Multiple sequence alignment - TraesCS4D01G215800

Loading Multiple Alignment...

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 TraesCS4D01G215800 chr4D 100.000 3471 0 0 1 3471 369667520 369670990 0.000000e+00 6410.0
1 TraesCS4D01G215800 chr4D 89.655 203 20 1 1 203 258893655 258893454 1.240000e-64 257.0
2 TraesCS4D01G215800 chr4A 94.544 2896 101 12 1 2849 94982654 94979769 0.000000e+00 4420.0
3 TraesCS4D01G215800 chr4A 89.444 360 37 1 2916 3274 94979747 94979388 1.470000e-123 453.0
4 TraesCS4D01G215800 chr4A 85.714 154 20 1 201 354 371747911 371747760 9.970000e-36 161.0
5 TraesCS4D01G215800 chr4B 95.633 2084 68 13 612 2681 454922725 454924799 0.000000e+00 3323.0
6 TraesCS4D01G215800 chr4B 86.809 235 27 4 354 586 454922510 454922742 3.440000e-65 259.0
7 TraesCS4D01G215800 chr4B 87.562 201 22 2 5 203 235380964 235380765 2.690000e-56 230.0
8 TraesCS4D01G215800 chr1B 83.333 306 46 5 47 352 517506482 517506182 9.490000e-71 278.0
9 TraesCS4D01G215800 chr5B 87.745 204 24 1 5 208 357161180 357160978 1.610000e-58 237.0
10 TraesCS4D01G215800 chr3B 87.624 202 24 1 5 206 338601363 338601163 2.080000e-57 233.0
11 TraesCS4D01G215800 chr3B 89.510 143 13 2 201 343 637619638 637619778 2.750000e-41 180.0
12 TraesCS4D01G215800 chr1A 87.000 200 24 2 3 202 483863961 483863764 1.250000e-54 224.0
13 TraesCS4D01G215800 chr2A 86.935 199 25 1 5 203 673284629 673284432 4.510000e-54 222.0
14 TraesCS4D01G215800 chr6A 86.567 201 25 2 3 203 24416660 24416858 1.620000e-53 220.0
15 TraesCS4D01G215800 chr7D 90.977 133 10 1 201 333 483278654 483278784 9.900000e-41 178.0
16 TraesCS4D01G215800 chr2D 90.977 133 10 1 201 333 647674644 647674774 9.900000e-41 178.0
17 TraesCS4D01G215800 chr3D 88.811 143 11 4 195 335 54675320 54675181 1.660000e-38 171.0
18 TraesCS4D01G215800 chr3D 86.184 152 19 2 201 352 395904051 395903902 2.770000e-36 163.0
19 TraesCS4D01G215800 chr3D 93.750 64 4 0 3408 3471 6416927 6416864 2.850000e-16 97.1
20 TraesCS4D01G215800 chr2B 86.364 154 20 1 201 354 36265481 36265633 2.140000e-37 167.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4D01G215800 chr4D 369667520 369670990 3470 False 6410.0 6410 100.000 1 3471 1 chr4D.!!$F1 3470
1 TraesCS4D01G215800 chr4A 94979388 94982654 3266 True 2436.5 4420 91.994 1 3274 2 chr4A.!!$R2 3273
2 TraesCS4D01G215800 chr4B 454922510 454924799 2289 False 1791.0 3323 91.221 354 2681 2 chr4B.!!$F1 2327

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
472 474 1.133790 CTAAACGTAGGACCGACCCTG 59.866 57.143 0.0 0.0 40.05 4.45 F
1430 1463 0.588252 GCTTACCTGTGTGTGTGCAG 59.412 55.000 0.0 0.0 0.00 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1685 1718 0.324614 AGCCGTTCATGTGGATGTCA 59.675 50.0 5.73 0.0 0.0 3.58 R
3383 3443 0.033699 ATTTCTTCTCCCTGGCCAGC 60.034 55.0 28.39 0.0 0.0 4.85 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
43 44 3.133721 AGGTGCTTAGTAGAGATGCTTGG 59.866 47.826 0.00 0.00 0.00 3.61
56 57 6.430007 AGAGATGCTTGGAGAAATAAACCAT 58.570 36.000 0.00 0.00 33.56 3.55
110 111 1.258197 GGCAGACGCTTAATTAGACGC 59.742 52.381 8.59 2.35 38.60 5.19
118 119 3.385577 GCTTAATTAGACGCCTCTCCTG 58.614 50.000 0.00 0.00 0.00 3.86
133 134 4.640647 CCTCTCCTGTAAAAATAAGCACCC 59.359 45.833 0.00 0.00 0.00 4.61
214 215 5.710099 TGTACAAGGCCTTGGAGAAATAAAG 59.290 40.000 41.04 18.12 44.45 1.85
234 235 5.803020 AAGCAGGCTTTCTTTAAGTATCG 57.197 39.130 0.00 0.00 36.19 2.92
245 246 9.490663 CTTTCTTTAAGTATCGGTGCTTATTTG 57.509 33.333 7.08 1.70 33.43 2.32
252 253 3.688694 TCGGTGCTTATTTGTACAGGT 57.311 42.857 0.00 0.00 0.00 4.00
268 269 4.124851 ACAGGTCAGACGCTTAATTAGG 57.875 45.455 0.00 0.00 0.00 2.69
293 294 3.961408 TCTCTCCTGTAGAAATAGGCACC 59.039 47.826 0.00 0.00 34.08 5.01
294 295 2.693591 TCTCCTGTAGAAATAGGCACCG 59.306 50.000 0.00 0.00 34.08 4.94
333 334 3.938963 CCCGCTCTATTTTTCTAAGCACA 59.061 43.478 0.00 0.00 33.21 4.57
336 337 6.260050 CCCGCTCTATTTTTCTAAGCACATAA 59.740 38.462 0.00 0.00 33.21 1.90
348 349 8.840833 TTCTAAGCACATAACATTGTACAAGA 57.159 30.769 14.65 0.00 0.00 3.02
376 377 2.986479 GCATTTGTCGGGTGCTTAAAAG 59.014 45.455 0.00 0.00 36.02 2.27
472 474 1.133790 CTAAACGTAGGACCGACCCTG 59.866 57.143 0.00 0.00 40.05 4.45
475 477 2.423898 CGTAGGACCGACCCTGCAT 61.424 63.158 10.55 0.00 38.63 3.96
511 513 5.186797 CGCCAATTATCTCTCCCTCTAATCT 59.813 44.000 0.00 0.00 0.00 2.40
