Multiple sequence alignment - TraesCS4B01G275400

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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 TraesCS4B01G275400 chr4B 100.000 2465 0 0 1 2465 553862773 553865237 0.000000e+00 4553.0
1 TraesCS4B01G275400 chr4B 95.286 594 16 9 293 880 553863652 553863065 0.000000e+00 931.0
2 TraesCS4B01G275400 chr4A 90.795 1119 52 8 880 1962 23844121 23843018 0.000000e+00 1448.0
3 TraesCS4B01G275400 chr4A 90.062 1127 54 17 880 1962 23614615 23613503 0.000000e+00 1408.0
4 TraesCS4B01G275400 chr4A 98.561 278 4 0 293 570 638671956 638671679 2.200000e-135 492.0
5 TraesCS4B01G275400 chr4A 98.889 270 3 0 611 880 638671687 638671956 1.330000e-132 483.0
6 TraesCS4B01G275400 chr4A 91.722 302 16 3 1 293 23614914 23614613 6.340000e-111 411.0
7 TraesCS4B01G275400 chr4A 95.376 173 7 1 1963 2134 23842921 23842749 8.680000e-70 274.0
8 TraesCS4B01G275400 chr4A 89.773 176 14 2 1963 2134 23613410 23613235 3.190000e-54 222.0
9 TraesCS4B01G275400 chr4A 93.893 131 8 0 163 293 23844249 23844119 5.380000e-47 198.0
10 TraesCS4B01G275400 chr4A 86.806 144 9 6 1 135 23844702 23844560 4.250000e-33 152.0
11 TraesCS4B01G275400 chr4D 91.524 991 39 11 1003 1962 444173942 444174918 0.000000e+00 1323.0
12 TraesCS4B01G275400 chr4D 84.227 317 27 9 2158 2456 444175754 444176065 1.120000e-73 287.0
13 TraesCS4B01G275400 chr4D 97.041 169 4 1 1963 2131 444175016 444175183 1.440000e-72 283.0
14 TraesCS4B01G275400 chr4D 89.431 123 8 2 171 293 444173418 444173535 1.530000e-32 150.0
15 TraesCS4B01G275400 chr4D 94.595 37 2 0 880 916 444173533 444173569 9.520000e-05 58.4
16 TraesCS4B01G275400 chr1B 96.868 479 12 1 991 1469 344375648 344375173 0.000000e+00 798.0
17 TraesCS4B01G275400 chr1B 94.523 493 21 2 990 1482 434335384 434335870 0.000000e+00 756.0
18 TraesCS4B01G275400 chr1A 95.798 476 17 1 994 1469 344189794 344189322 0.000000e+00 765.0
19 TraesCS4B01G275400 chr1A 95.625 480 14 3 994 1472 400955568 400956041 0.000000e+00 763.0
20 TraesCS4B01G275400 chr1A 100.000 48 0 0 563 610 471726955 471727002 3.380000e-14 89.8
21 TraesCS4B01G275400 chr1D 95.625 480 14 3 994 1472 321710608 321710135 0.000000e+00 763.0
22 TraesCS4B01G275400 chr1D 86.792 106 13 1 1767 1872 110581725 110581621 1.550000e-22 117.0
23 TraesCS4B01G275400 chr2B 94.000 500 24 2 990 1489 473299913 473300406 0.000000e+00 752.0
24 TraesCS4B01G275400 chr2B 81.250 128 23 1 1745 1872 454350400 454350526 4.340000e-18 102.0
25 TraesCS4B01G275400 chr6B 95.652 322 11 2 291 610 347118245 347118565 4.700000e-142 514.0
26 TraesCS4B01G275400 chr6B 93.750 320 18 2 293 610 347118787 347118468 1.710000e-131 479.0
27 TraesCS4B01G275400 chr5B 100.000 275 0 0 290 564 310044401 310044127 2.190000e-140 508.0
