Multiple sequence alignment - TraesCS3A01G259300

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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 TraesCS3A01G259300 chr3A 100.000 2432 0 0 1 2432 481658100 481660531 0.000000e+00 4492.0
1 TraesCS3A01G259300 chr3A 97.416 890 18 4 1 887 512315982 512316869 0.000000e+00 1511.0
2 TraesCS3A01G259300 chr3A 80.856 935 99 50 21 887 724568866 724567944 0.000000e+00 662.0
3 TraesCS3A01G259300 chr5B 91.124 1521 77 18 941 2432 49890239 49888748 0.000000e+00 2008.0
4 TraesCS3A01G259300 chr5B 91.176 1530 52 23 943 2432 50062035 50060549 0.000000e+00 2001.0
5 TraesCS3A01G259300 chr5B 92.996 1385 54 8 1027 2374 49887707 49886329 0.000000e+00 1980.0
6 TraesCS3A01G259300 chr5B 91.513 542 27 6 948 1477 50651769 50652303 0.000000e+00 728.0
7 TraesCS3A01G259300 chr5B 87.379 618 17 12 1837 2432 50652429 50653007 0.000000e+00 652.0
8 TraesCS3A01G259300 chr5B 78.588 878 113 48 21 868 675074007 675073175 6.000000e-141 510.0
9 TraesCS3A01G259300 chr5B 91.262 103 4 4 1549 1650 50652303 50652401 4.220000e-28 135.0
10 TraesCS3A01G259300 chr5B 96.721 61 2 0 1658 1718 50652371 50652431 4.280000e-18 102.0
11 TraesCS3A01G259300 chr5B 81.443 97 4 5 2337 2432 49887857 49887774 1.560000e-07 67.6
12 TraesCS3A01G259300 chr5A 91.362 1204 46 12 1203 2374 37927455 37926278 0.000000e+00 1594.0
13 TraesCS3A01G259300 chr5A 88.267 929 50 12 1541 2432 38196541 38195635 0.000000e+00 1057.0
14 TraesCS3A01G259300 chr5A 90.496 484 38 4 997 1479 38197013 38196537 1.230000e-177 632.0
15 TraesCS3A01G259300 chr5A 82.842 746 88 28 170 884 669199194 669199930 1.230000e-177 632.0
16 TraesCS3A01G259300 chr5A 83.432 169 15 8 669 825 471703785 471703952 7.010000e-31 145.0
17 TraesCS3A01G259300 chr5A 100.000 41 0 0 941 981 38197051 38197011 2.590000e-10 76.8
18 TraesCS3A01G259300 chr6B 88.809 831 63 21 72 887 664654704 664655519 0.000000e+00 992.0
19 TraesCS3A01G259300 chr6B 85.507 690 62 19 22 690 661926352 661927024 0.000000e+00 686.0
20 TraesCS3A01G259300 chr5D 90.940 596 13 11 1837 2432 47094701 47094147 0.000000e+00 763.0
21 TraesCS3A01G259300 chr5D 89.507 629 17 9 1837 2432 48467505 48468117 0.000000e+00 750.0
22 TraesCS3A01G259300 chr5D 92.545 389 20 6 952 1334 48457976 48458361 1.270000e-152 549.0
23 TraesCS3A01G259300 chr5D 88.341 446 39 9 250 690 9076256 9076693 7.700000e-145 523.0
