Multiple sequence alignment - TraesCS2A01G242800

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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 TraesCS2A01G242800 chr2A 100.000 3145 0 0 1 3145 338278491 338281635 0.000000e+00 5808
1 TraesCS2A01G242800 chr2A 96.825 504 16 0 2642 3145 335417475 335416972 0.000000e+00 843
2 TraesCS2A01G242800 chr2A 95.699 93 3 1 803 895 102692160 102692069 7.030000e-32 148
3 TraesCS2A01G242800 chr7D 95.739 1760 64 5 886 2638 378850208 378851963 0.000000e+00 2824
4 TraesCS2A01G242800 chr7D 94.014 568 24 5 239 806 378849654 378850211 0.000000e+00 852
5 TraesCS2A01G242800 chr7D 95.211 522 23 2 2624 3145 337940435 337939916 0.000000e+00 824
6 TraesCS2A01G242800 chr7D 97.959 245 5 0 1 245 378844269 378844513 2.900000e-115 425
7 TraesCS2A01G242800 chr7D 95.652 92 4 0 804 895 22959751 22959660 7.030000e-32 148
8 TraesCS2A01G242800 chr7D 95.604 91 4 0 805 895 426558983 426558893 2.530000e-31 147
9 TraesCS2A01G242800 chr7B 95.349 1763 71 4 886 2641 374313181 374314939 0.000000e+00 2791
10 TraesCS2A01G242800 chr7B 96.832 505 14 1 2641 3145 308134101 308134603 0.000000e+00 843
11 TraesCS2A01G242800 chr7B 95.354 452 19 2 355 806 374312735 374313184 0.000000e+00 717
12 TraesCS2A01G242800 chr7B 97.826 322 5 1 2 321 374311103 374311424 3.540000e-154 555
13 TraesCS2A01G242800 chr7B 92.661 109 7 1 2534 2641 176697421 176697529 4.200000e-34 156
14 TraesCS2A01G242800 chr7A 94.896 1489 66 5 961 2447 427288186 427289666 0.000000e+00 2320
15 TraesCS2A01G242800 chr7A 95.467 750 24 5 1 749 427287386 427288126 0.000000e+00 1188
16 TraesCS2A01G242800 chr1A 97.024 504 15 0 2642 3145 217166084 217166587 0.000000e+00 848
17 TraesCS2A01G242800 chr1A 90.551 127 11 1 2516 2641 506548634 506548508 1.940000e-37 167
18 TraesCS2A01G242800 chr1A 92.523 107 8 0 2534 2640 25944437 25944331 1.510000e-33 154
19 TraesCS2A01G242800 chr5D 96.825 504 16 0 2642 3145 187855379 187855882 0.000000e+00 843
20 TraesCS2A01G242800 chr5D 89.076 119 11 2 2521 2638 506689238 506689355 2.530000e-31 147
21 TraesCS2A01G242800 chr4D 96.640 506 17 0 2640 3145 209340625 209340120 0.000000e+00 841
22 TraesCS2A01G242800 chr4D 96.101 513 19 1 2634 3145 210182076 210181564 0.000000e+00 835
23 TraesCS2A01G242800 chr4A 96.825 504 15 1 2642 3145 296285844 296285342 0.000000e+00 841
24 TraesCS2A01G242800 chr4A 95.370 108 5 0 2534 2641 613610084 613609977 4.170000e-39 172
25 TraesCS2A01G242800 chr6D 96.634 505 17 0 2641 3145 214995708 214996212 0.000000e+00 839
26 TraesCS2A01G242800 chr1B 90.551 127 11 1 2516 2641 553148052 553147926 1.940000e-37 167
