Multiple sequence alignment - TraesCS2D01G446300

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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 TraesCS2D01G446300 chr2D 100.000 2695 0 0 1 2695 556407041 556409735 0.000000e+00 4977.0
1 TraesCS2D01G446300 chr2D 88.246 2127 135 50 188 2253 556364668 556366740 0.000000e+00 2436.0
2 TraesCS2D01G446300 chr2D 90.078 1673 105 30 624 2253 556618754 556620408 0.000000e+00 2113.0
3 TraesCS2D01G446300 chr2D 83.043 1551 160 43 778 2241 556266998 556268532 0.000000e+00 1312.0
4 TraesCS2D01G446300 chr2D 82.094 1452 167 38 868 2241 556350412 556351848 0.000000e+00 1155.0
5 TraesCS2D01G446300 chr2D 85.922 1030 81 32 476 1491 556317928 556318907 0.000000e+00 1040.0
6 TraesCS2D01G446300 chr2D 91.789 475 32 3 1486 1953 556333284 556333758 0.000000e+00 654.0
7 TraesCS2D01G446300 chr2D 79.222 977 113 38 1351 2241 556339260 556340232 5.700000e-167 597.0
8 TraesCS2D01G446300 chr2D 95.517 290 13 0 1964 2253 556333878 556334167 6.030000e-127 464.0
9 TraesCS2D01G446300 chr2D 87.895 380 43 3 2316 2694 313461695 313461318 7.860000e-121 444.0
10 TraesCS2D01G446300 chr2D 85.753 365 37 6 94 444 556265328 556265691 3.760000e-99 372.0
11 TraesCS2D01G446300 chr2D 100.000 177 0 0 2912 3088 556409952 556410128 8.260000e-86 327.0
12 TraesCS2D01G446300 chr2D 95.480 177 8 0 2912 3088 334151907 334151731 1.810000e-72 283.0
13 TraesCS2D01G446300 chr2D 92.661 109 8 0 94 202 556364331 556364439 1.150000e-34 158.0
14 TraesCS2D01G446300 chr2D 78.988 257 28 14 487 742 556265792 556266023 5.330000e-33 152.0
15 TraesCS2D01G446300 chr2D 81.333 150 14 8 172 308 556315894 556316042 3.260000e-20 110.0
16 TraesCS2D01G446300 chr2D 95.522 67 2 1 2250 2315 352491021 352490955 4.210000e-19 106.0
17 TraesCS2D01G446300 chr2B 93.167 1566 78 5 700 2253 663885723 663887271 0.000000e+00 2272.0
18 TraesCS2D01G446300 chr2B 81.847 1862 187 55 473 2234 663828467 663830277 0.000000e+00 1426.0
19 TraesCS2D01G446300 chr2B 81.313 1675 178 63 631 2226 663837643 663839261 0.000000e+00 1234.0
20 TraesCS2D01G446300 chr2B 92.620 664 15 10 1 660 663885096 663885729 0.000000e+00 924.0
21 TraesCS2D01G446300 chr2B 90.476 378 33 3 2316 2692 730843724 730844099 2.140000e-136 496.0
22 TraesCS2D01G446300 chr2B 94.798 173 8 1 2916 3088 730844311 730844482 5.080000e-68 268.0
23 TraesCS2D01G446300 chr2B 87.685 203 22 1 94 293 663827807 663828009 1.850000e-57 233.0
24 TraesCS2D01G446300 chr2B 76.115 314 37 20 148 444 663835064 663835356 2.500000e-26 130.0
25 TraesCS2D01G446300 chr2B 88.095 84 5 4 529 612 663837568 663837646 9.120000e-16 95.3
26 TraesCS2D01G446300 chr2B 82.243 107 10 3 2142 2239 663900032 663900138 1.970000e-12 84.2
