Multiple sequence alignment - TraesCS2D01G091600

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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 TraesCS2D01G091600 chr2D 100.000 3398 0 0 1 3398 43671601 43674998 0.000000e+00 6276.0
1 TraesCS2D01G091600 chr2D 98.551 207 3 0 3124 3330 43674622 43674828 1.930000e-97 366.0
2 TraesCS2D01G091600 chr2D 98.551 207 3 0 3022 3228 43674724 43674930 1.930000e-97 366.0
3 TraesCS2D01G091600 chr2D 99.048 105 1 0 3226 3330 43674622 43674726 4.480000e-44 189.0
4 TraesCS2D01G091600 chr2D 99.048 105 1 0 3022 3126 43674826 43674930 4.480000e-44 189.0
5 TraesCS2D01G091600 chrUn 97.384 3096 63 10 1 3094 260345794 260342715 0.000000e+00 5252.0
6 TraesCS2D01G091600 chr1B 97.176 2514 67 2 1 2513 1828855 1826345 0.000000e+00 4246.0
7 TraesCS2D01G091600 chr1B 96.752 2371 72 3 1 2369 3144650 3147017 0.000000e+00 3947.0
8 TraesCS2D01G091600 chr1B 96.864 287 4 3 2508 2789 3147357 3147643 3.070000e-130 475.0
9 TraesCS2D01G091600 chr1B 96.057 279 6 1 2519 2792 1826111 1825833 1.860000e-122 449.0
10 TraesCS2D01G091600 chr1B 95.575 113 5 0 2401 2513 3147006 3147118 7.490000e-42 182.0
11 TraesCS2D01G091600 chr7D 94.286 105 5 1 3294 3398 556178549 556178446 3.510000e-35 159.0
12 TraesCS2D01G091600 chr7D 97.297 37 0 1 3192 3228 556178549 556178514 1.020000e-05 62.1
13 TraesCS2D01G091600 chr7D 97.297 37 0 1 3090 3126 556178549 556178514 1.020000e-05 62.1


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 TraesCS2D01G091600 chr2D 43671601 43674998 3397 False 1477.200000 6276 99.0396 1 3398 5 chr2D.!!$F1 3397
1 TraesCS2D01G091600 chrUn 260342715 260345794 3079 True 5252.000000 5252 97.3840 1 3094 1 chrUn.!!$R1 3093
2 TraesCS2D01G091600 chr1B 1825833 1828855 3022 True 2347.500000 4246 96.6165 1 2792 2 chr1B.!!$R1 2791
3 TraesCS2D01G091600 chr1B 3144650 3147643 2993 False 1534.666667 3947 96.3970 1 2789 3 chr1B.!!$F1 2788

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
390 391 0.393077 AAAGGGATGATACCGGCGAG 59.607 55.0 9.30 0.06 0.00 5.03 F
1353 1355 0.318120 TCGGTTTGGAAGTCCGTACC 59.682 55.0 9.55 9.55 43.94 3.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2268 2270 2.291209 TCATGAACACAAGGCCACAT 57.709 45.0 5.01 0.0 0.00 3.21 R
2886 3144 0.528249 CTGCCTTTGCACAACACCAC 60.528 55.0 0.00 0.0 44.23 4.16 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
195 196 0.588252 CACAACCTCACGCTTCTTGG 59.412 55.000 0.00 0.00 0.00 3.61
390 391 0.393077 AAAGGGATGATACCGGCGAG 59.607 55.000 9.30 0.06 0.00 5.03
672 673 7.706100 ACTTGTCCCTTAAGTTTAACAAACA 57.294 32.000 0.97 0.00 43.79 2.83
886 887 9.807649 GGCATTGTACTTCTTGATATTTCAAAT 57.192 29.630 0.20 0.00 41.22 2.32
1048 1050 6.088824 CAGTCAAATCATCTAACTGGTTTGC 58.911 40.000 5.20 2.06 43.70 3.68
1050 1052 6.491403 AGTCAAATCATCTAACTGGTTTGCTT 59.509 34.615 5.20 0.00 43.70 3.91
1277 1279 2.945008 CTGACTGTGGCAGAAAAGAACA 59.055 45.455 2.91 0.00 35.39 3.18
1299 1301 3.055819 AGAGACGATGGCATAACACAAGT 60.056 43.478 0.00 0.00 0.00 3.16
1353 1355 0.318120 TCGGTTTGGAAGTCCGTACC 59.682 55.000 9.55 9.55 43.94 3.34
1365 1367 2.579860 AGTCCGTACCCTCCTTCTAAGA 59.420 50.000 0.00 0.00 0.00 2.10
2204 2206 6.440647 TCAGTAAGATGGGATACATATGGTCC 59.559 42.308 16.90 16.90 40.72 4.46
2268 2270 3.116512 TGGTAGGCCTCTGGATGGTATTA 60.117 47.826 9.68 0.00 35.27 0.98
2430 2432 3.624777 ACACAAATAAGGAGGATGCAGG 58.375 45.455 0.00 0.00 0.00 4.85
2527 2773 5.862924 ATCTCGTTACTGGTTGAATGTTG 57.137 39.130 0.00 0.00 0.00 3.33
2546 2792 3.591196 TGAAGTTTGCTTGTTGTGCTT 57.409 38.095 0.00 0.00 34.61 3.91
2547 2793 3.252400 TGAAGTTTGCTTGTTGTGCTTG 58.748 40.909 0.00 0.00 34.61 4.01
2548 2794 3.253230 GAAGTTTGCTTGTTGTGCTTGT 58.747 40.909 0.00 0.00 34.61 3.16
2549 2795 3.317603 AGTTTGCTTGTTGTGCTTGTT 57.682 38.095 0.00 0.00 0.00 2.83
2550 2796 4.448537 AGTTTGCTTGTTGTGCTTGTTA 57.551 36.364 0.00 0.00 0.00 2.41
2551 2797 4.423732 AGTTTGCTTGTTGTGCTTGTTAG 58.576 39.130 0.00 0.00 0.00 2.34
2552 2798 4.157656 AGTTTGCTTGTTGTGCTTGTTAGA 59.842 37.500 0.00 0.00 0.00 2.10
2586 2844 4.452455 CCAACCAGAGTCATGTAACTTGTC 59.548 45.833 0.00 0.00 0.00 3.18
