Multiple sequence alignment - TraesCS4A01G123000

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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 TraesCS4A01G123000 chr4A 100.000 3287 0 0 1 3287 153257286 153254000 0.000000e+00 6071.0
1 TraesCS4A01G123000 chr4D 93.471 2818 89 31 1 2745 320027326 320030121 0.000000e+00 4096.0
2 TraesCS4A01G123000 chr4D 92.769 484 29 3 2804 3287 320030126 320030603 0.000000e+00 695.0
3 TraesCS4A01G123000 chr4B 94.135 1995 56 19 820 2787 400699610 400697650 0.000000e+00 2979.0
4 TraesCS4A01G123000 chr4B 91.473 516 18 11 1 515 400700969 400700479 0.000000e+00 686.0
5 TraesCS4A01G123000 chr4B 91.824 477 34 2 2813 3287 400697651 400697178 0.000000e+00 660.0
6 TraesCS4A01G123000 chr4B 91.411 163 9 3 1682 1844 140587316 140587159 5.520000e-53 219.0
7 TraesCS4A01G123000 chr4B 87.135 171 11 3 657 827 400699936 400699777 2.010000e-42 183.0
8 TraesCS4A01G123000 chr2A 95.044 343 17 0 1586 1928 223612929 223613271 1.040000e-149 540.0
9 TraesCS4A01G123000 chr2A 78.058 278 50 9 2494 2765 88276529 88276801 7.300000e-37 165.0
10 TraesCS4A01G123000 chr6A 90.119 253 25 0 1676 1928 35259774 35259522 2.450000e-86 329.0
11 TraesCS4A01G123000 chr6A 98.438 64 1 0 1585 1648 35259837 35259774 2.680000e-21 113.0
12 TraesCS4A01G123000 chr2D 96.450 169 6 0 1676 1844 43343443 43343611 2.500000e-71 279.0
13 TraesCS4A01G123000 chr2D 78.571 140 28 2 2522 2660 69962543 69962405 1.260000e-14 91.6
14 TraesCS4A01G123000 chr5D 94.675 169 9 0 1676 1844 448570983 448571151 2.520000e-66 263.0
15 TraesCS4A01G123000 chr5D 93.103 58 3 1 1363 1420 426288489 426288545 2.100000e-12 84.2
16 TraesCS4A01G123000 chr1D 93.064 173 12 0 1727 1899 92182593 92182765 1.510000e-63 254.0
17 TraesCS4A01G123000 chr1D 78.082 219 39 7 2522 2732 332208097 332208314 2.660000e-26 130.0
18 TraesCS4A01G123000 chr7D 80.126 317 44 9 2461 2764 448867003 448866693 5.520000e-53 219.0
19 TraesCS4A01G123000 chr7D 78.486 251 41 9 2523 2764 37295819 37296065 5.680000e-33 152.0
20 TraesCS4A01G123000 chr5A 75.200 250 45 13 2522 2764 590528412 590528651 5.800000e-18 102.0
21 TraesCS4A01G123000 chr6B 74.900 251 45 13 2524 2764 511743469 511743227 7.510000e-17 99.0
22 TraesCS4A01G123000 chr1A 90.000 60 6 0 3010 3069 246127450 246127391 9.780000e-11 78.7
