Multiple sequence alignment - TraesCS2B01G376000

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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 TraesCS2B01G376000 chr2B 100.000 2357 0 0 1 2357 539088828 539091184 0.000000e+00 4353
1 TraesCS2B01G376000 chr2B 99.306 144 1 0 802 945 539089557 539089700 6.460000e-66 261
2 TraesCS2B01G376000 chr2B 99.306 144 1 0 730 873 539089629 539089772 6.460000e-66 261
3 TraesCS2B01G376000 chr2B 80.597 335 55 8 1029 1358 685502910 685503239 1.400000e-62 250
4 TraesCS2B01G376000 chr2B 80.597 335 55 8 1029 1358 685518192 685518521 1.400000e-62 250
5 TraesCS2B01G376000 chr2B 98.611 72 1 0 874 945 539089557 539089628 6.840000e-26 128
6 TraesCS2B01G376000 chr2B 98.611 72 1 0 730 801 539089701 539089772 6.840000e-26 128
7 TraesCS2B01G376000 chr6B 91.708 808 63 4 1552 2357 654830115 654829310 0.000000e+00 1118
8 TraesCS2B01G376000 chr6B 88.504 809 87 6 1552 2357 509318355 509317550 0.000000e+00 974
9 TraesCS2B01G376000 chr2A 95.882 680 25 1 873 1552 601481525 601482201 0.000000e+00 1098
10 TraesCS2B01G376000 chr2A 90.212 613 31 11 1 613 601478642 601479225 0.000000e+00 773
11 TraesCS2B01G376000 chr2A 87.640 178 7 7 626 801 601481433 601481597 2.390000e-45 193
12 TraesCS2B01G376000 chr2A 98.630 73 1 0 801 873 601481525 601481597 1.900000e-26 130
13 TraesCS2B01G376000 chr3D 90.223 808 74 3 1552 2357 178650281 178649477 0.000000e+00 1050
14 TraesCS2B01G376000 chr3D 82.139 823 124 16 1547 2357 307273938 307274749 0.000000e+00 684
15 TraesCS2B01G376000 chr3D 90.381 499 47 1 1552 2049 170100070 170099572 0.000000e+00 654
16 TraesCS2B01G376000 chr3D 87.415 294 36 1 1553 1845 610881473 610881180 1.040000e-88 337
17 TraesCS2B01G376000 chr2D 93.962 679 19 8 874 1552 457889202 457889858 0.000000e+00 1007
18 TraesCS2B01G376000 chr2D 89.326 178 4 4 626 801 457889109 457889273 2.370000e-50 209
19 TraesCS2B01G376000 chr2D 98.611 72 1 0 802 873 457889202 457889273 6.840000e-26 128
20 TraesCS2B01G376000 chr3A 91.040 625 55 1 1551 2174 207720183 207719559 0.000000e+00 843
21 TraesCS2B01G376000 chr3A 79.976 824 146 14 1549 2357 709220375 709221194 7.260000e-165 590
22 TraesCS2B01G376000 chr3A 80.539 334 53 10 1550 1878 235000368 235000694 1.810000e-61 246
23 TraesCS2B01G376000 chr7D 89.465 579 55 5 1784 2356 52479574 52480152 0.000000e+00 726
24 TraesCS2B01G376000 chr7D 90.000 110 11 0 1551 1660 52475422 52475531 2.440000e-30 143
25 TraesCS2B01G376000 chr7D 86.885 122 14 2 1666 1786 52478157 52478277 4.090000e-28 135
26 TraesCS2B01G376000 chr3B 82.966 816 120 13 1552 2357 451311468 451312274 0.000000e+00 719
27 TraesCS2B01G376000 chr1D 82.871 613 100 5 1747 2357 364694357 364693748 1.590000e-151 545


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 TraesCS2B01G376000 chr2B 539088828 539091184 2356 False 1026.200000 4353 99.166800 1 2357 5 chr2B.!!$F3 2356
1 TraesCS2B01G376000 chr6B 654829310 654830115 805 True 1118.000000 1118 91.708000 1552 2357 1 chr6B.!!$R2 805
2 TraesCS2B01G376000 chr6B 509317550 509318355 805 True 974.000000 974 88.504000 1552 2357 1 chr6B.!!$R1 805
3 TraesCS2B01G376000 chr2A 601478642 601482201 3559 False 548.500000 1098 93.091000 1 1552 4 chr2A.!!$F1 1551
