Multiple sequence alignment - TraesCS1B01G034900

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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 TraesCS1B01G034900 chr1B 100.000 3290 0 0 1 3290 16643449 16646738 0.000000e+00 6076
1 TraesCS1B01G034900 chr1B 93.758 1474 83 7 502 1973 100079858 100081324 0.000000e+00 2204
2 TraesCS1B01G034900 chr1B 92.279 1334 79 10 1975 3290 16478569 16479896 0.000000e+00 1871
3 TraesCS1B01G034900 chr1B 93.290 775 49 1 1975 2746 16693286 16694060 0.000000e+00 1140
4 TraesCS1B01G034900 chr4B 94.229 1473 74 5 507 1973 167269609 167271076 0.000000e+00 2239
5 TraesCS1B01G034900 chr7B 94.106 1476 76 7 502 1973 454039751 454038283 0.000000e+00 2233
6 TraesCS1B01G034900 chr7B 84.728 478 70 1 27 504 526242928 526243402 2.970000e-130 475
7 TraesCS1B01G034900 chr7B 82.903 503 83 1 1 503 629409498 629408999 1.800000e-122 449
8 TraesCS1B01G034900 chr7B 96.377 138 4 1 3129 3266 192786231 192786095 3.300000e-55 226
9 TraesCS1B01G034900 chr5B 94.154 1471 74 8 507 1973 141324122 141325584 0.000000e+00 2230
10 TraesCS1B01G034900 chr5B 93.954 1472 73 7 502 1970 220896644 220898102 0.000000e+00 2211
11 TraesCS1B01G034900 chr5B 93.775 1478 78 10 498 1973 232901228 232902693 0.000000e+00 2207
12 TraesCS1B01G034900 chr5B 81.944 504 86 3 2 504 678038828 678039327 3.930000e-114 422
13 TraesCS1B01G034900 chr3B 94.150 1470 73 8 507 1973 463848117 463849576 0.000000e+00 2226
14 TraesCS1B01G034900 chr3B 86.931 505 65 1 1 504 663365125 663365629 1.710000e-157 566
15 TraesCS1B01G034900 chr3B 86.193 507 65 5 1 504 663292302 663292806 8.030000e-151 544
16 TraesCS1B01G034900 chr2B 94.030 1474 79 6 502 1973 254142820 254141354 0.000000e+00 2226
17 TraesCS1B01G034900 chr2B 93.826 1474 77 6 502 1973 335752731 335751270 0.000000e+00 2206
18 TraesCS1B01G034900 chr2B 96.377 138 4 1 3129 3266 47184053 47184189 3.300000e-55 226
19 TraesCS1B01G034900 chr1D 93.002 1329 76 6 1975 3290 11123932 11125256 0.000000e+00 1923
20 TraesCS1B01G034900 chr1D 89.344 488 27 9 2804 3290 11041514 11041977 1.020000e-164 590
21 TraesCS1B01G034900 chr1D 89.139 488 28 9 2804 3290 11090228 11090691 4.730000e-163 584
22 TraesCS1B01G034900 chr1A 92.551 1329 82 7 1975 3290 22633917 22632593 0.000000e+00 1890
23 TraesCS1B01G034900 chr1A 91.931 756 57 2 1975 2726 12698536 12697781 0.000000e+00 1055
24 TraesCS1B01G034900 chr1A 90.303 330 28 3 2813 3139 12688957 12688629 2.350000e-116 429
