Multiple sequence alignment - TraesCS1D01G354100

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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 TraesCS1D01G354100 chr1D 100.000 3054 0 0 1 3054 439416262 439413209 0.000000e+00 5640.0
1 TraesCS1D01G354100 chr1A 90.114 2377 107 49 1 2296 539322199 539324528 0.000000e+00 2970.0
2 TraesCS1D01G354100 chr1A 83.946 598 69 15 2306 2884 539327385 539327974 5.760000e-152 547.0
3 TraesCS1D01G354100 chr1A 77.778 180 30 8 2576 2745 492612256 492612077 5.390000e-18 102.0
4 TraesCS1D01G354100 chr1B 92.652 1810 68 25 299 2072 596249274 596247494 0.000000e+00 2545.0
5 TraesCS1D01G354100 chr1B 89.011 1001 69 20 2064 3054 596245816 596244847 0.000000e+00 1201.0
6 TraesCS1D01G354100 chr1B 94.378 249 13 1 1 248 596249527 596249279 6.180000e-102 381.0
7 TraesCS1D01G354100 chrUn 84.208 1792 175 55 329 2070 235703232 235701499 0.000000e+00 1642.0
8 TraesCS1D01G354100 chrUn 84.096 1792 177 55 329 2070 85700450 85702183 0.000000e+00 1631.0
9 TraesCS1D01G354100 chrUn 82.678 1830 186 69 330 2090 185556473 185554706 0.000000e+00 1502.0
10 TraesCS1D01G354100 chrUn 82.022 1652 169 67 330 1913 85623816 85625407 0.000000e+00 1288.0
11 TraesCS1D01G354100 chr7D 82.729 1986 194 80 329 2241 152086351 152088260 0.000000e+00 1629.0
12 TraesCS1D01G354100 chr7D 82.594 1804 192 54 320 2069 151917602 151915867 0.000000e+00 1480.0
13 TraesCS1D01G354100 chr7D 84.180 1536 172 35 568 2069 151791866 151790368 0.000000e+00 1424.0
14 TraesCS1D01G354100 chr7D 87.078 1184 113 18 940 2090 151770228 151769052 0.000000e+00 1303.0
15 TraesCS1D01G354100 chr7D 86.546 773 99 4 1286 2054 184574310 184573539 0.000000e+00 846.0
16 TraesCS1D01G354100 chr7D 79.661 767 76 37 392 1137 152116212 152116919 2.130000e-131 479.0
17 TraesCS1D01G354100 chr7B 82.678 1830 186 69 330 2090 113627621 113625854 0.000000e+00 1502.0
18 TraesCS1D01G354100 chr7B 86.196 1246 118 26 869 2069 113922416 113923652 0.000000e+00 1299.0
19 TraesCS1D01G354100 chr7B 85.899 773 104 4 1286 2054 154161637 154160866 0.000000e+00 819.0
20 TraesCS1D01G354100 chr7B 81.579 76 11 3 2950 3024 81416066 81415993 3.290000e-05 60.2
21 TraesCS1D01G354100 chr7A 84.725 1401 141 39 729 2090 152341990 152343356 0.000000e+00 1334.0
22 TraesCS1D01G354100 chr7A 88.628 1108 107 12 962 2057 152507110 152508210 0.000000e+00 1330.0
23 TraesCS1D01G354100 chr7A 85.005 1067 126 15 1023 2066 151874318 151875373 0.000000e+00 1053.0