28 TraesCS4B01G275400 chr5B 99.630 270 1 0 611 880 310044129 310044398 6.120000e-136 494.0
29 TraesCS4B01G275400 chr5B 100.000 48 0 0 563 610 92673675 92673722 3.380000e-14 89.8
30 TraesCS4B01G275400 chr7A 98.913 276 3 0 289 564 14291851 14291576 6.120000e-136 494.0
31 TraesCS4B01G275400 chr7A 98.909 275 3 0 290 564 78662667 78662941 2.200000e-135 492.0
32 TraesCS4B01G275400 chr7A 98.519 270 4 0 611 880 14291578 14291847 6.170000e-131 477.0
33 TraesCS4B01G275400 chr7A 98.519 270 4 0 611 880 78662939 78662670 6.170000e-131 477.0
34 TraesCS4B01G275400 chr7A 98.519 270 4 0 611 880 125707054 125706785 6.170000e-131 477.0
35 TraesCS4B01G275400 chr5A 99.265 272 2 0 293 564 95872375 95872646 2.200000e-135 492.0
36 TraesCS4B01G275400 chr5A 98.897 272 3 0 611 882 95872644 95872373 1.020000e-133 486.0
37 TraesCS4B01G275400 chr5A 100.000 48 0 0 563 610 293506146 293506099 3.380000e-14 89.8
38 TraesCS4B01G275400 chr6A 98.540 274 4 0 291 564 38726654 38726381 3.690000e-133 484.0
39 TraesCS4B01G275400 chr3B 98.535 273 4 0 611 883 474033070 474033342 1.330000e-132 483.0
40 TraesCS4B01G275400 chr3B 100.000 48 0 0 563 610 679723220 679723267 3.380000e-14 89.8
41 TraesCS4B01G275400 chr3B 85.393 89 7 5 527 610 187879737 187879650 1.210000e-13 87.9
42 TraesCS4B01G275400 chr3A 98.529 272 4 0 611 882 584118610 584118881 4.770000e-132 481.0
43 TraesCS4B01G275400 chr3A 86.538 104 13 1 1769 1872 726001872 726001770 2.000000e-21 113.0
44 TraesCS4B01G275400 chr3A 100.000 48 0 0 563 610 742770540 742770493 3.380000e-14 89.8
45 TraesCS4B01G275400 chr5D 86.408 103 13 1 1770 1872 423849760 423849659 7.210000e-21 111.0
46 TraesCS4B01G275400 chr5D 100.000 48 0 0 563 610 399953768 399953721 3.380000e-14 89.8


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 TraesCS4B01G275400 chr4B 553862773 553865237 2464 False 4553.000000 4553 100.0000 1 2465 1 chr4B.!!$F1 2464
1 TraesCS4B01G275400 chr4B 553863065 553863652 587 True 931.000000 931 95.2860 293 880 1 chr4B.!!$R1 587
2 TraesCS4B01G275400 chr4A 23613235 23614914 1679 True 680.333333 1408 90.5190 1 2134 3 chr4A.!!$R2 2133
3 TraesCS4B01G275400 chr4A 23842749 23844702 1953 True 518.000000 1448 91.7175 1 2134 4 chr4A.!!$R3 2133
4 TraesCS4B01G275400 chr4D 444173418 444176065 2647 False 420.280000 1323 91.3636 171 2456 5 chr4D.!!$F1 2285

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
907 1247 0.035458 CACCGTGCTCCTTCTTTCCT 59.965 55.0 0.0 0.0 0.0 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2237 3584 0.812811 CTCCATGACTCCATGCCACG 60.813 60.0 0.0 0.0 46.73 4.94 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
47 54 8.908786 ACATCTAAACAACATGAGTATATGGG 57.091 34.615 0.00 0.00 32.32 4.00
62 69 9.764363 TGAGTATATGGGAAAATATATCATCGC 57.236 33.333 7.45 7.45 29.87 4.58