527 529 9.936759 CCCTCTAATCTTCTTACAATTATCTCC 57.063 37.037 0.00 0.00 0.00 3.71
538 540 9.109393 TCTTACAATTATCTCCATAACAACTGC 57.891 33.333 0.00 0.00 0.00 4.40
539 541 9.113838 CTTACAATTATCTCCATAACAACTGCT 57.886 33.333 0.00 0.00 0.00 4.24
569 571 7.220030 ACTAAATCATTATCACGAATGAGGCT 58.780 34.615 5.22 0.00 46.28 4.58
582 584 4.394300 CGAATGAGGCTGAATTCTTGACTT 59.606 41.667 7.05 0.00 31.83 3.01
638 640 5.273208 AGTTTGCTCTTCTCTCCCTGTATA 58.727 41.667 0.00 0.00 0.00 1.47
669 671 2.240414 ACCAGATCAGGTCATGCATGAA 59.760 45.455 30.24 15.81 41.49 2.57
897 929 2.741985 TCATGCAACTCCCGTGCG 60.742 61.111 0.00 0.00 0.00 5.34
917 949 3.737266 GCGTGTCGGAATATATTTTCGGA 59.263 43.478 16.63 10.66 33.96 4.55
1014 1046 5.342017 TCTACCTCCATGGAAGAGAAGAAA 58.658 41.667 17.55 0.00 39.71 2.52
1386 1419 3.448686 CGTCATGAATCCTGACTGGTAC 58.551 50.000 14.86 0.00 40.68 3.34
1405 1438 3.990318 ACTGGCTTACTGCAGAAAAAC 57.010 42.857 23.35 9.38 45.15 2.43
1430 1463 0.588252 GCTTACCTGTGTGTGTGCAG 59.412 55.000 0.00 0.00 0.00 4.41
1447 1480 8.129211 GTGTGTGCAGACTAAAATAGTTTCTTT 58.871 33.333 15.76 0.00 39.59 2.52
1448 1481 8.342634 TGTGTGCAGACTAAAATAGTTTCTTTC 58.657 33.333 15.76 0.00 39.59 2.62
1449 1482 8.342634 GTGTGCAGACTAAAATAGTTTCTTTCA 58.657 33.333 6.76 0.00 39.59 2.69
1450 1483 9.066892 TGTGCAGACTAAAATAGTTTCTTTCAT 57.933 29.630 0.00 0.00 39.59 2.57
1939 1982 1.743623 CCCAAACGGCGTGCAGATA 60.744 57.895 15.70 0.00 0.00 1.98
2338 2394 4.790861 GACGGCGAGGGGAACGTC 62.791 72.222 16.62 0.00 46.89 4.34
2507 2564 4.141528 TGTCCCATTTGATTTGCTGGTTTT 60.142 37.500 0.00 0.00 0.00 2.43
2548 2605 7.326063 GTGTATCAGTTTATGGTTTGCTTGTTC 59.674 37.037 0.00 0.00 0.00 3.18
2586 2643 5.045668 TGATCATGTTGTGAATTTGACGG 57.954 39.130 0.00 0.00 40.97 4.79
2630 2687 9.099454 GTGACAAGAACTCGGATCTTTATAAAT 57.901 33.333 0.00 0.00 34.99 1.40
2760 2819 1.469703 TGTACACCACCTCGACATACG 59.530 52.381 0.00 0.00 44.09 3.06
2775 2834 4.670347 GACATACGAGGACCAAAGAGTAC 58.330 47.826 0.00 0.00 0.00 2.73
2796 2855 4.918037 ACAAGGACTTATAGTTCTACGCG 58.082 43.478 3.53 3.53 31.35 6.01
2821 2880 1.689959 CTCAACCTCAAACGCATTGC 58.310 50.000 0.00 0.00 38.98 3.56
2838 2897 0.914644 TGCCATCCCTTCTCTCCTTG 59.085 55.000 0.00 0.00 0.00 3.61
2839 2898 1.207791 GCCATCCCTTCTCTCCTTGA 58.792 55.000 0.00 0.00 0.00 3.02
2840 2899 1.561542 GCCATCCCTTCTCTCCTTGAA 59.438 52.381 0.00 0.00 0.00 2.69
2841 2900 2.025887 GCCATCCCTTCTCTCCTTGAAA 60.026 50.000 0.00 0.00 0.00 2.69
2842 2901 3.372458 GCCATCCCTTCTCTCCTTGAAAT 60.372 47.826 0.00 0.00 0.00 2.17
2843 2902 4.141390 GCCATCCCTTCTCTCCTTGAAATA 60.141 45.833 0.00 0.00 0.00 1.40
2844 2903 5.632427 GCCATCCCTTCTCTCCTTGAAATAA 60.632 44.000 0.00 0.00 0.00 1.40
2845 2904 6.426587 CCATCCCTTCTCTCCTTGAAATAAA 58.573 40.000 0.00 0.00 0.00 1.40
2846 2905 6.891908 CCATCCCTTCTCTCCTTGAAATAAAA 59.108 38.462 0.00 0.00 0.00 1.52
2847 2906 7.397192 CCATCCCTTCTCTCCTTGAAATAAAAA 59.603 37.037 0.00 0.00 0.00 1.94
2899 2958 8.665643 AAAAACAATATTGATGTATGCATGGG 57.334 30.769 22.16 0.00 35.07 4.00
2900 2959 5.395682 ACAATATTGATGTATGCATGGGC 57.604 39.130 22.16 0.00 41.68 5.36
2943 3002 1.904865 TTGGCCTTCTGCAGCTTGG 60.905 57.895 9.47 11.67 43.89 3.61
2952 3011 2.209064 CTGCAGCTTGGCATGTGTCC 62.209 60.000 0.00 0.00 43.97 4.02
2971 3030 2.846206 TCCTCATCTACTTGGTTGCCAT 59.154 45.455 0.00 0.00 31.53 4.40
2973 3032 2.357009 CTCATCTACTTGGTTGCCATGC 59.643 50.000 1.59 0.00 32.73 4.06
2977 3036 1.612950 CTACTTGGTTGCCATGCACAA 59.387 47.619 0.00 0.00 38.71 3.33
2979 3038 0.390124 CTTGGTTGCCATGCACAAGT 59.610 50.000 9.86 0.00 37.65 3.16
2984 3043 2.331194 GTTGCCATGCACAAGTCAATC 58.669 47.619 0.00 0.00 38.71 2.67
3052 3112 4.959839 ACCGTTTAGGCCATGGAAATATTT 59.040 37.500 18.40 0.00 46.52 1.40
3060 3120 4.505390 GGCCATGGAAATATTTGAATGGGG 60.505 45.833 25.89 14.02 36.02 4.96
3064 3124 4.618635 TGGAAATATTTGAATGGGGCTCA 58.381 39.130 5.17 0.00 0.00 4.26
3065 3125 5.028802 TGGAAATATTTGAATGGGGCTCAA 58.971 37.500 5.17 0.00 0.00 3.02
3078 3138 2.352805 CTCAACCTGCCCACTCCC 59.647 66.667 0.00 0.00 0.00 4.30
3085 3145 1.277580 CCTGCCCACTCCCAATCTCT 61.278 60.000 0.00 0.00 0.00 3.10
3092 3152 0.032615 ACTCCCAATCTCTCGCTCCT 60.033 55.000 0.00 0.00 0.00 3.69
3095 3155 0.249238 CCCAATCTCTCGCTCCTTCG 60.249 60.000 0.00 0.00 0.00 3.79
3103 3163 0.995728 CTCGCTCCTTCGCTTTCTTC 59.004 55.000 0.00 0.00 0.00 2.87
