Multiple sequence alignment - TraesCS7B01G003600

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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 TraesCS7B01G003600 chr7B 100.000 2732 0 0 1 2732 1350479 1353210 0.000000e+00 5046.0
1 TraesCS7B01G003600 chr7B 85.486 1688 210 14 1 1675 888612 886947 0.000000e+00 1727.0
2 TraesCS7B01G003600 chr7B 85.427 1688 211 14 1 1675 884141 882476 0.000000e+00 1722.0
3 TraesCS7B01G003600 chr7B 88.104 1345 110 23 652 1965 1307598 1308923 0.000000e+00 1552.0
4 TraesCS7B01G003600 chr7B 86.725 806 102 4 1 805 1035106 1034305 0.000000e+00 891.0
5 TraesCS7B01G003600 chr7B 85.714 392 41 9 2116 2506 1327003 1327380 1.520000e-107 399.0
6 TraesCS7B01G003600 chr7B 85.434 357 24 17 1992 2338 829111 828773 2.010000e-91 346.0
7 TraesCS7B01G003600 chr7B 80.102 392 28 25 2066 2421 885788 885411 2.100000e-61 246.0
8 TraesCS7B01G003600 chr7B 79.333 300 22 20 2154 2421 831067 830776 1.010000e-39 174.0
9 TraesCS7B01G003600 chr7B 80.180 222 25 12 2217 2429 850960 851171 6.100000e-32 148.0
10 TraesCS7B01G003600 chr7B 98.701 77 1 0 1889 1965 885965 885889 1.320000e-28 137.0
11 TraesCS7B01G003600 chr7B 92.105 76 3 1 1803 1875 1032506 1032431 1.340000e-18 104.0
12 TraesCS7B01G003600 chr7B 98.113 53 1 0 1964 2016 885863 885811 2.900000e-15 93.5
13 TraesCS7B01G003600 chr7B 97.872 47 1 0 1964 2010 1308949 1308995 6.270000e-12 82.4
14 TraesCS7B01G003600 chr7B 85.897 78 8 2 1725 1799 829474 829397 2.260000e-11 80.5
15 TraesCS7B01G003600 chr7B 97.500 40 1 0 1757 1796 886233 886194 4.880000e-08 69.4
16 TraesCS7B01G003600 chr7B 95.349 43 2 0 2035 2077 1326944 1326986 4.880000e-08 69.4
17 TraesCS7B01G003600 chr7B 89.362 47 1 1 1964 2010 850924 850966 3.800000e-04 56.5
18 TraesCS7B01G003600 chr5B 87.041 1690 183 18 1 1675 711351541 711349873 0.000000e+00 1875.0
19 TraesCS7B01G003600 chr5B 85.049 1331 157 16 374 1675 711333404 711332087 0.000000e+00 1317.0
20 TraesCS7B01G003600 chr5B 87.673 941 103 7 1 933 711411537 711410602 0.000000e+00 1083.0
21 TraesCS7B01G003600 chr5B 89.059 786 78 5 1 785 711964208 711964986 0.000000e+00 968.0
22 TraesCS7B01G003600 chr5B 84.715 772 89 10 923 1677 711406810 711406051 0.000000e+00 745.0
23 TraesCS7B01G003600 chr5B 87.613 444 33 10 1992 2429 711405101 711404674 1.890000e-136 496.0
24 TraesCS7B01G003600 chr5B 87.888 322 12 10 2104 2415 711331138 711330834 1.200000e-93 353.0
25 TraesCS7B01G003600 chr5B 80.054 371 27 24 2385 2717 711834147 711834508 5.880000e-57 231.0
