Multiple sequence alignment - TraesCS6B01G279800

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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 TraesCS6B01G279800 chr6B 100.000 2450 0 0 1 2450 505907561 505910010 0.000000e+00 4525.0
1 TraesCS6B01G279800 chr6B 87.674 1006 75 22 920 1899 494093897 494092915 0.000000e+00 1125.0
2 TraesCS6B01G279800 chr6B 84.774 243 15 2 1932 2152 494092810 494092568 8.820000e-55 224.0
3 TraesCS6B01G279800 chr6B 95.652 92 4 0 798 889 607208223 607208132 5.460000e-32 148.0
4 TraesCS6B01G279800 chr6A 94.385 1033 34 8 899 1918 455822300 455821279 0.000000e+00 1565.0
5 TraesCS6B01G279800 chr6A 85.897 1014 76 27 920 1899 466088295 466089275 0.000000e+00 1018.0
6 TraesCS6B01G279800 chr6A 89.964 548 29 10 1900 2438 455821258 455820728 0.000000e+00 684.0
7 TraesCS6B01G279800 chr6A 94.690 113 6 0 2040 2152 466089525 466089637 2.500000e-40 176.0
8 TraesCS6B01G279800 chr2B 92.138 814 48 6 9 806 678091034 678090221 0.000000e+00 1134.0
9 TraesCS6B01G279800 chr2B 85.662 823 89 21 1 805 640045507 640046318 0.000000e+00 839.0
10 TraesCS6B01G279800 chr2B 83.926 815 100 23 7 806 530250382 530249584 0.000000e+00 750.0
11 TraesCS6B01G279800 chr2B 92.308 182 8 3 1185 1365 212347279 212347103 1.120000e-63 254.0
12 TraesCS6B01G279800 chr2B 94.681 94 5 0 802 895 10083551 10083458 1.960000e-31 147.0
13 TraesCS6B01G279800 chr2B 89.815 108 9 2 799 905 55859801 55859695 1.180000e-28 137.0
14 TraesCS6B01G279800 chr6D 86.753 1004 76 24 920 1899 327343526 327344496 0.000000e+00 1064.0
15 TraesCS6B01G279800 chr6D 89.097 642 48 10 891 1526 318260977 318260352 0.000000e+00 778.0
16 TraesCS6B01G279800 chr6D 84.507 213 12 1 1961 2152 327347822 327348034 8.940000e-45 191.0
17 TraesCS6B01G279800 chr2D 88.943 814 47 17 1 806 474733336 474734114 0.000000e+00 965.0
18 TraesCS6B01G279800 chr2D 86.732 814 65 23 1 806 645769792 645769014 0.000000e+00 865.0
19 TraesCS6B01G279800 chr2D 84.342 281 26 9 535 806 151454051 151453780 2.420000e-65 259.0
20 TraesCS6B01G279800 chr7D 90.040 743 59 10 68 806 84183009 84182278 0.000000e+00 948.0
21 TraesCS6B01G279800 chr7D 91.176 102 6 3 789 889 181911902 181912001 4.250000e-28 135.0
22 TraesCS6B01G279800 chr3B 86.369 807 78 23 3 806 603611031 603610254 0.000000e+00 852.0
23 TraesCS6B01G279800 chr3B 78.171 678 111 30 147 806 526995244 526994586 4.910000e-107 398.0