27 TraesCS2D01G446300 chr2A 91.869 1316 54 24 964 2253 696219181 696220469 0.000000e+00 1788.0
28 TraesCS2D01G446300 chr2A 81.140 2211 247 79 145 2241 695998283 696000437 0.000000e+00 1616.0
29 TraesCS2D01G446300 chr2A 82.926 1839 177 65 476 2241 696039948 696041722 0.000000e+00 1530.0
30 TraesCS2D01G446300 chr2A 88.399 862 57 15 94 934 696218342 696219181 0.000000e+00 998.0
31 TraesCS2D01G446300 chr2A 92.920 678 48 0 1576 2253 696307690 696308367 0.000000e+00 987.0
32 TraesCS2D01G446300 chr2A 89.245 781 44 10 834 1579 696306861 696307636 0.000000e+00 941.0
33 TraesCS2D01G446300 chr2A 88.051 703 36 21 155 837 696286892 696287566 0.000000e+00 789.0
34 TraesCS2D01G446300 chr2A 76.957 230 29 13 94 311 696007719 696007936 3.260000e-20 110.0
35 TraesCS2D01G446300 chr2A 82.243 107 10 3 2142 2239 696826522 696826628 1.970000e-12 84.2
36 TraesCS2D01G446300 chr5D 91.200 375 32 1 2320 2693 10518118 10518492 2.750000e-140 508.0
37 TraesCS2D01G446300 chr5D 89.974 379 36 2 2314 2691 119913738 119913361 3.580000e-134 488.0
38 TraesCS2D01G446300 chr5D 88.689 389 36 5 2312 2695 291899471 291899086 4.660000e-128 468.0
39 TraesCS2D01G446300 chr5D 88.773 383 40 3 2314 2695 8802879 8803259 1.680000e-127 466.0
40 TraesCS2D01G446300 chr5D 88.095 378 41 4 2314 2690 218031404 218031030 2.180000e-121 446.0
41 TraesCS2D01G446300 chr5D 93.785 177 11 0 2912 3088 119913287 119913111 1.830000e-67 267.0
42 TraesCS2D01G446300 chr5D 93.750 176 11 0 2913 3088 8803331 8803506 6.570000e-67 265.0
43 TraesCS2D01G446300 chr5D 93.750 176 11 0 2913 3088 10518576 10518751 6.570000e-67 265.0
44 TraesCS2D01G446300 chr5D 92.655 177 13 0 2912 3088 480016212 480016388 3.950000e-64 255.0
45 TraesCS2D01G446300 chr7D 90.625 384 27 7 2314 2693 30827643 30827265 4.600000e-138 501.0
46 TraesCS2D01G446300 chr7D 92.655 177 11 1 2912 3088 30827188 30827014 1.420000e-63 254.0
47 TraesCS2D01G446300 chr3D 89.817 383 37 2 2314 2695 375703432 375703051 9.950000e-135 490.0
48 TraesCS2D01G446300 chr3D 93.785 177 11 0 2912 3088 375702949 375702773 1.830000e-67 267.0
49 TraesCS2D01G446300 chr3D 95.522 67 2 1 2250 2315 591359821 591359755 4.210000e-19 106.0
50 TraesCS2D01G446300 chrUn 87.404 389 43 5 2312 2695 70292817 70292430 2.830000e-120 442.0
51 TraesCS2D01G446300 chrUn 94.366 71 2 2 2246 2314 68241950 68242020 1.170000e-19 108.0
52 TraesCS2D01G446300 chr4D 92.090 177 14 0 2912 3088 53498347 53498171 1.840000e-62 250.0
53 TraesCS2D01G446300 chr6D 95.522 67 2 1 2250 2315 340112831 340112897 4.210000e-19 106.0
54 TraesCS2D01G446300 chr6D 94.118 68 3 1 2250 2316 172725810 172725743 5.450000e-18 102.0
