Multiple sequence alignment - TraesCS1B01G045500

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 TraesCS1B01G045500 chr1B 100.000 3709 0 0 1 3709 25472379 25476087 0.000000e+00 6850.0
1 TraesCS1B01G045500 chr1A 94.033 3000 170 8 1 2995 19264663 19261668 0.000000e+00 4540.0
2 TraesCS1B01G045500 chr1A 93.723 1163 66 6 1 1158 19626077 19627237 0.000000e+00 1736.0
3 TraesCS1B01G045500 chr1A 97.590 83 2 0 3627 3709 19267137 19267055 3.860000e-30 143.0
4 TraesCS1B01G045500 chr1D 93.460 2844 173 11 790 3628 17264991 17267826 0.000000e+00 4209.0
5 TraesCS1B01G045500 chr1D 93.073 2844 180 15 790 3628 17289877 17292708 0.000000e+00 4145.0
6 TraesCS1B01G045500 chr1D 93.003 2844 181 15 790 3628 17394440 17397270 0.000000e+00 4133.0
7 TraesCS1B01G045500 chr1D 92.727 2846 190 15 790 3628 17335644 17338479 0.000000e+00 4093.0
8 TraesCS1B01G045500 chr1D 93.588 577 35 2 1 577 17264338 17264912 0.000000e+00 859.0
9 TraesCS1B01G045500 chr1D 93.588 577 36 1 1 577 17393786 17394361 0.000000e+00 859.0
10 TraesCS1B01G045500 chr1D 93.414 577 36 2 1 577 17289224 17289798 0.000000e+00 854.0
11 TraesCS1B01G045500 chr1D 92.721 577 40 2 1 577 17334990 17335564 0.000000e+00 832.0
12 TraesCS1B01G045500 chr1D 95.349 86 3 1 3624 3709 17267851 17267935 6.460000e-28 135.0
13 TraesCS1B01G045500 chr1D 95.349 86 3 1 3624 3709 17292733 17292817 6.460000e-28 135.0
14 TraesCS1B01G045500 chr1D 95.349 86 3 1 3624 3709 17338504 17338588 6.460000e-28 135.0
15 TraesCS1B01G045500 chr1D 95.349 86 3 1 3624 3709 17397295 17397379 6.460000e-28 135.0
16 TraesCS1B01G045500 chr1D 96.721 61 2 0 683 743 17264934 17264994 6.550000e-18 102.0
17 TraesCS1B01G045500 chr1D 91.803 61 5 0 683 743 17394383 17394443 6.600000e-13 86.1
18 TraesCS1B01G045500 chrUn 93.352 2843 174 13 790 3628 307579683 307582514 0.000000e+00 4189.0
19 TraesCS1B01G045500 chrUn 93.317 2843 175 13 790 3628 307554813 307557644 0.000000e+00 4183.0
20 TraesCS1B01G045500 chrUn 93.405 2714 167 12 919 3628 327528522 327525817 0.000000e+00 4010.0
21 TraesCS1B01G045500 chrUn 93.237 2558 159 14 1076 3628 250127013 250124465 0.000000e+00 3753.0
22 TraesCS1B01G045500 chrUn 92.586 580 41 2 1 580 366683201 366682624 0.000000e+00 832.0
23 TraesCS1B01G045500 chrUn 92.721 577 40 2 1 577 420455193 420455767 0.000000e+00 832.0
24 TraesCS1B01G045500 chrUn 92.028 577 44 2 1 577 307554160 307554734 0.000000e+00 809.0
