Multiple sequence alignment - TraesCS6A01G268500

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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 TraesCS6A01G268500 chr6A 100.000 4244 0 0 1 4244 495155703 495151460 0.000000e+00 7838.0
1 TraesCS6A01G268500 chr6A 93.631 1994 108 9 1400 3386 494046784 494048765 0.000000e+00 2961.0
2 TraesCS6A01G268500 chr6A 94.585 1902 96 4 1393 3291 493756076 493757973 0.000000e+00 2935.0
3 TraesCS6A01G268500 chr6A 93.555 1862 93 12 1440 3298 493842324 493844161 0.000000e+00 2748.0
4 TraesCS6A01G268500 chr6A 96.220 1111 32 5 3136 4244 494878443 494877341 0.000000e+00 1810.0
5 TraesCS6A01G268500 chr6A 85.864 764 39 18 19 750 494882027 494881301 0.000000e+00 749.0
6 TraesCS6A01G268500 chr6A 88.073 654 42 13 950 1596 494881254 494880630 0.000000e+00 743.0
7 TraesCS6A01G268500 chr6A 92.063 63 5 0 987 1049 493755702 493755764 5.840000e-14 89.8
8 TraesCS6A01G268500 chr6D 89.948 3641 171 71 3 3561 349029779 349033306 0.000000e+00 4516.0
9 TraesCS6A01G268500 chr6D 88.971 3654 213 75 1 3561 348859753 348863309 0.000000e+00 4340.0
10 TraesCS6A01G268500 chr6D 94.408 1359 71 4 1936 3291 350204794 350203438 0.000000e+00 2084.0
11 TraesCS6A01G268500 chr6D 91.677 805 33 14 2760 3561 348994618 348995391 0.000000e+00 1085.0
12 TraesCS6A01G268500 chr6D 87.838 814 36 15 2756 3561 349175691 349176449 0.000000e+00 896.0
13 TraesCS6A01G268500 chr6D 94.488 254 13 1 3308 3561 348839085 348839337 1.430000e-104 390.0
14 TraesCS6A01G268500 chr6B 94.495 2180 77 15 1393 3561 530852429 530850282 0.000000e+00 3321.0
15 TraesCS6A01G268500 chr6B 96.980 1755 44 3 1610 3356 529889858 529891611 0.000000e+00 2939.0
16 TraesCS6A01G268500 chr6B 94.284 1907 96 6 1393 3291 529773812 529775713 0.000000e+00 2905.0
17 TraesCS6A01G268500 chr6B 82.244 1622 230 37 1648 3246 52086465 52088051 0.000000e+00 1347.0
18 TraesCS6A01G268500 chr6B 90.233 686 56 7 3562 4244 489536532 489535855 0.000000e+00 885.0
19 TraesCS6A01G268500 chr6B 84.137 788 44 34 1 749 530853830 530853085 0.000000e+00 688.0
20 TraesCS6A01G268500 chr6B 82.635 501 46 25 767 1254 530853015 530852543 5.110000e-109 405.0
21 TraesCS6A01G268500 chr6B 85.489 317 19 10 3235 3528 564063637 564063325 5.330000e-79 305.0
22 TraesCS6A01G268500 chr6B 92.063 63 5 0 987 1049 529773461 529773523 5.840000e-14 89.8
23 TraesCS6A01G268500 chr6B 78.986 138 17 4 216 341 530998940 530998803 2.720000e-12 84.2
24 TraesCS6A01G268500 chr7B 90.684 687 56 5 3561 4244 676003554 676004235 0.000000e+00 907.0
