Multiple sequence alignment - TraesCS4B01G191500

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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 TraesCS4B01G191500 chr4B 100.000 3220 0 0 1 3220 413870184 413873403 0.000000e+00 5947.0
1 TraesCS4B01G191500 chr4B 83.541 401 52 9 1548 1948 413851227 413851613 2.360000e-96 363.0
2 TraesCS4B01G191500 chr4B 75.089 847 129 47 840 1653 413859587 413860384 1.440000e-83 320.0
3 TraesCS4B01G191500 chr4B 75.939 719 103 38 864 1532 413850314 413851012 4.040000e-79 305.0
4 TraesCS4B01G191500 chr4B 91.919 99 4 1 1393 1491 414188108 414188202 5.600000e-28 135.0
5 TraesCS4B01G191500 chr4A 88.174 1632 112 38 885 2472 137169021 137167427 0.000000e+00 1869.0
6 TraesCS4B01G191500 chr4A 92.140 827 55 6 1 822 137169920 137169099 0.000000e+00 1158.0
7 TraesCS4B01G191500 chr4A 90.508 748 52 13 2478 3220 137167461 137166728 0.000000e+00 970.0
8 TraesCS4B01G191500 chr4A 83.375 397 50 10 1548 1943 137178596 137178215 1.420000e-93 353.0
9 TraesCS4B01G191500 chr4A 81.379 290 45 7 2601 2885 709869962 709869677 8.990000e-56 228.0
10 TraesCS4B01G191500 chr4A 80.836 287 43 6 998 1281 137175493 137175216 7.000000e-52 215.0
11 TraesCS4B01G191500 chr4A 79.037 353 38 16 1368 1719 137175151 137174834 3.260000e-50 209.0
12 TraesCS4B01G191500 chr4A 84.236 203 20 7 1330 1532 137179000 137178810 1.530000e-43 187.0
13 TraesCS4B01G191500 chr4A 77.576 330 55 17 951 1273 136928312 136927995 7.100000e-42 182.0
14 TraesCS4B01G191500 chr4A 97.030 101 3 0 1393 1493 136927949 136927849 1.540000e-38 171.0
15 TraesCS4B01G191500 chr4A 91.139 79 5 2 2603 2679 4229221 4229299 4.390000e-19 106.0
16 TraesCS4B01G191500 chr4D 90.829 1134 51 24 828 1936 335893082 335894187 0.000000e+00 1469.0
17 TraesCS4B01G191500 chr4D 89.659 822 62 10 1 820 335892222 335893022 0.000000e+00 1026.0
18 TraesCS4B01G191500 chr4D 90.870 460 38 3 1979 2438 335894480 335894935 5.900000e-172 614.0
19 TraesCS4B01G191500 chr4D 89.647 425 36 7 2707 3126 335895317 335895738 4.730000e-148 534.0
20 TraesCS4B01G191500 chr4D 83.085 402 52 10 1548 1948 335781530 335781916 5.110000e-93 351.0
21 TraesCS4B01G191500 chr4D 87.879 165 12 4 535 699 335887920 335888076 1.530000e-43 187.0
22 TraesCS4B01G191500 chr4D 84.817 191 19 6 509 699 335888112 335888292 1.970000e-42 183.0
23 TraesCS4B01G191500 chr4D 90.000 140 12 2 527 666 335887048 335887185 2.550000e-41 180.0
