Multiple sequence alignment - TraesCS4D01G133900

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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 TraesCS4D01G133900 chr4D 100.000 3639 0 0 1 3639 120864512 120868150 0.000000e+00 6721
1 TraesCS4D01G133900 chr4D 94.382 89 4 1 3551 3639 255107384 255107471 6.340000e-28 135
2 TraesCS4D01G133900 chr4B 94.734 3551 114 27 1 3517 183602393 183605904 0.000000e+00 5454
3 TraesCS4D01G133900 chr4A 97.249 2581 67 4 815 3395 452342938 452345514 0.000000e+00 4370
4 TraesCS4D01G133900 chr4A 95.916 759 20 5 1 756 452342159 452342909 0.000000e+00 1219
5 TraesCS4D01G133900 chr4A 94.815 135 6 1 3429 3562 452345513 452345647 3.680000e-50 209
6 TraesCS4D01G133900 chr2B 98.750 80 1 0 3560 3639 278294515 278294436 3.790000e-30 143
7 TraesCS4D01G133900 chr2B 95.402 87 4 0 3553 3639 489611639 489611553 4.900000e-29 139
8 TraesCS4D01G133900 chr6D 97.561 82 1 1 3558 3639 152670828 152670908 4.900000e-29 139
9 TraesCS4D01G133900 chr5B 97.561 82 1 1 3558 3639 363280851 363280771 4.900000e-29 139
10 TraesCS4D01G133900 chr2D 97.561 82 1 1 3558 3639 121181838 121181758 4.900000e-29 139
11 TraesCS4D01G133900 chr2D 96.429 84 3 0 3556 3639 215753150 215753233 4.900000e-29 139
12 TraesCS4D01G133900 chr3D 94.444 90 3 2 3551 3639 543277199 543277111 1.760000e-28 137
13 TraesCS4D01G133900 chr6B 95.349 86 3 1 3554 3639 220618950 220618866 6.340000e-28 135


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 TraesCS4D01G133900 chr4D 120864512 120868150 3638 False 6721.000000 6721 100.000000 1 3639 1 chr4D.!!$F1 3638
1 TraesCS4D01G133900 chr4B 183602393 183605904 3511 False 5454.000000 5454 94.734000 1 3517 1 chr4B.!!$F1 3516
2 TraesCS4D01G133900 chr4A 452342159 452345647 3488 False 1932.666667 4370 95.993333 1 3562 3 chr4A.!!$F1 3561

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
756 779 0.419459 ATCCCCTCTCCCAGTTGAGT 59.581 55.0 0.00 0.0 33.93 3.41 F
1576 1620 0.531532 CCATCGATGTGGACAGCCTC 60.532 60.0 23.27 0.0 42.02 4.70 F
1738 1782 0.898789 TGGAGGAAGACGAGGACACC 60.899 60.0 0.00 0.0 0.00 4.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2272 2316 0.539207 TTGCTGCACCACTATTGCCA 60.539 50.0 0.00 0.0 39.39 4.92 R
2416 2460 0.798776 GATAAGGGATCGCGCCATTG 59.201 55.0 12.06 0.0 33.42 2.82 R
3601 3651 0.105593 CCGATCCAGGGATGACACTG 59.894 60.0 5.35 0.0 46.15 3.66 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