55 TraesCS2D01G446300 chr1D 95.522 67 2 1 2250 2315 476577471 476577537 4.210000e-19 106.0
56 TraesCS2D01G446300 chr5A 95.455 66 2 1 2251 2315 60251889 60251824 1.510000e-18 104.0
57 TraesCS2D01G446300 chr7A 95.312 64 2 1 2247 2309 709761456 709761519 1.960000e-17 100.0
58 TraesCS2D01G446300 chr5B 94.030 67 3 1 2250 2315 681820857 681820923 1.960000e-17 100.0
59 TraesCS2D01G446300 chr5B 88.406 69 7 1 2251 2318 455508154 455508086 7.100000e-12 82.4
60 TraesCS2D01G446300 chr5B 97.222 36 1 0 585 620 623152559 623152594 9.250000e-06 62.1
61 TraesCS2D01G446300 chr5B 97.222 36 1 0 585 620 626817483 626817518 9.250000e-06 62.1
62 TraesCS2D01G446300 chr4A 92.537 67 4 1 2251 2316 587332540 587332474 9.120000e-16 95.3


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 TraesCS2D01G446300 chr2D 556407041 556410128 3087 False 2652.000000 4977 100.000000 1 3088 2 chr2D.!!$F8 3087
1 TraesCS2D01G446300 chr2D 556618754 556620408 1654 False 2113.000000 2113 90.078000 624 2253 1 chr2D.!!$F3 1629
2 TraesCS2D01G446300 chr2D 556364331 556366740 2409 False 1297.000000 2436 90.453500 94 2253 2 chr2D.!!$F7 2159
3 TraesCS2D01G446300 chr2D 556350412 556351848 1436 False 1155.000000 1155 82.094000 868 2241 1 chr2D.!!$F2 1373
4 TraesCS2D01G446300 chr2D 556265328 556268532 3204 False 612.000000 1312 82.594667 94 2241 3 chr2D.!!$F4 2147
5 TraesCS2D01G446300 chr2D 556339260 556340232 972 False 597.000000 597 79.222000 1351 2241 1 chr2D.!!$F1 890
6 TraesCS2D01G446300 chr2D 556315894 556318907 3013 False 575.000000 1040 83.627500 172 1491 2 chr2D.!!$F5 1319
7 TraesCS2D01G446300 chr2D 556333284 556334167 883 False 559.000000 654 93.653000 1486 2253 2 chr2D.!!$F6 767
8 TraesCS2D01G446300 chr2B 663885096 663887271 2175 False 1598.000000 2272 92.893500 1 2253 2 chr2B.!!$F4 2252
9 TraesCS2D01G446300 chr2B 663827807 663830277 2470 False 829.500000 1426 84.766000 94 2234 2 chr2B.!!$F2 2140
10 TraesCS2D01G446300 chr2B 663835064 663839261 4197 False 486.433333 1234 81.841000 148 2226 3 chr2B.!!$F3 2078
11 TraesCS2D01G446300 chr2B 730843724 730844482 758 False 382.000000 496 92.637000 2316 3088 2 chr2B.!!$F5 772
12 TraesCS2D01G446300 chr2A 695998283 696000437 2154 False 1616.000000 1616 81.140000 145 2241 1 chr2A.!!$F1 2096
13 TraesCS2D01G446300 chr2A 696039948 696041722 1774 False 1530.000000 1530 82.926000 476 2241 1 chr2A.!!$F3 1765
14 TraesCS2D01G446300 chr2A 696218342 696220469 2127 False 1393.000000 1788 90.134000 94 2253 2 chr2A.!!$F6 2159
15 TraesCS2D01G446300 chr2A 696306861 696308367 1506 False 964.000000 987 91.082500 834 2253 2 chr2A.!!$F7 1419