24 TraesCS4B01G191500 chr4D 83.251 203 23 6 1330 1532 335780983 335781174 3.300000e-40 176.0
25 TraesCS4B01G191500 chr4D 76.875 320 56 14 966 1273 336117880 336118193 7.150000e-37 165.0
26 TraesCS4B01G191500 chr4D 83.069 189 23 5 511 699 335887467 335887646 2.570000e-36 163.0
27 TraesCS4B01G191500 chr5A 80.189 318 41 18 2576 2884 395883448 395883752 5.410000e-53 219.0
28 TraesCS4B01G191500 chr5A 81.683 202 33 4 2601 2800 585399591 585399790 7.150000e-37 165.0
29 TraesCS4B01G191500 chr5A 91.837 49 2 2 2392 2438 448293376 448293328 2.070000e-07 67.6
30 TraesCS4B01G191500 chr5D 80.797 276 40 12 2618 2884 301631900 301631629 1.510000e-48 204.0
31 TraesCS4B01G191500 chr5D 95.122 41 1 1 2395 2435 464993192 464993231 2.680000e-06 63.9
32 TraesCS4B01G191500 chr7A 78.983 295 51 8 2601 2885 19509154 19509447 1.180000e-44 191.0
33 TraesCS4B01G191500 chr1B 79.310 290 47 9 2601 2884 411413667 411413949 1.180000e-44 191.0
34 TraesCS4B01G191500 chr7B 81.308 214 32 8 2602 2811 505456567 505456358 1.990000e-37 167.0
35 TraesCS4B01G191500 chr2D 80.606 165 22 9 2396 2554 467066518 467066678 5.640000e-23 119.0
36 TraesCS4B01G191500 chr6B 97.561 41 0 1 2395 2435 18723367 18723406 5.760000e-08 69.4
37 TraesCS4B01G191500 chr3B 97.500 40 0 1 2395 2434 819010789 819010827 2.070000e-07 67.6
38 TraesCS4B01G191500 chr2B 97.500 40 0 1 2396 2435 514346501 514346463 2.070000e-07 67.6
39 TraesCS4B01G191500 chr2A 97.500 40 0 1 2396 2435 550870792 550870830 2.070000e-07 67.6


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 TraesCS4B01G191500 chr4B 413870184 413873403 3219 False 5947.000000 5947 100.00000 1 3220 1 chr4B.!!$F2 3219
1 TraesCS4B01G191500 chr4B 413850314 413851613 1299 False 334.000000 363 79.74000 864 1948 2 chr4B.!!$F4 1084
2 TraesCS4B01G191500 chr4B 413859587 413860384 797 False 320.000000 320 75.08900 840 1653 1 chr4B.!!$F1 813
3 TraesCS4B01G191500 chr4A 137166728 137169920 3192 True 1332.333333 1869 90.27400 1 3220 3 chr4A.!!$R3 3219
4 TraesCS4B01G191500 chr4A 137174834 137179000 4166 True 241.000000 353 81.87100 998 1943 4 chr4A.!!$R4 945
5 TraesCS4B01G191500 chr4D 335887048 335895738 8690 False 544.500000 1469 88.34625 1 3126 8 chr4D.!!$F3 3125
6 TraesCS4B01G191500 chr4D 335780983 335781916 933 False 263.500000 351 83.16800 1330 1948 2 chr4D.!!$F2 618

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
191 5366 0.463654 TGATGTTGCTATCACCGGGC 60.464 55.000 6.32 0.0 32.39 6.13 F
