Multiple sequence alignment - TraesCS5D01G275900

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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 TraesCS5D01G275900 chr5D 100.000 4205 0 0 1 4205 378476309 378472105 0.000000e+00 7766.0
1 TraesCS5D01G275900 chr5D 98.907 732 6 2 922 1653 378613742 378614471 0.000000e+00 1306.0
2 TraesCS5D01G275900 chr5D 87.156 218 16 2 3337 3548 378472759 378472970 1.950000e-58 237.0
3 TraesCS5D01G275900 chr5D 96.296 54 2 0 734 787 386868125 386868178 5.790000e-14 89.8
4 TraesCS5D01G275900 chr5D 78.986 138 20 8 3416 3548 510477460 510477593 7.490000e-13 86.1
5 TraesCS5D01G275900 chr5B 98.912 2482 19 2 811 3286 451632839 451630360 0.000000e+00 4427.0
6 TraesCS5D01G275900 chr5B 94.566 2466 64 32 922 3339 452632651 452635094 0.000000e+00 3747.0
7 TraesCS5D01G275900 chr5B 99.205 1760 14 0 811 2570 452233923 452232164 0.000000e+00 3173.0
8 TraesCS5D01G275900 chr5B 94.118 782 27 10 2577 3341 452231722 452230943 0.000000e+00 1171.0
9 TraesCS5D01G275900 chr5B 97.325 486 12 1 1 486 451633793 451633309 0.000000e+00 824.0
10 TraesCS5D01G275900 chr5B 96.708 486 15 1 1 486 452234876 452234392 0.000000e+00 808.0
11 TraesCS5D01G275900 chr5B 100.000 431 0 0 2112 2542 452232153 452231723 0.000000e+00 797.0
12 TraesCS5D01G275900 chr5B 95.588 408 12 4 3445 3852 451615940 451615539 0.000000e+00 649.0
13 TraesCS5D01G275900 chr5B 96.866 351 7 4 3856 4205 451615562 451615215 6.060000e-163 584.0
14 TraesCS5D01G275900 chr5B 99.600 250 1 0 484 733 451633109 451632860 1.380000e-124 457.0
15 TraesCS5D01G275900 chr5B 99.200 250 2 0 484 733 452234193 452233944 6.410000e-123 451.0
16 TraesCS5D01G275900 chr5B 98.667 150 2 0 3282 3431 451616151 451616002 2.490000e-67 267.0
17 TraesCS5D01G275900 chr5B 92.701 137 9 1 3547 3682 452230947 452230811 3.320000e-46 196.0
18 TraesCS5D01G275900 chr6B 84.372 979 123 14 1567 2524 599399167 599398198 0.000000e+00 933.0
19 TraesCS5D01G275900 chr6B 90.485 515 49 0 961 1475 599399680 599399166 0.000000e+00 680.0
20 TraesCS5D01G275900 chr6D 83.929 840 105 16 1696 2524 400463172 400462352 0.000000e+00 776.0
21 TraesCS5D01G275900 chr6D 86.338 527 65 6 953 1475 400470948 400470425 6.100000e-158 568.0
22 TraesCS5D01G275900 chr6D 95.455 66 3 0 734 799 14594018 14594083 5.750000e-19 106.0
23 TraesCS5D01G275900 chr6A 85.853 516 59 7 1973 2482 546476772 546476265 1.720000e-148 536.0
24 TraesCS5D01G275900 chr6A 89.803 304 30 1 962 1264 546477075 546476772 5.100000e-104 388.0
25 TraesCS5D01G275900 chr1B 85.232 237 7 8 3340 3548 240493595 240493359 7.080000e-53 219.0