189 190 5.353400 GGTAGGTAGTACAATCCAAAGCAAC 59.647 44.000 2.06 0.00 32.62 4.17
532 550 8.184192 GTGGGAATGTATGAAGTGAAATGTTAG 58.816 37.037 0.00 0.00 0.00 2.34
625 644 3.258372 GGGGAAAGGGTAAAGCAAAAGAG 59.742 47.826 0.00 0.00 0.00 2.85
626 645 3.258372 GGGAAAGGGTAAAGCAAAAGAGG 59.742 47.826 0.00 0.00 0.00 3.69
627 646 3.258372 GGAAAGGGTAAAGCAAAAGAGGG 59.742 47.826 0.00 0.00 0.00 4.30
628 647 2.604912 AGGGTAAAGCAAAAGAGGGG 57.395 50.000 0.00 0.00 0.00 4.79
756 779 0.419459 ATCCCCTCTCCCAGTTGAGT 59.581 55.000 0.00 0.00 33.93 3.41
782 812 1.001293 CAGCAGCACCACTCTAGAACA 59.999 52.381 0.00 0.00 0.00 3.18
804 836 1.299976 CACCAACAGGAGGGGTAGC 59.700 63.158 0.00 0.00 32.55 3.58
937 969 6.586344 TCTCTTCAGACAAAAACATCAGTCT 58.414 36.000 0.00 0.00 41.70 3.24
998 1042 2.999063 CCTTGCCCTTGCCCTTGG 60.999 66.667 0.00 0.00 36.33 3.61
1017 1061 6.261381 CCCTTGGTAGATATAGATAGACGAGC 59.739 46.154 0.00 0.00 0.00 5.03
1078 1122 4.559063 CCCTCCATCTGCGGCCTG 62.559 72.222 0.00 0.00 0.00 4.85
1463 1507 4.765970 AGGAGCAGGGGCCCATCA 62.766 66.667 27.72 0.00 42.56 3.07
1467 1511 4.380945 GCAGGGGCCCATCACCAA 62.381 66.667 27.72 0.00 0.00 3.67
1572 1616 0.873312 CGCTCCATCGATGTGGACAG 60.873 60.000 23.27 11.69 43.20 3.51
1576 1620 0.531532 CCATCGATGTGGACAGCCTC 60.532 60.000 23.27 0.00 42.02 4.70
1738 1782 0.898789 TGGAGGAAGACGAGGACACC 60.899 60.000 0.00 0.00 0.00 4.16
1948 1992 3.637229 CCGAGTTCTATCAGTACCACCAT 59.363 47.826 0.00 0.00 0.00 3.55
1999 2043 2.930019 CAGTGGGAGCAGGGACCA 60.930 66.667 0.00 0.00 0.00 4.02
2018 2062 5.396436 GGACCAAATTCTTATTCTCTCCGGA 60.396 44.000 2.93 2.93 0.00 5.14
2127 2171 1.351017 GTGGAACATCTGGGGTCTCAA 59.649 52.381 0.00 0.00 44.52 3.02
2443 2487 1.676014 GCGATCCCTTATCCAATCGGG 60.676 57.143 5.84 0.00 40.90 5.14
2500 2544 2.363018 GGGAAAGGAAGGCCTGCC 60.363 66.667 24.28 24.28 46.28 4.85
2553 2597 2.885266 TCGGGATGTACTGATCTAGCAC 59.115 50.000 0.00 0.00 0.00 4.40
2618 2662 2.291365 TGGCTACAATGTGCATAGCTG 58.709 47.619 14.23 5.25 40.96 4.24
2668 2712 7.278875 ACTTTTTATAGGCTCAGATCAGAAGG 58.721 38.462 0.00 0.00 0.00 3.46
2859 2903 3.891366 AGCAATAACATGATGTAAGGGCC 59.109 43.478 0.00 0.00 0.00 5.80
2905 2949 3.003897 GGTCGGTGTTGCAAGATGTTTTA 59.996 43.478 0.00 0.00 0.00 1.52
3015 3059 0.316689 GTTGTGTGCCGTTTCTTCCG 60.317 55.000 0.00 0.00 0.00 4.30
3042 3086 8.049721 CCAGAAATCCTAAATCTATGGGTATCC 58.950 40.741 0.00 0.00 0.00 2.59