25 TraesCS1B01G045500 chrUn 98.795 83 1 0 3627 3709 181261844 181261762 8.300000e-32 148.0
26 TraesCS1B01G045500 chrUn 96.386 83 3 0 3627 3709 181247794 181247712 1.800000e-28 137.0
27 TraesCS1B01G045500 chrUn 96.386 83 2 1 3627 3709 250124437 250124356 6.460000e-28 135.0
28 TraesCS1B01G045500 chrUn 95.349 86 3 1 3624 3709 339472255 339472339 6.460000e-28 135.0
29 TraesCS1B01G045500 chrUn 95.082 61 3 0 683 743 307554756 307554816 3.050000e-16 97.1
30 TraesCS1B01G045500 chr3A 77.174 1288 234 40 371 1626 92540466 92539207 0.000000e+00 695.0


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 TraesCS1B01G045500 chr1B 25472379 25476087 3708 False 6850.000000 6850 100.000000 1 3709 1 chr1B.!!$F1 3708
1 TraesCS1B01G045500 chr1A 19261668 19267137 5469 True 2341.500000 4540 95.811500 1 3709 2 chr1A.!!$R1 3708
2 TraesCS1B01G045500 chr1A 19626077 19627237 1160 False 1736.000000 1736 93.723000 1 1158 1 chr1A.!!$F1 1157
3 TraesCS1B01G045500 chr1D 17289224 17292817 3593 False 1711.333333 4145 93.945333 1 3709 3 chr1D.!!$F2 3708
4 TraesCS1B01G045500 chr1D 17334990 17338588 3598 False 1686.666667 4093 93.599000 1 3709 3 chr1D.!!$F3 3708
5 TraesCS1B01G045500 chr1D 17264338 17267935 3597 False 1326.250000 4209 94.779500 1 3709 4 chr1D.!!$F1 3708
6 TraesCS1B01G045500 chr1D 17393786 17397379 3593 False 1303.275000 4133 93.435750 1 3709 4 chr1D.!!$F4 3708
7 TraesCS1B01G045500 chrUn 307579683 307582514 2831 False 4189.000000 4189 93.352000 790 3628 1 chrUn.!!$F1 2838
8 TraesCS1B01G045500 chrUn 327525817 327528522 2705 True 4010.000000 4010 93.405000 919 3628 1 chrUn.!!$R3 2709
9 TraesCS1B01G045500 chrUn 250124356 250127013 2657 True 1944.000000 3753 94.811500 1076 3709 2 chrUn.!!$R5 2633
10 TraesCS1B01G045500 chrUn 307554160 307557644 3484 False 1696.366667 4183 93.475667 1 3628 3 chrUn.!!$F4 3627
11 TraesCS1B01G045500 chrUn 366682624 366683201 577 True 832.000000 832 92.586000 1 580 1 chrUn.!!$R4 579
12 TraesCS1B01G045500 chrUn 420455193 420455767 574 False 832.000000 832 92.721000 1 577 1 chrUn.!!$F3 576
13 TraesCS1B01G045500 chr3A 92539207 92540466 1259 True 695.000000 695 77.174000 371 1626 1 chr3A.!!$R1 1255

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
24 2499 0.409092 ATTCCACATGCTCCCCACAA 59.591 50.0 0.0 0.0 0.00 3.33 F
250 2725 1.009829 GCACGGATTCTCCATGACAC 58.990 55.0 0.0 0.0 29.76 3.67 F
