Multiple sequence alignment - TraesCS2D01G336700

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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 TraesCS2D01G336700 chr2D 100.000 3568 0 0 1 3568 430023992 430020425 0.000000e+00 6589.0
1 TraesCS2D01G336700 chr2D 88.972 1070 82 14 1630 2694 430433630 430432592 0.000000e+00 1290.0
2 TraesCS2D01G336700 chr2D 91.721 761 28 13 802 1543 430434378 430433634 0.000000e+00 1024.0
3 TraesCS2D01G336700 chr2D 89.322 693 39 14 826 1500 430442142 430441467 0.000000e+00 837.0
4 TraesCS2D01G336700 chr2D 87.260 730 70 13 1971 2694 430440481 430439769 0.000000e+00 811.0
5 TraesCS2D01G336700 chr2D 87.273 330 19 7 1635 1963 430440985 430440678 4.380000e-94 355.0
6 TraesCS2D01G336700 chr2D 87.391 230 29 0 998 1227 340510867 340511096 7.600000e-67 265.0
7 TraesCS2D01G336700 chr2A 90.047 3607 211 58 2 3568 556985373 556988871 0.000000e+00 4536.0
8 TraesCS2D01G336700 chr2A 87.430 1074 96 16 1630 2694 555887980 555889023 0.000000e+00 1199.0
9 TraesCS2D01G336700 chr2A 92.473 744 33 7 802 1534 555887236 555887967 0.000000e+00 1042.0
10 TraesCS2D01G336700 chr2A 90.287 731 38 11 826 1543 555883165 555883875 0.000000e+00 926.0
11 TraesCS2D01G336700 chr2A 88.767 730 58 14 1971 2694 555884401 555885112 0.000000e+00 872.0
12 TraesCS2D01G336700 chr2A 91.254 343 20 8 1623 1960 555883988 555884325 3.250000e-125 459.0
13 TraesCS2D01G336700 chr2A 78.477 683 121 17 1 669 429648733 429648063 1.180000e-114 424.0
14 TraesCS2D01G336700 chr2A 85.131 343 45 2 2142 2484 556378769 556379105 2.640000e-91 346.0
15 TraesCS2D01G336700 chr2A 80.952 210 31 4 1334 1534 451013338 451013129 1.330000e-34 158.0
16 TraesCS2D01G336700 chr2A 92.929 99 7 0 2589 2687 556379105 556379203 1.030000e-30 145.0
17 TraesCS2D01G336700 chr2B 87.936 1434 114 28 1611 3007 507912076 507910665 0.000000e+00 1635.0
18 TraesCS2D01G336700 chr2B 90.988 921 39 8 635 1548 507912945 507912062 0.000000e+00 1201.0
19 TraesCS2D01G336700 chr2B 88.264 1031 81 19 1662 2687 508183220 508182225 0.000000e+00 1197.0
20 TraesCS2D01G336700 chr2B 92.846 657 32 7 896 1543 508215231 508214581 0.000000e+00 939.0
21 TraesCS2D01G336700 chr2B 94.010 601 32 4 946 1543 508193399 508192800 0.000000e+00 907.0
22 TraesCS2D01G336700 chr2B 86.968 729 69 14 1971 2694 508214180 508213473 0.000000e+00 797.0
23 TraesCS2D01G336700 chr2B 84.580 655 73 16 1 639 507913948 507913306 3.020000e-175 625.0
24 TraesCS2D01G336700 chr2B 90.237 338 26 5 1627 1963 508214583 508214252 5.470000e-118 435.0
25 TraesCS2D01G336700 chr5D 82.853 694 85 19 3 669 426776237 426776923 3.070000e-165 592.0
