Multiple sequence alignment - TraesCS2A01G218400

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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 TraesCS2A01G218400 chr2A 100.000 2609 0 0 1 2609 205220121 205217513 0.000000e+00 4819.0
1 TraesCS2A01G218400 chr2D 94.730 1480 58 9 578 2054 192735938 192737400 0.000000e+00 2283.0
2 TraesCS2A01G218400 chr2D 88.177 406 27 12 2220 2609 192737977 192738377 5.090000e-127 464.0
3 TraesCS2A01G218400 chr2B 92.011 1502 64 19 579 2054 247937361 247935890 0.000000e+00 2058.0
4 TraesCS2A01G218400 chr2B 84.864 588 41 30 2047 2609 247935726 247935162 1.360000e-152 549.0
5 TraesCS2A01G218400 chr6A 99.469 565 3 0 3 567 477574233 477574797 0.000000e+00 1027.0
6 TraesCS2A01G218400 chr4B 99.469 565 3 0 3 567 57095927 57096491 0.000000e+00 1027.0
7 TraesCS2A01G218400 chr4B 99.292 565 4 0 3 567 28505739 28505175 0.000000e+00 1022.0
8 TraesCS2A01G218400 chr4B 99.292 565 4 0 3 567 626449263 626448699 0.000000e+00 1022.0
9 TraesCS2A01G218400 chr3A 99.469 565 3 0 3 567 621196403 621196967 0.000000e+00 1027.0
10 TraesCS2A01G218400 chrUn 99.292 565 4 0 3 567 338235597 338236161 0.000000e+00 1022.0
11 TraesCS2A01G218400 chrUn 99.292 565 4 0 3 567 399508318 399507754 0.000000e+00 1022.0
12 TraesCS2A01G218400 chrUn 99.292 565 4 0 3 567 405582424 405581860 0.000000e+00 1022.0
13 TraesCS2A01G218400 chrUn 99.292 565 4 0 3 567 431754653 431755217 0.000000e+00 1022.0
14 TraesCS2A01G218400 chr7D 82.394 142 20 5 2470 2609 2480985 2480847 4.560000e-23 119.0
15 TraesCS2A01G218400 chr7B 82.270 141 21 4 2470 2608 34224932 34225070 4.560000e-23 119.0
16 TraesCS2A01G218400 chr1B 87.302 63 8 0 2470 2532 551211120 551211058 3.600000e-09 73.1


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 TraesCS2A01G218400 chr2A 205217513 205220121 2608 True 4819.0 4819 100.0000 1 2609 1 chr2A.!!$R1 2608
1 TraesCS2A01G218400 chr2D 192735938 192738377 2439 False 1373.5 2283 91.4535 578 2609 2 chr2D.!!$F1 2031
2 TraesCS2A01G218400 chr2B 247935162 247937361 2199 True 1303.5 2058 88.4375 579 2609 2 chr2B.!!$R1 2030
3 TraesCS2A01G218400 chr6A 477574233 477574797 564 False 1027.0 1027 99.4690 3 567 1 chr6A.!!$F1 564
4 TraesCS2A01G218400 chr4B 57095927 57096491 564 False 1027.0 1027 99.4690 3 567 1 chr4B.!!$F1 564
5 TraesCS2A01G218400 chr4B 28505175 28505739 564 True 1022.0 1022 99.2920 3 567 1 chr4B.!!$R1 564
6 TraesCS2A01G218400 chr4B 626448699 626449263 564 True 1022.0 1022 99.2920 3 567 1 chr4B.!!$R2 564
