Multiple sequence alignment - TraesCS1B01G099500

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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 TraesCS1B01G099500 chr1B 100.000 2996 0 0 1 2996 107129327 107132322 0.000000e+00 5533.0
1 TraesCS1B01G099500 chr1B 79.661 472 86 8 1468 1931 106896601 106897070 6.190000e-87 331.0
2 TraesCS1B01G099500 chr1D 88.037 1839 108 36 682 2468 66549561 66551339 0.000000e+00 2074.0
3 TraesCS1B01G099500 chr1D 88.273 1245 112 17 910 2126 66382545 66381307 0.000000e+00 1459.0
4 TraesCS1B01G099500 chr1D 82.863 1383 167 33 997 2360 66416906 66418237 0.000000e+00 1177.0
5 TraesCS1B01G099500 chr1D 92.105 532 37 4 1 530 66548949 66549477 0.000000e+00 745.0
6 TraesCS1B01G099500 chr1D 88.592 412 39 5 2452 2862 66551355 66551759 7.460000e-136 494.0
7 TraesCS1B01G099500 chr1D 78.849 643 112 13 997 1636 66397822 66398443 2.150000e-111 412.0
8 TraesCS1B01G099500 chr1D 78.383 643 115 13 997 1636 66394595 66395216 2.160000e-106 396.0
9 TraesCS1B01G099500 chr1D 88.963 299 22 6 2070 2363 66381305 66381013 2.840000e-95 359.0
10 TraesCS1B01G099500 chr1D 82.785 395 66 2 1478 1871 66389796 66390189 4.750000e-93 351.0
11 TraesCS1B01G099500 chr1D 82.741 394 62 5 1481 1871 66322743 66322353 2.210000e-91 346.0
12 TraesCS1B01G099500 chr1D 95.745 47 1 1 2892 2937 66551768 66551814 1.150000e-09 75.0
13 TraesCS1B01G099500 chr1A 87.156 981 89 17 996 1963 64851419 64852375 0.000000e+00 1079.0
14 TraesCS1B01G099500 chr1A 91.330 669 41 9 1371 2022 65234421 65235089 0.000000e+00 898.0
15 TraesCS1B01G099500 chr1A 89.065 695 48 10 682 1375 65228548 65229215 0.000000e+00 837.0
16 TraesCS1B01G099500 chr1A 87.958 573 49 8 1 569 64959726 64960282 0.000000e+00 658.0
17 TraesCS1B01G099500 chr1A 87.413 572 55 5 1 569 65044717 65045274 2.520000e-180 641.0
18 TraesCS1B01G099500 chr1A 90.239 461 37 5 2 462 65227774 65228226 1.990000e-166 595.0
19 TraesCS1B01G099500 chr1A 85.216 602 53 17 2294 2873 65260577 65261164 1.200000e-163 586.0
20 TraesCS1B01G099500 chr1A 92.625 339 22 2 2023 2359 64936652 64936989 4.490000e-133 484.0
21 TraesCS1B01G099500 chr1A 83.081 396 63 3 1478 1871 64897130 64897523 1.020000e-94 357.0
22 TraesCS1B01G099500 chr1A 88.339 283 24 6 2139 2414 64854818 64855098 6.190000e-87 331.0
23 TraesCS1B01G099500 chr1A 86.471 170 14 6 2059 2222 65235624 65235790 8.530000e-41 178.0
