Multiple sequence alignment - TraesCS6A01G089200

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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 TraesCS6A01G089200 chr6A 100.000 2857 0 0 1 2857 57693373 57690517 0 5276
1 TraesCS6A01G089200 chrUn 93.276 2885 132 34 3 2857 19242872 19245724 0 4196
2 TraesCS6A01G089200 chr6B 94.318 1408 65 9 1458 2857 93435593 93434193 0 2143
3 TraesCS6A01G089200 chr6B 89.388 1357 114 11 116 1457 93436973 93435632 0 1681


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 TraesCS6A01G089200 chr6A 57690517 57693373 2856 True 5276 5276 100.000 1 2857 1 chr6A.!!$R1 2856
1 TraesCS6A01G089200 chrUn 19242872 19245724 2852 False 4196 4196 93.276 3 2857 1 chrUn.!!$F1 2854
2 TraesCS6A01G089200 chr6B 93434193 93436973 2780 True 1912 2143 91.853 116 2857 2 chr6B.!!$R1 2741

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
49 50 0.107703 GGCACAAGATCATCGGGTGA 60.108 55.0 13.91 0.00 42.06 4.02 F
100 101 0.323360 TTTGCATGGCCTAGGTCACC 60.323 55.0 20.74 13.53 30.16 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1685 1767 0.543277 TCTTCTTGGCGATGATGGCT 59.457 50.000 0.0 0.0 35.06 4.75 R
2059 2142 7.864379 GCATATCACATATGGAAGAAAACAAGG 59.136 37.037 7.8 0.0 42.23 3.61 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
47 48 0.179000 GAGGCACAAGATCATCGGGT 59.821 55.000 0.00 0.00 0.00 5.28
49 50 0.107703 GGCACAAGATCATCGGGTGA 60.108 55.000 13.91 0.00 42.06 4.02
67 68 3.193479 GGTGAAAATTAAGGTGAGCCCAG 59.807 47.826 0.00 0.00 34.66 4.45
69 70 4.079253 TGAAAATTAAGGTGAGCCCAGTC 58.921 43.478 0.00 0.00 34.66 3.51
73 74 0.830444 TAAGGTGAGCCCAGTCGTGT 60.830 55.000 0.00 0.00 34.66 4.49
78 79 1.448540 GAGCCCAGTCGTGTCCATG 60.449 63.158 0.00 0.00 0.00 3.66
83 84 1.953686 CCCAGTCGTGTCCATGTTTTT 59.046 47.619 0.00 0.00 0.00 1.94
95 96 2.896168 CATGTTTTTGCATGGCCTAGG 58.104 47.619 3.67 3.67 41.70 3.02
96 97 2.008242 TGTTTTTGCATGGCCTAGGT 57.992 45.000 11.31 0.00 0.00 3.08
97 98 1.892474 TGTTTTTGCATGGCCTAGGTC 59.108 47.619 6.37 6.37 0.00 3.85
98 99 1.892474 GTTTTTGCATGGCCTAGGTCA 59.108 47.619 20.57 20.57 0.00 4.02
99 100 1.544724 TTTTGCATGGCCTAGGTCAC 58.455 50.000 20.74 7.73 30.16 3.67
100 101 0.323360 TTTGCATGGCCTAGGTCACC 60.323 55.000 20.74 13.53 30.16 4.02
101 102 1.207488 TTGCATGGCCTAGGTCACCT 61.207 55.000 20.74 0.00 37.71 4.00
102 103 0.326143 TGCATGGCCTAGGTCACCTA 60.326 55.000 20.74 2.74 34.61 3.08
103 104 0.837272 GCATGGCCTAGGTCACCTAA 59.163 55.000 20.74 0.00 35.49 2.69
104 105 1.202698 GCATGGCCTAGGTCACCTAAG 60.203 57.143 20.74 7.69 35.49 2.18
