Multiple sequence alignment - TraesCS4B01G065600

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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 TraesCS4B01G065600 chr4B 100.000 3515 0 0 1 3515 58255702 58252188 0.000000e+00 6492
1 TraesCS4B01G065600 chr4D 91.670 2653 158 30 717 3318 39985314 39982674 0.000000e+00 3616
2 TraesCS4B01G065600 chr4D 83.964 661 94 7 1 653 39985964 39985308 1.070000e-174 623
3 TraesCS4B01G065600 chr4D 90.426 188 8 5 3338 3515 39982687 39982500 4.530000e-59 239
4 TraesCS4B01G065600 chr4A 92.110 2484 142 24 815 3248 560313770 560316249 0.000000e+00 3452
5 TraesCS4B01G065600 chr4A 90.000 180 15 2 3338 3515 560316488 560316666 2.730000e-56 230
6 TraesCS4B01G065600 chr2B 78.941 793 152 9 1 790 689874605 689875385 3.110000e-145 525
7 TraesCS4B01G065600 chr2B 77.729 678 133 8 1 676 705879126 705878465 1.970000e-107 399
8 TraesCS4B01G065600 chr7D 77.169 876 174 20 1 859 37228147 37227281 1.470000e-133 486
9 TraesCS4B01G065600 chr7B 77.431 802 164 15 1 794 730392402 730393194 2.470000e-126 462
10 TraesCS4B01G065600 chr1A 78.824 680 139 4 1 678 63732734 63733410 1.490000e-123 453
11 TraesCS4B01G065600 chr3A 77.436 780 149 20 1 768 22612138 22611374 1.160000e-119 440
12 TraesCS4B01G065600 chr6B 76.962 790 156 21 1 786 408698600 408699367 9.020000e-116 427
13 TraesCS4B01G065600 chr5B 76.265 771 156 21 1 756 388913702 388912944 5.500000e-103 385
14 TraesCS4B01G065600 chr5A 76.976 291 63 4 468 756 104146405 104146117 2.810000e-36 163


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 TraesCS4B01G065600 chr4B 58252188 58255702 3514 True 6492.000000 6492 100.000000 1 3515 1 chr4B.!!$R1 3514
1 TraesCS4B01G065600 chr4D 39982500 39985964 3464 True 1492.666667 3616 88.686667 1 3515 3 chr4D.!!$R1 3514
2 TraesCS4B01G065600 chr4A 560313770 560316666 2896 False 1841.000000 3452 91.055000 815 3515 2 chr4A.!!$F1 2700
3 TraesCS4B01G065600 chr2B 689874605 689875385 780 False 525.000000 525 78.941000 1 790 1 chr2B.!!$F1 789
4 TraesCS4B01G065600 chr2B 705878465 705879126 661 True 399.000000 399 77.729000 1 676 1 chr2B.!!$R1 675
5 TraesCS4B01G065600 chr7D 37227281 37228147 866 True 486.000000 486 77.169000 1 859 1 chr7D.!!$R1 858
6 TraesCS4B01G065600 chr7B 730392402 730393194 792 False 462.000000 462 77.431000 1 794 1 chr7B.!!$F1 793
7 TraesCS4B01G065600 chr1A 63732734 63733410 676 False 453.000000 453 78.824000 1 678 1 chr1A.!!$F1 677