26 TraesCS5D01G275900 chr1B 92.308 104 8 0 3338 3441 400886887 400886990 9.420000e-32 148.0
27 TraesCS5D01G275900 chr2D 82.773 238 13 6 3339 3548 645152961 645152724 2.000000e-43 187.0
28 TraesCS5D01G275900 chr2D 93.860 114 6 1 3445 3557 74280972 74281085 2.010000e-38 171.0
29 TraesCS5D01G275900 chr2D 86.131 137 11 4 3337 3466 36746179 36746044 1.580000e-29 141.0
30 TraesCS5D01G275900 chr2D 95.385 65 3 0 734 798 521589327 521589263 2.070000e-18 104.0
31 TraesCS5D01G275900 chr2D 92.424 66 5 0 734 799 11804920 11804855 1.240000e-15 95.3
32 TraesCS5D01G275900 chr1A 82.329 249 11 9 3337 3552 90725684 90725932 7.180000e-43 185.0
33 TraesCS5D01G275900 chr4A 86.503 163 16 6 3390 3548 647205405 647205565 1.550000e-39 174.0
34 TraesCS5D01G275900 chr4A 95.370 108 5 0 3445 3552 604459983 604460090 5.590000e-39 172.0
35 TraesCS5D01G275900 chr5A 93.103 116 7 1 3445 3560 253612491 253612605 7.230000e-38 169.0
36 TraesCS5D01G275900 chr4D 94.175 103 6 0 3338 3440 350292171 350292069 1.570000e-34 158.0
37 TraesCS5D01G275900 chr3A 92.453 106 8 0 3337 3442 739386706 739386811 7.280000e-33 152.0
38 TraesCS5D01G275900 chr3D 89.916 119 3 3 3340 3451 452654367 452654251 1.220000e-30 145.0
39 TraesCS5D01G275900 chrUn 93.846 65 4 0 734 798 81840377 81840441 9.620000e-17 99.0
40 TraesCS5D01G275900 chr7B 100.000 40 0 0 734 773 610548652 610548691 1.620000e-09 75.0


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 TraesCS5D01G275900 chr5D 378472105 378476309 4204 True 7766.000000 7766 100.000000 1 4205 1 chr5D.!!$R1 4204
1 TraesCS5D01G275900 chr5D 378613742 378614471 729 False 1306.000000 1306 98.907000 922 1653 1 chr5D.!!$F2 731
2 TraesCS5D01G275900 chr5B 452632651 452635094 2443 False 3747.000000 3747 94.566000 922 3339 1 chr5B.!!$F1 2417
3 TraesCS5D01G275900 chr5B 451630360 451633793 3433 True 1902.666667 4427 98.612333 1 3286 3 chr5B.!!$R2 3285
4 TraesCS5D01G275900 chr5B 452230811 452234876 4065 True 1099.333333 3173 96.988667 1 3682 6 chr5B.!!$R3 3681
5 TraesCS5D01G275900 chr5B 451615215 451616151 936 True 500.000000 649 97.040333 3282 4205 3 chr5B.!!$R1 923
6 TraesCS5D01G275900 chr6B 599398198 599399680 1482 True 806.500000 933 87.428500 961 2524 2 chr6B.!!$R1 1563
7 TraesCS5D01G275900 chr6D 400462352 400463172 820 True 776.000000 776 83.929000 1696 2524 1 chr6D.!!$R1 828
8 TraesCS5D01G275900 chr6D 400470425 400470948 523 True 568.000000 568 86.338000 953 1475 1 chr6D.!!$R2 522
9 TraesCS5D01G275900 chr6A 546476265 546477075 810 True 462.000000 536 87.828000 962 2482 2 chr6A.!!$R1 1520

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
