Multiple sequence alignment - TraesCS3B01G266700

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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 TraesCS3B01G266700 chr3B 100.000 1851 0 0 458 2308 427584317 427586167 0.000000e+00 3419.0
1 TraesCS3B01G266700 chr3B 84.766 512 72 6 1801 2308 335874836 335875345 2.050000e-140 508.0
2 TraesCS3B01G266700 chr3B 100.000 195 0 0 1 195 427583860 427584054 6.060000e-96 361.0
3 TraesCS3B01G266700 chr3B 98.901 182 2 0 14 195 765860328 765860509 2.210000e-85 326.0
4 TraesCS3B01G266700 chr3B 95.897 195 8 0 1 195 814834953 814834759 1.330000e-82 316.0
5 TraesCS3B01G266700 chr3B 97.059 170 5 0 476 645 814834235 814834066 1.040000e-73 287.0
6 TraesCS3B01G266700 chr3D 94.155 1095 39 14 672 1742 330052900 330053993 0.000000e+00 1644.0
7 TraesCS3B01G266700 chr3D 84.961 512 71 6 1801 2308 298581772 298581263 4.400000e-142 514.0
8 TraesCS3B01G266700 chr3D 91.753 194 8 3 458 650 45941187 45941001 1.760000e-66 263.0
9 TraesCS3B01G266700 chr3A 93.904 853 28 4 672 1518 445268045 445268879 0.000000e+00 1266.0
10 TraesCS3B01G266700 chr3A 93.252 163 7 2 1526 1684 445269089 445269251 1.070000e-58 237.0
11 TraesCS3B01G266700 chr3A 100.000 38 0 0 1498 1535 445268881 445268918 1.140000e-08 71.3
12 TraesCS3B01G266700 chr5D 84.766 512 72 6 1801 2308 555476861 555476352 2.050000e-140 508.0
13 TraesCS3B01G266700 chr5D 91.371 197 9 3 461 649 254523754 254523558 1.760000e-66 263.0
14 TraesCS3B01G266700 chr5A 84.795 513 70 8 1801 2308 513378206 513378715 2.050000e-140 508.0
15 TraesCS3B01G266700 chr5A 92.821 195 10 3 458 649 1292112 1291919 1.750000e-71 279.0
16 TraesCS3B01G266700 chr2D 84.766 512 72 6 1801 2308 135491669 135492178 2.050000e-140 508.0
17 TraesCS3B01G266700 chr7D 84.570 512 73 6 1801 2308 566034166 566033657 9.520000e-139 503.0
18 TraesCS3B01G266700 chr7D 95.897 195 8 0 1 195 3427833 3428027 1.330000e-82 316.0
19 TraesCS3B01G266700 chr7D 92.308 195 11 3 458 648 31969884 31969690 8.120000e-70 274.0
20 TraesCS3B01G266700 chr7D 84.043 94 15 0 1213 1306 427905348 427905255 8.780000e-15 91.6
21 TraesCS3B01G266700 chr6D 84.570 512 73 6 1801 2308 162278782 162279291 9.520000e-139 503.0
22 TraesCS3B01G266700 chr6D 95.897 195 8 0 1 195 379009567 379009761 1.330000e-82 316.0
23 TraesCS3B01G266700 chr6D 91.282 195 14 2 458 649 379009878 379010072 1.760000e-66 263.0
24 TraesCS3B01G266700 chr6A 84.600 513 72 7 1801 2308 81253184 81252674 9.520000e-139 503.0
25 TraesCS3B01G266700 chr1A 84.570 512 73 6 1801 2308 553055057 553055566 9.520000e-139 503.0
26 TraesCS3B01G266700 chr5B 98.462 195 3 0 1 195 324242698 324242504 6.110000e-91 344.0
27 TraesCS3B01G266700 chr5B 97.436 195 5 0 1 195 70560236 70560042 1.320000e-87 333.0