210 5385 1.162085 AGAGGAGGTTTGGGAGGCT 59.838 57.895 0.00 0.0 0.00 4.58 F
292 5469 1.366319 AGAAGTGCTGGGGAGTCATT 58.634 50.000 0.00 0.0 0.00 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1013 6286 0.322816 GAGGAGGAAATGGTGCAGCA 60.323 55.0 22.56 22.56 0.0 4.41 R
1014 6287 1.034292 GGAGGAGGAAATGGTGCAGC 61.034 60.0 9.47 9.47 0.0 5.25 R
2226 8164 0.106149 GGACCCGAACGGAAGCATAT 59.894 55.0 15.07 0.00 37.5 1.78 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
23 5198 2.439409 TCCACCAGTTCAATCATGCAG 58.561 47.619 0.00 0.00 0.00 4.41
53 5228 0.966179 AACCGAGCATGGGGAAAAAC 59.034 50.000 0.00 0.00 38.89 2.43
80 5255 8.762645 AGAAGATTATACATGACCACTTCTTCA 58.237 33.333 20.23 0.00 39.40 3.02
116 5291 1.264288 GGGACAAGAGCAACTTTGACG 59.736 52.381 0.00 0.00 36.61 4.35
159 5334 5.127031 ACTTACAACCACTTGACTTGCATTT 59.873 36.000 0.00 0.00 0.00 2.32
189 5364 3.063997 GTCTTTGATGTTGCTATCACCGG 59.936 47.826 0.00 0.00 36.84 5.28
191 5366 0.463654 TGATGTTGCTATCACCGGGC 60.464 55.000 6.32 0.00 32.39 6.13
192 5367 0.463654 GATGTTGCTATCACCGGGCA 60.464 55.000 6.32 1.33 0.00 5.36
210 5385 1.162085 AGAGGAGGTTTGGGAGGCT 59.838 57.895 0.00 0.00 0.00 4.58
292 5469 1.366319 AGAAGTGCTGGGGAGTCATT 58.634 50.000 0.00 0.00 0.00 2.57
298 5475 1.565759 TGCTGGGGAGTCATTAAGCAT 59.434 47.619 5.28 0.00 35.84 3.79
322 5499 3.167485 TGGATGAGCCAAATCTTTTGCT 58.833 40.909 1.27 1.27 45.87 3.91
333 5510 4.400036 AATCTTTTGCTTCCGTTCGTAC 57.600 40.909 0.00 0.00 0.00 3.67
425 5602 7.894753 TTACATATTCTGATGAAATGGCCAA 57.105 32.000 10.96 0.00 35.63 4.52
428 5605 6.154877 ACATATTCTGATGAAATGGCCAACAA 59.845 34.615 10.96 0.00 35.63 2.83
605 5783 6.749923 ATTCTCTTGCAGTTTCCATCTTAC 57.250 37.500 0.00 0.00 0.00 2.34
670 5852 7.883311 AGGTTTTGTATTTTGCTAGCTTCTAGA 59.117 33.333 17.23 0.00 0.00 2.43
685 5867 4.618693 GCTTCTAGAAGTAGAAACGCCACT 60.619 45.833 28.72 0.00 43.35 4.00
731 5913 1.849097 CCTACTGGTTTACGCGATCC 58.151 55.000 15.93 9.86 0.00 3.36
732 5914 1.537562 CCTACTGGTTTACGCGATCCC 60.538 57.143 15.93 7.56 0.00 3.85
755 5938 4.613622 CGTTCTGAAAGGAAATGTTCGCAT 60.614 41.667 0.00 0.00 40.03 4.73
790 5973 3.837355 AGAGTGGCAAACTTCTTCCAAT 58.163 40.909 0.00 0.00 40.07 3.16
822 6017 8.950210 CAAGGTTCATTAGATTGTGTAGAACAT 58.050 33.333 0.00 0.00 38.99 2.71
823 6018 8.498054 AGGTTCATTAGATTGTGTAGAACATG 57.502 34.615 0.00 0.00 38.99 3.21
824 6019 7.554118 AGGTTCATTAGATTGTGTAGAACATGG 59.446 37.037 0.00 0.00 38.99 3.66