27 TraesCS2A01G242800 chr5A 94.231 104 6 0 2538 2641 287838955 287839058 3.250000e-35 159
28 TraesCS2A01G242800 chr5A 85.075 134 13 7 770 900 454481419 454481548 2.550000e-26 130
29 TraesCS2A01G242800 chr6A 93.814 97 6 0 801 897 557970136 557970040 2.530000e-31 147
30 TraesCS2A01G242800 chr1D 93.750 96 5 1 804 898 493918323 493918228 3.270000e-30 143
31 TraesCS2A01G242800 chr2B 93.684 95 5 1 805 898 63783810 63783716 1.180000e-29 141
32 TraesCS2A01G242800 chr2D 91.262 103 7 2 803 904 14895362 14895261 4.230000e-29 139
33 TraesCS2A01G242800 chr2D 92.079 101 5 2 804 904 636386032 636385935 4.230000e-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 TraesCS2A01G242800 chr2A 338278491 338281635 3144 False 5808.000000 5808 100.000000 1 3145 1 chr2A.!!$F1 3144
1 TraesCS2A01G242800 chr2A 335416972 335417475 503 True 843.000000 843 96.825000 2642 3145 1 chr2A.!!$R2 503
2 TraesCS2A01G242800 chr7D 378849654 378851963 2309 False 1838.000000 2824 94.876500 239 2638 2 chr7D.!!$F2 2399
3 TraesCS2A01G242800 chr7D 337939916 337940435 519 True 824.000000 824 95.211000 2624 3145 1 chr7D.!!$R2 521
4 TraesCS2A01G242800 chr7B 374311103 374314939 3836 False 1354.333333 2791 96.176333 2 2641 3 chr7B.!!$F3 2639
5 TraesCS2A01G242800 chr7B 308134101 308134603 502 False 843.000000 843 96.832000 2641 3145 1 chr7B.!!$F2 504
6 TraesCS2A01G242800 chr7A 427287386 427289666 2280 False 1754.000000 2320 95.181500 1 2447 2 chr7A.!!$F1 2446
7 TraesCS2A01G242800 chr1A 217166084 217166587 503 False 848.000000 848 97.024000 2642 3145 1 chr1A.!!$F1 503
8 TraesCS2A01G242800 chr5D 187855379 187855882 503 False 843.000000 843 96.825000 2642 3145 1 chr5D.!!$F1 503
9 TraesCS2A01G242800 chr4D 209340120 209340625 505 True 841.000000 841 96.640000 2640 3145 1 chr4D.!!$R1 505
10 TraesCS2A01G242800 chr4D 210181564 210182076 512 True 835.000000 835 96.101000 2634 3145 1 chr4D.!!$R2 511
11 TraesCS2A01G242800 chr4A 296285342 296285844 502 True 841.000000 841 96.825000 2642 3145 1 chr4A.!!$R1 503
12 TraesCS2A01G242800 chr6D 214995708 214996212 504 False 839.000000 839 96.634000 2641 3145 1 chr6D.!!$F1 504

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
604 1901 0.1023 TGGGTCGCAGATATGTGACG 59.898 55.0 23.51 7.14 46.78 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2306 3612 1.173043 TCATTTTTACAGCAGGGCCG 58.827 50.0 0.0 0.0 0.0 6.13 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
71 72 8.951969 CACGAAGAAAAAGAAGAAGATTCTTTG 58.048 33.333 14.43 10.68 46.84 2.77
188 191 4.199310 GGTAGATTGCAGCAATGGAAGTA 58.801 43.478 25.66 6.08 33.90 2.24
196 199 6.528537 TGCAGCAATGGAAGTATTAATTGT 57.471 33.333 0.00 0.00 35.67 2.71
