Multiple sequence alignment - TraesCS3B01G487100

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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 TraesCS3B01G487100 chr3B 100.000 2681 0 0 1 2681 733348775 733351455 0.000000e+00 4951.0
1 TraesCS3B01G487100 chr3B 91.180 1542 98 20 523 2037 733270310 733271840 0.000000e+00 2060.0
2 TraesCS3B01G487100 chr3B 86.009 1308 139 23 723 1990 733079853 733081156 0.000000e+00 1362.0
3 TraesCS3B01G487100 chr3B 88.122 623 68 3 1078 1694 732841639 732841017 0.000000e+00 736.0
4 TraesCS3B01G487100 chr3B 86.797 462 47 6 2233 2681 733273197 733273657 1.110000e-138 503.0
5 TraesCS3B01G487100 chr3B 86.742 445 32 9 88 517 733269773 733270205 1.120000e-128 470.0
6 TraesCS3B01G487100 chr3B 94.262 122 7 0 2028 2149 733273075 733273196 1.270000e-43 187.0
7 TraesCS3B01G487100 chr3B 89.024 82 8 1 1 82 733329803 733329883 1.700000e-17 100.0
8 TraesCS3B01G487100 chr3B 100.000 44 0 0 63 106 733269676 733269719 6.150000e-12 82.4
9 TraesCS3B01G487100 chr3A 88.550 1048 100 12 975 2011 688992938 688993976 0.000000e+00 1253.0
10 TraesCS3B01G487100 chr3A 82.633 904 110 26 816 1693 688965370 688964488 0.000000e+00 756.0
11 TraesCS3B01G487100 chr3A 82.994 835 105 25 877 1697 688978231 688977420 0.000000e+00 721.0
12 TraesCS3B01G487100 chr3A 87.040 625 73 5 1080 1699 689002837 689003458 0.000000e+00 699.0
13 TraesCS3B01G487100 chr3A 90.667 300 28 0 2233 2532 688994084 688994383 1.500000e-107 399.0
14 TraesCS3B01G487100 chr3A 96.296 108 3 1 2043 2149 688993976 688994083 2.740000e-40 176.0
15 TraesCS3B01G487100 chr3A 93.860 114 7 0 2568 2681 688999619 688999732 3.550000e-39 172.0
16 TraesCS3B01G487100 chr3A 95.745 47 2 0 635 681 688965543 688965497 2.860000e-10 76.8
17 TraesCS3B01G487100 chr3D 87.247 988 83 8 709 1687 552727449 552728402 0.000000e+00 1086.0
18 TraesCS3B01G487100 chr3D 90.818 599 44 4 2030 2618 552729076 552729673 0.000000e+00 791.0
19 TraesCS3B01G487100 chr3D 85.537 643 78 9 1050 1687 552733510 552734142 0.000000e+00 658.0
20 TraesCS3B01G487100 chr3D 90.801 337 25 3 1706 2037 552728461 552728796 1.890000e-121 446.0
21 TraesCS3B01G487100 chr6B 81.982 222 33 7 261 480 699016673 699016889 5.900000e-42 182.0
22 TraesCS3B01G487100 chr7B 80.952 231 39 5 260 489 517056452 517056678 7.630000e-41 178.0
23 TraesCS3B01G487100 chr5A 81.532 222 29 10 261 480 612915626 612915837 3.550000e-39 172.0
24 TraesCS3B01G487100 chrUn 83.125 160 21 6 334 492 24328629 24328475 1.000000e-29 141.0