825 6020 7.552687 GGTTCATTAGATTGTGTAGAACATGGA 59.447 37.037 0.00 0.00 38.99 3.41
826 6021 8.607459 GTTCATTAGATTGTGTAGAACATGGAG 58.393 37.037 0.00 0.00 38.99 3.86
837 6072 6.313905 GTGTAGAACATGGAGTGGAGTAATTG 59.686 42.308 0.00 0.00 0.00 2.32
1138 6429 3.527533 CTCTACTACGAGTCTCTGTGCT 58.472 50.000 0.00 0.00 0.00 4.40
1191 6482 0.247736 CCAGAGTCTTCAAGGACGGG 59.752 60.000 0.00 0.00 40.76 5.28
1349 6670 7.201617 GGTGTGAATTAGCACTGTCTAATTACC 60.202 40.741 17.37 16.93 44.68 2.85
1377 6699 1.819208 GCGGTGCATGGTGCTGATA 60.819 57.895 3.41 0.00 45.31 2.15
1384 6706 4.129380 GTGCATGGTGCTGATACTCATAA 58.871 43.478 3.41 0.00 45.31 1.90
1385 6707 4.576053 GTGCATGGTGCTGATACTCATAAA 59.424 41.667 3.41 0.00 45.31 1.40
1389 6711 5.794687 TGGTGCTGATACTCATAAAAACG 57.205 39.130 0.00 0.00 0.00 3.60
1390 6712 5.242434 TGGTGCTGATACTCATAAAAACGT 58.758 37.500 0.00 0.00 0.00 3.99
1391 6713 5.703592 TGGTGCTGATACTCATAAAAACGTT 59.296 36.000 0.00 0.00 0.00 3.99
1545 7223 2.418976 CAGCTTCATGCCGGATATGATG 59.581 50.000 18.76 20.00 44.23 3.07
1719 7397 2.751436 CATGGCCACAAGGTCCGG 60.751 66.667 8.16 0.00 39.40 5.14
1758 7439 1.640428 CGTTGTGGTATCAGTCGCAT 58.360 50.000 0.00 0.00 0.00 4.73
1759 7440 2.804647 CGTTGTGGTATCAGTCGCATA 58.195 47.619 0.00 0.00 0.00 3.14
1760 7441 2.534349 CGTTGTGGTATCAGTCGCATAC 59.466 50.000 0.00 0.00 0.00 2.39
1850 7532 1.823797 AGTACGGGAGACAGACAGAC 58.176 55.000 0.00 0.00 0.00 3.51
1896 7578 0.836830 TCCGTGGGTGGTGGTTGATA 60.837 55.000 0.00 0.00 0.00 2.15
1944 7626 5.437060 ACAGCCACTCTTCTCAAGTTTTAA 58.563 37.500 0.00 0.00 0.00 1.52
1950 7632 7.592903 GCCACTCTTCTCAAGTTTTAAATCAAG 59.407 37.037 0.00 0.00 0.00 3.02
1971 7653 6.913673 TCAAGTTTTAAATCCAGTTTACGCAC 59.086 34.615 0.00 0.00 32.17 5.34
1972 7654 6.380095 AGTTTTAAATCCAGTTTACGCACA 57.620 33.333 0.00 0.00 32.17 4.57
1974 7656 6.861055 AGTTTTAAATCCAGTTTACGCACATG 59.139 34.615 0.00 0.00 32.17 3.21
1975 7657 5.950758 TTAAATCCAGTTTACGCACATGT 57.049 34.783 0.00 0.00 32.17 3.21
1976 7658 7.436430 TTTAAATCCAGTTTACGCACATGTA 57.564 32.000 0.00 0.00 32.17 2.29
1977 7659 5.545658 AAATCCAGTTTACGCACATGTAG 57.454 39.130 0.00 0.00 0.00 2.74
1983 7915 5.163992 CCAGTTTACGCACATGTAGTACTTG 60.164 44.000 13.21 13.21 0.00 3.16
1986 7918 7.115236 CAGTTTACGCACATGTAGTACTTGTTA 59.885 37.037 16.85 6.99 34.74 2.41
1990 7922 9.636879 TTACGCACATGTAGTACTTGTTAAATA 57.363 29.630 16.85 7.01 34.74 1.40
