Multiple sequence alignment - TraesCS2B01G431200

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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 TraesCS2B01G431200 chr2B 100.000 3059 0 0 1 3059 620592557 620595615 0.000000e+00 5650
1 TraesCS2B01G431200 chr2B 90.710 775 56 8 7 770 620585572 620586341 0.000000e+00 1018
2 TraesCS2B01G431200 chr2B 92.929 99 6 1 2701 2799 315974249 315974346 3.180000e-30 143
3 TraesCS2B01G431200 chr2D 95.241 1891 84 5 820 2704 524584914 524583024 0.000000e+00 2988
4 TraesCS2B01G431200 chr2D 89.332 778 61 19 7 778 301815737 301814976 0.000000e+00 957
5 TraesCS2B01G431200 chr2D 92.580 283 14 3 2784 3059 524583024 524582742 1.710000e-107 399
6 TraesCS2B01G431200 chr2D 92.079 101 8 0 2693 2793 25037976 25037876 3.180000e-30 143
7 TraesCS2B01G431200 chr2A 94.663 1218 63 2 1203 2418 670250302 670249085 0.000000e+00 1888
8 TraesCS2B01G431200 chr2A 95.745 235 9 1 859 1093 670251032 670250799 8.010000e-101 377
9 TraesCS2B01G431200 chr2A 93.197 147 9 1 2047 2192 670238283 670238137 6.640000e-52 215
10 TraesCS2B01G431200 chr2A 94.681 94 5 0 2701 2794 15846397 15846304 2.460000e-31 147
11 TraesCS2B01G431200 chr5B 90.260 770 58 14 7 772 652733489 652732733 0.000000e+00 990
12 TraesCS2B01G431200 chr5B 94.737 95 4 1 2694 2787 40880207 40880301 2.460000e-31 147
13 TraesCS2B01G431200 chr5B 93.069 101 6 1 2696 2795 317294330 317294230 2.460000e-31 147
14 TraesCS2B01G431200 chr3D 90.289 762 56 15 16 772 379412099 379411351 0.000000e+00 981
15 TraesCS2B01G431200 chr3D 89.597 769 66 11 7 772 365827540 365826783 0.000000e+00 965
16 TraesCS2B01G431200 chr7D 89.974 768 64 11 7 772 398726048 398725292 0.000000e+00 979
17 TraesCS2B01G431200 chr1D 89.637 772 66 12 7 772 374439712 374438949 0.000000e+00 970
18 TraesCS2B01G431200 chr1D 92.929 99 6 1 2698 2795 415987231 415987133 3.180000e-30 143
19 TraesCS2B01G431200 chr3B 89.646 763 65 10 16 772 447053658 447052904 0.000000e+00 959
20 TraesCS2B01G431200 chr3B 98.864 88 1 0 2698 2785 719826146 719826059 1.140000e-34 158
21 TraesCS2B01G431200 chr4A 89.481 770 64 16 7 772 588538658 588537902 0.000000e+00 957
22 TraesCS2B01G431200 chr6B 95.789 95 3 1 2692 2785 6786031 6785937 5.280000e-33 152
23 TraesCS2B01G431200 chr6B 90.566 106 8 2 2701 2806 607208216 607208113 4.110000e-29 139


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 TraesCS2B01G431200 chr2B 620592557 620595615 3058 False 5650.0 5650 100.0000 1 3059 1 chr2B.!!$F3 3058
1 TraesCS2B01G431200 chr2B 620585572 620586341 769 False 1018.0 1018 90.7100 7 770 1 chr2B.!!$F2 763
