Multiple sequence alignment - TraesCS5B01G046700

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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 TraesCS5B01G046700 chr5B 100.000 4626 0 0 1 4626 52008946 52004321 0.000000e+00 8543.0
1 TraesCS5B01G046700 chr5B 95.339 236 11 0 3668 3903 52005245 52005010 4.370000e-100 375.0
2 TraesCS5B01G046700 chr5B 95.339 236 11 0 3702 3937 52005279 52005044 4.370000e-100 375.0
3 TraesCS5B01G046700 chr5B 95.050 202 10 0 3668 3869 52005211 52005010 7.470000e-83 318.0
4 TraesCS5B01G046700 chr5B 95.050 202 10 0 3736 3937 52005279 52005078 7.470000e-83 318.0
5 TraesCS5B01G046700 chr5B 93.617 47 3 0 678 724 52008217 52008171 2.310000e-08 71.3
6 TraesCS5B01G046700 chr5B 93.617 47 3 0 730 776 52008269 52008223 2.310000e-08 71.3
7 TraesCS5B01G046700 chr5D 96.411 3093 86 5 800 3869 49483965 49480875 0.000000e+00 5073.0
8 TraesCS5B01G046700 chr5D 97.044 812 10 4 1 801 49484802 49483994 0.000000e+00 1354.0
9 TraesCS5B01G046700 chr5D 93.668 916 30 5 3739 4626 49481073 49480158 0.000000e+00 1345.0
10 TraesCS5B01G046700 chr5D 95.980 199 8 0 3705 3903 49481073 49480875 1.610000e-84 324.0
11 TraesCS5B01G046700 chr5D 95.833 168 7 0 3668 3835 49481042 49480875 5.900000e-69 272.0
12 TraesCS5B01G046700 chr5D 95.758 165 7 0 3773 3937 49481073 49480909 2.740000e-67 267.0
13 TraesCS5B01G046700 chr5D 93.617 47 3 0 678 724 49484065 49484019 2.310000e-08 71.3
14 TraesCS5B01G046700 chr5D 93.617 47 3 0 730 776 49484117 49484071 2.310000e-08 71.3
15 TraesCS5B01G046700 chr5A 95.924 3042 84 5 800 3801 38809299 38806258 0.000000e+00 4894.0
16 TraesCS5B01G046700 chr5A 96.931 554 17 0 3804 4357 38806391 38805838 0.000000e+00 929.0
17 TraesCS5B01G046700 chr5A 97.317 410 7 2 394 801 38809735 38809328 0.000000e+00 693.0
18 TraesCS5B01G046700 chr5A 95.283 106 5 0 4393 4498 38805832 38805727 7.960000e-38 169.0
19 TraesCS5B01G046700 chr5A 97.778 45 1 0 4496 4540 38805706 38805662 1.380000e-10 78.7
20 TraesCS5B01G046700 chr5A 93.617 47 3 0 730 776 38809451 38809405 2.310000e-08 71.3
21 TraesCS5B01G046700 chr5A 91.489 47 4 0 678 724 38809399 38809353 1.070000e-06 65.8
22 TraesCS5B01G046700 chrUn 97.389 383 10 0 3975 4357 480013475 480013857 0.000000e+00 652.0


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 TraesCS5B01G046700 chr5B 52004321 52008946 4625 True 1438.800000 8543 95.430286 1 4626 7 chr5B.!!$R1 4625
1 TraesCS5B01G046700 chr5D 49480158 49484802 4644 True 1097.200000 5073 95.241000 1 4626 8 chr5D.!!$R1 4625
2 TraesCS5B01G046700 chr5A 38805662 38809735 4073 True 985.828571 4894 95.477000 394 4540 7 chr5A.!!$R1 4146

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
