Multiple sequence alignment - TraesCS4D01G278200

Loading Multiple Alignment...

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 TraesCS4D01G278200 chr4D 100.000 4669 0 0 1 4669 449977138 449981806 0.000000e+00 8623
1 TraesCS4D01G278200 chr4D 87.385 325 33 7 2879 3198 20872392 20872071 2.650000e-97 366
2 TraesCS4D01G278200 chr4D 92.593 135 10 0 4075 4209 475017942 475017808 1.330000e-45 195
3 TraesCS4D01G278200 chr4B 93.607 2268 81 23 2437 4668 562706360 562708599 0.000000e+00 3326
4 TraesCS4D01G278200 chr4B 95.639 1697 38 8 765 2442 562704650 562706329 0.000000e+00 2691
5 TraesCS4D01G278200 chr4B 92.944 411 28 1 356 766 562704200 562704609 8.650000e-167 597
6 TraesCS4D01G278200 chr4B 92.012 338 20 5 1 337 562703710 562704041 7.070000e-128 468
7 TraesCS4D01G278200 chr4A 91.980 1571 88 24 2437 3978 16970707 16969146 0.000000e+00 2169
8 TraesCS4D01G278200 chr4A 90.661 771 50 8 1691 2442 16971505 16970738 0.000000e+00 1005
9 TraesCS4D01G278200 chr4A 85.922 618 53 12 367 954 16973277 16972664 3.070000e-176 628
10 TraesCS4D01G278200 chr4A 92.836 335 19 3 4334 4668 16968986 16968657 9.090000e-132 481
11 TraesCS4D01G278200 chr4A 85.619 452 35 16 1074 1522 16972158 16971734 9.220000e-122 448
12 TraesCS4D01G278200 chr4A 84.078 358 29 14 4 339 16973860 16973509 2.100000e-83 320
13 TraesCS4D01G278200 chr4A 93.939 99 6 0 4228 4326 16969143 16969045 2.910000e-32 150
14 TraesCS4D01G278200 chr3A 86.698 639 59 13 2632 3250 562943808 562944440 0.000000e+00 686
15 TraesCS4D01G278200 chr5D 97.222 144 4 0 4069 4212 469406943 469407086 1.300000e-60 244
16 TraesCS4D01G278200 chr2A 92.208 154 12 0 4057 4210 618282657 618282810 7.870000e-53 219
17 TraesCS4D01G278200 chr3B 94.203 138 8 0 4073 4210 416801315 416801452 1.320000e-50 211
18 TraesCS4D01G278200 chr6D 94.161 137 8 0 4071 4207 365723290 365723154 4.730000e-50 209
19 TraesCS4D01G278200 chrUn 93.478 138 9 0 4073 4210 136397331 136397194 6.120000e-49 206
20 TraesCS4D01G278200 chr7D 91.971 137 11 0 4077 4213 607602710 607602846 4.770000e-45 193
21 TraesCS4D01G278200 chr3D 90.411 146 12 2 4067 4211 150798842 150798986 1.710000e-44 191


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 TraesCS4D01G278200 chr4D 449977138 449981806 4668 False 8623.0 8623 100.000000 1 4669 1 chr4D.!!$F1 4668
1 TraesCS4D01G278200 chr4B 562703710 562708599 4889 False 1770.5 3326 93.550500 1 4668 4 chr4B.!!$F1 4667
2 TraesCS4D01G278200 chr4A 16968657 16973860 5203 True 743.0 2169 89.290714 4 4668 7 chr4A.!!$R1 4664
