Multiple sequence alignment - TraesCS2D01G197100

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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 TraesCS2D01G197100 chr2D 100.000 3317 0 0 1 3317 143759962 143756646 0.000000e+00 6126.0
1 TraesCS2D01G197100 chr2A 93.242 3270 106 49 1 3205 157545281 157548500 0.000000e+00 4708.0
2 TraesCS2D01G197100 chr2B 93.921 2599 52 33 31 2564 201771506 201768949 0.000000e+00 3827.0
3 TraesCS2D01G197100 chr2B 92.569 619 24 11 2591 3205 201768966 201768366 0.000000e+00 869.0
4 TraesCS2D01G197100 chr4D 87.654 81 10 0 2077 2157 435650744 435650824 9.800000e-16 95.3
5 TraesCS2D01G197100 chr4B 87.654 81 10 0 2077 2157 536919107 536919187 9.800000e-16 95.3
6 TraesCS2D01G197100 chr4A 87.654 81 10 0 2077 2157 37032308 37032388 9.800000e-16 95.3


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 TraesCS2D01G197100 chr2D 143756646 143759962 3316 True 6126 6126 100.000 1 3317 1 chr2D.!!$R1 3316
1 TraesCS2D01G197100 chr2A 157545281 157548500 3219 False 4708 4708 93.242 1 3205 1 chr2A.!!$F1 3204
2 TraesCS2D01G197100 chr2B 201768366 201771506 3140 True 2348 3827 93.245 31 3205 2 chr2B.!!$R1 3174

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
164 166 0.601558 GTGTCCTGACGGCTAAGTGA 59.398 55.0 0.0 0.0 0.0 3.41 F
907 994 0.968405 CCACCTGTGTCCCCAAATTG 59.032 55.0 0.0 0.0 0.0 2.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1638 1731 0.663153 GCAGCCCAACATATTCCGAC 59.337 55.0 0.0 0.0 0.0 4.79 R
2883 3006 0.687920 TACACAAGGTTCCCGATGCA 59.312 50.0 0.0 0.0 0.0 3.96 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
164 166 0.601558 GTGTCCTGACGGCTAAGTGA 59.398 55.000 0.00 0.00 0.00 3.41
403 431 4.178956 AGGGTGTAGAAAAGAAAGGCAA 57.821 40.909 0.00 0.00 0.00 4.52
513 546 2.760385 CGGACCCTCACCCTCTCC 60.760 72.222 0.00 0.00 0.00 3.71
515 548 2.781406 GACCCTCACCCTCTCCCT 59.219 66.667 0.00 0.00 0.00 4.20
628 682 2.828520 TGTGTGCTTCCTTGTTTTCCAA 59.171 40.909 0.00 0.00 0.00 3.53
709 767 1.428912 ACTTCTCCCTGGCATGGAAAA 59.571 47.619 12.74 5.22 0.00 2.29
715 773 3.768757 CTCCCTGGCATGGAAAATTGTTA 59.231 43.478 12.74 0.00 0.00 2.41
808 893 2.758009 GGTTTGGTTCGCTGTACAGTA 58.242 47.619 23.44 10.08 0.00 2.74
809 894 2.477754 GGTTTGGTTCGCTGTACAGTAC 59.522 50.000 23.44 17.57 0.00 2.73
810 895 3.387397 GTTTGGTTCGCTGTACAGTACT 58.613 45.455 23.44 0.00 0.00 2.73
811 896 2.717580 TGGTTCGCTGTACAGTACTG 57.282 50.000 23.44 21.44 0.00 2.74
