Multiple sequence alignment - TraesCS1B01G138600

Loading Multiple Alignment...

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 TraesCS1B01G138600 chr1B 100.000 3695 0 0 1 3695 179632343 179628649 0.000000e+00 6824.0
1 TraesCS1B01G138600 chr1D 95.302 2001 54 20 827 2813 117401175 117399201 0.000000e+00 3138.0
2 TraesCS1B01G138600 chr1D 93.584 826 53 0 1 826 117402047 117401222 0.000000e+00 1232.0
3 TraesCS1B01G138600 chr1D 88.965 734 31 21 2972 3695 117398911 117398218 0.000000e+00 861.0
4 TraesCS1B01G138600 chr1D 95.031 161 4 3 2814 2970 117399104 117398944 2.200000e-62 250.0
5 TraesCS1B01G138600 chr1A 95.921 1667 45 14 1164 2813 129005027 129003367 0.000000e+00 2680.0
6 TraesCS1B01G138600 chr1A 95.865 266 10 1 3430 3695 129002593 129002329 2.640000e-116 429.0
7 TraesCS1B01G138600 chr1A 90.493 284 18 3 2972 3247 129003081 129002799 2.100000e-97 366.0
8 TraesCS1B01G138600 chr1A 91.716 169 7 5 2814 2975 129003273 129003105 1.030000e-55 228.0
9 TraesCS1B01G138600 chr1A 85.455 165 8 4 3234 3389 129002750 129002593 1.370000e-34 158.0
10 TraesCS1B01G138600 chr2B 84.038 639 88 12 1 631 200523331 200522699 1.470000e-168 603.0
11 TraesCS1B01G138600 chr2B 84.019 632 92 9 1 629 369158485 369159110 1.900000e-167 599.0
12 TraesCS1B01G138600 chr4D 83.912 634 94 8 1 629 128120290 128119660 1.900000e-167 599.0
13 TraesCS1B01G138600 chr4D 83.912 634 94 8 1 629 128556123 128556753 1.900000e-167 599.0
14 TraesCS1B01G138600 chr5D 83.673 637 94 10 1 632 477977139 477976508 3.180000e-165 592.0
15 TraesCS1B01G138600 chr7D 83.518 631 97 7 3 631 313147100 313146475 1.910000e-162 582.0
16 TraesCS1B01G138600 chr4B 83.466 629 95 9 5 631 388218210 388217589 8.900000e-161 577.0
17 TraesCS1B01G138600 chr2D 83.254 633 96 9 1 631 333947631 333947007 1.150000e-159 573.0
18 TraesCS1B01G138600 chr3A 74.886 438 84 19 1201 1622 93263778 93264205 3.790000e-40 176.0
19 TraesCS1B01G138600 chr3A 75.635 394 67 23 1204 1574 93042852 93042465 6.350000e-38 169.0
20 TraesCS1B01G138600 chr3A 73.744 438 89 19 1201 1622 93337380 93337807 8.270000e-32 148.0
21 TraesCS1B01G138600 chr3D 89.231 130 10 4 1201 1328 79504272 79504399 3.820000e-35 159.0
22 TraesCS1B01G138600 chr3D 73.913 437 81 25 1207 1622 79421347 79420923 1.070000e-30 145.0
23 TraesCS1B01G138600 chr3B 74.740 384 75 18 1201 1566 125778996 125779375 6.390000e-33 152.0
24 TraesCS1B01G138600 chr3B 74.603 378 71 18 1205 1562 125524333 125523961 3.850000e-30 143.0
25 TraesCS1B01G138600 chr6A 84.034 119 13 5 1474 1590 26950441 26950555 3.900000e-20 110.0