25 TraesCS3B01G487100 chrUn 80.723 166 28 4 325 489 255037842 255038004 2.800000e-25 126.0
26 TraesCS3B01G487100 chr2B 81.065 169 28 4 325 492 15683157 15682992 6.020000e-27 132.0
27 TraesCS3B01G487100 chr2B 81.065 169 28 4 325 492 15807178 15807013 6.020000e-27 132.0
28 TraesCS3B01G487100 chr2B 81.065 169 28 4 325 492 15905518 15905353 6.020000e-27 132.0
29 TraesCS3B01G487100 chr2B 80.473 169 29 4 325 492 15745408 15745243 2.800000e-25 126.0


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 TraesCS3B01G487100 chr3B 733348775 733351455 2680 False 4951.000000 4951 100.000000 1 2681 1 chr3B.!!$F3 2680
1 TraesCS3B01G487100 chr3B 733079853 733081156 1303 False 1362.000000 1362 86.009000 723 1990 1 chr3B.!!$F1 1267
2 TraesCS3B01G487100 chr3B 732841017 732841639 622 True 736.000000 736 88.122000 1078 1694 1 chr3B.!!$R1 616
3 TraesCS3B01G487100 chr3B 733269676 733273657 3981 False 660.480000 2060 91.796200 63 2681 5 chr3B.!!$F4 2618
4 TraesCS3B01G487100 chr3A 688977420 688978231 811 True 721.000000 721 82.994000 877 1697 1 chr3A.!!$R1 820
5 TraesCS3B01G487100 chr3A 688992938 688994383 1445 False 609.333333 1253 91.837667 975 2532 3 chr3A.!!$F1 1557
6 TraesCS3B01G487100 chr3A 688999619 689003458 3839 False 435.500000 699 90.450000 1080 2681 2 chr3A.!!$F2 1601
7 TraesCS3B01G487100 chr3A 688964488 688965543 1055 True 416.400000 756 89.189000 635 1693 2 chr3A.!!$R2 1058
8 TraesCS3B01G487100 chr3D 552727449 552734142 6693 False 745.250000 1086 88.600750 709 2618 4 chr3D.!!$F1 1909

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
44 45 0.173935 ACACTTCAACGTGTCGGTCA 59.826 50.0 0.0 0.0 44.32 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2011 4226 0.03582 GGTGCAAAGGTCCATCCGTA 60.036 55.0 0.0 0.0 41.99 4.02 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
23 24 3.712881 GGCACCGCTGTTCACGTC 61.713 66.667 0.00 0.00 0.00 4.34
24 25 3.712881 GCACCGCTGTTCACGTCC 61.713 66.667 0.00 0.00 0.00 4.79
25 26 2.279851 CACCGCTGTTCACGTCCA 60.280 61.111 0.00 0.00 0.00 4.02
26 27 2.279918 ACCGCTGTTCACGTCCAC 60.280 61.111 0.00 0.00 0.00 4.02
28 29 2.594962 CCGCTGTTCACGTCCACAC 61.595 63.158 0.00 0.00 0.00 3.82
29 30 1.591594 CGCTGTTCACGTCCACACT 60.592 57.895 0.00 0.00 0.00 3.55
31 32 0.582005 GCTGTTCACGTCCACACTTC 59.418 55.000 0.00 0.00 0.00 3.01
32 33 1.934589 CTGTTCACGTCCACACTTCA 58.065 50.000 0.00 0.00 0.00 3.02
33 34 2.276201 CTGTTCACGTCCACACTTCAA 58.724 47.619 0.00 0.00 0.00 2.69
