Multiple sequence alignment - TraesCS6B01G279400

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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 TraesCS6B01G279400 chr6B 100.000 3263 0 0 364 3626 505683829 505680567 0.000000e+00 6026.0
1 TraesCS6B01G279400 chr6B 100.000 199 0 0 1 199 505684192 505683994 5.720000e-98 368.0
2 TraesCS6B01G279400 chr6A 92.730 3315 102 45 364 3583 456010907 456014177 0.000000e+00 4658.0
3 TraesCS6B01G279400 chr6A 85.714 217 7 10 1 193 456010658 456010874 1.320000e-49 207.0
4 TraesCS6B01G279400 chr6D 94.544 2786 77 39 366 3085 318453031 318455807 0.000000e+00 4233.0
5 TraesCS6B01G279400 chr6D 93.126 451 24 4 3139 3583 318455952 318456401 0.000000e+00 654.0
6 TraesCS6B01G279400 chr6D 89.024 164 5 4 1 164 318452771 318452921 1.330000e-44 191.0
7 TraesCS6B01G279400 chr6D 100.000 30 0 0 168 197 318452951 318452980 5.060000e-04 56.5
8 TraesCS6B01G279400 chr2D 88.910 1569 155 13 998 2561 518969245 518970799 0.000000e+00 1916.0
9 TraesCS6B01G279400 chr2A 88.471 1570 162 13 997 2561 663146779 663145224 0.000000e+00 1879.0
10 TraesCS6B01G279400 chr2A 91.268 355 30 1 1225 1579 10979571 10979924 1.960000e-132 483.0
11 TraesCS6B01G279400 chr2A 95.833 72 3 0 1112 1183 10979512 10979583 2.290000e-22 117.0
12 TraesCS6B01G279400 chr2B 87.758 1601 174 16 998 2587 611192214 611193803 0.000000e+00 1851.0
13 TraesCS6B01G279400 chr3A 78.922 612 105 21 1043 1639 617073452 617074054 9.440000e-106 394.0
14 TraesCS6B01G279400 chr3B 78.758 612 106 22 1043 1639 631048328 631048930 4.390000e-104 388.0
15 TraesCS6B01G279400 chr3D 78.268 612 97 26 1043 1639 474654761 474655351 9.570000e-96 361.0


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 TraesCS6B01G279400 chr6B 505680567 505684192 3625 True 3197.000 6026 100.0000 1 3626 2 chr6B.!!$R1 3625
1 TraesCS6B01G279400 chr6A 456010658 456014177 3519 False 2432.500 4658 89.2220 1 3583 2 chr6A.!!$F1 3582
2 TraesCS6B01G279400 chr6D 318452771 318456401 3630 False 1283.625 4233 94.1735 1 3583 4 chr6D.!!$F1 3582
3 TraesCS6B01G279400 chr2D 518969245 518970799 1554 False 1916.000 1916 88.9100 998 2561 1 chr2D.!!$F1 1563
4 TraesCS6B01G279400 chr2A 663145224 663146779 1555 True 1879.000 1879 88.4710 997 2561 1 chr2A.!!$R1 1564
5 TraesCS6B01G279400 chr2B 611192214 611193803 1589 False 1851.000 1851 87.7580 998 2587 1 chr2B.!!$F1 1589
6 TraesCS6B01G279400 chr3A 617073452 617074054 602 False 394.000 394 78.9220 1043 1639 1 chr3A.!!$F1 596
7 TraesCS6B01G279400 chr3B 631048328 631048930 602 False 388.000 388 78.7580 1043 1639 1 chr3B.!!$F1 596