494 506 0.248215 GGGATGTGCGAATTTGCGAG 60.248 55.0 13.01 0.00 37.81 5.03 F
1063 1105 1.871418 TCCCAGGACTCAGGAAGATG 58.129 55.0 0.00 0.00 0.00 2.90 F
1875 1939 0.393808 TTTGGGAAGGCTATCCACGC 60.394 55.0 14.78 3.08 41.55 5.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1309 1373 0.390860 CTCCCATAGTCTTGGCCTCG 59.609 60.000 3.32 0.0 35.29 4.63 R
2425 2507 1.136565 CGTTTTTGGCGGCGATGAT 59.863 52.632 12.98 0.0 0.00 2.45 R
3628 3710 4.288105 AGTCTGATCAATTCCTGGTTGTCT 59.712 41.667 0.00 0.0 0.00 3.41 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
199 200 2.159272 GATATCAGTTTCGCGCCGCC 62.159 60.000 2.28 0.00 0.00 6.13
261 262 2.357034 ACATCAGTTTCGCGCCGT 60.357 55.556 0.00 0.00 0.00 5.68
399 409 1.008767 GGGCGTCGTCCTTCTATCG 60.009 63.158 9.10 0.00 0.00 2.92
480 492 9.326413 ACTTATTATGTTAAGTCTTTCGGGATG 57.674 33.333 0.00 0.00 37.80 3.51
494 506 0.248215 GGGATGTGCGAATTTGCGAG 60.248 55.000 13.01 0.00 37.81 5.03
514 526 5.391950 GCGAGTTCAATTGGTTGATATGTGT 60.392 40.000 5.42 0.00 43.49 3.72
515 527 6.023435 CGAGTTCAATTGGTTGATATGTGTG 58.977 40.000 5.42 0.00 43.49 3.82
664 676 3.569194 TTCAGACAGTAAAGGTGGCAA 57.431 42.857 0.00 0.00 0.00 4.52
868 910 3.960102 ACATGCCCTTATATTTGTGTGGG 59.040 43.478 0.00 0.00 37.76 4.61
917 959 8.251750 TGCTGTTCATAGTAGTGATTTTGTAC 57.748 34.615 0.00 0.00 0.00 2.90
1063 1105 1.871418 TCCCAGGACTCAGGAAGATG 58.129 55.000 0.00 0.00 0.00 2.90
1170 1234 5.248248 CCATTCTTTAAAGGGGTCCAACAAT 59.752 40.000 15.13 1.85 0.00 2.71
1201 1265 4.083749 CGCTACACTCTATGCCACTACTAG 60.084 50.000 0.00 0.00 0.00 2.57
1204 1268 4.868268 ACACTCTATGCCACTACTAGGAA 58.132 43.478 0.00 0.00 0.00 3.36
1208 1272 5.162925 ACTCTATGCCACTACTAGGAAGGAT 60.163 44.000 0.00 0.00 0.00 3.24
1349 1413 6.035217 GGAGAGAGTGAGAAATACGTAAACC 58.965 44.000 0.00 0.00 0.00 3.27
1364 1428 9.530633 AATACGTAAACCTTTTTGCAAACAATA 57.469 25.926 12.39 0.00 35.21 1.90
1367 1431 4.787381 AACCTTTTTGCAAACAATACGC 57.213 36.364 12.39 0.00 35.21 4.42
1392 1456 1.526917 GTGTGGGTGTGCTCAGCTT 60.527 57.895 16.61 0.00 41.24 3.74
1400 1464 2.034558 GGTGTGCTCAGCTTTGCTTTAA 59.965 45.455 10.56 0.00 36.40 1.52
1403 1467 3.248266 GTGCTCAGCTTTGCTTTAATGG 58.752 45.455 0.00 0.00 36.40 3.16
1405 1469 3.192001 TGCTCAGCTTTGCTTTAATGGAG 59.808 43.478 0.00 0.00 36.40 3.86
1442 1506 5.895636 TGCCACTTGTTTACTGGAATATG 57.104 39.130 0.00 0.00 0.00 1.78
1543 1607 7.440556 TGCAATAATCTAGAAATGCTCTCTCAC 59.559 37.037 17.62 0.00 35.41 3.51
1605 1669 1.165270 CCCGAGGTGGAAACATTGTC 58.835 55.000 0.00 0.00 46.14 3.18
1606 1670 1.271379 CCCGAGGTGGAAACATTGTCT 60.271 52.381 0.00 0.00 46.14 3.41
1616 1680 4.278170 TGGAAACATTGTCTTGATGGACAC 59.722 41.667 0.00 0.00 39.77 3.67