754 957 0.036010 AACTGATCTGTTGAGCGGGG 60.036 55.0 16.26 0.0 39.14 5.73 F
838 1050 0.041684 CTTTCCCTTGCATTCCCCCT 59.958 55.0 0.00 0.0 0.00 4.79 F
1836 2058 0.379669 CATGGGTCAATCTTGCTCGC 59.620 55.0 0.00 0.0 0.00 5.03 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1929 2154 1.134580 CGACTGCATCTTGGATCACCT 60.135 52.381 0.00 0.00 37.04 4.00 R
2810 3489 3.062763 CTGGCGAGTATTCCATCATCAC 58.937 50.000 0.00 0.00 0.00 3.06 R
3632 4415 0.179081 CGGGCCTTTAGGACTAGTGC 60.179 60.000 6.22 6.22 44.77 4.40 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
137 138 3.278668 TCTAGAGAGGTGGAGGTAACG 57.721 52.381 0.00 0.00 46.39 3.18
141 142 1.988406 GAGGTGGAGGTAACGGGCT 60.988 63.158 0.00 0.00 46.39 5.19
148 149 2.671619 GGTAACGGGCTGCTGCAA 60.672 61.111 17.89 0.00 41.91 4.08
191 192 3.192466 GACACGACAACAGGTAAACAGT 58.808 45.455 0.00 0.00 0.00 3.55
411 412 7.568349 TGCTTGTGAGACCTTATGAATCTATT 58.432 34.615 0.00 0.00 0.00 1.73
417 418 8.940952 GTGAGACCTTATGAATCTATTTATGCC 58.059 37.037 0.00 0.00 0.00 4.40
471 472 7.081349 TGATTTTTGTTATTGTCTAGTTGCCG 58.919 34.615 0.00 0.00 0.00 5.69
741 944 2.571757 TCGCCGCTCGAAACTGAT 59.428 55.556 0.00 0.00 45.36 2.90
742 945 1.516386 TCGCCGCTCGAAACTGATC 60.516 57.895 0.00 0.00 45.36 2.92
743 946 1.517257 CGCCGCTCGAAACTGATCT 60.517 57.895 0.00 0.00 41.67 2.75
744 947 1.746727 CGCCGCTCGAAACTGATCTG 61.747 60.000 0.00 0.00 41.67 2.90
745 948 0.737715 GCCGCTCGAAACTGATCTGT 60.738 55.000 0.00 0.00 0.00 3.41
746 949 1.714794 CCGCTCGAAACTGATCTGTT 58.285 50.000 11.82 11.82 0.00 3.16
747 950 1.391485 CCGCTCGAAACTGATCTGTTG 59.609 52.381 17.51 7.46 0.00 3.33
748 951 2.328473 CGCTCGAAACTGATCTGTTGA 58.672 47.619 17.51 10.94 0.00 3.18
749 952 2.343843 CGCTCGAAACTGATCTGTTGAG 59.656 50.000 17.51 18.93 0.00 3.02
750 953 2.093467 GCTCGAAACTGATCTGTTGAGC 59.907 50.000 26.99 26.99 38.15 4.26
751 954 2.328473 TCGAAACTGATCTGTTGAGCG 58.672 47.619 17.51 18.92 0.00 5.03
752 955 1.391485 CGAAACTGATCTGTTGAGCGG 59.609 52.381 17.51 3.68 40.54 5.52
753 956 1.734465 GAAACTGATCTGTTGAGCGGG 59.266 52.381 17.51 0.00 39.14 6.13
754 957 0.036010 AACTGATCTGTTGAGCGGGG 60.036 55.000 16.26 0.00 39.14 5.73
755 958 1.817099 CTGATCTGTTGAGCGGGGC 60.817 63.158 0.00 0.00 31.78 5.80
756 959 2.892425 GATCTGTTGAGCGGGGCG 60.892 66.667 0.00 0.00 0.00 6.13
757 960 3.371097 GATCTGTTGAGCGGGGCGA 62.371 63.158 0.00 0.00 0.00 5.54
758 961 2.650813 GATCTGTTGAGCGGGGCGAT 62.651 60.000 0.00 0.00 0.00 4.58
759 962 2.650813 ATCTGTTGAGCGGGGCGATC 62.651 60.000 0.00 0.00 42.86 3.69
760 963 4.467084 TGTTGAGCGGGGCGATCC 62.467 66.667 0.00 0.00 41.81 3.36