35 36 1.005347 GTTCACGTCCACACTTCAACG 60.005 52.381 0.00 0.00 40.77 4.10
37 38 2.673074 ACGTCCACACTTCAACGTG 58.327 52.632 0.00 0.00 45.68 4.49
39 40 0.575390 CGTCCACACTTCAACGTGTC 59.425 55.000 0.00 0.00 45.74 3.67
40 41 0.575390 GTCCACACTTCAACGTGTCG 59.425 55.000 0.00 0.00 45.74 4.35
41 42 0.528901 TCCACACTTCAACGTGTCGG 60.529 55.000 0.00 0.00 45.74 4.79
42 43 0.808453 CCACACTTCAACGTGTCGGT 60.808 55.000 0.00 0.00 45.74 4.69
43 44 0.575390 CACACTTCAACGTGTCGGTC 59.425 55.000 0.00 0.00 45.74 4.79
44 45 0.173935 ACACTTCAACGTGTCGGTCA 59.826 50.000 0.00 0.00 44.32 4.02
46 47 1.455786 CACTTCAACGTGTCGGTCATC 59.544 52.381 0.00 0.00 0.00 2.92
48 49 1.986378 CTTCAACGTGTCGGTCATCTC 59.014 52.381 0.00 0.00 0.00 2.75
50 51 1.611977 TCAACGTGTCGGTCATCTCTT 59.388 47.619 0.00 0.00 0.00 2.85
51 52 1.721389 CAACGTGTCGGTCATCTCTTG 59.279 52.381 0.00 0.00 0.00 3.02
53 54 1.340248 ACGTGTCGGTCATCTCTTGTT 59.660 47.619 0.00 0.00 0.00 2.83
54 55 2.555325 ACGTGTCGGTCATCTCTTGTTA 59.445 45.455 0.00 0.00 0.00 2.41
58 59 4.929808 GTGTCGGTCATCTCTTGTTATGTT 59.070 41.667 0.00 0.00 0.00 2.71
61 62 5.062308 GTCGGTCATCTCTTGTTATGTTGAC 59.938 44.000 0.00 0.00 33.10 3.18
141 214 4.014569 TCACTGATTTCGTTCCCATTCA 57.985 40.909 0.00 0.00 0.00 2.57
142 215 3.751175 TCACTGATTTCGTTCCCATTCAC 59.249 43.478 0.00 0.00 0.00 3.18
145 218 3.081061 TGATTTCGTTCCCATTCACCAG 58.919 45.455 0.00 0.00 0.00 4.00
191 264 3.425577 TGTAGGGTTTATGCGTACTCG 57.574 47.619 0.00 0.00 40.37 4.18
192 265 3.016031 TGTAGGGTTTATGCGTACTCGA 58.984 45.455 0.00 0.00 39.71 4.04
224 310 0.460987 GTGATGTTCAGAGCCCTCCG 60.461 60.000 0.00 0.00 0.00 4.63
251 337 8.182227 TCGTGATGACATATATCCTTTACGATC 58.818 37.037 0.00 0.00 29.85 3.69
252 338 8.184848 CGTGATGACATATATCCTTTACGATCT 58.815 37.037 0.00 0.00 0.00 2.75
257 343 9.516546 TGACATATATCCTTTACGATCTACTGT 57.483 33.333 0.00 0.00 0.00 3.55
267 353 3.207778 ACGATCTACTGTAGAGAGTGGC 58.792 50.000 20.95 6.98 38.38 5.01
282 368 0.608308 GTGGCTTTTTAGCTCCGGGT 60.608 55.000 0.00 0.00 34.73 5.28
283 369 0.608035 TGGCTTTTTAGCTCCGGGTG 60.608 55.000 0.00 0.00 34.73 4.61
284 370 1.506718 GCTTTTTAGCTCCGGGTGC 59.493 57.895 13.03 13.03 0.00 5.01
285 371 1.241315 GCTTTTTAGCTCCGGGTGCA 61.241 55.000 21.85 6.50 0.00 4.57
288 374 1.774894 TTTTAGCTCCGGGTGCACCT 61.775 55.000 33.91 16.68 36.97 4.00
289 375 2.463589 TTTAGCTCCGGGTGCACCTG 62.464 60.000 34.14 34.14 42.13 4.00
370 457 7.660112 TGAAACTCTGCAACATCAAATATTGT 58.340 30.769 0.00 0.00 0.00 2.71
