Multiple sequence alignment - TraesCS7D01G140700

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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 TraesCS7D01G140700 chr7D 100.000 3176 0 0 1 3176 89830031 89833206 0.000000e+00 5866.0
1 TraesCS7D01G140700 chr7D 94.866 857 39 3 2322 3176 629163722 629164575 0.000000e+00 1334.0
2 TraesCS7D01G140700 chr7D 95.335 836 38 1 2341 3176 509824222 509823388 0.000000e+00 1327.0
3 TraesCS7D01G140700 chr7D 90.683 483 38 3 1867 2342 89862703 89863185 1.240000e-178 636.0
4 TraesCS7D01G140700 chr7D 88.889 99 7 4 1429 1524 41837771 41837674 5.570000e-23 119.0
5 TraesCS7D01G140700 chr7A 89.288 1419 128 11 2 1409 91361048 91362453 0.000000e+00 1757.0
6 TraesCS7D01G140700 chr7A 96.168 835 32 0 1508 2342 91362488 91363322 0.000000e+00 1365.0
7 TraesCS7D01G140700 chr7B 88.936 1401 131 12 2 1391 40654004 40655391 0.000000e+00 1707.0
8 TraesCS7D01G140700 chr7B 87.452 1307 120 26 141 1441 40886432 40887700 0.000000e+00 1465.0
9 TraesCS7D01G140700 chr7B 95.438 811 30 2 1532 2342 40655432 40656235 0.000000e+00 1286.0
10 TraesCS7D01G140700 chr7B 92.318 742 24 14 1519 2260 40887697 40888405 0.000000e+00 1024.0
11 TraesCS7D01G140700 chr3D 94.491 835 45 1 2342 3176 588853599 588854432 0.000000e+00 1286.0
12 TraesCS7D01G140700 chr3D 91.529 850 52 8 2343 3176 548515179 548516024 0.000000e+00 1153.0
13 TraesCS7D01G140700 chr3D 89.870 849 68 8 2343 3176 475884417 475885262 0.000000e+00 1075.0
14 TraesCS7D01G140700 chr3D 88.103 622 71 1 1538 2159 550382441 550381823 0.000000e+00 736.0
15 TraesCS7D01G140700 chr3D 84.486 535 71 10 856 1384 550383064 550382536 4.700000e-143 518.0
16 TraesCS7D01G140700 chr6D 94.371 835 43 2 2342 3176 22317065 22316235 0.000000e+00 1279.0
17 TraesCS7D01G140700 chr1D 93.525 834 51 3 2343 3176 42006877 42007707 0.000000e+00 1238.0
18 TraesCS7D01G140700 chr1D 91.274 848 59 4 2343 3176 440052319 440053165 0.000000e+00 1142.0
19 TraesCS7D01G140700 chr1D 90.625 96 7 2 1422 1515 35756851 35756946 3.330000e-25 126.0
20 TraesCS7D01G140700 chr1D 87.619 105 9 4 1422 1524 295954202 295954304 5.570000e-23 119.0
21 TraesCS7D01G140700 chr1D 88.776 98 8 3 1419 1515 252473129 252473224 2.000000e-22 117.0
22 TraesCS7D01G140700 chr1D 87.379 103 10 3 1432 1531 430477710 430477608 7.200000e-22 115.0
23 TraesCS7D01G140700 chr5B 92.030 803 52 5 2379 3176 94120189 94119394 0.000000e+00 1118.0