793 996 2.434884 CGCGTGCCAAGGAGTCAT 60.435 61.111 0.00 0.00 0.00 3.06
794 997 2.034879 CGCGTGCCAAGGAGTCATT 61.035 57.895 0.00 0.00 0.00 2.57
795 998 1.577328 CGCGTGCCAAGGAGTCATTT 61.577 55.000 0.00 0.00 0.00 2.32
796 999 0.169009 GCGTGCCAAGGAGTCATTTC 59.831 55.000 0.00 0.00 0.00 2.17
797 1000 0.443869 CGTGCCAAGGAGTCATTTCG 59.556 55.000 0.00 0.00 0.00 3.46
798 1001 0.169009 GTGCCAAGGAGTCATTTCGC 59.831 55.000 0.00 0.00 0.00 4.70
838 1050 0.041684 CTTTCCCTTGCATTCCCCCT 59.958 55.000 0.00 0.00 0.00 4.79
933 1151 8.335484 TGATAGAGTGATAGATTGCTCCTCTAT 58.665 37.037 0.00 0.00 41.21 1.98
1550 1772 2.759973 CCCTCGTAGCTCCAGCCA 60.760 66.667 0.00 0.00 43.38 4.75
1836 2058 0.379669 CATGGGTCAATCTTGCTCGC 59.620 55.000 0.00 0.00 0.00 5.03
1928 2150 1.229209 AGAGCGAGGGAGTTGGGAA 60.229 57.895 0.00 0.00 0.00 3.97
1929 2154 0.836400 AGAGCGAGGGAGTTGGGAAA 60.836 55.000 0.00 0.00 0.00 3.13
2647 3326 5.071923 ACATGCTAGGGGAAAATACTAGTCC 59.928 44.000 0.00 0.00 37.20 3.85
2810 3489 4.389992 CACGGTCAAATGCCTGCTATATAG 59.610 45.833 5.30 5.30 0.00 1.31
2961 3643 2.299993 TATGGAGCTCTGCGTTCTTG 57.700 50.000 14.64 0.00 0.00 3.02
3169 3893 2.295349 GTCTCCACCGTAACTTGTCTGA 59.705 50.000 0.00 0.00 0.00 3.27
3346 4081 5.278061 AGTTGATGTAACTCTTAGGCCCTA 58.722 41.667 0.00 0.00 46.55 3.53
3399 4134 3.389329 TCACTTTGCCCAAAAAGCCATAA 59.611 39.130 0.00 0.00 40.20 1.90
3431 4166 7.740837 CCTAAATAGGTGCTTTTGGAGCTTTTT 60.741 37.037 9.13 9.13 46.28 1.94
3493 4276 6.759497 TTTAGGAGCTTCTATGGCTTTTTC 57.241 37.500 1.53 0.00 40.40 2.29
3540 4323 3.270027 AGAAGCAAAAGCCCAAACAAAC 58.730 40.909 0.00 0.00 0.00 2.93
3609 4392 4.695217 TCTTGTGTTGTTGGACTTGTTC 57.305 40.909 0.00 0.00 0.00 3.18
3632 4415 6.954944 TCTGTGGATTCTTTTGTTTACTTCG 58.045 36.000 0.00 0.00 0.00 3.79
3650 4433 0.179081 CGCACTAGTCCTAAAGGCCC 60.179 60.000 0.00 0.00 34.44 5.80
3726 4510 6.032094 CGTCGTATAGATAAACACACCAACT 58.968 40.000 0.00 0.00 0.00 3.16
3790 4574 3.181487 ACAAGCATGTGTGTTGGAACTTC 60.181 43.478 0.00 0.00 38.69 3.01
3795 4579 3.804786 TGTGTGTTGGAACTTCGTAGA 57.195 42.857 0.00 0.00 0.00 2.59
3796 4580 4.330944 TGTGTGTTGGAACTTCGTAGAT 57.669 40.909 0.00 0.00 35.04 1.98
3797 4581 5.456548 TGTGTGTTGGAACTTCGTAGATA 57.543 39.130 0.00 0.00 35.04 1.98
3798 4582 5.466819 TGTGTGTTGGAACTTCGTAGATAG 58.533 41.667 0.00 0.00 35.04 2.08
3799 4583 4.326548 GTGTGTTGGAACTTCGTAGATAGC 59.673 45.833 0.00 0.00 35.04 2.97
3800 4584 3.864003 GTGTTGGAACTTCGTAGATAGCC 59.136 47.826 0.00 0.00 35.04 3.93
3841 4625 0.037590 ACAGGAATAAACGCTGGGCA 59.962 50.000 0.00 0.00 0.00 5.36