26 TraesCS1B01G138600 chrUn 81.600 125 14 8 1469 1590 95707085 95707203 1.090000e-15 95.3


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 TraesCS1B01G138600 chr1B 179628649 179632343 3694 True 6824.00 6824 100.0000 1 3695 1 chr1B.!!$R1 3694
1 TraesCS1B01G138600 chr1D 117398218 117402047 3829 True 1370.25 3138 93.2205 1 3695 4 chr1D.!!$R1 3694
2 TraesCS1B01G138600 chr1A 129002329 129005027 2698 True 772.20 2680 91.8900 1164 3695 5 chr1A.!!$R1 2531
3 TraesCS1B01G138600 chr2B 200522699 200523331 632 True 603.00 603 84.0380 1 631 1 chr2B.!!$R1 630
4 TraesCS1B01G138600 chr2B 369158485 369159110 625 False 599.00 599 84.0190 1 629 1 chr2B.!!$F1 628
5 TraesCS1B01G138600 chr4D 128119660 128120290 630 True 599.00 599 83.9120 1 629 1 chr4D.!!$R1 628
6 TraesCS1B01G138600 chr4D 128556123 128556753 630 False 599.00 599 83.9120 1 629 1 chr4D.!!$F1 628
7 TraesCS1B01G138600 chr5D 477976508 477977139 631 True 592.00 592 83.6730 1 632 1 chr5D.!!$R1 631
8 TraesCS1B01G138600 chr7D 313146475 313147100 625 True 582.00 582 83.5180 3 631 1 chr7D.!!$R1 628
9 TraesCS1B01G138600 chr4B 388217589 388218210 621 True 577.00 577 83.4660 5 631 1 chr4B.!!$R1 626
10 TraesCS1B01G138600 chr2D 333947007 333947631 624 True 573.00 573 83.2540 1 631 1 chr2D.!!$R1 630

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
963 1029 0.323999 TTCATGCTGCATTGCTCCCT 60.324 50.0 13.38 0.0 0.0 4.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2772 2867 0.107214 CATTGCCCACGGAGTACCAT 60.107 55.0 0.0 0.0 41.61 3.55 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
83 85 8.779354 ATTATTACGAGAGAGGAAAATATGGC 57.221 34.615 0.00 0.00 0.00 4.40
85 87 6.971726 TTACGAGAGAGGAAAATATGGCTA 57.028 37.500 0.00 0.00 0.00 3.93
226 230 6.508030 TCCCATGCATAGGAAGTATGTTAA 57.492 37.500 11.80 0.00 40.80 2.01
231 235 8.686334 CCATGCATAGGAAGTATGTTAAACTTT 58.314 33.333 0.00 0.00 40.80 2.66
264 268 4.096833 GCCACATGTTTTATGATGCTCTCA 59.903 41.667 0.00 0.00 38.53 3.27
314 319 4.160814 TGGGCATCATTGAAATCTCAAAGG 59.839 41.667 0.00 0.00 44.64 3.11
345 351 8.702163 TTAATGGCTATAAAGAAAAAGCTTGC 57.298 30.769 0.00 0.00 35.30 4.01
474 491 1.824852 CCTTTAGGATGGTTTGGGTGC 59.175 52.381 0.00 0.00 37.39 5.01
495 514 3.120121 GCTAGTTGCTTTGATTTTGTGCG 59.880 43.478 0.00 0.00 38.95 5.34
527 546 6.870971 AACTTTTACGTCCAATAGCAGAAA 57.129 33.333 0.00 0.00 0.00 2.52
528 547 6.870971 ACTTTTACGTCCAATAGCAGAAAA 57.129 33.333 0.00 0.00 0.00 2.29
605 625 9.141400 GATATACAAATTTCCTATGTCGTCCTC 57.859 37.037 0.00 0.00 0.00 3.71
635 655 9.567776 TTTCAGAATTGTTGGAGTTACAATCTA 57.432 29.630 0.00 0.00 43.44 1.98