4 TraesCS2B01G376000 chr3D 178649477 178650281 804 True 1050.000000 1050 90.223000 1552 2357 1 chr3D.!!$R2 805
5 TraesCS2B01G376000 chr3D 307273938 307274749 811 False 684.000000 684 82.139000 1547 2357 1 chr3D.!!$F1 810
6 TraesCS2B01G376000 chr2D 457889109 457889858 749 False 448.000000 1007 93.966333 626 1552 3 chr2D.!!$F1 926
7 TraesCS2B01G376000 chr3A 207719559 207720183 624 True 843.000000 843 91.040000 1551 2174 1 chr3A.!!$R1 623
8 TraesCS2B01G376000 chr3A 709220375 709221194 819 False 590.000000 590 79.976000 1549 2357 1 chr3A.!!$F2 808
9 TraesCS2B01G376000 chr7D 52475422 52480152 4730 False 334.666667 726 88.783333 1551 2356 3 chr7D.!!$F1 805
10 TraesCS2B01G376000 chr3B 451311468 451312274 806 False 719.000000 719 82.966000 1552 2357 1 chr3B.!!$F1 805
11 TraesCS2B01G376000 chr1D 364693748 364694357 609 True 545.000000 545 82.871000 1747 2357 1 chr1D.!!$R1 610

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
800 2998 0.517755 TCGTGCTCAAGACTCGAGAC 59.482 55.0 21.68 13.92 31.84 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2204 8354 0.736325 CGGCTACCAACTTCCGACAG 60.736 60.0 0.0 0.0 44.23 3.51 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
94 95 9.734984 ATTTTTGCTACTTCTAAAACTAGCCTA 57.265 29.630 0.00 0.00 32.20 3.93
170 171 9.777297 AAACTAAAGGTTTGTGCATATTGAAAT 57.223 25.926 0.00 0.00 45.29 2.17
175 176 9.777297 AAAGGTTTGTGCATATTGAAATAGTTT 57.223 25.926 0.00 0.00 0.00 2.66
176 177 9.777297 AAGGTTTGTGCATATTGAAATAGTTTT 57.223 25.926 0.00 0.00 0.00 2.43
177 178 9.777297 AGGTTTGTGCATATTGAAATAGTTTTT 57.223 25.926 0.00 0.00 0.00 1.94
433 434 8.478775 AAAAGGTTAGAAAACAGAAGCCTAAT 57.521 30.769 0.00 0.00 37.34 1.73
498 499 6.531923 AGAAACAGGAAGGTAAAGAAGGTAC 58.468 40.000 0.00 0.00 0.00 3.34
590 591 3.113745 CTGGCCCATTAAGCTGCG 58.886 61.111 0.00 0.00 0.00 5.18
618 619 4.047059 GGACGTCGCCGGTCAGAA 62.047 66.667 9.92 0.00 38.78 3.02
619 620 2.049802 GACGTCGCCGGTCAGAAA 60.050 61.111 1.90 0.00 38.78 2.52
620 621 2.049433 ACGTCGCCGGTCAGAAAG 60.049 61.111 1.90 1.53 38.78 2.62
621 622 2.809601 CGTCGCCGGTCAGAAAGG 60.810 66.667 1.90 0.00 0.00 3.11
622 623 2.434359 GTCGCCGGTCAGAAAGGG 60.434 66.667 1.90 0.00 0.00 3.95
623 624 3.702048 TCGCCGGTCAGAAAGGGG 61.702 66.667 1.90 3.76 39.06 4.79
633 2829 4.574828 CGGTCAGAAAGGGGTATATTTGTG 59.425 45.833 0.00 0.00 32.56 3.33
696 2894 4.807039 GCCCGAAGCTTCCGCGTA 62.807 66.667 20.62 0.00 42.32 4.42
697 2895 2.582498 CCCGAAGCTTCCGCGTAG 60.582 66.667 20.62 5.39 42.32 3.51
783 2981 2.033299 ACACACAGCTCAACCATTTTCG 59.967 45.455 0.00 0.00 0.00 3.46
784 2982 2.033299 CACACAGCTCAACCATTTTCGT 59.967 45.455 0.00 0.00 0.00 3.85
785 2983 2.033299 ACACAGCTCAACCATTTTCGTG 59.967 45.455 0.00 0.00 0.00 4.35
786 2984 1.001378 ACAGCTCAACCATTTTCGTGC 60.001 47.619 0.00 0.00 0.00 5.34
787 2985 1.267806 CAGCTCAACCATTTTCGTGCT 59.732 47.619 0.00 0.00 0.00 4.40
788 2986 1.537202 AGCTCAACCATTTTCGTGCTC 59.463 47.619 0.00 0.00 0.00 4.26
789 2987 1.266718 GCTCAACCATTTTCGTGCTCA 59.733 47.619 0.00 0.00 0.00 4.26
790 2988 2.287547 GCTCAACCATTTTCGTGCTCAA 60.288 45.455 0.00 0.00 0.00 3.02
791 2989 3.558505 CTCAACCATTTTCGTGCTCAAG 58.441 45.455 0.00 0.00 0.00 3.02
