Multiple sequence alignment - TraesCS3B01G206800

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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 TraesCS3B01G206800 chr3B 100.000 3125 0 0 1 3125 242460077 242463201 0.000000e+00 5771.0
1 TraesCS3B01G206800 chr3B 91.535 1902 79 32 746 2597 242548603 242550472 0.000000e+00 2545.0
2 TraesCS3B01G206800 chr3B 92.013 313 16 2 138 450 242545198 242545501 6.190000e-117 431.0
3 TraesCS3B01G206800 chr3B 91.611 298 14 3 634 930 242545499 242545786 4.850000e-108 401.0
4 TraesCS3B01G206800 chr3B 94.805 231 10 1 1 231 242547696 242547924 2.960000e-95 359.0
5 TraesCS3B01G206800 chr3B 93.382 136 9 0 1 136 242543605 242543740 5.280000e-48 202.0
6 TraesCS3B01G206800 chr3B 93.023 43 3 0 2591 2633 242551219 242551261 2.600000e-06 63.9
7 TraesCS3B01G206800 chr7B 87.979 2088 108 55 951 2922 179533691 179535751 0.000000e+00 2333.0
8 TraesCS3B01G206800 chr7B 91.743 109 6 2 850 955 179533555 179533663 6.980000e-32 148.0
9 TraesCS3B01G206800 chr7B 91.803 61 4 1 796 855 179533443 179533503 2.000000e-12 84.2
10 TraesCS3B01G206800 chr7B 83.607 61 10 0 165 225 192763464 192763404 1.210000e-04 58.4
11 TraesCS3B01G206800 chr7A 90.567 1675 81 14 951 2549 232528757 232527084 0.000000e+00 2146.0
12 TraesCS3B01G206800 chr7A 88.889 396 25 7 2733 3125 232527013 232526634 1.310000e-128 470.0
13 TraesCS3B01G206800 chr7A 88.406 207 16 5 563 768 232532371 232532172 3.110000e-60 243.0
14 TraesCS3B01G206800 chr7A 95.098 102 4 1 855 955 232528886 232528785 3.230000e-35 159.0
15 TraesCS3B01G206800 chr7A 90.476 63 3 1 796 855 232529007 232528945 2.580000e-11 80.5
16 TraesCS3B01G206800 chr7A 95.122 41 2 0 181 221 2690721 2690761 7.230000e-07 65.8
17 TraesCS3B01G206800 chr7A 92.683 41 2 1 181 221 53211552 53211591 1.210000e-04 58.4
18 TraesCS3B01G206800 chr3A 92.227 1338 53 13 951 2237 202828360 202827023 0.000000e+00 1847.0
19 TraesCS3B01G206800 chr3A 92.537 1139 52 13 1128 2234 205709725 205710862 0.000000e+00 1602.0
20 TraesCS3B01G206800 chr3A 79.202 952 141 33 1055 1961 110000570 110001509 2.660000e-170 608.0
21 TraesCS3B01G206800 chr3A 84.268 642 42 17 2268 2859 202826795 202826163 3.500000e-159 571.0
22 TraesCS3B01G206800 chr3A 87.746 457 33 8 2631 3066 205714300 205714754 2.150000e-141 512.0
23 TraesCS3B01G206800 chr3A 84.910 391 52 5 2238 2622 205710901 205711290 3.780000e-104 388.0
24 TraesCS3B01G206800 chr3A 86.957 230 14 2 2896 3125 202826162 202825949 8.660000e-61 244.0
25 TraesCS3B01G206800 chr3A 92.857 42 1 2 3083 3123 205714868 205714908 3.370000e-05 60.2
26 TraesCS3B01G206800 chr3A 97.059 34 1 0 2237 2270 202826988 202826955 1.210000e-04 58.4
27 TraesCS3B01G206800 chr3D 91.845 1312 56 15 951 2233 167034678 167035967 0.000000e+00 1783.0
28 TraesCS3B01G206800 chr3D 88.873 692 46 8 951 1612 166930573 166931263 0.000000e+00 822.0