26 TraesCS7B01G003600 chr5B 81.979 283 18 15 1888 2163 711349015 711348759 2.760000e-50 209.0
27 TraesCS7B01G003600 chr5B 77.805 410 27 27 1984 2376 711833576 711833938 7.720000e-46 195.0
28 TraesCS7B01G003600 chr5B 86.420 162 7 9 2147 2308 711343365 711343219 2.180000e-36 163.0
29 TraesCS7B01G003600 chr5B 81.212 165 11 12 2243 2393 711742055 711742213 6.180000e-22 115.0
30 TraesCS7B01G003600 chr5B 91.358 81 5 1 1795 1875 711405386 711405308 2.880000e-20 110.0
31 TraesCS7B01G003600 chr5B 90.667 75 1 3 1803 1872 711935161 711935234 8.050000e-16 95.3
32 TraesCS7B01G003600 chr5B 96.000 50 2 0 1803 1852 711349195 711349146 6.270000e-12 82.4
33 TraesCS7B01G003600 chr5B 84.270 89 6 2 1992 2080 711331270 711331190 2.260000e-11 80.5
34 TraesCS7B01G003600 chr5D 86.494 1703 177 24 1 1672 561925642 561927322 0.000000e+00 1821.0
35 TraesCS7B01G003600 chr5D 85.638 1685 196 16 1 1668 552858706 552857051 0.000000e+00 1729.0
36 TraesCS7B01G003600 chr5D 85.746 1354 152 14 340 1677 551881700 551883028 0.000000e+00 1393.0
37 TraesCS7B01G003600 chr5D 80.129 1711 262 37 1 1669 556538667 556536993 0.000000e+00 1205.0
38 TraesCS7B01G003600 chr5D 87.066 1036 116 10 659 1682 561898896 561899925 0.000000e+00 1155.0
39 TraesCS7B01G003600 chr5D 87.416 747 70 13 659 1390 561642096 561641359 0.000000e+00 837.0
40 TraesCS7B01G003600 chr5D 81.629 528 33 27 2230 2714 552856082 552855576 1.990000e-101 379.0
41 TraesCS7B01G003600 chr5D 77.554 597 68 36 2168 2711 561928870 561929453 1.590000e-77 300.0
42 TraesCS7B01G003600 chr5D 80.368 326 28 17 2429 2732 551884285 551884596 5.930000e-52 215.0
43 TraesCS7B01G003600 chr5D 79.899 199 14 10 1992 2190 551883802 551883974 3.690000e-24 122.0
44 TraesCS7B01G003600 chr5D 82.609 115 9 6 2314 2421 561900239 561900349 1.040000e-14 91.6
45 TraesCS7B01G003600 chr5A 83.568 852 111 9 832 1675 698689576 698688746 0.000000e+00 771.0
46 TraesCS7B01G003600 chr5A 86.872 617 80 1 1 617 698690185 698689570 0.000000e+00 689.0
47 TraesCS7B01G003600 chr4B 87.196 617 78 1 1 617 656881389 656882004 0.000000e+00 701.0
48 TraesCS7B01G003600 chr4B 91.176 68 5 1 1803 1870 656883143 656883209 1.040000e-14 91.6
49 TraesCS7B01G003600 chr2A 89.516 124 4 6 2149 2270 306138397 306138281 6.100000e-32 148.0
50 TraesCS7B01G003600 chr2A 77.889 199 13 15 1887 2082 306138600 306138430 8.050000e-16 95.3
51 TraesCS7B01G003600 chr4D 83.099 142 14 8 2549 2687 509848949 509848815 1.330000e-23 121.0