3149 3197 8.739972 AGGTTGCTTATTTTCAGGTTATTGTAG 58.260 33.333 0.00 0.00 0.00 2.74
3231 3279 8.836413 CCTATCGCATTTCCTTTCTTATGTTTA 58.164 33.333 0.00 0.00 0.00 2.01
3323 3372 4.639310 CCAGCATCTAAATTCTGCTCAACT 59.361 41.667 0.00 0.00 44.09 3.16
3374 3423 6.001460 ACCAAACCGAATCTAAGTTGAATGA 58.999 36.000 0.00 0.00 0.00 2.57
3404 3453 4.404715 GTCCTTATTCCACTAGCACTGGTA 59.595 45.833 0.00 0.00 0.00 3.25
3406 3455 4.443034 CCTTATTCCACTAGCACTGGTACC 60.443 50.000 4.43 4.43 0.00 3.34
3417 3466 4.079253 AGCACTGGTACCAAGTTAAATGG 58.921 43.478 17.11 3.15 43.84 3.16
3421 3470 6.461788 GCACTGGTACCAAGTTAAATGGAAAA 60.462 38.462 17.11 0.00 40.56 2.29
3470 3519 3.655777 TGGAGGGAAGGTGTATCTGTTTT 59.344 43.478 0.00 0.00 0.00 2.43
3535 3585 3.753797 AGCAGCCTTAACTACTCAAAAGC 59.246 43.478 0.00 0.00 0.00 3.51
3543 3593 7.755373 GCCTTAACTACTCAAAAGCTAATTTGG 59.245 37.037 10.27 4.96 40.04 3.28
3563 3613 4.169271 CCAGGCCATGGCATACTG 57.831 61.111 36.56 30.62 43.83 2.74
3564 3614 1.228228 CCAGGCCATGGCATACTGT 59.772 57.895 36.56 11.71 43.83 3.55
3565 3615 0.473755 CCAGGCCATGGCATACTGTA 59.526 55.000 36.56 0.00 43.83 2.74
3566 3616 1.544093 CCAGGCCATGGCATACTGTAG 60.544 57.143 36.56 17.42 43.83 2.74
3567 3617 0.109342 AGGCCATGGCATACTGTAGC 59.891 55.000 36.56 16.70 44.11 3.58
3568 3618 1.230635 GGCCATGGCATACTGTAGCG 61.231 60.000 36.56 0.00 44.11 4.26
3569 3619 0.249868 GCCATGGCATACTGTAGCGA 60.250 55.000 32.08 0.00 41.49 4.93
3570 3620 1.609061 GCCATGGCATACTGTAGCGAT 60.609 52.381 32.08 0.00 41.49 4.58
3571 3621 2.341257 CCATGGCATACTGTAGCGATC 58.659 52.381 0.00 0.00 0.00 3.69
3572 3622 2.289010 CCATGGCATACTGTAGCGATCA 60.289 50.000 0.00 0.00 0.00 2.92
3573 3623 2.800881 TGGCATACTGTAGCGATCAG 57.199 50.000 0.00 4.74 38.68 2.90
3574 3624 2.306847 TGGCATACTGTAGCGATCAGA 58.693 47.619 11.49 0.00 36.81 3.27
3575 3625 2.034685 TGGCATACTGTAGCGATCAGAC 59.965 50.000 11.49 0.00 36.81 3.51
3576 3626 2.608261 GGCATACTGTAGCGATCAGACC 60.608 54.545 11.49 5.19 36.81 3.85
3577 3627 2.294791 GCATACTGTAGCGATCAGACCT 59.705 50.000 11.49 0.00 36.81 3.85
3578 3628 3.610585 GCATACTGTAGCGATCAGACCTC 60.611 52.174 11.49 0.00 36.81 3.85
3579 3629 2.130272 ACTGTAGCGATCAGACCTCA 57.870 50.000 11.49 0.00 36.81 3.86
3580 3630 2.447443 ACTGTAGCGATCAGACCTCAA 58.553 47.619 11.49 0.00 36.81 3.02
3581 3631 2.826128 ACTGTAGCGATCAGACCTCAAA 59.174 45.455 11.49 0.00 36.81 2.69
3582 3632 3.182967 CTGTAGCGATCAGACCTCAAAC 58.817 50.000 0.00 0.00 35.20 2.93