25 TraesCS6A01G268500 chr3D 90.684 687 55 7 3562 4244 433808867 433809548 0.000000e+00 905.0
26 TraesCS6A01G268500 chr4D 90.393 687 56 8 3562 4244 481073183 481073863 0.000000e+00 894.0
27 TraesCS6A01G268500 chr2B 90.233 686 59 5 3562 4244 661434386 661433706 0.000000e+00 889.0
28 TraesCS6A01G268500 chr5A 89.740 692 57 12 3558 4244 556739766 556740448 0.000000e+00 872.0
29 TraesCS6A01G268500 chr5A 89.740 692 57 12 3558 4244 557087961 557087279 0.000000e+00 872.0
30 TraesCS6A01G268500 chr5A 89.732 672 60 7 3576 4244 699476689 699476024 0.000000e+00 850.0


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 TraesCS6A01G268500 chr6A 495151460 495155703 4243 True 7838.000000 7838 100.000000 1 4244 1 chr6A.!!$R1 4243
1 TraesCS6A01G268500 chr6A 494046784 494048765 1981 False 2961.000000 2961 93.631000 1400 3386 1 chr6A.!!$F2 1986
2 TraesCS6A01G268500 chr6A 493842324 493844161 1837 False 2748.000000 2748 93.555000 1440 3298 1 chr6A.!!$F1 1858
3 TraesCS6A01G268500 chr6A 493755702 493757973 2271 False 1512.400000 2935 93.324000 987 3291 2 chr6A.!!$F3 2304
4 TraesCS6A01G268500 chr6A 494877341 494882027 4686 True 1100.666667 1810 90.052333 19 4244 3 chr6A.!!$R2 4225
5 TraesCS6A01G268500 chr6D 349029779 349033306 3527 False 4516.000000 4516 89.948000 3 3561 1 chr6D.!!$F4 3558
6 TraesCS6A01G268500 chr6D 348859753 348863309 3556 False 4340.000000 4340 88.971000 1 3561 1 chr6D.!!$F2 3560
7 TraesCS6A01G268500 chr6D 350203438 350204794 1356 True 2084.000000 2084 94.408000 1936 3291 1 chr6D.!!$R1 1355
8 TraesCS6A01G268500 chr6D 348994618 348995391 773 False 1085.000000 1085 91.677000 2760 3561 1 chr6D.!!$F3 801
9 TraesCS6A01G268500 chr6D 349175691 349176449 758 False 896.000000 896 87.838000 2756 3561 1 chr6D.!!$F5 805
10 TraesCS6A01G268500 chr6B 529889858 529891611 1753 False 2939.000000 2939 96.980000 1610 3356 1 chr6B.!!$F2 1746
11 TraesCS6A01G268500 chr6B 529773461 529775713 2252 False 1497.400000 2905 93.173500 987 3291 2 chr6B.!!$F3 2304
12 TraesCS6A01G268500 chr6B 530850282 530853830 3548 True 1471.333333 3321 87.089000 1 3561 3 chr6B.!!$R4 3560
13 TraesCS6A01G268500 chr6B 52086465 52088051 1586 False 1347.000000 1347 82.244000 1648 3246 1 chr6B.!!$F1 1598
14 TraesCS6A01G268500 chr6B 489535855 489536532 677 True 885.000000 885 90.233000 3562 4244 1 chr6B.!!$R1 682
15 TraesCS6A01G268500 chr7B 676003554 676004235 681 False 907.000000 907 90.684000 3561 4244 1 chr7B.!!$F1 683
16 TraesCS6A01G268500 chr3D 433808867 433809548 681 False 905.000000 905 90.684000 3562 4244 1 chr3D.!!$F1 682