24 TraesCS1B01G099500 chr1A 86.139 101 9 3 2896 2995 65261231 65261327 1.470000e-18 104.0
25 TraesCS1B01G099500 chr1A 92.453 53 4 0 633 685 445885575 445885523 3.200000e-10 76.8
26 TraesCS1B01G099500 chr3D 82.101 514 80 10 11 521 583520728 583521232 2.130000e-116 429.0
27 TraesCS1B01G099500 chr3D 81.907 514 81 10 11 521 583511989 583512493 9.930000e-115 424.0
28 TraesCS1B01G099500 chr7B 80.739 514 79 15 21 521 526233313 526233819 1.690000e-102 383.0
29 TraesCS1B01G099500 chr7B 91.071 56 4 1 633 688 705630994 705630940 1.150000e-09 75.0
30 TraesCS1B01G099500 chr7D 82.979 376 57 7 160 534 25490909 25491278 1.720000e-87 333.0
31 TraesCS1B01G099500 chr7D 78.626 131 14 6 566 682 619048723 619048853 1.150000e-09 75.0
32 TraesCS1B01G099500 chr5B 81.463 410 66 7 122 530 51361901 51362301 8.010000e-86 327.0
33 TraesCS1B01G099500 chr7A 80.451 133 11 8 570 688 14208379 14208248 1.480000e-13 87.9
34 TraesCS1B01G099500 chr2A 94.118 51 3 0 633 683 42862512 42862562 8.900000e-11 78.7
35 TraesCS1B01G099500 chr2A 94.118 51 3 0 633 683 42903037 42903087 8.900000e-11 78.7
36 TraesCS1B01G099500 chr2A 94.118 51 3 0 633 683 42941991 42942041 8.900000e-11 78.7
37 TraesCS1B01G099500 chr2A 94.118 51 3 0 633 683 42985424 42985474 8.900000e-11 78.7
38 TraesCS1B01G099500 chr2A 94.118 51 3 0 633 683 43029203 43029253 8.900000e-11 78.7
39 TraesCS1B01G099500 chr6B 78.462 130 12 7 569 683 603897161 603897289 1.490000e-08 71.3


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 TraesCS1B01G099500 chr1B 107129327 107132322 2995 False 5533 5533 100.00000 1 2996 1 chr1B.!!$F2 2995
1 TraesCS1B01G099500 chr1D 66416906 66418237 1331 False 1177 1177 82.86300 997 2360 1 chr1D.!!$F2 1363
2 TraesCS1B01G099500 chr1D 66381013 66382545 1532 True 909 1459 88.61800 910 2363 2 chr1D.!!$R2 1453
3 TraesCS1B01G099500 chr1D 66548949 66551814 2865 False 847 2074 91.11975 1 2937 4 chr1D.!!$F4 2936
4 TraesCS1B01G099500 chr1D 66394595 66398443 3848 False 404 412 78.61600 997 1636 2 chr1D.!!$F3 639
5 TraesCS1B01G099500 chr1A 65227774 65229215 1441 False 716 837 89.65200 2 1375 2 chr1A.!!$F6 1373
6 TraesCS1B01G099500 chr1A 64851419 64855098 3679 False 705 1079 87.74750 996 2414 2 chr1A.!!$F5 1418
7 TraesCS1B01G099500 chr1A 64959726 64960282 556 False 658 658 87.95800 1 569 1 chr1A.!!$F3 568
8 TraesCS1B01G099500 chr1A 65044717 65045274 557 False 641 641 87.41300 1 569 1 chr1A.!!$F4 568