1653 1717 2.877786 TCACGTTGATGTGAATGCAACT 59.122 40.909 3.65 0.00 45.40 3.16
1756 1820 5.596836 TCAAATTTCTGGTTCTTGTTGCT 57.403 34.783 0.00 0.00 0.00 3.91
1810 1874 7.665690 TCCTTTCAGATAATACTGATGCTCTC 58.334 38.462 0.00 0.00 44.67 3.20
1818 1882 5.426689 AATACTGATGCTCTCCTTGAACA 57.573 39.130 0.00 0.00 0.00 3.18
1875 1939 0.393808 TTTGGGAAGGCTATCCACGC 60.394 55.000 14.78 3.08 41.55 5.34
1946 2010 0.897621 CCCCAATGAGGTGGCTTTTC 59.102 55.000 0.00 0.00 37.34 2.29
2183 2248 7.756722 AGTTTCACACTAATTCATATTTGCTGC 59.243 33.333 0.00 0.00 31.97 5.25
2184 2249 6.135290 TCACACTAATTCATATTTGCTGCC 57.865 37.500 0.00 0.00 0.00 4.85
2185 2250 5.651576 TCACACTAATTCATATTTGCTGCCA 59.348 36.000 0.00 0.00 0.00 4.92
2216 2298 4.030913 CTGATGTGGGTACTCTTCCCTTA 58.969 47.826 0.00 0.00 44.84 2.69
2222 2304 4.470304 GTGGGTACTCTTCCCTTATTCACT 59.530 45.833 0.00 0.00 44.84 3.41
2425 2507 5.451798 GGTTTTCTTGAAGAACCAGCATTGA 60.452 40.000 7.21 0.00 41.86 2.57
2443 2525 0.861450 GATCATCGCCGCCAAAAACG 60.861 55.000 0.00 0.00 0.00 3.60
2482 2564 9.443323 TCATCGACCTTTTATTTCATAGAACAA 57.557 29.630 0.00 0.00 0.00 2.83
2512 2594 0.042581 TGGCATAGAGGACTGGACCA 59.957 55.000 0.00 0.00 0.00 4.02
2528 2610 5.481473 ACTGGACCATTGCAAATTTACTCAT 59.519 36.000 1.71 0.00 0.00 2.90
2550 2632 3.648067 TCCATGTCCAGACAGAAGAGTTT 59.352 43.478 6.63 0.00 45.48 2.66
2668 2750 5.908341 ACCGTTTGAGGAAAGCAAATAAAA 58.092 33.333 0.00 0.00 37.54 1.52
2729 2811 3.181520 GCTAGAAATGTTGTTGTCGCGAT 60.182 43.478 14.06 0.00 0.00 4.58
2828 2910 3.503363 ACAATTCGAATATGGCGATGCAT 59.497 39.130 11.83 0.00 37.64 3.96
2862 2944 8.189460 ACTGAGTCCTATAAACACGTAGAATTC 58.811 37.037 0.00 0.00 0.00 2.17
2864 2946 8.746530 TGAGTCCTATAAACACGTAGAATTCTT 58.253 33.333 14.36 0.00 0.00 2.52
2907 2989 6.237996 CCAATCATTGCATCAGTACAAATTGC 60.238 38.462 0.00 0.00 29.04 3.56
3028 3110 5.390885 CGACCTCTGTGTACATTTTGGAATG 60.391 44.000 0.00 0.00 46.47 2.67
3047 3129 6.703165 TGGAATGACGTCATCTGAATATGAAG 59.297 38.462 30.06 0.00 40.07 3.02
3060 3142 8.948631 TCTGAATATGAAGTAACAGTGGAATC 57.051 34.615 0.00 0.00 0.00 2.52
3090 3172 7.149973 TCTACGTACACAAGTGCTTATTTCTT 58.850 34.615 0.00 0.00 0.00 2.52
3092 3174 7.900782 ACGTACACAAGTGCTTATTTCTTAT 57.099 32.000 0.00 0.00 0.00 1.73
3094 3176 9.595823 ACGTACACAAGTGCTTATTTCTTATAT 57.404 29.630 0.00 0.00 0.00 0.86
3208 3290 7.561251 TGTTAATATGCTAACTAGGCACTTCA 58.439 34.615 0.00 0.00 42.69 3.02
3331 3413 7.862873 GTGATTTGGGATTAGTTTATTGCTAGC 59.137 37.037 8.10 8.10 0.00 3.42
3436 3518 5.125417 GCAGTAACCATTTATGCTTCTGGAA 59.875 40.000 0.00 0.00 34.10 3.53
3560 3642 8.405531 CGGATACATTAGTTTTGATGATTGGTT 58.594 33.333 0.00 0.00 0.00 3.67