8 TraesCS4B01G065600 chr3A 22611374 22612138 764 True 440.000000 440 77.436000 1 768 1 chr3A.!!$R1 767
9 TraesCS4B01G065600 chr6B 408698600 408699367 767 False 427.000000 427 76.962000 1 786 1 chr6B.!!$F1 785
10 TraesCS4B01G065600 chr5B 388912944 388913702 758 True 385.000000 385 76.265000 1 756 1 chr5B.!!$R1 755

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
798 849 0.098025 GATCAAATTTTCGCGCCCGA 59.902 50.0 0.0 0.0 42.66 5.14 F
802 853 0.179174 AAATTTTCGCGCCCGATCAC 60.179 50.0 0.0 0.0 43.97 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2067 2146 0.179018 GCATTGTCCCGATTAGCCCT 60.179 55.0 0.0 0.0 0.00 5.19 R
2689 2796 0.236711 GCTGGCGAATCATTCCATCG 59.763 55.0 0.0 0.0 39.47 3.84 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
90 92 3.941188 CGGTGCCTGGACTGGTGT 61.941 66.667 0.00 0.00 0.00 4.16
109 111 4.263572 CCATATGGGGCGCCGGAA 62.264 66.667 22.54 8.79 0.00 4.30
166 174 1.596934 GTTGTCGCCATCTCCCTCA 59.403 57.895 0.00 0.00 0.00 3.86
193 201 4.700365 TCGCACAGAGGACACGCG 62.700 66.667 3.53 3.53 46.92 6.01
274 282 2.260434 GTTGCGCGTCCTCCACTA 59.740 61.111 8.43 0.00 0.00 2.74
328 336 1.179174 TGAGGCAGCTACGACACACT 61.179 55.000 0.00 0.00 0.00 3.55
345 353 2.168521 ACACTTAGTGTCGGATCCATGG 59.831 50.000 12.76 4.97 43.92 3.66
425 435 4.410400 CTTTTCCCGGGAGCGGCT 62.410 66.667 25.26 0.00 0.00 5.52
500 517 2.786495 CGACGGATCTGGAGGTGGG 61.786 68.421 6.47 0.00 0.00 4.61
505 522 1.130678 GGATCTGGAGGTGGGGGATC 61.131 65.000 0.00 0.00 34.00 3.36
571 592 0.835543 AGGAGCTTGAGTGGCAGAGT 60.836 55.000 0.00 0.00 0.00 3.24
588 609 1.841556 GTGGAGTGTGGGGGAGTGA 60.842 63.158 0.00 0.00 0.00 3.41
660 693 2.203294 GTCGGGTTGGCCAGTGTT 60.203 61.111 5.11 0.00 36.17 3.32
662 695 2.518349 CGGGTTGGCCAGTGTTGT 60.518 61.111 5.11 0.00 36.17 3.32
673 706 1.911766 AGTGTTGTCCGGGTCCGAT 60.912 57.895 11.39 0.00 42.83 4.18
685 729 1.807886 GTCCGATGTAGTGGACGCT 59.192 57.895 0.00 0.00 44.68 5.07
689 733 1.663379 CGATGTAGTGGACGCTCCCA 61.663 60.000 2.23 0.00 35.03 4.37
712 757 0.839946 GCCTCATATCCGCCCCATAT 59.160 55.000 0.00 0.00 0.00 1.78
742 793 1.701847 GGTATGAGGGGTGCTGATCAT 59.298 52.381 0.00 0.00 36.42 2.45
756 807 3.801698 CTGATCATCCTGGACGTTTGAT 58.198 45.455 9.66 9.66 0.00 2.57
775 826 3.479269 CTCGTTTGAGGCGTCCGC 61.479 66.667 2.45 2.45 38.65 5.54
794 845 1.548986 CCTGGATCAAATTTTCGCGC 58.451 50.000 0.00 0.00 0.00 6.86
798 849 0.098025 GATCAAATTTTCGCGCCCGA 59.902 50.000 0.00 0.00 42.66 5.14
802 853 0.179174 AAATTTTCGCGCCCGATCAC 60.179 50.000 0.00 0.00 43.97 3.06
