Multiple sequence alignment - TraesCS5A01G082400

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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 TraesCS5A01G082400 chr5A 100.000 5230 0 0 1 5230 106752031 106746802 0.000000e+00 9659.0
1 TraesCS5A01G082400 chr5A 88.218 348 39 2 3395 3741 92445787 92446133 1.050000e-111 414.0
2 TraesCS5A01G082400 chr5A 82.679 433 69 4 2869 3297 92445279 92445709 3.820000e-101 379.0
3 TraesCS5A01G082400 chr5A 75.552 589 102 33 1466 2028 92443843 92444415 8.690000e-63 252.0
4 TraesCS5A01G082400 chr5A 84.118 170 24 3 2171 2338 92444545 92444713 1.510000e-35 161.0
5 TraesCS5A01G082400 chr5D 93.235 3533 142 38 754 4226 97323001 97326496 0.000000e+00 5110.0
6 TraesCS5A01G082400 chr5D 96.754 801 26 0 4426 5226 97327471 97328271 0.000000e+00 1336.0
7 TraesCS5A01G082400 chr5D 88.102 353 40 2 3395 3746 97277732 97278083 8.100000e-113 418.0
8 TraesCS5A01G082400 chr5D 80.399 551 88 12 1695 2231 41691979 41692523 8.160000e-108 401.0
9 TraesCS5A01G082400 chr5D 83.028 436 61 9 2869 3297 97277225 97277654 2.950000e-102 383.0
10 TraesCS5A01G082400 chr5D 96.835 158 5 0 4273 4430 97326945 97327102 1.120000e-66 265.0
11 TraesCS5A01G082400 chr5D 77.933 358 61 14 1674 2028 97276020 97276362 1.910000e-49 207.0
12 TraesCS5A01G082400 chr5D 84.118 170 24 3 2171 2338 97276489 97276657 1.510000e-35 161.0
13 TraesCS5A01G082400 chr5D 81.720 93 14 2 1504 1595 97275834 97275924 2.020000e-09 75.0
14 TraesCS5A01G082400 chr5B 93.690 3043 134 21 752 3755 105767714 105770737 0.000000e+00 4503.0
15 TraesCS5A01G082400 chr5B 93.541 2570 92 26 825 3336 103569500 103572053 0.000000e+00 3759.0
16 TraesCS5A01G082400 chr5B 94.979 1892 83 7 3339 5226 103572139 103574022 0.000000e+00 2957.0
17 TraesCS5A01G082400 chr5B 95.657 944 40 1 4284 5226 105771341 105772284 0.000000e+00 1515.0
18 TraesCS5A01G082400 chr5B 79.335 1413 218 48 2869 4253 105712250 105713616 0.000000e+00 924.0
19 TraesCS5A01G082400 chr5B 96.581 351 11 1 3873 4223 105770731 105771080 9.760000e-162 580.0
20 TraesCS5A01G082400 chr5B 98.299 294 5 0 460 753 586612863 586613156 2.790000e-142 516.0
21 TraesCS5A01G082400 chr5B 87.931 348 40 2 3395 3741 103473478 103473824 4.880000e-110 409.0
22 TraesCS5A01G082400 chr5B 76.243 543 98 22 1504 2028 103471579 103472108 5.200000e-65 259.0
23 TraesCS5A01G082400 chr5B 75.875 543 99 23 1504 2028 105710864 105711392 1.120000e-61 248.0
24 TraesCS5A01G082400 chr5B 100.000 92 0 0 1 92 586612776 586612867 2.500000e-38 171.0
25 TraesCS5A01G082400 chr5B 84.118 170 24 3 2171 2338 103472236 103472404 1.510000e-35 161.0
26 TraesCS5A01G082400 chr5B 100.000 49 0 0 777 825 103567860 103567908 2.010000e-14 91.6
27 TraesCS5A01G082400 chr1B 97.932 532 11 0 224 755 523228811 523228280 0.000000e+00 922.0
28 TraesCS5A01G082400 chr1B 91.978 536 19 4 224 753 319977652 319978169 0.000000e+00 730.0