3842 4626 1.173043 CAGGAATAAACGCTGGGCAA 58.827 50.000 0.00 0.00 0.00 4.52
3843 4627 1.135402 CAGGAATAAACGCTGGGCAAC 60.135 52.381 0.00 0.00 0.00 4.17
3844 4628 1.173913 GGAATAAACGCTGGGCAACT 58.826 50.000 0.00 0.00 0.00 3.16
3845 4629 1.135402 GGAATAAACGCTGGGCAACTG 60.135 52.381 0.00 0.00 0.00 3.16
3846 4630 0.887933 AATAAACGCTGGGCAACTGG 59.112 50.000 0.00 0.00 0.00 4.00
3847 4631 1.595093 ATAAACGCTGGGCAACTGGC 61.595 55.000 0.00 0.00 43.74 4.85
3860 4644 4.718940 GCAACTGGCCTGTTACATAAAT 57.281 40.909 25.57 0.53 36.11 1.40
3861 4645 4.423732 GCAACTGGCCTGTTACATAAATG 58.576 43.478 25.57 13.81 36.11 2.32
3862 4646 4.082245 GCAACTGGCCTGTTACATAAATGT 60.082 41.667 25.57 0.63 39.72 2.71
3863 4647 5.566627 GCAACTGGCCTGTTACATAAATGTT 60.567 40.000 25.57 0.00 38.21 2.71
3864 4648 5.643379 ACTGGCCTGTTACATAAATGTTG 57.357 39.130 9.88 0.00 41.97 3.33
3865 4649 4.462483 ACTGGCCTGTTACATAAATGTTGG 59.538 41.667 9.88 1.34 41.97 3.77
3866 4650 4.411927 TGGCCTGTTACATAAATGTTGGT 58.588 39.130 3.32 0.00 41.97 3.67
3867 4651 4.461081 TGGCCTGTTACATAAATGTTGGTC 59.539 41.667 3.32 2.23 41.97 4.02
4029 4813 7.811653 ACGTTTGTTTTCCAAATTTCAAACAT 58.188 26.923 21.22 10.68 44.50 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 4.504916 CTCCGTGGCGCTCTCCAG 62.505 72.222 7.64 0.00 36.67 3.86
141 142 1.374947 GTGTAGGGACCTTGCAGCA 59.625 57.895 0.00 0.00 0.00 4.41
148 149 0.620556 CAAGGCATGTGTAGGGACCT 59.379 55.000 0.00 0.00 0.00 3.85
191 192 0.033504 GTCCGCTTCTGACTGGTTCA 59.966 55.000 0.00 0.00 0.00 3.18
372 373 5.422012 TCTCACAAGCAACATAGTCCTATCA 59.578 40.000 0.00 0.00 0.00 2.15
384 385 5.645497 AGATTCATAAGGTCTCACAAGCAAC 59.355 40.000 0.00 0.00 0.00 4.17
411 412 4.320023 ACAACATGTAAGTGACGGCATAA 58.680 39.130 0.00 0.00 0.00 1.90
417 418 5.465390 CCCCATATACAACATGTAAGTGACG 59.535 44.000 12.65 0.00 36.31 4.35
522 725 7.727578 TGTCCCTCACAGTGTAAATAGATTA 57.272 36.000 0.00 0.00 0.00 1.75
733 936 1.734465 CCCGCTCAACAGATCAGTTTC 59.266 52.381 0.00 0.00 0.00 2.78
734 937 1.611673 CCCCGCTCAACAGATCAGTTT 60.612 52.381 0.00 0.00 0.00 2.66
735 938 0.036010 CCCCGCTCAACAGATCAGTT 60.036 55.000 0.00 0.00 0.00 3.16
736 939 1.599047 CCCCGCTCAACAGATCAGT 59.401 57.895 0.00 0.00 0.00 3.41
737 940 1.817099 GCCCCGCTCAACAGATCAG 60.817 63.158 0.00 0.00 0.00 2.90
738 941 2.268920 GCCCCGCTCAACAGATCA 59.731 61.111 0.00 0.00 0.00 2.92
739 942 2.650813 ATCGCCCCGCTCAACAGATC 62.651 60.000 0.00 0.00 0.00 2.75
740 943 2.650813 GATCGCCCCGCTCAACAGAT 62.651 60.000 0.00 0.00 0.00 2.90
741 944 3.371097 GATCGCCCCGCTCAACAGA 62.371 63.158 0.00 0.00 0.00 3.41
742 945 2.892425 GATCGCCCCGCTCAACAG 60.892 66.667 0.00 0.00 0.00 3.16