26 TraesCS2D01G336700 chr7D 81.779 697 90 22 1 668 590369963 590370651 1.870000e-152 549.0
27 TraesCS2D01G336700 chr7D 97.500 40 1 0 1563 1602 586795037 586794998 6.390000e-08 69.4
28 TraesCS2D01G336700 chr7D 92.683 41 3 0 1562 1602 32857708 32857668 3.850000e-05 60.2
29 TraesCS2D01G336700 chr3D 80.591 711 98 20 1 678 20396408 20397111 2.460000e-141 512.0
30 TraesCS2D01G336700 chr3D 79.770 697 109 20 1 669 378545519 378544827 8.960000e-131 477.0
31 TraesCS2D01G336700 chr3D 78.174 701 112 25 6 669 185517454 185518150 3.320000e-110 409.0
32 TraesCS2D01G336700 chr4D 80.114 699 99 21 3 669 94759348 94760038 5.360000e-133 484.0
33 TraesCS2D01G336700 chr4D 78.812 623 93 20 2 591 419330289 419329673 2.010000e-102 383.0
34 TraesCS2D01G336700 chr4D 94.286 35 2 0 2723 2757 465024328 465024362 2.000000e-03 54.7
35 TraesCS2D01G336700 chr3B 79.464 672 120 13 8 669 605213187 605212524 9.030000e-126 460.0
36 TraesCS2D01G336700 chr3B 78.818 694 113 20 6 669 723432194 723432883 1.520000e-118 436.0
37 TraesCS2D01G336700 chr3B 78.743 668 108 23 1 665 787692329 787692965 1.980000e-112 416.0
38 TraesCS2D01G336700 chr4B 79.009 686 117 15 6 669 26809024 26809704 9.090000e-121 444.0
39 TraesCS2D01G336700 chr5A 86.364 242 28 4 429 669 504620601 504620838 3.530000e-65 259.0
40 TraesCS2D01G336700 chr5B 83.544 79 9 3 2010 2086 515587931 515588007 1.780000e-08 71.3
41 TraesCS2D01G336700 chr1B 100.000 30 0 0 1562 1591 571694636 571694607 4.980000e-04 56.5
42 TraesCS2D01G336700 chr3A 92.308 39 1 2 2723 2760 552633417 552633454 2.000000e-03 54.7
43 TraesCS2D01G336700 chr7A 100.000 28 0 0 1562 1589 568128422 568128449 6.000000e-03 52.8
44 TraesCS2D01G336700 chr4A 100.000 28 0 0 2723 2750 575033287 575033314 6.000000e-03 52.8


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 TraesCS2D01G336700 chr2D 430020425 430023992 3567 True 6589.000000 6589 100.000000 1 3568 1 chr2D.!!$R1 3567
1 TraesCS2D01G336700 chr2D 430432592 430434378 1786 True 1157.000000 1290 90.346500 802 2694 2 chr2D.!!$R2 1892
2 TraesCS2D01G336700 chr2D 430439769 430442142 2373 True 667.666667 837 87.951667 826 2694 3 chr2D.!!$R3 1868
3 TraesCS2D01G336700 chr2A 556985373 556988871 3498 False 4536.000000 4536 90.047000 2 3568 1 chr2A.!!$F1 3566
4 TraesCS2D01G336700 chr2A 555883165 555889023 5858 False 899.600000 1199 90.042200 802 2694 5 chr2A.!!$F2 1892
5 TraesCS2D01G336700 chr2A 429648063 429648733 670 True 424.000000 424 78.477000 1 669 1 chr2A.!!$R1 668
6 TraesCS2D01G336700 chr2B 508182225 508183220 995 True 1197.000000 1197 88.264000 1662 2687 1 chr2B.!!$R1 1025