29 TraesCS3B01G206800 chr3D 93.204 515 32 1 1608 2119 166937625 166938139 0.000000e+00 754.0
30 TraesCS3B01G206800 chr3D 81.352 799 128 16 1188 1971 114182388 114183180 5.690000e-177 630.0
31 TraesCS3B01G206800 chr3D 89.307 505 37 12 1 499 166902164 166902657 4.430000e-173 617.0
32 TraesCS3B01G206800 chr3D 84.231 260 24 12 497 755 166902931 166903174 1.450000e-58 237.0
33 TraesCS3B01G206800 chr3D 80.156 257 41 7 2872 3125 166939776 166940025 1.910000e-42 183.0
34 TraesCS3B01G206800 chr3D 97.059 102 2 1 855 955 166930444 166930545 1.490000e-38 171.0
35 TraesCS3B01G206800 chr3D 98.462 65 0 1 791 855 166930313 166930376 2.550000e-21 113.0
36 TraesCS3B01G206800 chr7D 91.549 1065 58 6 951 1984 219916708 219915645 0.000000e+00 1439.0
37 TraesCS3B01G206800 chr7D 88.255 894 48 14 2280 3125 219900327 219899443 0.000000e+00 1016.0
38 TraesCS3B01G206800 chr7D 82.031 768 90 22 1 741 219917870 219917124 7.410000e-171 610.0
39 TraesCS3B01G206800 chr7D 92.218 257 17 1 1981 2234 219905178 219904922 8.240000e-96 361.0
40 TraesCS3B01G206800 chr7D 76.825 315 61 11 258 566 561702068 561702376 1.930000e-37 167.0
41 TraesCS3B01G206800 chr7D 91.489 94 6 2 861 952 219916833 219916740 9.100000e-26 128.0
42 TraesCS3B01G206800 chr7D 96.610 59 2 0 797 855 219916942 219916884 7.130000e-17 99.0
43 TraesCS3B01G206800 chr6D 84.446 1138 100 40 1498 2597 123025540 123026638 0.000000e+00 1050.0
44 TraesCS3B01G206800 chrUn 100.000 411 0 0 859 1269 477601965 477602375 0.000000e+00 760.0
45 TraesCS3B01G206800 chr1A 82.007 289 33 11 236 518 359978294 359978019 8.720000e-56 228.0
46 TraesCS3B01G206800 chr1A 73.765 324 67 16 252 563 11657452 11657135 9.160000e-21 111.0
47 TraesCS3B01G206800 chr2B 79.062 320 47 13 236 550 594226138 594225834 5.280000e-48 202.0
48 TraesCS3B01G206800 chr2B 76.875 320 56 7 236 549 594276238 594275931 6.930000e-37 165.0
49 TraesCS3B01G206800 chr5D 76.550 371 62 19 236 597 548209970 548210324 2.480000e-41 180.0
50 TraesCS3B01G206800 chr5B 82.278 158 17 9 239 395 711312674 711312527 3.270000e-25 126.0
51 TraesCS3B01G206800 chr5B 93.182 44 3 0 182 225 531149519 531149476 7.230000e-07 65.8
52 TraesCS3B01G206800 chr5A 82.090 134 14 8 338 465 402971588 402971459 4.260000e-19 106.0
53 TraesCS3B01G206800 chr6A 91.429 70 6 0 983 1052 158094488 158094557 2.570000e-16 97.1
54 TraesCS3B01G206800 chr1B 82.353 68 6 5 160 222 53865175 53865241 2.000000e-03 54.7


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 TraesCS3B01G206800 chr3B 242460077 242463201 3124 False 5771.000000 5771 100.000000 1 3125 1 chr3B.!!$F1 3124
1 TraesCS3B01G206800 chr3B 242543605 242551261 7656 False 666.983333 2545 92.728167 1 2633 6 chr3B.!!$F2 2632
2 TraesCS3B01G206800 chr7B 179533443 179535751 2308 False 855.066667 2333 90.508333 796 2922 3 chr7B.!!$F1 2126
3 TraesCS3B01G206800 chr7A 232526634 232532371 5737 True 619.700000 2146 90.687200 563 3125 5 chr7A.!!$R1 2562