24 TraesCS1D01G354100 chr7A 85.935 775 100 6 1286 2054 191664858 191664087 0.000000e+00 819.0
25 TraesCS1D01G354100 chr7A 82.645 484 46 20 330 800 152506528 152506986 7.940000e-106 394.0
26 TraesCS1D01G354100 chr2B 76.484 438 58 28 2497 2903 162622126 162622549 2.400000e-46 196.0
27 TraesCS1D01G354100 chr5B 74.947 471 67 34 2564 2993 557154882 557155342 5.240000e-38 169.0
28 TraesCS1D01G354100 chr5B 87.379 103 10 3 2579 2679 557149127 557149228 6.920000e-22 115.0
29 TraesCS1D01G354100 chr5B 90.667 75 5 2 2344 2417 711145948 711145875 6.970000e-17 99.0
30 TraesCS1D01G354100 chr3D 78.947 209 28 9 2495 2692 40871103 40870900 8.890000e-26 128.0


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 TraesCS1D01G354100 chr1D 439413209 439416262 3053 True 5640.000000 5640 100.000000 1 3054 1 chr1D.!!$R1 3053
1 TraesCS1D01G354100 chr1A 539322199 539327974 5775 False 1758.500000 2970 87.030000 1 2884 2 chr1A.!!$F1 2883
2 TraesCS1D01G354100 chr1B 596244847 596249527 4680 True 1375.666667 2545 92.013667 1 3054 3 chr1B.!!$R1 3053
3 TraesCS1D01G354100 chrUn 235701499 235703232 1733 True 1642.000000 1642 84.208000 329 2070 1 chrUn.!!$R2 1741
4 TraesCS1D01G354100 chrUn 85700450 85702183 1733 False 1631.000000 1631 84.096000 329 2070 1 chrUn.!!$F2 1741
5 TraesCS1D01G354100 chrUn 185554706 185556473 1767 True 1502.000000 1502 82.678000 330 2090 1 chrUn.!!$R1 1760
6 TraesCS1D01G354100 chrUn 85623816 85625407 1591 False 1288.000000 1288 82.022000 330 1913 1 chrUn.!!$F1 1583
7 TraesCS1D01G354100 chr7D 152086351 152088260 1909 False 1629.000000 1629 82.729000 329 2241 1 chr7D.!!$F1 1912
8 TraesCS1D01G354100 chr7D 151915867 151917602 1735 True 1480.000000 1480 82.594000 320 2069 1 chr7D.!!$R3 1749
9 TraesCS1D01G354100 chr7D 151790368 151791866 1498 True 1424.000000 1424 84.180000 568 2069 1 chr7D.!!$R2 1501
10 TraesCS1D01G354100 chr7D 151769052 151770228 1176 True 1303.000000 1303 87.078000 940 2090 1 chr7D.!!$R1 1150
11 TraesCS1D01G354100 chr7D 184573539 184574310 771 True 846.000000 846 86.546000 1286 2054 1 chr7D.!!$R4 768
12 TraesCS1D01G354100 chr7D 152116212 152116919 707 False 479.000000 479 79.661000 392 1137 1 chr7D.!!$F2 745
13 TraesCS1D01G354100 chr7B 113625854 113627621 1767 True 1502.000000 1502 82.678000 330 2090 1 chr7B.!!$R2 1760
14 TraesCS1D01G354100 chr7B 113922416 113923652 1236 False 1299.000000 1299 86.196000 869 2069 1 chr7B.!!$F1 1200