1638 4146 0.321210 CACAATGCCACGGGTGAGTA 60.321 55.0 0.0 0.0 33.16 2.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1166 3669 1.403679 CCTTCGTTTCCAGCAACAACA 59.596 47.619 0.00 0.0 0.0 3.33 R
2123 4633 1.228154 GTTGGTCTCCCGCCTTTGT 60.228 57.895 0.00 0.0 0.0 2.83 R
2910 5420 0.179137 CTCCGCGCATGACTCTACAA 60.179 55.000 8.75 0.0 0.0 2.41 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
24 2499 0.409092 ATTCCACATGCTCCCCACAA 59.591 50.000 0.00 0.00 0.00 3.33
145 2620 3.340814 AGGAAGACGACTACCGAAGTA 57.659 47.619 0.00 0.00 39.07 2.24
148 2623 4.520492 AGGAAGACGACTACCGAAGTAAAA 59.480 41.667 0.00 0.00 39.07 1.52
250 2725 1.009829 GCACGGATTCTCCATGACAC 58.990 55.000 0.00 0.00 29.76 3.67
278 2753 7.230712 TGTGATGGAATGAGTAGATACACGTAT 59.769 37.037 0.00 0.00 0.00 3.06
292 2767 8.832487 AGATACACGTATAAAGTAGTGTTTCG 57.168 34.615 5.40 0.00 44.32 3.46
451 2930 6.633500 ATGGTTAATATGATTTCCCACACG 57.367 37.500 0.00 0.00 0.00 4.49
493 2972 9.970553 TCTCACTTCTATAACTTGTAGGAGTAA 57.029 33.333 6.25 0.00 36.16 2.24
504 2983 4.471904 TGTAGGAGTAATTGGTGCTCAG 57.528 45.455 0.00 0.00 40.55 3.35
506 2985 5.020795 TGTAGGAGTAATTGGTGCTCAGTA 58.979 41.667 0.00 0.00 40.55 2.74
731 3216 8.204160 TGAATATACCATCGTGAAGTCAAGAAT 58.796 33.333 1.05 0.00 37.84 2.40
880 3373 8.147244 ACCTAAATGTAGTTGGAGATGTAGTT 57.853 34.615 0.00 0.00 0.00 2.24
882 3375 9.099454 CCTAAATGTAGTTGGAGATGTAGTTTC 57.901 37.037 0.00 0.00 0.00 2.78
993 3496 6.121776 AGGGGAATAAACATTTTGTTTCCC 57.878 37.500 14.00 14.00 46.61 3.97
998 3501 7.254966 GGGAATAAACATTTTGTTTCCCAACAC 60.255 37.037 17.75 4.19 46.61 3.32
1166 3669 5.474532 CGTGGGAATGATTGATGATACCAAT 59.525 40.000 0.00 0.00 36.98 3.16
1182 3685 2.126467 CCAATGTTGTTGCTGGAAACG 58.874 47.619 0.00 0.00 32.47 3.60
1212 3718 5.063880 ACAACAATGGAGAAACCTACAGTC 58.936 41.667 0.00 0.00 39.86 3.51
1214 3720 5.304686 ACAATGGAGAAACCTACAGTCAA 57.695 39.130 0.00 0.00 39.86 3.18
1228 3734 2.830923 ACAGTCAACAGAGGATGGAGAG 59.169 50.000 0.00 0.00 0.00 3.20
1258 3764 1.112113 AACTATCACCGTCTCCGCAT 58.888 50.000 0.00 0.00 0.00 4.73
1305 3811 8.662781 AGCGTACAATACATACTCAATCATTT 57.337 30.769 0.00 0.00 0.00 2.32
1344 3850 9.162793 CGAAGATGATGTTTACTAATGCATTTC 57.837 33.333 18.75 6.89 0.00 2.17
1474 3980 1.255882 TCCAAAACCATCGCAGCAAT 58.744 45.000 0.00 0.00 0.00 3.56
1637 4145 1.600636 CACAATGCCACGGGTGAGT 60.601 57.895 0.00 0.00 33.16 3.41
1638 4146 0.321210 CACAATGCCACGGGTGAGTA 60.321 55.000 0.00 0.00 33.16 2.59