4 TraesCS3B01G206800 chr3A 202825949 202828360 2411 True 680.100000 1847 90.127750 951 3125 4 chr3A.!!$R1 2174
5 TraesCS3B01G206800 chr3A 205709725 205714908 5183 False 640.550000 1602 89.512500 1128 3123 4 chr3A.!!$F2 1995
6 TraesCS3B01G206800 chr3A 110000570 110001509 939 False 608.000000 608 79.202000 1055 1961 1 chr3A.!!$F1 906
7 TraesCS3B01G206800 chr3D 167034678 167035967 1289 False 1783.000000 1783 91.845000 951 2233 1 chr3D.!!$F2 1282
8 TraesCS3B01G206800 chr3D 114182388 114183180 792 False 630.000000 630 81.352000 1188 1971 1 chr3D.!!$F1 783
9 TraesCS3B01G206800 chr3D 166937625 166940025 2400 False 468.500000 754 86.680000 1608 3125 2 chr3D.!!$F5 1517
10 TraesCS3B01G206800 chr3D 166902164 166903174 1010 False 427.000000 617 86.769000 1 755 2 chr3D.!!$F3 754
11 TraesCS3B01G206800 chr3D 166930313 166931263 950 False 368.666667 822 94.798000 791 1612 3 chr3D.!!$F4 821
12 TraesCS3B01G206800 chr7D 219899443 219900327 884 True 1016.000000 1016 88.255000 2280 3125 1 chr7D.!!$R1 845
13 TraesCS3B01G206800 chr7D 219915645 219917870 2225 True 569.000000 1439 90.419750 1 1984 4 chr7D.!!$R3 1983
14 TraesCS3B01G206800 chr6D 123025540 123026638 1098 False 1050.000000 1050 84.446000 1498 2597 1 chr6D.!!$F1 1099

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
489 1985 0.240945 CCGCGCCTTTCAAGAATGTT 59.759 50.0 0.00 0.0 0.0 2.71 F
776 2577 1.003851 TAAACTGATACTTGCGCCGC 58.996 50.0 4.18 0.0 0.0 6.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1978 10061 0.390866 CTGTCGATCTTGGCAGCAGT 60.391 55.000 0.00 0.0 0.00 4.40 R
2484 10847 1.002430 CCTGTCAGCACTCAGGCTTAA 59.998 52.381 7.85 0.0 42.71 1.85 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
39 40 4.018415 AGCTCCACATTACCAAAGGTACAT 60.018 41.667 0.00 0.00 37.97 2.29
89 92 3.486383 CTTTGTTTGGCCCTCTAGTTGA 58.514 45.455 0.00 0.00 0.00 3.18
105 108 9.906660 CCTCTAGTTGACATCTTCTTATGTATC 57.093 37.037 0.00 0.00 40.17 2.24
179 1648 4.516365 TTTTGGTTGTACGGTGTGTTTT 57.484 36.364 0.00 0.00 0.00 2.43
231 1701 8.754991 TTGTTAATTCAAAGTTAGGAGTGGAA 57.245 30.769 0.00 0.00 0.00 3.53
232 1702 8.934023 TGTTAATTCAAAGTTAGGAGTGGAAT 57.066 30.769 0.00 0.00 0.00 3.01
240 1710 5.428184 AGTTAGGAGTGGAATGAGGAAAG 57.572 43.478 0.00 0.00 0.00 2.62
362 1837 8.482429 CAACATTGACAAATTTTCTAAGTGCTC 58.518 33.333 0.00 0.00 0.00 4.26
489 1985 0.240945 CCGCGCCTTTCAAGAATGTT 59.759 50.000 0.00 0.00 0.00 2.71
518 2290 7.879160 TCCATAATGAAATTTTGCAAGCTCTTT 59.121 29.630 0.00 0.00 37.87 2.52
532 2304 7.075741 TGCAAGCTCTTTAAAGATTCGTTAAC 58.924 34.615 18.02 0.00 33.93 2.01
587 2364 6.783708 TTCAATTTTACTGTTGACCCAAGT 57.216 33.333 0.00 0.00 34.34 3.16
593 2370 6.385649 TTTACTGTTGACCCAAGTTCATTC 57.614 37.500 0.00 0.00 0.00 2.67
594 2371 4.170468 ACTGTTGACCCAAGTTCATTCT 57.830 40.909 0.00 0.00 0.00 2.40
597 2374 4.136796 TGTTGACCCAAGTTCATTCTGAG 58.863 43.478 0.00 0.00 0.00 3.35