24 TraesCS6B01G279800 chr3B 92.857 98 6 1 800 897 807080267 807080171 9.130000e-30 141.0
25 TraesCS6B01G279800 chr1B 84.831 712 77 22 1 702 487403348 487404038 0.000000e+00 688.0
26 TraesCS6B01G279800 chr1B 94.304 158 9 0 1208 1365 317589479 317589636 2.430000e-60 243.0
27 TraesCS6B01G279800 chr7B 87.730 489 48 8 1 480 122430695 122430210 5.920000e-156 560.0
28 TraesCS6B01G279800 chr7B 93.897 213 10 1 1153 1365 427834521 427834312 3.930000e-83 318.0
29 TraesCS6B01G279800 chr7B 93.750 160 10 0 1206 1365 621800464 621800305 8.750000e-60 241.0
30 TraesCS6B01G279800 chr5B 85.026 581 51 17 13 583 57445401 57444847 2.130000e-155 558.0
31 TraesCS6B01G279800 chr5D 79.167 672 97 29 145 806 217425553 217424915 2.250000e-115 425.0
32 TraesCS6B01G279800 chr5D 81.416 113 18 3 39 150 362602167 362602277 3.360000e-14 89.8
33 TraesCS6B01G279800 chr1D 78.134 343 54 17 464 797 367650290 367649960 5.340000e-47 198.0
34 TraesCS6B01G279800 chr4A 79.661 236 34 12 978 1202 246255261 246255029 9.070000e-35 158.0
35 TraesCS6B01G279800 chrUn 95.652 92 3 1 799 889 27127736 27127827 1.960000e-31 147.0
36 TraesCS6B01G279800 chrUn 93.617 94 6 0 805 898 135090802 135090709 9.130000e-30 141.0
37 TraesCS6B01G279800 chrUn 93.617 94 6 0 805 898 152687658 152687565 9.130000e-30 141.0
38 TraesCS6B01G279800 chr5A 89.091 110 7 5 795 901 471292986 471292879 5.500000e-27 132.0


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 TraesCS6B01G279800 chr6B 505907561 505910010 2449 False 4525.0 4525 100.0000 1 2450 1 chr6B.!!$F1 2449
1 TraesCS6B01G279800 chr6B 494092568 494093897 1329 True 674.5 1125 86.2240 920 2152 2 chr6B.!!$R2 1232
2 TraesCS6B01G279800 chr6A 455820728 455822300 1572 True 1124.5 1565 92.1745 899 2438 2 chr6A.!!$R1 1539
3 TraesCS6B01G279800 chr6A 466088295 466089637 1342 False 597.0 1018 90.2935 920 2152 2 chr6A.!!$F1 1232
4 TraesCS6B01G279800 chr2B 678090221 678091034 813 True 1134.0 1134 92.1380 9 806 1 chr2B.!!$R5 797
5 TraesCS6B01G279800 chr2B 640045507 640046318 811 False 839.0 839 85.6620 1 805 1 chr2B.!!$F1 804
6 TraesCS6B01G279800 chr2B 530249584 530250382 798 True 750.0 750 83.9260 7 806 1 chr2B.!!$R4 799
7 TraesCS6B01G279800 chr6D 318260352 318260977 625 True 778.0 778 89.0970 891 1526 1 chr6D.!!$R1 635