812 897 1.958579 TGGTTCGCTGTACAGTACTGT 59.041 47.619 30.13 30.13 46.87 3.55
901 986 2.203938 TCTCCCACCTGTGTCCCC 60.204 66.667 0.00 0.00 0.00 4.81
907 994 0.968405 CCACCTGTGTCCCCAAATTG 59.032 55.000 0.00 0.00 0.00 2.32
948 1035 3.684103 TCGTTTGATTCGTGCTTGTTT 57.316 38.095 0.00 0.00 0.00 2.83
949 1036 3.613563 TCGTTTGATTCGTGCTTGTTTC 58.386 40.909 0.00 0.00 0.00 2.78
950 1037 3.311322 TCGTTTGATTCGTGCTTGTTTCT 59.689 39.130 0.00 0.00 0.00 2.52
959 1046 4.193090 TCGTGCTTGTTTCTTCTTGGTTA 58.807 39.130 0.00 0.00 0.00 2.85
1158 1251 3.913573 GATGTGTACGCGCGCCTG 61.914 66.667 32.58 15.62 0.00 4.85
1638 1731 4.096984 GTGGAGGAAAACCAGATTATGCTG 59.903 45.833 0.00 0.00 38.14 4.41
1719 1812 2.036731 TCGGAGGACGTGGATGGT 59.963 61.111 0.00 0.00 44.69 3.55
1776 1869 1.260538 TGCAGAGCTTCTCCACGGAT 61.261 55.000 0.00 0.00 0.00 4.18
2380 2497 3.340727 GCATTTGCAGCCATCAGTC 57.659 52.632 0.00 0.00 41.59 3.51
2381 2498 0.815734 GCATTTGCAGCCATCAGTCT 59.184 50.000 0.00 0.00 41.59 3.24
2382 2499 1.202268 GCATTTGCAGCCATCAGTCTC 60.202 52.381 0.00 0.00 41.59 3.36
2586 2704 9.856803 GAATTACTTTTAATTCGCAAGCAAAAA 57.143 25.926 2.27 0.00 42.24 1.94
2643 2761 2.168521 CTGCAATCTTCTTAGGTCCCGA 59.831 50.000 0.00 0.00 0.00 5.14
2744 2866 0.112995 TGCCAGCTCCTCCATGTTTT 59.887 50.000 0.00 0.00 0.00 2.43
2788 2910 7.558807 TGGTATTTGATGATTCTGCAGATCTTT 59.441 33.333 19.04 3.21 0.00 2.52
2883 3006 3.885297 CTGTGGATGTGGAAAGTTGAAGT 59.115 43.478 0.00 0.00 0.00 3.01
2945 3068 1.945394 CCCTTTCAATCCAGCTCATCG 59.055 52.381 0.00 0.00 0.00 3.84
2996 3119 4.757019 TGTAGTTGTAGTGTCCACCAAA 57.243 40.909 0.00 0.00 0.00 3.28
3017 3140 7.173907 ACCAAAGAGATTCCATCTTAATATGCG 59.826 37.037 0.00 0.00 40.38 4.73
3048 3171 0.873743 CGCCAACAATTTTGCGGTGT 60.874 50.000 0.00 0.00 41.86 4.16
3205 3329 9.755804 AAAAGAGAAGAAAGGAAAACAATCATC 57.244 29.630 0.00 0.00 0.00 2.92
3206 3330 8.703378 AAGAGAAGAAAGGAAAACAATCATCT 57.297 30.769 0.00 0.00 0.00 2.90
3207 3331 8.108551 AGAGAAGAAAGGAAAACAATCATCTG 57.891 34.615 0.00 0.00 0.00 2.90
3208 3332 6.685657 AGAAGAAAGGAAAACAATCATCTGC 58.314 36.000 0.00 0.00 0.00 4.26
3209 3333 6.266103 AGAAGAAAGGAAAACAATCATCTGCA 59.734 34.615 0.00 0.00 0.00 4.41
3210 3334 6.600882 AGAAAGGAAAACAATCATCTGCAT 57.399 33.333 0.00 0.00 0.00 3.96
3211 3335 6.628185 AGAAAGGAAAACAATCATCTGCATC 58.372 36.000 0.00 0.00 0.00 3.91
3212 3336 4.996788 AGGAAAACAATCATCTGCATCC 57.003 40.909 0.00 0.00 0.00 3.51
3213 3337 4.346730 AGGAAAACAATCATCTGCATCCA 58.653 39.130 0.00 0.00 0.00 3.41