9 TraesCS1B01G099500 chr1A 65234421 65235790 1369 False 538 898 88.90050 1371 2222 2 chr1A.!!$F7 851
10 TraesCS1B01G099500 chr1A 65260577 65261327 750 False 345 586 85.67750 2294 2995 2 chr1A.!!$F8 701
11 TraesCS1B01G099500 chr3D 583520728 583521232 504 False 429 429 82.10100 11 521 1 chr3D.!!$F2 510
12 TraesCS1B01G099500 chr3D 583511989 583512493 504 False 424 424 81.90700 11 521 1 chr3D.!!$F1 510
13 TraesCS1B01G099500 chr7B 526233313 526233819 506 False 383 383 80.73900 21 521 1 chr7B.!!$F1 500

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
990 1309 0.179045 GACCACCACTGTGCAAGTCT 60.179 55.0 1.29 0.0 41.35 3.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2797 7946 0.322456 TTTGCGGGCTGCTACATCTT 60.322 50.0 20.66 0.0 46.63 2.4 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
207 214 7.718753 TGCATTATTGATTGGGTGAAACTTTTT 59.281 29.630 0.00 0.00 36.74 1.94
251 258 7.103641 TCGTTCAAGCCTCAATAATACTTTCT 58.896 34.615 0.00 0.00 0.00 2.52
358 365 6.847956 TTATAATTGGCATGAGCATTTTGC 57.152 33.333 0.00 0.00 45.46 3.68
573 875 7.942990 ACTGTCTGGCTAATTAGTACATACTC 58.057 38.462 13.91 5.70 37.73 2.59
574 876 7.014422 ACTGTCTGGCTAATTAGTACATACTCC 59.986 40.741 13.91 4.73 37.73 3.85
575 877 6.267014 TGTCTGGCTAATTAGTACATACTCCC 59.733 42.308 13.91 4.07 37.73 4.30
579 881 5.105837 GGCTAATTAGTACATACTCCCTCCG 60.106 48.000 13.91 0.00 37.73 4.63
580 882 5.476254 GCTAATTAGTACATACTCCCTCCGT 59.524 44.000 13.91 0.00 37.73 4.69
581 883 6.656693 GCTAATTAGTACATACTCCCTCCGTA 59.343 42.308 13.91 0.00 37.73 4.02
582 884 7.338957 GCTAATTAGTACATACTCCCTCCGTAT 59.661 40.741 13.91 0.00 37.73 3.06
583 885 7.700022 AATTAGTACATACTCCCTCCGTATC 57.300 40.000 0.00 0.00 37.73 2.24
585 887 5.057843 AGTACATACTCCCTCCGTATCAA 57.942 43.478 0.00 0.00 0.00 2.57
586 888 5.452255 AGTACATACTCCCTCCGTATCAAA 58.548 41.667 0.00 0.00 0.00 2.69
587 889 5.895534 AGTACATACTCCCTCCGTATCAAAA 59.104 40.000 0.00 0.00 0.00 2.44
588 890 5.888982 ACATACTCCCTCCGTATCAAAAT 57.111 39.130 0.00 0.00 0.00 1.82
589 891 6.248569 ACATACTCCCTCCGTATCAAAATT 57.751 37.500 0.00 0.00 0.00 1.82
590 892 6.289064 ACATACTCCCTCCGTATCAAAATTC 58.711 40.000 0.00 0.00 0.00 2.17
592 894 5.437191 ACTCCCTCCGTATCAAAATTCTT 57.563 39.130 0.00 0.00 0.00 2.52
593 895 6.555463 ACTCCCTCCGTATCAAAATTCTTA 57.445 37.500 0.00 0.00 0.00 2.10
594 896 7.138054 ACTCCCTCCGTATCAAAATTCTTAT 57.862 36.000 0.00 0.00 0.00 1.73
595 897 6.992715 ACTCCCTCCGTATCAAAATTCTTATG 59.007 38.462 0.00 0.00 0.00 1.90