24 TraesCS3A01G259300 chr5D 90.428 397 14 7 941 1325 47119435 47119051 3.610000e-138 501.0
25 TraesCS3A01G259300 chr5D 90.030 331 10 9 1332 1650 48467158 48467477 8.100000e-110 407.0
26 TraesCS3A01G259300 chr5D 89.883 257 13 4 1315 1564 47095041 47094791 3.900000e-83 318.0
27 TraesCS3A01G259300 chr5D 94.898 98 2 1 1624 1718 47094796 47094699 1.510000e-32 150.0
28 TraesCS3A01G259300 chr5D 98.361 61 1 0 1658 1718 48467447 48467507 9.190000e-20 108.0
29 TraesCS3A01G259300 chr2B 81.917 918 104 32 21 887 786249781 786248875 0.000000e+00 719.0
30 TraesCS3A01G259300 chr2B 76.966 178 29 9 594 761 4524897 4525072 9.260000e-15 91.6
31 TraesCS3A01G259300 chr6A 85.797 690 65 21 22 691 114278678 114278002 0.000000e+00 701.0
32 TraesCS3A01G259300 chr2A 85.384 691 64 22 22 691 113280305 113280979 0.000000e+00 682.0
33 TraesCS3A01G259300 chr2A 83.622 635 59 22 72 664 738004504 738005135 2.730000e-154 555.0
34 TraesCS3A01G259300 chr7D 84.716 687 66 23 22 690 477648182 477647517 0.000000e+00 651.0
35 TraesCS3A01G259300 chr7B 80.239 921 107 38 22 887 621355736 621356636 7.380000e-175 623.0
36 TraesCS3A01G259300 chr2D 87.583 451 38 11 250 690 575971889 575971447 7.760000e-140 507.0
37 TraesCS3A01G259300 chr1D 82.966 499 33 25 215 664 426159210 426158715 1.050000e-108 403.0
38 TraesCS3A01G259300 chr1B 81.726 197 27 6 594 785 26583282 26583474 3.240000e-34 156.0


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 TraesCS3A01G259300 chr3A 481658100 481660531 2431 False 4492.000000 4492 100.000000 1 2432 1 chr3A.!!$F1 2431
1 TraesCS3A01G259300 chr3A 512315982 512316869 887 False 1511.000000 1511 97.416000 1 887 1 chr3A.!!$F2 886
2 TraesCS3A01G259300 chr3A 724567944 724568866 922 True 662.000000 662 80.856000 21 887 1 chr3A.!!$R1 866
3 TraesCS3A01G259300 chr5B 50060549 50062035 1486 True 2001.000000 2001 91.176000 943 2432 1 chr5B.!!$R1 1489
4 TraesCS3A01G259300 chr5B 49886329 49890239 3910 True 1351.866667 2008 88.521000 941 2432 3 chr5B.!!$R3 1491
5 TraesCS3A01G259300 chr5B 675073175 675074007 832 True 510.000000 510 78.588000 21 868 1 chr5B.!!$R2 847
6 TraesCS3A01G259300 chr5B 50651769 50653007 1238 False 404.250000 728 91.718750 948 2432 4 chr5B.!!$F1 1484
7 TraesCS3A01G259300 chr5A 37926278 37927455 1177 True 1594.000000 1594 91.362000 1203 2374 1 chr5A.!!$R1 1171
8 TraesCS3A01G259300 chr5A 669199194 669199930 736 False 632.000000 632 82.842000 170 884 1 chr5A.!!$F2 714
