Multiple sequence alignment - TraesCS7B01G434700

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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 TraesCS7B01G434700 chr7B 100.000 4301 0 0 631 4931 701868859 701873159 0.000000e+00 7943.0
1 TraesCS7B01G434700 chr7B 89.743 3539 265 42 642 4138 700396224 700392742 0.000000e+00 4434.0
2 TraesCS7B01G434700 chr7B 100.000 235 0 0 1 235 701868229 701868463 7.580000e-118 435.0
3 TraesCS7B01G434700 chr7B 81.319 273 34 8 4544 4813 655976485 655976743 6.470000e-49 206.0
4 TraesCS7B01G434700 chr7A 96.337 3604 109 9 803 4404 702978733 702975151 0.000000e+00 5903.0
5 TraesCS7B01G434700 chr7A 89.212 3541 274 51 642 4136 701274906 701271428 0.000000e+00 4324.0
6 TraesCS7B01G434700 chr7A 93.229 192 8 3 4743 4931 702975047 702974858 1.350000e-70 278.0
7 TraesCS7B01G434700 chr7A 91.071 112 9 1 4475 4586 702975150 702975040 3.070000e-32 150.0
8 TraesCS7B01G434700 chr7A 86.517 89 2 4 3960 4038 703527434 703527522 6.800000e-14 89.8
9 TraesCS7B01G434700 chr7D 96.597 3438 102 6 842 4276 612436495 612439920 0.000000e+00 5686.0
10 TraesCS7B01G434700 chr7D 90.523 3271 249 32 902 4138 611235317 611232074 0.000000e+00 4266.0
11 TraesCS7B01G434700 chr7D 92.515 334 17 6 4601 4931 612440282 612440610 5.780000e-129 472.0
12 TraesCS7B01G434700 chr7D 90.871 241 13 3 1 235 612435576 612435813 1.030000e-81 315.0
13 TraesCS7B01G434700 chr7D 93.434 198 10 2 4475 4672 612440088 612440282 1.740000e-74 291.0
14 TraesCS7B01G434700 chr7D 94.643 56 3 0 4297 4352 612440026 612440081 2.450000e-13 87.9
15 TraesCS7B01G434700 chr7D 85.393 89 3 2 3960 4038 612695371 612695459 3.160000e-12 84.2
16 TraesCS7B01G434700 chr3A 88.601 193 16 1 1003 1195 152001010 152000824 3.840000e-56 230.0
17 TraesCS7B01G434700 chr6B 81.319 273 34 8 4544 4813 87469999 87469741 6.470000e-49 206.0
18 TraesCS7B01G434700 chr6B 81.319 273 33 9 4544 4813 670924071 670923814 6.470000e-49 206.0
19 TraesCS7B01G434700 chr1B 81.319 273 34 8 4544 4813 122598815 122598557 6.470000e-49 206.0
20 TraesCS7B01G434700 chr1B 81.091 275 31 13 4544 4813 615534557 615534815 3.010000e-47 200.0
21 TraesCS7B01G434700 chr3B 80.586 273 36 9 4544 4813 772285157 772285415 1.400000e-45 195.0
22 TraesCS7B01G434700 chr4B 80.220 273 36 9 4544 4813 266127908 266127651 6.520000e-44 189.0


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 TraesCS7B01G434700 chr7B 701868229 701873159 4930 False 4189.000000 7943 100.000000 1 4931 2 chr7B.!!$F2 4930
1 TraesCS7B01G434700 chr7B 700392742 700396224 3482 True 4434.000000 4434 89.743000 642 4138 1 chr7B.!!$R1 3496