24 TraesCS7D01G140700 chr5B 78.221 551 102 15 1539 2077 72098827 72099371 1.410000e-88 337.0
25 TraesCS7D01G140700 chr5B 74.713 522 124 6 1553 2070 448839477 448838960 3.190000e-55 226.0
26 TraesCS7D01G140700 chr5B 93.182 44 1 2 1773 1815 334784287 334784245 2.640000e-06 63.9
27 TraesCS7D01G140700 chr6B 89.953 846 61 5 2343 3176 658593277 658592444 0.000000e+00 1070.0
28 TraesCS7D01G140700 chr3B 88.644 634 69 1 1538 2171 729921550 729920920 0.000000e+00 769.0
29 TraesCS7D01G140700 chr3B 85.408 699 85 10 1538 2229 729804636 729805324 0.000000e+00 710.0
30 TraesCS7D01G140700 chr3B 84.358 537 65 14 856 1384 729907663 729907138 2.830000e-140 508.0
31 TraesCS7D01G140700 chr3B 84.112 535 71 12 857 1384 729922181 729921654 3.660000e-139 505.0
32 TraesCS7D01G140700 chr3B 83.104 509 66 10 875 1379 729804024 729804516 2.250000e-121 446.0
33 TraesCS7D01G140700 chr3B 89.000 100 9 2 1430 1527 238314405 238314306 4.300000e-24 122.0
34 TraesCS7D01G140700 chr3A 85.577 624 83 4 1538 2159 687205729 687206347 0.000000e+00 647.0
35 TraesCS7D01G140700 chr3A 83.181 547 68 11 839 1380 687205014 687205541 2.220000e-131 479.0
36 TraesCS7D01G140700 chr3A 80.148 539 77 14 856 1382 687130805 687131325 2.990000e-100 375.0
37 TraesCS7D01G140700 chr3A 83.239 352 55 4 46 395 687126904 687127253 1.420000e-83 320.0
38 TraesCS7D01G140700 chr1A 84.053 301 44 3 1538 1836 554105115 554105413 1.440000e-73 287.0
39 TraesCS7D01G140700 chr4D 88.000 100 10 2 1431 1528 371926905 371926806 2.000000e-22 117.0
40 TraesCS7D01G140700 chr4B 88.776 98 8 3 1426 1520 351875114 351875017 2.000000e-22 117.0
41 TraesCS7D01G140700 chr2D 88.119 101 9 2 1434 1531 606691550 606691450 2.000000e-22 117.0


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 TraesCS7D01G140700 chr7D 89830031 89833206 3175 False 5866.0 5866 100.0000 1 3176 1 chr7D.!!$F1 3175
1 TraesCS7D01G140700 chr7D 629163722 629164575 853 False 1334.0 1334 94.8660 2322 3176 1 chr7D.!!$F3 854
2 TraesCS7D01G140700 chr7D 509823388 509824222 834 True 1327.0 1327 95.3350 2341 3176 1 chr7D.!!$R2 835
3 TraesCS7D01G140700 chr7A 91361048 91363322 2274 False 1561.0 1757 92.7280 2 2342 2 chr7A.!!$F1 2340
4 TraesCS7D01G140700 chr7B 40654004 40656235 2231 False 1496.5 1707 92.1870 2 2342 2 chr7B.!!$F1 2340
5 TraesCS7D01G140700 chr7B 40886432 40888405 1973 False 1244.5 1465 89.8850 141 2260 2 chr7B.!!$F2 2119
6 TraesCS7D01G140700 chr3D 588853599 588854432 833 False 1286.0 1286 94.4910 2342 3176 1 chr3D.!!$F3 834