8 TraesCS6B01G279400 chr3D 474654761 474655351 590 False 361.000 361 78.2680 1043 1639 1 chr3D.!!$F1 596

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
955 1074 0.167689 TACATACACGCACGCACGTA 59.832 50.0 2.78 0.0 46.34 3.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2838 2990 1.025041 GCAAAACGATCAGATCCCCC 58.975 55.0 4.73 0.0 0.0 5.4 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
57 63 1.520368 GCGTTATTGTTTCCGCTTCG 58.480 50.000 0.00 0.00 42.66 3.79
60 66 3.594312 CGTTATTGTTTCCGCTTCGATC 58.406 45.455 0.00 0.00 0.00 3.69
101 115 2.125229 CTGCACTGCATCGCCTCT 60.125 61.111 3.64 0.00 38.13 3.69
114 128 1.369091 CGCCTCTACCCATGCACAAC 61.369 60.000 0.00 0.00 0.00 3.32
115 129 0.322456 GCCTCTACCCATGCACAACA 60.322 55.000 0.00 0.00 0.00 3.33
164 178 0.195096 TGTACAGGGAAGGGAAGGGT 59.805 55.000 0.00 0.00 0.00 4.34
165 179 0.618981 GTACAGGGAAGGGAAGGGTG 59.381 60.000 0.00 0.00 0.00 4.61
166 180 1.205460 TACAGGGAAGGGAAGGGTGC 61.205 60.000 0.00 0.00 0.00 5.01
197 237 3.136123 GATGGACGGACGGACGGA 61.136 66.667 6.00 0.00 38.39 4.69
400 440 2.928396 CCCCCTCTCCACCGTTGT 60.928 66.667 0.00 0.00 0.00 3.32
401 441 2.526046 CCCCCTCTCCACCGTTGTT 61.526 63.158 0.00 0.00 0.00 2.83
402 442 1.302511 CCCCTCTCCACCGTTGTTG 60.303 63.158 0.00 0.00 0.00 3.33
403 443 1.302511 CCCTCTCCACCGTTGTTGG 60.303 63.158 0.00 0.00 0.00 3.77
405 445 1.450211 CTCTCCACCGTTGTTGGGT 59.550 57.895 0.00 0.00 38.65 4.51
406 446 0.682852 CTCTCCACCGTTGTTGGGTA 59.317 55.000 0.00 0.00 35.58 3.69
407 447 0.682852 TCTCCACCGTTGTTGGGTAG 59.317 55.000 0.00 0.00 35.58 3.18
409 449 1.969589 CCACCGTTGTTGGGTAGGC 60.970 63.158 0.00 0.00 35.58 3.93
410 450 1.228003 CACCGTTGTTGGGTAGGCA 60.228 57.895 0.00 0.00 35.58 4.75
412 452 1.674322 CCGTTGTTGGGTAGGCAGG 60.674 63.158 0.00 0.00 0.00 4.85
565 624 1.284715 CCCCCGTTTCTTCGTTTGC 59.715 57.895 0.00 0.00 0.00 3.68
612 689 6.809196 ACTAACACACGCAAAGAAATGAAAAA 59.191 30.769 0.00 0.00 0.00 1.94
638 715 2.373502 AGGAAAACACAAGGCTAGCTCT 59.626 45.455 15.72 7.30 0.00 4.09
690 786 7.479352 TCCTGCTATAGATCGTAGTAGTACT 57.521 40.000 17.96 8.14 32.17 2.73
691 787 7.321908 TCCTGCTATAGATCGTAGTAGTACTG 58.678 42.308 13.29 0.00 32.17 2.74
692 788 6.036300 CCTGCTATAGATCGTAGTAGTACTGC 59.964 46.154 13.29 10.66 32.17 4.40
693 789 5.873712 TGCTATAGATCGTAGTAGTACTGCC 59.126 44.000 13.29 2.70 0.00 4.85
694 790 5.294060 GCTATAGATCGTAGTAGTACTGCCC 59.706 48.000 13.29 3.03 0.00 5.36
764 861 1.066573 AGCCATCTCAACCAACTCTCG 60.067 52.381 0.00 0.00 0.00 4.04