16 TraesCS2D01G446300 chr2A 696286892 696287566 674 False 789.000000 789 88.051000 155 837 1 chr2A.!!$F4 682
17 TraesCS2D01G446300 chr5D 10518118 10518751 633 False 386.500000 508 92.475000 2320 3088 2 chr5D.!!$F3 768
18 TraesCS2D01G446300 chr5D 119913111 119913738 627 True 377.500000 488 91.879500 2314 3088 2 chr5D.!!$R3 774
19 TraesCS2D01G446300 chr5D 8802879 8803506 627 False 365.500000 466 91.261500 2314 3088 2 chr5D.!!$F2 774
20 TraesCS2D01G446300 chr7D 30827014 30827643 629 True 377.500000 501 91.640000 2314 3088 2 chr7D.!!$R1 774
21 TraesCS2D01G446300 chr3D 375702773 375703432 659 True 378.500000 490 91.801000 2314 3088 2 chr3D.!!$R2 774

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
707 5168 0.436913 TTTGACTTGCATCGTACGCG 59.563 50.0 11.24 3.53 39.92 6.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2310 8129 0.179073 GCGGCTGGAGATGCTCTAAA 60.179 55.0 0.0 0.0 0.0 1.85 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
30 31 2.231721 GGATTGCTCTCTCCCGTATACC 59.768 54.545 0.00 0.00 0.00 2.73
46 47 4.442893 CGTATACCAGAGGAATTTGCAGGA 60.443 45.833 0.00 0.00 0.00 3.86
80 82 3.198872 TGCCGTTAATGAATCATACGCA 58.801 40.909 11.77 10.61 28.28 5.24
211 461 1.997606 CACCGGTTTTCCACGAGTATC 59.002 52.381 2.97 0.00 40.70 2.24
293 553 6.096001 AGCCAGCAGGATTAGTTAAGAAAATG 59.904 38.462 0.00 0.00 36.89 2.32
382 2615 5.469421 TGGACGTAACGTAATTTGGAACATT 59.531 36.000 0.00 0.00 41.37 2.71
386 2619 9.545611 GACGTAACGTAATTTGGAACATTATTT 57.454 29.630 0.00 0.00 41.37 1.40
451 2764 0.984995 AGGAAGGTGCCTACTCCAAC 59.015 55.000 10.60 0.00 36.22 3.77
492 2810 2.496070 ACTAGCGTGCTTAACCAGATCA 59.504 45.455 0.00 0.00 0.00 2.92
664 5125 5.775701 AGAATATATCTGGTCTTACGTGGCT 59.224 40.000 0.00 0.00 36.88 4.75
707 5168 0.436913 TTTGACTTGCATCGTACGCG 59.563 50.000 11.24 3.53 39.92 6.01
793 6202 2.422832 GAGCAGCAGAATGGAAGGAAAG 59.577 50.000 0.00 0.00 35.86 2.62
895 6326 2.702592 TATACCTGGCCAACGAAAGG 57.297 50.000 7.01 5.79 35.82 3.11
1451 6975 4.796231 ATCGCGACGCACCTGGAC 62.796 66.667 21.35 0.00 0.00 4.02
1692 7288 2.625375 CTTCTGCAGCAGCTGTTCA 58.375 52.632 23.60 12.84 42.74 3.18
1715 7311 1.676014 GCCATCGGCTCTAACAACAGT 60.676 52.381 0.00 0.00 46.69 3.55
1767 7369 2.033801 GCAAACACAGTGCTGAACTCAT 59.966 45.455 6.17 0.00 36.83 2.90
1802 7422 5.620654 CGTTTCGAACCAGATGAACTACCTA 60.621 44.000 0.00 0.00 0.00 3.08
1825 7445 0.035439 CCGGGTTACCTCTGCAACAT 60.035 55.000 0.00 0.00 33.28 2.71
2039 7788 2.780094 CGGGCTGTGCTCTCTCGAT 61.780 63.158 0.00 0.00 0.00 3.59
2072 7821 5.620738 TCTGGAAGGACATATTGGAAGAG 57.379 43.478 0.00 0.00 0.00 2.85
2248 8067 3.173668 TGTGACTCGTGCTACACTTTT 57.826 42.857 0.00 0.00 34.81 2.27
2253 8072 5.117287 GTGACTCGTGCTACACTTTTCTTAG 59.883 44.000 0.00 0.00 31.34 2.18
