Multiple sequence alignment - TraesCS4A01G262100

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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 TraesCS4A01G262100 chr4A 100.000 4817 0 0 1 4817 574388413 574393229 0.000000e+00 8896.0
1 TraesCS4A01G262100 chr4A 90.909 44 3 1 4744 4786 584711367 584711410 1.870000e-04 58.4
2 TraesCS4A01G262100 chr4A 89.130 46 4 1 4744 4788 584711509 584711554 6.730000e-04 56.5
3 TraesCS4A01G262100 chr4B 89.847 2876 130 61 41 2870 41704791 41702032 0.000000e+00 3544.0
4 TraesCS4A01G262100 chr4B 95.786 1139 44 2 3192 4326 41701849 41700711 0.000000e+00 1834.0
5 TraesCS4A01G262100 chr4B 86.207 464 28 19 4360 4817 41700706 41700273 2.030000e-128 470.0
6 TraesCS4A01G262100 chr4B 98.649 74 1 0 4316 4389 282886976 282886903 1.090000e-26 132.0
7 TraesCS4A01G262100 chr4B 93.671 79 5 0 4316 4394 646745079 646745157 8.470000e-23 119.0
8 TraesCS4A01G262100 chr4D 93.151 1679 60 23 401 2059 29173034 29171391 0.000000e+00 2412.0
9 TraesCS4A01G262100 chr4D 91.897 1666 67 33 3192 4817 29170456 29168819 0.000000e+00 2266.0
10 TraesCS4A01G262100 chr4D 94.696 773 20 2 2096 2868 29171394 29170643 0.000000e+00 1181.0
11 TraesCS4A01G262100 chr4D 84.635 384 15 13 11 387 29173697 29173351 4.620000e-90 342.0
12 TraesCS4A01G262100 chr4D 97.297 74 2 0 4316 4389 211388643 211388570 5.060000e-25 126.0
13 TraesCS4A01G262100 chr4D 84.932 73 9 2 4746 4817 76833140 76833069 6.690000e-09 73.1
14 TraesCS4A01G262100 chr4D 100.000 28 0 0 376 403 29173070 29173043 9.000000e-03 52.8
15 TraesCS4A01G262100 chr7A 98.007 301 6 0 2888 3188 215187974 215187674 1.540000e-144 523.0
16 TraesCS4A01G262100 chr7A 96.440 309 9 2 2888 3195 230300937 230300630 4.300000e-140 508.0
17 TraesCS4A01G262100 chr7A 92.878 337 21 3 2888 3223 85917443 85917109 2.020000e-133 486.0
18 TraesCS4A01G262100 chr7A 92.857 84 6 0 4311 4394 138960832 138960749 6.550000e-24 122.0
19 TraesCS4A01G262100 chr3A 98.007 301 6 0 2888 3188 363316280 363315980 1.540000e-144 523.0
20 TraesCS4A01G262100 chr3A 96.429 308 10 1 2888 3194 668823749 668824056 1.550000e-139 507.0
21 TraesCS4A01G262100 chr3A 97.222 36 1 0 4762 4797 667507932 667507967 1.450000e-05 62.1
22 TraesCS4A01G262100 chr5A 97.674 301 7 0 2888 3188 630124082 630123782 7.150000e-143 518.0
23 TraesCS4A01G262100 chr5A 97.049 305 8 1 2888 3192 611029893 611029590 3.320000e-141 512.0
24 TraesCS4A01G262100 chr6A 97.342 301 8 0 2888 3188 104307266 104306966 3.320000e-141 512.0
25 TraesCS4A01G262100 chr6A 90.110 91 7 1 4304 4394 478526378 478526466 3.050000e-22 117.0
26 TraesCS4A01G262100 chr6A 92.593 81 6 0 4314 4394 496842339 496842259 3.050000e-22 117.0
27 TraesCS4A01G262100 chr7D 95.312 320 14 1 2888 3207 510609983 510610301 1.550000e-139 507.0
28 TraesCS4A01G262100 chr2B 74.492 541 81 34 3539 4053 629649439 629648930 1.060000e-41 182.0
29 TraesCS4A01G262100 chr5D 95.122 82 2 2 4309 4389 318879325 318879405 1.410000e-25 128.0
30 TraesCS4A01G262100 chr1D 93.671 79 5 0 4316 4394 338394562 338394484 8.470000e-23 119.0
31 TraesCS4A01G262100 chr1A 87.500 104 7 5 4315 4413 259202175 259202277 1.100000e-21 115.0
32 TraesCS4A01G262100 chr7B 87.931 58 6 1 4744 4800 500251025 500250968 3.110000e-07 67.6


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 TraesCS4A01G262100 chr4A 574388413 574393229 4816 False 8896.000000 8896 100.000000 1 4817 1 chr4A.!!$F1 4816
1 TraesCS4A01G262100 chr4B 41700273 41704791 4518 True 1949.333333 3544 90.613333 41 4817 3 chr4B.!!$R2 4776
2 TraesCS4A01G262100 chr4D 29168819 29173697 4878 True 1250.760000 2412 92.875800 11 4817 5 chr4D.!!$R3 4806

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
557 888 1.151777 CGGACCAATTGTCGATCCCG 61.152 60.0 4.43 4.21 45.46 5.14 F
1921 2285 0.966875 AATGCATGTGGATGTGCGGT 60.967 50.0 0.00 0.00 44.11 5.68 F
2361 2765 0.387929 GATAACGGGAGCACGGATGA 59.612 55.0 0.00 0.00 38.39 2.92 F
2785 3198 2.094182 AGTTCGGTGTGTAGGTAGCATG 60.094 50.0 0.00 0.00 0.00 4.06 F
3710 4169 0.468226 TCTTCTTTGCACCACGTCCT 59.532 50.0 0.00 0.00 0.00 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2017 2381 1.039785 TCAGCAGGGATCGTCCTCTG 61.040 60.000 13.20 13.2 37.67 3.35 R
3620 4066 0.326264 GGGCGCTCATAGAATGGGAT 59.674 55.000 7.64 0.0 30.24 3.85 R