3111 3171 2.157863 CCTTCGCTTTCTTCGTTCTTCC 59.842 50.000 0.00 0.00 0.00 3.46
3121 3181 2.992124 TCGTTCTTCCAGTCCAAACA 57.008 45.000 0.00 0.00 0.00 2.83
3126 3186 4.260784 CGTTCTTCCAGTCCAAACAGAAAG 60.261 45.833 0.00 0.00 0.00 2.62
3146 3206 6.379988 AGAAAGATGAGAGAAGGTTAGAGTCC 59.620 42.308 0.00 0.00 0.00 3.85
3150 3210 4.999310 TGAGAGAAGGTTAGAGTCCTGAA 58.001 43.478 0.00 0.00 35.27 3.02
3158 3218 4.348168 AGGTTAGAGTCCTGAATGTTGTGT 59.652 41.667 0.00 0.00 33.62 3.72
3161 3221 4.000331 AGAGTCCTGAATGTTGTGTCTG 58.000 45.455 0.00 0.00 0.00 3.51
3227 3287 1.449353 CTAGCCAGGCAAGCCTAGG 59.551 63.158 15.80 17.27 46.28 3.02
3228 3288 1.306997 TAGCCAGGCAAGCCTAGGT 60.307 57.895 15.80 14.69 46.28 3.08
3229 3289 1.626356 TAGCCAGGCAAGCCTAGGTG 61.626 60.000 19.06 2.48 46.28 4.00
3230 3290 3.081554 CCAGGCAAGCCTAGGTGT 58.918 61.111 14.18 0.00 46.28 4.16
3231 3291 1.078143 CCAGGCAAGCCTAGGTGTC 60.078 63.158 14.18 2.92 46.28 3.67
3232 3292 1.448540 CAGGCAAGCCTAGGTGTCG 60.449 63.158 14.18 0.00 46.28 4.35
3233 3293 2.125106 GGCAAGCCTAGGTGTCGG 60.125 66.667 11.31 0.00 0.00 4.79
3234 3294 2.663196 GCAAGCCTAGGTGTCGGT 59.337 61.111 11.31 0.00 0.00 4.69
3235 3295 1.741770 GCAAGCCTAGGTGTCGGTG 60.742 63.158 11.31 1.27 0.00 4.94
3236 3296 1.671742 CAAGCCTAGGTGTCGGTGT 59.328 57.895 11.31 0.00 0.00 4.16
3237 3297 0.034896 CAAGCCTAGGTGTCGGTGTT 59.965 55.000 11.31 0.00 0.00 3.32
3238 3298 0.763035 AAGCCTAGGTGTCGGTGTTT 59.237 50.000 11.31 0.00 0.00 2.83
3239 3299 0.034896 AGCCTAGGTGTCGGTGTTTG 59.965 55.000 11.31 0.00 0.00 2.93
3240 3300 0.953960 GCCTAGGTGTCGGTGTTTGG 60.954 60.000 11.31 0.00 0.00 3.28
3241 3301 0.395312 CCTAGGTGTCGGTGTTTGGT 59.605 55.000 0.00 0.00 0.00 3.67
3242 3302 1.202722 CCTAGGTGTCGGTGTTTGGTT 60.203 52.381 0.00 0.00 0.00 3.67
3243 3303 2.140717 CTAGGTGTCGGTGTTTGGTTC 58.859 52.381 0.00 0.00 0.00 3.62
3244 3304 0.464916 AGGTGTCGGTGTTTGGTTCC 60.465 55.000 0.00 0.00 0.00 3.62
3245 3305 0.464916 GGTGTCGGTGTTTGGTTCCT 60.465 55.000 0.00 0.00 0.00 3.36
3246 3306 1.385528 GTGTCGGTGTTTGGTTCCTT 58.614 50.000 0.00 0.00 0.00 3.36
3247 3307 1.746787 GTGTCGGTGTTTGGTTCCTTT 59.253 47.619 0.00 0.00 0.00 3.11
3248 3308 2.018515 TGTCGGTGTTTGGTTCCTTTC 58.981 47.619 0.00 0.00 0.00 2.62
3249 3309 1.335810 GTCGGTGTTTGGTTCCTTTCC 59.664 52.381 0.00 0.00 0.00 3.13
3250 3310 1.213430 TCGGTGTTTGGTTCCTTTCCT 59.787 47.619 0.00 0.00 0.00 3.36
3251 3311 1.336755 CGGTGTTTGGTTCCTTTCCTG 59.663 52.381 0.00 0.00 0.00 3.86
3252 3312 2.661718 GGTGTTTGGTTCCTTTCCTGA 58.338 47.619 0.00 0.00 0.00 3.86
3253 3313 2.623416 GGTGTTTGGTTCCTTTCCTGAG 59.377 50.000 0.00 0.00 0.00 3.35
3254 3314 3.288092 GTGTTTGGTTCCTTTCCTGAGT 58.712 45.455 0.00 0.00 0.00 3.41
3255 3315 3.066760 GTGTTTGGTTCCTTTCCTGAGTG 59.933 47.826 0.00 0.00 0.00 3.51
3256 3316 2.623416 GTTTGGTTCCTTTCCTGAGTGG 59.377 50.000 0.00 0.00 37.10 4.00
3257 3317 1.518367 TGGTTCCTTTCCTGAGTGGT 58.482 50.000 0.00 0.00 37.07 4.16
3258 3318 1.420138 TGGTTCCTTTCCTGAGTGGTC 59.580 52.381 0.00 0.00 37.07 4.02
3259 3319 1.608283 GGTTCCTTTCCTGAGTGGTCG 60.608 57.143 0.00 0.00 37.07 4.79
3260 3320 0.685097 TTCCTTTCCTGAGTGGTCGG 59.315 55.000 0.00 0.00 37.07 4.79
3261 3321 0.471211 TCCTTTCCTGAGTGGTCGGT 60.471 55.000 0.00 0.00 37.07 4.69
3262 3322 0.396811 CCTTTCCTGAGTGGTCGGTT 59.603 55.000 0.00 0.00 37.07 4.44
3263 3323 1.202770 CCTTTCCTGAGTGGTCGGTTT 60.203 52.381 0.00 0.00 37.07 3.27
3264 3324 2.038033 CCTTTCCTGAGTGGTCGGTTTA 59.962 50.000 0.00 0.00 37.07 2.01
3265 3325 3.307480 CCTTTCCTGAGTGGTCGGTTTAT 60.307 47.826 0.00 0.00 37.07 1.40
3266 3326 3.604875 TTCCTGAGTGGTCGGTTTATC 57.395 47.619 0.00 0.00 37.07 1.75
3267 3327 1.829222 TCCTGAGTGGTCGGTTTATCC 59.171 52.381 0.00 0.00 37.07 2.59
3268 3328 1.831736 CCTGAGTGGTCGGTTTATCCT 59.168 52.381 0.00 0.00 0.00 3.24
3269 3329 2.236395 CCTGAGTGGTCGGTTTATCCTT 59.764 50.000 0.00 0.00 0.00 3.36
3270 3330 3.307480 CCTGAGTGGTCGGTTTATCCTTT 60.307 47.826 0.00 0.00 0.00 3.11
3271 3331 4.081309 CCTGAGTGGTCGGTTTATCCTTTA 60.081 45.833 0.00 0.00 0.00 1.85
3293 3353 1.037493 GTGGGTGTTTGGTTCCTTCC 58.963 55.000 0.00 0.00 0.00 3.46
3296 3356 1.328279 GGTGTTTGGTTCCTTCCCTG 58.672 55.000 0.00 0.00 0.00 4.45
3302 3362 2.035783 GTTCCTTCCCTGGGTGGC 59.964 66.667 13.56 1.55 0.00 5.01
3315 3375 2.265904 GGTGGCCGGTTTGTCCTTC 61.266 63.158 1.90 0.00 0.00 3.46
3319 3379 1.896660 GCCGGTTTGTCCTTCAGCA 60.897 57.895 1.90 0.00 0.00 4.41