7 TraesCS2D01G336700 chr2B 507910665 507913948 3283 True 1153.666667 1635 87.834667 1 3007 3 chr2B.!!$R3 3006
8 TraesCS2D01G336700 chr2B 508192800 508193399 599 True 907.000000 907 94.010000 946 1543 1 chr2B.!!$R2 597
9 TraesCS2D01G336700 chr2B 508213473 508215231 1758 True 723.666667 939 90.017000 896 2694 3 chr2B.!!$R4 1798
10 TraesCS2D01G336700 chr5D 426776237 426776923 686 False 592.000000 592 82.853000 3 669 1 chr5D.!!$F1 666
11 TraesCS2D01G336700 chr7D 590369963 590370651 688 False 549.000000 549 81.779000 1 668 1 chr7D.!!$F1 667
12 TraesCS2D01G336700 chr3D 20396408 20397111 703 False 512.000000 512 80.591000 1 678 1 chr3D.!!$F1 677
13 TraesCS2D01G336700 chr3D 378544827 378545519 692 True 477.000000 477 79.770000 1 669 1 chr3D.!!$R1 668
14 TraesCS2D01G336700 chr3D 185517454 185518150 696 False 409.000000 409 78.174000 6 669 1 chr3D.!!$F2 663
15 TraesCS2D01G336700 chr4D 94759348 94760038 690 False 484.000000 484 80.114000 3 669 1 chr4D.!!$F1 666
16 TraesCS2D01G336700 chr4D 419329673 419330289 616 True 383.000000 383 78.812000 2 591 1 chr4D.!!$R1 589
17 TraesCS2D01G336700 chr3B 605212524 605213187 663 True 460.000000 460 79.464000 8 669 1 chr3B.!!$R1 661
18 TraesCS2D01G336700 chr3B 723432194 723432883 689 False 436.000000 436 78.818000 6 669 1 chr3B.!!$F1 663
19 TraesCS2D01G336700 chr3B 787692329 787692965 636 False 416.000000 416 78.743000 1 665 1 chr3B.!!$F2 664
20 TraesCS2D01G336700 chr4B 26809024 26809704 680 False 444.000000 444 79.009000 6 669 1 chr4B.!!$F1 663

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
847 1303 0.179026 TACGCGACCCTCTGCTCTAT 60.179 55.0 15.93 0.0 0.0 1.98 F
2141 7299 0.186630 CCCATGCCCATGATCCTTCA 59.813 55.0 9.73 0.0 41.2 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2543 7717 1.067295 TGGCTTTCCAGGATGACACT 58.933 50.0 0.0 0.0 39.69 3.55 R
3058 8270 0.515127 CGGTGCATGTTTTGTCGCTA 59.485 50.0 0.0 0.0 0.00 4.26 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
66 74 3.068691 CTCTCTCCCGCCGGTCAA 61.069 66.667 1.90 0.00 0.00 3.18
67 75 3.068691 TCTCTCCCGCCGGTCAAG 61.069 66.667 1.90 0.00 0.00 3.02
83 93 4.232221 GGTCAAGTTGATCGACGTTTCTA 58.768 43.478 9.18 0.00 0.00 2.10
160 178 1.070134 GTGCACCTCTACTCCAACACA 59.930 52.381 5.22 0.00 0.00 3.72
225 250 4.489771 GGTGACCCTCATGGCCGG 62.490 72.222 0.00 0.00 37.83 6.13
261 286 4.977126 CCCGTCGATCTACGCCGC 62.977 72.222 13.89 0.00 41.98 6.53
296 321 2.636412 CCGACCGAGACTCCTGCAA 61.636 63.158 0.00 0.00 0.00 4.08
303 328 4.329545 GACTCCTGCAACGCCCCA 62.330 66.667 0.00 0.00 0.00 4.96
346 372 1.750930 CAGCCCATCATAGCCGTCT 59.249 57.895 0.00 0.00 0.00 4.18
351 377 2.811873 GCCCATCATAGCCGTCTTTCAT 60.812 50.000 0.00 0.00 0.00 2.57