3637 4083 1.411977 TCAAAACCACAGCACAATGGG 59.588 47.619 0.00 0.0 40.59 4.00 R
3777 4236 1.512926 GAAACAGCAGTCGGTCATGT 58.487 50.000 0.00 0.0 0.00 3.21 R
4621 5118 2.164422 TCTGCAGTGTATCTGTCCTTCG 59.836 50.000 14.67 0.0 45.23 3.79 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
80 84 8.134261 TGTGTGATATAATTTTATGCACGCATT 58.866 29.630 10.23 0.00 40.74 3.56
155 176 3.809905 ACCTCAGTGAGAAACTTCCAAC 58.190 45.455 22.09 0.00 36.83 3.77
156 177 3.456277 ACCTCAGTGAGAAACTTCCAACT 59.544 43.478 22.09 0.00 36.83 3.16
157 178 4.061596 CCTCAGTGAGAAACTTCCAACTC 58.938 47.826 22.09 0.00 36.83 3.01
158 179 4.202305 CCTCAGTGAGAAACTTCCAACTCT 60.202 45.833 22.09 0.00 36.83 3.24
159 180 4.950050 TCAGTGAGAAACTTCCAACTCTC 58.050 43.478 0.00 0.00 36.83 3.20
160 181 4.061596 CAGTGAGAAACTTCCAACTCTCC 58.938 47.826 0.00 0.00 36.83 3.71
161 182 3.970640 AGTGAGAAACTTCCAACTCTCCT 59.029 43.478 0.00 0.00 34.57 3.69
162 183 4.410555 AGTGAGAAACTTCCAACTCTCCTT 59.589 41.667 0.00 0.00 34.57 3.36
163 184 5.104318 AGTGAGAAACTTCCAACTCTCCTTT 60.104 40.000 0.00 0.00 34.57 3.11
164 185 5.590663 GTGAGAAACTTCCAACTCTCCTTTT 59.409 40.000 0.00 0.00 34.62 2.27
165 186 6.095580 GTGAGAAACTTCCAACTCTCCTTTTT 59.904 38.462 0.00 0.00 34.62 1.94
211 232 1.734137 CGGTCTACGGGATCAGGTG 59.266 63.158 0.00 0.00 39.42 4.00
547 876 4.796495 GCCCTCGCCGGACCAATT 62.796 66.667 5.05 0.00 33.16 2.32
557 888 1.151777 CGGACCAATTGTCGATCCCG 61.152 60.000 4.43 4.21 45.46 5.14
629 971 4.451150 TCATGGTCAGGACGGCGC 62.451 66.667 6.90 0.00 0.00 6.53
645 987 4.426313 GCCCGGGGAAACAGGAGG 62.426 72.222 25.28 0.00 32.12 4.30
934 1291 1.553690 TTCCTCCTCCCTCTTTGCCG 61.554 60.000 0.00 0.00 0.00 5.69
941 1305 3.721706 CCTCTTTGCCGCTCCCCT 61.722 66.667 0.00 0.00 0.00 4.79
942 1306 2.124942 CTCTTTGCCGCTCCCCTC 60.125 66.667 0.00 0.00 0.00 4.30
943 1307 2.607750 TCTTTGCCGCTCCCCTCT 60.608 61.111 0.00 0.00 0.00 3.69
944 1308 2.124942 CTTTGCCGCTCCCCTCTC 60.125 66.667 0.00 0.00 0.00 3.20
945 1309 3.689002 CTTTGCCGCTCCCCTCTCC 62.689 68.421 0.00 0.00 0.00 3.71
1008 1372 2.028190 CCTCTAGCCATGTCGCCG 59.972 66.667 0.00 0.00 0.00 6.46
1009 1373 2.659897 CTCTAGCCATGTCGCCGC 60.660 66.667 0.00 0.00 0.00 6.53
1010 1374 4.221422 TCTAGCCATGTCGCCGCC 62.221 66.667 0.00 0.00 0.00 6.13
1310 1674 4.570663 GGGCGTCTCCATCGACCG 62.571 72.222 0.00 0.00 46.56 4.79
1736 2100 4.003648 GGCCCCGATATTGTAAGATCTTG 58.996 47.826 18.47 0.00 0.00 3.02
1737 2101 4.505039 GGCCCCGATATTGTAAGATCTTGT 60.505 45.833 18.47 4.25 0.00 3.16
1738 2102 5.063880 GCCCCGATATTGTAAGATCTTGTT 58.936 41.667 18.47 2.78 0.00 2.83
1861 2225 2.886081 CTGCTAAGCTGTCTACACCAG 58.114 52.381 0.00 0.00 0.00 4.00
1868 2232 6.039493 GCTAAGCTGTCTACACCAGTTCTATA 59.961 42.308 0.00 0.00 32.41 1.31
1882 2246 5.221048 CCAGTTCTATAGCGAAATTTTGGGG 60.221 44.000 7.54 0.00 0.00 4.96
1886 2250 3.885724 ATAGCGAAATTTTGGGGTTGG 57.114 42.857 7.54 0.00 0.00 3.77
1918 2282 2.094390 AGAACAATGCATGTGGATGTGC 60.094 45.455 0.00 0.00 42.99 4.57
1921 2285 0.966875 AATGCATGTGGATGTGCGGT 60.967 50.000 0.00 0.00 44.11 5.68
1939 2303 4.217334 TGCGGTCAATTCTTGCTTGAATAA 59.783 37.500 5.45 0.00 35.82 1.40
1947 2311 7.121168 TCAATTCTTGCTTGAATAACCCAGTAG 59.879 37.037 5.45 0.00 35.82 2.57
1997 2361 5.243507 TCTTGCACCATAAGCTTTCAATTCA 59.756 36.000 3.20 0.00 0.00 2.57
2017 2381 3.936453 TCATGTTGCGTATTGGGTACTTC 59.064 43.478 0.00 0.00 0.00 3.01
2066 2430 8.733092 TTAGTCTGATGATAATTGGATCCTCT 57.267 34.615 14.23 0.00 0.00 3.69
2067 2431 7.006865 AGTCTGATGATAATTGGATCCTCTG 57.993 40.000 14.23 3.79 0.00 3.35
2068 2432 6.786461 AGTCTGATGATAATTGGATCCTCTGA 59.214 38.462 14.23 6.12 31.07 3.27
2069 2433 7.458488 AGTCTGATGATAATTGGATCCTCTGAT 59.542 37.037 14.23 1.31 33.92 2.90
2070 2434 7.549842 GTCTGATGATAATTGGATCCTCTGATG 59.450 40.741 14.23 0.00 33.92 3.07
2071 2435 7.456902 TCTGATGATAATTGGATCCTCTGATGA 59.543 37.037 14.23 0.00 29.66 2.92
2072 2436 8.159229 TGATGATAATTGGATCCTCTGATGAT 57.841 34.615 14.23 1.36 0.00 2.45
2073 2437 9.275572 TGATGATAATTGGATCCTCTGATGATA 57.724 33.333 14.23 0.00 0.00 2.15
2074 2438 9.767228 GATGATAATTGGATCCTCTGATGATAG 57.233 37.037 14.23 0.00 0.00 2.08
2075 2439 7.563020 TGATAATTGGATCCTCTGATGATAGC 58.437 38.462 14.23 0.00 0.00 2.97
2076 2440 7.402361 TGATAATTGGATCCTCTGATGATAGCT 59.598 37.037 14.23 0.00 0.00 3.32
2077 2441 8.851106 ATAATTGGATCCTCTGATGATAGCTA 57.149 34.615 14.23 0.00 0.00 3.32