822 919 2.452923 AAAACCCTAGTCTCCCCCTT 57.547 50.000 0.00 0.00 0.00 3.95
841 938 0.891449 TCCATCCTCCTCGATCGCTC 60.891 60.000 11.09 0.00 0.00 5.03
867 964 4.119862 CCATGTGGAGTCACTTATTACGG 58.880 47.826 0.00 0.00 43.94 4.02
916 1023 1.344496 CCCCTTGGATCCACTCTACCT 60.344 57.143 15.91 0.00 0.00 3.08
947 1066 2.184836 GCGGGGTACATACACGCA 59.815 61.111 19.10 0.00 46.22 5.24
948 1067 2.169146 GCGGGGTACATACACGCAC 61.169 63.158 19.10 0.00 46.22 5.34
949 1068 1.874915 CGGGGTACATACACGCACG 60.875 63.158 0.00 0.00 33.26 5.34
950 1069 2.169146 GGGGTACATACACGCACGC 61.169 63.158 0.00 0.00 33.26 5.34
951 1070 1.446445 GGGTACATACACGCACGCA 60.446 57.895 0.00 0.00 0.00 5.24
952 1071 1.689352 GGGTACATACACGCACGCAC 61.689 60.000 0.00 0.00 0.00 5.34
953 1072 1.339134 GTACATACACGCACGCACG 59.661 57.895 0.00 0.00 39.50 5.34
955 1074 0.167689 TACATACACGCACGCACGTA 59.832 50.000 2.78 0.00 46.34 3.57
956 1075 1.339134 CATACACGCACGCACGTAC 59.661 57.895 2.78 0.00 46.34 3.67
957 1076 2.147749 ATACACGCACGCACGTACG 61.148 57.895 15.01 15.01 46.34 3.67
994 1113 3.695747 GAGCTTGCTCCAGGGAGGC 62.696 68.421 16.70 11.43 42.19 4.70
1419 1548 2.049063 GCGCTCGAGTTCACCACT 60.049 61.111 15.13 0.00 39.07 4.00
1686 1815 0.909610 TCATCTTCCCGGAGTGCCTT 60.910 55.000 0.73 0.00 0.00 4.35
1708 1837 1.962822 CGCTGCAAGAAGTGGCTGA 60.963 57.895 0.00 0.00 34.07 4.26
1974 2112 0.827925 TCTTCTGGCTCGTGTCCACT 60.828 55.000 0.00 0.00 0.00 4.00
2145 2283 2.279073 CTCCGCCTCTACCCCTCA 59.721 66.667 0.00 0.00 0.00 3.86
2241 2379 3.757493 CGGTCACCTACTCCATATACTCC 59.243 52.174 0.00 0.00 0.00 3.85
2657 2804 4.479542 GCACGCGCCATGCATGAA 62.480 61.111 28.31 0.00 39.71 2.57
2838 2990 2.402305 GATCACAAGATCTAGCCAGCG 58.598 52.381 0.00 0.00 45.80 5.18
2852 3005 2.123251 AGCGGGGGATCTGATCGT 60.123 61.111 11.28 0.00 0.00 3.73
2860 3013 1.062587 GGGATCTGATCGTTTTGCGTG 59.937 52.381 11.28 0.00 42.13 5.34
2929 3082 8.621532 AAATAACAGAAACAGAGTGAGCAATA 57.378 30.769 0.00 0.00 0.00 1.90
2956 3109 1.480954 GATTGTAGCCACGGGAGAGAA 59.519 52.381 0.00 0.00 0.00 2.87
2957 3110 0.895530 TTGTAGCCACGGGAGAGAAG 59.104 55.000 0.00 0.00 0.00 2.85
2958 3111 0.039180 TGTAGCCACGGGAGAGAAGA 59.961 55.000 0.00 0.00 0.00 2.87
2959 3112 0.741915 GTAGCCACGGGAGAGAAGAG 59.258 60.000 0.00 0.00 0.00 2.85
2960 3113 0.331954 TAGCCACGGGAGAGAAGAGT 59.668 55.000 0.00 0.00 0.00 3.24
2961 3114 0.331954 AGCCACGGGAGAGAAGAGTA 59.668 55.000 0.00 0.00 0.00 2.59
2968 3131 5.395768 CCACGGGAGAGAAGAGTAAATTCAT 60.396 44.000 0.00 0.00 0.00 2.57
3005 3168 1.014044 CGGTGTTGGTGACCAGATCG 61.014 60.000 3.77 4.09 33.81 3.69