25 TraesCS1B01G034900 chr1A 96.377 138 4 1 3129 3266 12686710 12686574 3.300000e-55 226
26 TraesCS1B01G034900 chr5A 89.307 505 53 1 1 504 698467553 698468057 1.670000e-177 632
27 TraesCS1B01G034900 chrUn 86.905 504 55 5 1 504 48542750 48542258 3.710000e-154 555
28 TraesCS1B01G034900 chr3D 83.794 506 74 6 1 504 104791808 104791309 1.070000e-129 473
29 TraesCS1B01G034900 chr2D 82.178 505 85 3 1 504 406693217 406692717 2.350000e-116 429


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 TraesCS1B01G034900 chr1B 16643449 16646738 3289 False 6076.0 6076 100.000 1 3290 1 chr1B.!!$F2 3289
1 TraesCS1B01G034900 chr1B 100079858 100081324 1466 False 2204.0 2204 93.758 502 1973 1 chr1B.!!$F4 1471
2 TraesCS1B01G034900 chr1B 16478569 16479896 1327 False 1871.0 1871 92.279 1975 3290 1 chr1B.!!$F1 1315
3 TraesCS1B01G034900 chr1B 16693286 16694060 774 False 1140.0 1140 93.290 1975 2746 1 chr1B.!!$F3 771
4 TraesCS1B01G034900 chr4B 167269609 167271076 1467 False 2239.0 2239 94.229 507 1973 1 chr4B.!!$F1 1466
5 TraesCS1B01G034900 chr7B 454038283 454039751 1468 True 2233.0 2233 94.106 502 1973 1 chr7B.!!$R2 1471
6 TraesCS1B01G034900 chr5B 141324122 141325584 1462 False 2230.0 2230 94.154 507 1973 1 chr5B.!!$F1 1466
7 TraesCS1B01G034900 chr5B 220896644 220898102 1458 False 2211.0 2211 93.954 502 1970 1 chr5B.!!$F2 1468
8 TraesCS1B01G034900 chr5B 232901228 232902693 1465 False 2207.0 2207 93.775 498 1973 1 chr5B.!!$F3 1475
9 TraesCS1B01G034900 chr3B 463848117 463849576 1459 False 2226.0 2226 94.150 507 1973 1 chr3B.!!$F1 1466
10 TraesCS1B01G034900 chr3B 663365125 663365629 504 False 566.0 566 86.931 1 504 1 chr3B.!!$F3 503
11 TraesCS1B01G034900 chr3B 663292302 663292806 504 False 544.0 544 86.193 1 504 1 chr3B.!!$F2 503
12 TraesCS1B01G034900 chr2B 254141354 254142820 1466 True 2226.0 2226 94.030 502 1973 1 chr2B.!!$R1 1471
13 TraesCS1B01G034900 chr2B 335751270 335752731 1461 True 2206.0 2206 93.826 502 1973 1 chr2B.!!$R2 1471
14 TraesCS1B01G034900 chr1D 11123932 11125256 1324 False 1923.0 1923 93.002 1975 3290 1 chr1D.!!$F3 1315
15 TraesCS1B01G034900 chr1A 22632593 22633917 1324 True 1890.0 1890 92.551 1975 3290 1 chr1A.!!$R2 1315
16 TraesCS1B01G034900 chr1A 12697781 12698536 755 True 1055.0 1055 91.931 1975 2726 1 chr1A.!!$R1 751
17 TraesCS1B01G034900 chr1A 12686574 12688957 2383 True 327.5 429 93.340 2813 3266 2 chr1A.!!$R3 453