105 106 1.417890 CATGGCCTAGGTCACCTAAGG 59.582 57.143 20.74 9.69 35.49 2.69
106 107 0.416231 TGGCCTAGGTCACCTAAGGT 59.584 55.000 13.40 0.00 35.49 3.50
107 108 1.203389 TGGCCTAGGTCACCTAAGGTT 60.203 52.381 13.40 0.00 35.49 3.50
108 109 1.914108 GGCCTAGGTCACCTAAGGTTT 59.086 52.381 9.01 0.00 35.49 3.27
109 110 3.109928 GGCCTAGGTCACCTAAGGTTTA 58.890 50.000 9.01 0.00 35.49 2.01
110 111 3.715315 GGCCTAGGTCACCTAAGGTTTAT 59.285 47.826 9.01 0.00 35.49 1.40
111 112 4.903649 GGCCTAGGTCACCTAAGGTTTATA 59.096 45.833 9.01 0.00 35.49 0.98
112 113 5.367644 GGCCTAGGTCACCTAAGGTTTATAA 59.632 44.000 9.01 0.00 35.49 0.98
113 114 6.286758 GCCTAGGTCACCTAAGGTTTATAAC 58.713 44.000 11.31 0.00 35.49 1.89
114 115 6.099413 GCCTAGGTCACCTAAGGTTTATAACT 59.901 42.308 11.31 0.00 35.49 2.24
157 164 8.675705 AAATGATATGATACCGTCATTGAACA 57.324 30.769 1.72 0.00 45.25 3.18
169 176 2.880268 TCATTGAACAGTGACAAGCAGG 59.120 45.455 0.00 0.00 0.00 4.85
171 178 1.159713 TGAACAGTGACAAGCAGGCG 61.160 55.000 0.00 0.00 0.00 5.52
222 231 3.495331 AGCTCTTCTGAGTTCTGACAGA 58.505 45.455 0.00 0.00 42.13 3.41
288 297 6.982141 AGTACAACGACTTGTATCAAAACTGA 59.018 34.615 2.39 0.00 43.31 3.41
292 301 8.188139 ACAACGACTTGTATCAAAACTGAAATT 58.812 29.630 0.00 0.00 38.95 1.82
334 344 8.253810 TCCATCTTCTAATTCAAGTGTCTACAG 58.746 37.037 0.00 0.00 0.00 2.74
335 345 7.010923 CCATCTTCTAATTCAAGTGTCTACAGC 59.989 40.741 0.00 0.00 0.00 4.40
338 348 6.346477 TCTAATTCAAGTGTCTACAGCTGT 57.654 37.500 25.12 25.12 0.00 4.40
375 385 5.940470 GGAACTCAGAACATAAACAGATGGT 59.060 40.000 0.00 0.00 0.00 3.55
480 490 3.044986 GCAAAAGCATATACATGTGCCG 58.955 45.455 9.11 0.00 44.71 5.69
505 515 2.131183 GCACGTCTAGCATCATCCTTC 58.869 52.381 0.00 0.00 0.00 3.46
511 521 4.379394 CGTCTAGCATCATCCTTCTAGCTC 60.379 50.000 0.00 0.00 33.83 4.09
518 528 2.037901 CATCCTTCTAGCTCAGCTCCA 58.962 52.381 0.00 0.00 40.44 3.86
520 530 2.756907 TCCTTCTAGCTCAGCTCCATT 58.243 47.619 0.00 0.00 40.44 3.16
530 540 3.065095 GCTCAGCTCCATTTTCTGCTAAG 59.935 47.826 0.00 0.00 34.10 2.18
554 564 8.273780 AGAAGCAATGTTAGAAGTTAGAATGG 57.726 34.615 0.00 0.00 0.00 3.16
660 690 1.610522 GCAGCCACACATTCTTTCAGT 59.389 47.619 0.00 0.00 0.00 3.41
661 691 2.606308 GCAGCCACACATTCTTTCAGTG 60.606 50.000 0.00 0.00 39.12 3.66
664 694 3.904136 CCACACATTCTTTCAGTGGTC 57.096 47.619 0.00 0.00 43.57 4.02
668 698 1.697432 ACATTCTTTCAGTGGTCGGGA 59.303 47.619 0.00 0.00 0.00 5.14
669 699 2.289694 ACATTCTTTCAGTGGTCGGGAG 60.290 50.000 0.00 0.00 0.00 4.30
715 747 3.821033 GTGCAGAACATTCTTTAGGTGGT 59.179 43.478 0.00 0.00 34.74 4.16
