Multiple sequence alignment - TraesCS5B01G497300

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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 TraesCS5B01G497300 chr5B 100.000 6038 0 0 1 6038 664381095 664375058 0.000000e+00 11151.0
1 TraesCS5B01G497300 chr5A 96.055 3143 92 4 1840 4959 655074162 655071029 0.000000e+00 5088.0
2 TraesCS5B01G497300 chr5A 95.107 1492 62 6 7 1495 655075996 655074513 0.000000e+00 2340.0
3 TraesCS5B01G497300 chr5A 94.450 1009 34 5 5032 6038 655071031 655070043 0.000000e+00 1533.0
4 TraesCS5B01G497300 chr5A 93.053 547 29 5 5496 6038 3896040 3896581 0.000000e+00 791.0
5 TraesCS5B01G497300 chr5A 96.096 333 11 2 1493 1824 655074480 655074149 5.320000e-150 542.0
6 TraesCS5B01G497300 chr5D 96.399 2333 73 8 1493 3819 527606465 527604138 0.000000e+00 3832.0
7 TraesCS5B01G497300 chr5D 96.228 2333 77 8 1493 3819 527576860 527574533 0.000000e+00 3810.0
8 TraesCS5B01G497300 chr5D 94.984 2233 72 10 3821 6038 527573896 527571689 0.000000e+00 3467.0
9 TraesCS5B01G497300 chr5D 94.984 2233 72 10 3821 6038 527603459 527601252 0.000000e+00 3467.0
10 TraesCS5B01G497300 chr5D 95.311 1493 56 5 5 1495 527578374 527576894 0.000000e+00 2357.0
11 TraesCS5B01G497300 chr5D 95.311 1493 56 5 5 1495 527607979 527606499 0.000000e+00 2357.0
12 TraesCS5B01G497300 chr5D 92.883 548 24 4 5496 6038 127927645 127928182 0.000000e+00 782.0
13 TraesCS5B01G497300 chr5D 80.784 1020 90 47 5067 6038 527694365 527693404 0.000000e+00 701.0
14 TraesCS5B01G497300 chr6D 85.552 3177 384 33 1843 4989 47625609 47622478 0.000000e+00 3254.0
15 TraesCS5B01G497300 chr6D 84.168 979 115 22 526 1495 47626912 47625965 0.000000e+00 913.0
16 TraesCS5B01G497300 chr6D 92.701 548 26 3 5496 6038 450176861 450177399 0.000000e+00 778.0
17 TraesCS5B01G497300 chr6D 79.650 457 62 25 5067 5508 47622482 47622042 3.540000e-77 300.0
18 TraesCS5B01G497300 chr6A 85.348 3194 379 44 1837 4986 68127686 68130834 0.000000e+00 3223.0
19 TraesCS5B01G497300 chr6A 85.394 938 96 23 563 1489 68126423 68127330 0.000000e+00 935.0
20 TraesCS5B01G497300 chr6A 91.243 571 22 4 5496 6038 163161102 163161672 0.000000e+00 752.0
21 TraesCS5B01G497300 chr3A 82.285 2162 293 48 1493 3616 191533702 191531593 0.000000e+00 1788.0
22 TraesCS5B01G497300 chr3A 85.714 476 53 9 1030 1495 191534206 191533736 7.030000e-134 488.0
23 TraesCS5B01G497300 chr3D 83.611 1800 251 24 1840 3616 161711792 161710014 0.000000e+00 1650.0