2254 8073 5.009310 TGACTCGTGCTACACTTTTCTTAGA 59.991 40.000 0.00 0.00 31.34 2.10
2255 8074 5.462405 ACTCGTGCTACACTTTTCTTAGAG 58.538 41.667 0.00 0.00 31.34 2.43
2256 8075 4.235360 TCGTGCTACACTTTTCTTAGAGC 58.765 43.478 0.00 0.00 31.34 4.09
2257 8076 3.987868 CGTGCTACACTTTTCTTAGAGCA 59.012 43.478 0.00 0.00 36.17 4.26
2258 8077 4.627467 CGTGCTACACTTTTCTTAGAGCAT 59.373 41.667 0.00 0.00 40.29 3.79
2259 8078 5.220303 CGTGCTACACTTTTCTTAGAGCATC 60.220 44.000 0.00 0.00 40.29 3.91
2260 8079 7.336193 CGTGCTACACTTTTCTTAGAGCATCT 61.336 42.308 0.00 0.00 40.29 2.90
2261 8080 9.032931 CGTGCTACACTTTTCTTAGAGCATCTC 62.033 44.444 0.00 0.00 40.29 2.75
2270 8089 2.892425 GAGCATCTCCAACGGCCG 60.892 66.667 26.86 26.86 0.00 6.13
2273 8092 3.499737 CATCTCCAACGGCCGCAC 61.500 66.667 28.58 0.00 0.00 5.34
2274 8093 4.015406 ATCTCCAACGGCCGCACA 62.015 61.111 28.58 5.68 0.00 4.57
2275 8094 3.545124 ATCTCCAACGGCCGCACAA 62.545 57.895 28.58 7.99 0.00 3.33
2276 8095 3.283684 CTCCAACGGCCGCACAAA 61.284 61.111 28.58 6.34 0.00 2.83
2277 8096 2.829003 TCCAACGGCCGCACAAAA 60.829 55.556 28.58 2.77 0.00 2.44
2278 8097 2.141122 CTCCAACGGCCGCACAAAAT 62.141 55.000 28.58 0.00 0.00 1.82
2279 8098 1.300542 CCAACGGCCGCACAAAATT 60.301 52.632 28.58 7.15 0.00 1.82
2280 8099 0.878086 CCAACGGCCGCACAAAATTT 60.878 50.000 28.58 6.25 0.00 1.82
2281 8100 0.506506 CAACGGCCGCACAAAATTTC 59.493 50.000 28.58 0.00 0.00 2.17
2282 8101 0.937231 AACGGCCGCACAAAATTTCG 60.937 50.000 28.58 0.00 0.00 3.46
2283 8102 2.715849 CGGCCGCACAAAATTTCGC 61.716 57.895 14.67 0.00 0.00 4.70
2284 8103 2.715849 GGCCGCACAAAATTTCGCG 61.716 57.895 17.73 17.73 46.96 5.87
2285 8104 2.762616 CCGCACAAAATTTCGCGC 59.237 55.556 18.74 0.00 46.09 6.86
2286 8105 2.715849 CCGCACAAAATTTCGCGCC 61.716 57.895 18.74 0.00 46.09 6.53
2287 8106 2.715849 CGCACAAAATTTCGCGCCC 61.716 57.895 14.15 0.00 41.38 6.13
2288 8107 1.663074 GCACAAAATTTCGCGCCCA 60.663 52.632 0.00 0.00 0.00 5.36
2289 8108 1.218230 GCACAAAATTTCGCGCCCAA 61.218 50.000 0.00 0.00 0.00 4.12
2290 8109 1.427435 CACAAAATTTCGCGCCCAAT 58.573 45.000 0.00 0.00 0.00 3.16
2291 8110 2.600731 CACAAAATTTCGCGCCCAATA 58.399 42.857 0.00 0.00 0.00 1.90
2292 8111 2.989840 CACAAAATTTCGCGCCCAATAA 59.010 40.909 0.00 0.00 0.00 1.40
2293 8112 3.430218 CACAAAATTTCGCGCCCAATAAA 59.570 39.130 0.00 0.00 0.00 1.40
2294 8113 4.058817 ACAAAATTTCGCGCCCAATAAAA 58.941 34.783 0.00 0.00 0.00 1.52
2295 8114 4.151512 ACAAAATTTCGCGCCCAATAAAAG 59.848 37.500 0.00 0.00 0.00 2.27
2296 8115 3.586100 AATTTCGCGCCCAATAAAAGT 57.414 38.095 0.00 0.00 0.00 2.66
2297 8116 3.586100 ATTTCGCGCCCAATAAAAGTT 57.414 38.095 0.00 0.00 0.00 2.66