52 TraesCS7B01G003600 chr4D 79.070 215 16 16 1887 2099 509850458 509850271 1.330000e-23 121.0


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 TraesCS7B01G003600 chr7B 1350479 1353210 2731 False 5046.000000 5046 100.000000 1 2732 1 chr7B.!!$F1 2731
1 TraesCS7B01G003600 chr7B 1307598 1308995 1397 False 817.200000 1552 92.988000 652 2010 2 chr7B.!!$F3 1358
2 TraesCS7B01G003600 chr7B 882476 888612 6136 True 665.816667 1727 90.888167 1 2421 6 chr7B.!!$R2 2420
3 TraesCS7B01G003600 chr7B 1032431 1035106 2675 True 497.500000 891 89.415000 1 1875 2 chr7B.!!$R3 1874
4 TraesCS7B01G003600 chr7B 828773 831067 2294 True 200.166667 346 83.554667 1725 2421 3 chr7B.!!$R1 696
5 TraesCS7B01G003600 chr5B 711964208 711964986 778 False 968.000000 968 89.059000 1 785 1 chr5B.!!$F3 784
6 TraesCS7B01G003600 chr5B 711348759 711351541 2782 True 722.133333 1875 88.340000 1 2163 3 chr5B.!!$R3 2162
7 TraesCS7B01G003600 chr5B 711404674 711411537 6863 True 608.500000 1083 87.839750 1 2429 4 chr5B.!!$R4 2428
8 TraesCS7B01G003600 chr5B 711330834 711333404 2570 True 583.500000 1317 85.735667 374 2415 3 chr5B.!!$R2 2041
9 TraesCS7B01G003600 chr5B 711833576 711834508 932 False 213.000000 231 78.929500 1984 2717 2 chr5B.!!$F4 733
10 TraesCS7B01G003600 chr5D 556536993 556538667 1674 True 1205.000000 1205 80.129000 1 1669 1 chr5D.!!$R1 1668
11 TraesCS7B01G003600 chr5D 561925642 561929453 3811 False 1060.500000 1821 82.024000 1 2711 2 chr5D.!!$F3 2710
12 TraesCS7B01G003600 chr5D 552855576 552858706 3130 True 1054.000000 1729 83.633500 1 2714 2 chr5D.!!$R3 2713
13 TraesCS7B01G003600 chr5D 561641359 561642096 737 True 837.000000 837 87.416000 659 1390 1 chr5D.!!$R2 731
14 TraesCS7B01G003600 chr5D 561898896 561900349 1453 False 623.300000 1155 84.837500 659 2421 2 chr5D.!!$F2 1762
15 TraesCS7B01G003600 chr5D 551881700 551884596 2896 False 576.666667 1393 82.004333 340 2732 3 chr5D.!!$F1 2392
16 TraesCS7B01G003600 chr5A 698688746 698690185 1439 True 730.000000 771 85.220000 1 1675 2 chr5A.!!$R1 1674
17 TraesCS7B01G003600 chr4B 656881389 656883209 1820 False 396.300000 701 89.186000 1 1870 2 chr4B.!!$F1 1869

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
419 420 0.109342 CTTGAAGTGTCTGGGTGCCT 59.891 55.000 0.0 0.00 0.0 4.75 F
1013 4915 1.152368 GGCCCATGGGAGAATCTGG 59.848 63.158 36.0 4.56 37.5 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1359 5294 0.478072 ATTCAAGTGTGTGGAGGGCA 59.522 50.0 0.0 0.0 0.0 5.36 R