3583 3633 2.560981 TGTAGCGATCAGACCTCAAACA 59.439 45.455 0.00 0.00 0.00 2.83
3584 3634 2.376808 AGCGATCAGACCTCAAACAG 57.623 50.000 0.00 0.00 0.00 3.16
3585 3635 1.620819 AGCGATCAGACCTCAAACAGT 59.379 47.619 0.00 0.00 0.00 3.55
3586 3636 1.996191 GCGATCAGACCTCAAACAGTC 59.004 52.381 0.00 0.00 0.00 3.51
3587 3637 2.353208 GCGATCAGACCTCAAACAGTCT 60.353 50.000 0.00 0.00 44.12 3.24
3593 3643 4.799564 AGACCTCAAACAGTCTGATCTC 57.200 45.455 6.91 0.00 41.74 2.75
3594 3644 4.415596 AGACCTCAAACAGTCTGATCTCT 58.584 43.478 6.91 0.00 41.74 3.10
3595 3645 4.220382 AGACCTCAAACAGTCTGATCTCTG 59.780 45.833 6.91 10.09 41.74 3.35
3596 3646 3.900601 ACCTCAAACAGTCTGATCTCTGT 59.099 43.478 6.91 11.07 45.21 3.41
3597 3647 4.244066 CCTCAAACAGTCTGATCTCTGTG 58.756 47.826 6.91 7.82 42.95 3.66
3598 3648 3.657634 TCAAACAGTCTGATCTCTGTGC 58.342 45.455 6.91 0.00 42.95 4.57
3599 3649 3.070015 TCAAACAGTCTGATCTCTGTGCA 59.930 43.478 6.91 0.00 42.95 4.57
3600 3650 3.977134 AACAGTCTGATCTCTGTGCAT 57.023 42.857 6.91 2.93 42.95 3.96
3601 3651 3.523606 ACAGTCTGATCTCTGTGCATC 57.476 47.619 6.91 0.00 42.30 3.91
3602 3652 2.830321 ACAGTCTGATCTCTGTGCATCA 59.170 45.455 6.91 0.00 42.30 3.07
3603 3653 3.119065 ACAGTCTGATCTCTGTGCATCAG 60.119 47.826 6.91 6.43 45.15 2.90
3604 3654 3.098377 AGTCTGATCTCTGTGCATCAGT 58.902 45.455 11.45 0.00 44.43 3.41
3605 3655 3.119065 AGTCTGATCTCTGTGCATCAGTG 60.119 47.826 11.45 10.82 44.43 3.66
3606 3656 2.830321 TCTGATCTCTGTGCATCAGTGT 59.170 45.455 11.45 4.03 44.43 3.55
3607 3657 3.119209 TCTGATCTCTGTGCATCAGTGTC 60.119 47.826 11.45 10.75 44.43 3.67
3608 3658 2.564062 TGATCTCTGTGCATCAGTGTCA 59.436 45.455 13.59 13.25 43.97 3.58
3609 3659 3.197116 TGATCTCTGTGCATCAGTGTCAT 59.803 43.478 13.59 4.97 43.97 3.06
3610 3660 3.242549 TCTCTGTGCATCAGTGTCATC 57.757 47.619 13.59 0.00 43.97 2.92
3611 3661 2.093816 TCTCTGTGCATCAGTGTCATCC 60.094 50.000 13.59 0.00 43.97 3.51
3612 3662 1.065926 TCTGTGCATCAGTGTCATCCC 60.066 52.381 13.59 0.00 43.97 3.85
3613 3663 0.986527 TGTGCATCAGTGTCATCCCT 59.013 50.000 0.00 0.00 0.00 4.20
3614 3664 1.339342 TGTGCATCAGTGTCATCCCTG 60.339 52.381 0.00 0.00 0.00 4.45
3615 3665 0.253894 TGCATCAGTGTCATCCCTGG 59.746 55.000 0.00 0.00 0.00 4.45
3616 3666 0.543277 GCATCAGTGTCATCCCTGGA 59.457 55.000 0.00 0.00 0.00 3.86
3617 3667 1.142465 GCATCAGTGTCATCCCTGGAT 59.858 52.381 0.00 0.00 34.81 3.41