3628 3710 1.960689 GCTTGTCTTGCCCTTTAACCA 59.039 47.619 0.00 0.00 0.00 3.67
3643 3725 5.278957 CCTTTAACCAGACAACCAGGAATTG 60.279 44.000 0.00 0.00 0.00 2.32
3669 3751 5.475909 TCAGACTCCACACGTAAGATACTTT 59.524 40.000 0.00 0.00 43.62 2.66
3830 3912 9.719355 TTTGTGACTACATATCAGTTAATGTGT 57.281 29.630 0.00 0.00 36.96 3.72
3915 3997 9.169468 GTCAATGTTTATGTAGTTTTGTGACTG 57.831 33.333 0.00 0.00 0.00 3.51
3997 4079 5.927115 AGGTGAAAACGTTATCTGAAGAGAC 59.073 40.000 0.00 0.00 0.00 3.36
4018 4100 1.517257 CAGCGAGTAGAAGTGGGCG 60.517 63.158 0.00 0.00 0.00 6.13
4061 4143 1.482182 TCGATCACAATGTCTCTGGGG 59.518 52.381 0.00 0.00 0.00 4.96
4093 4175 3.548014 CGCAACTTCTGGTTACTGTTTGG 60.548 47.826 0.00 0.00 36.23 3.28
4094 4176 3.380320 GCAACTTCTGGTTACTGTTTGGT 59.620 43.478 0.00 0.00 36.23 3.67
4119 4201 7.075851 TGATCTAGTGTAGTTAGCCTAGCTA 57.924 40.000 0.00 0.00 40.44 3.32
4236 4318 1.480137 CTGTGGTTCTTTGCAACCCAA 59.520 47.619 0.00 0.00 44.82 4.12
4290 4372 2.287248 GGAGTTTTGAGTCTTGTGCAGC 60.287 50.000 0.00 0.00 0.00 5.25
4357 4439 1.519408 CGGGTAAACAGACCTTGGTG 58.481 55.000 0.00 0.00 39.66 4.17
4358 4440 1.071071 CGGGTAAACAGACCTTGGTGA 59.929 52.381 0.00 0.00 39.66 4.02
4359 4441 2.290071 CGGGTAAACAGACCTTGGTGAT 60.290 50.000 0.00 0.00 39.66 3.06
4360 4442 3.081804 GGGTAAACAGACCTTGGTGATG 58.918 50.000 0.00 0.00 39.66 3.07
4364 4450 3.795688 AACAGACCTTGGTGATGATGT 57.204 42.857 0.00 0.00 0.00 3.06
4367 4453 3.005554 CAGACCTTGGTGATGATGTGAC 58.994 50.000 0.00 0.00 0.00 3.67
4368 4454 2.909006 AGACCTTGGTGATGATGTGACT 59.091 45.455 0.00 0.00 0.00 3.41
4376 4462 3.643320 GGTGATGATGTGACTGGATAGGA 59.357 47.826 0.00 0.00 0.00 2.94
4621 4731 3.497118 CGGCATTATCTTTTCGTTTGCA 58.503 40.909 0.00 0.00 0.00 4.08
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
199 200 2.352651 ACTGATGTCGAAATGCAATCCG 59.647 45.455 0.00 0.00 0.00 4.18
480 492 2.031037 TTGAACTCGCAAATTCGCAC 57.969 45.000 0.00 0.00 0.00 5.34
868 910 9.166126 GCAGCATATAAACCGATAAAAACTAAC 57.834 33.333 0.00 0.00 0.00 2.34
917 959 5.009631 TGAGTGACAATGGAAAGGTATTGG 58.990 41.667 0.00 0.00 38.33 3.16
1170 1234 4.500887 GGCATAGAGTGTAGCGGTTATGAA 60.501 45.833 0.00 0.00 0.00 2.57
1309 1373 0.390860 CTCCCATAGTCTTGGCCTCG 59.609 60.000 3.32 0.00 35.29 4.63
1349 1413 5.633996 TGAAGCGTATTGTTTGCAAAAAG 57.366 34.783 14.67 1.68 38.21 2.27
1364 1428 1.525995 CACCCACACCTTGAAGCGT 60.526 57.895 0.00 0.00 0.00 5.07
1367 1431 0.466189 AGCACACCCACACCTTGAAG 60.466 55.000 0.00 0.00 0.00 3.02
1392 1456 7.201600 GCAAGTTGTTTTTCTCCATTAAAGCAA 60.202 33.333 4.48 0.00 33.84 3.91
1400 1464 4.122046 GCAAGCAAGTTGTTTTTCTCCAT 58.878 39.130 1.73 0.00 38.55 3.41
