Multiple sequence alignment - TraesCS3A01G135500

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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 TraesCS3A01G135500 chr3A 100.000 3401 0 0 1 3401 112956446 112959846 0.000000e+00 6281
1 TraesCS3A01G135500 chr3A 73.282 655 161 14 1022 1669 542202777 542203424 9.490000e-56 228
2 TraesCS3A01G135500 chr3B 94.173 3415 133 30 1 3401 169627684 169631046 0.000000e+00 5144
3 TraesCS3A01G135500 chr3B 72.741 642 163 12 1034 1669 534965450 534964815 4.450000e-49 206
4 TraesCS3A01G135500 chr3D 94.254 2924 99 34 1 2907 116041466 116044337 0.000000e+00 4405
5 TraesCS3A01G135500 chr3D 93.802 484 24 4 2923 3401 116044386 116044868 0.000000e+00 723
6 TraesCS3A01G135500 chr3D 72.897 642 162 12 1034 1669 409021983 409021348 9.560000e-51 211
7 TraesCS3A01G135500 chr2B 75.365 617 146 6 1049 1662 91836508 91837121 3.320000e-75 292
8 TraesCS3A01G135500 chr2A 75.240 626 149 5 1049 1671 59323948 59323326 3.320000e-75 292
9 TraesCS3A01G135500 chr2D 74.392 617 152 6 1049 1662 59007124 59007737 3.370000e-65 259


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 TraesCS3A01G135500 chr3A 112956446 112959846 3400 False 6281 6281 100.000 1 3401 1 chr3A.!!$F1 3400
1 TraesCS3A01G135500 chr3A 542202777 542203424 647 False 228 228 73.282 1022 1669 1 chr3A.!!$F2 647
2 TraesCS3A01G135500 chr3B 169627684 169631046 3362 False 5144 5144 94.173 1 3401 1 chr3B.!!$F1 3400
3 TraesCS3A01G135500 chr3B 534964815 534965450 635 True 206 206 72.741 1034 1669 1 chr3B.!!$R1 635
4 TraesCS3A01G135500 chr3D 116041466 116044868 3402 False 2564 4405 94.028 1 3401 2 chr3D.!!$F1 3400
5 TraesCS3A01G135500 chr3D 409021348 409021983 635 True 211 211 72.897 1034 1669 1 chr3D.!!$R1 635
6 TraesCS3A01G135500 chr2B 91836508 91837121 613 False 292 292 75.365 1049 1662 1 chr2B.!!$F1 613
7 TraesCS3A01G135500 chr2A 59323326 59323948 622 True 292 292 75.240 1049 1671 1 chr2A.!!$R1 622
8 TraesCS3A01G135500 chr2D 59007124 59007737 613 False 259 259 74.392 1049 1662 1 chr2D.!!$F1 613

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
34 35 0.249398 TCCTGGAAGCTTCTTACCGC 59.751 55.0 25.05 8.65 0.00 5.68 F
83 87 0.535335 GTTGGACACCTATCGCCAGA 59.465 55.0 0.00 0.00 0.00 3.86 F