814 873 3.823330 GATCACTCGTCCGCCCGT 61.823 66.667 0.00 0.00 0.00 5.28
828 887 1.847890 GCCCGTGCGTTTTAAGCAGA 61.848 55.000 0.00 0.00 46.10 4.26
873 932 4.517453 TGCTCTAATTAAACTTTGCACCGT 59.483 37.500 0.00 0.00 0.00 4.83
965 1025 2.039084 GGCCCTCTTGAAGAACAGAGAA 59.961 50.000 0.00 0.00 0.00 2.87
1065 1144 4.214327 CTCTCCTCCCGCTTCCGC 62.214 72.222 0.00 0.00 0.00 5.54
1471 1550 1.659335 GTGTTCGACGAGTTGCCGA 60.659 57.895 0.00 0.00 0.00 5.54
1803 1882 1.192428 GGAATGAGTACGTCTGGGGT 58.808 55.000 0.00 0.00 0.00 4.95
2025 2104 1.080230 CGAGCACTACAGCTGCACT 60.080 57.895 15.27 3.79 46.75 4.40
2073 2152 2.517875 GAGGACGCGGTAGGGCTA 60.518 66.667 12.47 0.00 0.00 3.93
2106 2185 4.241555 ATGACCCCGCTCGCATCC 62.242 66.667 0.00 0.00 0.00 3.51
2241 2320 4.333926 GTCCAGCTGTCCAACATTTATCTC 59.666 45.833 13.81 0.00 0.00 2.75
2244 2323 4.813161 CAGCTGTCCAACATTTATCTCGAT 59.187 41.667 5.25 0.00 0.00 3.59
2401 2480 0.861837 GCGCTTTGAGATATGGGACG 59.138 55.000 0.00 0.00 0.00 4.79
2468 2553 7.482169 AGGAAGAAGAAGAAACAACCTTTTT 57.518 32.000 0.00 0.00 0.00 1.94
2483 2568 3.634910 ACCTTTTTGTTGCGTCCTTGTAT 59.365 39.130 0.00 0.00 0.00 2.29
2484 2569 4.822896 ACCTTTTTGTTGCGTCCTTGTATA 59.177 37.500 0.00 0.00 0.00 1.47
2554 2653 4.337763 CAGTGAGCAGCAAACGATATTTC 58.662 43.478 0.00 0.00 0.00 2.17
2573 2675 9.688592 GATATTTCTTGATTTATTGCCAAGGAG 57.311 33.333 0.00 0.00 38.19 3.69
2600 2702 6.533730 TGATACTCAGGAAACAACAGAACAT 58.466 36.000 0.00 0.00 0.00 2.71
2645 2751 7.193595 AGTATTTTGTTTCGAGTTGTTCCTTG 58.806 34.615 0.00 0.00 0.00 3.61
2671 2777 8.168626 GTCTTTCCAGTTTTGTTCAAATTTGAC 58.831 33.333 20.35 15.10 36.83 3.18
2672 2778 7.875041 TCTTTCCAGTTTTGTTCAAATTTGACA 59.125 29.630 20.35 17.25 36.83 3.58
2674 2780 6.696411 TCCAGTTTTGTTCAAATTTGACAGT 58.304 32.000 20.35 3.27 36.83 3.55
2689 2796 8.723942 AATTTGACAGTGTCCTCTTGATATAC 57.276 34.615 20.43 0.00 0.00 1.47
2699 2806 6.493458 TGTCCTCTTGATATACGATGGAATGA 59.507 38.462 0.00 0.00 0.00 2.57
2722 2829 2.653115 CAGCACTGCTCGACCTCA 59.347 61.111 0.00 0.00 36.40 3.86
2738 2845 6.971602 TCGACCTCATGATCATACTAAAGTC 58.028 40.000 8.15 8.70 0.00 3.01
2741 2848 7.040755 CGACCTCATGATCATACTAAAGTCTCT 60.041 40.741 8.15 0.00 0.00 3.10
2768 2875 9.620259 ATTTCCCTAAGAGATTCTGTATTGTTC 57.380 33.333 0.00 0.00 0.00 3.18
2823 2932 8.419922 TTCAGCCATATTGCCATAATCAAATA 57.580 30.769 0.00 0.00 0.00 1.40
2828 2937 8.090214 GCCATATTGCCATAATCAAATACAAGT 58.910 33.333 0.00 0.00 0.00 3.16
2854 2979 6.601332 TCTTTTGTAGGATTGTTCTTCTGGT 58.399 36.000 0.00 0.00 0.00 4.00