24 TraesCS5B01G497300 chr3D 93.878 49 3 0 3621 3669 161709713 161709665 2.330000e-09 75.0
25 TraesCS5B01G497300 chr3B 83.185 1802 252 29 1840 3616 238313041 238311266 0.000000e+00 1602.0
26 TraesCS5B01G497300 chr3B 85.924 476 52 9 1030 1495 238313877 238313407 1.510000e-135 494.0
27 TraesCS5B01G497300 chr6B 83.983 1642 223 23 3357 4986 124083946 124085559 0.000000e+00 1539.0
28 TraesCS5B01G497300 chr6B 84.167 480 63 6 539 1016 124080870 124081338 2.570000e-123 453.0
29 TraesCS5B01G497300 chr6B 80.263 456 61 20 5067 5509 124085558 124085997 3.510000e-82 316.0
30 TraesCS5B01G497300 chrUn 84.015 1564 202 25 1493 3047 62647542 62649066 0.000000e+00 1459.0
31 TraesCS5B01G497300 chrUn 81.478 1231 215 6 3621 4849 62649172 62650391 0.000000e+00 998.0
32 TraesCS5B01G497300 chrUn 76.079 1158 242 28 3665 4810 62558083 62559217 6.790000e-159 571.0
33 TraesCS5B01G497300 chrUn 76.059 1157 244 26 3665 4810 62614022 62615156 6.790000e-159 571.0
34 TraesCS5B01G497300 chr7B 82.970 1192 175 18 2308 3494 736138535 736139703 0.000000e+00 1051.0
35 TraesCS5B01G497300 chr7B 80.598 1237 233 5 3622 4856 736139808 736141039 0.000000e+00 948.0
36 TraesCS5B01G497300 chr7B 81.906 829 94 28 1024 1824 736137396 736138196 0.000000e+00 649.0
37 TraesCS5B01G497300 chr7B 85.567 97 10 3 4975 5068 84186610 84186515 1.380000e-16 99.0
38 TraesCS5B01G497300 chr1D 92.701 548 26 3 5496 6038 415607995 415607457 0.000000e+00 778.0
39 TraesCS5B01G497300 chr7D 92.701 548 25 4 5496 6038 340194351 340193814 0.000000e+00 776.0
40 TraesCS5B01G497300 chr7D 92.857 84 3 2 4991 5071 234073754 234073671 1.060000e-22 119.0
41 TraesCS5B01G497300 chr1A 88.842 475 42 5 1029 1493 576355373 576354900 1.890000e-159 573.0
42 TraesCS5B01G497300 chr1A 85.352 512 56 11 4485 4989 576352993 576352494 4.170000e-141 512.0
43 TraesCS5B01G497300 chr1A 79.452 146 15 8 350 480 576356002 576355857 8.340000e-14 89.8
44 TraesCS5B01G497300 chr2B 96.154 78 2 1 4992 5068 762916546 762916469 6.350000e-25 126.0
45 TraesCS5B01G497300 chr2B 93.902 82 3 2 4989 5068 762916464 762916545 8.220000e-24 122.0
46 TraesCS5B01G497300 chr2B 90.909 88 4 3 4986 5070 794694464 794694550 1.380000e-21 115.0
47 TraesCS5B01G497300 chr2B 90.909 88 4 3 4986 5070 794803365 794803451 1.380000e-21 115.0
48 TraesCS5B01G497300 chr2B 91.139 79 4 2 4993 5068 794694548 794694470 2.980000e-18 104.0
49 TraesCS5B01G497300 chr2B 91.139 79 4 2 4993 5068 794803449 794803371 2.980000e-18 104.0
