Multiple sequence alignment - TraesCS7B01G227000

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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 TraesCS7B01G227000 chr7B 100.000 3936 0 0 1 3936 427305516 427301581 0.000000e+00 7269
1 TraesCS7B01G227000 chr7B 91.129 124 11 0 654 777 517901171 517901294 6.760000e-38 169
2 TraesCS7B01G227000 chr7A 92.375 3751 158 46 223 3936 474298654 474294995 0.000000e+00 5225
3 TraesCS7B01G227000 chr7A 92.444 225 5 4 2 220 474298929 474298711 1.060000e-80 311
4 TraesCS7B01G227000 chr7D 94.315 2920 121 27 217 3113 412888118 412885221 0.000000e+00 4431
5 TraesCS7B01G227000 chr7D 95.789 760 24 4 3185 3936 412885216 412884457 0.000000e+00 1219
6 TraesCS7B01G227000 chr7D 95.475 221 5 2 5 220 412888410 412888190 8.090000e-92 348
7 TraesCS7B01G227000 chr1B 72.661 823 152 48 2147 2937 491983447 491982666 5.160000e-49 206
8 TraesCS7B01G227000 chr1A 77.657 367 61 14 2571 2937 466927706 466927361 1.850000e-48 204
9 TraesCS7B01G227000 chr1D 73.077 702 132 40 2259 2937 367429844 367429177 3.100000e-46 196
10 TraesCS7B01G227000 chr6B 91.129 124 11 0 654 777 138632187 138632310 6.760000e-38 169
11 TraesCS7B01G227000 chr6B 89.516 124 13 0 654 777 138656920 138657043 1.460000e-34 158
12 TraesCS7B01G227000 chrUn 90.323 124 12 0 654 777 194986370 194986247 3.150000e-36 163
13 TraesCS7B01G227000 chr4B 87.500 128 16 0 2571 2698 126597716 126597589 8.810000e-32 148
14 TraesCS7B01G227000 chr4A 87.500 128 16 0 2571 2698 502028245 502028118 8.810000e-32 148
15 TraesCS7B01G227000 chr3A 88.095 126 14 1 2562 2686 627864865 627864990 8.810000e-32 148
16 TraesCS7B01G227000 chr4D 86.923 130 17 0 2571 2700 89537823 89537694 3.170000e-31 147


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 TraesCS7B01G227000 chr7B 427301581 427305516 3935 True 7269.000000 7269 100.0000 1 3936 1 chr7B.!!$R1 3935
1 TraesCS7B01G227000 chr7A 474294995 474298929 3934 True 2768.000000 5225 92.4095 2 3936 2 chr7A.!!$R1 3934
2 TraesCS7B01G227000 chr7D 412884457 412888410 3953 True 1999.333333 4431 95.1930 5 3936 3 chr7D.!!$R1 3931
3 TraesCS7B01G227000 chr1B 491982666 491983447 781 True 206.000000 206 72.6610 2147 2937 1 chr1B.!!$R1 790

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
301 387 0.316204 CCTCCACTTTTTGCAGCAGG 59.684 55.000 0.00 0.00 0.00 4.85 F