2907 3032 9.802039 AGGGTTACAATTACTATTTGACTTTCA 57.198 29.630 0.00 0.00 0.00 2.69
2946 3071 3.093814 CCTTTAACCCGCCCTGTATTTT 58.906 45.455 0.00 0.00 0.00 1.82
2955 3080 3.074412 CGCCCTGTATTTTCTGAACAGT 58.926 45.455 6.50 0.00 39.17 3.55
3044 3169 8.947055 ACCTGTCATTTTTAATTCCATTATGC 57.053 30.769 0.00 0.00 0.00 3.14
3087 3212 9.260359 AGAATCTATCTTCACCTACAGGTTGCC 62.260 44.444 0.00 0.00 40.43 4.52
3170 3295 2.575735 TGCAACCCATACCATCAAGAGA 59.424 45.455 0.00 0.00 0.00 3.10
3203 3329 3.629398 CAGGAGACTTCTGTTTGCAAAGT 59.371 43.478 13.26 6.24 40.21 2.66
3207 3333 6.651225 AGGAGACTTCTGTTTGCAAAGTATAC 59.349 38.462 13.26 4.48 37.44 1.47
3219 3345 4.629634 TGCAAAGTATACGTGGATGTTGAG 59.370 41.667 0.00 0.00 0.00 3.02
3253 3379 9.000486 GTATGGTATGAACCTTTTAGATTAGCC 58.000 37.037 0.00 0.00 46.91 3.93
3264 3390 6.318648 CCTTTTAGATTAGCCATACAGTGCAA 59.681 38.462 0.00 0.00 0.00 4.08
3276 3402 6.094881 GCCATACAGTGCAAAAGGAAGTATTA 59.905 38.462 0.00 0.00 0.00 0.98
3304 3621 8.771920 ATACTTACAAATCATGAGTTCGAACA 57.228 30.769 28.78 10.96 0.00 3.18
3305 3622 7.490962 ACTTACAAATCATGAGTTCGAACAA 57.509 32.000 28.78 17.38 0.00 2.83
3306 3623 7.352739 ACTTACAAATCATGAGTTCGAACAAC 58.647 34.615 28.78 21.28 0.00 3.32
3307 3624 5.749596 ACAAATCATGAGTTCGAACAACA 57.250 34.783 28.78 25.50 0.00 3.33
3308 3625 5.751680 ACAAATCATGAGTTCGAACAACAG 58.248 37.500 28.78 18.98 0.00 3.16
3309 3626 4.410492 AATCATGAGTTCGAACAACAGC 57.590 40.909 28.78 13.17 0.00 4.40
3310 3627 2.143122 TCATGAGTTCGAACAACAGCC 58.857 47.619 28.78 11.34 0.00 4.85
3311 3628 2.146342 CATGAGTTCGAACAACAGCCT 58.854 47.619 28.78 7.37 0.00 4.58
3312 3629 3.006430 TCATGAGTTCGAACAACAGCCTA 59.994 43.478 28.78 12.29 0.00 3.93
3313 3630 3.678056 TGAGTTCGAACAACAGCCTAT 57.322 42.857 28.78 5.83 0.00 2.57
3314 3631 4.002906 TGAGTTCGAACAACAGCCTATT 57.997 40.909 28.78 5.07 0.00 1.73
3315 3632 5.142061 TGAGTTCGAACAACAGCCTATTA 57.858 39.130 28.78 0.07 0.00 0.98
3316 3633 4.927425 TGAGTTCGAACAACAGCCTATTAC 59.073 41.667 28.78 0.00 0.00 1.89
3317 3634 5.148651 AGTTCGAACAACAGCCTATTACT 57.851 39.130 28.78 0.72 0.00 2.24
3318 3635 5.169295 AGTTCGAACAACAGCCTATTACTC 58.831 41.667 28.78 0.00 0.00 2.59
3319 3636 5.047235 AGTTCGAACAACAGCCTATTACTCT 60.047 40.000 28.78 0.00 0.00 3.24
3320 3637 4.995124 TCGAACAACAGCCTATTACTCTC 58.005 43.478 0.00 0.00 0.00 3.20
3321 3638 4.705507 TCGAACAACAGCCTATTACTCTCT 59.294 41.667 0.00 0.00 0.00 3.10
