Multiple sequence alignment - TraesCS3D01G396300

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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 TraesCS3D01G396300 chr3D 100.000 3750 0 0 1 3750 511333400 511329651 0.000000e+00 6926.0
1 TraesCS3D01G396300 chr3D 90.141 71 3 2 3013 3079 152486726 152486656 5.160000e-14 89.8
2 TraesCS3D01G396300 chr3D 92.308 39 1 2 3054 3090 520600723 520600761 2.000000e-03 54.7
3 TraesCS3D01G396300 chr3D 92.308 39 1 2 3054 3090 520601118 520601156 2.000000e-03 54.7
4 TraesCS3D01G396300 chr3D 92.308 39 1 2 3054 3090 520601513 520601551 2.000000e-03 54.7
5 TraesCS3D01G396300 chr3B 91.373 2863 149 42 1 2819 672854307 672851499 0.000000e+00 3829.0
6 TraesCS3D01G396300 chr3A 92.845 1831 82 16 486 2276 647465713 647463892 0.000000e+00 2610.0
7 TraesCS3D01G396300 chr3A 89.200 500 32 8 2322 2819 647463888 647463409 4.140000e-169 604.0
8 TraesCS3D01G396300 chr3A 90.025 401 27 5 85 484 647466187 647465799 1.200000e-139 507.0
9 TraesCS3D01G396300 chr3A 91.738 351 27 2 3080 3430 647463068 647462720 1.570000e-133 486.0
10 TraesCS3D01G396300 chr3A 95.050 202 10 0 2812 3013 647463271 647463070 6.040000e-83 318.0
11 TraesCS3D01G396300 chr3A 94.203 207 9 3 3412 3617 647461016 647460812 2.810000e-81 313.0
12 TraesCS3D01G396300 chr3A 95.652 138 3 1 3613 3750 647459123 647458989 6.310000e-53 219.0
13 TraesCS3D01G396300 chr3A 85.507 69 7 2 3012 3080 149572295 149572360 6.720000e-08 69.4
14 TraesCS3D01G396300 chr4B 96.429 56 2 0 3024 3079 580383576 580383521 3.990000e-15 93.5
15 TraesCS3D01G396300 chr1B 90.411 73 3 1 3013 3085 354222816 354222748 3.990000e-15 93.5
16 TraesCS3D01G396300 chr7B 83.544 79 11 2 3012 3090 99658387 99658463 5.200000e-09 73.1
17 TraesCS3D01G396300 chr7B 90.476 42 3 1 3048 3088 435121690 435121731 2.000000e-03 54.7
18 TraesCS3D01G396300 chr6D 100.000 39 0 0 3013 3051 20145810 20145772 5.200000e-09 73.1
19 TraesCS3D01G396300 chr5A 100.000 39 0 0 3013 3051 374477298 374477336 5.200000e-09 73.1
20 TraesCS3D01G396300 chr5B 92.157 51 3 1 3007 3056 402663492 402663542 1.870000e-08 71.3
21 TraesCS3D01G396300 chr4A 97.619 42 0 1 3010 3051 628492711 628492751 1.870000e-08 71.3
22 TraesCS3D01G396300 chr4A 100.000 28 0 0 482 509 530117014 530116987 7.000000e-03 52.8
23 TraesCS3D01G396300 chr2A 94.595 37 2 0 1683 1719 661082861 661082897 1.450000e-04 58.4
24 TraesCS3D01G396300 chr2D 100.000 30 0 0 1683 1712 516863423 516863452 5.230000e-04 56.5
25 TraesCS3D01G396300 chr2B 100.000 30 0 0 1683 1712 608541021 608541050 5.230000e-04 56.5


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 TraesCS3D01G396300 chr3D 511329651 511333400 3749 True 6926.000000 6926 100.000000 1 3750 1 chr3D.!!$R2 3749
1 TraesCS3D01G396300 chr3B 672851499 672854307 2808 True 3829.000000 3829 91.373000 1 2819 1 chr3B.!!$R1 2818
2 TraesCS3D01G396300 chr3A 647458989 647466187 7198 True 722.428571 2610 92.673286 85 3750 7 chr3A.!!$R1 3665

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
532 642 0.461339 ATAAGCGTACAACCGGCCTG 60.461 55.000 0.0 0.9 0.0 4.85 F
1109 1244 1.808390 GGGCGGTGTATGACGTGAC 60.808 63.158 0.0 0.0 0.0 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1473 1608 0.468585 TATGGGAGGCACGTACCGAT 60.469 55.0 0.0 1.69 33.69 4.18 R
2853 3173 0.449388 GCTTGCCTCCGTTGATGAAG 59.551 55.0 0.0 0.00 0.00 3.02 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
37 38 1.465187 GCGTTTCACCGGCTGTTAATC 60.465 52.381 0.00 0.00 0.00 1.75
79 80 2.435586 CCCGCTCCACTCAAGCAG 60.436 66.667 0.00 0.00 39.81 4.24
93 94 4.347000 ACTCAAGCAGTTAGTTAAGGACCA 59.653 41.667 0.00 0.00 26.56 4.02
119 129 1.220749 GTCATGGCCGCTTCTGGTA 59.779 57.895 0.00 0.00 0.00 3.25
189 205 2.161211 AGTAGAGGACGACGTAAACTGC 59.839 50.000 0.00 4.26 0.00 4.40
209 225 2.409879 GCAGTTAACGAGACGCTGAAAC 60.410 50.000 0.00 0.00 0.00 2.78
210 226 2.792674 CAGTTAACGAGACGCTGAAACA 59.207 45.455 0.00 0.00 0.00 2.83