1834 1847 0.607489 AGCAGTGATGCTGGGAACAC 60.607 55.0 1.20 0.00 44.44 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1839 1852 0.321653 GATCCTTTGAGGCACGTGGT 60.322 55.000 18.88 0.0 34.61 4.16 R
1911 1924 1.693606 CCATTTGGTTGTTCTGCCCTT 59.306 47.619 0.00 0.0 0.00 3.95 R
2753 2772 2.747177 ACCGGGAATATGACACAGAGA 58.253 47.619 6.32 0.0 0.00 3.10 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
24 25 0.329596 AGGGTCAATGTCCTGGAAGC 59.670 55.000 0.00 0.00 31.11 3.86
29 30 3.416156 GTCAATGTCCTGGAAGCTTCTT 58.584 45.455 25.05 7.67 0.00 2.52
33 34 1.275291 TGTCCTGGAAGCTTCTTACCG 59.725 52.381 25.05 9.31 0.00 4.02
34 35 0.249398 TCCTGGAAGCTTCTTACCGC 59.751 55.000 25.05 8.65 0.00 5.68
65 66 8.829612 CATTTGTCAGCTAAAAATGAAAAAGGT 58.170 29.630 17.02 0.00 41.64 3.50
83 87 0.535335 GTTGGACACCTATCGCCAGA 59.465 55.000 0.00 0.00 0.00 3.86
87 91 2.213499 GGACACCTATCGCCAGAATTG 58.787 52.381 0.00 0.00 0.00 2.32
91 95 3.181471 ACACCTATCGCCAGAATTGAGAG 60.181 47.826 0.00 0.00 0.00 3.20
139 143 0.948623 TGTACAGCATGCGTGTGGTC 60.949 55.000 24.18 16.93 42.53 4.02
140 144 0.948623 GTACAGCATGCGTGTGGTCA 60.949 55.000 24.18 8.84 42.53 4.02
141 145 0.670239 TACAGCATGCGTGTGGTCAG 60.670 55.000 24.18 7.49 42.53 3.51
142 146 1.962822 CAGCATGCGTGTGGTCAGT 60.963 57.895 13.01 0.00 0.00 3.41
144 148 1.081906 GCATGCGTGTGGTCAGTTG 60.082 57.895 0.00 0.00 0.00 3.16
145 149 1.081906 CATGCGTGTGGTCAGTTGC 60.082 57.895 0.00 0.00 0.00 4.17
146 150 1.525765 ATGCGTGTGGTCAGTTGCA 60.526 52.632 0.00 0.00 33.92 4.08
148 152 1.207593 GCGTGTGGTCAGTTGCATC 59.792 57.895 0.00 0.00 0.00 3.91
149 153 1.868997 CGTGTGGTCAGTTGCATCC 59.131 57.895 0.00 0.00 0.00 3.51
150 154 0.884259 CGTGTGGTCAGTTGCATCCA 60.884 55.000 0.00 0.00 0.00 3.41
151 155 0.877071 GTGTGGTCAGTTGCATCCAG 59.123 55.000 0.00 0.00 0.00 3.86
152 156 0.764271 TGTGGTCAGTTGCATCCAGA 59.236 50.000 0.00 0.00 0.00 3.86
153 157 1.352017 TGTGGTCAGTTGCATCCAGAT 59.648 47.619 0.00 0.00 0.00 2.90
154 158 2.012673 GTGGTCAGTTGCATCCAGATC 58.987 52.381 0.00 0.00 0.00 2.75
155 159 1.629861 TGGTCAGTTGCATCCAGATCA 59.370 47.619 0.00 0.00 0.00 2.92
156 160 2.040145 TGGTCAGTTGCATCCAGATCAA 59.960 45.455 0.00 0.00 0.00 2.57
159 163 3.693085 GTCAGTTGCATCCAGATCAATGT 59.307 43.478 0.00 0.00 0.00 2.71
161 165 5.355071 GTCAGTTGCATCCAGATCAATGTAA 59.645 40.000 0.00 0.00 0.00 2.41