50 TraesCS5B01G497300 chr2A 84.211 114 8 7 4972 5080 601612900 601612792 1.070000e-17 102.0


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 TraesCS5B01G497300 chr5B 664375058 664381095 6037 True 11151.000000 11151 100.000000 1 6038 1 chr5B.!!$R1 6037
1 TraesCS5B01G497300 chr5A 655070043 655075996 5953 True 2375.750000 5088 95.427000 7 6038 4 chr5A.!!$R1 6031
2 TraesCS5B01G497300 chr5A 3896040 3896581 541 False 791.000000 791 93.053000 5496 6038 1 chr5A.!!$F1 542
3 TraesCS5B01G497300 chr5D 527601252 527607979 6727 True 3218.666667 3832 95.564667 5 6038 3 chr5D.!!$R3 6033
4 TraesCS5B01G497300 chr5D 527571689 527578374 6685 True 3211.333333 3810 95.507667 5 6038 3 chr5D.!!$R2 6033
5 TraesCS5B01G497300 chr5D 127927645 127928182 537 False 782.000000 782 92.883000 5496 6038 1 chr5D.!!$F1 542
6 TraesCS5B01G497300 chr5D 527693404 527694365 961 True 701.000000 701 80.784000 5067 6038 1 chr5D.!!$R1 971
7 TraesCS5B01G497300 chr6D 47622042 47626912 4870 True 1489.000000 3254 83.123333 526 5508 3 chr6D.!!$R1 4982
8 TraesCS5B01G497300 chr6D 450176861 450177399 538 False 778.000000 778 92.701000 5496 6038 1 chr6D.!!$F1 542
9 TraesCS5B01G497300 chr6A 68126423 68130834 4411 False 2079.000000 3223 85.371000 563 4986 2 chr6A.!!$F2 4423
10 TraesCS5B01G497300 chr6A 163161102 163161672 570 False 752.000000 752 91.243000 5496 6038 1 chr6A.!!$F1 542
11 TraesCS5B01G497300 chr3A 191531593 191534206 2613 True 1138.000000 1788 83.999500 1030 3616 2 chr3A.!!$R1 2586
12 TraesCS5B01G497300 chr3D 161709665 161711792 2127 True 862.500000 1650 88.744500 1840 3669 2 chr3D.!!$R1 1829
13 TraesCS5B01G497300 chr3B 238311266 238313877 2611 True 1048.000000 1602 84.554500 1030 3616 2 chr3B.!!$R1 2586
14 TraesCS5B01G497300 chr6B 124080870 124085997 5127 False 769.333333 1539 82.804333 539 5509 3 chr6B.!!$F1 4970
15 TraesCS5B01G497300 chrUn 62647542 62650391 2849 False 1228.500000 1459 82.746500 1493 4849 2 chrUn.!!$F3 3356
16 TraesCS5B01G497300 chrUn 62558083 62559217 1134 False 571.000000 571 76.079000 3665 4810 1 chrUn.!!$F1 1145
17 TraesCS5B01G497300 chrUn 62614022 62615156 1134 False 571.000000 571 76.059000 3665 4810 1 chrUn.!!$F2 1145
18 TraesCS5B01G497300 chr7B 736137396 736141039 3643 False 882.666667 1051 81.824667 1024 4856 3 chr7B.!!$F1 3832
19 TraesCS5B01G497300 chr1D 415607457 415607995 538 True 778.000000 778 92.701000 5496 6038 1 chr1D.!!$R1 542
20 TraesCS5B01G497300 chr7D 340193814 340194351 537 True 776.000000 776 92.701000 5496 6038 1 chr7D.!!$R2 542