7 TraesCS7D01G140700 chr3D 548515179 548516024 845 False 1153.0 1153 91.5290 2343 3176 1 chr3D.!!$F2 833
8 TraesCS7D01G140700 chr3D 475884417 475885262 845 False 1075.0 1075 89.8700 2343 3176 1 chr3D.!!$F1 833
9 TraesCS7D01G140700 chr3D 550381823 550383064 1241 True 627.0 736 86.2945 856 2159 2 chr3D.!!$R1 1303
10 TraesCS7D01G140700 chr6D 22316235 22317065 830 True 1279.0 1279 94.3710 2342 3176 1 chr6D.!!$R1 834
11 TraesCS7D01G140700 chr1D 42006877 42007707 830 False 1238.0 1238 93.5250 2343 3176 1 chr1D.!!$F2 833
12 TraesCS7D01G140700 chr1D 440052319 440053165 846 False 1142.0 1142 91.2740 2343 3176 1 chr1D.!!$F5 833
13 TraesCS7D01G140700 chr5B 94119394 94120189 795 True 1118.0 1118 92.0300 2379 3176 1 chr5B.!!$R1 797
14 TraesCS7D01G140700 chr5B 72098827 72099371 544 False 337.0 337 78.2210 1539 2077 1 chr5B.!!$F1 538
15 TraesCS7D01G140700 chr5B 448838960 448839477 517 True 226.0 226 74.7130 1553 2070 1 chr5B.!!$R3 517
16 TraesCS7D01G140700 chr6B 658592444 658593277 833 True 1070.0 1070 89.9530 2343 3176 1 chr6B.!!$R1 833
17 TraesCS7D01G140700 chr3B 729920920 729922181 1261 True 637.0 769 86.3780 857 2171 2 chr3B.!!$R3 1314
18 TraesCS7D01G140700 chr3B 729804024 729805324 1300 False 578.0 710 84.2560 875 2229 2 chr3B.!!$F1 1354
19 TraesCS7D01G140700 chr3B 729907138 729907663 525 True 508.0 508 84.3580 856 1384 1 chr3B.!!$R2 528
20 TraesCS7D01G140700 chr3A 687205014 687206347 1333 False 563.0 647 84.3790 839 2159 2 chr3A.!!$F2 1320
21 TraesCS7D01G140700 chr3A 687126904 687131325 4421 False 347.5 375 81.6935 46 1382 2 chr3A.!!$F1 1336

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
333 340 0.033601 ACAAAAGGGGCGCCATCATA 60.034 50.0 30.85 0.0 0.0 2.15 F
976 4089 0.104409 AAGAACTCACCCTCCCAGGT 60.104 55.0 0.00 0.0 42.4 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1650 4890 0.729116 CGAGCTTGGCATTGAACGAT 59.271 50.0 0.0 0.0 0.0 3.73 R
2276 5529 0.872388 GCGGGTTAACACAAGTCTGG 59.128 55.0 8.9 0.0 0.0 3.86 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
53 57 1.413812 TGCTGCATCCGATGACTACAT 59.586 47.619 12.79 0.00 39.67 2.29
75 79 0.738412 CGTATGTTCCGGCTTCCGTT 60.738 55.000 0.00 0.00 46.80 4.44
78 82 0.536460 ATGTTCCGGCTTCCGTTTGT 60.536 50.000 0.00 0.00 46.80 2.83
81 85 0.464013 TTCCGGCTTCCGTTTGTTCA 60.464 50.000 0.00 0.00 46.80 3.18
99 103 1.961394 TCAACGGAGAGCAACTACACT 59.039 47.619 0.00 0.00 0.00 3.55