2 TraesCS2B01G431200 chr2D 524582742 524584914 2172 True 1693.5 2988 93.9105 820 3059 2 chr2D.!!$R3 2239
3 TraesCS2B01G431200 chr2D 301814976 301815737 761 True 957.0 957 89.3320 7 778 1 chr2D.!!$R2 771
4 TraesCS2B01G431200 chr2A 670249085 670251032 1947 True 1132.5 1888 95.2040 859 2418 2 chr2A.!!$R3 1559
5 TraesCS2B01G431200 chr5B 652732733 652733489 756 True 990.0 990 90.2600 7 772 1 chr5B.!!$R2 765
6 TraesCS2B01G431200 chr3D 379411351 379412099 748 True 981.0 981 90.2890 16 772 1 chr3D.!!$R2 756
7 TraesCS2B01G431200 chr3D 365826783 365827540 757 True 965.0 965 89.5970 7 772 1 chr3D.!!$R1 765
8 TraesCS2B01G431200 chr7D 398725292 398726048 756 True 979.0 979 89.9740 7 772 1 chr7D.!!$R1 765
9 TraesCS2B01G431200 chr1D 374438949 374439712 763 True 970.0 970 89.6370 7 772 1 chr1D.!!$R1 765
10 TraesCS2B01G431200 chr3B 447052904 447053658 754 True 959.0 959 89.6460 16 772 1 chr3B.!!$R1 756
11 TraesCS2B01G431200 chr4A 588537902 588538658 756 True 957.0 957 89.4810 7 772 1 chr4A.!!$R1 765

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
781 809 0.604511 CTCCCCAACAACGTGGTACC 60.605 60.0 4.43 4.43 36.9 3.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2766 3187 0.107017 CTACTCCCTCCGTCCCGTAA 60.107 60.0 0.0 0.0 0.0 3.18 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
312 331 1.280421 CTAGATGCATCTAAGGGGCCC 59.720 57.143 30.96 17.12 38.80 5.80
313 332 1.302832 GATGCATCTAAGGGGCCCG 60.303 63.158 18.95 2.63 0.00 6.13
314 333 2.056906 GATGCATCTAAGGGGCCCGT 62.057 60.000 18.95 18.03 0.00 5.28
414 436 0.930726 CTACACCTCCTCCTCCTCCT 59.069 60.000 0.00 0.00 0.00 3.69
415 437 0.927767 TACACCTCCTCCTCCTCCTC 59.072 60.000 0.00 0.00 0.00 3.71
416 438 1.075600 CACCTCCTCCTCCTCCTCC 60.076 68.421 0.00 0.00 0.00 4.30
417 439 1.230819 ACCTCCTCCTCCTCCTCCT 60.231 63.158 0.00 0.00 0.00 3.69
535 557 2.498078 GGATCAAGAAGGAGGAGACGTT 59.502 50.000 0.00 0.00 0.00 3.99
555 577 1.289694 CCGGGCTGTACGTGTGTTA 59.710 57.895 0.00 0.00 0.00 2.41
637 659 2.230508 GAGTACGACTCCATCAACCACA 59.769 50.000 0.00 0.00 39.28 4.17
675 698 2.671888 GCTTAGCGGTCTTCAAAGGTAC 59.328 50.000 0.00 0.00 0.00 3.34
684 707 4.246458 GTCTTCAAAGGTACGAAGATGCT 58.754 43.478 12.26 0.00 46.79 3.79
739 766 6.550938 AGATTGATCTTGGTGACACATAGA 57.449 37.500 8.08 9.37 42.67 1.98
772 800 4.822685 TTATTACTACGCTCCCCAACAA 57.177 40.909 0.00 0.00 0.00 2.83
773 801 2.460757 TTACTACGCTCCCCAACAAC 57.539 50.000 0.00 0.00 0.00 3.32
775 803 1.005394 CTACGCTCCCCAACAACGT 60.005 57.895 0.00 0.00 40.53 3.99
776 804 1.289109 CTACGCTCCCCAACAACGTG 61.289 60.000 0.00 0.00 37.56 4.49