2033 7965 1.141234 CTTCGGGGACTTCGTAGCC 59.859 63.158 0.00 0.00 0.00 3.93
2110 8042 2.895372 CCGTGGCTATCCAACCGC 60.895 66.667 0.00 0.00 45.53 5.68
2113 8045 2.125310 TGGCTATCCAACCGCACG 60.125 61.111 0.00 0.00 39.99 5.34
2197 8129 1.060842 CGTCGACGACAGGACTAAGAG 59.939 57.143 33.35 3.52 43.02 2.85
2208 8146 3.224324 CTAAGAGGGCGCGGGCTA 61.224 66.667 24.48 7.29 39.81 3.93
2226 8164 6.017440 GCGGGCTAATGACAATTGATAACTTA 60.017 38.462 13.59 2.20 0.00 2.24
2236 8177 8.773645 TGACAATTGATAACTTATATGCTTCCG 58.226 33.333 13.59 0.00 0.00 4.30
2247 8188 4.011517 GCTTCCGTTCGGGTCCCA 62.012 66.667 9.12 0.00 37.00 4.37
2265 8206 5.416947 GTCCCAATCATACCCATATACGTC 58.583 45.833 0.00 0.00 0.00 4.34
2296 8237 2.028112 CAGTTTCATCCTTCTGTCCGGA 60.028 50.000 0.00 0.00 0.00 5.14
2304 8245 5.659525 TCATCCTTCTGTCCGGATTAACTAA 59.340 40.000 7.81 0.00 37.93 2.24
2322 8270 9.628500 ATTAACTAAGGAAATGTATTCCACTCC 57.372 33.333 9.69 0.00 41.00 3.85
2332 8280 9.899226 GAAATGTATTCCACTCCATAATAAAGC 57.101 33.333 0.00 0.00 0.00 3.51
2393 8341 2.656055 GGAAAGCCATTTGCCGCA 59.344 55.556 0.00 0.00 42.71 5.69
2441 8389 7.264373 CTCCATGGAGCTCGTTTAAAATAAT 57.736 36.000 28.45 0.00 35.31 1.28
2812 10532 9.988350 CCATATGAAGTGTAGAATGTGTTTTAC 57.012 33.333 3.65 0.00 0.00 2.01
2843 10563 8.728088 TCTCTAACTTCAAAATGCGATTTTTC 57.272 30.769 4.70 0.00 40.27 2.29
2844 10564 8.567948 TCTCTAACTTCAAAATGCGATTTTTCT 58.432 29.630 4.70 0.00 40.27 2.52
3054 11151 7.765695 TTCTTCTCTTGTGCCTCAAAATAAT 57.234 32.000 0.00 0.00 35.48 1.28
3064 11161 3.476552 CCTCAAAATAATCCCGCAGCTA 58.523 45.455 0.00 0.00 0.00 3.32
3072 11169 1.972872 ATCCCGCAGCTAAAATCCTG 58.027 50.000 0.00 0.00 0.00 3.86
3091 11188 5.606505 TCCTGGTGAAAACAAATAAAAGGC 58.393 37.500 0.00 0.00 0.00 4.35
3114 11211 2.604614 GCGGGAATGCGATAAAATCCAC 60.605 50.000 0.00 0.00 31.63 4.02
3133 11230 8.904099 AATCCACGAAAATCCTAATACTAAGG 57.096 34.615 0.00 0.00 35.26 2.69
3135 11232 8.537728 TCCACGAAAATCCTAATACTAAGGTA 57.462 34.615 0.00 0.00 35.48 3.08
3174 11274 2.679355 TGACGCAAAAATTGGACTCG 57.321 45.000 0.00 0.00 0.00 4.18
3180 11280 3.701241 GCAAAAATTGGACTCGTCAACA 58.299 40.909 0.00 0.00 0.00 3.33
3194 11294 1.279271 GTCAACAGGCCCATGTAGTCT 59.721 52.381 0.00 0.00 31.70 3.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 5198 1.227176 GCTCGGTTACCCATCCGTC 60.227 63.158 0.00 0.00 45.88 4.79
53 5228 8.954950 AAGAAGTGGTCATGTATAATCTTCTG 57.045 34.615 15.19 0.00 39.74 3.02