8 TraesCS6B01G279800 chr6D 327343526 327348034 4508 False 627.5 1064 85.6300 920 2152 2 chr6D.!!$F1 1232
9 TraesCS6B01G279800 chr2D 474733336 474734114 778 False 965.0 965 88.9430 1 806 1 chr2D.!!$F1 805
10 TraesCS6B01G279800 chr2D 645769014 645769792 778 True 865.0 865 86.7320 1 806 1 chr2D.!!$R2 805
11 TraesCS6B01G279800 chr7D 84182278 84183009 731 True 948.0 948 90.0400 68 806 1 chr7D.!!$R1 738
12 TraesCS6B01G279800 chr3B 603610254 603611031 777 True 852.0 852 86.3690 3 806 1 chr3B.!!$R2 803
13 TraesCS6B01G279800 chr3B 526994586 526995244 658 True 398.0 398 78.1710 147 806 1 chr3B.!!$R1 659
14 TraesCS6B01G279800 chr1B 487403348 487404038 690 False 688.0 688 84.8310 1 702 1 chr1B.!!$F2 701
15 TraesCS6B01G279800 chr5B 57444847 57445401 554 True 558.0 558 85.0260 13 583 1 chr5B.!!$R1 570
16 TraesCS6B01G279800 chr5D 217424915 217425553 638 True 425.0 425 79.1670 145 806 1 chr5D.!!$R1 661

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
185 230 0.61782 ACCACTTCTCCCGCTATGGT 60.618 55.0 0.0 0.0 35.6 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1711 1868 2.270352 TCAAAGAGACCAAATGCGGT 57.73 45.0 0.0 0.0 43.91 5.68 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
174 219 1.301244 CAGCACGAGCACCACTTCT 60.301 57.895 7.77 0.00 45.49 2.85
185 230 0.617820 ACCACTTCTCCCGCTATGGT 60.618 55.000 0.00 0.00 35.60 3.55
419 486 2.257371 CTCCGCACCTTTCGACGA 59.743 61.111 0.00 0.00 0.00 4.20
603 693 2.285827 AACAGATGTACTCTCGCAGC 57.714 50.000 0.00 0.00 29.16 5.25
677 782 2.124983 CAGGTGTGCGGGAGATGG 60.125 66.667 0.00 0.00 0.00 3.51
678 783 4.101448 AGGTGTGCGGGAGATGGC 62.101 66.667 0.00 0.00 0.00 4.40
699 807 3.032339 CCGAAAACCGCCCGAAAA 58.968 55.556 0.00 0.00 36.84 2.29
702 810 1.370778 GAAAACCGCCCGAAAACCG 60.371 57.895 0.00 0.00 38.18 4.44
806 932 1.136992 CGCACGCGCACTAATATGTAC 60.137 52.381 5.73 0.00 38.40 2.90
807 933 2.124903 GCACGCGCACTAATATGTACT 58.875 47.619 5.73 0.00 38.36 2.73
808 934 2.153247 GCACGCGCACTAATATGTACTC 59.847 50.000 5.73 0.00 38.36 2.59
809 935 2.724690 CACGCGCACTAATATGTACTCC 59.275 50.000 5.73 0.00 0.00 3.85
810 936 2.359848 ACGCGCACTAATATGTACTCCA 59.640 45.455 5.73 0.00 0.00 3.86
811 937 3.005472 ACGCGCACTAATATGTACTCCAT 59.995 43.478 5.73 0.00 37.58 3.41
812 938 3.608506 CGCGCACTAATATGTACTCCATC 59.391 47.826 8.75 0.00 34.86 3.51