28 TraesCS3B01G266700 chr5B 97.872 188 4 0 458 645 70559917 70559730 2.210000e-85 326.0
29 TraesCS3B01G266700 chr5B 95.897 195 8 0 1 195 646659601 646659795 1.330000e-82 316.0
30 TraesCS3B01G266700 chr5B 96.809 188 5 1 458 645 324242053 324241867 1.720000e-81 313.0
31 TraesCS3B01G266700 chr7A 96.410 195 7 0 1 195 736019859 736019665 2.860000e-84 322.0
32 TraesCS3B01G266700 chr7A 94.241 191 11 0 461 651 736019262 736019072 2.240000e-75 292.0
33 TraesCS3B01G266700 chrUn 95.897 195 8 0 1 195 459024442 459024248 1.330000e-82 316.0
34 TraesCS3B01G266700 chr7B 84.091 88 14 0 1219 1306 445656875 445656788 4.090000e-13 86.1


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 TraesCS3B01G266700 chr3B 427583860 427586167 2307 False 1890.000000 3419 100.000000 1 2308 2 chr3B.!!$F3 2307
1 TraesCS3B01G266700 chr3B 335874836 335875345 509 False 508.000000 508 84.766000 1801 2308 1 chr3B.!!$F1 507
2 TraesCS3B01G266700 chr3B 814834066 814834953 887 True 301.500000 316 96.478000 1 645 2 chr3B.!!$R1 644
3 TraesCS3B01G266700 chr3D 330052900 330053993 1093 False 1644.000000 1644 94.155000 672 1742 1 chr3D.!!$F1 1070
4 TraesCS3B01G266700 chr3D 298581263 298581772 509 True 514.000000 514 84.961000 1801 2308 1 chr3D.!!$R2 507
5 TraesCS3B01G266700 chr3A 445268045 445269251 1206 False 524.766667 1266 95.718667 672 1684 3 chr3A.!!$F1 1012
6 TraesCS3B01G266700 chr5D 555476352 555476861 509 True 508.000000 508 84.766000 1801 2308 1 chr5D.!!$R2 507
7 TraesCS3B01G266700 chr5A 513378206 513378715 509 False 508.000000 508 84.795000 1801 2308 1 chr5A.!!$F1 507
8 TraesCS3B01G266700 chr2D 135491669 135492178 509 False 508.000000 508 84.766000 1801 2308 1 chr2D.!!$F1 507
9 TraesCS3B01G266700 chr7D 566033657 566034166 509 True 503.000000 503 84.570000 1801 2308 1 chr7D.!!$R3 507
10 TraesCS3B01G266700 chr6D 162278782 162279291 509 False 503.000000 503 84.570000 1801 2308 1 chr6D.!!$F1 507
11 TraesCS3B01G266700 chr6D 379009567 379010072 505 False 289.500000 316 93.589500 1 649 2 chr6D.!!$F2 648
12 TraesCS3B01G266700 chr6A 81252674 81253184 510 True 503.000000 503 84.600000 1801 2308 1 chr6A.!!$R1 507
13 TraesCS3B01G266700 chr1A 553055057 553055566 509 False 503.000000 503 84.570000 1801 2308 1 chr1A.!!$F1 507
14 TraesCS3B01G266700 chr5B 70559730 70560236 506 True 329.500000 333 97.654000 1 645 2 chr5B.!!$R1 644
15 TraesCS3B01G266700 chr5B 324241867 324242698 831 True 328.500000 344 97.635500 1 645 2 chr5B.!!$R2 644
16 TraesCS3B01G266700 chr7A 736019072 736019859 787 True 307.000000 322 95.325500 1 651 2 chr7A.!!$R1 650

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