17 TraesCS6A01G268500 chr4D 481073183 481073863 680 False 894.000000 894 90.393000 3562 4244 1 chr4D.!!$F1 682
18 TraesCS6A01G268500 chr2B 661433706 661434386 680 True 889.000000 889 90.233000 3562 4244 1 chr2B.!!$R1 682
19 TraesCS6A01G268500 chr5A 556739766 556740448 682 False 872.000000 872 89.740000 3558 4244 1 chr5A.!!$F1 686
20 TraesCS6A01G268500 chr5A 557087279 557087961 682 True 872.000000 872 89.740000 3558 4244 1 chr5A.!!$R1 686
21 TraesCS6A01G268500 chr5A 699476024 699476689 665 True 850.000000 850 89.732000 3576 4244 1 chr5A.!!$R2 668

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
862 1016 0.179037 AGAAACACAGCAGCAGCAGA 60.179 50.0 3.17 0.0 45.49 4.26 F
1055 1236 0.249073 CAGCCCGAGGTAACGATCAG 60.249 60.0 0.00 0.0 46.39 2.90 F
1364 1622 0.733150 CTGCAGCATCACATCCACAG 59.267 55.0 0.00 0.0 0.00 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2571 2854 0.037326 ATGACACGATGACGCTGGTT 60.037 50.000 0.0 0.0 43.96 3.67 R
2892 3187 0.171903 GCTGCCACGAAATGCTGATT 59.828 50.000 0.0 0.0 0.00 2.57 R
3359 4469 6.420913 TCCTACATTTTCTCCCTACTATGC 57.579 41.667 0.0 0.0 0.00 3.14 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
60 65 3.199727 GGATGAAGGAAGAAAGAGGAGCT 59.800 47.826 0.00 0.00 0.00 4.09
110 122 1.279271 GGAGGTGTAGGTGCTCAACAT 59.721 52.381 0.00 0.00 0.00 2.71
111 123 2.290323 GGAGGTGTAGGTGCTCAACATT 60.290 50.000 0.00 0.00 0.00 2.71
112 124 3.003480 GAGGTGTAGGTGCTCAACATTC 58.997 50.000 0.00 0.00 0.00 2.67
113 125 2.371841 AGGTGTAGGTGCTCAACATTCA 59.628 45.455 0.00 0.00 0.00 2.57
114 126 3.146066 GGTGTAGGTGCTCAACATTCAA 58.854 45.455 0.00 0.00 0.00 2.69
115 127 3.058224 GGTGTAGGTGCTCAACATTCAAC 60.058 47.826 0.00 0.00 0.00 3.18
116 128 3.563808 GTGTAGGTGCTCAACATTCAACA 59.436 43.478 0.00 0.00 0.00 3.33
117 129 4.036262 GTGTAGGTGCTCAACATTCAACAA 59.964 41.667 0.00 0.00 0.00 2.83
172 186 2.968574 GACCTTAGAGCTGGGATCATCA 59.031 50.000 0.00 0.00 0.00 3.07
175 189 5.158141 ACCTTAGAGCTGGGATCATCATTA 58.842 41.667 0.00 0.00 0.00 1.90
176 190 5.248020 ACCTTAGAGCTGGGATCATCATTAG 59.752 44.000 0.00 0.00 0.00 1.73
360 423 2.509336 CAGCCTTGGCGGTAGTCG 60.509 66.667 5.95 0.00 42.76 4.18
361 424 2.678934 AGCCTTGGCGGTAGTCGA 60.679 61.111 5.95 0.00 42.43 4.20
362 425 2.058595 AGCCTTGGCGGTAGTCGAT 61.059 57.895 5.95 0.00 42.43 3.59
363 426 1.591863 GCCTTGGCGGTAGTCGATC 60.592 63.158 0.00 0.00 42.43 3.69
379 442 2.031420 TCGATCGACGACAAGTTTGACT 60.031 45.455 15.15 0.00 46.45 3.41
404 467 2.875087 TCGTTCTCTCCGTTTGACAA 57.125 45.000 0.00 0.00 0.00 3.18