2298 8117 4.705337 ATTTCGCGCCCAATAAAAGTTA 57.295 36.364 0.00 0.00 0.00 2.24
2299 8118 4.705337 TTTCGCGCCCAATAAAAGTTAT 57.295 36.364 0.00 0.00 0.00 1.89
2300 8119 5.814764 TTTCGCGCCCAATAAAAGTTATA 57.185 34.783 0.00 0.00 0.00 0.98
2301 8120 4.799419 TCGCGCCCAATAAAAGTTATAC 57.201 40.909 0.00 0.00 0.00 1.47
2302 8121 3.560896 TCGCGCCCAATAAAAGTTATACC 59.439 43.478 0.00 0.00 0.00 2.73
2303 8122 3.605231 CGCGCCCAATAAAAGTTATACCG 60.605 47.826 0.00 0.00 0.00 4.02
2304 8123 3.850740 GCGCCCAATAAAAGTTATACCGC 60.851 47.826 0.00 0.00 0.00 5.68
2305 8124 3.605231 CGCCCAATAAAAGTTATACCGCG 60.605 47.826 0.00 0.00 0.00 6.46
2306 8125 3.850740 GCCCAATAAAAGTTATACCGCGC 60.851 47.826 0.00 0.00 0.00 6.86
2307 8126 3.304190 CCCAATAAAAGTTATACCGCGCC 60.304 47.826 0.00 0.00 0.00 6.53
2308 8127 3.312973 CCAATAAAAGTTATACCGCGCCA 59.687 43.478 0.00 0.00 0.00 5.69
2309 8128 4.276460 CAATAAAAGTTATACCGCGCCAC 58.724 43.478 0.00 0.00 0.00 5.01
2310 8129 2.103537 AAAAGTTATACCGCGCCACT 57.896 45.000 0.00 0.00 0.00 4.00
2311 8130 2.103537 AAAGTTATACCGCGCCACTT 57.896 45.000 0.00 0.44 0.00 3.16
2312 8131 2.103537 AAGTTATACCGCGCCACTTT 57.896 45.000 0.00 0.00 0.00 2.66
2507 8328 1.727723 GCGAATCGTTTTTGGCGCA 60.728 52.632 10.83 0.00 43.45 6.09
3049 8907 1.124780 TTTCGAGGCCAATATCCCGA 58.875 50.000 5.01 0.00 0.00 5.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 2.891580 TGGTATACGGGAGAGAGCAATC 59.108 50.000 0.00 0.00 0.00 2.67
14 15 2.156098 CTCTGGTATACGGGAGAGAGC 58.844 57.143 15.30 0.00 34.97 4.09
30 31 1.089920 CCGTCCTGCAAATTCCTCTG 58.910 55.000 0.00 0.00 0.00 3.35
63 64 6.719365 AGAGCTTTGCGTATGATTCATTAAC 58.281 36.000 4.14 0.00 0.00 2.01
80 82 3.265791 CTTCTGGATACGCAAGAGCTTT 58.734 45.455 0.00 0.00 43.62 3.51
211 461 3.871006 TGAATTCGGTGAAGAATCGGATG 59.129 43.478 0.04 0.00 39.69 3.51
357 2566 4.813161 TGTTCCAAATTACGTTACGTCCAA 59.187 37.500 15.39 4.39 41.54 3.53
395 2628 2.755103 AGTGCTGATCGACACAGTGATA 59.245 45.455 17.29 0.00 39.30 2.15
451 2764 6.350612 GCTAGTGCCTAGGTAGATCCTTAATG 60.351 46.154 11.31 0.00 45.67 1.90
492 2810 6.106673 GTGTAGTGTAGCACCTGTAATTCAT 58.893 40.000 0.00 0.00 34.49 2.57
707 5168 7.646922 TCGGATATACTCTTTAGAAAAAGTCGC 59.353 37.037 0.00 0.00 42.36 5.19
895 6326 5.892568 ACTCAGAATCTATGTTCGTGTACC 58.107 41.667 0.00 0.00 33.36 3.34
940 6383 2.241685 ACCTAGGATCGACTACTGGTGT 59.758 50.000 17.98 0.00 0.00 4.16
1337 6833 2.263077 CGAGGAAATTGACAGTCTCCG 58.737 52.381 1.31 0.00 0.00 4.63
1339 6835 2.996621 CCACGAGGAAATTGACAGTCTC 59.003 50.000 1.31 0.00 36.89 3.36
1340 6836 2.632996 TCCACGAGGAAATTGACAGTCT 59.367 45.455 0.00 0.00 42.23 3.24
1471 6995 1.798813 GCGTGTTCCAGTAGTTCTTGG 59.201 52.381 0.00 0.00 0.00 3.61