2560 10360 0.327259 TGGAATGCTCTGCTCTGCTT 59.673 50.0 0.0 0.0 0.0 3.91 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
61 62 2.438951 TACCGTTGGTCCTCGTTGGC 62.439 60.000 0.00 0.00 37.09 4.52
87 88 5.295787 GTGTCTTGACATGTGGTTAACAAGA 59.704 40.000 17.01 17.01 43.61 3.02
101 102 7.757624 GTGGTTAACAAGATTAGAGACTCTCAG 59.242 40.741 8.64 0.00 32.06 3.35
209 210 2.843730 TGCTTCAGTTTGGGCCTCTATA 59.156 45.455 4.53 0.00 0.00 1.31
255 256 1.674359 TGCGCTTGAAGAAAGTTGGA 58.326 45.000 9.73 0.00 38.25 3.53
302 303 4.017958 TGAATGGGCTGTGGAACCTAATTA 60.018 41.667 0.00 0.00 34.36 1.40
309 310 5.193679 GCTGTGGAACCTAATTACCATTCT 58.806 41.667 0.00 0.00 34.36 2.40
312 313 7.628580 GCTGTGGAACCTAATTACCATTCTTTC 60.629 40.741 0.00 0.00 34.36 2.62
315 316 5.597182 GGAACCTAATTACCATTCTTTCCCC 59.403 44.000 0.00 0.00 0.00 4.81
338 339 5.152097 CAGTCTTGAAGAAATCACATGCAC 58.848 41.667 0.00 0.00 37.92 4.57
359 360 1.017387 GATTGTCCCAATCTCCGTGC 58.983 55.000 9.19 0.00 0.00 5.34
360 361 0.394352 ATTGTCCCAATCTCCGTGCC 60.394 55.000 0.00 0.00 0.00 5.01
398 399 0.317799 TCTTGCACCAATTTGCGCAT 59.682 45.000 12.75 0.00 46.20 4.73
408 409 3.609373 CCAATTTGCGCATACTTGAAGTG 59.391 43.478 12.75 10.96 0.00 3.16
419 420 0.109342 CTTGAAGTGTCTGGGTGCCT 59.891 55.000 0.00 0.00 0.00 4.75
424 425 1.377725 GTGTCTGGGTGCCTCATGG 60.378 63.158 0.00 0.00 0.00 3.66
469 470 2.439507 ACCTCCACACTGACAGATTTGT 59.560 45.455 10.08 0.00 41.18 2.83
479 480 7.376866 CACACTGACAGATTTGTATGTTCAAAC 59.623 37.037 10.08 0.00 39.58 2.93
490 500 6.951062 TGTATGTTCAAACAGGTGATTCAA 57.049 33.333 1.69 0.00 43.04 2.69
497 507 5.336744 TCAAACAGGTGATTCAAAAACGTC 58.663 37.500 0.00 0.00 0.00 4.34
498 508 3.982576 ACAGGTGATTCAAAAACGTCC 57.017 42.857 0.00 0.00 0.00 4.79
524 540 5.127519 TGTCTTATCATGGAAAGCAATTGGG 59.872 40.000 7.72 0.00 0.00 4.12
526 542 6.321181 GTCTTATCATGGAAAGCAATTGGGTA 59.679 38.462 7.72 0.00 0.00 3.69
622 638 7.543947 TCACACATATCATTGACAGACATTC 57.456 36.000 0.00 0.00 0.00 2.67
805 821 1.490490 TCCCAGCTCTTTCTGTGTTGT 59.510 47.619 0.00 0.00 32.32 3.32
811 827 5.877012 CCAGCTCTTTCTGTGTTGTACATAT 59.123 40.000 0.00 0.00 38.92 1.78
851 924 2.832643 ATGCAGTTCCCATCATCCAA 57.167 45.000 0.00 0.00 0.00 3.53
907 980 1.543429 GCCTAGTTCTTGTGCCTGTGT 60.543 52.381 0.00 0.00 0.00 3.72
960 4856 5.068234 ACAAGTCATTGCTCCAATCATTG 57.932 39.130 0.00 0.00 40.27 2.82
962 4858 5.244402 ACAAGTCATTGCTCCAATCATTGAA 59.756 36.000 0.00 0.00 40.27 2.69
967 4863 7.977853 AGTCATTGCTCCAATCATTGAAAATAC 59.022 33.333 0.00 0.00 31.05 1.89