2078 2442 5.991933 TTGGATCCTCTGATGATAGCTAC 57.008 43.478 14.23 0.00 0.00 3.58
2079 2443 5.268131 TGGATCCTCTGATGATAGCTACT 57.732 43.478 14.23 0.00 0.00 2.57
2080 2444 5.015515 TGGATCCTCTGATGATAGCTACTG 58.984 45.833 14.23 0.00 0.00 2.74
2081 2445 4.142182 GGATCCTCTGATGATAGCTACTGC 60.142 50.000 3.84 0.00 40.05 4.40
2097 2461 3.703001 ACTGCTGTAGTAGTTGGCATT 57.297 42.857 0.00 0.00 37.74 3.56
2361 2765 0.387929 GATAACGGGAGCACGGATGA 59.612 55.000 0.00 0.00 38.39 2.92
2373 2777 4.201122 GGATGAGCAGGGCAGGGG 62.201 72.222 0.00 0.00 0.00 4.79
2464 2868 2.304180 CCTCAACTTCCAGGACATCACT 59.696 50.000 0.00 0.00 30.32 3.41
2670 3083 3.845178 TCAGATACAAACGCCACACTAG 58.155 45.455 0.00 0.00 0.00 2.57
2671 3084 3.257375 TCAGATACAAACGCCACACTAGT 59.743 43.478 0.00 0.00 0.00 2.57
2672 3085 3.367932 CAGATACAAACGCCACACTAGTG 59.632 47.826 21.44 21.44 45.47 2.74
2756 3169 6.519679 TCAAGAATCCAATTGTTCATCTGG 57.480 37.500 4.43 0.94 0.00 3.86
2774 3187 3.056821 TCTGGTATCTTGAGTTCGGTGTG 60.057 47.826 0.00 0.00 0.00 3.82
2785 3198 2.094182 AGTTCGGTGTGTAGGTAGCATG 60.094 50.000 0.00 0.00 0.00 4.06
2890 3329 7.045126 ACTTGATGCTACATAAGTACTCTCC 57.955 40.000 0.00 0.00 32.05 3.71
2892 3331 7.343316 ACTTGATGCTACATAAGTACTCTCCTT 59.657 37.037 0.00 0.00 32.05 3.36
2893 3332 7.661536 TGATGCTACATAAGTACTCTCCTTT 57.338 36.000 0.00 0.00 0.00 3.11
2894 3333 7.492524 TGATGCTACATAAGTACTCTCCTTTG 58.507 38.462 0.00 0.00 0.00 2.77
2895 3334 6.222038 TGCTACATAAGTACTCTCCTTTGG 57.778 41.667 0.00 0.00 0.00 3.28
2897 3336 6.212791 TGCTACATAAGTACTCTCCTTTGGTT 59.787 38.462 0.00 0.00 0.00 3.67
2899 3338 7.064728 GCTACATAAGTACTCTCCTTTGGTTTG 59.935 40.741 0.00 0.00 0.00 2.93
2900 3339 6.238648 ACATAAGTACTCTCCTTTGGTTTGG 58.761 40.000 0.00 0.00 0.00 3.28
2901 3340 6.043938 ACATAAGTACTCTCCTTTGGTTTGGA 59.956 38.462 0.00 0.00 0.00 3.53
2909 3348 5.139435 CTCCTTTGGTTTGGAGGAATTTC 57.861 43.478 0.00 0.00 44.44 2.17
2912 3351 6.318913 TCCTTTGGTTTGGAGGAATTTCATA 58.681 36.000 0.00 0.00 36.67 2.15
2913 3352 6.437162 TCCTTTGGTTTGGAGGAATTTCATAG 59.563 38.462 0.00 0.00 36.67 2.23
2914 3353 6.351286 CCTTTGGTTTGGAGGAATTTCATAGG 60.351 42.308 0.00 0.00 32.11 2.57
2915 3354 5.528600 TGGTTTGGAGGAATTTCATAGGA 57.471 39.130 0.00 0.00 0.00 2.94
2916 3355 5.898120 TGGTTTGGAGGAATTTCATAGGAA 58.102 37.500 0.00 0.00 0.00 3.36
2918 3357 6.959366 TGGTTTGGAGGAATTTCATAGGAATT 59.041 34.615 0.00 0.00 31.93 2.17
2919 3358 7.457535 TGGTTTGGAGGAATTTCATAGGAATTT 59.542 33.333 0.00 0.00 31.93 1.82
2925 3364 9.072375 GGAGGAATTTCATAGGAATTTTAGAGG 57.928 37.037 0.00 0.00 31.93 3.69
2926 3365 9.853177 GAGGAATTTCATAGGAATTTTAGAGGA 57.147 33.333 0.00 0.00 31.93 3.71
2968 3407 5.784578 TTTTCTTTAGAGCCCTTTGGTTC 57.215 39.130 0.00 0.00 41.91 3.62
2969 3408 4.447138 TTCTTTAGAGCCCTTTGGTTCA 57.553 40.909 0.00 0.00 43.89 3.18
2971 3410 5.772393 TCTTTAGAGCCCTTTGGTTCATA 57.228 39.130 0.00 0.00 43.89 2.15
2974 3413 2.562296 AGAGCCCTTTGGTTCATAGGA 58.438 47.619 6.07 0.00 43.89 2.94
2975 3414 2.919602 AGAGCCCTTTGGTTCATAGGAA 59.080 45.455 6.07 0.00 43.89 3.36
2976 3415 3.529319 AGAGCCCTTTGGTTCATAGGAAT 59.471 43.478 6.07 0.00 43.89 3.01
2977 3416 3.633986 GAGCCCTTTGGTTCATAGGAATG 59.366 47.826 6.07 0.00 41.28 2.67
2978 3417 2.695147 GCCCTTTGGTTCATAGGAATGG 59.305 50.000 6.07 0.00 35.14 3.16
2979 3418 3.627237 GCCCTTTGGTTCATAGGAATGGA 60.627 47.826 6.07 0.00 35.14 3.41
2980 3419 4.808042 CCCTTTGGTTCATAGGAATGGAT 58.192 43.478 6.07 0.00 35.14 3.41
3017 3456 4.982241 GGATTGATTCCTATCCTCCACA 57.018 45.455 7.37 0.00 41.78 4.17
3018 3457 5.511386 GGATTGATTCCTATCCTCCACAT 57.489 43.478 7.37 0.00 41.78 3.21
3019 3458 5.885465 GGATTGATTCCTATCCTCCACATT 58.115 41.667 7.37 0.00 41.78 2.71
3020 3459 6.310149 GGATTGATTCCTATCCTCCACATTT 58.690 40.000 7.37 0.00 41.78 2.32
3021 3460 6.432472 GGATTGATTCCTATCCTCCACATTTC 59.568 42.308 7.37 0.00 41.78 2.17
3024 3463 7.631510 TGATTCCTATCCTCCACATTTCATA 57.368 36.000 0.00 0.00 0.00 2.15
3025 3464 7.683578 TGATTCCTATCCTCCACATTTCATAG 58.316 38.462 0.00 0.00 0.00 2.23
3026 3465 6.439636 TTCCTATCCTCCACATTTCATAGG 57.560 41.667 0.00 0.00 35.93 2.57
3028 3467 6.150332 TCCTATCCTCCACATTTCATAGGAA 58.850 40.000 3.47 0.00 39.17 3.36
3029 3468 6.619437 TCCTATCCTCCACATTTCATAGGAAA 59.381 38.462 4.85 4.85 46.36 3.13