379 405 2.124736 ACCCATTGATCCACGCCG 60.125 61.111 0.00 0.00 0.00 6.46
569 644 4.077184 TCCGCATGTCGTCCCACC 62.077 66.667 8.37 0.00 36.19 4.61
594 669 1.437573 GTCATCGTCGGCCTCATCA 59.562 57.895 0.00 0.00 0.00 3.07
597 672 3.774959 ATCGTCGGCCTCATCACGC 62.775 63.158 0.00 0.00 32.21 5.34
669 1109 2.586792 GGCTTGATCACCCGCTCT 59.413 61.111 0.00 0.00 0.00 4.09
670 1110 1.823295 GGCTTGATCACCCGCTCTA 59.177 57.895 0.00 0.00 0.00 2.43
698 1138 2.562738 CCACTCACTGTCATGGAGTACA 59.437 50.000 6.30 0.00 39.75 2.90
734 1174 1.963515 GACCTCACCATTTTTGTGGCT 59.036 47.619 0.00 0.00 43.27 4.75
735 1175 2.365293 GACCTCACCATTTTTGTGGCTT 59.635 45.455 0.00 0.00 43.27 4.35
847 1303 0.179026 TACGCGACCCTCTGCTCTAT 60.179 55.000 15.93 0.00 0.00 1.98
1049 1518 0.619832 ATGAAGCTGGGCTCTCAGGA 60.620 55.000 0.00 0.00 38.25 3.86
1321 5905 0.390472 CTGACCGGCAAGAGTTCTCC 60.390 60.000 0.00 0.00 0.00 3.71
1325 5909 1.289066 CGGCAAGAGTTCTCCGTGA 59.711 57.895 2.13 0.00 37.33 4.35
1326 5910 0.734253 CGGCAAGAGTTCTCCGTGAG 60.734 60.000 2.13 0.00 37.33 3.51
1543 6447 3.038788 TCACGGTCAGTACTACGTACA 57.961 47.619 15.95 6.45 41.03 2.90
1544 6448 2.995939 TCACGGTCAGTACTACGTACAG 59.004 50.000 15.95 7.10 41.03 2.74
1545 6449 2.094894 CACGGTCAGTACTACGTACAGG 59.905 54.545 15.95 4.22 41.03 4.00
1546 6450 2.028112 ACGGTCAGTACTACGTACAGGA 60.028 50.000 15.13 1.77 41.03 3.86
1570 6498 6.776744 ACCCTCCGTAAAGAAGTAAAGAAAT 58.223 36.000 0.00 0.00 0.00 2.17
1571 6499 7.910584 ACCCTCCGTAAAGAAGTAAAGAAATA 58.089 34.615 0.00 0.00 0.00 1.40
1572 6500 8.546322 ACCCTCCGTAAAGAAGTAAAGAAATAT 58.454 33.333 0.00 0.00 0.00 1.28
1639 6582 4.203764 CGTACTGTATTACGTAGCACTTGC 59.796 45.833 0.00 0.00 40.01 4.01
1850 6808 2.171840 GTTCAGCTGGAGTGGTCTCTA 58.828 52.381 15.13 0.00 40.29 2.43
2062 7219 4.407296 CCACTAGGCAGAGGTTTTCTATCT 59.593 45.833 0.00 0.00 33.83 1.98
2128 7286 3.066760 GCAAGGTAATGAACTACCCATGC 59.933 47.826 10.56 10.56 42.88 4.06
2131 7289 2.092103 GGTAATGAACTACCCATGCCCA 60.092 50.000 0.00 0.00 36.13 5.36
2133 7291 2.369983 ATGAACTACCCATGCCCATG 57.630 50.000 1.28 1.28 38.51 3.66
2134 7292 1.294041 TGAACTACCCATGCCCATGA 58.706 50.000 9.73 0.00 41.20 3.07
2135 7293 1.852309 TGAACTACCCATGCCCATGAT 59.148 47.619 9.73 0.86 41.20 2.45
2136 7294 2.158623 TGAACTACCCATGCCCATGATC 60.159 50.000 9.73 0.00 41.20 2.92
2137 7295 0.773644 ACTACCCATGCCCATGATCC 59.226 55.000 9.73 0.00 41.20 3.36
2138 7296 1.070604 CTACCCATGCCCATGATCCT 58.929 55.000 9.73 0.00 41.20 3.24
2139 7297 1.426598 CTACCCATGCCCATGATCCTT 59.573 52.381 9.73 0.00 41.20 3.36
2140 7298 0.186873 ACCCATGCCCATGATCCTTC 59.813 55.000 9.73 0.00 41.20 3.46