2 TraesCS7B01G434700 chr7A 701271428 701274906 3478 True 4324.000000 4324 89.212000 642 4136 1 chr7A.!!$R1 3494
3 TraesCS7B01G434700 chr7A 702974858 702978733 3875 True 2110.333333 5903 93.545667 803 4931 3 chr7A.!!$R2 4128
4 TraesCS7B01G434700 chr7D 611232074 611235317 3243 True 4266.000000 4266 90.523000 902 4138 1 chr7D.!!$R1 3236
5 TraesCS7B01G434700 chr7D 612435576 612440610 5034 False 1370.380000 5686 93.612000 1 4931 5 chr7D.!!$F2 4930

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
233 240 0.327576 TCTCCTCCCCCTCAAATCCC 60.328 60.0 0.00 0.00 0.0 3.85 F
1581 2199 0.323957 ACTGCGAGGTTAACTTCCCC 59.676 55.0 11.72 4.49 0.0 4.81 F
2598 3216 0.321346 GGGGCAAAGTTTCATGTGGG 59.679 55.0 0.00 0.00 0.0 4.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1905 2523 0.247736 GACACTCTCCTTCGTGGCAT 59.752 55.000 0.0 0.0 39.0 4.40 R
3387 4005 1.269448 CAAACCAATTCACACTCCCCG 59.731 52.381 0.0 0.0 0.0 5.73 R
4442 5194 1.146982 AGTTTGCTAGAAAAGGGGGCA 59.853 47.619 0.0 0.0 0.0 5.36 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
39 40 2.230994 GAACCGACCCGACCTAACCC 62.231 65.000 0.00 0.00 0.00 4.11
42 43 2.718073 CGACCCGACCTAACCCCAG 61.718 68.421 0.00 0.00 0.00 4.45
52 53 2.595009 CTAACCCCAGAGCCCGAAGC 62.595 65.000 0.00 0.00 44.25 3.86
106 109 2.362632 ACCCCTCCCGTCTCGAAG 60.363 66.667 0.00 0.00 0.00 3.79
107 110 3.839432 CCCCTCCCGTCTCGAAGC 61.839 72.222 0.00 0.00 0.00 3.86
231 238 0.472044 GCTCTCCTCCCCCTCAAATC 59.528 60.000 0.00 0.00 0.00 2.17
232 239 1.135960 CTCTCCTCCCCCTCAAATCC 58.864 60.000 0.00 0.00 0.00 3.01
233 240 0.327576 TCTCCTCCCCCTCAAATCCC 60.328 60.000 0.00 0.00 0.00 3.85
234 241 1.308746 TCCTCCCCCTCAAATCCCC 60.309 63.158 0.00 0.00 0.00 4.81
690 697 3.992641 CCCCTCCCCAACCCCAAC 61.993 72.222 0.00 0.00 0.00 3.77
691 698 3.992641 CCCTCCCCAACCCCAACC 61.993 72.222 0.00 0.00 0.00 3.77
692 699 3.992641 CCTCCCCAACCCCAACCC 61.993 72.222 0.00 0.00 0.00 4.11
705 712 3.852421 AACCCCAACCCCAACCCC 61.852 66.667 0.00 0.00 0.00 4.95
828 1389 4.722700 CCAGCCAACTCCCCCGTG 62.723 72.222 0.00 0.00 0.00 4.94
1313 1925 4.554036 GGATCCTGCCGCCTCCAC 62.554 72.222 3.84 0.00 0.00 4.02
1314 1926 4.554036 GATCCTGCCGCCTCCACC 62.554 72.222 0.00 0.00 0.00 4.61
1452 2070 0.811616 GCAAGCAGTCTATCACCCGG 60.812 60.000 0.00 0.00 0.00 5.73
1581 2199 0.323957 ACTGCGAGGTTAACTTCCCC 59.676 55.000 11.72 4.49 0.00 4.81
1620 2238 4.225208 GCAAGAAAACAGAGACATTGCTC 58.775 43.478 0.00 0.00 38.73 4.26
1653 2271 0.473755 TGCTGAAAGGGAAGCTGTCA 59.526 50.000 0.00 0.00 40.21 3.58