1785 4293 9.749490 CATTTTGAAATACATTTTGATGTGAGC 57.251 29.630 2.47 0.00 36.08 4.26
1900 4408 3.815856 TCACCACGTACCTTTACACAA 57.184 42.857 0.00 0.00 0.00 3.33
1943 4452 7.174772 TGGGTATGTGCATATTATGTTCATGAC 59.825 37.037 0.00 12.74 31.95 3.06
2029 4539 7.278868 CGAGCTCCACTAGAAAATTCTACAATT 59.721 37.037 8.47 0.00 38.70 2.32
2123 4633 9.249053 TGAAATTAATAAATACAGGGCAAGACA 57.751 29.630 0.00 0.00 0.00 3.41
2237 4747 1.978617 CAAATGCAGAGGGGCGGTT 60.979 57.895 0.00 0.00 36.28 4.44
2316 4826 0.328258 GGAGGAACTTAGGCTTGCCA 59.672 55.000 14.54 0.00 41.55 4.92
2321 4831 0.949105 AACTTAGGCTTGCCACGACG 60.949 55.000 14.54 0.00 0.00 5.12
2395 4905 3.581163 AACCACACCGTCTTTGGTT 57.419 47.368 0.00 0.00 46.66 3.67
2480 4990 3.173599 GCATCATGTTGTGTGTGTATGC 58.826 45.455 5.69 0.00 32.62 3.14
2519 5029 7.173562 TGCTTGTTTATTTCTTTTCGTAGGCTA 59.826 33.333 0.00 0.00 0.00 3.93
2651 5161 7.012421 GTGCCCATCTTTATATCTTCGAGTTTT 59.988 37.037 0.00 0.00 0.00 2.43
2733 5243 1.730121 GCATGTTGAATGTCACGCCAG 60.730 52.381 0.00 0.00 0.00 4.85
2740 5250 3.899734 TGAATGTCACGCCAGAATTTTG 58.100 40.909 0.00 0.00 0.00 2.44
2747 5257 3.124466 TCACGCCAGAATTTTGTATGTCG 59.876 43.478 0.00 0.00 0.00 4.35
2768 5278 6.696583 TGTCGTCTAACATTTCTTCACGTAAA 59.303 34.615 0.00 0.00 0.00 2.01
2905 5415 2.502538 CCTCACAAACTCCCCGGTATAA 59.497 50.000 0.00 0.00 0.00 0.98
2910 5420 1.875488 AACTCCCCGGTATAAGCACT 58.125 50.000 0.00 0.00 0.00 4.40
2982 5492 5.580691 CAGGTAGTGCAATATTTCGTGAAGA 59.419 40.000 0.00 0.00 0.00 2.87
2985 5495 7.011482 AGGTAGTGCAATATTTCGTGAAGAATC 59.989 37.037 0.00 0.00 38.86 2.52
3007 5517 4.482025 TCCCATGGGATCCTATCTTGTTTT 59.518 41.667 30.62 0.00 39.76 2.43
3027 5537 7.905265 TGTTTTGGATGGTCATATTGAATGTT 58.095 30.769 0.00 0.00 0.00 2.71
3035 5548 6.676950 TGGTCATATTGAATGTTTCACACAC 58.323 36.000 0.00 0.00 39.87 3.82
3057 5570 7.437862 CACACTGCCAATAAAATTACACTTTGT 59.562 33.333 0.00 0.00 0.00 2.83
3060 5573 7.806014 ACTGCCAATAAAATTACACTTTGTACG 59.194 33.333 0.00 0.00 31.69 3.67
3163 5676 0.395312 GACGACCCTTGTCCTTTGGA 59.605 55.000 0.00 0.00 38.32 3.53
3176 5689 2.622942 TCCTTTGGAATGCACTTGTCAC 59.377 45.455 0.00 0.00 0.00 3.67
3214 5727 1.741706 CCAATGTGCTTGCTGAGTAGG 59.258 52.381 0.00 0.00 33.20 3.18
3257 5770 3.370840 TGCAGCCCAGATATTGTCTTT 57.629 42.857 0.00 0.00 34.00 2.52
3300 5813 8.964351 AGGGAAATGAGATTTTATCTATCCCTT 58.036 33.333 17.49 8.86 45.95 3.95