777 805 2.718747 TACGCTCCCCAACAACGTGG 62.719 60.000 0.00 0.00 37.56 4.94
778 806 2.203294 GCTCCCCAACAACGTGGT 60.203 61.111 0.00 0.00 36.90 4.16
779 807 1.071814 GCTCCCCAACAACGTGGTA 59.928 57.895 0.00 0.00 36.90 3.25
780 808 1.232621 GCTCCCCAACAACGTGGTAC 61.233 60.000 0.00 0.00 36.90 3.34
781 809 0.604511 CTCCCCAACAACGTGGTACC 60.605 60.000 4.43 4.43 36.90 3.34
782 810 1.055551 TCCCCAACAACGTGGTACCT 61.056 55.000 14.36 0.00 36.90 3.08
783 811 0.887387 CCCCAACAACGTGGTACCTG 60.887 60.000 14.36 8.33 36.90 4.00
784 812 0.887387 CCCAACAACGTGGTACCTGG 60.887 60.000 14.36 10.20 36.90 4.45
785 813 1.512156 CCAACAACGTGGTACCTGGC 61.512 60.000 14.36 2.59 33.63 4.85
786 814 1.595929 AACAACGTGGTACCTGGCG 60.596 57.895 14.36 16.50 0.00 5.69
787 815 2.740826 CAACGTGGTACCTGGCGG 60.741 66.667 14.36 0.23 0.00 6.13
788 816 2.918802 AACGTGGTACCTGGCGGA 60.919 61.111 14.36 0.00 0.00 5.54
789 817 3.230522 AACGTGGTACCTGGCGGAC 62.231 63.158 14.36 0.15 0.00 4.79
790 818 4.446413 CGTGGTACCTGGCGGACC 62.446 72.222 14.36 6.16 33.59 4.46
791 819 4.446413 GTGGTACCTGGCGGACCG 62.446 72.222 14.36 10.29 39.70 4.79
818 846 2.861974 GGTGGGGGAGGGGTTGAA 60.862 66.667 0.00 0.00 0.00 2.69
891 921 1.032114 GGGATTTCTTGTCCAGCCCG 61.032 60.000 0.00 0.00 37.49 6.13
1094 1124 2.273179 CCTCCTCCACGACGAACCA 61.273 63.158 0.00 0.00 0.00 3.67
1105 1135 1.668101 GACGAACCATCTCCTCCGCT 61.668 60.000 0.00 0.00 0.00 5.52
1109 1139 0.678048 AACCATCTCCTCCGCTTTGC 60.678 55.000 0.00 0.00 0.00 3.68
1224 1641 1.930908 GCAGCAATTCAGCGCCTTCT 61.931 55.000 2.29 0.00 40.15 2.85
1228 1645 1.012841 CAATTCAGCGCCTTCTCCTC 58.987 55.000 2.29 0.00 0.00 3.71
1230 1647 0.980231 ATTCAGCGCCTTCTCCTCCT 60.980 55.000 2.29 0.00 0.00 3.69
1231 1648 1.194781 TTCAGCGCCTTCTCCTCCTT 61.195 55.000 2.29 0.00 0.00 3.36
1239 1656 0.686112 CTTCTCCTCCTTCTCCGCCT 60.686 60.000 0.00 0.00 0.00 5.52
1246 1663 2.756283 CTTCTCCGCCTCCGTCCT 60.756 66.667 0.00 0.00 0.00 3.85
1270 1687 1.745489 CCCCCGCCTTCTCTTTTCG 60.745 63.158 0.00 0.00 0.00 3.46
1279 1696 2.222027 CTTCTCTTTTCGCCAACTGGT 58.778 47.619 0.00 0.00 37.57 4.00
1281 1698 1.416401 TCTCTTTTCGCCAACTGGTCT 59.584 47.619 0.00 0.00 37.57 3.85
1632 2049 2.126307 CAGGTGTCCGAGCAGACG 60.126 66.667 0.00 0.00 39.77 4.18
1680 2097 1.138266 CCCATCGATTACCTCGTGGTT 59.862 52.381 15.36 0.00 46.05 3.67
1686 2103 1.619807 ATTACCTCGTGGTTCCCCGG 61.620 60.000 15.36 0.00 46.05 5.73
1860 2277 4.198530 TGATCAGCGCCTTGATAAAATCA 58.801 39.130 11.69 4.33 37.90 2.57
1881 2298 2.091541 CAGGTGTTCGGTGCCATTATT 58.908 47.619 0.00 0.00 0.00 1.40