164 168 6.529125 CAGTTGCATCCAGATCAATGTAAAAC 59.471 38.462 0.00 3.60 30.87 2.43
173 177 9.958180 TCCAGATCAATGTAAAACTGAGAATTA 57.042 29.630 0.00 0.00 0.00 1.40
298 305 1.640670 ACCACCCCAGAAACATATGCT 59.359 47.619 1.58 0.00 0.00 3.79
310 317 4.579454 AACATATGCTTCATCACATGCC 57.421 40.909 1.58 0.00 0.00 4.40
364 371 6.875195 TCGATTACGGAAAACCTAACATCTTT 59.125 34.615 0.00 0.00 40.21 2.52
366 373 7.148540 CGATTACGGAAAACCTAACATCTTTGA 60.149 37.037 0.00 0.00 35.72 2.69
420 427 0.673644 CCCAAGCTAAGTGGTCACCG 60.674 60.000 2.31 0.00 34.01 4.94
534 542 1.644786 GCGGTTCCCATCACGAAAGG 61.645 60.000 0.00 0.00 0.00 3.11
582 590 2.123982 GGCTGGGATGGAAGGCTG 60.124 66.667 0.00 0.00 36.14 4.85
595 603 1.490490 GAAGGCTGGGATGTGTGGATA 59.510 52.381 0.00 0.00 0.00 2.59
708 717 2.436109 GGCCTGTTCCAGCTCCAA 59.564 61.111 0.00 0.00 0.00 3.53
720 731 3.077907 CTCCAAAGGGAAGGGCGA 58.922 61.111 0.00 0.00 44.38 5.54
721 732 1.078143 CTCCAAAGGGAAGGGCGAG 60.078 63.158 0.00 0.00 44.38 5.03
722 733 2.751837 CCAAAGGGAAGGGCGAGC 60.752 66.667 0.00 0.00 35.59 5.03
723 734 2.751837 CAAAGGGAAGGGCGAGCC 60.752 66.667 5.37 5.37 0.00 4.70
724 735 3.256960 AAAGGGAAGGGCGAGCCA 61.257 61.111 16.65 0.00 37.98 4.75
778 789 1.941325 CCACCGCAGACTATTCTTCC 58.059 55.000 0.00 0.00 0.00 3.46
940 951 3.990546 CGCAGAGTAGACGCTTGTA 57.009 52.632 0.00 0.00 0.00 2.41
946 957 4.407818 CAGAGTAGACGCTTGTAGAACAG 58.592 47.826 0.00 0.00 0.00 3.16
987 1000 1.574925 CTGCTGCTCTTGTGCACAG 59.425 57.895 20.59 14.08 38.12 3.66
989 1002 1.598962 GCTGCTCTTGTGCACAGGA 60.599 57.895 27.58 27.58 38.12 3.86
1210 1223 2.351276 GCCTGGTTCGTCACCCAT 59.649 61.111 0.00 0.00 46.68 4.00
1302 1315 1.596934 CGAGCTCTTTGCCAGGGTA 59.403 57.895 12.85 0.00 44.23 3.69
1832 1845 4.730487 AGCAGTGATGCTGGGAAC 57.270 55.556 1.20 0.00 44.44 3.62
1833 1846 1.763120 AGCAGTGATGCTGGGAACA 59.237 52.632 1.20 0.00 44.44 3.18
1834 1847 0.607489 AGCAGTGATGCTGGGAACAC 60.607 55.000 1.20 0.00 44.44 3.32
1911 1924 1.962807 CACAAGGATGGTGAAGGCAAA 59.037 47.619 0.00 0.00 0.00 3.68
1930 1943 3.473923 AAAGGGCAGAACAACCAAATG 57.526 42.857 0.00 0.00 0.00 2.32
1933 1946 0.667184 GGCAGAACAACCAAATGGCG 60.667 55.000 0.00 0.00 39.32 5.69
1936 1949 0.031994 AGAACAACCAAATGGCGCAC 59.968 50.000 10.83 0.00 39.32 5.34