3030 3469 7.128728 TCCTATCCTCCACATTTCATAGGAAAA 59.871 37.037 6.65 0.00 45.52 2.29
3031 3470 7.946776 CCTATCCTCCACATTTCATAGGAAAAT 59.053 37.037 6.65 0.00 45.52 1.82
3034 3473 9.713684 ATCCTCCACATTTCATAGGAAAATAAA 57.286 29.630 6.65 0.00 45.52 1.40
3035 3474 9.540538 TCCTCCACATTTCATAGGAAAATAAAA 57.459 29.630 6.65 0.00 45.52 1.52
3049 3488 8.512966 AGGAAAATAAAAATGAGCCTAGACTC 57.487 34.615 0.00 0.00 37.19 3.36
3058 3497 4.908601 TGAGCCTAGACTCAATGGAAAA 57.091 40.909 6.25 0.00 43.59 2.29
3059 3498 5.241403 TGAGCCTAGACTCAATGGAAAAA 57.759 39.130 6.25 0.00 43.59 1.94
3060 3499 5.819991 TGAGCCTAGACTCAATGGAAAAAT 58.180 37.500 6.25 0.00 43.59 1.82
3061 3500 6.248433 TGAGCCTAGACTCAATGGAAAAATT 58.752 36.000 6.25 0.00 43.59 1.82
3062 3501 6.375455 TGAGCCTAGACTCAATGGAAAAATTC 59.625 38.462 6.25 0.00 43.59 2.17
3063 3502 6.183360 GAGCCTAGACTCAATGGAAAAATTCC 60.183 42.308 0.51 2.12 42.14 3.01
3064 3503 8.285329 GAGCCTAGACTCAATGGAAAAATTCCT 61.285 40.741 10.28 0.00 42.21 3.36
3075 3514 5.984233 GGAAAAATTCCTTTGGTGTCAAC 57.016 39.130 1.86 0.00 46.57 3.18
3076 3515 4.814234 GGAAAAATTCCTTTGGTGTCAACC 59.186 41.667 1.86 0.00 46.57 3.77
3094 3533 6.236017 TCAACCAAATGACATCTCGTTTAC 57.764 37.500 0.00 0.00 34.40 2.01
3095 3534 5.995282 TCAACCAAATGACATCTCGTTTACT 59.005 36.000 0.00 0.00 34.40 2.24
3096 3535 7.156000 TCAACCAAATGACATCTCGTTTACTA 58.844 34.615 0.00 0.00 34.40 1.82
3097 3536 7.822334 TCAACCAAATGACATCTCGTTTACTAT 59.178 33.333 0.00 0.00 34.40 2.12
3098 3537 8.450964 CAACCAAATGACATCTCGTTTACTATT 58.549 33.333 0.00 0.00 34.40 1.73
3099 3538 8.197988 ACCAAATGACATCTCGTTTACTATTC 57.802 34.615 0.00 0.00 34.40 1.75
3100 3539 7.280205 ACCAAATGACATCTCGTTTACTATTCC 59.720 37.037 0.00 0.00 34.40 3.01
3101 3540 7.495934 CCAAATGACATCTCGTTTACTATTCCT 59.504 37.037 0.00 0.00 34.40 3.36
3102 3541 9.529325 CAAATGACATCTCGTTTACTATTCCTA 57.471 33.333 0.00 0.00 34.40 2.94
3103 3542 9.530633 AAATGACATCTCGTTTACTATTCCTAC 57.469 33.333 0.00 0.00 34.40 3.18
3104 3543 7.876936 TGACATCTCGTTTACTATTCCTACT 57.123 36.000 0.00 0.00 0.00 2.57
3105 3544 7.928103 TGACATCTCGTTTACTATTCCTACTC 58.072 38.462 0.00 0.00 0.00 2.59
3106 3545 7.555195 TGACATCTCGTTTACTATTCCTACTCA 59.445 37.037 0.00 0.00 0.00 3.41
3107 3546 8.466617 ACATCTCGTTTACTATTCCTACTCAT 57.533 34.615 0.00 0.00 0.00 2.90
3108 3547 9.570468 ACATCTCGTTTACTATTCCTACTCATA 57.430 33.333 0.00 0.00 0.00 2.15
3126 3565 9.853555 CTACTCATAGGATTTGAGATACATGTC 57.146 37.037 0.00 0.00 42.63 3.06
3127 3566 8.255111 ACTCATAGGATTTGAGATACATGTCA 57.745 34.615 0.00 0.00 42.63 3.58
3128 3567 8.878211 ACTCATAGGATTTGAGATACATGTCAT 58.122 33.333 0.00 0.00 42.63 3.06
3129 3568 9.368674 CTCATAGGATTTGAGATACATGTCATC 57.631 37.037 0.00 4.47 42.63 2.92
3130 3569 9.097946 TCATAGGATTTGAGATACATGTCATCT 57.902 33.333 0.00 9.42 35.43 2.90
3131 3570 9.368674 CATAGGATTTGAGATACATGTCATCTC 57.631 37.037 24.04 24.04 45.76 2.75
3178 3617 9.661954 TCCTATGATAATCCTATCCTATGAACC 57.338 37.037 0.00 0.00 34.10 3.62
3179 3618 9.439461 CCTATGATAATCCTATCCTATGAACCA 57.561 37.037 0.00 0.00 34.10 3.67
3186 3625 6.500589 TCCTATCCTATGAACCAAAAGAGG 57.499 41.667 0.00 0.00 0.00 3.69
3187 3626 5.066593 CCTATCCTATGAACCAAAAGAGGC 58.933 45.833 0.00 0.00 0.00 4.70
3188 3627 4.591321 ATCCTATGAACCAAAAGAGGCA 57.409 40.909 0.00 0.00 0.00 4.75
3189 3628 3.686016 TCCTATGAACCAAAAGAGGCAC 58.314 45.455 0.00 0.00 0.00 5.01
3494 3935 7.105241 AGAAAATATGAACTTGCAGAATCCC 57.895 36.000 0.00 0.00 0.00 3.85
3500 3946 9.812347 AATATGAACTTGCAGAATCCCATTATA 57.188 29.630 0.00 0.00 0.00 0.98
3585 4031 4.519540 TCTTAAATGCCAAGCTGTTTCC 57.480 40.909 0.00 0.00 0.00 3.13
3637 4083 3.620374 CACATATCCCATTCTATGAGCGC 59.380 47.826 0.00 0.00 0.00 5.92
3706 4165 1.670811 AGTGTTCTTCTTTGCACCACG 59.329 47.619 0.00 0.00 32.75 4.94
3710 4169 0.468226 TCTTCTTTGCACCACGTCCT 59.532 50.000 0.00 0.00 0.00 3.85
3724 4183 3.119291 CACGTCCTGAGCATATGACTTC 58.881 50.000 6.97 1.25 0.00 3.01
3768 4227 3.525609 TGACCTCTGACCTCTATCACTCT 59.474 47.826 0.00 0.00 0.00 3.24
3777 4236 2.424091 CCTCTATCACTCTGCTCCAGGA 60.424 54.545 0.00 0.00 31.51 3.86
3823 4282 7.927092 CAGATCTTGATGCTGAATAGAAGAGAA 59.073 37.037 0.00 0.00 0.00 2.87
3826 4285 6.382282 TCTTGATGCTGAATAGAAGAGAAGGA 59.618 38.462 0.00 0.00 0.00 3.36
3908 4367 1.812922 GCAGAGTGATGGCCTGACG 60.813 63.158 3.32 0.00 0.00 4.35