2037 2454 1.303561 GGCTGGTGCTGGTGATTCA 60.304 57.895 0.00 0.00 39.59 2.57
2040 2457 1.339055 GCTGGTGCTGGTGATTCACTA 60.339 52.381 16.02 9.61 33.75 2.74
2060 2477 1.644786 AAGCACGCGATGGGTTAAGC 61.645 55.000 15.93 0.00 0.00 3.09
2061 2478 2.106683 GCACGCGATGGGTTAAGCT 61.107 57.895 15.93 0.00 0.00 3.74
2063 2480 1.865865 CACGCGATGGGTTAAGCTAT 58.134 50.000 15.93 2.87 0.00 2.97
2077 2495 1.033574 AGCTATACCACGGCAGAGAC 58.966 55.000 0.00 0.00 0.00 3.36
2085 2503 1.068333 CCACGGCAGAGACATTTTTGG 60.068 52.381 0.00 0.00 0.00 3.28
2271 2689 4.740268 TGCTCAATTGTTTGCATCTGATC 58.260 39.130 15.43 0.00 32.61 2.92
2275 2695 5.705902 TCAATTGTTTGCATCTGATCTGTG 58.294 37.500 5.13 0.00 32.61 3.66
2430 2851 2.489938 TATGGTGCTGTGAGGAAACC 57.510 50.000 0.00 0.00 0.00 3.27
2443 2864 1.963515 AGGAAACCACAGTGAATTGGC 59.036 47.619 0.62 0.00 36.20 4.52
2449 2870 1.811965 CCACAGTGAATTGGCGATCAA 59.188 47.619 0.62 0.00 40.01 2.57
2484 2905 1.270094 TGCAACGTTGTACTCCAGGAG 60.270 52.381 27.78 15.72 35.52 3.69
2500 2921 5.467738 TCCAGGAGATCACATACATTAGGT 58.532 41.667 0.00 0.00 0.00 3.08
2524 2945 8.568794 GGTCTTATTAAGAATAGTGGCAATTCC 58.431 37.037 7.70 0.00 39.67 3.01
2541 2962 5.258622 CAATTCCTTTCGATGCTTTAGTCG 58.741 41.667 0.00 0.00 39.11 4.18
2574 2995 6.866480 TGAGAAGAACTGCAGAATTTTTGTT 58.134 32.000 23.35 8.46 0.00 2.83
2577 2998 7.495055 AGAAGAACTGCAGAATTTTTGTTGAT 58.505 30.769 23.35 0.00 0.00 2.57
2630 3051 0.745128 TTGTCGAGGCAAACAACGGT 60.745 50.000 0.00 0.00 30.73 4.83
2650 3071 0.323629 TCCTTTGGCTTCCAGTACGG 59.676 55.000 0.00 0.00 33.81 4.02
2682 3103 7.331791 AGGAGTTCAAAAGGTGAGATATACAC 58.668 38.462 4.53 4.53 37.61 2.90
2691 3112 2.480419 GTGAGATATACACGGCAATGCC 59.520 50.000 15.52 15.52 46.75 4.40
2706 3127 4.944317 GGCAATGCCTAGAAATATACTCCC 59.056 45.833 18.47 0.00 46.69 4.30
2708 3129 5.877564 GCAATGCCTAGAAATATACTCCCTC 59.122 44.000 0.00 0.00 0.00 4.30
2709 3130 6.410540 CAATGCCTAGAAATATACTCCCTCC 58.589 44.000 0.00 0.00 0.00 4.30
2710 3131 4.087182 TGCCTAGAAATATACTCCCTCCG 58.913 47.826 0.00 0.00 0.00 4.63
2711 3132 4.087907 GCCTAGAAATATACTCCCTCCGT 58.912 47.826 0.00 0.00 0.00 4.69
2712 3133 4.158209 GCCTAGAAATATACTCCCTCCGTC 59.842 50.000 0.00 0.00 0.00 4.79
2713 3134 4.705991 CCTAGAAATATACTCCCTCCGTCC 59.294 50.000 0.00 0.00 0.00 4.79
2714 3135 3.508426 AGAAATATACTCCCTCCGTCCC 58.492 50.000 0.00 0.00 0.00 4.46
2715 3136 3.116862 AGAAATATACTCCCTCCGTCCCA 60.117 47.826 0.00 0.00 0.00 4.37
2716 3137 3.562108 AATATACTCCCTCCGTCCCAT 57.438 47.619 0.00 0.00 0.00 4.00
2717 3138 4.687262 AATATACTCCCTCCGTCCCATA 57.313 45.455 0.00 0.00 0.00 2.74