21 TraesCS5B01G497300 chr1A 576352494 576356002 3508 True 391.600000 573 84.548667 350 4989 3 chr1A.!!$R1 4639

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
513 530 1.001633 TCTGGGTGCCTAAACGAGTTC 59.998 52.381 0.0 0.00 0.00 3.01 F
1020 3225 1.056660 TGGAGAAACTGAGTCCCACC 58.943 55.000 0.0 0.00 0.00 4.61 F
1563 3946 0.841961 CATGGAGCCCTGATGGAGAA 59.158 55.000 0.0 0.00 35.39 2.87 F
2635 5102 1.172812 GCGGAACAAGCAAAGAGGGT 61.173 55.000 0.0 0.00 34.19 4.34 F
3421 5914 1.180029 GGCAGTGATCCAGCATTTGT 58.820 50.000 0.0 0.00 0.00 2.83 F
3943 7434 0.936764 CCGCACTATGCAGAGCTACG 60.937 60.000 8.6 9.61 45.36 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1491 3874 1.406614 GCCATGACACCCTTCTCTCAG 60.407 57.143 0.00 0.0 0.00 3.35 R
2802 5269 0.667993 AAGCATGTTGGTGTTGTCGG 59.332 50.000 0.00 0.0 0.00 4.79 R
3113 5591 2.237143 CTGTCCTGACAATAGAAGGCCA 59.763 50.000 5.01 0.0 41.33 5.36 R
3943 7434 0.395724 CCATGGTAGAAGCCCCAACC 60.396 60.000 2.57 0.0 33.66 3.77 R
4458 7958 1.903294 AGCATCATCAGACGGTGCT 59.097 52.632 0.00 0.0 40.99 4.40 R
5541 9060 2.119801 AGAAGAAATGCGTGCCTGAT 57.880 45.000 0.00 0.0 0.00 2.90 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
129 130 1.830408 CCCGTTTGAACCCTTGCCA 60.830 57.895 0.00 0.00 0.00 4.92
132 133 1.889829 CCGTTTGAACCCTTGCCATTA 59.110 47.619 0.00 0.00 0.00 1.90
225 227 4.929819 AGAGCCGTGGTTACAAAATTTT 57.070 36.364 0.00 0.00 0.00 1.82
432 448 5.475564 TGGTTACAAATACAAAGGCTTCTCC 59.524 40.000 0.00 0.00 0.00 3.71
494 511 4.094294 TGTGCACTAGTTTGACTGTTTGTC 59.906 41.667 19.41 0.00 45.54 3.18
513 530 1.001633 TCTGGGTGCCTAAACGAGTTC 59.998 52.381 0.00 0.00 0.00 3.01
573 590 4.145052 AGGGTTCATGAGTTGGTTCTTTC 58.855 43.478 0.00 0.00 0.00 2.62
671 688 9.341899 CTTATTATGTTGTTAGGCAAGTTTGTC 57.658 33.333 0.00 0.00 37.83 3.18
765 784 5.279456 GCAAACCTAATGACCAACTTGGAAT 60.279 40.000 15.14 5.04 40.96 3.01
799 818 2.685106 TCACTCCTCTGTTCTCCACT 57.315 50.000 0.00 0.00 0.00 4.00
908 929 7.489757 GTGATTTGTGACCTCAGTTCTATACTC 59.510 40.741 0.00 0.00 33.85 2.59
944 965 7.906611 TTGCATTATTTATCAATCGGTTTCG 57.093 32.000 0.00 0.00 37.82 3.46
1020 3225 1.056660 TGGAGAAACTGAGTCCCACC 58.943 55.000 0.00 0.00 0.00 4.61
1319 3651 7.715249 GGATCTGCTAATGGTGAATTTACACTA 59.285 37.037 2.50 0.00 40.22 2.74
1486 3869 5.899120 TGTACTTTGTTTGCAAACCTACA 57.101 34.783 33.33 26.93 39.43 2.74
1488 3871 6.269315 TGTACTTTGTTTGCAAACCTACATG 58.731 36.000 33.33 20.73 39.43 3.21