443 531 5.106118 GGGGCACTACAGAAGAAAAAGATTC 60.106 44.000 0.00 0.00 0.00 2.52
444 532 5.106118 GGGCACTACAGAAGAAAAAGATTCC 60.106 44.000 0.00 0.00 0.00 3.01
480 568 8.817100 AGTTTTGAGCATTTTTAGCACTTAAAC 58.183 29.630 0.00 0.00 33.22 2.01
492 580 7.486802 TTAGCACTTAAACCTGTAACTTGTC 57.513 36.000 0.00 0.00 0.00 3.18
517 605 8.801299 TCTTATTTGAGGAGCTCTACATGATAG 58.199 37.037 14.64 9.36 0.00 2.08
518 606 5.798125 TTTGAGGAGCTCTACATGATAGG 57.202 43.478 14.64 0.00 0.00 2.57
520 608 4.661222 TGAGGAGCTCTACATGATAGGAG 58.339 47.826 14.64 2.37 0.00 3.69
536 723 9.806203 CATGATAGGAGCATTTTGTTATGAAAA 57.194 29.630 0.00 0.00 0.00 2.29
566 753 1.795768 TACCGCTTCAGTTCAGCTTG 58.204 50.000 0.00 0.00 34.88 4.01
614 804 3.488047 GCCGAACATAGTACGCTGAACTA 60.488 47.826 4.94 0.00 34.11 2.24
756 948 7.071447 TGGATTACGGTTTAATAAGATCCAGGA 59.929 37.037 0.00 0.00 37.48 3.86
907 1121 3.384467 ACAACTTTGGTGCAGCACTATTT 59.616 39.130 24.75 9.85 34.40 1.40
909 1123 4.243007 ACTTTGGTGCAGCACTATTTTC 57.757 40.909 24.75 7.83 34.40 2.29
911 1125 5.070001 ACTTTGGTGCAGCACTATTTTCTA 58.930 37.500 24.75 0.00 34.40 2.10
954 1174 4.759693 CACTGGACTGCCATTAACAAAGTA 59.240 41.667 0.00 0.00 44.91 2.24
968 1188 7.759489 TTAACAAAGTAGTTCAAGCATCCAT 57.241 32.000 0.00 0.00 33.07 3.41
1051 1305 3.300934 ATCGCAACAGCAGCCGAGA 62.301 57.895 0.00 0.00 0.00 4.04
1074 1337 4.909001 AGAGCAGAGCAATCTTCTTCTTT 58.091 39.130 0.00 0.00 0.00 2.52
1092 3232 3.009363 TCTTTGATCTCTCCACAATGGCA 59.991 43.478 0.00 0.00 37.47 4.92
1135 3278 1.760029 CTCCCTGCTCTACTTCTTCCC 59.240 57.143 0.00 0.00 0.00 3.97
1258 3407 2.429571 GCGTCGACAACTACGGCA 60.430 61.111 17.16 0.00 39.46 5.69
1330 3479 4.883354 GGATCAGGGGCAAGGGCG 62.883 72.222 0.00 0.00 42.47 6.13
1398 3550 3.062466 CAGGACGAGGAGGCGACA 61.062 66.667 0.00 0.00 34.83 4.35
1400 3552 3.371063 GGACGAGGAGGCGACACA 61.371 66.667 0.00 0.00 34.83 3.72
1488 3640 3.053455 GTGCTACACGATAGAAGGATGC 58.947 50.000 0.00 0.00 41.38 3.91
1492 3644 1.135046 CACGATAGAAGGATGCTGCG 58.865 55.000 0.00 0.00 41.38 5.18
1653 3814 1.005867 GTTGGGCTTGGTCGTCGTA 60.006 57.895 0.00 0.00 0.00 3.43
1721 3923 4.260375 CGATGGTTTCTCCTAGCGAAAATG 60.260 45.833 6.92 0.00 37.07 2.32
1856 4064 4.040339 GTGGATGGTTTTTCACCCTTCATT 59.960 41.667 0.00 0.00 46.68 2.57
1886 4095 7.494625 TGTTGTTCGAAGAAATTCTTGTAGACT 59.505 33.333 13.55 0.00 45.90 3.24
1934 4149 6.538021 CAAATGTTTTCTGTTTGGATGGAACA 59.462 34.615 0.00 0.00 34.28 3.18
2184 5643 8.589701 TTTCCTAATTCTTTCTTGGATAACCC 57.410 34.615 0.00 0.00 34.81 4.11