599 2376 4.705110 TGACCCAAGTTCATTCTGAGAA 57.295 40.909 0.00 0.00 0.00 2.87
600 2377 5.047566 TGACCCAAGTTCATTCTGAGAAA 57.952 39.130 0.00 0.00 0.00 2.52
603 2380 5.066593 ACCCAAGTTCATTCTGAGAAACTC 58.933 41.667 0.00 0.00 0.00 3.01
604 2381 5.163152 ACCCAAGTTCATTCTGAGAAACTCT 60.163 40.000 0.00 0.00 0.00 3.24
718 2495 4.988540 GCCCAAATTCTAAAACCACTCAAC 59.011 41.667 0.00 0.00 0.00 3.18
776 2577 1.003851 TAAACTGATACTTGCGCCGC 58.996 50.000 4.18 0.00 0.00 6.53
1422 9460 3.114616 CAACTCCTCACAGCCGCG 61.115 66.667 0.00 0.00 0.00 6.46
1427 9465 2.185350 CCTCACAGCCGCGAAGAT 59.815 61.111 8.23 0.00 0.00 2.40
1600 9653 4.247380 CCGAGATGCTCCTGGGGC 62.247 72.222 12.83 12.83 0.00 5.80
1710 9763 4.450419 GCCGAATTCATATCTCTGTTCCAG 59.550 45.833 6.22 0.00 0.00 3.86
1971 10054 3.133365 AAACGCCCACCCTTCTGCT 62.133 57.895 0.00 0.00 0.00 4.24
1972 10055 3.553095 AACGCCCACCCTTCTGCTC 62.553 63.158 0.00 0.00 0.00 4.26
1973 10056 4.785453 CGCCCACCCTTCTGCTCC 62.785 72.222 0.00 0.00 0.00 4.70
1974 10057 3.334054 GCCCACCCTTCTGCTCCT 61.334 66.667 0.00 0.00 0.00 3.69
1975 10058 1.995626 GCCCACCCTTCTGCTCCTA 60.996 63.158 0.00 0.00 0.00 2.94
1976 10059 1.908483 CCCACCCTTCTGCTCCTAC 59.092 63.158 0.00 0.00 0.00 3.18
1977 10060 0.618968 CCCACCCTTCTGCTCCTACT 60.619 60.000 0.00 0.00 0.00 2.57
1978 10061 1.343075 CCCACCCTTCTGCTCCTACTA 60.343 57.143 0.00 0.00 0.00 1.82
1979 10062 1.757699 CCACCCTTCTGCTCCTACTAC 59.242 57.143 0.00 0.00 0.00 2.73
2056 10139 1.227089 CCGTTGATGCCTCCGAGAG 60.227 63.158 0.00 0.00 0.00 3.20
2067 10150 1.065782 CCTCCGAGAGAGAGAGTCACA 60.066 57.143 0.00 0.00 46.50 3.58
2155 10293 0.176680 TCTTCTTCTGCCTCGATGCC 59.823 55.000 10.31 0.00 0.00 4.40
2211 10349 2.427095 GGATGACAATTTAGTGCACCCC 59.573 50.000 14.63 0.00 0.00 4.95
2330 10677 3.066621 TGACAACCTGCTGAATGTGAAAC 59.933 43.478 6.08 0.00 37.35 2.78
2356 10711 2.223377 AGTTCTTGAAACGCGGATTGTC 59.777 45.455 12.47 0.04 0.00 3.18
2389 10746 9.751542 AAAAATGTTACGACAATTGATAAACCA 57.248 25.926 13.59 2.45 39.66 3.67
2449 10812 6.479990 TGTTCTACACATTCAGTCAGTTTCTG 59.520 38.462 0.00 0.00 0.00 3.02
2484 10847 5.648092 GCCAATCTGATTGTGTAGGTAAACT 59.352 40.000 24.38 0.00 38.59 2.66
2552 14047 0.827507 ACACCAACTGACCAATGGCC 60.828 55.000 0.00 0.00 37.77 5.36
2554 14049 0.114954 ACCAACTGACCAATGGCCAT 59.885 50.000 14.09 14.09 37.77 4.40
2569 14064 4.210724 TGGCCATACACTACTAAACCAC 57.789 45.455 0.00 0.00 0.00 4.16
2571 14066 3.054948 GGCCATACACTACTAAACCACCA 60.055 47.826 0.00 0.00 0.00 4.17
2586 14081 5.835113 AACCACCAAGATTAATTCGGATG 57.165 39.130 5.92 2.13 0.00 3.51
2589 14084 4.261322 CCACCAAGATTAATTCGGATGCAG 60.261 45.833 0.00 0.00 0.00 4.41
2597 14092 7.198390 AGATTAATTCGGATGCAGACAATTTG 58.802 34.615 0.00 0.00 0.00 2.32
2599 14094 2.198827 TCGGATGCAGACAATTTGGT 57.801 45.000 0.78 0.00 0.00 3.67
2633 14881 4.422057 TGACCACCTAATAACTGTCCTCA 58.578 43.478 0.00 0.00 0.00 3.86