1491 3874 5.810074 ACTTTGTTTGCAAACCTACATGTTC 59.190 36.000 33.33 10.44 39.43 3.18
1563 3946 0.841961 CATGGAGCCCTGATGGAGAA 59.158 55.000 0.00 0.00 35.39 2.87
1601 3985 6.374333 TGTTAATATTTCAGTCTTCACCCAGC 59.626 38.462 0.00 0.00 0.00 4.85
1659 4052 5.801947 GTGCTCCATTGTTGTTTAAGCATAG 59.198 40.000 0.00 0.00 40.08 2.23
1684 4079 2.500509 TTTGGCTTTTAGGTGTTGCG 57.499 45.000 0.00 0.00 0.00 4.85
1865 4299 4.992319 TGACTGTTGTTACTAACCCATTCG 59.008 41.667 0.00 0.00 0.00 3.34
1870 4304 5.697633 TGTTGTTACTAACCCATTCGTTCTC 59.302 40.000 0.00 0.00 0.00 2.87
2128 4562 4.459337 GCACCTGTATATTCTATTTGCCCC 59.541 45.833 0.00 0.00 0.00 5.80
2225 4662 6.402222 GGATATAGATGGTTGCTCCTTAGTG 58.598 44.000 0.80 0.00 37.07 2.74
2433 4885 4.725790 CCTTGATGGGAAAATGAAGACC 57.274 45.455 0.00 0.00 0.00 3.85
2635 5102 1.172812 GCGGAACAAGCAAAGAGGGT 61.173 55.000 0.00 0.00 34.19 4.34
2783 5250 2.767536 GCTGCTGGCGAAGATAACA 58.232 52.632 0.00 0.00 0.00 2.41
2802 5269 9.382275 AGATAACAAAATTATGTTTTGGGATGC 57.618 29.630 17.20 7.23 40.52 3.91
2806 5273 4.385358 AATTATGTTTTGGGATGCCGAC 57.615 40.909 0.00 0.00 0.00 4.79
2949 5427 2.882761 GAGCTTTCCACGGTTAAGGTTT 59.117 45.455 0.00 0.00 30.47 3.27
3098 5576 2.983229 TGAAGCTTCTGAGATGAAGGC 58.017 47.619 26.09 0.00 42.53 4.35
3249 5727 4.218417 ACATTGGCCAAACTGATCACTTAC 59.782 41.667 24.71 0.00 0.00 2.34
3364 5857 7.831690 TCCATGCTTACCTTATCAACAACAATA 59.168 33.333 0.00 0.00 0.00 1.90
3421 5914 1.180029 GGCAGTGATCCAGCATTTGT 58.820 50.000 0.00 0.00 0.00 2.83
3753 6566 4.778143 GTCCATGCCGCCCTCGTT 62.778 66.667 0.00 0.00 0.00 3.85
3931 7422 1.252215 TTCCACCGTCATCCGCACTA 61.252 55.000 0.00 0.00 34.38 2.74
3943 7434 0.936764 CCGCACTATGCAGAGCTACG 60.937 60.000 8.60 9.61 45.36 3.51
4000 7491 2.300967 TGCTCCCGGAAAGGCAGAT 61.301 57.895 0.73 0.00 39.21 2.90
4038 7535 1.375551 ACCTGGTCAACGACAACAAC 58.624 50.000 0.00 0.00 33.68 3.32
4072 7569 3.118408 GGTGCACAGTCCATTATGTCCTA 60.118 47.826 20.43 0.00 0.00 2.94
4202 7702 2.760092 ACTTTCATGTGTTGCTTGTGGT 59.240 40.909 0.00 0.00 0.00 4.16
4365 7865 4.327982 AATCTACATAGCGAGCACACAT 57.672 40.909 0.00 0.00 0.00 3.21
4458 7958 6.890268 AGTATGGCGATAGAGATACCATGTTA 59.110 38.462 3.14 0.00 41.18 2.41
4465 7965 3.031736 AGAGATACCATGTTAGCACCGT 58.968 45.455 0.00 0.00 0.00 4.83
4557 8057 0.033601 ACAACTGGTTGCTGGTGGAA 60.034 50.000 12.65 0.00 44.03 3.53
4811 8311 2.829384 GGCCGCCCATATTCCCTGA 61.829 63.158 0.00 0.00 0.00 3.86