584 689 0.391661 GCCGTGTGACATGATCAGGT 60.392 55.000 13.77 13.77 38.28 4.00 F
1023 1129 1.153449 TTTCCGCAGCATAGTCCGG 60.153 57.895 0.00 0.00 41.97 5.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2293 2421 0.392461 GCTCGTAATTCACCTGGGCA 60.392 55.000 0.0 0.0 0.0 5.36 R
2545 2694 0.105964 CCCCATCTTCCTCCTCTCGA 60.106 60.000 0.0 0.0 0.0 4.04 R
2946 3107 1.668751 CGTAAACACTTGTGCCACTGT 59.331 47.619 0.0 0.0 0.0 3.55 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
184 190 1.658102 GAGAGATCGCTCGCTGCTG 60.658 63.158 10.86 0.00 45.98 4.41
185 191 2.657944 GAGATCGCTCGCTGCTGG 60.658 66.667 0.00 0.00 40.11 4.85
186 192 4.887987 AGATCGCTCGCTGCTGGC 62.888 66.667 0.00 0.70 40.11 4.85
220 232 1.045911 GTTGGGATCTCCTCTCCGCT 61.046 60.000 0.00 0.00 36.20 5.52
221 233 0.757188 TTGGGATCTCCTCTCCGCTC 60.757 60.000 0.00 0.00 36.20 5.03
233 317 1.380515 TCCGCTCCTCCTCCTTCAG 60.381 63.158 0.00 0.00 0.00 3.02
299 385 1.774110 TTCCTCCACTTTTTGCAGCA 58.226 45.000 0.00 0.00 0.00 4.41
301 387 0.316204 CCTCCACTTTTTGCAGCAGG 59.684 55.000 0.00 0.00 0.00 4.85
306 392 1.068127 CACTTTTTGCAGCAGGCTTCT 59.932 47.619 0.00 0.00 45.15 2.85
308 394 2.555757 ACTTTTTGCAGCAGGCTTCTAG 59.444 45.455 0.00 0.00 45.15 2.43
309 395 0.883833 TTTTGCAGCAGGCTTCTAGC 59.116 50.000 0.00 0.00 45.15 3.42
312 398 0.832626 TGCAGCAGGCTTCTAGCATA 59.167 50.000 7.05 0.00 44.75 3.14
323 414 6.206243 CAGGCTTCTAGCATATAAGTTTGCAT 59.794 38.462 0.67 0.00 44.75 3.96
422 514 6.878923 TCCATTTCACAACATAGAAGTACAGG 59.121 38.462 0.00 0.00 0.00 4.00
473 565 3.118629 CCTGCCACAGTAGCAAAGAGATA 60.119 47.826 0.00 0.00 40.35 1.98
535 640 4.513318 GGTCAAACTTTGTTCCTCTGAGAG 59.487 45.833 6.17 1.57 0.00 3.20
576 681 2.042259 CATGCCTGCCGTGTGACAT 61.042 57.895 0.00 0.00 0.00 3.06
580 685 1.709147 GCCTGCCGTGTGACATGATC 61.709 60.000 6.33 0.00 0.00 2.92
584 689 0.391661 GCCGTGTGACATGATCAGGT 60.392 55.000 13.77 13.77 38.28 4.00
585 690 1.945819 GCCGTGTGACATGATCAGGTT 60.946 52.381 15.12 0.00 38.28 3.50
586 691 2.426522 CCGTGTGACATGATCAGGTTT 58.573 47.619 15.12 0.00 38.28 3.27
587 692 3.595173 CCGTGTGACATGATCAGGTTTA 58.405 45.455 15.12 4.42 38.28 2.01
771 876 4.870426 TCGAGACTATTCAAACCAGAATGC 59.130 41.667 0.00 0.00 38.60 3.56
815 920 3.502979 AGTAATCTCTAGTCCGCGATTCC 59.497 47.826 8.23 0.00 0.00 3.01
826 931 5.068636 AGTCCGCGATTCCTTAGTCTATAA 58.931 41.667 8.23 0.00 0.00 0.98