15 TraesCS1D01G354100 chr7B 154160866 154161637 771 True 819.000000 819 85.899000 1286 2054 1 chr7B.!!$R3 768
16 TraesCS1D01G354100 chr7A 152341990 152343356 1366 False 1334.000000 1334 84.725000 729 2090 1 chr7A.!!$F2 1361
17 TraesCS1D01G354100 chr7A 151874318 151875373 1055 False 1053.000000 1053 85.005000 1023 2066 1 chr7A.!!$F1 1043
18 TraesCS1D01G354100 chr7A 152506528 152508210 1682 False 862.000000 1330 85.636500 330 2057 2 chr7A.!!$F3 1727
19 TraesCS1D01G354100 chr7A 191664087 191664858 771 True 819.000000 819 85.935000 1286 2054 1 chr7A.!!$R1 768

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
99 100 1.093972 TGCAGTTGATGGCATTACCG 58.906 50.000 0.0 0.0 43.94 4.02 F
1242 1401 1.068281 CTCTGCTGCTATCGACCATGT 59.932 52.381 0.0 0.0 0.00 3.21 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1268 1427 0.595588 TGCGACGAAACCATTTGCAT 59.404 45.0 0.0 0.0 0.00 3.96 R
2172 4093 0.179006 TGTGTGCATGTAACTGCCCA 60.179 50.0 0.0 0.0 41.58 5.36 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
25 26 1.228459 GGCCGAACAAAAGAGGGGT 60.228 57.895 0.00 0.00 0.00 4.95
27 28 1.574702 GCCGAACAAAAGAGGGGTCG 61.575 60.000 0.00 0.00 0.00 4.79
50 51 2.029838 ATCATTGACCCGACTTGCTC 57.970 50.000 0.00 0.00 0.00 4.26
98 99 2.094675 AGTGCAGTTGATGGCATTACC 58.905 47.619 0.00 0.00 42.75 2.85
99 100 1.093972 TGCAGTTGATGGCATTACCG 58.906 50.000 0.00 0.00 43.94 4.02
104 105 4.601019 CAGTTGATGGCATTACCGAATTC 58.399 43.478 0.00 0.00 43.94 2.17
249 251 2.193993 ACTACCCCATCGTTTTAGCCT 58.806 47.619 0.00 0.00 0.00 4.58
298 300 6.073112 CGTAAAAGTTCCGTAAAATCCCTTCA 60.073 38.462 0.00 0.00 0.00 3.02
305 307 7.998964 AGTTCCGTAAAATCCCTTCATATGAAT 59.001 33.333 18.26 4.80 33.01 2.57
401 411 3.428870 CCATAGCGTACAAATTAGGAGCG 59.571 47.826 0.00 0.00 0.00 5.03
404 414 2.671396 AGCGTACAAATTAGGAGCGTTG 59.329 45.455 0.00 0.00 0.00 4.10
538 551 6.068670 AGGTTATTATTCCCTTGGTGCATAC 58.931 40.000 0.00 0.00 0.00 2.39
549 562 5.702670 CCCTTGGTGCATACTATATCTTGTG 59.297 44.000 0.00 0.00 0.00 3.33
550 563 5.702670 CCTTGGTGCATACTATATCTTGTGG 59.297 44.000 0.00 0.00 0.00 4.17
551 564 4.641396 TGGTGCATACTATATCTTGTGGC 58.359 43.478 0.00 0.00 0.00 5.01
552 565 4.102367 TGGTGCATACTATATCTTGTGGCA 59.898 41.667 0.00 0.00 0.00 4.92
553 566 5.063204 GGTGCATACTATATCTTGTGGCAA 58.937 41.667 0.00 0.00 32.62 4.52
667 724 2.435938 GATTGAACGGCCTCGGCA 60.436 61.111 10.51 0.00 44.11 5.69
672 729 2.282180 AACGGCCTCGGCAACATT 60.282 55.556 10.51 0.00 44.11 2.71