3430 5944 3.906720 AGCCATACCGTGTGAGTTATT 57.093 42.857 0.00 0.00 0.00 1.40
3441 5955 5.106317 CCGTGTGAGTTATTTGCCTAAACAT 60.106 40.000 0.00 0.00 0.00 2.71
3484 5998 9.497030 GATGCACGTAGATATTAGACAAGATAG 57.503 37.037 0.00 0.00 0.00 2.08
3544 6058 2.484264 GCACATTGATATTAGCCGGGAC 59.516 50.000 2.18 0.00 0.00 4.46
3566 6080 7.041098 GGGACATAATTACTTGATTGGCACTAG 60.041 40.741 0.00 0.00 0.00 2.57
3581 6095 3.508793 GGCACTAGCACCGATATTAGGTA 59.491 47.826 3.85 0.00 44.61 3.08
3582 6096 4.159879 GGCACTAGCACCGATATTAGGTAT 59.840 45.833 3.85 0.28 44.61 2.73
3583 6097 5.103000 GCACTAGCACCGATATTAGGTATG 58.897 45.833 3.85 0.00 40.59 2.39
3620 6134 6.072175 GGACAATGGTGTAAAGCATGTTTAGA 60.072 38.462 0.00 0.00 38.41 2.10
3644 6187 1.308998 AACCAGGTTGAACGCTTGAG 58.691 50.000 3.18 0.00 0.00 3.02
3660 6203 5.692204 ACGCTTGAGATTAGTTTGATATCCG 59.308 40.000 0.00 0.00 0.00 4.18
3700 6243 8.837788 TGTATTGGTATAGATGATGCAAGAAG 57.162 34.615 0.00 0.00 0.00 2.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 2499 7.893124 AGCCATGATCATCAGAATTTAAAGT 57.107 32.000 4.86 0.00 0.00 2.66
250 2725 5.687730 GTGTATCTACTCATTCCATCACACG 59.312 44.000 0.00 0.00 0.00 4.49
278 2753 5.291614 AGCAAAACGACGAAACACTACTTTA 59.708 36.000 0.00 0.00 0.00 1.85
292 2767 2.413371 GCCATCTCTCAAGCAAAACGAC 60.413 50.000 0.00 0.00 0.00 4.34
481 2960 4.832248 TGAGCACCAATTACTCCTACAAG 58.168 43.478 0.00 0.00 0.00 3.16
493 2972 6.346096 ACGTACAATAATACTGAGCACCAAT 58.654 36.000 0.00 0.00 0.00 3.16
504 2983 6.890979 AGGAGGACCTACGTACAATAATAC 57.109 41.667 0.00 0.00 45.83 1.89
676 3159 8.570068 TTACCTTCGGCTGATTACTTAATTTT 57.430 30.769 0.00 0.00 0.00 1.82
677 3160 8.747538 ATTACCTTCGGCTGATTACTTAATTT 57.252 30.769 0.00 0.00 0.00 1.82
679 3162 7.506114 TGATTACCTTCGGCTGATTACTTAAT 58.494 34.615 0.00 0.00 0.00 1.40
713 3196 5.582269 ACATACATTCTTGACTTCACGATGG 59.418 40.000 0.00 0.00 0.00 3.51
714 3197 6.311200 TGACATACATTCTTGACTTCACGATG 59.689 38.462 0.00 0.00 0.00 3.84
769 3262 1.592669 CCGACACCGATCTGGATGC 60.593 63.158 10.05 0.00 42.00 3.91
880 3373 7.330946 CACATAGAAGGAAACGTCATACAAGAA 59.669 37.037 0.00 0.00 41.72 2.52
882 3375 6.036083 CCACATAGAAGGAAACGTCATACAAG 59.964 42.308 0.00 0.00 41.72 3.16
992 3495 1.004628 TCCATGGTGATCTGGTGTTGG 59.995 52.381 12.58 0.00 34.03 3.77
993 3496 2.086869 GTCCATGGTGATCTGGTGTTG 58.913 52.381 12.58 0.00 34.03 3.33
994 3497 1.339055 CGTCCATGGTGATCTGGTGTT 60.339 52.381 12.58 0.00 34.03 3.32
