Multiple sequence alignment - TraesCS5A01G443600

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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 TraesCS5A01G443600 chr5A 100.000 3723 0 0 1 3723 623564471 623568193 0.000000e+00 6876.0
1 TraesCS5A01G443600 chr5D 93.303 3464 154 34 289 3723 499409710 499413124 0.000000e+00 5040.0
2 TraesCS5A01G443600 chr5D 95.359 237 5 3 15 249 499409477 499409709 4.540000e-99 372.0
3 TraesCS5A01G443600 chr5D 89.726 146 9 2 1406 1551 499410962 499411101 8.210000e-42 182.0
4 TraesCS5A01G443600 chr5B 92.253 3072 125 48 15 3052 620010342 620013334 0.000000e+00 4250.0
5 TraesCS5A01G443600 chr5B 90.421 428 23 5 3296 3723 620016108 620016517 7.030000e-152 547.0
6 TraesCS5A01G443600 chr5B 89.041 146 9 3 1406 1551 620011850 620011988 1.370000e-39 174.0
7 TraesCS5A01G443600 chr5B 93.333 75 5 0 3224 3298 620013338 620013412 1.090000e-20 111.0
8 TraesCS5A01G443600 chr6D 87.324 71 4 2 3308 3374 452957138 452957069 3.990000e-10 76.8


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 TraesCS5A01G443600 chr5A 623564471 623568193 3722 False 6876.000000 6876 100.000 1 3723 1 chr5A.!!$F1 3722
1 TraesCS5A01G443600 chr5D 499409477 499413124 3647 False 1864.666667 5040 92.796 15 3723 3 chr5D.!!$F1 3708
2 TraesCS5A01G443600 chr5B 620010342 620016517 6175 False 1270.500000 4250 91.262 15 3723 4 chr5B.!!$F1 3708

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
91 93 1.102978 ATTGCGGTCTTGTATTGCCC 58.897 50.0 0.0 0.0 0.0 5.36 F
1584 1602 0.396435 ACATGTTCTTCCAGACGCCA 59.604 50.0 0.0 0.0 0.0 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2078 2117 1.33008 GATAAATCAATGGCGCGCGC 61.330 55.0 44.4 44.40 41.06 6.86 R
3415 6162 0.04140 TTGTCGTTGATGCGCACAAG 60.041 50.0 14.9 12.63 32.61 3.16 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
91 93 1.102978 ATTGCGGTCTTGTATTGCCC 58.897 50.000 0.00 0.00 0.00 5.36
98 100 2.890945 GGTCTTGTATTGCCCAGTGTTT 59.109 45.455 0.00 0.00 0.00 2.83
99 101 4.076394 GGTCTTGTATTGCCCAGTGTTTA 58.924 43.478 0.00 0.00 0.00 2.01
204 206 3.554752 CCATGGGAATTGTTTGTGTGTCC 60.555 47.826 2.85 0.00 0.00 4.02
207 209 3.886505 TGGGAATTGTTTGTGTGTCCTAC 59.113 43.478 0.00 0.00 0.00 3.18
208 210 3.886505 GGGAATTGTTTGTGTGTCCTACA 59.113 43.478 0.00 0.00 36.82 2.74
391 394 4.865776 AGTCTTCACTTCGTTTCTCTCTG 58.134 43.478 0.00 0.00 0.00 3.35
408 411 9.736023 TTTCTCTCTGCATTTTCTTCTAAAAAC 57.264 29.630 0.00 0.00 31.35 2.43
604 607 2.025887 AGGACAGGTGAATCAACATCCC 60.026 50.000 15.40 6.41 31.51 3.85
620 623 2.244651 CCCGGCCGTCGATCAAATC 61.245 63.158 26.12 0.00 42.43 2.17
661 664 4.518970 CCAGCCTAGTTGACTTTGCTAAAA 59.481 41.667 6.74 0.00 32.64 1.52