109 113 0.599991 CAACTACACTGACGGCAGCA 60.600 55.000 20.90 2.40 46.26 4.41
195 199 1.977544 CTTCCAGACCGTCGAGGGT 60.978 63.158 28.84 28.84 46.96 4.34
196 200 0.679002 CTTCCAGACCGTCGAGGGTA 60.679 60.000 28.55 11.47 46.96 3.69
197 201 0.962356 TTCCAGACCGTCGAGGGTAC 60.962 60.000 28.55 20.58 46.96 3.34
271 278 2.176314 AATGTGCGAGCTCTGCCTGA 62.176 55.000 21.97 10.34 0.00 3.86
284 291 4.473520 CCTGAAGGTGGCGCCGAT 62.474 66.667 23.90 7.04 43.70 4.18
289 296 2.017559 GAAGGTGGCGCCGATCTACT 62.018 60.000 23.90 10.17 43.70 2.57
333 340 0.033601 ACAAAAGGGGCGCCATCATA 60.034 50.000 30.85 0.00 0.00 2.15
407 414 1.270147 CCTCTTCGAGTTTGGGTTCGT 60.270 52.381 0.00 0.00 37.99 3.85
419 446 1.408340 TGGGTTCGTCGTACAAAGTGA 59.592 47.619 4.34 0.00 0.00 3.41
424 451 0.975544 CGTCGTACAAAGTGAGAGCG 59.024 55.000 0.00 0.00 0.00 5.03
456 483 1.303282 GGTCCCCATGAACCAGACC 59.697 63.158 0.00 0.00 40.21 3.85
458 485 0.404040 GTCCCCATGAACCAGACCAA 59.596 55.000 0.00 0.00 0.00 3.67
573 1568 1.602237 CCAGGTGATGTACGGCCTT 59.398 57.895 0.00 0.00 0.00 4.35
643 2008 3.129502 CCACACTGGCGAGCATGG 61.130 66.667 4.73 4.73 0.00 3.66
644 2009 3.129502 CACACTGGCGAGCATGGG 61.130 66.667 0.00 0.00 0.00 4.00
669 2034 4.324267 GAAACACCACCACTGCTAAGTAT 58.676 43.478 0.00 0.00 33.79 2.12
762 3619 3.254166 CAGGTGAGGTCCTTGTTCAAATG 59.746 47.826 0.00 0.00 35.37 2.32
765 3622 2.622942 TGAGGTCCTTGTTCAAATGCAC 59.377 45.455 0.00 0.00 0.00 4.57
766 3623 1.608590 AGGTCCTTGTTCAAATGCACG 59.391 47.619 0.00 0.00 0.00 5.34
767 3624 1.336755 GGTCCTTGTTCAAATGCACGT 59.663 47.619 0.00 0.00 0.00 4.49
769 3626 3.551551 GTCCTTGTTCAAATGCACGTAC 58.448 45.455 0.00 0.00 0.00 3.67
771 3628 2.032377 CCTTGTTCAAATGCACGTACGT 60.032 45.455 16.72 16.72 0.00 3.57
772 3629 3.184783 CCTTGTTCAAATGCACGTACGTA 59.815 43.478 22.34 7.01 0.00 3.57
798 3863 0.801251 GTGATCTTCACAGCCACAGC 59.199 55.000 2.85 0.00 46.22 4.40
802 3867 0.111061 TCTTCACAGCCACAGCCATT 59.889 50.000 0.00 0.00 41.25 3.16
804 3869 1.342174 CTTCACAGCCACAGCCATTTT 59.658 47.619 0.00 0.00 41.25 1.82
805 3870 0.961019 TCACAGCCACAGCCATTTTC 59.039 50.000 0.00 0.00 41.25 2.29
806 3871 0.675083 CACAGCCACAGCCATTTTCA 59.325 50.000 0.00 0.00 41.25 2.69
809 3874 2.369532 ACAGCCACAGCCATTTTCATTT 59.630 40.909 0.00 0.00 41.25 2.32
844 3954 4.933064 GATCAGGAGGTCCGCGCG 62.933 72.222 25.67 25.67 42.08 6.86
873 3983 4.498520 CGACGGCTCATCGTGGCT 62.499 66.667 0.00 0.00 43.96 4.75