211 227 3.428870 CAGTTAACGAGACGCTGAAACAT 59.571 43.478 0.00 0.00 0.00 2.71
212 228 4.619760 CAGTTAACGAGACGCTGAAACATA 59.380 41.667 0.00 0.00 0.00 2.29
213 229 5.118050 CAGTTAACGAGACGCTGAAACATAA 59.882 40.000 0.00 0.00 0.00 1.90
214 230 5.345202 AGTTAACGAGACGCTGAAACATAAG 59.655 40.000 0.00 0.00 0.00 1.73
215 231 1.993370 ACGAGACGCTGAAACATAAGC 59.007 47.619 0.00 0.00 36.03 3.09
216 232 2.263077 CGAGACGCTGAAACATAAGCT 58.737 47.619 0.00 0.00 37.27 3.74
217 233 2.028523 CGAGACGCTGAAACATAAGCTG 59.971 50.000 0.00 0.00 37.27 4.24
245 270 5.107133 GTGATCTTGATTTCCAAATGCAGG 58.893 41.667 0.00 0.00 33.76 4.85
249 274 3.254470 TGATTTCCAAATGCAGGCATG 57.746 42.857 7.64 0.00 36.68 4.06
250 275 5.972165 CTTGATTTCCAAATGCAGGCATGC 61.972 45.833 18.05 18.05 42.78 4.06
269 294 1.545582 GCAGCCATGGAAGTTGCTAAA 59.454 47.619 18.40 0.00 31.69 1.85
304 329 3.022607 AGCAACAACTAGACGGTACAC 57.977 47.619 0.00 0.00 0.00 2.90
373 398 0.839946 CGGGATCCTCAAACTGGGAT 59.160 55.000 12.58 0.00 44.11 3.85
393 418 4.380233 GGATCTCAAGTTTCGAACTCGGTA 60.380 45.833 0.00 0.00 41.91 4.02
394 419 4.572985 TCTCAAGTTTCGAACTCGGTAA 57.427 40.909 0.00 0.00 41.91 2.85
413 438 3.436700 AACGAAAGCCTTTTGAACTGG 57.563 42.857 11.41 0.00 0.00 4.00
416 441 3.194755 ACGAAAGCCTTTTGAACTGGTTT 59.805 39.130 11.41 0.00 0.00 3.27
417 442 4.399934 ACGAAAGCCTTTTGAACTGGTTTA 59.600 37.500 11.41 0.00 0.00 2.01
418 443 5.105675 ACGAAAGCCTTTTGAACTGGTTTAA 60.106 36.000 11.41 0.00 0.00 1.52
419 444 5.231357 CGAAAGCCTTTTGAACTGGTTTAAC 59.769 40.000 0.00 0.00 0.00 2.01
467 493 5.630680 GCGCAGGTCAATTAATATGAATTGG 59.369 40.000 20.88 9.43 43.87 3.16
471 497 7.524367 GCAGGTCAATTAATATGAATTGGAGGG 60.524 40.741 20.88 12.11 43.87 4.30
473 499 8.459394 AGGTCAATTAATATGAATTGGAGGGAT 58.541 33.333 20.88 4.18 43.87 3.85
492 602 7.342026 GGAGGGATTACCAACATAAAATGAAGT 59.658 37.037 0.00 0.00 43.89 3.01
532 642 0.461339 ATAAGCGTACAACCGGCCTG 60.461 55.000 0.00 0.90 0.00 4.85
548 658 3.125316 CGGCCTGACAAGAGTAAACAATC 59.875 47.826 0.00 0.00 0.00 2.67
667 780 2.358957 TGGCATGATTCCAAGAACTCG 58.641 47.619 0.00 0.00 0.00 4.18
776 899 4.544683 GTCTCCCATGGTAGGTAAGTACT 58.455 47.826 11.73 0.00 0.00 2.73
777 900 4.341520 GTCTCCCATGGTAGGTAAGTACTG 59.658 50.000 11.73 0.00 0.00 2.74
778 901 4.016851 TCTCCCATGGTAGGTAAGTACTGT 60.017 45.833 11.73 0.00 0.00 3.55
779 902 5.194334 TCTCCCATGGTAGGTAAGTACTGTA 59.806 44.000 11.73 0.00 0.00 2.74
780 903 5.203528 TCCCATGGTAGGTAAGTACTGTAC 58.796 45.833 11.73 9.93 0.00 2.90
781 904 4.343239 CCCATGGTAGGTAAGTACTGTACC 59.657 50.000 11.73 18.87 41.26 3.34
782 905 4.343239 CCATGGTAGGTAAGTACTGTACCC 59.657 50.000 21.12 8.69 41.80 3.69
783 906 4.673328 TGGTAGGTAAGTACTGTACCCA 57.327 45.455 21.12 9.54 41.80 4.51
784 907 5.009436 TGGTAGGTAAGTACTGTACCCAA 57.991 43.478 21.12 12.72 41.80 4.12
785 908 4.772100 TGGTAGGTAAGTACTGTACCCAAC 59.228 45.833 21.12 19.25 41.80 3.77
786 909 4.160439 GGTAGGTAAGTACTGTACCCAACC 59.840 50.000 22.94 22.94 41.80 3.77
789 912 4.045846 AGGTAAGTACTGTACCCAACCCTA 59.954 45.833 21.13 0.00 41.80 3.53
824 947 5.190677 TGTCCTAAAGCACTAAATAAGGCC 58.809 41.667 0.00 0.00 0.00 5.19
867 994 4.946157 ACCAGCTTGATTCACTTTCCATAG 59.054 41.667 0.00 0.00 0.00 2.23
932 1060 7.377928 CACGTTAGTAATAACATTCCTCCTACG 59.622 40.741 13.04 0.00 0.00 3.51
975 1106 4.299547 ACCTGCAAGCTCGCGACA 62.300 61.111 3.71 0.00 33.35 4.35
979 1110 3.782244 GCAAGCTCGCGACACAGG 61.782 66.667 3.71 0.00 0.00 4.00
1109 1244 1.808390 GGGCGGTGTATGACGTGAC 60.808 63.158 0.00 0.00 0.00 3.67
1540 1678 1.134965 AGCTAGGTGATCTTGACGTGC 60.135 52.381 0.00 0.00 0.00 5.34
1856 1999 1.226746 GCCACGGCATAAGGTACATC 58.773 55.000 2.36 0.00 41.49 3.06
1857 2000 1.202651 GCCACGGCATAAGGTACATCT 60.203 52.381 2.36 0.00 41.49 2.90
1882 2041 0.534203 TGGGTCGGAGTTTGCAAGAC 60.534 55.000 0.00 3.10 0.00 3.01
1904 2063 1.008938 AGAGGACCTGAGCTAACCCAT 59.991 52.381 0.00 0.00 0.00 4.00
1905 2064 1.840635 GAGGACCTGAGCTAACCCATT 59.159 52.381 0.00 0.00 0.00 3.16