1529 7053 4.240103 AGCTGCTGGTGCGTGACA 62.240 61.111 0.00 0.00 43.34 3.58
1715 7311 2.138179 GGCTATGAGGCCGGTGGTA 61.138 63.158 1.90 0.00 42.82 3.25
1782 7384 4.338012 TGTAGGTAGTTCATCTGGTTCGA 58.662 43.478 0.00 0.00 0.00 3.71
1802 7422 2.955881 GCAGAGGTAACCCGGCTGT 61.956 63.158 0.00 0.00 39.08 4.40
1825 7445 3.753272 GTGCTGCTCTACAAAATTGGAGA 59.247 43.478 7.80 7.80 45.62 3.71
2006 7755 2.194056 CCGGGCAGCTCCATCATT 59.806 61.111 0.00 0.00 36.21 2.57
2039 7788 2.368875 GTCCTTCCAGAAAGAGTCACCA 59.631 50.000 0.00 0.00 37.12 4.17
2072 7821 6.418226 CACAAGACATCTATAAACGGTAGCTC 59.582 42.308 0.00 0.00 0.00 4.09
2198 8015 5.105392 TCAGCAATTGACAACCTTCAACTTT 60.105 36.000 10.34 0.00 38.31 2.66
2248 8067 1.137086 GCCGTTGGAGATGCTCTAAGA 59.863 52.381 0.00 0.00 31.92 2.10
2253 8072 2.892425 CGGCCGTTGGAGATGCTC 60.892 66.667 19.50 0.00 0.00 4.26
2256 8075 3.499737 GTGCGGCCGTTGGAGATG 61.500 66.667 28.70 0.00 0.00 2.90
2257 8076 3.545124 TTGTGCGGCCGTTGGAGAT 62.545 57.895 28.70 0.00 0.00 2.75
2258 8077 3.758973 TTTGTGCGGCCGTTGGAGA 62.759 57.895 28.70 6.06 0.00 3.71
2259 8078 2.141122 ATTTTGTGCGGCCGTTGGAG 62.141 55.000 28.70 0.00 0.00 3.86
2260 8079 1.739338 AATTTTGTGCGGCCGTTGGA 61.739 50.000 28.70 8.23 0.00 3.53
2261 8080 0.878086 AAATTTTGTGCGGCCGTTGG 60.878 50.000 28.70 0.00 0.00 3.77
2262 8081 0.506506 GAAATTTTGTGCGGCCGTTG 59.493 50.000 28.70 0.00 0.00 4.10
2263 8082 0.937231 CGAAATTTTGTGCGGCCGTT 60.937 50.000 28.70 10.38 0.00 4.44
2264 8083 1.371145 CGAAATTTTGTGCGGCCGT 60.371 52.632 28.70 2.08 0.00 5.68
2265 8084 2.715849 GCGAAATTTTGTGCGGCCG 61.716 57.895 24.05 24.05 0.00 6.13
2266 8085 2.715849 CGCGAAATTTTGTGCGGCC 61.716 57.895 19.40 0.00 46.31 6.13
2267 8086 2.762616 CGCGAAATTTTGTGCGGC 59.237 55.556 19.40 0.00 46.31 6.53
2270 8089 1.218230 TTGGGCGCGAAATTTTGTGC 61.218 50.000 28.47 28.47 45.17 4.57
2271 8090 1.427435 ATTGGGCGCGAAATTTTGTG 58.573 45.000 12.10 13.68 0.00 3.33
2272 8091 3.305398 TTATTGGGCGCGAAATTTTGT 57.695 38.095 12.10 0.00 0.00 2.83
2273 8092 4.151512 ACTTTTATTGGGCGCGAAATTTTG 59.848 37.500 12.10 0.59 0.00 2.44
2274 8093 4.311606 ACTTTTATTGGGCGCGAAATTTT 58.688 34.783 12.10 0.00 0.00 1.82
2275 8094 3.920446 ACTTTTATTGGGCGCGAAATTT 58.080 36.364 12.10 0.00 0.00 1.82
2276 8095 3.586100 ACTTTTATTGGGCGCGAAATT 57.414 38.095 12.10 0.00 0.00 1.82
2277 8096 3.586100 AACTTTTATTGGGCGCGAAAT 57.414 38.095 12.10 8.89 0.00 2.17
2278 8097 4.705337 ATAACTTTTATTGGGCGCGAAA 57.295 36.364 12.10 0.00 0.00 3.46
2279 8098 4.035441 GGTATAACTTTTATTGGGCGCGAA 59.965 41.667 12.10 0.00 0.00 4.70
2280 8099 3.560896 GGTATAACTTTTATTGGGCGCGA 59.439 43.478 12.10 0.00 0.00 5.87