2857 3115 4.473520 CGCAGGGGTACAGGGCTG 62.474 72.222 0.00 0.00 0.00 4.85
2858 3116 4.803908 GCAGGGGTACAGGGCTGC 62.804 72.222 0.00 0.00 0.00 5.25
2859 3117 3.329889 CAGGGGTACAGGGCTGCA 61.330 66.667 0.50 0.00 0.00 4.41
2860 3118 3.011517 AGGGGTACAGGGCTGCAG 61.012 66.667 10.11 10.11 0.00 4.41
2893 3151 4.619227 CGACGGGCTGGTGGTGTT 62.619 66.667 0.00 0.00 0.00 3.32
3048 3306 7.416213 CCAATTGGTAGAGAGACAACAAACAAA 60.416 37.037 16.90 0.00 0.00 2.83
3063 3321 4.218417 ACAAACAAACTCAGCAGTTCAGTT 59.782 37.500 0.00 0.00 42.45 3.16
3077 3335 4.213270 CAGTTCAGTTCGTCCTTTGCATAA 59.787 41.667 0.00 0.00 0.00 1.90
3078 3336 4.819630 AGTTCAGTTCGTCCTTTGCATAAA 59.180 37.500 0.00 0.00 0.00 1.40
3079 3337 5.298276 AGTTCAGTTCGTCCTTTGCATAAAA 59.702 36.000 0.00 0.00 0.00 1.52
3080 3338 5.356882 TCAGTTCGTCCTTTGCATAAAAG 57.643 39.130 0.00 0.00 44.27 2.27
3094 3352 8.633075 TTTGCATAAAAGACAACTTGAGAAAG 57.367 30.769 0.00 0.00 36.39 2.62
3095 3353 7.566760 TGCATAAAAGACAACTTGAGAAAGA 57.433 32.000 0.00 0.00 36.39 2.52
3096 3354 7.642669 TGCATAAAAGACAACTTGAGAAAGAG 58.357 34.615 0.00 0.00 36.39 2.85
3097 3355 7.283127 TGCATAAAAGACAACTTGAGAAAGAGT 59.717 33.333 0.00 0.00 36.39 3.24
3098 3356 8.131731 GCATAAAAGACAACTTGAGAAAGAGTT 58.868 33.333 0.00 0.00 36.39 3.01
3099 3357 9.657121 CATAAAAGACAACTTGAGAAAGAGTTC 57.343 33.333 0.00 0.00 36.39 3.01
3100 3358 6.685527 AAAGACAACTTGAGAAAGAGTTCC 57.314 37.500 0.00 0.00 36.39 3.62
3101 3359 4.372656 AGACAACTTGAGAAAGAGTTCCG 58.627 43.478 0.00 0.00 34.04 4.30
3102 3360 2.872858 ACAACTTGAGAAAGAGTTCCGC 59.127 45.455 0.00 0.00 34.04 5.54
3103 3361 3.134458 CAACTTGAGAAAGAGTTCCGCT 58.866 45.455 0.00 0.00 34.04 5.52
3104 3362 3.477210 ACTTGAGAAAGAGTTCCGCTT 57.523 42.857 0.00 0.00 33.92 4.68
3105 3363 3.394719 ACTTGAGAAAGAGTTCCGCTTC 58.605 45.455 0.00 0.00 33.92 3.86
3106 3364 2.065993 TGAGAAAGAGTTCCGCTTCG 57.934 50.000 0.00 0.00 33.92 3.79
3116 3374 3.846430 CCGCTTCGGTAGACCCCC 61.846 72.222 0.00 0.00 42.73 5.40
3147 3405 6.002062 CCAATTGGTAGAGAGACAACAAAC 57.998 41.667 16.90 0.00 0.00 2.93
3148 3406 5.530915 CCAATTGGTAGAGAGACAACAAACA 59.469 40.000 16.90 0.00 0.00 2.83
3149 3407 6.039270 CCAATTGGTAGAGAGACAACAAACAA 59.961 38.462 16.90 0.00 0.00 2.83
3150 3408 7.416213 CCAATTGGTAGAGAGACAACAAACAAA 60.416 37.037 16.90 0.00 0.00 2.83
3151 3409 6.431198 TTGGTAGAGAGACAACAAACAAAC 57.569 37.500 0.00 0.00 0.00 2.93
3152 3410 5.741011 TGGTAGAGAGACAACAAACAAACT 58.259 37.500 0.00 0.00 0.00 2.66
3153 3411 5.815740 TGGTAGAGAGACAACAAACAAACTC 59.184 40.000 0.00 0.00 0.00 3.01
3154 3412 5.815740 GGTAGAGAGACAACAAACAAACTCA 59.184 40.000 0.00 0.00 0.00 3.41
3155 3413 6.018669 GGTAGAGAGACAACAAACAAACTCAG 60.019 42.308 0.00 0.00 0.00 3.35
3156 3414 4.333926 AGAGAGACAACAAACAAACTCAGC 59.666 41.667 0.00 0.00 0.00 4.26
3157 3415 4.009675 AGAGACAACAAACAAACTCAGCA 58.990 39.130 0.00 0.00 0.00 4.41
3158 3416 4.095483 AGAGACAACAAACAAACTCAGCAG 59.905 41.667 0.00 0.00 0.00 4.24
3159 3417 3.758554 AGACAACAAACAAACTCAGCAGT 59.241 39.130 0.00 0.00 0.00 4.40
3160 3418 4.218417 AGACAACAAACAAACTCAGCAGTT 59.782 37.500 0.00 0.00 45.43 3.16
3161 3419 4.485163 ACAACAAACAAACTCAGCAGTTC 58.515 39.130 0.00 0.00 42.45 3.01
3162 3420 4.022416 ACAACAAACAAACTCAGCAGTTCA 60.022 37.500 0.00 0.00 42.45 3.18
3163 3421 4.361451 ACAAACAAACTCAGCAGTTCAG 57.639 40.909 0.00 0.00 42.45 3.02
3164 3422 3.758554 ACAAACAAACTCAGCAGTTCAGT 59.241 39.130 0.00 0.00 42.45 3.41
3165 3423 4.218417 ACAAACAAACTCAGCAGTTCAGTT 59.782 37.500 0.00 0.00 42.45 3.16
3166 3424 4.622701 AACAAACTCAGCAGTTCAGTTC 57.377 40.909 0.00 0.00 42.45 3.01
3167 3425 2.609459 ACAAACTCAGCAGTTCAGTTCG 59.391 45.455 0.00 0.00 42.45 3.95
3168 3426 2.604046 AACTCAGCAGTTCAGTTCGT 57.396 45.000 0.00 0.00 38.62 3.85
3169 3427 2.141535 ACTCAGCAGTTCAGTTCGTC 57.858 50.000 0.00 0.00 0.00 4.20
3170 3428 1.269831 ACTCAGCAGTTCAGTTCGTCC 60.270 52.381 0.00 0.00 0.00 4.79
3171 3429 1.000283 CTCAGCAGTTCAGTTCGTCCT 60.000 52.381 0.00 0.00 0.00 3.85
3172 3430 1.412710 TCAGCAGTTCAGTTCGTCCTT 59.587 47.619 0.00 0.00 0.00 3.36
3173 3431 2.158957 TCAGCAGTTCAGTTCGTCCTTT 60.159 45.455 0.00 0.00 0.00 3.11
