Multiple sequence alignment - TraesCS2A01G260100

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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 TraesCS2A01G260100 chr2A 100.000 4367 0 0 1 4367 409638606 409642972 0.000000e+00 8065.0
1 TraesCS2A01G260100 chr2A 88.221 798 74 17 1 786 749806565 749805776 0.000000e+00 935.0
2 TraesCS2A01G260100 chr2B 95.200 3500 109 20 784 4268 390118440 390114985 0.000000e+00 5478.0
3 TraesCS2A01G260100 chr2B 91.135 846 56 7 784 1617 390144590 390143752 0.000000e+00 1129.0
4 TraesCS2A01G260100 chr2B 88.596 114 4 3 4263 4367 390114963 390114850 3.540000e-26 130.0
5 TraesCS2A01G260100 chr2B 97.561 41 1 0 1630 1670 390143757 390143717 2.180000e-08 71.3
6 TraesCS2A01G260100 chr2D 96.457 2766 68 13 784 3529 321915040 321912285 0.000000e+00 4538.0
7 TraesCS2A01G260100 chr2D 89.975 808 34 12 3584 4367 321912284 321911500 0.000000e+00 1000.0
8 TraesCS2A01G260100 chr6B 88.592 710 73 7 1 703 716924887 716925595 0.000000e+00 856.0
9 TraesCS2A01G260100 chr4D 86.198 797 90 18 1 786 202360067 202359280 0.000000e+00 845.0
10 TraesCS2A01G260100 chr5A 89.728 662 63 5 12 670 561669546 561668887 0.000000e+00 841.0
11 TraesCS2A01G260100 chr5A 100.000 30 0 0 1864 1893 651990579 651990550 6.100000e-04 56.5
12 TraesCS2A01G260100 chr4A 86.150 787 96 10 12 791 73151699 73150919 0.000000e+00 837.0
13 TraesCS2A01G260100 chr3A 89.169 674 64 8 1 670 574258908 574258240 0.000000e+00 832.0
14 TraesCS2A01G260100 chr5B 85.804 796 94 16 1 786 478767504 478768290 0.000000e+00 826.0
15 TraesCS2A01G260100 chr7B 90.000 640 59 5 1 637 228264195 228264832 0.000000e+00 822.0
16 TraesCS2A01G260100 chr6D 87.709 716 75 12 1 710 139317768 139318476 0.000000e+00 822.0
17 TraesCS2A01G260100 chr5D 78.659 164 24 11 628 786 502076917 502077074 1.000000e-16 99.0
18 TraesCS2A01G260100 chr5D 96.970 33 1 0 1860 1892 30425285 30425253 6.100000e-04 56.5
19 TraesCS2A01G260100 chr5D 100.000 30 0 0 1864 1893 525666258 525666229 6.100000e-04 56.5


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 TraesCS2A01G260100 chr2A 409638606 409642972 4366 False 8065.00 8065 100.000 1 4367 1 chr2A.!!$F1 4366
1 TraesCS2A01G260100 chr2A 749805776 749806565 789 True 935.00 935 88.221 1 786 1 chr2A.!!$R1 785
2 TraesCS2A01G260100 chr2B 390114850 390118440 3590 True 2804.00 5478 91.898 784 4367 2 chr2B.!!$R1 3583