1986 1999 4.635473 ACATAATCTCCCTCTCCAAAGGA 58.365 43.478 0.00 0.00 38.87 3.36
1989 2002 4.787135 AATCTCCCTCTCCAAAGGATTC 57.213 45.455 0.00 0.00 38.87 2.52
2088 2101 2.928801 TAGTGTCAAAGCTGGAGCAA 57.071 45.000 0.65 0.00 45.16 3.91
2276 2289 3.135994 AGTACGAACGGTTCTGCAAAAT 58.864 40.909 17.94 0.00 0.00 1.82
2393 2406 4.204012 TCCAAGTCGACCAAAAGAAATGT 58.796 39.130 13.01 0.00 0.00 2.71
2418 2431 6.701841 TCATTTAAGTGTGATATCTTCCGAGC 59.298 38.462 3.98 0.00 0.00 5.03
2487 2505 3.726607 CTGAGACTTTGCTCACTTGAGT 58.273 45.455 8.04 0.00 43.85 3.41
2515 2533 4.950475 AGCTTTAGGGCTCTTTGTTAATCC 59.050 41.667 0.00 0.00 38.24 3.01
2530 2549 5.606505 TGTTAATCCTTTTTGCAGTTTCCC 58.393 37.500 0.00 0.00 0.00 3.97
2531 2550 5.365314 TGTTAATCCTTTTTGCAGTTTCCCT 59.635 36.000 0.00 0.00 0.00 4.20
2558 2577 7.368198 TGTGGTAGCAATTGTAGTATATGGA 57.632 36.000 7.40 0.00 0.00 3.41
2560 2579 8.436778 TGTGGTAGCAATTGTAGTATATGGATT 58.563 33.333 7.40 0.00 0.00 3.01
2614 2633 4.894114 AGGTGACAGTAACACTCTTACAGT 59.106 41.667 0.00 0.00 38.20 3.55
2690 2709 9.832445 GAACCAAAGACAGTATAGGATGATTAA 57.168 33.333 0.00 0.00 0.00 1.40
2691 2710 9.838339 AACCAAAGACAGTATAGGATGATTAAG 57.162 33.333 0.00 0.00 0.00 1.85
2692 2711 8.993424 ACCAAAGACAGTATAGGATGATTAAGT 58.007 33.333 0.00 0.00 0.00 2.24
2732 2751 9.905713 ATAATAATATCATAAATCACCGTGGCT 57.094 29.630 0.00 0.00 0.00 4.75
2753 2772 5.279910 GGCTGATAGCATAGAACAGATTCCT 60.280 44.000 2.99 0.00 44.75 3.36
2754 2773 5.868801 GCTGATAGCATAGAACAGATTCCTC 59.131 44.000 0.00 0.00 41.89 3.71
2755 2774 6.295236 GCTGATAGCATAGAACAGATTCCTCT 60.295 42.308 0.00 0.00 41.89 3.69
2756 2775 7.225784 TGATAGCATAGAACAGATTCCTCTC 57.774 40.000 0.00 0.00 35.18 3.20
2757 2776 7.009550 TGATAGCATAGAACAGATTCCTCTCT 58.990 38.462 0.00 0.00 35.18 3.10
2758 2777 5.534207 AGCATAGAACAGATTCCTCTCTG 57.466 43.478 0.00 0.00 46.59 3.35
2865 2892 2.766263 AGTAGCACGGATTTGATGGAGA 59.234 45.455 0.00 0.00 0.00 3.71
3037 3097 4.244066 GGTGATGTTACAAATGCATGCAA 58.756 39.130 26.68 4.34 0.00 4.08
3099 3159 8.299570 GGATAAGAAATCTTCAGCAGAAACAAA 58.700 33.333 0.00 0.00 37.40 2.83
3176 3237 3.244353 CCAGGAGTCAAAGAAGCAGAGAA 60.244 47.826 0.00 0.00 0.00 2.87
3218 3279 4.658071 ACACGGAAAATATGAAATCACGC 58.342 39.130 0.00 0.00 0.00 5.34