3174 3432 2.032549 CAGCAGTTCAGTTCGTCCTTTG 60.033 50.000 0.00 0.00 0.00 2.77
3175 3433 1.334149 GCAGTTCAGTTCGTCCTTTGC 60.334 52.381 0.00 0.00 0.00 3.68
3176 3434 1.939934 CAGTTCAGTTCGTCCTTTGCA 59.060 47.619 0.00 0.00 0.00 4.08
3177 3435 2.549754 CAGTTCAGTTCGTCCTTTGCAT 59.450 45.455 0.00 0.00 0.00 3.96
3178 3436 3.745975 CAGTTCAGTTCGTCCTTTGCATA 59.254 43.478 0.00 0.00 0.00 3.14
3179 3437 4.213270 CAGTTCAGTTCGTCCTTTGCATAA 59.787 41.667 0.00 0.00 0.00 1.90
3180 3438 4.819630 AGTTCAGTTCGTCCTTTGCATAAA 59.180 37.500 0.00 0.00 0.00 1.40
3181 3439 5.298276 AGTTCAGTTCGTCCTTTGCATAAAA 59.702 36.000 0.00 0.00 0.00 1.52
3182 3440 5.356882 TCAGTTCGTCCTTTGCATAAAAG 57.643 39.130 0.00 0.00 44.27 2.27
3197 3455 9.814899 TTTGCATAAAAGACAATTTGAGAAAGA 57.185 25.926 2.79 0.00 0.00 2.52
3198 3456 9.467258 TTGCATAAAAGACAATTTGAGAAAGAG 57.533 29.630 2.79 0.00 0.00 2.85
3199 3457 8.632679 TGCATAAAAGACAATTTGAGAAAGAGT 58.367 29.630 2.79 0.00 0.00 3.24
3200 3458 9.468532 GCATAAAAGACAATTTGAGAAAGAGTT 57.531 29.630 2.79 0.00 0.00 3.01
3203 3461 5.931441 AGACAATTTGAGAAAGAGTTCCG 57.069 39.130 2.79 0.00 33.92 4.30
3204 3462 4.214332 AGACAATTTGAGAAAGAGTTCCGC 59.786 41.667 2.79 0.00 33.92 5.54
3205 3463 4.137543 ACAATTTGAGAAAGAGTTCCGCT 58.862 39.130 2.79 0.00 33.92 5.52
3206 3464 4.580580 ACAATTTGAGAAAGAGTTCCGCTT 59.419 37.500 2.79 0.00 33.92 4.68
3207 3465 5.149977 CAATTTGAGAAAGAGTTCCGCTTC 58.850 41.667 0.00 0.00 33.92 3.86
3208 3466 2.065993 TGAGAAAGAGTTCCGCTTCG 57.934 50.000 0.00 0.00 33.92 3.79
3218 3476 3.846430 CCGCTTCGGTAGACCCCC 61.846 72.222 0.00 0.00 42.73 5.40
3249 3507 6.002062 CCAATTGGTAGAGAGACAACAAAC 57.998 41.667 16.90 0.00 0.00 2.93
3250 3508 5.530915 CCAATTGGTAGAGAGACAACAAACA 59.469 40.000 16.90 0.00 0.00 2.83
3251 3509 6.039270 CCAATTGGTAGAGAGACAACAAACAA 59.961 38.462 16.90 0.00 0.00 2.83
3252 3510 7.416213 CCAATTGGTAGAGAGACAACAAACAAA 60.416 37.037 16.90 0.00 0.00 2.83
3253 3511 6.431198 TTGGTAGAGAGACAACAAACAAAC 57.569 37.500 0.00 0.00 0.00 2.93
3254 3512 5.741011 TGGTAGAGAGACAACAAACAAACT 58.259 37.500 0.00 0.00 0.00 2.66
3255 3513 5.815740 TGGTAGAGAGACAACAAACAAACTC 59.184 40.000 0.00 0.00 0.00 3.01
3256 3514 5.815740 GGTAGAGAGACAACAAACAAACTCA 59.184 40.000 0.00 0.00 0.00 3.41
3257 3515 6.018669 GGTAGAGAGACAACAAACAAACTCAG 60.019 42.308 0.00 0.00 0.00 3.35
3258 3516 4.333926 AGAGAGACAACAAACAAACTCAGC 59.666 41.667 0.00 0.00 0.00 4.26
3259 3517 4.009675 AGAGACAACAAACAAACTCAGCA 58.990 39.130 0.00 0.00 0.00 4.41
3260 3518 4.095483 AGAGACAACAAACAAACTCAGCAG 59.905 41.667 0.00 0.00 0.00 4.24
3261 3519 3.758554 AGACAACAAACAAACTCAGCAGT 59.241 39.130 0.00 0.00 0.00 4.40
3262 3520 4.218417 AGACAACAAACAAACTCAGCAGTT 59.782 37.500 0.00 0.00 45.43 3.16
3263 3521 4.485163 ACAACAAACAAACTCAGCAGTTC 58.515 39.130 0.00 0.00 42.45 3.01
3264 3522 4.022416 ACAACAAACAAACTCAGCAGTTCA 60.022 37.500 0.00 0.00 42.45 3.18
3265 3523 4.361451 ACAAACAAACTCAGCAGTTCAG 57.639 40.909 0.00 0.00 42.45 3.02
3266 3524 3.758554 ACAAACAAACTCAGCAGTTCAGT 59.241 39.130 0.00 0.00 42.45 3.41
3267 3525 4.218417 ACAAACAAACTCAGCAGTTCAGTT 59.782 37.500 0.00 0.00 42.45 3.16
3268 3526 4.622701 AACAAACTCAGCAGTTCAGTTC 57.377 40.909 0.00 0.00 42.45 3.01
3269 3527 2.609459 ACAAACTCAGCAGTTCAGTTCG 59.391 45.455 0.00 0.00 42.45 3.95
3270 3528 2.604046 AACTCAGCAGTTCAGTTCGT 57.396 45.000 0.00 0.00 38.62 3.85
3271 3529 2.141535 ACTCAGCAGTTCAGTTCGTC 57.858 50.000 0.00 0.00 0.00 4.20
3272 3530 1.269831 ACTCAGCAGTTCAGTTCGTCC 60.270 52.381 0.00 0.00 0.00 4.79
3273 3531 1.000283 CTCAGCAGTTCAGTTCGTCCT 60.000 52.381 0.00 0.00 0.00 3.85
3274 3532 1.412710 TCAGCAGTTCAGTTCGTCCTT 59.587 47.619 0.00 0.00 0.00 3.36
3275 3533 2.158957 TCAGCAGTTCAGTTCGTCCTTT 60.159 45.455 0.00 0.00 0.00 3.11
3276 3534 2.032549 CAGCAGTTCAGTTCGTCCTTTG 60.033 50.000 0.00 0.00 0.00 2.77
3277 3535 1.334149 GCAGTTCAGTTCGTCCTTTGC 60.334 52.381 0.00 0.00 0.00 3.68
3278 3536 1.939934 CAGTTCAGTTCGTCCTTTGCA 59.060 47.619 0.00 0.00 0.00 4.08
3279 3537 2.549754 CAGTTCAGTTCGTCCTTTGCAT 59.450 45.455 0.00 0.00 0.00 3.96
3298 3556 8.633075 TTTGCATAAAAGACAACTTGAGAAAG 57.367 30.769 0.00 0.00 36.39 2.62