709 768 1.144969 TCCGCATTGACTTGTTCGTC 58.855 50.000 0.00 0.00 34.52 4.20
752 811 1.130561 GTTGATAACTGAGGCGGTTGC 59.869 52.381 2.06 0.00 41.71 4.17
928 1019 2.557056 ACCATCGACATAGATACCACCG 59.443 50.000 0.00 0.00 0.00 4.94
935 1032 4.655963 GACATAGATACCACCGGTACCTA 58.344 47.826 6.87 4.93 38.51 3.08
936 1033 5.259632 GACATAGATACCACCGGTACCTAT 58.740 45.833 6.87 7.14 43.69 2.57
1012 1122 2.592861 GGTCCATGGCGATCAGGC 60.593 66.667 6.96 0.00 46.95 4.85
1151 1264 2.203070 GGCCAAGATCATCGCCGT 60.203 61.111 0.00 0.00 0.00 5.68
1234 1382 2.095466 CGTACCTAGCTCTGCTGCTATC 60.095 54.545 0.00 0.00 43.54 2.08
1237 1396 1.068610 CCTAGCTCTGCTGCTATCGAC 60.069 57.143 0.00 0.00 43.54 4.20
1242 1401 1.068281 CTCTGCTGCTATCGACCATGT 59.932 52.381 0.00 0.00 0.00 3.21
1245 1404 1.202452 TGCTGCTATCGACCATGTCAG 60.202 52.381 0.00 0.00 32.09 3.51
1248 1407 2.360483 CTGCTATCGACCATGTCAGACT 59.640 50.000 1.31 0.00 32.09 3.24
1250 1409 2.621055 GCTATCGACCATGTCAGACTCT 59.379 50.000 1.31 0.00 32.09 3.24
1251 1410 3.549827 GCTATCGACCATGTCAGACTCTG 60.550 52.174 1.31 0.00 32.09 3.35
1252 1411 2.200373 TCGACCATGTCAGACTCTGA 57.800 50.000 4.50 4.50 38.25 3.27
1262 1421 2.597455 TCAGACTCTGACACATGTCCA 58.403 47.619 9.48 0.00 44.15 4.02
1263 1422 2.297315 TCAGACTCTGACACATGTCCAC 59.703 50.000 9.48 0.00 44.15 4.02
1264 1423 2.298446 CAGACTCTGACACATGTCCACT 59.702 50.000 9.48 0.01 44.15 4.00
1265 1424 2.968574 AGACTCTGACACATGTCCACTT 59.031 45.455 9.48 0.00 44.15 3.16
1267 1426 4.021894 AGACTCTGACACATGTCCACTTAC 60.022 45.833 9.48 0.00 44.15 2.34
1268 1427 3.641436 ACTCTGACACATGTCCACTTACA 59.359 43.478 9.48 0.00 44.15 2.41
1282 1456 3.919804 CCACTTACATGCAAATGGTTTCG 59.080 43.478 0.00 0.00 0.00 3.46
1683 1857 2.034879 CGCACTGCCCATCTTTCGT 61.035 57.895 0.00 0.00 0.00 3.85
1849 2044 1.516386 CAGCTACTACCGCCACGTG 60.516 63.158 9.08 9.08 0.00 4.49
2130 4049 8.908786 ATACTATTATCCAGTTGTCAATGGTG 57.091 34.615 11.47 1.47 37.84 4.17
2172 4093 0.995024 AAAGTCCATGGGCAGCTACT 59.005 50.000 20.74 7.45 0.00 2.57
2173 4094 0.254178 AAGTCCATGGGCAGCTACTG 59.746 55.000 20.74 0.00 34.12 2.74
2175 4096 2.194056 CCATGGGCAGCTACTGGG 59.806 66.667 2.85 0.00 31.21 4.45
2176 4097 2.517875 CATGGGCAGCTACTGGGC 60.518 66.667 0.00 0.00 31.21 5.36
2178 4099 3.052909 ATGGGCAGCTACTGGGCAG 62.053 63.158 0.00 0.00 34.17 4.85
2182 4103 0.744771 GGCAGCTACTGGGCAGTTAC 60.745 60.000 0.00 0.00 42.54 2.50
2186 4107 1.017387 GCTACTGGGCAGTTACATGC 58.983 55.000 0.00 0.00 45.74 4.06