3214 3338 4.401519 AGGAAAACAATCATCTGCATCCAG 59.598 41.667 0.00 0.00 40.54 3.86
3223 3347 2.704464 TCTGCATCCAGACATTCCAG 57.296 50.000 0.00 0.00 42.98 3.86
3224 3348 1.022735 CTGCATCCAGACATTCCAGC 58.977 55.000 0.00 0.00 41.77 4.85
3225 3349 0.328926 TGCATCCAGACATTCCAGCA 59.671 50.000 0.00 0.00 0.00 4.41
3226 3350 1.064240 TGCATCCAGACATTCCAGCAT 60.064 47.619 0.00 0.00 0.00 3.79
3227 3351 1.607628 GCATCCAGACATTCCAGCATC 59.392 52.381 0.00 0.00 0.00 3.91
3228 3352 2.228059 CATCCAGACATTCCAGCATCC 58.772 52.381 0.00 0.00 0.00 3.51
3229 3353 1.288188 TCCAGACATTCCAGCATCCA 58.712 50.000 0.00 0.00 0.00 3.41
3230 3354 1.211212 TCCAGACATTCCAGCATCCAG 59.789 52.381 0.00 0.00 0.00 3.86
3231 3355 1.676746 CAGACATTCCAGCATCCAGG 58.323 55.000 0.00 0.00 0.00 4.45
3232 3356 1.211212 CAGACATTCCAGCATCCAGGA 59.789 52.381 0.00 0.00 0.00 3.86
3234 3358 2.019984 GACATTCCAGCATCCAGGAAC 58.980 52.381 0.00 0.00 45.91 3.62
3235 3359 1.355381 ACATTCCAGCATCCAGGAACA 59.645 47.619 0.00 0.00 45.91 3.18
3236 3360 2.225091 ACATTCCAGCATCCAGGAACAA 60.225 45.455 0.00 0.00 45.91 2.83
3237 3361 2.205022 TTCCAGCATCCAGGAACAAG 57.795 50.000 0.00 0.00 38.91 3.16
3238 3362 0.329261 TCCAGCATCCAGGAACAAGG 59.671 55.000 0.00 0.00 0.00 3.61
3239 3363 0.329261 CCAGCATCCAGGAACAAGGA 59.671 55.000 0.00 0.00 39.04 3.36
3240 3364 1.064166 CCAGCATCCAGGAACAAGGAT 60.064 52.381 0.00 0.00 44.39 3.24
3241 3365 2.622452 CCAGCATCCAGGAACAAGGATT 60.622 50.000 0.00 0.00 41.60 3.01
3242 3366 3.094572 CAGCATCCAGGAACAAGGATTT 58.905 45.455 0.00 0.00 41.60 2.17
3243 3367 3.129988 CAGCATCCAGGAACAAGGATTTC 59.870 47.826 0.00 0.00 41.60 2.17
3244 3368 2.428530 GCATCCAGGAACAAGGATTTCC 59.571 50.000 0.00 0.00 41.60 3.13
3245 3369 3.700538 CATCCAGGAACAAGGATTTCCA 58.299 45.455 0.00 0.00 44.51 3.53
3246 3370 4.284178 CATCCAGGAACAAGGATTTCCAT 58.716 43.478 0.00 0.00 44.51 3.41
3247 3371 4.402616 TCCAGGAACAAGGATTTCCATT 57.597 40.909 4.03 0.00 44.51 3.16
3248 3372 5.528600 TCCAGGAACAAGGATTTCCATTA 57.471 39.130 4.03 0.00 44.51 1.90
3249 3373 5.261216 TCCAGGAACAAGGATTTCCATTAC 58.739 41.667 4.03 0.00 44.51 1.89
3250 3374 5.016173 CCAGGAACAAGGATTTCCATTACA 58.984 41.667 4.03 0.00 44.51 2.41
3251 3375 5.480073 CCAGGAACAAGGATTTCCATTACAA 59.520 40.000 4.03 0.00 44.51 2.41
3252 3376 6.389906 CAGGAACAAGGATTTCCATTACAAC 58.610 40.000 4.03 0.00 44.51 3.32
3253 3377 6.015519 CAGGAACAAGGATTTCCATTACAACA 60.016 38.462 4.03 0.00 44.51 3.33
3254 3378 6.209391 AGGAACAAGGATTTCCATTACAACAG 59.791 38.462 4.03 0.00 44.51 3.16