3 TraesCS2A01G260100 chr2B 390143717 390144590 873 True 600.15 1129 94.348 784 1670 2 chr2B.!!$R2 886
4 TraesCS2A01G260100 chr2D 321911500 321915040 3540 True 2769.00 4538 93.216 784 4367 2 chr2D.!!$R1 3583
5 TraesCS2A01G260100 chr6B 716924887 716925595 708 False 856.00 856 88.592 1 703 1 chr6B.!!$F1 702
6 TraesCS2A01G260100 chr4D 202359280 202360067 787 True 845.00 845 86.198 1 786 1 chr4D.!!$R1 785
7 TraesCS2A01G260100 chr5A 561668887 561669546 659 True 841.00 841 89.728 12 670 1 chr5A.!!$R1 658
8 TraesCS2A01G260100 chr4A 73150919 73151699 780 True 837.00 837 86.150 12 791 1 chr4A.!!$R1 779
9 TraesCS2A01G260100 chr3A 574258240 574258908 668 True 832.00 832 89.169 1 670 1 chr3A.!!$R1 669
10 TraesCS2A01G260100 chr5B 478767504 478768290 786 False 826.00 826 85.804 1 786 1 chr5B.!!$F1 785
11 TraesCS2A01G260100 chr7B 228264195 228264832 637 False 822.00 822 90.000 1 637 1 chr7B.!!$F1 636
12 TraesCS2A01G260100 chr6D 139317768 139318476 708 False 822.00 822 87.709 1 710 1 chr6D.!!$F1 709


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
90 93 0.767375 AGGTTCAGAAGGCTTGCAGA 59.233 50.000 3.46 0.0 0.00 4.26 F
762 784 1.048601 CGCTATTTCTAGCCCTGGGA 58.951 55.000 19.27 0.0 46.41 4.37 F
812 834 1.198154 CGCGTTTTTCTTTTGCGGC 59.802 52.632 0.00 0.0 44.65 6.53 F
1162 1204 1.271707 CCGACCCTCTCTATCTCTCCC 60.272 61.905 0.00 0.0 0.00 4.30 F
2694 2742 0.549902 TCCAGGGAAGGGCTTGATGA 60.550 55.000 0.00 0.0 0.00 2.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1358 1400 1.153147 GGGATCCCCGAAGAACAGC 60.153 63.158 21.42 0.00 32.13 4.40 R
2125 2173 0.401738 CCTCAACCTCTGGGCTTTCA 59.598 55.000 0.00 0.00 35.63 2.69 R
2389 2437 1.275291 TGCTTCCAAGGACTTCTACCG 59.725 52.381 0.00 0.00 0.00 4.02 R
3119 3167 3.570638 CGATGCCTTCAGCGCTGG 61.571 66.667 35.36 22.02 45.29 4.85 R
4102 4156 0.389817 TGACGGCGAAATCTGTCCAG 60.390 55.000 16.62 0.00 40.69 3.86 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
69 72 1.032014 GCAAGAACTCCCACTTTGCA 58.968 50.000 2.93 0.00 0.00 4.08
79 82 2.031120 CCCACTTTGCAAAGGTTCAGA 58.969 47.619 35.65 3.60 40.31 3.27
90 93 0.767375 AGGTTCAGAAGGCTTGCAGA 59.233 50.000 3.46 0.00 0.00 4.26
117 120 2.625823 CGAGCGGGCATTTGGTGTT 61.626 57.895 0.00 0.00 0.00 3.32
183 186 5.209944 GGTCGAAAGATCAAATGTGAGAC 57.790 43.478 0.00 0.00 45.19 3.36
210 215 2.486982 GACTTGCTGTGTCATCTTGCAT 59.513 45.455 0.00 0.00 34.80 3.96
305 310 2.305927 CCCAAGTTGATCACCACCTACT 59.694 50.000 3.87 0.00 0.00 2.57