813 939 3.927142 GCGCACTAATATGTACTCCATCC 59.073 47.826 0.30 0.00 34.86 3.51
814 940 4.166523 CGCACTAATATGTACTCCATCCG 58.833 47.826 0.00 0.00 34.86 4.18
815 941 4.321008 CGCACTAATATGTACTCCATCCGT 60.321 45.833 0.00 0.00 34.86 4.69
816 942 5.162075 GCACTAATATGTACTCCATCCGTC 58.838 45.833 0.00 0.00 34.86 4.79
817 943 5.710984 CACTAATATGTACTCCATCCGTCC 58.289 45.833 0.00 0.00 34.86 4.79
818 944 5.477291 CACTAATATGTACTCCATCCGTCCT 59.523 44.000 0.00 0.00 34.86 3.85
819 945 6.657966 CACTAATATGTACTCCATCCGTCCTA 59.342 42.308 0.00 0.00 34.86 2.94
820 946 7.339721 CACTAATATGTACTCCATCCGTCCTAT 59.660 40.741 0.00 0.00 34.86 2.57
821 947 8.554870 ACTAATATGTACTCCATCCGTCCTATA 58.445 37.037 0.00 0.00 34.86 1.31
822 948 9.404848 CTAATATGTACTCCATCCGTCCTATAA 57.595 37.037 0.00 0.00 34.86 0.98
823 949 8.840200 AATATGTACTCCATCCGTCCTATAAT 57.160 34.615 0.00 0.00 34.86 1.28
824 950 5.977489 TGTACTCCATCCGTCCTATAATG 57.023 43.478 0.00 0.00 0.00 1.90
825 951 5.391256 TGTACTCCATCCGTCCTATAATGT 58.609 41.667 0.00 0.00 0.00 2.71
826 952 6.545567 TGTACTCCATCCGTCCTATAATGTA 58.454 40.000 0.00 0.00 0.00 2.29
827 953 7.005902 TGTACTCCATCCGTCCTATAATGTAA 58.994 38.462 0.00 0.00 0.00 2.41
828 954 6.591750 ACTCCATCCGTCCTATAATGTAAG 57.408 41.667 0.00 0.00 0.00 2.34
829 955 6.312529 ACTCCATCCGTCCTATAATGTAAGA 58.687 40.000 0.00 0.00 0.00 2.10
830 956 6.208994 ACTCCATCCGTCCTATAATGTAAGAC 59.791 42.308 0.00 0.00 0.00 3.01
832 958 5.048224 CCATCCGTCCTATAATGTAAGACGT 60.048 44.000 9.63 0.00 46.62 4.34
833 959 6.444633 CATCCGTCCTATAATGTAAGACGTT 58.555 40.000 9.63 0.00 46.62 3.99
834 960 6.455360 TCCGTCCTATAATGTAAGACGTTT 57.545 37.500 9.63 0.00 46.62 3.60
835 961 6.866480 TCCGTCCTATAATGTAAGACGTTTT 58.134 36.000 9.63 0.00 46.62 2.43
836 962 7.322664 TCCGTCCTATAATGTAAGACGTTTTT 58.677 34.615 9.63 0.00 46.62 1.94
881 1007 5.623956 AATGTCTTACATTATGGGACGGA 57.376 39.130 3.51 0.00 46.11 4.69
882 1008 4.665833 TGTCTTACATTATGGGACGGAG 57.334 45.455 0.00 0.00 0.00 4.63
883 1009 3.386726 TGTCTTACATTATGGGACGGAGG 59.613 47.826 0.00 0.00 0.00 4.30
884 1010 2.969950 TCTTACATTATGGGACGGAGGG 59.030 50.000 0.00 0.00 0.00 4.30
885 1011 2.779429 TACATTATGGGACGGAGGGA 57.221 50.000 0.00 0.00 0.00 4.20
886 1012 1.424638 ACATTATGGGACGGAGGGAG 58.575 55.000 0.00 0.00 0.00 4.30
887 1013 1.344087 ACATTATGGGACGGAGGGAGT 60.344 52.381 0.00 0.00 0.00 3.85