973 4869 6.018589 TCCAATCATTGAAAATACGCAACA 57.981 33.333 0.00 0.00 0.00 3.33
974 4870 6.450545 TCCAATCATTGAAAATACGCAACAA 58.549 32.000 0.00 0.00 0.00 2.83
1013 4915 1.152368 GGCCCATGGGAGAATCTGG 59.848 63.158 36.00 4.56 37.50 3.86
1137 5039 4.125703 CTCTAAGGCTATCAAACTGCTGG 58.874 47.826 0.00 0.00 0.00 4.85
1189 5091 2.723273 TCGCAGTCAACCTCATAGAGA 58.277 47.619 0.00 0.00 0.00 3.10
1193 5095 3.379240 CAGTCAACCTCATAGAGATGCG 58.621 50.000 0.00 0.00 32.62 4.73
1251 5177 4.451544 GAGGTGGCCTCTCACTCT 57.548 61.111 17.83 1.66 46.41 3.24
1252 5178 2.198183 GAGGTGGCCTCTCACTCTC 58.802 63.158 17.83 6.95 46.41 3.20
1282 5217 4.160252 CCAAATTATTGCCTGCAGGTTACT 59.840 41.667 32.81 18.53 37.57 2.24
1308 5243 6.156949 TCTCTAGATTGGAGGTGCTTATTGTT 59.843 38.462 0.00 0.00 0.00 2.83
1320 5255 5.032863 GTGCTTATTGTTGATGACATCTGC 58.967 41.667 16.25 9.36 38.26 4.26
1382 5317 3.077359 CCCTCCACACACTTGAATTCTC 58.923 50.000 7.05 0.00 0.00 2.87
1424 5365 0.318441 TTCACGGAAGAGCAGGACAG 59.682 55.000 0.00 0.00 0.00 3.51
1532 5473 5.261216 CCTCTCTTCTCTCAAGGAGTTACT 58.739 45.833 0.00 0.00 42.40 2.24
1544 5485 4.353383 AGGAGTTACTTGTCTTTGGGTC 57.647 45.455 0.00 0.00 0.00 4.46
1545 5486 3.714798 AGGAGTTACTTGTCTTTGGGTCA 59.285 43.478 0.00 0.00 0.00 4.02
1572 5513 1.121407 TCCGATCGATGCCCAAGGAT 61.121 55.000 18.66 0.00 0.00 3.24
1616 5557 4.268797 AGCTACAGATGAATGATCGCAT 57.731 40.909 0.00 0.00 36.04 4.73
1712 5653 2.541233 ACCAGCTGTGAGATAGACCT 57.459 50.000 13.81 0.00 0.00 3.85
1713 5654 2.106566 ACCAGCTGTGAGATAGACCTG 58.893 52.381 13.81 0.00 0.00 4.00
1714 5655 2.291865 ACCAGCTGTGAGATAGACCTGA 60.292 50.000 13.81 0.00 0.00 3.86
1716 5657 2.031120 AGCTGTGAGATAGACCTGAGC 58.969 52.381 0.00 0.00 0.00 4.26
1718 5659 0.741326 TGTGAGATAGACCTGAGCGC 59.259 55.000 0.00 0.00 0.00 5.92
1721 5662 2.103373 TGAGATAGACCTGAGCGCTTT 58.897 47.619 13.26 0.00 0.00 3.51
2032 8117 2.857592 ATTGTACCCAGCTACGTACG 57.142 50.000 15.01 15.01 38.12 3.67
2077 8162 5.640732 CATGCATACAGGTTTAGGTTTCAC 58.359 41.667 0.00 0.00 0.00 3.18
2102 8224 2.943690 CTGGCATTGATCCTTGACTCTG 59.056 50.000 0.00 0.00 0.00 3.35
2143 8275 8.943594 AATGATTGGGTGTTTAAGTTACCTTA 57.056 30.769 0.00 0.00 34.87 2.69
2144 8276 7.748691 TGATTGGGTGTTTAAGTTACCTTAC 57.251 36.000 0.00 0.00 32.91 2.34
2145 8277 7.519927 TGATTGGGTGTTTAAGTTACCTTACT 58.480 34.615 0.00 0.00 32.91 2.24
2146 8278 8.658619 TGATTGGGTGTTTAAGTTACCTTACTA 58.341 33.333 0.00 0.00 32.91 1.82