3322 3639 5.038033 CGAACAACAGCCTATTACTCTCTC 58.962 45.833 0.00 0.00 0.00 3.20
3323 3640 5.163602 CGAACAACAGCCTATTACTCTCTCT 60.164 44.000 0.00 0.00 0.00 3.10
3324 3641 6.613153 AACAACAGCCTATTACTCTCTCTT 57.387 37.500 0.00 0.00 0.00 2.85
3325 3642 6.613153 ACAACAGCCTATTACTCTCTCTTT 57.387 37.500 0.00 0.00 0.00 2.52
3326 3643 7.010339 ACAACAGCCTATTACTCTCTCTTTT 57.990 36.000 0.00 0.00 0.00 2.27
3327 3644 7.454225 ACAACAGCCTATTACTCTCTCTTTTT 58.546 34.615 0.00 0.00 0.00 1.94
3368 3685 9.838339 CCTATTACTTCAGAGTGGATATTTTGT 57.162 33.333 0.00 0.00 36.60 2.83
3403 3727 5.883115 TGAGACAAACACTTTGATACCAACA 59.117 36.000 1.75 0.00 43.26 3.33
3423 3747 5.596836 ACAAACCAAATTCTCAAGCAAGA 57.403 34.783 0.00 0.00 0.00 3.02
3441 3767 7.275888 AGCAAGAAACAGTGATGTTTATTCA 57.724 32.000 9.95 0.00 40.02 2.57
3444 3770 8.025445 GCAAGAAACAGTGATGTTTATTCATCT 58.975 33.333 9.95 0.00 40.02 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 45 3.399181 TGGTGGATGTCTCCGGCC 61.399 66.667 0.00 0.00 45.37 6.13
50 51 2.261671 GCGTCGTGGTGGATGTCT 59.738 61.111 0.00 0.00 0.00 3.41
90 92 3.632080 CCGGCGCCCCATATGGTA 61.632 66.667 23.46 0.00 0.00 3.25
157 159 3.474570 GCAGCGGGTGAGGGAGAT 61.475 66.667 12.03 0.00 0.00 2.75
187 195 2.904866 AAACATGGCACCGCGTGT 60.905 55.556 4.92 0.00 35.75 4.49
193 201 1.131126 CATCGACTCAAACATGGCACC 59.869 52.381 0.00 0.00 0.00 5.01
226 234 3.461773 CTCCGAGGCCATGGACGT 61.462 66.667 18.40 8.58 0.00 4.34
328 336 1.760613 GGTCCATGGATCCGACACTAA 59.239 52.381 19.62 0.00 0.00 2.24
345 353 1.231958 TTGCGTCCGTCCAAATGGTC 61.232 55.000 0.00 0.00 36.34 4.02
425 435 3.043713 CTGTTCGGCTTGCGCTCA 61.044 61.111 9.73 0.00 36.09 4.26
441 451 2.123077 CCCGAGGAGGAGATGGCT 60.123 66.667 0.00 0.00 45.00 4.75
505 522 2.892425 GACGGGCAGCGGATTCAG 60.892 66.667 0.00 0.00 0.00 3.02
571 592 1.074090 TTCACTCCCCCACACTCCA 60.074 57.895 0.00 0.00 0.00 3.86
588 609 5.061721 ACCAAATCCTAACCACTTCACTT 57.938 39.130 0.00 0.00 0.00 3.16
660 693 1.000521 ACTACATCGGACCCGGACA 60.001 57.895 0.73 0.00 40.25 4.02
662 695 1.755395 CCACTACATCGGACCCGGA 60.755 63.158 0.73 0.00 40.25 5.14
673 706 1.982395 CCTGGGAGCGTCCACTACA 60.982 63.158 6.41 0.00 38.64 2.74
685 729 2.217038 GGATATGAGGCGCCTGGGA 61.217 63.158 38.41 19.00 0.00 4.37
689 733 4.008933 GGCGGATATGAGGCGCCT 62.009 66.667 33.48 33.48 41.91 5.52
712 757 0.334676 CCCTCATACCCAGCCCAAAA 59.665 55.000 0.00 0.00 0.00 2.44
723 774 2.289945 GGATGATCAGCACCCCTCATAC 60.290 54.545 13.85 0.00 0.00 2.39
742 793 0.389817 CGAGCATCAAACGTCCAGGA 60.390 55.000 0.00 0.00 33.17 3.86