23 TraesCS4A01G123000 chrUn 85.455 55 3 4 2523 2574 310897510 310897458 6.000000e-03 52.8


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 TraesCS4A01G123000 chr4A 153254000 153257286 3286 True 6071.0 6071 100.00000 1 3287 1 chr4A.!!$R1 3286
1 TraesCS4A01G123000 chr4D 320027326 320030603 3277 False 2395.5 4096 93.12000 1 3287 2 chr4D.!!$F1 3286
2 TraesCS4A01G123000 chr4B 400697178 400700969 3791 True 1127.0 2979 91.14175 1 3287 4 chr4B.!!$R2 3286

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
335 336 1.004918 AAGGCCTGAACTCGAACCG 60.005 57.895 5.69 0.0 0.0 4.44 F
681 1100 1.089920 CCCTGCCGAATCAAAGTCTG 58.910 55.000 0.00 0.0 0.0 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2205 2825 2.357009 GTCGTAGTCCATGGTCGTGTAT 59.643 50.0 12.58 0.0 0.0 2.29 R
2442 3069 1.333177 GCGATGGAGGGAGTACATCT 58.667 55.0 0.00 0.0 39.0 2.90 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
148 149 1.196808 GCCGTCACAACCAATGTACTG 59.803 52.381 0.00 0.00 41.46 2.74
175 176 3.810941 CACCATTGGAAAATATGCATGGC 59.189 43.478 10.16 0.00 34.03 4.40
191 192 3.607163 GCAATGCCAGGCTGCTTA 58.393 55.556 16.73 0.00 33.20 3.09
192 193 1.436336 GCAATGCCAGGCTGCTTAG 59.564 57.895 16.73 0.00 33.20 2.18
335 336 1.004918 AAGGCCTGAACTCGAACCG 60.005 57.895 5.69 0.00 0.00 4.44
381 382 7.960738 ACCGATTTCATAAACTGATTTTGTACG 59.039 33.333 0.00 0.00 32.72 3.67
444 445 2.159179 AAGAACCACTGGCCAAAGTT 57.841 45.000 7.01 10.81 0.00 2.66
529 897 6.310467 TCGTATTCTAATTTATCAGCGATGGC 59.690 38.462 0.00 0.00 40.37 4.40
614 991 3.397618 TGTCCTCCTTTCCTCCATTTTGA 59.602 43.478 0.00 0.00 0.00 2.69
634 1011 9.754382 ATTTTGATTTTTGAGATCCCGAATATG 57.246 29.630 0.00 0.00 0.00 1.78
636 1013 4.811555 TTTTTGAGATCCCGAATATGCG 57.188 40.909 0.00 0.00 0.00 4.73
655 1032 5.616488 TGCGAAAATTGGGTAGTACTTTC 57.384 39.130 0.00 1.63 0.00 2.62
667 1044 3.942130 AGTACTTTCATTTTGCCCTGC 57.058 42.857 0.00 0.00 0.00 4.85
681 1100 1.089920 CCCTGCCGAATCAAAGTCTG 58.910 55.000 0.00 0.00 0.00 3.51
689 1108 1.322936 GAATCAAAGTCTGCGCGAGAG 59.677 52.381 12.10 4.42 0.00 3.20
742 1162 4.377839 TTTCCAAGCACATTTCGTCAAA 57.622 36.364 0.00 0.00 0.00 2.69
810 1230 3.062323 AGCTACTAACATACACGACGC 57.938 47.619 0.00 0.00 0.00 5.19
814 1234 1.980844 ACTAACATACACGACGCAACG 59.019 47.619 0.00 0.00 39.31 4.10