654 1334 1.064357 GGTCGCGAGAGGAGAAACTAG 59.936 57.143 10.24 0.0 43.49 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2035 2950 0.034896 CCTAGCACAAGGGTTCACGT 59.965 55.0 0.0 0.0 32.55 4.49 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
651 1331 1.514443 CGGTCGCGAGAGGAGAAAC 60.514 63.158 10.24 0.00 43.49 2.78
652 1332 1.884444 GGTCGCGAGAGGAGAAACT 59.116 57.895 10.24 0.00 43.49 2.66
653 1333 1.093159 GGTCGCGAGAGGAGAAACTA 58.907 55.000 10.24 0.00 43.49 2.24
654 1334 1.064357 GGTCGCGAGAGGAGAAACTAG 59.936 57.143 10.24 0.00 43.49 2.57
655 1335 1.064357 GTCGCGAGAGGAGAAACTAGG 59.936 57.143 10.24 0.00 43.49 3.02
656 1336 1.065636 TCGCGAGAGGAGAAACTAGGA 60.066 52.381 3.71 0.00 34.84 2.94
657 1337 1.950909 CGCGAGAGGAGAAACTAGGAT 59.049 52.381 0.00 0.00 0.00 3.24
658 1338 2.359531 CGCGAGAGGAGAAACTAGGATT 59.640 50.000 0.00 0.00 0.00 3.01
659 1339 3.549221 CGCGAGAGGAGAAACTAGGATTC 60.549 52.174 0.00 0.00 0.00 2.52
660 1340 3.634910 GCGAGAGGAGAAACTAGGATTCT 59.365 47.826 11.55 11.55 39.76 2.40
661 1341 4.098807 GCGAGAGGAGAAACTAGGATTCTT 59.901 45.833 12.62 0.96 37.26 2.52
662 1342 5.735070 GCGAGAGGAGAAACTAGGATTCTTC 60.735 48.000 12.62 11.14 37.26 2.87
663 1343 5.221165 CGAGAGGAGAAACTAGGATTCTTCC 60.221 48.000 12.62 13.63 42.96 3.46
739 1420 2.932614 CAAAACGATAGGCAGTGAGAGG 59.067 50.000 0.00 0.00 43.77 3.69
765 1452 8.682710 GGAGTTACTATGCCTGAATCTATCTAG 58.317 40.741 0.00 0.00 0.00 2.43
1020 1718 1.219124 GGCGTCAATCTCCAGAGCA 59.781 57.895 0.00 0.00 0.00 4.26
1032 1730 0.036010 CCAGAGCATCGTCCCTTGTT 60.036 55.000 0.00 0.00 42.67 2.83
1162 1860 0.384725 GTGCGTGTGTGTGATGCTTC 60.385 55.000 0.00 0.00 0.00 3.86
1178 1879 5.474532 TGATGCTTCTTAGTGATTTGCTTGT 59.525 36.000 0.88 0.00 0.00 3.16
1250 1951 2.780643 CTCATGTTCGTGGCGCTG 59.219 61.111 7.64 0.00 0.00 5.18
1380 2084 6.869913 AGTTCATCCAGTTTAATCGTTCGTTA 59.130 34.615 0.00 0.00 0.00 3.18
1381 2085 7.385752 AGTTCATCCAGTTTAATCGTTCGTTAA 59.614 33.333 0.00 0.00 0.00 2.01
1403 2107 9.152595 GTTAAGAAAACCAGGATTGTAGTCTAG 57.847 37.037 0.00 0.00 0.00 2.43
1426 2134 6.703319 AGGTAGTTTCTTCTTTCTAGCTTCC 58.297 40.000 0.00 0.00 37.78 3.46
1478 2186 3.793559 TGCCGATTCCTTTACTTCTAGC 58.206 45.455 0.00 0.00 0.00 3.42
1496 2204 7.451255 ACTTCTAGCTCTAGAGATGTAATGCAT 59.549 37.037 24.24 0.00 42.50 3.96
1684 2599 1.679977 CCTTGTCCACATGCCCAGG 60.680 63.158 0.00 0.00 0.00 4.45
1719 2634 2.333225 CCGCCGGAGATCTCTTCG 59.667 66.667 21.81 19.63 44.34 3.79
1737 2652 1.482621 CGAGCGATCGTCCCATTGTG 61.483 60.000 16.15 0.00 0.00 3.33
1742 2657 1.135112 CGATCGTCCCATTGTGTCAGA 60.135 52.381 7.03 0.00 0.00 3.27
1743 2658 2.271800 GATCGTCCCATTGTGTCAGAC 58.728 52.381 0.00 0.00 0.00 3.51
1744 2659 0.320374 TCGTCCCATTGTGTCAGACC 59.680 55.000 0.00 0.00 0.00 3.85
