Multiple sequence alignment - TraesCS1D01G419200

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 TraesCS1D01G419200 chr1D 100.000 3830 0 0 1 3830 476256447 476252618 0.000000e+00 7073
1 TraesCS1D01G419200 chr1B 93.981 3622 127 41 1 3552 662555715 662552115 0.000000e+00 5397
2 TraesCS1D01G419200 chr1A 96.538 3062 74 14 455 3490 572019303 572016248 0.000000e+00 5038
3 TraesCS1D01G419200 chr1A 85.991 464 35 17 1 436 572019809 572019348 1.610000e-128 470
4 TraesCS1D01G419200 chr1A 93.458 214 13 1 3493 3706 572016203 572015991 2.220000e-82 316
5 TraesCS1D01G419200 chr2D 91.686 2153 173 4 620 2772 90500453 90502599 0.000000e+00 2979
6 TraesCS1D01G419200 chr2D 93.151 73 5 0 2925 2997 518804210 518804282 1.450000e-19 108
7 TraesCS1D01G419200 chr2B 91.854 2136 171 3 620 2753 143272708 143274842 0.000000e+00 2977
8 TraesCS1D01G419200 chr2A 91.082 2153 191 1 620 2772 90416103 90418254 0.000000e+00 2911
9 TraesCS1D01G419200 chr7A 94.521 73 4 0 2925 2997 192669494 192669422 3.130000e-21 113
10 TraesCS1D01G419200 chr7B 93.243 74 5 0 2924 2997 107127398 107127471 4.050000e-20 110
11 TraesCS1D01G419200 chr6B 93.151 73 5 0 2925 2997 225872639 225872711 1.450000e-19 108
12 TraesCS1D01G419200 chr6B 91.026 78 7 0 2920 2997 77774301 77774224 5.230000e-19 106
13 TraesCS1D01G419200 chr3B 93.151 73 5 0 2925 2997 527239943 527240015 1.450000e-19 108
14 TraesCS1D01G419200 chr5B 91.892 74 6 0 2924 2997 52308848 52308775 1.880000e-18 104


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 TraesCS1D01G419200 chr1D 476252618 476256447 3829 True 7073.000000 7073 100.000000 1 3830 1 chr1D.!!$R1 3829
1 TraesCS1D01G419200 chr1B 662552115 662555715 3600 True 5397.000000 5397 93.981000 1 3552 1 chr1B.!!$R1 3551
2 TraesCS1D01G419200 chr1A 572015991 572019809 3818 True 1941.333333 5038 91.995667 1 3706 3 chr1A.!!$R1 3705
3 TraesCS1D01G419200 chr2D 90500453 90502599 2146 False 2979.000000 2979 91.686000 620 2772 1 chr2D.!!$F1 2152
4 TraesCS1D01G419200 chr2B 143272708 143274842 2134 False 2977.000000 2977 91.854000 620 2753 1 chr2B.!!$F1 2133
5 TraesCS1D01G419200 chr2A 90416103 90418254 2151 False 2911.000000 2911 91.082000 620 2772 1 chr2A.!!$F1 2152

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
283 287 0.451783 GCGATGCACCGGAGATTTTT 59.548 50.000 9.46 0.0 0.00 1.94 F