934 4047 1.001293 GCATCAGCATCTCGGTATGGA 59.999 52.381 0.00 0.00 41.58 3.41
942 4055 4.739046 CATCTCGGTATGGATGCTTTTC 57.261 45.455 0.00 0.00 33.98 2.29
976 4089 0.104409 AAGAACTCACCCTCCCAGGT 60.104 55.000 0.00 0.00 42.40 4.00
1125 4251 0.893727 GGTTTGGCCCAGTGTACAGG 60.894 60.000 0.00 0.00 0.00 4.00
1145 4271 2.624029 GGGGATTCTTGAAGGGCATGAA 60.624 50.000 0.00 0.00 42.59 2.57
1305 4432 2.238521 CTCCTCCTGGTCTATGAGCTC 58.761 57.143 6.82 6.82 34.23 4.09
1367 4494 2.843730 ACAATGTACTATGGTGGCCAGA 59.156 45.455 5.11 0.00 36.75 3.86
1413 4584 8.012241 GCTGATGGTATAATTGTTCGAATTCTC 58.988 37.037 0.00 0.00 0.00 2.87
1445 4616 9.944376 TGATTGCATAATATTTACTACTCCCTC 57.056 33.333 0.00 0.00 0.00 4.30
1447 4618 6.931838 TGCATAATATTTACTACTCCCTCCG 58.068 40.000 0.00 0.00 0.00 4.63
1448 4619 6.495872 TGCATAATATTTACTACTCCCTCCGT 59.504 38.462 0.00 0.00 0.00 4.69
1449 4620 7.034397 GCATAATATTTACTACTCCCTCCGTC 58.966 42.308 0.00 0.00 0.00 4.79
1450 4621 7.545489 CATAATATTTACTACTCCCTCCGTCC 58.455 42.308 0.00 0.00 0.00 4.79
1453 4624 1.229131 TACTACTCCCTCCGTCCCAT 58.771 55.000 0.00 0.00 0.00 4.00
1456 4627 2.179424 ACTACTCCCTCCGTCCCATAAT 59.821 50.000 0.00 0.00 0.00 1.28
1458 4629 3.562108 ACTCCCTCCGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
1459 4630 4.687262 ACTCCCTCCGTCCCATAATATA 57.313 45.455 0.00 0.00 0.00 0.86
1460 4631 5.019657 ACTCCCTCCGTCCCATAATATAA 57.980 43.478 0.00 0.00 0.00 0.98
1461 4632 5.024118 ACTCCCTCCGTCCCATAATATAAG 58.976 45.833 0.00 0.00 0.00 1.73
1494 4681 5.917541 ACATTAGTGTAGTGTCCAAAACG 57.082 39.130 0.00 0.00 36.63 3.60
1497 4684 2.480845 AGTGTAGTGTCCAAAACGCTC 58.519 47.619 0.00 0.00 45.69 5.03
1500 4687 4.053295 GTGTAGTGTCCAAAACGCTCTTA 58.947 43.478 0.00 0.00 45.69 2.10
1501 4688 4.508861 GTGTAGTGTCCAAAACGCTCTTAA 59.491 41.667 0.00 0.00 45.69 1.85
1503 4690 5.407387 TGTAGTGTCCAAAACGCTCTTAATC 59.593 40.000 0.00 0.00 45.69 1.75
1506 4693 5.088739 GTGTCCAAAACGCTCTTAATCATG 58.911 41.667 0.00 0.00 35.42 3.07
1510 4697 4.157656 CCAAAACGCTCTTAATCATGGGAA 59.842 41.667 0.00 0.00 0.00 3.97
1649 4889 2.174334 GCAATGTGATGCTGGACGT 58.826 52.632 0.00 0.00 43.06 4.34
1650 4890 1.368641 GCAATGTGATGCTGGACGTA 58.631 50.000 0.00 0.00 43.06 3.57
1712 4952 1.529948 TCGACCACGACAGAGGGTT 60.530 57.895 0.00 0.00 43.81 4.11
2129 5375 0.539051 CCTCTTCTCATGCCGGACTT 59.461 55.000 5.05 0.00 0.00 3.01
2274 5527 1.254284 AAGGACAGAGCCACGGAGAG 61.254 60.000 0.00 0.00 0.00 3.20