1914 2073 4.517285 TGAGCTAACCCATTGACATCTTC 58.483 43.478 0.00 0.00 0.00 2.87
1948 2111 0.393808 TTAGCATCGGGAGTTTGGGC 60.394 55.000 0.00 0.00 0.00 5.36
1951 2114 2.046285 CATCGGGAGTTTGGGCCAC 61.046 63.158 5.23 0.00 0.00 5.01
2101 2264 2.320745 TCGAGGACGCTACTATGACA 57.679 50.000 0.00 0.00 39.58 3.58
2195 2363 6.913873 TGTTCTAAACAAGTTACTCCACAC 57.086 37.500 0.00 0.00 38.72 3.82
2228 2396 6.558771 TCATGCATGTATACAACAATAGCC 57.441 37.500 25.43 0.00 42.70 3.93
2243 2415 8.190784 ACAACAATAGCCTTTTTATCTGTATGC 58.809 33.333 0.00 0.00 0.00 3.14
2244 2416 8.408601 CAACAATAGCCTTTTTATCTGTATGCT 58.591 33.333 0.00 0.00 0.00 3.79
2245 2417 8.159344 ACAATAGCCTTTTTATCTGTATGCTC 57.841 34.615 0.00 0.00 0.00 4.26
2274 2446 2.721274 TTTTGGATGTGACATTGGCG 57.279 45.000 0.00 0.00 0.00 5.69
2300 2472 3.246112 CCCCTGACCCAACCGTGA 61.246 66.667 0.00 0.00 0.00 4.35
2307 2479 1.142060 TGACCCAACCGTGAAGAACAT 59.858 47.619 0.00 0.00 0.00 2.71
2314 2486 1.452110 CCGTGAAGAACATCATGGCA 58.548 50.000 5.55 0.00 46.47 4.92
2316 2488 2.414559 CCGTGAAGAACATCATGGCAAC 60.415 50.000 5.55 0.00 46.47 4.17
2334 2506 5.649395 TGGCAACATGGAAATTTGACAAAAA 59.351 32.000 4.41 0.00 46.17 1.94
2378 2550 2.037121 TCGAACTGCTGAACCTGATTCA 59.963 45.455 0.00 0.00 45.39 2.57
2386 2558 4.644234 TGCTGAACCTGATTCAAGAAAACA 59.356 37.500 0.00 0.00 46.80 2.83
2484 2656 3.830178 TGGCTGCTGTTGTTAGTAGTAGA 59.170 43.478 0.00 0.00 33.56 2.59
2517 2689 0.037139 TGCCAGCATTGATTTGGTGC 60.037 50.000 0.00 0.00 42.37 5.01
2692 2864 2.813474 CGCGTCGCCAAATCCTCA 60.813 61.111 12.44 0.00 0.00 3.86
2748 2920 4.473520 GCCGCCAAGCTGCCTCTA 62.474 66.667 0.00 0.00 32.81 2.43
2756 2928 3.004106 GCCAAGCTGCCTCTAACAATATG 59.996 47.826 0.00 0.00 0.00 1.78
2812 2987 1.325037 CGTGTAACATAATTGGCGCGA 59.675 47.619 12.10 0.00 35.74 5.87
2816 2991 4.436523 GTGTAACATAATTGGCGCGAAATC 59.563 41.667 12.10 0.00 36.32 2.17
2819 2994 4.732285 ACATAATTGGCGCGAAATCTAG 57.268 40.909 12.10 4.82 0.00 2.43
2833 3153 7.376072 GCGCGAAATCTAGTTTATTTTTGCTAT 59.624 33.333 12.10 0.00 31.33 2.97
2853 3173 2.159382 TGAAAGCAATTCCTTCCCGAC 58.841 47.619 0.47 0.00 37.22 4.79
2860 3180 3.609853 CAATTCCTTCCCGACTTCATCA 58.390 45.455 0.00 0.00 0.00 3.07
2872 3192 0.449388 CTTCATCAACGGAGGCAAGC 59.551 55.000 0.00 0.00 0.00 4.01
2877 3197 2.192664 TCAACGGAGGCAAGCATTTA 57.807 45.000 0.00 0.00 0.00 1.40
2904 3224 4.082026 CAGGCCCAAAAGATCTGTAAAAGG 60.082 45.833 0.00 0.00 0.00 3.11
2955 3275 9.911788 GGATGAATTAGGAATACCATCATGTAT 57.088 33.333 0.00 0.00 38.94 2.29
3013 3333 5.374753 TGTAGCTACCTCCCCTAATCTTCTA 59.625 44.000 21.01 0.00 0.00 2.10
3014 3334 4.743124 AGCTACCTCCCCTAATCTTCTAC 58.257 47.826 0.00 0.00 0.00 2.59
3015 3335 4.420891 AGCTACCTCCCCTAATCTTCTACT 59.579 45.833 0.00 0.00 0.00 2.57
3016 3336 4.768448 GCTACCTCCCCTAATCTTCTACTC 59.232 50.000 0.00 0.00 0.00 2.59
3017 3337 4.201894 ACCTCCCCTAATCTTCTACTCC 57.798 50.000 0.00 0.00 0.00 3.85
3018 3338 3.116668 ACCTCCCCTAATCTTCTACTCCC 60.117 52.174 0.00 0.00 0.00 4.30
3019 3339 3.143168 CCTCCCCTAATCTTCTACTCCCT 59.857 52.174 0.00 0.00 0.00 4.20
3020 3340 4.412843 CTCCCCTAATCTTCTACTCCCTC 58.587 52.174 0.00 0.00 0.00 4.30
3021 3341 3.142407 TCCCCTAATCTTCTACTCCCTCC 59.858 52.174 0.00 0.00 0.00 4.30
3022 3342 3.116707 CCCCTAATCTTCTACTCCCTCCA 60.117 52.174 0.00 0.00 0.00 3.86
3023 3343 4.451460 CCCCTAATCTTCTACTCCCTCCAT 60.451 50.000 0.00 0.00 0.00 3.41
3024 3344 4.775253 CCCTAATCTTCTACTCCCTCCATC 59.225 50.000 0.00 0.00 0.00 3.51
3025 3345 4.775253 CCTAATCTTCTACTCCCTCCATCC 59.225 50.000 0.00 0.00 0.00 3.51
3026 3346 2.777459 TCTTCTACTCCCTCCATCCC 57.223 55.000 0.00 0.00 0.00 3.85
3027 3347 1.133450 TCTTCTACTCCCTCCATCCCG 60.133 57.143 0.00 0.00 0.00 5.14
3028 3348 0.635009 TTCTACTCCCTCCATCCCGT 59.365 55.000 0.00 0.00 0.00 5.28
3029 3349 1.526315 TCTACTCCCTCCATCCCGTA 58.474 55.000 0.00 0.00 0.00 4.02
3030 3350 1.854939 TCTACTCCCTCCATCCCGTAA 59.145 52.381 0.00 0.00 0.00 3.18