679 699 5.221244 TGGTCATCCATTCTACTCACGTATG 60.221 44.000 0.00 0.00 39.03 2.39
706 726 1.737696 CGCTAAGTATTGACACCCGCA 60.738 52.381 0.00 0.00 0.00 5.69
707 727 2.352388 GCTAAGTATTGACACCCGCAA 58.648 47.619 0.00 0.00 0.00 4.85
717 737 4.481368 TGACACCCGCAATATTCTTAGT 57.519 40.909 0.00 0.00 0.00 2.24
767 787 9.180678 ACTATTCATTGACGTTGTTTTTCAATC 57.819 29.630 0.00 0.00 37.78 2.67
805 825 7.959658 ATCATTTTTGTCCAGAATACCATGA 57.040 32.000 0.00 0.00 0.00 3.07
815 835 8.902806 TGTCCAGAATACCATGAATGTTATTTC 58.097 33.333 0.00 0.00 27.45 2.17
886 952 6.706270 CGACTTTACTATTCATAAGGGTGCAT 59.294 38.462 0.00 0.00 0.00 3.96
958 1024 9.724839 ATAAAAATAAAATTCATGCTGCATTGC 57.275 25.926 13.38 0.46 0.00 3.56
959 1025 6.995511 AAATAAAATTCATGCTGCATTGCT 57.004 29.167 13.38 0.00 0.00 3.91
962 1028 0.750850 ATTCATGCTGCATTGCTCCC 59.249 50.000 13.38 0.00 0.00 4.30
963 1029 0.323999 TTCATGCTGCATTGCTCCCT 60.324 50.000 13.38 0.00 0.00 4.20
964 1030 0.547553 TCATGCTGCATTGCTCCCTA 59.452 50.000 13.38 0.00 0.00 3.53
965 1031 1.144298 TCATGCTGCATTGCTCCCTAT 59.856 47.619 13.38 0.00 0.00 2.57
966 1032 2.372837 TCATGCTGCATTGCTCCCTATA 59.627 45.455 13.38 0.00 0.00 1.31
967 1033 3.009805 TCATGCTGCATTGCTCCCTATAT 59.990 43.478 13.38 0.00 0.00 0.86
968 1034 4.225717 TCATGCTGCATTGCTCCCTATATA 59.774 41.667 13.38 0.00 0.00 0.86
969 1035 4.639078 TGCTGCATTGCTCCCTATATAA 57.361 40.909 10.49 0.00 0.00 0.98
970 1036 4.984295 TGCTGCATTGCTCCCTATATAAA 58.016 39.130 10.49 0.00 0.00 1.40
972 1038 4.156739 GCTGCATTGCTCCCTATATAAACC 59.843 45.833 10.49 0.00 0.00 3.27
973 1039 4.662278 TGCATTGCTCCCTATATAAACCC 58.338 43.478 10.49 0.00 0.00 4.11
974 1040 4.105537 TGCATTGCTCCCTATATAAACCCA 59.894 41.667 10.49 0.00 0.00 4.51
975 1041 4.702131 GCATTGCTCCCTATATAAACCCAG 59.298 45.833 0.16 0.00 0.00 4.45
976 1042 5.514834 GCATTGCTCCCTATATAAACCCAGA 60.515 44.000 0.16 0.00 0.00 3.86
977 1043 5.562298 TTGCTCCCTATATAAACCCAGAC 57.438 43.478 0.00 0.00 0.00 3.51
978 1044 4.562767 TGCTCCCTATATAAACCCAGACA 58.437 43.478 0.00 0.00 0.00 3.41
979 1045 4.347000 TGCTCCCTATATAAACCCAGACAC 59.653 45.833 0.00 0.00 0.00 3.67
980 1046 4.262938 GCTCCCTATATAAACCCAGACACC 60.263 50.000 0.00 0.00 0.00 4.16
981 1047 4.237018 TCCCTATATAAACCCAGACACCC 58.763 47.826 0.00 0.00 0.00 4.61
982 1048 3.977999 CCCTATATAAACCCAGACACCCA 59.022 47.826 0.00 0.00 0.00 4.51
983 1049 4.041691 CCCTATATAAACCCAGACACCCAG 59.958 50.000 0.00 0.00 0.00 4.45
984 1050 4.658901 CCTATATAAACCCAGACACCCAGT 59.341 45.833 0.00 0.00 0.00 4.00
999 1065 0.531200 CCAGTCTCTACCGAACACCC 59.469 60.000 0.00 0.00 0.00 4.61
1095 1162 0.759959 ATCAACACACGTACCCACCA 59.240 50.000 0.00 0.00 0.00 4.17