2196 5655 4.035612 TGGATAACCCTAGAGGATCTCG 57.964 50.000 0.00 0.00 40.39 4.04
2198 5657 4.750096 TGGATAACCCTAGAGGATCTCGTG 60.750 50.000 0.00 0.00 40.39 4.35
2205 5664 3.657956 GAGGATCTCGTGCTTGGAG 57.342 57.895 0.00 0.00 0.00 3.86
2300 5759 5.452078 TTTCTAGTTCACCAAATGGCTTG 57.548 39.130 0.00 0.00 39.32 4.01
2404 5863 5.505286 CAAGACAACTGAGTCAACATCAAC 58.495 41.667 0.00 0.00 40.98 3.18
2412 5871 7.865706 ACTGAGTCAACATCAACTTTAAGTT 57.134 32.000 4.30 4.30 39.39 2.66
2418 5877 7.122055 AGTCAACATCAACTTTAAGTTCAACCA 59.878 33.333 7.45 0.00 36.03 3.67
2424 5883 9.097257 CATCAACTTTAAGTTCAACCACAATTT 57.903 29.630 7.45 0.00 36.03 1.82
2433 5892 3.811083 TCAACCACAATTTACCGAGTGT 58.189 40.909 0.00 0.00 0.00 3.55
2435 5894 4.035792 TCAACCACAATTTACCGAGTGTTG 59.964 41.667 0.00 0.00 0.00 3.33
2442 5901 6.005198 ACAATTTACCGAGTGTTGGGAAATA 58.995 36.000 4.10 0.00 46.95 1.40
2447 5906 2.026636 CCGAGTGTTGGGAAATAGGGAA 60.027 50.000 0.00 0.00 0.00 3.97
2452 5911 1.954382 GTTGGGAAATAGGGAATCGCC 59.046 52.381 0.00 0.00 0.00 5.54
2492 5951 4.642429 GAGTTACCCTCAATGACAACACT 58.358 43.478 0.00 0.00 40.17 3.55
2499 5958 4.633126 CCCTCAATGACAACACTGATACAG 59.367 45.833 0.00 0.00 31.92 2.74
2544 6003 7.597743 CGTAAGGTCACTACACTGTTAAATCTT 59.402 37.037 0.00 0.00 0.00 2.40
2570 6039 3.575965 AATTGTTTGGTTCGATCTGCC 57.424 42.857 0.00 0.00 0.00 4.85
2605 6077 2.261729 TGGTCTACAATGGTGCCACTA 58.738 47.619 0.00 0.00 0.00 2.74
2626 6098 3.764885 AAAGTGTGTGTCTTCTTGTGC 57.235 42.857 0.00 0.00 0.00 4.57
2628 6100 2.710377 AGTGTGTGTCTTCTTGTGCAA 58.290 42.857 0.00 0.00 0.00 4.08
2645 6117 1.070038 CAAAATGGTGCGGCATTGTC 58.930 50.000 5.72 0.00 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.928396 AACAGCGGTGCCCCTAGT 60.928 61.111 15.82 0.00 0.00 2.57
1 2 2.125106 GAACAGCGGTGCCCCTAG 60.125 66.667 15.82 0.00 0.00 3.02
2 3 2.925706 TGAACAGCGGTGCCCCTA 60.926 61.111 15.82 0.00 0.00 3.53
3 4 4.643387 GTGAACAGCGGTGCCCCT 62.643 66.667 15.82 0.00 0.00 4.79
7 8 3.712881 GGACGTGAACAGCGGTGC 61.713 66.667 15.82 0.00 0.00 5.01
8 9 2.279851 TGGACGTGAACAGCGGTG 60.280 61.111 14.13 14.13 0.00 4.94
10 11 2.279851 TGTGGACGTGAACAGCGG 60.280 61.111 0.00 0.00 0.00 5.52
11 12 1.151777 AAGTGTGGACGTGAACAGCG 61.152 55.000 0.00 0.00 0.00 5.18
12 13 0.582005 GAAGTGTGGACGTGAACAGC 59.418 55.000 0.00 0.00 0.00 4.40
13 14 1.934589 TGAAGTGTGGACGTGAACAG 58.065 50.000 0.00 0.00 0.00 3.16
14 15 2.004017 GTTGAAGTGTGGACGTGAACA 58.996 47.619 0.00 0.00 30.22 3.18