1745 2660 0.034756 CGTCCCATTGTGTCAGACCA 59.965 55.000 0.00 0.00 0.00 4.02
1746 2661 1.542328 CGTCCCATTGTGTCAGACCAA 60.542 52.381 0.00 2.65 0.00 3.67
1747 2662 1.880027 GTCCCATTGTGTCAGACCAAC 59.120 52.381 0.00 0.00 0.00 3.77
1748 2663 1.774254 TCCCATTGTGTCAGACCAACT 59.226 47.619 0.00 0.00 0.00 3.16
1749 2664 2.154462 CCCATTGTGTCAGACCAACTC 58.846 52.381 0.00 0.00 0.00 3.01
1750 2665 2.154462 CCATTGTGTCAGACCAACTCC 58.846 52.381 0.00 0.00 0.00 3.85
1751 2666 2.487086 CCATTGTGTCAGACCAACTCCA 60.487 50.000 0.00 0.00 0.00 3.86
1752 2667 3.213506 CATTGTGTCAGACCAACTCCAA 58.786 45.455 0.00 0.00 0.00 3.53
1753 2668 2.325583 TGTGTCAGACCAACTCCAAC 57.674 50.000 0.00 0.00 0.00 3.77
1754 2669 1.134220 TGTGTCAGACCAACTCCAACC 60.134 52.381 0.00 0.00 0.00 3.77
1755 2670 0.472471 TGTCAGACCAACTCCAACCC 59.528 55.000 0.00 0.00 0.00 4.11
1756 2671 0.472471 GTCAGACCAACTCCAACCCA 59.528 55.000 0.00 0.00 0.00 4.51
1757 2672 0.764890 TCAGACCAACTCCAACCCAG 59.235 55.000 0.00 0.00 0.00 4.45
1758 2673 0.890996 CAGACCAACTCCAACCCAGC 60.891 60.000 0.00 0.00 0.00 4.85
1759 2674 1.966451 GACCAACTCCAACCCAGCG 60.966 63.158 0.00 0.00 0.00 5.18
1760 2675 2.391724 GACCAACTCCAACCCAGCGA 62.392 60.000 0.00 0.00 0.00 4.93
1761 2676 1.966451 CCAACTCCAACCCAGCGAC 60.966 63.158 0.00 0.00 0.00 5.19
1762 2677 1.966451 CAACTCCAACCCAGCGACC 60.966 63.158 0.00 0.00 0.00 4.79
1763 2678 3.192103 AACTCCAACCCAGCGACCC 62.192 63.158 0.00 0.00 0.00 4.46
1764 2679 3.636231 CTCCAACCCAGCGACCCA 61.636 66.667 0.00 0.00 0.00 4.51
1765 2680 2.933287 TCCAACCCAGCGACCCAT 60.933 61.111 0.00 0.00 0.00 4.00
1766 2681 2.035626 CCAACCCAGCGACCCATT 59.964 61.111 0.00 0.00 0.00 3.16
1767 2682 1.606313 CCAACCCAGCGACCCATTT 60.606 57.895 0.00 0.00 0.00 2.32
1768 2683 1.184970 CCAACCCAGCGACCCATTTT 61.185 55.000 0.00 0.00 0.00 1.82
1769 2684 0.038343 CAACCCAGCGACCCATTTTG 60.038 55.000 0.00 0.00 0.00 2.44
1770 2685 0.469144 AACCCAGCGACCCATTTTGT 60.469 50.000 0.00 0.00 0.00 2.83
1771 2686 0.893727 ACCCAGCGACCCATTTTGTC 60.894 55.000 0.00 0.00 0.00 3.18
1772 2687 1.595093 CCCAGCGACCCATTTTGTCC 61.595 60.000 0.00 0.00 0.00 4.02
1773 2688 1.501741 CAGCGACCCATTTTGTCCG 59.498 57.895 0.00 0.00 0.00 4.79
1774 2689 1.072505 AGCGACCCATTTTGTCCGT 59.927 52.632 0.00 0.00 0.00 4.69
1775 2690 0.322322 AGCGACCCATTTTGTCCGTA 59.678 50.000 0.00 0.00 0.00 4.02
1776 2691 1.065709 AGCGACCCATTTTGTCCGTAT 60.066 47.619 0.00 0.00 0.00 3.06
1777 2692 1.063469 GCGACCCATTTTGTCCGTATG 59.937 52.381 0.00 0.00 0.00 2.39
1778 2693 1.668751 CGACCCATTTTGTCCGTATGG 59.331 52.381 0.00 0.00 38.82 2.74
1779 2694 2.678479 CGACCCATTTTGTCCGTATGGA 60.678 50.000 0.00 0.00 41.05 3.41
1796 2711 1.851304 GGATCATTCCAACCAAGCCA 58.149 50.000 0.00 0.00 42.12 4.75