596 898 6.895782 TCCCTCCGTATCAAAATTCTTATGT 58.104 36.000 0.00 0.00 0.00 2.29
598 900 8.487848 TCCCTCCGTATCAAAATTCTTATGTTA 58.512 33.333 0.00 0.00 0.00 2.41
599 901 8.774586 CCCTCCGTATCAAAATTCTTATGTTAG 58.225 37.037 0.00 0.00 0.00 2.34
632 934 9.853555 CTAGATACTGATGTCAATCAATACTCC 57.146 37.037 0.00 0.00 42.28 3.85
635 937 9.149225 GATACTGATGTCAATCAATACTCCATC 57.851 37.037 0.00 0.00 42.28 3.51
636 938 6.294473 ACTGATGTCAATCAATACTCCATCC 58.706 40.000 0.00 0.00 42.28 3.51
637 939 6.126681 ACTGATGTCAATCAATACTCCATCCA 60.127 38.462 0.00 0.00 42.28 3.41
638 940 6.844829 TGATGTCAATCAATACTCCATCCAT 58.155 36.000 0.00 0.00 39.92 3.41
639 941 7.976712 TGATGTCAATCAATACTCCATCCATA 58.023 34.615 0.00 0.00 39.92 2.74
640 942 8.608598 TGATGTCAATCAATACTCCATCCATAT 58.391 33.333 0.00 0.00 39.92 1.78
641 943 9.458727 GATGTCAATCAATACTCCATCCATATT 57.541 33.333 0.00 0.00 32.61 1.28
642 944 9.818270 ATGTCAATCAATACTCCATCCATATTT 57.182 29.630 0.00 0.00 0.00 1.40
679 981 9.880157 AAAACAAGAATTTTATGATGGATGGAG 57.120 29.630 0.00 0.00 29.93 3.86
680 982 8.599624 AACAAGAATTTTATGATGGATGGAGT 57.400 30.769 0.00 0.00 0.00 3.85
698 1000 9.998106 GGATGGAGTATAATTAACTGCTCTAAA 57.002 33.333 15.09 2.30 36.38 1.85
739 1045 1.829970 GGCAGGGGAATTAGGCAGC 60.830 63.158 0.00 0.00 0.00 5.25
811 1117 7.982371 AACTAAACGAGATACAAATCTACCG 57.018 36.000 0.00 0.00 42.73 4.02
832 1138 0.874175 CACGACCGCAGACTCAACAA 60.874 55.000 0.00 0.00 0.00 2.83
838 1144 2.064762 CCGCAGACTCAACAAAGAGAG 58.935 52.381 0.00 0.00 38.98 3.20
871 1178 2.636830 TGCGAGTACCACTACTCCTAC 58.363 52.381 2.94 0.00 44.39 3.18
985 1304 3.475494 ACCGACCACCACTGTGCA 61.475 61.111 1.29 0.00 41.35 4.57
986 1305 2.203139 CCGACCACCACTGTGCAA 60.203 61.111 1.29 0.00 41.35 4.08
987 1306 2.253758 CCGACCACCACTGTGCAAG 61.254 63.158 1.29 0.00 41.35 4.01
990 1309 0.179045 GACCACCACTGTGCAAGTCT 60.179 55.000 1.29 0.00 41.35 3.24
991 1310 0.464373 ACCACCACTGTGCAAGTCTG 60.464 55.000 1.29 0.00 41.35 3.51
1073 3305 3.285215 TCGCGAGATCTACCGGGC 61.285 66.667 3.71 0.00 38.38 6.13
1218 3462 1.117142 TCCACCTCGTCGGTTTCCTT 61.117 55.000 0.00 0.00 46.37 3.36
1259 3503 4.637917 GTCGTCTCGATAATCGTCCTCGA 61.638 52.174 0.00 0.00 43.51 4.04
1401 3659 2.317040 CGGCTCATCCCTACCTTCTTA 58.683 52.381 0.00 0.00 0.00 2.10
1492 3759 4.457496 GCCTACCGCTGCAGCTGA 62.457 66.667 33.12 18.52 39.32 4.26
1743 4010 2.122989 GGCCTCGGGATCCAGGTA 60.123 66.667 15.23 0.00 31.65 3.08