7 TraesCS2A01G218400 chr3A 621196403 621196967 564 False 1027.0 1027 99.4690 3 567 1 chr3A.!!$F1 564
8 TraesCS2A01G218400 chrUn 338235597 338236161 564 False 1022.0 1022 99.2920 3 567 1 chrUn.!!$F1 564
9 TraesCS2A01G218400 chrUn 399507754 399508318 564 True 1022.0 1022 99.2920 3 567 1 chrUn.!!$R1 564
10 TraesCS2A01G218400 chrUn 405581860 405582424 564 True 1022.0 1022 99.2920 3 567 1 chrUn.!!$R2 564
11 TraesCS2A01G218400 chrUn 431754653 431755217 564 False 1022.0 1022 99.2920 3 567 1 chrUn.!!$F2 564

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
764 770 0.040067 CGGTTTCACTTTCCAGCAGC 60.04 55.0 0.0 0.0 0.0 5.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2565 3057 0.521867 TCCGATTTCTGTACGACGCG 60.522 55.0 3.53 3.53 0.0 6.01 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
567 568 1.575576 CGGAACTCCTCGTGACGTCT 61.576 60.000 17.92 0.00 0.00 4.18
568 569 1.446907 GGAACTCCTCGTGACGTCTA 58.553 55.000 17.92 0.00 0.00 2.59
569 570 1.808945 GGAACTCCTCGTGACGTCTAA 59.191 52.381 17.92 0.99 0.00 2.10
570 571 2.413897 GGAACTCCTCGTGACGTCTAAC 60.414 54.545 17.92 6.53 0.00 2.34
650 651 2.004583 TTACAGAGAAACGATGCGGG 57.995 50.000 0.00 0.00 0.00 6.13
764 770 0.040067 CGGTTTCACTTTCCAGCAGC 60.040 55.000 0.00 0.00 0.00 5.25
777 783 2.436292 GCAGCCCAGCTCTGTCAG 60.436 66.667 3.15 0.00 36.40 3.51
804 810 1.290203 CTCACGGGAATCAACATCCG 58.710 55.000 0.00 0.00 46.95 4.18
1185 1208 0.606401 ACTTCAGCATCCCCAACGTG 60.606 55.000 0.00 0.00 0.00 4.49
1197 1220 2.660552 AACGTGAACCGCCAGTCG 60.661 61.111 0.00 0.00 41.42 4.18
1224 1247 1.654220 CAACCTGCCCGTCAAGTTG 59.346 57.895 0.00 0.00 39.79 3.16
1278 1313 1.519455 CATCCACTTCGAGGCCGTC 60.519 63.158 0.00 0.00 37.05 4.79
1279 1314 1.682684 ATCCACTTCGAGGCCGTCT 60.683 57.895 0.00 0.00 37.05 4.18
1280 1315 0.395311 ATCCACTTCGAGGCCGTCTA 60.395 55.000 0.00 0.00 37.05 2.59
1281 1316 1.139095 CCACTTCGAGGCCGTCTAC 59.861 63.158 0.00 0.00 37.05 2.59
1282 1317 1.226323 CACTTCGAGGCCGTCTACG 60.226 63.158 0.00 0.00 37.05 3.51
1589 1624 1.837051 AGGAGGACAGGAACACGCA 60.837 57.895 0.00 0.00 0.00 5.24
1590 1625 1.374758 GGAGGACAGGAACACGCAG 60.375 63.158 0.00 0.00 0.00 5.18
1610 1645 3.082548 AGTGCACGCTCTACTTCTAGAA 58.917 45.455 12.01 4.81 0.00 2.10
1651 1687 4.946772 AGCTGCTCTTCTCTTATTTTTCCC 59.053 41.667 0.00 0.00 0.00 3.97
1662 1699 6.274672 TCTCTTATTTTTCCCTTCCCTCTGAA 59.725 38.462 0.00 0.00 0.00 3.02
1666 1703 8.589701 TTATTTTTCCCTTCCCTCTGAATTAC 57.410 34.615 0.00 0.00 31.06 1.89
1722 1759 1.358445 GGGTTTGGGGTGGTATTGGTA 59.642 52.381 0.00 0.00 0.00 3.25