2255 4176 3.316308 GCAATAAATGCGGATTGAGGAGT 59.684 43.478 1.80 0.00 46.87 3.85
2269 4190 3.202548 GGAGTACCGGAGTCCATCA 57.797 57.895 9.46 0.00 46.01 3.07
2274 4195 3.170717 AGTACCGGAGTCCATCAGAAAA 58.829 45.455 9.46 0.00 0.00 2.29
2332 7100 1.288127 GTAGAGGACGTGCGGTTGT 59.712 57.895 0.00 0.00 0.00 3.32
2352 7120 6.128902 GGTTGTTCACTAGTACGAAATCACTG 60.129 42.308 0.00 0.00 0.00 3.66
2392 7161 0.540830 AAGGTCACTCGCACCTCTCT 60.541 55.000 0.00 0.00 44.03 3.10
2416 7185 2.967076 CGACAAGTGGCGCACTGT 60.967 61.111 10.83 6.14 44.62 3.55
2441 7210 1.443802 GACGCAGGAAGGAAGGAAAG 58.556 55.000 0.00 0.00 0.00 2.62
2479 7248 2.959275 CGAAGCTCCTATTTCGCGT 58.041 52.632 5.77 0.00 39.55 6.01
2554 7331 1.254975 GCAAATAAGCGGGGTTGGGT 61.255 55.000 0.00 0.00 0.00 4.51
2574 7351 3.322369 GTGCCCCAGGTTTTTAATTTCG 58.678 45.455 0.00 0.00 0.00 3.46
2692 7474 6.751514 TCATAACATGCTCGTGGTTTAAAT 57.248 33.333 0.00 0.00 0.00 1.40
2698 7480 8.460831 AACATGCTCGTGGTTTAAATAAATTC 57.539 30.769 0.00 0.00 0.00 2.17
2699 7481 7.598278 ACATGCTCGTGGTTTAAATAAATTCA 58.402 30.769 0.00 0.00 0.00 2.57
2700 7482 8.250332 ACATGCTCGTGGTTTAAATAAATTCAT 58.750 29.630 0.00 0.00 0.00 2.57
2701 7483 8.533965 CATGCTCGTGGTTTAAATAAATTCATG 58.466 33.333 0.00 0.00 0.00 3.07
2702 7484 7.821652 TGCTCGTGGTTTAAATAAATTCATGA 58.178 30.769 0.00 0.00 32.18 3.07
2703 7485 8.465999 TGCTCGTGGTTTAAATAAATTCATGAT 58.534 29.630 0.00 0.00 32.43 2.45
2704 7486 8.958043 GCTCGTGGTTTAAATAAATTCATGATC 58.042 33.333 0.00 0.00 32.43 2.92
2896 7688 8.768957 TGAACACTTTTTGAATTTGATGAACA 57.231 26.923 0.00 0.00 0.00 3.18
3034 7827 9.591792 TCAATGAACATTTGTTACATTGTTGAA 57.408 25.926 26.12 16.18 43.69 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 0.387929 GTCGGGTCAATGATAGGCGA 59.612 55.000 0.00 0.00 0.00 5.54
27 28 2.213499 CAAGTCGGGTCAATGATAGGC 58.787 52.381 0.00 0.00 0.00 3.93
50 51 2.884639 AGCCGATTTTATCCCATTTCCG 59.115 45.455 0.00 0.00 0.00 4.30
98 99 4.090642 GTGAGAACACTAGTGCAGAATTCG 59.909 45.833 22.90 0.00 42.99 3.34
99 100 4.090642 CGTGAGAACACTAGTGCAGAATTC 59.909 45.833 22.90 17.09 43.99 2.17
104 105 1.063806 GCGTGAGAACACTAGTGCAG 58.936 55.000 22.90 7.46 43.99 4.41
249 251 4.204799 ACTAGTGCAGTATCATGACGGTA 58.795 43.478 0.00 0.00 34.98 4.02
298 300 5.922739 TTTCGCGAGCAATGTATTCATAT 57.077 34.783 9.59 0.00 33.49 1.78
462 475 1.692173 ATGCATGATTTGGGCAGGCC 61.692 55.000 5.91 5.91 41.89 5.19
503 516 5.048921 GGGAATAATAACCTTCTTTAGCGGC 60.049 44.000 0.00 0.00 0.00 6.53