372 378 1.677576 CACTGGTGCATCAACAACTGT 59.322 47.619 0.00 0.00 39.68 3.55
426 437 2.886124 GCAACGCCTAGCTCGACC 60.886 66.667 9.18 0.00 0.00 4.79
510 523 7.680442 TTCCGTTGATTTTCTGTGATGAATA 57.320 32.000 0.00 0.00 0.00 1.75
593 610 2.543848 TGATCAATTTGCGCCGATAGTC 59.456 45.455 4.18 0.00 0.00 2.59
623 640 4.927978 TTGTGTCGAAAATGGGTTGAAT 57.072 36.364 0.00 0.00 0.00 2.57
626 643 5.309638 TGTGTCGAAAATGGGTTGAATAGA 58.690 37.500 0.00 0.00 0.00 1.98
651 668 1.460273 AATTTGCGCCGAAAGTGGGT 61.460 50.000 4.18 0.00 0.00 4.51
671 689 1.605453 GAAATCGGTGCCTGGGGTA 59.395 57.895 0.00 0.00 0.00 3.69
697 716 2.045926 GCGGTGGCTGGAATCAGT 60.046 61.111 0.00 0.00 42.78 3.41
704 723 1.078143 GCTGGAATCAGTTCGCCCT 60.078 57.895 0.00 0.00 42.78 5.19
734 753 1.990160 TTTTCCTGTCGGTGCACCCT 61.990 55.000 29.95 0.00 0.00 4.34
762 784 1.048601 CGCTATTTCTAGCCCTGGGA 58.951 55.000 19.27 0.00 46.41 4.37
763 785 1.416401 CGCTATTTCTAGCCCTGGGAA 59.584 52.381 19.27 0.75 46.41 3.97
768 790 1.580059 TTCTAGCCCTGGGAACGAAT 58.420 50.000 19.27 0.00 0.00 3.34
780 802 2.093447 GGGAACGAATGAGTGGAGATGT 60.093 50.000 0.00 0.00 0.00 3.06
794 816 4.153655 GTGGAGATGTTCTTAAAACGACCC 59.846 45.833 0.00 0.00 0.00 4.46
812 834 1.198154 CGCGTTTTTCTTTTGCGGC 59.802 52.632 0.00 0.00 44.65 6.53
823 845 3.146066 TCTTTTGCGGCTGTTCTAACAT 58.854 40.909 0.00 0.00 38.41 2.71
918 950 7.013369 GCCGAAAAAGAATCATAGTAGGGATTT 59.987 37.037 2.42 0.00 34.06 2.17
944 976 2.047274 TGCGCTCGAGAAAAGGGG 60.047 61.111 18.75 0.00 0.00 4.79
1037 1071 1.792757 AATCCAGGCCCAACAGCTGA 61.793 55.000 23.35 0.00 0.00 4.26
1078 1116 1.900545 CGTCTTCCTCCTTGGGGGTC 61.901 65.000 5.35 0.00 36.20 4.46
1160 1202 2.943036 ACCGACCCTCTCTATCTCTC 57.057 55.000 0.00 0.00 0.00 3.20
1161 1203 1.422402 ACCGACCCTCTCTATCTCTCC 59.578 57.143 0.00 0.00 0.00 3.71
1162 1204 1.271707 CCGACCCTCTCTATCTCTCCC 60.272 61.905 0.00 0.00 0.00 4.30
1222 1264 6.069556 GGGTTAGGAATTAGGAGACCTTTCTT 60.070 42.308 0.00 0.00 34.61 2.52
1248 1290 6.258947 GGTCGGATTCTAGATTTCTCTTTTGG 59.741 42.308 0.00 0.00 32.66 3.28
1358 1400 2.866156 TGCCTGATTCTTCTTTATCGCG 59.134 45.455 0.00 0.00 0.00 5.87
1359 1401 2.348966 GCCTGATTCTTCTTTATCGCGC 60.349 50.000 0.00 0.00 0.00 6.86
1670 1712 1.878656 CTCGGTGTCCAGGAGTCACC 61.879 65.000 16.43 16.43 45.46 4.02
1966 2014 4.020485 AGGGTTGTACAGGACTATGACAAC 60.020 45.833 7.49 7.49 45.81 3.32
2121 2169 3.449737 CCGGGTGAGATCTTACCTGTTAA 59.550 47.826 32.58 0.00 42.27 2.01