2281 8100 3.605231 CGGTATAACTTTTATTGGGCGCG 60.605 47.826 0.00 0.00 0.00 6.86
2282 8101 3.850740 GCGGTATAACTTTTATTGGGCGC 60.851 47.826 0.00 0.00 0.00 6.53
2283 8102 3.605231 CGCGGTATAACTTTTATTGGGCG 60.605 47.826 0.00 0.00 0.00 6.13
2284 8103 3.850740 GCGCGGTATAACTTTTATTGGGC 60.851 47.826 8.83 0.00 0.00 5.36
2285 8104 3.304190 GGCGCGGTATAACTTTTATTGGG 60.304 47.826 8.83 0.00 0.00 4.12
2286 8105 3.312973 TGGCGCGGTATAACTTTTATTGG 59.687 43.478 8.83 0.00 0.00 3.16
2287 8106 4.034742 AGTGGCGCGGTATAACTTTTATTG 59.965 41.667 8.83 0.00 0.00 1.90
2288 8107 4.193865 AGTGGCGCGGTATAACTTTTATT 58.806 39.130 8.83 0.00 0.00 1.40
2289 8108 3.800531 AGTGGCGCGGTATAACTTTTAT 58.199 40.909 8.83 0.00 0.00 1.40
2290 8109 3.249986 AGTGGCGCGGTATAACTTTTA 57.750 42.857 8.83 0.00 0.00 1.52
2291 8110 2.103537 AGTGGCGCGGTATAACTTTT 57.896 45.000 8.83 0.00 0.00 2.27
2292 8111 2.103537 AAGTGGCGCGGTATAACTTT 57.896 45.000 8.83 0.00 0.00 2.66
2293 8112 2.103537 AAAGTGGCGCGGTATAACTT 57.896 45.000 8.83 1.39 32.60 2.66
2294 8113 2.428171 TCTAAAGTGGCGCGGTATAACT 59.572 45.455 8.83 0.00 0.00 2.24
2295 8114 2.793232 CTCTAAAGTGGCGCGGTATAAC 59.207 50.000 8.83 0.00 0.00 1.89
2296 8115 2.800629 GCTCTAAAGTGGCGCGGTATAA 60.801 50.000 8.83 0.00 0.00 0.98
2297 8116 1.269413 GCTCTAAAGTGGCGCGGTATA 60.269 52.381 8.83 0.00 0.00 1.47
2298 8117 0.529992 GCTCTAAAGTGGCGCGGTAT 60.530 55.000 8.83 0.00 0.00 2.73
2299 8118 1.153706 GCTCTAAAGTGGCGCGGTA 60.154 57.895 8.83 0.00 0.00 4.02
2300 8119 2.434359 GCTCTAAAGTGGCGCGGT 60.434 61.111 8.83 0.00 0.00 5.68
2301 8120 1.766143 GATGCTCTAAAGTGGCGCGG 61.766 60.000 8.83 0.00 0.00 6.46
2302 8121 0.807667 AGATGCTCTAAAGTGGCGCG 60.808 55.000 0.00 0.00 0.00 6.86
2303 8122 0.933796 GAGATGCTCTAAAGTGGCGC 59.066 55.000 0.00 0.00 0.00 6.53
2304 8123 1.134699 TGGAGATGCTCTAAAGTGGCG 60.135 52.381 0.00 0.00 0.00 5.69
2305 8124 2.559440 CTGGAGATGCTCTAAAGTGGC 58.441 52.381 0.00 0.00 0.00 5.01
2306 8125 2.559440 GCTGGAGATGCTCTAAAGTGG 58.441 52.381 0.00 0.00 0.00 4.00
2307 8126 2.559440 GGCTGGAGATGCTCTAAAGTG 58.441 52.381 0.00 0.00 0.00 3.16
2308 8127 1.137872 CGGCTGGAGATGCTCTAAAGT 59.862 52.381 0.00 0.00 0.00 2.66
2309 8128 1.863267 CGGCTGGAGATGCTCTAAAG 58.137 55.000 0.00 0.00 0.00 1.85
2310 8129 0.179073 GCGGCTGGAGATGCTCTAAA 60.179 55.000 0.00 0.00 0.00 1.85
2311 8130 1.443407 GCGGCTGGAGATGCTCTAA 59.557 57.895 0.00 0.00 0.00 2.10
2312 8131 2.849964 CGCGGCTGGAGATGCTCTA 61.850 63.158 0.00 0.00 0.00 2.43
2605 8426 2.501723 GTGAGGAATCACTGGAAGGCTA 59.498 50.000 1.19 0.00 39.30 3.93
3002 8860 2.046023 CCTCCCACGATTGCAGCA 60.046 61.111 0.00 0.00 0.00 4.41


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

AutoCloner maintained by Alex Coulton.