3320 3380 1.949257 CCGGTTTGTCCTTCAGCAC 59.051 57.895 0.00 0.00 0.00 4.40
3321 3381 0.535102 CCGGTTTGTCCTTCAGCACT 60.535 55.000 0.00 0.00 0.00 4.40
3322 3382 0.868406 CGGTTTGTCCTTCAGCACTC 59.132 55.000 0.00 0.00 0.00 3.51
3323 3383 1.810031 CGGTTTGTCCTTCAGCACTCA 60.810 52.381 0.00 0.00 0.00 3.41
3324 3384 1.876156 GGTTTGTCCTTCAGCACTCAG 59.124 52.381 0.00 0.00 0.00 3.35
3325 3385 2.485479 GGTTTGTCCTTCAGCACTCAGA 60.485 50.000 0.00 0.00 0.00 3.27
3326 3386 3.406764 GTTTGTCCTTCAGCACTCAGAT 58.593 45.455 0.00 0.00 0.00 2.90
3327 3387 4.563580 GGTTTGTCCTTCAGCACTCAGATA 60.564 45.833 0.00 0.00 0.00 1.98
3328 3388 4.890158 TTGTCCTTCAGCACTCAGATAA 57.110 40.909 0.00 0.00 0.00 1.75
3329 3389 4.890158 TGTCCTTCAGCACTCAGATAAA 57.110 40.909 0.00 0.00 0.00 1.40
3330 3390 5.426689 TGTCCTTCAGCACTCAGATAAAT 57.573 39.130 0.00 0.00 0.00 1.40
3331 3391 5.809001 TGTCCTTCAGCACTCAGATAAATT 58.191 37.500 0.00 0.00 0.00 1.82
3332 3392 6.240894 TGTCCTTCAGCACTCAGATAAATTT 58.759 36.000 0.00 0.00 0.00 1.82
3333 3393 6.716628 TGTCCTTCAGCACTCAGATAAATTTT 59.283 34.615 0.00 0.00 0.00 1.82
3334 3394 7.882791 TGTCCTTCAGCACTCAGATAAATTTTA 59.117 33.333 0.00 0.00 0.00 1.52
3335 3395 8.178313 GTCCTTCAGCACTCAGATAAATTTTAC 58.822 37.037 0.00 0.00 0.00 2.01
3336 3396 7.882791 TCCTTCAGCACTCAGATAAATTTTACA 59.117 33.333 0.00 0.00 0.00 2.41
3337 3397 7.965107 CCTTCAGCACTCAGATAAATTTTACAC 59.035 37.037 0.00 0.00 0.00 2.90
3338 3398 7.060600 TCAGCACTCAGATAAATTTTACACG 57.939 36.000 0.00 0.00 0.00 4.49
3339 3399 6.871492 TCAGCACTCAGATAAATTTTACACGA 59.129 34.615 0.00 0.00 0.00 4.35
3340 3400 7.549134 TCAGCACTCAGATAAATTTTACACGAT 59.451 33.333 0.00 0.00 0.00 3.73
3341 3401 7.637519 CAGCACTCAGATAAATTTTACACGATG 59.362 37.037 0.00 0.00 0.00 3.84
3342 3402 6.907212 GCACTCAGATAAATTTTACACGATGG 59.093 38.462 0.00 0.00 0.00 3.51
3343 3403 7.409697 CACTCAGATAAATTTTACACGATGGG 58.590 38.462 0.00 0.00 0.00 4.00
3344 3404 6.038271 ACTCAGATAAATTTTACACGATGGGC 59.962 38.462 0.00 0.00 0.00 5.36
3345 3405 5.298276 TCAGATAAATTTTACACGATGGGCC 59.702 40.000 0.00 0.00 0.00 5.80
3346 3406 5.067153 CAGATAAATTTTACACGATGGGCCA 59.933 40.000 9.61 9.61 0.00 5.36
3347 3407 5.833131 AGATAAATTTTACACGATGGGCCAT 59.167 36.000 21.39 21.39 0.00 4.40
3348 3408 7.001674 AGATAAATTTTACACGATGGGCCATA 58.998 34.615 21.26 0.00 0.00 2.74
3349 3409 4.911514 AATTTTACACGATGGGCCATAC 57.088 40.909 21.26 12.13 0.00 2.39
3350 3410 3.637911 TTTTACACGATGGGCCATACT 57.362 42.857 21.26 4.04 0.00 2.12
3351 3411 4.757019 TTTTACACGATGGGCCATACTA 57.243 40.909 21.26 3.46 0.00 1.82
3352 3412 4.967084 TTTACACGATGGGCCATACTAT 57.033 40.909 21.26 8.50 0.00 2.12
3353 3413 4.967084 TTACACGATGGGCCATACTATT 57.033 40.909 21.26 5.69 0.00 1.73
3354 3414 3.857157 ACACGATGGGCCATACTATTT 57.143 42.857 21.26 0.00 0.00 1.40
3355 3415 4.967084 ACACGATGGGCCATACTATTTA 57.033 40.909 21.26 0.00 0.00 1.40
3356 3416 5.499004 ACACGATGGGCCATACTATTTAT 57.501 39.130 21.26 0.00 0.00 1.40
3357 3417 5.245531 ACACGATGGGCCATACTATTTATG 58.754 41.667 21.26 10.95 0.00 1.90
3358 3418 4.635765 CACGATGGGCCATACTATTTATGG 59.364 45.833 21.26 6.02 45.50 2.74
3368 3428 6.573434 CCATACTATTTATGGCTCGCTATCA 58.427 40.000 0.00 0.00 38.15 2.15
3369 3429 6.699204 CCATACTATTTATGGCTCGCTATCAG 59.301 42.308 0.00 0.00 38.15 2.90
3370 3430 4.499183 ACTATTTATGGCTCGCTATCAGC 58.501 43.478 0.00 0.00 38.02 4.26
3397 3457 4.039092 GCAGCTGGCCAGGGAGAA 62.039 66.667 33.46 0.00 36.11 2.87
3398 3458 2.271497 CAGCTGGCCAGGGAGAAG 59.729 66.667 33.46 8.32 0.00 2.85
3399 3459 2.123632 AGCTGGCCAGGGAGAAGA 59.876 61.111 33.46 0.00 0.00 2.87
3400 3460 1.539869 AGCTGGCCAGGGAGAAGAA 60.540 57.895 33.46 0.00 0.00 2.52
3401 3461 1.136329 AGCTGGCCAGGGAGAAGAAA 61.136 55.000 33.46 0.00 0.00 2.52
3402 3462 0.033699 GCTGGCCAGGGAGAAGAAAT 60.034 55.000 33.46 0.00 0.00 2.17
3403 3463 1.212935 GCTGGCCAGGGAGAAGAAATA 59.787 52.381 33.46 0.00 0.00 1.40
3404 3464 2.747799 GCTGGCCAGGGAGAAGAAATAG 60.748 54.545 33.46 4.59 0.00 1.73
3405 3465 2.774234 CTGGCCAGGGAGAAGAAATAGA 59.226 50.000 26.14 0.00 0.00 1.98
3406 3466 3.189606 TGGCCAGGGAGAAGAAATAGAA 58.810 45.455 0.00 0.00 0.00 2.10
3407 3467 3.788142 TGGCCAGGGAGAAGAAATAGAAT 59.212 43.478 0.00 0.00 0.00 2.40
3408 3468 4.140536 GGCCAGGGAGAAGAAATAGAATG 58.859 47.826 0.00 0.00 0.00 2.67
3409 3469 3.567585 GCCAGGGAGAAGAAATAGAATGC 59.432 47.826 0.00 0.00 0.00 3.56