3255 3379 5.391312 ACAAGGATTTCCATTACAACAGC 57.609 39.130 0.00 0.00 38.89 4.40
3256 3380 4.832266 ACAAGGATTTCCATTACAACAGCA 59.168 37.500 0.00 0.00 38.89 4.41
3257 3381 5.047802 ACAAGGATTTCCATTACAACAGCAG 60.048 40.000 0.00 0.00 38.89 4.24
3258 3382 4.666512 AGGATTTCCATTACAACAGCAGT 58.333 39.130 0.00 0.00 38.89 4.40
3259 3383 5.815581 AGGATTTCCATTACAACAGCAGTA 58.184 37.500 0.00 0.00 38.89 2.74
3260 3384 5.882557 AGGATTTCCATTACAACAGCAGTAG 59.117 40.000 0.00 0.00 38.89 2.57
3261 3385 5.066505 GGATTTCCATTACAACAGCAGTAGG 59.933 44.000 0.00 0.00 35.64 3.18
3262 3386 4.901197 TTCCATTACAACAGCAGTAGGA 57.099 40.909 0.00 0.00 0.00 2.94
3263 3387 4.901197 TCCATTACAACAGCAGTAGGAA 57.099 40.909 0.00 0.00 0.00 3.36
3264 3388 5.235850 TCCATTACAACAGCAGTAGGAAA 57.764 39.130 0.00 0.00 0.00 3.13
3265 3389 5.815581 TCCATTACAACAGCAGTAGGAAAT 58.184 37.500 0.00 0.00 0.00 2.17
3266 3390 6.245408 TCCATTACAACAGCAGTAGGAAATT 58.755 36.000 0.00 0.00 0.00 1.82
3267 3391 6.719370 TCCATTACAACAGCAGTAGGAAATTT 59.281 34.615 0.00 0.00 0.00 1.82
3268 3392 7.029563 CCATTACAACAGCAGTAGGAAATTTC 58.970 38.462 9.83 9.83 0.00 2.17
3269 3393 7.094205 CCATTACAACAGCAGTAGGAAATTTCT 60.094 37.037 17.42 6.74 0.00 2.52
3270 3394 5.948992 ACAACAGCAGTAGGAAATTTCTC 57.051 39.130 17.42 8.14 0.00 2.87
3271 3395 5.625150 ACAACAGCAGTAGGAAATTTCTCT 58.375 37.500 17.42 14.37 0.00 3.10
3272 3396 6.769512 ACAACAGCAGTAGGAAATTTCTCTA 58.230 36.000 17.42 13.47 0.00 2.43
3273 3397 6.876257 ACAACAGCAGTAGGAAATTTCTCTAG 59.124 38.462 17.42 7.90 0.00 2.43
3274 3398 6.613153 ACAGCAGTAGGAAATTTCTCTAGT 57.387 37.500 17.42 15.26 0.00 2.57
3275 3399 6.402222 ACAGCAGTAGGAAATTTCTCTAGTG 58.598 40.000 27.05 27.05 36.07 2.74
3276 3400 6.014156 ACAGCAGTAGGAAATTTCTCTAGTGT 60.014 38.462 28.94 21.11 35.77 3.55
3277 3401 6.312426 CAGCAGTAGGAAATTTCTCTAGTGTG 59.688 42.308 28.94 24.51 35.77 3.82
3278 3402 6.211584 AGCAGTAGGAAATTTCTCTAGTGTGA 59.788 38.462 28.94 9.80 35.77 3.58
3279 3403 6.533367 GCAGTAGGAAATTTCTCTAGTGTGAG 59.467 42.308 28.94 17.44 35.77 3.51
3280 3404 7.577807 GCAGTAGGAAATTTCTCTAGTGTGAGA 60.578 40.741 28.94 8.88 40.87 3.27
3288 3412 5.808366 TTCTCTAGTGTGAGAATTGGTGT 57.192 39.130 3.20 0.00 45.00 4.16
3289 3413 5.392767 TCTCTAGTGTGAGAATTGGTGTC 57.607 43.478 0.00 0.00 39.80 3.67
3290 3414 4.220821 TCTCTAGTGTGAGAATTGGTGTCC 59.779 45.833 0.00 0.00 39.80 4.02
3291 3415 2.568623 AGTGTGAGAATTGGTGTCCC 57.431 50.000 0.00 0.00 0.00 4.46