888 1014 2.090943 ACATTATGGGACGGAGGGAGTA 60.091 50.000 0.00 0.00 0.00 2.59
889 1015 3.173965 CATTATGGGACGGAGGGAGTAT 58.826 50.000 0.00 0.00 0.00 2.12
890 1016 3.339713 TTATGGGACGGAGGGAGTATT 57.660 47.619 0.00 0.00 0.00 1.89
891 1017 2.191981 ATGGGACGGAGGGAGTATTT 57.808 50.000 0.00 0.00 0.00 1.40
892 1018 2.852714 TGGGACGGAGGGAGTATTTA 57.147 50.000 0.00 0.00 0.00 1.40
893 1019 3.339713 TGGGACGGAGGGAGTATTTAT 57.660 47.619 0.00 0.00 0.00 1.40
894 1020 3.660959 TGGGACGGAGGGAGTATTTATT 58.339 45.455 0.00 0.00 0.00 1.40
895 1021 4.818447 TGGGACGGAGGGAGTATTTATTA 58.182 43.478 0.00 0.00 0.00 0.98
896 1022 4.836736 TGGGACGGAGGGAGTATTTATTAG 59.163 45.833 0.00 0.00 0.00 1.73
897 1023 4.222366 GGGACGGAGGGAGTATTTATTAGG 59.778 50.000 0.00 0.00 0.00 2.69
916 1042 7.690952 ATTAGGTAAAATAAAACCTGCGTCA 57.309 32.000 4.29 0.00 45.75 4.35
918 1044 6.190954 AGGTAAAATAAAACCTGCGTCATC 57.809 37.500 0.00 0.00 44.53 2.92
967 1100 1.003718 AGCCCGAAACTGCTACCAC 60.004 57.895 0.00 0.00 35.69 4.16
968 1101 2.388232 GCCCGAAACTGCTACCACG 61.388 63.158 0.00 0.00 0.00 4.94
969 1102 1.740296 CCCGAAACTGCTACCACGG 60.740 63.158 0.00 0.00 40.03 4.94
970 1103 2.388232 CCGAAACTGCTACCACGGC 61.388 63.158 0.00 0.00 34.36 5.68
971 1104 2.726691 CGAAACTGCTACCACGGCG 61.727 63.158 4.80 4.80 0.00 6.46
1576 1723 1.291877 CGGGAGAGCGGTTCTTGTTG 61.292 60.000 0.00 0.00 35.87 3.33
1625 1772 4.042809 TGGTTGTGTACAGGATTCTTGGAT 59.957 41.667 0.00 0.00 0.00 3.41
1711 1868 4.718940 TCTAGCAGATCGTCACATTTGA 57.281 40.909 0.00 0.00 0.00 2.69
1754 1911 1.463444 ACGAGAAACAGTAAATGCCGC 59.537 47.619 0.00 0.00 0.00 6.53
1786 1947 6.071560 AGCAAATTATGATGTGGGATAGCATG 60.072 38.462 0.00 0.00 0.00 4.06
1855 2020 1.593196 TTCTTTGAGCTGTCGGTTGG 58.407 50.000 0.00 0.00 0.00 3.77
1899 2064 5.383130 GTTCAAAATCAGAAGCGGTTACTC 58.617 41.667 0.00 0.00 0.00 2.59
1901 2066 4.690748 TCAAAATCAGAAGCGGTTACTCAG 59.309 41.667 0.00 0.00 0.00 3.35
1936 2179 2.517321 GCTGCTTGAGCTACTTTTCG 57.483 50.000 4.44 0.00 45.21 3.46
1980 5409 1.002468 CTTGTTTCCTGTTCTGTGGCG 60.002 52.381 0.00 0.00 0.00 5.69
2006 5437 6.435430 TTGGTTATCTTGTGATATGTGTGC 57.565 37.500 0.00 0.00 35.36 4.57
2103 5565 4.323417 TCTGTGGCTTGTTAGTTATGGTG 58.677 43.478 0.00 0.00 0.00 4.17
2196 5665 0.034186 TCAACCTGTCATCCCATGCC 60.034 55.000 0.00 0.00 0.00 4.40
2243 5712 6.872920 ACACTCAGGTCTGATCTTCTAATTC 58.127 40.000 0.75 0.00 39.13 2.17