3410 3470 4.140536 CCAGGGAGAAGAAATAGAATGCC 58.859 47.826 0.00 0.00 0.00 4.40
3411 3471 4.141298 CCAGGGAGAAGAAATAGAATGCCT 60.141 45.833 0.00 0.00 0.00 4.75
3412 3472 4.820716 CAGGGAGAAGAAATAGAATGCCTG 59.179 45.833 0.00 0.00 39.42 4.85
3413 3473 4.140536 GGGAGAAGAAATAGAATGCCTGG 58.859 47.826 0.00 0.00 0.00 4.45
3414 3474 4.140536 GGAGAAGAAATAGAATGCCTGGG 58.859 47.826 0.00 0.00 0.00 4.45
3415 3475 3.560105 AGAAGAAATAGAATGCCTGGGC 58.440 45.455 4.43 4.43 42.35 5.36
3416 3476 2.371658 AGAAATAGAATGCCTGGGCC 57.628 50.000 9.28 0.00 41.09 5.80
3417 3477 1.570501 AGAAATAGAATGCCTGGGCCA 59.429 47.619 5.85 5.85 41.09 5.36
3418 3478 2.024080 AGAAATAGAATGCCTGGGCCAA 60.024 45.455 8.04 0.00 41.09 4.52
3419 3479 2.077687 AATAGAATGCCTGGGCCAAG 57.922 50.000 8.04 0.91 41.09 3.61
3420 3480 0.468771 ATAGAATGCCTGGGCCAAGC 60.469 55.000 20.35 20.35 41.09 4.01
3421 3481 1.862049 TAGAATGCCTGGGCCAAGCA 61.862 55.000 30.50 30.50 41.50 3.91
3423 3483 0.756442 GAATGCCTGGGCCAAGCATA 60.756 55.000 35.94 15.67 46.17 3.14
3424 3484 0.105349 AATGCCTGGGCCAAGCATAT 60.105 50.000 35.94 24.46 46.17 1.78
3425 3485 0.105349 ATGCCTGGGCCAAGCATATT 60.105 50.000 35.23 17.39 45.10 1.28
3426 3486 0.325484 TGCCTGGGCCAAGCATATTT 60.325 50.000 25.53 0.00 41.09 1.40
3427 3487 0.390492 GCCTGGGCCAAGCATATTTC 59.610 55.000 22.09 0.00 34.56 2.17
3428 3488 2.031097 GCCTGGGCCAAGCATATTTCT 61.031 52.381 22.09 0.00 34.56 2.52
3429 3489 2.391678 CCTGGGCCAAGCATATTTCTT 58.608 47.619 8.04 0.00 0.00 2.52
3430 3490 2.767960 CCTGGGCCAAGCATATTTCTTT 59.232 45.455 8.04 0.00 0.00 2.52
3431 3491 3.181472 CCTGGGCCAAGCATATTTCTTTC 60.181 47.826 8.04 0.00 0.00 2.62
3432 3492 3.703052 CTGGGCCAAGCATATTTCTTTCT 59.297 43.478 8.04 0.00 0.00 2.52
3433 3493 4.095946 TGGGCCAAGCATATTTCTTTCTT 58.904 39.130 2.13 0.00 0.00 2.52
3434 3494 4.531732 TGGGCCAAGCATATTTCTTTCTTT 59.468 37.500 2.13 0.00 0.00 2.52
3435 3495 5.012975 TGGGCCAAGCATATTTCTTTCTTTT 59.987 36.000 2.13 0.00 0.00 2.27
3436 3496 6.212388 TGGGCCAAGCATATTTCTTTCTTTTA 59.788 34.615 2.13 0.00 0.00 1.52
3437 3497 7.092935 TGGGCCAAGCATATTTCTTTCTTTTAT 60.093 33.333 2.13 0.00 0.00 1.40
3438 3498 7.770433 GGGCCAAGCATATTTCTTTCTTTTATT 59.230 33.333 4.39 0.00 0.00 1.40
3439 3499 9.166173 GGCCAAGCATATTTCTTTCTTTTATTT 57.834 29.630 0.00 0.00 0.00 1.40
3464 3524 8.732746 TTTTAAATCTAGACCAGGCTAATCAC 57.267 34.615 0.00 0.00 0.00 3.06
3465 3525 4.592485 AATCTAGACCAGGCTAATCACG 57.408 45.455 0.00 0.00 0.00 4.35
3466 3526 3.014304 TCTAGACCAGGCTAATCACGT 57.986 47.619 0.00 0.00 0.00 4.49
3467 3527 3.362706 TCTAGACCAGGCTAATCACGTT 58.637 45.455 0.00 0.00 0.00 3.99
3468 3528 2.386661 AGACCAGGCTAATCACGTTG 57.613 50.000 0.00 0.00 0.00 4.10
3469 3529 0.727398 GACCAGGCTAATCACGTTGC 59.273 55.000 0.00 0.00 0.00 4.17
3470 3530 0.036164 ACCAGGCTAATCACGTTGCA 59.964 50.000 0.00 0.00 0.00 4.08
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 2.676076 CACCTTGCATTGTACAAAGCC 58.324 47.619 27.56 13.71 34.45 4.35
73 74 5.334105 CGTCTGCCATGTATAAATAAGCACC 60.334 44.000 0.00 0.00 0.00 5.01
110 111 4.640647 GGGTGCTTATTTTTACAGGAGAGG 59.359 45.833 0.00 0.00 0.00 3.69
133 134 3.824414 ACCGGATTTTTCTAAAGCACG 57.176 42.857 9.46 0.00 31.34 5.34
199 200 3.359950 AGCCTGCTTTATTTCTCCAAGG 58.640 45.455 0.00 0.00 0.00 3.61
214 215 3.939592 ACCGATACTTAAAGAAAGCCTGC 59.060 43.478 0.00 0.00 38.93 4.85
234 235 4.392138 GTCTGACCTGTACAAATAAGCACC 59.608 45.833 0.00 0.00 0.00 5.01
245 246 5.041940 CCTAATTAAGCGTCTGACCTGTAC 58.958 45.833 1.55 0.00 0.00 2.90
268 269 3.551250 GCCTATTTCTACAGGAGAGACGC 60.551 52.174 0.00 0.00 34.93 5.19
272 273 3.243569 CGGTGCCTATTTCTACAGGAGAG 60.244 52.174 0.00 0.00 34.93 3.20
309 310 4.395231 GTGCTTAGAAAAATAGAGCGGGTT 59.605 41.667 0.00 0.00 36.17 4.11
310 311 3.939592 GTGCTTAGAAAAATAGAGCGGGT 59.060 43.478 0.00 0.00 36.17 5.28
311 312 3.938963 TGTGCTTAGAAAAATAGAGCGGG 59.061 43.478 0.00 0.00 36.17 6.13
325 326 7.334421 AGGTCTTGTACAATGTTATGTGCTTAG 59.666 37.037 9.13 0.00 36.92 2.18
333 334 8.807948 ATGCTTAAGGTCTTGTACAATGTTAT 57.192 30.769 9.13 0.00 0.00 1.89
336 337 7.014230 ACAAATGCTTAAGGTCTTGTACAATGT 59.986 33.333 9.13 2.45 0.00 2.71
345 346 3.081804 CCCGACAAATGCTTAAGGTCTT 58.918 45.455 4.29 0.00 0.00 3.01
348 349 2.159382 CACCCGACAAATGCTTAAGGT 58.841 47.619 4.29 0.00 0.00 3.50
376 377 8.340230 TCGCATTCTTTCTTTCTTTTTCTTTC 57.660 30.769 0.00 0.00 0.00 2.62
