Multiple sequence alignment - TraesCS4D01G170000

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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 TraesCS4D01G170000 chr4D 100.000 2480 0 0 1 2480 295429442 295426963 0.000000e+00 4580.0
1 TraesCS4D01G170000 chr4D 90.588 255 22 2 2227 2480 67272700 67272953 1.100000e-88 337.0
2 TraesCS4D01G170000 chr4D 89.535 258 24 3 2223 2479 8134341 8134086 8.550000e-85 324.0
3 TraesCS4D01G170000 chr4B 95.259 928 31 3 652 1570 364221127 364222050 0.000000e+00 1458.0
4 TraesCS4D01G170000 chr4B 94.231 468 11 2 1564 2016 364229933 364230399 0.000000e+00 701.0
5 TraesCS4D01G170000 chr4B 90.287 453 39 5 2031 2480 364230664 364231114 2.750000e-164 588.0
6 TraesCS4D01G170000 chr4B 87.574 338 28 5 273 600 364220687 364221020 1.800000e-101 379.0
7 TraesCS4D01G170000 chr4B 92.500 160 8 3 3 158 364219062 364219221 2.480000e-55 226.0
8 TraesCS4D01G170000 chr4B 84.000 125 13 6 141 259 181683260 181683137 2.020000e-21 113.0
9 TraesCS4D01G170000 chr4A 88.076 1216 63 32 591 1772 196613756 196614923 0.000000e+00 1367.0
10 TraesCS4D01G170000 chr4A 83.619 525 35 20 1 512 196607257 196607743 1.750000e-121 446.0
11 TraesCS4D01G170000 chr4A 93.846 65 4 0 514 578 196608048 196608112 5.640000e-17 99.0
12 TraesCS4D01G170000 chr6D 90.909 253 22 1 2229 2480 287031188 287031440 3.060000e-89 339.0
13 TraesCS4D01G170000 chr7D 90.234 256 22 3 2227 2480 589450730 589450984 5.110000e-87 331.0
14 TraesCS4D01G170000 chr7D 89.412 255 25 2 2227 2480 408377204 408377457 1.110000e-83 320.0
15 TraesCS4D01G170000 chr5D 91.983 237 15 4 2227 2461 141426365 141426131 1.840000e-86 329.0
16 TraesCS4D01G170000 chr5D 80.952 126 15 6 141 258 47786465 47786589 9.450000e-15 91.6
17 TraesCS4D01G170000 chrUn 90.438 251 21 3 2227 2475 129565808 129566057 6.610000e-86 327.0
18 TraesCS4D01G170000 chr7B 89.453 256 24 3 2227 2480 592178989 592179243 1.110000e-83 320.0
19 TraesCS4D01G170000 chr3D 82.677 127 15 3 138 258 370621607 370621732 3.370000e-19 106.0
20 TraesCS4D01G170000 chr2D 82.114 123 16 4 141 258 640157604 640157483 1.570000e-17 100.0
21 TraesCS4D01G170000 chr5A 82.031 128 12 7 141 258 419697045 419696919 5.640000e-17 99.0
22 TraesCS4D01G170000 chr3A 81.967 122 17 3 141 258 568455286 568455406 5.640000e-17 99.0
23 TraesCS4D01G170000 chr7A 81.148 122 18 5 140 258 85603690 85603571 2.630000e-15 93.5
24 TraesCS4D01G170000 chr1A 81.452 124 12 6 141 258 412452565 412452447 9.450000e-15 91.6


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 TraesCS4D01G170000 chr4D 295426963 295429442 2479 True 4580.000000 4580 100.000000 1 2480 1 chr4D.!!$R2 2479