3016 3179 3.068307 GTGACCAGATCGTAGCCAACTAT 59.932 47.826 0.00 0.00 0.00 2.12
3017 3180 3.704566 TGACCAGATCGTAGCCAACTATT 59.295 43.478 0.00 0.00 0.00 1.73
3072 3244 2.981859 AGCCGTGTACCCTTATTCTG 57.018 50.000 0.00 0.00 0.00 3.02
3121 3293 7.013655 TCCAAGAAACTTGTAAGTAGACGTAGT 59.986 37.037 9.99 0.00 41.32 2.73
3126 3303 7.884816 AACTTGTAAGTAGACGTAGTACGTA 57.115 36.000 27.19 11.18 46.87 3.57
3185 3448 6.837312 TCCATGACAAGTTTCTTCTTTAGGA 58.163 36.000 0.00 0.00 0.00 2.94
3194 3457 9.061435 CAAGTTTCTTCTTTAGGAGTCTGATTT 57.939 33.333 0.00 0.00 0.00 2.17
3279 3542 2.671130 TTGACTCTCGTGCATGCATA 57.329 45.000 25.64 14.37 0.00 3.14
3292 3555 2.096496 GCATGCATATATCGGTGCCTTC 59.904 50.000 14.21 0.00 40.56 3.46
3296 3559 2.679837 GCATATATCGGTGCCTTCATGG 59.320 50.000 0.00 0.00 35.35 3.66
3297 3560 3.619733 GCATATATCGGTGCCTTCATGGA 60.620 47.826 0.00 0.00 38.35 3.41
3299 3562 0.758734 TATCGGTGCCTTCATGGAGG 59.241 55.000 16.65 16.65 39.93 4.30
3302 3565 0.609131 CGGTGCCTTCATGGAGGTTT 60.609 55.000 21.69 0.00 39.11 3.27
3303 3566 0.890683 GGTGCCTTCATGGAGGTTTG 59.109 55.000 21.69 0.00 39.11 2.93
3305 3568 1.963515 GTGCCTTCATGGAGGTTTGTT 59.036 47.619 21.69 0.00 39.11 2.83
3335 3599 0.242286 CGATCTGGTGAGGGATAGCG 59.758 60.000 0.00 0.00 0.00 4.26
3415 3683 4.157289 CACATATTTGGCAGCTGTTCTCTT 59.843 41.667 16.64 0.00 0.00 2.85
3447 3717 1.875813 CGTCGCCATGCACTCTCTC 60.876 63.158 0.00 0.00 0.00 3.20
3477 3747 0.457166 TTACGACAGCGATGTTCCCG 60.457 55.000 8.15 10.00 41.64 5.14
3478 3748 1.588824 TACGACAGCGATGTTCCCGT 61.589 55.000 20.22 20.22 41.64 5.28
3479 3749 1.736645 CGACAGCGATGTTCCCGTT 60.737 57.895 8.15 0.00 40.82 4.44
3482 3752 0.892755 ACAGCGATGTTCCCGTTCTA 59.107 50.000 0.00 0.00 0.00 2.10
3499 3769 3.946308 TCTATAAGGATCGCGCGATAG 57.054 47.619 41.84 32.37 34.60 2.08
3547 3819 3.128068 GGTACGATTTGGATGGGTGTTTC 59.872 47.826 0.00 0.00 0.00 2.78
3575 3847 2.363680 TGGTTGGTTCGTTTGATGCAAT 59.636 40.909 0.00 0.00 0.00 3.56
3583 3855 6.585702 TGGTTCGTTTGATGCAATGATTTTAG 59.414 34.615 0.00 0.00 0.00 1.85
3584 3856 6.034898 GGTTCGTTTGATGCAATGATTTTAGG 59.965 38.462 0.00 0.00 0.00 2.69
3585 3857 6.266168 TCGTTTGATGCAATGATTTTAGGT 57.734 33.333 0.00 0.00 0.00 3.08
3586 3858 6.321717 TCGTTTGATGCAATGATTTTAGGTC 58.678 36.000 0.00 0.00 0.00 3.85
3587 3859 6.150976 TCGTTTGATGCAATGATTTTAGGTCT 59.849 34.615 0.00 0.00 0.00 3.85
3588 3860 6.808212 CGTTTGATGCAATGATTTTAGGTCTT 59.192 34.615 0.00 0.00 0.00 3.01
3589 3861 7.201376 CGTTTGATGCAATGATTTTAGGTCTTG 60.201 37.037 0.00 0.00 0.00 3.02