3292 3416 1.073923 AGTGTGAGAATTGGTGTCCCC 59.926 52.381 0.00 0.00 0.00 4.81
3293 3417 1.144691 TGTGAGAATTGGTGTCCCCA 58.855 50.000 0.00 0.00 43.27 4.96
3294 3418 1.710244 TGTGAGAATTGGTGTCCCCAT 59.290 47.619 0.00 0.00 44.74 4.00
3295 3419 2.916269 TGTGAGAATTGGTGTCCCCATA 59.084 45.455 0.00 0.00 44.74 2.74
3296 3420 3.054434 TGTGAGAATTGGTGTCCCCATAG 60.054 47.826 0.00 0.00 44.74 2.23
3297 3421 3.199946 GTGAGAATTGGTGTCCCCATAGA 59.800 47.826 0.00 0.00 44.74 1.98
3298 3422 3.199946 TGAGAATTGGTGTCCCCATAGAC 59.800 47.826 0.00 0.00 44.74 2.59
3299 3423 3.189606 AGAATTGGTGTCCCCATAGACA 58.810 45.455 0.00 0.00 44.74 3.41
3306 3430 2.042464 TGTCCCCATAGACAGAGATGC 58.958 52.381 0.00 0.00 41.78 3.91
3307 3431 1.346068 GTCCCCATAGACAGAGATGCC 59.654 57.143 0.00 0.00 36.73 4.40
3308 3432 0.689623 CCCCATAGACAGAGATGCCC 59.310 60.000 0.00 0.00 0.00 5.36
3309 3433 0.689623 CCCATAGACAGAGATGCCCC 59.310 60.000 0.00 0.00 0.00 5.80
3310 3434 1.727062 CCATAGACAGAGATGCCCCT 58.273 55.000 0.00 0.00 0.00 4.79
3311 3435 2.053244 CCATAGACAGAGATGCCCCTT 58.947 52.381 0.00 0.00 0.00 3.95
3312 3436 2.441001 CCATAGACAGAGATGCCCCTTT 59.559 50.000 0.00 0.00 0.00 3.11
3313 3437 3.117738 CCATAGACAGAGATGCCCCTTTT 60.118 47.826 0.00 0.00 0.00 2.27
3314 3438 4.530875 CATAGACAGAGATGCCCCTTTTT 58.469 43.478 0.00 0.00 0.00 1.94
3315 3439 3.078891 AGACAGAGATGCCCCTTTTTC 57.921 47.619 0.00 0.00 0.00 2.29
3316 3440 2.095461 GACAGAGATGCCCCTTTTTCC 58.905 52.381 0.00 0.00 0.00 3.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 1.081840 GCTTTGTTGCGCTGGTCTC 60.082 57.895 9.73 0.00 0.00 3.36
49 50 4.323477 CGGGAAAGGGGTCGCACA 62.323 66.667 0.00 0.00 0.00 4.57
147 149 0.458716 GCTCACTTAGCCGTCAGGAC 60.459 60.000 0.00 0.00 46.25 3.85
497 525 2.365768 GGGAGAGGGTGAGGGTCC 60.366 72.222 0.00 0.00 0.00 4.46
513 546 1.745264 GAATCAGGCGGAGGAGAGG 59.255 63.158 0.00 0.00 0.00 3.69
515 548 1.001631 TGGAATCAGGCGGAGGAGA 59.998 57.895 0.00 0.00 0.00 3.71
628 682 4.830573 GCAAGAGCTCAAACCCCT 57.169 55.556 17.77 0.00 37.91 4.79
669 723 1.135402 TCGATCGATGCATATGTCCCG 60.135 52.381 15.15 0.00 0.00 5.14
675 729 3.119316 GGGAGAAGTCGATCGATGCATAT 60.119 47.826 22.50 5.21 0.00 1.78
808 893 0.102481 CGGCGGATGCTTACTACAGT 59.898 55.000 0.00 0.00 42.25 3.55
809 894 0.384309 TCGGCGGATGCTTACTACAG 59.616 55.000 7.21 0.00 42.25 2.74
810 895 0.101759 GTCGGCGGATGCTTACTACA 59.898 55.000 7.21 0.00 42.25 2.74
811 896 0.933509 CGTCGGCGGATGCTTACTAC 60.934 60.000 7.21 0.00 42.25 2.73