2718 3139 4.687262 ATATACTCCCTCCGTCCCATAA 57.313 45.455 0.00 0.00 0.00 1.90
2719 3140 3.562108 ATACTCCCTCCGTCCCATAAT 57.438 47.619 0.00 0.00 0.00 1.28
2720 3141 1.424638 ACTCCCTCCGTCCCATAATG 58.575 55.000 0.00 0.00 0.00 1.90
2721 3142 1.344087 ACTCCCTCCGTCCCATAATGT 60.344 52.381 0.00 0.00 0.00 2.71
2722 3143 2.090943 ACTCCCTCCGTCCCATAATGTA 60.091 50.000 0.00 0.00 0.00 2.29
2723 3144 2.969950 CTCCCTCCGTCCCATAATGTAA 59.030 50.000 0.00 0.00 0.00 2.41
2724 3145 2.969950 TCCCTCCGTCCCATAATGTAAG 59.030 50.000 0.00 0.00 0.00 2.34
2725 3146 2.969950 CCCTCCGTCCCATAATGTAAGA 59.030 50.000 0.00 0.00 0.00 2.10
2726 3147 3.244112 CCCTCCGTCCCATAATGTAAGAC 60.244 52.174 0.00 0.00 0.00 3.01
2728 3149 3.025978 TCCGTCCCATAATGTAAGACGT 58.974 45.455 9.63 0.00 46.62 4.34
2729 3150 3.448301 TCCGTCCCATAATGTAAGACGTT 59.552 43.478 9.63 0.00 46.62 3.99
2730 3151 4.081531 TCCGTCCCATAATGTAAGACGTTT 60.082 41.667 9.63 0.00 46.62 3.60
2731 3152 4.632688 CCGTCCCATAATGTAAGACGTTTT 59.367 41.667 9.63 0.00 46.62 2.43
2732 3153 5.122711 CCGTCCCATAATGTAAGACGTTTTT 59.877 40.000 9.63 0.00 46.62 1.94
2774 3195 5.596268 AAAAACGTCTTACATTACGGGAC 57.404 39.130 0.00 0.00 43.25 4.46
2787 3208 4.781264 GGGACGGAGGGAGTAGTT 57.219 61.111 0.00 0.00 0.00 2.24
2788 3209 2.200052 GGGACGGAGGGAGTAGTTG 58.800 63.158 0.00 0.00 0.00 3.16
2789 3210 0.324091 GGGACGGAGGGAGTAGTTGA 60.324 60.000 0.00 0.00 0.00 3.18
2790 3211 1.688627 GGGACGGAGGGAGTAGTTGAT 60.689 57.143 0.00 0.00 0.00 2.57
2800 3221 6.027025 AGGGAGTAGTTGATATAGACCACA 57.973 41.667 0.00 0.00 0.00 4.17
2866 3292 8.484641 AGATGTAAATGCATACCTTATGATCG 57.515 34.615 0.00 0.00 38.45 3.69
2867 3293 7.550551 AGATGTAAATGCATACCTTATGATCGG 59.449 37.037 0.00 0.00 38.45 4.18
2884 3310 1.202758 TCGGGCAGTGTCTCAATTGTT 60.203 47.619 5.13 0.00 0.00 2.83
2918 3344 5.376625 TCACTCTTACACCTTTGATTTGCT 58.623 37.500 0.00 0.00 0.00 3.91
2919 3345 5.470098 TCACTCTTACACCTTTGATTTGCTC 59.530 40.000 0.00 0.00 0.00 4.26
2962 3388 1.334869 CTGTCACCACTCTGGCAAAAC 59.665 52.381 0.00 0.00 42.67 2.43
2974 3400 7.301054 CACTCTGGCAAAACTAGATAAACTTG 58.699 38.462 0.00 0.00 35.03 3.16
3048 3475 6.016276 AGGAAAATCATGTGTTGGTGAACTAC 60.016 38.462 0.00 0.00 32.79 2.73
3051 3478 6.500684 AATCATGTGTTGGTGAACTACATC 57.499 37.500 0.00 0.00 37.18 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 0.546598 AATCTTCACATCCGGACCCC 59.453 55.000 6.12 0.00 0.00 4.95
5 6 2.420058 AAATCTTCACATCCGGACCC 57.580 50.000 6.12 0.00 0.00 4.46
14 15 8.944138 TGGACTTCCCATATATAAATCTTCACA 58.056 33.333 0.00 0.00 40.82 3.58