1178 1246 4.128388 CCGTTCCAAATGGCGGCC 62.128 66.667 13.32 13.32 34.85 6.13
1478 1548 2.898343 GACGGTGGCGTGTGGTTT 60.898 61.111 0.00 0.00 0.00 3.27
1637 1707 2.544685 CAGGTACTTGCTGGATTCGAG 58.455 52.381 0.00 0.00 34.60 4.04
1673 1744 3.244946 TGTCGGTGGTGGATTGGATTTTA 60.245 43.478 0.00 0.00 0.00 1.52
1674 1745 3.128068 GTCGGTGGTGGATTGGATTTTAC 59.872 47.826 0.00 0.00 0.00 2.01
1675 1746 3.009695 TCGGTGGTGGATTGGATTTTACT 59.990 43.478 0.00 0.00 0.00 2.24
1676 1747 3.128589 CGGTGGTGGATTGGATTTTACTG 59.871 47.826 0.00 0.00 0.00 2.74
2186 2261 4.201657 TCTACGGCAACTGCTACTACATA 58.798 43.478 1.06 0.00 41.70 2.29
2661 2748 7.013529 CGTTAGTGTTTAATTACAGCTTGGTC 58.986 38.462 0.00 0.00 0.00 4.02
2663 2750 6.313744 AGTGTTTAATTACAGCTTGGTCAC 57.686 37.500 0.00 0.00 0.00 3.67
2702 2789 3.100817 CGAGCAAGAATAATGGCAAACG 58.899 45.455 0.00 0.00 0.00 3.60
2727 2822 7.699391 CGGATAGTGAAGAAACGTATAAAGTGA 59.301 37.037 0.00 0.00 0.00 3.41
2734 2829 8.770828 TGAAGAAACGTATAAAGTGAAAGAAGG 58.229 33.333 0.00 0.00 0.00 3.46
2772 2867 2.620886 GGGACAGGTAGACACAGCTAGA 60.621 54.545 0.00 0.00 0.00 2.43
2773 2868 3.292460 GGACAGGTAGACACAGCTAGAT 58.708 50.000 0.00 0.00 0.00 1.98
2775 2870 3.027412 ACAGGTAGACACAGCTAGATGG 58.973 50.000 13.45 3.98 0.00 3.51
2777 2872 4.207955 CAGGTAGACACAGCTAGATGGTA 58.792 47.826 13.45 0.00 0.00 3.25
2778 2873 4.036971 CAGGTAGACACAGCTAGATGGTAC 59.963 50.000 13.45 8.00 0.00 3.34
2780 2875 4.276431 GGTAGACACAGCTAGATGGTACTC 59.724 50.000 13.45 1.02 0.00 2.59
2781 2876 3.292460 AGACACAGCTAGATGGTACTCC 58.708 50.000 13.45 0.00 0.00 3.85
2790 2885 0.180406 GATGGTACTCCGTGGGCAAT 59.820 55.000 0.00 0.00 36.30 3.56
2792 2887 1.195442 TGGTACTCCGTGGGCAATGA 61.195 55.000 0.00 0.00 36.30 2.57
2793 2888 0.180406 GGTACTCCGTGGGCAATGAT 59.820 55.000 0.00 0.00 0.00 2.45
2882 3073 5.049198 CCTCGACTTGTGTACTGTACTGTTA 60.049 44.000 17.98 0.00 0.00 2.41
3032 3266 7.707893 TGTTTTTAACTAGATCTGCGGGTATAC 59.292 37.037 5.18 0.00 0.00 1.47
3049 3283 2.579207 TACACTTGACCTCATAGCGC 57.421 50.000 0.00 0.00 0.00 5.92
3053 3287 1.002366 CTTGACCTCATAGCGCACAC 58.998 55.000 11.47 0.00 0.00 3.82
3114 3348 4.566759 TGCGAGTACAGTATCATTTTGCTC 59.433 41.667 0.00 0.00 0.00 4.26
3145 3379 7.894753 TTTGGCATCATTGAAATACCTATGA 57.105 32.000 0.00 0.00 0.00 2.15
3149 3383 7.506599 TGGCATCATTGAAATACCTATGAATGT 59.493 33.333 0.00 0.00 31.44 2.71
3156 3390 8.628630 TTGAAATACCTATGAATGTCACAACA 57.371 30.769 0.00 0.00 40.38 3.33
3187 3422 2.188994 GCTGCTAGTCCTGCCCAG 59.811 66.667 0.00 0.00 0.00 4.45
3300 3597 0.249447 TGGCTGCCATAGACGAATCG 60.249 55.000 19.30 0.00 37.17 3.34