1797 2712 2.391678 GGATCATTCCAACCAAGCCAT 58.608 47.619 0.00 0.00 42.12 4.40
1798 2713 3.565307 GGATCATTCCAACCAAGCCATA 58.435 45.455 0.00 0.00 42.12 2.74
1799 2714 4.154942 GGATCATTCCAACCAAGCCATAT 58.845 43.478 0.00 0.00 42.12 1.78
1847 2762 2.561366 CGTTTTCGCGCTTGTGTTT 58.439 47.368 5.56 0.00 36.22 2.83
1856 2771 2.350388 CGCGCTTGTGTTTAGGACAAAT 60.350 45.455 5.56 0.00 40.65 2.32
1860 2775 5.861787 GCGCTTGTGTTTAGGACAAATATTT 59.138 36.000 0.00 0.00 40.65 1.40
1931 2846 0.457853 CGGTCACGACGTCCATCAAT 60.458 55.000 10.58 0.00 44.60 2.57
1932 2847 1.202211 CGGTCACGACGTCCATCAATA 60.202 52.381 10.58 0.00 44.60 1.90
1975 2890 6.013466 TGCACTGCCAAGGATATAAGATATCA 60.013 38.462 5.32 0.00 0.00 2.15
1995 2910 4.136796 TCAGAAAGTGGTTCCACTCATTG 58.863 43.478 22.41 18.79 45.37 2.82
1997 2912 1.620822 AAGTGGTTCCACTCATTGCC 58.379 50.000 22.41 0.00 45.37 4.52
2001 2916 0.394352 GGTTCCACTCATTGCCGGAT 60.394 55.000 5.05 0.00 0.00 4.18
2053 2968 2.230508 TCTACGTGAACCCTTGTGCTAG 59.769 50.000 0.00 0.00 0.00 3.42
2056 2971 1.066143 CGTGAACCCTTGTGCTAGGAT 60.066 52.381 1.33 0.00 37.50 3.24
2068 2983 3.084786 GTGCTAGGATCCTTGCTTTGTT 58.915 45.455 36.84 9.35 43.31 2.83
2074 2989 4.670765 AGGATCCTTGCTTTGTTTCTCAT 58.329 39.130 9.02 0.00 0.00 2.90
2093 3009 3.258123 TCATCACCTCATGTTCTCGTTCA 59.742 43.478 0.00 0.00 0.00 3.18
2099 3016 4.256920 CCTCATGTTCTCGTTCATTTCCT 58.743 43.478 0.00 0.00 0.00 3.36
2120 3038 6.552008 TCCTGAGAAAAACCCATTTGTATCT 58.448 36.000 0.00 0.00 26.62 1.98
2121 3039 6.434028 TCCTGAGAAAAACCCATTTGTATCTG 59.566 38.462 0.00 0.00 26.62 2.90
2141 3059 9.436957 GTATCTGACAAGAAAAACATTAGGAGA 57.563 33.333 0.00 0.00 35.59 3.71
2146 3064 7.719193 TGACAAGAAAAACATTAGGAGATGTCA 59.281 33.333 0.00 0.00 39.25 3.58
2149 3067 7.678947 AGAAAAACATTAGGAGATGTCAGTG 57.321 36.000 0.00 0.00 39.25 3.66
2169 3088 5.860182 CAGTGTTGCTTCATGAATACCTTTG 59.140 40.000 8.96 0.00 0.00 2.77
2170 3089 5.536161 AGTGTTGCTTCATGAATACCTTTGT 59.464 36.000 8.96 0.00 0.00 2.83
2175 3094 9.255304 GTTGCTTCATGAATACCTTTGTTTTTA 57.745 29.630 8.96 0.00 0.00 1.52
2193 3112 8.825667 TGTTTTTATTAAGTGAGGCAATTTCC 57.174 30.769 0.00 0.00 0.00 3.13
2209 3128 2.121291 TTCCGCTTGTATTGCATCCA 57.879 45.000 0.00 0.00 0.00 3.41
2220 3139 5.078949 TGTATTGCATCCATCCATTTAGGG 58.921 41.667 0.00 0.00 38.24 3.53
2245 3164 1.878775 GAGCGCTTTTGGCACTCAT 59.121 52.632 13.26 0.00 46.12 2.90
2254 3173 3.885724 TTTGGCACTCATCGATAGTCA 57.114 42.857 0.00 0.00 37.40 3.41
2259 3178 3.493350 GGCACTCATCGATAGTCATTGGT 60.493 47.826 0.00 0.00 37.40 3.67
2277 3196 5.488262 TTGGTTCATGATCAGTGAGAAGA 57.512 39.130 0.09 0.00 0.00 2.87
2296 3216 8.632679 TGAGAAGAGTATTTGCAATTTTTCAGT 58.367 29.630 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