3299 3557 7.566760 TGCATAAAAGACAACTTGAGAAAGA 57.433 32.000 0.00 0.00 36.39 2.52
3300 3558 7.642669 TGCATAAAAGACAACTTGAGAAAGAG 58.357 34.615 0.00 0.00 36.39 2.85
3301 3559 7.283127 TGCATAAAAGACAACTTGAGAAAGAGT 59.717 33.333 0.00 0.00 36.39 3.24
3302 3560 8.131731 GCATAAAAGACAACTTGAGAAAGAGTT 58.868 33.333 0.00 0.00 36.39 3.01
3303 3561 9.657121 CATAAAAGACAACTTGAGAAAGAGTTC 57.343 33.333 0.00 0.00 36.39 3.01
3304 3562 6.685527 AAAGACAACTTGAGAAAGAGTTCC 57.314 37.500 0.00 0.00 36.39 3.62
3305 3563 4.372656 AGACAACTTGAGAAAGAGTTCCG 58.627 43.478 0.00 0.00 34.04 4.30
3306 3564 2.872858 ACAACTTGAGAAAGAGTTCCGC 59.127 45.455 0.00 0.00 34.04 5.54
3307 3565 3.134458 CAACTTGAGAAAGAGTTCCGCT 58.866 45.455 0.00 0.00 34.04 5.52
3308 3566 3.477210 ACTTGAGAAAGAGTTCCGCTT 57.523 42.857 0.00 0.00 33.92 4.68
3309 3567 3.394719 ACTTGAGAAAGAGTTCCGCTTC 58.605 45.455 0.00 0.00 33.92 3.86
3310 3568 2.065993 TGAGAAAGAGTTCCGCTTCG 57.934 50.000 0.00 0.00 33.92 3.79
3320 3578 2.183555 CCGCTTCGGTAGACCACC 59.816 66.667 0.00 0.00 42.73 4.61
3321 3579 2.183555 CGCTTCGGTAGACCACCC 59.816 66.667 0.00 0.00 45.52 4.61
3322 3580 2.348888 CGCTTCGGTAGACCACCCT 61.349 63.158 0.00 0.00 45.52 4.34
3323 3581 1.033746 CGCTTCGGTAGACCACCCTA 61.034 60.000 0.00 0.00 45.52 3.53
3324 3582 0.459078 GCTTCGGTAGACCACCCTAC 59.541 60.000 0.00 0.00 45.52 3.18
3325 3583 1.843368 CTTCGGTAGACCACCCTACA 58.157 55.000 0.00 0.00 45.52 2.74
3326 3584 2.173519 CTTCGGTAGACCACCCTACAA 58.826 52.381 0.00 0.00 45.52 2.41
3327 3585 2.307496 TCGGTAGACCACCCTACAAA 57.693 50.000 0.00 0.00 45.52 2.83
3328 3586 1.895131 TCGGTAGACCACCCTACAAAC 59.105 52.381 0.00 0.00 45.52 2.93
3329 3587 1.066645 CGGTAGACCACCCTACAAACC 60.067 57.143 0.00 0.00 45.52 3.27
3330 3588 1.066645 GGTAGACCACCCTACAAACCG 60.067 57.143 0.00 0.00 42.07 4.44
3331 3589 1.620323 GTAGACCACCCTACAAACCGT 59.380 52.381 0.00 0.00 38.99 4.83
3332 3590 2.014010 AGACCACCCTACAAACCGTA 57.986 50.000 0.00 0.00 0.00 4.02
3333 3591 2.543635 AGACCACCCTACAAACCGTAT 58.456 47.619 0.00 0.00 0.00 3.06
3334 3592 3.711863 AGACCACCCTACAAACCGTATA 58.288 45.455 0.00 0.00 0.00 1.47
3335 3593 4.095946 AGACCACCCTACAAACCGTATAA 58.904 43.478 0.00 0.00 0.00 0.98
3336 3594 4.531732 AGACCACCCTACAAACCGTATAAA 59.468 41.667 0.00 0.00 0.00 1.40
3337 3595 4.835678 ACCACCCTACAAACCGTATAAAG 58.164 43.478 0.00 0.00 0.00 1.85
3338 3596 4.193865 CCACCCTACAAACCGTATAAAGG 58.806 47.826 0.00 0.00 0.00 3.11
3339 3597 4.193865 CACCCTACAAACCGTATAAAGGG 58.806 47.826 2.95 2.95 43.19 3.95
3340 3598 3.845992 ACCCTACAAACCGTATAAAGGGT 59.154 43.478 4.30 4.30 44.89 4.34
3341 3599 5.029474 ACCCTACAAACCGTATAAAGGGTA 58.971 41.667 8.37 0.00 46.90 3.69
3342 3600 5.487131 ACCCTACAAACCGTATAAAGGGTAA 59.513 40.000 8.37 0.00 46.90 2.85
3343 3601 6.158520 ACCCTACAAACCGTATAAAGGGTAAT 59.841 38.462 8.37 0.00 46.90 1.89
3344 3602 6.484308 CCCTACAAACCGTATAAAGGGTAATG 59.516 42.308 0.00 0.00 43.07 1.90
3345 3603 7.049754 CCTACAAACCGTATAAAGGGTAATGT 58.950 38.462 11.11 11.11 43.07 2.71
3346 3604 8.203485 CCTACAAACCGTATAAAGGGTAATGTA 58.797 37.037 11.82 11.82 43.07 2.29
3347 3605 9.252962 CTACAAACCGTATAAAGGGTAATGTAG 57.747 37.037 18.46 18.46 45.48 2.74
3348 3606 7.850193 ACAAACCGTATAAAGGGTAATGTAGA 58.150 34.615 6.76 0.00 43.07 2.59
3349 3607 7.765819 ACAAACCGTATAAAGGGTAATGTAGAC 59.234 37.037 6.76 0.00 43.07 2.59
3350 3608 7.666063 AACCGTATAAAGGGTAATGTAGACT 57.334 36.000 1.19 0.00 43.07 3.24
3351 3609 7.666063 ACCGTATAAAGGGTAATGTAGACTT 57.334 36.000 1.19 0.00 42.08 3.01
3352 3610 8.082672 ACCGTATAAAGGGTAATGTAGACTTT 57.917 34.615 0.00 0.00 42.08 2.66
3353 3611 8.542926 ACCGTATAAAGGGTAATGTAGACTTTT 58.457 33.333 0.00 0.00 42.08 2.27
3354 3612 9.038803 CCGTATAAAGGGTAATGTAGACTTTTC 57.961 37.037 0.00 0.00 33.79 2.29
3355 3613 9.590451 CGTATAAAGGGTAATGTAGACTTTTCA 57.410 33.333 0.00 0.00 33.79 2.69
3358 3616 7.506328 AAAGGGTAATGTAGACTTTTCACAC 57.494 36.000 0.00 0.00 0.00 3.82
3359 3617 6.435292 AGGGTAATGTAGACTTTTCACACT 57.565 37.500 0.00 0.00 0.00 3.55
3360 3618 6.838382 AGGGTAATGTAGACTTTTCACACTT 58.162 36.000 0.00 0.00 0.00 3.16