1735 1773 7.446769 GGTGGTATTGGTAATTCCTTTGTTTT 58.553 34.615 0.00 0.00 37.07 2.43
1765 1803 4.153475 GTGCTTGACGTACATGTATTGGTT 59.847 41.667 9.18 0.00 0.00 3.67
1770 1808 7.043590 GCTTGACGTACATGTATTGGTTACTAG 60.044 40.741 9.18 5.14 0.00 2.57
1771 1809 7.395190 TGACGTACATGTATTGGTTACTAGT 57.605 36.000 9.18 0.00 0.00 2.57
1772 1810 8.504812 TGACGTACATGTATTGGTTACTAGTA 57.495 34.615 9.18 0.00 0.00 1.82
1805 1843 6.385033 AGACTGCAATCTTTCTAATGCAAAC 58.615 36.000 0.00 0.00 46.97 2.93
1813 1851 8.857216 CAATCTTTCTAATGCAAACAGAATGAC 58.143 33.333 18.11 0.00 39.69 3.06
1912 1950 1.733912 GAAGCGTGAATGCATGTGAGA 59.266 47.619 0.00 0.00 37.31 3.27
1917 1955 2.604462 CGTGAATGCATGTGAGAATCGA 59.396 45.455 0.00 0.00 38.61 3.59
1933 1971 4.733850 GAATCGAAAGGTTCCAAATGTCC 58.266 43.478 0.00 0.00 45.41 4.02
1949 1987 7.989741 TCCAAATGTCCTGCAAAATAAAAAGAA 59.010 29.630 0.00 0.00 0.00 2.52
1950 1988 8.284693 CCAAATGTCCTGCAAAATAAAAAGAAG 58.715 33.333 0.00 0.00 0.00 2.85
1954 1992 7.551585 TGTCCTGCAAAATAAAAAGAAGACAA 58.448 30.769 0.00 0.00 0.00 3.18
1955 1993 8.037758 TGTCCTGCAAAATAAAAAGAAGACAAA 58.962 29.630 0.00 0.00 0.00 2.83
1956 1994 9.045223 GTCCTGCAAAATAAAAAGAAGACAAAT 57.955 29.630 0.00 0.00 0.00 2.32
1957 1995 9.260002 TCCTGCAAAATAAAAAGAAGACAAATC 57.740 29.630 0.00 0.00 0.00 2.17
1958 1996 9.044150 CCTGCAAAATAAAAAGAAGACAAATCA 57.956 29.630 0.00 0.00 0.00 2.57
2006 2049 7.287950 TCTGATGAAAAACATAAAAGACGACG 58.712 34.615 0.00 0.00 39.56 5.12
2010 2053 6.950545 TGAAAAACATAAAAGACGACGACAT 58.049 32.000 0.00 0.00 0.00 3.06
2019 2062 9.961266 CATAAAAGACGACGACATATTTAACAA 57.039 29.630 0.00 0.00 0.00 2.83
2022 2065 8.746922 AAAGACGACGACATATTTAACAACTA 57.253 30.769 0.00 0.00 0.00 2.24
2023 2066 8.746922 AAGACGACGACATATTTAACAACTAA 57.253 30.769 0.00 0.00 0.00 2.24
2025 2068 8.025445 AGACGACGACATATTTAACAACTAACT 58.975 33.333 0.00 0.00 0.00 2.24
2039 2082 9.685828 TTAACAACTAACTATCCAATGCAAAAC 57.314 29.630 0.00 0.00 0.00 2.43
2040 2083 7.283625 ACAACTAACTATCCAATGCAAAACA 57.716 32.000 0.00 0.00 0.00 2.83
2041 2084 7.895759 ACAACTAACTATCCAATGCAAAACAT 58.104 30.769 0.00 0.00 42.30 2.71
2042 2085 9.019656 ACAACTAACTATCCAATGCAAAACATA 57.980 29.630 0.00 0.00 38.34 2.29
2043 2086 9.289303 CAACTAACTATCCAATGCAAAACATAC 57.711 33.333 0.00 0.00 38.34 2.39
2044 2087 7.693952 ACTAACTATCCAATGCAAAACATACG 58.306 34.615 0.00 0.00 38.34 3.06
2045 2088 6.751514 AACTATCCAATGCAAAACATACGA 57.248 33.333 0.00 0.00 38.34 3.43