828 933 5.048852 GTCCGCGATTCCTTAGTCTATAAGT 60.049 44.000 8.23 0.00 0.00 2.24
831 936 4.924462 GCGATTCCTTAGTCTATAAGTGCC 59.076 45.833 0.00 0.00 0.00 5.01
841 946 5.914033 AGTCTATAAGTGCCGATTGCTTTA 58.086 37.500 0.00 0.00 42.00 1.85
843 948 5.753921 GTCTATAAGTGCCGATTGCTTTACT 59.246 40.000 0.00 0.00 42.00 2.24
855 960 6.293081 CCGATTGCTTTACTTAGTGGATGATG 60.293 42.308 0.00 0.00 0.00 3.07
856 961 6.479990 CGATTGCTTTACTTAGTGGATGATGA 59.520 38.462 0.00 0.00 0.00 2.92
857 962 7.307042 CGATTGCTTTACTTAGTGGATGATGAG 60.307 40.741 0.00 0.00 0.00 2.90
860 965 7.492524 TGCTTTACTTAGTGGATGATGAGTAG 58.507 38.462 0.00 0.00 0.00 2.57
876 981 5.130292 TGAGTAGTTTACAGCACCACTAC 57.870 43.478 0.00 0.00 41.29 2.73
893 998 2.694109 ACTACACGCTAATCTTCCTCCC 59.306 50.000 0.00 0.00 0.00 4.30
897 1002 3.134458 CACGCTAATCTTCCTCCCATTC 58.866 50.000 0.00 0.00 0.00 2.67
921 1027 4.635765 GCTTTCCTTGTGTATATGCAGTGA 59.364 41.667 0.00 0.00 0.00 3.41
947 1053 3.347077 AGCTCATTCAGAAGACCTTGG 57.653 47.619 0.00 0.00 0.00 3.61
949 1055 2.617532 GCTCATTCAGAAGACCTTGGCT 60.618 50.000 0.00 0.00 0.00 4.75
981 1087 2.878406 CGGTGAAGTTCTGGTTGTCATT 59.122 45.455 4.17 0.00 0.00 2.57
1023 1129 1.153449 TTTCCGCAGCATAGTCCGG 60.153 57.895 0.00 0.00 41.97 5.14
1489 1596 1.227823 CTGGGAAACAGTGGTCGCA 60.228 57.895 13.05 13.05 42.42 5.10
1494 1601 1.812571 GGAAACAGTGGTCGCATGAAT 59.187 47.619 0.00 0.00 0.00 2.57
1495 1602 2.159517 GGAAACAGTGGTCGCATGAATC 60.160 50.000 0.00 0.00 0.00 2.52
1562 1672 9.431887 AGTAATTTGTAGCAATTTTCTCGTAGA 57.568 29.630 0.00 0.00 0.00 2.59
1615 1725 7.704271 AGAAAAGTTTGCCTACTGAAAAGTAC 58.296 34.615 0.00 0.00 0.00 2.73
1616 1726 7.556635 AGAAAAGTTTGCCTACTGAAAAGTACT 59.443 33.333 0.00 0.00 0.00 2.73
1617 1727 8.741603 AAAAGTTTGCCTACTGAAAAGTACTA 57.258 30.769 0.00 0.00 0.00 1.82
1648 1758 4.561105 AGGCTTCTTAAGTGAGAAAGACG 58.439 43.478 1.63 0.00 35.38 4.18
1841 1966 5.006552 GTGCTGCTTCTCTCATTAATCTCAC 59.993 44.000 0.00 0.00 0.00 3.51
1845 1970 7.410120 TGCTTCTCTCATTAATCTCACACTA 57.590 36.000 0.00 0.00 0.00 2.74
1876 2001 4.475944 CTGTGTGCATTGCTTTAGTAACC 58.524 43.478 10.49 0.00 0.00 2.85
1898 2023 2.563620 TGGTAGTCAACGTTGCTGGATA 59.436 45.455 23.47 8.26 0.00 2.59
1922 2047 7.734924 ACTGTGCTGATTATATGTTATGTGG 57.265 36.000 0.00 0.00 0.00 4.17
2065 2190 4.438744 CGGCTATGTTGGAAAAATGAGGTC 60.439 45.833 0.00 0.00 0.00 3.85
