGG 60.664 60.000 0.00 0.00 38.76 5.14
2449 2986 0.030369 ACGCCGCTAAACTAGATCCG 59.970 55.000 0.00 0.00 0.00 4.18
2450 2987 1.488527 CACGCCGCTAAACTAGATCC 58.511 55.000 0.00 0.00 0.00 3.36
2451 2988 1.202382 ACCACGCCGCTAAACTAGATC 60.202 52.381 0.00 0.00 0.00 2.75
2452 2989 0.822164 ACCACGCCGCTAAACTAGAT 59.178 50.000 0.00 0.00 0.00 1.98
2454 2991 1.082117 CCACCACGCCGCTAAACTAG 61.082 60.000 0.00 0.00 0.00 2.57
2455 2992 1.079681 CCACCACGCCGCTAAACTA 60.080 57.895 0.00 0.00 0.00 2.24
2456 2993 2.358247 CCACCACGCCGCTAAACT 60.358 61.111 0.00 0.00 0.00 2.66
2457 2994 4.097863 GCCACCACGCCGCTAAAC 62.098 66.667 0.00 0.00 0.00 2.01
2465 3002 2.112815 GGACAATAGGCCACCACGC 61.113 63.158 5.01 0.00 0.00 5.34
2467 3004 1.392589 CATGGACAATAGGCCACCAC 58.607 55.000 5.01 0.00 36.92 4.16
2468 3005 0.258484 CCATGGACAATAGGCCACCA 59.742 55.000 5.56 4.86 36.92 4.17
2470 3007 1.447317 CGCCATGGACAATAGGCCAC 61.447 60.000 18.40 0.00 44.18 5.01
2471 3008 1.152984 CGCCATGGACAATAGGCCA 60.153 57.895 18.40 0.00 44.18 5.36
2472 3009 1.898574 CCGCCATGGACAATAGGCC 60.899 63.158 18.40 0.00 44.18 5.19
2473 3010 1.148273 TCCGCCATGGACAATAGGC 59.852 57.895 18.40 0.00 43.74 3.93
2482 3019 1.176527 ACAAAGACAATCCGCCATGG 58.823 50.000 7.63 7.63 40.09 3.66
2483 3020 3.302365 AAACAAAGACAATCCGCCATG 57.698 42.857 0.00 0.00 0.00 3.66
2484 3021 3.611530 CGAAAACAAAGACAATCCGCCAT 60.612 43.478 0.00 0.00 0.00 4.40
2485 3022 2.287308 CGAAAACAAAGACAATCCGCCA 60.287 45.455 0.00 0.00 0.00 5.69
2486 3023 2.031508 TCGAAAACAAAGACAATCCGCC 60.032 45.455 0.00 0.00 0.00 6.13
2487 3024 2.971261 GTCGAAAACAAAGACAATCCGC 59.029 45.455 0.00 0.00 35.19 5.54
2489 3026 7.463469 AAAATGTCGAAAACAAAGACAATCC 57.537 32.000 1.57 0.00 46.22 3.01
2611 3192 2.320367 CGAACGTCTTGAGAGGACAAG 58.680 52.381 7.62 0.00 45.73 3.16
2612 3193 1.000607 CCGAACGTCTTGAGAGGACAA 60.001 52.381 7.62 0.00 33.73 3.18
2781 3376 6.532365 TTTTTAAAGGCGCCTTATTTTGTG 57.468 33.333 40.29 0.00 34.84 3.33
3108 3705 5.654497 CTTGTTGGCTTGTCTTCTTCTTTT 58.346 37.500 0.00 0.00 0.00 2.27
3341 3941 3.467803 GCACGCTTAGGTTCATTATCCT 58.532 45.455 0.00 0.00 37.80 3.24
3346 3946 0.328258 AGGGCACGCTTAGGTTCATT 59.672 50.000 0.00 0.00 0.00 2.57
3483 4083 2.290896 CCCTGGGCACTAAACATCTGAA 60.291 50.000 0.00 0.00 0.00 3.02