18 TraesCS1B01G034900 chr5A 698467553 698468057 504 False 632.0 632 89.307 1 504 1 chr5A.!!$F1 503
19 TraesCS1B01G034900 chr2D 406692717 406693217 500 True 429.0 429 82.178 1 504 1 chr2D.!!$R1 503

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
216 217 0.107508 GGTGCTGGCTTCTGCTGATA 60.108 55.0 0.0 0.0 39.59 2.15 F
370 373 0.319555 GCTGAGTGTGTAACCGAGCA 60.320 55.0 0.0 0.0 34.36 4.26 F
1228 1234 0.402121 AAGAGTGCCCCAAAGTCTCC 59.598 55.0 0.0 0.0 0.00 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2037 2071 0.381801 CCGTGAGCTGCAAACAGTTT 59.618 50.0 1.02 0.0 46.30 2.66 R
2267 2301 1.071314 ACCAATGGAAGGGGTGGTCA 61.071 55.0 6.16 0.0 40.38 4.02 R
2924 2966 0.169451 CAGCATTGCATTGAGTCGCA 59.831 50.0 11.91 0.0 36.05 5.10 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
34 35 2.609299 TTCTGGCCCGGATCACCA 60.609 61.111 0.73 3.92 35.59 4.17
68 69 3.520862 CATGGGCATCGTGGTGGC 61.521 66.667 0.00 0.00 43.34 5.01
117 118 3.751246 CTCCACCGCCGGTCGTTA 61.751 66.667 5.41 0.00 31.02 3.18
137 138 3.379445 GAACCGACGGCCTCCTCA 61.379 66.667 15.39 0.00 0.00 3.86
158 159 1.077212 GGTGGATGCTGCTGGACAT 60.077 57.895 0.00 0.00 0.00 3.06
160 161 1.202855 GGTGGATGCTGCTGGACATAT 60.203 52.381 0.00 0.00 0.00 1.78
165 166 1.227645 GCTGCTGGACATATGCCGA 60.228 57.895 1.58 0.00 0.00 5.54
172 173 3.066621 GCTGGACATATGCCGAAATTGAA 59.933 43.478 1.58 0.00 0.00 2.69
199 200 1.614241 GCTATGGAGGTGGTGACGGT 61.614 60.000 0.00 0.00 0.00 4.83
215 216 1.378250 GGTGCTGGCTTCTGCTGAT 60.378 57.895 0.00 0.00 39.59 2.90
216 217 0.107508 GGTGCTGGCTTCTGCTGATA 60.108 55.000 0.00 0.00 39.59 2.15
233 235 2.101415 TGATATTCCTGTGTCTGAGCCG 59.899 50.000 0.00 0.00 0.00 5.52
234 236 1.847328 TATTCCTGTGTCTGAGCCGA 58.153 50.000 0.00 0.00 0.00 5.54
269 271 0.530650 CACGTGCTGTTGACCAGACT 60.531 55.000 0.82 0.00 44.49 3.24
356 359 1.106285 GGGGGCACTTTATTGCTGAG 58.894 55.000 0.00 0.00 42.56 3.35
362 365 3.751175 GGCACTTTATTGCTGAGTGTGTA 59.249 43.478 4.85 0.00 42.07 2.90
370 373 0.319555 GCTGAGTGTGTAACCGAGCA 60.320 55.000 0.00 0.00 34.36 4.26
406 409 2.133742 AAACCAGCGCATGACACAGC 62.134 55.000 11.47 0.00 0.00 4.40
438 441 1.774110 ACTGAGAGATCAGATGCCGT 58.226 50.000 12.00 0.00 39.99 5.68
533 536 7.828508 TGTCTACTACACAACCTTCTTCTTA 57.171 36.000 0.00 0.00 31.43 2.10
535 538 8.521176 TGTCTACTACACAACCTTCTTCTTATC 58.479 37.037 0.00 0.00 31.43 1.75
551 554 1.184431 TATCGACGTTGTTGGGCCTA 58.816 50.000 4.53 0.00 0.00 3.93
599 602 4.934356 AGCAAATTTCCCTCAAGTGGATA 58.066 39.130 0.00 0.00 0.00 2.59