792 2990 3.210227 TCAACCATTTTCGTGCTCAAGA 58.790 40.909 0.00 0.00 0.00 3.02
793 2991 3.003275 TCAACCATTTTCGTGCTCAAGAC 59.997 43.478 0.00 0.00 0.00 3.01
794 2992 2.851195 ACCATTTTCGTGCTCAAGACT 58.149 42.857 0.00 0.00 0.00 3.24
795 2993 2.808543 ACCATTTTCGTGCTCAAGACTC 59.191 45.455 0.00 0.00 0.00 3.36
796 2994 2.159787 CCATTTTCGTGCTCAAGACTCG 60.160 50.000 0.00 0.00 0.00 4.18
797 2995 2.502213 TTTTCGTGCTCAAGACTCGA 57.498 45.000 0.00 0.00 0.00 4.04
798 2996 2.051879 TTTCGTGCTCAAGACTCGAG 57.948 50.000 11.84 11.84 32.39 4.04
799 2997 1.235724 TTCGTGCTCAAGACTCGAGA 58.764 50.000 21.68 0.00 31.84 4.04
800 2998 0.517755 TCGTGCTCAAGACTCGAGAC 59.482 55.000 21.68 13.92 31.84 3.36
801 2999 0.791238 CGTGCTCAAGACTCGAGACG 60.791 60.000 21.68 12.01 31.84 4.18
802 3000 1.068287 GTGCTCAAGACTCGAGACGC 61.068 60.000 21.68 12.17 31.84 5.19
803 3001 1.865622 GCTCAAGACTCGAGACGCG 60.866 63.158 21.68 3.53 42.69 6.01
804 3002 1.865622 CTCAAGACTCGAGACGCGC 60.866 63.158 21.68 0.00 40.61 6.86
805 3003 3.234041 CAAGACTCGAGACGCGCG 61.234 66.667 30.96 30.96 40.61 6.86
806 3004 3.724403 AAGACTCGAGACGCGCGT 61.724 61.111 38.52 38.52 41.23 6.01
816 3014 2.053725 ACGCGCGTCAACGTTTTC 60.054 55.556 32.73 0.00 40.09 2.29
836 3034 9.172820 CGTTTTCGTAGCACTATATATAACACA 57.827 33.333 0.00 0.00 38.65 3.72
839 3037 9.454585 TTTCGTAGCACTATATATAACACACAC 57.545 33.333 0.00 0.00 0.00 3.82
840 3038 8.156994 TCGTAGCACTATATATAACACACACA 57.843 34.615 0.00 0.00 0.00 3.72
841 3039 8.287503 TCGTAGCACTATATATAACACACACAG 58.712 37.037 0.00 0.00 0.00 3.66
842 3040 7.060748 CGTAGCACTATATATAACACACACAGC 59.939 40.741 0.00 0.00 0.00 4.40
843 3041 7.055667 AGCACTATATATAACACACACAGCT 57.944 36.000 0.00 0.00 0.00 4.24
844 3042 7.148641 AGCACTATATATAACACACACAGCTC 58.851 38.462 0.00 0.00 0.00 4.09
845 3043 6.923508 GCACTATATATAACACACACAGCTCA 59.076 38.462 0.00 0.00 0.00 4.26
846 3044 7.438160 GCACTATATATAACACACACAGCTCAA 59.562 37.037 0.00 0.00 0.00 3.02
847 3045 8.755941 CACTATATATAACACACACAGCTCAAC 58.244 37.037 0.00 0.00 0.00 3.18
848 3046 7.926555 ACTATATATAACACACACAGCTCAACC 59.073 37.037 0.00 0.00 0.00 3.77
849 3047 2.700722 TAACACACACAGCTCAACCA 57.299 45.000 0.00 0.00 0.00 3.67
850 3048 2.057137 AACACACACAGCTCAACCAT 57.943 45.000 0.00 0.00 0.00 3.55
851 3049 2.057137 ACACACACAGCTCAACCATT 57.943 45.000 0.00 0.00 0.00 3.16
852 3050 2.378038 ACACACACAGCTCAACCATTT 58.622 42.857 0.00 0.00 0.00 2.32
853 3051 2.760092 ACACACACAGCTCAACCATTTT 59.240 40.909 0.00 0.00 0.00 1.82
854 3052 3.181487 ACACACACAGCTCAACCATTTTC 60.181 43.478 0.00 0.00 0.00 2.29
855 3053 2.033299 ACACACAGCTCAACCATTTTCG 59.967 45.455 0.00 0.00 0.00 3.46
856 3054 2.033299 CACACAGCTCAACCATTTTCGT 59.967 45.455 0.00 0.00 0.00 3.85
857 3055 2.033299 ACACAGCTCAACCATTTTCGTG 59.967 45.455 0.00 0.00 0.00 4.35
858 3056 1.001378 ACAGCTCAACCATTTTCGTGC 60.001 47.619 0.00 0.00 0.00 5.34
859 3057 1.267806 CAGCTCAACCATTTTCGTGCT 59.732 47.619 0.00 0.00 0.00 4.40
860 3058 1.537202 AGCTCAACCATTTTCGTGCTC 59.463 47.619 0.00 0.00 0.00 4.26
861 3059 1.266718 GCTCAACCATTTTCGTGCTCA 59.733 47.619 0.00 0.00 0.00 4.26
862 3060 2.287547 GCTCAACCATTTTCGTGCTCAA 60.288 45.455 0.00 0.00 0.00 3.02
863 3061 3.558505 CTCAACCATTTTCGTGCTCAAG 58.441 45.455 0.00 0.00 0.00 3.02