3526 4126 1.613437 AGCGGGAACAATTTCAGGTTG 59.387 47.619 0.00 0.00 32.80 3.77
3601 4548 1.002990 CTGATCACTGCTGCCACCA 60.003 57.895 0.00 0.00 0.00 4.17
3659 4606 1.599606 CGAGGTCCAGTGAGGTCCAG 61.600 65.000 0.00 0.00 46.81 3.86
3660 4607 1.606601 CGAGGTCCAGTGAGGTCCA 60.607 63.158 0.00 0.00 46.81 4.02
3666 4624 3.695606 GCCAGCGAGGTCCAGTGA 61.696 66.667 0.00 0.00 40.61 3.41
3678 4636 1.571460 CGTGTCAGTTGAAGCCAGC 59.429 57.895 0.00 0.00 0.00 4.85
3744 4708 4.492791 AATGTTCGGAAAGGTAAAACGG 57.507 40.909 0.00 0.00 0.00 4.44
3939 5027 7.043961 TGAATCGCTATCTCTCTACAAACAT 57.956 36.000 0.00 0.00 0.00 2.71
3948 5036 5.649557 ACATATGCTGAATCGCTATCTCTC 58.350 41.667 1.58 0.00 0.00 3.20
4017 5105 2.804167 CACCCTTTGTGCGTTGCA 59.196 55.556 0.00 0.00 38.34 4.08
4027 5115 3.670377 GAAAGCCGCGCACCCTTT 61.670 61.111 8.75 12.29 0.00 3.11
4053 5141 1.073897 GCAGAACTGAAGGCCCTGT 59.926 57.895 0.00 0.00 0.00 4.00
4079 5167 6.603201 ACTCTATCTTCTCTGTTCTCTCCTTG 59.397 42.308 0.00 0.00 0.00 3.61
4129 5217 1.207329 AGGGAGAGAACATACAACCGC 59.793 52.381 0.00 0.00 0.00 5.68
4130 5218 3.262420 CAAGGGAGAGAACATACAACCG 58.738 50.000 0.00 0.00 0.00 4.44
4140 5228 3.157087 GTGAAATTGCCAAGGGAGAGAA 58.843 45.455 0.00 0.00 0.00 2.87
4149 5237 2.801342 GCGGACAAAGTGAAATTGCCAA 60.801 45.455 0.00 0.00 0.00 4.52
4159 5247 0.957395 AGGAGCATGCGGACAAAGTG 60.957 55.000 13.01 0.00 0.00 3.16
4168 5256 0.593518 CAGACGTAGAGGAGCATGCG 60.594 60.000 13.01 0.00 0.00 4.73
4184 5272 0.837691 TTCTGGGAGGAGCTTGCAGA 60.838 55.000 0.00 0.00 0.00 4.26
4229 5317 8.676454 TTCCACGTGCAATTGTATTAATTAAC 57.324 30.769 10.91 0.00 0.00 2.01
4232 5320 7.870445 AGTTTTCCACGTGCAATTGTATTAATT 59.130 29.630 10.91 0.00 0.00 1.40
4241 5329 2.543653 GCTCAGTTTTCCACGTGCAATT 60.544 45.455 10.91 0.00 0.00 2.32
4248 5336 3.354089 AACAATGCTCAGTTTTCCACG 57.646 42.857 0.00 0.00 0.00 4.94
4249 5337 6.012658 TCATAACAATGCTCAGTTTTCCAC 57.987 37.500 0.00 0.00 0.00 4.02
4251 5339 6.038356 CCATCATAACAATGCTCAGTTTTCC 58.962 40.000 0.00 0.00 0.00 3.13
4254 5342 5.711506 TGACCATCATAACAATGCTCAGTTT 59.288 36.000 0.00 0.00 0.00 2.66
4305 5393 8.031277 TCTCTAGTTTTCCTAATACCGTTTGTC 58.969 37.037 0.00 0.00 0.00 3.18
4306 5394 7.899973 TCTCTAGTTTTCCTAATACCGTTTGT 58.100 34.615 0.00 0.00 0.00 2.83
4307 5395 8.767478 TTCTCTAGTTTTCCTAATACCGTTTG 57.233 34.615 0.00 0.00 0.00 2.93