683 686 6.461509 CCTGCAACCAAATAACAAAGAGTCTT 60.462 38.462 0.00 0.00 0.00 3.01
686 689 8.470805 TGCAACCAAATAACAAAGAGTCTTTTA 58.529 29.630 15.60 7.38 0.00 1.52
757 760 2.748605 GGCGAAGAGATGGTGATACAG 58.251 52.381 0.00 0.00 0.00 2.74
879 883 2.437413 GAAACAAGGCCTAGGGTTCAG 58.563 52.381 23.46 4.18 0.00 3.02
880 884 1.446016 AACAAGGCCTAGGGTTCAGT 58.554 50.000 5.16 0.00 0.00 3.41
977 981 3.679389 AGTCACTCCAAAGCCACTAATG 58.321 45.455 0.00 0.00 0.00 1.90
1109 1114 3.566322 TCAACCAAAACCCTAATGTCACG 59.434 43.478 0.00 0.00 0.00 4.35
1156 1161 1.438651 CCGTGGGCATGATTATACGG 58.561 55.000 0.00 4.99 43.93 4.02
1225 1231 1.981256 TCAAAGAGTGCCCCAAAGTC 58.019 50.000 0.00 0.00 0.00 3.01
1228 1234 0.402121 AAGAGTGCCCCAAAGTCTCC 59.598 55.000 0.00 0.00 0.00 3.71
1249 1255 3.063997 CCATCGGAGAATCAAGAAAACGG 59.936 47.826 0.00 0.00 43.58 4.44
1253 1259 3.146847 GGAGAATCAAGAAAACGGGTGT 58.853 45.455 0.00 0.00 36.25 4.16
1635 1668 1.523711 GAGCGCCGGGATGATGAAA 60.524 57.895 2.29 0.00 0.00 2.69
1710 1743 1.269723 GAGGTTTTTGGTGGCTACAGC 59.730 52.381 1.52 0.00 45.13 4.40
1792 1825 5.539048 GGCTTATATAGGCGAAAGAAGTCA 58.461 41.667 10.40 0.00 39.90 3.41
1845 1878 3.930012 GGCGCGCCCTCCTATCTT 61.930 66.667 39.89 0.00 0.00 2.40
1895 1928 4.707448 TGAACTCCAAGTCTCTAGGATGAC 59.293 45.833 0.00 0.00 0.00 3.06
1944 1978 3.146847 GGTTTCATTCCGTTTGGACTCT 58.853 45.455 0.00 0.00 46.45 3.24
1997 2031 3.182887 TGGTGAACTATTTGGGCCAAT 57.817 42.857 21.65 12.65 0.00 3.16
2005 2039 8.254508 GTGAACTATTTGGGCCAATTGTTATTA 58.745 33.333 21.65 2.09 0.00 0.98
2014 2048 7.046652 TGGGCCAATTGTTATTATGATTTGTG 58.953 34.615 2.13 0.00 0.00 3.33
2037 2071 8.154203 TGTGGTCTGAACTGAACTATTTTGATA 58.846 33.333 0.00 0.00 0.00 2.15
2040 2074 9.827411 GGTCTGAACTGAACTATTTTGATAAAC 57.173 33.333 0.00 0.00 0.00 2.01
2121 2155 0.976641 AGAAGAAGACGTCATGGCCA 59.023 50.000 19.50 8.56 0.00 5.36
2187 2221 2.816746 GGACATGCCTGATGCCAAT 58.183 52.632 0.00 0.00 40.16 3.16
2254 2288 1.018752 CAACCGTGTCCGCATCATCA 61.019 55.000 0.00 0.00 0.00 3.07
2345 2379 4.037208 ACTTATGCATGCTGGTGAATAAGC 59.963 41.667 23.10 0.00 45.61 3.09
2389 2423 9.920946 ATGAATAAATAGACACTTACCAATGGT 57.079 29.630 10.81 10.81 40.16 3.55
2431 2468 6.785076 TGGTTCAATGGACTCCAGTTATTTA 58.215 36.000 3.62 0.00 36.75 1.40
2470 2507 4.739716 CAGCTTGTTGTTCATGTGTTTACC 59.260 41.667 0.00 0.00 0.00 2.85
2499 2537 5.824097 TGCTCATGAAATATGCATACTGTGT 59.176 36.000 8.99 0.00 30.64 3.72