2077 2305 0.321564 CATGGTCTGAAAGGGCACGA 60.322 55.000 0.00 0.00 0.00 4.35
2079 2307 0.036388 TGGTCTGAAAGGGCACGATC 60.036 55.000 0.00 0.00 0.00 3.69
2080 2308 0.250513 GGTCTGAAAGGGCACGATCT 59.749 55.000 0.00 0.00 0.00 2.75
2082 2310 2.427506 GTCTGAAAGGGCACGATCTTT 58.572 47.619 0.00 0.00 36.09 2.52
2134 2370 4.981806 TGCTTAACCTTTCACCATATGC 57.018 40.909 0.00 0.00 0.00 3.14
2136 2372 4.157656 TGCTTAACCTTTCACCATATGCAC 59.842 41.667 0.00 0.00 0.00 4.57
2142 2378 4.832266 ACCTTTCACCATATGCACTTTTCA 59.168 37.500 0.00 0.00 0.00 2.69
2145 2381 6.146021 CCTTTCACCATATGCACTTTTCAAAC 59.854 38.462 0.00 0.00 0.00 2.93
2146 2382 5.781210 TCACCATATGCACTTTTCAAACA 57.219 34.783 0.00 0.00 0.00 2.83
2147 2383 6.154203 TCACCATATGCACTTTTCAAACAA 57.846 33.333 0.00 0.00 0.00 2.83
2148 2384 6.215121 TCACCATATGCACTTTTCAAACAAG 58.785 36.000 0.00 0.00 0.00 3.16
2149 2385 4.990426 ACCATATGCACTTTTCAAACAAGC 59.010 37.500 0.00 0.00 0.00 4.01
2150 2386 4.389687 CCATATGCACTTTTCAAACAAGCC 59.610 41.667 0.00 0.00 0.00 4.35
2151 2387 1.919918 TGCACTTTTCAAACAAGCCG 58.080 45.000 0.00 0.00 0.00 5.52
2152 2388 1.203523 TGCACTTTTCAAACAAGCCGT 59.796 42.857 0.00 0.00 0.00 5.68
2153 2389 1.587946 GCACTTTTCAAACAAGCCGTG 59.412 47.619 0.00 0.00 0.00 4.94
2154 2390 1.587946 CACTTTTCAAACAAGCCGTGC 59.412 47.619 0.00 0.00 0.00 5.34
2155 2391 1.203523 ACTTTTCAAACAAGCCGTGCA 59.796 42.857 0.00 0.00 0.00 4.57
2156 2392 1.854126 CTTTTCAAACAAGCCGTGCAG 59.146 47.619 0.00 0.00 0.00 4.41
2157 2393 0.102120 TTTCAAACAAGCCGTGCAGG 59.898 50.000 0.00 0.00 44.97 4.85
2173 2409 2.663196 GGTGCAGCCGTACCTCTT 59.337 61.111 4.03 0.00 44.06 2.85
2188 2424 6.704937 CCGTACCTCTTGTTTCTTCTAACTTT 59.295 38.462 0.00 0.00 0.00 2.66
2191 2427 7.321745 ACCTCTTGTTTCTTCTAACTTTGTG 57.678 36.000 0.00 0.00 0.00 3.33
2192 2428 6.183360 ACCTCTTGTTTCTTCTAACTTTGTGC 60.183 38.462 0.00 0.00 0.00 4.57
2193 2429 6.183360 CCTCTTGTTTCTTCTAACTTTGTGCA 60.183 38.462 0.00 0.00 0.00 4.57
2195 2431 7.598278 TCTTGTTTCTTCTAACTTTGTGCAAA 58.402 30.769 0.00 0.00 0.00 3.68
2210 2446 5.966636 TGTGCAAAGCATCTAACTATACG 57.033 39.130 0.00 0.00 41.91 3.06
2211 2447 4.808895 TGTGCAAAGCATCTAACTATACGG 59.191 41.667 0.00 0.00 41.91 4.02
2212 2448 5.047847 GTGCAAAGCATCTAACTATACGGA 58.952 41.667 0.00 0.00 41.91 4.69
2213 2449 5.696724 GTGCAAAGCATCTAACTATACGGAT 59.303 40.000 0.00 0.00 41.91 4.18
2215 2451 7.062371 GTGCAAAGCATCTAACTATACGGATAG 59.938 40.741 13.38 13.38 41.91 2.08
2216 2452 7.255836 TGCAAAGCATCTAACTATACGGATAGT 60.256 37.037 14.87 14.87 41.06 2.12