274 278 2.988493 CAATGCAAGTTGTCGATTTGGG 59.012 45.455 4.48 0.00 0.00 4.12
336 340 6.925610 TTGCATAATGGAGCAAAGTACTAG 57.074 37.500 0.00 0.00 46.65 2.57
337 341 5.989477 TGCATAATGGAGCAAAGTACTAGT 58.011 37.500 0.00 0.00 37.90 2.57
382 1679 4.803098 CCAGGGCTGGTGTAGTATATAC 57.197 50.000 4.60 4.60 45.53 1.47
604 1901 0.102300 TGGGTCGCAGATATGTGACG 59.898 55.000 23.51 7.14 46.78 4.35
611 1908 4.503007 GTCGCAGATATGTGACGTGTTAAT 59.497 41.667 17.39 0.00 40.67 1.40
694 1991 6.415867 GCGAAGGATTTGATGACACATAAATG 59.584 38.462 0.00 0.00 0.00 2.32
735 2032 7.339212 TGCAAATACTAATGTCATGTTTAGGCT 59.661 33.333 13.49 0.00 31.15 4.58
750 2047 9.539825 CATGTTTAGGCTATAGATGCTTATAGG 57.460 37.037 3.21 0.00 35.23 2.57
807 2104 6.166982 CCTTTTGCAGAGCTACTAAAGTACT 58.833 40.000 13.02 0.00 0.00 2.73
809 2106 4.985538 TGCAGAGCTACTAAAGTACTCC 57.014 45.455 0.00 4.25 33.34 3.85
810 2107 3.700038 TGCAGAGCTACTAAAGTACTCCC 59.300 47.826 0.00 7.72 33.34 4.30
811 2108 3.955551 GCAGAGCTACTAAAGTACTCCCT 59.044 47.826 0.00 0.00 33.34 4.20
812 2109 4.037089 GCAGAGCTACTAAAGTACTCCCTC 59.963 50.000 0.00 0.00 33.34 4.30
813 2110 4.581409 CAGAGCTACTAAAGTACTCCCTCC 59.419 50.000 0.00 0.00 33.34 4.30
814 2111 3.553904 AGCTACTAAAGTACTCCCTCCG 58.446 50.000 0.00 0.00 0.00 4.63
815 2112 3.053768 AGCTACTAAAGTACTCCCTCCGT 60.054 47.826 0.00 0.00 0.00 4.69
816 2113 3.314913 GCTACTAAAGTACTCCCTCCGTC 59.685 52.174 0.00 0.00 0.00 4.79
817 2114 2.732763 ACTAAAGTACTCCCTCCGTCC 58.267 52.381 0.00 0.00 0.00 4.79
818 2115 2.030371 CTAAAGTACTCCCTCCGTCCC 58.970 57.143 0.00 0.00 0.00 4.46
819 2116 0.115745 AAAGTACTCCCTCCGTCCCA 59.884 55.000 0.00 0.00 0.00 4.37
820 2117 0.338814 AAGTACTCCCTCCGTCCCAT 59.661 55.000 0.00 0.00 0.00 4.00
821 2118 1.229131 AGTACTCCCTCCGTCCCATA 58.771 55.000 0.00 0.00 0.00 2.74
822 2119 1.572415 AGTACTCCCTCCGTCCCATAA 59.428 52.381 0.00 0.00 0.00 1.90
823 2120 2.179424 AGTACTCCCTCCGTCCCATAAT 59.821 50.000 0.00 0.00 0.00 1.28
824 2121 3.400322 AGTACTCCCTCCGTCCCATAATA 59.600 47.826 0.00 0.00 0.00 0.98
825 2122 3.562108 ACTCCCTCCGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
826 2123 3.870559 ACTCCCTCCGTCCCATAATATT 58.129 45.455 0.00 0.00 0.00 1.28
827 2124 5.019657 ACTCCCTCCGTCCCATAATATTA 57.980 43.478 0.00 0.00 0.00 0.98
828 2125 5.024118 ACTCCCTCCGTCCCATAATATTAG 58.976 45.833 1.02 0.00 0.00 1.73
829 2126 5.222484 ACTCCCTCCGTCCCATAATATTAGA 60.222 44.000 1.02 0.00 0.00 2.10
830 2127 5.269991 TCCCTCCGTCCCATAATATTAGAG 58.730 45.833 1.02 0.87 0.00 2.43
831 2128 4.141914 CCCTCCGTCCCATAATATTAGAGC 60.142 50.000 1.02 0.00 0.00 4.09
832 2129 4.141914 CCTCCGTCCCATAATATTAGAGCC 60.142 50.000 1.02 0.00 0.00 4.70