29 TraesCS5A01G082400 chr3A 97.928 531 11 0 224 754 596102069 596101539 0.000000e+00 920.0
30 TraesCS5A01G082400 chr3A 87.356 87 5 6 2 84 67641901 67641985 1.550000e-15 95.3
31 TraesCS5A01G082400 chr2A 97.368 532 11 2 224 753 676648080 676648610 0.000000e+00 902.0
32 TraesCS5A01G082400 chr2A 96.846 539 11 3 224 756 718954418 718953880 0.000000e+00 896.0
33 TraesCS5A01G082400 chr2A 99.554 224 1 0 1 224 676646763 676646986 4.880000e-110 409.0
34 TraesCS5A01G082400 chr2A 99.103 223 0 1 2 224 718958155 718957935 2.930000e-107 399.0
35 TraesCS5A01G082400 chr2A 81.651 218 30 4 547 755 683755717 683755933 6.960000e-39 172.0
36 TraesCS5A01G082400 chr1A 95.104 531 8 1 224 754 505688496 505687984 0.000000e+00 821.0
37 TraesCS5A01G082400 chr1A 94.915 531 8 2 224 754 505690339 505689828 0.000000e+00 813.0
38 TraesCS5A01G082400 chr1A 99.554 224 1 0 1 224 505689429 505689206 4.880000e-110 409.0
39 TraesCS5A01G082400 chr1A 99.554 224 1 0 1 224 505691268 505691045 4.880000e-110 409.0
40 TraesCS5A01G082400 chr1A 92.754 69 3 2 18 85 146791379 146791312 1.200000e-16 99.0
41 TraesCS5A01G082400 chr1A 92.754 69 3 2 18 85 185369901 185369968 1.200000e-16 99.0
42 TraesCS5A01G082400 chr4B 78.305 295 54 8 3399 3687 512162873 512162583 1.160000e-41 182.0
43 TraesCS5A01G082400 chr4A 77.703 296 56 8 3398 3687 48302060 48302351 6.960000e-39 172.0
44 TraesCS5A01G082400 chr4A 92.754 69 3 2 18 85 136317552 136317485 1.200000e-16 99.0


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 TraesCS5A01G082400 chr5A 106746802 106752031 5229 True 9659.000000 9659 100.000000 1 5230 1 chr5A.!!$R1 5229
1 TraesCS5A01G082400 chr5A 92443843 92446133 2290 False 301.500000 414 82.641750 1466 3741 4 chr5A.!!$F1 2275
2 TraesCS5A01G082400 chr5D 97323001 97328271 5270 False 2237.000000 5110 95.608000 754 5226 3 chr5D.!!$F3 4472
3 TraesCS5A01G082400 chr5D 41691979 41692523 544 False 401.000000 401 80.399000 1695 2231 1 chr5D.!!$F1 536
4 TraesCS5A01G082400 chr5D 97275834 97278083 2249 False 248.800000 418 82.980200 1504 3746 5 chr5D.!!$F2 2242
5 TraesCS5A01G082400 chr5B 103567860 103574022 6162 False 2269.200000 3759 96.173333 777 5226 3 chr5B.!!$F2 4449
6 TraesCS5A01G082400 chr5B 105767714 105772284 4570 False 2199.333333 4503 95.309333 752 5226 3 chr5B.!!$F4 4474
7 TraesCS5A01G082400 chr5B 105710864 105713616 2752 False 586.000000 924 77.605000 1504 4253 2 chr5B.!!$F3 2749
8 TraesCS5A01G082400 chr5B 103471579 103473824 2245 False 276.333333 409 82.764000 1504 3741 3 chr5B.!!$F1 2237
9 TraesCS5A01G082400 chr1B 523228280 523228811 531 True 922.000000 922 97.932000 224 755 1 chr1B.!!$R1 531
10 TraesCS5A01G082400 chr1B 319977652 319978169 517 False 730.000000 730 91.978000 224 753 1 chr1B.!!$F1 529