15 16 1.005347 CGTTGAAGTGTGGACGTGAAC 60.005 52.381 0.00 0.00 0.00 3.18
18 19 2.673074 ACGTTGAAGTGTGGACGTG 58.327 52.632 0.00 0.00 45.75 4.49
26 27 1.455786 GATGACCGACACGTTGAAGTG 59.544 52.381 0.00 0.00 46.83 3.16
28 29 1.986378 GAGATGACCGACACGTTGAAG 59.014 52.381 0.00 0.00 0.00 3.02
29 30 1.611977 AGAGATGACCGACACGTTGAA 59.388 47.619 0.00 0.00 0.00 2.69
31 32 1.721389 CAAGAGATGACCGACACGTTG 59.279 52.381 0.00 0.00 0.00 4.10
32 33 1.340248 ACAAGAGATGACCGACACGTT 59.660 47.619 0.00 0.00 0.00 3.99
33 34 0.959553 ACAAGAGATGACCGACACGT 59.040 50.000 0.00 0.00 0.00 4.49
35 36 4.495422 ACATAACAAGAGATGACCGACAC 58.505 43.478 0.00 0.00 0.00 3.67
36 37 4.801330 ACATAACAAGAGATGACCGACA 57.199 40.909 0.00 0.00 0.00 4.35
37 38 5.062308 GTCAACATAACAAGAGATGACCGAC 59.938 44.000 0.00 0.00 31.81 4.79
38 39 5.168569 GTCAACATAACAAGAGATGACCGA 58.831 41.667 0.00 0.00 31.81 4.69
39 40 4.929211 TGTCAACATAACAAGAGATGACCG 59.071 41.667 0.00 0.00 35.91 4.79
40 41 6.801539 TTGTCAACATAACAAGAGATGACC 57.198 37.500 0.00 0.00 35.91 4.02
141 214 7.055378 TGTTACCATAGTTTGTTTGTACTGGT 58.945 34.615 0.00 0.00 0.00 4.00
142 215 7.499321 TGTTACCATAGTTTGTTTGTACTGG 57.501 36.000 0.00 0.00 0.00 4.00
176 249 5.039333 AGTAATGTCGAGTACGCATAAACC 58.961 41.667 0.00 0.00 39.58 3.27
183 256 7.128331 TCACTAATTAGTAATGTCGAGTACGC 58.872 38.462 17.62 0.00 35.59 4.42
192 265 9.319143 GCTCTGAACATCACTAATTAGTAATGT 57.681 33.333 23.43 23.43 44.87 2.71
210 296 2.182030 CGACGGAGGGCTCTGAAC 59.818 66.667 0.00 0.00 39.24 3.18
224 310 7.303261 TCGTAAAGGATATATGTCATCACGAC 58.697 38.462 15.11 0.00 45.61 4.34
251 337 5.808030 GCTAAAAAGCCACTCTCTACAGTAG 59.192 44.000 0.47 0.47 0.00 2.57
252 338 5.480772 AGCTAAAAAGCCACTCTCTACAGTA 59.519 40.000 0.00 0.00 34.90 2.74
253 339 4.284746 AGCTAAAAAGCCACTCTCTACAGT 59.715 41.667 0.00 0.00 34.90 3.55
254 340 4.826556 AGCTAAAAAGCCACTCTCTACAG 58.173 43.478 0.00 0.00 34.90 2.74
255 341 4.322801 GGAGCTAAAAAGCCACTCTCTACA 60.323 45.833 0.00 0.00 34.90 2.74
256 342 4.185394 GGAGCTAAAAAGCCACTCTCTAC 58.815 47.826 0.00 0.00 34.90 2.59
257 343 3.119101 CGGAGCTAAAAAGCCACTCTCTA 60.119 47.826 0.00 0.00 34.90 2.43
258 344 2.354203 CGGAGCTAAAAAGCCACTCTCT 60.354 50.000 0.00 0.00 34.90 3.10
267 353 0.521735 GTGCACCCGGAGCTAAAAAG 59.478 55.000 17.78 0.00 0.00 2.27
283 369 1.544724 TTCATAAAGGGTGCAGGTGC 58.455 50.000 0.00 0.00 42.50 5.01
284 370 3.316308 GCTATTCATAAAGGGTGCAGGTG 59.684 47.826 0.00 0.00 0.00 4.00
285 371 3.053693 TGCTATTCATAAAGGGTGCAGGT 60.054 43.478 0.00 0.00 0.00 4.00