1905 2523 4.615901 CATAGGTGCAAGGTCGCA 57.384 55.556 0.00 0.00 40.32 5.10
2088 2706 1.123861 AGCTCTGTTGCCCTCTGTCA 61.124 55.000 0.00 0.00 0.00 3.58
2163 2781 0.674581 CATGTGGCAAGAAGCTCCGA 60.675 55.000 0.00 0.00 44.79 4.55
2205 2823 1.620739 ATCTCTGCCACAGCGGTCAT 61.621 55.000 0.00 0.00 46.23 3.06
2235 2853 1.134521 TGCCGTGAGACCATATTCCAC 60.135 52.381 0.00 0.00 0.00 4.02
2313 2931 1.687054 CCAACTCCATCATGCCCACAT 60.687 52.381 0.00 0.00 36.79 3.21
2598 3216 0.321346 GGGGCAAAGTTTCATGTGGG 59.679 55.000 0.00 0.00 0.00 4.61
2704 3322 3.127589 TGTGAACACCGTGTGACTATTG 58.872 45.455 4.57 0.00 36.96 1.90
2814 3432 2.348888 GCAGCTGCCAATGCCTCTT 61.349 57.895 28.76 0.00 36.41 2.85
2848 3466 1.547372 CAAATGGCAAGAGGGTTCCTG 59.453 52.381 0.00 0.00 31.76 3.86
3129 3747 3.937706 GTCACATGATGAAGGACAAGAGG 59.062 47.826 0.00 0.00 39.72 3.69
3176 3794 0.401738 TGGAAGCTTTCTGTCCAGGG 59.598 55.000 6.25 0.00 36.51 4.45
3300 3918 3.134804 CGTCCCATCCTTACTTTGATCCT 59.865 47.826 0.00 0.00 0.00 3.24
3387 4005 5.004448 AGCTCTCTAGTTTTAAGGTTTGGC 58.996 41.667 0.00 0.00 0.00 4.52
3921 4577 5.555966 GAAGTTGAAGACTGGGAAGAATCT 58.444 41.667 0.00 0.00 39.00 2.40
3937 4593 6.822676 GGAAGAATCTTGTGAATGATGAGACT 59.177 38.462 0.00 0.00 0.00 3.24
4142 4809 7.066887 TGTTCTTTAACATCACAGTGTTCACAT 59.933 33.333 0.00 0.00 40.69 3.21
4246 4913 8.421784 TGTGTATGAAGTTCTTCAGACTAGTTT 58.578 33.333 28.16 11.72 42.04 2.66
4248 4915 8.638873 TGTATGAAGTTCTTCAGACTAGTTTGA 58.361 33.333 28.16 11.87 42.04 2.69
4337 5089 6.296432 GCCATCTCCCTGTTATCATATTGGTA 60.296 42.308 0.00 0.00 0.00 3.25
4361 5113 9.903682 GTAATGTGAAACTAGTTGTAGTGAGTA 57.096 33.333 9.34 0.00 39.60 2.59
4362 5114 8.813643 AATGTGAAACTAGTTGTAGTGAGTAC 57.186 34.615 9.34 0.00 39.60 2.73
4363 5115 7.578310 TGTGAAACTAGTTGTAGTGAGTACT 57.422 36.000 9.34 0.00 39.60 2.73
4364 5116 7.423199 TGTGAAACTAGTTGTAGTGAGTACTG 58.577 38.462 9.34 0.00 39.60 2.74
4365 5117 7.283807 TGTGAAACTAGTTGTAGTGAGTACTGA 59.716 37.037 9.34 0.00 39.60 3.41
4366 5118 7.804129 GTGAAACTAGTTGTAGTGAGTACTGAG 59.196 40.741 9.34 0.00 39.60 3.35
4367 5119 7.501559 TGAAACTAGTTGTAGTGAGTACTGAGT 59.498 37.037 9.34 0.00 39.60 3.41
4374 5126 5.074804 TGTAGTGAGTACTGAGTAGCCAAA 58.925 41.667 0.00 0.00 37.78 3.28
4387 5139 1.251251 AGCCAAACAATGTCTGCCTC 58.749 50.000 0.00 0.00 0.00 4.70
4404 5156 3.573538 TGCCTCATTAACAGTTTGTGCAT 59.426 39.130 0.00 0.00 0.00 3.96
4405 5157 4.764308 TGCCTCATTAACAGTTTGTGCATA 59.236 37.500 0.00 0.00 0.00 3.14
4406 5158 5.095490 GCCTCATTAACAGTTTGTGCATAC 58.905 41.667 0.00 0.00 0.00 2.39