444 507 4.082523 GCCTCTGCACCTACCGCA 62.083 66.667 0.00 0.00 37.47 5.69
506 569 1.073923 GTCCCTGTGATCCCAACTTGT 59.926 52.381 0.00 0.00 0.00 3.16
507 570 1.780309 TCCCTGTGATCCCAACTTGTT 59.220 47.619 0.00 0.00 0.00 2.83
527 590 2.358737 CACGCCCAGTTCAGTCCC 60.359 66.667 0.00 0.00 0.00 4.46
528 591 2.526873 ACGCCCAGTTCAGTCCCT 60.527 61.111 0.00 0.00 0.00 4.20
529 592 2.266055 CGCCCAGTTCAGTCCCTC 59.734 66.667 0.00 0.00 0.00 4.30
530 593 2.286523 CGCCCAGTTCAGTCCCTCT 61.287 63.158 0.00 0.00 0.00 3.69
534 597 0.247736 CCAGTTCAGTCCCTCTTCCG 59.752 60.000 0.00 0.00 0.00 4.30
612 697 2.357517 CACACTGTGGAGACCGGC 60.358 66.667 13.09 0.00 0.00 6.13
807 961 1.680249 GGATCCTGTCCAAGTCCAAGC 60.680 57.143 3.84 0.00 46.96 4.01
857 1011 2.027325 CAGCAGAAACACAGCAGCA 58.973 52.632 0.00 0.00 33.37 4.41
862 1016 0.179037 AGAAACACAGCAGCAGCAGA 60.179 50.000 3.17 0.00 45.49 4.26
886 1040 1.003597 AGACAGAGCAGCAGCCAAG 60.004 57.895 0.00 0.00 43.56 3.61
941 1100 6.591750 TCAAACTGAAAGCTAGCTACTAGT 57.408 37.500 19.70 18.13 37.60 2.57
942 1101 6.994221 TCAAACTGAAAGCTAGCTACTAGTT 58.006 36.000 19.70 22.37 37.60 2.24
943 1102 8.118976 TCAAACTGAAAGCTAGCTACTAGTTA 57.881 34.615 26.92 16.93 37.60 2.24
944 1103 8.244802 TCAAACTGAAAGCTAGCTACTAGTTAG 58.755 37.037 26.92 17.66 37.60 2.34
945 1104 6.702716 ACTGAAAGCTAGCTACTAGTTAGG 57.297 41.667 19.70 6.91 37.60 2.69
946 1105 6.424883 ACTGAAAGCTAGCTACTAGTTAGGA 58.575 40.000 19.70 0.00 37.60 2.94
947 1106 6.890814 ACTGAAAGCTAGCTACTAGTTAGGAA 59.109 38.462 19.70 0.00 37.60 3.36
948 1107 7.562088 ACTGAAAGCTAGCTACTAGTTAGGAAT 59.438 37.037 19.70 0.00 37.60 3.01
1026 1207 2.364842 ATGGAGAGAGGCCAGCGT 60.365 61.111 5.01 0.00 39.11 5.07
1055 1236 0.249073 CAGCCCGAGGTAACGATCAG 60.249 60.000 0.00 0.00 46.39 2.90
1056 1237 1.591863 GCCCGAGGTAACGATCAGC 60.592 63.158 0.00 0.00 46.39 4.26
1058 1239 1.944676 CCGAGGTAACGATCAGCGC 60.945 63.158 0.00 0.00 46.04 5.92
1059 1240 2.286559 CGAGGTAACGATCAGCGCG 61.287 63.158 0.00 0.00 46.04 6.86
1060 1241 2.577785 GAGGTAACGATCAGCGCGC 61.578 63.158 26.66 26.66 46.04 6.86
1061 1242 3.972803 GGTAACGATCAGCGCGCG 61.973 66.667 28.44 28.44 46.04 6.86
1062 1243 4.612653 GTAACGATCAGCGCGCGC 62.613 66.667 45.10 45.10 46.04 6.86
1092 1273 1.692042 CTCCCTGCCACCATCCTCT 60.692 63.158 0.00 0.00 0.00 3.69
1100 1281 0.835941 CCACCATCCTCTTCCTCCTG 59.164 60.000 0.00 0.00 0.00 3.86
1101 1282 1.577736 CACCATCCTCTTCCTCCTGT 58.422 55.000 0.00 0.00 0.00 4.00
1102 1283 1.209019 CACCATCCTCTTCCTCCTGTG 59.791 57.143 0.00 0.00 0.00 3.66