3 TraesCS4D01G278200 chr3A 562943808 562944440 632 False 686.0 686 86.698000 2632 3250 1 chr3A.!!$F1 618

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
607 830 0.390735 GGACGGGTAGAACAACGCAT 60.391 55.000 0.0 0.0 32.86 4.73 F
970 1256 1.076632 CTCCTCCTACCTCCGCAGT 60.077 63.158 0.0 0.0 0.00 4.40 F
971 1257 1.076923 TCCTCCTACCTCCGCAGTC 60.077 63.158 0.0 0.0 0.00 3.51 F
2696 3514 0.317854 GCCTCTTTTGCGTTCACACC 60.318 55.000 0.0 0.0 0.00 4.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2515 3317 0.312102 GCAAAGCCAGTTCAGTCACC 59.688 55.000 0.0 0.0 0.00 4.02 R
2681 3499 1.269051 GGAAGGGTGTGAACGCAAAAG 60.269 52.381 0.0 0.0 0.00 2.27 R
2964 3802 2.621338 TGAGGCGACAAAATGCTAGAG 58.379 47.619 0.0 0.0 0.00 2.43 R
4066 4913 0.323451 GGAATCCGAACAGGCCCTTT 60.323 55.000 0.0 0.0 40.77 3.11 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
80 81 3.398954 GTTCTGCAGAACGTCAAAACA 57.601 42.857 36.44 8.52 43.97 2.83
118 136 3.672767 AAATAGAACGGACACTCGGTT 57.327 42.857 0.00 0.00 41.64 4.44
196 214 1.808945 CACAAACCTCACATGCTCCTC 59.191 52.381 0.00 0.00 0.00 3.71
200 218 1.293062 ACCTCACATGCTCCTCCAAT 58.707 50.000 0.00 0.00 0.00 3.16
278 296 2.242572 CCATGTCATCGGCTCAGCG 61.243 63.158 0.00 0.00 0.00 5.18
282 300 3.531207 TCATCGGCTCAGCGAGGG 61.531 66.667 7.50 0.00 0.00 4.30
284 302 3.222855 ATCGGCTCAGCGAGGGAG 61.223 66.667 7.50 1.44 35.47 4.30
339 358 2.483014 ACGGACAATCGAAAATGGGA 57.517 45.000 0.00 0.00 0.00 4.37
340 359 2.081462 ACGGACAATCGAAAATGGGAC 58.919 47.619 0.00 0.00 0.00 4.46
342 361 1.749063 GGACAATCGAAAATGGGACCC 59.251 52.381 2.45 2.45 0.00 4.46
344 363 1.111277 CAATCGAAAATGGGACCCCC 58.889 55.000 8.45 0.00 45.71 5.40
552 775 1.067846 CATCCTTCGACGTCCTGACAA 60.068 52.381 10.58 0.00 0.00 3.18
567 790 2.573462 CTGACAAATGGAGGGAGAGGAA 59.427 50.000 0.00 0.00 0.00 3.36
606 829 1.005867 GGACGGGTAGAACAACGCA 60.006 57.895 0.00 0.00 32.86 5.24
607 830 0.390735 GGACGGGTAGAACAACGCAT 60.391 55.000 0.00 0.00 32.86 4.73
620 843 4.939399 CGCATCTGTGGGTCATCA 57.061 55.556 0.00 0.00 33.90 3.07
739 962 4.373717 CGCTTTATTCGTAAATCTCCGTCG 60.374 45.833 0.00 0.00 0.00 5.12
852 1120 4.453819 CCAAGAGAGAATTTCCACACTGAC 59.546 45.833 0.00 0.00 0.00 3.51
963 1249 4.862823 GCCCGCCTCCTCCTACCT 62.863 72.222 0.00 0.00 0.00 3.08
964 1250 2.522193 CCCGCCTCCTCCTACCTC 60.522 72.222 0.00 0.00 0.00 3.85
966 1252 2.907917 CGCCTCCTCCTACCTCCG 60.908 72.222 0.00 0.00 0.00 4.63