288 374 6.543430 AATTTGCTATTCATAAAGGGTGCA 57.457 33.333 0.00 0.00 0.00 4.57
289 375 8.940768 TTTAATTTGCTATTCATAAAGGGTGC 57.059 30.769 0.00 0.00 0.00 5.01
332 419 7.281040 TGCAGAGTTTCAGATTTCTTTTGAT 57.719 32.000 0.00 0.00 0.00 2.57
339 426 6.005583 TGATGTTGCAGAGTTTCAGATTTC 57.994 37.500 0.00 0.00 0.00 2.17
370 457 6.543100 ACCTGTAACGACCTACAAATTTTGAA 59.457 34.615 15.81 0.00 31.51 2.69
386 473 3.634568 TTGGCATGAAAACCTGTAACG 57.365 42.857 0.00 0.00 0.00 3.18
411 498 1.281867 TCTGTAGTGCCCCTTGAATGG 59.718 52.381 0.00 0.00 0.00 3.16
421 509 5.473504 TGGAATCTTTTTCTTCTGTAGTGCC 59.526 40.000 0.00 0.00 0.00 5.01
465 553 8.741841 ACAAGTTACAGGTTTAAGTGCTAAAAA 58.258 29.630 0.00 0.00 31.22 1.94
480 568 6.092807 GCTCCTCAAATAAGACAAGTTACAGG 59.907 42.308 0.00 0.00 0.00 4.00
492 580 8.034215 CCTATCATGTAGAGCTCCTCAAATAAG 58.966 40.741 10.93 7.17 32.06 1.73
517 605 6.202570 TGCAAGTTTTCATAACAAAATGCTCC 59.797 34.615 0.00 0.00 34.47 4.70
518 606 7.176285 TGCAAGTTTTCATAACAAAATGCTC 57.824 32.000 0.00 0.00 34.47 4.26
520 608 7.629130 TCTTGCAAGTTTTCATAACAAAATGC 58.371 30.769 25.19 0.00 34.17 3.56
536 723 2.744202 CTGAAGCGGTATTCTTGCAAGT 59.256 45.455 25.19 10.46 0.00 3.16
566 753 4.260253 GCATAAAGAAAGTAGGCACGTAGC 60.260 45.833 0.00 0.00 44.65 3.58
614 804 3.939592 GCGCAAGTACTTATCCTTCCTTT 59.060 43.478 8.04 0.00 41.68 3.11
699 891 6.565224 ACAGAACATGTGTGCACTTGCATC 62.565 45.833 19.41 13.66 43.77 3.91
756 948 5.072055 TCGATCCAATGCATATGGTTGAAT 58.928 37.500 20.38 11.25 39.09 2.57
872 1084 3.320541 CCAAAGTTGTTTATGCTCCCACA 59.679 43.478 0.00 0.00 0.00 4.17
874 1086 3.320541 CACCAAAGTTGTTTATGCTCCCA 59.679 43.478 0.00 0.00 0.00 4.37
875 1087 3.860754 GCACCAAAGTTGTTTATGCTCCC 60.861 47.826 0.00 0.00 35.48 4.30
907 1121 1.532505 GCGTCACGCGTAAGGATAGAA 60.533 52.381 13.44 0.00 44.55 2.10
909 1123 2.492388 GCGTCACGCGTAAGGATAG 58.508 57.895 13.44 5.34 44.55 2.08
1051 1305 4.556592 AGAAGAAGATTGCTCTGCTCTT 57.443 40.909 0.00 0.00 36.25 2.85
1074 1337 3.009363 TCTTTGCCATTGTGGAGAGATCA 59.991 43.478 0.00 0.00 40.96 2.92
1092 3232 2.291865 GGAAGGAAAGGGCTGGATCTTT 60.292 50.000 0.00 0.00 36.09 2.52
1105 3245 1.203364 AGAGCAGGGAGAGGAAGGAAA 60.203 52.381 0.00 0.00 0.00 3.13
1135 3278 2.359975 GCCCTGTTGAACTCCGGG 60.360 66.667 0.00 11.72 37.97 5.73
1330 3479 1.021390 CACCTCCTGAACATGCCGAC 61.021 60.000 0.00 0.00 0.00 4.79
1369 3521 4.699522 GTCCTGGCCGCCGTCTTT 62.700 66.667 4.58 0.00 0.00 2.52