2500 2538 6.319405 TGCTCATGAAATATGCATACTGTGTT 59.681 34.615 8.99 0.00 30.64 3.32
2529 2567 8.417106 TGTTGCTGGATTATTTCAACAACTTAA 58.583 29.630 11.52 0.00 42.45 1.85
2530 2568 8.699749 GTTGCTGGATTATTTCAACAACTTAAC 58.300 33.333 5.35 0.00 37.53 2.01
2629 2667 9.277783 AGATATCTTAAATGGATTCTTTCGTGG 57.722 33.333 0.00 0.00 0.00 4.94
2665 2703 9.883142 ACTTCTGAGATGAGAATTAGTTTTAGG 57.117 33.333 2.06 0.00 31.51 2.69
2685 2724 1.212935 GGTGACCCTGTGCCTATCAAT 59.787 52.381 0.00 0.00 0.00 2.57
2746 2785 4.811555 TGCCGACATATAAGAAACATGC 57.188 40.909 0.00 0.00 0.00 4.06
2747 2786 4.195416 TGCCGACATATAAGAAACATGCA 58.805 39.130 0.00 0.00 0.00 3.96
2748 2787 4.821260 TGCCGACATATAAGAAACATGCAT 59.179 37.500 0.00 0.00 0.00 3.96
2749 2788 5.149273 GCCGACATATAAGAAACATGCATG 58.851 41.667 25.09 25.09 0.00 4.06
2761 2800 7.444629 AGAAACATGCATGATATACACATCC 57.555 36.000 32.75 6.26 0.00 3.51
2882 2922 0.461870 TCCCATTCCGTCATCGCAAG 60.462 55.000 0.00 0.00 35.54 4.01
2901 2943 6.875726 TCGCAAGACTAAGTAACTACTCACTA 59.124 38.462 0.00 0.00 45.01 2.74
2924 2966 4.081695 AGACTATCTTTCCCCACCTTCT 57.918 45.455 0.00 0.00 0.00 2.85
2934 2976 0.036010 CCCACCTTCTGCGACTCAAT 60.036 55.000 0.00 0.00 0.00 2.57
2967 3014 6.761242 TGGTGAATTTTATCGACTACTGATGG 59.239 38.462 0.00 0.00 0.00 3.51
2983 3030 2.842496 TGATGGATGAAGCAGAGAGGTT 59.158 45.455 0.00 0.00 41.46 3.50
3006 3057 1.338020 CTTGAACACCCTTGTGCTTCC 59.662 52.381 0.00 0.00 46.86 3.46
3045 3096 0.179062 GCGAGCAGAGGATCAACCAT 60.179 55.000 0.00 0.00 42.04 3.55
3067 3118 1.949525 TGACACCTTTTCTCAGCTTGC 59.050 47.619 0.00 0.00 0.00 4.01
3077 3128 2.124819 CAGCTTGCGAGGGATGCT 60.125 61.111 2.37 0.00 0.00 3.79
3085 3136 1.067749 CGAGGGATGCTCTGCTGAG 59.932 63.158 15.76 15.76 42.96 3.35
3193 5174 1.794785 CGCAAGCACACGAAGCATG 60.795 57.895 0.00 0.00 34.12 4.06
3229 5217 5.126061 GGTCGTTTCCTTAGGTACACATCTA 59.874 44.000 0.00 0.00 0.00 1.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 0.326048 ATGGTAGCCACCTCTCTGCT 60.326 55.000 2.16 0.00 45.98 4.24
117 118 3.782443 GGAGGCCGTCGGTTCCAT 61.782 66.667 23.81 3.53 31.86 3.41
137 138 1.614525 TCCAGCAGCATCCACCTCT 60.615 57.895 0.00 0.00 0.00 3.69
165 166 3.016736 CCATAGCCTGACCGTTCAATTT 58.983 45.455 0.00 0.00 0.00 1.82
172 173 1.001760 ACCTCCATAGCCTGACCGT 59.998 57.895 0.00 0.00 0.00 4.83
199 200 2.569059 GAATATCAGCAGAAGCCAGCA 58.431 47.619 0.00 0.00 43.56 4.41
215 216 1.847328 TCGGCTCAGACACAGGAATA 58.153 50.000 0.00 0.00 0.00 1.75