1 TraesCS4D01G170000 chr4B 364219062 364222050 2988 False 687.666667 1458 91.777667 3 1570 3 chr4B.!!$F1 1567
2 TraesCS4D01G170000 chr4B 364229933 364231114 1181 False 644.500000 701 92.259000 1564 2480 2 chr4B.!!$F2 916
3 TraesCS4D01G170000 chr4A 196613756 196614923 1167 False 1367.000000 1367 88.076000 591 1772 1 chr4A.!!$F1 1181
4 TraesCS4D01G170000 chr4A 196607257 196608112 855 False 272.500000 446 88.732500 1 578 2 chr4A.!!$F2 577

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
258 1644 0.035152 TGAGCCGGCACATCATCTTT 60.035 50.0 31.54 2.38 0.0 2.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1550 3345 0.511221 AGCGAACGACATTGGTTTCG 59.489 50.0 10.47 10.47 41.14 3.46 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
129 134 8.935614 ATGTCTTTGTCATGATTGATCCATAT 57.064 30.769 0.00 0.00 33.56 1.78
193 1572 6.025539 TCATACATAAGCATACCCTCATCCT 58.974 40.000 0.00 0.00 0.00 3.24
224 1610 4.498177 GCACGCACACTCTATCTCTATGAA 60.498 45.833 0.00 0.00 0.00 2.57
256 1642 1.145598 CTGAGCCGGCACATCATCT 59.854 57.895 31.54 4.27 0.00 2.90
257 1643 0.463295 CTGAGCCGGCACATCATCTT 60.463 55.000 31.54 3.33 0.00 2.40
258 1644 0.035152 TGAGCCGGCACATCATCTTT 60.035 50.000 31.54 2.38 0.00 2.52
259 1645 1.098050 GAGCCGGCACATCATCTTTT 58.902 50.000 31.54 1.71 0.00 2.27
260 1646 1.474077 GAGCCGGCACATCATCTTTTT 59.526 47.619 31.54 1.45 0.00 1.94
317 1703 7.214449 GTCGAAGTCGTCACATTCATAAATTTG 59.786 37.037 0.00 0.00 40.80 2.32
318 1704 7.015289 CGAAGTCGTCACATTCATAAATTTGT 58.985 34.615 0.00 0.00 34.11 2.83
320 1706 8.728088 AAGTCGTCACATTCATAAATTTGTTC 57.272 30.769 0.00 0.00 0.00 3.18
321 1707 7.870826 AGTCGTCACATTCATAAATTTGTTCA 58.129 30.769 0.00 0.00 0.00 3.18
322 1708 8.017373 AGTCGTCACATTCATAAATTTGTTCAG 58.983 33.333 0.00 0.00 0.00 3.02
325 1711 7.574779 CGTCACATTCATAAATTTGTTCAGGGA 60.575 37.037 0.00 0.00 0.00 4.20
327 1713 8.306038 TCACATTCATAAATTTGTTCAGGGAAG 58.694 33.333 0.00 0.00 0.00 3.46
329 1715 7.235399 ACATTCATAAATTTGTTCAGGGAAGGT 59.765 33.333 0.00 0.00 0.00 3.50
353 1740 7.704899 GGTGTACAATGCATTAGAAAATAACCC 59.295 37.037 12.53 0.00 0.00 4.11
376 1763 6.680874 CGAAGGAAGATACACTGTAGTAGT 57.319 41.667 0.00 0.00 41.36 2.73
393 1789 5.579564 AGTAGTGAAAAGTCGTATCCCTC 57.420 43.478 0.00 0.00 0.00 4.30
401 1797 4.884668 AAGTCGTATCCCTCTTTGAACA 57.115 40.909 0.00 0.00 0.00 3.18
402 1798 4.884668 AGTCGTATCCCTCTTTGAACAA 57.115 40.909 0.00 0.00 0.00 2.83
422 1818 4.995487 ACAAAGAGATTTTCACCTCGTACC 59.005 41.667 0.00 0.00 34.75 3.34
455 1851 3.418684 AGTAACCGGAGAAAAGCATGT 57.581 42.857 9.46 0.00 0.00 3.21
512 1908 4.142600 GGGAAGCATGCCGAATAATATGAC 60.143 45.833 15.66 0.00 29.87 3.06