166 390 3.090532 GATCTGGGCCCTTCGGGT 61.091 66.667 25.70 6.73 46.51 5.28
488 1167 2.861730 CCCCTGGCTTTTCCCCTT 59.138 61.111 0.00 0.00 0.00 3.95
654 1334 4.383661 GGACTCAGGAAAGAGGAAGAATCC 60.384 50.000 0.00 0.00 46.98 3.01
655 1335 4.383661 GGGACTCAGGAAAGAGGAAGAATC 60.384 50.000 0.00 0.00 39.97 2.52
656 1336 3.521531 GGGACTCAGGAAAGAGGAAGAAT 59.478 47.826 0.00 0.00 39.97 2.40
657 1337 2.907042 GGGACTCAGGAAAGAGGAAGAA 59.093 50.000 0.00 0.00 39.97 2.52
658 1338 2.158158 TGGGACTCAGGAAAGAGGAAGA 60.158 50.000 0.00 0.00 39.97 2.87
659 1339 2.260822 TGGGACTCAGGAAAGAGGAAG 58.739 52.381 0.00 0.00 39.97 3.46
660 1340 2.415983 TGGGACTCAGGAAAGAGGAA 57.584 50.000 0.00 0.00 39.97 3.36
661 1341 2.649742 ATGGGACTCAGGAAAGAGGA 57.350 50.000 0.00 0.00 39.97 3.71
662 1342 3.728385 AAATGGGACTCAGGAAAGAGG 57.272 47.619 0.00 0.00 39.97 3.69
663 1343 5.649831 CCTAAAAATGGGACTCAGGAAAGAG 59.350 44.000 0.00 0.00 41.44 2.85
664 1344 5.570320 CCTAAAAATGGGACTCAGGAAAGA 58.430 41.667 0.00 0.00 0.00 2.52
665 1345 5.904362 CCTAAAAATGGGACTCAGGAAAG 57.096 43.478 0.00 0.00 0.00 2.62
739 1420 7.475137 AGATAGATTCAGGCATAGTAACTCC 57.525 40.000 0.00 0.00 0.00 3.85
765 1452 2.815647 CCTTGCTCCTCGTTCGCC 60.816 66.667 0.00 0.00 0.00 5.54
832 1519 0.944311 CGGCGAGACCCGGATTTATG 60.944 60.000 0.73 0.00 44.46 1.90
1032 1730 4.094646 ACGACGATGGCCATGGCA 62.095 61.111 36.56 23.14 44.11 4.92
1104 1802 7.403231 AGGAGAGGAAGAAAATACTAACCATCA 59.597 37.037 0.00 0.00 0.00 3.07
1162 1860 6.756074 TCCACAAAAACAAGCAAATCACTAAG 59.244 34.615 0.00 0.00 0.00 2.18
1178 1879 2.625314 TGCCAACATCGATCCACAAAAA 59.375 40.909 0.00 0.00 0.00 1.94
1250 1951 1.411651 GGATGAGGTAGGTGAGGGCC 61.412 65.000 0.00 0.00 0.00 5.80
1380 2084 6.272558 ACCTAGACTACAATCCTGGTTTTCTT 59.727 38.462 0.00 0.00 0.00 2.52
1381 2085 5.785940 ACCTAGACTACAATCCTGGTTTTCT 59.214 40.000 0.00 0.00 0.00 2.52
1403 2107 5.875910 GGGAAGCTAGAAAGAAGAAACTACC 59.124 44.000 0.00 0.00 0.00 3.18
1426 2134 1.466167 CACTCGCAAATCTCCAACTGG 59.534 52.381 0.00 0.00 0.00 4.00
1496 2204 6.465321 GGGGATATTTCCGGACAGAGAATAAA 60.465 42.308 1.83 0.00 43.63 1.40
1698 2613 3.607661 GAGATCTCCGGCGGGGAC 61.608 72.222 34.02 23.99 40.94 4.46
1719 2634 0.460284 ACACAATGGGACGATCGCTC 60.460 55.000 16.60 11.76 0.00 5.03
1737 2652 0.472471 TGGGTTGGAGTTGGTCTGAC 59.528 55.000 0.00 0.00 0.00 3.51
1742 2657 2.113139 CGCTGGGTTGGAGTTGGT 59.887 61.111 0.00 0.00 0.00 3.67
1743 2658 1.966451 GTCGCTGGGTTGGAGTTGG 60.966 63.158 0.00 0.00 0.00 3.77
1744 2659 1.966451 GGTCGCTGGGTTGGAGTTG 60.966 63.158 0.00 0.00 0.00 3.16
1745 2660 2.430367 GGTCGCTGGGTTGGAGTT 59.570 61.111 0.00 0.00 0.00 3.01