967 1253 3.228017 GCCTCCTCCTACCTCCGC 61.228 72.222 0.00 0.00 0.00 5.54
968 1254 2.279073 CCTCCTCCTACCTCCGCA 59.721 66.667 0.00 0.00 0.00 5.69
969 1255 1.830408 CCTCCTCCTACCTCCGCAG 60.830 68.421 0.00 0.00 0.00 5.18
970 1256 1.076632 CTCCTCCTACCTCCGCAGT 60.077 63.158 0.00 0.00 0.00 4.40
971 1257 1.076923 TCCTCCTACCTCCGCAGTC 60.077 63.158 0.00 0.00 0.00 3.51
972 1258 2.128507 CCTCCTACCTCCGCAGTCC 61.129 68.421 0.00 0.00 0.00 3.85
973 1259 2.439701 TCCTACCTCCGCAGTCCG 60.440 66.667 0.00 0.00 0.00 4.79
974 1260 4.208686 CCTACCTCCGCAGTCCGC 62.209 72.222 0.00 0.00 35.03 5.54
975 1261 3.449227 CTACCTCCGCAGTCCGCA 61.449 66.667 0.00 0.00 42.60 5.69
1433 2107 6.183360 TGTTCTGCCGCCGTTTATAATTTATT 60.183 34.615 0.00 0.00 0.00 1.40
1434 2108 6.380095 TCTGCCGCCGTTTATAATTTATTT 57.620 33.333 0.00 0.00 0.00 1.40
1435 2109 7.493743 TCTGCCGCCGTTTATAATTTATTTA 57.506 32.000 0.00 0.00 0.00 1.40
1436 2110 7.577979 TCTGCCGCCGTTTATAATTTATTTAG 58.422 34.615 0.00 0.00 0.00 1.85
1437 2111 6.670233 TGCCGCCGTTTATAATTTATTTAGG 58.330 36.000 0.00 0.00 0.00 2.69
1438 2112 6.088173 GCCGCCGTTTATAATTTATTTAGGG 58.912 40.000 0.00 0.82 0.00 3.53
1439 2113 6.294120 GCCGCCGTTTATAATTTATTTAGGGT 60.294 38.462 0.00 0.00 0.00 4.34
1610 2331 4.205181 CACTAGTCGATGTAAGAATGCACG 59.795 45.833 0.00 0.00 0.00 5.34
1706 2452 8.068893 TCAGAACTGAGTTGTCGTTTTATTAC 57.931 34.615 0.90 0.00 34.14 1.89
1859 2607 5.131142 ACATGTAGGAGAGGAAGTTTATGGG 59.869 44.000 0.00 0.00 0.00 4.00
1955 2703 2.167662 TGTCGACAAGCCTATGAGACA 58.832 47.619 17.62 10.87 38.29 3.41
2321 3085 3.381908 GCCTCGTGGAAGATCTCTCTTAA 59.618 47.826 7.92 0.00 41.87 1.85
2468 3269 3.831715 GGCACCCATTTATATTCGAGC 57.168 47.619 0.00 0.00 0.00 5.03
2508 3310 7.748691 TTCAAGTTCTGTGATGATTTGATGA 57.251 32.000 0.00 0.00 0.00 2.92
2514 3316 7.177921 AGTTCTGTGATGATTTGATGATTTGGT 59.822 33.333 0.00 0.00 0.00 3.67
2515 3317 6.859017 TCTGTGATGATTTGATGATTTGGTG 58.141 36.000 0.00 0.00 0.00 4.17
2681 3499 2.890808 TCATACGTTCCAGATGCCTC 57.109 50.000 0.00 0.00 0.00 4.70
2696 3514 0.317854 GCCTCTTTTGCGTTCACACC 60.318 55.000 0.00 0.00 0.00 4.16
2716 3535 5.251700 ACACCCTTCCAGATTTCTTCATACT 59.748 40.000 0.00 0.00 0.00 2.12
2719 3538 6.012508 ACCCTTCCAGATTTCTTCATACTTGA 60.013 38.462 0.00 0.00 0.00 3.02
2807 3630 6.293626 GCGATATTCTAGTTGGCACATTGAAT 60.294 38.462 10.87 10.87 39.30 2.57
2929 3767 9.783081 AGATTTTTATTTGCTGAATTCAACCTT 57.217 25.926 9.88 0.00 0.00 3.50
2964 3802 3.060895 GTGAATGAGTGCGCTGTACTTAC 59.939 47.826 3.44 0.00 0.00 2.34