516 2215 3.062639 GCATGCCGAATAATATGACGAGG 59.937 47.826 6.36 0.00 0.00 4.63
543 2242 0.184692 TTGATGAGGCAACACCACCA 59.815 50.000 0.00 0.00 43.14 4.17
545 2244 0.036732 GATGAGGCAACACCACCAGA 59.963 55.000 0.00 0.00 43.14 3.86
650 2426 3.964909 AGTTTCGTGGCAGAACAATTTC 58.035 40.909 9.94 0.00 0.00 2.17
673 2449 1.568504 TTGGGTAGGCGACAATCTCT 58.431 50.000 0.00 0.00 0.00 3.10
688 2464 2.666190 TCTGACCTGCAGTTGCGC 60.666 61.111 13.81 0.00 45.14 6.09
835 2615 2.981977 TTTCCAGTGGTGACGGCGAC 62.982 60.000 16.62 8.59 0.00 5.19
947 2727 3.054361 CCAACCCATAACTAAGCACCTCT 60.054 47.826 0.00 0.00 0.00 3.69
988 2768 3.604875 GGAGTCTCCGTTGATAAACCA 57.395 47.619 2.28 0.00 0.00 3.67
1056 2836 2.185350 CCTCCGTCGCAGCATTCT 59.815 61.111 0.00 0.00 0.00 2.40
1509 3298 1.107538 TCGACCCTGATCGGTGATCC 61.108 60.000 0.00 0.00 42.50 3.36
1518 3307 2.700371 TGATCGGTGATCCATAAGCACT 59.300 45.455 4.47 0.00 38.20 4.40
1550 3345 8.696410 TTTCTTGTTCATGTTAACCTTTTGAC 57.304 30.769 2.48 0.00 0.00 3.18
1673 3474 1.311059 GGTTCAGGCCCATCCCAAT 59.689 57.895 0.00 0.00 34.51 3.16
1853 3669 6.885922 ACTACTTCCTTATTGATGTGTACCC 58.114 40.000 0.00 0.00 0.00 3.69
1911 3727 8.396272 TCTAAAAAGAAAGATTCAGGGTTCAG 57.604 34.615 0.00 0.00 0.00 3.02
1915 3731 1.376649 AAGATTCAGGGTTCAGGCCT 58.623 50.000 0.00 0.00 0.00 5.19
1945 3761 6.238374 CCACACGTCAAATACTTTCTCTGTTT 60.238 38.462 0.00 0.00 0.00 2.83
2016 3832 4.240175 AGAGACACGTAAACTTCCTGAC 57.760 45.455 0.00 0.00 0.00 3.51
2018 3834 4.098960 AGAGACACGTAAACTTCCTGACAA 59.901 41.667 0.00 0.00 0.00 3.18
2021 3837 6.518493 AGACACGTAAACTTCCTGACAATAA 58.482 36.000 0.00 0.00 0.00 1.40
2022 3838 6.423001 AGACACGTAAACTTCCTGACAATAAC 59.577 38.462 0.00 0.00 0.00 1.89
2023 3839 5.467735 ACACGTAAACTTCCTGACAATAACC 59.532 40.000 0.00 0.00 0.00 2.85
2024 3840 4.999311 ACGTAAACTTCCTGACAATAACCC 59.001 41.667 0.00 0.00 0.00 4.11
2025 3841 5.221783 ACGTAAACTTCCTGACAATAACCCT 60.222 40.000 0.00 0.00 0.00 4.34
2026 3842 5.350640 CGTAAACTTCCTGACAATAACCCTC 59.649 44.000 0.00 0.00 0.00 4.30
2027 3843 4.302559 AACTTCCTGACAATAACCCTCC 57.697 45.455 0.00 0.00 0.00 4.30
2029 3845 3.519913 ACTTCCTGACAATAACCCTCCTC 59.480 47.826 0.00 0.00 0.00 3.71
2060 4126 4.211986 GCCGAATTTCAGGCGGTA 57.788 55.556 13.73 0.00 46.38 4.02
2062 4128 1.436983 GCCGAATTTCAGGCGGTAGG 61.437 60.000 13.73 0.00 46.38 3.18
2064 4130 1.436983 CGAATTTCAGGCGGTAGGGC 61.437 60.000 0.00 0.00 42.69 5.19
2081 4147 1.119574 GGCTGTCCCGCCCTTATCTA 61.120 60.000 0.00 0.00 44.41 1.98
2098 4164 9.442047 CCCTTATCTACAATCATATTTCTCCAC 57.558 37.037 0.00 0.00 0.00 4.02
2099 4165 9.144747 CCTTATCTACAATCATATTTCTCCACG 57.855 37.037 0.00 0.00 0.00 4.94
