Multiple sequence alignment - TraesCS2A01G505300

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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 TraesCS2A01G505300 chr2A 100.000 4073 0 0 1 4073 733715082 733719154 0.000000e+00 7522
1 TraesCS2A01G505300 chr2A 91.667 132 11 0 1478 1609 657106715 657106846 2.500000e-42 183
2 TraesCS2A01G505300 chr2D 92.601 3068 123 26 1 3036 600036000 600038995 0.000000e+00 4313
3 TraesCS2A01G505300 chr2D 86.667 90 12 0 3320 3409 600055910 600055999 2.590000e-17 100
4 TraesCS2A01G505300 chr2B 93.983 1396 51 13 67 1455 729955481 729956850 0.000000e+00 2082
5 TraesCS2A01G505300 chr2B 87.561 1833 155 41 1607 3410 729956876 729958664 0.000000e+00 2054
6 TraesCS2A01G505300 chr2B 83.936 691 76 25 3410 4073 729959335 729960017 2.670000e-176 628
7 TraesCS2A01G505300 chr2B 97.143 70 1 1 1 70 729955069 729955137 2.570000e-22 117
8 TraesCS2A01G505300 chr3D 85.514 1070 118 22 1960 3013 441570757 441569709 0.000000e+00 1083
9 TraesCS2A01G505300 chr3D 80.387 413 50 14 878 1282 441571586 441571197 6.660000e-73 285
10 TraesCS2A01G505300 chr3D 90.441 136 12 1 1478 1613 589215771 589215905 1.160000e-40 178
11 TraesCS2A01G505300 chr3B 84.299 1070 129 29 1954 2998 578988288 578989343 0.000000e+00 1009
12 TraesCS2A01G505300 chr3B 76.817 578 76 26 887 1455 578987474 578988002 5.190000e-69 272
13 TraesCS2A01G505300 chr3B 91.045 134 12 0 1476 1609 15040307 15040440 8.990000e-42 182
14 TraesCS2A01G505300 chr3B 90.909 132 12 0 1478 1609 397669197 397669066 1.160000e-40 178
15 TraesCS2A01G505300 chr3A 83.426 1080 126 31 1960 3013 582343538 582342486 0.000000e+00 953
16 TraesCS2A01G505300 chr1A 92.424 132 10 0 1478 1609 335028423 335028292 5.370000e-44 189
17 TraesCS2A01G505300 chr6A 90.714 140 9 2 1474 1610 420832767 420832629 2.500000e-42 183
18 TraesCS2A01G505300 chr4D 91.667 132 10 1 1478 1609 57689205 57689335 8.990000e-42 182
19 TraesCS2A01G505300 chr4A 89.209 139 11 3 1474 1609 704247883 704248020 1.950000e-38 171


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 TraesCS2A01G505300 chr2A 733715082 733719154 4072 False 7522.00 7522 100.00000 1 4073 1 chr2A.!!$F2 4072
1 TraesCS2A01G505300 chr2D 600036000 600038995 2995 False 4313.00 4313 92.60100 1 3036 1 chr2D.!!$F1 3035
2 TraesCS2A01G505300 chr2B 729955069 729960017 4948 False 1220.25 2082 90.65575 1 4073 4 chr2B.!!$F1 4072
3 TraesCS2A01G505300 chr3D 441569709 441571586 1877 True 684.00 1083 82.95050 878 3013 2 chr3D.!!$R1 2135
4 TraesCS2A01G505300 chr3B 578987474 578989343 1869 False 640.50 1009 80.55800 887 2998 2 chr3B.!!$F2 2111
5 TraesCS2A01G505300 chr3A 582342486 582343538 1052 True 953.00 953 83.42600 1960 3013 1 chr3A.!!$R1 1053

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
963 1344 0.033796 ATTGGTGTGGCAGCATAGCT 60.034 50.0 1.79 0.0 41.53 3.32 F
2858 3359 0.105964 TGGGGGACGATAAATCTGCG 59.894 55.0 0.00 0.0 0.00 5.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2900 3401 0.105709 TATCGTGCTCCATCTCCCCA 60.106 55.0 0.0 0.0 0.00 4.96 R
3820 5005 0.036732 ATCCATGCACTTCCGTGTGT 59.963 50.0 0.0 0.0 43.16 3.72 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
62 63 0.323629 CTTGGAAGAAGCGGGTGGTA 59.676 55.000 0.00 0.00 0.00 3.25
192 541 1.600636 ACAACATGTGGCACGAGGG 60.601 57.895 13.77 4.68 0.00 4.30
240 589 2.104792 ACTTGACTGGCTGCTTACAAGA 59.895 45.455 23.46 0.44 38.30 3.02
267 617 5.569441 GCCTTTCTTTTCTGCGAAATCTTAC 59.431 40.000 4.91 0.00 0.00 2.34
293 643 6.205101 AGTAGCAAGTATACTTAACAGCGT 57.795 37.500 17.62 9.37 34.28 5.07
398 749 3.238788 TGTTACTGAGACAGACCCTGA 57.761 47.619 5.76 0.00 35.18 3.86
423 774 2.079925 AGTTTGCTCGGATTTGCTCTC 58.920 47.619 0.00 0.00 0.00 3.20
518 869 2.164422 CTCATAGTCCGAGTGCTGTCAA 59.836 50.000 0.00 0.00 0.00 3.18
519 870 2.094700 TCATAGTCCGAGTGCTGTCAAC 60.095 50.000 0.00 0.00 0.00 3.18
538 889 4.522405 TCAACGGTGGAATTTGATGTTGAT 59.478 37.500 0.00 0.00 39.23 2.57
539 890 4.439305 ACGGTGGAATTTGATGTTGATG 57.561 40.909 0.00 0.00 0.00 3.07