3590 3862 6.839124 TGATGCAATGATTTTAGGTCTTGT 57.161 33.333 0.00 0.00 0.00 3.16
3591 3863 7.230849 TGATGCAATGATTTTAGGTCTTGTT 57.769 32.000 0.00 0.00 0.00 2.83
3592 3864 7.669427 TGATGCAATGATTTTAGGTCTTGTTT 58.331 30.769 0.00 0.00 0.00 2.83
3593 3865 7.599621 TGATGCAATGATTTTAGGTCTTGTTTG 59.400 33.333 0.00 0.00 0.00 2.93
3594 3866 6.222389 TGCAATGATTTTAGGTCTTGTTTGG 58.778 36.000 0.00 0.00 0.00 3.28
3595 3867 6.183360 TGCAATGATTTTAGGTCTTGTTTGGT 60.183 34.615 0.00 0.00 0.00 3.67
3596 3868 6.705825 GCAATGATTTTAGGTCTTGTTTGGTT 59.294 34.615 0.00 0.00 0.00 3.67
3597 3869 7.095649 GCAATGATTTTAGGTCTTGTTTGGTTC 60.096 37.037 0.00 0.00 0.00 3.62
3598 3870 7.595819 ATGATTTTAGGTCTTGTTTGGTTCA 57.404 32.000 0.00 0.00 0.00 3.18
3599 3871 7.595819 TGATTTTAGGTCTTGTTTGGTTCAT 57.404 32.000 0.00 0.00 0.00 2.57
3600 3872 8.698973 TGATTTTAGGTCTTGTTTGGTTCATA 57.301 30.769 0.00 0.00 0.00 2.15
3601 3873 8.573035 TGATTTTAGGTCTTGTTTGGTTCATAC 58.427 33.333 0.00 0.00 0.00 2.39
3602 3874 6.548441 TTTAGGTCTTGTTTGGTTCATACG 57.452 37.500 0.00 0.00 0.00 3.06
3603 3875 4.081322 AGGTCTTGTTTGGTTCATACGT 57.919 40.909 0.00 0.00 0.00 3.57
3604 3876 4.062991 AGGTCTTGTTTGGTTCATACGTC 58.937 43.478 0.00 0.00 0.00 4.34
3605 3877 3.187842 GGTCTTGTTTGGTTCATACGTCC 59.812 47.826 0.00 0.00 0.00 4.79
3606 3878 4.062991 GTCTTGTTTGGTTCATACGTCCT 58.937 43.478 0.00 0.00 0.00 3.85
3607 3879 5.232463 GTCTTGTTTGGTTCATACGTCCTA 58.768 41.667 0.00 0.00 0.00 2.94
3608 3880 5.347907 GTCTTGTTTGGTTCATACGTCCTAG 59.652 44.000 0.00 0.00 0.00 3.02
3609 3881 4.196626 TGTTTGGTTCATACGTCCTAGG 57.803 45.455 0.82 0.82 0.00 3.02
3610 3882 3.833650 TGTTTGGTTCATACGTCCTAGGA 59.166 43.478 7.62 7.62 0.00 2.94
3611 3883 4.179298 GTTTGGTTCATACGTCCTAGGAC 58.821 47.826 29.18 29.18 41.40 3.85
3612 3884 3.377253 TGGTTCATACGTCCTAGGACT 57.623 47.619 33.70 23.95 42.54 3.85
3613 3885 3.705051 TGGTTCATACGTCCTAGGACTT 58.295 45.455 33.70 28.54 42.54 3.01
3614 3886 4.091549 TGGTTCATACGTCCTAGGACTTT 58.908 43.478 33.70 24.16 42.54 2.66
3615 3887 4.529377 TGGTTCATACGTCCTAGGACTTTT 59.471 41.667 33.70 20.40 42.54 2.27
3616 3888 5.012354 TGGTTCATACGTCCTAGGACTTTTT 59.988 40.000 33.70 19.82 42.54 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
57 63 1.450134 TGCATGCAGGGACACGATC 60.450 57.895 18.46 0.00 0.00 3.69
60 66 2.669229 TGTGCATGCAGGGACACG 60.669 61.111 22.07 0.00 33.98 4.49
88 101 1.050988 ATGGGTAGAGGCGATGCAGT 61.051 55.000 0.00 0.00 0.00 4.40
101 115 0.179006 TGCTGTGTTGTGCATGGGTA 60.179 50.000 0.00 0.00 33.94 3.69