2993 3832 2.084610 TTGTCGCCTCATTCTCACAG 57.915 50.000 0.00 0.00 0.00 3.66
3501 4341 3.496331 GAGGAAGGAAAAACATGGACCA 58.504 45.455 0.00 0.00 0.00 4.02
3517 4357 4.739793 TGGACCAAGTTGATTGAAGGATT 58.260 39.130 3.87 0.00 41.83 3.01
3518 4358 4.523943 TGGACCAAGTTGATTGAAGGATTG 59.476 41.667 3.87 0.00 41.83 2.67
3964 4811 4.340381 GTCTATCTTTGCCCTAACTACGGA 59.660 45.833 0.00 0.00 0.00 4.69
3980 4827 6.282199 ACTACGGATTATGTCTCAGTTTGT 57.718 37.500 0.00 0.00 0.00 2.83
4066 4913 1.846007 AAGTGGGTCAAGCAAACACA 58.154 45.000 0.00 0.00 34.65 3.72
4085 4932 0.323451 AAAGGGCCTGTTCGGATTCC 60.323 55.000 6.92 0.00 33.16 3.01
4102 4949 2.301738 CCCTCCCCTCCACAACTCC 61.302 68.421 0.00 0.00 0.00 3.85
4107 4954 2.286523 CCCTCCACAACTCCGCTCT 61.287 63.158 0.00 0.00 0.00 4.09
4108 4955 1.216710 CCTCCACAACTCCGCTCTC 59.783 63.158 0.00 0.00 0.00 3.20
4130 4977 2.281761 CTGGTGGAGCGGCAGTTT 60.282 61.111 1.45 0.00 0.00 2.66
4131 4978 1.003839 CTGGTGGAGCGGCAGTTTA 60.004 57.895 1.45 0.00 0.00 2.01
4140 4987 1.131618 GCGGCAGTTTAAAATCGCGG 61.132 55.000 6.13 8.78 34.08 6.46
4215 5062 2.293399 GCCGAACAGCCCCTAAAATATG 59.707 50.000 0.00 0.00 0.00 1.78
4216 5063 3.815809 CCGAACAGCCCCTAAAATATGA 58.184 45.455 0.00 0.00 0.00 2.15
4217 5064 4.398319 CCGAACAGCCCCTAAAATATGAT 58.602 43.478 0.00 0.00 0.00 2.45
4225 5072 4.396166 GCCCCTAAAATATGATGTGATCGG 59.604 45.833 0.00 0.00 0.00 4.18
4331 5192 3.078837 GTCGACTCTTCTGAAGTCTCCT 58.921 50.000 16.43 0.00 0.00 3.69
4484 5396 4.488126 TTTCTGCTTGAAGAATGTTCCG 57.512 40.909 0.00 0.00 36.12 4.30
4541 5453 1.127567 CCTGTTCCCCAGTCACCTCA 61.128 60.000 0.00 0.00 39.74 3.86
4542 5454 0.035458 CTGTTCCCCAGTCACCTCAC 59.965 60.000 0.00 0.00 36.37 3.51
4544 5456 1.128188 GTTCCCCAGTCACCTCACCT 61.128 60.000 0.00 0.00 0.00 4.00
4547 5459 2.650116 CCCAGTCACCTCACCTCGG 61.650 68.421 0.00 0.00 0.00 4.63
4548 5460 1.908793 CCAGTCACCTCACCTCGGT 60.909 63.158 0.00 0.00 34.38 4.69
4552 5464 3.455152 CACCTCACCTCGGTGTGA 58.545 61.111 17.21 7.54 45.36 3.58
4553 5465 1.006102 CACCTCACCTCGGTGTGAC 60.006 63.158 17.21 0.00 45.36 3.67
4554 5466 1.456892 ACCTCACCTCGGTGTGACA 60.457 57.895 17.21 0.00 45.55 3.58
4555 5467 0.832135 ACCTCACCTCGGTGTGACAT 60.832 55.000 17.21 2.77 45.55 3.06
4556 5468 0.390340 CCTCACCTCGGTGTGACATG 60.390 60.000 17.21 0.00 45.55 3.21
4647 5559 1.019673 CTGGGCATCATGAAGTTCGG 58.980 55.000 0.00 0.00 0.00 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
71 72 4.956034 TGTTGTTGTTGTTGTTTTGACG 57.044 36.364 0.00 0.00 0.00 4.35