3618 3668 2.809665 GCATCAGTGTCATCCCTGGATC 60.810 54.545 0.00 0.00 31.62 3.36
3619 3669 1.114627 TCAGTGTCATCCCTGGATCG 58.885 55.000 0.00 0.00 31.62 3.69
3620 3670 0.105593 CAGTGTCATCCCTGGATCGG 59.894 60.000 0.00 0.00 31.62 4.18
3621 3671 0.325671 AGTGTCATCCCTGGATCGGT 60.326 55.000 0.00 0.00 31.62 4.69
3622 3672 1.063190 AGTGTCATCCCTGGATCGGTA 60.063 52.381 0.00 0.00 31.62 4.02
3623 3673 1.760613 GTGTCATCCCTGGATCGGTAA 59.239 52.381 0.00 0.00 31.62 2.85
3624 3674 2.368875 GTGTCATCCCTGGATCGGTAAT 59.631 50.000 0.00 0.00 31.62 1.89
3625 3675 2.368548 TGTCATCCCTGGATCGGTAATG 59.631 50.000 0.00 0.00 31.62 1.90
3626 3676 1.347707 TCATCCCTGGATCGGTAATGC 59.652 52.381 0.00 0.00 31.62 3.56
3627 3677 1.349026 CATCCCTGGATCGGTAATGCT 59.651 52.381 0.00 0.00 31.62 3.79
3628 3678 0.758734 TCCCTGGATCGGTAATGCTG 59.241 55.000 0.00 0.00 0.00 4.41
3629 3679 0.758734 CCCTGGATCGGTAATGCTGA 59.241 55.000 0.00 0.00 36.82 4.26
3630 3680 1.541233 CCCTGGATCGGTAATGCTGAC 60.541 57.143 0.00 0.00 34.90 3.51
3631 3681 1.138859 CCTGGATCGGTAATGCTGACA 59.861 52.381 0.00 0.00 34.90 3.58
3632 3682 2.224378 CCTGGATCGGTAATGCTGACAT 60.224 50.000 0.00 0.00 38.49 3.06
3633 3683 2.804527 CTGGATCGGTAATGCTGACATG 59.195 50.000 0.00 0.00 36.36 3.21
3634 3684 1.532868 GGATCGGTAATGCTGACATGC 59.467 52.381 0.00 0.00 36.36 4.06
3636 3686 1.368641 TCGGTAATGCTGACATGCAC 58.631 50.000 0.00 0.00 46.33 4.57
3637 3687 1.085893 CGGTAATGCTGACATGCACA 58.914 50.000 0.00 0.00 46.33 4.57
3638 3688 1.063027 CGGTAATGCTGACATGCACAG 59.937 52.381 13.84 13.84 46.33 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
102 103 4.297299 CACCATCATTGTGCATAACCTC 57.703 45.455 0.00 0.00 0.00 3.85
189 190 2.728383 GCTGCTTGTGCTTGTGCG 60.728 61.111 0.00 0.00 43.34 5.34
532 550 5.587388 TTCCATTCCATTCTTCATTGCTC 57.413 39.130 0.00 0.00 0.00 4.26
625 644 2.692741 CCCTGTCCCTCTTCCCCC 60.693 72.222 0.00 0.00 0.00 5.40
626 645 2.692741 CCCCTGTCCCTCTTCCCC 60.693 72.222 0.00 0.00 0.00 4.81
627 646 3.412408 GCCCCTGTCCCTCTTCCC 61.412 72.222 0.00 0.00 0.00 3.97
628 647 2.203549 CTTGCCCCTGTCCCTCTTCC 62.204 65.000 0.00 0.00 0.00 3.46
756 779 1.024271 GAGTGGTGCTGCTGTTTGAA 58.976 50.000 0.00 0.00 0.00 2.69
782 812 1.286305 ACCCCTCCTGTTGGTGTTGT 61.286 55.000 0.00 0.00 34.23 3.32
937 969 8.437274 ACTGAATTCCTACTTAAGAAGAGGAA 57.563 34.615 26.11 26.11 42.97 3.36
998 1042 7.488792 TCACTTCGCTCGTCTATCTATATCTAC 59.511 40.741 0.00 0.00 0.00 2.59