1128 1200 1.197721 GCGGTCAAGGTGTTTGAGATG 59.802 52.381 0.00 0.0 46.09 2.90 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1215 1287 1.081892 CTTGTCCGACCATGCTTCTG 58.918 55.0 0.0 0.0 0.0 3.02 R
2848 2923 5.861787 GGTAACATTCACACAATTTACAGGC 59.138 40.0 0.0 0.0 0.0 4.85 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
54 55 8.677300 ACATCGAACTGAAGTGCATAAATAAAT 58.323 29.630 0.00 0.00 0.00 1.40
99 100 7.618019 ATGCCTCTTAACCTAGACATCATAA 57.382 36.000 0.00 0.00 0.00 1.90
280 284 2.584064 TGCGATGCACCGGAGATT 59.416 55.556 9.46 0.00 31.71 2.40
281 285 1.078497 TGCGATGCACCGGAGATTT 60.078 52.632 9.46 0.00 31.71 2.17
283 287 0.451783 GCGATGCACCGGAGATTTTT 59.548 50.000 9.46 0.00 0.00 1.94
315 336 2.292257 TGAGTGTGGACCCTATGCTACT 60.292 50.000 0.00 0.00 0.00 2.57
330 351 5.815233 ATGCTACTGCCATTGACTATAGT 57.185 39.130 4.68 4.68 38.71 2.12
345 377 4.689062 ACTATAGTGGTAGCCCATATGCT 58.311 43.478 4.10 0.00 44.35 3.79
414 446 2.542824 CCAATCGTGCCAAACTTCGTTT 60.543 45.455 0.00 0.00 36.05 3.60
515 582 2.038329 AGGTACGGGCTGCACCTA 59.962 61.111 16.88 0.00 42.91 3.08
633 704 1.545651 GGTAGTATTCCCATGGCTGGC 60.546 57.143 6.09 0.00 41.64 4.85
996 1068 2.062177 GGCCCAGGTCCGTAGCTAA 61.062 63.158 0.00 0.00 0.00 3.09
1127 1199 1.202758 TGCGGTCAAGGTGTTTGAGAT 60.203 47.619 0.00 0.00 46.09 2.75
1128 1200 1.197721 GCGGTCAAGGTGTTTGAGATG 59.802 52.381 0.00 0.00 46.09 2.90
1215 1287 0.036306 ATGGTTCGGTCAGGGTTGTC 59.964 55.000 0.00 0.00 0.00 3.18
1231 1303 0.037326 TGTCAGAAGCATGGTCGGAC 60.037 55.000 15.24 15.24 39.68 4.79
2589 2664 7.410120 TGCTATCAAACTCATCTCTCTTGTA 57.590 36.000 0.00 0.00 0.00 2.41
2652 2727 8.727100 TTCATTGTATAGAGGATGGAGTATGT 57.273 34.615 0.00 0.00 0.00 2.29
2733 2808 4.082300 TGTTGTTATGGACATCAACATGGC 60.082 41.667 12.69 0.00 42.96 4.40
2848 2923 2.742053 ACGGAAACACATCAGGAATTCG 59.258 45.455 0.00 0.00 0.00 3.34
3000 3083 9.651718 CCTAAACGATCTTATATTTCTTTGCAC 57.348 33.333 0.00 0.00 0.00 4.57
3241 3338 7.639039 TCATTTATATTGCTCATCGTTTGGAC 58.361 34.615 0.00 0.00 0.00 4.02
3393 3494 1.577328 AAGCATACACAGTGCACGGC 61.577 55.000 17.33 10.22 44.87 5.68
3453 3555 4.202514 CCCTTTTCTCTCTGGAGGTTTTCT 60.203 45.833 0.00 0.00 39.86 2.52
3454 3556 5.013183 CCCTTTTCTCTCTGGAGGTTTTCTA 59.987 44.000 0.00 0.00 39.86 2.10
3455 3557 5.935206 CCTTTTCTCTCTGGAGGTTTTCTAC 59.065 44.000 0.00 0.00 39.86 2.59