1104 1285 1.202330 CATCCTCTTCCTCCTGTGCT 58.798 55.000 0.00 0.00 0.00 4.40
1163 1373 5.903764 TGAAAACTGAAATGCAAAATCCG 57.096 34.783 0.00 0.00 0.00 4.18
1164 1374 4.210955 TGAAAACTGAAATGCAAAATCCGC 59.789 37.500 0.00 0.00 0.00 5.54
1222 1434 1.357137 TGTGCACCTCCATTAGACCA 58.643 50.000 15.69 0.00 0.00 4.02
1281 1519 2.766970 AACACGTGGTTAACACATGC 57.233 45.000 21.57 0.00 46.64 4.06
1282 1520 1.961793 ACACGTGGTTAACACATGCT 58.038 45.000 21.57 0.00 46.64 3.79
1283 1521 1.601903 ACACGTGGTTAACACATGCTG 59.398 47.619 21.57 10.83 46.64 4.41
1322 1560 4.327680 CCCTTCCTTTTCTAACCAGACAG 58.672 47.826 0.00 0.00 0.00 3.51
1362 1620 1.432251 GCTGCAGCATCACATCCAC 59.568 57.895 33.36 0.00 41.59 4.02
1364 1622 0.733150 CTGCAGCATCACATCCACAG 59.267 55.000 0.00 0.00 0.00 3.66
1377 1635 3.261580 CATCCACAGCTCGTCAATACAA 58.738 45.455 0.00 0.00 0.00 2.41
1378 1636 2.683968 TCCACAGCTCGTCAATACAAC 58.316 47.619 0.00 0.00 0.00 3.32
1387 1645 4.917415 GCTCGTCAATACAACTGCATTTTT 59.083 37.500 0.00 0.00 0.00 1.94
1547 1813 2.287915 GCACCCGCAGTAATTCTATGTG 59.712 50.000 0.00 0.00 38.36 3.21
2226 2503 3.860605 ATCGCCACCGCCTGCATA 61.861 61.111 0.00 0.00 0.00 3.14
2340 2617 2.870372 GCCGCGTGCAAGAAGATT 59.130 55.556 13.61 0.00 40.77 2.40
2571 2854 2.584064 CTGCTGCCCGTGTGGATA 59.416 61.111 0.00 0.00 37.49 2.59
2901 3196 2.094675 CGTGGGGAAGAAATCAGCATT 58.905 47.619 0.00 0.00 0.00 3.56
3359 4469 6.360370 AGCCAGGTACATATATACACAAGG 57.640 41.667 0.00 0.00 0.00 3.61
3362 4472 6.711277 CCAGGTACATATATACACAAGGCAT 58.289 40.000 0.00 0.00 0.00 4.40
3369 4479 8.079211 ACATATATACACAAGGCATAGTAGGG 57.921 38.462 0.00 0.00 0.00 3.53
3573 4685 6.627243 ACATGCGAGTAGTGTAGAAATTGTA 58.373 36.000 0.00 0.00 0.00 2.41
3597 4709 1.471684 GAAGCGTTCTACCCTCTCGAA 59.528 52.381 0.00 0.00 0.00 3.71
3629 4741 6.315144 CCGCGGGTATTTATTGATAATGATGA 59.685 38.462 20.10 0.00 0.00 2.92
3668 4780 4.091509 CGCATACAAGACTTGGAGTACAAC 59.908 45.833 19.16 0.00 34.76 3.32
3832 4949 8.882415 TCAAGTTGAGACTACGTCTAAATTTT 57.118 30.769 0.08 0.00 43.53 1.82
3904 5021 8.044309 TGATCTCCAAAGTGAATAAACCGAATA 58.956 33.333 0.00 0.00 0.00 1.75
3984 5101 2.929641 TGTTCTGGCATGAAACACTGA 58.070 42.857 0.00 0.00 0.00 3.41
4007 5124 2.770164 AGCAGAAAGATAAGTGGCGT 57.230 45.000 0.00 0.00 0.00 5.68
4020 5137 2.540515 AGTGGCGTCAAGATTATCACG 58.459 47.619 0.00 0.00 35.32 4.35
4034 5151 6.119536 AGATTATCACGCCATAAACAAGGAA 58.880 36.000 0.00 0.00 0.00 3.36
4133 5250 8.524487 GTGCCTTATACTCAGCTTATGTACTAT 58.476 37.037 0.00 0.00 0.00 2.12