662 665 5.009610 CCAGCCTAGTTGACTTTGCTAAAAA 59.990 40.000 6.74 0.00 32.64 1.94
713 716 5.185249 TCACTCTCGGCCTGAATATTATACC 59.815 44.000 0.00 0.00 0.00 2.73
932 935 5.005740 CCTTGTCCATCTCTTGATGTTCAA 58.994 41.667 5.48 8.32 46.38 2.69
936 939 2.679837 CCATCTCTTGATGTTCAACCCG 59.320 50.000 5.48 0.00 46.38 5.28
952 963 4.347292 TCAACCCGATCTAGACTAGAGCTA 59.653 45.833 22.00 0.00 38.99 3.32
953 964 5.013287 TCAACCCGATCTAGACTAGAGCTAT 59.987 44.000 22.00 4.80 38.99 2.97
976 987 2.170166 GATTCCATTGCACCACCAAGA 58.830 47.619 0.00 0.00 0.00 3.02
977 988 2.307496 TTCCATTGCACCACCAAGAT 57.693 45.000 0.00 0.00 0.00 2.40
978 989 2.307496 TCCATTGCACCACCAAGATT 57.693 45.000 0.00 0.00 0.00 2.40
979 990 1.894466 TCCATTGCACCACCAAGATTG 59.106 47.619 0.00 0.00 0.00 2.67
980 991 1.619827 CCATTGCACCACCAAGATTGT 59.380 47.619 0.00 0.00 0.00 2.71
981 992 2.824936 CCATTGCACCACCAAGATTGTA 59.175 45.455 0.00 0.00 0.00 2.41
1528 1546 1.142778 GCAGATCAACGGCTCGAGAC 61.143 60.000 18.75 13.93 36.79 3.36
1584 1602 0.396435 ACATGTTCTTCCAGACGCCA 59.604 50.000 0.00 0.00 0.00 5.69
1585 1603 1.202758 ACATGTTCTTCCAGACGCCAA 60.203 47.619 0.00 0.00 0.00 4.52
1644 1668 2.456119 CGTGCAGATCAACGGCTCC 61.456 63.158 7.49 0.00 40.20 4.70
1681 1705 2.507944 CGGCCAATCCTCCTCCTG 59.492 66.667 2.24 0.00 0.00 3.86
1723 1753 6.097270 TCAAATCCAATTCCACCATCAGATTC 59.903 38.462 0.00 0.00 0.00 2.52
1724 1754 3.902218 TCCAATTCCACCATCAGATTCC 58.098 45.455 0.00 0.00 0.00 3.01
1725 1755 2.620115 CCAATTCCACCATCAGATTCCG 59.380 50.000 0.00 0.00 0.00 4.30
1761 1800 1.045350 AGCAGCCGCAGAAGAGGATA 61.045 55.000 0.00 0.00 42.27 2.59
1809 1848 1.072331 AGCGACAACAAGAGGTTCCAT 59.928 47.619 0.00 0.00 37.72 3.41
2031 2070 3.788766 GCGCACAAAGCCGACGAT 61.789 61.111 0.30 0.00 41.38 3.73
2097 2136 1.330080 GCGCGCGCCATTGATTTATC 61.330 55.000 42.83 11.77 34.56 1.75
2100 2139 2.472886 CGCGCGCCATTGATTTATCTAG 60.473 50.000 27.72 0.59 0.00 2.43
2136 2179 4.084433 CGTGCGCCTTTACTTTACTTACAA 60.084 41.667 4.18 0.00 0.00 2.41
2232 2275 1.612463 GCCGATATACCTTCCGACAGT 59.388 52.381 0.00 0.00 0.00 3.55
2363 2406 8.296000 TGTTCATTGTTATGTAATGTCACCAAG 58.704 33.333 0.00 0.00 36.97 3.61
2499 2546 5.163814 GCTGAGTGAGACATTACAATTGGAC 60.164 44.000 10.83 0.00 0.00 4.02
2500 2547 5.863965 TGAGTGAGACATTACAATTGGACA 58.136 37.500 10.83 0.00 0.00 4.02
2501 2548 6.475504 TGAGTGAGACATTACAATTGGACAT 58.524 36.000 10.83 0.00 0.00 3.06
2502 2549 6.372381 TGAGTGAGACATTACAATTGGACATG 59.628 38.462 10.83 10.68 0.00 3.21
2503 2550 6.475504 AGTGAGACATTACAATTGGACATGA 58.524 36.000 10.83 0.00 0.00 3.07