833 2130 4.684724 TCCGTCCCATAATATTAGAGCCT 58.315 43.478 1.02 0.00 0.00 4.58
834 2131 5.091552 TCCGTCCCATAATATTAGAGCCTT 58.908 41.667 1.02 0.00 0.00 4.35
835 2132 5.546499 TCCGTCCCATAATATTAGAGCCTTT 59.454 40.000 1.02 0.00 0.00 3.11
836 2133 6.043938 TCCGTCCCATAATATTAGAGCCTTTT 59.956 38.462 1.02 0.00 0.00 2.27
837 2134 6.715264 CCGTCCCATAATATTAGAGCCTTTTT 59.285 38.462 1.02 0.00 0.00 1.94
838 2135 7.308589 CCGTCCCATAATATTAGAGCCTTTTTG 60.309 40.741 1.02 0.00 0.00 2.44
839 2136 7.444183 CGTCCCATAATATTAGAGCCTTTTTGA 59.556 37.037 1.02 0.00 0.00 2.69
840 2137 8.568794 GTCCCATAATATTAGAGCCTTTTTGAC 58.431 37.037 1.02 0.00 0.00 3.18
841 2138 8.278639 TCCCATAATATTAGAGCCTTTTTGACA 58.721 33.333 1.02 0.00 0.00 3.58
842 2139 8.352942 CCCATAATATTAGAGCCTTTTTGACAC 58.647 37.037 1.02 0.00 0.00 3.67
843 2140 9.125026 CCATAATATTAGAGCCTTTTTGACACT 57.875 33.333 1.02 0.00 0.00 3.55
847 2144 6.803154 ATTAGAGCCTTTTTGACACTACAC 57.197 37.500 0.00 0.00 0.00 2.90
848 2145 4.423625 AGAGCCTTTTTGACACTACACT 57.576 40.909 0.00 0.00 0.00 3.55
849 2146 5.546621 AGAGCCTTTTTGACACTACACTA 57.453 39.130 0.00 0.00 0.00 2.74
850 2147 5.542779 AGAGCCTTTTTGACACTACACTAG 58.457 41.667 0.00 0.00 0.00 2.57
851 2148 5.070580 AGAGCCTTTTTGACACTACACTAGT 59.929 40.000 0.00 0.00 40.28 2.57
880 2177 7.687941 AAAACGCTCTTATATTATGGGATGG 57.312 36.000 0.00 0.00 0.00 3.51
881 2178 6.620877 AACGCTCTTATATTATGGGATGGA 57.379 37.500 0.00 0.00 0.00 3.41
882 2179 6.227298 ACGCTCTTATATTATGGGATGGAG 57.773 41.667 0.00 0.00 0.00 3.86
883 2180 5.129485 ACGCTCTTATATTATGGGATGGAGG 59.871 44.000 0.00 0.00 0.00 4.30
884 2181 5.453903 CGCTCTTATATTATGGGATGGAGGG 60.454 48.000 0.00 0.00 0.00 4.30
885 2182 5.667626 GCTCTTATATTATGGGATGGAGGGA 59.332 44.000 0.00 0.00 0.00 4.20
886 2183 6.183361 GCTCTTATATTATGGGATGGAGGGAG 60.183 46.154 0.00 0.00 0.00 4.30
887 2184 6.826727 TCTTATATTATGGGATGGAGGGAGT 58.173 40.000 0.00 0.00 0.00 3.85
888 2185 7.961940 TCTTATATTATGGGATGGAGGGAGTA 58.038 38.462 0.00 0.00 0.00 2.59
889 2186 8.414623 TCTTATATTATGGGATGGAGGGAGTAA 58.585 37.037 0.00 0.00 0.00 2.24
890 2187 9.230477 CTTATATTATGGGATGGAGGGAGTAAT 57.770 37.037 0.00 0.00 0.00 1.89
891 2188 9.588432 TTATATTATGGGATGGAGGGAGTAATT 57.412 33.333 0.00 0.00 0.00 1.40
914 2211 4.503741 TTAACATTTCTCTGCTTGGTGC 57.496 40.909 0.00 0.00 43.25 5.01
920 2217 2.462456 TCTCTGCTTGGTGCTTACAG 57.538 50.000 0.00 0.00 43.37 2.74
926 2223 5.989477 TCTGCTTGGTGCTTACAGTATATT 58.011 37.500 0.00 0.00 43.37 1.28
928 2225 7.561251 TCTGCTTGGTGCTTACAGTATATTTA 58.439 34.615 0.00 0.00 43.37 1.40
929 2226 8.210946 TCTGCTTGGTGCTTACAGTATATTTAT 58.789 33.333 0.00 0.00 43.37 1.40
971 2275 7.872113 ATTAAAGCTTGTTCTATTCCTCCAG 57.128 36.000 0.00 0.00 0.00 3.86