3490 3592 2.202676 CTCTTCCTCCGCACGAGC 60.203 66.667 0.00 0.00 37.27 5.03
3536 3684 3.004951 AGCAGATCCCCTTGCTGG 58.995 61.111 6.40 0.00 36.15 4.85
3556 3704 1.292223 GGTGTCGCTCAAGCCTACA 59.708 57.895 0.00 0.00 37.91 2.74
3564 3712 0.815615 CTCAAGCCTACATTCCCGCC 60.816 60.000 0.00 0.00 0.00 6.13
3567 3715 2.124860 GCCTACATTCCCGCCGTT 60.125 61.111 0.00 0.00 0.00 4.44
3623 3771 5.510671 TCTTTGCAACTTCATTTCTTCGTC 58.489 37.500 0.00 0.00 0.00 4.20
3650 3798 5.066375 TCCTTTTGTCTGAACTGTTGTGATG 59.934 40.000 0.00 0.00 0.00 3.07
3668 3816 4.693095 GTGATGTTCCTTCTTTCAGGTCTC 59.307 45.833 0.00 0.00 35.15 3.36
3713 3861 9.893305 GAATAATTTTTATGTATCAGGTTCCCG 57.107 33.333 0.00 0.00 0.00 5.14
3714 3862 9.635404 AATAATTTTTATGTATCAGGTTCCCGA 57.365 29.630 0.00 0.00 0.00 5.14
3715 3863 9.807921 ATAATTTTTATGTATCAGGTTCCCGAT 57.192 29.630 0.00 0.00 0.00 4.18
3716 3864 8.533569 AATTTTTATGTATCAGGTTCCCGATT 57.466 30.769 0.00 0.00 0.00 3.34
3717 3865 7.562454 TTTTTATGTATCAGGTTCCCGATTC 57.438 36.000 0.00 0.00 0.00 2.52
3718 3866 6.494666 TTTATGTATCAGGTTCCCGATTCT 57.505 37.500 0.00 0.00 0.00 2.40
3719 3867 6.494666 TTATGTATCAGGTTCCCGATTCTT 57.505 37.500 0.00 0.00 0.00 2.52
3720 3868 4.137116 TGTATCAGGTTCCCGATTCTTG 57.863 45.455 0.00 0.00 0.00 3.02
3721 3869 3.772572 TGTATCAGGTTCCCGATTCTTGA 59.227 43.478 0.00 0.00 0.00 3.02
3722 3870 3.550437 ATCAGGTTCCCGATTCTTGAG 57.450 47.619 0.00 0.00 0.00 3.02
3723 3871 2.536066 TCAGGTTCCCGATTCTTGAGA 58.464 47.619 0.00 0.00 0.00 3.27
3724 3872 2.497675 TCAGGTTCCCGATTCTTGAGAG 59.502 50.000 0.00 0.00 0.00 3.20
3725 3873 1.208293 AGGTTCCCGATTCTTGAGAGC 59.792 52.381 0.00 0.00 0.00 4.09
3726 3874 1.208293 GGTTCCCGATTCTTGAGAGCT 59.792 52.381 0.00 0.00 0.00 4.09
3727 3875 2.355209 GGTTCCCGATTCTTGAGAGCTT 60.355 50.000 0.00 0.00 0.00 3.74
3728 3876 3.339141 GTTCCCGATTCTTGAGAGCTTT 58.661 45.455 0.00 0.00 0.00 3.51
3729 3877 3.703001 TCCCGATTCTTGAGAGCTTTT 57.297 42.857 0.00 0.00 0.00 2.27
3730 3878 3.338249 TCCCGATTCTTGAGAGCTTTTG 58.662 45.455 0.00 0.00 0.00 2.44
3731 3879 2.421424 CCCGATTCTTGAGAGCTTTTGG 59.579 50.000 0.00 0.00 0.00 3.28
3732 3880 3.077359 CCGATTCTTGAGAGCTTTTGGT 58.923 45.455 0.00 0.00 0.00 3.67
3733 3881 3.503748 CCGATTCTTGAGAGCTTTTGGTT 59.496 43.478 0.00 0.00 0.00 3.67
3734 3882 4.022849 CCGATTCTTGAGAGCTTTTGGTTT 60.023 41.667 0.00 0.00 0.00 3.27