1746 2661 3.637273 GGGTCGCTGGGTTGGAGT 61.637 66.667 0.00 0.00 0.00 3.85
1747 2662 2.484287 AATGGGTCGCTGGGTTGGAG 62.484 60.000 0.00 0.00 0.00 3.86
1748 2663 2.075355 AAATGGGTCGCTGGGTTGGA 62.075 55.000 0.00 0.00 0.00 3.53
1749 2664 1.184970 AAAATGGGTCGCTGGGTTGG 61.185 55.000 0.00 0.00 0.00 3.77
1750 2665 0.038343 CAAAATGGGTCGCTGGGTTG 60.038 55.000 0.00 0.00 0.00 3.77
1751 2666 0.469144 ACAAAATGGGTCGCTGGGTT 60.469 50.000 0.00 0.00 0.00 4.11
1752 2667 0.893727 GACAAAATGGGTCGCTGGGT 60.894 55.000 0.00 0.00 0.00 4.51
1753 2668 1.595093 GGACAAAATGGGTCGCTGGG 61.595 60.000 0.00 0.00 36.12 4.45
1754 2669 1.883021 GGACAAAATGGGTCGCTGG 59.117 57.895 0.00 0.00 36.12 4.85
1755 2670 1.234615 ACGGACAAAATGGGTCGCTG 61.235 55.000 0.00 0.00 36.12 5.18
1756 2671 0.322322 TACGGACAAAATGGGTCGCT 59.678 50.000 0.00 0.00 36.12 4.93
1757 2672 1.063469 CATACGGACAAAATGGGTCGC 59.937 52.381 0.00 0.00 36.12 5.19
1758 2673 1.668751 CCATACGGACAAAATGGGTCG 59.331 52.381 0.00 0.00 37.17 4.79
1759 2674 2.993937 TCCATACGGACAAAATGGGTC 58.006 47.619 1.02 0.00 40.53 4.46
1760 2675 3.053991 TGATCCATACGGACAAAATGGGT 60.054 43.478 1.02 0.00 46.79 4.51
1761 2676 3.550820 TGATCCATACGGACAAAATGGG 58.449 45.455 1.02 0.00 46.79 4.00
1762 2677 5.278463 GGAATGATCCATACGGACAAAATGG 60.278 44.000 0.00 0.00 46.79 3.16
1763 2678 5.762045 GGAATGATCCATACGGACAAAATG 58.238 41.667 0.00 0.00 46.79 2.32
1777 2692 1.851304 TGGCTTGGTTGGAATGATCC 58.149 50.000 0.00 0.00 46.76 3.36
1778 2693 6.006449 AGTATATGGCTTGGTTGGAATGATC 58.994 40.000 0.00 0.00 0.00 2.92
1779 2694 5.957132 AGTATATGGCTTGGTTGGAATGAT 58.043 37.500 0.00 0.00 0.00 2.45
1780 2695 5.387113 AGTATATGGCTTGGTTGGAATGA 57.613 39.130 0.00 0.00 0.00 2.57
1781 2696 7.765695 ATAAGTATATGGCTTGGTTGGAATG 57.234 36.000 5.08 0.00 0.00 2.67
1782 2697 8.004215 TGAATAAGTATATGGCTTGGTTGGAAT 58.996 33.333 5.08 0.00 0.00 3.01
1783 2698 7.350382 TGAATAAGTATATGGCTTGGTTGGAA 58.650 34.615 5.08 0.00 0.00 3.53
1784 2699 6.905736 TGAATAAGTATATGGCTTGGTTGGA 58.094 36.000 5.08 0.00 0.00 3.53
1785 2700 6.772716 ACTGAATAAGTATATGGCTTGGTTGG 59.227 38.462 5.08 0.00 37.36 3.77
1786 2701 7.807977 ACTGAATAAGTATATGGCTTGGTTG 57.192 36.000 5.08 0.00 37.36 3.77
1787 2702 8.823220 AAACTGAATAAGTATATGGCTTGGTT 57.177 30.769 5.08 0.00 38.56 3.67
1788 2703 8.823220 AAAACTGAATAAGTATATGGCTTGGT 57.177 30.769 5.08 0.00 38.56 3.67
1792 2707 9.899661 TGTGTAAAACTGAATAAGTATATGGCT 57.100 29.630 0.00 0.00 38.56 4.75
1822 2737 3.901290 CACAAGCGCGAAAACGTAATTTA 59.099 39.130 12.10 0.00 34.88 1.40
1824 2739 2.286536 ACACAAGCGCGAAAACGTAATT 60.287 40.909 12.10 0.00 34.88 1.40
1825 2740 1.262151 ACACAAGCGCGAAAACGTAAT 59.738 42.857 12.10 0.00 34.88 1.89
1828 2743 0.179184 AAACACAAGCGCGAAAACGT 60.179 45.000 12.10 0.00 34.88 3.99