2082 2207 2.685100 GGTCAAGTACCTTCCTTCACG 58.315 52.381 0.00 0.00 45.75 4.35
2084 2209 3.056035 GGTCAAGTACCTTCCTTCACGAT 60.056 47.826 0.00 0.00 45.75 3.73
2093 2221 4.283722 ACCTTCCTTCACGATGTTCTTACT 59.716 41.667 0.00 0.00 0.00 2.24
2094 2222 5.479375 ACCTTCCTTCACGATGTTCTTACTA 59.521 40.000 0.00 0.00 0.00 1.82
2095 2223 6.154706 ACCTTCCTTCACGATGTTCTTACTAT 59.845 38.462 0.00 0.00 0.00 2.12
2096 2224 6.697892 CCTTCCTTCACGATGTTCTTACTATC 59.302 42.308 0.00 0.00 0.00 2.08
2097 2225 7.406031 TTCCTTCACGATGTTCTTACTATCT 57.594 36.000 0.00 0.00 0.00 1.98
2098 2226 8.515695 TTCCTTCACGATGTTCTTACTATCTA 57.484 34.615 0.00 0.00 0.00 1.98
2099 2227 8.693120 TCCTTCACGATGTTCTTACTATCTAT 57.307 34.615 0.00 0.00 0.00 1.98
2100 2228 9.132923 TCCTTCACGATGTTCTTACTATCTATT 57.867 33.333 0.00 0.00 0.00 1.73
2129 2257 8.642432 TCTAACATTCGGTGATTTAGATCTGAT 58.358 33.333 5.18 0.00 33.28 2.90
2167 2295 1.366854 GGTCGAATTTCCTCGGCACC 61.367 60.000 0.00 0.00 45.20 5.01
2230 2358 4.147449 CTCGTCCCATGCCAGCGA 62.147 66.667 0.00 0.00 0.00 4.93
2293 2421 1.342672 CCACCGGTAGCTACCCCATT 61.343 60.000 32.51 14.49 43.51 3.16
2321 2449 3.684788 GGTGAATTACGAGCTCAATGTGT 59.315 43.478 15.40 5.46 0.00 3.72
2545 2694 0.109723 ATGTAAGTGGTGGGTTGCGT 59.890 50.000 0.00 0.00 0.00 5.24
2788 2949 0.982673 CGTCAAGTTCATCGTCGTCC 59.017 55.000 0.00 0.00 0.00 4.79
2946 3107 4.141711 GGCCTGTGAATGAATAGACCAGTA 60.142 45.833 0.00 0.00 0.00 2.74
2960 3121 1.229428 CCAGTACAGTGGCACAAGTG 58.771 55.000 21.41 16.16 44.16 3.16
2965 3126 3.875134 AGTACAGTGGCACAAGTGTTTAC 59.125 43.478 21.41 11.14 44.16 2.01
3065 3228 9.875691 AAGAATGGCAAGAAATATAAAGGTTTC 57.124 29.630 0.00 0.00 35.18 2.78
3068 3231 7.222000 TGGCAAGAAATATAAAGGTTTCGTT 57.778 32.000 0.00 0.00 38.89 3.85
3099 3262 6.707440 TGTTTTTCATGCCTCTGAACTTTA 57.293 33.333 0.00 0.00 34.96 1.85
3113 3276 8.926710 CCTCTGAACTTTACTGTACATTGTAAG 58.073 37.037 0.00 2.53 31.46 2.34
3120 3283 9.367444 ACTTTACTGTACATTGTAAGTATCAGC 57.633 33.333 11.36 0.00 31.46 4.26
3121 3284 9.366216 CTTTACTGTACATTGTAAGTATCAGCA 57.634 33.333 14.24 2.01 31.46 4.41
3122 3285 9.713713 TTTACTGTACATTGTAAGTATCAGCAA 57.286 29.630 14.24 6.42 31.46 3.91
3123 3286 9.713713 TTACTGTACATTGTAAGTATCAGCAAA 57.286 29.630 14.24 7.25 30.62 3.68
3124 3287 8.615878 ACTGTACATTGTAAGTATCAGCAAAA 57.384 30.769 0.00 0.00 30.62 2.44