733 765 5.246429 AGGTGGTAAGAGAAACTAGACCTTG 59.754 44.000 0.00 0.00 36.37 3.61
763 797 2.230660 GCAGAAACCCAACTAGCAACT 58.769 47.619 0.00 0.00 0.00 3.16
768 802 3.577805 AACCCAACTAGCAACTGAGTT 57.422 42.857 0.00 0.00 36.31 3.01
769 803 3.577805 ACCCAACTAGCAACTGAGTTT 57.422 42.857 0.00 0.00 33.60 2.66
928 962 2.991250 TGCATTCCCTTAGTTCTCTGC 58.009 47.619 0.00 0.00 0.00 4.26
1029 1065 3.280295 TCCCTTCAGTGCGTTAAACAAA 58.720 40.909 0.00 0.00 0.00 2.83
1310 1353 3.686726 CGAATTCTGCAAGTAAGCTTCCT 59.313 43.478 0.00 0.00 31.49 3.36
1311 1354 4.154918 CGAATTCTGCAAGTAAGCTTCCTT 59.845 41.667 0.00 0.00 31.49 3.36
1312 1355 5.635417 AATTCTGCAAGTAAGCTTCCTTC 57.365 39.130 0.00 0.00 31.49 3.46
1313 1356 3.059352 TCTGCAAGTAAGCTTCCTTCC 57.941 47.619 0.00 0.00 31.49 3.46
1334 1377 3.243501 CCTGTTTGTGCAGTTATGTTGCT 60.244 43.478 0.00 0.00 42.02 3.91
1363 1407 0.972883 TGTGCCCAACCTTTTATGCC 59.027 50.000 0.00 0.00 0.00 4.40
1368 1412 2.807676 CCCAACCTTTTATGCCTGTCT 58.192 47.619 0.00 0.00 0.00 3.41
1380 1424 7.707624 TTTATGCCTGTCTTCATCTGAAAAT 57.292 32.000 0.00 0.00 33.07 1.82
1384 1428 4.082354 GCCTGTCTTCATCTGAAAATGCTT 60.082 41.667 0.00 0.00 33.07 3.91
1439 1483 0.612732 TTGATACTCCGGACCGTGGT 60.613 55.000 13.94 13.04 0.00 4.16
2007 2090 5.860941 TCCTTTTGTTGTTCAAATAGCCA 57.139 34.783 0.00 0.00 44.15 4.75
2059 2142 5.229921 TCAAGTTTGTCACAGTTTGCTAC 57.770 39.130 0.00 0.00 0.00 3.58
2060 2143 4.095782 TCAAGTTTGTCACAGTTTGCTACC 59.904 41.667 0.00 0.00 0.00 3.18
2333 2421 7.007456 CGCTACAAGAAAGCTAATTTTAAGTGC 59.993 37.037 0.00 0.00 37.85 4.40
2335 2423 6.966021 ACAAGAAAGCTAATTTTAAGTGCGA 58.034 32.000 0.00 0.00 0.00 5.10
2349 2437 3.404978 TGCGATGCAAATCAAGCAC 57.595 47.368 0.00 0.00 45.95 4.40
2358 2446 3.243670 TGCAAATCAAGCACGGAATCAAA 60.244 39.130 0.00 0.00 37.02 2.69
2359 2447 3.121778 GCAAATCAAGCACGGAATCAAAC 59.878 43.478 0.00 0.00 0.00 2.93
2361 2449 4.582701 AATCAAGCACGGAATCAAACAA 57.417 36.364 0.00 0.00 0.00 2.83
2362 2450 4.582701 ATCAAGCACGGAATCAAACAAA 57.417 36.364 0.00 0.00 0.00 2.83
2363 2451 4.377839 TCAAGCACGGAATCAAACAAAA 57.622 36.364 0.00 0.00 0.00 2.44
2364 2452 4.109050 TCAAGCACGGAATCAAACAAAAC 58.891 39.130 0.00 0.00 0.00 2.43
2383 2471 8.770438 ACAAAACATGTTGCTTAAGAAAGAAA 57.230 26.923 12.82 0.00 40.06 2.52
2384 2472 9.382275 ACAAAACATGTTGCTTAAGAAAGAAAT 57.618 25.926 12.82 0.00 40.06 2.17
2427 2515 0.319405 AGGCAGCTGAAATGCAAACC 59.681 50.000 20.43 5.42 45.68 3.27
2446 2534 3.846360 ACCGAGGAGAAGTAATTTCGTG 58.154 45.455 0.00 0.00 40.86 4.35