115 133 7.287512 TGGGGTTATGTTGTAGTTTAAAACC 57.712 36.000 0.00 0.00 35.48 3.27
169 187 0.464735 TGTGAGGTTTGTGTTCCCGG 60.465 55.000 0.00 0.00 0.00 5.73
196 214 2.107950 TGGCAACTCGGACTTATTGG 57.892 50.000 0.00 0.00 37.61 3.16
200 218 1.568504 AGGATGGCAACTCGGACTTA 58.431 50.000 0.00 0.00 37.61 2.24
253 271 1.065199 AGCCGATGACATGGATGTGTT 60.065 47.619 0.00 0.00 41.95 3.32
263 281 2.491621 CTCGCTGAGCCGATGACA 59.508 61.111 0.00 0.00 36.54 3.58
278 296 2.543067 ATTCTTGGCGGTGCTCCCTC 62.543 60.000 0.00 0.00 0.00 4.30
282 300 1.869767 CAGATATTCTTGGCGGTGCTC 59.130 52.381 0.00 0.00 0.00 4.26
284 302 0.308993 GCAGATATTCTTGGCGGTGC 59.691 55.000 0.00 0.00 0.00 5.01
354 373 1.968050 ATTAGAAGGCGACGGGGTGG 61.968 60.000 0.00 0.00 0.00 4.61
355 374 0.810031 CATTAGAAGGCGACGGGGTG 60.810 60.000 0.00 0.00 0.00 4.61
356 375 0.974010 TCATTAGAAGGCGACGGGGT 60.974 55.000 0.00 0.00 0.00 4.95
357 376 0.529992 GTCATTAGAAGGCGACGGGG 60.530 60.000 0.00 0.00 0.00 5.73
358 377 0.174845 TGTCATTAGAAGGCGACGGG 59.825 55.000 0.00 0.00 0.00 5.28
359 378 1.659098 GTTGTCATTAGAAGGCGACGG 59.341 52.381 0.00 0.00 0.00 4.79
360 379 2.607187 AGTTGTCATTAGAAGGCGACG 58.393 47.619 0.00 0.00 0.00 5.12
361 380 3.994392 TCAAGTTGTCATTAGAAGGCGAC 59.006 43.478 2.11 0.00 0.00 5.19
362 381 4.265904 TCAAGTTGTCATTAGAAGGCGA 57.734 40.909 2.11 0.00 0.00 5.54
363 382 4.452455 ACTTCAAGTTGTCATTAGAAGGCG 59.548 41.667 2.11 0.00 37.41 5.52
493 716 7.021196 CCGATGTTTCGTTTCAGTGATAAATT 58.979 34.615 0.00 0.00 43.97 1.82
552 775 0.915364 GTGCTTCCTCTCCCTCCATT 59.085 55.000 0.00 0.00 0.00 3.16
567 790 2.333417 ATCGACGAGACCACGTGCT 61.333 57.895 10.91 2.05 46.52 4.40
606 829 1.208052 CTTCGGTGATGACCCACAGAT 59.792 52.381 0.00 0.00 40.04 2.90
607 830 0.608130 CTTCGGTGATGACCCACAGA 59.392 55.000 0.00 0.00 39.39 3.41
620 843 1.497309 TTCCCTTCCCATGCTTCGGT 61.497 55.000 0.00 0.00 0.00 4.69
739 962 3.686726 ACGAGTGAAGAGCATGAAATTCC 59.313 43.478 0.00 0.00 0.00 3.01
852 1120 1.082104 GGAACGGCTCAAAGTTGCG 60.082 57.895 0.00 0.00 0.00 4.85
973 1259 4.143301 GAATGGGGGAGGGGGTGC 62.143 72.222 0.00 0.00 0.00 5.01
974 1260 3.429580 GGAATGGGGGAGGGGGTG 61.430 72.222 0.00 0.00 0.00 4.61
975 1261 4.799041 GGGAATGGGGGAGGGGGT 62.799 72.222 0.00 0.00 0.00 4.95
1192 1864 4.195334 CTTCCCATCCCCGCCCTG 62.195 72.222 0.00 0.00 0.00 4.45
1203 1875 0.752009 CGAGATCCGTCTCCTTCCCA 60.752 60.000 0.24 0.00 46.67 4.37
1433 2107 1.152610 AGAGCCGCGGATACCCTAA 60.153 57.895 33.48 0.00 0.00 2.69