756 807 2.357034 GGACGCCTCAAACGAGCA 60.357 61.111 0.00 0.00 0.00 4.26
775 826 1.548986 GCGCGAAAATTTGATCCAGG 58.451 50.000 12.10 0.00 0.00 4.45
780 831 0.738389 ATCGGGCGCGAAAATTTGAT 59.262 45.000 30.01 7.95 0.00 2.57
794 845 4.570663 GGCGGACGAGTGATCGGG 62.571 72.222 2.46 0.00 37.45 5.14
798 849 4.129737 CACGGGCGGACGAGTGAT 62.130 66.667 0.00 0.00 36.79 3.06
814 873 2.887783 TCCCAAATCTGCTTAAAACGCA 59.112 40.909 0.00 0.00 35.80 5.24
821 880 2.343101 CGAACGTCCCAAATCTGCTTA 58.657 47.619 0.00 0.00 0.00 3.09
823 882 0.673644 CCGAACGTCCCAAATCTGCT 60.674 55.000 0.00 0.00 0.00 4.24
828 887 0.322322 TACAGCCGAACGTCCCAAAT 59.678 50.000 0.00 0.00 0.00 2.32
965 1025 2.586792 GCGGGAATGCCAGAGACT 59.413 61.111 0.00 0.00 35.15 3.24
994 1054 4.830765 GTACGGGCGCATGCTGGA 62.831 66.667 17.13 0.00 42.25 3.86
1750 1829 1.597027 CGAACACCTTGACCGCCTT 60.597 57.895 0.00 0.00 0.00 4.35
1760 1839 1.299976 GGCATTCCCTCGAACACCT 59.700 57.895 0.00 0.00 0.00 4.00
1803 1882 1.079681 GAACGCACCGACCATGGTA 60.080 57.895 19.80 0.00 41.38 3.25
1854 1933 0.464013 CTGCCATCCTCTCCAAGCAG 60.464 60.000 0.00 0.00 41.43 4.24
2052 2131 2.439701 CCTACCGCGTCCTCCAGA 60.440 66.667 4.92 0.00 0.00 3.86
2067 2146 0.179018 GCATTGTCCCGATTAGCCCT 60.179 55.000 0.00 0.00 0.00 5.19
2106 2185 1.000019 TAGGAGAGACCCCCACACG 60.000 63.158 0.00 0.00 40.05 4.49
2388 2467 1.138859 CCAAGCACGTCCCATATCTCA 59.861 52.381 0.00 0.00 0.00 3.27
2436 2515 5.011125 TGTTTCTTCTTCTTCCTCGTCTGAT 59.989 40.000 0.00 0.00 0.00 2.90
2502 2587 5.290493 TGTTAGTCTGTCACATGGTTTCT 57.710 39.130 0.00 0.00 0.00 2.52
2503 2588 5.527582 ACTTGTTAGTCTGTCACATGGTTTC 59.472 40.000 0.00 0.00 0.00 2.78
2513 2598 5.983720 TCACTGCTTAACTTGTTAGTCTGTC 59.016 40.000 0.00 0.00 31.99 3.51
2554 2653 7.572523 TCATACTCCTTGGCAATAAATCAAG 57.427 36.000 0.00 0.00 38.01 3.02
2600 2702 3.006323 ACTTTGTGTTTGGTGCTGAACAA 59.994 39.130 0.00 0.00 37.49 2.83
2638 2744 5.324784 ACAAAACTGGAAAGACAAGGAAC 57.675 39.130 0.00 0.00 0.00 3.62
2645 2751 8.168626 GTCAAATTTGAACAAAACTGGAAAGAC 58.831 33.333 22.07 1.12 39.21 3.01
2671 2777 5.241728 TCCATCGTATATCAAGAGGACACTG 59.758 44.000 0.00 0.00 0.00 3.66
2672 2778 5.386060 TCCATCGTATATCAAGAGGACACT 58.614 41.667 0.00 0.00 0.00 3.55
2674 2780 6.493458 TCATTCCATCGTATATCAAGAGGACA 59.507 38.462 0.00 0.00 0.00 4.02
2689 2796 0.236711 GCTGGCGAATCATTCCATCG 59.763 55.000 0.00 0.00 39.47 3.84
2699 2806 2.816958 CGAGCAGTGCTGGCGAAT 60.817 61.111 25.35 0.00 39.88 3.34