3031 3351 2.449730 TCTACTCCCTCCATCCCGTAAT 59.550 50.000 0.00 0.00 0.00 1.89
3032 3352 3.659195 TCTACTCCCTCCATCCCGTAATA 59.341 47.826 0.00 0.00 0.00 0.98
3033 3353 3.562108 ACTCCCTCCATCCCGTAATAT 57.438 47.619 0.00 0.00 0.00 1.28
3034 3354 4.687262 ACTCCCTCCATCCCGTAATATA 57.313 45.455 0.00 0.00 0.00 0.86
3035 3355 5.019657 ACTCCCTCCATCCCGTAATATAA 57.980 43.478 0.00 0.00 0.00 0.98
3036 3356 5.024118 ACTCCCTCCATCCCGTAATATAAG 58.976 45.833 0.00 0.00 0.00 1.73
3037 3357 5.222484 ACTCCCTCCATCCCGTAATATAAGA 60.222 44.000 0.00 0.00 0.00 2.10
3038 3358 5.269991 TCCCTCCATCCCGTAATATAAGAG 58.730 45.833 0.00 0.00 0.00 2.85
3039 3359 4.141914 CCCTCCATCCCGTAATATAAGAGC 60.142 50.000 0.00 0.00 0.00 4.09
3040 3360 4.440250 CCTCCATCCCGTAATATAAGAGCG 60.440 50.000 0.00 0.00 0.00 5.03
3041 3361 4.084287 TCCATCCCGTAATATAAGAGCGT 58.916 43.478 0.00 0.00 0.00 5.07
3042 3362 4.525487 TCCATCCCGTAATATAAGAGCGTT 59.475 41.667 0.00 0.00 0.00 4.84
3043 3363 5.011329 TCCATCCCGTAATATAAGAGCGTTT 59.989 40.000 0.00 0.00 0.00 3.60
3044 3364 5.699458 CCATCCCGTAATATAAGAGCGTTTT 59.301 40.000 0.00 0.00 0.00 2.43
3045 3365 6.204108 CCATCCCGTAATATAAGAGCGTTTTT 59.796 38.462 0.00 0.00 0.00 1.94
3046 3366 6.592798 TCCCGTAATATAAGAGCGTTTTTG 57.407 37.500 0.00 0.00 0.00 2.44
3047 3367 6.339730 TCCCGTAATATAAGAGCGTTTTTGA 58.660 36.000 0.00 0.00 0.00 2.69
3048 3368 6.256321 TCCCGTAATATAAGAGCGTTTTTGAC 59.744 38.462 0.00 0.00 0.00 3.18
3049 3369 6.036300 CCCGTAATATAAGAGCGTTTTTGACA 59.964 38.462 0.00 0.00 0.00 3.58
3050 3370 6.898189 CCGTAATATAAGAGCGTTTTTGACAC 59.102 38.462 0.00 0.00 0.00 3.67
3051 3371 7.412129 CCGTAATATAAGAGCGTTTTTGACACA 60.412 37.037 0.00 0.00 0.00 3.72
3052 3372 7.421613 CGTAATATAAGAGCGTTTTTGACACAC 59.578 37.037 0.00 0.00 0.00 3.82
3053 3373 7.435068 AATATAAGAGCGTTTTTGACACACT 57.565 32.000 0.00 0.00 0.00 3.55
3054 3374 3.675467 AAGAGCGTTTTTGACACACTC 57.325 42.857 0.00 0.00 0.00 3.51
3055 3375 2.906354 AGAGCGTTTTTGACACACTCT 58.094 42.857 0.00 0.00 31.48 3.24
3056 3376 3.270877 AGAGCGTTTTTGACACACTCTT 58.729 40.909 0.00 0.00 32.03 2.85
3057 3377 4.439057 AGAGCGTTTTTGACACACTCTTA 58.561 39.130 0.00 0.00 32.03 2.10
3058 3378 5.057149 AGAGCGTTTTTGACACACTCTTAT 58.943 37.500 0.00 0.00 32.03 1.73
3059 3379 6.220930 AGAGCGTTTTTGACACACTCTTATA 58.779 36.000 0.00 0.00 32.03 0.98
3060 3380 6.874134 AGAGCGTTTTTGACACACTCTTATAT 59.126 34.615 0.00 0.00 32.03 0.86
3061 3381 7.387948 AGAGCGTTTTTGACACACTCTTATATT 59.612 33.333 0.00 0.00 32.03 1.28
3062 3382 8.542497 AGCGTTTTTGACACACTCTTATATTA 57.458 30.769 0.00 0.00 0.00 0.98
3063 3383 9.162764 AGCGTTTTTGACACACTCTTATATTAT 57.837 29.630 0.00 0.00 0.00 1.28
3064 3384 9.210426 GCGTTTTTGACACACTCTTATATTATG 57.790 33.333 0.00 0.00 0.00 1.90
3065 3385 9.702726 CGTTTTTGACACACTCTTATATTATGG 57.297 33.333 0.00 0.00 0.00 2.74
3067 3387 9.967451 TTTTTGACACACTCTTATATTATGGGA 57.033 29.630 0.00 0.00 0.00 4.37
3068 3388 8.958119 TTTGACACACTCTTATATTATGGGAC 57.042 34.615 0.00 0.00 0.00 4.46
3091 3411 7.392766 ACAGAGGGATTATATCATTGTTGGA 57.607 36.000 0.00 0.00 0.00 3.53
3101 3421 9.699410 ATTATATCATTGTTGGAGAACCTTTCA 57.301 29.630 0.00 0.00 37.04 2.69
3104 3424 4.766891 TCATTGTTGGAGAACCTTTCATCC 59.233 41.667 0.00 0.00 37.04 3.51
3110 3430 3.008594 TGGAGAACCTTTCATCCGCTTTA 59.991 43.478 0.00 0.00 37.04 1.85
3111 3431 3.623510 GGAGAACCTTTCATCCGCTTTAG 59.376 47.826 0.00 0.00 0.00 1.85
3120 3440 2.742053 TCATCCGCTTTAGTTCTGCAAC 59.258 45.455 0.00 0.00 0.00 4.17
3124 3444 2.548057 CCGCTTTAGTTCTGCAACTTCA 59.452 45.455 0.00 0.00 40.16 3.02
3132 3452 7.575414 TTAGTTCTGCAACTTCAACCAAATA 57.425 32.000 0.00 0.00 40.16 1.40
3148 3468 7.341512 TCAACCAAATATCCATCATGTAGCAAA 59.658 33.333 0.00 0.00 0.00 3.68
3149 3469 7.658525 ACCAAATATCCATCATGTAGCAAAA 57.341 32.000 0.00 0.00 0.00 2.44
3150 3470 8.076910 ACCAAATATCCATCATGTAGCAAAAA 57.923 30.769 0.00 0.00 0.00 1.94
3162 3482 7.440198 TCATGTAGCAAAAATTGATGGACAAA 58.560 30.769 0.00 0.00 42.03 2.83