2634 14882 4.841813 TGACCACCTAATAACTGTCCTCAA 59.158 41.667 0.00 0.00 0.00 3.02
2635 14883 5.161943 ACCACCTAATAACTGTCCTCAAC 57.838 43.478 0.00 0.00 0.00 3.18
2636 14884 4.844655 ACCACCTAATAACTGTCCTCAACT 59.155 41.667 0.00 0.00 0.00 3.16
2637 14885 5.046520 ACCACCTAATAACTGTCCTCAACTC 60.047 44.000 0.00 0.00 0.00 3.01
2638 14886 5.187967 CCACCTAATAACTGTCCTCAACTCT 59.812 44.000 0.00 0.00 0.00 3.24
2639 14887 6.295916 CCACCTAATAACTGTCCTCAACTCTT 60.296 42.308 0.00 0.00 0.00 2.85
2640 14888 7.162082 CACCTAATAACTGTCCTCAACTCTTT 58.838 38.462 0.00 0.00 0.00 2.52
2641 14889 7.332182 CACCTAATAACTGTCCTCAACTCTTTC 59.668 40.741 0.00 0.00 0.00 2.62
2642 14890 6.819146 CCTAATAACTGTCCTCAACTCTTTCC 59.181 42.308 0.00 0.00 0.00 3.13
2643 14891 6.441088 AATAACTGTCCTCAACTCTTTCCT 57.559 37.500 0.00 0.00 0.00 3.36
2644 14892 4.779993 AACTGTCCTCAACTCTTTCCTT 57.220 40.909 0.00 0.00 0.00 3.36
2645 14893 4.344359 ACTGTCCTCAACTCTTTCCTTC 57.656 45.455 0.00 0.00 0.00 3.46
2646 14894 3.071747 ACTGTCCTCAACTCTTTCCTTCC 59.928 47.826 0.00 0.00 0.00 3.46
2647 14895 2.037251 TGTCCTCAACTCTTTCCTTCCG 59.963 50.000 0.00 0.00 0.00 4.30
2648 14896 1.623811 TCCTCAACTCTTTCCTTCCGG 59.376 52.381 0.00 0.00 0.00 5.14
2649 14897 1.443802 CTCAACTCTTTCCTTCCGGC 58.556 55.000 0.00 0.00 0.00 6.13
2650 14898 0.036306 TCAACTCTTTCCTTCCGGCC 59.964 55.000 0.00 0.00 0.00 6.13
2651 14899 0.036875 CAACTCTTTCCTTCCGGCCT 59.963 55.000 0.00 0.00 0.00 5.19
2652 14900 0.325272 AACTCTTTCCTTCCGGCCTC 59.675 55.000 0.00 0.00 0.00 4.70
2653 14901 0.836400 ACTCTTTCCTTCCGGCCTCA 60.836 55.000 0.00 0.00 0.00 3.86
2654 14902 0.107945 CTCTTTCCTTCCGGCCTCAG 60.108 60.000 0.00 0.00 0.00 3.35
2655 14903 1.078143 CTTTCCTTCCGGCCTCAGG 60.078 63.158 0.00 2.95 0.00 3.86
2670 14918 4.303086 CCTCAGGCATTTGCAATTCTAG 57.697 45.455 0.00 0.00 44.36 2.43
2671 14919 3.490419 CCTCAGGCATTTGCAATTCTAGC 60.490 47.826 0.00 0.11 44.36 3.42
2672 14920 2.428171 TCAGGCATTTGCAATTCTAGCC 59.572 45.455 15.87 15.87 44.36 3.93
2673 14921 2.743553 AGGCATTTGCAATTCTAGCCT 58.256 42.857 18.84 18.84 45.49 4.58
2674 14922 3.531934 GGCATTTGCAATTCTAGCCTT 57.468 42.857 16.18 0.00 44.36 4.35
2675 14923 3.451526 GGCATTTGCAATTCTAGCCTTC 58.548 45.455 16.18 0.00 44.36 3.46
2676 14924 3.131755 GGCATTTGCAATTCTAGCCTTCT 59.868 43.478 16.18 0.00 44.36 2.85
2677 14925 4.110482 GCATTTGCAATTCTAGCCTTCTG 58.890 43.478 0.00 0.00 41.59 3.02
2678 14926 4.381292 GCATTTGCAATTCTAGCCTTCTGT 60.381 41.667 0.00 0.00 41.59 3.41
2679 14927 5.717119 CATTTGCAATTCTAGCCTTCTGTT 58.283 37.500 0.00 0.00 0.00 3.16
2690 14938 3.350833 AGCCTTCTGTTATTCAAGCAGG 58.649 45.455 0.00 0.00 0.00 4.85
2856 15140 4.129380 TGTTCTGTCTGGAACACATGAAG 58.871 43.478 0.00 0.00 46.91 3.02
2884 16447 5.163794 ACTGGGTATTCGAAATTGCGTTTAG 60.164 40.000 5.57 0.00 0.00 1.85
2922 16485 2.737252 GTCGAGGATCAGTTTTGTCCAC 59.263 50.000 0.00 0.00 34.42 4.02