63 70 8.818141 AGTATATGGGAAAATATATCATCGCG 57.182 34.615 0.00 0.00 29.87 5.87
83 91 2.575532 GCCATCCATTCTCCGAAATCA 58.424 47.619 0.00 0.00 0.00 2.57
84 92 2.951642 GCCATCCATTCTCCGAAATCAA 59.048 45.455 0.00 0.00 0.00 2.57
98 106 3.365868 CGAAATCAAATTCTGCCGTTCCA 60.366 43.478 0.00 0.00 0.00 3.53
101 109 3.574284 TCAAATTCTGCCGTTCCAATG 57.426 42.857 0.00 0.00 0.00 2.82
105 113 0.608035 TTCTGCCGTTCCAATGTCCC 60.608 55.000 0.00 0.00 0.00 4.46
119 128 4.301628 CAATGTCCCTTGCTTGTCTTTTC 58.698 43.478 0.00 0.00 0.00 2.29
244 536 0.179048 GATGCCATGTCACGGATCCA 60.179 55.000 13.41 0.00 0.00 3.41
255 547 4.028490 GGATCCACGGCACCCACA 62.028 66.667 6.95 0.00 0.00 4.17
257 549 1.378514 GATCCACGGCACCCACAAT 60.379 57.895 0.00 0.00 0.00 2.71
265 557 1.535204 GGCACCCACAATTCCACCAG 61.535 60.000 0.00 0.00 0.00 4.00
561 901 0.698818 AGTTCCTCCCCATTGTGACC 59.301 55.000 0.00 0.00 0.00 4.02
562 902 0.404040 GTTCCTCCCCATTGTGACCA 59.596 55.000 0.00 0.00 0.00 4.02
608 948 6.648725 GAGTAACATCACACACTCCAATAC 57.351 41.667 0.00 0.00 32.93 1.89
609 949 6.109156 AGTAACATCACACACTCCAATACA 57.891 37.500 0.00 0.00 0.00 2.29
610 950 6.166279 AGTAACATCACACACTCCAATACAG 58.834 40.000 0.00 0.00 0.00 2.74
611 951 3.942829 ACATCACACACTCCAATACAGG 58.057 45.455 0.00 0.00 0.00 4.00
612 952 3.327757 ACATCACACACTCCAATACAGGT 59.672 43.478 0.00 0.00 0.00 4.00
613 953 3.678056 TCACACACTCCAATACAGGTC 57.322 47.619 0.00 0.00 0.00 3.85
614 954 2.969262 TCACACACTCCAATACAGGTCA 59.031 45.455 0.00 0.00 0.00 4.02
615 955 3.067106 CACACACTCCAATACAGGTCAC 58.933 50.000 0.00 0.00 0.00 3.67
616 956 2.703536 ACACACTCCAATACAGGTCACA 59.296 45.455 0.00 0.00 0.00 3.58
617 957 3.135712 ACACACTCCAATACAGGTCACAA 59.864 43.478 0.00 0.00 0.00 3.33
618 958 4.202461 ACACACTCCAATACAGGTCACAAT 60.202 41.667 0.00 0.00 0.00 2.71
619 959 4.154737 CACACTCCAATACAGGTCACAATG 59.845 45.833 0.00 0.00 0.00 2.82
620 960 3.691118 CACTCCAATACAGGTCACAATGG 59.309 47.826 0.00 0.00 0.00 3.16
621 961 3.282021 CTCCAATACAGGTCACAATGGG 58.718 50.000 0.00 0.00 0.00 4.00
622 962 2.916269 TCCAATACAGGTCACAATGGGA 59.084 45.455 0.00 0.00 0.00 4.37
623 963 3.332187 TCCAATACAGGTCACAATGGGAA 59.668 43.478 0.00 0.00 0.00 3.97
624 964 3.696051 CCAATACAGGTCACAATGGGAAG 59.304 47.826 0.00 0.00 0.00 3.46
625 965 3.652057 ATACAGGTCACAATGGGAAGG 57.348 47.619 0.00 0.00 0.00 3.46
626 966 1.444933 ACAGGTCACAATGGGAAGGA 58.555 50.000 0.00 0.00 0.00 3.36
627 967 1.780309 ACAGGTCACAATGGGAAGGAA 59.220 47.619 0.00 0.00 0.00 3.36
628 968 2.162681 CAGGTCACAATGGGAAGGAAC 58.837 52.381 0.00 0.00 0.00 3.62
646 986 6.038997 AGGAACTTAGGAGTAACATCACAC 57.961 41.667 0.00 0.00 34.21 3.82
647 987 5.542635 AGGAACTTAGGAGTAACATCACACA 59.457 40.000 0.00 0.00 34.21 3.72