2249 9315 3.004106 ACAGCTGATTCAGAGCAAACAAC 59.996 43.478 23.35 0.00 39.05 3.32
2262 9359 3.119495 AGCAAACAACCAGAACAGAACAC 60.119 43.478 0.00 0.00 0.00 3.32
2272 9373 2.609459 AGAACAGAACACAAGTGAAGCG 59.391 45.455 7.28 0.00 0.00 4.68
2340 9527 4.959210 TCTGTTCTCATTTTTGGGTTTCCA 59.041 37.500 0.00 0.00 42.25 3.53
2342 9529 6.780031 TCTGTTCTCATTTTTGGGTTTCCATA 59.220 34.615 0.00 0.00 43.63 2.74
2346 9533 6.991938 TCTCATTTTTGGGTTTCCATAACAG 58.008 36.000 0.00 0.00 43.63 3.16
2348 9535 7.288852 TCTCATTTTTGGGTTTCCATAACAGAA 59.711 33.333 0.00 0.00 43.63 3.02
2349 9536 7.213678 TCATTTTTGGGTTTCCATAACAGAAC 58.786 34.615 0.00 0.00 43.63 3.01
2350 9537 6.546428 TTTTTGGGTTTCCATAACAGAACA 57.454 33.333 0.00 0.00 43.63 3.18
2509 10286 4.783621 TGGCTCGCACTGGGATGC 62.784 66.667 0.00 3.21 42.48 3.91
2515 10292 2.679716 GCACTGGGATGCCCTTCT 59.320 61.111 0.00 0.00 45.70 2.85
2560 10360 1.541147 GCAGAGGTATGCAGCAAACAA 59.459 47.619 0.00 0.00 45.77 2.83
2587 10391 3.015327 AGCAGAGCATTCCAAAGACATC 58.985 45.455 0.00 0.00 0.00 3.06
2614 10446 2.358737 CCAAGGTGCGAGGTGGTC 60.359 66.667 0.00 0.00 0.00 4.02
2684 11071 9.602568 TGTGTATTCGCCTCTGTAAATTAAATA 57.397 29.630 0.00 0.00 0.00 1.40
2690 11077 8.015185 TCGCCTCTGTAAATTAAATAGGTACT 57.985 34.615 0.00 0.00 46.37 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 4.620332 CGGTACCACCATGATTTGCAATTT 60.620 41.667 13.54 0.00 38.47 1.82
61 62 4.574421 TGTTAACCACATGTCAAGACACAG 59.426 41.667 4.84 4.19 45.05 3.66
101 102 5.488341 TGCTCCAAGATACACCTTTTAGAC 58.512 41.667 0.00 0.00 0.00 2.59
106 107 3.074538 AGGTTGCTCCAAGATACACCTTT 59.925 43.478 1.79 0.00 39.02 3.11
111 112 1.559682 GGGAGGTTGCTCCAAGATACA 59.440 52.381 0.00 0.00 45.06 2.29
209 210 2.992817 TTTGCCTGGAACGCCACCAT 62.993 55.000 0.00 0.00 39.92 3.55
255 256 5.655532 AGCAAGTTCTGGCATCTCATAAAAT 59.344 36.000 1.92 0.00 0.00 1.82
302 303 2.716424 TCAAGACTGGGGAAAGAATGGT 59.284 45.455 0.00 0.00 0.00 3.55
309 310 4.827284 GTGATTTCTTCAAGACTGGGGAAA 59.173 41.667 0.00 0.00 35.70 3.13
312 313 3.754965 TGTGATTTCTTCAAGACTGGGG 58.245 45.455 0.00 0.00 35.70 4.96
315 316 5.152097 GTGCATGTGATTTCTTCAAGACTG 58.848 41.667 0.00 0.00 35.70 3.51
359 360 1.048724 TACCTCCGAGAAGGGCATGG 61.049 60.000 0.00 0.00 41.04 3.66
360 361 1.001406 GATACCTCCGAGAAGGGCATG 59.999 57.143 0.00 0.00 41.04 4.06
398 399 1.071699 GGCACCCAGACACTTCAAGTA 59.928 52.381 0.00 0.00 0.00 2.24
408 409 1.377725 CACCATGAGGCACCCAGAC 60.378 63.158 0.00 0.00 39.06 3.51