4407 5159 5.335583 GCCTCATTAACAGTTTGTGCATACA 60.336 40.000 0.00 0.00 34.31 2.29
4408 5160 6.317088 CCTCATTAACAGTTTGTGCATACAG 58.683 40.000 0.00 0.00 38.23 2.74
4409 5161 6.072508 CCTCATTAACAGTTTGTGCATACAGT 60.073 38.462 0.00 0.00 38.23 3.55
4410 5162 7.270757 TCATTAACAGTTTGTGCATACAGTT 57.729 32.000 10.52 10.52 38.23 3.16
4411 5163 7.359595 TCATTAACAGTTTGTGCATACAGTTC 58.640 34.615 9.47 0.00 38.23 3.01
4412 5164 6.685527 TTAACAGTTTGTGCATACAGTTCA 57.314 33.333 9.47 0.09 38.23 3.18
4413 5165 5.574891 AACAGTTTGTGCATACAGTTCAA 57.425 34.783 0.00 0.00 38.23 2.69
4414 5166 5.173774 ACAGTTTGTGCATACAGTTCAAG 57.826 39.130 0.00 0.00 38.23 3.02
4415 5167 4.036734 ACAGTTTGTGCATACAGTTCAAGG 59.963 41.667 0.00 0.00 38.23 3.61
4416 5168 4.036734 CAGTTTGTGCATACAGTTCAAGGT 59.963 41.667 0.00 0.00 38.23 3.50
4417 5169 5.238432 CAGTTTGTGCATACAGTTCAAGGTA 59.762 40.000 0.00 0.00 38.23 3.08
4418 5170 5.470098 AGTTTGTGCATACAGTTCAAGGTAG 59.530 40.000 0.00 0.00 38.23 3.18
4419 5171 4.617253 TGTGCATACAGTTCAAGGTAGT 57.383 40.909 0.00 0.00 31.91 2.73
4420 5172 4.968259 TGTGCATACAGTTCAAGGTAGTT 58.032 39.130 0.00 0.00 31.91 2.24
4421 5173 6.104146 TGTGCATACAGTTCAAGGTAGTTA 57.896 37.500 0.00 0.00 31.91 2.24
4422 5174 5.929992 TGTGCATACAGTTCAAGGTAGTTAC 59.070 40.000 0.00 0.00 31.91 2.50
4423 5175 5.350640 GTGCATACAGTTCAAGGTAGTTACC 59.649 44.000 0.00 0.00 46.82 2.85
4424 5176 9.835095 TGTGCATACAGTTCAAGGTAGTTACCC 62.835 44.444 4.72 0.00 38.46 3.69
4434 5186 3.937778 GGTAGTTACCCCCATAAGCAA 57.062 47.619 0.00 0.00 40.53 3.91
4435 5187 3.548770 GGTAGTTACCCCCATAAGCAAC 58.451 50.000 0.00 0.00 40.53 4.17
4436 5188 3.054213 GGTAGTTACCCCCATAAGCAACA 60.054 47.826 0.00 0.00 40.53 3.33
4437 5189 4.385977 GGTAGTTACCCCCATAAGCAACAT 60.386 45.833 0.00 0.00 40.53 2.71
4438 5190 3.631250 AGTTACCCCCATAAGCAACATG 58.369 45.455 0.00 0.00 0.00 3.21
4439 5191 3.011257 AGTTACCCCCATAAGCAACATGT 59.989 43.478 0.00 0.00 0.00 3.21
4440 5192 4.228666 AGTTACCCCCATAAGCAACATGTA 59.771 41.667 0.00 0.00 0.00 2.29
4441 5193 3.971468 ACCCCCATAAGCAACATGTAT 57.029 42.857 0.00 0.00 0.00 2.29
4442 5194 4.264373 ACCCCCATAAGCAACATGTATT 57.736 40.909 0.00 0.00 0.00 1.89
4443 5195 3.960102 ACCCCCATAAGCAACATGTATTG 59.040 43.478 0.00 0.00 0.00 1.90
4452 5204 3.979101 CAACATGTATTGCCCCCTTTT 57.021 42.857 0.00 0.00 0.00 2.27
4453 5205 3.860641 CAACATGTATTGCCCCCTTTTC 58.139 45.455 0.00 0.00 0.00 2.29
4454 5206 3.473113 ACATGTATTGCCCCCTTTTCT 57.527 42.857 0.00 0.00 0.00 2.52
4455 5207 4.601406 ACATGTATTGCCCCCTTTTCTA 57.399 40.909 0.00 0.00 0.00 2.10
4456 5208 4.536765 ACATGTATTGCCCCCTTTTCTAG 58.463 43.478 0.00 0.00 0.00 2.43