2527 2616 3.070446 AGAACAATCAGACCACCACGTTA 59.930 43.478 0.00 0.00 0.00 3.18
2583 2672 5.994250 TCAATGCCTCTGAATTAAGCTAGT 58.006 37.500 0.00 0.00 0.00 2.57
2656 2745 6.264067 GCCTATTCTCTCTGGCAAAACATATT 59.736 38.462 0.00 0.00 44.34 1.28
2657 2746 7.521261 GCCTATTCTCTCTGGCAAAACATATTC 60.521 40.741 0.00 0.00 44.34 1.75
2662 2752 9.466497 TTCTCTCTGGCAAAACATATTCTATTT 57.534 29.630 0.00 0.00 0.00 1.40
2695 2785 3.426615 AGACGAGAACACAGAGAGGAAT 58.573 45.455 0.00 0.00 0.00 3.01
2696 2786 3.192422 AGACGAGAACACAGAGAGGAATG 59.808 47.826 0.00 0.00 0.00 2.67
2709 2799 0.252197 AGGAATGTCTGTTACGGCCC 59.748 55.000 0.00 0.00 0.00 5.80
2721 2811 0.540830 TACGGCCCCAAGTTTGCAAT 60.541 50.000 0.00 0.00 0.00 3.56
2742 2832 2.977580 TCCTAGGAGCTCAGGATACGTA 59.022 50.000 16.86 0.00 46.39 3.57
2778 2868 3.438087 CCTTGCAATAGAACAGTCACTGG 59.562 47.826 10.28 0.00 35.51 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 9.793252 GCAAGATTACACTTCAAATATTGTGAT 57.207 29.630 9.85 0.00 36.90 3.06
1 2 9.013229 AGCAAGATTACACTTCAAATATTGTGA 57.987 29.630 9.85 4.10 36.90 3.58
10 11 3.753272 GCCTCAGCAAGATTACACTTCAA 59.247 43.478 0.00 0.00 39.53 2.69
40 41 4.438744 GCTCACCTTAATTTTCACCCGATG 60.439 45.833 0.00 0.00 0.00 3.84
47 48 4.079253 GACTGGGCTCACCTTAATTTTCA 58.921 43.478 0.00 0.00 41.11 2.69
49 50 3.081804 CGACTGGGCTCACCTTAATTTT 58.918 45.455 0.00 0.00 41.11 1.82
67 68 2.483583 TGCAAAAACATGGACACGAC 57.516 45.000 0.00 0.00 0.00 4.34
78 79 1.892474 TGACCTAGGCCATGCAAAAAC 59.108 47.619 9.30 0.00 0.00 2.43
83 84 0.326143 TAGGTGACCTAGGCCATGCA 60.326 55.000 7.39 0.00 34.61 3.96
91 92 8.414778 CAGAGTTATAAACCTTAGGTGACCTAG 58.585 40.741 11.73 3.91 37.42 3.02
92 93 7.147776 GCAGAGTTATAAACCTTAGGTGACCTA 60.148 40.741 7.39 7.39 35.34 3.08
93 94 6.351966 GCAGAGTTATAAACCTTAGGTGACCT 60.352 42.308 10.00 10.00 35.34 3.85
94 95 5.816258 GCAGAGTTATAAACCTTAGGTGACC 59.184 44.000 3.99 0.00 35.34 4.02
95 96 6.403878 TGCAGAGTTATAAACCTTAGGTGAC 58.596 40.000 3.99 0.00 35.34 3.67
96 97 6.614694 TGCAGAGTTATAAACCTTAGGTGA 57.385 37.500 3.99 0.00 35.34 4.02
97 98 7.103641 TCTTGCAGAGTTATAAACCTTAGGTG 58.896 38.462 3.99 0.00 35.34 4.00
98 99 7.253905 TCTTGCAGAGTTATAAACCTTAGGT 57.746 36.000 0.00 0.00 37.65 3.08
99 100 8.616076 CATTCTTGCAGAGTTATAAACCTTAGG 58.384 37.037 0.00 0.00 0.00 2.69
100 101 9.383519 TCATTCTTGCAGAGTTATAAACCTTAG 57.616 33.333 0.00 0.00 0.00 2.18
101 102 9.733556 TTCATTCTTGCAGAGTTATAAACCTTA 57.266 29.630 0.00 0.00 0.00 2.69
102 103 8.515414 GTTCATTCTTGCAGAGTTATAAACCTT 58.485 33.333 0.00 0.00 0.00 3.50
103 104 7.665559 TGTTCATTCTTGCAGAGTTATAAACCT 59.334 33.333 0.00 0.00 0.00 3.50