9 TraesCS3A01G259300 chr5A 38195635 38197051 1416 True 588.600000 1057 92.921000 941 2432 3 chr5A.!!$R2 1491
10 TraesCS3A01G259300 chr6B 664654704 664655519 815 False 992.000000 992 88.809000 72 887 1 chr6B.!!$F2 815
11 TraesCS3A01G259300 chr6B 661926352 661927024 672 False 686.000000 686 85.507000 22 690 1 chr6B.!!$F1 668
12 TraesCS3A01G259300 chr5D 48467158 48468117 959 False 421.666667 750 92.632667 1332 2432 3 chr5D.!!$F3 1100
13 TraesCS3A01G259300 chr5D 47094147 47095041 894 True 410.333333 763 91.907000 1315 2432 3 chr5D.!!$R2 1117
14 TraesCS3A01G259300 chr2B 786248875 786249781 906 True 719.000000 719 81.917000 21 887 1 chr2B.!!$R1 866
15 TraesCS3A01G259300 chr6A 114278002 114278678 676 True 701.000000 701 85.797000 22 691 1 chr6A.!!$R1 669
16 TraesCS3A01G259300 chr2A 113280305 113280979 674 False 682.000000 682 85.384000 22 691 1 chr2A.!!$F1 669
17 TraesCS3A01G259300 chr2A 738004504 738005135 631 False 555.000000 555 83.622000 72 664 1 chr2A.!!$F2 592
18 TraesCS3A01G259300 chr7D 477647517 477648182 665 True 651.000000 651 84.716000 22 690 1 chr7D.!!$R1 668
19 TraesCS3A01G259300 chr7B 621355736 621356636 900 False 623.000000 623 80.239000 22 887 1 chr7B.!!$F1 865

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
933 1102 0.038892 GGTCTGGAGTTCGTGCGTTA 60.039 55.0 0.0 0.0 0.0 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1793 4597 1.27249 TCGGTGACAGAGTAAAGCAGG 59.728 52.381 0.0 0.0 0.0 4.85 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
286 374 6.463995 ACCAGTTACATTTGCTCAAAAAGA 57.536 33.333 0.00 0.00 33.56 2.52
516 646 7.087409 TCTTTAGTGTCATGGCAATTGTATG 57.913 36.000 5.23 11.98 0.00 2.39
695 845 5.393027 CCATGACTATTTTCCTTTTGGGTCG 60.393 44.000 0.00 0.00 40.87 4.79
810 971 2.749621 CTGGCCCAACATAGAAACAGTC 59.250 50.000 0.00 0.00 0.00 3.51
887 1056 0.528684 GCTCTCCTCCCGAACGAATG 60.529 60.000 0.00 0.00 0.00 2.67
888 1057 0.528684 CTCTCCTCCCGAACGAATGC 60.529 60.000 0.00 0.00 0.00 3.56
889 1058 1.521681 CTCCTCCCGAACGAATGCC 60.522 63.158 0.00 0.00 0.00 4.40
890 1059 2.513897 CCTCCCGAACGAATGCCC 60.514 66.667 0.00 0.00 0.00 5.36
891 1060 2.513897 CTCCCGAACGAATGCCCC 60.514 66.667 0.00 0.00 0.00 5.80
892 1061 4.104183 TCCCGAACGAATGCCCCC 62.104 66.667 0.00 0.00 0.00 5.40
893 1062 4.109675 CCCGAACGAATGCCCCCT 62.110 66.667 0.00 0.00 0.00 4.79
894 1063 2.513897 CCGAACGAATGCCCCCTC 60.514 66.667 0.00 0.00 0.00 4.30