4059 4518 2.211806 ACACTAGGAGACGACGCTATC 58.788 52.381 0.00 0.00 0.00 2.08
4123 4583 6.127619 GCTTCTGGCTTGTAGGAACAAAATAT 60.128 38.462 0.00 0.00 44.79 1.28
4149 4612 8.296713 TGTTGAAAGTGCCTATAGTTGATTTTC 58.703 33.333 0.00 3.71 0.00 2.29
4265 4728 5.480772 TCTGGTACCTTTTGAGAGTAGGAAG 59.519 44.000 14.36 0.00 33.21 3.46
4415 4907 9.715119 AGGAGTACAATATATGCCTACATATGA 57.285 33.333 10.38 0.00 46.65 2.15
4428 4923 6.381133 TGCCTACATATGAGTATATGACCCAG 59.619 42.308 10.38 5.63 45.92 4.45
4523 5018 3.181476 CCAAGACTTGTTTTGAACAGGGG 60.181 47.826 14.03 0.00 42.22 4.79
4552 5049 7.519002 AGACTTCACGAATTATTCCGAAAAAG 58.481 34.615 0.00 0.43 0.00 2.27
4585 5082 4.807834 ACATACAGAAGACTCATGATTGCG 59.192 41.667 0.00 0.00 0.00 4.85
4621 5118 3.715628 TCAGCAGAGCAAAAAGTTTCC 57.284 42.857 0.00 0.00 0.00 3.13
4724 5228 6.391537 ACGCTTTGTTAAAGAAAACCAAAGA 58.608 32.000 13.02 0.00 41.02 2.52
4790 5295 3.002583 TGCTCTGGCATCCGTCCA 61.003 61.111 0.00 0.00 44.28 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 9.719355 ATATAGTTGCGTCCATTTTATACATCA 57.281 29.630 0.00 0.00 0.00 3.07
8 9 8.519526 TCAAAGAAATATAGTTGCGTCCATTTT 58.480 29.630 0.00 0.00 0.00 1.82
9 10 7.968405 GTCAAAGAAATATAGTTGCGTCCATTT 59.032 33.333 0.00 0.00 0.00 2.32
101 122 9.496873 TCGAACCTCTTGTTATTATTCTCAAAA 57.503 29.630 0.00 0.00 37.29 2.44
102 123 9.151471 CTCGAACCTCTTGTTATTATTCTCAAA 57.849 33.333 0.00 0.00 37.29 2.69
103 124 7.764443 CCTCGAACCTCTTGTTATTATTCTCAA 59.236 37.037 0.00 0.00 37.29 3.02
104 125 7.265673 CCTCGAACCTCTTGTTATTATTCTCA 58.734 38.462 0.00 0.00 37.29 3.27
105 126 6.702282 CCCTCGAACCTCTTGTTATTATTCTC 59.298 42.308 0.00 0.00 37.29 2.87
106 127 6.156429 ACCCTCGAACCTCTTGTTATTATTCT 59.844 38.462 0.00 0.00 37.29 2.40
107 128 6.346896 ACCCTCGAACCTCTTGTTATTATTC 58.653 40.000 0.00 0.00 37.29 1.75
108 129 6.309389 ACCCTCGAACCTCTTGTTATTATT 57.691 37.500 0.00 0.00 37.29 1.40
109 130 5.451520 CGACCCTCGAACCTCTTGTTATTAT 60.452 44.000 0.00 0.00 43.74 1.28
110 131 4.142315 CGACCCTCGAACCTCTTGTTATTA 60.142 45.833 0.00 0.00 43.74 0.98
169 190 5.784177 CAGTGTACTCTAGGAGCTCAAAAA 58.216 41.667 17.19 0.00 32.04 1.94
170 191 4.322049 GCAGTGTACTCTAGGAGCTCAAAA 60.322 45.833 17.19 0.00 32.04 2.44
171 192 3.193691 GCAGTGTACTCTAGGAGCTCAAA 59.806 47.826 17.19 1.14 32.04 2.69
172 193 2.755655 GCAGTGTACTCTAGGAGCTCAA 59.244 50.000 17.19 1.54 32.04 3.02
173 194 2.370349 GCAGTGTACTCTAGGAGCTCA 58.630 52.381 17.19 0.00 32.04 4.26
174 195 1.332375 CGCAGTGTACTCTAGGAGCTC 59.668 57.143 4.71 4.71 32.04 4.09
175 196 1.384525 CGCAGTGTACTCTAGGAGCT 58.615 55.000 0.00 0.00 32.04 4.09
176 197 0.382515 CCGCAGTGTACTCTAGGAGC 59.617 60.000 11.18 4.45 32.04 4.70
211 232 1.303643 CTGGGTCAAAGTCCAGGCC 60.304 63.158 0.00 0.00 44.99 5.19
218 239 1.762370 CCCTTTTTGCTGGGTCAAAGT 59.238 47.619 0.00 0.00 37.27 2.66
255 277 1.153920 CGGGTGGGTTTAATTGCGC 60.154 57.895 0.00 0.00 0.00 6.09
276 298 1.864669 TGGGAATTTGGAATCCAGCC 58.135 50.000 0.86 3.21 37.46 4.85
368 393 0.524604 AACGAAAACGTTGCAGGTGC 60.525 50.000 0.00 0.00 42.50 5.01
533 862 2.452813 CGACAATTGGTCCGGCGAG 61.453 63.158 9.30 0.00 43.95 5.03
534 863 2.233605 ATCGACAATTGGTCCGGCGA 62.234 55.000 9.30 1.28 43.95 5.54
535 864 1.762222 GATCGACAATTGGTCCGGCG 61.762 60.000 10.83 0.00 43.95 6.46
539 868 1.436983 GCGGGATCGACAATTGGTCC 61.437 60.000 10.83 10.93 43.95 4.46
540 869 1.436983 GGCGGGATCGACAATTGGTC 61.437 60.000 10.83 4.35 45.37 4.02
541 870 1.451387 GGCGGGATCGACAATTGGT 60.451 57.895 10.83 0.00 45.37 3.67
590 925 4.767255 GGCGGGTCAGGTGCTCTG 62.767 72.222 1.94 1.94 44.68 3.35
604 939 2.202797 CTGACCATGACTCCGGCG 60.203 66.667 0.00 0.00 0.00 6.46
629 971 3.728373 CCCTCCTGTTTCCCCGGG 61.728 72.222 15.80 15.80 0.00 5.73
645 987 1.402984 GGCGACGATGATGAGGATACC 60.403 57.143 0.00 0.00 37.17 2.73
1641 2005 1.123077 CCTCCCACTCCATCATCGAA 58.877 55.000 0.00 0.00 0.00 3.71
1736 2100 1.671379 GAGAAGGGTGCGGGTGAAC 60.671 63.158 0.00 0.00 0.00 3.18
1737 2101 2.747686 GAGAAGGGTGCGGGTGAA 59.252 61.111 0.00 0.00 0.00 3.18
1738 2102 3.319198 GGAGAAGGGTGCGGGTGA 61.319 66.667 0.00 0.00 0.00 4.02
1861 2225 5.830000 ACCCCAAAATTTCGCTATAGAAC 57.170 39.130 3.21 0.00 0.00 3.01
1868 2232 1.419381 ACCAACCCCAAAATTTCGCT 58.581 45.000 0.00 0.00 0.00 4.93
1882 2246 5.119125 GCATTGTTCTATTTGAGCAACCAAC 59.881 40.000 0.09 0.00 45.97 3.77