1019 2323 1.747355 GATGGCTTGTTCTGATGGTGG 59.253 52.381 0.00 0.00 0.00 4.61
1094 2398 0.739813 CCGCCCGAAAACTGTCCTAG 60.740 60.000 0.00 0.00 0.00 3.02
1104 2408 1.299976 CTGTCCTAGTGGTTGGGCC 59.700 63.158 0.00 0.00 37.90 5.80
1113 2417 4.048470 GGTTGGGCCACTCCTCCC 62.048 72.222 5.23 0.00 42.93 4.30
1133 2437 1.199097 CGGCCACACTTTTATGGTCAC 59.801 52.381 2.24 0.00 40.88 3.67
1134 2438 1.199097 GGCCACACTTTTATGGTCACG 59.801 52.381 0.00 0.00 40.52 4.35
1199 2503 4.161377 GGAGTATCTTCTGAAGCCTCTTGT 59.839 45.833 20.59 3.68 33.73 3.16
1230 2534 4.843516 TGGATCAAAGGCCCAGTAAAAATT 59.156 37.500 0.00 0.00 0.00 1.82
1233 2537 4.384940 TCAAAGGCCCAGTAAAAATTTGC 58.615 39.130 0.00 0.00 0.00 3.68
1248 2552 3.923017 ATTTGCGAGGTCCTGAAAAAG 57.077 42.857 0.00 0.00 0.00 2.27
1282 2586 1.224965 GAGGAAAGCCATCGATGAGC 58.775 55.000 26.86 24.77 36.29 4.26
1317 2621 3.006859 GCAATAAACCTTTTGTCTGGGCT 59.993 43.478 0.00 0.00 0.00 5.19
1332 2636 2.622942 CTGGGCTTTCAACTTGCAACTA 59.377 45.455 0.00 0.00 0.00 2.24
1353 2657 1.625818 CCCAGCAAGGAGAACTACAGT 59.374 52.381 0.00 0.00 41.22 3.55
1479 2783 2.311841 AGCAAACATAGTTAAGGGGCCT 59.688 45.455 0.84 0.00 0.00 5.19
1568 2872 3.762407 TGTCGAGGGATCAAACTTCAA 57.238 42.857 0.00 0.00 0.00 2.69
1689 2993 5.578336 TGTTATTGAGAGTCAAGCTGAATCG 59.422 40.000 0.00 0.00 45.18 3.34
1850 3154 0.392193 CTGCTACAGAACCCAGGCAG 60.392 60.000 0.00 0.00 40.52 4.85
1888 3192 4.315803 GCCTAGCTCAGAAAACACTAACA 58.684 43.478 0.00 0.00 0.00 2.41
2045 3351 8.565896 TCATTCTACTGTAGTCAAATTGCAAT 57.434 30.769 5.99 5.99 0.00 3.56
2269 3575 7.598493 AGTTGAATTTGTTTTTATGACGATGGG 59.402 33.333 0.00 0.00 0.00 4.00
2306 3612 7.233757 AGGTAGTTGTGGATTATCATAGTCCTC 59.766 40.741 7.68 4.78 35.74 3.71
2347 3655 8.723942 ATGATACATAGTGGTCAAGAGAAAAC 57.276 34.615 0.00 0.00 0.00 2.43
2348 3656 7.676004 TGATACATAGTGGTCAAGAGAAAACA 58.324 34.615 0.00 0.00 0.00 2.83
2349 3657 7.819415 TGATACATAGTGGTCAAGAGAAAACAG 59.181 37.037 0.00 0.00 0.00 3.16
2441 3749 1.005037 TGGCTGTGACGCTGGTAAG 60.005 57.895 0.16 0.00 0.00 2.34
2457 3765 4.469657 TGGTAAGAACTTGCTCCAAATGT 58.530 39.130 3.10 0.00 0.00 2.71
2470 3778 1.544537 CCAAATGTCTCGTGGAACCCA 60.545 52.381 0.00 0.00 34.05 4.51
2499 3807 5.520288 GCGATGAAAAGCTACATCAGAACTA 59.480 40.000 20.41 0.00 41.75 2.24
2826 4134 2.158900 CCACGAAGGTCTATTCCTGCAT 60.159 50.000 0.00 0.00 37.93 3.96
2955 4263 3.302028 GGACACAAACGAAGTACACGAAC 60.302 47.826 16.81 0.00 45.00 3.95
2971 4279 2.484264 ACGAACTTGCAATGGCTAACTC 59.516 45.455 0.00 0.00 41.91 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
71 72 6.147492 CAGATCAACATCTAGAAATAGCAGGC 59.853 42.308 0.00 0.00 37.25 4.85