2950 16535 8.260114 CCCTTTCCTGCAACATATTTATTTTCT 58.740 33.333 0.00 0.00 0.00 2.52
2951 16536 9.657419 CCTTTCCTGCAACATATTTATTTTCTT 57.343 29.630 0.00 0.00 0.00 2.52
2957 16542 9.962759 CTGCAACATATTTATTTTCTTCTTTGC 57.037 29.630 0.00 0.00 35.99 3.68
2958 16543 9.486497 TGCAACATATTTATTTTCTTCTTTGCA 57.514 25.926 0.00 0.00 41.42 4.08
2976 16561 7.318141 TCTTTGCAATTGATCTTCTTTGATCC 58.682 34.615 10.34 0.00 41.42 3.36
3031 16616 7.510428 CATGTATGCTGGTTTAATTGTGTTC 57.490 36.000 0.00 0.00 0.00 3.18
3070 16657 2.038820 TGCATTCAGGACAGTGTCATCA 59.961 45.455 24.20 8.72 33.68 3.07
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
39 40 0.249398 GGGAACAAGAGCTCGCCTTA 59.751 55.000 8.37 0.00 0.00 2.69
89 92 9.832445 AAATACAACGGATACATAAGAAGATGT 57.168 29.630 0.00 0.00 42.68 3.06
105 108 7.552187 GTTGAACAAAAGCTAAAATACAACGG 58.448 34.615 0.00 0.00 0.00 4.44
158 1627 4.235360 CAAAACACACCGTACAACCAAAA 58.765 39.130 0.00 0.00 0.00 2.44
179 1648 6.572119 GCCATCAACCAATCAGAATTACAACA 60.572 38.462 0.00 0.00 0.00 3.33
240 1710 3.377656 TCGGGCTGAGAAGGTGAC 58.622 61.111 0.00 0.00 0.00 3.67
362 1837 4.317558 GCGAATCCATGATGAAATTTTGCG 60.318 41.667 0.00 0.00 0.00 4.85
464 1947 0.873743 CTTGAAAGGCGCGGCAAAAA 60.874 50.000 34.94 20.37 0.00 1.94
472 1959 4.105486 GGAATAACATTCTTGAAAGGCGC 58.895 43.478 0.00 0.00 0.00 6.53
473 1960 5.309323 TGGAATAACATTCTTGAAAGGCG 57.691 39.130 0.00 0.00 0.00 5.52
489 1985 9.316730 GAGCTTGCAAAATTTCATTATGGAATA 57.683 29.630 0.00 0.00 0.00 1.75
518 2290 7.231705 TGTGACAAACGTTAACGAATCTTTA 57.768 32.000 33.06 11.37 43.02 1.85
593 2370 3.053455 GGACGACACAAGAGTTTCTCAG 58.947 50.000 0.00 0.00 32.06 3.35
594 2371 2.429250 TGGACGACACAAGAGTTTCTCA 59.571 45.455 0.00 0.00 32.06 3.27
597 2374 2.408704 CGATGGACGACACAAGAGTTTC 59.591 50.000 0.00 0.00 45.77 2.78
599 2376 1.611977 TCGATGGACGACACAAGAGTT 59.388 47.619 0.00 0.00 46.45 3.01
600 2377 1.200252 CTCGATGGACGACACAAGAGT 59.800 52.381 0.00 0.00 46.45 3.24
603 2380 1.078759 GGCTCGATGGACGACACAAG 61.079 60.000 0.00 0.00 46.45 3.16
604 2381 1.080093 GGCTCGATGGACGACACAA 60.080 57.895 0.00 0.00 46.45 3.33
1600 9653 1.868251 GCGCGTCGTAGTCCTCTTG 60.868 63.158 8.43 0.00 0.00 3.02
1971 10054 2.231716 TCTTGGCAGCAGTAGTAGGA 57.768 50.000 0.00 0.00 0.00 2.94
1972 10055 2.544694 CGATCTTGGCAGCAGTAGTAGG 60.545 54.545 0.00 0.00 0.00 3.18
1973 10056 2.359214 TCGATCTTGGCAGCAGTAGTAG 59.641 50.000 0.00 0.00 0.00 2.57
1974 10057 2.099263 GTCGATCTTGGCAGCAGTAGTA 59.901 50.000 0.00 0.00 0.00 1.82
1975 10058 1.134965 GTCGATCTTGGCAGCAGTAGT 60.135 52.381 0.00 0.00 0.00 2.73
1976 10059 1.134995 TGTCGATCTTGGCAGCAGTAG 60.135 52.381 0.00 0.00 0.00 2.57
1977 10060 0.894835 TGTCGATCTTGGCAGCAGTA 59.105 50.000 0.00 0.00 0.00 2.74
1978 10061 0.390866 CTGTCGATCTTGGCAGCAGT 60.391 55.000 0.00 0.00 0.00 4.40
1979 10062 1.088340 CCTGTCGATCTTGGCAGCAG 61.088 60.000 0.00 0.00 0.00 4.24