540 891 3.181397 CGGTGGAATTTGATGTTGATGC 58.819 45.455 0.00 0.00 0.00 3.91
551 902 1.533625 TGTTGATGCTGGTTGCTACC 58.466 50.000 10.70 10.70 45.26 3.18
568 919 3.242641 GCTACCGTATGCTTTAGTTTGGC 60.243 47.826 0.00 0.00 0.00 4.52
569 920 2.785562 ACCGTATGCTTTAGTTTGGCA 58.214 42.857 0.00 0.00 40.32 4.92
570 921 2.486592 ACCGTATGCTTTAGTTTGGCAC 59.513 45.455 0.00 0.00 38.83 5.01
578 929 3.607078 GCTTTAGTTTGGCACTTCGACAG 60.607 47.826 0.00 0.00 36.88 3.51
649 1000 3.118223 TGTGTTGGTTGTGTGTATCCTCA 60.118 43.478 0.00 0.00 0.00 3.86
837 1206 4.023980 TCTCTTTCGAATTAGCTGGGAGA 58.976 43.478 0.00 0.00 0.00 3.71
881 1253 0.468226 AGAAGTGCAGGTCGTTTCCA 59.532 50.000 0.00 0.00 0.00 3.53
934 1315 1.107114 TGCTACTACTCCAGCTCAGC 58.893 55.000 0.00 0.00 38.63 4.26
961 1342 0.101759 GCATTGGTGTGGCAGCATAG 59.898 55.000 1.79 0.13 41.53 2.23
962 1343 0.101759 CATTGGTGTGGCAGCATAGC 59.898 55.000 1.79 0.00 41.53 2.97
963 1344 0.033796 ATTGGTGTGGCAGCATAGCT 60.034 50.000 1.79 0.00 41.53 3.32
991 1382 4.082845 AGTAAGTAGCTGCAGAGACTCAA 58.917 43.478 20.43 8.40 0.00 3.02
995 1386 2.855209 AGCTGCAGAGACTCAAACAT 57.145 45.000 20.43 0.00 0.00 2.71
1021 1412 1.751351 CAGGACAGAGAGGCGACAATA 59.249 52.381 0.00 0.00 0.00 1.90
1296 1690 2.065899 AGGTACTGCCTCAGAGCTAG 57.934 55.000 0.29 0.00 46.96 3.42
1314 1710 8.210946 CAGAGCTAGCTATCTATCTGGTACTAT 58.789 40.741 19.38 0.00 32.30 2.12
1452 1853 4.122337 TCCTCTATGCCTTATTCGGGTA 57.878 45.455 0.00 0.00 0.00 3.69
1453 1854 4.485875 TCCTCTATGCCTTATTCGGGTAA 58.514 43.478 0.00 0.00 0.00 2.85
1454 1855 4.527038 TCCTCTATGCCTTATTCGGGTAAG 59.473 45.833 2.05 2.05 0.00 2.34
1455 1856 4.527038 CCTCTATGCCTTATTCGGGTAAGA 59.473 45.833 8.66 0.00 34.34 2.10
1456 1857 5.464030 TCTATGCCTTATTCGGGTAAGAC 57.536 43.478 8.66 0.00 34.34 3.01
1457 1858 2.589798 TGCCTTATTCGGGTAAGACG 57.410 50.000 8.66 0.00 34.34 4.18
1458 1859 1.137479 TGCCTTATTCGGGTAAGACGG 59.863 52.381 8.66 0.00 34.34 4.79
1459 1860 1.861971 CCTTATTCGGGTAAGACGGC 58.138 55.000 8.66 0.00 34.34 5.68
1540 1941 1.541147 TGCTTCAGGAAAAAGCCATCG 59.459 47.619 5.48 0.00 46.81 3.84
1585 1986 4.025896 TGTTTGATGACTTTTGCGCAATTG 60.026 37.500 25.64 20.78 0.00 2.32
1637 2040 2.940410 GCGGCACCTAATTAGCTGTTTA 59.060 45.455 6.99 0.00 37.00 2.01
1672 2081 9.551734 CAACAAATAGGAGATGAATGACTGATA 57.448 33.333 0.00 0.00 0.00 2.15
1804 2227 1.758936 TAGCGCTACTGCTGAGGTAA 58.241 50.000 14.45 0.00 46.70 2.85
1819 2251 5.578005 TGAGGTAAGAACTAGTTGATCCG 57.422 43.478 14.14 0.00 0.00 4.18
1916 2379 9.725206 ATGGAATAGAGGGAGTACTAAAGTTAA 57.275 33.333 0.00 0.00 0.00 2.01
1921 2384 9.939424 ATAGAGGGAGTACTAAAGTTAATCAGT 57.061 33.333 0.00 0.00 0.00 3.41
1923 2386 9.411189 AGAGGGAGTACTAAAGTTAATCAGTAG 57.589 37.037 0.00 0.00 0.00 2.57
1924 2387 9.187996 GAGGGAGTACTAAAGTTAATCAGTAGT 57.812 37.037 0.00 0.00 31.42 2.73
2037 2505 3.692406 GAAGGTGGCCGGAGTCGT 61.692 66.667 5.05 0.00 33.95 4.34
2071 2539 3.869272 GTGCTCGCCATCGCCTTG 61.869 66.667 0.00 0.00 35.26 3.61
2344 2812 2.284331 TTCTCCCGGTGGCAGCTA 60.284 61.111 15.48 0.00 0.00 3.32
2360 2828 0.731855 GCTAGGGTTCGACGTCACAC 60.732 60.000 17.16 8.34 0.00 3.82
2384 2852 1.726265 GCCGTCCTCTACACCGTAG 59.274 63.158 0.00 0.00 0.00 3.51
2426 2919 3.568443 TGATAATGCTGCCAATGGATGT 58.432 40.909 2.05 0.00 0.00 3.06
2446 2939 0.700564 ATGCATGGAGTGGTGGACTT 59.299 50.000 0.00 0.00 33.83 3.01
2637 3130 3.132863 GGCAGGTACGTGACGATTT 57.867 52.632 19.35 0.00 0.00 2.17
2638 3131 0.719465 GGCAGGTACGTGACGATTTG 59.281 55.000 19.35 5.61 0.00 2.32
2640 3133 1.389106 GCAGGTACGTGACGATTTGAC 59.611 52.381 19.35 1.14 0.00 3.18
2642 3135 3.250744 CAGGTACGTGACGATTTGACAT 58.749 45.455 13.70 0.00 0.00 3.06
2643 3136 3.303495 CAGGTACGTGACGATTTGACATC 59.697 47.826 13.70 0.00 0.00 3.06
2644 3137 2.278094 GGTACGTGACGATTTGACATCG 59.722 50.000 13.70 0.00 46.02 3.84
2645 3138 2.341318 ACGTGACGATTTGACATCGA 57.659 45.000 13.70 0.00 43.59 3.59
2646 3139 2.668250 ACGTGACGATTTGACATCGAA 58.332 42.857 13.70 0.00 43.59 3.71
2647 3140 2.661675 ACGTGACGATTTGACATCGAAG 59.338 45.455 13.70 0.00 43.59 3.79