4308 5396 9.955102 ATTTCTCTAGTTTTCCTAATACCGTTT 57.045 29.630 0.00 0.00 0.00 3.60
4310 5398 9.955102 AAATTTCTCTAGTTTTCCTAATACCGT 57.045 29.630 0.00 0.00 0.00 4.83
4321 5409 9.121658 ACCTTTCGAAGAAATTTCTCTAGTTTT 57.878 29.630 20.71 3.60 45.90 2.43
4327 5415 6.992715 TGAAGACCTTTCGAAGAAATTTCTCT 59.007 34.615 20.71 11.15 45.90 3.10
4345 5433 6.017523 GCATTTAGCTTAGGATCTTGAAGACC 60.018 42.308 0.00 1.32 41.15 3.85
4359 5447 4.819630 CCGATGGTTTAGGCATTTAGCTTA 59.180 41.667 0.00 0.00 44.79 3.09
4364 5452 2.685897 GCACCGATGGTTTAGGCATTTA 59.314 45.455 0.00 0.00 31.02 1.40
4368 5456 0.392461 GAGCACCGATGGTTTAGGCA 60.392 55.000 0.00 0.00 36.44 4.75
4378 5466 5.854010 TCACTAATAAGAAGAGCACCGAT 57.146 39.130 0.00 0.00 0.00 4.18
4380 5468 4.747108 CCATCACTAATAAGAAGAGCACCG 59.253 45.833 0.00 0.00 0.00 4.94
4417 6097 1.370414 CGCCGCCAACTTGAACAAG 60.370 57.895 12.22 12.22 43.79 3.16
4421 6101 0.886938 TGATTCGCCGCCAACTTGAA 60.887 50.000 0.00 0.00 0.00 2.69
4422 6102 1.302112 TGATTCGCCGCCAACTTGA 60.302 52.632 0.00 0.00 0.00 3.02
4429 6109 4.814294 AGTCCGTGATTCGCCGCC 62.814 66.667 0.00 0.00 38.35 6.13
4437 6117 4.101448 GGGGCAGCAGTCCGTGAT 62.101 66.667 0.00 0.00 41.80 3.06
4442 6122 2.677875 CAAAGGGGGCAGCAGTCC 60.678 66.667 0.00 0.00 39.43 3.85
4478 6158 7.426410 TCATCTGTGAAGAACGATAACCTATC 58.574 38.462 0.00 0.00 0.00 2.08
4481 6161 5.661056 TCATCTGTGAAGAACGATAACCT 57.339 39.130 0.00 0.00 0.00 3.50
4524 6204 1.683385 CATCGACATCACTAGGCTCCA 59.317 52.381 0.00 0.00 0.00 3.86
4525 6205 1.683917 ACATCGACATCACTAGGCTCC 59.316 52.381 0.00 0.00 0.00 4.70
4556 6300 3.567530 CGATCTTCAGAGCAGCAGATAG 58.432 50.000 0.00 0.00 0.00 2.08
4560 6304 0.530211 CCCGATCTTCAGAGCAGCAG 60.530 60.000 0.00 0.00 0.00 4.24
4563 6307 0.179089 CCACCCGATCTTCAGAGCAG 60.179 60.000 0.00 0.00 0.00 4.24
4570 6314 2.495084 GATTAAGCCCACCCGATCTTC 58.505 52.381 0.00 0.00 0.00 2.87
4588 6332 1.920325 ATCCCATCCCATCGCGGAT 60.920 57.895 6.13 0.00 43.79 4.18
4638 6382 4.023980 TCTTGATCGTCAATGGTAGACCT 58.976 43.478 0.00 0.00 35.59 3.85
4664 6408 4.109766 CTCCTGAAATTGTGCGTCGTATA 58.890 43.478 0.00 0.00 0.00 1.47
4716 6461 3.758931 GTGGGGGCGCACCAATTC 61.759 66.667 33.37 14.11 42.91 2.17


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

AutoCloner maintained by Alex Coulton.