4144 5261 5.706369 AGCTTATGTACTATACCTGGAGACG 59.294 44.000 0.00 0.00 0.00 4.18
4145 5262 5.704515 GCTTATGTACTATACCTGGAGACGA 59.295 44.000 0.00 0.00 0.00 4.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 6.406961 CCTTCTTGCCTTTTACCTTCAACTTT 60.407 38.462 0.00 0.00 0.00 2.66
8 9 4.583073 TCCTTCTTGCCTTTTACCTTCAAC 59.417 41.667 0.00 0.00 0.00 3.18
9 10 4.798882 TCCTTCTTGCCTTTTACCTTCAA 58.201 39.130 0.00 0.00 0.00 2.69
16 17 4.827284 CCAGACTTTCCTTCTTGCCTTTTA 59.173 41.667 0.00 0.00 0.00 1.52
60 65 5.898174 TGAAAAGTGTCGAAGTAGAGTCAA 58.102 37.500 0.00 0.00 0.00 3.18
172 186 4.563580 CGGTCTATATGCACCTTGCCTAAT 60.564 45.833 0.00 0.00 44.23 1.73
175 189 1.070758 CGGTCTATATGCACCTTGCCT 59.929 52.381 0.00 0.00 44.23 4.75
176 190 1.202651 ACGGTCTATATGCACCTTGCC 60.203 52.381 0.00 0.00 44.23 4.52
272 305 1.678101 GGAGGATGCGATTTGAAAGGG 59.322 52.381 0.00 0.00 0.00 3.95
360 423 4.089636 GGTAAGTCAAACTTGTCGTCGATC 59.910 45.833 0.00 0.00 39.11 3.69
361 424 3.985925 GGTAAGTCAAACTTGTCGTCGAT 59.014 43.478 0.00 0.00 39.11 3.59
362 425 3.181488 TGGTAAGTCAAACTTGTCGTCGA 60.181 43.478 2.65 0.00 39.11 4.20
363 426 3.117794 TGGTAAGTCAAACTTGTCGTCG 58.882 45.455 2.65 0.00 39.11 5.12
379 442 3.256383 TCAAACGGAGAGAACGATGGTAA 59.744 43.478 0.00 0.00 34.93 2.85
404 467 5.369409 TGAGAAGGATGATGAGCTGATTT 57.631 39.130 0.00 0.00 0.00 2.17
444 507 2.015456 TGTCTGTCTCATCCAGTGGT 57.985 50.000 9.54 0.00 0.00 4.16
506 569 2.594303 CTGAACTGGGCGTGGCAA 60.594 61.111 0.00 0.00 0.00 4.52
507 570 3.825160 GACTGAACTGGGCGTGGCA 62.825 63.158 0.00 0.00 0.00 4.92
534 597 3.683587 GATTTGCTTGGCGCCGGAC 62.684 63.158 23.90 13.89 38.05 4.79
857 1011 0.602562 GCTCTGTCTGTCTGTCTGCT 59.397 55.000 0.00 0.00 0.00 4.24
862 1016 0.317799 CTGCTGCTCTGTCTGTCTGT 59.682 55.000 0.00 0.00 0.00 3.41
941 1100 9.614792 GAAGTTTGAGCTAATCCTAATTCCTAA 57.385 33.333 0.00 0.00 0.00 2.69
942 1101 8.211629 GGAAGTTTGAGCTAATCCTAATTCCTA 58.788 37.037 0.00 0.00 0.00 2.94
943 1102 7.057264 GGAAGTTTGAGCTAATCCTAATTCCT 58.943 38.462 0.00 0.00 0.00 3.36
944 1103 6.017852 CGGAAGTTTGAGCTAATCCTAATTCC 60.018 42.308 0.00 0.00 0.00 3.01
945 1104 6.511929 GCGGAAGTTTGAGCTAATCCTAATTC 60.512 42.308 0.00 0.00 0.00 2.17
946 1105 5.297029 GCGGAAGTTTGAGCTAATCCTAATT 59.703 40.000 0.00 0.00 0.00 1.40
947 1106 4.816925 GCGGAAGTTTGAGCTAATCCTAAT 59.183 41.667 0.00 0.00 0.00 1.73
948 1107 4.081087 AGCGGAAGTTTGAGCTAATCCTAA 60.081 41.667 0.00 0.00 38.29 2.69
1037 1218 2.017559 GCTGATCGTTACCTCGGGCT 62.018 60.000 0.00 0.00 0.00 5.19
1092 1273 3.650950 GGGGCAGCACAGGAGGAA 61.651 66.667 0.00 0.00 0.00 3.36