4457 5209 3.012934 TGTATTGCCCCCTTTTCTAGC 57.987 47.619 0.00 0.00 0.00 3.42
4458 5210 2.310349 TGTATTGCCCCCTTTTCTAGCA 59.690 45.455 0.00 0.00 0.00 3.49
4459 5211 2.621556 ATTGCCCCCTTTTCTAGCAA 57.378 45.000 0.00 0.00 46.43 3.91
4460 5212 2.390225 TTGCCCCCTTTTCTAGCAAA 57.610 45.000 0.00 0.00 40.26 3.68
4461 5213 1.627864 TGCCCCCTTTTCTAGCAAAC 58.372 50.000 0.00 0.00 0.00 2.93
4462 5214 1.146982 TGCCCCCTTTTCTAGCAAACT 59.853 47.619 0.00 0.00 0.00 2.66
4463 5215 2.377193 TGCCCCCTTTTCTAGCAAACTA 59.623 45.455 0.00 0.00 0.00 2.24
4464 5216 3.017442 GCCCCCTTTTCTAGCAAACTAG 58.983 50.000 0.00 0.00 46.30 2.57
4465 5217 3.561528 GCCCCCTTTTCTAGCAAACTAGT 60.562 47.826 0.00 0.00 45.32 2.57
4466 5218 4.010349 CCCCCTTTTCTAGCAAACTAGTG 58.990 47.826 0.00 0.00 45.32 2.74
4467 5219 4.263331 CCCCCTTTTCTAGCAAACTAGTGA 60.263 45.833 0.00 0.00 45.32 3.41
4468 5220 5.313712 CCCCTTTTCTAGCAAACTAGTGAA 58.686 41.667 0.00 0.00 45.32 3.18
4469 5221 5.768164 CCCCTTTTCTAGCAAACTAGTGAAA 59.232 40.000 0.00 0.00 45.32 2.69
4470 5222 6.264518 CCCCTTTTCTAGCAAACTAGTGAAAA 59.735 38.462 13.04 13.04 45.32 2.29
4471 5223 7.201875 CCCCTTTTCTAGCAAACTAGTGAAAAA 60.202 37.037 14.06 6.25 45.32 1.94
4520 5272 7.893124 TTAGTTACAGAGGAAGTACATAGGG 57.107 40.000 0.00 0.00 0.00 3.53
4525 5277 3.068873 CAGAGGAAGTACATAGGGAGCAC 59.931 52.174 0.00 0.00 0.00 4.40
4537 5289 0.329596 GGGAGCACCTGTTTCCATCT 59.670 55.000 0.00 0.00 35.85 2.90
4538 5290 1.680249 GGGAGCACCTGTTTCCATCTC 60.680 57.143 0.00 0.00 35.85 2.75
4572 5326 3.668447 TGGCTGAAATGACTCTGAGAAC 58.332 45.455 12.44 5.75 0.00 3.01
4583 5337 5.734720 TGACTCTGAGAACTGTGAAAAAGT 58.265 37.500 12.44 0.00 34.22 2.66
4597 5351 6.900189 TGTGAAAAAGTAACGACTGAAACAA 58.100 32.000 0.00 0.00 35.52 2.83
4599 5353 7.535940 TGTGAAAAAGTAACGACTGAAACAAAG 59.464 33.333 0.00 0.00 35.52 2.77
4619 5373 8.978874 ACAAAGAATGCCATACATATGTTAGA 57.021 30.769 14.77 0.00 38.34 2.10
4684 5509 9.298774 ACGGTATTTAGAAACTAATTCTCTTCG 57.701 33.333 0.00 0.00 45.42 3.79
4699 5524 4.528920 TCTCTTCGTTTTCTTTGGGGAAA 58.471 39.130 0.00 0.00 33.98 3.13
4700 5525 4.578928 TCTCTTCGTTTTCTTTGGGGAAAG 59.421 41.667 0.00 0.00 36.69 2.62
4702 5527 4.707934 TCTTCGTTTTCTTTGGGGAAAGTT 59.292 37.500 0.00 0.00 36.69 2.66
4703 5528 4.379339 TCGTTTTCTTTGGGGAAAGTTG 57.621 40.909 0.00 0.00 36.69 3.16
4745 5570 2.151881 AATGCTCATGCGTTGCAAAA 57.848 40.000 0.00 0.00 45.65 2.44
4746 5571 1.705256 ATGCTCATGCGTTGCAAAAG 58.295 45.000 0.00 0.00 43.62 2.27
4792 5617 6.572519 ACATCAGTTGTTTAAATGCTTGTGT 58.427 32.000 0.00 0.00 33.74 3.72