3347 3653 6.430308 TGGTCATCGTCTATGTATACTCTTCC 59.570 42.308 4.17 0.00 36.89 3.46
3348 3654 6.655848 GGTCATCGTCTATGTATACTCTTCCT 59.344 42.308 4.17 0.00 36.89 3.36
3349 3655 7.175293 GGTCATCGTCTATGTATACTCTTCCTT 59.825 40.741 4.17 0.00 36.89 3.36
3350 3656 9.217278 GTCATCGTCTATGTATACTCTTCCTTA 57.783 37.037 4.17 0.00 36.89 2.69
3351 3657 9.788889 TCATCGTCTATGTATACTCTTCCTTAA 57.211 33.333 4.17 0.00 36.89 1.85
3382 3688 2.544903 CGTTCCAAGGCCGACAAAATTT 60.545 45.455 0.00 0.00 0.00 1.82
3425 3731 1.227853 GCAACCGGTGACTTGACCT 60.228 57.895 8.52 0.00 33.35 3.85
3552 3858 7.148407 CGTTCCAAGCATTCTAAAGTAGTTCAT 60.148 37.037 0.00 0.00 0.00 2.57
3585 3891 0.107508 GATGCAGCCAAGCCTCAGTA 60.108 55.000 0.00 0.00 0.00 2.74
3586 3892 0.549950 ATGCAGCCAAGCCTCAGTAT 59.450 50.000 0.00 0.00 0.00 2.12
3589 3895 2.173356 TGCAGCCAAGCCTCAGTATTAT 59.827 45.455 0.00 0.00 0.00 1.28
3595 3901 4.445735 GCCAAGCCTCAGTATTATGGGTTA 60.446 45.833 0.00 0.00 38.09 2.85
3665 3972 2.993899 CAAAGGTGTACGTCCTCATGTC 59.006 50.000 9.38 0.00 33.76 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
474 491 4.290155 ACGCACAAAATCAAAGCAACTAG 58.710 39.130 0.00 0.00 0.00 2.57
495 514 9.590088 CTATTGGACGTAAAAGTTTCTGTTAAC 57.410 33.333 0.00 0.00 0.00 2.01
527 546 7.681939 TCGTAGCTCCAGTGATTTTAAAATT 57.318 32.000 14.45 0.00 0.00 1.82
528 547 7.681939 TTCGTAGCTCCAGTGATTTTAAAAT 57.318 32.000 13.24 13.24 0.00 1.82
605 625 8.870160 TGTAACTCCAACAATTCTGAAAAATG 57.130 30.769 0.00 0.00 0.00 2.32
635 655 7.004086 TGACCAGGTTTGATACAGAAAATTCT 58.996 34.615 0.00 0.00 38.25 2.40
679 699 6.255950 GGGTGTCAATACTTAGCGAAAATTC 58.744 40.000 0.00 0.00 0.00 2.17
738 758 9.658475 TGAAAAACAACGTCAATGAATAGTAAG 57.342 29.630 0.00 0.00 0.00 2.34
862 928 7.499232 ACATGCACCCTTATGAATAGTAAAGTC 59.501 37.037 0.00 0.00 0.00 3.01
886 952 6.097554 ACCAATTTAGTGAACATTGTTCCACA 59.902 34.615 23.22 6.24 32.35 4.17
908 974 4.538746 TGTCCGAATTGTATGTACACCA 57.461 40.909 0.00 0.00 35.64 4.17
948 1014 4.639078 TTATATAGGGAGCAATGCAGCA 57.361 40.909 8.35 0.00 36.85 4.41
956 1022 4.347000 GTGTCTGGGTTTATATAGGGAGCA 59.653 45.833 0.00 0.00 0.00 4.26
957 1023 4.262938 GGTGTCTGGGTTTATATAGGGAGC 60.263 50.000 0.00 0.00 0.00 4.70
958 1024 4.286291 GGGTGTCTGGGTTTATATAGGGAG 59.714 50.000 0.00 0.00 0.00 4.30
959 1025 4.237018 GGGTGTCTGGGTTTATATAGGGA 58.763 47.826 0.00 0.00 0.00 4.20
962 1028 5.855045 GACTGGGTGTCTGGGTTTATATAG 58.145 45.833 0.00 0.00 42.21 1.31
963 1029 5.881923 GACTGGGTGTCTGGGTTTATATA 57.118 43.478 0.00 0.00 42.21 0.86
964 1030 4.772886 GACTGGGTGTCTGGGTTTATAT 57.227 45.455 0.00 0.00 42.21 0.86