312 331 2.764547 GAAGGGGAGAGGGGGACG 60.765 72.222 0.00 0.00 0.00 4.79
313 332 1.996187 GTGAAGGGGAGAGGGGGAC 60.996 68.421 0.00 0.00 0.00 4.46
314 333 2.454941 GTGAAGGGGAGAGGGGGA 59.545 66.667 0.00 0.00 0.00 4.81
414 436 1.238439 CTTCGCCAAGCTCAAAAGGA 58.762 50.000 0.00 0.00 0.00 3.36
415 437 3.780925 CTTCGCCAAGCTCAAAAGG 57.219 52.632 0.00 0.00 0.00 3.11
535 557 3.687102 CACACGTACAGCCCGGGA 61.687 66.667 29.31 0.00 31.87 5.14
684 707 2.236146 AGCAACGAGAGAGAGAGAGAGA 59.764 50.000 0.00 0.00 0.00 3.10
748 775 5.747342 TGTTGGGGAGCGTAGTAATAATTT 58.253 37.500 0.00 0.00 0.00 1.82
762 790 0.604511 GGTACCACGTTGTTGGGGAG 60.605 60.000 7.15 0.00 41.49 4.30
772 800 3.688159 GTCCGCCAGGTACCACGT 61.688 66.667 15.94 0.00 39.05 4.49
773 801 4.446413 GGTCCGCCAGGTACCACG 62.446 72.222 15.94 14.39 37.53 4.94
801 829 1.811025 AATTCAACCCCTCCCCCACC 61.811 60.000 0.00 0.00 0.00 4.61
802 830 0.116342 AAATTCAACCCCTCCCCCAC 59.884 55.000 0.00 0.00 0.00 4.61
803 831 0.871024 AAAATTCAACCCCTCCCCCA 59.129 50.000 0.00 0.00 0.00 4.96
804 832 2.038863 AAAAATTCAACCCCTCCCCC 57.961 50.000 0.00 0.00 0.00 5.40
851 880 3.433173 CCCCTAAAGATCCAACCCGTTAG 60.433 52.174 0.00 0.00 0.00 2.34
856 885 1.603634 TCCCCCTAAAGATCCAACCC 58.396 55.000 0.00 0.00 0.00 4.11
865 895 4.273318 CTGGACAAGAAATCCCCCTAAAG 58.727 47.826 0.00 0.00 35.12 1.85
870 900 0.684479 GGCTGGACAAGAAATCCCCC 60.684 60.000 0.00 0.00 35.12 5.40
891 921 1.496403 GCCACGATAAAGCCGCTACC 61.496 60.000 0.00 0.00 0.00 3.18
898 928 1.376609 CTGGTGGGCCACGATAAAGC 61.377 60.000 29.18 14.57 40.46 3.51
946 976 1.749258 GTGGGAAGCGATGGGGAAC 60.749 63.158 0.00 0.00 0.00 3.62
989 1019 1.817209 GGAGATCGGGACAGTGGTC 59.183 63.158 0.00 0.00 43.55 4.02
1081 1111 0.611062 AGGAGATGGTTCGTCGTGGA 60.611 55.000 0.00 0.00 0.00 4.02
1094 1124 1.222936 CTGGCAAAGCGGAGGAGAT 59.777 57.895 0.00 0.00 0.00 2.75
1109 1139 4.403502 ATTTGGGGCAGGGGCTGG 62.404 66.667 0.00 0.00 40.87 4.85
1224 1641 2.042843 GGAGGCGGAGAAGGAGGA 60.043 66.667 0.00 0.00 0.00 3.71
1228 1645 3.839432 GGACGGAGGCGGAGAAGG 61.839 72.222 0.00 0.00 0.00 3.46
1230 1647 2.754658 GAGGACGGAGGCGGAGAA 60.755 66.667 0.00 0.00 0.00 2.87
1231 1648 4.816984 GGAGGACGGAGGCGGAGA 62.817 72.222 0.00 0.00 0.00 3.71
1261 1678 1.416401 AGACCAGTTGGCGAAAAGAGA 59.584 47.619 0.00 0.00 39.32 3.10
1266 1683 1.301401 CGGAGACCAGTTGGCGAAA 60.301 57.895 0.00 0.00 39.32 3.46
1860 2277 0.398696 TAATGGCACCGAACACCTGT 59.601 50.000 0.00 0.00 0.00 4.00
2037 2454 0.321298 AACCCATCGCGTGCTTTAGT 60.321 50.000 5.77 0.00 0.00 2.24
2040 2457 0.802494 CTTAACCCATCGCGTGCTTT 59.198 50.000 5.77 2.64 0.00 3.51