2361 5616 7.806690 TGAGTCTGTTAAACATTATCTTGTGC 58.193 34.615 0.00 0.00 0.00 4.57
2433 5688 8.751335 CGTTTATCTTTCTATCTCTTCTTCTGC 58.249 37.037 0.00 0.00 0.00 4.26
2464 5724 6.183360 CCCGATTGTATCTCTTCTCTGTTACA 60.183 42.308 0.00 0.00 0.00 2.41
2618 5901 0.179000 CATCCCTTCTTCCACCTCCG 59.821 60.000 0.00 0.00 0.00 4.63
2678 5961 1.295792 GCCTCAACAACAACGTCTCA 58.704 50.000 0.00 0.00 0.00 3.27
2685 5968 1.485066 ACAACAACGTCTCAGAACCCT 59.515 47.619 0.00 0.00 0.00 4.34
2732 6015 2.044946 GCCCAAGCTCGTTCCCAT 60.045 61.111 0.00 0.00 35.50 4.00
2887 6172 2.298610 TCAACAGATCGTCGCCTATCT 58.701 47.619 0.00 0.00 32.63 1.98
2888 6173 2.290916 TCAACAGATCGTCGCCTATCTC 59.709 50.000 0.00 0.00 29.93 2.75
2979 6264 1.363744 CCTCGCCAACATGTTCTCTC 58.636 55.000 8.48 0.00 0.00 3.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
36 40 2.030274 CGGTATGTAGTCATCGGATGCA 60.030 50.000 13.15 5.86 35.70 3.96
39 43 5.008331 ACATACGGTATGTAGTCATCGGAT 58.992 41.667 27.57 3.31 46.90 4.18
75 79 2.325583 AGTTGCTCTCCGTTGAACAA 57.674 45.000 0.00 0.00 0.00 2.83
78 82 2.364324 AGTGTAGTTGCTCTCCGTTGAA 59.636 45.455 0.00 0.00 0.00 2.69
81 85 1.961394 TCAGTGTAGTTGCTCTCCGTT 59.039 47.619 0.00 0.00 0.00 4.44
87 91 0.319555 TGCCGTCAGTGTAGTTGCTC 60.320 55.000 0.00 0.00 0.00 4.26
99 103 1.080772 CTCGTACTTGCTGCCGTCA 60.081 57.895 0.00 0.00 0.00 4.35
195 199 2.097110 ATATCTTGTCGGGCCAGGTA 57.903 50.000 4.39 0.00 0.00 3.08
196 200 1.692519 GTATATCTTGTCGGGCCAGGT 59.307 52.381 4.39 0.00 0.00 4.00
197 201 1.336887 CGTATATCTTGTCGGGCCAGG 60.337 57.143 4.39 0.00 0.00 4.45
271 278 1.614241 AAGTAGATCGGCGCCACCTT 61.614 55.000 28.98 14.51 35.61 3.50
283 290 5.128919 GCATCCTTTGGTCATCAAGTAGAT 58.871 41.667 0.00 0.00 36.62 1.98
284 291 4.517285 GCATCCTTTGGTCATCAAGTAGA 58.483 43.478 0.00 0.00 36.62 2.59
289 296 1.619432 GGGGCATCCTTTGGTCATCAA 60.619 52.381 0.00 0.00 0.00 2.57
333 340 1.469251 CGTTGGTAGCAGCAGTCGTAT 60.469 52.381 9.49 0.00 0.00 3.06
407 414 1.399343 CGTCGCTCTCACTTTGTACGA 60.399 52.381 0.00 0.00 0.00 3.43
456 483 1.302832 GGTCACCAGCTCCCACTTG 60.303 63.158 0.00 0.00 0.00 3.16
458 485 3.314331 CGGTCACCAGCTCCCACT 61.314 66.667 0.00 0.00 0.00 4.00
527 1522 2.294791 CCTCTCGAGTCCATGTATGTCC 59.705 54.545 13.13 0.00 0.00 4.02
644 2009 3.030652 CAGTGGTGGTGTTTCCGC 58.969 61.111 0.00 0.00 45.27 5.54
669 2034 0.256752 TGTAGCAGCCGTACCTCCTA 59.743 55.000 0.00 0.00 0.00 2.94
766 3623 7.353612 TGTGAAGATCACCGTACGTACGTAC 62.354 48.000 36.97 36.97 46.40 3.67