333 337 8.152246 ACTCCTGTAGCATTCTACTAGTACTAG 58.848 40.741 25.30 25.30 44.26 2.57
334 338 8.032045 ACTCCTGTAGCATTCTACTAGTACTA 57.968 38.462 1.89 1.89 44.26 1.82
335 339 6.902408 ACTCCTGTAGCATTCTACTAGTACT 58.098 40.000 0.00 0.00 44.26 2.73
336 340 7.173047 GGTACTCCTGTAGCATTCTACTAGTAC 59.827 44.444 21.06 21.06 44.05 2.73
337 341 7.222872 GGTACTCCTGTAGCATTCTACTAGTA 58.777 42.308 1.89 1.89 44.26 1.82
382 1679 1.792006 AAGAAGGAACTGCGTTACGG 58.208 50.000 6.94 0.00 40.58 4.02
388 1685 3.040147 TCTGGTAAAGAAGGAACTGCG 57.960 47.619 0.00 0.00 40.58 5.18
591 1888 5.966636 TGATTAACACGTCACATATCTGC 57.033 39.130 0.00 0.00 0.00 4.26
604 1901 9.683069 AGTGAAAAGTGATCAAATGATTAACAC 57.317 29.630 0.00 2.08 34.37 3.32
611 1908 7.609146 AGCATAGAGTGAAAAGTGATCAAATGA 59.391 33.333 0.00 0.00 0.00 2.57
664 1961 1.097232 CATCAAATCCTTCGCAGCCA 58.903 50.000 0.00 0.00 0.00 4.75
749 2046 8.487313 ACAAATGACTTAACTTTTCCAAAACC 57.513 30.769 0.00 0.00 0.00 3.27
750 2047 9.753669 CAACAAATGACTTAACTTTTCCAAAAC 57.246 29.630 0.00 0.00 0.00 2.43
754 2051 9.495572 AAAACAACAAATGACTTAACTTTTCCA 57.504 25.926 0.00 0.00 0.00 3.53
807 2104 5.269991 CTCTAATATTATGGGACGGAGGGA 58.730 45.833 0.00 0.00 0.00 4.20
809 2106 4.141914 GGCTCTAATATTATGGGACGGAGG 60.142 50.000 0.00 0.00 0.00 4.30
810 2107 4.712337 AGGCTCTAATATTATGGGACGGAG 59.288 45.833 0.00 0.00 0.00 4.63
811 2108 4.684724 AGGCTCTAATATTATGGGACGGA 58.315 43.478 0.00 0.00 0.00 4.69
812 2109 5.422214 AAGGCTCTAATATTATGGGACGG 57.578 43.478 0.00 0.00 0.00 4.79
813 2110 7.444183 TCAAAAAGGCTCTAATATTATGGGACG 59.556 37.037 0.00 0.00 0.00 4.79
814 2111 8.568794 GTCAAAAAGGCTCTAATATTATGGGAC 58.431 37.037 0.00 0.00 0.00 4.46
815 2112 8.278639 TGTCAAAAAGGCTCTAATATTATGGGA 58.721 33.333 0.00 0.00 0.00 4.37
816 2113 8.352942 GTGTCAAAAAGGCTCTAATATTATGGG 58.647 37.037 0.00 0.00 0.00 4.00
817 2114 9.125026 AGTGTCAAAAAGGCTCTAATATTATGG 57.875 33.333 0.00 0.00 0.00 2.74
821 2118 8.947115 GTGTAGTGTCAAAAAGGCTCTAATATT 58.053 33.333 0.00 0.00 30.51 1.28
822 2119 8.322091 AGTGTAGTGTCAAAAAGGCTCTAATAT 58.678 33.333 0.00 0.00 30.51 1.28
823 2120 7.676947 AGTGTAGTGTCAAAAAGGCTCTAATA 58.323 34.615 0.00 0.00 30.51 0.98
824 2121 6.534634 AGTGTAGTGTCAAAAAGGCTCTAAT 58.465 36.000 0.00 0.00 30.51 1.73
825 2122 5.925509 AGTGTAGTGTCAAAAAGGCTCTAA 58.074 37.500 0.00 0.00 30.51 2.10
826 2123 5.546621 AGTGTAGTGTCAAAAAGGCTCTA 57.453 39.130 0.00 0.00 0.00 2.43
827 2124 4.423625 AGTGTAGTGTCAAAAAGGCTCT 57.576 40.909 0.00 0.00 0.00 4.09
828 2125 5.298347 ACTAGTGTAGTGTCAAAAAGGCTC 58.702 41.667 0.00 0.00 37.69 4.70
829 2126 5.291905 ACTAGTGTAGTGTCAAAAAGGCT 57.708 39.130 0.00 0.00 37.69 4.58