3183 3503 6.725834 ACAAAATCAGTAGGTCATTTGGGAAT 59.274 34.615 0.00 0.00 33.31 3.01
3335 3655 9.009327 GTATGTACACATTGGAAATTCATTTCG 57.991 33.333 0.00 0.00 40.82 3.46
3353 3673 4.630894 TTCGCATTGAAGAACACTTTGT 57.369 36.364 0.00 0.00 31.44 2.83
3381 3701 0.310854 GCAACAAGACACGGGGAAAG 59.689 55.000 0.00 0.00 0.00 2.62
3391 3711 2.107552 ACACGGGGAAAGGAAGAATTGA 59.892 45.455 0.00 0.00 0.00 2.57
3402 3722 1.734465 GAAGAATTGACCAGCCTCACG 59.266 52.381 0.00 0.00 0.00 4.35
3417 3737 3.181490 GCCTCACGAAAAGGTGTTTCTTT 60.181 43.478 0.00 0.00 39.00 2.52
3419 3739 4.335594 CCTCACGAAAAGGTGTTTCTTTCT 59.664 41.667 0.00 0.00 39.00 2.52
3483 5523 5.528043 TTGTATGAAGCACAAACCAACAT 57.472 34.783 0.00 0.00 33.11 2.71
3484 5524 6.641169 TTGTATGAAGCACAAACCAACATA 57.359 33.333 0.00 0.00 33.11 2.29
3520 5560 6.366340 TGGGATGTAACTTGGACTTTTGTAA 58.634 36.000 0.00 0.00 0.00 2.41
3609 5649 4.080015 CCCTTAGTTCATGGGTTCATACCA 60.080 45.833 0.00 0.00 46.96 3.25
3610 5650 4.881850 CCTTAGTTCATGGGTTCATACCAC 59.118 45.833 0.00 0.00 46.96 4.16
3611 5651 5.339200 CCTTAGTTCATGGGTTCATACCACT 60.339 44.000 0.00 0.00 46.96 4.00
3619 7353 5.708736 TGGGTTCATACCACTGTATCATT 57.291 39.130 0.00 0.00 46.96 2.57
3643 7377 3.320541 TCATTGGAAACACAACACCATCC 59.679 43.478 0.00 0.00 42.67 3.51
3677 7411 7.090319 TCCATTGCTACCCACATTTCTATAT 57.910 36.000 0.00 0.00 0.00 0.86
3690 7424 8.331740 CCACATTTCTATATATTGTCCCCTGAT 58.668 37.037 0.00 0.00 0.00 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 2.858158 GGTGAAACGCAGGTACGC 59.142 61.111 0.00 0.00 38.12 4.42
37 38 5.163364 ACAAATGGACTAGTCATCTAGCAGG 60.163 44.000 23.91 8.18 45.32 4.85
93 94 2.597340 CGGCCATGACCCAAGGAT 59.403 61.111 2.24 0.00 0.00 3.24
99 100 2.825836 CAGAAGCGGCCATGACCC 60.826 66.667 2.24 0.00 0.00 4.46
174 190 1.494824 AACTGCAGTTTACGTCGTCC 58.505 50.000 26.36 0.00 33.93 4.79
189 205 2.792674 TGTTTCAGCGTCTCGTTAACTG 59.207 45.455 3.71 0.00 0.00 3.16
209 225 3.881089 TCAAGATCACCATGCAGCTTATG 59.119 43.478 0.00 1.51 0.00 1.90
210 226 4.160642 TCAAGATCACCATGCAGCTTAT 57.839 40.909 0.00 0.00 0.00 1.73
211 227 3.632643 TCAAGATCACCATGCAGCTTA 57.367 42.857 0.00 0.00 0.00 3.09
212 228 2.502142 TCAAGATCACCATGCAGCTT 57.498 45.000 0.00 0.00 0.00 3.74
213 229 2.730934 ATCAAGATCACCATGCAGCT 57.269 45.000 0.00 0.00 0.00 4.24
214 230 3.490419 GGAAATCAAGATCACCATGCAGC 60.490 47.826 0.00 0.00 0.00 5.25
215 231 3.697542 TGGAAATCAAGATCACCATGCAG 59.302 43.478 0.00 0.00 0.00 4.41
216 232 3.699413 TGGAAATCAAGATCACCATGCA 58.301 40.909 0.00 0.00 0.00 3.96
217 233 4.724074 TTGGAAATCAAGATCACCATGC 57.276 40.909 0.00 0.00 0.00 4.06
245 270 0.459585 CAACTTCCATGGCTGCATGC 60.460 55.000 11.82 11.82 41.94 4.06
249 274 1.176527 TTAGCAACTTCCATGGCTGC 58.823 50.000 6.96 12.81 37.17 5.25
250 275 3.429822 CCATTTAGCAACTTCCATGGCTG 60.430 47.826 6.96 4.46 37.17 4.85
251 276 2.762327 CCATTTAGCAACTTCCATGGCT 59.238 45.455 6.96 1.56 40.26 4.75
252 277 3.169355 CCATTTAGCAACTTCCATGGC 57.831 47.619 6.96 0.00 0.00 4.40
253 278 2.159057 GGCCATTTAGCAACTTCCATGG 60.159 50.000 4.97 4.97 35.26 3.66
254 279 2.496871 TGGCCATTTAGCAACTTCCATG 59.503 45.455 0.00 0.00 0.00 3.66
255 280 2.818921 TGGCCATTTAGCAACTTCCAT 58.181 42.857 0.00 0.00 0.00 3.41
256 281 2.298729 GTTGGCCATTTAGCAACTTCCA 59.701 45.455 6.09 0.00 0.00 3.53
257 282 2.353704 GGTTGGCCATTTAGCAACTTCC 60.354 50.000 6.09 0.00 34.09 3.46
269 294 0.114168 TTGCTAGTTGGGTTGGCCAT 59.886 50.000 6.09 0.00 36.17 4.40
304 329 1.863454 GCTTCTAGATCCGCACACATG 59.137 52.381 0.00 0.00 0.00 3.21
373 398 4.293415 GTTACCGAGTTCGAAACTTGAGA 58.707 43.478 0.00 0.00 44.20 3.27
393 418 2.758423 ACCAGTTCAAAAGGCTTTCGTT 59.242 40.909 13.76 0.00 0.00 3.85
394 419 2.375146 ACCAGTTCAAAAGGCTTTCGT 58.625 42.857 13.76 0.00 0.00 3.85
396 421 6.338146 AGTTAAACCAGTTCAAAAGGCTTTC 58.662 36.000 13.76 0.27 0.00 2.62
467 493 8.293699 ACTTCATTTTATGTTGGTAATCCCTC 57.706 34.615 0.00 0.00 0.00 4.30
532 642 7.173863 TCAAGAACGATTGTTTACTCTTGTC 57.826 36.000 18.49 0.00 38.78 3.18