419 420 1.267574 GGAGGGCAGAGACACCATGA 61.268 60.000 0.00 0.00 0.00 3.07
424 425 1.451028 GCATGGAGGGCAGAGACAC 60.451 63.158 0.00 0.00 0.00 3.67
469 470 7.433719 CGTTTTTGAATCACCTGTTTGAACATA 59.566 33.333 0.00 0.00 38.41 2.29
479 480 4.202010 ACAAGGACGTTTTTGAATCACCTG 60.202 41.667 16.73 1.87 0.00 4.00
490 500 5.556915 TCCATGATAAGACAAGGACGTTTT 58.443 37.500 0.00 0.00 33.60 2.43
497 507 5.902613 TTGCTTTCCATGATAAGACAAGG 57.097 39.130 9.98 0.00 0.00 3.61
498 508 6.755141 CCAATTGCTTTCCATGATAAGACAAG 59.245 38.462 0.00 1.33 0.00 3.16
524 540 2.612221 GCACCGCCATACCCTCTAATAC 60.612 54.545 0.00 0.00 0.00 1.89
526 542 0.396811 GCACCGCCATACCCTCTAAT 59.603 55.000 0.00 0.00 0.00 1.73
811 827 8.735692 TGCATTACACATTCTTCATCTTCATA 57.264 30.769 0.00 0.00 0.00 2.15
817 863 6.261118 GGAACTGCATTACACATTCTTCATC 58.739 40.000 0.00 0.00 0.00 2.92
822 886 4.032960 TGGGAACTGCATTACACATTCT 57.967 40.909 0.00 0.00 0.00 2.40
851 924 4.101741 AGAAGGTAAGTTTCTGCAGTGAGT 59.898 41.667 14.67 3.62 33.79 3.41
907 980 4.626942 TTCCTCCTCCATTCTCCTTCTA 57.373 45.455 0.00 0.00 0.00 2.10
960 4856 4.981389 TTTGCCATTGTTGCGTATTTTC 57.019 36.364 0.00 0.00 0.00 2.29
962 4858 4.754114 ACAATTTGCCATTGTTGCGTATTT 59.246 33.333 5.70 0.00 38.97 1.40
973 4869 2.627699 ACCGACAGAACAATTTGCCATT 59.372 40.909 0.00 0.00 0.00 3.16
974 4870 2.030007 CACCGACAGAACAATTTGCCAT 60.030 45.455 0.00 0.00 0.00 4.40
1013 4915 0.252239 AGGGAAAGGGCAAATGGTCC 60.252 55.000 0.00 0.00 43.70 4.46
1137 5039 3.685756 TGAATCCGTCCACCGTTAAATTC 59.314 43.478 0.00 0.00 33.66 2.17
1189 5091 4.201910 GGTGTTGCAATTATACACTCGCAT 60.202 41.667 16.03 0.00 41.37 4.73
1193 5095 6.093495 TGCTAAGGTGTTGCAATTATACACTC 59.907 38.462 16.03 8.22 41.37 3.51
1247 5173 4.530875 CAATAATTTGGCCCTCTGAGAGT 58.469 43.478 8.88 0.00 0.00 3.24
1248 5174 3.317430 GCAATAATTTGGCCCTCTGAGAG 59.683 47.826 6.17 1.57 33.22 3.20
1249 5175 3.290710 GCAATAATTTGGCCCTCTGAGA 58.709 45.455 6.17 0.00 33.22 3.27
1250 5176 3.722728 GCAATAATTTGGCCCTCTGAG 57.277 47.619 0.00 0.00 33.22 3.35
1282 5217 6.156949 ACAATAAGCACCTCCAATCTAGAGAA 59.843 38.462 0.00 0.00 32.86 2.87
1308 5243 1.134310 AGCAATCCGCAGATGTCATCA 60.134 47.619 15.20 0.00 46.13 3.07
1359 5294 0.478072 ATTCAAGTGTGTGGAGGGCA 59.522 50.000 0.00 0.00 0.00 5.36
1382 5317 1.428448 TTCCGTGCTCTCATCAAACG 58.572 50.000 0.00 0.00 0.00 3.60
1544 5485 2.541588 GGCATCGATCGGATTTTTGGTG 60.542 50.000 16.41 2.32 31.28 4.17
1545 5486 1.676006 GGCATCGATCGGATTTTTGGT 59.324 47.619 16.41 0.00 31.28 3.67