2125 2173 6.415573 GGGTGAGATCTTACCTGTTAATTGT 58.584 40.000 29.74 0.00 39.04 2.71
2207 2255 2.344592 TCAGGAAGTTTAAGGGAGCCA 58.655 47.619 0.00 0.00 0.00 4.75
2389 2437 8.137437 TCACCTGAATTTGAAGATTTTGAGAAC 58.863 33.333 0.00 0.00 0.00 3.01
2592 2640 2.432300 CCCCGGCGAGTTCTGGTAT 61.432 63.158 9.30 0.00 0.00 2.73
2694 2742 0.549902 TCCAGGGAAGGGCTTGATGA 60.550 55.000 0.00 0.00 0.00 2.92
2863 2911 2.473235 GAGCTCTGTTTTGTCGACTGAC 59.527 50.000 17.92 12.53 45.71 3.51
2904 2952 0.744771 GGGACCGAGGACAAAGATGC 60.745 60.000 0.00 0.00 0.00 3.91
2905 2953 1.084370 GGACCGAGGACAAAGATGCG 61.084 60.000 0.00 0.00 0.00 4.73
2966 3014 1.735920 GAGACAGTGCAGGTGAGCG 60.736 63.158 2.98 0.00 37.31 5.03
3048 3096 3.253188 TGCATTGTGTCTAACTGCCTTTC 59.747 43.478 0.00 0.00 31.89 2.62
3071 3119 5.105310 TCCTTACATTCTTCAGGTCAGCTAC 60.105 44.000 0.00 0.00 0.00 3.58
3146 3194 3.797039 CTGAAGGCATCGAATGGACTTA 58.203 45.455 3.50 0.00 0.00 2.24
3175 3223 4.400251 AGTCGTCATTAATCCCGTTGTCTA 59.600 41.667 3.89 0.00 0.00 2.59
3352 3402 6.435430 TGTGATGGCTTAACATGATACAAC 57.565 37.500 0.00 0.00 0.00 3.32
3429 3480 3.456280 TGTGCTTTGCCAAATGAACTTC 58.544 40.909 0.00 0.00 0.00 3.01
3440 3491 6.838090 TGCCAAATGAACTTCATCCCATATAA 59.162 34.615 4.70 0.00 35.76 0.98
3524 3575 2.289010 TGTGATGCAGTGTACTGGTCTG 60.289 50.000 13.41 0.00 43.94 3.51
3541 3592 4.274950 TGGTCTGCTACTTAAAACTGTTGC 59.725 41.667 0.00 0.00 35.97 4.17
3554 3605 0.746063 CTGTTGCTGCCTTTTGTGGA 59.254 50.000 0.00 0.00 0.00 4.02
3586 3637 4.384056 TGCAAGGAGCTATAGAGAAATGC 58.616 43.478 3.21 8.39 45.94 3.56
3664 3715 2.419673 TGGAGATTTATGTGCAGTTGCG 59.580 45.455 0.00 0.00 45.83 4.85
3670 3721 1.295357 TATGTGCAGTTGCGGTTCGG 61.295 55.000 0.00 0.00 45.83 4.30
3671 3722 3.276846 GTGCAGTTGCGGTTCGGT 61.277 61.111 0.00 0.00 45.83 4.69
3672 3723 2.515057 TGCAGTTGCGGTTCGGTT 60.515 55.556 0.00 0.00 45.83 4.44
3673 3724 2.251371 GCAGTTGCGGTTCGGTTC 59.749 61.111 0.00 0.00 0.00 3.62
3674 3725 2.549282 CAGTTGCGGTTCGGTTCG 59.451 61.111 0.00 0.00 0.00 3.95
3675 3726 1.952133 CAGTTGCGGTTCGGTTCGA 60.952 57.895 0.00 0.00 0.00 3.71
3676 3727 1.227321 AGTTGCGGTTCGGTTCGAA 60.227 52.632 0.00 0.00 43.75 3.71
3815 3869 0.976641 TATTATGCGCTAGCCTGCCT 59.023 50.000 9.73 3.38 44.33 4.75
3816 3870 0.976641 ATTATGCGCTAGCCTGCCTA 59.023 50.000 9.73 2.36 44.33 3.93
3817 3871 0.318441 TTATGCGCTAGCCTGCCTAG 59.682 55.000 9.73 0.00 45.26 3.02