866 1460 1.452110 GCCCCATCATTTTTGTTGGC 58.548 50.000 0.00 0.00 0.00 4.52
1022 1616 1.945354 GCCATGGAGGACGACGAGAA 61.945 60.000 18.40 0.00 41.22 2.87
1177 1771 1.218316 GACCTGTACGAGCCCAAGG 59.782 63.158 0.00 0.00 0.00 3.61
2205 2825 2.124529 TTCAGCCACGTGGTGCAA 60.125 55.556 33.92 20.72 42.30 4.08
2328 2951 6.989169 AGCTGATTCTTTGCTCGACTATTATT 59.011 34.615 0.00 0.00 30.41 1.40
2353 2976 3.186613 GTCGATCTCCACCACTTTGTTTC 59.813 47.826 0.00 0.00 0.00 2.78
2355 2978 3.187227 CGATCTCCACCACTTTGTTTCTG 59.813 47.826 0.00 0.00 0.00 3.02
2358 2983 2.291741 CTCCACCACTTTGTTTCTGCTC 59.708 50.000 0.00 0.00 0.00 4.26
2380 3005 5.250200 TCTACATGCCAATACGTTTCCTTT 58.750 37.500 0.00 0.00 0.00 3.11
2455 3082 9.832445 TCACAAAATATAAAGATGTACTCCCTC 57.168 33.333 0.00 0.00 0.00 4.30
2461 3088 1.333177 AGATGTACTCCCTCCATCGC 58.667 55.000 0.00 0.00 39.89 4.58
2483 3111 4.380023 GCAAGGTGTATTATTTTCGGCACA 60.380 41.667 0.00 0.00 0.00 4.57
2488 3116 5.065988 GGTGTATTATTTTCGGCACAGTGAT 59.934 40.000 4.15 0.00 0.00 3.06
2587 3227 6.741992 AATGAAAAGATACACGCAATCAGA 57.258 33.333 0.00 0.00 0.00 3.27
2602 3242 5.049818 CGCAATCAGAAGAGAGACACTTTTT 60.050 40.000 0.00 0.00 0.00 1.94
2636 3279 6.902341 TCCAAGAAAAGATATATGCAATCGC 58.098 36.000 0.00 0.00 39.24 4.58
2654 3297 4.069300 TCGCGAGAGAGATACTTTCCTA 57.931 45.455 3.71 0.00 34.08 2.94
2763 3408 5.813383 TCTTAGAAAGGAACGGAGAGAGTA 58.187 41.667 0.00 0.00 0.00 2.59
2766 3411 5.176741 AGAAAGGAACGGAGAGAGTACTA 57.823 43.478 0.00 0.00 0.00 1.82
2771 3416 4.469227 AGGAACGGAGAGAGTACTACACTA 59.531 45.833 0.00 0.00 37.72 2.74
2773 3418 5.821995 GGAACGGAGAGAGTACTACACTATT 59.178 44.000 0.00 0.00 37.72 1.73
2775 3420 4.575645 ACGGAGAGAGTACTACACTATTGC 59.424 45.833 0.00 0.00 37.72 3.56
2782 3427 5.826737 AGAGTACTACACTATTGCGGTATGT 59.173 40.000 0.00 0.00 37.72 2.29
2783 3428 6.320672 AGAGTACTACACTATTGCGGTATGTT 59.679 38.462 0.00 0.00 37.72 2.71
2784 3429 6.270815 AGTACTACACTATTGCGGTATGTTG 58.729 40.000 0.00 0.00 34.98 3.33
2785 3430 3.869246 ACTACACTATTGCGGTATGTTGC 59.131 43.478 0.00 0.00 0.00 4.17
2786 3431 2.985896 ACACTATTGCGGTATGTTGCT 58.014 42.857 0.00 0.00 0.00 3.91
2787 3432 3.343617 ACACTATTGCGGTATGTTGCTT 58.656 40.909 0.00 0.00 0.00 3.91
2788 3433 3.756434 ACACTATTGCGGTATGTTGCTTT 59.244 39.130 0.00 0.00 0.00 3.51