2249 5718 5.966935 AGGTCTGATCTTCTAATTCCAGGAA 59.033 40.000 3.72 3.72 0.00 3.36
2276 5745 9.473878 CAGAATTTACTCTGATGCCTCTTGCAC 62.474 44.444 0.00 0.00 44.52 4.57
2287 5756 3.568538 GCCTCTTGCACATGTACAAAAG 58.431 45.455 12.47 8.84 40.77 2.27
2294 5763 4.203226 TGCACATGTACAAAAGTTCCAGA 58.797 39.130 0.00 0.00 0.00 3.86
2314 5783 0.662619 CTTGAACGGAAGCACTGCAA 59.337 50.000 3.30 0.00 0.00 4.08
2339 5808 3.321968 GGCATTGGAGTTTTCCTCAACTT 59.678 43.478 0.00 0.00 44.36 2.66
2358 5827 2.119801 TTTTGCAGGATCAGAGGAGC 57.880 50.000 0.00 0.00 0.00 4.70
2372 5841 5.752650 TCAGAGGAGCATTCAAATTCAGAT 58.247 37.500 0.00 0.00 0.00 2.90
2426 5895 2.620115 TCACCTTTTCAAGCAGAAGCAG 59.380 45.455 0.00 0.00 45.49 4.24
2427 5896 1.959282 ACCTTTTCAAGCAGAAGCAGG 59.041 47.619 13.36 13.36 45.49 4.85
2438 5907 2.934801 GCAGAAGCAGGGTCTCTTCTTC 60.935 54.545 4.08 4.08 44.64 2.87
2439 5908 2.901291 AGAAGCAGGGTCTCTTCTTCT 58.099 47.619 8.67 8.67 46.32 2.85
2440 5909 3.694043 GAAGCAGGGTCTCTTCTTCTT 57.306 47.619 4.98 0.00 40.83 2.52
2441 5910 3.333804 GAAGCAGGGTCTCTTCTTCTTG 58.666 50.000 4.98 0.00 40.83 3.02
2442 5911 1.003003 AGCAGGGTCTCTTCTTCTTGC 59.997 52.381 0.00 0.00 0.00 4.01
2443 5912 1.271054 GCAGGGTCTCTTCTTCTTGCA 60.271 52.381 0.00 0.00 0.00 4.08
2444 5913 2.697654 CAGGGTCTCTTCTTCTTGCAG 58.302 52.381 0.00 0.00 0.00 4.41
2445 5914 1.003003 AGGGTCTCTTCTTCTTGCAGC 59.997 52.381 0.00 0.00 0.00 5.25
2446 5915 1.447945 GGTCTCTTCTTCTTGCAGCC 58.552 55.000 0.00 0.00 0.00 4.85
2447 5916 1.271054 GGTCTCTTCTTCTTGCAGCCA 60.271 52.381 0.00 0.00 0.00 4.75
2448 5917 2.498167 GTCTCTTCTTCTTGCAGCCAA 58.502 47.619 0.00 0.00 0.00 4.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
62 107 1.063341 TCATCTAGACCTGCTCCTGCT 60.063 52.381 0.00 0.00 40.48 4.24
268 313 2.900273 GTACAGATGGAGGCCGCA 59.100 61.111 9.31 0.00 0.00 5.69
314 380 3.855853 GCTCGCTCCTTCTCCCCC 61.856 72.222 0.00 0.00 0.00 5.40
419 486 2.064723 CTGGATCTCGCCATCGACGT 62.065 60.000 0.00 0.00 40.21 4.34
523 608 0.882927 TTTCGTGCCACTTCCTTCGG 60.883 55.000 0.00 0.00 0.00 4.30
603 693 2.428925 GGGCCTGCCATGTCATTGG 61.429 63.158 10.86 0.00 39.94 3.16
734 857 0.660595 CCGTTCGATCGCGCTAGATT 60.661 55.000 11.09 0.00 37.46 2.40
738 861 2.277692 CACCGTTCGATCGCGCTA 60.278 61.111 11.09 0.00 37.46 4.26