3125 3288 8.721478 ACTGTACATTGTAAGTATCAGCAAAAG 58.279 33.333 0.00 0.00 30.62 2.27
3126 3289 8.840833 TGTACATTGTAAGTATCAGCAAAAGA 57.159 30.769 0.00 0.00 0.00 2.52
3127 3290 9.448438 TGTACATTGTAAGTATCAGCAAAAGAT 57.552 29.630 0.00 0.00 0.00 2.40
3183 3347 3.089784 GCCAATGGCGTGTACTCG 58.910 61.111 9.14 12.77 39.62 4.18
3207 3371 7.005958 CGCATGAAGTCATCTGTAATAAATCG 58.994 38.462 0.00 0.00 33.61 3.34
3216 3380 5.469373 TCTGTAATAAATCGTGCTGCAAG 57.531 39.130 2.77 6.57 0.00 4.01
3250 3415 7.325694 AGGGATTAAAATTCTGCATGTCAAAG 58.674 34.615 0.00 0.00 0.00 2.77
3291 3476 0.816825 CATCAGATGGCCGGTGGAAG 60.817 60.000 1.90 0.00 0.00 3.46
3292 3477 0.982852 ATCAGATGGCCGGTGGAAGA 60.983 55.000 1.90 0.00 0.00 2.87
3293 3478 1.198094 TCAGATGGCCGGTGGAAGAA 61.198 55.000 1.90 0.00 0.00 2.52
3294 3479 0.745845 CAGATGGCCGGTGGAAGAAG 60.746 60.000 1.90 0.00 0.00 2.85
3295 3480 2.044946 ATGGCCGGTGGAAGAAGC 60.045 61.111 1.90 0.00 0.00 3.86
3296 3481 2.819984 GATGGCCGGTGGAAGAAGCA 62.820 60.000 1.90 0.00 0.00 3.91
3297 3482 2.044946 GGCCGGTGGAAGAAGCAT 60.045 61.111 1.90 0.00 0.00 3.79
3298 3483 1.678970 GGCCGGTGGAAGAAGCATT 60.679 57.895 1.90 0.00 0.00 3.56
3299 3484 1.250840 GGCCGGTGGAAGAAGCATTT 61.251 55.000 1.90 0.00 0.00 2.32
3300 3485 1.459450 GCCGGTGGAAGAAGCATTTA 58.541 50.000 1.90 0.00 0.00 1.40
3301 3486 1.401905 GCCGGTGGAAGAAGCATTTAG 59.598 52.381 1.90 0.00 0.00 1.85
3302 3487 2.017049 CCGGTGGAAGAAGCATTTAGG 58.983 52.381 0.00 0.00 0.00 2.69
3303 3488 1.401905 CGGTGGAAGAAGCATTTAGGC 59.598 52.381 0.00 0.00 0.00 3.93
3304 3489 2.446435 GGTGGAAGAAGCATTTAGGCA 58.554 47.619 0.00 0.00 35.83 4.75
3305 3490 2.424956 GGTGGAAGAAGCATTTAGGCAG 59.575 50.000 0.00 0.00 35.83 4.85
3306 3491 2.424956 GTGGAAGAAGCATTTAGGCAGG 59.575 50.000 0.00 0.00 35.83 4.85
3307 3492 2.308570 TGGAAGAAGCATTTAGGCAGGA 59.691 45.455 0.00 0.00 35.83 3.86
3308 3493 2.948315 GGAAGAAGCATTTAGGCAGGAG 59.052 50.000 0.00 0.00 35.83 3.69
3309 3494 3.370953 GGAAGAAGCATTTAGGCAGGAGA 60.371 47.826 0.00 0.00 35.83 3.71
3310 3495 4.265073 GAAGAAGCATTTAGGCAGGAGAA 58.735 43.478 0.00 0.00 35.83 2.87
3343 3528 5.483937 ACAGTTCAATGGTCTACACCTATGA 59.516 40.000 0.00 0.00 44.17 2.15
3406 3591 4.718774 AGATACTCTTCCTGGAATCTTGCA 59.281 41.667 10.03 0.00 0.00 4.08
3500 3696 3.770933 ACCAATCAATCAACATTCCCCAG 59.229 43.478 0.00 0.00 0.00 4.45