855 2152 7.942341 TCCATCCCATAATATAAGAGCGTTTTT 59.058 33.333 0.00 0.00 0.00 1.94
856 2153 7.458397 TCCATCCCATAATATAAGAGCGTTTT 58.542 34.615 0.00 0.00 0.00 2.43
857 2154 7.016153 TCCATCCCATAATATAAGAGCGTTT 57.984 36.000 0.00 0.00 0.00 3.60
858 2155 6.352222 CCTCCATCCCATAATATAAGAGCGTT 60.352 42.308 0.00 0.00 0.00 4.84
859 2156 5.129485 CCTCCATCCCATAATATAAGAGCGT 59.871 44.000 0.00 0.00 0.00 5.07
860 2157 5.453903 CCCTCCATCCCATAATATAAGAGCG 60.454 48.000 0.00 0.00 0.00 5.03
861 2158 5.667626 TCCCTCCATCCCATAATATAAGAGC 59.332 44.000 0.00 0.00 0.00 4.09
862 2159 6.905776 ACTCCCTCCATCCCATAATATAAGAG 59.094 42.308 0.00 0.00 0.00 2.85
863 2160 6.826727 ACTCCCTCCATCCCATAATATAAGA 58.173 40.000 0.00 0.00 0.00 2.10
864 2161 8.624019 TTACTCCCTCCATCCCATAATATAAG 57.376 38.462 0.00 0.00 0.00 1.73
865 2162 9.588432 AATTACTCCCTCCATCCCATAATATAA 57.412 33.333 0.00 0.00 0.00 0.98
867 2164 9.764776 ATAATTACTCCCTCCATCCCATAATAT 57.235 33.333 0.00 0.00 0.00 1.28
868 2165 9.588432 AATAATTACTCCCTCCATCCCATAATA 57.412 33.333 0.00 0.00 0.00 0.98
869 2166 8.482378 AATAATTACTCCCTCCATCCCATAAT 57.518 34.615 0.00 0.00 0.00 1.28
870 2167 7.905144 AATAATTACTCCCTCCATCCCATAA 57.095 36.000 0.00 0.00 0.00 1.90
871 2168 8.832735 GTTAATAATTACTCCCTCCATCCCATA 58.167 37.037 0.00 0.00 0.00 2.74
872 2169 7.297108 TGTTAATAATTACTCCCTCCATCCCAT 59.703 37.037 0.00 0.00 0.00 4.00
873 2170 6.621931 TGTTAATAATTACTCCCTCCATCCCA 59.378 38.462 0.00 0.00 0.00 4.37
874 2171 7.086685 TGTTAATAATTACTCCCTCCATCCC 57.913 40.000 0.00 0.00 0.00 3.85
875 2172 9.588096 AAATGTTAATAATTACTCCCTCCATCC 57.412 33.333 0.00 0.00 0.00 3.51
878 2175 9.847224 GAGAAATGTTAATAATTACTCCCTCCA 57.153 33.333 0.00 0.00 0.00 3.86
881 2178 9.343539 GCAGAGAAATGTTAATAATTACTCCCT 57.656 33.333 0.00 0.00 0.00 4.20
882 2179 9.343539 AGCAGAGAAATGTTAATAATTACTCCC 57.656 33.333 0.00 0.00 0.00 4.30
888 2185 7.761249 GCACCAAGCAGAGAAATGTTAATAATT 59.239 33.333 0.00 0.00 44.79 1.40
889 2186 7.260603 GCACCAAGCAGAGAAATGTTAATAAT 58.739 34.615 0.00 0.00 44.79 1.28
890 2187 6.620678 GCACCAAGCAGAGAAATGTTAATAA 58.379 36.000 0.00 0.00 44.79 1.40
891 2188 6.194796 GCACCAAGCAGAGAAATGTTAATA 57.805 37.500 0.00 0.00 44.79 0.98
979 2283 7.779798 AGCCATCTACAAGGAATGCTAATTTTA 59.220 33.333 0.00 0.00 0.00 1.52
980 2284 6.608808 AGCCATCTACAAGGAATGCTAATTTT 59.391 34.615 0.00 0.00 0.00 1.82
981 2285 6.131961 AGCCATCTACAAGGAATGCTAATTT 58.868 36.000 0.00 0.00 0.00 1.82
982 2286 5.699143 AGCCATCTACAAGGAATGCTAATT 58.301 37.500 0.00 0.00 0.00 1.40
1019 2323 0.183492 TATCCATTGGTGCTCAGCCC 59.817 55.000 1.86 0.00 0.00 5.19
1048 2352 1.739562 GAACTGCGCCTCCTGACTG 60.740 63.158 4.18 0.00 0.00 3.51