1886 2250 5.865552 ACATGCATTGTTCTATTTGAGCAAC 59.134 36.000 0.00 0.00 45.97 4.17
1939 2303 6.349300 CAGTAATCAGCAATAACTACTGGGT 58.651 40.000 0.00 0.00 34.97 4.51
1997 2361 3.938963 CTGAAGTACCCAATACGCAACAT 59.061 43.478 0.00 0.00 38.97 2.71
2017 2381 1.039785 TCAGCAGGGATCGTCCTCTG 61.040 60.000 13.20 13.20 37.67 3.35
2058 2422 4.142182 GCAGTAGCTATCATCAGAGGATCC 60.142 50.000 2.48 2.48 37.91 3.36
2059 2423 4.997565 GCAGTAGCTATCATCAGAGGATC 58.002 47.826 0.00 0.00 37.91 3.36
2076 2440 4.020573 ACAATGCCAACTACTACAGCAGTA 60.021 41.667 0.00 0.00 38.80 2.74
2077 2441 3.244561 ACAATGCCAACTACTACAGCAGT 60.245 43.478 0.00 0.00 41.62 4.40
2078 2442 3.125829 CACAATGCCAACTACTACAGCAG 59.874 47.826 0.00 0.00 36.80 4.24
2079 2443 3.073678 CACAATGCCAACTACTACAGCA 58.926 45.455 0.00 0.00 37.94 4.41
2080 2444 3.334691 TCACAATGCCAACTACTACAGC 58.665 45.455 0.00 0.00 0.00 4.40
2081 2445 5.940192 TTTCACAATGCCAACTACTACAG 57.060 39.130 0.00 0.00 0.00 2.74
2082 2446 7.011016 CGATATTTCACAATGCCAACTACTACA 59.989 37.037 0.00 0.00 0.00 2.74
2083 2447 7.345192 CGATATTTCACAATGCCAACTACTAC 58.655 38.462 0.00 0.00 0.00 2.73
2084 2448 6.481976 CCGATATTTCACAATGCCAACTACTA 59.518 38.462 0.00 0.00 0.00 1.82
2085 2449 5.296780 CCGATATTTCACAATGCCAACTACT 59.703 40.000 0.00 0.00 0.00 2.57
2086 2450 5.295787 TCCGATATTTCACAATGCCAACTAC 59.704 40.000 0.00 0.00 0.00 2.73
2087 2451 5.432645 TCCGATATTTCACAATGCCAACTA 58.567 37.500 0.00 0.00 0.00 2.24
2088 2452 4.269183 TCCGATATTTCACAATGCCAACT 58.731 39.130 0.00 0.00 0.00 3.16
2089 2453 4.630894 TCCGATATTTCACAATGCCAAC 57.369 40.909 0.00 0.00 0.00 3.77
2090 2454 5.850557 AATCCGATATTTCACAATGCCAA 57.149 34.783 0.00 0.00 0.00 4.52
2091 2455 7.523293 AATAATCCGATATTTCACAATGCCA 57.477 32.000 0.00 0.00 0.00 4.92
2092 2456 8.816640 AAAATAATCCGATATTTCACAATGCC 57.183 30.769 0.00 0.00 35.07 4.40
2093 2457 9.462174 TGAAAATAATCCGATATTTCACAATGC 57.538 29.630 10.55 0.00 35.07 3.56
2263 2667 3.370061 GCTCATGGAAATTGCAGAAAAGC 59.630 43.478 0.00 0.00 0.00 3.51
2438 2842 1.073199 CCTGGAAGTTGAGGCCGTT 59.927 57.895 0.00 0.00 0.00 4.44
2681 3094 5.934043 TCTTCAGTTACATGGACTTGTCATG 59.066 40.000 0.00 0.00 45.31 3.07
2682 3095 6.114187 TCTTCAGTTACATGGACTTGTCAT 57.886 37.500 0.00 0.00 0.00 3.06
2683 3096 5.545063 TCTTCAGTTACATGGACTTGTCA 57.455 39.130 0.00 0.00 0.00 3.58
2684 3097 6.861065 TTTCTTCAGTTACATGGACTTGTC 57.139 37.500 0.00 0.00 0.00 3.18
2685 3098 7.823745 AATTTCTTCAGTTACATGGACTTGT 57.176 32.000 0.00 0.00 0.00 3.16
2756 3169 4.082354 ACCTACACACCGAACTCAAGATAC 60.082 45.833 0.00 0.00 0.00 2.24
2774 3187 7.345192 CGTTTGAAATATCACATGCTACCTAC 58.655 38.462 0.00 0.00 34.61 3.18
2785 3198 5.610908 GCATCAAGCGTTTGAAATATCAC 57.389 39.130 18.80 0.51 45.82 3.06
2814 3227 5.416013 TGCAAACACATTATAAATCCCACGA 59.584 36.000 0.00 0.00 0.00 4.35
2816 3229 9.762933 ATTATGCAAACACATTATAAATCCCAC 57.237 29.630 0.00 0.00 0.00 4.61
2877 3316 6.472887 TCCAAACCAAAGGAGAGTACTTATG 58.527 40.000 0.00 0.00 0.00 1.90
2890 3329 6.437162 TCCTATGAAATTCCTCCAAACCAAAG 59.563 38.462 0.00 0.00 0.00 2.77
2892 3331 5.898120 TCCTATGAAATTCCTCCAAACCAA 58.102 37.500 0.00 0.00 0.00 3.67
2893 3332 5.528600 TCCTATGAAATTCCTCCAAACCA 57.471 39.130 0.00 0.00 0.00 3.67
2894 3333 7.423844 AATTCCTATGAAATTCCTCCAAACC 57.576 36.000 0.00 0.00 33.32 3.27
2897 3336 9.989296 TCTAAAATTCCTATGAAATTCCTCCAA 57.011 29.630 0.00 0.00 33.32 3.53
2899 3338 9.072375 CCTCTAAAATTCCTATGAAATTCCTCC 57.928 37.037 0.00 0.00 33.32 4.30
2900 3339 9.853177 TCCTCTAAAATTCCTATGAAATTCCTC 57.147 33.333 0.00 0.00 33.32 3.71
2945 3384 5.659079 TGAACCAAAGGGCTCTAAAGAAAAA 59.341 36.000 0.00 0.00 37.90 1.94
2950 3389 4.884164 CCTATGAACCAAAGGGCTCTAAAG 59.116 45.833 0.00 0.00 37.90 1.85
2951 3390 4.538490 TCCTATGAACCAAAGGGCTCTAAA 59.462 41.667 0.00 0.00 37.90 1.85
2952 3391 4.108570 TCCTATGAACCAAAGGGCTCTAA 58.891 43.478 0.00 0.00 37.90 2.10
2953 3392 3.731431 TCCTATGAACCAAAGGGCTCTA 58.269 45.455 0.00 0.00 37.90 2.43
2954 3393 2.562296 TCCTATGAACCAAAGGGCTCT 58.438 47.619 0.00 0.00 37.90 4.09
2955 3394 3.366052 TTCCTATGAACCAAAGGGCTC 57.634 47.619 0.00 0.00 37.90 4.70
2956 3395 3.628257 CCATTCCTATGAACCAAAGGGCT 60.628 47.826 0.00 0.00 33.50 5.19
2957 3396 2.695147 CCATTCCTATGAACCAAAGGGC 59.305 50.000 0.00 0.00 33.50 5.19
2958 3397 4.249638 TCCATTCCTATGAACCAAAGGG 57.750 45.455 0.00 0.00 35.37 3.95