864 3062 3.210227 TCAACCATTTTCGTGCTCAAGA 58.790 40.909 0.00 0.00 0.00 3.02
865 3063 3.003275 TCAACCATTTTCGTGCTCAAGAC 59.997 43.478 0.00 0.00 0.00 3.01
866 3064 2.851195 ACCATTTTCGTGCTCAAGACT 58.149 42.857 0.00 0.00 0.00 3.24
867 3065 2.808543 ACCATTTTCGTGCTCAAGACTC 59.191 45.455 0.00 0.00 0.00 3.36
868 3066 2.159787 CCATTTTCGTGCTCAAGACTCG 60.160 50.000 0.00 0.00 0.00 4.18
869 3067 2.502213 TTTTCGTGCTCAAGACTCGA 57.498 45.000 0.00 0.00 0.00 4.04
870 3068 2.051879 TTTCGTGCTCAAGACTCGAG 57.948 50.000 11.84 11.84 32.39 4.04
871 3069 1.235724 TTCGTGCTCAAGACTCGAGA 58.764 50.000 21.68 0.00 31.84 4.04
872 3070 0.517755 TCGTGCTCAAGACTCGAGAC 59.482 55.000 21.68 13.92 31.84 3.36
873 3071 0.791238 CGTGCTCAAGACTCGAGACG 60.791 60.000 21.68 12.01 31.84 4.18
874 3072 1.068287 GTGCTCAAGACTCGAGACGC 61.068 60.000 21.68 12.17 31.84 5.19
875 3073 1.865622 GCTCAAGACTCGAGACGCG 60.866 63.158 21.68 3.53 42.69 6.01
876 3074 1.865622 CTCAAGACTCGAGACGCGC 60.866 63.158 21.68 0.00 40.61 6.86
877 3075 3.234041 CAAGACTCGAGACGCGCG 61.234 66.667 30.96 30.96 40.61 6.86
878 3076 3.724403 AAGACTCGAGACGCGCGT 61.724 61.111 38.52 38.52 41.23 6.01
888 3086 3.392440 ACGCGCGTCAACGTCTTC 61.392 61.111 32.73 0.00 38.28 2.87
889 3087 4.449161 CGCGCGTCAACGTCTTCG 62.449 66.667 24.19 0.00 42.22 3.79
907 3105 8.584919 CGTCTTCGTAGCACTATATATAACAC 57.415 38.462 0.00 0.00 0.00 3.32
908 3106 8.225777 CGTCTTCGTAGCACTATATATAACACA 58.774 37.037 0.00 0.00 0.00 3.72
909 3107 9.327529 GTCTTCGTAGCACTATATATAACACAC 57.672 37.037 0.00 0.00 0.00 3.82
910 3108 9.059260 TCTTCGTAGCACTATATATAACACACA 57.941 33.333 0.00 0.00 0.00 3.72
911 3109 9.114965 CTTCGTAGCACTATATATAACACACAC 57.885 37.037 0.00 0.00 0.00 3.82
912 3110 8.156994 TCGTAGCACTATATATAACACACACA 57.843 34.615 0.00 0.00 0.00 3.72
913 3111 8.287503 TCGTAGCACTATATATAACACACACAG 58.712 37.037 0.00 0.00 0.00 3.66
914 3112 7.060748 CGTAGCACTATATATAACACACACAGC 59.939 40.741 0.00 0.00 0.00 4.40
915 3113 7.055667 AGCACTATATATAACACACACAGCT 57.944 36.000 0.00 0.00 0.00 4.24
916 3114 7.148641 AGCACTATATATAACACACACAGCTC 58.851 38.462 0.00 0.00 0.00 4.09
917 3115 6.923508 GCACTATATATAACACACACAGCTCA 59.076 38.462 0.00 0.00 0.00 4.26
918 3116 7.438160 GCACTATATATAACACACACAGCTCAA 59.562 37.037 0.00 0.00 0.00 3.02
919 3117 8.755941 CACTATATATAACACACACAGCTCAAC 58.244 37.037 0.00 0.00 0.00 3.18
920 3118 7.926555 ACTATATATAACACACACAGCTCAACC 59.073 37.037 0.00 0.00 0.00 3.77
921 3119 2.700722 TAACACACACAGCTCAACCA 57.299 45.000 0.00 0.00 0.00 3.67
922 3120 2.057137 AACACACACAGCTCAACCAT 57.943 45.000 0.00 0.00 0.00 3.55
923 3121 2.057137 ACACACACAGCTCAACCATT 57.943 45.000 0.00 0.00 0.00 3.16
924 3122 2.378038 ACACACACAGCTCAACCATTT 58.622 42.857 0.00 0.00 0.00 2.32
925 3123 2.760092 ACACACACAGCTCAACCATTTT 59.240 40.909 0.00 0.00 0.00 1.82
926 3124 3.181487 ACACACACAGCTCAACCATTTTC 60.181 43.478 0.00 0.00 0.00 2.29
927 3125 2.033299 ACACACAGCTCAACCATTTTCG 59.967 45.455 0.00 0.00 0.00 3.46
1014 3212 6.744537 CCAACGAAACAATGAATTCTCTCATC 59.255 38.462 7.05 0.00 34.90 2.92
1093 3291 0.666274 GATCTTGTGTGGCGTCGTCA 60.666 55.000 0.00 0.00 0.00 4.35
1172 3370 1.481871 CATGGCAAGGCTCCATTCTT 58.518 50.000 5.04 0.00 42.11 2.52