1163 1373 1.154150 GATGCTGAAGCGTGGTTGC 60.154 57.895 0.79 0.00 45.83 4.17
1164 1374 1.503542 GGATGCTGAAGCGTGGTTG 59.496 57.895 0.79 0.00 45.83 3.77
1222 1434 8.008513 TCTCTGTGTTCTTGTAAGTTAGACTT 57.991 34.615 0.00 0.00 41.97 3.01
1280 1518 0.879765 GGCTGGATATGCATGTCAGC 59.120 55.000 27.63 27.63 46.97 4.26
1281 1519 1.531423 GGGCTGGATATGCATGTCAG 58.469 55.000 22.90 19.26 0.00 3.51
1282 1520 0.111061 GGGGCTGGATATGCATGTCA 59.889 55.000 22.90 11.06 0.00 3.58
1283 1521 0.610232 GGGGGCTGGATATGCATGTC 60.610 60.000 14.60 14.60 0.00 3.06
1322 1560 1.369091 GACCGTGATGTGGATGTGCC 61.369 60.000 0.00 0.00 37.10 5.01
1362 1620 2.068519 TGCAGTTGTATTGACGAGCTG 58.931 47.619 0.00 0.00 0.00 4.24
1364 1622 3.747099 AATGCAGTTGTATTGACGAGC 57.253 42.857 0.00 0.00 0.00 5.03
1531 1797 5.469373 TTTGCTCACATAGAATTACTGCG 57.531 39.130 0.00 0.00 0.00 5.18
2289 2566 3.068691 AGGCTCTTGAGCGGCGTA 61.069 61.111 15.30 0.00 35.24 4.42
2571 2854 0.037326 ATGACACGATGACGCTGGTT 60.037 50.000 0.00 0.00 43.96 3.67
2892 3187 0.171903 GCTGCCACGAAATGCTGATT 59.828 50.000 0.00 0.00 0.00 2.57
3359 4469 6.420913 TCCTACATTTTCTCCCTACTATGC 57.579 41.667 0.00 0.00 0.00 3.14
3362 4472 9.310449 GTGATATCCTACATTTTCTCCCTACTA 57.690 37.037 0.00 0.00 0.00 1.82
3573 4685 0.896226 GAGGGTAGAACGCTTCCACT 59.104 55.000 0.00 0.00 41.76 4.00
3597 4709 1.117150 TAAATACCCGCGGCTCTCTT 58.883 50.000 22.85 11.13 0.00 2.85
3602 4714 2.561478 ATCAATAAATACCCGCGGCT 57.439 45.000 22.85 9.53 0.00 5.52
3629 4741 3.977134 ATGCGATCATGAGATAAGCCT 57.023 42.857 0.09 0.00 37.25 4.58
3638 4750 4.122046 CCAAGTCTTGTATGCGATCATGA 58.878 43.478 11.61 0.00 34.22 3.07
3818 4935 6.310711 AGGAGCTTCGAAAAATTTAGACGTAG 59.689 38.462 0.00 3.02 0.00 3.51
3832 4949 0.973632 TGCCTACAAGGAGCTTCGAA 59.026 50.000 0.00 0.00 37.67 3.71
3871 4988 3.264947 TCACTTTGGAGATCAGATTGCG 58.735 45.455 0.00 0.00 0.00 4.85
3984 5101 5.186198 ACGCCACTTATCTTTCTGCTAATT 58.814 37.500 0.00 0.00 0.00 1.40
4007 5124 6.038161 CCTTGTTTATGGCGTGATAATCTTGA 59.962 38.462 0.00 0.00 0.00 3.02
4020 5137 3.658757 TGCAAGTTCCTTGTTTATGGC 57.341 42.857 5.92 0.00 42.77 4.40
4034 5151 2.653726 TGGAGTGACACAAATGCAAGT 58.346 42.857 8.59 0.00 0.00 3.16
4133 5250 1.214673 ACAGGCTATCGTCTCCAGGTA 59.785 52.381 0.00 0.00 0.00 3.08
4144 5261 3.366374 GGTGTGCAAAGAAACAGGCTATC 60.366 47.826 0.00 0.00 0.00 2.08
4145 5262 2.558359 GGTGTGCAAAGAAACAGGCTAT 59.442 45.455 0.00 0.00 0.00 2.97


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

AutoCloner maintained by Alex Coulton.