4819 8319 3.840666 GCCCATATTCCCTGATCTCACTA 59.159 47.826 0.00 0.00 0.00 2.74
4821 8321 5.799213 CCCATATTCCCTGATCTCACTAAC 58.201 45.833 0.00 0.00 0.00 2.34
4902 8406 7.386851 AGGTTACATAGTTTCGCTATATGCAT 58.613 34.615 3.79 3.79 43.06 3.96
5019 8524 8.929487 ACTCCCTCCTAAAGAAATATAAGAGTG 58.071 37.037 0.00 0.00 0.00 3.51
5020 8525 8.855804 TCCCTCCTAAAGAAATATAAGAGTGT 57.144 34.615 0.00 0.00 0.00 3.55
5021 8526 9.280456 TCCCTCCTAAAGAAATATAAGAGTGTT 57.720 33.333 0.00 0.00 0.00 3.32
5022 8527 9.907229 CCCTCCTAAAGAAATATAAGAGTGTTT 57.093 33.333 0.00 0.00 0.00 2.83
5061 8566 8.483307 AAACGCTCTTATATTTCTTTACGGAA 57.517 30.769 0.00 0.00 0.00 4.30
5126 8631 5.764686 AGATGTCTTGCAATCACTTGTGTAA 59.235 36.000 0.00 0.00 34.69 2.41
5238 8750 3.897239 TGTTGACCACTTCATTGTCCTT 58.103 40.909 0.00 0.00 32.84 3.36
5239 8751 4.277476 TGTTGACCACTTCATTGTCCTTT 58.723 39.130 0.00 0.00 32.84 3.11
5324 8840 2.427506 CTACCTTTGAGCTGTGAACCC 58.572 52.381 0.00 0.00 0.00 4.11
5341 8857 2.659428 ACCCCAAGCTTATGAGATTGC 58.341 47.619 9.81 0.00 45.56 3.56
5541 9060 3.640498 TGCATGAACCATGGAAGTTTTCA 59.360 39.130 21.47 17.51 39.12 2.69
5550 9069 1.879380 TGGAAGTTTTCATCAGGCACG 59.121 47.619 0.00 0.00 0.00 5.34
5603 9127 9.976511 ATAATGGAATGCAACTATGAAATGAAG 57.023 29.630 0.00 0.00 0.00 3.02
5643 9169 9.764363 CAATATGAGGACATTTAAGCTGTACTA 57.236 33.333 5.27 0.00 37.92 1.82
5671 9197 9.314321 CTGGAGCTTTCGATAAAAGAAACTATA 57.686 33.333 0.00 0.00 46.18 1.31
5816 9363 1.549203 TGAGGAAGCTTTTGGATGGC 58.451 50.000 0.00 0.00 0.00 4.40
5981 9579 2.746362 GAGATGTTTGCTGAGTTGAGGG 59.254 50.000 0.00 0.00 0.00 4.30
6010 9608 1.220206 CTCGGTTGCAGATGAGCCT 59.780 57.895 0.00 0.00 0.00 4.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 0.672342 GATACTGCCCCGATACGTGT 59.328 55.000 0.00 0.00 0.00 4.49
3 4 0.959553 CAGATACTGCCCCGATACGT 59.040 55.000 0.00 0.00 0.00 3.57
31 32 5.647589 CGTAGATACTTTAGGAAGCACACA 58.352 41.667 0.00 0.00 36.29 3.72
225 227 2.928801 TTGGCACTGCAGTCTAAAGA 57.071 45.000 18.64 0.00 0.00 2.52
301 303 4.158394 ACATCAACAAAGCGAAGGCATAAT 59.842 37.500 0.00 0.00 43.41 1.28
432 448 0.806102 CCTCCTGTAATCGCGGTGTG 60.806 60.000 6.13 0.00 0.00 3.82
494 511 1.002087 AGAACTCGTTTAGGCACCCAG 59.998 52.381 0.00 0.00 0.00 4.45
556 573 3.485463 ACCGAAAGAACCAACTCATGA 57.515 42.857 0.00 0.00 0.00 3.07
558 575 3.815809 TGAACCGAAAGAACCAACTCAT 58.184 40.909 0.00 0.00 0.00 2.90
573 590 5.581605 CATAAATGGAAGTGGATTGAACCG 58.418 41.667 0.00 0.00 0.00 4.44