1017 1061 1.612469 CGCACTGCTCACTCACTTCG 61.612 60.000 0.00 0.00 0.00 3.79
1396 1440 0.906775 CCTGCCATTTCTTGCCCAAT 59.093 50.000 0.00 0.00 0.00 3.16
1572 1616 2.503382 GGGTCCATCGAGAGGAGGC 61.503 68.421 9.47 0.10 35.42 4.70
1576 1620 3.227276 CCGGGGTCCATCGAGAGG 61.227 72.222 0.00 0.34 0.00 3.69
1644 1688 4.114997 GGGGAATGCGCAACCGTG 62.115 66.667 17.11 0.00 36.67 4.94
1822 1866 1.743252 CTTGCGGCTGGAGAAGGAC 60.743 63.158 0.00 0.00 0.00 3.85
1948 1992 2.591923 AGAACACTCTGACTCTGAGCA 58.408 47.619 11.78 3.27 33.65 4.26
1999 2043 8.213679 TCATCATTCCGGAGAGAATAAGAATTT 58.786 33.333 3.34 0.00 34.69 1.82
2018 2062 4.987963 TGCTCCCTGACATATCATCATT 57.012 40.909 0.00 0.00 33.22 2.57
2127 2171 3.423539 TGGTGCTGCTCTTCTTATGTT 57.576 42.857 0.00 0.00 0.00 2.71
2272 2316 0.539207 TTGCTGCACCACTATTGCCA 60.539 50.000 0.00 0.00 39.39 4.92
2416 2460 0.798776 GATAAGGGATCGCGCCATTG 59.201 55.000 12.06 0.00 33.42 2.82
2500 2544 2.493278 AGGCAAAGAATTGGATGAACGG 59.507 45.455 0.00 0.00 37.02 4.44
2553 2597 4.946157 AGAACATAAACCTGCCTTCATCAG 59.054 41.667 0.00 0.00 0.00 2.90
2618 2662 1.676529 TCTGATGACGCTAGCTACCAC 59.323 52.381 13.93 2.35 0.00 4.16
2668 2712 2.135933 CCACTTCACTTGACGACCTTC 58.864 52.381 0.00 0.00 0.00 3.46
2859 2903 1.877637 TACCGGCATTCGATTCCATG 58.122 50.000 0.00 0.00 42.43 3.66
2905 2949 9.730705 TCTTTCTGTCAATATCAAACAAGATCT 57.269 29.630 0.00 0.00 0.00 2.75
2927 2971 3.711190 ACAAGGACCCTGCAATTTTCTTT 59.289 39.130 0.00 0.00 0.00 2.52
3015 3059 5.635120 ACCCATAGATTTAGGATTTCTGGC 58.365 41.667 0.00 0.00 0.00 4.85
3042 3086 4.500603 AGAATTCAAGTGAGCAGCAAAG 57.499 40.909 8.44 0.00 0.00 2.77
3394 3443 5.013287 TCCATTTAACTTGGTACCAGTGCTA 59.987 40.000 15.65 5.45 35.64 3.49
3417 3466 9.057089 CAAATAGACACCCCAGATATACTTTTC 57.943 37.037 0.00 0.00 0.00 2.29
3421 3470 5.606749 TGCAAATAGACACCCCAGATATACT 59.393 40.000 0.00 0.00 0.00 2.12
3535 3585 3.806625 CATGGCCTGGAACCAAATTAG 57.193 47.619 3.32 0.00 41.49 1.73
3562 3612 2.560981 TGTTTGAGGTCTGATCGCTACA 59.439 45.455 0.00 0.00 0.00 2.74
3563 3613 3.182967 CTGTTTGAGGTCTGATCGCTAC 58.817 50.000 0.00 0.00 0.00 3.58
3564 3614 2.826128 ACTGTTTGAGGTCTGATCGCTA 59.174 45.455 0.00 0.00 0.00 4.26
3565 3615 1.620819 ACTGTTTGAGGTCTGATCGCT 59.379 47.619 0.00 0.00 0.00 4.93
3566 3616 1.996191 GACTGTTTGAGGTCTGATCGC 59.004 52.381 0.00 0.00 0.00 4.58
3567 3617 3.584406 AGACTGTTTGAGGTCTGATCG 57.416 47.619 0.00 0.00 40.71 3.69