3361 3619 7.287810 AGGGTAATGTAGACTTTTCACACTTT 58.712 34.615 0.00 0.00 0.00 2.66
3362 3620 7.444487 AGGGTAATGTAGACTTTTCACACTTTC 59.556 37.037 0.00 0.00 0.00 2.62
3363 3621 7.288672 GGTAATGTAGACTTTTCACACTTTCG 58.711 38.462 0.00 0.00 0.00 3.46
3364 3622 6.920569 AATGTAGACTTTTCACACTTTCGT 57.079 33.333 0.00 0.00 0.00 3.85
3365 3623 8.971321 GTAATGTAGACTTTTCACACTTTCGTA 58.029 33.333 0.00 0.00 0.00 3.43
3366 3624 8.603242 AATGTAGACTTTTCACACTTTCGTAT 57.397 30.769 0.00 0.00 0.00 3.06
3367 3625 9.701098 AATGTAGACTTTTCACACTTTCGTATA 57.299 29.630 0.00 0.00 0.00 1.47
3368 3626 9.871238 ATGTAGACTTTTCACACTTTCGTATAT 57.129 29.630 0.00 0.00 0.00 0.86
3387 3645 2.795973 CGATGAGTCGCCCGTACA 59.204 61.111 0.00 0.00 41.49 2.90
3388 3646 1.359117 CGATGAGTCGCCCGTACAT 59.641 57.895 0.00 0.00 41.49 2.29
3389 3647 0.589708 CGATGAGTCGCCCGTACATA 59.410 55.000 0.00 0.00 41.49 2.29
3390 3648 1.199327 CGATGAGTCGCCCGTACATAT 59.801 52.381 0.00 0.00 41.49 1.78
3391 3649 2.596452 GATGAGTCGCCCGTACATATG 58.404 52.381 0.00 0.00 0.00 1.78
3392 3650 1.395635 TGAGTCGCCCGTACATATGT 58.604 50.000 13.93 13.93 0.00 2.29
3393 3651 2.574450 TGAGTCGCCCGTACATATGTA 58.426 47.619 11.62 11.62 0.00 2.29
3394 3652 3.151554 TGAGTCGCCCGTACATATGTAT 58.848 45.455 18.27 0.05 32.54 2.29
3395 3653 4.325972 TGAGTCGCCCGTACATATGTATA 58.674 43.478 18.27 0.00 32.54 1.47
3396 3654 4.945543 TGAGTCGCCCGTACATATGTATAT 59.054 41.667 18.27 0.00 32.54 0.86
3397 3655 6.114767 TGAGTCGCCCGTACATATGTATATA 58.885 40.000 18.27 0.00 32.54 0.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
195 196 4.216472 GGTTGTTTGAGAGATCAAGTTCCC 59.784 45.833 0.00 0.00 0.00 3.97
315 316 1.489230 AGGTCAAGTTTCCCAACTCGT 59.511 47.619 0.00 0.00 42.89 4.18
561 562 2.483877 TCAAGCGTGTTTAAGCTGGATG 59.516 45.455 0.00 0.00 40.85 3.51
672 673 4.114015 TCCTCGGATATCACACCAGTAT 57.886 45.455 4.83 0.00 0.00 2.12
886 887 5.211973 GGGATCCTATCTATGATACCTGCA 58.788 45.833 12.58 0.00 38.70 4.41
1048 1050 7.642071 CAATTGTTCTTGGTAATTGTGGAAG 57.358 36.000 0.00 0.00 37.15 3.46
1277 1279 3.055819 ACTTGTGTTATGCCATCGTCTCT 60.056 43.478 0.00 0.00 0.00 3.10
1299 1301 4.764050 TCTGACCCTTGAAGTGTTGTTA 57.236 40.909 0.00 0.00 0.00 2.41
1353 1355 9.157104 GAAAGACTATTGTTTCTTAGAAGGAGG 57.843 37.037 0.00 0.00 31.62 4.30
1365 1367 6.434340 GGAATCCACCTGAAAGACTATTGTTT 59.566 38.462 0.00 0.00 34.07 2.83
1630 1632 5.314923 TCATTAATGGCAGTCAAAGCTTC 57.685 39.130 15.36 0.00 0.00 3.86
1850 1852 4.938226 GGTTTATGAGTCCAACAAGAGAGG 59.062 45.833 0.00 0.00 0.00 3.69
2204 2206 9.252962 GGCTAAACAAAATATCCATTTGAGATG 57.747 33.333 6.05 0.00 39.56 2.90
2268 2270 2.291209 TCATGAACACAAGGCCACAT 57.709 45.000 5.01 0.00 0.00 3.21
2376 2378 6.919721 AGCTTAATTTTCGCCAATGTTTCTA 58.080 32.000 0.00 0.00 0.00 2.10
2501 2503 6.460781 ACATTCAACCAGTAACGAGATACAA 58.539 36.000 0.00 0.00 0.00 2.41
2527 2773 3.253230 ACAAGCACAACAAGCAAACTTC 58.747 40.909 0.00 0.00 32.29 3.01
2546 2792 4.013728 GGTTGGCACCATAACATCTAACA 58.986 43.478 0.00 0.00 43.61 2.41
2547 2793 4.632538 GGTTGGCACCATAACATCTAAC 57.367 45.455 0.00 0.00 43.61 2.34
2586 2844 5.967674 CGTGTAGGTTTATAAGACACCGTAG 59.032 44.000 12.56 1.50 37.68 3.51
2868 3126 4.498520 CAGCCCGTCGTCATCGCT 62.499 66.667 0.00 0.00 36.96 4.93
2871 3129 2.509336 CACCAGCCCGTCGTCATC 60.509 66.667 0.00 0.00 0.00 2.92
2879 3137 3.286751 CACAACACCACCAGCCCG 61.287 66.667 0.00 0.00 0.00 6.13
2886 3144 0.528249 CTGCCTTTGCACAACACCAC 60.528 55.000 0.00 0.00 44.23 4.16
2994 3252 2.254546 ACACGGATTTGCAAGACAGA 57.745 45.000 0.00 0.00 0.00 3.41
2995 3253 4.651994 GATTACACGGATTTGCAAGACAG 58.348 43.478 0.00 1.54 0.00 3.51
2996 3254 3.124466 CGATTACACGGATTTGCAAGACA 59.876 43.478 0.00 0.00 0.00 3.41
2997 3255 3.124636 ACGATTACACGGATTTGCAAGAC 59.875 43.478 0.00 0.00 37.61 3.01
3031 3289 4.333926 GCTGAGTTTGTTTGTTGTCTCTCT 59.666 41.667 0.00 0.00 0.00 3.10
3037 3295 4.022416 TGAACTGCTGAGTTTGTTTGTTGT 60.022 37.500 0.00 0.00 42.80 3.32
3048 3306 1.269831 GGACGAACTGAACTGCTGAGT 60.270 52.381 0.00 0.00 0.00 3.41
3077 3335 5.294552 CGGAACTCTTTCTCAAGTTGTCTTT 59.705 40.000 2.11 0.00 35.90 2.52