3735 3883 4.913924 CGATTCTTGAGAGCTTTTGGTTTG 59.086 41.667 0.00 0.00 0.00 2.93
3736 3884 5.277974 CGATTCTTGAGAGCTTTTGGTTTGA 60.278 40.000 0.00 0.00 0.00 2.69
3737 3885 4.900635 TCTTGAGAGCTTTTGGTTTGAC 57.099 40.909 0.00 0.00 0.00 3.18
3738 3886 3.632145 TCTTGAGAGCTTTTGGTTTGACC 59.368 43.478 0.00 0.00 39.22 4.02
3752 3900 4.116747 GTTTGACCAAACCACACATTGA 57.883 40.909 13.12 0.00 43.52 2.57
3753 3901 3.791973 TTGACCAAACCACACATTGAC 57.208 42.857 0.00 0.00 0.00 3.18
3754 3902 2.728007 TGACCAAACCACACATTGACA 58.272 42.857 0.00 0.00 0.00 3.58
3755 3903 3.295093 TGACCAAACCACACATTGACAT 58.705 40.909 0.00 0.00 0.00 3.06
3756 3904 3.067883 TGACCAAACCACACATTGACATG 59.932 43.478 0.00 0.00 36.34 3.21
3757 3905 3.030291 ACCAAACCACACATTGACATGT 58.970 40.909 0.00 0.00 45.18 3.21
3766 3914 3.701205 ACATTGACATGTGAGCCTACA 57.299 42.857 1.15 0.00 42.46 2.74
3767 3915 3.338249 ACATTGACATGTGAGCCTACAC 58.662 45.455 1.15 0.00 42.46 2.90
3777 3925 5.813513 TGTGAGCCTACACATGATATCAT 57.186 39.130 12.62 12.62 44.29 2.45
3778 3926 6.178607 TGTGAGCCTACACATGATATCATT 57.821 37.500 15.74 4.62 44.29 2.57
3779 3927 5.993441 TGTGAGCCTACACATGATATCATTG 59.007 40.000 15.74 17.46 44.29 2.82
3780 3928 4.999311 TGAGCCTACACATGATATCATTGC 59.001 41.667 15.74 11.04 33.61 3.56
3781 3929 5.221783 TGAGCCTACACATGATATCATTGCT 60.222 40.000 15.74 14.93 33.61 3.91
3782 3930 5.001874 AGCCTACACATGATATCATTGCTG 58.998 41.667 15.74 12.89 33.61 4.41
3783 3931 4.155462 GCCTACACATGATATCATTGCTGG 59.845 45.833 15.74 18.79 33.61 4.85
3784 3932 4.698780 CCTACACATGATATCATTGCTGGG 59.301 45.833 15.74 9.90 33.61 4.45
3785 3933 4.174704 ACACATGATATCATTGCTGGGT 57.825 40.909 15.74 10.55 33.61 4.51
3786 3934 5.308976 ACACATGATATCATTGCTGGGTA 57.691 39.130 15.74 0.00 33.61 3.69
3787 3935 5.065914 ACACATGATATCATTGCTGGGTAC 58.934 41.667 15.74 0.00 33.61 3.34
3788 3936 5.163163 ACACATGATATCATTGCTGGGTACT 60.163 40.000 15.74 0.00 33.61 2.73
3789 3937 5.766670 CACATGATATCATTGCTGGGTACTT 59.233 40.000 15.74 0.00 33.61 2.24
3790 3938 6.263842 CACATGATATCATTGCTGGGTACTTT 59.736 38.462 15.74 0.00 33.61 2.66
3791 3939 6.835488 ACATGATATCATTGCTGGGTACTTTT 59.165 34.615 15.74 0.00 33.61 2.27
3792 3940 7.342799 ACATGATATCATTGCTGGGTACTTTTT 59.657 33.333 15.74 0.00 33.61 1.94
3823 3971 4.983671 AAAATCGGTTAAATCCTCTGGC 57.016 40.909 0.00 0.00 0.00 4.85