975 1041 1.201880 GTTCGGTAGAGACTGGGTGTC 59.798 57.143 0.00 0.00 45.67 3.67
976 1042 1.254954 GTTCGGTAGAGACTGGGTGT 58.745 55.000 0.00 0.00 32.25 4.16
977 1043 1.067776 GTGTTCGGTAGAGACTGGGTG 60.068 57.143 0.00 0.00 32.25 4.61
978 1044 1.254954 GTGTTCGGTAGAGACTGGGT 58.745 55.000 0.00 0.00 32.25 4.51
979 1045 0.531200 GGTGTTCGGTAGAGACTGGG 59.469 60.000 0.00 0.00 32.25 4.45
980 1046 0.531200 GGGTGTTCGGTAGAGACTGG 59.469 60.000 0.00 0.00 32.25 4.00
981 1047 1.202582 CTGGGTGTTCGGTAGAGACTG 59.797 57.143 0.00 0.00 0.00 3.51
982 1048 1.075050 TCTGGGTGTTCGGTAGAGACT 59.925 52.381 0.00 0.00 0.00 3.24
983 1049 1.201880 GTCTGGGTGTTCGGTAGAGAC 59.798 57.143 0.00 0.00 0.00 3.36
984 1050 1.202964 TGTCTGGGTGTTCGGTAGAGA 60.203 52.381 0.00 0.00 0.00 3.10
985 1051 1.067776 GTGTCTGGGTGTTCGGTAGAG 60.068 57.143 0.00 0.00 0.00 2.43
999 1065 4.056050 GCGTGGGTTTATATAGGTGTCTG 58.944 47.826 0.00 0.00 0.00 3.51
1095 1162 1.439353 CGGTGAGCTGTTGTTGCTGT 61.439 55.000 0.00 0.00 41.30 4.40
1478 1548 1.264749 ACCTGACGGCAGCCTCAATA 61.265 55.000 14.57 0.00 40.91 1.90
1673 1744 1.337260 CCAGTTTAGCTCGCAGTCAGT 60.337 52.381 0.00 0.00 0.00 3.41
1674 1745 1.354040 CCAGTTTAGCTCGCAGTCAG 58.646 55.000 0.00 0.00 0.00 3.51
1675 1746 0.037326 CCCAGTTTAGCTCGCAGTCA 60.037 55.000 0.00 0.00 0.00 3.41
1676 1747 1.362406 GCCCAGTTTAGCTCGCAGTC 61.362 60.000 0.00 0.00 0.00 3.51
2186 2261 2.125512 GTGGAGGAGACGCGCATT 60.126 61.111 5.73 0.00 0.00 3.56
2460 2535 2.266055 CCAGGGCTTGACGAGGAC 59.734 66.667 0.00 0.00 0.00 3.85
2661 2748 3.995705 TCGGTTTACCATTACTTTCGGTG 59.004 43.478 0.00 0.00 34.12 4.94
2663 2750 3.063045 GCTCGGTTTACCATTACTTTCGG 59.937 47.826 0.00 0.00 35.14 4.30
2702 2789 8.922058 TCACTTTATACGTTTCTTCACTATCC 57.078 34.615 0.00 0.00 0.00 2.59
2727 2822 5.336531 CCCATATCTACGCGTATCCTTCTTT 60.337 44.000 20.91 1.55 0.00 2.52
2734 2829 2.098770 GTCCCCCATATCTACGCGTATC 59.901 54.545 20.91 0.00 0.00 2.24
2772 2867 0.107214 CATTGCCCACGGAGTACCAT 60.107 55.000 0.00 0.00 41.61 3.55
2773 2868 1.195442 TCATTGCCCACGGAGTACCA 61.195 55.000 0.00 0.00 41.61 3.25
2775 2870 1.134521 TCATCATTGCCCACGGAGTAC 60.135 52.381 0.00 0.00 41.61 2.73
2778 2873 0.178767 TCTCATCATTGCCCACGGAG 59.821 55.000 0.00 0.00 0.00 4.63
2780 2875 1.335810 CAATCTCATCATTGCCCACGG 59.664 52.381 0.00 0.00 0.00 4.94
2781 2876 1.335810 CCAATCTCATCATTGCCCACG 59.664 52.381 0.00 0.00 33.08 4.94
2790 2885 4.081476 CGGCATCCTATACCAATCTCATCA 60.081 45.833 0.00 0.00 0.00 3.07
2792 2887 4.096681 TCGGCATCCTATACCAATCTCAT 58.903 43.478 0.00 0.00 0.00 2.90