397 399 6.964908 TCAGTGTTTAAATTTTCAGATCGCA 58.035 32.000 0.00 0.00 0.00 5.10
453 455 1.176527 CAGGGTCGGTCCTACGTTTA 58.823 55.000 0.00 0.00 34.92 2.01
567 569 3.949132 AGGGAGAAGTCAAGAATTCAGC 58.051 45.455 8.44 4.37 37.82 4.26
569 571 4.074970 GCAAGGGAGAAGTCAAGAATTCA 58.925 43.478 8.44 0.00 37.82 2.57
582 584 1.277557 GAAGCAGAAGAGCAAGGGAGA 59.722 52.381 0.00 0.00 36.85 3.71
669 671 2.127708 AGGAGGATACCGAGCCAATTT 58.872 47.619 0.00 0.00 31.47 1.82
897 929 4.748102 TGCTCCGAAAATATATTCCGACAC 59.252 41.667 16.87 9.06 0.00 3.67
1386 1419 2.029918 GGGTTTTTCTGCAGTAAGCCAG 60.030 50.000 26.81 1.64 44.83 4.85
1405 1438 2.027192 ACACACACAGGTAAGCTATGGG 60.027 50.000 0.00 0.00 0.00 4.00
1685 1718 0.324614 AGCCGTTCATGTGGATGTCA 59.675 50.000 5.73 0.00 0.00 3.58
1939 1982 3.350833 GAGAAATTGCTGGTCCTGTGAT 58.649 45.455 0.00 0.00 0.00 3.06
2143 2199 2.515757 TTGCTGTTCAGGCGCACA 60.516 55.556 10.83 3.50 32.71 4.57
2338 2394 3.062466 TCCTCGAGCACCTCCACG 61.062 66.667 6.99 0.00 0.00 4.94
2507 2564 8.492415 AACTGATACACCTCCTTGCTAATATA 57.508 34.615 0.00 0.00 0.00 0.86
2548 2605 3.009026 TGATCATCACACGAACCCAATG 58.991 45.455 0.00 0.00 0.00 2.82
2586 2643 7.759433 TCTTGTCACAAAAGAAAAAGAATCCAC 59.241 33.333 0.00 0.00 30.79 4.02
2630 2687 2.223947 TGCTTTGTACTTCTCGTGAGCA 60.224 45.455 0.00 0.00 0.00 4.26
2735 2794 4.182693 TGTCGAGGTGGTGTACAAATAG 57.817 45.455 0.00 0.00 0.00 1.73
2737 2796 3.695830 ATGTCGAGGTGGTGTACAAAT 57.304 42.857 0.00 0.00 0.00 2.32
2760 2819 3.579151 AGTCCTTGTACTCTTTGGTCCTC 59.421 47.826 0.00 0.00 0.00 3.71
2775 2834 4.968788 GTCGCGTAGAACTATAAGTCCTTG 59.031 45.833 5.77 0.00 0.00 3.61
2796 2855 0.784778 CGTTTGAGGTTGAGCTCGTC 59.215 55.000 9.64 4.30 0.00 4.20
2821 2880 4.516652 ATTTCAAGGAGAGAAGGGATGG 57.483 45.455 0.00 0.00 0.00 3.51
2878 2937 4.833938 TGCCCATGCATACATCAATATTGT 59.166 37.500 14.97 0.00 44.23 2.71
2931 2990 0.824595 ACACATGCCAAGCTGCAGAA 60.825 50.000 20.43 0.00 45.93 3.02
2935 2994 1.930908 GAGGACACATGCCAAGCTGC 61.931 60.000 0.00 0.00 0.00 5.25
2943 3002 3.201290 CCAAGTAGATGAGGACACATGC 58.799 50.000 0.00 0.00 0.00 4.06
2952 3011 2.357009 GCATGGCAACCAAGTAGATGAG 59.643 50.000 0.00 0.00 36.95 2.90
2971 3030 6.942532 AAAACTTCTAGATTGACTTGTGCA 57.057 33.333 0.00 0.00 0.00 4.57
3035 3095 5.543405 CCCATTCAAATATTTCCATGGCCTA 59.457 40.000 20.82 0.00 30.45 3.93
3052 3112 1.304381 GCAGGTTGAGCCCCATTCA 60.304 57.895 0.00 0.00 38.26 2.57
3060 3120 2.360475 GGAGTGGGCAGGTTGAGC 60.360 66.667 0.00 0.00 0.00 4.26
3064 3124 1.142688 AGATTGGGAGTGGGCAGGTT 61.143 55.000 0.00 0.00 0.00 3.50
3065 3125 1.542375 AGATTGGGAGTGGGCAGGT 60.542 57.895 0.00 0.00 0.00 4.00
3078 3138 0.102120 AGCGAAGGAGCGAGAGATTG 59.898 55.000 0.00 0.00 43.00 2.67
3085 3145 0.732880 CGAAGAAAGCGAAGGAGCGA 60.733 55.000 0.00 0.00 43.00 4.93
3092 3152 2.800544 CTGGAAGAACGAAGAAAGCGAA 59.199 45.455 0.00 0.00 34.07 4.70
3095 3155 2.480802 GGACTGGAAGAACGAAGAAAGC 59.519 50.000 0.00 0.00 37.43 3.51
3103 3163 2.833794 TCTGTTTGGACTGGAAGAACG 58.166 47.619 0.00 0.00 37.43 3.95
3111 3171 5.545588 TCTCTCATCTTTCTGTTTGGACTG 58.454 41.667 0.00 0.00 0.00 3.51
3121 3181 6.379988 GGACTCTAACCTTCTCTCATCTTTCT 59.620 42.308 0.00 0.00 0.00 2.52
3126 3186 5.197451 TCAGGACTCTAACCTTCTCTCATC 58.803 45.833 0.00 0.00 35.35 2.92
3170 3230 0.035725 CAGGCTCCACTCAAGCATCA 60.036 55.000 0.00 0.00 41.66 3.07
3176 3236 1.483595 CCCACTCAGGCTCCACTCAA 61.484 60.000 0.00 0.00 35.39 3.02
3211 3271 2.612115 ACCTAGGCTTGCCTGGCT 60.612 61.111 23.03 5.72 45.08 4.75
3227 3287 1.385528 AAGGAACCAAACACCGACAC 58.614 50.000 0.00 0.00 0.00 3.67
3228 3288 2.018515 GAAAGGAACCAAACACCGACA 58.981 47.619 0.00 0.00 0.00 4.35
3229 3289 1.335810 GGAAAGGAACCAAACACCGAC 59.664 52.381 0.00 0.00 0.00 4.79
3230 3290 1.213430 AGGAAAGGAACCAAACACCGA 59.787 47.619 0.00 0.00 0.00 4.69
3231 3291 1.336755 CAGGAAAGGAACCAAACACCG 59.663 52.381 0.00 0.00 0.00 4.94
3232 3292 2.623416 CTCAGGAAAGGAACCAAACACC 59.377 50.000 0.00 0.00 0.00 4.16
3233 3293 3.066760 CACTCAGGAAAGGAACCAAACAC 59.933 47.826 0.00 0.00 0.00 3.32
3234 3294 3.287222 CACTCAGGAAAGGAACCAAACA 58.713 45.455 0.00 0.00 0.00 2.83
3235 3295 2.623416 CCACTCAGGAAAGGAACCAAAC 59.377 50.000 0.00 0.00 41.22 2.93
3236 3296 2.243736 ACCACTCAGGAAAGGAACCAAA 59.756 45.455 0.00 0.00 41.22 3.28
3237 3297 1.850345 ACCACTCAGGAAAGGAACCAA 59.150 47.619 0.00 0.00 41.22 3.67