648 988 5.638234 GGAACTTAGGAGTAACATCACACAC 59.362 44.000 0.00 0.00 34.21 3.82
649 989 6.420913 AACTTAGGAGTAACATCACACACT 57.579 37.500 0.00 0.00 34.21 3.55
650 990 6.026947 ACTTAGGAGTAACATCACACACTC 57.973 41.667 0.00 0.00 37.32 3.51
880 1220 1.302949 GCCCATTGTGACCAGCCTA 59.697 57.895 0.00 0.00 0.00 3.93
881 1221 0.323360 GCCCATTGTGACCAGCCTAA 60.323 55.000 0.00 0.00 0.00 2.69
907 1247 0.035458 CACCGTGCTCCTTCTTTCCT 59.965 55.000 0.00 0.00 0.00 3.36
908 1248 0.321996 ACCGTGCTCCTTCTTTCCTC 59.678 55.000 0.00 0.00 0.00 3.71
909 1249 0.321671 CCGTGCTCCTTCTTTCCTCA 59.678 55.000 0.00 0.00 0.00 3.86
910 1250 1.270839 CCGTGCTCCTTCTTTCCTCAA 60.271 52.381 0.00 0.00 0.00 3.02
911 1251 1.801178 CGTGCTCCTTCTTTCCTCAAC 59.199 52.381 0.00 0.00 0.00 3.18
912 1252 2.548920 CGTGCTCCTTCTTTCCTCAACT 60.549 50.000 0.00 0.00 0.00 3.16
922 1262 5.060427 TCTTTCCTCAACTCCAATTCCAA 57.940 39.130 0.00 0.00 0.00 3.53
927 1267 3.448660 CCTCAACTCCAATTCCAAATCCC 59.551 47.826 0.00 0.00 0.00 3.85
932 1272 1.434773 TCCAATTCCAAATCCCCCACA 59.565 47.619 0.00 0.00 0.00 4.17
942 1282 4.344865 CCCCCACACACCTTCCCG 62.345 72.222 0.00 0.00 0.00 5.14
946 1286 3.345808 CACACACCTTCCCGTGCG 61.346 66.667 0.00 0.00 37.25 5.34
964 1304 3.414700 CACGCAACTCTCCACCGC 61.415 66.667 0.00 0.00 0.00 5.68
968 1308 2.031012 CAACTCTCCACCGCAGCA 59.969 61.111 0.00 0.00 0.00 4.41
988 1328 1.382629 CCAATCCCCACCCGTCTTT 59.617 57.895 0.00 0.00 0.00 2.52
1371 2003 1.056700 CCATCACCTCCCGGGAGATT 61.057 60.000 45.77 31.06 41.53 2.40
1518 2159 2.866762 CTGGTTATCGCCAAGTAGAAGC 59.133 50.000 0.00 0.00 38.18 3.86
1567 2208 1.210155 GCTTGCCGATGCTTCGTTT 59.790 52.632 19.21 0.00 43.97 3.60
1578 2219 4.610456 CGATGCTTCGTTTGCTGTAAGAAA 60.610 41.667 13.46 0.00 40.53 2.52
1601 2243 8.773033 AAAAGAATTATGAATCTATGGTGCCT 57.227 30.769 0.00 0.00 0.00 4.75
1676 2319 3.685139 TTCTGCTCTTCTGAACCGAAT 57.315 42.857 0.00 0.00 0.00 3.34
1696 2339 2.110213 TGCCACGGGACTGAACAC 59.890 61.111 0.00 0.00 0.00 3.32
1725 2368 9.836076 GTATTGTTAATGTTAGGTTTCAGTTCC 57.164 33.333 0.00 0.00 0.00 3.62
1726 2369 8.706322 ATTGTTAATGTTAGGTTTCAGTTCCT 57.294 30.769 0.00 0.00 37.80 3.36
1783 2452 1.202639 ACCGCTGTGTTCATGTCAAGA 60.203 47.619 0.00 0.00 0.00 3.02
1824 2493 1.741394 GCCATGATTTTGCCTTGCTCC 60.741 52.381 0.00 0.00 0.00 4.70
1899 2589 6.570378 GCAGCACCTTGTTGACACTATTAAAT 60.570 38.462 0.00 0.00 29.49 1.40
1901 2591 7.867403 CAGCACCTTGTTGACACTATTAAATTT 59.133 33.333 0.00 0.00 29.49 1.82
1928 2618 7.763528 TCAAGTTTGACAATTGCTGTAATTTGT 59.236 29.630 5.05 4.03 38.84 2.83
1929 2619 9.029243 CAAGTTTGACAATTGCTGTAATTTGTA 57.971 29.630 5.05 0.00 38.84 2.41
1930 2620 9.762933 AAGTTTGACAATTGCTGTAATTTGTAT 57.237 25.926 5.05 0.00 38.84 2.29
1931 2621 9.762933 AGTTTGACAATTGCTGTAATTTGTATT 57.237 25.926 5.05 0.00 38.84 1.89