504 517 6.296803 AGGGAATAATAACCTTCTTTAGCGG 58.703 40.000 0.00 0.00 0.00 5.52
505 518 7.255139 CCAAGGGAATAATAACCTTCTTTAGCG 60.255 40.741 0.00 0.00 42.46 4.26
506 519 7.560262 ACCAAGGGAATAATAACCTTCTTTAGC 59.440 37.037 0.00 0.00 42.46 3.09
507 520 8.903820 CACCAAGGGAATAATAACCTTCTTTAG 58.096 37.037 0.00 0.00 42.46 1.85
508 521 7.340999 GCACCAAGGGAATAATAACCTTCTTTA 59.659 37.037 0.00 0.00 42.46 1.85
509 522 6.154534 GCACCAAGGGAATAATAACCTTCTTT 59.845 38.462 0.00 0.00 42.46 2.52
510 523 5.656859 GCACCAAGGGAATAATAACCTTCTT 59.343 40.000 0.00 0.00 42.46 2.52
538 551 8.322906 TCCGATAATTTTGCCACAAGATATAG 57.677 34.615 0.00 0.00 0.00 1.31
549 562 9.463443 GGCAATTATATATCCGATAATTTTGCC 57.537 33.333 18.26 18.26 42.21 4.52
576 606 1.004745 ACTGGTTTCAGCGGATTGGAT 59.995 47.619 0.00 0.00 44.59 3.41
709 768 4.481112 GATGCAAACCGCGGCTGG 62.481 66.667 28.58 13.06 46.97 4.85
752 811 5.277683 GCATGTGCTAACTACCATCTCAATG 60.278 44.000 0.00 0.00 38.21 2.82
863 940 9.996554 CAACTCCCTGTATTTATACATATGTGA 57.003 33.333 18.81 3.40 41.92 3.58
864 941 8.721478 GCAACTCCCTGTATTTATACATATGTG 58.279 37.037 18.81 0.00 41.92 3.21
865 942 7.602644 CGCAACTCCCTGTATTTATACATATGT 59.397 37.037 13.93 13.93 41.92 2.29
928 1019 5.769162 ACGGAGAAGAATGTCTATAGGTACC 59.231 44.000 2.73 2.73 0.00 3.34
935 1032 4.215908 TGGCTACGGAGAAGAATGTCTAT 58.784 43.478 0.00 0.00 0.00 1.98
936 1033 3.628008 TGGCTACGGAGAAGAATGTCTA 58.372 45.455 0.00 0.00 0.00 2.59
1012 1122 1.378250 CCAGAGGGAGCAGCAAAGG 60.378 63.158 0.00 0.00 35.59 3.11
1242 1401 2.297315 GTGGACATGTGTCAGAGTCTGA 59.703 50.000 19.10 19.10 46.47 3.27
1245 1404 3.393089 AAGTGGACATGTGTCAGAGTC 57.607 47.619 1.15 0.00 46.47 3.36
1248 1407 4.890158 ATGTAAGTGGACATGTGTCAGA 57.110 40.909 1.15 0.00 46.47 3.27
1262 1421 4.612712 CGACGAAACCATTTGCATGTAAGT 60.613 41.667 0.00 0.00 0.00 2.24
1263 1422 3.845775 CGACGAAACCATTTGCATGTAAG 59.154 43.478 0.00 0.00 0.00 2.34
1264 1423 3.816091 CGACGAAACCATTTGCATGTAA 58.184 40.909 0.00 0.00 0.00 2.41
1265 1424 2.413502 GCGACGAAACCATTTGCATGTA 60.414 45.455 0.00 0.00 0.00 2.29
1267 1426 0.984109 GCGACGAAACCATTTGCATG 59.016 50.000 0.00 0.00 0.00 4.06
1268 1427 0.595588 TGCGACGAAACCATTTGCAT 59.404 45.000 0.00 0.00 0.00 3.96
1282 1456 2.690778 GGCATCACAACCCTGCGAC 61.691 63.158 0.00 0.00 36.76 5.19
1683 1857 1.669440 GTGTTGTAGAGCCGGTCCA 59.331 57.895 1.90 0.00 0.00 4.02
2020 2215 3.490078 CGTAGCACTTCTTCCTGATCTCC 60.490 52.174 0.00 0.00 0.00 3.71