104 105 7.816640 TGTTCATTCTTGCAGAGTTATAAACC 58.183 34.615 0.00 0.00 0.00 3.27
110 111 9.844790 CATTTTATGTTCATTCTTGCAGAGTTA 57.155 29.630 0.00 0.00 0.00 2.24
111 112 8.579006 TCATTTTATGTTCATTCTTGCAGAGTT 58.421 29.630 0.00 0.00 0.00 3.01
112 113 8.114331 TCATTTTATGTTCATTCTTGCAGAGT 57.886 30.769 0.00 0.00 0.00 3.24
157 164 4.291047 CATCGCCTGCTTGTCACT 57.709 55.556 0.00 0.00 0.00 3.41
288 297 5.258051 TGGATCGGGCACTTTAGTAAATTT 58.742 37.500 0.00 0.00 0.00 1.82
292 301 3.709653 AGATGGATCGGGCACTTTAGTAA 59.290 43.478 0.00 0.00 0.00 2.24
334 344 1.024271 TCCAAGAAACAGCACACAGC 58.976 50.000 0.00 0.00 46.19 4.40
335 345 2.684881 AGTTCCAAGAAACAGCACACAG 59.315 45.455 0.00 0.00 0.00 3.66
338 348 2.945008 CTGAGTTCCAAGAAACAGCACA 59.055 45.455 0.00 0.00 0.00 4.57
375 385 9.284968 CTGTTTCCCTTTTATGTCTTTTAGAGA 57.715 33.333 0.00 0.00 0.00 3.10
480 490 2.010145 TGATGCTAGACGTGCTTTCC 57.990 50.000 0.00 0.00 0.00 3.13
505 515 2.613133 GCAGAAAATGGAGCTGAGCTAG 59.387 50.000 7.08 0.00 39.88 3.42
511 521 4.438472 GCTTCTTAGCAGAAAATGGAGCTG 60.438 45.833 0.00 0.00 46.95 4.24
530 540 8.045176 ACCATTCTAACTTCTAACATTGCTTC 57.955 34.615 0.00 0.00 0.00 3.86
563 573 7.602644 TCAAAAGCTCAAGTTATGGTAGTGTAG 59.397 37.037 0.00 0.00 0.00 2.74
660 690 0.041535 TAACTTAGGCCTCCCGACCA 59.958 55.000 9.68 0.00 35.76 4.02
661 691 0.463204 GTAACTTAGGCCTCCCGACC 59.537 60.000 9.68 0.00 35.76 4.79
678 710 6.477253 TGTTCTGCACATAATTTACCAGGTA 58.523 36.000 0.00 0.00 0.00 3.08
712 744 5.245526 GGTCAAGGTCTAGTTTCTCTTACCA 59.754 44.000 0.00 0.00 35.04 3.25
715 747 5.652324 AGGGTCAAGGTCTAGTTTCTCTTA 58.348 41.667 0.00 0.00 0.00 2.10
733 765 2.802719 TGGGTTTCTGCAATAAGGGTC 58.197 47.619 0.00 0.00 0.00 4.46
928 962 6.017275 AGGGAACTCGAGTGTTTATATAGTCG 60.017 42.308 20.85 1.62 39.02 4.18
1029 1065 7.784470 ACTGAGACTTGAGAACTTACCTAAT 57.216 36.000 0.00 0.00 0.00 1.73
1165 1208 1.193426 GAGAAGAACGACAGCACAAGC 59.807 52.381 0.00 0.00 42.56 4.01
1208 1251 6.036735 CGATCATAAACTTGTCCGGTTGTTAT 59.963 38.462 0.00 0.00 0.00 1.89
1310 1353 4.736168 GCAACATAACTGCACAAACAGGAA 60.736 41.667 0.00 0.00 42.21 3.36
1311 1354 3.243367 GCAACATAACTGCACAAACAGGA 60.243 43.478 0.00 0.00 42.21 3.86
1312 1355 3.052036 GCAACATAACTGCACAAACAGG 58.948 45.455 0.00 0.00 42.21 4.00
1313 1356 3.968649 AGCAACATAACTGCACAAACAG 58.031 40.909 0.00 0.00 42.48 3.16
1350 1393 5.416952 AGATGAAGACAGGCATAAAAGGTTG 59.583 40.000 0.00 0.00 0.00 3.77
1363 1407 7.094463 ACCTAAAGCATTTTCAGATGAAGACAG 60.094 37.037 0.00 0.00 40.09 3.51