1953 2643 5.541953 TTGCAGCATCAGTATCATCTAGT 57.458 39.130 0.00 0.00 0.00 2.57
1997 2784 3.938963 CTGTAGTTGTTGACTTGGTGTGT 59.061 43.478 0.00 0.00 39.86 3.72
2095 2885 2.154854 TCCGCACTGAACTGAAGAAG 57.845 50.000 0.00 0.00 0.00 2.85
2131 2921 6.469595 GTGACTTGAGACGACAGTATTATGTC 59.530 42.308 0.00 0.00 45.01 3.06
2195 3529 7.759489 AAGTGGAATTTATAACACTGAAGCA 57.241 32.000 7.10 0.00 42.85 3.91
2202 3536 9.129209 GAATTTATAACACTGAAGCAAAGGAAC 57.871 33.333 0.00 0.00 0.00 3.62
2212 3546 2.034124 AGCAAAGGAACATGCAAGTGT 58.966 42.857 0.00 0.00 44.14 3.55
2251 3598 2.358615 GCACGTGGCATGGAGTCA 60.359 61.111 18.88 0.00 43.97 3.41
2275 3623 4.546195 TGGAGAGGGGAGAGTATATAGCAT 59.454 45.833 0.00 0.00 0.00 3.79
2281 3629 7.400627 AGAGGGGAGAGTATATAGCATAAAACC 59.599 40.741 0.00 0.00 0.00 3.27
2286 3634 9.593134 GGAGAGTATATAGCATAAAACCATCAG 57.407 37.037 0.00 0.00 0.00 2.90
2293 3641 2.286184 GCATAAAACCATCAGTACCGCG 60.286 50.000 0.00 0.00 0.00 6.46
2303 3651 2.265424 GTACCGCGGCAAGGGTTA 59.735 61.111 28.58 4.93 37.75 2.85
2395 3745 7.610865 ACAATGATGACCGGTTGATTAAATTT 58.389 30.769 9.42 0.00 0.00 1.82
2424 3774 0.402504 TTACGAATGTTGGGGCCTGT 59.597 50.000 0.84 0.00 0.00 4.00
2426 3776 1.178534 ACGAATGTTGGGGCCTGTTG 61.179 55.000 0.84 0.00 0.00 3.33
2428 3778 0.541764 GAATGTTGGGGCCTGTTGGA 60.542 55.000 0.84 0.00 34.57 3.53
2449 3799 5.803020 GACAGGTCCATGTTATCTGAAAC 57.197 43.478 11.45 1.51 32.25 2.78
2451 3801 5.630121 ACAGGTCCATGTTATCTGAAACAA 58.370 37.500 11.45 0.00 42.33 2.83
2453 3803 6.721208 ACAGGTCCATGTTATCTGAAACAATT 59.279 34.615 11.45 0.00 42.33 2.32
2455 3805 8.739039 CAGGTCCATGTTATCTGAAACAATTAA 58.261 33.333 0.28 0.00 42.33 1.40
2456 3806 9.308000 AGGTCCATGTTATCTGAAACAATTAAA 57.692 29.630 8.65 0.00 42.33 1.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
47 54 4.332543 TGGATGGCGCGATGATATATTTTC 59.667 41.667 12.10 0.00 0.00 2.29
61 68 1.095228 TTTCGGAGAATGGATGGCGC 61.095 55.000 0.00 0.00 45.90 6.53
62 69 1.532868 GATTTCGGAGAATGGATGGCG 59.467 52.381 0.00 0.00 45.90 5.69
63 70 2.575532 TGATTTCGGAGAATGGATGGC 58.424 47.619 0.00 0.00 45.90 4.40
83 91 2.231235 GGACATTGGAACGGCAGAATTT 59.769 45.455 0.00 0.00 0.00 1.82
84 92 1.818674 GGACATTGGAACGGCAGAATT 59.181 47.619 0.00 0.00 0.00 2.17
98 106 3.321968 GGAAAAGACAAGCAAGGGACATT 59.678 43.478 0.00 0.00 0.00 2.71
101 109 2.306847 TGGAAAAGACAAGCAAGGGAC 58.693 47.619 0.00 0.00 0.00 4.46
105 113 6.479095 TTTGTTTTGGAAAAGACAAGCAAG 57.521 33.333 0.00 0.00 31.44 4.01
244 536 1.901464 GTGGAATTGTGGGTGCCGT 60.901 57.895 0.00 0.00 0.00 5.68
255 547 0.957395 CAGCGCTGACTGGTGGAATT 60.957 55.000 33.66 0.00 33.85 2.17
257 549 2.031012 CAGCGCTGACTGGTGGAA 59.969 61.111 33.66 0.00 33.85 3.53
561 901 1.352352 AGTTCCTCCCCATTGTGACTG 59.648 52.381 0.00 0.00 0.00 3.51