3822 3876 3.146182 CTAGCCTGCCTAGCCCTG 58.854 66.667 0.00 0.00 37.34 4.45
3823 3877 3.164269 TAGCCTGCCTAGCCCTGC 61.164 66.667 0.00 0.00 0.00 4.85
3824 3878 3.703513 TAGCCTGCCTAGCCCTGCT 62.704 63.158 0.00 0.00 43.41 4.24
3849 3903 4.653341 AGATATTGAGGGTGAGAGAACCTG 59.347 45.833 0.00 0.00 40.35 4.00
3857 3911 3.526534 GGTGAGAGAACCTGCATAGAAC 58.473 50.000 0.00 0.00 37.24 3.01
4015 4069 4.261867 CGTGGGCTGCTGTAACAGTATATA 60.262 45.833 0.00 0.00 39.96 0.86
4016 4070 5.566826 CGTGGGCTGCTGTAACAGTATATAT 60.567 44.000 0.00 0.00 39.96 0.86
4027 4081 9.723447 CTGTAACAGTATATATGATTAGAGCGG 57.277 37.037 0.00 0.00 0.00 5.52
4028 4082 9.239551 TGTAACAGTATATATGATTAGAGCGGT 57.760 33.333 0.00 0.00 0.00 5.68
4131 4185 1.592400 TTCGCCGTCAGTTCCGAGAT 61.592 55.000 0.00 0.00 0.00 2.75
4139 4193 0.665835 CAGTTCCGAGATCGAGGAGG 59.334 60.000 3.31 1.49 43.02 4.30
4146 4200 0.251165 GAGATCGAGGAGGGGAGGAG 60.251 65.000 0.00 0.00 0.00 3.69
4253 4307 2.689983 CAAACAAGCTCACCTTCCAACT 59.310 45.455 0.00 0.00 0.00 3.16
4257 4311 3.073062 ACAAGCTCACCTTCCAACTGTAT 59.927 43.478 0.00 0.00 0.00 2.29
4261 4344 3.118592 GCTCACCTTCCAACTGTATAGCT 60.119 47.826 0.00 0.00 0.00 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
69 72 1.959282 CTGCAAGCCTTCTGAACCTTT 59.041 47.619 0.00 0.00 0.00 3.11
79 82 2.165998 GACATCCTTTCTGCAAGCCTT 58.834 47.619 0.00 0.00 0.00 4.35
90 93 2.125106 GCCCGCTCGACATCCTTT 60.125 61.111 0.00 0.00 0.00 3.11
117 120 5.724328 ACAACAGCAAATCGAGATTAGAGA 58.276 37.500 0.00 0.00 0.00 3.10
210 215 4.053983 GCTCGCTCTCAATGATCATGTTA 58.946 43.478 9.46 0.00 0.00 2.41
372 378 0.325577 TGCTCCACCAGATCCTGCTA 60.326 55.000 0.00 0.00 0.00 3.49
476 487 7.542130 ACAGAAAATCAACGGAAATCAAATAGC 59.458 33.333 0.00 0.00 0.00 2.97
489 502 8.791605 CACATTATTCATCACAGAAAATCAACG 58.208 33.333 0.00 0.00 0.00 4.10
543 560 1.143183 ATATTCGGCGTGCTTCGGT 59.857 52.632 6.85 0.00 40.26 4.69
593 610 3.595709 TTTTCGACACAAAACTAGCCG 57.404 42.857 0.00 0.00 0.00 5.52
597 614 5.357314 TCAACCCATTTTCGACACAAAACTA 59.643 36.000 0.00 0.00 0.00 2.24
599 616 4.425520 TCAACCCATTTTCGACACAAAAC 58.574 39.130 0.00 0.00 0.00 2.43
603 620 5.309638 TCTATTCAACCCATTTTCGACACA 58.690 37.500 0.00 0.00 0.00 3.72
623 640 1.752694 GGCGCAAATTGGCCCTCTA 60.753 57.895 10.83 0.00 43.64 2.43
651 668 2.267642 CCCAGGCACCGATTTCGA 59.732 61.111 0.67 0.00 43.02 3.71
684 702 1.377202 GGCGAACTGATTCCAGCCA 60.377 57.895 0.00 0.00 44.16 4.75