164 178 1.476477 CATCATCAACCCACCATGCA 58.524 50.000 0.00 0.00 0.00 3.96
165 179 0.748450 CCATCATCAACCCACCATGC 59.252 55.000 0.00 0.00 0.00 4.06
166 180 2.026641 GTCCATCATCAACCCACCATG 58.973 52.381 0.00 0.00 0.00 3.66
400 440 2.908015 GATCGCCTGCCTACCCAA 59.092 61.111 0.00 0.00 0.00 4.12
401 441 3.536917 CGATCGCCTGCCTACCCA 61.537 66.667 0.26 0.00 0.00 4.51
402 442 2.701163 CTTCGATCGCCTGCCTACCC 62.701 65.000 11.09 0.00 0.00 3.69
403 443 1.300233 CTTCGATCGCCTGCCTACC 60.300 63.158 11.09 0.00 0.00 3.18
405 445 3.129300 CCTTCGATCGCCTGCCTA 58.871 61.111 11.09 0.00 0.00 3.93
406 446 4.537433 GCCTTCGATCGCCTGCCT 62.537 66.667 11.09 0.00 0.00 4.75
565 624 2.818132 GGGCTCTGGACCGATGAG 59.182 66.667 5.03 5.03 0.00 2.90
612 689 4.038042 GCTAGCCTTGTGTTTTCCTTTTCT 59.962 41.667 2.29 0.00 0.00 2.52
673 769 4.289148 AGGGGCAGTACTACTACGATCTAT 59.711 45.833 0.00 0.00 0.00 1.98
691 787 3.214845 GTAGCTGCATGCAGGGGC 61.215 66.667 40.59 30.40 45.94 5.80
692 788 1.822613 CTGTAGCTGCATGCAGGGG 60.823 63.158 40.59 23.00 45.94 4.79
693 789 2.478890 GCTGTAGCTGCATGCAGGG 61.479 63.158 40.59 23.70 45.94 4.45
694 790 2.820619 CGCTGTAGCTGCATGCAGG 61.821 63.158 40.59 27.49 45.94 4.85
764 861 1.002868 ATGGGAGCAGTGCAGTGTC 60.003 57.895 22.22 16.86 0.00 3.67
822 919 0.891449 GAGCGATCGAGGAGGATGGA 60.891 60.000 21.57 0.00 0.00 3.41
867 964 1.303643 AGTTAAGGTGCTGGCTGGC 60.304 57.895 0.00 0.00 0.00 4.85
954 1073 1.058748 GAGTGTACGTACGCGCGTA 59.941 57.895 36.55 36.55 45.06 4.42
985 1104 2.441532 CATTGCTGGCCTCCCTGG 60.442 66.667 3.32 0.00 39.35 4.45
994 1113 2.043652 CCCCACCTCCATTGCTGG 60.044 66.667 0.00 0.00 44.64 4.85
1665 1794 0.744771 GGCACTCCGGGAAGATGAAC 60.745 60.000 0.00 0.00 0.00 3.18
1686 1815 2.554636 CCACTTCTTGCAGCGCCAA 61.555 57.895 2.29 0.39 0.00 4.52
1708 1837 3.474570 GGTCTCCATGCCGAGGCT 61.475 66.667 15.75 0.00 42.51 4.58
1752 1881 3.755628 GCGGCGAGGTACTGGTCA 61.756 66.667 12.98 0.00 39.25 4.02
2657 2804 1.079819 AACAGCTAGCACGCACGAT 60.080 52.632 18.83 0.00 0.00 3.73
2838 2990 1.025041 GCAAAACGATCAGATCCCCC 58.975 55.000 4.73 0.00 0.00 5.40
2852 3005 1.648720 GCTCTGAGCACACGCAAAA 59.351 52.632 24.02 0.00 41.89 2.44
2929 3082 2.491693 CCCGTGGCTACAATCACAAATT 59.508 45.455 0.00 0.00 33.83 1.82
2958 3111 9.573133 GCTACTGCAAACAAATATGAATTTACT 57.427 29.630 0.00 0.00 39.41 2.24
2959 3112 9.573133 AGCTACTGCAAACAAATATGAATTTAC 57.427 29.630 0.00 0.00 42.74 2.01
2960 3113 9.787532 GAGCTACTGCAAACAAATATGAATTTA 57.212 29.630 0.00 0.00 42.74 1.40
2961 3114 7.485913 CGAGCTACTGCAAACAAATATGAATTT 59.514 33.333 0.00 0.00 42.74 1.82