812 897 1.357690 CGTCGGCGGATGCTTACTA 59.642 57.895 7.21 0.00 42.25 1.82
901 986 4.799949 CCATACAAGATTGGCGTCAATTTG 59.200 41.667 17.67 21.61 43.08 2.32
907 994 4.552767 CGAAATCCATACAAGATTGGCGTC 60.553 45.833 0.00 0.00 34.23 5.19
948 1035 2.103432 TCCGCAACTGTAACCAAGAAGA 59.897 45.455 0.00 0.00 0.00 2.87
949 1036 2.480419 CTCCGCAACTGTAACCAAGAAG 59.520 50.000 0.00 0.00 0.00 2.85
950 1037 2.489971 CTCCGCAACTGTAACCAAGAA 58.510 47.619 0.00 0.00 0.00 2.52
959 1046 1.079543 CTAGCTGCTCCGCAACTGT 60.080 57.895 4.91 0.00 38.41 3.55
1638 1731 0.663153 GCAGCCCAACATATTCCGAC 59.337 55.000 0.00 0.00 0.00 4.79
1663 1756 2.180017 CTGCGTTTCCATGGCTGC 59.820 61.111 6.96 8.57 0.00 5.25
1776 1869 2.260434 GAGTCGGCGGTGCTGTAA 59.740 61.111 7.21 0.00 36.18 2.41
2379 2496 3.389329 ACCAAGTTTTCAGCTGAGAGAGA 59.611 43.478 17.43 0.00 0.00 3.10
2380 2497 3.737850 ACCAAGTTTTCAGCTGAGAGAG 58.262 45.455 17.43 6.28 0.00 3.20
2381 2498 3.845781 ACCAAGTTTTCAGCTGAGAGA 57.154 42.857 17.43 4.46 0.00 3.10
2382 2499 3.434984 GCTACCAAGTTTTCAGCTGAGAG 59.565 47.826 17.43 2.71 0.00 3.20
2586 2704 9.814899 CTCACATTCAGATGTCTATACTCTTTT 57.185 33.333 0.00 0.00 44.55 2.27
2587 2705 8.976353 ACTCACATTCAGATGTCTATACTCTTT 58.024 33.333 0.00 0.00 44.55 2.52
2588 2706 8.532186 ACTCACATTCAGATGTCTATACTCTT 57.468 34.615 0.00 0.00 44.55 2.85
2643 2761 5.465056 CCTGTAAATTTTGGTGCGTTTCAAT 59.535 36.000 0.00 0.00 0.00 2.57
2685 2807 4.724602 TGTCTCACGCCGCTCTGC 62.725 66.667 0.00 0.00 0.00 4.26
2788 2910 2.022195 CGATCGTCCTAACCCTTGAGA 58.978 52.381 7.03 0.00 0.00 3.27
2883 3006 0.687920 TACACAAGGTTCCCGATGCA 59.312 50.000 0.00 0.00 0.00 3.96
2945 3068 5.953548 AGAAACTAGGAAGTAGGGAGAAGAC 59.046 44.000 0.00 0.00 33.75 3.01
3017 3140 1.745489 GTTGGCGAGGTCCATGGTC 60.745 63.158 12.58 5.95 35.77 4.02
3205 3329 1.022735 GCTGGAATGTCTGGATGCAG 58.977 55.000 8.12 8.12 35.84 4.41
3206 3330 0.328926 TGCTGGAATGTCTGGATGCA 59.671 50.000 0.00 0.00 0.00 3.96
3207 3331 1.607628 GATGCTGGAATGTCTGGATGC 59.392 52.381 0.00 0.00 0.00 3.91
3208 3332 2.228059 GGATGCTGGAATGTCTGGATG 58.772 52.381 0.00 0.00 0.00 3.51
3209 3333 1.848388 TGGATGCTGGAATGTCTGGAT 59.152 47.619 0.00 0.00 0.00 3.41
3210 3334 1.211212 CTGGATGCTGGAATGTCTGGA 59.789 52.381 0.00 0.00 0.00 3.86
3211 3335 1.676746 CTGGATGCTGGAATGTCTGG 58.323 55.000 0.00 0.00 0.00 3.86
3212 3336 1.211212 TCCTGGATGCTGGAATGTCTG 59.789 52.381 10.50 0.00 0.00 3.51
3213 3337 1.588239 TCCTGGATGCTGGAATGTCT 58.412 50.000 10.50 0.00 0.00 3.41