1778 4045 2.426023 GTTCGTGGCTCTGTGGGT 59.574 61.111 0.00 0.00 0.00 4.51
1947 4214 1.215647 GGTGACGACGGAGCAGATT 59.784 57.895 0.00 0.00 0.00 2.40
1958 4225 3.118956 ACGGAGCAGATTCCTGAAACTAG 60.119 47.826 0.00 0.00 43.02 2.57
1968 4247 0.388649 CTGAAACTAGTGCCGCGTCT 60.389 55.000 4.92 3.00 0.00 4.18
1998 4409 1.808945 ACGACTCCACAACGGTAGTAG 59.191 52.381 0.00 0.00 35.57 2.57
2008 4427 6.594159 TCCACAACGGTAGTAGTACTAACTAC 59.406 42.308 20.50 21.91 45.67 2.73
2021 4440 7.541916 AGTACTAACTACTCCAAGAAGCTTT 57.458 36.000 0.00 0.00 32.84 3.51
2111 5083 2.760650 TCTGATCCGCTTGTCAGTGTAT 59.239 45.455 8.36 0.00 41.92 2.29
2208 7316 4.942761 AAGTGCATTTGGATGAACAGTT 57.057 36.364 0.00 0.00 43.28 3.16
2215 7323 3.940209 TTGGATGAACAGTTTGGCATC 57.060 42.857 5.30 5.30 34.61 3.91
2247 7355 7.596248 CCAATTCTAGTGTTTGATTTGTTCCAG 59.404 37.037 0.00 0.00 0.00 3.86
2259 7367 9.672673 TTTGATTTGTTCCAGTTTTATTTTCCA 57.327 25.926 0.00 0.00 0.00 3.53
2324 7432 6.919721 TGTCCATGGTTACTTTAAGATTTGC 58.080 36.000 12.58 0.00 0.00 3.68
2340 7449 6.554334 AGATTTGCGCTACTTCTTTTAACA 57.446 33.333 9.73 0.00 0.00 2.41
2391 7504 2.544721 AGCATTGAGTTCTCCCTCTCA 58.455 47.619 0.00 0.00 38.66 3.27
2394 7507 4.718774 AGCATTGAGTTCTCCCTCTCATTA 59.281 41.667 0.00 0.00 39.85 1.90
2460 7576 0.458260 ACCCGTTCCAAAACAAGTGC 59.542 50.000 0.00 0.00 34.93 4.40
2468 7584 5.278071 CGTTCCAAAACAAGTGCATTACCTA 60.278 40.000 0.00 0.00 34.93 3.08
2479 7627 6.062258 AGTGCATTACCTATTGTTGGTACT 57.938 37.500 0.00 0.00 39.50 2.73
2480 7628 6.113411 AGTGCATTACCTATTGTTGGTACTC 58.887 40.000 0.00 0.00 39.50 2.59
2567 7715 5.783111 AGAATCTACAACAACCAAAATGGC 58.217 37.500 0.00 0.00 42.67 4.40
2570 7718 5.543507 TCTACAACAACCAAAATGGCAAT 57.456 34.783 0.00 0.00 42.67 3.56
2573 7721 5.289083 ACAACAACCAAAATGGCAATACT 57.711 34.783 0.00 0.00 42.67 2.12
2633 7781 6.942976 TGGTAGATAAACCACTTACCTCTTG 58.057 40.000 0.00 0.00 44.68 3.02
2643 7791 5.174395 CCACTTACCTCTTGACTCTGAATG 58.826 45.833 0.00 0.00 0.00 2.67
2789 7938 2.234414 TGCAAATGGGCTCAAATCTTCC 59.766 45.455 0.00 0.00 34.04 3.46
2862 8011 1.004560 CGCAAACAGAGAGCCCAGA 60.005 57.895 0.00 0.00 0.00 3.86
2873 8022 0.533032 GAGCCCAGAAAGCGTACTCT 59.467 55.000 0.00 0.00 34.64 3.24
2874 8023 0.533032 AGCCCAGAAAGCGTACTCTC 59.467 55.000 0.00 0.00 34.64 3.20
2875 8024 0.460459 GCCCAGAAAGCGTACTCTCC 60.460 60.000 0.00 0.00 0.00 3.71