2507 2554 7.281549 TGAGACATTACAATTGGACATGATCAG 59.718 37.037 10.83 0.00 0.00 2.90
2516 2563 5.966853 TTGGACATGATCAGGTGGTAATA 57.033 39.130 19.20 0.00 0.00 0.98
2552 2599 7.305474 GGTATGAAGTATGAACTTGTTGTTGG 58.695 38.462 0.00 0.00 46.09 3.77
2595 2642 3.465990 GCAGCAGCATCAAGGACTA 57.534 52.632 0.00 0.00 41.58 2.59
2646 2693 4.812476 CGACGCCGGGATGCTCAA 62.812 66.667 2.18 0.00 0.00 3.02
3002 3049 2.039818 TGCTTGTTTAACCACGGTGA 57.960 45.000 10.28 0.00 0.00 4.02
3006 3053 3.303791 GCTTGTTTAACCACGGTGAAGAG 60.304 47.826 10.28 0.00 0.00 2.85
3043 3090 3.769739 TTGTCCAGCTTGTCACATACT 57.230 42.857 0.00 0.00 0.00 2.12
3086 3133 2.492088 AGTAGACGTGCTGCTGTATGAA 59.508 45.455 7.86 0.00 38.22 2.57
3097 3144 5.105187 TGCTGCTGTATGAACAACTCTATCT 60.105 40.000 0.00 0.00 34.49 1.98
3112 3159 8.543774 ACAACTCTATCTATCAAGACACCAAAT 58.456 33.333 0.00 0.00 33.57 2.32
3131 3178 7.276218 CACCAAATCTTGCATTACAATTACAGG 59.724 37.037 0.00 0.00 37.72 4.00
3135 3182 7.944729 ATCTTGCATTACAATTACAGGAAGT 57.055 32.000 0.00 0.00 37.72 3.01
3141 3188 6.128117 GCATTACAATTACAGGAAGTCGGAAA 60.128 38.462 0.00 0.00 0.00 3.13
3157 3204 5.932883 AGTCGGAAACTAAAAACCTCATCTC 59.067 40.000 0.00 0.00 36.07 2.75
3188 3235 4.279145 TCCCTCTAGTGATCTAAACGCTT 58.721 43.478 0.00 0.00 0.00 4.68
3192 3239 6.476053 CCCTCTAGTGATCTAAACGCTTTTAC 59.524 42.308 0.00 0.00 0.00 2.01
3195 3242 8.630278 TCTAGTGATCTAAACGCTTTTACATC 57.370 34.615 4.61 4.61 0.00 3.06
3198 3245 7.324178 AGTGATCTAAACGCTTTTACATCTCT 58.676 34.615 10.73 9.65 29.07 3.10
3207 3254 4.267928 CGCTTTTACATCTCTTTACGGAGG 59.732 45.833 0.00 0.00 34.39 4.30
3212 3259 2.761208 ACATCTCTTTACGGAGGGAGTG 59.239 50.000 0.00 0.00 34.39 3.51
3285 3332 4.641989 ACATGACATGCCATCTTTCCTAAC 59.358 41.667 15.49 0.00 0.00 2.34
3294 3341 4.093556 GCCATCTTTCCTAACGTCAGAAAG 59.906 45.833 20.50 20.50 45.04 2.62
3329 6074 7.954248 GCACATATTATCATCGCAGAAACTAAG 59.046 37.037 0.00 0.00 43.58 2.18
3340 6085 4.676459 CGCAGAAACTAAGAGCTCATCTGA 60.676 45.833 17.77 0.00 38.67 3.27
3341 6086 4.566360 GCAGAAACTAAGAGCTCATCTGAC 59.434 45.833 17.77 10.80 38.67 3.51
3367 6114 5.764192 AGAGCTATTCAGAATTTCAGATGCC 59.236 40.000 0.00 0.00 0.00 4.40
3374 6121 5.610398 TCAGAATTTCAGATGCCGCTATTA 58.390 37.500 0.00 0.00 0.00 0.98
3394 6141 6.866179 ATTAGACGAACTAACGTGATGTTC 57.134 37.500 14.60 14.60 46.52 3.18
3405 6152 3.179830 ACGTGATGTTCAGCGTATCTTC 58.820 45.455 0.00 0.00 34.31 2.87
3411 6158 2.197577 GTTCAGCGTATCTTCTGGAGC 58.802 52.381 0.00 0.00 0.00 4.70
3413 6160 1.678627 TCAGCGTATCTTCTGGAGCTC 59.321 52.381 4.71 4.71 32.05 4.09
3414 6161 0.665835 AGCGTATCTTCTGGAGCTCG 59.334 55.000 7.83 0.00 0.00 5.03