2968 3131 3.435327 CACCGAGCTACTGCAAACAAATA 59.565 43.478 0.00 0.00 42.74 1.40
3044 3216 2.359848 AGGGTACACGGCTTTGAAAAAC 59.640 45.455 0.00 0.00 0.00 2.43
3072 3244 8.470805 TGGACAAGATATGAACTCTCTAAGAAC 58.529 37.037 0.00 0.00 0.00 3.01
3092 3264 6.477688 CGTCTACTTACAAGTTTCTTGGACAA 59.522 38.462 12.95 4.60 40.37 3.18
3094 3266 5.981915 ACGTCTACTTACAAGTTTCTTGGAC 59.018 40.000 12.95 8.55 40.37 4.02
3121 3293 4.062677 AGCAAACAACCTTGAGTACGTA 57.937 40.909 0.00 0.00 0.00 3.57
3126 3303 4.462483 TCAAAGAAGCAAACAACCTTGAGT 59.538 37.500 0.00 0.00 0.00 3.41
3185 3448 2.289072 ACGTACTGCAGCAAATCAGACT 60.289 45.455 15.27 0.00 34.57 3.24
3194 3457 1.272490 AGCTAGAAACGTACTGCAGCA 59.728 47.619 15.27 0.00 0.00 4.41
3279 3542 1.349026 CCTCCATGAAGGCACCGATAT 59.651 52.381 0.00 0.00 37.29 1.63
3292 3555 1.442520 CGCGCAACAAACCTCCATG 60.443 57.895 8.75 0.00 0.00 3.66
3335 3599 1.338200 ACGCACCTGAGATTCTTGGTC 60.338 52.381 8.71 5.06 0.00 4.02
3433 3701 1.669779 GACAATGAGAGAGTGCATGGC 59.330 52.381 0.00 0.00 0.00 4.40
3434 3702 1.931841 CGACAATGAGAGAGTGCATGG 59.068 52.381 0.00 0.00 0.00 3.66
3477 3747 2.327081 TCGCGCGATCCTTATAGAAC 57.673 50.000 31.40 0.00 0.00 3.01
3478 3748 3.064958 CCTATCGCGCGATCCTTATAGAA 59.935 47.826 44.72 24.80 36.17 2.10
3479 3749 2.612672 CCTATCGCGCGATCCTTATAGA 59.387 50.000 44.72 25.52 36.17 1.98
3482 3752 1.402259 CTCCTATCGCGCGATCCTTAT 59.598 52.381 44.72 26.25 36.17 1.73
3499 3769 5.504173 CGTCAACTTCAGTTCCTTTTTCTCC 60.504 44.000 0.00 0.00 35.83 3.71
3535 3807 1.205417 CATGCCAAGAAACACCCATCC 59.795 52.381 0.00 0.00 0.00 3.51
3538 3810 0.105760 ACCATGCCAAGAAACACCCA 60.106 50.000 0.00 0.00 0.00 4.51
3547 3819 0.673437 AACGAACCAACCATGCCAAG 59.327 50.000 0.00 0.00 0.00 3.61
3575 3847 7.595819 ATGAACCAAACAAGACCTAAAATCA 57.404 32.000 0.00 0.00 0.00 2.57
3583 3855 3.187842 GGACGTATGAACCAAACAAGACC 59.812 47.826 0.00 0.00 0.00 3.85
3584 3856 4.062991 AGGACGTATGAACCAAACAAGAC 58.937 43.478 0.00 0.00 0.00 3.01
3585 3857 4.345859 AGGACGTATGAACCAAACAAGA 57.654 40.909 0.00 0.00 0.00 3.02
3586 3858 4.630069 CCTAGGACGTATGAACCAAACAAG 59.370 45.833 1.05 0.00 0.00 3.16
3587 3859 4.283978 TCCTAGGACGTATGAACCAAACAA 59.716 41.667 7.62 0.00 0.00 2.83
3588 3860 3.833650 TCCTAGGACGTATGAACCAAACA 59.166 43.478 7.62 0.00 0.00 2.83
3589 3861 4.179298 GTCCTAGGACGTATGAACCAAAC 58.821 47.826 25.83 0.00 35.30 2.93
3590 3862 4.460948 GTCCTAGGACGTATGAACCAAA 57.539 45.455 25.83 0.00 35.30 3.28


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

AutoCloner maintained by Alex Coulton.