3558 3754 6.857451 GCCAAATTCATCCAAATTTCAAACAC 59.143 34.615 0.00 0.00 36.86 3.32
3821 4018 0.813184 CCATTGCTTGTAGTGCCCAG 59.187 55.000 0.00 0.00 0.00 4.45
3836 4033 1.276421 GCCCAGCTCTAAGTCACTCAA 59.724 52.381 0.00 0.00 0.00 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 1.723003 CAAAAGATGCGCAGGAAAAGC 59.277 47.619 18.32 0.00 0.00 3.51
186 192 2.917227 AACCTTTTGCGGCCCAGG 60.917 61.111 0.00 2.44 0.00 4.45
187 193 2.339712 CAACCTTTTGCGGCCCAG 59.660 61.111 0.00 0.00 0.00 4.45
188 194 3.230245 CCAACCTTTTGCGGCCCA 61.230 61.111 0.00 0.00 0.00 5.36
189 195 4.002506 CCCAACCTTTTGCGGCCC 62.003 66.667 0.00 0.00 0.00 5.80
220 232 2.112691 AGGAAGAACTGAAGGAGGAGGA 59.887 50.000 0.00 0.00 0.00 3.71
221 233 2.499693 GAGGAAGAACTGAAGGAGGAGG 59.500 54.545 0.00 0.00 0.00 4.30
233 317 1.556911 TGGATGCAGAGGAGGAAGAAC 59.443 52.381 0.00 0.00 0.00 3.01
299 385 5.684704 TGCAAACTTATATGCTAGAAGCCT 58.315 37.500 0.00 0.00 41.51 4.58
301 387 6.302615 CGATGCAAACTTATATGCTAGAAGC 58.697 40.000 0.00 0.00 42.97 3.86
306 392 5.406477 CAGAGCGATGCAAACTTATATGCTA 59.594 40.000 0.00 0.00 42.97 3.49
308 394 4.212004 TCAGAGCGATGCAAACTTATATGC 59.788 41.667 0.00 0.00 42.86 3.14
309 395 5.912360 TCAGAGCGATGCAAACTTATATG 57.088 39.130 0.00 0.00 0.00 1.78
312 398 4.637534 ACAATCAGAGCGATGCAAACTTAT 59.362 37.500 0.00 0.00 33.40 1.73
323 414 3.673902 TGGAATGAAACAATCAGAGCGA 58.326 40.909 0.00 0.00 42.53 4.93
395 486 8.322906 TGTACTTCTATGTTGTGAAATGGAAG 57.677 34.615 7.08 7.08 43.33 3.46
422 514 8.707839 CAAGATCTACAGAAACTTCAGAGAAAC 58.292 37.037 0.00 0.00 0.00 2.78
535 640 1.412343 ACCACAATTTTGACCCACTGC 59.588 47.619 0.00 0.00 0.00 4.40
580 685 9.744468 GCCATTTTACTGGTATAAATAAACCTG 57.256 33.333 0.00 0.00 38.63 4.00
584 689 7.285858 AGGCGCCATTTTACTGGTATAAATAAA 59.714 33.333 31.54 0.00 38.63 1.40
585 690 6.773685 AGGCGCCATTTTACTGGTATAAATAA 59.226 34.615 31.54 0.00 38.63 1.40
586 691 6.300703 AGGCGCCATTTTACTGGTATAAATA 58.699 36.000 31.54 0.00 38.63 1.40
587 692 5.137551 AGGCGCCATTTTACTGGTATAAAT 58.862 37.500 31.54 0.00 38.63 1.40
815 920 5.830900 GCAATCGGCACTTATAGACTAAG 57.169 43.478 0.00 0.00 43.97 2.18
831 936 6.479990 TCATCATCCACTAAGTAAAGCAATCG 59.520 38.462 0.00 0.00 0.00 3.34
841 946 8.362464 TGTAAACTACTCATCATCCACTAAGT 57.638 34.615 0.00 0.00 0.00 2.24
843 948 7.093509 TGCTGTAAACTACTCATCATCCACTAA 60.094 37.037 0.00 0.00 0.00 2.24