3824 3972 2.640316 ATCGGTTAAATCCTCTGGCC 57.360 50.000 0.00 0.00 0.00 5.36
3825 3973 0.177141 TCGGTTAAATCCTCTGGCCG 59.823 55.000 0.00 0.00 39.13 6.13
3826 3974 0.177141 CGGTTAAATCCTCTGGCCGA 59.823 55.000 0.00 0.00 40.04 5.54
3827 3975 1.806623 CGGTTAAATCCTCTGGCCGAG 60.807 57.143 15.17 15.17 40.04 4.63
3828 3976 1.300481 GTTAAATCCTCTGGCCGAGC 58.700 55.000 16.29 1.27 38.49 5.03
3829 3977 0.179084 TTAAATCCTCTGGCCGAGCG 60.179 55.000 16.29 11.04 38.49 5.03
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
37 38 8.970020 ACCATCTCAATTTATTTATGCACTTCA 58.030 29.630 0.00 0.00 0.00 3.02
38 39 9.807649 AACCATCTCAATTTATTTATGCACTTC 57.192 29.630 0.00 0.00 0.00 3.01
54 55 9.326489 AGGCATATAGTCTATTAACCATCTCAA 57.674 33.333 0.00 0.00 0.00 3.02
114 116 9.053472 TCTGTAACTATCTTTAGAAATTCCCCA 57.947 33.333 0.00 0.00 0.00 4.96
284 288 2.158579 GGTCCACACTCACCCCTAAAAA 60.159 50.000 0.00 0.00 0.00 1.94
285 289 1.422402 GGTCCACACTCACCCCTAAAA 59.578 52.381 0.00 0.00 0.00 1.52
286 290 1.061546 GGTCCACACTCACCCCTAAA 58.938 55.000 0.00 0.00 0.00 1.85
287 291 0.838987 GGGTCCACACTCACCCCTAA 60.839 60.000 0.00 0.00 46.13 2.69
288 292 1.229400 GGGTCCACACTCACCCCTA 60.229 63.158 0.00 0.00 46.13 3.53
289 293 2.529389 GGGTCCACACTCACCCCT 60.529 66.667 0.00 0.00 46.13 4.79
315 336 3.071023 GGCTACCACTATAGTCAATGGCA 59.929 47.826 1.26 0.00 35.49 4.92
345 377 1.000521 ATCCTCGGACCGGTACACA 60.001 57.895 19.15 0.65 0.00 3.72
515 582 3.000819 TTCGGCCCATGAGACGGT 61.001 61.111 1.41 0.00 0.00 4.83
990 1062 1.343985 TGCCTCCCCATGTCTTAGCTA 60.344 52.381 0.00 0.00 0.00 3.32
996 1068 2.976490 GCACTGCCTCCCCATGTCT 61.976 63.158 0.00 0.00 0.00 3.41
1127 1199 2.280524 CGTCGAAACCAGGCACCA 60.281 61.111 0.00 0.00 0.00 4.17
1128 1200 3.723348 GCGTCGAAACCAGGCACC 61.723 66.667 0.00 0.00 0.00 5.01
1215 1287 1.081892 CTTGTCCGACCATGCTTCTG 58.918 55.000 0.00 0.00 0.00 3.02
1231 1303 1.619654 TGGTCCCATTGCTCAACTTG 58.380 50.000 0.00 0.00 0.00 3.16
1321 1393 1.535444 TCCTCTTCAACGCCTGGGA 60.535 57.895 0.00 0.00 0.00 4.37
2608 2683 8.041323 ACAATGAAACCGAACAGTATCTCTTAT 58.959 33.333 0.00 0.00 0.00 1.73
2613 2688 8.692710 TCTATACAATGAAACCGAACAGTATCT 58.307 33.333 0.00 0.00 0.00 1.98
2652 2727 6.057533 GGATCACCAATAGTCATCACATGAA 58.942 40.000 0.00 0.00 37.28 2.57
2733 2808 8.442632 TTGGCTCTAGAAAATAAGATGACATG 57.557 34.615 0.00 0.00 0.00 3.21