2141 7299 0.186630 CCCATGCCCATGATCCTTCA 59.813 55.000 9.73 0.00 41.20 3.02
2142 7300 1.203137 CCCATGCCCATGATCCTTCAT 60.203 52.381 9.73 0.00 43.51 2.57
2143 7301 2.605257 CCATGCCCATGATCCTTCATT 58.395 47.619 9.73 0.00 40.70 2.57
2144 7302 2.561419 CCATGCCCATGATCCTTCATTC 59.439 50.000 9.73 0.00 40.70 2.67
2147 7305 3.055328 TGCCCATGATCCTTCATTCCTA 58.945 45.455 0.00 0.00 40.70 2.94
2354 7528 1.450312 CCACCAGGGAAGCGATGTC 60.450 63.158 0.00 0.00 40.01 3.06
2511 7685 2.541346 CACAGCGCGTATCTGATGAATT 59.459 45.455 17.39 0.00 35.61 2.17
2543 7717 2.359404 GACTCCGAGACCCCTCCA 59.641 66.667 1.33 0.00 36.04 3.86
2544 7718 1.755008 GACTCCGAGACCCCTCCAG 60.755 68.421 1.33 0.00 36.04 3.86
2700 7878 3.627395 ATTGTTTACTCATGCCTCCGA 57.373 42.857 0.00 0.00 0.00 4.55
2701 7879 3.627395 TTGTTTACTCATGCCTCCGAT 57.373 42.857 0.00 0.00 0.00 4.18
2702 7880 3.179443 TGTTTACTCATGCCTCCGATC 57.821 47.619 0.00 0.00 0.00 3.69
2703 7881 2.158957 TGTTTACTCATGCCTCCGATCC 60.159 50.000 0.00 0.00 0.00 3.36
2704 7882 1.788229 TTACTCATGCCTCCGATCCA 58.212 50.000 0.00 0.00 0.00 3.41
2705 7883 1.788229 TACTCATGCCTCCGATCCAA 58.212 50.000 0.00 0.00 0.00 3.53
2706 7884 1.135094 ACTCATGCCTCCGATCCAAT 58.865 50.000 0.00 0.00 0.00 3.16
2707 7885 1.492176 ACTCATGCCTCCGATCCAATT 59.508 47.619 0.00 0.00 0.00 2.32
2708 7886 2.092212 ACTCATGCCTCCGATCCAATTT 60.092 45.455 0.00 0.00 0.00 1.82
2709 7887 2.954318 CTCATGCCTCCGATCCAATTTT 59.046 45.455 0.00 0.00 0.00 1.82
2710 7888 3.364549 TCATGCCTCCGATCCAATTTTT 58.635 40.909 0.00 0.00 0.00 1.94
2803 8009 4.759693 AGGGCGCATCAATTAATTCGAATA 59.240 37.500 11.83 0.00 0.00 1.75
2826 8032 1.198759 TGGAGTAGCACAACCTCCCC 61.199 60.000 0.00 0.00 43.42 4.81
2847 8053 4.932799 CCCATGATACGTTCACAACACTAA 59.067 41.667 0.00 0.00 37.11 2.24
3027 8239 1.063070 TTCCCTGCCCTACAACACCA 61.063 55.000 0.00 0.00 0.00 4.17
3028 8240 1.063070 TCCCTGCCCTACAACACCAA 61.063 55.000 0.00 0.00 0.00 3.67
3042 8254 3.922171 ACACCAAGGATCTCATTCCTC 57.078 47.619 0.00 0.00 45.63 3.71
3062 8274 4.944372 GCGGGTCGTGGGATAGCG 62.944 72.222 0.00 0.00 0.00 4.26
3071 8283 2.006888 CGTGGGATAGCGACAAAACAT 58.993 47.619 0.00 0.00 0.00 2.71
3076 8288 2.477863 GGATAGCGACAAAACATGCACC 60.478 50.000 0.00 0.00 0.00 5.01
3080 8292 0.721155 CGACAAAACATGCACCGTCG 60.721 55.000 12.09 12.09 40.04 5.12
3114 8326 2.035449 GGTGGGGCTGTTAGTTTGTTTC 59.965 50.000 0.00 0.00 0.00 2.78
3132 8344 8.648097 GTTTGTTTCTGTCCTTTTTCTTTCTTC 58.352 33.333 0.00 0.00 0.00 2.87
3387 8609 8.973835 AAATAACAAGTTTCAAACTCGTGAAA 57.026 26.923 2.45 0.00 43.51 2.69
3514 8736 8.688747 AAATTTAGGGACAATTTTGAAATGCA 57.311 26.923 0.00 0.00 31.09 3.96