3238 3298 1.420138 GACCACTCAGGAAAGGAACCA 59.580 52.381 0.00 0.00 41.22 3.67
3239 3299 1.608283 CGACCACTCAGGAAAGGAACC 60.608 57.143 0.00 0.00 41.22 3.62
3240 3300 1.608283 CCGACCACTCAGGAAAGGAAC 60.608 57.143 0.00 0.00 41.22 3.62
3241 3301 0.685097 CCGACCACTCAGGAAAGGAA 59.315 55.000 0.00 0.00 41.22 3.36
3242 3302 0.471211 ACCGACCACTCAGGAAAGGA 60.471 55.000 0.00 0.00 41.22 3.36
3243 3303 0.396811 AACCGACCACTCAGGAAAGG 59.603 55.000 0.00 0.00 41.22 3.11
3244 3304 2.256117 AAACCGACCACTCAGGAAAG 57.744 50.000 0.00 0.00 41.22 2.62
3245 3305 3.307199 GGATAAACCGACCACTCAGGAAA 60.307 47.826 0.00 0.00 41.22 3.13
3246 3306 2.235402 GGATAAACCGACCACTCAGGAA 59.765 50.000 0.00 0.00 41.22 3.36
3247 3307 1.829222 GGATAAACCGACCACTCAGGA 59.171 52.381 0.00 0.00 41.22 3.86
3248 3308 1.831736 AGGATAAACCGACCACTCAGG 59.168 52.381 0.00 0.00 44.74 3.86
3249 3309 3.611766 AAGGATAAACCGACCACTCAG 57.388 47.619 0.00 0.00 44.74 3.35
3250 3310 4.622220 GCTAAAGGATAAACCGACCACTCA 60.622 45.833 0.00 0.00 44.74 3.41
3251 3311 3.869832 GCTAAAGGATAAACCGACCACTC 59.130 47.826 0.00 0.00 44.74 3.51
3252 3312 3.677976 CGCTAAAGGATAAACCGACCACT 60.678 47.826 0.00 0.00 44.74 4.00
3253 3313 2.606272 CGCTAAAGGATAAACCGACCAC 59.394 50.000 0.00 0.00 44.74 4.16
3254 3314 2.234414 ACGCTAAAGGATAAACCGACCA 59.766 45.455 0.00 0.00 44.74 4.02
3255 3315 2.606272 CACGCTAAAGGATAAACCGACC 59.394 50.000 0.00 0.00 44.74 4.79
3256 3316 2.606272 CCACGCTAAAGGATAAACCGAC 59.394 50.000 0.00 0.00 44.74 4.79
3257 3317 2.419021 CCCACGCTAAAGGATAAACCGA 60.419 50.000 0.00 0.00 44.74 4.69
3258 3318 1.937899 CCCACGCTAAAGGATAAACCG 59.062 52.381 0.00 0.00 44.74 4.44
3259 3319 2.681344 CACCCACGCTAAAGGATAAACC 59.319 50.000 0.00 0.00 39.35 3.27
3260 3320 3.340928 ACACCCACGCTAAAGGATAAAC 58.659 45.455 0.00 0.00 0.00 2.01
3261 3321 3.706600 ACACCCACGCTAAAGGATAAA 57.293 42.857 0.00 0.00 0.00 1.40
3262 3322 3.706600 AACACCCACGCTAAAGGATAA 57.293 42.857 0.00 0.00 0.00 1.75
3263 3323 3.340034 CAAACACCCACGCTAAAGGATA 58.660 45.455 0.00 0.00 0.00 2.59
3264 3324 2.159382 CAAACACCCACGCTAAAGGAT 58.841 47.619 0.00 0.00 0.00 3.24
3265 3325 1.600023 CAAACACCCACGCTAAAGGA 58.400 50.000 0.00 0.00 0.00 3.36
3266 3326 0.596082 CCAAACACCCACGCTAAAGG 59.404 55.000 0.00 0.00 0.00 3.11
3267 3327 1.314730 ACCAAACACCCACGCTAAAG 58.685 50.000 0.00 0.00 0.00 1.85
3268 3328 1.677052 GAACCAAACACCCACGCTAAA 59.323 47.619 0.00 0.00 0.00 1.85
3269 3329 1.310904 GAACCAAACACCCACGCTAA 58.689 50.000 0.00 0.00 0.00 3.09
3270 3330 0.535553 GGAACCAAACACCCACGCTA 60.536 55.000 0.00 0.00 0.00 4.26
3271 3331 1.826487 GGAACCAAACACCCACGCT 60.826 57.895 0.00 0.00 0.00 5.07
3293 3353 4.596585 ACAAACCGGCCACCCAGG 62.597 66.667 0.00 0.00 41.84 4.45
3296 3356 3.802852 AAGGACAAACCGGCCACCC 62.803 63.158 0.00 0.00 44.74 4.61
3302 3362 0.535102 AGTGCTGAAGGACAAACCGG 60.535 55.000 0.00 0.00 44.74 5.28
3304 3364 1.876156 CTGAGTGCTGAAGGACAAACC 59.124 52.381 4.72 0.00 38.96 3.27
3315 3375 7.060600 TCGTGTAAAATTTATCTGAGTGCTG 57.939 36.000 0.00 0.00 0.00 4.41
3319 3379 6.038271 GCCCATCGTGTAAAATTTATCTGAGT 59.962 38.462 0.00 0.00 0.00 3.41
3320 3380 6.430451 GCCCATCGTGTAAAATTTATCTGAG 58.570 40.000 0.00 0.00 0.00 3.35
3321 3381 5.298276 GGCCCATCGTGTAAAATTTATCTGA 59.702 40.000 0.00 0.00 0.00 3.27
3322 3382 5.067153 TGGCCCATCGTGTAAAATTTATCTG 59.933 40.000 0.00 0.00 0.00 2.90
3323 3383 5.197451 TGGCCCATCGTGTAAAATTTATCT 58.803 37.500 0.00 0.00 0.00 1.98
3324 3384 5.508200 TGGCCCATCGTGTAAAATTTATC 57.492 39.130 0.00 0.00 0.00 1.75
3325 3385 6.775629 AGTATGGCCCATCGTGTAAAATTTAT 59.224 34.615 0.00 0.00 0.00 1.40
3326 3386 6.123651 AGTATGGCCCATCGTGTAAAATTTA 58.876 36.000 0.00 0.00 0.00 1.40
3327 3387 4.953579 AGTATGGCCCATCGTGTAAAATTT 59.046 37.500 0.00 0.00 0.00 1.82
3328 3388 4.532834 AGTATGGCCCATCGTGTAAAATT 58.467 39.130 0.00 0.00 0.00 1.82
3329 3389 4.164843 AGTATGGCCCATCGTGTAAAAT 57.835 40.909 0.00 0.00 0.00 1.82
3330 3390 3.637911 AGTATGGCCCATCGTGTAAAA 57.362 42.857 0.00 0.00 0.00 1.52
3331 3391 4.967084 ATAGTATGGCCCATCGTGTAAA 57.033 40.909 0.00 0.00 0.00 2.01
3332 3392 4.967084 AATAGTATGGCCCATCGTGTAA 57.033 40.909 0.00 0.00 0.00 2.41
3333 3393 4.967084 AAATAGTATGGCCCATCGTGTA 57.033 40.909 0.00 0.00 0.00 2.90
3334 3394 3.857157 AAATAGTATGGCCCATCGTGT 57.143 42.857 0.00 0.00 0.00 4.49
3335 3395 4.635765 CCATAAATAGTATGGCCCATCGTG 59.364 45.833 0.00 0.00 38.15 4.35