2172 4093 0.179006 TGTGTGCATGTAACTGCCCA 60.179 50.000 0.00 0.00 41.58 5.36
2173 4094 0.958091 TTGTGTGCATGTAACTGCCC 59.042 50.000 0.00 0.00 41.58 5.36
2175 4096 2.228582 TCCATTGTGTGCATGTAACTGC 59.771 45.455 0.00 0.00 42.62 4.40
2176 4097 3.503363 ACTCCATTGTGTGCATGTAACTG 59.497 43.478 0.00 0.00 0.00 3.16
2178 4099 5.181245 ACTTACTCCATTGTGTGCATGTAAC 59.819 40.000 0.00 0.00 0.00 2.50
2182 4103 6.763135 ACTATACTTACTCCATTGTGTGCATG 59.237 38.462 0.00 0.00 0.00 4.06
2186 4107 7.413000 GCAACACTATACTTACTCCATTGTGTG 60.413 40.741 0.00 0.00 38.21 3.82
2188 4109 6.037172 GGCAACACTATACTTACTCCATTGTG 59.963 42.308 0.00 0.00 33.48 3.33
2189 4110 6.070194 AGGCAACACTATACTTACTCCATTGT 60.070 38.462 0.00 0.00 41.41 2.71
2190 4111 6.349300 AGGCAACACTATACTTACTCCATTG 58.651 40.000 0.00 0.00 41.41 2.82
2192 4113 6.070194 ACAAGGCAACACTATACTTACTCCAT 60.070 38.462 0.00 0.00 41.41 3.41
2193 4114 5.247564 ACAAGGCAACACTATACTTACTCCA 59.752 40.000 0.00 0.00 41.41 3.86
2250 4171 0.629596 TGATGGACTCCGGTACTCCT 59.370 55.000 0.00 0.00 0.00 3.69
2255 4176 4.837093 ATTTTTCTGATGGACTCCGGTA 57.163 40.909 0.00 0.00 0.00 4.02
2269 4190 4.337264 AGTGGAGGCCCATTATTTTTCT 57.663 40.909 0.00 0.00 45.68 2.52
2274 4195 3.756082 TTCAAGTGGAGGCCCATTATT 57.244 42.857 0.00 0.00 45.68 1.40
2327 7095 5.924825 AGTGATTTCGTACTAGTGAACAACC 59.075 40.000 5.39 0.00 0.00 3.77
2332 7100 9.569167 CTTAATCAGTGATTTCGTACTAGTGAA 57.431 33.333 22.90 6.42 33.95 3.18
2375 7143 0.736053 CTAGAGAGGTGCGAGTGACC 59.264 60.000 0.00 0.00 0.00 4.02
2392 7161 1.666553 CGCCACTTGTCGCAACCTA 60.667 57.895 0.00 0.00 0.00 3.08
2416 7185 3.744719 CCTTCCTGCGTCGTCGGA 61.745 66.667 3.90 0.00 37.56 4.55
2441 7210 0.179189 CGAAAATCCGTGCTTGCTCC 60.179 55.000 0.00 0.00 0.00 4.70
2532 7309 1.303806 AACCCCGCTTATTTGCCGT 60.304 52.632 0.00 0.00 0.00 5.68
2537 7314 1.254975 GCACCCAACCCCGCTTATTT 61.255 55.000 0.00 0.00 0.00 1.40
2538 7315 1.680989 GCACCCAACCCCGCTTATT 60.681 57.895 0.00 0.00 0.00 1.40
2554 7331 2.966516 ACGAAATTAAAAACCTGGGGCA 59.033 40.909 0.00 0.00 0.00 5.36
2652 7434 9.865321 CATGTTATGATTTCTGGAACATTTTCT 57.135 29.630 0.00 0.00 38.37 2.52
2697 7479 9.198837 CAACATGTGAAATTTTTGAGATCATGA 57.801 29.630 0.00 0.00 35.58 3.07
2698 7480 9.198837 TCAACATGTGAAATTTTTGAGATCATG 57.801 29.630 0.00 0.00 36.99 3.07
2699 7481 9.767228 TTCAACATGTGAAATTTTTGAGATCAT 57.233 25.926 0.00 0.00 43.43 2.45


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

AutoCloner maintained by Alex Coulton.