2105 4171 2.627945 TCATATTTCTCCACGTGGCAC 58.372 47.619 30.25 7.79 34.44 5.01
2106 4172 2.027653 TCATATTTCTCCACGTGGCACA 60.028 45.455 30.25 12.22 34.44 4.57
2124 4190 4.313282 GCACATAGATCTAGCATTGCTCA 58.687 43.478 15.81 3.37 40.44 4.26
2134 4200 9.962783 AGATCTAGCATTGCTCATTTTATTTTC 57.037 29.630 15.81 0.00 40.44 2.29
2190 4257 6.856494 TTAAACACAAAACATCAACACGAC 57.144 33.333 0.00 0.00 0.00 4.34
2334 4402 6.041979 GGCACCCTTCAAATAATGTAATCCAT 59.958 38.462 0.00 0.00 34.36 3.41
2349 4417 7.127012 TGTAATCCATATCCGAACACCTTAA 57.873 36.000 0.00 0.00 0.00 1.85
2395 4463 1.256376 CTCATGCAACTACGTCGATGC 59.744 52.381 14.27 14.27 39.22 3.91
2410 4478 1.695893 GATGCACACACATCGTCCGG 61.696 60.000 0.00 0.00 37.32 5.14
2420 4488 0.039074 CATCGTCCGGCTACTCCATC 60.039 60.000 0.00 0.00 34.01 3.51
2449 4517 4.689612 ACTAAACATGCCATCGGACTAT 57.310 40.909 0.00 0.00 0.00 2.12
2459 4527 4.097741 TGCCATCGGACTATCAAAATTTGG 59.902 41.667 5.83 0.00 0.00 3.28
2468 4536 6.873076 GGACTATCAAAATTTGGCATGTTTGA 59.127 34.615 17.58 17.58 42.42 2.69
2473 4541 7.655236 TCAAAATTTGGCATGTTTGACTATG 57.345 32.000 13.54 3.40 35.60 2.23
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
185 1564 2.394708 CGTGCGTACATAAGGATGAGG 58.605 52.381 4.09 0.00 36.48 3.86
193 1572 1.068125 AGAGTGTGCGTGCGTACATAA 60.068 47.619 17.28 0.00 42.21 1.90
224 1610 0.885196 GCTCAGTCTCTCGAAGGTGT 59.115 55.000 0.00 0.00 0.00 4.16
260 1646 5.730550 AGATGATGTGCCTAGTCGTAAAAA 58.269 37.500 0.00 0.00 0.00 1.94
261 1647 5.339008 AGATGATGTGCCTAGTCGTAAAA 57.661 39.130 0.00 0.00 0.00 1.52
262 1648 5.339008 AAGATGATGTGCCTAGTCGTAAA 57.661 39.130 0.00 0.00 0.00 2.01
263 1649 6.320418 TCTTAAGATGATGTGCCTAGTCGTAA 59.680 38.462 0.00 0.00 0.00 3.18
264 1650 5.826208 TCTTAAGATGATGTGCCTAGTCGTA 59.174 40.000 0.00 0.00 0.00 3.43
265 1651 4.645136 TCTTAAGATGATGTGCCTAGTCGT 59.355 41.667 0.00 0.00 0.00 4.34
266 1652 5.188327 TCTTAAGATGATGTGCCTAGTCG 57.812 43.478 0.00 0.00 0.00 4.18
267 1653 6.989169 ACAATCTTAAGATGATGTGCCTAGTC 59.011 38.462 18.61 0.00 34.49 2.59
268 1654 6.893583 ACAATCTTAAGATGATGTGCCTAGT 58.106 36.000 18.61 0.00 34.49 2.57
269 1655 6.145209 CGACAATCTTAAGATGATGTGCCTAG 59.855 42.308 21.91 8.64 34.49 3.02
270 1656 5.985530 CGACAATCTTAAGATGATGTGCCTA 59.014 40.000 21.91 0.00 34.49 3.93
271 1657 4.813161 CGACAATCTTAAGATGATGTGCCT 59.187 41.667 21.91 2.53 34.49 4.75
272 1658 4.811024 TCGACAATCTTAAGATGATGTGCC 59.189 41.667 21.91 11.21 34.49 5.01
273 1659 5.973651 TCGACAATCTTAAGATGATGTGC 57.026 39.130 21.91 14.21 34.49 4.57
274 1660 7.514280 CGACTTCGACAATCTTAAGATGATGTG 60.514 40.741 21.91 16.82 43.02 3.21