2006 10089 1.490910 CCACCTCCTCCTTTATGGACC 59.509 57.143 0.00 0.00 40.56 4.46
2056 10139 2.560542 TCTTCTTGGCTGTGACTCTCTC 59.439 50.000 0.00 0.00 0.00 3.20
2067 10150 2.613977 CCTGATCAACGTCTTCTTGGCT 60.614 50.000 0.00 0.00 0.00 4.75
2155 10293 3.641437 TTTGCATCCGAAAAGTTCCAG 57.359 42.857 0.00 0.00 0.00 3.86
2330 10677 1.069906 CCGCGTTTCAAGAACTTCCAG 60.070 52.381 4.92 0.00 0.00 3.86
2346 10701 1.083489 TTTTGCCTAGACAATCCGCG 58.917 50.000 0.00 0.00 0.00 6.46
2389 10746 6.672266 TGAGAGAACCAGTTTAATCTGACT 57.328 37.500 13.98 10.07 37.61 3.41
2449 10812 3.896648 TCAGATTGGCAAGTTTTCGTC 57.103 42.857 5.96 0.00 0.00 4.20
2460 10823 5.648092 AGTTTACCTACACAATCAGATTGGC 59.352 40.000 24.22 4.52 44.42 4.52
2484 10847 1.002430 CCTGTCAGCACTCAGGCTTAA 59.998 52.381 7.85 0.00 42.71 1.85
2552 14047 9.661563 TTAATCTTGGTGGTTTAGTAGTGTATG 57.338 33.333 0.00 0.00 0.00 2.39
2569 14064 4.576053 TGTCTGCATCCGAATTAATCTTGG 59.424 41.667 0.00 0.00 0.00 3.61
2571 14066 6.949352 ATTGTCTGCATCCGAATTAATCTT 57.051 33.333 0.00 0.00 0.00 2.40
2586 14081 3.733443 AGTTCCAACCAAATTGTCTGC 57.267 42.857 0.00 0.00 36.47 4.26
2589 14084 6.200854 GTCATGAAAGTTCCAACCAAATTGTC 59.799 38.462 0.00 0.00 36.47 3.18
2597 14092 2.296190 GGTGGTCATGAAAGTTCCAACC 59.704 50.000 6.13 5.87 30.55 3.77
2599 14094 3.593442 AGGTGGTCATGAAAGTTCCAA 57.407 42.857 0.00 0.00 0.00 3.53
2649 14897 3.490419 GCTAGAATTGCAAATGCCTGAGG 60.490 47.826 1.71 0.00 41.18 3.86
2650 14898 3.490419 GGCTAGAATTGCAAATGCCTGAG 60.490 47.826 17.98 6.51 41.18 3.35
2651 14899 2.428171 GGCTAGAATTGCAAATGCCTGA 59.572 45.455 17.98 0.00 41.18 3.86
2652 14900 2.429610 AGGCTAGAATTGCAAATGCCTG 59.570 45.455 23.44 8.21 46.16 4.85
2653 14901 2.743553 AGGCTAGAATTGCAAATGCCT 58.256 42.857 20.53 20.53 43.61 4.75
2654 14902 3.131755 AGAAGGCTAGAATTGCAAATGCC 59.868 43.478 17.73 17.73 41.18 4.40
2655 14903 4.110482 CAGAAGGCTAGAATTGCAAATGC 58.890 43.478 1.71 3.64 42.50 3.56
2656 14904 5.320549 ACAGAAGGCTAGAATTGCAAATG 57.679 39.130 1.71 0.00 0.00 2.32
2657 14905 5.990120 AACAGAAGGCTAGAATTGCAAAT 57.010 34.783 1.71 0.00 0.00 2.32
2658 14906 7.176515 TGAATAACAGAAGGCTAGAATTGCAAA 59.823 33.333 1.71 0.00 0.00 3.68
2659 14907 6.658816 TGAATAACAGAAGGCTAGAATTGCAA 59.341 34.615 0.00 0.00 0.00 4.08
2660 14908 6.179756 TGAATAACAGAAGGCTAGAATTGCA 58.820 36.000 0.00 0.00 0.00 4.08
2661 14909 6.683974 TGAATAACAGAAGGCTAGAATTGC 57.316 37.500 0.00 0.00 0.00 3.56
2662 14910 7.148188 TGCTTGAATAACAGAAGGCTAGAATTG 60.148 37.037 0.00 0.00 0.00 2.32
2663 14911 6.886459 TGCTTGAATAACAGAAGGCTAGAATT 59.114 34.615 0.00 0.00 0.00 2.17
2664 14912 6.418101 TGCTTGAATAACAGAAGGCTAGAAT 58.582 36.000 0.00 0.00 0.00 2.40
2665 14913 5.804639 TGCTTGAATAACAGAAGGCTAGAA 58.195 37.500 0.00 0.00 0.00 2.10
2666 14914 5.420725 TGCTTGAATAACAGAAGGCTAGA 57.579 39.130 0.00 0.00 0.00 2.43
2667 14915 4.574013 CCTGCTTGAATAACAGAAGGCTAG 59.426 45.833 0.00 0.00 33.10 3.42