1403 1467 3.306973 GTGGCAAGCAAGTTGTTTTTCTC 59.693 43.478 1.73 0.00 38.55 2.87
1405 1469 3.261580 AGTGGCAAGCAAGTTGTTTTTC 58.738 40.909 1.73 0.00 38.55 2.29
1442 1506 1.087501 GAGCTTGGGTCGGAATGAAC 58.912 55.000 0.00 0.00 0.00 3.18
1475 1539 3.732159 TAGGAAGCCTACCAGCCTT 57.268 52.632 0.00 0.00 34.61 4.35
1543 1607 6.791887 TCGTCCTATAATTACTAGACCACG 57.208 41.667 0.00 0.00 0.00 4.94
1605 1669 3.070018 GTTCACCAGAGTGTCCATCAAG 58.930 50.000 0.00 0.00 44.83 3.02
1606 1670 2.437651 TGTTCACCAGAGTGTCCATCAA 59.562 45.455 0.00 0.00 44.83 2.57
1616 1680 2.288457 ACGTGATGAGTGTTCACCAGAG 60.288 50.000 0.00 0.00 40.29 3.35
1653 1717 7.344093 TGCAATGGAATTAACCCTGAATTATCA 59.656 33.333 0.00 0.00 32.46 2.15
1810 1874 1.681166 CCCAGCCTCATCTGTTCAAGG 60.681 57.143 0.00 0.00 32.32 3.61
1818 1882 1.606531 GTTGCTCCCAGCCTCATCT 59.393 57.895 0.00 0.00 41.51 2.90
1875 1939 1.468914 GACTTCCTAAAAAGGCAGCGG 59.531 52.381 0.00 0.00 34.21 5.52
2182 2247 3.073062 ACCCACATCAGATACCTTATGGC 59.927 47.826 0.00 0.00 36.63 4.40
2183 2248 4.982241 ACCCACATCAGATACCTTATGG 57.018 45.455 0.00 0.00 39.83 2.74
2184 2249 6.495181 AGAGTACCCACATCAGATACCTTATG 59.505 42.308 0.00 0.00 31.87 1.90
2185 2250 6.625267 AGAGTACCCACATCAGATACCTTAT 58.375 40.000 0.00 0.00 0.00 1.73
2275 2357 3.495331 TCTGCTCCATGGTTTAAAAGCA 58.505 40.909 19.24 19.24 43.83 3.91
2402 2484 5.591099 TCAATGCTGGTTCTTCAAGAAAAC 58.409 37.500 0.00 0.00 35.75 2.43
2425 2507 1.136565 CGTTTTTGGCGGCGATGAT 59.863 52.632 12.98 0.00 0.00 2.45
2473 2555 5.355071 TGCCAGCTATCTGTTTTGTTCTATG 59.645 40.000 0.00 0.00 38.66 2.23
2482 2564 3.969976 TCCTCTATGCCAGCTATCTGTTT 59.030 43.478 0.00 0.00 38.66 2.83
2512 2594 6.154877 TGGACATGGATGAGTAAATTTGCAAT 59.845 34.615 9.04 1.97 0.00 3.56
2528 2610 2.894731 ACTCTTCTGTCTGGACATGGA 58.105 47.619 3.80 0.00 41.01 3.41
2550 2632 6.403866 AGTCAAAACAATACCTGATGCAAA 57.596 33.333 0.00 0.00 0.00 3.68
2828 2910 7.103641 GTGTTTATAGGACTCAGTTTCATGGA 58.896 38.462 0.00 0.00 0.00 3.41
2907 2989 8.809159 ATAGTTCAAGTCTTCATGATACATCG 57.191 34.615 0.00 0.00 0.00 3.84
2944 3026 6.014840 CCATATCAGATTTTAAAGCCTGCCAT 60.015 38.462 11.74 6.34 0.00 4.40
3028 3110 7.702772 ACTGTTACTTCATATTCAGATGACGTC 59.297 37.037 9.11 9.11 38.72 4.34
3047 3129 9.230932 GTACGTAGAAATAGATTCCACTGTTAC 57.769 37.037 0.00 0.00 38.94 2.50
3060 3142 6.946229 AAGCACTTGTGTACGTAGAAATAG 57.054 37.500 0.00 0.00 0.00 1.73
3090 3172 9.860650 AAAATACTGCATGACCAACCTTATATA 57.139 29.630 0.00 0.00 0.00 0.86
3092 3174 7.613801 ACAAAATACTGCATGACCAACCTTATA 59.386 33.333 0.00 0.00 0.00 0.98
3094 3176 5.772672 ACAAAATACTGCATGACCAACCTTA 59.227 36.000 0.00 0.00 0.00 2.69