895 1064 2.513897 CGAACGAATGCCCCCTCC 60.514 66.667 0.00 0.00 0.00 4.30
896 1065 2.674754 GAACGAATGCCCCCTCCA 59.325 61.111 0.00 0.00 0.00 3.86
897 1066 1.749258 GAACGAATGCCCCCTCCAC 60.749 63.158 0.00 0.00 0.00 4.02
898 1067 2.198304 GAACGAATGCCCCCTCCACT 62.198 60.000 0.00 0.00 0.00 4.00
899 1068 0.912487 AACGAATGCCCCCTCCACTA 60.912 55.000 0.00 0.00 0.00 2.74
900 1069 1.146263 CGAATGCCCCCTCCACTAC 59.854 63.158 0.00 0.00 0.00 2.73
901 1070 1.146263 GAATGCCCCCTCCACTACG 59.854 63.158 0.00 0.00 0.00 3.51
902 1071 1.306654 AATGCCCCCTCCACTACGA 60.307 57.895 0.00 0.00 0.00 3.43
903 1072 0.912487 AATGCCCCCTCCACTACGAA 60.912 55.000 0.00 0.00 0.00 3.85
904 1073 1.623542 ATGCCCCCTCCACTACGAAC 61.624 60.000 0.00 0.00 0.00 3.95
905 1074 2.890371 CCCCCTCCACTACGAACG 59.110 66.667 0.00 0.00 0.00 3.95
906 1075 1.679977 CCCCCTCCACTACGAACGA 60.680 63.158 0.14 0.00 0.00 3.85
907 1076 1.664321 CCCCCTCCACTACGAACGAG 61.664 65.000 0.14 0.00 0.00 4.18
908 1077 0.964358 CCCCTCCACTACGAACGAGT 60.964 60.000 0.14 0.00 0.00 4.18
909 1078 0.450983 CCCTCCACTACGAACGAGTC 59.549 60.000 0.14 0.00 0.00 3.36
921 1090 3.260931 CGAGTCGTTCGGTCTGGA 58.739 61.111 3.82 0.00 45.54 3.86
922 1091 1.134901 CGAGTCGTTCGGTCTGGAG 59.865 63.158 3.82 0.00 45.54 3.86
923 1092 1.575576 CGAGTCGTTCGGTCTGGAGT 61.576 60.000 3.82 0.00 45.54 3.85
924 1093 0.597072 GAGTCGTTCGGTCTGGAGTT 59.403 55.000 0.00 0.00 0.00 3.01
925 1094 0.597072 AGTCGTTCGGTCTGGAGTTC 59.403 55.000 0.00 0.00 0.00 3.01
926 1095 0.728466 GTCGTTCGGTCTGGAGTTCG 60.728 60.000 0.00 0.00 0.00 3.95
927 1096 1.168407 TCGTTCGGTCTGGAGTTCGT 61.168 55.000 0.00 0.00 0.00 3.85
928 1097 1.002250 CGTTCGGTCTGGAGTTCGTG 61.002 60.000 0.00 0.00 0.00 4.35
929 1098 1.006571 TTCGGTCTGGAGTTCGTGC 60.007 57.895 0.00 0.00 0.00 5.34
930 1099 2.742710 TTCGGTCTGGAGTTCGTGCG 62.743 60.000 0.00 0.00 0.00 5.34
931 1100 2.338984 GGTCTGGAGTTCGTGCGT 59.661 61.111 0.00 0.00 0.00 5.24
932 1101 1.300697 GGTCTGGAGTTCGTGCGTT 60.301 57.895 0.00 0.00 0.00 4.84
933 1102 0.038892 GGTCTGGAGTTCGTGCGTTA 60.039 55.000 0.00 0.00 0.00 3.18
934 1103 1.403780 GGTCTGGAGTTCGTGCGTTAT 60.404 52.381 0.00 0.00 0.00 1.89
935 1104 2.334838 GTCTGGAGTTCGTGCGTTATT 58.665 47.619 0.00 0.00 0.00 1.40
936 1105 2.092211 GTCTGGAGTTCGTGCGTTATTG 59.908 50.000 0.00 0.00 0.00 1.90
937 1106 2.029739 TCTGGAGTTCGTGCGTTATTGA 60.030 45.455 0.00 0.00 0.00 2.57
938 1107 2.063266 TGGAGTTCGTGCGTTATTGAC 58.937 47.619 0.00 0.00 0.00 3.18