671 688 8.394877 TGGCTTAACAAATTTGTGTATCGATAG 58.605 33.333 23.93 12.63 41.31 2.08
799 818 8.893563 AAACACAGGAATAAAATAGGAATCCA 57.106 30.769 0.61 0.00 0.00 3.41
944 965 4.660789 ATAGTTGGGCATTTTCATCAGC 57.339 40.909 0.00 0.00 0.00 4.26
1319 3651 4.165760 TCTCATGCATACTGATCTCCCAT 58.834 43.478 0.00 0.00 0.00 4.00
1486 3869 3.242867 TGACACCCTTCTCTCAGAACAT 58.757 45.455 0.00 0.00 29.89 2.71
1488 3871 3.594134 CATGACACCCTTCTCTCAGAAC 58.406 50.000 0.00 0.00 29.89 3.01
1491 3874 1.406614 GCCATGACACCCTTCTCTCAG 60.407 57.143 0.00 0.00 0.00 3.35
1668 4061 2.502213 AAACGCAACACCTAAAAGCC 57.498 45.000 0.00 0.00 0.00 4.35
1684 4079 6.035327 GCAGATGGATCAAATGCTTTGTAAAC 59.965 38.462 3.89 0.00 41.36 2.01
1833 4235 9.227777 GGTTAGTAACAACAGTCATTTTATCCT 57.772 33.333 14.81 0.00 0.00 3.24
1834 4236 8.456471 GGGTTAGTAACAACAGTCATTTTATCC 58.544 37.037 14.81 0.00 0.00 2.59
1835 4237 9.005777 TGGGTTAGTAACAACAGTCATTTTATC 57.994 33.333 14.81 0.00 0.00 1.75
1836 4238 8.927675 TGGGTTAGTAACAACAGTCATTTTAT 57.072 30.769 14.81 0.00 0.00 1.40
1837 4239 8.927675 ATGGGTTAGTAACAACAGTCATTTTA 57.072 30.769 14.81 0.00 0.00 1.52
1838 4240 7.833285 ATGGGTTAGTAACAACAGTCATTTT 57.167 32.000 14.81 0.00 0.00 1.82
1847 4249 5.121298 GGAGAACGAATGGGTTAGTAACAAC 59.879 44.000 14.81 7.55 0.00 3.32
1865 4299 2.941720 GCCTCAATCTGACATGGAGAAC 59.058 50.000 0.00 0.00 0.00 3.01
1870 4304 2.704464 TGAGCCTCAATCTGACATGG 57.296 50.000 0.00 0.00 0.00 3.66
2128 4562 4.164221 ACCTTAACCTGGTCTATGTGATGG 59.836 45.833 0.00 0.00 31.03 3.51
2225 4662 7.412137 AATTGAGTAAACTTTTGAAGCATGC 57.588 32.000 10.51 10.51 0.00 4.06
2257 4697 3.677002 GGCTCATACTGCCTCACTC 57.323 57.895 0.00 0.00 46.38 3.51
2433 4885 4.963318 TCCCAGATACTCATAAAGCCAG 57.037 45.455 0.00 0.00 0.00 4.85
2635 5102 2.687425 CCACTCAACCAAATGTGTGTCA 59.313 45.455 8.21 0.00 41.09 3.58
2783 5250 5.175127 GTCGGCATCCCAAAACATAATTTT 58.825 37.500 0.00 0.00 0.00 1.82
2802 5269 0.667993 AAGCATGTTGGTGTTGTCGG 59.332 50.000 0.00 0.00 0.00 4.79
2806 5273 2.607771 GCAGGTAAGCATGTTGGTGTTG 60.608 50.000 0.00 0.00 0.00 3.33
2989 5467 9.073475 AGTATTTGCAAGTATCTTAAAACCACA 57.927 29.630 4.86 0.00 0.00 4.17
3113 5591 2.237143 CTGTCCTGACAATAGAAGGCCA 59.763 50.000 5.01 0.00 41.33 5.36
3249 5727 3.928375 GGCTTTGCAGGATATTTTGTGTG 59.072 43.478 0.00 0.00 0.00 3.82
3382 5875 7.769044 CACTGCCATTCTATCATCATCATGATA 59.231 37.037 8.15 0.00 46.33 2.15
3391 5884 4.903054 TGGATCACTGCCATTCTATCATC 58.097 43.478 0.00 0.00 0.00 2.92