3078 3336 4.811557 CGGAACTCTTTCTCAAGTTGTCTT 59.188 41.667 2.11 0.00 35.90 3.01
3079 3337 4.372656 CGGAACTCTTTCTCAAGTTGTCT 58.627 43.478 2.11 0.00 35.90 3.41
3080 3338 3.059529 GCGGAACTCTTTCTCAAGTTGTC 60.060 47.826 2.11 0.00 35.90 3.18
3081 3339 2.872858 GCGGAACTCTTTCTCAAGTTGT 59.127 45.455 2.11 0.00 35.90 3.32
3082 3340 3.134458 AGCGGAACTCTTTCTCAAGTTG 58.866 45.455 0.00 0.00 35.90 3.16
3083 3341 3.477210 AGCGGAACTCTTTCTCAAGTT 57.523 42.857 0.00 0.00 38.40 2.66
3084 3342 3.394719 GAAGCGGAACTCTTTCTCAAGT 58.605 45.455 0.00 0.00 31.42 3.16
3085 3343 2.410053 CGAAGCGGAACTCTTTCTCAAG 59.590 50.000 0.00 0.00 31.42 3.02
3086 3344 2.404215 CGAAGCGGAACTCTTTCTCAA 58.596 47.619 0.00 0.00 31.42 3.02
3087 3345 2.065993 CGAAGCGGAACTCTTTCTCA 57.934 50.000 0.00 0.00 31.42 3.27
3124 3382 5.530915 TGTTTGTTGTCTCTCTACCAATTGG 59.469 40.000 23.31 23.31 42.17 3.16
3125 3383 6.618287 TGTTTGTTGTCTCTCTACCAATTG 57.382 37.500 0.00 0.00 0.00 2.32
3126 3384 7.339466 AGTTTGTTTGTTGTCTCTCTACCAATT 59.661 33.333 0.00 0.00 0.00 2.32
3127 3385 6.828785 AGTTTGTTTGTTGTCTCTCTACCAAT 59.171 34.615 0.00 0.00 0.00 3.16
3128 3386 6.177610 AGTTTGTTTGTTGTCTCTCTACCAA 58.822 36.000 0.00 0.00 0.00 3.67
3129 3387 5.741011 AGTTTGTTTGTTGTCTCTCTACCA 58.259 37.500 0.00 0.00 0.00 3.25
3130 3388 5.815740 TGAGTTTGTTTGTTGTCTCTCTACC 59.184 40.000 0.00 0.00 0.00 3.18
3131 3389 6.510317 GCTGAGTTTGTTTGTTGTCTCTCTAC 60.510 42.308 0.00 0.00 0.00 2.59
3132 3390 5.523916 GCTGAGTTTGTTTGTTGTCTCTCTA 59.476 40.000 0.00 0.00 0.00 2.43
3133 3391 4.333926 GCTGAGTTTGTTTGTTGTCTCTCT 59.666 41.667 0.00 0.00 0.00 3.10
3134 3392 4.094887 TGCTGAGTTTGTTTGTTGTCTCTC 59.905 41.667 0.00 0.00 0.00 3.20
3135 3393 4.009675 TGCTGAGTTTGTTTGTTGTCTCT 58.990 39.130 0.00 0.00 0.00 3.10
3136 3394 4.142600 ACTGCTGAGTTTGTTTGTTGTCTC 60.143 41.667 0.00 0.00 0.00 3.36
3137 3395 3.758554 ACTGCTGAGTTTGTTTGTTGTCT 59.241 39.130 0.00 0.00 0.00 3.41
3138 3396 4.096732 ACTGCTGAGTTTGTTTGTTGTC 57.903 40.909 0.00 0.00 0.00 3.18
3139 3397 4.022416 TGAACTGCTGAGTTTGTTTGTTGT 60.022 37.500 0.00 0.00 42.80 3.32
3140 3398 4.484236 TGAACTGCTGAGTTTGTTTGTTG 58.516 39.130 0.00 0.00 42.80 3.33
3141 3399 4.218417 ACTGAACTGCTGAGTTTGTTTGTT 59.782 37.500 0.00 0.00 42.80 2.83
3142 3400 3.758554 ACTGAACTGCTGAGTTTGTTTGT 59.241 39.130 0.00 0.00 42.80 2.83
3143 3401 4.361451 ACTGAACTGCTGAGTTTGTTTG 57.639 40.909 0.00 0.00 42.80 2.93
3144 3402 4.437390 CGAACTGAACTGCTGAGTTTGTTT 60.437 41.667 0.00 0.00 42.80 2.83
3145 3403 3.063997 CGAACTGAACTGCTGAGTTTGTT 59.936 43.478 0.00 3.70 42.80 2.83
3146 3404 2.609459 CGAACTGAACTGCTGAGTTTGT 59.391 45.455 0.00 0.00 42.80 2.83
3147 3405 2.609459 ACGAACTGAACTGCTGAGTTTG 59.391 45.455 0.00 3.75 42.80 2.93
3148 3406 2.866762 GACGAACTGAACTGCTGAGTTT 59.133 45.455 0.00 0.00 42.80 2.66
3149 3407 2.474816 GACGAACTGAACTGCTGAGTT 58.525 47.619 0.00 0.00 45.59 3.01
3150 3408 1.269831 GGACGAACTGAACTGCTGAGT 60.270 52.381 0.00 0.00 0.00 3.41
3151 3409 1.000283 AGGACGAACTGAACTGCTGAG 60.000 52.381 0.00 0.00 0.00 3.35
3152 3410 1.040646 AGGACGAACTGAACTGCTGA 58.959 50.000 0.00 0.00 0.00 4.26
3153 3411 1.871080 AAGGACGAACTGAACTGCTG 58.129 50.000 0.00 0.00 0.00 4.41
3154 3412 2.213499 CAAAGGACGAACTGAACTGCT 58.787 47.619 0.00 0.00 0.00 4.24
3155 3413 1.334149 GCAAAGGACGAACTGAACTGC 60.334 52.381 0.00 0.00 0.00 4.40
3156 3414 1.939934 TGCAAAGGACGAACTGAACTG 59.060 47.619 0.00 0.00 0.00 3.16
3157 3415 2.325583 TGCAAAGGACGAACTGAACT 57.674 45.000 0.00 0.00 0.00 3.01
3158 3416 4.742438 TTATGCAAAGGACGAACTGAAC 57.258 40.909 0.00 0.00 0.00 3.18
3159 3417 5.529430 TCTTTTATGCAAAGGACGAACTGAA 59.471 36.000 0.00 0.00 42.18 3.02
3160 3418 5.049680 GTCTTTTATGCAAAGGACGAACTGA 60.050 40.000 0.00 0.00 39.86 3.41
3161 3419 5.147162 GTCTTTTATGCAAAGGACGAACTG 58.853 41.667 0.00 0.00 39.86 3.16
3162 3420 5.358298 GTCTTTTATGCAAAGGACGAACT 57.642 39.130 0.00 0.00 39.86 3.01
3167 3425 7.867403 TCTCAAATTGTCTTTTATGCAAAGGAC 59.133 33.333 6.47 6.47 45.94 3.85
3168 3426 7.950512 TCTCAAATTGTCTTTTATGCAAAGGA 58.049 30.769 0.00 0.00 42.18 3.36
3169 3427 8.592105 TTCTCAAATTGTCTTTTATGCAAAGG 57.408 30.769 0.00 0.00 42.18 3.11