2792 3290 1.410882 GTGCTGTGGGGTAAAAGCAAA 59.589 47.619 0.00 0.00 46.48 3.68
2797 3295 4.082125 CTGTGGGGTAAAAGCAAAGAGAT 58.918 43.478 0.00 0.00 0.00 2.75
2815 3313 2.520465 ATTCGGACTGCGCCATGTGA 62.520 55.000 4.18 0.00 0.00 3.58
2858 3359 0.105964 TGGGGGACGATAAATCTGCG 59.894 55.000 0.00 0.00 0.00 5.18
2878 3379 2.697751 CGGATGAGGAGGAGAAGAATGT 59.302 50.000 0.00 0.00 0.00 2.71
2879 3380 3.133721 CGGATGAGGAGGAGAAGAATGTT 59.866 47.826 0.00 0.00 0.00 2.71
2880 3381 4.342378 CGGATGAGGAGGAGAAGAATGTTA 59.658 45.833 0.00 0.00 0.00 2.41
2881 3382 5.011533 CGGATGAGGAGGAGAAGAATGTTAT 59.988 44.000 0.00 0.00 0.00 1.89
2882 3383 6.463614 CGGATGAGGAGGAGAAGAATGTTATT 60.464 42.308 0.00 0.00 0.00 1.40
2892 3393 6.928492 GGAGAAGAATGTTATTAGGAGCAGAG 59.072 42.308 0.00 0.00 0.00 3.35
2930 3431 2.096013 GGAGCACGATAAAGAAGCAACC 59.904 50.000 0.00 0.00 0.00 3.77
2953 3454 0.966179 TCGCCTGCTGAACAAGTCTA 59.034 50.000 0.00 0.00 0.00 2.59
2955 3456 2.143122 CGCCTGCTGAACAAGTCTAAA 58.857 47.619 0.00 0.00 0.00 1.85
2958 3459 4.670221 CGCCTGCTGAACAAGTCTAAATTC 60.670 45.833 0.00 0.00 0.00 2.17
3013 3519 5.122396 GGATGCATCCATTATTCGAGTAACC 59.878 44.000 35.93 7.09 46.38 2.85
3039 3545 5.030874 GACTCTGTCCAATTTAAACCACG 57.969 43.478 0.00 0.00 0.00 4.94
3040 3546 3.818773 ACTCTGTCCAATTTAAACCACGG 59.181 43.478 0.00 0.00 0.00 4.94
3048 3554 0.475044 TTTAAACCACGGAGCAGGGT 59.525 50.000 0.00 0.00 36.19 4.34
3059 3565 3.081804 CGGAGCAGGGTAACAGAAAAAT 58.918 45.455 0.00 0.00 39.74 1.82
3063 3569 4.017126 AGCAGGGTAACAGAAAAATAGGC 58.983 43.478 0.00 0.00 39.74 3.93
3079 3585 9.788960 GAAAAATAGGCTGTATTAAAGTTGAGG 57.211 33.333 0.00 0.00 0.00 3.86
3080 3586 6.944234 AATAGGCTGTATTAAAGTTGAGGC 57.056 37.500 0.00 0.00 0.00 4.70
3082 3588 4.860022 AGGCTGTATTAAAGTTGAGGCAT 58.140 39.130 0.00 0.00 0.00 4.40
3096 3602 7.775053 AGTTGAGGCATTTATTTTAAGGTGA 57.225 32.000 0.00 0.00 0.00 4.02
3100 3606 6.154363 TGAGGCATTTATTTTAAGGTGAAGGG 59.846 38.462 0.00 0.00 0.00 3.95
3106 3612 9.462606 CATTTATTTTAAGGTGAAGGGAGTAGT 57.537 33.333 0.00 0.00 0.00 2.73
3120 3626 6.443995 AGGGAGTAGTTGCTTAACCTTTTA 57.556 37.500 0.00 0.00 0.00 1.52
3124 3630 7.308408 GGGAGTAGTTGCTTAACCTTTTACAAG 60.308 40.741 0.00 0.00 0.00 3.16
3127 3633 6.387041 AGTTGCTTAACCTTTTACAAGTCC 57.613 37.500 0.00 0.00 0.00 3.85
3128 3634 5.301045 AGTTGCTTAACCTTTTACAAGTCCC 59.699 40.000 0.00 0.00 0.00 4.46
3129 3635 4.146564 TGCTTAACCTTTTACAAGTCCCC 58.853 43.478 0.00 0.00 0.00 4.81
3130 3636 3.189910 GCTTAACCTTTTACAAGTCCCCG 59.810 47.826 0.00 0.00 0.00 5.73
3168 3674 4.928601 TGCATACTACTAAGCCTTACACG 58.071 43.478 0.00 0.00 0.00 4.49
3194 3701 2.540931 CACTGCAAATTTGAAGGTGTGC 59.459 45.455 26.59 9.07 38.20 4.57
3195 3702 2.431782 ACTGCAAATTTGAAGGTGTGCT 59.568 40.909 26.59 5.15 38.20 4.40
3202 3709 6.509997 GCAAATTTGAAGGTGTGCTACTTTTG 60.510 38.462 22.31 0.00 0.00 2.44
3229 3736 8.712363 GTCCATATGTTGTATATGTGCAGTAAG 58.288 37.037 1.24 0.00 31.77 2.34
3230 3737 7.387673 TCCATATGTTGTATATGTGCAGTAAGC 59.612 37.037 1.24 0.00 35.25 3.09
3231 3738 7.361201 CCATATGTTGTATATGTGCAGTAAGCC 60.361 40.741 1.24 0.00 34.53 4.35
3233 3740 4.875536 TGTTGTATATGTGCAGTAAGCCAG 59.124 41.667 0.00 0.00 44.83 4.85
3234 3741 4.753516 TGTATATGTGCAGTAAGCCAGT 57.246 40.909 0.00 0.00 44.83 4.00
3235 3742 5.862678 TGTATATGTGCAGTAAGCCAGTA 57.137 39.130 0.00 0.00 44.83 2.74
3236 3743 6.228616 TGTATATGTGCAGTAAGCCAGTAA 57.771 37.500 0.00 0.00 44.83 2.24
3237 3744 6.046593 TGTATATGTGCAGTAAGCCAGTAAC 58.953 40.000 0.00 0.00 44.83 2.50
3238 3745 2.920724 TGTGCAGTAAGCCAGTAACA 57.079 45.000 0.00 0.00 44.83 2.41
3239 3746 2.489971 TGTGCAGTAAGCCAGTAACAC 58.510 47.619 0.00 0.00 44.83 3.32
3240 3747 2.158885 TGTGCAGTAAGCCAGTAACACA 60.159 45.455 0.00 0.00 44.83 3.72
3241 3748 2.480419 GTGCAGTAAGCCAGTAACACAG 59.520 50.000 0.00 0.00 44.83 3.66
3256 3763 2.495155 CACAGATGTGGATGGTTGGA 57.505 50.000 5.02 0.00 42.10 3.53
3267 3774 0.178909 ATGGTTGGATGTTTGCCCCA 60.179 50.000 0.00 0.00 0.00 4.96
3276 3783 3.181455 GGATGTTTGCCCCAAAAGTCTTT 60.181 43.478 0.00 0.00 35.03 2.52