2959 3398 6.396829 GAATCCATTCCTATGAACCAAAGG 57.603 41.667 0.00 0.00 33.37 3.11
2997 3436 7.000472 TGAAATGTGGAGGATAGGAATCAATC 59.000 38.462 0.00 0.00 33.41 2.67
3000 3439 5.974156 TGAAATGTGGAGGATAGGAATCA 57.026 39.130 0.00 0.00 33.41 2.57
3001 3440 7.038017 TCCTATGAAATGTGGAGGATAGGAATC 60.038 40.741 0.00 0.00 38.86 2.52
3003 3442 6.150332 TCCTATGAAATGTGGAGGATAGGAA 58.850 40.000 0.00 0.00 38.86 3.36
3004 3443 5.726560 TCCTATGAAATGTGGAGGATAGGA 58.273 41.667 0.00 0.00 39.29 2.94
3006 3445 8.930846 ATTTTCCTATGAAATGTGGAGGATAG 57.069 34.615 0.00 0.00 40.08 2.08
3009 3448 9.540538 TTTTATTTTCCTATGAAATGTGGAGGA 57.459 29.630 0.00 0.00 40.08 3.71
3024 3463 8.109634 TGAGTCTAGGCTCATTTTTATTTTCCT 58.890 33.333 23.07 0.00 40.23 3.36
3025 3464 8.281212 TGAGTCTAGGCTCATTTTTATTTTCC 57.719 34.615 23.07 0.00 40.23 3.13
3028 3467 8.689972 CCATTGAGTCTAGGCTCATTTTTATTT 58.310 33.333 26.91 3.37 43.99 1.40
3029 3468 8.055181 TCCATTGAGTCTAGGCTCATTTTTATT 58.945 33.333 26.91 4.66 43.99 1.40
3030 3469 7.577303 TCCATTGAGTCTAGGCTCATTTTTAT 58.423 34.615 26.91 14.49 43.99 1.40
3031 3470 6.957631 TCCATTGAGTCTAGGCTCATTTTTA 58.042 36.000 26.91 12.75 43.99 1.52
3032 3471 5.819991 TCCATTGAGTCTAGGCTCATTTTT 58.180 37.500 26.91 10.30 43.99 1.94
3033 3472 5.441718 TCCATTGAGTCTAGGCTCATTTT 57.558 39.130 26.91 12.69 43.99 1.82
3034 3473 5.441718 TTCCATTGAGTCTAGGCTCATTT 57.558 39.130 26.91 15.12 43.99 2.32
3035 3474 5.441718 TTTCCATTGAGTCTAGGCTCATT 57.558 39.130 26.91 20.33 43.99 2.57
3036 3475 5.441718 TTTTCCATTGAGTCTAGGCTCAT 57.558 39.130 26.91 14.39 43.99 2.90
3037 3476 4.908601 TTTTCCATTGAGTCTAGGCTCA 57.091 40.909 23.07 23.07 43.03 4.26
3038 3477 6.765915 AATTTTTCCATTGAGTCTAGGCTC 57.234 37.500 17.74 17.74 36.12 4.70
3039 3478 6.765915 GAATTTTTCCATTGAGTCTAGGCT 57.234 37.500 0.00 0.00 0.00 4.58
3050 3489 8.334633 GGTTGACACCAAAGGAATTTTTCCATT 61.335 37.037 8.87 0.31 46.88 3.16
3051 3490 6.911529 GGTTGACACCAAAGGAATTTTTCCAT 60.912 38.462 8.87 0.00 46.88 3.41
3052 3491 5.627968 GGTTGACACCAAAGGAATTTTTCCA 60.628 40.000 8.87 0.00 46.88 3.53
3053 3492 4.814234 GGTTGACACCAAAGGAATTTTTCC 59.186 41.667 0.00 0.00 45.80 3.13
3054 3493 5.984233 GGTTGACACCAAAGGAATTTTTC 57.016 39.130 0.00 0.00 43.61 2.29
3070 3509 4.749245 AACGAGATGTCATTTGGTTGAC 57.251 40.909 3.39 0.00 45.05 3.18
3071 3510 5.995282 AGTAAACGAGATGTCATTTGGTTGA 59.005 36.000 4.80 0.00 0.00 3.18
3072 3511 6.241207 AGTAAACGAGATGTCATTTGGTTG 57.759 37.500 4.80 0.00 0.00 3.77
3073 3512 8.561738 AATAGTAAACGAGATGTCATTTGGTT 57.438 30.769 0.00 0.00 0.00 3.67
3074 3513 7.280205 GGAATAGTAAACGAGATGTCATTTGGT 59.720 37.037 0.00 0.00 0.00 3.67
3075 3514 7.495934 AGGAATAGTAAACGAGATGTCATTTGG 59.504 37.037 0.00 0.00 0.00 3.28
3076 3515 8.425577 AGGAATAGTAAACGAGATGTCATTTG 57.574 34.615 0.00 0.00 0.00 2.32
3077 3516 9.530633 GTAGGAATAGTAAACGAGATGTCATTT 57.469 33.333 0.00 0.00 0.00 2.32
3078 3517 8.915036 AGTAGGAATAGTAAACGAGATGTCATT 58.085 33.333 0.00 0.00 0.00 2.57
3079 3518 8.466617 AGTAGGAATAGTAAACGAGATGTCAT 57.533 34.615 0.00 0.00 0.00 3.06
3080 3519 7.555195 TGAGTAGGAATAGTAAACGAGATGTCA 59.445 37.037 0.00 0.00 0.00 3.58
3081 3520 7.928103 TGAGTAGGAATAGTAAACGAGATGTC 58.072 38.462 0.00 0.00 0.00 3.06
3082 3521 7.876936 TGAGTAGGAATAGTAAACGAGATGT 57.123 36.000 0.00 0.00 0.00 3.06
3100 3539 9.853555 GACATGTATCTCAAATCCTATGAGTAG 57.146 37.037 0.00 0.00 43.77 2.57
3101 3540 9.367160 TGACATGTATCTCAAATCCTATGAGTA 57.633 33.333 0.00 0.00 43.77 2.59
3102 3541 8.255111 TGACATGTATCTCAAATCCTATGAGT 57.745 34.615 0.00 0.00 43.77 3.41
3103 3542 9.368674 GATGACATGTATCTCAAATCCTATGAG 57.631 37.037 0.00 0.00 44.53 2.90
3104 3543 9.097946 AGATGACATGTATCTCAAATCCTATGA 57.902 33.333 0.00 0.00 29.05 2.15
3105 3544 9.368674 GAGATGACATGTATCTCAAATCCTATG 57.631 37.037 24.95 0.00 46.22 2.23
3152 3591 9.661954 GGTTCATAGGATAGGATTATCATAGGA 57.338 37.037 0.00 1.09 39.88 2.94
3153 3592 9.439461 TGGTTCATAGGATAGGATTATCATAGG 57.561 37.037 0.00 0.00 36.37 2.57
3160 3599 8.660435 CCTCTTTTGGTTCATAGGATAGGATTA 58.340 37.037 0.00 0.00 28.27 1.75
3161 3600 7.521669 CCTCTTTTGGTTCATAGGATAGGATT 58.478 38.462 0.00 0.00 28.27 3.01
3162 3601 6.466470 GCCTCTTTTGGTTCATAGGATAGGAT 60.466 42.308 0.00 0.00 28.27 3.24
3163 3602 5.163195 GCCTCTTTTGGTTCATAGGATAGGA 60.163 44.000 0.00 0.00 0.00 2.94