3533 8755 3.616821 TGCATGAACTTTTATCGACTCCG 59.383 43.478 0.00 0.00 37.07 4.63
3537 8759 4.873817 TGAACTTTTATCGACTCCGTGAA 58.126 39.130 0.00 0.00 37.05 3.18
3539 8761 6.623486 TGAACTTTTATCGACTCCGTGAATA 58.377 36.000 0.00 0.00 37.05 1.75
3540 8762 7.262772 TGAACTTTTATCGACTCCGTGAATAT 58.737 34.615 0.00 0.00 37.05 1.28
3541 8763 8.407832 TGAACTTTTATCGACTCCGTGAATATA 58.592 33.333 0.00 0.00 37.05 0.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
66 74 5.699458 ACCAAAATAGAAACGTCGATCAACT 59.301 36.000 0.00 0.00 0.00 3.16
67 75 5.923665 ACCAAAATAGAAACGTCGATCAAC 58.076 37.500 0.00 0.00 0.00 3.18
83 93 9.525826 ACTGATCTTAGATCAGAAAACCAAAAT 57.474 29.630 41.65 22.44 46.25 1.82
107 122 0.390735 GGCGATGGGTGACGTAAACT 60.391 55.000 0.00 0.00 0.00 2.66
112 127 4.430765 GACGGCGATGGGTGACGT 62.431 66.667 16.62 0.00 40.85 4.34
136 151 2.722201 GGAGTAGAGGTGCACGGGG 61.722 68.421 11.45 0.00 0.00 5.73
144 162 1.971357 CACCTGTGTTGGAGTAGAGGT 59.029 52.381 0.00 0.00 40.83 3.85
285 310 4.021925 GGGGCGTTGCAGGAGTCT 62.022 66.667 0.00 0.00 0.00 3.24
346 372 2.988684 GTGGGCCGGTGCATGAAA 60.989 61.111 1.90 0.00 40.13 2.69
407 435 2.203640 ACGAGGCAGACCACAGGA 60.204 61.111 0.00 0.00 39.06 3.86
440 490 2.250237 GCTTAGGCAGCCGATGAGC 61.250 63.158 5.55 10.46 43.65 4.26
441 491 4.040068 GCTTAGGCAGCCGATGAG 57.960 61.111 5.55 3.96 43.65 2.90
514 589 2.999063 GCACCTGGGCTGCCAAAT 60.999 61.111 22.05 0.00 0.00 2.32
669 1109 2.279502 GACAGTGAGTGGCGGCGATA 62.280 60.000 12.98 0.00 0.00 2.92
670 1110 3.649277 GACAGTGAGTGGCGGCGAT 62.649 63.158 12.98 0.00 0.00 4.58
734 1174 3.053291 GATGACACCCGCCGCAAA 61.053 61.111 0.00 0.00 0.00 3.68
745 1185 4.968812 ATTGAAATGCACATCGATGACA 57.031 36.364 31.33 25.89 0.00 3.58
795 1248 7.484993 TGAAATGGACATCATCTTTGGAAAT 57.515 32.000 0.00 0.00 34.44 2.17
796 1249 6.914654 TGAAATGGACATCATCTTTGGAAA 57.085 33.333 0.00 0.00 34.44 3.13
797 1250 6.914654 TTGAAATGGACATCATCTTTGGAA 57.085 33.333 0.00 0.00 34.44 3.53
798 1251 7.484993 AATTGAAATGGACATCATCTTTGGA 57.515 32.000 0.00 0.00 34.44 3.53
799 1252 9.656040 TTAAATTGAAATGGACATCATCTTTGG 57.344 29.630 0.00 0.00 34.44 3.28
801 1254 9.357652 CGTTAAATTGAAATGGACATCATCTTT 57.642 29.630 0.00 0.00 34.44 2.52
802 1255 8.522830 ACGTTAAATTGAAATGGACATCATCTT 58.477 29.630 0.00 0.00 34.44 2.40
803 1256 8.055279 ACGTTAAATTGAAATGGACATCATCT 57.945 30.769 0.00 0.00 34.44 2.90
804 1257 9.221775 GTACGTTAAATTGAAATGGACATCATC 57.778 33.333 0.00 0.00 34.44 2.92
805 1258 7.908082 CGTACGTTAAATTGAAATGGACATCAT 59.092 33.333 7.22 0.00 37.79 2.45
806 1259 7.237871 CGTACGTTAAATTGAAATGGACATCA 58.762 34.615 7.22 0.00 28.75 3.07