693 712 2.347490 GGCTTGAGGGCGAACTGA 59.653 61.111 0.00 0.00 0.00 3.41
721 740 3.625897 CCTGAGGGTGCACCGACA 61.626 66.667 29.08 26.56 46.96 4.35
722 741 4.394712 CCCTGAGGGTGCACCGAC 62.395 72.222 29.08 23.69 46.96 4.79
734 753 1.396607 TAGAAATAGCGCCGCCCTGA 61.397 55.000 4.98 0.00 0.00 3.86
762 784 4.543590 AGAACATCTCCACTCATTCGTT 57.456 40.909 0.00 0.00 0.00 3.85
763 785 4.543590 AAGAACATCTCCACTCATTCGT 57.456 40.909 0.00 0.00 0.00 3.85
768 790 5.694910 GTCGTTTTAAGAACATCTCCACTCA 59.305 40.000 0.00 0.00 0.00 3.41
794 816 1.198154 GCCGCAAAAGAAAAACGCG 59.802 52.632 3.53 3.53 45.25 6.01
802 824 2.566913 TGTTAGAACAGCCGCAAAAGA 58.433 42.857 0.00 0.00 34.30 2.52
918 950 1.153765 CTCGAGCGCACTTGGATGA 60.154 57.895 11.47 0.00 0.00 2.92
944 976 3.437049 GTGTGTCCAGCTTTGGATAGAAC 59.563 47.826 0.00 0.00 40.51 3.01
1053 1087 2.593956 AAGGAGGAAGACGGGGCAC 61.594 63.158 0.00 0.00 0.00 5.01
1078 1116 2.335712 GGCTTTGCCCGTGGAAGAG 61.336 63.158 0.00 0.00 44.06 2.85
1161 1203 4.150454 AGGGGAGGCGGAGAGAGG 62.150 72.222 0.00 0.00 0.00 3.69
1162 1204 2.520741 GAGGGGAGGCGGAGAGAG 60.521 72.222 0.00 0.00 0.00 3.20
1222 1264 6.546428 AAAGAGAAATCTAGAATCCGACCA 57.454 37.500 0.00 0.00 0.00 4.02
1292 1334 4.467795 TCTGAAATCTAAGCAGCTGGTACT 59.532 41.667 20.51 7.13 0.00 2.73
1358 1400 1.153147 GGGATCCCCGAAGAACAGC 60.153 63.158 21.42 0.00 32.13 4.40
1359 1401 1.527370 GGGGATCCCCGAAGAACAG 59.473 63.158 34.54 0.00 46.66 3.16
1810 1852 2.145397 AGCTCCTTGATCTCCGTACA 57.855 50.000 0.00 0.00 0.00 2.90
2099 2147 1.486211 ACAGGTAAGATCTCACCCGG 58.514 55.000 11.80 7.08 35.25 5.73
2121 2169 2.158475 TCAACCTCTGGGCTTTCACAAT 60.158 45.455 0.00 0.00 35.63 2.71
2125 2173 0.401738 CCTCAACCTCTGGGCTTTCA 59.598 55.000 0.00 0.00 35.63 2.69
2389 2437 1.275291 TGCTTCCAAGGACTTCTACCG 59.725 52.381 0.00 0.00 0.00 4.02
2578 2626 5.054477 TGCTTTATAATACCAGAACTCGCC 58.946 41.667 0.00 0.00 0.00 5.54
2592 2640 6.183360 GCTGATGCCTAACCTTTGCTTTATAA 60.183 38.462 0.00 0.00 0.00 0.98
2694 2742 7.455058 TGTAGGGATTGTTGTAAATGTACTGT 58.545 34.615 0.00 0.00 0.00 3.55
3007 3055 5.761165 TGCATATGATTGACCTTGTGATG 57.239 39.130 6.97 0.00 0.00 3.07
3048 3096 4.213564 AGCTGACCTGAAGAATGTAAGG 57.786 45.455 0.00 0.00 35.82 2.69
3071 3119 3.845178 TGTCGCTGGTATGTAGACTTTG 58.155 45.455 0.00 0.00 33.40 2.77
3119 3167 3.570638 CGATGCCTTCAGCGCTGG 61.571 66.667 35.36 22.02 45.29 4.85