3229 3290 8.837788 AATATGAAATCACGCTCTTATGATGA 57.162 30.769 0.00 0.00 35.71 2.92
3382 3450 2.270352 TTTGCGACAGATCCAAACCT 57.730 45.000 0.00 0.00 0.00 3.50
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 1.396996 CAAATGGACGGCGGTAAGAAG 59.603 52.381 13.24 0.00 0.00 2.85
29 30 0.390603 CTGACAAATGGACGGCGGTA 60.391 55.000 13.24 0.00 0.00 4.02
33 34 1.448985 TTAGCTGACAAATGGACGGC 58.551 50.000 0.00 0.00 36.33 5.68
34 35 4.497473 TTTTTAGCTGACAAATGGACGG 57.503 40.909 0.00 0.00 0.00 4.79
65 66 1.271856 TTCTGGCGATAGGTGTCCAA 58.728 50.000 0.00 0.00 0.00 3.53
77 81 3.854666 TCTTTCTCTCTCAATTCTGGCG 58.145 45.455 0.00 0.00 0.00 5.69
83 87 7.445707 GGTGGTACTTTTCTTTCTCTCTCAATT 59.554 37.037 0.00 0.00 0.00 2.32
87 91 5.929415 CAGGTGGTACTTTTCTTTCTCTCTC 59.071 44.000 0.00 0.00 0.00 3.20
91 95 6.568653 GCATTCAGGTGGTACTTTTCTTTCTC 60.569 42.308 0.00 0.00 0.00 2.87
139 143 5.823209 TTACATTGATCTGGATGCAACTG 57.177 39.130 0.00 0.00 0.00 3.16
140 144 6.435277 AGTTTTACATTGATCTGGATGCAACT 59.565 34.615 0.00 3.66 0.00 3.16
141 145 6.529125 CAGTTTTACATTGATCTGGATGCAAC 59.471 38.462 0.00 0.00 0.00 4.17
142 146 6.433716 TCAGTTTTACATTGATCTGGATGCAA 59.566 34.615 0.00 0.00 0.00 4.08
144 148 6.317140 TCTCAGTTTTACATTGATCTGGATGC 59.683 38.462 0.00 0.00 0.00 3.91
145 149 7.854557 TCTCAGTTTTACATTGATCTGGATG 57.145 36.000 0.00 0.00 0.00 3.51
146 150 9.471702 AATTCTCAGTTTTACATTGATCTGGAT 57.528 29.630 0.00 0.00 0.00 3.41
186 190 9.883142 TTCCTTTGTTTTTCATTTACATTGACT 57.117 25.926 0.00 0.00 0.00 3.41
298 305 1.962100 TGCAACAAGGCATGTGATGAA 59.038 42.857 0.00 0.00 42.99 2.57
364 371 1.037579 ACGGCTGATGTCTCCGATCA 61.038 55.000 16.73 0.00 45.53 2.92
366 373 1.037579 TCACGGCTGATGTCTCCGAT 61.038 55.000 16.73 3.78 45.53 4.18
420 427 3.897122 TGGGTGAGGTGTTGGGCC 61.897 66.667 0.00 0.00 0.00 5.80
582 590 5.624159 TGAATGAATCTATCCACACATCCC 58.376 41.667 0.00 0.00 0.00 3.85
595 603 1.474677 CGGCCTGCTCTGAATGAATCT 60.475 52.381 0.00 0.00 0.00 2.40
708 717 3.256960 TTGGCTCGCCCTTCCCTT 61.257 61.111 5.33 0.00 34.56 3.95
722 733 1.453379 CATGAGGCCAGGAGCTTGG 60.453 63.158 5.01 0.00 43.05 3.61
723 734 0.747283 GACATGAGGCCAGGAGCTTG 60.747 60.000 5.01 0.00 43.05 4.01
724 735 1.606531 GACATGAGGCCAGGAGCTT 59.393 57.895 5.01 0.00 43.05 3.74
778 789 0.327000 AAGGAGAGGATGGTGGGAGG 60.327 60.000 0.00 0.00 0.00 4.30