562 902 1.747444 AGTTCCTCCCCATTGTGACT 58.253 50.000 0.00 0.00 0.00 3.41
603 943 3.696051 CCTTCCCATTGTGACCTGTATTG 59.304 47.826 0.00 0.00 0.00 1.90
604 944 3.591527 TCCTTCCCATTGTGACCTGTATT 59.408 43.478 0.00 0.00 0.00 1.89
605 945 3.189606 TCCTTCCCATTGTGACCTGTAT 58.810 45.455 0.00 0.00 0.00 2.29
606 946 2.626785 TCCTTCCCATTGTGACCTGTA 58.373 47.619 0.00 0.00 0.00 2.74
607 947 1.444933 TCCTTCCCATTGTGACCTGT 58.555 50.000 0.00 0.00 0.00 4.00
608 948 2.162681 GTTCCTTCCCATTGTGACCTG 58.837 52.381 0.00 0.00 0.00 4.00
609 949 2.065799 AGTTCCTTCCCATTGTGACCT 58.934 47.619 0.00 0.00 0.00 3.85
610 950 2.586648 AGTTCCTTCCCATTGTGACC 57.413 50.000 0.00 0.00 0.00 4.02
611 951 4.010349 CCTAAGTTCCTTCCCATTGTGAC 58.990 47.826 0.00 0.00 0.00 3.67
612 952 3.913799 TCCTAAGTTCCTTCCCATTGTGA 59.086 43.478 0.00 0.00 0.00 3.58
613 953 4.263506 ACTCCTAAGTTCCTTCCCATTGTG 60.264 45.833 0.00 0.00 28.74 3.33
614 954 3.916989 ACTCCTAAGTTCCTTCCCATTGT 59.083 43.478 0.00 0.00 28.74 2.71
615 955 4.576330 ACTCCTAAGTTCCTTCCCATTG 57.424 45.455 0.00 0.00 28.74 2.82
616 956 5.550403 TGTTACTCCTAAGTTCCTTCCCATT 59.450 40.000 0.00 0.00 36.92 3.16
617 957 5.098663 TGTTACTCCTAAGTTCCTTCCCAT 58.901 41.667 0.00 0.00 36.92 4.00
618 958 4.495565 TGTTACTCCTAAGTTCCTTCCCA 58.504 43.478 0.00 0.00 36.92 4.37
619 959 5.189145 TGATGTTACTCCTAAGTTCCTTCCC 59.811 44.000 0.00 0.00 36.92 3.97
620 960 6.107343 GTGATGTTACTCCTAAGTTCCTTCC 58.893 44.000 0.00 0.00 36.92 3.46
621 961 6.590677 GTGTGATGTTACTCCTAAGTTCCTTC 59.409 42.308 0.00 0.00 36.92 3.46
622 962 6.042781 TGTGTGATGTTACTCCTAAGTTCCTT 59.957 38.462 0.00 0.00 36.92 3.36
623 963 5.542635 TGTGTGATGTTACTCCTAAGTTCCT 59.457 40.000 0.00 0.00 36.92 3.36
624 964 5.638234 GTGTGTGATGTTACTCCTAAGTTCC 59.362 44.000 0.00 0.00 36.92 3.62
625 965 6.456501 AGTGTGTGATGTTACTCCTAAGTTC 58.543 40.000 0.00 0.00 36.92 3.01
626 966 6.420913 AGTGTGTGATGTTACTCCTAAGTT 57.579 37.500 0.00 0.00 36.92 2.66
627 967 6.026947 GAGTGTGTGATGTTACTCCTAAGT 57.973 41.667 0.00 0.00 39.66 2.24
633 973 6.163476 TGTATTGGAGTGTGTGATGTTACTC 58.837 40.000 0.00 0.00 38.98 2.59
634 974 6.109156 TGTATTGGAGTGTGTGATGTTACT 57.891 37.500 0.00 0.00 0.00 2.24
635 975 6.426937 AGTTGTATTGGAGTGTGTGATGTTAC 59.573 38.462 0.00 0.00 0.00 2.50
636 976 6.530120 AGTTGTATTGGAGTGTGTGATGTTA 58.470 36.000 0.00 0.00 0.00 2.41
637 977 5.376625 AGTTGTATTGGAGTGTGTGATGTT 58.623 37.500 0.00 0.00 0.00 2.71
638 978 4.973168 AGTTGTATTGGAGTGTGTGATGT 58.027 39.130 0.00 0.00 0.00 3.06
639 979 5.947228 AAGTTGTATTGGAGTGTGTGATG 57.053 39.130 0.00 0.00 0.00 3.07
640 980 5.278463 GCAAAGTTGTATTGGAGTGTGTGAT 60.278 40.000 0.00 0.00 0.00 3.06
641 981 4.036262 GCAAAGTTGTATTGGAGTGTGTGA 59.964 41.667 0.00 0.00 0.00 3.58
642 982 4.036734 AGCAAAGTTGTATTGGAGTGTGTG 59.963 41.667 0.00 0.00 0.00 3.82