80 5255 1.636003 GTCCCCTTTCTCCATGACCTT 59.364 52.381 0.00 0.00 0.00 3.50
116 5291 5.904362 AAGTTGAGCTCATCCCAATTAAC 57.096 39.130 19.04 9.27 0.00 2.01
159 5334 3.570975 AGCAACATCAAAGACTTGCATGA 59.429 39.130 6.60 0.00 41.25 3.07
166 5341 3.935203 CGGTGATAGCAACATCAAAGACT 59.065 43.478 0.00 0.00 36.71 3.24
170 5345 2.364632 CCCGGTGATAGCAACATCAAA 58.635 47.619 0.00 0.00 36.71 2.69
189 5364 1.301293 CTCCCAAACCTCCTCTGCC 59.699 63.158 0.00 0.00 0.00 4.85
191 5366 1.204113 AGCCTCCCAAACCTCCTCTG 61.204 60.000 0.00 0.00 0.00 3.35
192 5367 0.417841 TAGCCTCCCAAACCTCCTCT 59.582 55.000 0.00 0.00 0.00 3.69
210 5385 7.500992 CCTTGTCACTAGGCATCTTCTTAATA 58.499 38.462 0.00 0.00 0.00 0.98
280 5455 3.565764 TCATGCTTAATGACTCCCCAG 57.434 47.619 0.00 0.00 40.50 4.45
292 5469 3.581265 TTGGCTCATCCATCATGCTTA 57.419 42.857 0.00 0.00 46.04 3.09
298 5475 4.382254 GCAAAAGATTTGGCTCATCCATCA 60.382 41.667 5.12 0.00 46.04 3.07
333 5510 5.921408 TGAAAACCAAATCGGGTAATTTTCG 59.079 36.000 0.00 0.00 41.32 3.46
340 5517 5.374921 TGTAACTGAAAACCAAATCGGGTA 58.625 37.500 0.00 0.00 41.32 3.69
372 5549 8.923609 ATCTCGCTGTTATATGATGAATAGTG 57.076 34.615 0.00 0.00 0.00 2.74
428 5605 9.495572 TTTTTAGAGTCACAAAACCATGTTTTT 57.504 25.926 2.36 0.00 0.00 1.94
455 5633 5.136105 GGCCATGTCATCTTATCTTTCCTT 58.864 41.667 0.00 0.00 0.00 3.36
456 5634 4.166725 TGGCCATGTCATCTTATCTTTCCT 59.833 41.667 0.00 0.00 0.00 3.36
605 5783 8.918961 TTGCAATTAATTAGTAAACCATTCCG 57.081 30.769 0.00 0.00 0.00 4.30
670 5852 3.314541 CCAGTAGTGGCGTTTCTACTT 57.685 47.619 2.97 0.00 43.04 2.24
685 5867 1.040646 CCGCTAGAGGATTGCCAGTA 58.959 55.000 6.69 0.00 36.29 2.74
699 5881 1.134521 CCAGTAGGCAAATGACCGCTA 60.135 52.381 0.00 0.00 0.00 4.26
731 5913 3.810373 CGAACATTTCCTTTCAGAACGG 58.190 45.455 0.00 0.00 0.00 4.44
732 5914 3.226347 GCGAACATTTCCTTTCAGAACG 58.774 45.455 0.00 0.00 0.00 3.95
755 5938 3.685139 CCACTCTAGGCAAGAACTCAA 57.315 47.619 0.00 0.00 32.46 3.02
782 5965 9.231297 CTAATGAACCTTGTTTCTATTGGAAGA 57.769 33.333 0.00 0.00 35.16 2.87
790 5973 8.918202 ACACAATCTAATGAACCTTGTTTCTA 57.082 30.769 0.00 0.00 0.00 2.10
822 6017 6.228258 GTCAAACTACAATTACTCCACTCCA 58.772 40.000 0.00 0.00 0.00 3.86
823 6018 5.642491 GGTCAAACTACAATTACTCCACTCC 59.358 44.000 0.00 0.00 0.00 3.85
824 6019 6.465084 AGGTCAAACTACAATTACTCCACTC 58.535 40.000 0.00 0.00 0.00 3.51
825 6020 6.435292 AGGTCAAACTACAATTACTCCACT 57.565 37.500 0.00 0.00 0.00 4.00