1094 1264 1.289800 GGTCAAGTCGGCGGAACTTC 61.290 60.000 7.21 0.00 0.00 3.01
1095 1265 0.599204 GTCAAGTCGGCGGAACTTCA 60.599 55.000 7.21 0.00 0.00 3.02
1320 3958 1.797025 CGGAGGTGGTGAAGAAGAAC 58.203 55.000 0.00 0.00 0.00 3.01
1328 3966 0.034896 GTGAAGAAGAACAGGGCGGA 59.965 55.000 0.00 0.00 0.00 5.54
1423 4075 0.767375 ACCAGGTGTTGTCATGCTCT 59.233 50.000 0.00 0.00 0.00 4.09
1488 4146 5.049828 TGTCAGTATCTGATGGCGTTATTG 58.950 41.667 0.00 0.00 42.73 1.90
1616 4300 2.040178 GATTATCCGTGACTGGAGGGT 58.960 52.381 2.95 0.00 42.45 4.34
1762 4566 6.183360 GGCCATGGATTTTAAGTGCTTAATCT 60.183 38.462 18.40 0.00 35.27 2.40
1769 4573 8.523658 GGATTTTAAGTGCTTAATCTGAAAGGT 58.476 33.333 5.37 0.00 35.27 3.50
1802 4606 4.584327 TTCCTGCTTTTTCCTGCTTTAC 57.416 40.909 0.00 0.00 0.00 2.01
1804 4608 3.821033 TCCTGCTTTTTCCTGCTTTACTC 59.179 43.478 0.00 0.00 0.00 2.59
1824 4628 4.248859 CTCTGTCACCGATTCATGTTTCT 58.751 43.478 0.00 0.00 0.00 2.52
1833 4637 9.309516 TCACCGATTCATGTTTCTAATACTTAC 57.690 33.333 0.00 0.00 0.00 2.34
1881 4687 0.953727 TGCATGACAACAGGAACAGC 59.046 50.000 0.00 0.00 0.00 4.40
2024 4862 9.409918 AGTATATACACTTTGCTCTGTTCTCTA 57.590 33.333 15.18 0.00 0.00 2.43
2291 5206 5.854010 TGTTCCAGATGATAGTAGTGACC 57.146 43.478 0.00 0.00 0.00 4.02
2337 5254 8.565896 TTGATAGCAGATGTTATGTCAAAGTT 57.434 30.769 0.00 0.00 0.00 2.66
2338 5255 9.665719 TTGATAGCAGATGTTATGTCAAAGTTA 57.334 29.630 0.00 0.00 0.00 2.24
2339 5256 9.098355 TGATAGCAGATGTTATGTCAAAGTTAC 57.902 33.333 0.00 0.00 0.00 2.50
2374 5291 1.136690 GTGTTTAAAAAGCTGCGCCC 58.863 50.000 4.18 0.00 0.00 6.13
2375 5292 1.036707 TGTTTAAAAAGCTGCGCCCT 58.963 45.000 4.18 0.00 0.00 5.19
2376 5293 1.269517 TGTTTAAAAAGCTGCGCCCTG 60.270 47.619 4.18 0.00 0.00 4.45
2377 5294 1.000717 GTTTAAAAAGCTGCGCCCTGA 60.001 47.619 4.18 0.00 0.00 3.86
2378 5295 1.544724 TTAAAAAGCTGCGCCCTGAT 58.455 45.000 4.18 0.00 0.00 2.90
2379 5296 0.810648 TAAAAAGCTGCGCCCTGATG 59.189 50.000 4.18 0.00 0.00 3.07
2380 5297 1.880819 AAAAAGCTGCGCCCTGATGG 61.881 55.000 4.18 0.00 37.09 3.51
2381 5298 2.769652 AAAAGCTGCGCCCTGATGGA 62.770 55.000 4.18 0.00 35.39 3.41
2382 5299 2.563013 AAAGCTGCGCCCTGATGGAT 62.563 55.000 4.18 0.00 35.39 3.41
2383 5300 3.285215 GCTGCGCCCTGATGGATG 61.285 66.667 4.18 0.00 35.39 3.51
2384 5301 2.507452 CTGCGCCCTGATGGATGA 59.493 61.111 4.18 0.00 35.39 2.92
2385 5302 1.890979 CTGCGCCCTGATGGATGAC 60.891 63.158 4.18 0.00 35.39 3.06