743 946 4.467084 GGATCGCCCCGCTCAACA 62.467 66.667 0.00 0.00 0.00 3.33
776 979 1.577328 AAATGACTCCTTGGCACGCG 61.577 55.000 3.53 3.53 35.90 6.01
777 980 0.169009 GAAATGACTCCTTGGCACGC 59.831 55.000 0.00 0.00 35.90 5.34
778 981 0.443869 CGAAATGACTCCTTGGCACG 59.556 55.000 0.00 0.00 35.90 5.34
779 982 0.169009 GCGAAATGACTCCTTGGCAC 59.831 55.000 0.00 0.00 35.90 5.01
780 983 0.250684 TGCGAAATGACTCCTTGGCA 60.251 50.000 0.00 0.00 38.56 4.92
781 984 1.098050 ATGCGAAATGACTCCTTGGC 58.902 50.000 0.00 0.00 0.00 4.52
782 985 2.285220 CGTATGCGAAATGACTCCTTGG 59.715 50.000 0.00 0.00 41.33 3.61
783 986 3.186909 TCGTATGCGAAATGACTCCTTG 58.813 45.455 2.49 0.00 44.92 3.61
784 987 3.520290 TCGTATGCGAAATGACTCCTT 57.480 42.857 2.49 0.00 44.92 3.36
795 998 0.752009 AGCCTCCTCTTCGTATGCGA 60.752 55.000 0.30 0.30 46.36 5.10
796 999 0.596083 CAGCCTCCTCTTCGTATGCG 60.596 60.000 0.00 0.00 39.92 4.73
797 1000 0.249657 CCAGCCTCCTCTTCGTATGC 60.250 60.000 0.00 0.00 0.00 3.14
798 1001 0.249657 GCCAGCCTCCTCTTCGTATG 60.250 60.000 0.00 0.00 0.00 2.39
810 1013 2.866015 AAGGGAAAGGGCCAGCCT 60.866 61.111 6.18 0.00 36.10 4.58
872 1084 2.808206 GGATCGGGATCGGGTTGCT 61.808 63.158 2.80 0.00 38.69 3.91
933 1151 1.204228 GCGCCGTCGATCGATACAAA 61.204 55.000 22.50 0.00 42.86 2.83
1836 2058 3.483922 GCACGTCACAGAAGAGAATATCG 59.516 47.826 0.00 0.00 0.00 2.92
1928 2150 2.679059 CGACTGCATCTTGGATCACCTT 60.679 50.000 0.00 0.00 37.04 3.50
1929 2154 1.134580 CGACTGCATCTTGGATCACCT 60.135 52.381 0.00 0.00 37.04 4.00
2810 3489 3.062763 CTGGCGAGTATTCCATCATCAC 58.937 50.000 0.00 0.00 0.00 3.06
2961 3643 7.807977 TCCCTATCAAATAAGACAGCATTTC 57.192 36.000 0.00 0.00 0.00 2.17
3169 3893 5.221803 CCATATAATCCACTTCTGAGCCACT 60.222 44.000 0.00 0.00 0.00 4.00
3346 4081 4.677514 GCAAAAGCAAAAGCCCAAACAAAT 60.678 37.500 0.00 0.00 0.00 2.32
3449 4184 7.740837 CCTAAATAGGTGCTTTTGGAGCTTTTT 60.741 37.037 9.13 9.13 46.28 1.94
3493 4276 0.940991 GCAGCTTTTCCACTTTGGCG 60.941 55.000 0.00 0.00 37.47 5.69
3540 4323 5.305644 AGACAACATAGATACTAAGGCCCTG 59.694 44.000 0.00 0.00 0.00 4.45
3609 4392 5.625311 GCGAAGTAAACAAAAGAATCCACAG 59.375 40.000 0.00 0.00 0.00 3.66
3632 4415 0.179081 CGGGCCTTTAGGACTAGTGC 60.179 60.000 6.22 6.22 44.77 4.40
3726 4510 2.731027 CGACGACGAACATTGATCTCCA 60.731 50.000 0.00 0.00 42.66 3.86
3766 4550 1.317613 TCCAACACACATGCTTGTCC 58.682 50.000 1.56 0.00 32.34 4.02
3790 4574 6.331061 GTTTATCATGTAGGGGCTATCTACG 58.669 44.000 0.00 0.00 39.78 3.51
3795 4579 4.223032 CGAGGTTTATCATGTAGGGGCTAT 59.777 45.833 0.00 0.00 0.00 2.97