2789 3434 4.097714 CACTATTGCGGTATGTTGCTTTG 58.902 43.478 0.00 0.00 0.00 2.77
2790 3435 3.756434 ACTATTGCGGTATGTTGCTTTGT 59.244 39.130 0.00 0.00 0.00 2.83
2791 3436 3.658757 ATTGCGGTATGTTGCTTTGTT 57.341 38.095 0.00 0.00 0.00 2.83
2792 3437 4.775058 ATTGCGGTATGTTGCTTTGTTA 57.225 36.364 0.00 0.00 0.00 2.41
2793 3438 4.569761 TTGCGGTATGTTGCTTTGTTAA 57.430 36.364 0.00 0.00 0.00 2.01
2794 3439 4.153958 TGCGGTATGTTGCTTTGTTAAG 57.846 40.909 0.00 0.00 34.36 1.85
2795 3440 3.815962 TGCGGTATGTTGCTTTGTTAAGA 59.184 39.130 0.00 0.00 32.92 2.10
2796 3441 4.457603 TGCGGTATGTTGCTTTGTTAAGAT 59.542 37.500 0.00 0.00 32.92 2.40
2797 3442 5.644206 TGCGGTATGTTGCTTTGTTAAGATA 59.356 36.000 0.00 0.00 32.92 1.98
2798 3443 6.317642 TGCGGTATGTTGCTTTGTTAAGATAT 59.682 34.615 0.00 0.00 32.92 1.63
2799 3444 6.632834 GCGGTATGTTGCTTTGTTAAGATATG 59.367 38.462 0.00 0.00 32.92 1.78
2800 3445 7.466725 GCGGTATGTTGCTTTGTTAAGATATGA 60.467 37.037 0.00 0.00 32.92 2.15
2801 3446 7.850982 CGGTATGTTGCTTTGTTAAGATATGAC 59.149 37.037 0.00 0.00 32.92 3.06
2802 3447 8.129211 GGTATGTTGCTTTGTTAAGATATGACC 58.871 37.037 0.00 0.00 32.92 4.02
2803 3448 6.176975 TGTTGCTTTGTTAAGATATGACCG 57.823 37.500 0.00 0.00 32.92 4.79
2804 3449 5.123186 TGTTGCTTTGTTAAGATATGACCGG 59.877 40.000 0.00 0.00 32.92 5.28
2805 3450 5.092554 TGCTTTGTTAAGATATGACCGGA 57.907 39.130 9.46 0.00 32.92 5.14
2990 3635 7.008021 TCCCGTATCCATAAAATAACTACCC 57.992 40.000 0.00 0.00 0.00 3.69
3087 3732 4.855340 ACTTGACCTCAACTTTCCTTTGA 58.145 39.130 0.00 0.00 0.00 2.69
3135 3780 0.671251 TTTTGGCAGCAAGGTAACCG 59.329 50.000 0.00 0.00 37.17 4.44
3139 3784 1.078708 GCAGCAAGGTAACCGCCTA 60.079 57.895 0.00 0.00 38.03 3.93
3198 3843 2.594592 GAAAGCCACCACGCCACT 60.595 61.111 0.00 0.00 0.00 4.00
3214 3859 2.126228 CTGGAAAGCCGACGCGTA 60.126 61.111 13.97 0.00 41.18 4.42
3225 3870 3.365291 GACGCGTAGATGTGCCCCA 62.365 63.158 13.97 0.00 0.00 4.96
3228 3873 2.986290 CGTAGATGTGCCCCACCA 59.014 61.111 0.00 0.00 32.73 4.17
3265 3914 3.674410 CGTCATGCATGTCACTGACTAGT 60.674 47.826 25.43 0.00 37.75 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 2.263227 CGCACGACCCCATGTACA 59.737 61.111 0.00 0.00 0.00 2.90
11 12 2.263227 CACGCACGACCCCATGTA 59.737 61.111 0.00 0.00 0.00 2.29
32 33 1.328680 CACAAGCTCACATCGCATACC 59.671 52.381 0.00 0.00 0.00 2.73