2786 2895 7.014230 GGCAATATGGCTGAAGATTTTAAGGTA 59.986 37.037 1.19 0.00 40.14 3.08
2787 2896 6.183360 GGCAATATGGCTGAAGATTTTAAGGT 60.183 38.462 1.19 0.00 40.14 3.50
2823 2932 7.283329 AGAACAATCCTACAAAAGAGACTTGT 58.717 34.615 0.00 0.00 40.13 3.16
2828 2937 6.936900 CCAGAAGAACAATCCTACAAAAGAGA 59.063 38.462 0.00 0.00 0.00 3.10
2907 3032 7.122204 GGTTAAAGGTGCACCAATATAAGAACT 59.878 37.037 36.39 9.43 38.89 3.01
2946 3071 6.016610 GCAAACCCTTAATTACACTGTTCAGA 60.017 38.462 6.83 0.00 0.00 3.27
3087 3212 4.462508 TGACTCTGAACTAAGCATCCAG 57.537 45.455 0.00 0.00 0.00 3.86
3203 3329 5.607939 AACCATCTCAACATCCACGTATA 57.392 39.130 0.00 0.00 0.00 1.47
3207 3333 3.861840 ACTAACCATCTCAACATCCACG 58.138 45.455 0.00 0.00 0.00 4.94
3253 3379 8.946085 TCTTAATACTTCCTTTTGCACTGTATG 58.054 33.333 0.00 0.00 0.00 2.39
3276 3402 9.653287 TTCGAACTCATGATTTGTAAGTATCTT 57.347 29.630 2.61 0.00 0.00 2.40
3325 3642 1.045911 AGGCTGTTTCCCCGCAAAAA 61.046 50.000 0.00 0.00 0.00 1.94
3326 3643 0.178987 TAGGCTGTTTCCCCGCAAAA 60.179 50.000 0.00 0.00 0.00 2.44
3327 3644 0.039035 ATAGGCTGTTTCCCCGCAAA 59.961 50.000 0.00 0.00 0.00 3.68
3328 3645 0.039035 AATAGGCTGTTTCCCCGCAA 59.961 50.000 0.00 0.00 0.00 4.85
3329 3646 0.913205 TAATAGGCTGTTTCCCCGCA 59.087 50.000 0.65 0.00 0.00 5.69
3330 3647 1.134189 AGTAATAGGCTGTTTCCCCGC 60.134 52.381 0.65 0.00 0.00 6.13
3331 3648 3.203716 GAAGTAATAGGCTGTTTCCCCG 58.796 50.000 0.65 0.00 0.00 5.73
3332 3649 4.080526 TCTGAAGTAATAGGCTGTTTCCCC 60.081 45.833 0.65 0.00 0.00 4.81
3333 3650 5.099042 TCTGAAGTAATAGGCTGTTTCCC 57.901 43.478 0.65 0.00 0.00 3.97
3334 3651 5.582665 CACTCTGAAGTAATAGGCTGTTTCC 59.417 44.000 0.65 0.00 33.25 3.13
3335 3652 5.582665 CCACTCTGAAGTAATAGGCTGTTTC 59.417 44.000 0.65 0.00 33.25 2.78
3336 3653 5.248477 TCCACTCTGAAGTAATAGGCTGTTT 59.752 40.000 0.65 0.00 33.25 2.83
3368 3685 7.581213 AAGTGTTTGTCTCAACCATGAATAA 57.419 32.000 0.00 0.00 34.49 1.40
3403 3727 6.405538 TGTTTCTTGCTTGAGAATTTGGTTT 58.594 32.000 0.00 0.00 35.70 3.27
3469 3795 8.947115 GGTTCATCAAATTTGTACTTAGCTAGT 58.053 33.333 17.47 0.00 41.04 2.57
3470 3796 8.946085 TGGTTCATCAAATTTGTACTTAGCTAG 58.054 33.333 17.47 0.00 0.00 3.42
3477 3803 7.124147 CCCCTTATGGTTCATCAAATTTGTACT 59.876 37.037 17.47 1.93 0.00 2.73
3491 3818 3.074094 GGGTAGAATCCCCCTTATGGTTC 59.926 52.174 0.00 0.00 41.54 3.62
3492 3819 3.061369 GGGTAGAATCCCCCTTATGGTT 58.939 50.000 0.00 0.00 41.54 3.67


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

AutoCloner maintained by Alex Coulton.