3753 6566 1.965930 CTGGTACCAGCGCTTGCAA 60.966 57.895 28.48 0.00 42.66 4.08
3931 7422 1.221840 CCCAACCGTAGCTCTGCAT 59.778 57.895 0.00 0.00 0.00 3.96
3943 7434 0.395724 CCATGGTAGAAGCCCCAACC 60.396 60.000 2.57 0.00 33.66 3.77
4000 7491 2.547218 GGTTGTACAAGCTGACGAGGAA 60.547 50.000 26.48 0.00 36.02 3.36
4038 7535 0.813610 TGTGCACCCGACTTGTGAAG 60.814 55.000 15.69 0.00 35.74 3.02
4072 7569 1.830477 GATGACAGTCAGGCCTCTCTT 59.170 52.381 0.00 0.00 0.00 2.85
4202 7702 8.394877 CCGTATATTTTGTTCTCTGCATGTTAA 58.605 33.333 0.00 0.00 0.00 2.01
4365 7865 9.195411 GTCAAATCAAAGAAATCAATGCTGTTA 57.805 29.630 0.00 0.00 0.00 2.41
4458 7958 1.903294 AGCATCATCAGACGGTGCT 59.097 52.632 0.00 0.00 40.99 4.40
4465 7965 4.482952 ACACATCAGAAGCATCATCAGA 57.517 40.909 0.00 0.00 0.00 3.27
4557 8057 3.552684 CCATGTCACGCAAAGAAATGGTT 60.553 43.478 9.88 0.00 43.16 3.67
4811 8311 4.074970 CCTTGCAAGGTTGTTAGTGAGAT 58.925 43.478 33.46 0.00 41.41 2.75
4902 8406 7.812191 GGTTATACAAAACAGTGCAATGAATCA 59.188 33.333 22.73 0.85 0.00 2.57
5022 8527 6.701145 AAGAGCGTTTAGATCACTGATCTA 57.299 37.500 20.57 20.57 46.15 1.98
5024 8529 9.632807 AATATAAGAGCGTTTAGATCACTGATC 57.367 33.333 10.65 10.65 37.82 2.92
5025 8530 9.988815 AAATATAAGAGCGTTTAGATCACTGAT 57.011 29.630 0.00 0.00 37.82 2.90
5026 8531 9.464714 GAAATATAAGAGCGTTTAGATCACTGA 57.535 33.333 0.00 0.00 37.82 3.41
5027 8532 9.469807 AGAAATATAAGAGCGTTTAGATCACTG 57.530 33.333 0.00 0.00 37.82 3.66
5061 8566 9.750783 TTATCTAGTCACTTAACAAGTACTCCT 57.249 33.333 0.00 0.00 40.46 3.69
5324 8840 4.565564 GCAAAAGCAATCTCATAAGCTTGG 59.434 41.667 9.86 0.93 45.73 3.61
5341 8857 9.740239 ATTGCATATACATAACTTCAGCAAAAG 57.260 29.630 0.00 0.00 41.90 2.27
5541 9060 2.119801 AGAAGAAATGCGTGCCTGAT 57.880 45.000 0.00 0.00 0.00 2.90
5550 9069 8.976986 AAAACTGATCATACAAGAAGAAATGC 57.023 30.769 0.00 0.00 0.00 3.56
5601 9125 6.239543 CCTCATATTGGAGACTAGCATGTCTT 60.240 42.308 11.92 1.06 46.11 3.01
5603 9127 5.244851 TCCTCATATTGGAGACTAGCATGTC 59.755 44.000 0.00 1.49 37.05 3.06
5671 9197 9.431887 CAAAAGAATCAACTTTGATCCATCAAT 57.568 29.630 4.94 0.00 46.60 2.57
5816 9363 3.958147 ATGACGCCCTTGTCGCTGG 62.958 63.158 0.00 0.00 41.87 4.85
5936 9534 2.436417 TGCTAAACAATCTGGACTGCC 58.564 47.619 0.00 0.00 0.00 4.85
5981 9579 0.166814 GCAACCGAGCAATCTGACAC 59.833 55.000 0.00 0.00 0.00 3.67
6010 9608 2.075566 TCAGCACTGTTCCCCACCA 61.076 57.895 0.00 0.00 0.00 4.17


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

AutoCloner maintained by Alex Coulton.