38 39 1.328680 GTATGCCACAAGCTCACATCG 59.671 52.381 0.00 0.00 44.23 3.84
41 42 1.339055 GGAGTATGCCACAAGCTCACA 60.339 52.381 0.00 0.00 44.23 3.58
42 43 1.339055 TGGAGTATGCCACAAGCTCAC 60.339 52.381 0.00 0.00 44.23 3.51
148 149 7.385752 CCATGCATATTTTCCAATGGTGATTAC 59.614 37.037 0.00 0.00 0.00 1.89
175 176 0.454600 CACTAAGCAGCCTGGCATTG 59.545 55.000 22.65 12.60 35.83 2.82
186 187 1.726892 CGACGTCGTAAGCACTAAGCA 60.727 52.381 29.08 0.00 39.26 3.91
187 188 0.905839 CGACGTCGTAAGCACTAAGC 59.094 55.000 29.08 0.00 37.87 3.09
188 189 2.159734 AGTCGACGTCGTAAGCACTAAG 60.160 50.000 34.40 5.11 40.80 2.18
189 190 1.800586 AGTCGACGTCGTAAGCACTAA 59.199 47.619 34.40 11.86 40.80 2.24
190 191 1.432514 AGTCGACGTCGTAAGCACTA 58.567 50.000 34.40 12.61 40.80 2.74
191 192 0.590195 AAGTCGACGTCGTAAGCACT 59.410 50.000 34.40 26.61 40.80 4.40
192 193 0.973423 GAAGTCGACGTCGTAAGCAC 59.027 55.000 34.40 24.92 40.80 4.40
335 336 3.365969 GGTGACGGATGACAAAAATGACC 60.366 47.826 0.00 0.00 0.00 4.02
381 382 2.432510 CTGGACTCTACAGGATTGGGAC 59.567 54.545 0.00 0.00 32.38 4.46
436 437 7.384660 TGATTGTGATGTCAATTTAACTTTGGC 59.615 33.333 0.00 0.00 38.03 4.52
444 445 7.252708 GCAGTGATGATTGTGATGTCAATTTA 58.747 34.615 0.00 0.00 38.03 1.40
529 897 4.340263 GAAAGCTTATTTTTAGCCGGTCG 58.660 43.478 1.90 0.00 39.47 4.79
536 904 5.048294 ACACACCGGGAAAGCTTATTTTTAG 60.048 40.000 6.32 0.00 0.00 1.85
603 980 6.343703 GGGATCTCAAAAATCAAAATGGAGG 58.656 40.000 0.00 0.00 0.00 4.30
614 991 5.063204 TCGCATATTCGGGATCTCAAAAAT 58.937 37.500 0.00 0.00 0.00 1.82
634 1011 5.616488 TGAAAGTACTACCCAATTTTCGC 57.384 39.130 0.00 0.00 0.00 4.70
636 1013 8.708742 GCAAAATGAAAGTACTACCCAATTTTC 58.291 33.333 0.00 0.00 0.00 2.29
655 1032 0.531657 TGATTCGGCAGGGCAAAATG 59.468 50.000 0.00 0.00 0.00 2.32
667 1044 1.059369 CGCGCAGACTTTGATTCGG 59.941 57.895 8.75 0.00 0.00 4.30
689 1108 3.132925 CTCCACTCCTAGTCTACGCTAC 58.867 54.545 0.00 0.00 0.00 3.58
742 1162 1.601419 ATGTACCCACGCAGCGTACT 61.601 55.000 22.49 8.27 38.32 2.73
810 1230 0.608130 TCACCTCACCTGGATCGTTG 59.392 55.000 0.00 0.00 0.00 4.10
814 1234 1.757699 GTACCTCACCTCACCTGGATC 59.242 57.143 0.00 0.00 0.00 3.36
866 1460 4.514577 AGGATGGGACGCGCTTCG 62.515 66.667 5.73 0.00 45.38 3.79
957 1551 0.535102 GGGGAGGACACAACACACTG 60.535 60.000 0.00 0.00 0.00 3.66