1380 1424 5.825679 ACACAGTGTTGAAATACCTAAAGCA 59.174 36.000 0.00 0.00 0.00 3.91
1439 1483 4.277672 CGAATCGGGTTTACCTCTAGATCA 59.722 45.833 0.00 0.00 36.97 2.92
1591 1673 6.159293 TGCATATACTCGATGAACATCTTCC 58.841 40.000 12.05 0.00 35.72 3.46
1685 1767 0.543277 TCTTCTTGGCGATGATGGCT 59.457 50.000 0.00 0.00 35.06 4.75
1956 2039 9.806448 ATGTATATTTAACCCATGACTTGCATA 57.194 29.630 0.00 0.00 34.82 3.14
2007 2090 7.920160 TTTCAAACTTTGCTTTCTTTCCATT 57.080 28.000 0.00 0.00 0.00 3.16
2059 2142 7.864379 GCATATCACATATGGAAGAAAACAAGG 59.136 37.037 7.80 0.00 42.23 3.61
2060 2143 7.864379 GGCATATCACATATGGAAGAAAACAAG 59.136 37.037 7.80 0.00 42.23 3.16
2333 2421 0.447406 TCCGTGCTTGATTTGCATCG 59.553 50.000 0.00 0.00 42.69 3.84
2335 2423 2.492881 TGATTCCGTGCTTGATTTGCAT 59.507 40.909 0.00 0.00 42.69 3.96
2349 2437 4.507388 AGCAACATGTTTTGTTTGATTCCG 59.493 37.500 8.77 0.00 46.51 4.30
2358 2446 8.770438 TTTCTTTCTTAAGCAACATGTTTTGT 57.230 26.923 8.77 0.00 41.53 2.83
2363 2451 9.846248 GTGATATTTCTTTCTTAAGCAACATGT 57.154 29.630 0.00 0.00 0.00 3.21
2364 2452 9.294030 GGTGATATTTCTTTCTTAAGCAACATG 57.706 33.333 0.00 0.00 0.00 3.21
2383 2471 6.989759 TGTATGCTATGTTTTCACGGTGATAT 59.010 34.615 12.26 7.19 0.00 1.63
2384 2472 6.342111 TGTATGCTATGTTTTCACGGTGATA 58.658 36.000 12.26 4.23 0.00 2.15
2385 2473 5.182487 TGTATGCTATGTTTTCACGGTGAT 58.818 37.500 12.26 0.00 0.00 3.06
2427 2515 4.482386 TGTCACGAAATTACTTCTCCTCG 58.518 43.478 0.00 0.00 31.20 4.63
2446 2534 8.316640 AGTATCATTCTGTGAAAGTTCTTGTC 57.683 34.615 0.00 0.00 40.97 3.18
2504 2592 2.158813 ACGTGGTGGTCTGATTGTTCTT 60.159 45.455 0.00 0.00 0.00 2.52
2527 2616 7.092716 GTGGTTTGTGCTCTCATTGAAATATT 58.907 34.615 0.00 0.00 0.00 1.28
2583 2672 5.354767 CAGATCATGAGCTTAGCACTTGTA 58.645 41.667 11.61 0.38 0.00 2.41
2662 2752 7.655732 TCTGTGTTCTCGTCTAAATTTGATTGA 59.344 33.333 0.00 0.00 0.00 2.57
2677 2767 3.192422 AGACATTCCTCTCTGTGTTCTCG 59.808 47.826 0.00 0.00 0.00 4.04
2695 2785 1.373435 CTTGGGGCCGTAACAGACA 59.627 57.895 0.00 0.00 0.00 3.41
2696 2786 0.250597 AACTTGGGGCCGTAACAGAC 60.251 55.000 0.00 0.00 0.00 3.51
2709 2799 2.424956 GCTCCTAGGATTGCAAACTTGG 59.575 50.000 13.12 20.91 0.00 3.61
2721 2811 1.775459 ACGTATCCTGAGCTCCTAGGA 59.225 52.381 21.59 21.59 46.43 2.94
2739 2829 5.172934 TGCAAGGATAACTAACAACCTACG 58.827 41.667 0.00 0.00 0.00 3.51
2742 2832 7.630082 TCTATTGCAAGGATAACTAACAACCT 58.370 34.615 4.94 0.00 29.95 3.50
2778 2868 1.886542 CAGGGGAAAGTAACAACAGCC 59.113 52.381 0.00 0.00 0.00 4.85


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

AutoCloner maintained by Alex Coulton.