1059 2363 1.352156 GCGGTAGACAAGGAACTGCG 61.352 60.000 0.00 0.00 40.86 5.18
1113 2417 1.199097 GTGACCATAAAAGTGTGGCCG 59.801 52.381 0.00 0.00 39.60 6.13
1116 2420 1.810151 CCCGTGACCATAAAAGTGTGG 59.190 52.381 0.00 0.00 41.69 4.17
1117 2421 1.199097 GCCCGTGACCATAAAAGTGTG 59.801 52.381 0.00 0.00 0.00 3.82
1133 2437 1.110442 TGCAAAATATTCTGGGCCCG 58.890 50.000 19.37 12.57 0.00 6.13
1134 2438 2.419990 GGTTGCAAAATATTCTGGGCCC 60.420 50.000 17.59 17.59 0.00 5.80
1230 2534 2.494059 CTCTTTTTCAGGACCTCGCAA 58.506 47.619 0.00 0.00 0.00 4.85
1233 2537 3.067833 GTTCCTCTTTTTCAGGACCTCG 58.932 50.000 0.00 0.00 39.95 4.63
1248 2552 0.895530 TCCTCACACGATGGTTCCTC 59.104 55.000 0.00 0.00 0.00 3.71
1282 2586 4.747810 GGTTTATTGCCATGAGAAACCTG 58.252 43.478 12.54 0.00 43.69 4.00
1293 2597 3.323403 CCCAGACAAAAGGTTTATTGCCA 59.677 43.478 0.00 0.00 0.00 4.92
1317 2621 2.360801 GCTGGGTAGTTGCAAGTTGAAA 59.639 45.455 12.95 0.00 0.00 2.69
1332 2636 1.625818 CTGTAGTTCTCCTTGCTGGGT 59.374 52.381 0.00 0.00 36.20 4.51
1353 2657 6.092122 CCAGTGAGACAAAGTAAAATATCGCA 59.908 38.462 0.00 0.00 0.00 5.10
1479 2783 2.293122 CACAGCTTTTCGGACAATCCAA 59.707 45.455 0.00 0.00 35.91 3.53
1568 2872 4.199310 CCCAATATCCACATCAACTTCGT 58.801 43.478 0.00 0.00 0.00 3.85
1689 2993 1.380650 AAGTCTCTCGGGGAGCTCC 60.381 63.158 25.59 25.59 41.60 4.70
1717 3021 4.158764 CGGACTCAACTCAGAGAACCTTAT 59.841 45.833 3.79 0.00 38.98 1.73
1850 3154 4.527157 GCGACGGCTGCATTGAGC 62.527 66.667 0.50 0.00 45.96 4.26
1888 3192 6.460676 CCAGCATCTTCTTTGTGAAAGTTTCT 60.461 38.462 16.33 0.00 39.52 2.52
2016 3322 7.517417 GCAATTTGACTACAGTAGAATGATCGG 60.517 40.741 14.94 0.00 0.00 4.18
2017 3323 7.010460 TGCAATTTGACTACAGTAGAATGATCG 59.990 37.037 14.94 0.00 0.00 3.69
2045 3351 9.642343 AGATACATCCTACAACTGTAACATAGA 57.358 33.333 0.00 0.00 0.00 1.98
2269 3575 3.003113 AACTACCTGAGGCCGTCGC 62.003 63.158 0.00 0.00 0.00 5.19
2306 3612 1.173043 TCATTTTTACAGCAGGGCCG 58.827 50.000 0.00 0.00 0.00 6.13
2441 3749 2.808543 ACGAGACATTTGGAGCAAGTTC 59.191 45.455 0.00 0.00 0.00 3.01
2457 3765 1.816863 GCACTCTGGGTTCCACGAGA 61.817 60.000 15.26 2.80 34.89 4.04
2470 3778 3.319137 TGTAGCTTTTCATCGCACTCT 57.681 42.857 0.00 0.00 0.00 3.24
2546 3854 8.429299 GGCATAAAATTTAAACACGGTGTTAAG 58.571 33.333 25.31 6.93 40.14 1.85
2826 4134 4.652421 TCTTGCTTGTTCTTTGATTGCA 57.348 36.364 0.00 0.00 0.00 4.08
2921 4229 0.528901 TTGTGTCCAACGACCAGACG 60.529 55.000 0.00 0.00 38.32 4.18
2955 4263 5.886960 AGTTAAGAGTTAGCCATTGCAAG 57.113 39.130 4.94 0.00 41.13 4.01
2971 4279 9.825109 TTTTTCCTTGGGATTTGTTTAGTTAAG 57.175 29.630 0.00 0.00 0.00 1.85


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

AutoCloner maintained by Alex Coulton.