3277 3784 4.039852 GGATGTTTGCCCCAAAAGTCTTTA 59.960 41.667 0.00 0.00 35.03 1.85
3278 3785 5.279960 GGATGTTTGCCCCAAAAGTCTTTAT 60.280 40.000 0.00 0.00 35.03 1.40
3318 3825 6.781138 TGTTCTATGCAACGGATCAATAAAC 58.219 36.000 0.00 0.00 0.00 2.01
3326 3833 6.372937 TGCAACGGATCAATAAACTGTGATAA 59.627 34.615 0.00 0.00 34.61 1.75
3330 3837 8.786826 ACGGATCAATAAACTGTGATAAAAGA 57.213 30.769 0.00 0.00 34.61 2.52
3331 3838 8.883731 ACGGATCAATAAACTGTGATAAAAGAG 58.116 33.333 0.00 0.00 34.61 2.85
3336 3843 9.677567 TCAATAAACTGTGATAAAAGAGTTTGC 57.322 29.630 9.07 0.00 41.97 3.68
3337 3844 9.462174 CAATAAACTGTGATAAAAGAGTTTGCA 57.538 29.630 9.07 0.00 41.97 4.08
3339 3846 7.935338 AAACTGTGATAAAAGAGTTTGCATG 57.065 32.000 0.00 0.00 40.86 4.06
3340 3847 6.639632 ACTGTGATAAAAGAGTTTGCATGT 57.360 33.333 0.00 0.00 0.00 3.21
3341 3848 7.042797 ACTGTGATAAAAGAGTTTGCATGTT 57.957 32.000 0.00 0.00 0.00 2.71
3342 3849 7.141363 ACTGTGATAAAAGAGTTTGCATGTTC 58.859 34.615 0.00 0.00 0.00 3.18
3343 3850 7.013655 ACTGTGATAAAAGAGTTTGCATGTTCT 59.986 33.333 0.00 0.00 0.00 3.01
3344 3851 7.140705 TGTGATAAAAGAGTTTGCATGTTCTG 58.859 34.615 0.00 0.00 0.00 3.02
3380 3887 1.356624 GCATTATGGACCAGTGCGC 59.643 57.895 0.00 0.00 0.00 6.09
3382 3889 1.089481 CATTATGGACCAGTGCGCGT 61.089 55.000 8.43 0.00 0.00 6.01
3383 3890 1.089481 ATTATGGACCAGTGCGCGTG 61.089 55.000 8.43 2.13 0.00 5.34
3385 3892 1.596895 TATGGACCAGTGCGCGTGTA 61.597 55.000 8.43 0.00 0.00 2.90
3436 4615 4.706842 TTTTCCACTTGAGCTTAGGACT 57.293 40.909 0.00 0.00 0.00 3.85
3445 4624 6.146347 CACTTGAGCTTAGGACTTTGTCTAAC 59.854 42.308 0.00 0.00 32.47 2.34
3456 4635 6.884836 AGGACTTTGTCTAACAAAACTTGAGT 59.115 34.615 6.70 0.55 46.15 3.41
3472 4651 6.803154 ACTTGAGTTTAGGACTATTTGCAC 57.197 37.500 0.00 0.00 39.19 4.57
3489 4668 1.453155 CACGAACCCTTGGAGAATGG 58.547 55.000 0.00 0.00 0.00 3.16
3566 4745 6.826668 TGGTGGACCAAATCTACATACTATG 58.173 40.000 0.00 0.00 44.35 2.23
3569 4748 6.929606 GTGGACCAAATCTACATACTATGACC 59.070 42.308 0.00 0.00 38.64 4.02
3570 4749 6.157211 GGACCAAATCTACATACTATGACCG 58.843 44.000 2.90 0.00 0.00 4.79
3592 4772 1.077429 GACCCAACATCCCTCTGCC 60.077 63.158 0.00 0.00 0.00 4.85
3599 4779 1.898863 ACATCCCTCTGCCTGGTAAT 58.101 50.000 0.00 0.00 0.00 1.89
3627 4810 0.662619 TTGCTCAGTTTCTGGTTGCG 59.337 50.000 0.00 0.00 31.51 4.85
3669 4852 0.251165 GGCCTTGTCCTAAGCCAACA 60.251 55.000 0.00 0.00 45.07 3.33
3676 4859 0.984230 TCCTAAGCCAACACTCCTGG 59.016 55.000 0.00 0.00 36.99 4.45
3734 4918 3.058160 GCCGTCACTGCCAAGCAT 61.058 61.111 0.00 0.00 38.13 3.79
3749 4933 3.044986 CAAGCATGGTCAACACGAAAAG 58.955 45.455 0.00 0.00 0.00 2.27
3752 4936 3.380004 AGCATGGTCAACACGAAAAGAAA 59.620 39.130 0.00 0.00 0.00 2.52
3789 4974 6.734137 TCATTGCGACTAATTGTTGACTTTT 58.266 32.000 0.00 0.00 31.68 2.27
3813 4998 7.994425 TTTTGTGAGGCAGACTAATTATTGA 57.006 32.000 0.00 0.00 0.00 2.57
3815 5000 6.299805 TGTGAGGCAGACTAATTATTGACT 57.700 37.500 1.05 1.05 0.00 3.41
3816 5001 7.418337 TGTGAGGCAGACTAATTATTGACTA 57.582 36.000 1.39 0.00 0.00 2.59
3817 5002 7.847096 TGTGAGGCAGACTAATTATTGACTAA 58.153 34.615 1.39 0.00 0.00 2.24
3819 5004 8.983724 GTGAGGCAGACTAATTATTGACTAATC 58.016 37.037 1.39 0.00 0.00 1.75
3820 5005 8.704668 TGAGGCAGACTAATTATTGACTAATCA 58.295 33.333 1.39 0.00 0.00 2.57
3821 5006 8.894768 AGGCAGACTAATTATTGACTAATCAC 57.105 34.615 0.00 0.00 33.38 3.06
3823 5008 8.552034 GGCAGACTAATTATTGACTAATCACAC 58.448 37.037 0.00 0.00 33.38 3.82
3829 5014 7.915293 AATTATTGACTAATCACACACGGAA 57.085 32.000 0.00 0.00 33.38 4.30
3858 5051 1.191489 TGGACCAGGACAATCGAGCA 61.191 55.000 0.00 0.00 0.00 4.26
3859 5052 0.460987 GGACCAGGACAATCGAGCAG 60.461 60.000 0.00 0.00 0.00 4.24
3861 5054 0.247736 ACCAGGACAATCGAGCAGTC 59.752 55.000 0.00 6.22 0.00 3.51
3863 5056 1.338105 CCAGGACAATCGAGCAGTCAA 60.338 52.381 14.18 0.00 34.04 3.18
3864 5057 2.416747 CAGGACAATCGAGCAGTCAAA 58.583 47.619 14.18 0.00 34.04 2.69
3866 5059 2.143122 GGACAATCGAGCAGTCAAACA 58.857 47.619 14.18 0.00 34.04 2.83
3868 5061 3.364366 GGACAATCGAGCAGTCAAACAAG 60.364 47.826 14.18 0.00 34.04 3.16