767 3624 5.384396 TGTGAAGATCACCGTACGTACGTA 61.384 45.833 37.34 23.60 46.40 3.57
769 3626 2.159667 TGTGAAGATCACCGTACGTACG 60.160 50.000 35.02 35.02 46.40 3.67
771 3628 2.159476 GCTGTGAAGATCACCGTACGTA 60.159 50.000 15.21 0.00 46.40 3.57
772 3629 1.402456 GCTGTGAAGATCACCGTACGT 60.402 52.381 15.21 0.00 46.40 3.57
794 3859 7.961325 AACGAAAATAAATGAAAATGGCTGT 57.039 28.000 0.00 0.00 0.00 4.40
796 3861 8.281893 CACAAACGAAAATAAATGAAAATGGCT 58.718 29.630 0.00 0.00 0.00 4.75
798 3863 8.066595 TGCACAAACGAAAATAAATGAAAATGG 58.933 29.630 0.00 0.00 0.00 3.16
802 3867 8.820933 TCAATGCACAAACGAAAATAAATGAAA 58.179 25.926 0.00 0.00 0.00 2.69
804 3869 7.936950 TCAATGCACAAACGAAAATAAATGA 57.063 28.000 0.00 0.00 0.00 2.57
805 3870 8.433893 TGATCAATGCACAAACGAAAATAAATG 58.566 29.630 0.00 0.00 0.00 2.32
806 3871 8.531622 TGATCAATGCACAAACGAAAATAAAT 57.468 26.923 0.00 0.00 0.00 1.40
809 3874 6.072230 TCCTGATCAATGCACAAACGAAAATA 60.072 34.615 0.00 0.00 0.00 1.40
873 3983 4.673298 CCCGTAGCGGCACACACA 62.673 66.667 1.45 0.00 46.86 3.72
894 4007 2.410262 GCAGATCAACACAAAGACGACG 60.410 50.000 0.00 0.00 0.00 5.12
895 4008 2.543848 TGCAGATCAACACAAAGACGAC 59.456 45.455 0.00 0.00 0.00 4.34
896 4009 2.832563 TGCAGATCAACACAAAGACGA 58.167 42.857 0.00 0.00 0.00 4.20
903 4016 2.188062 TGCTGATGCAGATCAACACA 57.812 45.000 0.00 0.00 45.31 3.72
931 4044 3.439540 GCGGCGGAAAAGCATCCA 61.440 61.111 9.78 0.00 39.61 3.41
934 4047 1.819632 CTAGGCGGCGGAAAAGCAT 60.820 57.895 9.78 0.00 39.27 3.79
942 4055 1.384989 TTCTTCTCTCTAGGCGGCGG 61.385 60.000 9.78 0.35 0.00 6.13
1125 4251 2.442236 TCATGCCCTTCAAGAATCCC 57.558 50.000 0.00 0.00 0.00 3.85
1145 4271 3.706594 TCTCTTGATAGCCACCTCGATTT 59.293 43.478 0.00 0.00 0.00 2.17
1279 4406 2.211468 TAGACCAGGAGGAGCTCGCA 62.211 60.000 7.83 0.00 38.69 5.10
1426 4597 6.666980 GGGACGGAGGGAGTAGTAAATATTAT 59.333 42.308 0.00 0.00 0.00 1.28
1436 4607 2.376695 TTATGGGACGGAGGGAGTAG 57.623 55.000 0.00 0.00 0.00 2.57
1445 4616 7.486802 AAAACGTTCTTATATTATGGGACGG 57.513 36.000 0.00 1.76 0.00 4.79
1473 4644 4.451096 AGCGTTTTGGACACTACACTAATG 59.549 41.667 0.00 0.00 0.00 1.90
1474 4645 4.638304 AGCGTTTTGGACACTACACTAAT 58.362 39.130 0.00 0.00 0.00 1.73
1476 4647 3.319972 AGAGCGTTTTGGACACTACACTA 59.680 43.478 0.00 0.00 0.00 2.74
1478 4649 2.480845 AGAGCGTTTTGGACACTACAC 58.519 47.619 0.00 0.00 0.00 2.90
1479 4650 2.902705 AGAGCGTTTTGGACACTACA 57.097 45.000 0.00 0.00 0.00 2.74