4820 5645 1.467342 GCCCCTAACTTACTGCAAACG 59.533 52.381 0.00 0.00 0.00 3.60
4826 5651 6.443792 CCCTAACTTACTGCAAACGAAAAAT 58.556 36.000 0.00 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 2.732619 GGGCTCTGGGGTTAGGTCG 61.733 68.421 0.00 0.00 0.00 4.79
39 40 2.815647 GTTCGCTTCGGGCTCTGG 60.816 66.667 0.52 0.00 39.13 3.86
89 92 2.362632 CTTCGAGACGGGAGGGGT 60.363 66.667 0.00 0.00 0.00 4.95
682 689 3.852421 GGGGTTGGGGTTGGGGTT 61.852 66.667 0.00 0.00 0.00 4.11
686 693 2.525629 GGTTGGGGTTGGGGTTGG 60.526 66.667 0.00 0.00 0.00 3.77
687 694 2.525629 GGGTTGGGGTTGGGGTTG 60.526 66.667 0.00 0.00 0.00 3.77
688 695 3.852421 GGGGTTGGGGTTGGGGTT 61.852 66.667 0.00 0.00 0.00 4.11
1596 2214 3.558505 CAATGTCTCTGTTTTCTTGCCG 58.441 45.455 0.00 0.00 0.00 5.69
1620 2238 4.827087 AGCACCATCTCGCCGCAG 62.827 66.667 0.00 0.00 0.00 5.18
1653 2271 1.630878 GAGAACACCCCATCCTTGTCT 59.369 52.381 0.00 0.00 0.00 3.41
1863 2481 1.511850 CACACGGCAATCTCTTGTCA 58.488 50.000 0.00 0.00 36.77 3.58
1903 2521 1.078848 ACTCTCCTTCGTGGCATGC 60.079 57.895 9.90 9.90 35.26 4.06
1905 2523 0.247736 GACACTCTCCTTCGTGGCAT 59.752 55.000 0.00 0.00 39.00 4.40
1929 2547 2.661537 TCGACACGCACCAAGCAG 60.662 61.111 0.00 0.00 46.13 4.24
2071 2689 2.149578 CTTTGACAGAGGGCAACAGAG 58.850 52.381 0.00 0.00 39.74 3.35
2072 2690 1.815408 GCTTTGACAGAGGGCAACAGA 60.815 52.381 0.00 0.00 39.74 3.41
2235 2853 1.073964 CACAGGCACAAGTGAGATCG 58.926 55.000 4.04 0.00 38.58 3.69
2313 2931 1.985614 CTGAGGGACCATGCACTGA 59.014 57.895 0.00 0.00 0.00 3.41
2598 3216 3.642938 TGGGACACCACATAACTGC 57.357 52.632 0.00 0.00 43.37 4.40
2814 3432 2.562298 GCCATTTGATTCCACTGGTTGA 59.438 45.455 0.00 0.00 31.32 3.18
2848 3466 2.031870 ACAAAGTTTCCTCTGCCCAAC 58.968 47.619 0.00 0.00 0.00 3.77
3129 3747 1.811359 GCAATGAGCCTGATAGCATCC 59.189 52.381 0.00 0.00 37.23 3.51
3264 3882 4.477975 GACGCCGAGACAGGGACG 62.478 72.222 0.00 0.00 0.00 4.79
3300 3918 1.970640 CTCGGATCCATGTCCACCATA 59.029 52.381 13.41 0.00 38.21 2.74
3387 4005 1.269448 CAAACCAATTCACACTCCCCG 59.731 52.381 0.00 0.00 0.00 5.73
3888 4542 3.322254 AGTCTTCAACTTCGACATCAGGT 59.678 43.478 0.00 0.00 33.03 4.00
3894 4548 2.036387 TCCCAGTCTTCAACTTCGACA 58.964 47.619 0.00 0.00 35.45 4.35
3921 4577 4.897509 ACCTCAGTCTCATCATTCACAA 57.102 40.909 0.00 0.00 0.00 3.33
3937 4593 4.894784 GTCATCTTGACCAAACTACCTCA 58.105 43.478 0.00 0.00 41.37 3.86
4004 4666 1.792949 GTGACACAGTAACAGCTTCGG 59.207 52.381 0.00 0.00 0.00 4.30
4337 5089 8.639761 AGTACTCACTACAACTAGTTTCACATT 58.360 33.333 5.07 0.00 30.03 2.71