3415 6162 0.937231 GCGTATCTTCTGGAGCTCGC 60.937 60.000 7.83 0.00 35.55 5.03
3524 6271 3.576078 AACTGTCATGAACCAACCAGA 57.424 42.857 13.87 0.00 0.00 3.86
3604 6351 1.043816 CAGTGGGATGGCGATCTACT 58.956 55.000 8.71 10.26 30.79 2.57
3605 6352 1.000283 CAGTGGGATGGCGATCTACTC 60.000 57.143 8.71 3.83 29.28 2.59
3662 6409 0.536460 AGCCAACTGTAAACCACCCG 60.536 55.000 0.00 0.00 0.00 5.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 8.494016 AGTACAACAATAGGATAAAAGTCTGC 57.506 34.615 0.00 0.00 0.00 4.26
91 93 7.538678 GTGCCATTTGATTAAGTCTAAACACTG 59.461 37.037 0.00 0.00 0.00 3.66
98 100 8.264347 TGTCATAGTGCCATTTGATTAAGTCTA 58.736 33.333 0.00 0.00 0.00 2.59
99 101 7.112122 TGTCATAGTGCCATTTGATTAAGTCT 58.888 34.615 0.00 0.00 0.00 3.24
204 206 2.534298 CAGCCGTCATCTCAAGTGTAG 58.466 52.381 0.00 0.00 0.00 2.74
207 209 0.247460 TCCAGCCGTCATCTCAAGTG 59.753 55.000 0.00 0.00 0.00 3.16
208 210 0.534412 CTCCAGCCGTCATCTCAAGT 59.466 55.000 0.00 0.00 0.00 3.16
269 272 1.399440 CACTGGCAGAATGGATCAACG 59.601 52.381 23.66 0.00 35.86 4.10
391 394 9.428097 AGATCAATGGTTTTTAGAAGAAAATGC 57.572 29.630 0.00 0.00 31.80 3.56
440 443 2.500504 CCTGGACCACTAGAAACCTACC 59.499 54.545 0.00 0.00 0.00 3.18
519 522 3.698040 AGCTGGTCAATTAAGCAATGGAG 59.302 43.478 0.00 0.00 39.47 3.86
550 553 7.993183 TCAAGGTCACACTATTTTTCTTCTTCT 59.007 33.333 0.00 0.00 0.00 2.85
551 554 8.154649 TCAAGGTCACACTATTTTTCTTCTTC 57.845 34.615 0.00 0.00 0.00 2.87
552 555 7.775561 ACTCAAGGTCACACTATTTTTCTTCTT 59.224 33.333 0.00 0.00 0.00 2.52
563 566 4.407621 TCCTTTTCACTCAAGGTCACACTA 59.592 41.667 0.00 0.00 41.59 2.74
661 664 6.152831 GGTGGAGCACTACCAGAATAATTTTT 59.847 38.462 11.78 0.00 45.23 1.94
662 665 5.652452 GGTGGAGCACTACCAGAATAATTTT 59.348 40.000 11.78 0.00 45.23 1.82
663 666 5.193679 GGTGGAGCACTACCAGAATAATTT 58.806 41.667 11.78 0.00 45.23 1.82
664 667 4.781934 GGTGGAGCACTACCAGAATAATT 58.218 43.478 11.78 0.00 45.23 1.40
665 668 4.423625 GGTGGAGCACTACCAGAATAAT 57.576 45.455 11.78 0.00 45.23 1.28
713 716 1.721487 CAGGAAGTAATTGGCGCGG 59.279 57.895 8.83 0.00 0.00 6.46
819 822 1.587043 GCCGGAGCAGGAAAAGGTTC 61.587 60.000 5.05 0.00 39.53 3.62
883 886 0.877071 AGAGTTTCACCATGCAAGCG 59.123 50.000 0.00 0.00 0.00 4.68
932 935 5.508280 AATAGCTCTAGTCTAGATCGGGT 57.492 43.478 10.06 7.19 33.66 5.28
936 939 9.019656 TGGAATCAAATAGCTCTAGTCTAGATC 57.980 37.037 10.06 6.34 33.66 2.75
952 963 2.905085 TGGTGGTGCAATGGAATCAAAT 59.095 40.909 0.00 0.00 0.00 2.32
953 964 2.323599 TGGTGGTGCAATGGAATCAAA 58.676 42.857 0.00 0.00 0.00 2.69
976 987 6.074648 TGGACAAAGAACCCAAGAATACAAT 58.925 36.000 0.00 0.00 0.00 2.71
977 988 5.450453 TGGACAAAGAACCCAAGAATACAA 58.550 37.500 0.00 0.00 0.00 2.41