1022 1616 4.070552 GGCTCTTCTGGGTCGCGT 62.071 66.667 5.77 0.00 0.00 6.01
1115 1709 2.514824 GGAGGCGGAAGATGGTGC 60.515 66.667 0.00 0.00 0.00 5.01
1270 1864 3.373565 CAGCCCCTTCCCGTTTGC 61.374 66.667 0.00 0.00 0.00 3.68
2161 2781 4.436998 GGCCTCGTCGTGGGTGAG 62.437 72.222 14.77 0.00 0.00 3.51
2205 2825 2.357009 GTCGTAGTCCATGGTCGTGTAT 59.643 50.000 12.58 0.00 0.00 2.29
2328 2951 3.576982 ACAAAGTGGTGGAGATCGACTTA 59.423 43.478 0.00 0.00 33.95 2.24
2353 2976 2.826428 ACGTATTGGCATGTAGAGCAG 58.174 47.619 0.00 0.00 0.00 4.24
2355 2978 3.002348 GGAAACGTATTGGCATGTAGAGC 59.998 47.826 0.00 0.00 0.00 4.09
2358 2983 5.560966 AAAGGAAACGTATTGGCATGTAG 57.439 39.130 0.00 0.00 0.00 2.74
2442 3069 1.333177 GCGATGGAGGGAGTACATCT 58.667 55.000 0.00 0.00 39.00 2.90
2455 3082 5.204833 CGAAAATAATACACCTTGCGATGG 58.795 41.667 0.00 0.00 0.00 3.51
2459 3086 3.181505 TGCCGAAAATAATACACCTTGCG 60.182 43.478 0.00 0.00 0.00 4.85
2461 3088 5.106317 ACTGTGCCGAAAATAATACACCTTG 60.106 40.000 0.00 0.00 0.00 3.61
2483 3111 8.687292 ATGCATAATTATGTGTCTTGATCACT 57.313 30.769 23.14 2.05 36.83 3.41
2570 3210 5.126222 TCTCTCTTCTGATTGCGTGTATCTT 59.874 40.000 0.00 0.00 0.00 2.40
2605 3245 8.708378 TGCATATATCTTTTCTTGGAGAGAAGA 58.292 33.333 11.74 11.74 45.61 2.87
2606 3246 8.899427 TGCATATATCTTTTCTTGGAGAGAAG 57.101 34.615 2.72 2.72 44.80 2.85
2618 3261 6.159293 TCTCTCGCGATTGCATATATCTTTT 58.841 36.000 10.36 0.00 42.97 2.27
2636 3279 9.496873 TCTAGAAATAGGAAAGTATCTCTCTCG 57.503 37.037 0.00 0.00 0.00 4.04
2654 3297 8.712228 AATTCTGTTTTCAACCCTCTAGAAAT 57.288 30.769 0.00 0.00 32.00 2.17
2745 3388 4.699257 TGTAGTACTCTCTCCGTTCCTTTC 59.301 45.833 0.00 0.00 0.00 2.62
2763 3408 3.869246 GCAACATACCGCAATAGTGTAGT 59.131 43.478 0.00 0.00 0.00 2.73
2766 3411 2.985896 AGCAACATACCGCAATAGTGT 58.014 42.857 0.00 0.00 0.00 3.55
2771 3416 3.658757 AACAAAGCAACATACCGCAAT 57.341 38.095 0.00 0.00 0.00 3.56
2773 3418 3.815962 TCTTAACAAAGCAACATACCGCA 59.184 39.130 0.00 0.00 0.00 5.69
2775 3420 7.850982 GTCATATCTTAACAAAGCAACATACCG 59.149 37.037 0.00 0.00 0.00 4.02
2782 3427 5.353123 GTCCGGTCATATCTTAACAAAGCAA 59.647 40.000 0.00 0.00 0.00 3.91
2783 3428 4.873827 GTCCGGTCATATCTTAACAAAGCA 59.126 41.667 0.00 0.00 0.00 3.91
2784 3429 4.873827 TGTCCGGTCATATCTTAACAAAGC 59.126 41.667 0.00 0.00 0.00 3.51