1434 2108 1.602888 GAGAGCCGCGGATACCCTA 60.603 63.158 33.48 0.00 0.00 3.53
1435 2109 2.913060 GAGAGCCGCGGATACCCT 60.913 66.667 33.48 17.46 0.00 4.34
1436 2110 2.913060 AGAGAGCCGCGGATACCC 60.913 66.667 33.48 15.46 0.00 3.69
1437 2111 2.336809 CAGAGAGCCGCGGATACC 59.663 66.667 33.48 18.34 0.00 2.73
1438 2112 2.355244 GCAGAGAGCCGCGGATAC 60.355 66.667 33.48 20.72 37.23 2.24
1562 2236 7.394077 TGAAAGCAAGGAGATGTAAATCAATCA 59.606 33.333 0.00 0.00 0.00 2.57
1563 2237 7.699812 GTGAAAGCAAGGAGATGTAAATCAATC 59.300 37.037 0.00 0.00 0.00 2.67
1564 2238 7.395489 AGTGAAAGCAAGGAGATGTAAATCAAT 59.605 33.333 0.00 0.00 0.00 2.57
1565 2239 6.716628 AGTGAAAGCAAGGAGATGTAAATCAA 59.283 34.615 0.00 0.00 0.00 2.57
1706 2452 2.032290 CAGCATACAGATGGATGTTGCG 60.032 50.000 8.68 0.00 39.75 4.85
1859 2607 4.449068 TCGAGCACATCAAGAAGAAACTTC 59.551 41.667 0.00 0.00 0.00 3.01
1889 2637 1.828979 TCCCAACAACGCTAATTCCC 58.171 50.000 0.00 0.00 0.00 3.97
1955 2703 4.777896 TCTACAAGAACCCAGCATAGAAGT 59.222 41.667 0.00 0.00 0.00 3.01
2056 2804 5.574891 AACGCATAAATCACATAGGCAAA 57.425 34.783 0.00 0.00 30.83 3.68
2321 3085 0.701731 TGTTCATCCCGGTTCCCATT 59.298 50.000 0.00 0.00 0.00 3.16
2468 3269 5.941948 ACTTGAATAAAAACGGGTGAGAG 57.058 39.130 0.00 0.00 0.00 3.20
2505 3307 3.822735 CAGTTCAGTCACCACCAAATCAT 59.177 43.478 0.00 0.00 0.00 2.45
2508 3310 2.586425 CCAGTTCAGTCACCACCAAAT 58.414 47.619 0.00 0.00 0.00 2.32
2514 3316 1.679139 CAAAGCCAGTTCAGTCACCA 58.321 50.000 0.00 0.00 0.00 4.17
2515 3317 0.312102 GCAAAGCCAGTTCAGTCACC 59.688 55.000 0.00 0.00 0.00 4.02
2681 3499 1.269051 GGAAGGGTGTGAACGCAAAAG 60.269 52.381 0.00 0.00 0.00 2.27
2696 3514 7.334090 TCTCAAGTATGAAGAAATCTGGAAGG 58.666 38.462 0.00 0.00 34.49 3.46
2716 3535 5.863965 TGACAGTTACACATGGAATCTCAA 58.136 37.500 0.00 0.00 0.00 3.02
2719 3538 6.475504 TCATTGACAGTTACACATGGAATCT 58.524 36.000 0.00 0.00 0.00 2.40
2782 3605 4.511454 TCAATGTGCCAACTAGAATATCGC 59.489 41.667 0.00 0.00 0.00 4.58
2929 3767 3.834813 ACTCATTCACTGTCCTCTAAGCA 59.165 43.478 0.00 0.00 0.00 3.91
2964 3802 2.621338 TGAGGCGACAAAATGCTAGAG 58.379 47.619 0.00 0.00 0.00 2.43
3501 4341 4.219288 GGCTGACAATCCTTCAATCAACTT 59.781 41.667 0.00 0.00 0.00 2.66
3517 4357 1.131638 AACTTCAGGACAGGCTGACA 58.868 50.000 23.66 0.00 0.00 3.58
3518 4358 2.147150 GAAACTTCAGGACAGGCTGAC 58.853 52.381 23.66 15.73 0.00 3.51
3724 4566 5.290158 GCAGCATGATGAACCAGTAAAAATG 59.710 40.000 16.67 0.00 39.69 2.32
3800 4642 7.884877 ACTTGGTAAAATCACATTCTCATCAGA 59.115 33.333 0.00 0.00 0.00 3.27