3869 5062 2.549754 ACAATCGAGCAGTCAAACAAGG 59.450 45.455 0.00 0.00 0.00 3.61
3870 5063 2.807967 CAATCGAGCAGTCAAACAAGGA 59.192 45.455 0.00 0.00 0.00 3.36
3871 5064 2.154854 TCGAGCAGTCAAACAAGGAG 57.845 50.000 0.00 0.00 0.00 3.69
3873 5066 1.528586 CGAGCAGTCAAACAAGGAGTG 59.471 52.381 0.00 0.00 38.46 3.51
3875 5068 0.954452 GCAGTCAAACAAGGAGTGGG 59.046 55.000 0.00 0.00 36.45 4.61
3878 5071 2.104792 CAGTCAAACAAGGAGTGGGAGA 59.895 50.000 0.00 0.00 33.12 3.71
3892 5085 5.515710 GGAGTGGGAGATTTTCTTCCTTTCT 60.516 44.000 3.56 0.33 42.92 2.52
3893 5086 5.565509 AGTGGGAGATTTTCTTCCTTTCTC 58.434 41.667 3.56 0.00 42.92 2.87
3894 5087 5.073691 AGTGGGAGATTTTCTTCCTTTCTCA 59.926 40.000 3.56 0.00 42.92 3.27
3895 5088 5.770162 GTGGGAGATTTTCTTCCTTTCTCAA 59.230 40.000 3.56 0.00 42.92 3.02
3896 5089 6.006449 TGGGAGATTTTCTTCCTTTCTCAAG 58.994 40.000 3.56 0.00 42.92 3.02
3897 5090 6.183361 TGGGAGATTTTCTTCCTTTCTCAAGA 60.183 38.462 3.56 0.00 42.92 3.02
3898 5091 6.150307 GGGAGATTTTCTTCCTTTCTCAAGAC 59.850 42.308 0.00 0.00 39.18 3.01
3899 5092 6.712547 GGAGATTTTCTTCCTTTCTCAAGACA 59.287 38.462 0.00 0.00 35.60 3.41
3900 5093 7.308288 GGAGATTTTCTTCCTTTCTCAAGACAC 60.308 40.741 0.00 0.00 35.60 3.67
3903 5096 7.703058 TTTTCTTCCTTTCTCAAGACACTTT 57.297 32.000 0.00 0.00 30.57 2.66
3904 5097 7.703058 TTTCTTCCTTTCTCAAGACACTTTT 57.297 32.000 0.00 0.00 30.57 2.27
3905 5098 6.683974 TCTTCCTTTCTCAAGACACTTTTG 57.316 37.500 0.00 0.00 30.57 2.44
3909 5102 7.227049 TCCTTTCTCAAGACACTTTTGTTTT 57.773 32.000 0.00 0.00 35.47 2.43
3911 5104 6.868339 CCTTTCTCAAGACACTTTTGTTTTGT 59.132 34.615 7.64 0.00 44.49 2.83
3941 5134 8.532819 TCTACTTTCTTCTATCTGTTTCCTTCC 58.467 37.037 0.00 0.00 0.00 3.46
3943 5136 4.737855 TCTTCTATCTGTTTCCTTCCGG 57.262 45.455 0.00 0.00 0.00 5.14
3946 5139 4.202245 TCTATCTGTTTCCTTCCGGTTG 57.798 45.455 0.00 0.00 0.00 3.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
62 63 8.823794 AGCCTTTGTTTTAAGTATAGTAGGAGT 58.176 33.333 0.00 0.00 0.00 3.85
267 617 7.914346 ACGCTGTTAAGTATACTTGCTACTTAG 59.086 37.037 25.27 15.11 40.74 2.18
293 643 2.223845 CACTGATGTGCGTGATTGTTCA 59.776 45.455 0.00 0.00 37.38 3.18
398 749 4.202441 AGCAAATCCGAGCAAACTCATAT 58.798 39.130 0.00 0.00 43.66 1.78
423 774 9.025041 AGATTAGATTTTTAGTTTTCACCCTGG 57.975 33.333 0.00 0.00 0.00 4.45
450 801 0.459899 AGCGTTAGATCCATGCACGA 59.540 50.000 8.93 0.00 32.51 4.35
518 869 3.367292 GCATCAACATCAAATTCCACCGT 60.367 43.478 0.00 0.00 0.00 4.83
519 870 3.119388 AGCATCAACATCAAATTCCACCG 60.119 43.478 0.00 0.00 0.00 4.94
551 902 4.403453 GAAGTGCCAAACTAAAGCATACG 58.597 43.478 0.00 0.00 38.56 3.06
568 919 2.802816 CCTCAAAAGTCCTGTCGAAGTG 59.197 50.000 0.00 0.00 0.00 3.16
569 920 2.224305 CCCTCAAAAGTCCTGTCGAAGT 60.224 50.000 0.00 0.00 0.00 3.01
570 921 2.224305 ACCCTCAAAAGTCCTGTCGAAG 60.224 50.000 0.00 0.00 0.00 3.79
578 929 1.963172 AACGTGACCCTCAAAAGTCC 58.037 50.000 0.00 0.00 31.76 3.85
617 968 1.653114 CAACCAACACAAAAGCACACG 59.347 47.619 0.00 0.00 0.00 4.49
649 1000 1.280710 TGCACCCGGTTTCTACATGAT 59.719 47.619 0.00 0.00 0.00 2.45
717 1068 8.251026 GGTTTTTCTTTCTGATAAAGGGTATGG 58.749 37.037 0.00 0.00 0.00 2.74
934 1315 0.168788 CCACACCAATGCAAGCTACG 59.831 55.000 0.00 0.00 0.00 3.51
961 1342 3.198068 TGCAGCTACTTACTTATGCAGC 58.802 45.455 0.00 0.00 38.64 5.25
963 1344 4.402474 TCTCTGCAGCTACTTACTTATGCA 59.598 41.667 9.47 0.00 41.05 3.96
964 1345 4.742659 GTCTCTGCAGCTACTTACTTATGC 59.257 45.833 9.47 0.00 0.00 3.14
965 1346 6.142818 AGTCTCTGCAGCTACTTACTTATG 57.857 41.667 9.47 0.00 0.00 1.90
966 1347 5.888724 TGAGTCTCTGCAGCTACTTACTTAT 59.111 40.000 18.27 0.00 0.00 1.73
967 1348 5.254115 TGAGTCTCTGCAGCTACTTACTTA 58.746 41.667 18.27 6.36 0.00 2.24
968 1349 4.082845 TGAGTCTCTGCAGCTACTTACTT 58.917 43.478 18.27 0.80 0.00 2.24
969 1350 3.691575 TGAGTCTCTGCAGCTACTTACT 58.308 45.455 18.27 10.78 0.00 2.24
970 1351 4.442375 TTGAGTCTCTGCAGCTACTTAC 57.558 45.455 18.27 9.84 0.00 2.34
971 1352 4.280929 TGTTTGAGTCTCTGCAGCTACTTA 59.719 41.667 18.27 13.25 0.00 2.24