3171 3429 9.814899 TCTTTCTCAAATTGTCTTTTATGCAAA 57.185 25.926 0.00 0.00 0.00 3.68
3172 3430 9.467258 CTCTTTCTCAAATTGTCTTTTATGCAA 57.533 29.630 0.00 0.00 0.00 4.08
3173 3431 8.632679 ACTCTTTCTCAAATTGTCTTTTATGCA 58.367 29.630 0.00 0.00 0.00 3.96
3174 3432 9.468532 AACTCTTTCTCAAATTGTCTTTTATGC 57.531 29.630 0.00 0.00 0.00 3.14
3177 3435 8.342634 CGGAACTCTTTCTCAAATTGTCTTTTA 58.657 33.333 0.00 0.00 31.71 1.52
3178 3436 7.196331 CGGAACTCTTTCTCAAATTGTCTTTT 58.804 34.615 0.00 0.00 31.71 2.27
3179 3437 6.729187 CGGAACTCTTTCTCAAATTGTCTTT 58.271 36.000 0.00 0.00 31.71 2.52
3180 3438 5.278022 GCGGAACTCTTTCTCAAATTGTCTT 60.278 40.000 0.00 0.00 31.71 3.01
3181 3439 4.214332 GCGGAACTCTTTCTCAAATTGTCT 59.786 41.667 0.00 0.00 31.71 3.41
3182 3440 4.214332 AGCGGAACTCTTTCTCAAATTGTC 59.786 41.667 0.00 0.00 31.71 3.18
3183 3441 4.137543 AGCGGAACTCTTTCTCAAATTGT 58.862 39.130 0.00 0.00 31.71 2.71
3184 3442 4.756084 AGCGGAACTCTTTCTCAAATTG 57.244 40.909 0.00 0.00 31.71 2.32
3185 3443 4.083802 CGAAGCGGAACTCTTTCTCAAATT 60.084 41.667 0.00 0.00 31.42 1.82
3186 3444 3.433615 CGAAGCGGAACTCTTTCTCAAAT 59.566 43.478 0.00 0.00 31.42 2.32
3187 3445 2.800544 CGAAGCGGAACTCTTTCTCAAA 59.199 45.455 0.00 0.00 31.42 2.69
3188 3446 2.404215 CGAAGCGGAACTCTTTCTCAA 58.596 47.619 0.00 0.00 31.42 3.02
3189 3447 2.065993 CGAAGCGGAACTCTTTCTCA 57.934 50.000 0.00 0.00 31.42 3.27
3226 3484 5.530915 TGTTTGTTGTCTCTCTACCAATTGG 59.469 40.000 23.31 23.31 42.17 3.16
3227 3485 6.618287 TGTTTGTTGTCTCTCTACCAATTG 57.382 37.500 0.00 0.00 0.00 2.32
3228 3486 7.339466 AGTTTGTTTGTTGTCTCTCTACCAATT 59.661 33.333 0.00 0.00 0.00 2.32
3229 3487 6.828785 AGTTTGTTTGTTGTCTCTCTACCAAT 59.171 34.615 0.00 0.00 0.00 3.16
3230 3488 6.177610 AGTTTGTTTGTTGTCTCTCTACCAA 58.822 36.000 0.00 0.00 0.00 3.67
3231 3489 5.741011 AGTTTGTTTGTTGTCTCTCTACCA 58.259 37.500 0.00 0.00 0.00 3.25
3232 3490 5.815740 TGAGTTTGTTTGTTGTCTCTCTACC 59.184 40.000 0.00 0.00 0.00 3.18
3233 3491 6.510317 GCTGAGTTTGTTTGTTGTCTCTCTAC 60.510 42.308 0.00 0.00 0.00 2.59
3234 3492 5.523916 GCTGAGTTTGTTTGTTGTCTCTCTA 59.476 40.000 0.00 0.00 0.00 2.43
3235 3493 4.333926 GCTGAGTTTGTTTGTTGTCTCTCT 59.666 41.667 0.00 0.00 0.00 3.10
3236 3494 4.094887 TGCTGAGTTTGTTTGTTGTCTCTC 59.905 41.667 0.00 0.00 0.00 3.20
3237 3495 4.009675 TGCTGAGTTTGTTTGTTGTCTCT 58.990 39.130 0.00 0.00 0.00 3.10
3238 3496 4.142600 ACTGCTGAGTTTGTTTGTTGTCTC 60.143 41.667 0.00 0.00 0.00 3.36
3239 3497 3.758554 ACTGCTGAGTTTGTTTGTTGTCT 59.241 39.130 0.00 0.00 0.00 3.41
3240 3498 4.096732 ACTGCTGAGTTTGTTTGTTGTC 57.903 40.909 0.00 0.00 0.00 3.18
3241 3499 4.022416 TGAACTGCTGAGTTTGTTTGTTGT 60.022 37.500 0.00 0.00 42.80 3.32
3242 3500 4.484236 TGAACTGCTGAGTTTGTTTGTTG 58.516 39.130 0.00 0.00 42.80 3.33
3243 3501 4.218417 ACTGAACTGCTGAGTTTGTTTGTT 59.782 37.500 0.00 0.00 42.80 2.83
3244 3502 3.758554 ACTGAACTGCTGAGTTTGTTTGT 59.241 39.130 0.00 0.00 42.80 2.83
3245 3503 4.361451 ACTGAACTGCTGAGTTTGTTTG 57.639 40.909 0.00 0.00 42.80 2.93
3246 3504 4.437390 CGAACTGAACTGCTGAGTTTGTTT 60.437 41.667 0.00 0.00 42.80 2.83
3247 3505 3.063997 CGAACTGAACTGCTGAGTTTGTT 59.936 43.478 0.00 3.70 42.80 2.83
3248 3506 2.609459 CGAACTGAACTGCTGAGTTTGT 59.391 45.455 0.00 0.00 42.80 2.83
3249 3507 2.609459 ACGAACTGAACTGCTGAGTTTG 59.391 45.455 0.00 3.75 42.80 2.93
3250 3508 2.866762 GACGAACTGAACTGCTGAGTTT 59.133 45.455 0.00 0.00 42.80 2.66
3251 3509 2.474816 GACGAACTGAACTGCTGAGTT 58.525 47.619 0.00 0.00 45.59 3.01
3252 3510 1.269831 GGACGAACTGAACTGCTGAGT 60.270 52.381 0.00 0.00 0.00 3.41
3253 3511 1.000283 AGGACGAACTGAACTGCTGAG 60.000 52.381 0.00 0.00 0.00 3.35
3254 3512 1.040646 AGGACGAACTGAACTGCTGA 58.959 50.000 0.00 0.00 0.00 4.26
3255 3513 1.871080 AAGGACGAACTGAACTGCTG 58.129 50.000 0.00 0.00 0.00 4.41
3256 3514 2.213499 CAAAGGACGAACTGAACTGCT 58.787 47.619 0.00 0.00 0.00 4.24
3257 3515 1.334149 GCAAAGGACGAACTGAACTGC 60.334 52.381 0.00 0.00 0.00 4.40
3258 3516 1.939934 TGCAAAGGACGAACTGAACTG 59.060 47.619 0.00 0.00 0.00 3.16
3259 3517 2.325583 TGCAAAGGACGAACTGAACT 57.674 45.000 0.00 0.00 0.00 3.01
3260 3518 4.742438 TTATGCAAAGGACGAACTGAAC 57.258 40.909 0.00 0.00 0.00 3.18