806 932 6.622549 GTCTTACATTATAGGACGGATGGAG 58.377 44.000 0.00 0.00 0.00 3.86
807 933 5.182570 CGTCTTACATTATAGGACGGATGGA 59.817 44.000 9.88 0.00 43.69 3.41
808 934 5.399858 CGTCTTACATTATAGGACGGATGG 58.600 45.833 9.88 0.00 43.69 3.51
856 982 6.887545 TCCGTCCCATAATGTAAGACATTTTT 59.112 34.615 9.92 0.00 45.80 1.94
857 983 6.419791 TCCGTCCCATAATGTAAGACATTTT 58.580 36.000 9.92 0.33 45.80 1.82
858 984 5.996644 TCCGTCCCATAATGTAAGACATTT 58.003 37.500 9.92 0.00 45.80 2.32
860 986 4.040461 CCTCCGTCCCATAATGTAAGACAT 59.960 45.833 0.00 0.00 41.31 3.06
861 987 3.386726 CCTCCGTCCCATAATGTAAGACA 59.613 47.826 0.00 0.00 0.00 3.41
862 988 3.244112 CCCTCCGTCCCATAATGTAAGAC 60.244 52.174 0.00 0.00 0.00 3.01
863 989 2.969950 CCCTCCGTCCCATAATGTAAGA 59.030 50.000 0.00 0.00 0.00 2.10
864 990 2.969950 TCCCTCCGTCCCATAATGTAAG 59.030 50.000 0.00 0.00 0.00 2.34
865 991 2.969950 CTCCCTCCGTCCCATAATGTAA 59.030 50.000 0.00 0.00 0.00 2.41
866 992 2.090943 ACTCCCTCCGTCCCATAATGTA 60.091 50.000 0.00 0.00 0.00 2.29
867 993 1.344087 ACTCCCTCCGTCCCATAATGT 60.344 52.381 0.00 0.00 0.00 2.71
868 994 1.424638 ACTCCCTCCGTCCCATAATG 58.575 55.000 0.00 0.00 0.00 1.90
869 995 3.562108 ATACTCCCTCCGTCCCATAAT 57.438 47.619 0.00 0.00 0.00 1.28
870 996 3.339713 AATACTCCCTCCGTCCCATAA 57.660 47.619 0.00 0.00 0.00 1.90
871 997 3.339713 AAATACTCCCTCCGTCCCATA 57.660 47.619 0.00 0.00 0.00 2.74
872 998 2.191981 AAATACTCCCTCCGTCCCAT 57.808 50.000 0.00 0.00 0.00 4.00
873 999 2.852714 TAAATACTCCCTCCGTCCCA 57.147 50.000 0.00 0.00 0.00 4.37
874 1000 4.222366 CCTAATAAATACTCCCTCCGTCCC 59.778 50.000 0.00 0.00 0.00 4.46
875 1001 4.837298 ACCTAATAAATACTCCCTCCGTCC 59.163 45.833 0.00 0.00 0.00 4.79
876 1002 7.530426 TTACCTAATAAATACTCCCTCCGTC 57.470 40.000 0.00 0.00 0.00 4.79
877 1003 7.919385 TTTACCTAATAAATACTCCCTCCGT 57.081 36.000 0.00 0.00 0.00 4.69
890 1016 9.228949 TGACGCAGGTTTTATTTTACCTAATAA 57.771 29.630 0.00 0.00 42.81 1.40
891 1017 8.789825 TGACGCAGGTTTTATTTTACCTAATA 57.210 30.769 0.00 0.00 42.81 0.98
892 1018 7.690952 TGACGCAGGTTTTATTTTACCTAAT 57.309 32.000 0.00 0.00 42.81 1.73
893 1019 7.608761 AGATGACGCAGGTTTTATTTTACCTAA 59.391 33.333 0.00 0.00 42.81 2.69
894 1020 7.065324 CAGATGACGCAGGTTTTATTTTACCTA 59.935 37.037 0.00 0.00 42.81 3.08
895 1021 5.944007 AGATGACGCAGGTTTTATTTTACCT 59.056 36.000 0.00 0.00 45.54 3.08
896 1022 6.027749 CAGATGACGCAGGTTTTATTTTACC 58.972 40.000 0.00 0.00 34.54 2.85