275 1661 6.473778 CGACTTCGACAATCTTAAGATGATGT 59.526 38.462 18.61 18.55 43.02 3.06
276 1662 6.473778 ACGACTTCGACAATCTTAAGATGATG 59.526 38.462 18.61 15.63 43.02 3.07
277 1663 6.565234 ACGACTTCGACAATCTTAAGATGAT 58.435 36.000 18.61 9.81 43.02 2.45
278 1664 5.950883 ACGACTTCGACAATCTTAAGATGA 58.049 37.500 18.61 8.72 43.02 2.92
279 1665 5.800438 TGACGACTTCGACAATCTTAAGATG 59.200 40.000 18.61 14.21 40.57 2.90
280 1666 5.800941 GTGACGACTTCGACAATCTTAAGAT 59.199 40.000 12.37 12.37 44.35 2.40
281 1667 5.152097 GTGACGACTTCGACAATCTTAAGA 58.848 41.667 7.82 7.82 44.35 2.10
282 1668 4.915667 TGTGACGACTTCGACAATCTTAAG 59.084 41.667 5.47 0.00 44.35 1.85
317 1703 2.488153 GCATTGTACACCTTCCCTGAAC 59.512 50.000 0.00 0.00 0.00 3.18
318 1704 2.107378 TGCATTGTACACCTTCCCTGAA 59.893 45.455 0.00 0.00 0.00 3.02
320 1706 2.198827 TGCATTGTACACCTTCCCTG 57.801 50.000 0.00 0.00 0.00 4.45
321 1707 3.456380 AATGCATTGTACACCTTCCCT 57.544 42.857 12.09 0.00 0.00 4.20
322 1708 4.523083 TCTAATGCATTGTACACCTTCCC 58.477 43.478 22.27 0.00 0.00 3.97
325 1711 9.855021 GTTATTTTCTAATGCATTGTACACCTT 57.145 29.630 22.27 3.00 0.00 3.50
327 1713 7.704899 GGGTTATTTTCTAATGCATTGTACACC 59.295 37.037 22.27 14.67 0.00 4.16
329 1715 7.337184 TCGGGTTATTTTCTAATGCATTGTACA 59.663 33.333 22.27 0.44 0.00 2.90
353 1740 6.680874 ACTACTACAGTGTATCTTCCTTCG 57.319 41.667 2.82 0.00 35.62 3.79
374 1761 5.011738 TCAAAGAGGGATACGACTTTTCACT 59.988 40.000 0.00 0.00 39.39 3.41
375 1762 5.235516 TCAAAGAGGGATACGACTTTTCAC 58.764 41.667 0.00 0.00 39.39 3.18
376 1763 5.477607 TCAAAGAGGGATACGACTTTTCA 57.522 39.130 0.00 0.00 39.39 2.69
377 1764 5.699458 TGTTCAAAGAGGGATACGACTTTTC 59.301 40.000 0.00 0.00 39.39 2.29
380 1767 4.884668 TGTTCAAAGAGGGATACGACTT 57.115 40.909 0.00 0.00 34.89 3.01
381 1768 4.884668 TTGTTCAAAGAGGGATACGACT 57.115 40.909 0.00 0.00 37.60 4.18
382 1769 5.235516 TCTTTGTTCAAAGAGGGATACGAC 58.764 41.667 19.77 0.00 34.15 4.34
383 1770 5.477607 TCTTTGTTCAAAGAGGGATACGA 57.522 39.130 19.77 0.48 34.15 3.43
393 1789 6.634436 CGAGGTGAAAATCTCTTTGTTCAAAG 59.366 38.462 16.33 16.33 0.00 2.77
512 1908 2.546795 GCCTCATCAACCTGTATCCTCG 60.547 54.545 0.00 0.00 0.00 4.63
516 2215 3.375299 GTGTTGCCTCATCAACCTGTATC 59.625 47.826 4.46 0.00 44.15 2.24
543 2242 2.982130 GCGGTCATCCTGGTGTCT 59.018 61.111 0.00 0.00 0.00 3.41
545 2244 4.760047 GCGCGGTCATCCTGGTGT 62.760 66.667 8.83 0.00 0.00 4.16
604 2303 5.047306 TGACGTCTCCAATCTATCTGTGTTT 60.047 40.000 17.92 0.00 0.00 2.83
650 2426 1.737793 GATTGTCGCCTACCCAAACTG 59.262 52.381 0.00 0.00 0.00 3.16
673 2449 2.974148 CAGCGCAACTGCAGGTCA 60.974 61.111 19.93 0.00 40.19 4.02
688 2464 1.945354 ATCCGTCTGTACCGTGGCAG 61.945 60.000 0.00 0.00 0.00 4.85