3214 3338 2.019984 GTTCCTGGATGCTGGAATGTC 58.980 52.381 24.67 11.40 43.25 3.06
3215 3339 1.355381 TGTTCCTGGATGCTGGAATGT 59.645 47.619 24.67 0.00 43.25 2.71
3216 3340 2.133281 TGTTCCTGGATGCTGGAATG 57.867 50.000 24.67 0.00 43.25 2.67
3217 3341 2.622452 CCTTGTTCCTGGATGCTGGAAT 60.622 50.000 24.67 0.00 43.25 3.01
3218 3342 1.272092 CCTTGTTCCTGGATGCTGGAA 60.272 52.381 19.51 19.51 39.73 3.53
3219 3343 0.329261 CCTTGTTCCTGGATGCTGGA 59.671 55.000 8.84 8.84 0.00 3.86
3220 3344 0.329261 TCCTTGTTCCTGGATGCTGG 59.671 55.000 3.55 3.55 0.00 4.85
3221 3345 2.431954 ATCCTTGTTCCTGGATGCTG 57.568 50.000 0.00 0.00 41.13 4.41
3222 3346 3.359950 GAAATCCTTGTTCCTGGATGCT 58.640 45.455 0.00 0.00 41.76 3.79
3223 3347 2.428530 GGAAATCCTTGTTCCTGGATGC 59.571 50.000 0.00 0.00 41.76 3.91
3224 3348 3.700538 TGGAAATCCTTGTTCCTGGATG 58.299 45.455 0.00 0.00 44.24 3.51
3225 3349 4.614967 ATGGAAATCCTTGTTCCTGGAT 57.385 40.909 0.00 0.00 44.24 3.41
3226 3350 4.402616 AATGGAAATCCTTGTTCCTGGA 57.597 40.909 0.44 0.00 44.24 3.86
3227 3351 5.016173 TGTAATGGAAATCCTTGTTCCTGG 58.984 41.667 0.44 0.00 44.24 4.45
3228 3352 6.015519 TGTTGTAATGGAAATCCTTGTTCCTG 60.016 38.462 0.44 0.00 44.24 3.86
3229 3353 6.074648 TGTTGTAATGGAAATCCTTGTTCCT 58.925 36.000 0.44 0.00 44.24 3.36
3230 3354 6.339587 TGTTGTAATGGAAATCCTTGTTCC 57.660 37.500 0.44 0.00 44.19 3.62
3231 3355 5.863935 GCTGTTGTAATGGAAATCCTTGTTC 59.136 40.000 0.44 0.00 36.82 3.18
3232 3356 5.304101 TGCTGTTGTAATGGAAATCCTTGTT 59.696 36.000 0.44 0.00 36.82 2.83
3233 3357 4.832266 TGCTGTTGTAATGGAAATCCTTGT 59.168 37.500 0.44 0.00 36.82 3.16
3234 3358 5.047802 ACTGCTGTTGTAATGGAAATCCTTG 60.048 40.000 0.44 0.00 36.82 3.61
3235 3359 5.079643 ACTGCTGTTGTAATGGAAATCCTT 58.920 37.500 0.44 0.00 36.82 3.36
3236 3360 4.666512 ACTGCTGTTGTAATGGAAATCCT 58.333 39.130 0.44 0.00 36.82 3.24
3237 3361 5.066505 CCTACTGCTGTTGTAATGGAAATCC 59.933 44.000 0.09 0.00 0.00 3.01
3238 3362 5.880332 TCCTACTGCTGTTGTAATGGAAATC 59.120 40.000 0.09 0.00 0.00 2.17
3239 3363 5.815581 TCCTACTGCTGTTGTAATGGAAAT 58.184 37.500 0.09 0.00 0.00 2.17
3240 3364 5.235850 TCCTACTGCTGTTGTAATGGAAA 57.764 39.130 0.09 0.00 0.00 3.13
3241 3365 4.901197 TCCTACTGCTGTTGTAATGGAA 57.099 40.909 0.09 0.00 0.00 3.53
3242 3366 4.901197 TTCCTACTGCTGTTGTAATGGA 57.099 40.909 0.09 0.00 0.00 3.41
3243 3367 6.515272 AATTTCCTACTGCTGTTGTAATGG 57.485 37.500 0.09 0.00 0.00 3.16
3244 3368 7.820648 AGAAATTTCCTACTGCTGTTGTAATG 58.179 34.615 14.61 0.00 0.00 1.90