2848 2923 5.861787 GGTAACATTCACACAATTTACAGGC 59.138 40.000 0.00 0.00 0.00 4.85
2974 3049 9.651718 GTGCAAAGAAATATAAGATCGTTTAGG 57.348 33.333 0.00 0.00 0.00 2.69
3074 3170 7.820648 ACAAAGTTCATCATCCAGTTAATGTC 58.179 34.615 0.00 0.00 0.00 3.06
3216 3313 7.255104 GGTCCAAACGATGAGCAATATAAATGA 60.255 37.037 0.00 0.00 0.00 2.57
3241 3338 7.591006 TGTCGCTAACTTTTTAGATTACTGG 57.409 36.000 0.00 0.00 37.49 4.00
3424 3525 3.817647 CTCCAGAGAGAAAAGGGTTGTTG 59.182 47.826 0.00 0.00 43.39 3.33
3453 3555 4.019321 AGAGGAAAACCATGCTTGCTAGTA 60.019 41.667 0.00 0.00 0.00 1.82
3454 3556 3.084786 GAGGAAAACCATGCTTGCTAGT 58.915 45.455 0.00 0.00 0.00 2.57
3455 3557 3.350833 AGAGGAAAACCATGCTTGCTAG 58.649 45.455 0.00 0.00 0.00 3.42
3556 3704 0.535102 GGATGATCAACGGCGGGAAT 60.535 55.000 13.24 0.06 0.00 3.01
3564 3712 1.133025 GCAAACCTGGGATGATCAACG 59.867 52.381 0.00 0.00 0.00 4.10
3567 3715 2.133281 CAGCAAACCTGGGATGATCA 57.867 50.000 0.00 0.00 37.93 2.92
3612 3760 3.058914 ACAAAAGGAGCGACGAAGAAATG 60.059 43.478 0.00 0.00 0.00 2.32
3623 3771 2.213499 ACAGTTCAGACAAAAGGAGCG 58.787 47.619 0.00 0.00 0.00 5.03
3707 3855 2.682155 AGCTCTCAAGAATCGGGAAC 57.318 50.000 0.00 0.00 0.00 3.62
3708 3856 3.703001 AAAGCTCTCAAGAATCGGGAA 57.297 42.857 0.00 0.00 0.00 3.97
3709 3857 3.338249 CAAAAGCTCTCAAGAATCGGGA 58.662 45.455 0.00 0.00 0.00 5.14
3710 3858 2.421424 CCAAAAGCTCTCAAGAATCGGG 59.579 50.000 0.00 0.00 0.00 5.14
3711 3859 3.077359 ACCAAAAGCTCTCAAGAATCGG 58.923 45.455 0.00 0.00 0.00 4.18
3712 3860 4.756084 AACCAAAAGCTCTCAAGAATCG 57.244 40.909 0.00 0.00 0.00 3.34
3713 3861 5.917447 GTCAAACCAAAAGCTCTCAAGAATC 59.083 40.000 0.00 0.00 0.00 2.52
3714 3862 5.221322 GGTCAAACCAAAAGCTCTCAAGAAT 60.221 40.000 0.00 0.00 38.42 2.40
3715 3863 4.097892 GGTCAAACCAAAAGCTCTCAAGAA 59.902 41.667 0.00 0.00 38.42 2.52
3716 3864 3.632145 GGTCAAACCAAAAGCTCTCAAGA 59.368 43.478 0.00 0.00 38.42 3.02
3717 3865 3.969899 GGTCAAACCAAAAGCTCTCAAG 58.030 45.455 0.00 0.00 38.42 3.02
3732 3880 3.511540 TGTCAATGTGTGGTTTGGTCAAA 59.488 39.130 0.00 0.00 0.00 2.69
3733 3881 3.092301 TGTCAATGTGTGGTTTGGTCAA 58.908 40.909 0.00 0.00 0.00 3.18
3734 3882 2.728007 TGTCAATGTGTGGTTTGGTCA 58.272 42.857 0.00 0.00 0.00 4.02
3735 3883 3.068024 ACATGTCAATGTGTGGTTTGGTC 59.932 43.478 0.00 0.00 45.51 4.02
3736 3884 3.030291 ACATGTCAATGTGTGGTTTGGT 58.970 40.909 0.00 0.00 45.51 3.67