3572 3622 4.220382 CAGAGATCAGACTGTTTGAGGTCT 59.780 45.833 7.14 5.79 42.67 3.85
3573 3623 4.021544 ACAGAGATCAGACTGTTTGAGGTC 60.022 45.833 7.14 6.02 43.52 3.85
3574 3624 3.900601 ACAGAGATCAGACTGTTTGAGGT 59.099 43.478 7.14 0.00 43.52 3.85
3575 3625 4.244066 CACAGAGATCAGACTGTTTGAGG 58.756 47.826 14.43 3.77 43.52 3.86
3576 3626 3.679025 GCACAGAGATCAGACTGTTTGAG 59.321 47.826 14.43 7.51 43.52 3.02
3577 3627 3.070015 TGCACAGAGATCAGACTGTTTGA 59.930 43.478 14.43 3.32 43.52 2.69
3578 3628 3.396560 TGCACAGAGATCAGACTGTTTG 58.603 45.455 14.43 8.32 43.52 2.93
3579 3629 3.758755 TGCACAGAGATCAGACTGTTT 57.241 42.857 14.43 0.00 43.52 2.83
3580 3630 3.260128 TGATGCACAGAGATCAGACTGTT 59.740 43.478 14.43 0.00 43.52 3.16
3581 3631 2.830321 TGATGCACAGAGATCAGACTGT 59.170 45.455 12.25 12.25 46.32 3.55
3582 3632 3.521947 TGATGCACAGAGATCAGACTG 57.478 47.619 11.24 11.24 39.65 3.51
3594 3644 0.986527 AGGGATGACACTGATGCACA 59.013 50.000 0.00 0.00 0.00 4.57
3595 3645 3.869623 AGGGATGACACTGATGCAC 57.130 52.632 0.00 0.00 0.00 4.57
3601 3651 0.105593 CCGATCCAGGGATGACACTG 59.894 60.000 5.35 0.00 46.15 3.66
3602 3652 0.325671 ACCGATCCAGGGATGACACT 60.326 55.000 5.35 0.00 34.60 3.55
3603 3653 1.410004 TACCGATCCAGGGATGACAC 58.590 55.000 5.35 0.00 34.60 3.67
3604 3654 2.168458 TTACCGATCCAGGGATGACA 57.832 50.000 5.35 0.00 34.60 3.58
3605 3655 2.872038 GCATTACCGATCCAGGGATGAC 60.872 54.545 5.35 0.00 34.60 3.06
3606 3656 1.347707 GCATTACCGATCCAGGGATGA 59.652 52.381 5.35 0.00 34.60 2.92
3607 3657 1.349026 AGCATTACCGATCCAGGGATG 59.651 52.381 5.35 0.00 34.60 3.51
3608 3658 1.349026 CAGCATTACCGATCCAGGGAT 59.651 52.381 0.00 0.00 37.59 3.85
3609 3659 0.758734 CAGCATTACCGATCCAGGGA 59.241 55.000 0.00 0.00 35.02 4.20
3610 3660 0.758734 TCAGCATTACCGATCCAGGG 59.241 55.000 0.00 0.00 35.02 4.45
3611 3661 1.138859 TGTCAGCATTACCGATCCAGG 59.861 52.381 0.00 0.00 37.30 4.45
3612 3662 2.602257 TGTCAGCATTACCGATCCAG 57.398 50.000 0.00 0.00 0.00 3.86
3613 3663 2.837498 CATGTCAGCATTACCGATCCA 58.163 47.619 0.00 0.00 31.99 3.41
3614 3664 1.532868 GCATGTCAGCATTACCGATCC 59.467 52.381 0.00 0.00 31.99 3.36
3615 3665 2.212652 TGCATGTCAGCATTACCGATC 58.787 47.619 0.00 0.00 40.11 3.69
3616 3666 2.330440 TGCATGTCAGCATTACCGAT 57.670 45.000 0.00 0.00 40.11 4.18
3617 3667 3.851051 TGCATGTCAGCATTACCGA 57.149 47.368 0.00 0.00 40.11 4.69


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

AutoCloner maintained by Alex Coulton.