940 951 3.421844 GTGGAGGTAAATTGGCTGTTCT 58.578 45.455 0.00 0.00 0.00 3.01
946 957 0.817654 GCTGGTGGAGGTAAATTGGC 59.182 55.000 0.00 0.00 0.00 4.52
1137 1150 2.631428 CCGACACGCAACACCTTG 59.369 61.111 0.00 0.00 0.00 3.61
1210 1223 4.910956 GTGCAGCTGGACGATGTA 57.089 55.556 23.11 0.00 0.00 2.29
1824 1837 1.454847 TGGTGTTGGTGTTCCCAGC 60.455 57.895 0.00 0.00 46.31 4.85
1829 1842 1.063488 GCACGTGGTGTTGGTGTTC 59.937 57.895 18.88 0.00 35.75 3.18
1830 1843 2.411504 GGCACGTGGTGTTGGTGTT 61.412 57.895 18.88 0.00 35.75 3.32
1831 1844 2.826738 GGCACGTGGTGTTGGTGT 60.827 61.111 18.88 0.00 35.75 4.16
1832 1845 2.515991 AGGCACGTGGTGTTGGTG 60.516 61.111 18.88 0.00 35.75 4.17
1833 1846 2.203153 GAGGCACGTGGTGTTGGT 60.203 61.111 18.88 0.00 35.75 3.67
1834 1847 1.380403 TTTGAGGCACGTGGTGTTGG 61.380 55.000 18.88 0.00 35.75 3.77
1839 1852 0.321653 GATCCTTTGAGGCACGTGGT 60.322 55.000 18.88 0.00 34.61 4.16
1911 1924 1.693606 CCATTTGGTTGTTCTGCCCTT 59.306 47.619 0.00 0.00 0.00 3.95
1933 1946 3.797546 GCTCGCTGGCTTCAGTGC 61.798 66.667 2.42 0.00 45.76 4.40
1986 1999 5.684704 TCAAATAGGCCAGAAAGATCGAAT 58.315 37.500 5.01 0.00 0.00 3.34
1989 2002 4.697514 TCTCAAATAGGCCAGAAAGATCG 58.302 43.478 5.01 0.00 0.00 3.69
2088 2101 4.329462 GAAGGATTCTGTCTCGGCTATT 57.671 45.455 0.00 0.00 43.23 1.73
2393 2406 6.701841 GCTCGGAAGATATCACACTTAAATGA 59.298 38.462 5.32 0.00 40.84 2.57
2418 2431 8.149647 AGAGAGGAGAATAGATTGTAATTGCAG 58.850 37.037 0.00 0.00 0.00 4.41
2487 2505 5.179452 ACAAAGAGCCCTAAAGCTTGATA 57.821 39.130 0.00 0.00 45.15 2.15
2515 2533 4.094739 CCACAAAAGGGAAACTGCAAAAAG 59.905 41.667 0.00 0.00 0.00 2.27
2530 2549 9.935682 CATATACTACAATTGCTACCACAAAAG 57.064 33.333 5.05 0.00 32.27 2.27
2531 2550 8.898761 CCATATACTACAATTGCTACCACAAAA 58.101 33.333 5.05 0.00 32.27 2.44
2558 2577 7.595819 TCTATTGGTGAACAAAACAGGAAAT 57.404 32.000 0.00 0.00 43.46 2.17
2560 2579 6.460953 GCTTCTATTGGTGAACAAAACAGGAA 60.461 38.462 0.00 0.00 43.46 3.36
2568 2587 5.843673 TTTGTGCTTCTATTGGTGAACAA 57.156 34.783 0.00 0.00 44.54 2.83
2614 2633 0.106769 TGCTTGTCCCAGAGCAACAA 60.107 50.000 0.00 0.00 45.19 2.83
2660 2679 9.042450 TCATCCTATACTGTCTTTGGTTCTTAA 57.958 33.333 0.00 0.00 0.00 1.85
2666 2685 8.993424 ACTTAATCATCCTATACTGTCTTTGGT 58.007 33.333 0.00 0.00 0.00 3.67