216 217 1.134580 CATCGGCTCAGACACAGGAAT 60.135 52.381 0.00 0.00 0.00 3.01
233 235 1.971167 TGAAGCAACCGCCACCATC 60.971 57.895 0.00 0.00 39.83 3.51
234 236 2.115052 TGAAGCAACCGCCACCAT 59.885 55.556 0.00 0.00 39.83 3.55
244 246 0.376852 GTCAACAGCACGTGAAGCAA 59.623 50.000 22.23 0.00 0.00 3.91
269 271 3.295093 CTTAGAGGCTCTCTCACCATCA 58.705 50.000 22.53 0.00 44.81 3.07
356 359 2.096417 GTCACAATGCTCGGTTACACAC 60.096 50.000 0.00 0.00 0.00 3.82
362 365 1.603802 CAAGTGTCACAATGCTCGGTT 59.396 47.619 5.62 0.00 0.00 4.44
370 373 2.362077 GGTTTGAGGCAAGTGTCACAAT 59.638 45.455 5.62 0.00 30.91 2.71
533 536 0.390735 GTAGGCCCAACAACGTCGAT 60.391 55.000 0.00 0.00 0.00 3.59
535 538 0.881159 TTGTAGGCCCAACAACGTCG 60.881 55.000 15.47 0.00 32.07 5.12
551 554 2.092646 TCCTACAAACCTGTGCACTTGT 60.093 45.455 21.38 21.38 36.96 3.16
683 686 1.499438 TGGGTGTGTTGGGGACATAAA 59.501 47.619 0.00 0.00 41.10 1.40
686 689 0.486879 ATTGGGTGTGTTGGGGACAT 59.513 50.000 0.00 0.00 41.10 3.06
757 760 8.322091 ACCTTTATCTACTATCCATATTGCACC 58.678 37.037 0.00 0.00 0.00 5.01
811 815 9.309516 CGCTCACTTTTATCATTAGTTACCTTA 57.690 33.333 0.00 0.00 0.00 2.69
879 883 5.293560 AGAGAACTTGCACTAGTGAAAGAC 58.706 41.667 39.10 30.77 46.83 3.01
880 884 5.069119 TGAGAGAACTTGCACTAGTGAAAGA 59.931 40.000 39.10 19.38 46.83 2.52
929 933 4.022416 TGTTGCATGTTGAGGGATTGTTAC 60.022 41.667 0.00 0.00 0.00 2.50
977 981 1.068055 TCTCTACGTTTGTTCTCCGCC 60.068 52.381 0.00 0.00 0.00 6.13
1109 1114 5.854010 TGAGGTGACAATGGAGTATCTAC 57.146 43.478 0.00 0.00 33.73 2.59
1156 1161 6.259387 TGAATCTGAGATTGTGTGATGCATAC 59.741 38.462 13.18 0.00 0.00 2.39
1228 1234 3.063997 CCCGTTTTCTTGATTCTCCGATG 59.936 47.826 0.00 0.00 0.00 3.84
1237 1243 2.621526 GGTTGACACCCGTTTTCTTGAT 59.378 45.455 0.00 0.00 37.03 2.57
1249 1255 2.487265 CCTATGCATAGGGGTTGACACC 60.487 54.545 36.06 0.00 44.97 4.16
1426 1437 4.175962 TCCCCCTCTACTCTTTTGTGATT 58.824 43.478 0.00 0.00 0.00 2.57
1434 1445 3.562108 TGTTTCTCCCCCTCTACTCTT 57.438 47.619 0.00 0.00 0.00 2.85
1635 1668 1.936767 ATCCATCACCGGTGGCCATT 61.937 55.000 33.40 13.92 36.66 3.16
1792 1825 2.752238 CTCGAGCACCTCCCGACT 60.752 66.667 0.00 0.00 0.00 4.18
1845 1878 2.685017 ATCCTCGAGGCAGCCACA 60.685 61.111 27.39 8.01 34.44 4.17
1973 2007 3.906846 TGGCCCAAATAGTTCACCAAATT 59.093 39.130 0.00 0.00 0.00 1.82
1997 2031 9.295825 AGTTCAGACCACAAATCATAATAACAA 57.704 29.630 0.00 0.00 0.00 2.83