2218 2454 6.665474 AGCATCTAACTATACGGATAGTCG 57.335 41.667 20.59 14.33 46.28 4.18
2278 2755 1.609061 CGGAGATGCAGTCCAGTTGTT 60.609 52.381 16.21 0.00 33.14 2.83
2289 2766 3.321111 AGTCCAGTTGTTTCTCTCGCTTA 59.679 43.478 0.00 0.00 0.00 3.09
2290 2767 4.056050 GTCCAGTTGTTTCTCTCGCTTAA 58.944 43.478 0.00 0.00 0.00 1.85
2297 2774 3.247648 TGTTTCTCTCGCTTAAACACAGC 59.752 43.478 0.00 0.00 37.99 4.40
2299 2776 3.319137 TCTCTCGCTTAAACACAGCAT 57.681 42.857 0.00 0.00 37.07 3.79
2307 2784 4.793216 CGCTTAAACACAGCATATCAAACC 59.207 41.667 0.00 0.00 37.07 3.27
2317 2794 6.634035 CACAGCATATCAAACCAATAATCACG 59.366 38.462 0.00 0.00 0.00 4.35
2363 2853 7.179338 ACTGACTGTCTACAAGAGGTCAAATAT 59.821 37.037 9.51 0.00 37.55 1.28
2415 2906 3.307674 TGCTTACGTGTTACACTAACCG 58.692 45.455 13.86 2.38 37.88 4.44
2447 2939 9.890629 ATAAGATATTAAAAGATCATAGGCGCA 57.109 29.630 10.83 0.00 0.00 6.09
2463 2955 1.334556 GCGCACATCCATTCAATAGCA 59.665 47.619 0.30 0.00 0.00 3.49
2495 2987 1.327460 CGTACAATGCTTCATGGTCCG 59.673 52.381 0.00 0.00 29.91 4.79
2506 2998 2.612604 TCATGGTCCGATTTGTGTACG 58.387 47.619 0.00 0.00 0.00 3.67
2509 3001 1.337074 TGGTCCGATTTGTGTACGACC 60.337 52.381 5.61 5.61 0.00 4.79
2511 3003 0.247185 TCCGATTTGTGTACGACCCC 59.753 55.000 0.00 0.00 0.00 4.95
2552 3044 1.786579 GTTTTGTTCAGCGCATCAACC 59.213 47.619 11.47 0.00 0.00 3.77
2576 3068 0.303796 TGATCTAGCGCGTCGTACAG 59.696 55.000 8.43 0.00 0.00 2.74
2588 3080 2.340577 CGTCGTACAGAAATCGGACAAC 59.659 50.000 0.00 0.00 0.00 3.32
2589 3081 3.572584 GTCGTACAGAAATCGGACAACT 58.427 45.455 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.229304 TCCCTCTCTCCTTGCTGCA 60.229 57.895 0.00 0.00 0.00 4.41
1 2 0.975040 TCTCCCTCTCTCCTTGCTGC 60.975 60.000 0.00 0.00 0.00 5.25
567 568 4.322057 AAAGGTAGTACTCCCTCCGTTA 57.678 45.455 7.57 0.00 0.00 3.18
568 569 2.915657 AAGGTAGTACTCCCTCCGTT 57.084 50.000 7.57 0.00 0.00 4.44
569 570 2.915657 AAAGGTAGTACTCCCTCCGT 57.084 50.000 7.57 0.00 0.00 4.69
570 571 4.019174 TGTAAAAGGTAGTACTCCCTCCG 58.981 47.826 7.57 0.00 0.00 4.63
571 572 4.405036 CCTGTAAAAGGTAGTACTCCCTCC 59.595 50.000 7.57 3.14 41.74 4.30
572 573 5.595257 CCTGTAAAAGGTAGTACTCCCTC 57.405 47.826 7.57 0.00 41.74 4.30
650 651 4.902443 TCTCTGTCGTGGTATGATTCTC 57.098 45.455 0.00 0.00 0.00 2.87
804 810 3.857052 TGTTGATGAGGATGAACGTACC 58.143 45.455 0.00 0.00 0.00 3.34
816 822 2.046313 GCACGCAAAACTGTTGATGAG 58.954 47.619 9.89 8.99 0.00 2.90
1224 1247 2.970324 TTGTGCTCGTTGACGGCC 60.970 61.111 3.48 0.00 40.29 6.13