998 3501 1.146930 CCCGTCCATGGTGATCTGG 59.853 63.158 12.58 5.75 0.00 3.86
1166 3669 1.403679 CCTTCGTTTCCAGCAACAACA 59.596 47.619 0.00 0.00 0.00 3.33
1182 3685 5.069119 AGGTTTCTCCATTGTTGTTTCCTTC 59.931 40.000 0.00 0.00 39.02 3.46
1212 3718 2.419851 GCCTTCTCTCCATCCTCTGTTG 60.420 54.545 0.00 0.00 0.00 3.33
1214 3720 1.494960 GCCTTCTCTCCATCCTCTGT 58.505 55.000 0.00 0.00 0.00 3.41
1228 3734 2.547826 GGTGATAGTTGGTACGCCTTC 58.452 52.381 0.00 0.00 35.27 3.46
1258 3764 5.470098 GCTTCAAGTTGTTGGATCTGTTCTA 59.530 40.000 2.11 0.00 34.09 2.10
1305 3811 6.942976 ACATCATCTTCGGTAGGTAAGAAAA 58.057 36.000 0.00 0.00 35.47 2.29
1317 3823 6.603237 TGCATTAGTAAACATCATCTTCGG 57.397 37.500 0.00 0.00 0.00 4.30
1344 3850 5.651530 AGACACTACAGATGACGTTAATGG 58.348 41.667 0.00 0.00 0.00 3.16
1607 4115 3.503363 GTGGCATTGTGAGTTCAGATGAA 59.497 43.478 0.00 0.00 0.00 2.57
1772 4280 5.940192 TTTCGTACAGCTCACATCAAAAT 57.060 34.783 0.00 0.00 0.00 1.82
1842 4350 6.926272 AGATGGTTACGCAAAAATAGCAAAAA 59.074 30.769 0.00 0.00 0.00 1.94
1890 4398 9.146984 TCGATGAATACTAGTTTTGTGTAAAGG 57.853 33.333 0.00 0.00 0.00 3.11
1900 4408 7.872993 CACATACCCATCGATGAATACTAGTTT 59.127 37.037 26.86 4.88 0.00 2.66
1918 4426 7.391554 AGTCATGAACATAATATGCACATACCC 59.608 37.037 0.00 0.00 31.58 3.69
2029 4539 6.658816 TGTTCACGAGGGTAACATAGTAGTAA 59.341 38.462 0.00 0.00 32.54 2.24
2123 4633 1.228154 GTTGGTCTCCCGCCTTTGT 60.228 57.895 0.00 0.00 0.00 2.83
2150 4660 8.498054 CAGATTTTAGCATCTGGTTCTCTAAA 57.502 34.615 4.26 0.00 44.57 1.85
2177 4687 1.766494 CCAACATGATGGCTTGCCTA 58.234 50.000 9.31 0.00 32.78 3.93
2237 4747 2.503765 TGAGGTGTCCTGAGTTTGAACA 59.496 45.455 0.00 0.00 31.76 3.18
2316 4826 1.549170 ACCCTCTTTAAGATGCGTCGT 59.451 47.619 0.00 0.00 0.00 4.34
2321 4831 3.914426 TGGAGACCCTCTTTAAGATGC 57.086 47.619 0.00 0.00 0.00 3.91
2407 4917 0.391661 AGCGTTCATGCGACAGGATT 60.392 50.000 0.00 0.00 40.67 3.01
2519 5029 0.327924 TCCCACGAAGCAACCATGAT 59.672 50.000 0.00 0.00 0.00 2.45
2550 5060 6.452242 CATACATTGTTGCCATGATTGCTAT 58.548 36.000 0.00 0.00 0.00 2.97
2651 5161 8.134202 TGACTCTACTTGATCTGTTTGGATAA 57.866 34.615 0.00 0.00 0.00 1.75
2740 5250 6.307318 ACGTGAAGAAATGTTAGACGACATAC 59.693 38.462 0.00 0.00 39.25 2.39
2786 5296 5.748152 ACAAAAAGGATCATTGACAAACGTG 59.252 36.000 0.00 0.00 0.00 4.49
2789 5299 7.769272 TTGACAAAAAGGATCATTGACAAAC 57.231 32.000 0.00 0.00 36.38 2.93