3164 3603 5.066593 GCCTCTTTTGGTTCATAGGATAGG 58.933 45.833 0.00 0.00 0.00 2.57
3165 3604 5.529060 GTGCCTCTTTTGGTTCATAGGATAG 59.471 44.000 0.00 0.00 0.00 2.08
3166 3605 5.191722 AGTGCCTCTTTTGGTTCATAGGATA 59.808 40.000 0.00 0.00 0.00 2.59
3167 3606 4.018050 AGTGCCTCTTTTGGTTCATAGGAT 60.018 41.667 0.00 0.00 0.00 3.24
3168 3607 3.330701 AGTGCCTCTTTTGGTTCATAGGA 59.669 43.478 0.00 0.00 0.00 2.94
3169 3608 3.441572 CAGTGCCTCTTTTGGTTCATAGG 59.558 47.826 0.00 0.00 0.00 2.57
3170 3609 4.074970 ACAGTGCCTCTTTTGGTTCATAG 58.925 43.478 0.00 0.00 0.00 2.23
3171 3610 4.098914 ACAGTGCCTCTTTTGGTTCATA 57.901 40.909 0.00 0.00 0.00 2.15
3172 3611 2.949447 ACAGTGCCTCTTTTGGTTCAT 58.051 42.857 0.00 0.00 0.00 2.57
3173 3612 2.435372 ACAGTGCCTCTTTTGGTTCA 57.565 45.000 0.00 0.00 0.00 3.18
3174 3613 3.801114 AAACAGTGCCTCTTTTGGTTC 57.199 42.857 0.00 0.00 0.00 3.62
3175 3614 3.118775 GGAAAACAGTGCCTCTTTTGGTT 60.119 43.478 0.00 0.00 0.00 3.67
3176 3615 2.430694 GGAAAACAGTGCCTCTTTTGGT 59.569 45.455 0.00 0.00 0.00 3.67
3177 3616 2.224042 GGGAAAACAGTGCCTCTTTTGG 60.224 50.000 0.00 0.00 0.00 3.28
3178 3617 2.430332 TGGGAAAACAGTGCCTCTTTTG 59.570 45.455 0.00 0.00 0.00 2.44
3179 3618 2.745968 TGGGAAAACAGTGCCTCTTTT 58.254 42.857 0.00 0.00 0.00 2.27
3180 3619 2.452600 TGGGAAAACAGTGCCTCTTT 57.547 45.000 0.00 0.00 0.00 2.52
3181 3620 2.242043 CATGGGAAAACAGTGCCTCTT 58.758 47.619 0.00 0.00 0.00 2.85
3182 3621 1.145738 ACATGGGAAAACAGTGCCTCT 59.854 47.619 0.00 0.00 0.00 3.69
3183 3622 1.620822 ACATGGGAAAACAGTGCCTC 58.379 50.000 0.00 0.00 0.00 4.70
3184 3623 1.963515 GAACATGGGAAAACAGTGCCT 59.036 47.619 0.00 0.00 0.00 4.75
3185 3624 1.686052 TGAACATGGGAAAACAGTGCC 59.314 47.619 0.00 0.00 0.00 5.01
3186 3625 3.451141 TTGAACATGGGAAAACAGTGC 57.549 42.857 0.00 0.00 0.00 4.40
3187 3626 5.199024 TGATTGAACATGGGAAAACAGTG 57.801 39.130 0.00 0.00 0.00 3.66
3188 3627 5.047092 GGATGATTGAACATGGGAAAACAGT 60.047 40.000 0.00 0.00 0.00 3.55
3189 3628 5.413499 GGATGATTGAACATGGGAAAACAG 58.587 41.667 0.00 0.00 0.00 3.16
3190 3629 4.222588 GGGATGATTGAACATGGGAAAACA 59.777 41.667 0.00 0.00 0.00 2.83
3620 4066 0.326264 GGGCGCTCATAGAATGGGAT 59.674 55.000 7.64 0.00 30.24 3.85
3637 4083 1.411977 TCAAAACCACAGCACAATGGG 59.588 47.619 0.00 0.00 40.59 4.00
3646 4092 6.391227 ACACTATTTTCCTCAAAACCACAG 57.609 37.500 0.00 0.00 34.24 3.66
3706 4165 2.101582 ACCGAAGTCATATGCTCAGGAC 59.898 50.000 18.42 5.35 0.00 3.85
3710 4169 5.791336 AGATAACCGAAGTCATATGCTCA 57.209 39.130 0.00 0.00 0.00 4.26
3724 4183 5.637810 TCAGAAACAGTAAGCAAGATAACCG 59.362 40.000 0.00 0.00 0.00 4.44
3768 4227 1.609210 TCGGTCATGTCCTGGAGCA 60.609 57.895 7.41 0.00 0.00 4.26
3777 4236 1.512926 GAAACAGCAGTCGGTCATGT 58.487 50.000 0.00 0.00 0.00 3.21
3823 4282 7.630005 ATTCATTCTTGTCTGATCCTATCCT 57.370 36.000 0.00 0.00 0.00 3.24
3908 4367 8.204836 TGATAAGAAGGTAAACTGCTAATCCTC 58.795 37.037 0.00 0.00 32.18 3.71
4059 4518 5.708948 TGAAGTTTCAGAAACACCAAACAG 58.291 37.500 24.85 0.00 43.79 3.16
4123 4583 7.759489 AAATCAACTATAGGCACTTTCAACA 57.241 32.000 4.43 0.00 41.75 3.33
4217 4680 8.547173 AGAATACTCAATCTGGAAGTGAGAAAT 58.453 33.333 16.39 9.55 41.08 2.17
4265 4728 2.606272 CGTTTCCGCTACTAAATGGGAC 59.394 50.000 0.00 0.00 0.00 4.46
4383 4875 9.991906 GTAGGCATATATTGTACTCCTTAAACA 57.008 33.333 0.00 0.00 0.00 2.83
4389 4881 9.715119 TCATATGTAGGCATATATTGTACTCCT 57.285 33.333 1.90 0.00 44.12 3.69
4406 4898 7.410120 TGCTGGGTCATATACTCATATGTAG 57.590 40.000 1.90 1.92 43.12 2.74
4413 4905 5.894298 ATTCTTGCTGGGTCATATACTCA 57.106 39.130 0.00 0.00 35.70 3.41
4414 4906 8.677148 TTTTATTCTTGCTGGGTCATATACTC 57.323 34.615 0.00 0.00 0.00 2.59
4523 5018 5.747197 TCGGAATAATTCGTGAAGTCTAAGC 59.253 40.000 0.00 0.00 0.00 3.09
4552 5049 6.142818 AGTCTTCTGTATGTGCTGAGTATC 57.857 41.667 0.00 0.00 0.00 2.24
4621 5118 2.164422 TCTGCAGTGTATCTGTCCTTCG 59.836 50.000 14.67 0.00 45.23 3.79
4682 5186 9.431887 ACAAAGCGTCAAGAATTATCTTTAGTA 57.568 29.630 0.00 0.00 43.43 1.82
4702 5206 9.885934 TTTTTCTTTGGTTTTCTTTAACAAAGC 57.114 25.926 8.17 3.16 38.39 3.51
4724 5228 9.196139 TGCCCTAATGTAGCAATAAGTATTTTT 57.804 29.630 0.00 0.00 32.56 1.94
4778 5283 2.213513 TGTCTGTGGACGGATGCCA 61.214 57.895 0.00 0.00 44.83 4.92


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

AutoCloner maintained by Alex Coulton.