897 1023 5.511729 GCAGATGACGCAGGTTTTATTTTAC 59.488 40.000 0.00 0.00 0.00 2.01
916 1042 3.305403 CCATACGTCGTGGAATAGCAGAT 60.305 47.826 13.20 0.00 39.12 2.90
918 1044 2.394708 CCATACGTCGTGGAATAGCAG 58.605 52.381 13.20 0.00 39.12 4.24
955 1087 3.047877 GCGCCGTGGTAGCAGTTT 61.048 61.111 0.00 0.00 0.00 2.66
1137 1270 4.086178 CCGTCGTCGCTCGTGTCT 62.086 66.667 0.00 0.00 40.80 3.41
1539 1686 2.484264 CCCGAGCCAAGAAAACTAACTG 59.516 50.000 0.00 0.00 0.00 3.16
1576 1723 7.824672 TGTACTAGTAGCAGACTAAGAAAACC 58.175 38.462 1.87 0.00 40.23 3.27
1625 1772 3.441101 AGTAACTACATGCAGTCTCCCA 58.559 45.455 0.00 0.00 0.00 4.37
1677 1833 5.393569 CGATCTGCTAGAAGAAAAGAGACCA 60.394 44.000 3.99 0.00 0.00 4.02
1711 1868 2.270352 TCAAAGAGACCAAATGCGGT 57.730 45.000 0.00 0.00 43.91 5.68
1725 1882 7.059945 GCATTTACTGTTTCTCGTTCATCAAAG 59.940 37.037 0.00 0.00 0.00 2.77
1754 1911 6.427853 TCCCACATCATAATTTGCTATCTTCG 59.572 38.462 0.00 0.00 0.00 3.79
1786 1947 4.167268 GGCGTCTGATTAATAGGATCGAC 58.833 47.826 0.00 0.00 0.00 4.20
1855 2020 3.250040 ACCAGACGTTTGCAGTATGTTTC 59.750 43.478 0.00 0.00 39.31 2.78
1980 5409 8.070171 GCACACATATCACAAGATAACCAATAC 58.930 37.037 0.00 0.00 39.99 1.89
2006 5437 6.276091 TCAAGCTGTGCTAGTACTCATAATG 58.724 40.000 12.42 4.57 38.25 1.90
2143 5605 2.760374 AGTTCAGAAACTTGAGCTCCG 58.240 47.619 12.15 4.83 43.28 4.63
2243 5712 5.065731 GCATCAGAGTAAATTCTGTTCCTGG 59.934 44.000 2.86 0.00 43.96 4.45
2249 5718 5.690464 AGAGGCATCAGAGTAAATTCTGT 57.310 39.130 0.00 0.00 43.96 3.41
2276 5745 6.618287 TCAAGTCTGGAACTTTTGTACATG 57.382 37.500 0.00 0.00 46.26 3.21
2287 5756 1.531578 GCTTCCGTTCAAGTCTGGAAC 59.468 52.381 9.78 9.78 40.89 3.62
2294 5763 0.463654 TGCAGTGCTTCCGTTCAAGT 60.464 50.000 17.60 0.00 0.00 3.16
2314 5783 0.112412 AGGAAAACTCCAATGCCCGT 59.888 50.000 0.00 0.00 0.00 5.28
2339 5808 1.352017 TGCTCCTCTGATCCTGCAAAA 59.648 47.619 0.00 0.00 0.00 2.44
2358 5827 8.592998 GCAGAAGCTTAAATCTGAATTTGAATG 58.407 33.333 15.77 0.00 44.64 2.67
2372 5841 2.507407 AATCGGGGCAGAAGCTTAAA 57.493 45.000 0.00 0.00 41.70 1.52
2426 5895 1.447945 GCTGCAAGAAGAAGAGACCC 58.552 55.000 0.00 0.00 34.07 4.46
2427 5896 1.271054 TGGCTGCAAGAAGAAGAGACC 60.271 52.381 0.50 0.00 34.07 3.85


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

AutoCloner maintained by Alex Coulton.