978 989 5.055265 TGGACAAAGAACCCAAGAATACA 57.945 39.130 0.00 0.00 0.00 2.29
979 990 5.105756 CCATGGACAAAGAACCCAAGAATAC 60.106 44.000 5.56 0.00 33.15 1.89
980 991 5.016173 CCATGGACAAAGAACCCAAGAATA 58.984 41.667 5.56 0.00 33.15 1.75
981 992 3.834231 CCATGGACAAAGAACCCAAGAAT 59.166 43.478 5.56 0.00 33.15 2.40
1214 1229 4.143333 ACCTCGCAATCGGGTCGG 62.143 66.667 0.00 0.00 35.38 4.79
1239 1254 2.453054 GGGGGAGGGTGGTACTCA 59.547 66.667 0.00 0.00 36.70 3.41
1555 1573 2.616510 GGAAGAACATGTCCCTGTCTGG 60.617 54.545 0.00 0.00 0.00 3.86
1584 1602 2.379907 ACACCCACTCAAATCCAGGATT 59.620 45.455 9.12 9.12 33.25 3.01
1585 1603 1.995542 ACACCCACTCAAATCCAGGAT 59.004 47.619 0.00 0.00 0.00 3.24
1644 1668 3.882025 GGAGCTGCCGAAACTCTG 58.118 61.111 0.00 0.00 0.00 3.35
1681 1705 4.423209 AGGAGGAGGTGGAGGGGC 62.423 72.222 0.00 0.00 0.00 5.80
1761 1800 2.572812 CTCTGCTGCTGCTCGAGT 59.427 61.111 15.13 0.00 40.48 4.18
1935 1974 2.485814 GCTCATGTTGGTGAAGAAGGAC 59.514 50.000 0.00 0.00 0.00 3.85
2078 2117 1.330080 GATAAATCAATGGCGCGCGC 61.330 55.000 44.40 44.40 41.06 6.86
2082 2121 3.999663 AGAGCTAGATAAATCAATGGCGC 59.000 43.478 0.00 0.00 0.00 6.53
2083 2122 4.142945 GCAGAGCTAGATAAATCAATGGCG 60.143 45.833 0.00 0.00 0.00 5.69
2084 2123 4.155644 GGCAGAGCTAGATAAATCAATGGC 59.844 45.833 0.00 0.00 0.00 4.40
2085 2124 4.391216 CGGCAGAGCTAGATAAATCAATGG 59.609 45.833 0.00 0.00 0.00 3.16
2097 2136 1.227089 ACGCAATCGGCAGAGCTAG 60.227 57.895 0.00 0.00 45.17 3.42
2100 2139 4.527157 GCACGCAATCGGCAGAGC 62.527 66.667 0.00 0.00 45.17 4.09
2136 2179 2.288152 GCAAACCAACCAATCACACGAT 60.288 45.455 0.00 0.00 0.00 3.73
2232 2275 2.086869 CCGTACTTCCTCCACGAGTAA 58.913 52.381 0.00 0.00 37.89 2.24
2315 2358 4.672587 TGAGAGAGAGAGAGAGCTAGAC 57.327 50.000 0.00 0.00 0.00 2.59
2320 2363 3.947196 TGAACATGAGAGAGAGAGAGAGC 59.053 47.826 0.00 0.00 0.00 4.09
2321 2364 6.095860 ACAATGAACATGAGAGAGAGAGAGAG 59.904 42.308 0.00 0.00 0.00 3.20
2408 2455 4.054825 CGGTGCATGCCCACAACC 62.055 66.667 16.68 14.49 37.46 3.77
2469 2516 2.469274 ATGTCTCACTCAGCACCAAG 57.531 50.000 0.00 0.00 0.00 3.61
2499 2546 7.522725 GCCTGAATTTATTACCACCTGATCATG 60.523 40.741 0.00 0.00 0.00 3.07
2500 2547 6.491403 GCCTGAATTTATTACCACCTGATCAT 59.509 38.462 0.00 0.00 0.00 2.45
2501 2548 5.827797 GCCTGAATTTATTACCACCTGATCA 59.172 40.000 0.00 0.00 0.00 2.92
2502 2549 5.049405 CGCCTGAATTTATTACCACCTGATC 60.049 44.000 0.00 0.00 0.00 2.92
2503 2550 4.821805 CGCCTGAATTTATTACCACCTGAT 59.178 41.667 0.00 0.00 0.00 2.90
2507 2554 2.621526 CCCGCCTGAATTTATTACCACC 59.378 50.000 0.00 0.00 0.00 4.61
2516 2563 3.366052 ACTTCATACCCGCCTGAATTT 57.634 42.857 0.00 0.00 31.39 1.82