972 1353 3.070159 TGTTTGAGTCTCTGCAGCTACTT 59.930 43.478 18.27 6.22 0.00 2.24
991 1382 3.197333 CCTCTCTGTCCTGTGATGATGTT 59.803 47.826 0.00 0.00 0.00 2.71
995 1386 1.189752 GCCTCTCTGTCCTGTGATGA 58.810 55.000 0.00 0.00 0.00 2.92
1021 1412 0.969149 TGTGGTCAGAGCGTGAATCT 59.031 50.000 0.00 0.00 36.74 2.40
1314 1710 7.342769 TCCGTTGCTAGAAGTATATCTCAAA 57.657 36.000 0.00 0.00 0.00 2.69
1320 1716 5.864418 TGGTTCCGTTGCTAGAAGTATAT 57.136 39.130 0.00 0.00 0.00 0.86
1335 1736 1.093972 TACTTGCATGCATGGTTCCG 58.906 50.000 30.33 13.12 0.00 4.30
1452 1853 0.865769 CGTTGCTTACTTGCCGTCTT 59.134 50.000 0.00 0.00 0.00 3.01
1453 1854 1.566018 GCGTTGCTTACTTGCCGTCT 61.566 55.000 0.00 0.00 0.00 4.18
1454 1855 1.154469 GCGTTGCTTACTTGCCGTC 60.154 57.895 0.00 0.00 0.00 4.79
1455 1856 1.234615 ATGCGTTGCTTACTTGCCGT 61.235 50.000 0.00 0.00 0.00 5.68
1456 1857 0.794229 CATGCGTTGCTTACTTGCCG 60.794 55.000 0.00 0.00 0.00 5.69
1457 1858 0.521291 TCATGCGTTGCTTACTTGCC 59.479 50.000 0.00 0.00 0.00 4.52
1458 1859 2.245096 CTTCATGCGTTGCTTACTTGC 58.755 47.619 0.00 0.00 0.00 4.01
1459 1860 3.542712 ACTTCATGCGTTGCTTACTTG 57.457 42.857 0.00 0.00 0.00 3.16
1509 1910 7.386025 GCTTTTTCCTGAAGCATTGATAACTTT 59.614 33.333 4.13 0.00 46.67 2.66
1540 1941 2.813172 CCCACCAAAATGCATGTTTTCC 59.187 45.455 0.00 0.00 0.00 3.13
1637 2040 7.056006 TCATCTCCTATTTGTTGCACATACAT 58.944 34.615 0.00 0.00 0.00 2.29
1804 2227 1.568504 TGGCCGGATCAACTAGTTCT 58.431 50.000 5.05 0.00 0.00 3.01
1867 2299 7.281100 CCATAATTCTTGTCCTGGTTCTAGTTC 59.719 40.741 0.00 0.00 0.00 3.01
1879 2311 7.079451 TCCCTCTATTCCATAATTCTTGTCC 57.921 40.000 0.00 0.00 0.00 4.02
1951 2414 5.337330 GCCAAGTGTACAAGTCACTAGGTAT 60.337 44.000 0.00 0.00 44.03 2.73
2020 2488 3.692406 ACGACTCCGGCCACCTTC 61.692 66.667 2.24 0.00 40.78 3.46
2032 2500 4.427661 GCGAGGCAGAGCACGACT 62.428 66.667 10.75 0.00 33.57 4.18
2344 2812 1.362717 CAGTGTGACGTCGAACCCT 59.637 57.895 11.62 0.00 0.00 4.34
2360 2828 2.044555 TGTAGAGGACGGCGACCAG 61.045 63.158 28.53 0.00 0.00 4.00
2384 2852 3.584733 AGACAGATAATTGGGAAGCCC 57.415 47.619 0.00 0.00 45.71 5.19
2391 2862 7.082602 GCAGCATTATCAAGACAGATAATTGG 58.917 38.462 6.49 0.14 44.63 3.16
2397 2868 4.160642 TGGCAGCATTATCAAGACAGAT 57.839 40.909 0.00 0.00 0.00 2.90
2426 2919 1.583556 AGTCCACCACTCCATGCATA 58.416 50.000 0.00 0.00 0.00 3.14
2446 2939 7.980662 CCTGAATTTTTGAACCATGCATACATA 59.019 33.333 0.00 0.00 33.67 2.29
2637 3130 4.389992 GCAGTTGAAAGATCTTCGATGTCA 59.610 41.667 8.78 5.55 0.00 3.58
2638 3131 4.389992 TGCAGTTGAAAGATCTTCGATGTC 59.610 41.667 8.78 2.72 0.00 3.06
2640 3133 4.152938 TGTGCAGTTGAAAGATCTTCGATG 59.847 41.667 8.78 5.26 0.00 3.84
2642 3135 3.727726 TGTGCAGTTGAAAGATCTTCGA 58.272 40.909 8.78 0.00 0.00 3.71
2643 3136 4.024556 AGTTGTGCAGTTGAAAGATCTTCG 60.025 41.667 8.78 0.00 0.00 3.79
2644 3137 5.210715 CAGTTGTGCAGTTGAAAGATCTTC 58.789 41.667 8.78 3.35 0.00 2.87
2645 3138 4.037208 CCAGTTGTGCAGTTGAAAGATCTT 59.963 41.667 0.88 0.88 0.00 2.40
2646 3139 3.567164 CCAGTTGTGCAGTTGAAAGATCT 59.433 43.478 0.00 0.00 0.00 2.75
2647 3140 3.316308 ACCAGTTGTGCAGTTGAAAGATC 59.684 43.478 0.00 0.00 0.00 2.75
2792 3290 1.680522 ATGGCGCAGTCCGAATCTCT 61.681 55.000 10.83 0.00 40.02 3.10
2797 3295 2.520465 ATCACATGGCGCAGTCCGAA 62.520 55.000 10.83 0.00 40.02 4.30
2815 3313 3.882444 CCATGGATCATAATCGGCTCAT 58.118 45.455 5.56 0.00 32.24 2.90
2849 3350 2.630098 CTCCTCCTCATCCGCAGATTTA 59.370 50.000 0.00 0.00 0.00 1.40
2858 3359 4.769345 AACATTCTTCTCCTCCTCATCC 57.231 45.455 0.00 0.00 0.00 3.51
2878 3379 7.420214 CCCCATTAACTTCTCTGCTCCTAATAA 60.420 40.741 0.00 0.00 0.00 1.40
2879 3380 6.043243 CCCCATTAACTTCTCTGCTCCTAATA 59.957 42.308 0.00 0.00 0.00 0.98
2880 3381 5.163152 CCCCATTAACTTCTCTGCTCCTAAT 60.163 44.000 0.00 0.00 0.00 1.73
2881 3382 4.164221 CCCCATTAACTTCTCTGCTCCTAA 59.836 45.833 0.00 0.00 0.00 2.69
2882 3383 3.711704 CCCCATTAACTTCTCTGCTCCTA 59.288 47.826 0.00 0.00 0.00 2.94
2892 3393 3.117888 TGCTCCATCTCCCCATTAACTTC 60.118 47.826 0.00 0.00 0.00 3.01
2900 3401 0.105709 TATCGTGCTCCATCTCCCCA 60.106 55.000 0.00 0.00 0.00 4.96