2386 5303 2.190313 GCGCCCTGATGGATGACA 59.810 61.111 0.00 0.00 35.39 3.58
2387 5304 2.182842 GCGCCCTGATGGATGACAC 61.183 63.158 0.00 0.00 35.39 3.67
2388 5305 1.884464 CGCCCTGATGGATGACACG 60.884 63.158 0.00 0.00 35.39 4.49
2389 5306 1.221840 GCCCTGATGGATGACACGT 59.778 57.895 0.00 0.00 35.39 4.49
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
318 409 9.650371 GTTTTTCTTCAAAAATAGATGGCAAAC 57.350 29.630 0.00 0.00 42.22 2.93
822 987 1.035932 TCGACCCTACAGCTGGTAGC 61.036 60.000 19.93 1.13 46.73 3.58
825 990 1.228769 TGTCGACCCTACAGCTGGT 60.229 57.895 19.93 5.81 37.64 4.00
827 992 1.513158 CCTGTCGACCCTACAGCTG 59.487 63.158 13.48 13.48 42.47 4.24
887 1056 2.582978 GTTCGTAGTGGAGGGGGC 59.417 66.667 0.00 0.00 0.00 5.80
888 1057 1.664321 CTCGTTCGTAGTGGAGGGGG 61.664 65.000 0.00 0.00 0.00 5.40
889 1058 0.964358 ACTCGTTCGTAGTGGAGGGG 60.964 60.000 0.00 0.00 0.00 4.79
890 1059 0.450983 GACTCGTTCGTAGTGGAGGG 59.549 60.000 0.00 0.00 0.00 4.30
891 1060 0.096628 CGACTCGTTCGTAGTGGAGG 59.903 60.000 1.68 0.00 43.24 4.30
892 1061 3.582449 CGACTCGTTCGTAGTGGAG 57.418 57.895 1.68 0.00 43.24 3.86
903 1072 1.575576 CTCCAGACCGAACGACTCGT 61.576 60.000 0.00 0.00 46.65 4.18
905 1074 0.597072 AACTCCAGACCGAACGACTC 59.403 55.000 0.00 0.00 0.00 3.36
906 1075 0.597072 GAACTCCAGACCGAACGACT 59.403 55.000 0.00 0.00 0.00 4.18
907 1076 0.728466 CGAACTCCAGACCGAACGAC 60.728 60.000 0.00 0.00 0.00 4.34
908 1077 1.168407 ACGAACTCCAGACCGAACGA 61.168 55.000 0.00 0.00 0.00 3.85
909 1078 1.002250 CACGAACTCCAGACCGAACG 61.002 60.000 0.00 0.00 0.00 3.95
910 1079 1.282930 GCACGAACTCCAGACCGAAC 61.283 60.000 0.00 0.00 0.00 3.95
911 1080 1.006571 GCACGAACTCCAGACCGAA 60.007 57.895 0.00 0.00 0.00 4.30
912 1081 2.649034 GCACGAACTCCAGACCGA 59.351 61.111 0.00 0.00 0.00 4.69
913 1082 2.805353 CGCACGAACTCCAGACCG 60.805 66.667 0.00 0.00 0.00 4.79
914 1083 0.038892 TAACGCACGAACTCCAGACC 60.039 55.000 0.00 0.00 0.00 3.85
915 1084 1.992170 ATAACGCACGAACTCCAGAC 58.008 50.000 0.00 0.00 0.00 3.51
916 1085 2.029739 TCAATAACGCACGAACTCCAGA 60.030 45.455 0.00 0.00 0.00 3.86
917 1086 2.092211 GTCAATAACGCACGAACTCCAG 59.908 50.000 0.00 0.00 0.00 3.86
918 1087 2.063266 GTCAATAACGCACGAACTCCA 58.937 47.619 0.00 0.00 0.00 3.86
919 1088 1.058695 CGTCAATAACGCACGAACTCC 59.941 52.381 0.00 0.00 45.76 3.85
920 1089 2.398903 CGTCAATAACGCACGAACTC 57.601 50.000 0.00 0.00 45.76 3.01
930 1099 1.363885 GCGGGGTGGACGTCAATAAC 61.364 60.000 18.91 9.41 0.00 1.89