1288 1323 1.255084 GAGCTCGTCGTCGTAGTAGAC 59.745 57.143 0.00 0.00 38.33 2.59
1289 1324 1.135286 TGAGCTCGTCGTCGTAGTAGA 60.135 52.381 9.64 0.00 38.33 2.59
1317 1352 4.185286 GGGTACATGACGGGGCCC 62.185 72.222 15.76 15.76 0.00 5.80
1498 1533 1.302832 GCTCCTTGGTGTCCCACAG 60.303 63.158 0.00 0.00 41.67 3.66
1589 1624 2.712709 TCTAGAAGTAGAGCGTGCACT 58.287 47.619 16.19 0.00 31.23 4.40
1590 1625 3.489180 TTCTAGAAGTAGAGCGTGCAC 57.511 47.619 6.82 6.82 36.61 4.57
1610 1645 4.820716 GCAGCTTGAATGATCCACTAGAAT 59.179 41.667 0.00 0.00 0.00 2.40
1651 1687 7.619965 AGAAAGAGAAGTAATTCAGAGGGAAG 58.380 38.462 5.62 0.00 39.30 3.46
1666 1703 8.014517 GCAGTTATGTTCAAGAAGAAAGAGAAG 58.985 37.037 0.00 0.00 38.13 2.85
1722 1759 8.776470 CAAGCACATGAATAAAACAAAGGAATT 58.224 29.630 0.00 0.00 0.00 2.17
1788 1826 7.752239 CGTCATTCTGTTTGCATTAGAAAGATT 59.248 33.333 12.83 0.00 32.82 2.40
1805 1843 3.181513 CCTTTGATGCTCACGTCATTCTG 60.182 47.826 0.00 0.00 41.42 3.02
1813 1851 2.787249 CGCCCTTTGATGCTCACG 59.213 61.111 0.00 0.00 0.00 4.35
1892 1930 1.733912 TCTCACATGCATTCACGCTTC 59.266 47.619 0.00 0.00 0.00 3.86
1896 1934 2.604462 TCGATTCTCACATGCATTCACG 59.396 45.455 0.00 0.00 0.00 4.35
1912 1950 4.218417 CAGGACATTTGGAACCTTTCGATT 59.782 41.667 0.00 0.00 0.00 3.34
1917 1955 2.676748 TGCAGGACATTTGGAACCTTT 58.323 42.857 0.00 0.00 0.00 3.11
1924 1962 7.727331 TCTTTTTATTTTGCAGGACATTTGG 57.273 32.000 0.00 0.00 0.00 3.28
2019 2062 7.551262 TCGTATGTTTTGCATTGGATAGTTAGT 59.449 33.333 0.00 0.00 38.94 2.24
2022 2065 6.751514 TCGTATGTTTTGCATTGGATAGTT 57.248 33.333 0.00 0.00 38.94 2.24
2023 2066 6.751514 TTCGTATGTTTTGCATTGGATAGT 57.248 33.333 0.00 0.00 38.94 2.12
2039 2082 9.706691 AGACCATGGTTAACTATATTTCGTATG 57.293 33.333 20.85 0.00 0.00 2.39
2040 2083 9.706691 CAGACCATGGTTAACTATATTTCGTAT 57.293 33.333 20.85 0.00 0.00 3.06
2041 2084 8.916062 TCAGACCATGGTTAACTATATTTCGTA 58.084 33.333 20.85 0.00 0.00 3.43
2042 2085 7.788026 TCAGACCATGGTTAACTATATTTCGT 58.212 34.615 20.85 0.00 0.00 3.85
2043 2086 8.657074 TTCAGACCATGGTTAACTATATTTCG 57.343 34.615 20.85 0.00 0.00 3.46
2045 2088 9.408648 CCTTTCAGACCATGGTTAACTATATTT 57.591 33.333 20.85 0.00 0.00 1.40
2108 2340 4.981806 TGGTGAAAGGTTAAGCATATGC 57.018 40.909 20.36 20.36 42.49 3.14
2134 2370 1.587946 GCACGGCTTGTTTGAAAAGTG 59.412 47.619 0.00 0.00 0.00 3.16
2136 2372 1.854126 CTGCACGGCTTGTTTGAAAAG 59.146 47.619 0.00 0.00 0.00 2.27
2142 2378 3.119193 CACCTGCACGGCTTGTTT 58.881 55.556 2.50 0.00 35.61 2.83
2153 2389 4.394712 AGGTACGGCTGCACCTGC 62.395 66.667 17.16 0.00 43.64 4.85