2930 3431 2.283298 ACTTGTTCAGCAGGCGATATG 58.717 47.619 0.00 0.00 0.00 1.78
2953 3454 4.530875 AGCCTCCTTCAATCGATGAATTT 58.469 39.130 0.00 0.00 46.62 1.82
2955 3456 3.495806 GGAGCCTCCTTCAATCGATGAAT 60.496 47.826 2.64 0.00 46.62 2.57
2958 3459 1.139654 TGGAGCCTCCTTCAATCGATG 59.860 52.381 12.94 0.00 37.46 3.84
3039 3545 4.640647 CCTATTTTTCTGTTACCCTGCTCC 59.359 45.833 0.00 0.00 0.00 4.70
3040 3546 4.096532 GCCTATTTTTCTGTTACCCTGCTC 59.903 45.833 0.00 0.00 0.00 4.26
3059 3565 5.429681 TGCCTCAACTTTAATACAGCCTA 57.570 39.130 0.00 0.00 0.00 3.93
3073 3579 7.545615 CCTTCACCTTAAAATAAATGCCTCAAC 59.454 37.037 0.00 0.00 0.00 3.18
3079 3585 7.170393 ACTCCCTTCACCTTAAAATAAATGC 57.830 36.000 0.00 0.00 0.00 3.56
3080 3586 9.462606 ACTACTCCCTTCACCTTAAAATAAATG 57.537 33.333 0.00 0.00 0.00 2.32
3082 3588 9.292195 CAACTACTCCCTTCACCTTAAAATAAA 57.708 33.333 0.00 0.00 0.00 1.40
3090 3596 2.339769 AGCAACTACTCCCTTCACCTT 58.660 47.619 0.00 0.00 0.00 3.50
3093 3599 4.001652 GGTTAAGCAACTACTCCCTTCAC 58.998 47.826 0.00 0.00 34.88 3.18
3096 3602 4.995624 AAGGTTAAGCAACTACTCCCTT 57.004 40.909 7.52 0.00 34.88 3.95
3100 3606 8.151141 ACTTGTAAAAGGTTAAGCAACTACTC 57.849 34.615 7.52 0.00 34.88 2.59
3106 3612 4.585581 GGGGACTTGTAAAAGGTTAAGCAA 59.414 41.667 7.52 0.00 0.00 3.91
3120 3626 1.426751 TTTAGGTGACGGGGACTTGT 58.573 50.000 0.00 0.00 0.00 3.16
3124 3630 4.212143 AGTTAATTTAGGTGACGGGGAC 57.788 45.455 0.00 0.00 0.00 4.46
3127 3633 3.754323 TGCAAGTTAATTTAGGTGACGGG 59.246 43.478 0.00 0.00 0.00 5.28
3128 3634 5.560966 ATGCAAGTTAATTTAGGTGACGG 57.439 39.130 0.00 0.00 0.00 4.79
3129 3635 7.303634 AGTATGCAAGTTAATTTAGGTGACG 57.696 36.000 0.00 0.00 0.00 4.35
3130 3636 9.379791 AGTAGTATGCAAGTTAATTTAGGTGAC 57.620 33.333 0.00 0.00 0.00 3.67
3168 3674 4.744631 CACCTTCAAATTTGCAGTGTAACC 59.255 41.667 13.54 0.00 37.80 2.85
3202 3709 5.997746 ACTGCACATATACAACATATGGACC 59.002 40.000 7.80 0.00 36.56 4.46
3220 3727 2.480419 CTGTGTTACTGGCTTACTGCAC 59.520 50.000 0.00 0.00 45.15 4.57
3229 3736 2.472695 TCCACATCTGTGTTACTGGC 57.527 50.000 9.33 0.00 44.21 4.85
3230 3737 3.273434 CCATCCACATCTGTGTTACTGG 58.727 50.000 9.33 6.48 44.21 4.00
3231 3738 3.942829 ACCATCCACATCTGTGTTACTG 58.057 45.455 9.33 1.89 44.21 2.74
3233 3740 3.440173 CCAACCATCCACATCTGTGTTAC 59.560 47.826 9.33 0.00 44.21 2.50
3234 3741 3.329225 TCCAACCATCCACATCTGTGTTA 59.671 43.478 9.33 0.00 44.21 2.41
3235 3742 2.108075 TCCAACCATCCACATCTGTGTT 59.892 45.455 9.33 0.00 44.21 3.32
3236 3743 1.704628 TCCAACCATCCACATCTGTGT 59.295 47.619 9.33 0.00 44.21 3.72
3237 3744 2.495155 TCCAACCATCCACATCTGTG 57.505 50.000 3.28 3.28 45.23 3.66
3238 3745 2.309755 ACATCCAACCATCCACATCTGT 59.690 45.455 0.00 0.00 0.00 3.41
3239 3746 3.008835 ACATCCAACCATCCACATCTG 57.991 47.619 0.00 0.00 0.00 2.90
3240 3747 3.744940 AACATCCAACCATCCACATCT 57.255 42.857 0.00 0.00 0.00 2.90
3241 3748 3.676873 GCAAACATCCAACCATCCACATC 60.677 47.826 0.00 0.00 0.00 3.06
3256 3763 5.823861 ATAAAGACTTTTGGGGCAAACAT 57.176 34.783 5.61 0.00 32.79 2.71
3304 3811 9.226606 TCTTTTATCACAGTTTATTGATCCGTT 57.773 29.630 0.00 0.00 34.28 4.44
3305 3812 8.786826 TCTTTTATCACAGTTTATTGATCCGT 57.213 30.769 0.00 0.00 34.28 4.69
3306 3813 8.883731 ACTCTTTTATCACAGTTTATTGATCCG 58.116 33.333 0.00 0.00 34.28 4.18
3318 3825 7.325338 CAGAACATGCAAACTCTTTTATCACAG 59.675 37.037 0.00 0.00 0.00 3.66
3326 3833 3.709987 GCACAGAACATGCAAACTCTTT 58.290 40.909 0.00 0.00 42.88 2.52
3343 3850 1.732941 CGGTAAGCCTGTAATGCACA 58.267 50.000 0.00 0.00 35.30 4.57
3344 3851 0.377203 GCGGTAAGCCTGTAATGCAC 59.623 55.000 0.00 0.00 40.81 4.57
3360 3867 2.024918 GCACTGGTCCATAATGCGG 58.975 57.895 7.04 0.00 0.00 5.69
3419 4598 3.744660 ACAAAGTCCTAAGCTCAAGTGG 58.255 45.455 0.00 0.00 0.00 4.00
3436 4615 9.233649 TCCTAAACTCAAGTTTTGTTAGACAAA 57.766 29.630 12.95 2.34 45.07 2.83
3445 4624 8.134895 TGCAAATAGTCCTAAACTCAAGTTTTG 58.865 33.333 12.95 10.93 45.07 2.44
3456 4635 4.004982 GGGTTCGTGCAAATAGTCCTAAA 58.995 43.478 0.00 0.00 0.00 1.85
3472 4651 3.957288 ACCATTCTCCAAGGGTTCG 57.043 52.632 0.00 0.00 44.56 3.95