3261 3519 5.529430 TCTTTTATGCAAAGGACGAACTGAA 59.471 36.000 0.00 0.00 42.18 3.02
3262 3520 5.049680 GTCTTTTATGCAAAGGACGAACTGA 60.050 40.000 0.00 0.00 39.86 3.41
3263 3521 5.147162 GTCTTTTATGCAAAGGACGAACTG 58.853 41.667 0.00 0.00 39.86 3.16
3264 3522 5.358298 GTCTTTTATGCAAAGGACGAACT 57.642 39.130 0.00 0.00 39.86 3.01
3269 3527 6.503524 TCAAGTTGTCTTTTATGCAAAGGAC 58.496 36.000 2.11 6.47 45.94 3.85
3270 3528 6.545666 TCTCAAGTTGTCTTTTATGCAAAGGA 59.454 34.615 2.11 0.00 42.18 3.36
3271 3529 6.738114 TCTCAAGTTGTCTTTTATGCAAAGG 58.262 36.000 2.11 0.00 42.18 3.11
3272 3530 8.633075 TTTCTCAAGTTGTCTTTTATGCAAAG 57.367 30.769 2.11 0.00 43.15 2.77
3273 3531 8.465999 TCTTTCTCAAGTTGTCTTTTATGCAAA 58.534 29.630 2.11 0.00 0.00 3.68
3274 3532 7.995289 TCTTTCTCAAGTTGTCTTTTATGCAA 58.005 30.769 2.11 0.00 0.00 4.08
3275 3533 7.283127 ACTCTTTCTCAAGTTGTCTTTTATGCA 59.717 33.333 2.11 0.00 0.00 3.96
3276 3534 7.643579 ACTCTTTCTCAAGTTGTCTTTTATGC 58.356 34.615 2.11 0.00 0.00 3.14
3277 3535 9.657121 GAACTCTTTCTCAAGTTGTCTTTTATG 57.343 33.333 2.11 0.00 35.90 1.90
3278 3536 8.841300 GGAACTCTTTCTCAAGTTGTCTTTTAT 58.159 33.333 2.11 0.00 35.90 1.40
3279 3537 7.011109 CGGAACTCTTTCTCAAGTTGTCTTTTA 59.989 37.037 2.11 0.00 35.90 1.52
3310 3568 5.658044 ATACGGTTTGTAGGGTGGTCTACC 61.658 50.000 0.00 0.00 40.94 3.18
3311 3569 1.620323 ACGGTTTGTAGGGTGGTCTAC 59.380 52.381 0.00 0.00 39.86 2.59
3312 3570 2.014010 ACGGTTTGTAGGGTGGTCTA 57.986 50.000 0.00 0.00 0.00 2.59
3313 3571 2.014010 TACGGTTTGTAGGGTGGTCT 57.986 50.000 0.00 0.00 0.00 3.85
3314 3572 4.470334 TTATACGGTTTGTAGGGTGGTC 57.530 45.455 0.00 0.00 36.25 4.02
3315 3573 4.323715 CCTTTATACGGTTTGTAGGGTGGT 60.324 45.833 0.00 0.00 36.25 4.16
3316 3574 4.193865 CCTTTATACGGTTTGTAGGGTGG 58.806 47.826 0.00 0.00 36.25 4.61
3317 3575 4.193865 CCCTTTATACGGTTTGTAGGGTG 58.806 47.826 0.00 0.00 37.79 4.61
3318 3576 3.845992 ACCCTTTATACGGTTTGTAGGGT 59.154 43.478 15.02 15.02 46.71 4.34
3319 3577 4.492494 ACCCTTTATACGGTTTGTAGGG 57.508 45.455 14.10 14.10 45.04 3.53
3320 3578 7.049754 ACATTACCCTTTATACGGTTTGTAGG 58.950 38.462 0.00 0.00 36.25 3.18
3321 3579 9.252962 CTACATTACCCTTTATACGGTTTGTAG 57.747 37.037 13.94 13.94 39.12 2.74
3322 3580 8.976353 TCTACATTACCCTTTATACGGTTTGTA 58.024 33.333 0.00 0.00 37.49 2.41
3323 3581 7.765819 GTCTACATTACCCTTTATACGGTTTGT 59.234 37.037 0.00 0.00 33.97 2.83
3324 3582 7.983484 AGTCTACATTACCCTTTATACGGTTTG 59.017 37.037 0.00 0.00 33.36 2.93
3325 3583 8.082672 AGTCTACATTACCCTTTATACGGTTT 57.917 34.615 0.00 0.00 33.36 3.27
3326 3584 7.666063 AGTCTACATTACCCTTTATACGGTT 57.334 36.000 0.00 0.00 33.36 4.44
3327 3585 7.666063 AAGTCTACATTACCCTTTATACGGT 57.334 36.000 0.00 0.00 36.08 4.83
3328 3586 8.953368 AAAAGTCTACATTACCCTTTATACGG 57.047 34.615 0.00 0.00 0.00 4.02
3329 3587 9.590451 TGAAAAGTCTACATTACCCTTTATACG 57.410 33.333 0.00 0.00 0.00 3.06
3332 3590 9.227777 GTGTGAAAAGTCTACATTACCCTTTAT 57.772 33.333 0.00 0.00 0.00 1.40
3333 3591 8.434392 AGTGTGAAAAGTCTACATTACCCTTTA 58.566 33.333 0.00 0.00 0.00 1.85
3334 3592 7.287810 AGTGTGAAAAGTCTACATTACCCTTT 58.712 34.615 0.00 0.00 0.00 3.11
3335 3593 6.838382 AGTGTGAAAAGTCTACATTACCCTT 58.162 36.000 0.00 0.00 0.00 3.95
3336 3594 6.435292 AGTGTGAAAAGTCTACATTACCCT 57.565 37.500 0.00 0.00 0.00 4.34
3337 3595 7.506328 AAAGTGTGAAAAGTCTACATTACCC 57.494 36.000 0.00 0.00 0.00 3.69
3338 3596 7.042254 ACGAAAGTGTGAAAAGTCTACATTACC 60.042 37.037 0.00 0.00 46.97 2.85
3339 3597 7.848491 ACGAAAGTGTGAAAAGTCTACATTAC 58.152 34.615 0.00 0.00 46.97 1.89
3341 3599 6.920569 ACGAAAGTGTGAAAAGTCTACATT 57.079 33.333 0.00 0.00 46.97 2.71
3370 3628 7.376887 ATACATATGTACGGGCGACTCATCG 62.377 48.000 17.69 0.00 41.36 3.84
3371 3629 2.030185 ACATATGTACGGGCGACTCATC 60.030 50.000 6.56 0.00 0.00 2.92
3372 3630 1.961394 ACATATGTACGGGCGACTCAT 59.039 47.619 6.56 0.00 0.00 2.90
3373 3631 1.395635 ACATATGTACGGGCGACTCA 58.604 50.000 6.56 0.00 0.00 3.41
3374 3632 3.844577 ATACATATGTACGGGCGACTC 57.155 47.619 17.69 0.00 32.72 3.36


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

AutoCloner maintained by Alex Coulton.