1835 2750 0.584396 TTGTCCTAAACACAAGCGCG 59.416 50.000 0.00 0.00 37.70 6.86
1844 2759 7.605410 TCCTGACGAAATATTTGTCCTAAAC 57.395 36.000 19.28 0.79 0.00 2.01
1847 2762 6.070424 AGGTTCCTGACGAAATATTTGTCCTA 60.070 38.462 19.28 8.33 30.39 2.94
1860 2775 7.776618 ACATATATATGAAGGTTCCTGACGA 57.223 36.000 26.05 0.00 37.15 4.20
1900 2815 3.441163 GTCGTGACCGCATATCTTTACA 58.559 45.455 0.00 0.00 0.00 2.41
1931 2846 6.642540 CAGTGCAAAATCGTCTATCTATGCTA 59.357 38.462 0.00 0.00 33.87 3.49
1932 2847 5.464722 CAGTGCAAAATCGTCTATCTATGCT 59.535 40.000 0.00 0.00 33.87 3.79
1995 2910 8.946085 TGATTTCAATAAGACATATTATCCGGC 58.054 33.333 0.00 0.00 32.84 6.13
2026 2941 2.496070 CAAGGGTTCACGTAGAGATCCA 59.504 50.000 0.00 0.00 38.46 3.41
2029 2944 2.353803 GCACAAGGGTTCACGTAGAGAT 60.354 50.000 0.00 0.00 0.00 2.75
2035 2950 0.034896 CCTAGCACAAGGGTTCACGT 59.965 55.000 0.00 0.00 32.55 4.49
2053 2968 4.460382 TGATGAGAAACAAAGCAAGGATCC 59.540 41.667 2.48 2.48 0.00 3.36
2056 2971 3.569701 GGTGATGAGAAACAAAGCAAGGA 59.430 43.478 0.00 0.00 0.00 3.36
2068 2983 3.511540 ACGAGAACATGAGGTGATGAGAA 59.488 43.478 0.00 0.00 0.00 2.87
2074 2989 3.961480 ATGAACGAGAACATGAGGTGA 57.039 42.857 0.00 0.00 0.00 4.02
2093 3009 6.499106 ACAAATGGGTTTTTCTCAGGAAAT 57.501 33.333 0.00 0.00 40.57 2.17
2099 3016 6.775142 TGTCAGATACAAATGGGTTTTTCTCA 59.225 34.615 0.00 0.00 34.29 3.27
2120 3038 7.719193 TGACATCTCCTAATGTTTTTCTTGTCA 59.281 33.333 0.00 0.00 39.93 3.58
2121 3039 8.099364 TGACATCTCCTAATGTTTTTCTTGTC 57.901 34.615 0.00 0.00 39.93 3.18
2127 3045 7.651808 CAACACTGACATCTCCTAATGTTTTT 58.348 34.615 0.00 0.00 39.93 1.94
2141 3059 5.124457 GGTATTCATGAAGCAACACTGACAT 59.876 40.000 14.54 0.00 0.00 3.06
2146 3064 5.536161 ACAAAGGTATTCATGAAGCAACACT 59.464 36.000 14.54 8.35 0.00 3.55
2149 3067 7.713764 AAAACAAAGGTATTCATGAAGCAAC 57.286 32.000 14.54 11.28 0.00 4.17
2169 3088 7.411480 GCGGAAATTGCCTCACTTAATAAAAAC 60.411 37.037 0.00 0.00 0.00 2.43
2170 3089 6.588373 GCGGAAATTGCCTCACTTAATAAAAA 59.412 34.615 0.00 0.00 0.00 1.94
2175 3094 3.356290 AGCGGAAATTGCCTCACTTAAT 58.644 40.909 0.00 0.00 0.00 1.40
2181 3100 2.192664 TACAAGCGGAAATTGCCTCA 57.807 45.000 0.00 0.00 0.00 3.86
2193 3112 1.948834 TGGATGGATGCAATACAAGCG 59.051 47.619 0.00 0.00 43.14 4.68
2209 3128 2.633481 GCTCCGACTACCCTAAATGGAT 59.367 50.000 0.00 0.00 38.35 3.41
2220 3139 1.967597 GCCAAAAGCGCTCCGACTAC 61.968 60.000 12.06 0.00 0.00 2.73
2245 3164 6.160576 TGATCATGAACCAATGACTATCGA 57.839 37.500 0.00 0.00 39.32 3.59
2254 3173 6.058553 TCTTCTCACTGATCATGAACCAAT 57.941 37.500 0.00 0.00 0.00 3.16
2259 3178 7.279536 GCAAATACTCTTCTCACTGATCATGAA 59.720 37.037 0.00 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.