807 1260 6.193959 GCGTACGTTAAATTGAAATGGACATC 59.806 38.462 17.90 0.00 28.75 3.06
847 1303 1.344114 GGGTTGAATGAGCTGCCAAAA 59.656 47.619 0.00 0.00 0.00 2.44
1243 5809 2.342279 CAAGGAGCACGTCGGGAA 59.658 61.111 0.00 0.00 0.00 3.97
1244 5810 3.691342 CCAAGGAGCACGTCGGGA 61.691 66.667 0.00 0.00 0.00 5.14
1321 5905 1.638467 GCGCCTGCTTTATCTCACG 59.362 57.895 0.00 0.00 38.39 4.35
1543 6447 2.322339 ACTTCTTTACGGAGGGTCCT 57.678 50.000 0.00 0.00 33.30 3.85
1544 6448 4.221482 TCTTTACTTCTTTACGGAGGGTCC 59.779 45.833 0.00 0.00 0.00 4.46
1545 6449 5.397142 TCTTTACTTCTTTACGGAGGGTC 57.603 43.478 0.00 0.00 0.00 4.46
1546 6450 5.813513 TTCTTTACTTCTTTACGGAGGGT 57.186 39.130 0.00 0.00 0.00 4.34
1571 6499 9.900710 CTACAATAGTGATCTAGACGCTTTTAT 57.099 33.333 11.80 5.11 0.00 1.40
1572 6500 8.900781 ACTACAATAGTGATCTAGACGCTTTTA 58.099 33.333 11.80 0.00 37.69 1.52
1588 6516 6.183360 GGGAGTACGTCAATCACTACAATAGT 60.183 42.308 0.00 0.00 40.28 2.12
1589 6517 6.039493 AGGGAGTACGTCAATCACTACAATAG 59.961 42.308 0.00 0.00 0.00 1.73
1591 6519 4.710375 AGGGAGTACGTCAATCACTACAAT 59.290 41.667 0.00 0.00 0.00 2.71
1850 6808 6.119240 TCTTCTTCAACATCTCTTGACCAT 57.881 37.500 0.00 0.00 29.62 3.55
1950 6918 6.317857 AGGACGTTTCGTTAGTACTATGAAC 58.682 40.000 14.39 7.13 41.37 3.18
1992 7149 6.645003 GCCAAGTTCTTTGAAACCGAAAATAT 59.355 34.615 0.00 0.00 39.21 1.28
2000 7157 3.809279 CCAATGCCAAGTTCTTTGAAACC 59.191 43.478 0.00 0.00 39.21 3.27
2007 7164 4.503643 CCACAATTCCAATGCCAAGTTCTT 60.504 41.667 0.00 0.00 0.00 2.52
2062 7219 2.901839 GTCCACCAGTTTAGGTCCAGTA 59.098 50.000 0.00 0.00 40.77 2.74
2128 7286 4.712051 TGTAGGAATGAAGGATCATGGG 57.288 45.455 0.00 0.00 45.60 4.00
2133 7291 3.070018 CCGCATGTAGGAATGAAGGATC 58.930 50.000 3.64 0.00 32.09 3.36
2134 7292 2.439507 ACCGCATGTAGGAATGAAGGAT 59.560 45.455 14.83 0.00 33.63 3.24
2135 7293 1.837439 ACCGCATGTAGGAATGAAGGA 59.163 47.619 14.83 0.00 33.63 3.36
2136 7294 2.332063 ACCGCATGTAGGAATGAAGG 57.668 50.000 14.83 0.00 34.79 3.46
2137 7295 3.248602 GCTAACCGCATGTAGGAATGAAG 59.751 47.826 14.83 6.60 38.92 3.02
2138 7296 3.118408 AGCTAACCGCATGTAGGAATGAA 60.118 43.478 14.83 0.00 42.61 2.57
2139 7297 2.434336 AGCTAACCGCATGTAGGAATGA 59.566 45.455 14.83 0.00 42.61 2.57
2140 7298 2.838736 AGCTAACCGCATGTAGGAATG 58.161 47.619 14.83 6.26 42.61 2.67
2141 7299 3.555168 GCTAGCTAACCGCATGTAGGAAT 60.555 47.826 7.70 6.91 42.61 3.01
2142 7300 2.223971 GCTAGCTAACCGCATGTAGGAA 60.224 50.000 7.70 3.57 42.61 3.36
2143 7301 1.340248 GCTAGCTAACCGCATGTAGGA 59.660 52.381 7.70 0.00 42.61 2.94
2144 7302 1.341531 AGCTAGCTAACCGCATGTAGG 59.658 52.381 17.69 7.65 42.61 3.18