2060 2477 3.735237 AATGTCTCTGCCGTGGTATAG 57.265 47.619 0.00 0.00 0.00 1.31
2061 2478 4.481368 AAAATGTCTCTGCCGTGGTATA 57.519 40.909 0.00 0.00 0.00 1.47
2063 2480 2.811431 CAAAAATGTCTCTGCCGTGGTA 59.189 45.455 0.00 0.00 0.00 3.25
2077 2495 1.883275 TGCTGGTACGACCCAAAAATG 59.117 47.619 0.00 0.00 37.50 2.32
2085 2503 6.018994 CAGAACTAAATTATGCTGGTACGACC 60.019 42.308 0.00 0.00 39.22 4.79
2271 2689 4.038763 TCAAGTGGTGGTAAGACTACACAG 59.961 45.833 0.00 0.00 30.50 3.66
2275 2695 6.930667 TTTTTCAAGTGGTGGTAAGACTAC 57.069 37.500 0.00 0.00 0.00 2.73
2430 2851 3.770263 ATTGATCGCCAATTCACTGTG 57.230 42.857 0.17 0.17 42.55 3.66
2449 2870 6.867816 ACAACGTTGCAATTGATCAACAATAT 59.132 30.769 27.61 0.00 46.90 1.28
2500 2921 9.920946 AAGGAATTGCCACTATTCTTAATAAGA 57.079 29.630 0.00 0.00 40.02 2.10
2511 2932 3.316308 GCATCGAAAGGAATTGCCACTAT 59.684 43.478 0.00 0.00 40.02 2.12
2524 2945 3.512680 AGGACGACTAAAGCATCGAAAG 58.487 45.455 0.00 0.00 40.86 2.62
2541 2962 3.006247 GCAGTTCTTCTCATCCAAGGAC 58.994 50.000 0.00 0.00 30.27 3.85
2574 2995 7.267857 CAACTCGCATATTCCCAGATATATCA 58.732 38.462 15.08 0.00 0.00 2.15
2577 2998 5.719563 TCCAACTCGCATATTCCCAGATATA 59.280 40.000 0.00 0.00 0.00 0.86
2593 3014 3.834610 ACAAAGACTATCGTCCAACTCG 58.165 45.455 0.00 0.00 41.16 4.18
2616 3037 1.029681 AAGGAACCGTTGTTTGCCTC 58.970 50.000 0.00 0.00 33.97 4.70
2630 3051 1.271163 CCGTACTGGAAGCCAAAGGAA 60.271 52.381 0.00 0.00 42.00 3.36
2650 3071 1.000171 CCTTTTGAACTCCTTGCAGCC 60.000 52.381 0.00 0.00 0.00 4.85
2691 3112 4.705991 GGGACGGAGGGAGTATATTTCTAG 59.294 50.000 0.00 0.00 0.00 2.43
2704 3125 2.969950 TCTTACATTATGGGACGGAGGG 59.030 50.000 0.00 0.00 0.00 4.30
2705 3126 3.552273 CGTCTTACATTATGGGACGGAGG 60.552 52.174 20.50 5.87 43.69 4.30
2706 3127 3.639538 CGTCTTACATTATGGGACGGAG 58.360 50.000 20.50 2.74 43.69 4.63
2752 3173 4.150451 CGTCCCGTAATGTAAGACGTTTTT 59.850 41.667 0.00 0.00 43.89 1.94
2753 3174 3.674753 CGTCCCGTAATGTAAGACGTTTT 59.325 43.478 0.00 0.00 43.89 2.43
2754 3175 3.244976 CGTCCCGTAATGTAAGACGTTT 58.755 45.455 2.88 0.00 43.89 3.60
2755 3176 2.415893 CCGTCCCGTAATGTAAGACGTT 60.416 50.000 9.63 0.00 46.62 3.99
2756 3177 1.133025 CCGTCCCGTAATGTAAGACGT 59.867 52.381 9.63 0.00 46.62 4.34
2758 3179 2.223665 CCTCCGTCCCGTAATGTAAGAC 60.224 54.545 0.00 0.00 0.00 3.01
2759 3180 2.026641 CCTCCGTCCCGTAATGTAAGA 58.973 52.381 0.00 0.00 0.00 2.10
2760 3181 1.068127 CCCTCCGTCCCGTAATGTAAG 59.932 57.143 0.00 0.00 0.00 2.34
2761 3182 1.113788 CCCTCCGTCCCGTAATGTAA 58.886 55.000 0.00 0.00 0.00 2.41
2762 3183 0.258484 TCCCTCCGTCCCGTAATGTA 59.742 55.000 0.00 0.00 0.00 2.29