3737 3885 3.731652 ACATGTCAATGTGTGGTTTGG 57.268 42.857 0.00 0.00 45.51 3.28
3747 3895 3.337358 TGTGTAGGCTCACATGTCAATG 58.663 45.455 13.41 0.00 42.36 2.82
3748 3896 3.701205 TGTGTAGGCTCACATGTCAAT 57.299 42.857 13.41 0.00 42.36 2.57
3756 3904 5.106791 GCAATGATATCATGTGTAGGCTCAC 60.107 44.000 18.85 0.00 36.56 3.51
3757 3905 4.999311 GCAATGATATCATGTGTAGGCTCA 59.001 41.667 18.85 0.00 36.56 4.26
3758 3906 5.121925 CAGCAATGATATCATGTGTAGGCTC 59.878 44.000 18.85 6.08 36.56 4.70
3759 3907 5.001874 CAGCAATGATATCATGTGTAGGCT 58.998 41.667 18.85 16.04 36.56 4.58
3760 3908 4.155462 CCAGCAATGATATCATGTGTAGGC 59.845 45.833 18.85 14.36 36.56 3.93
3761 3909 4.698780 CCCAGCAATGATATCATGTGTAGG 59.301 45.833 18.85 19.19 36.56 3.18
3762 3910 5.311265 ACCCAGCAATGATATCATGTGTAG 58.689 41.667 18.85 13.51 36.56 2.74
3763 3911 5.308976 ACCCAGCAATGATATCATGTGTA 57.691 39.130 18.85 0.00 36.56 2.90
3764 3912 4.174704 ACCCAGCAATGATATCATGTGT 57.825 40.909 18.85 2.83 36.56 3.72
3765 3913 5.311265 AGTACCCAGCAATGATATCATGTG 58.689 41.667 18.85 17.66 36.56 3.21
3766 3914 5.573380 AGTACCCAGCAATGATATCATGT 57.427 39.130 18.85 12.96 36.56 3.21
3767 3915 6.889301 AAAGTACCCAGCAATGATATCATG 57.111 37.500 18.85 13.34 36.56 3.07
3768 3916 7.902920 AAAAAGTACCCAGCAATGATATCAT 57.097 32.000 12.62 12.62 38.41 2.45
3801 3949 4.159693 GGCCAGAGGATTTAACCGATTTTT 59.840 41.667 0.00 0.00 34.73 1.94
3802 3950 3.699538 GGCCAGAGGATTTAACCGATTTT 59.300 43.478 0.00 0.00 34.73 1.82
3803 3951 3.288092 GGCCAGAGGATTTAACCGATTT 58.712 45.455 0.00 0.00 34.73 2.17
3804 3952 2.745152 CGGCCAGAGGATTTAACCGATT 60.745 50.000 2.24 0.00 41.61 3.34
3805 3953 1.202651 CGGCCAGAGGATTTAACCGAT 60.203 52.381 2.24 0.00 41.61 4.18
3806 3954 0.177141 CGGCCAGAGGATTTAACCGA 59.823 55.000 2.24 0.00 41.61 4.69
3807 3955 0.177141 TCGGCCAGAGGATTTAACCG 59.823 55.000 2.24 0.00 40.47 4.44
3808 3956 1.954927 CTCGGCCAGAGGATTTAACC 58.045 55.000 14.53 0.00 43.20 2.85
3809 3957 1.300481 GCTCGGCCAGAGGATTTAAC 58.700 55.000 21.05 4.33 46.91 2.01
3810 3958 0.179084 CGCTCGGCCAGAGGATTTAA 60.179 55.000 21.05 0.00 46.91 1.52
3811 3959 1.441729 CGCTCGGCCAGAGGATTTA 59.558 57.895 21.05 0.00 46.91 1.40
3812 3960 2.187946 CGCTCGGCCAGAGGATTT 59.812 61.111 21.05 0.00 46.91 2.17


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

AutoCloner maintained by Alex Coulton.