3336 3396 4.843728 CCATAAATAGTATGGCCCATCGT 58.156 43.478 0.00 0.00 38.15 3.73
3344 3404 6.573434 TGATAGCGAGCCATAAATAGTATGG 58.427 40.000 7.85 7.85 45.50 2.74
3345 3405 6.199908 GCTGATAGCGAGCCATAAATAGTATG 59.800 42.308 0.00 0.00 0.00 2.39
3346 3406 6.276847 GCTGATAGCGAGCCATAAATAGTAT 58.723 40.000 0.00 0.00 0.00 2.12
3347 3407 5.651530 GCTGATAGCGAGCCATAAATAGTA 58.348 41.667 0.00 0.00 0.00 1.82
3348 3408 4.499183 GCTGATAGCGAGCCATAAATAGT 58.501 43.478 0.00 0.00 0.00 2.12
3362 3422 2.971413 CTGCCTGGCGCTGATAGC 60.971 66.667 14.98 4.34 38.65 2.97
3363 3423 2.280660 CCTGCCTGGCGCTGATAG 60.281 66.667 14.98 4.26 38.65 2.08
3380 3440 3.991725 CTTCTCCCTGGCCAGCTGC 62.992 68.421 28.39 3.68 40.16 5.25
3381 3441 1.845627 TTCTTCTCCCTGGCCAGCTG 61.846 60.000 28.39 19.80 0.00 4.24
3382 3442 1.136329 TTTCTTCTCCCTGGCCAGCT 61.136 55.000 28.39 0.00 0.00 4.24
3383 3443 0.033699 ATTTCTTCTCCCTGGCCAGC 60.034 55.000 28.39 0.00 0.00 4.85
3384 3444 2.774234 TCTATTTCTTCTCCCTGGCCAG 59.226 50.000 26.87 26.87 0.00 4.85
3385 3445 2.845659 TCTATTTCTTCTCCCTGGCCA 58.154 47.619 4.71 4.71 0.00 5.36
3386 3446 3.933861 TTCTATTTCTTCTCCCTGGCC 57.066 47.619 0.00 0.00 0.00 5.36
3387 3447 3.567585 GCATTCTATTTCTTCTCCCTGGC 59.432 47.826 0.00 0.00 0.00 4.85
3388 3448 4.140536 GGCATTCTATTTCTTCTCCCTGG 58.859 47.826 0.00 0.00 0.00 4.45
3389 3449 4.820716 CAGGCATTCTATTTCTTCTCCCTG 59.179 45.833 0.00 0.00 0.00 4.45
3390 3450 4.141298 CCAGGCATTCTATTTCTTCTCCCT 60.141 45.833 0.00 0.00 0.00 4.20
3391 3451 4.140536 CCAGGCATTCTATTTCTTCTCCC 58.859 47.826 0.00 0.00 0.00 4.30
3392 3452 4.140536 CCCAGGCATTCTATTTCTTCTCC 58.859 47.826 0.00 0.00 0.00 3.71
3393 3453 3.567585 GCCCAGGCATTCTATTTCTTCTC 59.432 47.826 3.12 0.00 41.49 2.87
3394 3454 3.560105 GCCCAGGCATTCTATTTCTTCT 58.440 45.455 3.12 0.00 41.49 2.85
3395 3455 2.625314 GGCCCAGGCATTCTATTTCTTC 59.375 50.000 11.50 0.00 44.11 2.87
3396 3456 2.024080 TGGCCCAGGCATTCTATTTCTT 60.024 45.455 11.50 0.00 44.11 2.52
3397 3457 1.570501 TGGCCCAGGCATTCTATTTCT 59.429 47.619 11.50 0.00 44.11 2.52
3398 3458 2.071778 TGGCCCAGGCATTCTATTTC 57.928 50.000 11.50 0.00 44.11 2.17
3399 3459 2.391678 CTTGGCCCAGGCATTCTATTT 58.608 47.619 11.50 0.00 44.11 1.40
3400 3460 2.031097 GCTTGGCCCAGGCATTCTATT 61.031 52.381 13.71 0.00 44.11 1.73
3401 3461 0.468771 GCTTGGCCCAGGCATTCTAT 60.469 55.000 13.71 0.00 44.11 1.98
3402 3462 1.076777 GCTTGGCCCAGGCATTCTA 60.077 57.895 13.71 0.00 44.11 2.10
3403 3463 2.363406 GCTTGGCCCAGGCATTCT 60.363 61.111 13.71 0.00 44.11 2.40
3404 3464 2.681064 TGCTTGGCCCAGGCATTC 60.681 61.111 17.59 0.00 41.35 2.67
3408 3468 0.390492 GAAATATGCTTGGCCCAGGC 59.610 55.000 11.52 11.52 36.98 4.85
3409 3469 2.077687 AGAAATATGCTTGGCCCAGG 57.922 50.000 5.89 0.00 0.00 4.45
3410 3470 3.703052 AGAAAGAAATATGCTTGGCCCAG 59.297 43.478 0.00 0.00 0.00 4.45
3411 3471 3.711863 AGAAAGAAATATGCTTGGCCCA 58.288 40.909 0.00 0.00 0.00 5.36
3412 3472 4.743057 AAGAAAGAAATATGCTTGGCCC 57.257 40.909 0.00 0.00 0.00 5.80
3413 3473 8.722480 AATAAAAGAAAGAAATATGCTTGGCC 57.278 30.769 0.00 0.00 0.00 5.36
3438 3498 9.174166 GTGATTAGCCTGGTCTAGATTTAAAAA 57.826 33.333 0.00 0.00 0.00 1.94
3439 3499 7.494625 CGTGATTAGCCTGGTCTAGATTTAAAA 59.505 37.037 0.00 0.00 0.00 1.52
3440 3500 6.984474 CGTGATTAGCCTGGTCTAGATTTAAA 59.016 38.462 0.00 0.00 0.00 1.52
3441 3501 6.097839 ACGTGATTAGCCTGGTCTAGATTTAA 59.902 38.462 0.00 0.00 0.00 1.52
3442 3502 5.597182 ACGTGATTAGCCTGGTCTAGATTTA 59.403 40.000 0.00 0.00 0.00 1.40
3443 3503 4.406003 ACGTGATTAGCCTGGTCTAGATTT 59.594 41.667 0.00 0.00 0.00 2.17
3444 3504 3.961408 ACGTGATTAGCCTGGTCTAGATT 59.039 43.478 0.00 0.00 0.00 2.40
3445 3505 3.567397 ACGTGATTAGCCTGGTCTAGAT 58.433 45.455 0.00 0.00 0.00 1.98
3446 3506 3.014304 ACGTGATTAGCCTGGTCTAGA 57.986 47.619 0.00 0.00 0.00 2.43
3447 3507 3.448686 CAACGTGATTAGCCTGGTCTAG 58.551 50.000 0.00 0.00 0.00 2.43
3448 3508 2.418197 GCAACGTGATTAGCCTGGTCTA 60.418 50.000 0.00 0.00 0.00 2.59
3449 3509 1.676014 GCAACGTGATTAGCCTGGTCT 60.676 52.381 0.00 0.00 0.00 3.85
3450 3510 0.727398 GCAACGTGATTAGCCTGGTC 59.273 55.000 0.00 0.00 0.00 4.02
3451 3511 0.036164 TGCAACGTGATTAGCCTGGT 59.964 50.000 0.00 0.00 0.00 4.00
3452 3512 2.853159 TGCAACGTGATTAGCCTGG 58.147 52.632 0.00 0.00 0.00 4.45


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

AutoCloner maintained by Alex Coulton.