855 960 4.922103 GTGTAGTGGTGCTGTAAACTACTC 59.078 45.833 15.78 11.15 43.44 2.59
856 961 4.558095 CGTGTAGTGGTGCTGTAAACTACT 60.558 45.833 15.78 9.87 43.44 2.57
857 962 3.671928 CGTGTAGTGGTGCTGTAAACTAC 59.328 47.826 10.90 10.90 43.38 2.73
860 965 1.193874 GCGTGTAGTGGTGCTGTAAAC 59.806 52.381 0.00 0.00 0.00 2.01
876 981 2.918712 ATGGGAGGAAGATTAGCGTG 57.081 50.000 0.00 0.00 0.00 5.34
893 998 5.207768 GCATATACACAAGGAAAGCGAATG 58.792 41.667 0.00 0.00 0.00 2.67
897 1002 3.623060 ACTGCATATACACAAGGAAAGCG 59.377 43.478 0.00 0.00 0.00 4.68
921 1027 3.330267 GTCTTCTGAATGAGCTTTCCGT 58.670 45.455 0.00 0.00 0.00 4.69
947 1053 0.747255 TTCACCGATCTCCTAGCAGC 59.253 55.000 0.00 0.00 0.00 5.25
949 1055 2.145397 ACTTCACCGATCTCCTAGCA 57.855 50.000 0.00 0.00 0.00 3.49
981 1087 0.395724 TATCTGCCGGAGACTCTGCA 60.396 55.000 5.05 16.00 31.75 4.41
1023 1129 2.952978 TCCGAAGCTCTCTCTAACATCC 59.047 50.000 0.00 0.00 0.00 3.51
1562 1672 7.123247 AGCAGGCATATCTTACTTTTCAATTGT 59.877 33.333 5.13 0.00 0.00 2.71
1615 1725 6.264292 TCACTTAAGAAGCCTCTATCTGCTAG 59.736 42.308 10.09 0.00 36.66 3.42
1616 1726 6.129874 TCACTTAAGAAGCCTCTATCTGCTA 58.870 40.000 10.09 0.00 36.66 3.49
1617 1727 4.959210 TCACTTAAGAAGCCTCTATCTGCT 59.041 41.667 10.09 0.00 40.17 4.24
1876 2001 1.148310 CCAGCAACGTTGACTACCAG 58.852 55.000 31.62 14.44 0.00 4.00
1898 2023 6.205464 GCCACATAACATATAATCAGCACAGT 59.795 38.462 0.00 0.00 0.00 3.55
1922 2047 2.606725 CTCACTAAGCACAGCTACATGC 59.393 50.000 8.38 8.38 38.25 4.06
2293 2421 0.392461 GCTCGTAATTCACCTGGGCA 60.392 55.000 0.00 0.00 0.00 5.36
2545 2694 0.105964 CCCCATCTTCCTCCTCTCGA 60.106 60.000 0.00 0.00 0.00 4.04
2946 3107 1.668751 CGTAAACACTTGTGCCACTGT 59.331 47.619 0.00 0.00 0.00 3.55
2960 3121 7.707035 AGATCTTGATGGACTTATCACGTAAAC 59.293 37.037 0.00 0.00 36.84 2.01
2965 3126 7.545362 AAAAGATCTTGATGGACTTATCACG 57.455 36.000 9.17 0.00 36.84 4.35
2995 3158 8.292448 ACAAGTAAATCAACAACAGCAATAGAG 58.708 33.333 0.00 0.00 0.00 2.43
3065 3228 4.143347 GGCATGAAAAACATAGCAACAACG 60.143 41.667 0.00 0.00 37.46 4.10
3068 3231 4.523943 AGAGGCATGAAAAACATAGCAACA 59.476 37.500 0.00 0.00 37.46 3.33
3099 3262 8.615878 TTTTGCTGATACTTACAATGTACAGT 57.384 30.769 0.33 0.00 0.00 3.55
3125 3288 9.055248 GCACGCATATTCAAAGATGTTTATATC 57.945 33.333 0.00 0.00 30.58 1.63
3126 3289 8.567104 TGCACGCATATTCAAAGATGTTTATAT 58.433 29.630 0.00 0.00 30.58 0.86