3146 3194 4.583489 ACGGGATTAATGACGACTAGATGT 59.417 41.667 13.46 0.00 0.00 3.06
3175 3223 9.765795 GTTTATCCAGCTATATAACTGAACTGT 57.234 33.333 13.63 0.00 35.90 3.55
3429 3480 5.078949 TGGATGGCTTTGTTATATGGGATG 58.921 41.667 0.00 0.00 0.00 3.51
3440 3491 4.937015 GCATGTAAAAATGGATGGCTTTGT 59.063 37.500 0.00 0.00 0.00 2.83
3524 3575 3.253432 AGGCAGCAACAGTTTTAAGTAGC 59.747 43.478 0.00 0.00 0.00 3.58
3554 3605 1.493871 AGCTCCTTGCAATATCCTGCT 59.506 47.619 0.00 1.75 45.94 4.24
3586 3637 6.073548 TGCAAAGTTTAAACCACAAAACACAG 60.074 34.615 14.72 0.00 37.92 3.66
3664 3715 3.682858 TCTTCATCATTTCGAACCGAACC 59.317 43.478 0.00 0.00 45.64 3.62
3678 3729 6.974048 CGCCAAATAAACAATGATCTTCATCA 59.026 34.615 0.00 0.00 43.45 3.07
3679 3730 6.974622 ACGCCAAATAAACAATGATCTTCATC 59.025 34.615 0.00 0.00 35.76 2.92
3684 3735 6.266168 TCAACGCCAAATAAACAATGATCT 57.734 33.333 0.00 0.00 0.00 2.75
3824 3878 4.651503 GGTTCTCTCACCCTCAATATCTGA 59.348 45.833 0.00 0.00 0.00 3.27
3849 3903 1.474143 GCTGGGACCAGAGTTCTATGC 60.474 57.143 22.03 0.12 46.30 3.14
3857 3911 1.153208 GCATCTGCTGGGACCAGAG 60.153 63.158 22.03 14.95 46.30 3.35
3906 3960 8.383318 TGCAAAGCTGAATTATATCTACCTTC 57.617 34.615 0.00 0.00 0.00 3.46
3907 3961 8.930846 ATGCAAAGCTGAATTATATCTACCTT 57.069 30.769 0.00 0.00 0.00 3.50
4015 4069 6.902771 ATCTGTTACTACCGCTCTAATCAT 57.097 37.500 0.00 0.00 0.00 2.45
4016 4070 6.710597 AATCTGTTACTACCGCTCTAATCA 57.289 37.500 0.00 0.00 0.00 2.57
4027 4081 3.802685 CGCCTTGCCTAATCTGTTACTAC 59.197 47.826 0.00 0.00 0.00 2.73
4028 4082 3.740141 GCGCCTTGCCTAATCTGTTACTA 60.740 47.826 0.00 0.00 37.76 1.82
4029 4083 2.906354 CGCCTTGCCTAATCTGTTACT 58.094 47.619 0.00 0.00 0.00 2.24
4102 4156 0.389817 TGACGGCGAAATCTGTCCAG 60.390 55.000 16.62 0.00 40.69 3.86
4131 4185 3.430497 CCCTCCTCCCCTCCTCGA 61.430 72.222 0.00 0.00 0.00 4.04
4139 4193 1.463018 ATGATCTGGCCCTCCTCCC 60.463 63.158 0.00 0.00 0.00 4.30
4146 4200 2.203451 CCCTGCATGATCTGGCCC 60.203 66.667 0.00 0.00 0.00 5.80
4151 4205 1.129917 CCAGACTCCCTGCATGATCT 58.870 55.000 0.00 0.00 41.57 2.75
4196 4250 2.114411 TTTGGTGGAGGCCGGAAC 59.886 61.111 5.05 0.00 0.00 3.62
4253 4307 1.613925 GATCCCTCGTGCAGCTATACA 59.386 52.381 0.00 0.00 0.00 2.29
4257 4311 2.420138 GAGATCCCTCGTGCAGCTA 58.580 57.895 0.00 0.00 0.00 3.32
4298 4381 3.136123 CGGGCATGAACAGCAGGG 61.136 66.667 0.00 0.00 0.00 4.45



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

AutoCloner maintained by Alex Coulton.