2552 2599 4.062991 CGGTAGTATCCCCTGCAATTAAC 58.937 47.826 0.00 0.00 0.00 2.01
3002 3049 5.421056 ACAATGCCATGAATTGTGATCTCTT 59.579 36.000 19.75 0.63 44.51 2.85
3006 3053 4.142116 TGGACAATGCCATGAATTGTGATC 60.142 41.667 23.36 15.53 45.81 2.92
3021 3068 4.005650 AGTATGTGACAAGCTGGACAATG 58.994 43.478 0.00 0.00 0.00 2.82
3043 3090 7.195374 ACTAGAACATTAGGCAAGGTCATAA 57.805 36.000 0.00 0.00 0.00 1.90
3086 3133 7.482169 TTGGTGTCTTGATAGATAGAGTTGT 57.518 36.000 0.00 0.00 31.86 3.32
3112 3159 6.092122 CGACTTCCTGTAATTGTAATGCAAGA 59.908 38.462 0.00 0.00 40.86 3.02
3131 3178 5.996669 TGAGGTTTTTAGTTTCCGACTTC 57.003 39.130 0.00 0.00 39.86 3.01
3135 3182 5.860611 TGAGATGAGGTTTTTAGTTTCCGA 58.139 37.500 0.00 0.00 0.00 4.55
3141 3188 8.196378 AGTACTTCTGAGATGAGGTTTTTAGT 57.804 34.615 2.06 0.00 0.00 2.24
3157 3204 5.690865 AGATCACTAGAGGGAGTACTTCTG 58.309 45.833 0.01 0.00 0.00 3.02
3188 3235 5.021458 ACTCCCTCCGTAAAGAGATGTAAA 58.979 41.667 0.00 0.00 35.82 2.01
3192 3239 2.482142 GCACTCCCTCCGTAAAGAGATG 60.482 54.545 0.00 0.00 35.82 2.90
3195 3242 0.175989 GGCACTCCCTCCGTAAAGAG 59.824 60.000 0.00 0.00 0.00 2.85
3198 3245 1.551883 GTTAGGCACTCCCTCCGTAAA 59.448 52.381 0.00 0.00 44.96 2.01
3207 3254 1.806623 CGCACCATAGTTAGGCACTCC 60.807 57.143 0.00 0.00 41.75 3.85
3212 3259 1.091537 TTTGCGCACCATAGTTAGGC 58.908 50.000 11.12 0.00 0.00 3.93
3285 3332 3.311322 TGTGCAACCTTTACTTTCTGACG 59.689 43.478 0.00 0.00 34.36 4.35
3294 3341 6.797033 GCGATGATAATATGTGCAACCTTTAC 59.203 38.462 0.00 0.00 34.36 2.01
3340 6085 7.201714 GCATCTGAAATTCTGAATAGCTCTTGT 60.202 37.037 6.66 0.00 0.00 3.16
3341 6086 7.133513 GCATCTGAAATTCTGAATAGCTCTTG 58.866 38.462 6.66 0.24 0.00 3.02
3367 6114 4.581493 TCACGTTAGTTCGTCTAATAGCG 58.419 43.478 0.00 7.58 42.27 4.26
3374 6121 4.227538 CTGAACATCACGTTAGTTCGTCT 58.772 43.478 15.55 0.00 43.36 4.18
3394 6141 1.599171 CGAGCTCCAGAAGATACGCTG 60.599 57.143 8.47 0.00 0.00 5.18
3414 6161 1.793613 GTCGTTGATGCGCACAAGC 60.794 57.895 14.90 4.89 37.71 4.01
3415 6162 0.041400 TTGTCGTTGATGCGCACAAG 60.041 50.000 14.90 12.63 32.61 3.16
3547 6294 0.810031 CGGCAGGCAGGTATGTACAC 60.810 60.000 0.00 0.00 0.00 2.90
3553 6300 0.394565 GAAGATCGGCAGGCAGGTAT 59.605 55.000 0.00 0.00 0.00 2.73
3558 6305 0.251121 TTTTGGAAGATCGGCAGGCA 60.251 50.000 0.00 0.00 0.00 4.75
3604 6351 2.125391 CAGCAGCTTAGCAGGCGA 60.125 61.111 7.07 0.00 36.50 5.54
3605 6352 3.873883 GCAGCAGCTTAGCAGGCG 61.874 66.667 7.07 7.52 36.50 5.52
3662 6409 5.173854 GTCAATGTTTTGCAGCTACTTGTTC 59.826 40.000 0.00 0.00 32.61 3.18


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

AutoCloner maintained by Alex Coulton.