1302 3500 3.556213 CGTTCCTGTTTGTGTCCATCCTA 60.556 47.826 0.00 0.00 0.00 2.94
1318 3516 0.750546 CCTACCCCTCGTCATCGTCA 60.751 60.000 0.00 0.00 38.33 4.35
1451 3649 4.395625 ACAGTATATGAGTAGGCTGCGTA 58.604 43.478 0.00 0.00 0.00 4.42
1483 3681 6.016860 AGGTTTACGTTTCATTAGTTTCCACC 60.017 38.462 0.00 0.00 0.00 4.61
1501 3699 6.620877 TCCACCTGTACACTCATAGATTTT 57.379 37.500 0.00 0.00 0.00 1.82
1544 3742 2.812836 TCATGCAATGGATGTCTGGT 57.187 45.000 14.23 0.00 46.73 4.00
1769 6613 1.910276 GCCTCCCCAAAAGCTGCTT 60.910 57.895 9.53 9.53 0.00 3.91
1771 6615 1.177401 CCTCCCCAAAAGCTGCTTAC 58.823 55.000 16.31 0.00 0.00 2.34
1778 6622 0.875059 AAAAGCTGCTTACTCGTGCC 59.125 50.000 16.31 0.00 0.00 5.01
1842 7985 1.741706 CAAGACTTCCATCATGCGCTT 59.258 47.619 9.73 0.00 0.00 4.68
1846 7989 2.283298 ACTTCCATCATGCGCTTAGTG 58.717 47.619 9.73 4.56 0.00 2.74
1848 7991 2.401583 TCCATCATGCGCTTAGTGTT 57.598 45.000 9.73 0.00 0.00 3.32
1891 8035 6.588756 GTGTCCACGTCTGTAAAAATAGATGA 59.411 38.462 0.00 0.00 34.73 2.92
1986 8130 1.761174 CCCATAGCAACGGCCCTAT 59.239 57.895 0.00 0.00 42.56 2.57
2204 8354 5.243207 ACGGGCCATTATGTTTAGCTATAC 58.757 41.667 4.39 7.33 0.00 1.47
2308 8461 1.214062 GCTATATCCAGCGCGCTCT 59.786 57.895 34.28 21.04 0.00 4.09
2326 8479 4.177783 GCTCTCCTCAGTAAGTTTGCTAC 58.822 47.826 0.00 0.00 0.00 3.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 1.068921 GCCAAATGCAACCCGTGTT 59.931 52.632 0.00 0.00 40.77 3.32
400 401 9.936759 TTCTGTTTTCTAACCTTTTCATTTTGT 57.063 25.926 0.00 0.00 33.15 2.83
406 407 5.891551 AGGCTTCTGTTTTCTAACCTTTTCA 59.108 36.000 0.00 0.00 33.15 2.69
408 409 7.891498 TTAGGCTTCTGTTTTCTAACCTTTT 57.109 32.000 0.00 0.00 33.15 2.27
409 410 8.478775 AATTAGGCTTCTGTTTTCTAACCTTT 57.521 30.769 0.00 0.00 33.15 3.11
410 411 7.945109 AGAATTAGGCTTCTGTTTTCTAACCTT 59.055 33.333 0.00 0.00 34.22 3.50
411 412 7.462590 AGAATTAGGCTTCTGTTTTCTAACCT 58.537 34.615 0.00 0.00 34.22 3.50
412 413 7.689446 AGAATTAGGCTTCTGTTTTCTAACC 57.311 36.000 0.00 0.00 34.22 2.85
413 414 9.654663 TCTAGAATTAGGCTTCTGTTTTCTAAC 57.345 33.333 0.00 0.00 36.21 2.34
416 417 9.574516 TTTTCTAGAATTAGGCTTCTGTTTTCT 57.425 29.630 5.89 0.00 36.21 2.52
474 475 5.648330 ACCTTCTTTACCTTCCTGTTTCT 57.352 39.130 0.00 0.00 0.00 2.52
613 614 6.381498 TGACACAAATATACCCCTTTCTGA 57.619 37.500 0.00 0.00 0.00 3.27
614 615 7.461182 TTTGACACAAATATACCCCTTTCTG 57.539 36.000 0.00 0.00 0.00 3.02
615 616 8.485578 TTTTTGACACAAATATACCCCTTTCT 57.514 30.769 0.00 0.00 0.00 2.52
783 2981 1.068287 GCGTCTCGAGTCTTGAGCAC 61.068 60.000 13.13 9.88 33.41 4.40
784 2982 1.210413 GCGTCTCGAGTCTTGAGCA 59.790 57.895 13.13 0.00 33.41 4.26
785 2983 1.865622 CGCGTCTCGAGTCTTGAGC 60.866 63.158 13.13 8.99 41.67 4.26
786 2984 1.865622 GCGCGTCTCGAGTCTTGAG 60.866 63.158 13.13 10.55 41.67 3.02
787 2985 2.176055 GCGCGTCTCGAGTCTTGA 59.824 61.111 13.13 0.00 41.67 3.02
788 2986 3.234041 CGCGCGTCTCGAGTCTTG 61.234 66.667 24.19 3.14 41.67 3.02
798 2996 2.053725 AAAACGTTGACGCGCGTC 60.054 55.556 46.11 46.11 44.43 5.19
799 2997 2.053725 GAAAACGTTGACGCGCGT 60.054 55.556 38.52 38.52 44.43 6.01
800 2998 2.450050 TACGAAAACGTTGACGCGCG 62.450 55.000 30.96 30.96 44.43 6.86
801 2999 0.779561 CTACGAAAACGTTGACGCGC 60.780 55.000 21.27 0.00 44.43 6.86