826 6021 7.506328 AAAGGTCAAACTACAATTACTCCAC 57.494 36.000 0.00 0.00 0.00 4.02
837 6072 5.049886 CGAGGTGGTTTAAAGGTCAAACTAC 60.050 44.000 6.05 6.05 42.99 2.73
952 6202 1.600636 CAGAGGGTGCAAGGCGAAA 60.601 57.895 0.00 0.00 0.00 3.46
963 6213 1.002069 TTGATCAATGGGCAGAGGGT 58.998 50.000 3.38 0.00 0.00 4.34
1012 6285 0.323178 AGGAGGAAATGGTGCAGCAG 60.323 55.000 24.45 0.00 0.00 4.24
1013 6286 0.322816 GAGGAGGAAATGGTGCAGCA 60.323 55.000 22.56 22.56 0.00 4.41
1014 6287 1.034292 GGAGGAGGAAATGGTGCAGC 61.034 60.000 9.47 9.47 0.00 5.25
1138 6429 3.007940 ACCATGAACTGAAATGAGTCGGA 59.992 43.478 0.00 0.00 0.00 4.55
1293 6584 3.696548 CCCAGAACCCAAAAAGATCTAGC 59.303 47.826 0.00 0.00 0.00 3.42
1349 6670 2.616330 ATGCACCGCCAAACAGTCG 61.616 57.895 0.00 0.00 0.00 4.18
1377 6699 6.713450 AGTATCCCAACAACGTTTTTATGAGT 59.287 34.615 0.00 0.00 0.00 3.41
1384 6706 2.295070 GCCAGTATCCCAACAACGTTTT 59.705 45.455 0.00 0.00 0.00 2.43
1385 6707 1.883926 GCCAGTATCCCAACAACGTTT 59.116 47.619 0.00 0.00 0.00 3.60
1389 6711 2.514803 ACAAGCCAGTATCCCAACAAC 58.485 47.619 0.00 0.00 0.00 3.32
1390 6712 2.890311 CAACAAGCCAGTATCCCAACAA 59.110 45.455 0.00 0.00 0.00 2.83
1391 6713 2.513753 CAACAAGCCAGTATCCCAACA 58.486 47.619 0.00 0.00 0.00 3.33
1545 7223 1.865970 CAGCAACAGCTAGCTATCAGC 59.134 52.381 18.86 18.17 39.50 4.26
1575 7253 3.569701 AGTTGATGAAACCGAAATGCACT 59.430 39.130 0.00 0.00 39.85 4.40
1719 7397 2.338500 GCAGCGGCATAGGATTAGTAC 58.662 52.381 3.18 0.00 40.72 2.73
1916 7598 1.270518 TGAGAAGAGTGGCTGTTGCTC 60.271 52.381 0.00 0.00 39.59 4.26
1944 7626 8.138712 TGCGTAAACTGGATTTAAAACTTGATT 58.861 29.630 0.00 0.00 34.50 2.57
1950 7632 6.639279 ACATGTGCGTAAACTGGATTTAAAAC 59.361 34.615 0.00 0.00 34.50 2.43
1953 7635 5.950758 ACATGTGCGTAAACTGGATTTAA 57.049 34.783 0.00 0.00 34.50 1.52
1955 7637 5.001232 ACTACATGTGCGTAAACTGGATTT 58.999 37.500 9.11 0.00 0.00 2.17
1957 7639 4.202245 ACTACATGTGCGTAAACTGGAT 57.798 40.909 9.11 0.00 0.00 3.41
1958 7640 3.671008 ACTACATGTGCGTAAACTGGA 57.329 42.857 9.11 0.00 0.00 3.86
1959 7641 4.491676 AGTACTACATGTGCGTAAACTGG 58.508 43.478 9.11 0.00 36.37 4.00
1963 7645 7.943413 TTAACAAGTACTACATGTGCGTAAA 57.057 32.000 9.11 0.00 36.37 2.01
1966 7648 7.816031 ACTATTTAACAAGTACTACATGTGCGT 59.184 33.333 9.11 8.19 36.37 5.24
1968 7650 9.146984 TCACTATTTAACAAGTACTACATGTGC 57.853 33.333 9.11 0.00 29.71 4.57
1971 7653 9.563898 TCGTCACTATTTAACAAGTACTACATG 57.436 33.333 0.00 0.00 0.00 3.21