809 2589 0.249155 TCACCACTGGAAACGACGAC 60.249 55.000 0.00 0.00 0.00 4.34
835 2615 2.749865 AATGGAATGGACACGCGCG 61.750 57.895 30.96 30.96 0.00 6.86
947 2727 1.371183 CAGGAAGCACGGGAGTCAA 59.629 57.895 0.00 0.00 44.67 3.18
1056 2836 3.931247 CGGTTCACGTCCCACCCA 61.931 66.667 0.00 0.00 37.93 4.51
1509 3298 8.506437 TGAACAAGAAAATCACTAGTGCTTATG 58.494 33.333 18.45 13.37 0.00 1.90
1518 3307 9.349713 AGGTTAACATGAACAAGAAAATCACTA 57.650 29.630 8.10 0.00 0.00 2.74
1550 3345 0.511221 AGCGAACGACATTGGTTTCG 59.489 50.000 10.47 10.47 41.14 3.46
1673 3474 3.806949 AAAGAACTGGCCCTTCATGTA 57.193 42.857 0.00 0.00 0.00 2.29
1777 3593 4.036852 TCGTACCACAATCTGCTATCTCAG 59.963 45.833 0.00 0.00 35.46 3.35
1853 3669 3.187022 TGAATGTCGAACATGAGCTTGTG 59.813 43.478 0.00 0.00 37.97 3.33
1911 3727 0.534203 TTGACGTGTGGAGAAAGGCC 60.534 55.000 0.00 0.00 0.00 5.19
1915 3731 6.053005 AGAAAGTATTTGACGTGTGGAGAAA 58.947 36.000 0.00 0.00 39.27 2.52
1999 3815 5.467735 GGTTATTGTCAGGAAGTTTACGTGT 59.532 40.000 0.00 0.00 0.00 4.49
2000 3816 5.106830 GGGTTATTGTCAGGAAGTTTACGTG 60.107 44.000 0.00 0.00 0.00 4.49
2041 4107 3.876198 CCGCCTGAAATTCGGCCG 61.876 66.667 22.12 22.12 43.38 6.13
2043 4109 1.436983 CCTACCGCCTGAAATTCGGC 61.437 60.000 15.39 15.39 46.49 5.54
2064 4130 1.410004 TGTAGATAAGGGCGGGACAG 58.590 55.000 0.00 0.00 0.00 3.51
2071 4137 8.103305 TGGAGAAATATGATTGTAGATAAGGGC 58.897 37.037 0.00 0.00 0.00 5.19
2081 4147 3.627577 GCCACGTGGAGAAATATGATTGT 59.372 43.478 38.30 0.00 37.39 2.71
2098 4164 2.800881 TGCTAGATCTATGTGCCACG 57.199 50.000 2.11 0.00 0.00 4.94
2099 4165 3.188048 GCAATGCTAGATCTATGTGCCAC 59.812 47.826 2.11 0.00 0.00 5.01
2160 4226 9.429359 TGTTGATGTTTTGTGTTTAAACTTGAT 57.571 25.926 18.72 2.46 36.64 2.57
2164 4230 7.061326 GTCGTGTTGATGTTTTGTGTTTAAACT 59.939 33.333 18.72 0.00 36.64 2.66
2221 4288 6.598457 GTCCGGCTGTAGATACTCTAATGATA 59.402 42.308 0.00 0.00 29.58 2.15
2262 4329 4.072088 CGTCTGCGGGCGTTTGAC 62.072 66.667 12.39 0.00 0.00 3.18
2337 4405 9.489084 TTGAGATATGATAATTAAGGTGTTCGG 57.511 33.333 0.00 0.00 0.00 4.30
2366 4434 4.391830 ACGTAGTTGCATGAGTTTGTATGG 59.608 41.667 0.00 0.00 37.78 2.74
2395 4463 1.076533 GTAGCCGGACGATGTGTGTG 61.077 60.000 5.05 0.00 0.00 3.82
2406 4474 1.214673 AGTACTGATGGAGTAGCCGGA 59.785 52.381 5.05 0.00 37.87 5.14
2410 4478 7.769220 TGTTTAGTTAGTACTGATGGAGTAGC 58.231 38.462 5.39 0.00 37.87 3.58
2420 4488 5.234329 CCGATGGCATGTTTAGTTAGTACTG 59.766 44.000 3.81 0.00 35.78 2.74
2449 4517 6.649973 CCATAGTCAAACATGCCAAATTTTGA 59.350 34.615 10.72 3.52 35.98 2.69


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

AutoCloner maintained by Alex Coulton.