3127 3290 7.924940 TGCACGCATATTCAAAGATGTTTATA 58.075 30.769 0.00 0.00 30.58 0.98
3128 3291 6.794374 TGCACGCATATTCAAAGATGTTTAT 58.206 32.000 0.00 0.00 30.58 1.40
3129 3292 6.188400 TGCACGCATATTCAAAGATGTTTA 57.812 33.333 0.00 0.00 30.58 2.01
3130 3293 5.058149 TGCACGCATATTCAAAGATGTTT 57.942 34.783 0.00 0.00 30.58 2.83
3131 3294 4.700268 TGCACGCATATTCAAAGATGTT 57.300 36.364 0.00 0.00 30.58 2.71
3132 3295 4.906065 ATGCACGCATATTCAAAGATGT 57.094 36.364 1.86 0.00 34.49 3.06
3133 3296 6.578020 AAAATGCACGCATATTCAAAGATG 57.422 33.333 4.68 0.00 35.31 2.90
3134 3297 7.037438 AGAAAAATGCACGCATATTCAAAGAT 58.963 30.769 22.26 7.67 36.08 2.40
3135 3298 6.389091 AGAAAAATGCACGCATATTCAAAGA 58.611 32.000 22.26 0.00 36.08 2.52
3136 3299 6.237648 GGAGAAAAATGCACGCATATTCAAAG 60.238 38.462 22.26 0.00 36.08 2.77
3137 3300 5.576384 GGAGAAAAATGCACGCATATTCAAA 59.424 36.000 22.26 0.00 36.08 2.69
3138 3301 5.101628 GGAGAAAAATGCACGCATATTCAA 58.898 37.500 22.26 0.00 36.08 2.69
3139 3302 4.439974 GGGAGAAAAATGCACGCATATTCA 60.440 41.667 22.26 0.00 36.08 2.57
3140 3303 4.044426 GGGAGAAAAATGCACGCATATTC 58.956 43.478 16.70 16.70 35.31 1.75
3141 3304 3.181476 GGGGAGAAAAATGCACGCATATT 60.181 43.478 4.68 3.94 35.31 1.28
3142 3305 2.362077 GGGGAGAAAAATGCACGCATAT 59.638 45.455 4.68 0.00 35.31 1.78
3183 3347 7.795734 CACGATTTATTACAGATGACTTCATGC 59.204 37.037 0.00 0.00 36.57 4.06
3216 3380 6.920210 GCAGAATTTTAATCCCTATTGACTGC 59.080 38.462 0.00 0.00 37.81 4.40
3291 3476 6.699575 TTATTTCTCCTGCCTAAATGCTTC 57.300 37.500 0.00 0.00 0.00 3.86
3292 3477 7.666063 AATTATTTCTCCTGCCTAAATGCTT 57.334 32.000 0.00 0.00 0.00 3.91
3293 3478 8.946797 ATAATTATTTCTCCTGCCTAAATGCT 57.053 30.769 0.00 0.00 0.00 3.79
3299 3484 9.998106 GAACTGTATAATTATTTCTCCTGCCTA 57.002 33.333 2.68 0.00 0.00 3.93
3300 3485 8.494433 TGAACTGTATAATTATTTCTCCTGCCT 58.506 33.333 2.68 0.00 0.00 4.75
3301 3486 8.677148 TGAACTGTATAATTATTTCTCCTGCC 57.323 34.615 2.68 0.00 0.00 4.85
3414 3603 9.681062 TTATGAAGGTTTTAAGAGATTGTAGGG 57.319 33.333 0.00 0.00 0.00 3.53
3500 3696 3.758554 TGCTGCCTTCTTTTTGTAGGATC 59.241 43.478 0.00 0.00 35.50 3.36
3821 4018 6.255453 GTCAGATGAATTGAGTGACTTAGAGC 59.745 42.308 3.76 0.00 35.64 4.09
3836 4033 2.203070 GGCGCCGGTCAGATGAAT 60.203 61.111 12.58 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.