3874 4716 7.418597 GGGAAACTACCAAAATCACCTTCTTTT 60.419 37.037 0.00 0.00 0.00 2.27
3875 4717 6.041637 GGGAAACTACCAAAATCACCTTCTTT 59.958 38.462 0.00 0.00 0.00 2.52
3876 4718 5.538813 GGGAAACTACCAAAATCACCTTCTT 59.461 40.000 0.00 0.00 0.00 2.52
3877 4719 5.077564 GGGAAACTACCAAAATCACCTTCT 58.922 41.667 0.00 0.00 0.00 2.85
3878 4720 4.219944 GGGGAAACTACCAAAATCACCTTC 59.780 45.833 0.00 0.00 30.71 3.46
3911 4758 7.226128 CACTGCACAGTTATCAATAGATCACAT 59.774 37.037 0.00 0.00 40.20 3.21
3964 4811 8.394971 TCAACAATCACAAACTGAGACATAAT 57.605 30.769 0.00 0.00 30.20 1.28
3980 4827 2.031560 GCACGACACACTTCAACAATCA 59.968 45.455 0.00 0.00 0.00 2.57
4036 4883 7.156876 TGCTTGACCCACTTTAATCTATTTG 57.843 36.000 0.00 0.00 0.00 2.32
4050 4897 1.480137 CCTTTGTGTTTGCTTGACCCA 59.520 47.619 0.00 0.00 0.00 4.51
4066 4913 0.323451 GGAATCCGAACAGGCCCTTT 60.323 55.000 0.00 0.00 40.77 3.11
4085 4932 2.660064 CGGAGTTGTGGAGGGGAGG 61.660 68.421 0.00 0.00 0.00 4.30
4130 4977 0.614294 TTCCCCACTCCGCGATTTTA 59.386 50.000 8.23 0.00 0.00 1.52
4131 4978 0.676782 CTTCCCCACTCCGCGATTTT 60.677 55.000 8.23 0.00 0.00 1.82
4140 4987 1.904990 GAGCACCTCCTTCCCCACTC 61.905 65.000 0.00 0.00 0.00 3.51
4162 5009 3.319405 GCTCCGTGAAATCTCAGGATCTA 59.681 47.826 0.00 0.00 39.36 1.98
4197 5044 5.827797 TCACATCATATTTTAGGGGCTGTTC 59.172 40.000 0.00 0.00 0.00 3.18
4225 5072 2.234661 TCTCAGACCATGGTGTCATCAC 59.765 50.000 25.52 5.65 43.19 3.06
4331 5192 1.008327 TCCTGGGAGCTGAGGTAATGA 59.992 52.381 0.00 0.00 0.00 2.57
4484 5396 1.199615 AACTAGGCTGGAGGAGAAGC 58.800 55.000 4.33 0.00 38.76 3.86
4541 5453 1.878102 GCTTTCATGTCACACCGAGGT 60.878 52.381 0.00 0.00 0.00 3.85
4542 5454 0.798776 GCTTTCATGTCACACCGAGG 59.201 55.000 0.00 0.00 0.00 4.63
4544 5456 1.805943 CATGCTTTCATGTCACACCGA 59.194 47.619 0.00 0.00 43.85 4.69
4551 5463 7.541098 GGGATACGATGCATGCTTTCATGTC 62.541 48.000 20.33 11.58 44.82 3.06
4552 5464 5.811562 GGGATACGATGCATGCTTTCATGT 61.812 45.833 20.33 11.85 44.82 3.21
4553 5465 3.365666 GGGATACGATGCATGCTTTCATG 60.366 47.826 20.33 6.86 45.39 3.07
4554 5466 2.816087 GGGATACGATGCATGCTTTCAT 59.184 45.455 20.33 7.12 37.60 2.57
4555 5467 2.221169 GGGATACGATGCATGCTTTCA 58.779 47.619 20.33 0.00 37.60 2.69
4556 5468 2.221169 TGGGATACGATGCATGCTTTC 58.779 47.619 20.33 14.44 37.60 2.62
4647 5559 2.126228 TCGATCGGCGACAACACC 60.126 61.111 13.76 0.00 45.59 4.16


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

AutoCloner maintained by Alex Coulton.