1596 5537 3.060496 CGATGCGATCATTCATCTGTAGC 59.940 47.826 14.01 0.00 37.52 3.58
1616 5557 3.592898 TTTGCTTGTCTATCTCAGCGA 57.407 42.857 0.00 0.00 0.00 4.93
1721 5662 2.742053 GTCCTACTGCTTCATGCGAAAA 59.258 45.455 0.00 0.00 46.63 2.29
1726 5667 2.548875 CTCAGTCCTACTGCTTCATGC 58.451 52.381 2.12 0.00 45.54 4.06
1727 5668 2.093816 TGCTCAGTCCTACTGCTTCATG 60.094 50.000 2.12 0.00 45.54 3.07
1728 5669 2.168106 CTGCTCAGTCCTACTGCTTCAT 59.832 50.000 2.12 0.00 45.54 2.57
1751 7550 6.616947 TCTTCGCCAACAGTTAAATTATTGG 58.383 36.000 10.15 10.15 42.31 3.16
1754 7553 6.177610 TCCTCTTCGCCAACAGTTAAATTAT 58.822 36.000 0.00 0.00 0.00 1.28
1755 7554 5.553123 TCCTCTTCGCCAACAGTTAAATTA 58.447 37.500 0.00 0.00 0.00 1.40
1881 7738 4.894784 ACTGGAAAGCATTCTCTCGTTTA 58.105 39.130 1.19 0.00 35.79 2.01
2032 8117 3.265791 CAATCTCCCTGCAAGACTGTAC 58.734 50.000 0.00 0.00 34.07 2.90
2077 8162 0.744874 CAAGGATCAATGCCAGCCAG 59.255 55.000 0.00 0.00 0.00 4.85
2102 8224 7.721399 ACCCAATCATTCATCATTACCTTAGAC 59.279 37.037 0.00 0.00 0.00 2.59
2143 8275 6.870965 CAGAGTATGAACAAAGCACTCTTAGT 59.129 38.462 0.00 0.00 42.46 2.24
2144 8276 6.870965 ACAGAGTATGAACAAAGCACTCTTAG 59.129 38.462 0.00 0.00 42.46 2.18
2145 8277 6.759272 ACAGAGTATGAACAAAGCACTCTTA 58.241 36.000 0.00 0.00 42.46 2.10
2146 8278 5.615289 ACAGAGTATGAACAAAGCACTCTT 58.385 37.500 0.00 0.00 42.46 2.85
2249 9315 3.242870 GCTTCACTTGTGTTCTGTTCTGG 60.243 47.826 0.46 0.00 0.00 3.86
2262 9359 2.545526 ACACAGACAATCGCTTCACTTG 59.454 45.455 0.00 0.00 0.00 3.16
2272 9373 6.426980 TTCAGCATATCAACACAGACAATC 57.573 37.500 0.00 0.00 0.00 2.67
2346 9533 8.280497 ACACGTTTGAGAATTACATTACTGTTC 58.720 33.333 0.00 0.00 36.79 3.18
2348 9535 7.724305 ACACGTTTGAGAATTACATTACTGT 57.276 32.000 0.00 0.00 39.49 3.55
2349 9536 8.067784 ACAACACGTTTGAGAATTACATTACTG 58.932 33.333 14.58 0.00 0.00 2.74
2350 9537 8.067784 CACAACACGTTTGAGAATTACATTACT 58.932 33.333 14.58 0.00 0.00 2.24
2515 10292 4.712337 TCCACAAAGCCCACTTCTTTAAAA 59.288 37.500 0.00 0.00 34.05 1.52
2558 10358 1.132643 GGAATGCTCTGCTCTGCTTTG 59.867 52.381 0.00 0.00 0.00 2.77
2560 10360 0.327259 TGGAATGCTCTGCTCTGCTT 59.673 50.000 0.00 0.00 0.00 3.91
2587 10391 2.871253 GCACCTTGGCACCCTTTGG 61.871 63.158 0.00 0.00 37.80 3.28
2614 10446 0.942962 GGCTGAAGCTGAATCCGATG 59.057 55.000 1.74 0.00 41.70 3.84
2684 11071 4.891992 ACACAATTCTACTGCAGTACCT 57.108 40.909 22.67 7.32 0.00 3.08


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

AutoCloner maintained by Alex Coulton.