2876 8025 0.179134 CCCAGAAAGCGTACTCTCCG 60.179 60.000 0.00 0.00 0.00 4.63
2883 8032 4.164252 CGTACTCTCCGCACAACC 57.836 61.111 0.00 0.00 0.00 3.77
2884 8033 1.585006 CGTACTCTCCGCACAACCT 59.415 57.895 0.00 0.00 0.00 3.50
2885 8034 0.456312 CGTACTCTCCGCACAACCTC 60.456 60.000 0.00 0.00 0.00 3.85
2886 8035 0.456312 GTACTCTCCGCACAACCTCG 60.456 60.000 0.00 0.00 0.00 4.63
2887 8036 1.592400 TACTCTCCGCACAACCTCGG 61.592 60.000 0.00 0.00 46.52 4.63
2942 8151 6.200475 GCACTTAATTCGGGAGTGAGTTATAC 59.800 42.308 6.89 0.00 42.54 1.47
2944 8153 7.762615 CACTTAATTCGGGAGTGAGTTATACAA 59.237 37.037 0.00 0.00 42.54 2.41
2945 8154 8.483758 ACTTAATTCGGGAGTGAGTTATACAAT 58.516 33.333 0.00 0.00 0.00 2.71
2946 8155 9.326413 CTTAATTCGGGAGTGAGTTATACAATT 57.674 33.333 0.00 0.00 0.00 2.32
2947 8156 7.787725 AATTCGGGAGTGAGTTATACAATTC 57.212 36.000 0.00 0.00 0.00 2.17
2948 8157 6.540438 TTCGGGAGTGAGTTATACAATTCT 57.460 37.500 0.00 0.00 0.00 2.40
2950 8159 5.655090 TCGGGAGTGAGTTATACAATTCTCA 59.345 40.000 0.00 0.00 35.06 3.27
2951 8160 6.153851 TCGGGAGTGAGTTATACAATTCTCAA 59.846 38.462 0.00 0.00 38.40 3.02
2952 8161 6.816640 CGGGAGTGAGTTATACAATTCTCAAA 59.183 38.462 0.00 0.00 38.40 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
55 57 3.081804 AGTAGGGATTTTTCGCACCAAG 58.918 45.455 0.00 0.00 0.00 3.61
158 165 4.486125 AACAATTTGGAAACCAAGCACT 57.514 36.364 0.78 0.00 44.84 4.40
526 784 6.316390 CAGTTAATAGGTCTGTTTCATGGGAC 59.684 42.308 0.00 0.00 0.00 4.46
527 785 6.012858 ACAGTTAATAGGTCTGTTTCATGGGA 60.013 38.462 0.00 0.00 39.00 4.37
528 786 6.180472 ACAGTTAATAGGTCTGTTTCATGGG 58.820 40.000 0.00 0.00 39.00 4.00
569 871 6.555463 AAGAATTTTGATACGGAGGGAGTA 57.445 37.500 0.00 0.00 0.00 2.59
570 872 5.437191 AAGAATTTTGATACGGAGGGAGT 57.563 39.130 0.00 0.00 0.00 3.85
571 873 6.992715 ACATAAGAATTTTGATACGGAGGGAG 59.007 38.462 0.00 0.00 31.23 4.30
573 875 7.568199 AACATAAGAATTTTGATACGGAGGG 57.432 36.000 0.00 0.00 31.23 4.30
574 876 9.542462 TCTAACATAAGAATTTTGATACGGAGG 57.458 33.333 0.00 0.00 31.23 4.30
606 908 9.853555 GGAGTATTGATTGACATCAGTATCTAG 57.146 37.037 0.00 0.00 40.66 2.43
607 909 9.367160 TGGAGTATTGATTGACATCAGTATCTA 57.633 33.333 0.00 0.00 40.66 1.98
608 910 8.255111 TGGAGTATTGATTGACATCAGTATCT 57.745 34.615 0.00 0.00 40.66 1.98
610 912 8.099537 GGATGGAGTATTGATTGACATCAGTAT 58.900 37.037 0.00 0.00 40.66 2.12
611 913 7.071071 TGGATGGAGTATTGATTGACATCAGTA 59.929 37.037 0.00 0.00 40.66 2.74