3095 3177 4.588528 ACAAAATACTGCATGACCAACCTT 59.411 37.500 0.00 0.00 0.00 3.50
3331 3413 9.904647 GCACAATTTTATGTAAATGTAAGCATG 57.095 29.630 0.00 0.00 36.57 4.06
3622 3704 5.055265 TCAATTCCTGGTTGTCTGGTTAA 57.945 39.130 0.00 0.00 36.08 2.01
3623 3705 4.715534 TCAATTCCTGGTTGTCTGGTTA 57.284 40.909 0.00 0.00 36.08 2.85
3628 3710 4.288105 AGTCTGATCAATTCCTGGTTGTCT 59.712 41.667 0.00 0.00 0.00 3.41
3643 3725 4.640789 ATCTTACGTGTGGAGTCTGATC 57.359 45.455 0.00 0.00 0.00 2.92
3702 3784 9.719355 ACACATTAACTGATATGTAGTCACAAA 57.281 29.630 0.00 0.00 38.42 2.83
3716 3798 9.549078 TCACAAAACTACATACACATTAACTGA 57.451 29.630 0.00 0.00 0.00 3.41
3717 3799 9.594038 GTCACAAAACTACATACACATTAACTG 57.406 33.333 0.00 0.00 0.00 3.16
3718 3800 9.555727 AGTCACAAAACTACATACACATTAACT 57.444 29.630 0.00 0.00 0.00 2.24
3818 3900 9.549078 TCACAAAACTACATACACATTAACTGA 57.451 29.630 0.00 0.00 0.00 3.41
3819 3901 9.594038 GTCACAAAACTACATACACATTAACTG 57.406 33.333 0.00 0.00 0.00 3.16
3820 3902 9.555727 AGTCACAAAACTACATACACATTAACT 57.444 29.630 0.00 0.00 0.00 2.24
3857 3939 8.841300 TGCAGTCACAAAACTACATAAACATTA 58.159 29.630 0.00 0.00 0.00 1.90
3915 3997 6.195244 CAGAACATAAACGCAAACTGATATGC 59.805 38.462 0.00 0.00 39.17 3.14
3963 4045 8.463607 AGATAACGTTTTCACCTTTCTGAAAAA 58.536 29.630 18.90 0.00 46.61 1.94
3973 4055 5.927115 GTCTCTTCAGATAACGTTTTCACCT 59.073 40.000 18.90 2.42 0.00 4.00
3982 4064 4.034163 TCGCTGTAGTCTCTTCAGATAACG 59.966 45.833 7.40 2.63 31.90 3.18
4009 4091 0.947180 TTACTGCGAACGCCCACTTC 60.947 55.000 16.27 0.00 41.09 3.01
4018 4100 2.135933 ACACTCAGCTTTACTGCGAAC 58.864 47.619 0.00 0.00 46.76 3.95
4061 4143 1.792949 CAGAAGTTGCGACAGGTGTAC 59.207 52.381 6.90 0.00 0.00 2.90
4093 4175 6.263617 AGCTAGGCTAACTACACTAGATCAAC 59.736 42.308 0.00 0.00 36.99 3.18
4094 4176 6.366340 AGCTAGGCTAACTACACTAGATCAA 58.634 40.000 0.00 0.00 36.99 2.57
4119 4201 6.542821 TCAGACTCCAAACATAACCAGAAAT 58.457 36.000 0.00 0.00 0.00 2.17
4236 4318 7.524717 AACATTTAGAGTTACCTTGCATTGT 57.475 32.000 0.00 0.00 0.00 2.71
4290 4372 6.176183 GGAAACCCTCACATATATCATCAGG 58.824 44.000 0.00 0.00 0.00 3.86
4357 4439 6.164876 CAGAATCCTATCCAGTCACATCATC 58.835 44.000 0.00 0.00 0.00 2.92
4358 4440 5.512749 GCAGAATCCTATCCAGTCACATCAT 60.513 44.000 0.00 0.00 0.00 2.45
4359 4441 4.202295 GCAGAATCCTATCCAGTCACATCA 60.202 45.833 0.00 0.00 0.00 3.07
4360 4442 4.040217 AGCAGAATCCTATCCAGTCACATC 59.960 45.833 0.00 0.00 0.00 3.06
4364 4450 6.560003 TTTTAGCAGAATCCTATCCAGTCA 57.440 37.500 0.00 0.00 0.00 3.41
4464 4551 4.371624 AAGAACAGTGGGAACATCATGA 57.628 40.909 0.00 0.00 46.14 3.07


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

AutoCloner maintained by Alex Coulton.