2763 3184 1.000739 TCCCTCCGTCCCGTAATGT 59.999 57.895 0.00 0.00 0.00 2.71
2764 3185 1.041447 ACTCCCTCCGTCCCGTAATG 61.041 60.000 0.00 0.00 0.00 1.90
2765 3186 0.552848 TACTCCCTCCGTCCCGTAAT 59.447 55.000 0.00 0.00 0.00 1.89
2766 3187 0.107017 CTACTCCCTCCGTCCCGTAA 60.107 60.000 0.00 0.00 0.00 3.18
2767 3188 1.274703 ACTACTCCCTCCGTCCCGTA 61.275 60.000 0.00 0.00 0.00 4.02
2768 3189 2.147433 AACTACTCCCTCCGTCCCGT 62.147 60.000 0.00 0.00 0.00 5.28
2769 3190 1.379576 AACTACTCCCTCCGTCCCG 60.380 63.158 0.00 0.00 0.00 5.14
2770 3191 0.324091 TCAACTACTCCCTCCGTCCC 60.324 60.000 0.00 0.00 0.00 4.46
2771 3192 1.777941 ATCAACTACTCCCTCCGTCC 58.222 55.000 0.00 0.00 0.00 4.79
2772 3193 5.412286 GTCTATATCAACTACTCCCTCCGTC 59.588 48.000 0.00 0.00 0.00 4.79
2773 3194 5.315348 GTCTATATCAACTACTCCCTCCGT 58.685 45.833 0.00 0.00 0.00 4.69
2774 3195 4.701171 GGTCTATATCAACTACTCCCTCCG 59.299 50.000 0.00 0.00 0.00 4.63
2775 3196 5.477637 GTGGTCTATATCAACTACTCCCTCC 59.522 48.000 0.00 0.00 0.00 4.30
2776 3197 6.069331 TGTGGTCTATATCAACTACTCCCTC 58.931 44.000 5.78 0.00 0.00 4.30
2777 3198 6.027025 TGTGGTCTATATCAACTACTCCCT 57.973 41.667 5.78 0.00 0.00 4.20
2778 3199 6.726490 TTGTGGTCTATATCAACTACTCCC 57.274 41.667 5.78 0.00 0.00 4.30
2779 3200 9.614792 AAATTTGTGGTCTATATCAACTACTCC 57.385 33.333 0.00 0.00 0.00 3.85
2786 3207 9.391006 GGTACTCAAATTTGTGGTCTATATCAA 57.609 33.333 20.88 2.86 0.00 2.57
2787 3208 8.768397 AGGTACTCAAATTTGTGGTCTATATCA 58.232 33.333 20.88 3.42 0.00 2.15
2788 3209 9.614792 AAGGTACTCAAATTTGTGGTCTATATC 57.385 33.333 20.88 7.34 38.49 1.63
2800 3221 8.357402 GTGTTCCAACATAAGGTACTCAAATTT 58.643 33.333 0.00 0.00 38.70 1.82
2815 3236 1.774110 TGTGCCAAGTGTTCCAACAT 58.226 45.000 0.00 0.00 41.59 2.71
2866 3292 2.863704 GCAAACAATTGAGACACTGCCC 60.864 50.000 13.59 0.00 38.94 5.36
2867 3293 2.397549 GCAAACAATTGAGACACTGCC 58.602 47.619 13.59 0.00 38.94 4.85
2884 3310 3.186409 GTGTAAGAGTGATCTTTGCGCAA 59.814 43.478 21.02 21.02 0.00 4.85
2918 3344 1.618343 TGTCATCAAGGTGAAGCTCGA 59.382 47.619 0.00 0.00 0.00 4.04
2919 3345 2.084610 TGTCATCAAGGTGAAGCTCG 57.915 50.000 0.00 0.00 0.00 5.03
2974 3400 6.481954 ACCATATCGTCAAGAAAACTCAAC 57.518 37.500 0.00 0.00 0.00 3.18
2988 3414 9.408648 TCATGTACATCAGATATACCATATCGT 57.591 33.333 5.07 0.00 0.00 3.73
3006 3433 8.539544 TGATTTTCCTAGTCAGATTCATGTACA 58.460 33.333 0.00 0.00 0.00 2.90
3024 3451 5.200368 AGTTCACCAACACATGATTTTCC 57.800 39.130 0.00 0.00 34.60 3.13


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

AutoCloner maintained by Alex Coulton.