2793 2888 3.506398 TCGGCATCCTATACCAATCTCA 58.494 45.455 0.00 0.00 0.00 3.27
2918 3114 5.938125 TGGACAAAAACCACTAGAGAATAGC 59.062 40.000 0.00 0.00 32.03 2.97
2962 3158 9.620660 GTGAAAAAGACGACACCATTAATTATT 57.379 29.630 0.00 0.00 0.00 1.40
2970 3166 2.878406 CCTGTGAAAAAGACGACACCAT 59.122 45.455 0.00 0.00 33.08 3.55
3016 3243 4.277672 GTCAAGTGTATACCCGCAGATCTA 59.722 45.833 0.00 0.00 0.00 1.98
3032 3266 1.002366 GTGCGCTATGAGGTCAAGTG 58.998 55.000 9.73 0.00 0.00 3.16
3049 3283 7.906611 TTTCTTCAAACATTTCATACGTGTG 57.093 32.000 5.87 5.87 0.00 3.82
3081 3315 7.937649 TGATACTGTACTCGCATGTAAGTATT 58.062 34.615 11.05 4.28 33.00 1.89
3135 3369 7.345691 TGGATGTTGTGACATTCATAGGTATT 58.654 34.615 4.31 0.00 44.92 1.89
3136 3370 6.899089 TGGATGTTGTGACATTCATAGGTAT 58.101 36.000 4.31 0.00 44.92 2.73
3145 3379 3.753272 GCTAGTGTGGATGTTGTGACATT 59.247 43.478 0.00 0.00 46.27 2.71
3149 3383 2.289631 CCAGCTAGTGTGGATGTTGTGA 60.290 50.000 7.34 0.00 37.23 3.58
3156 3390 1.222936 GCAGCCAGCTAGTGTGGAT 59.777 57.895 15.40 7.68 41.15 3.41
3182 3416 4.623932 AAAGAAAAGAAAATCCCTGGGC 57.376 40.909 8.22 0.00 0.00 5.36
3187 3422 6.085555 ACGGAGAAAAGAAAAGAAAATCCC 57.914 37.500 0.00 0.00 0.00 3.85
3264 3561 1.651240 CCAGCTGGATTGCAAGGACG 61.651 60.000 29.88 0.00 37.39 4.79
3300 3597 1.929836 CTCTGTCCTGCAGTTATTCGC 59.070 52.381 13.81 0.00 45.23 4.70
3302 3599 3.265791 CACCTCTGTCCTGCAGTTATTC 58.734 50.000 13.81 0.00 45.23 1.75
3347 3653 5.116882 CCTTGGAACGGTAGAAGGATTAAG 58.883 45.833 4.24 0.00 37.74 1.85
3348 3654 4.624604 GCCTTGGAACGGTAGAAGGATTAA 60.625 45.833 13.10 0.00 37.74 1.40
3349 3655 3.118519 GCCTTGGAACGGTAGAAGGATTA 60.119 47.826 13.10 0.00 37.74 1.75
3350 3656 2.355818 GCCTTGGAACGGTAGAAGGATT 60.356 50.000 13.10 0.00 37.74 3.01
3351 3657 1.209747 GCCTTGGAACGGTAGAAGGAT 59.790 52.381 13.10 0.00 37.74 3.24
3352 3658 0.611714 GCCTTGGAACGGTAGAAGGA 59.388 55.000 13.10 0.00 37.74 3.36
3353 3659 0.392595 GGCCTTGGAACGGTAGAAGG 60.393 60.000 5.73 5.73 38.43 3.46
3382 3688 4.503714 AAAGAAGGTCACCTGTTCTTCA 57.496 40.909 10.70 0.00 38.35 3.02
3425 3731 0.037590 CCACCGGATGGGAACTGAAA 59.962 55.000 9.46 0.00 45.95 2.69
3552 3858 3.561310 GGCTGCATCAACTTATCATTCGA 59.439 43.478 0.50 0.00 0.00 3.71
3585 3891 3.268334 TCACCAAGGCACTAACCCATAAT 59.732 43.478 0.00 0.00 38.49 1.28
3586 3892 2.645297 TCACCAAGGCACTAACCCATAA 59.355 45.455 0.00 0.00 38.49 1.90
3589 3895 1.072266 ATCACCAAGGCACTAACCCA 58.928 50.000 0.00 0.00 38.49 4.51
3665 3972 2.704572 GTGACCATTCCCTTGTCTCTG 58.295 52.381 0.00 0.00 0.00 3.35


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

AutoCloner maintained by Alex Coulton.