548 658 7.109668 CGTTGTTTACTGTATGTTTCAAGAACG 59.890 37.037 12.46 12.46 35.07 3.95
585 698 6.869315 TCTGTTAATCGTTGATGGTTTTGA 57.131 33.333 0.00 0.00 0.00 2.69
667 780 2.605030 TCTAAAATGCATGCGTTTGGC 58.395 42.857 32.65 0.00 43.96 4.52
776 899 3.262405 GTGATCAAGTAGGGTTGGGTACA 59.738 47.826 0.00 0.00 0.00 2.90
777 900 3.370209 GGTGATCAAGTAGGGTTGGGTAC 60.370 52.174 0.00 0.00 0.00 3.34
778 901 2.841881 GGTGATCAAGTAGGGTTGGGTA 59.158 50.000 0.00 0.00 0.00 3.69
779 902 1.633945 GGTGATCAAGTAGGGTTGGGT 59.366 52.381 0.00 0.00 0.00 4.51
780 903 1.633432 TGGTGATCAAGTAGGGTTGGG 59.367 52.381 0.00 0.00 0.00 4.12
781 904 3.282021 CATGGTGATCAAGTAGGGTTGG 58.718 50.000 0.00 0.00 0.00 3.77
782 905 3.941483 GACATGGTGATCAAGTAGGGTTG 59.059 47.826 0.00 0.00 0.00 3.77
783 906 3.054361 GGACATGGTGATCAAGTAGGGTT 60.054 47.826 0.00 0.00 0.00 4.11
784 907 2.505819 GGACATGGTGATCAAGTAGGGT 59.494 50.000 0.00 0.00 0.00 4.34
785 908 2.774234 AGGACATGGTGATCAAGTAGGG 59.226 50.000 0.00 0.00 0.00 3.53
786 909 5.614324 TTAGGACATGGTGATCAAGTAGG 57.386 43.478 0.00 0.00 0.00 3.18
789 912 4.263462 TGCTTTAGGACATGGTGATCAAGT 60.263 41.667 0.00 0.00 0.00 3.16
824 947 9.125026 AGCTGGTGAATCAGTAATTTAATTAGG 57.875 33.333 0.00 0.00 37.12 2.69
932 1060 1.355971 TAGGTACGTACGTCGGTGTC 58.644 55.000 26.53 9.05 44.69 3.67
975 1106 2.186384 GATCGAGCTGCTGCCTGT 59.814 61.111 7.01 0.00 40.80 4.00
979 1110 2.959071 GACCGATCGAGCTGCTGC 60.959 66.667 18.66 7.62 40.05 5.25
1101 1236 4.746951 CCGTAGCGCGTCACGTCA 62.747 66.667 25.29 0.00 46.11 4.35
1473 1608 0.468585 TATGGGAGGCACGTACCGAT 60.469 55.000 0.00 1.69 33.69 4.18
1488 1623 2.232208 TGGCTCTGCGAGACATATATGG 59.768 50.000 16.96 0.35 43.49 2.74
1508 1643 4.902443 TCACCTAGCTAGAAATCGTCTG 57.098 45.455 22.70 4.40 37.12 3.51
1509 1644 5.381757 AGATCACCTAGCTAGAAATCGTCT 58.618 41.667 22.70 13.30 40.71 4.18
1856 1999 1.806542 CAAACTCCGACCCATCACAAG 59.193 52.381 0.00 0.00 0.00 3.16
1857 2000 1.890876 CAAACTCCGACCCATCACAA 58.109 50.000 0.00 0.00 0.00 3.33
1882 2041 2.312390 GGGTTAGCTCAGGTCCTCTAG 58.688 57.143 0.00 0.00 0.00 2.43
1904 2063 8.450578 AGTTAACACAATCAAGAAGATGTCAA 57.549 30.769 8.61 0.00 36.96 3.18
1905 2064 8.450578 AAGTTAACACAATCAAGAAGATGTCA 57.549 30.769 8.61 0.00 36.96 3.58
1914 2073 6.250819 CCGATGCTAAGTTAACACAATCAAG 58.749 40.000 8.61 0.00 0.00 3.02
2195 2363 4.690184 ATACATGCATGAATATGTGCCG 57.310 40.909 32.75 1.99 40.56 5.69
2260 2432 2.120909 CCCCCGCCAATGTCACATC 61.121 63.158 0.00 0.00 0.00 3.06
2286 2458 1.226746 GTTCTTCACGGTTGGGTCAG 58.773 55.000 0.00 0.00 0.00 3.51
2334 2506 5.712152 ATCTTGAGCCTTTTTCATCGTTT 57.288 34.783 0.00 0.00 0.00 3.60
2347 2519 1.396301 CAGCAGTTCGAATCTTGAGCC 59.604 52.381 0.00 0.00 0.00 4.70
2446 2618 9.889128 AACAGCAGCCAAATTAATTAACATATT 57.111 25.926 0.01 0.00 0.00 1.28
2492 2664 1.381928 AATCAATGCTGGCAGCCGAG 61.382 55.000 34.58 23.31 41.51 4.63
2494 2666 0.804544 CAAATCAATGCTGGCAGCCG 60.805 55.000 34.58 23.00 41.51 5.52
2503 2675 3.656559 ACAAGAAGCACCAAATCAATGC 58.343 40.909 0.00 0.00 39.74 3.56
2517 2689 7.808381 TGATACTCGAACTCTGTAAACAAGAAG 59.192 37.037 0.00 0.00 0.00 2.85
2692 2864 2.046314 CCCTGAACGTTCCGGCAT 60.046 61.111 27.81 0.00 31.03 4.40
2748 2920 4.157289 AGTGTAGTCGTCGTCCATATTGTT 59.843 41.667 0.00 0.00 0.00 2.83
2756 2928 1.736126 TCATGAGTGTAGTCGTCGTCC 59.264 52.381 0.00 0.00 0.00 4.79
2833 3153 2.159382 GTCGGGAAGGAATTGCTTTCA 58.841 47.619 18.63 0.00 34.50 2.69
2838 3158 1.821216 TGAAGTCGGGAAGGAATTGC 58.179 50.000 0.00 0.00 0.00 3.56
2843 3163 1.067142 CGTTGATGAAGTCGGGAAGGA 60.067 52.381 0.00 0.00 0.00 3.36
2853 3173 0.449388 GCTTGCCTCCGTTGATGAAG 59.551 55.000 0.00 0.00 0.00 3.02
2860 3180 1.904287 TGTAAATGCTTGCCTCCGTT 58.096 45.000 0.00 0.00 0.00 4.44
2872 3192 4.599047 TCTTTTGGGCCTGTTGTAAATG 57.401 40.909 4.53 0.00 0.00 2.32
2877 3197 2.242043 CAGATCTTTTGGGCCTGTTGT 58.758 47.619 4.53 0.00 0.00 3.32
2904 3224 6.634805 TCTGATGTAGAGAGGACACATTTTC 58.365 40.000 0.00 0.00 33.16 2.29