1398 3550 2.967076 CGCACGCTGAACCACTGT 60.967 61.111 0.00 0.00 0.00 3.55
1511 3672 0.106149 GCTATCCACGTCCCGGATTT 59.894 55.000 10.83 0.00 40.49 2.17
1653 3814 2.047274 CGGTTCATGAGGCCACGT 60.047 61.111 5.01 0.00 0.00 4.49
1721 3923 9.813080 CTCTAAACTAGCTGTACAAAATTCAAC 57.187 33.333 0.00 0.00 0.00 3.18
1856 4064 7.981142 ACAAGAATTTCTTCGAACAACACTTA 58.019 30.769 8.71 0.00 33.78 2.24
1934 4149 4.573900 TGACTTTGCCAAATTGTTGTTGT 58.426 34.783 0.00 0.00 32.40 3.32
1948 4163 2.709213 AGAATCTGGCTCTGACTTTGC 58.291 47.619 0.00 0.00 0.00 3.68
2011 4226 0.035820 GGTGCAAAGGTCCATCCGTA 60.036 55.000 0.00 0.00 41.99 4.02
2013 4228 2.046285 GGGTGCAAAGGTCCATCCG 61.046 63.158 0.00 0.00 41.99 4.18
2018 4233 0.965866 GCCTTAGGGTGCAAAGGTCC 60.966 60.000 14.81 0.00 43.55 4.46
2169 5628 6.556874 AGATCCTCTAGGGTTATCCAAGAAAG 59.443 42.308 0.00 0.00 38.24 2.62
2184 5643 2.293122 CTCCAAGCACGAGATCCTCTAG 59.707 54.545 0.00 0.00 0.00 2.43
2300 5759 4.002906 TCTCATGAAGGTGTGTTGTACC 57.997 45.455 0.00 0.00 38.52 3.34
2308 5767 4.536090 TGAGGGTATTTCTCATGAAGGTGT 59.464 41.667 0.00 0.00 36.46 4.16
2310 5769 4.080299 GGTGAGGGTATTTCTCATGAAGGT 60.080 45.833 0.00 0.00 42.36 3.50
2404 5863 7.419204 TCGGTAAATTGTGGTTGAACTTAAAG 58.581 34.615 0.00 0.00 0.00 1.85
2412 5871 3.811083 ACACTCGGTAAATTGTGGTTGA 58.189 40.909 0.00 0.00 35.02 3.18
2418 5877 3.495434 TCCCAACACTCGGTAAATTGT 57.505 42.857 0.00 0.00 0.00 2.71
2424 5883 2.502538 CCCTATTTCCCAACACTCGGTA 59.497 50.000 0.00 0.00 0.00 4.02
2433 5892 2.358322 GGCGATTCCCTATTTCCCAA 57.642 50.000 0.00 0.00 0.00 4.12
2452 5911 1.901464 CAAACCAACTCCCCACGGG 60.901 63.158 0.00 0.00 46.11 5.28
2492 5951 2.171237 CAACTCCCATGAGGCTGTATCA 59.829 50.000 0.00 0.00 43.29 2.15
2499 5958 1.034292 GCTTCCAACTCCCATGAGGC 61.034 60.000 0.00 0.00 43.29 4.70
2544 6003 7.247728 GCAGATCGAACCAAACAATTATACAA 58.752 34.615 0.00 0.00 0.00 2.41
2552 6011 1.974265 TGGCAGATCGAACCAAACAA 58.026 45.000 0.00 0.00 0.00 2.83
2554 6013 1.468054 GCATGGCAGATCGAACCAAAC 60.468 52.381 8.22 1.43 36.94 2.93
2605 6077 3.505680 TGCACAAGAAGACACACACTTTT 59.494 39.130 0.00 0.00 0.00 2.27
2626 6098 1.070038 GACAATGCCGCACCATTTTG 58.930 50.000 0.00 0.00 33.35 2.44
2628 6100 1.591183 GGACAATGCCGCACCATTT 59.409 52.632 0.00 0.00 33.35 2.32
2637 6109 3.451894 CAAGGCCGGGACAATGCC 61.452 66.667 0.92 0.00 45.70 4.40
2639 6111 3.451894 GCCAAGGCCGGGACAATG 61.452 66.667 19.43 0.00 34.56 2.82


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

AutoCloner maintained by Alex Coulton.