2905 5415 2.001812 CGCATGACTCTACAAGTGCT 57.998 50.000 0.00 0.00 38.74 4.40
2910 5420 0.179137 CTCCGCGCATGACTCTACAA 60.179 55.000 8.75 0.00 0.00 2.41
2985 5495 4.459852 AAACAAGATAGGATCCCATGGG 57.540 45.455 26.30 26.30 0.00 4.00
2996 5506 9.123902 TCAATATGACCATCCAAAACAAGATAG 57.876 33.333 0.00 0.00 0.00 2.08
3007 5517 6.662663 TGTGAAACATTCAATATGACCATCCA 59.337 34.615 0.00 0.00 45.67 3.41
3027 5537 6.920758 GTGTAATTTTATTGGCAGTGTGTGAA 59.079 34.615 0.00 0.00 0.00 3.18
3035 5548 7.806014 ACGTACAAAGTGTAATTTTATTGGCAG 59.194 33.333 0.00 0.00 34.21 4.85
3057 5570 8.623903 CATAGTGGTAACCTTTCTACATACGTA 58.376 37.037 0.00 0.00 0.00 3.57
3060 5573 9.310716 GAACATAGTGGTAACCTTTCTACATAC 57.689 37.037 0.00 0.00 0.00 2.39
3163 5676 2.849942 TGCTACTGTGACAAGTGCATT 58.150 42.857 0.00 0.00 32.78 3.56
3176 5689 4.422073 TTGGTATCCTCCAATGCTACTG 57.578 45.455 0.00 0.00 41.79 2.74
3197 5710 3.423539 TTTCCTACTCAGCAAGCACAT 57.576 42.857 0.00 0.00 0.00 3.21
3257 5770 9.049050 TCATTTCCCTTTGTGTTACCTAGTATA 57.951 33.333 0.00 0.00 0.00 1.47
3300 5813 9.023962 AGCAAATATCAATTTACTTGAAGGTCA 57.976 29.630 0.00 0.00 46.62 4.02
3353 5867 2.608090 GGACAATTACGAGCTAAGGCAC 59.392 50.000 0.00 0.00 41.70 5.01
3356 5870 5.769484 TCTAGGACAATTACGAGCTAAGG 57.231 43.478 0.00 0.00 0.00 2.69
3358 5872 6.546403 ACTCATCTAGGACAATTACGAGCTAA 59.454 38.462 0.00 0.00 0.00 3.09
3361 5875 5.189659 ACTCATCTAGGACAATTACGAGC 57.810 43.478 0.00 0.00 0.00 5.03
3441 5955 4.024977 GTGCATCGCATGTACATGATTACA 60.025 41.667 34.65 22.22 44.02 2.41
3458 5972 9.497030 CTATCTTGTCTAATATCTACGTGCATC 57.503 37.037 0.00 0.00 0.00 3.91
3544 6058 7.134815 GTGCTAGTGCCAATCAAGTAATTATG 58.865 38.462 0.00 0.00 38.71 1.90
3566 6080 8.888579 AATAATAGCATACCTAATATCGGTGC 57.111 34.615 6.86 3.61 35.98 5.01
3581 6095 7.749666 ACACCATTGTCCTCTAATAATAGCAT 58.250 34.615 0.00 0.00 0.00 3.79
3582 6096 7.136822 ACACCATTGTCCTCTAATAATAGCA 57.863 36.000 0.00 0.00 0.00 3.49
3583 6097 9.555727 TTTACACCATTGTCCTCTAATAATAGC 57.444 33.333 0.00 0.00 37.15 2.97
3598 6112 5.801947 GCTCTAAACATGCTTTACACCATTG 59.198 40.000 0.00 0.00 0.00 2.82
3620 6134 1.202770 AGCGTTCAACCTGGTTTAGCT 60.203 47.619 9.90 14.40 0.00 3.32
3644 6187 7.132863 GGAAAGTTGCGGATATCAAACTAATC 58.867 38.462 14.48 14.54 0.00 1.75
3660 6203 5.364778 ACCAATACAAAAAGGGAAAGTTGC 58.635 37.500 0.00 0.00 0.00 4.17


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

AutoCloner maintained by Alex Coulton.