2154 2390 2.125512 GAGGTACGGCTGCACCTG 60.126 66.667 22.74 0.00 45.32 4.00
2156 2392 1.741770 CAAGAGGTACGGCTGCACC 60.742 63.158 6.86 6.86 34.86 5.01
2157 2393 0.602905 AACAAGAGGTACGGCTGCAC 60.603 55.000 0.50 0.00 0.00 4.57
2168 2404 6.183360 TGCACAAAGTTAGAAGAAACAAGAGG 60.183 38.462 0.00 0.00 0.00 3.69
2188 2424 4.808895 CCGTATAGTTAGATGCTTTGCACA 59.191 41.667 0.00 0.00 43.04 4.57
2191 2427 7.091443 ACTATCCGTATAGTTAGATGCTTTGC 58.909 38.462 0.00 0.00 44.88 3.68
2192 2428 7.482113 CGACTATCCGTATAGTTAGATGCTTTG 59.518 40.741 1.87 0.00 46.71 2.77
2193 2429 7.389884 TCGACTATCCGTATAGTTAGATGCTTT 59.610 37.037 1.87 0.00 46.71 3.51
2195 2431 6.404708 TCGACTATCCGTATAGTTAGATGCT 58.595 40.000 1.87 0.00 46.71 3.79
2196 2432 6.659361 TCGACTATCCGTATAGTTAGATGC 57.341 41.667 1.87 0.00 46.71 3.91
2198 2434 9.323985 GGTATTCGACTATCCGTATAGTTAGAT 57.676 37.037 1.87 0.59 46.71 1.98
2199 2435 7.489435 CGGTATTCGACTATCCGTATAGTTAGA 59.511 40.741 1.87 3.20 46.71 2.10
2200 2436 7.489435 TCGGTATTCGACTATCCGTATAGTTAG 59.511 40.741 16.97 0.97 46.71 2.34
2201 2437 7.320399 TCGGTATTCGACTATCCGTATAGTTA 58.680 38.462 16.97 0.00 46.71 2.24
2218 2454 5.699097 AGAGAGTTAGAGCATCGGTATTC 57.301 43.478 0.00 0.00 42.67 1.75
2268 2745 2.156343 AGCGAGAGAAACAACTGGAC 57.844 50.000 0.00 0.00 0.00 4.02
2278 2755 3.106242 TGCTGTGTTTAAGCGAGAGAA 57.894 42.857 0.00 0.00 43.88 2.87
2289 2766 8.530311 TGATTATTGGTTTGATATGCTGTGTTT 58.470 29.630 0.00 0.00 0.00 2.83
2290 2767 7.975616 GTGATTATTGGTTTGATATGCTGTGTT 59.024 33.333 0.00 0.00 0.00 3.32
2317 2794 8.584157 AGTCAGTCCTGATCATTCTTATATCAC 58.416 37.037 0.00 0.00 42.18 3.06
2371 2861 6.540189 GCATTGGTGTTCTTATCAGTAGATGT 59.460 38.462 0.00 0.00 35.67 3.06
2445 2937 4.567959 GGTTTTGCTATTGAATGGATGTGC 59.432 41.667 0.00 0.00 0.00 4.57
2447 2939 5.481473 AGTGGTTTTGCTATTGAATGGATGT 59.519 36.000 0.00 0.00 0.00 3.06
2463 2955 3.756434 AGCATTGTACGCATAGTGGTTTT 59.244 39.130 0.00 0.00 0.00 2.43
2495 2987 4.351131 GATTTGGGGTCGTACACAAATC 57.649 45.455 23.44 23.44 46.49 2.17
2506 2998 1.064463 TGGAGCATCAGATTTGGGGTC 60.064 52.381 0.00 0.00 36.25 4.46
2509 3001 2.022195 CAGTGGAGCATCAGATTTGGG 58.978 52.381 0.00 0.00 36.25 4.12
2511 3003 2.089201 TGCAGTGGAGCATCAGATTTG 58.911 47.619 0.00 0.00 40.11 2.32
2555 3047 1.130938 TGTACGACGCGCTAGATCAAA 59.869 47.619 5.73 0.00 0.00 2.69
2565 3057 0.521867 TCCGATTTCTGTACGACGCG 60.522 55.000 3.53 3.53 0.00 6.01


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

AutoCloner maintained by Alex Coulton.