1972 7654 9.784680 CTCGTCACTATTTAACAAGTACTACAT 57.215 33.333 0.00 0.00 0.00 2.29
1976 7658 7.909121 CGATCTCGTCACTATTTAACAAGTACT 59.091 37.037 0.00 0.00 34.11 2.73
1977 7659 8.037058 CGATCTCGTCACTATTTAACAAGTAC 57.963 38.462 0.00 0.00 34.11 2.73
2005 7937 1.145803 GTCCCCGAAGTTCTGAAACG 58.854 55.000 0.56 0.00 40.48 3.60
2033 7965 2.293677 TGTACGCCTTGCAGATGTAG 57.706 50.000 0.00 0.00 0.00 2.74
2098 8030 1.421410 CTGTCGTGCGGTTGGATAGC 61.421 60.000 0.00 0.00 0.00 2.97
2197 8129 4.849310 TGTCATTAGCCCGCGCCC 62.849 66.667 0.00 0.00 34.57 6.13
2226 8164 0.106149 GGACCCGAACGGAAGCATAT 59.894 55.000 15.07 0.00 37.50 1.78
2236 8177 1.476291 GGGTATGATTGGGACCCGAAC 60.476 57.143 3.96 2.22 43.41 3.95
2247 8188 8.258007 CCTATGTTGACGTATATGGGTATGATT 58.742 37.037 0.00 0.00 0.00 2.57
2265 8206 6.093219 CAGAAGGATGAAACTGTCCTATGTTG 59.907 42.308 0.00 0.00 43.94 3.33
2296 8237 9.628500 GGAGTGGAATACATTTCCTTAGTTAAT 57.372 33.333 6.00 0.00 39.31 1.40
2322 8270 7.007697 GCATTACCGTAACTCGCTTTATTATG 58.992 38.462 0.00 0.00 38.35 1.90
2332 8280 2.288961 ACCAGCATTACCGTAACTCG 57.711 50.000 0.00 0.00 39.52 4.18
2393 8341 4.843728 TCGTCCTCCATTTAGCATTTTCT 58.156 39.130 0.00 0.00 0.00 2.52
2572 8670 5.713792 TGAAGGTGTGTGACTTTTTCAAA 57.286 34.783 0.00 0.00 35.39 2.69
2812 10532 9.941664 ATCGCATTTTGAAGTTAGAGAAATATG 57.058 29.630 0.00 0.00 0.00 1.78
2819 10539 8.733857 AGAAAAATCGCATTTTGAAGTTAGAG 57.266 30.769 7.36 0.00 41.30 2.43
2863 10585 3.941081 TGGAGGACGAGCTCCATC 58.059 61.111 8.47 6.10 44.02 3.51
3054 11151 0.107214 CCAGGATTTTAGCTGCGGGA 60.107 55.000 0.00 0.00 0.00 5.14
3064 11161 9.119418 CCTTTTATTTGTTTTCACCAGGATTTT 57.881 29.630 0.00 0.00 0.00 1.82
3072 11169 4.084589 CGCAGCCTTTTATTTGTTTTCACC 60.085 41.667 0.00 0.00 0.00 4.02
3091 11188 2.350772 GGATTTTATCGCATTCCCGCAG 60.351 50.000 0.00 0.00 0.00 5.18
3135 11232 9.035607 TGCGTCATGTTTTACATTTTATTTTGT 57.964 25.926 0.00 0.00 36.53 2.83
3150 11247 4.692228 AGTCCAATTTTTGCGTCATGTTT 58.308 34.783 0.00 0.00 0.00 2.83
3165 11265 0.321653 GGCCTGTTGACGAGTCCAAT 60.322 55.000 0.00 0.00 0.00 3.16
3174 11274 1.279271 AGACTACATGGGCCTGTTGAC 59.721 52.381 18.55 14.15 0.00 3.18
3180 11280 2.559381 AAGAGAGACTACATGGGCCT 57.441 50.000 4.53 0.00 0.00 5.19
3194 11294 3.943671 TCCCAAAACCAGTGAAAGAGA 57.056 42.857 0.00 0.00 0.00 3.10


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

AutoCloner maintained by Alex Coulton.