612 914 6.126681 TGGATGGAGTATTGATTGACATCAGT 60.127 38.462 0.00 0.00 40.66 3.41
614 916 6.251255 TGGATGGAGTATTGATTGACATCA 57.749 37.500 0.00 0.00 37.67 3.07
615 917 9.458727 AATATGGATGGAGTATTGATTGACATC 57.541 33.333 0.00 0.00 34.16 3.06
654 956 9.039165 ACTCCATCCATCATAAAATTCTTGTTT 57.961 29.630 0.00 0.00 0.00 2.83
655 957 8.599624 ACTCCATCCATCATAAAATTCTTGTT 57.400 30.769 0.00 0.00 0.00 2.83
656 958 9.872684 ATACTCCATCCATCATAAAATTCTTGT 57.127 29.630 0.00 0.00 0.00 3.16
667 969 8.609483 AGCAGTTAATTATACTCCATCCATCAT 58.391 33.333 0.00 0.00 0.00 2.45
669 971 8.317679 AGAGCAGTTAATTATACTCCATCCATC 58.682 37.037 0.00 0.00 0.00 3.51
670 972 8.212259 AGAGCAGTTAATTATACTCCATCCAT 57.788 34.615 0.00 0.00 0.00 3.41
671 973 7.618019 AGAGCAGTTAATTATACTCCATCCA 57.382 36.000 0.00 0.00 0.00 3.41
672 974 9.998106 TTTAGAGCAGTTAATTATACTCCATCC 57.002 33.333 0.00 0.00 0.00 3.51
698 1000 6.875195 GCCCATAGTTGCATGCAATTAATTAT 59.125 34.615 33.94 21.63 38.28 1.28
739 1045 7.072263 ACCTAAAGATTGTCTGGGATATCTG 57.928 40.000 2.05 0.00 0.00 2.90
811 1117 1.007734 TTGAGTCTGCGGTCGTGAC 60.008 57.895 0.00 9.31 0.00 3.67
832 1138 1.528292 AACTCGCTGACCGCTCTCTT 61.528 55.000 0.00 0.00 36.73 2.85
847 1153 3.134021 GAGTAGTGGTACTCGCAACTC 57.866 52.381 0.00 0.00 44.50 3.01
871 1178 1.180029 CAAGCAAGGTGGGAATGGAG 58.820 55.000 0.00 0.00 0.00 3.86
985 1304 4.008330 CACTCCATTGATCTTGCAGACTT 58.992 43.478 0.00 0.00 0.00 3.01
986 1305 3.607741 CACTCCATTGATCTTGCAGACT 58.392 45.455 0.00 0.00 0.00 3.24
987 1306 2.681848 CCACTCCATTGATCTTGCAGAC 59.318 50.000 0.00 0.00 0.00 3.51
990 1309 1.634973 TCCCACTCCATTGATCTTGCA 59.365 47.619 0.00 0.00 0.00 4.08
991 1310 2.424956 GTTCCCACTCCATTGATCTTGC 59.575 50.000 0.00 0.00 0.00 4.01
992 1311 3.019564 GGTTCCCACTCCATTGATCTTG 58.980 50.000 0.00 0.00 0.00 3.02
1218 3462 4.100479 TCGAAGAGTAACCCGGCA 57.900 55.556 0.00 0.00 0.00 5.69
1259 3503 0.109504 GCAGACGAGCGAGAAGAAGT 60.110 55.000 0.00 0.00 0.00 3.01
1735 4002 4.853142 TCCCGCGGCTACCTGGAT 62.853 66.667 22.85 0.00 0.00 3.41
1947 4214 1.080093 CGCGGCACTAGTTTCAGGA 60.080 57.895 0.00 0.00 0.00 3.86
1958 4225 3.651480 GACATGCAAGACGCGGCAC 62.651 63.158 17.71 3.05 46.97 5.01
1968 4247 0.666274 GTGGAGTCGTCGACATGCAA 60.666 55.000 26.17 6.99 34.60 4.08
1998 4409 9.138062 GTAAAAGCTTCTTGGAGTAGTTAGTAC 57.862 37.037 0.00 0.00 0.00 2.73
2111 5083 2.512692 ACCAGGCATGCATGTCTTTA 57.487 45.000 30.71 0.00 40.39 1.85