2785 3430 6.978343 TTGTCCGGTCATATCTTAACAAAG 57.022 37.500 1.21 0.00 0.00 2.77
2786 3431 7.931578 AATTGTCCGGTCATATCTTAACAAA 57.068 32.000 1.21 0.00 0.00 2.83
2787 3432 8.262227 AGTAATTGTCCGGTCATATCTTAACAA 58.738 33.333 1.21 1.19 0.00 2.83
2788 3433 7.788026 AGTAATTGTCCGGTCATATCTTAACA 58.212 34.615 1.21 0.00 0.00 2.41
2789 3434 7.384387 GGAGTAATTGTCCGGTCATATCTTAAC 59.616 40.741 1.21 0.00 0.00 2.01
2790 3435 7.070198 TGGAGTAATTGTCCGGTCATATCTTAA 59.930 37.037 1.21 0.00 36.82 1.85
2791 3436 6.551975 TGGAGTAATTGTCCGGTCATATCTTA 59.448 38.462 1.21 0.00 36.82 2.10
2792 3437 5.365605 TGGAGTAATTGTCCGGTCATATCTT 59.634 40.000 1.21 0.00 36.82 2.40
2793 3438 4.899457 TGGAGTAATTGTCCGGTCATATCT 59.101 41.667 1.21 0.00 36.82 1.98
2794 3439 4.989168 GTGGAGTAATTGTCCGGTCATATC 59.011 45.833 1.21 0.00 36.82 1.63
2795 3440 4.654262 AGTGGAGTAATTGTCCGGTCATAT 59.346 41.667 1.21 0.00 36.82 1.78
2796 3441 4.028131 AGTGGAGTAATTGTCCGGTCATA 58.972 43.478 1.21 0.00 36.82 2.15
2797 3442 2.838202 AGTGGAGTAATTGTCCGGTCAT 59.162 45.455 1.21 0.00 36.82 3.06
2798 3443 2.028476 CAGTGGAGTAATTGTCCGGTCA 60.028 50.000 0.00 0.00 36.82 4.02
2799 3444 2.618053 CAGTGGAGTAATTGTCCGGTC 58.382 52.381 0.00 0.00 36.82 4.79
2800 3445 1.278127 CCAGTGGAGTAATTGTCCGGT 59.722 52.381 1.68 0.00 36.82 5.28
2801 3446 1.553248 TCCAGTGGAGTAATTGTCCGG 59.447 52.381 8.12 0.00 36.82 5.14
2802 3447 3.198068 CATCCAGTGGAGTAATTGTCCG 58.802 50.000 18.69 0.00 36.82 4.79
2930 3575 9.204570 GTTACTCTCAGCACTACAAAATCTTTA 57.795 33.333 0.00 0.00 0.00 1.85
2990 3635 6.993786 TTTTTGCCCAAACTTTTCCTAAAG 57.006 33.333 0.00 0.00 45.08 1.85
3026 3671 7.494298 GCAAATTTATTCCATGTTTACGGGATT 59.506 33.333 0.00 0.00 0.00 3.01
3087 3732 3.183237 GAAGCAAAACTTCGCGTGTAT 57.817 42.857 5.77 0.00 45.16 2.29
3135 3780 1.154282 GCGGCGTGAAGTTTTAGGC 60.154 57.895 9.37 0.00 0.00 3.93
3139 3784 4.322385 GGCGCGGCGTGAAGTTTT 62.322 61.111 26.40 0.00 0.00 2.43
3196 3841 2.814183 CTACGCGTCGGCTTTCCAGT 62.814 60.000 18.63 0.00 36.88 4.00
3198 3843 1.940883 ATCTACGCGTCGGCTTTCCA 61.941 55.000 18.63 0.00 36.88 3.53
3214 3859 4.052518 GGCTGGTGGGGCACATCT 62.053 66.667 0.00 0.00 35.86 2.90
3265 3914 2.815357 AGATAATGGTCTAGGGCCCA 57.185 50.000 27.56 9.36 34.66 5.36


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

AutoCloner maintained by Alex Coulton.