802 3000 0.779561 GCTACGAAAACGTTGACGCG 60.780 55.000 21.27 3.53 44.43 6.01
803 3001 0.230260 TGCTACGAAAACGTTGACGC 59.770 50.000 21.27 11.15 44.43 5.19
804 3002 1.519758 AGTGCTACGAAAACGTTGACG 59.480 47.619 20.25 20.25 46.33 4.35
805 3003 4.898328 ATAGTGCTACGAAAACGTTGAC 57.102 40.909 0.00 0.00 0.00 3.18
806 3004 9.949174 TTATATATAGTGCTACGAAAACGTTGA 57.051 29.630 0.00 0.00 0.00 3.18
807 3005 9.984919 GTTATATATAGTGCTACGAAAACGTTG 57.015 33.333 0.00 0.00 0.00 4.10
808 3006 9.734620 TGTTATATATAGTGCTACGAAAACGTT 57.265 29.630 0.00 0.00 0.00 3.99
809 3007 9.173939 GTGTTATATATAGTGCTACGAAAACGT 57.826 33.333 0.00 0.00 0.00 3.99
810 3008 9.172820 TGTGTTATATATAGTGCTACGAAAACG 57.827 33.333 0.00 0.00 0.00 3.60
813 3011 9.454585 GTGTGTGTTATATATAGTGCTACGAAA 57.545 33.333 0.00 0.00 0.00 3.46
814 3012 8.623030 TGTGTGTGTTATATATAGTGCTACGAA 58.377 33.333 0.00 0.00 0.00 3.85
815 3013 8.156994 TGTGTGTGTTATATATAGTGCTACGA 57.843 34.615 0.00 0.00 0.00 3.43
816 3014 7.060748 GCTGTGTGTGTTATATATAGTGCTACG 59.939 40.741 0.00 0.00 0.00 3.51
817 3015 8.082852 AGCTGTGTGTGTTATATATAGTGCTAC 58.917 37.037 0.00 0.00 0.00 3.58
818 3016 8.178313 AGCTGTGTGTGTTATATATAGTGCTA 57.822 34.615 0.00 0.00 0.00 3.49
819 3017 7.055667 AGCTGTGTGTGTTATATATAGTGCT 57.944 36.000 0.00 0.00 0.00 4.40
820 3018 6.923508 TGAGCTGTGTGTGTTATATATAGTGC 59.076 38.462 0.00 0.00 0.00 4.40
821 3019 8.755941 GTTGAGCTGTGTGTGTTATATATAGTG 58.244 37.037 0.00 0.00 0.00 2.74
822 3020 7.926555 GGTTGAGCTGTGTGTGTTATATATAGT 59.073 37.037 0.00 0.00 0.00 2.12
823 3021 7.926018 TGGTTGAGCTGTGTGTGTTATATATAG 59.074 37.037 0.00 0.00 0.00 1.31
824 3022 7.787028 TGGTTGAGCTGTGTGTGTTATATATA 58.213 34.615 0.00 0.00 0.00 0.86
825 3023 6.649155 TGGTTGAGCTGTGTGTGTTATATAT 58.351 36.000 0.00 0.00 0.00 0.86
826 3024 6.043854 TGGTTGAGCTGTGTGTGTTATATA 57.956 37.500 0.00 0.00 0.00 0.86
827 3025 4.905429 TGGTTGAGCTGTGTGTGTTATAT 58.095 39.130 0.00 0.00 0.00 0.86
828 3026 4.344359 TGGTTGAGCTGTGTGTGTTATA 57.656 40.909 0.00 0.00 0.00 0.98
829 3027 3.207265 TGGTTGAGCTGTGTGTGTTAT 57.793 42.857 0.00 0.00 0.00 1.89
830 3028 2.700722 TGGTTGAGCTGTGTGTGTTA 57.299 45.000 0.00 0.00 0.00 2.41
831 3029 2.057137 ATGGTTGAGCTGTGTGTGTT 57.943 45.000 0.00 0.00 0.00 3.32
832 3030 2.057137 AATGGTTGAGCTGTGTGTGT 57.943 45.000 0.00 0.00 0.00 3.72
833 3031 3.374745 GAAAATGGTTGAGCTGTGTGTG 58.625 45.455 0.00 0.00 0.00 3.82
834 3032 2.033299 CGAAAATGGTTGAGCTGTGTGT 59.967 45.455 0.00 0.00 0.00 3.72
835 3033 2.033299 ACGAAAATGGTTGAGCTGTGTG 59.967 45.455 0.00 0.00 0.00 3.82
836 3034 2.033299 CACGAAAATGGTTGAGCTGTGT 59.967 45.455 0.00 0.00 0.00 3.72
837 3035 2.653890 CACGAAAATGGTTGAGCTGTG 58.346 47.619 0.00 0.00 0.00 3.66
838 3036 1.001378 GCACGAAAATGGTTGAGCTGT 60.001 47.619 0.00 0.00 0.00 4.40
839 3037 1.267806 AGCACGAAAATGGTTGAGCTG 59.732 47.619 0.00 0.00 0.00 4.24
840 3038 1.537202 GAGCACGAAAATGGTTGAGCT 59.463 47.619 0.00 0.00 0.00 4.09
841 3039 1.266718 TGAGCACGAAAATGGTTGAGC 59.733 47.619 0.00 0.00 0.00 4.26
842 3040 3.250762 TCTTGAGCACGAAAATGGTTGAG 59.749 43.478 0.00 0.00 0.00 3.02
843 3041 3.003275 GTCTTGAGCACGAAAATGGTTGA 59.997 43.478 0.00 0.00 0.00 3.18