643 983 4.207165 AGCAAAGTTGTATTGGAGTGTGT 58.793 39.130 0.00 0.00 0.00 3.72
644 984 4.836125 AGCAAAGTTGTATTGGAGTGTG 57.164 40.909 0.00 0.00 0.00 3.82
645 985 6.490040 ACATAAGCAAAGTTGTATTGGAGTGT 59.510 34.615 0.00 0.00 0.00 3.55
646 986 6.803320 CACATAAGCAAAGTTGTATTGGAGTG 59.197 38.462 0.00 0.00 0.00 3.51
647 987 6.490040 ACACATAAGCAAAGTTGTATTGGAGT 59.510 34.615 0.00 0.00 0.00 3.85
648 988 6.913170 ACACATAAGCAAAGTTGTATTGGAG 58.087 36.000 0.00 0.00 0.00 3.86
649 989 6.488344 TGACACATAAGCAAAGTTGTATTGGA 59.512 34.615 0.00 0.00 0.00 3.53
650 990 6.582295 GTGACACATAAGCAAAGTTGTATTGG 59.418 38.462 0.00 0.00 0.00 3.16
907 1247 3.440127 GGGGATTTGGAATTGGAGTTGA 58.560 45.455 0.00 0.00 0.00 3.18
908 1248 2.501316 GGGGGATTTGGAATTGGAGTTG 59.499 50.000 0.00 0.00 0.00 3.16
909 1249 2.113414 TGGGGGATTTGGAATTGGAGTT 59.887 45.455 0.00 0.00 0.00 3.01
910 1250 1.721691 TGGGGGATTTGGAATTGGAGT 59.278 47.619 0.00 0.00 0.00 3.85
911 1251 2.110578 GTGGGGGATTTGGAATTGGAG 58.889 52.381 0.00 0.00 0.00 3.86
912 1252 1.434773 TGTGGGGGATTTGGAATTGGA 59.565 47.619 0.00 0.00 0.00 3.53
922 1262 1.774300 GGAAGGTGTGTGGGGGATT 59.226 57.895 0.00 0.00 0.00 3.01
927 1267 2.281484 CACGGGAAGGTGTGTGGG 60.281 66.667 0.00 0.00 33.24 4.61
946 1286 3.414700 CGGTGGAGAGTTGCGTGC 61.415 66.667 0.00 0.00 0.00 5.34
950 1290 3.426568 GCTGCGGTGGAGAGTTGC 61.427 66.667 0.00 0.00 0.00 4.17
951 1291 2.031012 TGCTGCGGTGGAGAGTTG 59.969 61.111 0.00 0.00 0.00 3.16
964 1304 2.362889 GGTGGGGATTGGGTGCTG 60.363 66.667 0.00 0.00 0.00 4.41
968 1308 3.335729 GACGGGTGGGGATTGGGT 61.336 66.667 0.00 0.00 0.00 4.51
983 1323 1.153549 ATCGCTGCTCCGGAAAGAC 60.154 57.895 16.24 7.73 0.00 3.01
1323 1955 1.153706 GTTGTAGCGGGCGAGCTTA 60.154 57.895 11.20 0.00 46.80 3.09
1518 2159 0.463295 CCCATCCAGCACTAGCACTG 60.463 60.000 5.76 5.76 45.49 3.66
1578 2219 7.753630 AGAGGCACCATAGATTCATAATTCTT 58.246 34.615 0.00 0.00 0.00 2.52
1601 2243 7.571244 CGTTACTAAATCTCAGCTTGCAAAAGA 60.571 37.037 0.00 1.84 0.00 2.52
1676 2319 1.525077 GTTCAGTCCCGTGGCACAA 60.525 57.895 19.09 0.00 44.16 3.33
1725 2368 5.353678 TGCAACCAATCCAAAAAGTTTCAAG 59.646 36.000 0.00 0.00 0.00 3.02
1726 2369 5.248640 TGCAACCAATCCAAAAAGTTTCAA 58.751 33.333 0.00 0.00 0.00 2.69
1735 2378 4.686191 AAACTCATGCAACCAATCCAAA 57.314 36.364 0.00 0.00 0.00 3.28
1824 2493 6.861065 TCTAGAGTTACAAACCAAAAGCAG 57.139 37.500 0.00 0.00 0.00 4.24
1899 2589 8.715191 ATTACAGCAATTGTCAAACTTGAAAA 57.285 26.923 7.40 0.00 41.29 2.29
1901 2591 8.602328 CAAATTACAGCAATTGTCAAACTTGAA 58.398 29.630 7.40 0.00 41.29 2.69
1928 2618 7.674120 ACTAGATGATACTGATGCTGCAAATA 58.326 34.615 6.36 0.00 0.00 1.40
1929 2619 6.531923 ACTAGATGATACTGATGCTGCAAAT 58.468 36.000 6.36 0.00 0.00 2.32