3796 4580 3.576982 CGAGGTTTATCATGTAGGGGCTA 59.423 47.826 0.00 0.00 0.00 3.93
3797 4581 2.368875 CGAGGTTTATCATGTAGGGGCT 59.631 50.000 0.00 0.00 0.00 5.19
3798 4582 2.104281 ACGAGGTTTATCATGTAGGGGC 59.896 50.000 0.00 0.00 0.00 5.80
3799 4583 3.728845 CACGAGGTTTATCATGTAGGGG 58.271 50.000 0.00 0.00 0.00 4.79
3800 4584 3.131396 GCACGAGGTTTATCATGTAGGG 58.869 50.000 0.00 0.00 0.00 3.53
3841 4625 5.047377 CCAACATTTATGTAACAGGCCAGTT 60.047 40.000 18.35 18.35 40.80 3.16
3842 4626 4.462483 CCAACATTTATGTAACAGGCCAGT 59.538 41.667 5.01 0.00 40.80 4.00
3843 4627 4.462483 ACCAACATTTATGTAACAGGCCAG 59.538 41.667 5.01 0.00 40.80 4.85
3844 4628 4.411927 ACCAACATTTATGTAACAGGCCA 58.588 39.130 5.01 0.00 40.80 5.36
3845 4629 4.461081 TGACCAACATTTATGTAACAGGCC 59.539 41.667 0.00 0.00 40.80 5.19
3846 4630 5.637006 TGACCAACATTTATGTAACAGGC 57.363 39.130 0.00 0.00 40.80 4.85
3847 4631 7.083858 CAGTTGACCAACATTTATGTAACAGG 58.916 38.462 14.42 0.06 43.47 4.00
3848 4632 7.083858 CCAGTTGACCAACATTTATGTAACAG 58.916 38.462 14.42 0.00 43.47 3.16
3849 4633 6.515862 GCCAGTTGACCAACATTTATGTAACA 60.516 38.462 14.42 0.00 43.47 2.41
3850 4634 5.861787 GCCAGTTGACCAACATTTATGTAAC 59.138 40.000 14.42 0.00 43.47 2.50
3851 4635 5.047660 GGCCAGTTGACCAACATTTATGTAA 60.048 40.000 14.42 0.00 43.47 2.41
3852 4636 4.461081 GGCCAGTTGACCAACATTTATGTA 59.539 41.667 14.42 0.00 43.47 2.29
3853 4637 3.258123 GGCCAGTTGACCAACATTTATGT 59.742 43.478 14.42 0.00 43.47 2.29
3854 4638 3.511146 AGGCCAGTTGACCAACATTTATG 59.489 43.478 5.01 4.36 43.47 1.90
3855 4639 3.511146 CAGGCCAGTTGACCAACATTTAT 59.489 43.478 5.01 0.00 43.47 1.40
3856 4640 2.890311 CAGGCCAGTTGACCAACATTTA 59.110 45.455 5.01 0.00 43.47 1.40
3857 4641 1.688197 CAGGCCAGTTGACCAACATTT 59.312 47.619 5.01 0.00 43.47 2.32
3858 4642 1.331214 CAGGCCAGTTGACCAACATT 58.669 50.000 5.01 0.00 43.47 2.71
3859 4643 0.185901 ACAGGCCAGTTGACCAACAT 59.814 50.000 5.01 0.00 43.47 2.71
3860 4644 0.465460 GACAGGCCAGTTGACCAACA 60.465 55.000 5.01 0.00 43.47 3.33
3861 4645 0.465460 TGACAGGCCAGTTGACCAAC 60.465 55.000 5.01 4.81 41.45 3.77
3862 4646 0.179020 CTGACAGGCCAGTTGACCAA 60.179 55.000 5.01 0.00 0.00 3.67
3863 4647 1.344953 ACTGACAGGCCAGTTGACCA 61.345 55.000 5.01 0.00 44.32 4.02
3864 4648 0.886490 CACTGACAGGCCAGTTGACC 60.886 60.000 5.01 0.00 44.32 4.02
3865 4649 0.179045 ACACTGACAGGCCAGTTGAC 60.179 55.000 5.01 0.00 44.32 3.18
3866 4650 0.546122 AACACTGACAGGCCAGTTGA 59.454 50.000 5.01 0.00 44.32 3.18
3867 4651 0.664761 CAACACTGACAGGCCAGTTG 59.335 55.000 5.01 11.58 44.32 3.16


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

AutoCloner maintained by Alex Coulton.