844 3042 3.003689 AGTCTTGAGCACGAAAATGGTTG 59.996 43.478 0.00 0.00 0.00 3.77
845 3043 3.214328 AGTCTTGAGCACGAAAATGGTT 58.786 40.909 0.00 0.00 0.00 3.67
846 3044 2.808543 GAGTCTTGAGCACGAAAATGGT 59.191 45.455 0.00 0.00 0.00 3.55
847 3045 2.159787 CGAGTCTTGAGCACGAAAATGG 60.160 50.000 0.00 0.00 0.00 3.16
848 3046 2.731451 TCGAGTCTTGAGCACGAAAATG 59.269 45.455 0.00 0.00 0.00 2.32
849 3047 2.989840 CTCGAGTCTTGAGCACGAAAAT 59.010 45.455 3.62 0.00 32.85 1.82
850 3048 2.034179 TCTCGAGTCTTGAGCACGAAAA 59.966 45.455 13.13 0.00 33.41 2.29
851 3049 1.607148 TCTCGAGTCTTGAGCACGAAA 59.393 47.619 13.13 0.00 33.41 3.46
852 3050 1.069159 GTCTCGAGTCTTGAGCACGAA 60.069 52.381 13.13 0.00 33.41 3.85
853 3051 0.517755 GTCTCGAGTCTTGAGCACGA 59.482 55.000 13.13 0.00 33.41 4.35
854 3052 0.791238 CGTCTCGAGTCTTGAGCACG 60.791 60.000 13.13 19.04 33.85 5.34
855 3053 1.068287 GCGTCTCGAGTCTTGAGCAC 61.068 60.000 13.13 9.88 33.41 4.40
856 3054 1.210413 GCGTCTCGAGTCTTGAGCA 59.790 57.895 13.13 0.00 33.41 4.26
857 3055 1.865622 CGCGTCTCGAGTCTTGAGC 60.866 63.158 13.13 8.99 41.67 4.26
858 3056 1.865622 GCGCGTCTCGAGTCTTGAG 60.866 63.158 13.13 10.55 41.67 3.02
859 3057 2.176055 GCGCGTCTCGAGTCTTGA 59.824 61.111 13.13 0.00 41.67 3.02
860 3058 3.234041 CGCGCGTCTCGAGTCTTG 61.234 66.667 24.19 3.14 41.67 3.02
871 3069 3.392440 GAAGACGTTGACGCGCGT 61.392 61.111 38.52 38.52 44.43 6.01
872 3070 4.449161 CGAAGACGTTGACGCGCG 62.449 66.667 30.96 30.96 44.43 6.86
882 3080 8.225777 TGTGTTATATATAGTGCTACGAAGACG 58.774 37.037 0.00 0.00 45.75 4.18
883 3081 9.327529 GTGTGTTATATATAGTGCTACGAAGAC 57.672 37.037 0.00 0.00 0.00 3.01
884 3082 9.059260 TGTGTGTTATATATAGTGCTACGAAGA 57.941 33.333 0.00 0.00 0.00 2.87
885 3083 9.114965 GTGTGTGTTATATATAGTGCTACGAAG 57.885 37.037 0.00 0.00 0.00 3.79
886 3084 8.623030 TGTGTGTGTTATATATAGTGCTACGAA 58.377 33.333 0.00 0.00 0.00 3.85
887 3085 8.156994 TGTGTGTGTTATATATAGTGCTACGA 57.843 34.615 0.00 0.00 0.00 3.43
888 3086 7.060748 GCTGTGTGTGTTATATATAGTGCTACG 59.939 40.741 0.00 0.00 0.00 3.51
889 3087 8.082852 AGCTGTGTGTGTTATATATAGTGCTAC 58.917 37.037 0.00 0.00 0.00 3.58
890 3088 8.178313 AGCTGTGTGTGTTATATATAGTGCTA 57.822 34.615 0.00 0.00 0.00 3.49
891 3089 7.055667 AGCTGTGTGTGTTATATATAGTGCT 57.944 36.000 0.00 0.00 0.00 4.40
892 3090 6.923508 TGAGCTGTGTGTGTTATATATAGTGC 59.076 38.462 0.00 0.00 0.00 4.40
893 3091 8.755941 GTTGAGCTGTGTGTGTTATATATAGTG 58.244 37.037 0.00 0.00 0.00 2.74
894 3092 7.926555 GGTTGAGCTGTGTGTGTTATATATAGT 59.073 37.037 0.00 0.00 0.00 2.12
895 3093 7.926018 TGGTTGAGCTGTGTGTGTTATATATAG 59.074 37.037 0.00 0.00 0.00 1.31
896 3094 7.787028 TGGTTGAGCTGTGTGTGTTATATATA 58.213 34.615 0.00 0.00 0.00 0.86
897 3095 6.649155 TGGTTGAGCTGTGTGTGTTATATAT 58.351 36.000 0.00 0.00 0.00 0.86
898 3096 6.043854 TGGTTGAGCTGTGTGTGTTATATA 57.956 37.500 0.00 0.00 0.00 0.86
899 3097 4.905429 TGGTTGAGCTGTGTGTGTTATAT 58.095 39.130 0.00 0.00 0.00 0.86
900 3098 4.344359 TGGTTGAGCTGTGTGTGTTATA 57.656 40.909 0.00 0.00 0.00 0.98
901 3099 3.207265 TGGTTGAGCTGTGTGTGTTAT 57.793 42.857 0.00 0.00 0.00 1.89
902 3100 2.700722 TGGTTGAGCTGTGTGTGTTA 57.299 45.000 0.00 0.00 0.00 2.41
903 3101 2.057137 ATGGTTGAGCTGTGTGTGTT 57.943 45.000 0.00 0.00 0.00 3.32
904 3102 2.057137 AATGGTTGAGCTGTGTGTGT 57.943 45.000 0.00 0.00 0.00 3.72