3522 4701 3.479127 AAGTACGTTTGGCCGGCCA 62.479 57.895 44.23 44.23 45.63 5.36
3531 4710 1.764134 TGGTCCACCAGAAGTACGTTT 59.236 47.619 0.00 0.00 42.01 3.60
3566 4745 0.463833 GGATGTTGGGTCCATCGGTC 60.464 60.000 0.00 0.00 39.68 4.79
3569 4748 0.179045 GAGGGATGTTGGGTCCATCG 60.179 60.000 0.00 0.00 39.68 3.84
3570 4749 1.133976 CAGAGGGATGTTGGGTCCATC 60.134 57.143 0.00 0.00 44.66 3.51
3607 4787 1.267806 CGCAACCAGAAACTGAGCAAT 59.732 47.619 0.00 0.00 32.44 3.56
3608 4788 0.662619 CGCAACCAGAAACTGAGCAA 59.337 50.000 0.00 0.00 32.44 3.91
3609 4789 1.165907 CCGCAACCAGAAACTGAGCA 61.166 55.000 0.00 0.00 32.44 4.26
3611 4791 1.856265 GCCCGCAACCAGAAACTGAG 61.856 60.000 0.00 0.00 32.44 3.35
3612 4792 1.896660 GCCCGCAACCAGAAACTGA 60.897 57.895 0.00 0.00 32.44 3.41
3614 4794 2.597510 GGCCCGCAACCAGAAACT 60.598 61.111 0.00 0.00 0.00 2.66
3645 4828 1.609783 CTTAGGACAAGGCCCAGGG 59.390 63.158 0.00 0.00 0.00 4.45
3718 4901 2.693762 CCATGCTTGGCAGTGACGG 61.694 63.158 5.58 0.00 43.65 4.79
3734 4918 5.766150 ATGATTTCTTTTCGTGTTGACCA 57.234 34.783 0.00 0.00 0.00 4.02
3749 4933 4.470462 GCAATGAGCGGTCATATGATTTC 58.530 43.478 28.75 6.18 43.04 2.17
3789 4974 7.665559 AGTCAATAATTAGTCTGCCTCACAAAA 59.334 33.333 0.00 0.00 0.00 2.44
3798 4983 9.098355 TGTGTGATTAGTCAATAATTAGTCTGC 57.902 33.333 0.00 0.00 35.80 4.26
3809 4994 4.690748 CACTTCCGTGTGTGATTAGTCAAT 59.309 41.667 0.00 0.00 34.72 2.57
3812 4997 2.412089 GCACTTCCGTGTGTGATTAGTC 59.588 50.000 0.00 0.00 43.16 2.59
3813 4998 2.224185 TGCACTTCCGTGTGTGATTAGT 60.224 45.455 0.00 0.00 43.16 2.24
3815 5000 2.535012 TGCACTTCCGTGTGTGATTA 57.465 45.000 0.00 0.00 43.16 1.75
3816 5001 1.536766 CATGCACTTCCGTGTGTGATT 59.463 47.619 0.00 0.00 43.16 2.57
3817 5002 1.159285 CATGCACTTCCGTGTGTGAT 58.841 50.000 0.00 0.00 43.16 3.06
3819 5004 0.884259 TCCATGCACTTCCGTGTGTG 60.884 55.000 0.00 0.00 43.16 3.82
3820 5005 0.036732 ATCCATGCACTTCCGTGTGT 59.963 50.000 0.00 0.00 43.16 3.72
3821 5006 0.448990 CATCCATGCACTTCCGTGTG 59.551 55.000 0.00 0.00 43.16 3.82
3823 5008 0.392863 TCCATCCATGCACTTCCGTG 60.393 55.000 0.00 0.00 44.07 4.94
3825 5010 1.097547 GGTCCATCCATGCACTTCCG 61.098 60.000 0.00 0.00 35.97 4.30
3829 5014 0.915872 TCCTGGTCCATCCATGCACT 60.916 55.000 0.00 0.00 46.12 4.40
3833 5018 2.579873 GATTGTCCTGGTCCATCCATG 58.420 52.381 0.00 0.00 46.12 3.66
3834 5019 1.141657 CGATTGTCCTGGTCCATCCAT 59.858 52.381 0.00 0.00 46.12 3.41
3835 5020 0.541392 CGATTGTCCTGGTCCATCCA 59.459 55.000 0.00 0.00 45.01 3.41
3843 5035 0.247460 TGACTGCTCGATTGTCCTGG 59.753 55.000 9.17 0.00 0.00 4.45
3858 5051 2.408565 TCTCCCACTCCTTGTTTGACT 58.591 47.619 0.00 0.00 0.00 3.41
3859 5052 2.930826 TCTCCCACTCCTTGTTTGAC 57.069 50.000 0.00 0.00 0.00 3.18
3861 5054 4.829492 AGAAAATCTCCCACTCCTTGTTTG 59.171 41.667 0.00 0.00 0.00 2.93
3863 5056 4.731313 AGAAAATCTCCCACTCCTTGTT 57.269 40.909 0.00 0.00 0.00 2.83
3864 5057 4.507512 GGAAGAAAATCTCCCACTCCTTGT 60.508 45.833 0.00 0.00 0.00 3.16
3866 5059 3.919554 AGGAAGAAAATCTCCCACTCCTT 59.080 43.478 0.00 0.00 0.00 3.36
3868 5061 4.308526 AAGGAAGAAAATCTCCCACTCC 57.691 45.455 0.00 0.00 0.00 3.85
3869 5062 5.565509 AGAAAGGAAGAAAATCTCCCACTC 58.434 41.667 0.00 0.00 0.00 3.51
3870 5063 5.073691 TGAGAAAGGAAGAAAATCTCCCACT 59.926 40.000 0.00 0.00 36.54 4.00
3871 5064 5.316987 TGAGAAAGGAAGAAAATCTCCCAC 58.683 41.667 0.00 0.00 36.54 4.61
3873 5066 6.150307 GTCTTGAGAAAGGAAGAAAATCTCCC 59.850 42.308 0.00 0.00 36.54 4.30
3875 5068 7.443879 AGTGTCTTGAGAAAGGAAGAAAATCTC 59.556 37.037 0.00 0.00 37.60 2.75
3878 5071 7.888250 AAGTGTCTTGAGAAAGGAAGAAAAT 57.112 32.000 0.00 0.00 30.08 1.82
3892 5085 8.655651 AGAAAAACAAAACAAAAGTGTCTTGA 57.344 26.923 0.18 0.00 37.83 3.02
3893 5086 9.791838 GTAGAAAAACAAAACAAAAGTGTCTTG 57.208 29.630 0.00 0.00 40.83 3.02
3894 5087 9.758651 AGTAGAAAAACAAAACAAAAGTGTCTT 57.241 25.926 0.00 0.00 36.80 3.01
3895 5088 9.758651 AAGTAGAAAAACAAAACAAAAGTGTCT 57.241 25.926 0.00 0.00 36.80 3.41


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

AutoCloner maintained by Alex Coulton.