3013 3333 3.562108 ATATTACGGGATGGAGGGAGT 57.438 47.619 0.00 0.00 0.00 3.85
3014 3334 5.269991 TCTTATATTACGGGATGGAGGGAG 58.730 45.833 0.00 0.00 0.00 4.30
3015 3335 5.269991 CTCTTATATTACGGGATGGAGGGA 58.730 45.833 0.00 0.00 0.00 4.20
3016 3336 4.141914 GCTCTTATATTACGGGATGGAGGG 60.142 50.000 0.00 0.00 0.00 4.30
3017 3337 4.440250 CGCTCTTATATTACGGGATGGAGG 60.440 50.000 0.00 0.00 0.00 4.30
3018 3338 4.158025 ACGCTCTTATATTACGGGATGGAG 59.842 45.833 0.00 0.00 0.00 3.86
3019 3339 4.084287 ACGCTCTTATATTACGGGATGGA 58.916 43.478 0.00 0.00 0.00 3.41
3020 3340 4.451629 ACGCTCTTATATTACGGGATGG 57.548 45.455 0.00 0.00 0.00 3.51
3021 3341 6.780706 AAAACGCTCTTATATTACGGGATG 57.219 37.500 0.00 0.00 0.00 3.51
3022 3342 6.987992 TCAAAAACGCTCTTATATTACGGGAT 59.012 34.615 0.00 0.00 0.00 3.85
3023 3343 6.256321 GTCAAAAACGCTCTTATATTACGGGA 59.744 38.462 0.00 0.00 0.00 5.14
3024 3344 6.036300 TGTCAAAAACGCTCTTATATTACGGG 59.964 38.462 0.00 0.00 0.00 5.28
3025 3345 6.898189 GTGTCAAAAACGCTCTTATATTACGG 59.102 38.462 0.00 0.00 35.42 4.02
3026 3346 7.421613 GTGTGTCAAAAACGCTCTTATATTACG 59.578 37.037 0.00 0.00 39.23 3.18
3027 3347 8.440833 AGTGTGTCAAAAACGCTCTTATATTAC 58.559 33.333 0.00 0.00 38.68 1.89
3028 3348 8.542497 AGTGTGTCAAAAACGCTCTTATATTA 57.458 30.769 0.00 0.00 38.68 0.98
3029 3349 7.435068 AGTGTGTCAAAAACGCTCTTATATT 57.565 32.000 0.00 0.00 38.68 1.28
3030 3350 7.061752 GAGTGTGTCAAAAACGCTCTTATAT 57.938 36.000 9.31 0.00 46.75 0.86
3031 3351 6.462073 GAGTGTGTCAAAAACGCTCTTATA 57.538 37.500 9.31 0.00 46.75 0.98
3032 3352 5.344207 GAGTGTGTCAAAAACGCTCTTAT 57.656 39.130 9.31 0.00 46.75 1.73
3033 3353 4.789095 GAGTGTGTCAAAAACGCTCTTA 57.211 40.909 9.31 0.00 46.75 2.10
3034 3354 3.675467 GAGTGTGTCAAAAACGCTCTT 57.325 42.857 9.31 0.00 46.75 2.85
3037 3357 7.435068 AATATAAGAGTGTGTCAAAAACGCT 57.565 32.000 0.00 0.00 40.97 5.07
3038 3358 9.210426 CATAATATAAGAGTGTGTCAAAAACGC 57.790 33.333 0.00 0.00 38.93 4.84
3039 3359 9.702726 CCATAATATAAGAGTGTGTCAAAAACG 57.297 33.333 0.00 0.00 0.00 3.60
3041 3361 9.967451 TCCCATAATATAAGAGTGTGTCAAAAA 57.033 29.630 0.00 0.00 0.00 1.94
3042 3362 9.391006 GTCCCATAATATAAGAGTGTGTCAAAA 57.609 33.333 0.00 0.00 0.00 2.44
3043 3363 8.544622 TGTCCCATAATATAAGAGTGTGTCAAA 58.455 33.333 0.00 0.00 0.00 2.69
3044 3364 8.084985 TGTCCCATAATATAAGAGTGTGTCAA 57.915 34.615 0.00 0.00 0.00 3.18
3045 3365 7.563556 TCTGTCCCATAATATAAGAGTGTGTCA 59.436 37.037 0.00 0.00 0.00 3.58
3046 3366 7.952671 TCTGTCCCATAATATAAGAGTGTGTC 58.047 38.462 0.00 0.00 0.00 3.67
3047 3367 7.015682 CCTCTGTCCCATAATATAAGAGTGTGT 59.984 40.741 0.00 0.00 0.00 3.72
3048 3368 7.382110 CCTCTGTCCCATAATATAAGAGTGTG 58.618 42.308 0.00 0.00 0.00 3.82
3049 3369 6.498651 CCCTCTGTCCCATAATATAAGAGTGT 59.501 42.308 0.00 0.00 0.00 3.55
3050 3370 6.726299 TCCCTCTGTCCCATAATATAAGAGTG 59.274 42.308 0.00 0.00 0.00 3.51
3051 3371 6.875469 TCCCTCTGTCCCATAATATAAGAGT 58.125 40.000 0.00 0.00 0.00 3.24
3052 3372 7.986553 ATCCCTCTGTCCCATAATATAAGAG 57.013 40.000 0.00 0.00 0.00 2.85
3057 3377 9.973880 TGATATAATCCCTCTGTCCCATAATAT 57.026 33.333 0.00 0.00 0.00 1.28
3058 3378 9.973880 ATGATATAATCCCTCTGTCCCATAATA 57.026 33.333 0.00 0.00 0.00 0.98
3059 3379 8.882704 ATGATATAATCCCTCTGTCCCATAAT 57.117 34.615 0.00 0.00 0.00 1.28
3060 3380 8.551440 CAATGATATAATCCCTCTGTCCCATAA 58.449 37.037 0.00 0.00 0.00 1.90
3061 3381 7.684186 ACAATGATATAATCCCTCTGTCCCATA 59.316 37.037 0.00 0.00 0.00 2.74
3062 3382 6.506770 ACAATGATATAATCCCTCTGTCCCAT 59.493 38.462 0.00 0.00 0.00 4.00
3063 3383 5.851693 ACAATGATATAATCCCTCTGTCCCA 59.148 40.000 0.00 0.00 0.00 4.37
3064 3384 6.380079 ACAATGATATAATCCCTCTGTCCC 57.620 41.667 0.00 0.00 0.00 4.46
3065 3385 6.656693 CCAACAATGATATAATCCCTCTGTCC 59.343 42.308 0.00 0.00 0.00 4.02
3066 3386 7.453393 TCCAACAATGATATAATCCCTCTGTC 58.547 38.462 0.00 0.00 0.00 3.51
3067 3387 7.293299 TCTCCAACAATGATATAATCCCTCTGT 59.707 37.037 0.00 0.00 0.00 3.41
3068 3388 7.683578 TCTCCAACAATGATATAATCCCTCTG 58.316 38.462 0.00 0.00 0.00 3.35