2668 14916 4.517285 CCTGCTTGAATAACAGAAGGCTA 58.483 43.478 0.00 0.00 33.10 3.93
2669 14917 3.350833 CCTGCTTGAATAACAGAAGGCT 58.649 45.455 0.00 0.00 33.10 4.58
2670 14918 2.424956 CCCTGCTTGAATAACAGAAGGC 59.575 50.000 0.00 0.00 33.10 4.35
2671 14919 2.424956 GCCCTGCTTGAATAACAGAAGG 59.575 50.000 0.00 0.00 33.10 3.46
2672 14920 3.350833 AGCCCTGCTTGAATAACAGAAG 58.649 45.455 0.00 0.00 33.89 2.85
2673 14921 3.439857 AGCCCTGCTTGAATAACAGAA 57.560 42.857 0.00 0.00 33.89 3.02
2674 14922 3.263170 TGTAGCCCTGCTTGAATAACAGA 59.737 43.478 0.00 0.00 40.44 3.41
2675 14923 3.609853 TGTAGCCCTGCTTGAATAACAG 58.390 45.455 0.00 0.00 40.44 3.16
2676 14924 3.712016 TGTAGCCCTGCTTGAATAACA 57.288 42.857 0.00 0.00 40.44 2.41
2677 14925 4.640201 TGAATGTAGCCCTGCTTGAATAAC 59.360 41.667 0.00 0.00 40.44 1.89
2678 14926 4.854173 TGAATGTAGCCCTGCTTGAATAA 58.146 39.130 0.00 0.00 40.44 1.40
2679 14927 4.502105 TGAATGTAGCCCTGCTTGAATA 57.498 40.909 0.00 0.00 40.44 1.75
2718 14966 7.386851 CCTCTTGTCTGAATTGGTAAGACTTA 58.613 38.462 3.94 0.00 40.79 2.24
2719 14967 6.234177 CCTCTTGTCTGAATTGGTAAGACTT 58.766 40.000 3.94 0.00 40.79 3.01
2856 15140 4.412207 GCAATTTCGAATACCCAGTGAAC 58.588 43.478 0.00 0.00 0.00 3.18
2922 16485 1.392589 ATATGTTGCAGGAAAGGGCG 58.607 50.000 0.00 0.00 0.00 6.13
2950 16535 7.816031 GGATCAAAGAAGATCAATTGCAAAGAA 59.184 33.333 1.71 0.00 44.89 2.52
2951 16536 7.039574 TGGATCAAAGAAGATCAATTGCAAAGA 60.040 33.333 1.71 5.20 44.89 2.52
2952 16537 7.063074 GTGGATCAAAGAAGATCAATTGCAAAG 59.937 37.037 1.71 0.00 44.89 2.77
2953 16538 6.869913 GTGGATCAAAGAAGATCAATTGCAAA 59.130 34.615 1.71 0.00 44.89 3.68
2954 16539 6.392354 GTGGATCAAAGAAGATCAATTGCAA 58.608 36.000 0.00 0.00 44.89 4.08
2955 16540 5.105635 GGTGGATCAAAGAAGATCAATTGCA 60.106 40.000 0.00 0.00 44.89 4.08
2956 16541 5.105635 TGGTGGATCAAAGAAGATCAATTGC 60.106 40.000 0.00 0.00 44.89 3.56
2957 16542 6.519679 TGGTGGATCAAAGAAGATCAATTG 57.480 37.500 0.00 0.00 44.89 2.32
2958 16543 5.126707 GCTGGTGGATCAAAGAAGATCAATT 59.873 40.000 6.32 0.00 44.89 2.32
2959 16544 4.643784 GCTGGTGGATCAAAGAAGATCAAT 59.356 41.667 6.32 0.00 44.89 2.57
2960 16545 4.012374 GCTGGTGGATCAAAGAAGATCAA 58.988 43.478 6.32 0.00 44.89 2.57
2961 16546 3.614092 GCTGGTGGATCAAAGAAGATCA 58.386 45.455 6.32 0.00 44.89 2.92
2962 16547 2.948315 GGCTGGTGGATCAAAGAAGATC 59.052 50.000 0.00 0.00 42.89 2.75
2963 16548 2.357569 GGGCTGGTGGATCAAAGAAGAT 60.358 50.000 0.00 0.00 0.00 2.40
2964 16549 1.004745 GGGCTGGTGGATCAAAGAAGA 59.995 52.381 0.00 0.00 0.00 2.87
2965 16550 1.005215 AGGGCTGGTGGATCAAAGAAG 59.995 52.381 0.00 0.00 0.00 2.85
2976 16561 1.338020 GAACACTTCAAAGGGCTGGTG 59.662 52.381 0.00 0.00 30.73 4.17
3031 16616 1.401670 GCACTCCTGACGTCTGTAGTG 60.402 57.143 30.78 30.78 37.87 2.74
3070 16657 3.034635 CACTTCTACTGGGAGCCTACAT 58.965 50.000 0.00 0.00 0.00 2.29


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

AutoCloner maintained by Alex Coulton.