905 3103 3.374745 GAAAATGGTTGAGCTGTGTGTG 58.625 45.455 0.00 0.00 0.00 3.82
906 3104 2.033299 CGAAAATGGTTGAGCTGTGTGT 59.967 45.455 0.00 0.00 0.00 3.72
907 3105 2.033299 ACGAAAATGGTTGAGCTGTGTG 59.967 45.455 0.00 0.00 0.00 3.82
908 3106 2.033299 CACGAAAATGGTTGAGCTGTGT 59.967 45.455 0.00 0.00 0.00 3.72
909 3107 2.653890 CACGAAAATGGTTGAGCTGTG 58.346 47.619 0.00 0.00 0.00 3.66
910 3108 1.001378 GCACGAAAATGGTTGAGCTGT 60.001 47.619 0.00 0.00 0.00 4.40
911 3109 1.267806 AGCACGAAAATGGTTGAGCTG 59.732 47.619 0.00 0.00 0.00 4.24
912 3110 1.537202 GAGCACGAAAATGGTTGAGCT 59.463 47.619 0.00 0.00 0.00 4.09
913 3111 1.266718 TGAGCACGAAAATGGTTGAGC 59.733 47.619 0.00 0.00 0.00 4.26
914 3112 3.250762 TCTTGAGCACGAAAATGGTTGAG 59.749 43.478 0.00 0.00 0.00 3.02
915 3113 3.003275 GTCTTGAGCACGAAAATGGTTGA 59.997 43.478 0.00 0.00 0.00 3.18
916 3114 3.003689 AGTCTTGAGCACGAAAATGGTTG 59.996 43.478 0.00 0.00 0.00 3.77
917 3115 3.214328 AGTCTTGAGCACGAAAATGGTT 58.786 40.909 0.00 0.00 0.00 3.67
918 3116 2.808543 GAGTCTTGAGCACGAAAATGGT 59.191 45.455 0.00 0.00 0.00 3.55
919 3117 2.159787 CGAGTCTTGAGCACGAAAATGG 60.160 50.000 0.00 0.00 0.00 3.16
920 3118 2.731451 TCGAGTCTTGAGCACGAAAATG 59.269 45.455 0.00 0.00 0.00 2.32
921 3119 2.989840 CTCGAGTCTTGAGCACGAAAAT 59.010 45.455 3.62 0.00 32.85 1.82
922 3120 2.034179 TCTCGAGTCTTGAGCACGAAAA 59.966 45.455 13.13 0.00 33.41 2.29
923 3121 1.607148 TCTCGAGTCTTGAGCACGAAA 59.393 47.619 13.13 0.00 33.41 3.46
924 3122 1.069159 GTCTCGAGTCTTGAGCACGAA 60.069 52.381 13.13 0.00 33.41 3.85
925 3123 0.517755 GTCTCGAGTCTTGAGCACGA 59.482 55.000 13.13 0.00 33.41 4.35
926 3124 0.455295 GGTCTCGAGTCTTGAGCACG 60.455 60.000 13.13 0.00 33.41 5.34
927 3125 0.598562 TGGTCTCGAGTCTTGAGCAC 59.401 55.000 13.13 10.47 34.00 4.40
1116 3314 4.465305 CCTCCTGGAGCTTTGAAAATGATT 59.535 41.667 18.51 0.00 34.57 2.57
1172 3370 4.497507 CGATGAGAATGCCGTAGTACAAGA 60.498 45.833 0.38 0.00 0.00 3.02
1302 3500 0.175760 CAATGACGATGACGAGGGGT 59.824 55.000 0.00 0.00 42.66 4.95
1318 3516 1.966762 CAAAGCCTCCCAACGCAAT 59.033 52.632 0.00 0.00 0.00 3.56
1451 3649 1.202675 TGAAACGTAAACCTCGGGCTT 60.203 47.619 0.00 0.00 0.00 4.35
1455 3653 5.851047 AACTAATGAAACGTAAACCTCGG 57.149 39.130 0.00 0.00 0.00 4.63
1462 3660 6.056884 ACAGGTGGAAACTAATGAAACGTAA 58.943 36.000 0.00 0.00 0.00 3.18
1778 6622 2.125350 GGCCAGGCAAGACTCGAG 60.125 66.667 15.19 11.84 0.00 4.04
1842 7985 1.295423 GGGAAGGAGCGCAACACTA 59.705 57.895 11.47 0.00 0.00 2.74
1846 7989 2.282180 TTGGGGAAGGAGCGCAAC 60.282 61.111 11.47 0.54 0.00 4.17
1848 7991 4.697756 CGTTGGGGAAGGAGCGCA 62.698 66.667 11.47 0.00 0.00 6.09
1891 8035 7.943079 TCCTGTTGATGTGATATTCAAATGT 57.057 32.000 0.00 0.00 33.90 2.71
1910 8054 5.254032 AGAAGAAATTCCCTAACCATCCTGT 59.746 40.000 0.00 0.00 0.00 4.00
1952 8096 1.271856 TGGGCTATTTGGACGACTCA 58.728 50.000 0.00 0.00 0.00 3.41
1980 8124 2.912624 GCTTGGCGATGCATAGGGC 61.913 63.158 14.65 14.65 45.13 5.19
1986 8130 2.759191 CTAGAATAGCTTGGCGATGCA 58.241 47.619 9.22 0.00 0.00 3.96
2204 8354 0.736325 CGGCTACCAACTTCCGACAG 60.736 60.000 0.00 0.00 44.23 3.51


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

AutoCloner maintained by Alex Coulton.