3069 3389 7.878621 TCTCCAACAATGATATAATCCCTCT 57.121 36.000 0.00 0.00 0.00 3.69
3070 3390 7.391833 GGTTCTCCAACAATGATATAATCCCTC 59.608 40.741 0.00 0.00 33.70 4.30
3071 3391 7.074237 AGGTTCTCCAACAATGATATAATCCCT 59.926 37.037 0.00 0.00 33.70 4.20
3072 3392 7.234355 AGGTTCTCCAACAATGATATAATCCC 58.766 38.462 0.00 0.00 33.70 3.85
3073 3393 8.697507 AAGGTTCTCCAACAATGATATAATCC 57.302 34.615 0.00 0.00 33.70 3.01
3075 3395 9.699410 TGAAAGGTTCTCCAACAATGATATAAT 57.301 29.630 0.00 0.00 33.70 1.28
3076 3396 9.699410 ATGAAAGGTTCTCCAACAATGATATAA 57.301 29.630 0.00 0.00 33.70 0.98
3077 3397 9.342308 GATGAAAGGTTCTCCAACAATGATATA 57.658 33.333 0.00 0.00 33.70 0.86
3078 3398 7.286316 GGATGAAAGGTTCTCCAACAATGATAT 59.714 37.037 0.00 0.00 33.70 1.63
3091 3411 4.287766 ACTAAAGCGGATGAAAGGTTCT 57.712 40.909 0.00 0.00 0.00 3.01
3101 3421 3.059352 AGTTGCAGAACTAAAGCGGAT 57.941 42.857 0.00 0.00 40.85 4.18
3104 3424 3.878086 TGAAGTTGCAGAACTAAAGCG 57.122 42.857 0.00 0.00 41.87 4.68
3110 3430 6.294731 GGATATTTGGTTGAAGTTGCAGAACT 60.295 38.462 0.00 0.00 44.79 3.01
3111 3431 5.863935 GGATATTTGGTTGAAGTTGCAGAAC 59.136 40.000 0.00 0.00 0.00 3.01
3120 3440 7.013559 TGCTACATGATGGATATTTGGTTGAAG 59.986 37.037 0.00 0.00 0.00 3.02
3124 3444 7.658525 TTTGCTACATGATGGATATTTGGTT 57.341 32.000 0.00 0.00 0.00 3.67
3148 3468 7.451255 TGACCTACTGATTTTGTCCATCAATTT 59.549 33.333 0.00 0.00 35.84 1.82
3149 3469 6.947733 TGACCTACTGATTTTGTCCATCAATT 59.052 34.615 0.00 0.00 35.84 2.32
3150 3470 6.484288 TGACCTACTGATTTTGTCCATCAAT 58.516 36.000 0.00 0.00 35.84 2.57
3158 3478 5.640147 TCCCAAATGACCTACTGATTTTGT 58.360 37.500 0.00 0.00 0.00 2.83
3162 3482 7.093333 GGAAAATTCCCAAATGACCTACTGATT 60.093 37.037 0.43 0.00 41.62 2.57
3183 3503 3.122297 CAATGCTTGCTTTCACGGAAAA 58.878 40.909 0.00 0.00 30.84 2.29
3262 3582 4.803452 ACTGACTTCCCTTTGGATCAAAA 58.197 39.130 0.00 0.00 41.40 2.44
3310 3630 7.700234 GCGAAATGAATTTCCAATGTGTACATA 59.300 33.333 0.00 0.00 42.34 2.29
3335 3655 7.222611 ACATTTGTACAAAGTGTTCTTCAATGC 59.777 33.333 24.22 0.00 33.32 3.56
3353 3673 3.242903 CCGTGTCTTGTTGCACATTTGTA 60.243 43.478 0.00 0.00 35.51 2.41
3373 3693 2.092323 GGTCAATTCTTCCTTTCCCCG 58.908 52.381 0.00 0.00 0.00 5.73
3381 3701 2.087646 GTGAGGCTGGTCAATTCTTCC 58.912 52.381 0.00 0.00 0.00 3.46
3391 3711 0.535102 CACCTTTTCGTGAGGCTGGT 60.535 55.000 0.00 0.00 37.84 4.00
3402 3722 7.329588 TGTTAGGAGAAAGAAACACCTTTTC 57.670 36.000 0.00 0.00 36.58 2.29
3417 3737 2.025226 ACTCGGAGGACATGTTAGGAGA 60.025 50.000 10.23 7.05 0.00 3.71
3419 3739 2.526888 ACTCGGAGGACATGTTAGGA 57.473 50.000 10.23 0.00 0.00 2.94
3484 5524 9.942850 CCAAGTTACATCCCAAATTAAGATTTT 57.057 29.630 0.00 0.00 33.25 1.82
3520 5560 8.641541 CATTTGGCATATATCCTAAAACTTGGT 58.358 33.333 0.00 0.00 0.00 3.67
3536 5576 6.291648 TGCAACTAAATTCCATTTGGCATA 57.708 33.333 0.00 0.00 34.50 3.14
3539 5579 4.142838 GCTTGCAACTAAATTCCATTTGGC 60.143 41.667 0.00 0.00 34.50 4.52
3575 5615 6.943718 CCCATGAACTAAGGGTAAACACTTTA 59.056 38.462 2.41 0.00 40.61 1.85
3589 5629 5.013704 ACAGTGGTATGAACCCATGAACTAA 59.986 40.000 0.00 0.00 46.16 2.24
3601 5641 9.506018 CCAATGATAATGATACAGTGGTATGAA 57.494 33.333 0.00 0.00 42.35 2.57
3605 5645 9.337396 GTTTCCAATGATAATGATACAGTGGTA 57.663 33.333 0.00 0.00 45.75 3.25
3606 5646 7.833682 TGTTTCCAATGATAATGATACAGTGGT 59.166 33.333 0.00 0.00 45.75 4.16
3607 5647 8.131100 GTGTTTCCAATGATAATGATACAGTGG 58.869 37.037 0.00 0.00 46.56 4.00
3609 5649 8.806429 TGTGTTTCCAATGATAATGATACAGT 57.194 30.769 0.00 0.00 0.00 3.55
3610 5650 9.507280 GTTGTGTTTCCAATGATAATGATACAG 57.493 33.333 0.00 0.00 0.00 2.74
3611 5651 9.018582 TGTTGTGTTTCCAATGATAATGATACA 57.981 29.630 0.00 0.00 0.00 2.29
3619 7353 5.184864 GGATGGTGTTGTGTTTCCAATGATA 59.815 40.000 0.00 0.00 33.55 2.15
3643 7377 3.694566 GGGTAGCAATGGAAAGGTTACTG 59.305 47.826 0.00 0.00 0.00 2.74


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

AutoCloner maintained by Alex Coulton.