2706 2725 9.905713 AGCCACGGTGATTTATGATATTATTAT 57.094 29.630 10.28 0.00 0.00 1.28
2707 2726 9.161629 CAGCCACGGTGATTTATGATATTATTA 57.838 33.333 10.28 0.00 32.22 0.98
2708 2727 7.882791 TCAGCCACGGTGATTTATGATATTATT 59.117 33.333 10.28 0.00 35.04 1.40
2709 2728 7.394016 TCAGCCACGGTGATTTATGATATTAT 58.606 34.615 10.28 0.00 35.04 1.28
2710 2729 6.764379 TCAGCCACGGTGATTTATGATATTA 58.236 36.000 10.28 0.00 35.04 0.98
2711 2730 5.620206 TCAGCCACGGTGATTTATGATATT 58.380 37.500 10.28 0.00 35.04 1.28
2712 2731 5.227569 TCAGCCACGGTGATTTATGATAT 57.772 39.130 10.28 0.00 35.04 1.63
2713 2732 4.681074 TCAGCCACGGTGATTTATGATA 57.319 40.909 10.28 0.00 35.04 2.15
2714 2733 3.558931 TCAGCCACGGTGATTTATGAT 57.441 42.857 10.28 0.00 35.04 2.45
2727 2746 4.327982 TCTGTTCTATGCTATCAGCCAC 57.672 45.455 0.00 0.00 41.51 5.01
2732 2751 7.009550 AGAGAGGAATCTGTTCTATGCTATCA 58.990 38.462 0.00 0.00 34.68 2.15
2753 2772 2.747177 ACCGGGAATATGACACAGAGA 58.253 47.619 6.32 0.00 0.00 3.10
2754 2773 4.039245 ACATACCGGGAATATGACACAGAG 59.961 45.833 15.43 0.00 34.65 3.35
2755 2774 3.964688 ACATACCGGGAATATGACACAGA 59.035 43.478 15.43 0.00 34.65 3.41
2756 2775 4.336889 ACATACCGGGAATATGACACAG 57.663 45.455 15.43 0.00 34.65 3.66
2757 2776 4.080807 ACAACATACCGGGAATATGACACA 60.081 41.667 15.43 0.00 34.65 3.72
2758 2777 4.448210 ACAACATACCGGGAATATGACAC 58.552 43.478 15.43 0.00 34.65 3.67
2759 2778 4.407621 AGACAACATACCGGGAATATGACA 59.592 41.667 15.43 0.00 34.65 3.58
2760 2779 4.957296 AGACAACATACCGGGAATATGAC 58.043 43.478 15.43 4.38 34.65 3.06
2977 3037 6.871492 TGATTATTTTGTACGAGCAACTCTGA 59.129 34.615 0.00 0.00 0.00 3.27
3141 3202 3.901222 TGACTCCTGGTGATGTCACTTTA 59.099 43.478 12.43 0.44 45.73 1.85
3158 3219 7.602265 AGATAAAGTTCTCTGCTTCTTTGACTC 59.398 37.037 0.00 0.00 33.22 3.36
3176 3237 6.148811 CCGTGTATGGACAACAAAGATAAAGT 59.851 38.462 0.00 0.00 37.31 2.66
3290 3354 8.610896 TGCAGTTCAAATTTTATTTGGAGTTTG 58.389 29.630 11.10 4.57 0.00 2.93
3302 3370 7.599998 GTCATCCAACTATGCAGTTCAAATTTT 59.400 33.333 0.00 0.00 43.30 1.82
3313 3381 4.009675 GTGAAAGGTCATCCAACTATGCA 58.990 43.478 0.00 0.00 35.80 3.96
3314 3382 3.378427 GGTGAAAGGTCATCCAACTATGC 59.622 47.826 0.00 0.00 35.80 3.14


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

AutoCloner maintained by Alex Coulton.