4361 5113 4.067896 CAGACATTGTTTGGCTACTCAGT 58.932 43.478 0.00 0.00 44.08 3.41
4362 5114 3.120060 GCAGACATTGTTTGGCTACTCAG 60.120 47.826 9.16 0.00 44.08 3.35
4363 5115 2.813754 GCAGACATTGTTTGGCTACTCA 59.186 45.455 9.16 0.00 44.08 3.41
4364 5116 2.162408 GGCAGACATTGTTTGGCTACTC 59.838 50.000 21.94 0.48 44.08 2.59
4365 5117 2.162681 GGCAGACATTGTTTGGCTACT 58.837 47.619 21.94 0.00 44.08 2.57
4366 5118 2.636768 GGCAGACATTGTTTGGCTAC 57.363 50.000 21.94 1.41 44.08 3.58
4374 5126 4.655963 ACTGTTAATGAGGCAGACATTGT 58.344 39.130 12.38 0.00 38.25 2.71
4387 5139 7.138081 TGAACTGTATGCACAAACTGTTAATG 58.862 34.615 15.99 0.00 37.73 1.90
4404 5156 3.840078 GGGGGTAACTACCTTGAACTGTA 59.160 47.826 5.90 0.00 45.72 2.74
4405 5157 2.641321 GGGGGTAACTACCTTGAACTGT 59.359 50.000 5.90 0.00 45.72 3.55
4406 5158 2.640826 TGGGGGTAACTACCTTGAACTG 59.359 50.000 5.90 0.00 45.72 3.16
4407 5159 2.994355 TGGGGGTAACTACCTTGAACT 58.006 47.619 5.90 0.00 45.72 3.01
4408 5160 5.434408 CTTATGGGGGTAACTACCTTGAAC 58.566 45.833 5.90 0.00 45.72 3.18
4409 5161 4.080186 GCTTATGGGGGTAACTACCTTGAA 60.080 45.833 5.90 0.00 45.72 2.69
4410 5162 3.457012 GCTTATGGGGGTAACTACCTTGA 59.543 47.826 5.90 0.00 45.72 3.02
4411 5163 3.201266 TGCTTATGGGGGTAACTACCTTG 59.799 47.826 5.90 0.00 45.72 3.61
4412 5164 3.466836 TGCTTATGGGGGTAACTACCTT 58.533 45.455 5.90 0.00 45.72 3.50
4413 5165 3.139606 TGCTTATGGGGGTAACTACCT 57.860 47.619 5.90 0.00 45.72 3.08
4414 5166 3.054213 TGTTGCTTATGGGGGTAACTACC 60.054 47.826 0.00 0.00 45.71 3.18
4415 5167 4.224991 TGTTGCTTATGGGGGTAACTAC 57.775 45.455 0.00 0.00 0.00 2.73
4416 5168 4.228666 ACATGTTGCTTATGGGGGTAACTA 59.771 41.667 0.00 0.00 0.00 2.24
4417 5169 3.011257 ACATGTTGCTTATGGGGGTAACT 59.989 43.478 0.00 0.00 0.00 2.24
4418 5170 3.361786 ACATGTTGCTTATGGGGGTAAC 58.638 45.455 0.00 0.00 0.00 2.50
4419 5171 3.748645 ACATGTTGCTTATGGGGGTAA 57.251 42.857 0.00 0.00 0.00 2.85
4420 5172 5.136828 CAATACATGTTGCTTATGGGGGTA 58.863 41.667 2.30 0.00 0.00 3.69
4421 5173 3.960102 CAATACATGTTGCTTATGGGGGT 59.040 43.478 2.30 0.00 0.00 4.95
4422 5174 4.589216 CAATACATGTTGCTTATGGGGG 57.411 45.455 2.30 0.00 0.00 5.40
4432 5184 3.515104 AGAAAAGGGGGCAATACATGTTG 59.485 43.478 2.30 0.00 0.00 3.33
4433 5185 3.790126 AGAAAAGGGGGCAATACATGTT 58.210 40.909 2.30 0.00 0.00 2.71
4434 5186 3.473113 AGAAAAGGGGGCAATACATGT 57.527 42.857 2.69 2.69 0.00 3.21
4435 5187 3.319122 GCTAGAAAAGGGGGCAATACATG 59.681 47.826 0.00 0.00 0.00 3.21
4436 5188 3.052944 TGCTAGAAAAGGGGGCAATACAT 60.053 43.478 0.00 0.00 0.00 2.29
4437 5189 2.310349 TGCTAGAAAAGGGGGCAATACA 59.690 45.455 0.00 0.00 0.00 2.29