931 1100 1.078988 GCGGGGTGGACGTCAATAA 60.079 57.895 18.91 0.00 0.00 1.40
932 1101 1.952102 GAGCGGGGTGGACGTCAATA 61.952 60.000 18.91 0.00 0.00 1.90
933 1102 3.310860 GAGCGGGGTGGACGTCAAT 62.311 63.158 18.91 0.00 0.00 2.57
934 1103 3.998672 GAGCGGGGTGGACGTCAA 61.999 66.667 18.91 2.10 0.00 3.18
1094 1264 0.179062 ATCTCCTTAAGCTGCGCCTG 60.179 55.000 4.18 0.00 0.00 4.85
1095 1265 0.179062 CATCTCCTTAAGCTGCGCCT 60.179 55.000 4.18 0.00 0.00 5.52
1116 3731 2.436824 GTTCCTTCAGCTCCGCCC 60.437 66.667 0.00 0.00 0.00 6.13
1352 3990 2.355986 CGGAGGATGGGTGGTTCGA 61.356 63.158 0.00 0.00 0.00 3.71
1423 4075 5.966853 TTGGTGATGGTATATCAACCTGA 57.033 39.130 8.08 0.00 40.44 3.86
1603 4275 0.173708 GAGCTAACCCTCCAGTCACG 59.826 60.000 0.00 0.00 0.00 4.35
1793 4597 1.272490 TCGGTGACAGAGTAAAGCAGG 59.728 52.381 0.00 0.00 0.00 4.85
1802 4606 4.248859 AGAAACATGAATCGGTGACAGAG 58.751 43.478 0.00 0.00 0.00 3.35
1804 4608 6.668541 ATTAGAAACATGAATCGGTGACAG 57.331 37.500 0.00 0.00 0.00 3.51
1824 4628 9.317936 CATGCAAGAATCACTGAGTAAGTATTA 57.682 33.333 0.00 0.00 36.83 0.98
1833 4637 4.034163 CAGTAGCATGCAAGAATCACTGAG 59.966 45.833 21.98 0.00 35.32 3.35
1881 4687 2.553466 CCTCCTCCTCTATCACTACCCG 60.553 59.091 0.00 0.00 0.00 5.28
2291 5206 8.635877 ATCAAGAAACTAATAAGACTAGTGCG 57.364 34.615 0.00 0.00 29.96 5.34
2374 5291 1.645034 GACCACGTGTCATCCATCAG 58.355 55.000 15.65 0.00 43.85 2.90
2375 5292 3.832704 GACCACGTGTCATCCATCA 57.167 52.632 15.65 0.00 43.85 3.07
2382 5299 7.524863 ATCACTTAGATAAAAGACCACGTGTCA 60.525 37.037 15.65 0.00 39.93 3.58
2383 5300 6.154445 TCACTTAGATAAAAGACCACGTGTC 58.846 40.000 15.65 11.94 44.82 3.67
2384 5301 6.092955 TCACTTAGATAAAAGACCACGTGT 57.907 37.500 15.65 2.26 0.00 4.49
2385 5302 7.456253 CAATCACTTAGATAAAAGACCACGTG 58.544 38.462 9.08 9.08 35.39 4.49
2386 5303 6.092259 GCAATCACTTAGATAAAAGACCACGT 59.908 38.462 0.00 0.00 35.39 4.49
2387 5304 6.313905 AGCAATCACTTAGATAAAAGACCACG 59.686 38.462 0.00 0.00 35.39 4.94
2388 5305 7.617041 AGCAATCACTTAGATAAAAGACCAC 57.383 36.000 0.00 0.00 35.39 4.16
2389 5306 8.635765 AAAGCAATCACTTAGATAAAAGACCA 57.364 30.769 0.00 0.00 35.39 4.02
2397 5314 7.829211 AGGCACTTAAAAGCAATCACTTAGATA 59.171 33.333 1.79 0.00 30.79 1.98
2405 5322 3.495331 TCCAGGCACTTAAAAGCAATCA 58.505 40.909 1.79 0.00 34.60 2.57


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

AutoCloner maintained by Alex Coulton.