1930 2620 5.922053 ACTAGATGATACTGATGCTGCAAA 58.078 37.500 6.36 0.00 0.00 3.68
1931 2621 5.541953 ACTAGATGATACTGATGCTGCAA 57.458 39.130 6.36 0.00 0.00 4.08
1932 2622 5.772169 ACTACTAGATGATACTGATGCTGCA 59.228 40.000 4.13 4.13 0.00 4.41
1933 2623 6.266168 ACTACTAGATGATACTGATGCTGC 57.734 41.667 0.00 0.00 0.00 5.25
1953 2643 4.469945 AGGCAGCAGACTATTAACCAACTA 59.530 41.667 0.00 0.00 0.00 2.24
1965 2752 1.051812 ACAACTACAGGCAGCAGACT 58.948 50.000 0.00 0.00 0.00 3.24
2095 2885 4.026475 CGTCTCAAGTCACAAAGTTCTGAC 60.026 45.833 5.78 5.78 37.63 3.51
2131 2921 5.179742 TGCAAAAGCAATAAGGCAATTTCTG 59.820 36.000 0.00 0.00 35.83 3.02
2141 3277 6.946165 TCATGTTTGTTGCAAAAGCAATAAG 58.054 32.000 0.00 2.65 33.66 1.73
2193 3527 2.514205 ACACTTGCATGTTCCTTTGC 57.486 45.000 1.83 0.00 39.33 3.68
2194 3528 5.799681 AAAAACACTTGCATGTTCCTTTG 57.200 34.783 6.17 0.00 42.01 2.77
2237 3584 0.812811 CTCCATGACTCCATGCCACG 60.813 60.000 0.00 0.00 46.73 4.94
2247 3594 1.014804 ACTCTCCCCTCTCCATGACT 58.985 55.000 0.00 0.00 0.00 3.41
2249 3596 5.340444 GCTATATACTCTCCCCTCTCCATGA 60.340 48.000 0.00 0.00 0.00 3.07
2250 3597 4.892934 GCTATATACTCTCCCCTCTCCATG 59.107 50.000 0.00 0.00 0.00 3.66
2251 3598 4.546195 TGCTATATACTCTCCCCTCTCCAT 59.454 45.833 0.00 0.00 0.00 3.41
2253 3600 4.594675 TGCTATATACTCTCCCCTCTCC 57.405 50.000 0.00 0.00 0.00 3.71
2254 3601 8.471609 GTTTTATGCTATATACTCTCCCCTCTC 58.528 40.741 0.00 0.00 0.00 3.20
2255 3602 7.400627 GGTTTTATGCTATATACTCTCCCCTCT 59.599 40.741 0.00 0.00 0.00 3.69
2275 3623 2.008045 GCCGCGGTACTGATGGTTTTA 61.008 52.381 28.70 0.00 0.00 1.52
2281 3629 2.173669 CCTTGCCGCGGTACTGATG 61.174 63.158 28.70 9.47 0.00 3.07
2286 3634 0.954938 TTTAACCCTTGCCGCGGTAC 60.955 55.000 28.70 11.89 0.00 3.34
2289 3637 1.660917 TTTTTAACCCTTGCCGCGG 59.339 52.632 24.05 24.05 0.00 6.46
2314 3662 9.705290 AGCTTTCGGTGAATTTTAAAAACATAT 57.295 25.926 4.44 0.00 0.00 1.78
2316 3664 8.974408 GTAGCTTTCGGTGAATTTTAAAAACAT 58.026 29.630 4.44 0.00 0.00 2.71
2317 3665 7.435784 GGTAGCTTTCGGTGAATTTTAAAAACA 59.564 33.333 4.44 5.98 0.00 2.83
2324 3673 6.827586 TTATGGTAGCTTTCGGTGAATTTT 57.172 33.333 0.00 0.00 0.00 1.82
2327 3676 7.257722 CAAATTTATGGTAGCTTTCGGTGAAT 58.742 34.615 0.00 0.00 0.00 2.57
2374 3723 8.798402 AGTTTAAATTTAATCAACCGGTCATCA 58.202 29.630 8.04 0.00 0.00 3.07
2395 3745 6.505272 CCCCAACATTCGTAAAAACAGTTTA 58.495 36.000 0.00 0.00 0.00 2.01
2408 3758 1.586028 CAACAGGCCCCAACATTCG 59.414 57.895 0.00 0.00 0.00 3.34
2411 3761 1.228862 GTCCAACAGGCCCCAACAT 60.229 57.895 0.00 0.00 0.00 2.71
2426 3776 5.803145 TGTTTCAGATAACATGGACCTGTCC 60.803 44.000 9.44 9.44 40.24 4.02
2428 3778 5.241403 TGTTTCAGATAACATGGACCTGT 57.759 39.130 0.00 0.00 33.31 4.00


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

AutoCloner maintained by Alex Coulton.