1480 4651 5.407387 TGATTAAGAGCGTTTTGGACACTAC 59.593 40.000 0.00 0.00 0.00 2.73
1482 4653 4.385825 TGATTAAGAGCGTTTTGGACACT 58.614 39.130 0.00 0.00 0.00 3.55
1484 4655 4.155826 CCATGATTAAGAGCGTTTTGGACA 59.844 41.667 0.00 0.00 0.00 4.02
1485 4656 4.438744 CCCATGATTAAGAGCGTTTTGGAC 60.439 45.833 0.00 0.00 0.00 4.02
1486 4657 3.694072 CCCATGATTAAGAGCGTTTTGGA 59.306 43.478 0.00 0.00 0.00 3.53
1488 4659 4.963276 TCCCATGATTAAGAGCGTTTTG 57.037 40.909 0.00 0.00 0.00 2.44
1491 4662 3.199946 TCCTTCCCATGATTAAGAGCGTT 59.800 43.478 0.00 0.00 0.00 4.84
1494 4681 4.429854 ACTCCTTCCCATGATTAAGAGC 57.570 45.455 0.00 0.00 0.00 4.09
1497 4684 7.604657 AGTACTACTCCTTCCCATGATTAAG 57.395 40.000 0.00 0.00 0.00 1.85
1500 4687 7.989947 TTAAGTACTACTCCTTCCCATGATT 57.010 36.000 0.00 0.00 0.00 2.57
1501 4688 9.315363 CTATTAAGTACTACTCCTTCCCATGAT 57.685 37.037 0.00 0.00 0.00 2.45
1503 4690 8.480133 ACTATTAAGTACTACTCCTTCCCATG 57.520 38.462 0.00 0.00 32.84 3.66
1649 4889 1.933181 CGAGCTTGGCATTGAACGATA 59.067 47.619 0.00 0.00 0.00 2.92
1650 4890 0.729116 CGAGCTTGGCATTGAACGAT 59.271 50.000 0.00 0.00 0.00 3.73
1712 4952 4.700365 CGAGCTCCGTCGTGTGCA 62.700 66.667 8.47 0.00 35.14 4.57
2129 5375 1.019673 GCTGTGACCCGTACTATCGA 58.980 55.000 0.00 0.00 0.00 3.59
2274 5527 1.244816 GGGTTAACACAAGTCTGGCC 58.755 55.000 8.10 0.00 0.00 5.36
2276 5529 0.872388 GCGGGTTAACACAAGTCTGG 59.128 55.000 8.90 0.00 0.00 3.86
2323 5576 9.651718 GTTTAACAGACTCAAAGATGTTTGTAG 57.348 33.333 14.36 12.36 43.22 2.74
2361 5616 4.135306 TCTCTAACTACCTAGGCGTGATG 58.865 47.826 9.30 1.33 0.00 3.07
2464 5724 6.291377 CACCTCCCAATAGCGCATATATATT 58.709 40.000 11.47 0.97 0.00 1.28
2469 5731 1.611673 GCACCTCCCAATAGCGCATAT 60.612 52.381 11.47 1.45 0.00 1.78
2540 5807 3.062099 TGTGAAAGATCGTAATGAAGCGC 59.938 43.478 0.00 0.00 0.00 5.92
2678 5961 1.420430 TGGAACGAGTGAAGGGTTCT 58.580 50.000 0.00 0.00 39.86 3.01
2685 5968 6.368791 CAGAGAACATAATTGGAACGAGTGAA 59.631 38.462 0.00 0.00 0.00 3.18
2732 6015 2.122413 AGGCCCGCCTCCATGATA 60.122 61.111 1.26 0.00 44.43 2.15
2887 6172 2.028476 TCTTTCGAAAGATTGCGGAGGA 60.028 45.455 31.62 10.28 39.95 3.71
2888 6173 2.346803 TCTTTCGAAAGATTGCGGAGG 58.653 47.619 31.62 8.13 39.95 4.30
3098 6383 3.390639 CCTCATCTATGGGTTTCTCAGCT 59.609 47.826 0.00 0.00 0.00 4.24
3131 6416 2.499289 GAGCCCGGATATGATGTGAGAT 59.501 50.000 0.73 0.00 0.00 2.75


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

AutoCloner maintained by Alex Coulton.