3245 3369 7.885399 AGAGAAATTTCCTACTGCTGTTGTAAT 59.115 33.333 14.61 0.03 0.00 1.89
3246 3370 7.224297 AGAGAAATTTCCTACTGCTGTTGTAA 58.776 34.615 14.61 0.00 0.00 2.41
3247 3371 6.769512 AGAGAAATTTCCTACTGCTGTTGTA 58.230 36.000 14.61 0.00 0.00 2.41
3248 3372 5.625150 AGAGAAATTTCCTACTGCTGTTGT 58.375 37.500 14.61 0.00 0.00 3.32
3249 3373 6.876257 ACTAGAGAAATTTCCTACTGCTGTTG 59.124 38.462 14.61 0.00 0.00 3.33
3250 3374 6.876257 CACTAGAGAAATTTCCTACTGCTGTT 59.124 38.462 14.61 0.00 0.00 3.16
3251 3375 6.014156 ACACTAGAGAAATTTCCTACTGCTGT 60.014 38.462 14.61 12.62 0.00 4.40
3252 3376 6.312426 CACACTAGAGAAATTTCCTACTGCTG 59.688 42.308 14.61 12.14 0.00 4.41
3253 3377 6.211584 TCACACTAGAGAAATTTCCTACTGCT 59.788 38.462 14.61 5.74 0.00 4.24
3254 3378 6.398918 TCACACTAGAGAAATTTCCTACTGC 58.601 40.000 14.61 0.00 0.00 4.40
3255 3379 7.831753 TCTCACACTAGAGAAATTTCCTACTG 58.168 38.462 14.61 14.54 41.45 2.74
3265 3389 9.576037 GGGACACCAATTCTCACACTAGAGAAA 62.576 44.444 10.07 0.00 45.41 2.52
3266 3390 8.200506 GGGACACCAATTCTCACACTAGAGAA 62.201 46.154 8.63 8.63 45.84 2.87
3267 3391 4.220821 GGACACCAATTCTCACACTAGAGA 59.779 45.833 0.00 0.00 42.62 3.10
3268 3392 4.499183 GGACACCAATTCTCACACTAGAG 58.501 47.826 0.00 0.00 36.97 2.43
3269 3393 3.260884 GGGACACCAATTCTCACACTAGA 59.739 47.826 0.00 0.00 36.50 2.43
3270 3394 3.600388 GGGACACCAATTCTCACACTAG 58.400 50.000 0.00 0.00 36.50 2.57
3271 3395 2.304761 GGGGACACCAATTCTCACACTA 59.695 50.000 0.00 0.00 39.85 2.74
3272 3396 1.073923 GGGGACACCAATTCTCACACT 59.926 52.381 0.00 0.00 39.85 3.55
3273 3397 1.534729 GGGGACACCAATTCTCACAC 58.465 55.000 0.00 0.00 39.85 3.82
3287 3411 1.346068 GGCATCTCTGTCTATGGGGAC 59.654 57.143 0.00 0.00 36.81 4.46
3288 3412 1.722034 GGCATCTCTGTCTATGGGGA 58.278 55.000 0.00 0.00 0.00 4.81
3289 3413 0.689623 GGGCATCTCTGTCTATGGGG 59.310 60.000 0.00 0.00 0.00 4.96
3290 3414 0.689623 GGGGCATCTCTGTCTATGGG 59.310 60.000 0.00 0.00 0.00 4.00
3291 3415 1.727062 AGGGGCATCTCTGTCTATGG 58.273 55.000 0.00 0.00 0.00 2.74
3292 3416 3.853355 AAAGGGGCATCTCTGTCTATG 57.147 47.619 0.00 0.00 0.00 2.23
3293 3417 4.385754 GGAAAAAGGGGCATCTCTGTCTAT 60.386 45.833 0.00 0.00 0.00 1.98
3294 3418 3.054361 GGAAAAAGGGGCATCTCTGTCTA 60.054 47.826 0.00 0.00 0.00 2.59
3295 3419 2.291217 GGAAAAAGGGGCATCTCTGTCT 60.291 50.000 0.00 0.00 0.00 3.41
3296 3420 2.095461 GGAAAAAGGGGCATCTCTGTC 58.905 52.381 0.00 0.00 0.00 3.51
3297 3421 2.222227 GGAAAAAGGGGCATCTCTGT 57.778 50.000 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.