4438 5190 3.012934 TGCTAGAAAAGGGGGCAATAC 57.987 47.619 0.00 0.00 0.00 1.89
4439 5191 3.748645 TTGCTAGAAAAGGGGGCAATA 57.251 42.857 0.00 0.00 37.87 1.90
4440 5192 2.567169 GTTTGCTAGAAAAGGGGGCAAT 59.433 45.455 0.00 0.00 41.47 3.56
4441 5193 1.967779 GTTTGCTAGAAAAGGGGGCAA 59.032 47.619 0.00 0.00 40.43 4.52
4442 5194 1.146982 AGTTTGCTAGAAAAGGGGGCA 59.853 47.619 0.00 0.00 0.00 5.36
4443 5195 1.924731 AGTTTGCTAGAAAAGGGGGC 58.075 50.000 0.00 0.00 0.00 5.80
4444 5196 4.010349 CACTAGTTTGCTAGAAAAGGGGG 58.990 47.826 0.00 0.00 45.77 5.40
4445 5197 4.906618 TCACTAGTTTGCTAGAAAAGGGG 58.093 43.478 0.00 0.00 45.77 4.79
4446 5198 6.877611 TTTCACTAGTTTGCTAGAAAAGGG 57.122 37.500 0.00 0.00 45.77 3.95
4529 5281 5.649395 CCAAATGCTAACAGAGAGATGGAAA 59.351 40.000 0.00 0.00 0.00 3.13
4572 5326 6.539324 TGTTTCAGTCGTTACTTTTTCACAG 58.461 36.000 0.00 0.00 31.97 3.66
4583 5337 4.576873 TGGCATTCTTTGTTTCAGTCGTTA 59.423 37.500 0.00 0.00 0.00 3.18
4597 5351 9.632638 AGTTTCTAACATATGTATGGCATTCTT 57.367 29.630 9.21 1.06 38.94 2.52
4599 5353 7.805071 GCAGTTTCTAACATATGTATGGCATTC 59.195 37.037 9.21 0.00 38.94 2.67
4672 5497 6.430000 TCCCCAAAGAAAACGAAGAGAATTAG 59.570 38.462 0.00 0.00 0.00 1.73
4684 5509 4.119862 GAGCAACTTTCCCCAAAGAAAAC 58.880 43.478 1.50 0.00 41.60 2.43
4688 5513 3.312736 AAGAGCAACTTTCCCCAAAGA 57.687 42.857 1.50 0.00 41.60 2.52
4692 5517 1.039856 GCAAAGAGCAACTTTCCCCA 58.960 50.000 6.04 0.00 45.66 4.96
4699 5524 6.741521 TGCTAGTAGTTAAGCAAAGAGCAACT 60.742 38.462 0.00 0.00 45.36 3.16
4700 5525 5.408604 TGCTAGTAGTTAAGCAAAGAGCAAC 59.591 40.000 0.00 0.00 45.36 4.17
4702 5527 5.147330 TGCTAGTAGTTAAGCAAAGAGCA 57.853 39.130 0.00 0.00 45.36 4.26
4792 5617 5.605069 TGCAGTAAGTTAGGGGCTATGATAA 59.395 40.000 0.00 0.00 0.00 1.75
4826 5651 9.149225 GTTGATTCAATTGGTGTATATTTTGCA 57.851 29.630 5.42 0.00 0.00 4.08
4899 5724 7.940137 TGCTTCACCAAGATTACCTTTAAGTTA 59.060 33.333 0.00 0.00 31.42 2.24
4901 5726 6.303839 TGCTTCACCAAGATTACCTTTAAGT 58.696 36.000 0.00 0.00 31.42 2.24
4902 5727 6.817765 TGCTTCACCAAGATTACCTTTAAG 57.182 37.500 0.00 0.00 31.42 1.85
4903 5728 6.719370 ACATGCTTCACCAAGATTACCTTTAA 59.281 34.615 0.00 0.00 31.42 1.52
4904 5729 6.245408 ACATGCTTCACCAAGATTACCTTTA 58.755 36.000 0.00 0.00 31.42 1.85
4905 5730 5.079643 ACATGCTTCACCAAGATTACCTTT 58.920 37.500 0.00 0.00 31.42 3.11
4906 5731 4.666512 ACATGCTTCACCAAGATTACCTT 58.333 39.130 0.00 0.00 34.91 3.50
4907 5732 4.307032 ACATGCTTCACCAAGATTACCT 57.693 40.909 0.00 0.00 0.00 3.08


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

AutoCloner maintained by Alex Coulton.