2005 2039 5.380043 AGTTCAGTTCAGACCACAAATCAT 58.620 37.500 0.00 0.00 0.00 2.45
2014 2048 9.827411 GTTTATCAAAATAGTTCAGTTCAGACC 57.173 33.333 0.00 0.00 0.00 3.85
2037 2071 0.381801 CCGTGAGCTGCAAACAGTTT 59.618 50.000 1.02 0.00 46.30 2.66
2121 2155 2.715763 TGGACTTTCCCACTACCTCT 57.284 50.000 0.00 0.00 35.03 3.69
2181 2215 2.705658 AGGAAGGACATCGATATTGGCA 59.294 45.455 0.00 0.00 0.00 4.92
2185 2219 3.244353 CCAGCAGGAAGGACATCGATATT 60.244 47.826 0.00 0.00 36.89 1.28
2187 2221 1.688735 CCAGCAGGAAGGACATCGATA 59.311 52.381 0.00 0.00 36.89 2.92
2267 2301 1.071314 ACCAATGGAAGGGGTGGTCA 61.071 55.000 6.16 0.00 40.38 4.02
2336 2370 7.809331 TCATGATTGTTGAAACTGCTTATTCAC 59.191 33.333 0.00 0.00 35.42 3.18
2374 2408 3.211045 ACACACACCATTGGTAAGTGTC 58.789 45.455 27.08 0.00 44.02 3.67
2377 2411 2.103432 TCGACACACACCATTGGTAAGT 59.897 45.455 8.31 7.25 32.11 2.24
2380 2414 2.037902 ACATCGACACACACCATTGGTA 59.962 45.455 8.31 0.00 32.11 3.25
2389 2423 4.794278 ACCATAAGTACATCGACACACA 57.206 40.909 0.00 0.00 0.00 3.72
2431 2468 9.182214 ACAACAAGCTGACATCTCATAAATTAT 57.818 29.630 0.00 0.00 0.00 1.28
2448 2485 4.400884 TGGTAAACACATGAACAACAAGCT 59.599 37.500 0.00 0.00 0.00 3.74
2470 2507 8.699749 CAGTATGCATATTTCATGAGCATTTTG 58.300 33.333 20.44 15.61 42.76 2.44
2499 2537 6.990798 TGTTGAAATAATCCAGCAACATGAA 58.009 32.000 0.00 0.00 42.49 2.57
2500 2538 6.587206 TGTTGAAATAATCCAGCAACATGA 57.413 33.333 0.00 0.00 42.49 3.07
2665 2703 0.618458 TTGATAGGCACAGGGTCACC 59.382 55.000 0.00 0.00 0.00 4.02
2673 2711 9.571816 TCATCAACAATAATATTGATAGGCACA 57.428 29.630 18.78 0.00 42.35 4.57
2898 2940 5.351405 AGGTGGGGAAAGATAGTCTTTAGT 58.649 41.667 5.03 0.00 45.85 2.24
2924 2966 0.169451 CAGCATTGCATTGAGTCGCA 59.831 50.000 11.91 0.00 36.05 5.10
2934 2976 4.157472 TCGATAAAATTCACCAGCATTGCA 59.843 37.500 11.91 0.00 0.00 4.08
2967 3014 4.999950 TCAAGAAAACCTCTCTGCTTCATC 59.000 41.667 0.00 0.00 31.02 2.92
2983 3030 2.733956 AGCACAAGGGTGTTCAAGAAA 58.266 42.857 0.00 0.00 46.95 2.52
3006 3057 1.596260 CTACGATGCATGTGCTTGAGG 59.404 52.381 2.46 0.00 42.66 3.86
3067 3118 1.067749 CTCAGCAGAGCATCCCTCG 59.932 63.158 0.00 0.00 45.54 4.63
3085 3136 4.767255 CACCTGGCGGTCTGCTCC 62.767 72.222 3.10 0.00 43.24 4.70
3106 3157 3.432051 ATCCAGTGCTAGGCGACGC 62.432 63.158 12.43 12.43 0.00 5.19
3193 5174 1.925185 GAAACGACCGAGCACCTAATC 59.075 52.381 0.00 0.00 0.00 1.75


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

AutoCloner maintained by Alex Coulton.