2208 7316 2.181125 AGAATTGGTGCATGATGCCAA 58.819 42.857 15.70 12.83 44.23 4.52
2215 7323 5.375417 TCAAACACTAGAATTGGTGCATG 57.625 39.130 0.00 0.00 36.99 4.06
2247 7355 5.468540 AGGGTTGCTCTGGAAAATAAAAC 57.531 39.130 0.00 0.00 0.00 2.43
2259 7367 2.621070 TCTCAAGGTAAGGGTTGCTCT 58.379 47.619 0.00 0.00 0.00 4.09
2429 7545 1.543871 GGAACGGGTTTGCTGGTAGAA 60.544 52.381 0.00 0.00 0.00 2.10
2479 7627 5.301555 TGTGTATCGTCATGTTTCTTTGGA 58.698 37.500 0.00 0.00 0.00 3.53
2480 7628 5.605564 TGTGTATCGTCATGTTTCTTTGG 57.394 39.130 0.00 0.00 0.00 3.28
2545 7693 5.537188 TGCCATTTTGGTTGTTGTAGATTC 58.463 37.500 0.00 0.00 40.46 2.52
2547 7695 5.543507 TTGCCATTTTGGTTGTTGTAGAT 57.456 34.783 0.00 0.00 40.46 1.98
2549 7697 6.365789 CAGTATTGCCATTTTGGTTGTTGTAG 59.634 38.462 0.00 0.00 40.46 2.74
2570 7718 7.279981 CCGTTCATGGTTATTTTGAGATCAGTA 59.720 37.037 0.00 0.00 0.00 2.74
2573 7721 5.943416 ACCGTTCATGGTTATTTTGAGATCA 59.057 36.000 0.00 0.00 39.99 2.92
2629 7777 6.014242 ACTGGTTATGTCATTCAGAGTCAAGA 60.014 38.462 13.80 0.00 0.00 3.02
2633 7781 6.650807 TGAAACTGGTTATGTCATTCAGAGTC 59.349 38.462 13.80 11.05 0.00 3.36
2643 7791 9.606631 AATATCTTCTCTGAAACTGGTTATGTC 57.393 33.333 0.00 0.00 0.00 3.06
2684 7833 8.616076 CCCATGTTACATTCTCTCACTAATTTC 58.384 37.037 0.00 0.00 0.00 2.17
2688 7837 5.189736 AGCCCATGTTACATTCTCTCACTAA 59.810 40.000 0.00 0.00 0.00 2.24
2692 7841 4.264253 CAAGCCCATGTTACATTCTCTCA 58.736 43.478 0.00 0.00 0.00 3.27
2752 7901 0.323360 TGCAGTAACTGATTGGGGCC 60.323 55.000 0.00 0.00 32.44 5.80
2753 7902 1.544724 TTGCAGTAACTGATTGGGGC 58.455 50.000 0.00 0.00 32.44 5.80
2754 7903 3.119029 CCATTTGCAGTAACTGATTGGGG 60.119 47.826 0.00 0.00 32.44 4.96
2755 7904 3.119029 CCCATTTGCAGTAACTGATTGGG 60.119 47.826 0.00 0.00 34.25 4.12
2797 7946 0.322456 TTTGCGGGCTGCTACATCTT 60.322 50.000 20.66 0.00 46.63 2.40
2798 7947 0.322456 TTTTGCGGGCTGCTACATCT 60.322 50.000 20.66 0.00 46.63 2.90
2824 7973 2.541556 GTTGCTCTATCTCCGTGGAAC 58.458 52.381 0.00 0.00 0.00 3.62
2825 7974 1.134367 CGTTGCTCTATCTCCGTGGAA 59.866 52.381 0.00 0.00 0.00 3.53
2877 8026 2.743928 GAGCTGGCCGAGGTTGTG 60.744 66.667 0.00 0.00 30.42 3.33
2878 8027 3.241530 TGAGCTGGCCGAGGTTGT 61.242 61.111 0.00 0.00 30.42 3.32
2879 8028 2.743928 GTGAGCTGGCCGAGGTTG 60.744 66.667 0.00 0.00 30.42 3.77
2880 8029 4.379243 CGTGAGCTGGCCGAGGTT 62.379 66.667 0.00 0.00 30.42 3.50


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

AutoCloner maintained by Alex Coulton.