2147 7305 2.431057 AGTAAGCTAGCTAACCGCATGT 59.569 45.455 19.70 0.77 42.61 3.21
2494 7668 5.392585 GTGTTTAAATTCATCAGATACGCGC 59.607 40.000 5.73 0.00 0.00 6.86
2511 7685 3.782656 GGAGTCCTTCCAGGTGTTTAA 57.217 47.619 0.41 0.00 46.01 1.52
2543 7717 1.067295 TGGCTTTCCAGGATGACACT 58.933 50.000 0.00 0.00 39.69 3.55
2544 7718 1.168714 GTGGCTTTCCAGGATGACAC 58.831 55.000 11.83 11.83 44.48 3.67
2716 7894 9.906396 TCAATTAATTTGGATCGGAGGCACTCA 62.906 40.741 0.00 0.00 46.08 3.41
2717 7895 7.628286 TCAATTAATTTGGATCGGAGGCACTC 61.628 42.308 0.00 0.00 44.70 3.51
2718 7896 5.864992 TCAATTAATTTGGATCGGAGGCACT 60.865 40.000 0.00 0.00 37.37 4.40
2719 7897 4.338118 TCAATTAATTTGGATCGGAGGCAC 59.662 41.667 0.00 0.00 35.92 5.01
2720 7898 4.338118 GTCAATTAATTTGGATCGGAGGCA 59.662 41.667 0.00 0.00 35.92 4.75
2721 7899 4.338118 TGTCAATTAATTTGGATCGGAGGC 59.662 41.667 0.00 0.00 35.92 4.70
2722 7900 5.356751 TGTGTCAATTAATTTGGATCGGAGG 59.643 40.000 0.00 0.00 35.92 4.30
2723 7901 6.435430 TGTGTCAATTAATTTGGATCGGAG 57.565 37.500 0.00 0.00 35.92 4.63
2724 7902 6.432783 AGTTGTGTCAATTAATTTGGATCGGA 59.567 34.615 0.00 0.00 35.92 4.55
2725 7903 6.620678 AGTTGTGTCAATTAATTTGGATCGG 58.379 36.000 0.00 0.00 35.92 4.18
2726 7904 7.530010 AGAGTTGTGTCAATTAATTTGGATCG 58.470 34.615 0.00 0.00 35.92 3.69
2783 7989 7.007725 CCATCTTATTCGAATTAATTGATGCGC 59.992 37.037 17.19 0.00 32.84 6.09
2803 8009 3.618690 GAGGTTGTGCTACTCCATCTT 57.381 47.619 0.00 0.00 0.00 2.40
2826 8032 6.944557 TCTTAGTGTTGTGAACGTATCATG 57.055 37.500 0.00 0.00 40.97 3.07
3052 8264 2.477863 GCATGTTTTGTCGCTATCCCAC 60.478 50.000 0.00 0.00 0.00 4.61
3057 8269 1.130373 CGGTGCATGTTTTGTCGCTAT 59.870 47.619 0.00 0.00 0.00 2.97
3058 8270 0.515127 CGGTGCATGTTTTGTCGCTA 59.485 50.000 0.00 0.00 0.00 4.26
3059 8271 1.282570 CGGTGCATGTTTTGTCGCT 59.717 52.632 0.00 0.00 0.00 4.93
3062 8274 0.996727 GCGACGGTGCATGTTTTGTC 60.997 55.000 0.00 0.00 34.15 3.18
3076 8288 2.203015 CCATTACTGGGGGCGACG 60.203 66.667 0.00 0.00 39.04 5.12
3099 8311 5.500645 AAGGACAGAAACAAACTAACAGC 57.499 39.130 0.00 0.00 0.00 4.40
3114 8326 3.565902 AGCGGAAGAAAGAAAAAGGACAG 59.434 43.478 0.00 0.00 0.00 3.51
3267 8485 7.458038 ACGAATTTTAAAAGTGTTTGCGATT 57.542 28.000 5.49 0.00 0.00 3.34
3269 8487 7.966157 TTACGAATTTTAAAAGTGTTTGCGA 57.034 28.000 5.49 0.00 0.00 5.10
3270 8488 8.315341 AGTTTACGAATTTTAAAAGTGTTTGCG 58.685 29.630 5.49 5.37 0.00 4.85
3271 8489 9.961266 AAGTTTACGAATTTTAAAAGTGTTTGC 57.039 25.926 5.49 0.00 0.00 3.68
3514 8736 5.068234 TCACGGAGTCGATAAAAGTTCAT 57.932 39.130 0.00 0.00 41.61 2.57


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

AutoCloner maintained by Alex Coulton.