11 TraesCS5A01G082400 chr3A 596101539 596102069 530 True 920.000000 920 97.928000 224 754 1 chr3A.!!$R1 530
12 TraesCS5A01G082400 chr2A 676646763 676648610 1847 False 655.500000 902 98.461000 1 753 2 chr2A.!!$F2 752
13 TraesCS5A01G082400 chr2A 718953880 718958155 4275 True 647.500000 896 97.974500 2 756 2 chr2A.!!$R1 754
14 TraesCS5A01G082400 chr1A 505687984 505691268 3284 True 613.000000 821 97.281750 1 754 4 chr1A.!!$R2 753

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
767 6196 0.317479 GAGTACAAGTGTGCGACCCT 59.683 55.0 0.0 0.0 35.74 4.34 F
1185 8245 0.392998 GCCAGTACAGTGGATGGGTG 60.393 60.0 7.3 0.0 40.44 4.61 F
2357 9497 1.239347 GCCTCTGTTTCCCTGTGTTC 58.761 55.0 0.0 0.0 0.00 3.18 F
3563 10847 0.753867 TCCTTGCACACCGTGTTCTA 59.246 50.0 0.0 0.0 35.75 2.10 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1959 9070 0.874175 GCGCCTTTGGGTTCACAAAC 60.874 55.000 0.00 0.00 35.57 2.93 R
3154 10353 1.064060 GATTACCGCTGCGAAAATGCT 59.936 47.619 25.45 2.26 35.36 3.79 R
3593 10877 1.200020 GGTTCCTCAAATGTGCCTTCG 59.800 52.381 0.00 0.00 0.00 3.79 R
4452 12526 0.392461 TGGGAGCCTTGCAATCGTAC 60.392 55.000 0.00 0.00 0.00 3.67 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
499 5926 1.871418 CAGGATGTGGAGGAGAAGGA 58.129 55.000 0.00 0.00 0.00 3.36
663 6092 2.256306 GGAAAGGAGGGGCAAAATTGA 58.744 47.619 0.00 0.00 0.00 2.57
667 6096 4.787135 AAGGAGGGGCAAAATTGAAAAA 57.213 36.364 0.00 0.00 0.00 1.94
702 6131 2.094234 TGCTAGTACGCAGAGCATTGAA 60.094 45.455 9.73 0.00 41.18 2.69
767 6196 0.317479 GAGTACAAGTGTGCGACCCT 59.683 55.000 0.00 0.00 35.74 4.34
772 6201 0.817634 CAAGTGTGCGACCCTTTCCA 60.818 55.000 0.00 0.00 0.00 3.53
773 6202 0.535102 AAGTGTGCGACCCTTTCCAG 60.535 55.000 0.00 0.00 0.00 3.86
1048 8108 2.123854 CATGGATGGCTGCCTGCT 60.124 61.111 21.03 4.37 42.39 4.24
1185 8245 0.392998 GCCAGTACAGTGGATGGGTG 60.393 60.000 7.30 0.00 40.44 4.61
1292 8352 6.015350 TCCAGTAGTATTGGCTATTCTGCTAC 60.015 42.308 6.82 5.62 35.62 3.58
1319 8379 8.193250 ACTTATCATCCACATTTACACGTTAC 57.807 34.615 0.00 0.00 0.00 2.50
1480 8562 5.426504 AGCATAGGATTTGACTCTGTTCTG 58.573 41.667 0.00 0.00 0.00 3.02
1482 8564 5.645497 GCATAGGATTTGACTCTGTTCTGTT 59.355 40.000 0.00 0.00 0.00 3.16
1501 8586 7.903995 TCTGTTTCTCTTGTTTGCAAATTTT 57.096 28.000 16.21 0.00 33.73 1.82
1544 8630 5.495640 CCTGAGAATAAGAGGCAATATCCC 58.504 45.833 0.00 0.00 0.00 3.85
1959 9070 1.261619 GCTGTCTCAAACAAGGTGACG 59.738 52.381 0.00 0.00 37.45 4.35
2114 9239 9.449719 ACATCTTTTCGATAAGAACCTACATTT 57.550 29.630 19.93 0.49 38.83 2.32
2145 9279 9.569122 AAAAGAACATGTGTTACACTATTACCT 57.431 29.630 16.79 4.43 38.56 3.08
2354 9494 2.026822 AGTATGCCTCTGTTTCCCTGTG 60.027 50.000 0.00 0.00 0.00 3.66
2357 9497 1.239347 GCCTCTGTTTCCCTGTGTTC 58.761 55.000 0.00 0.00 0.00 3.18
2596 9755 4.538490 TCCTGTTTAGCCCCTTCTGAAATA 59.462 41.667 0.00 0.00 0.00 1.40
2897 10094 1.457346 CAGAGGCAGATGGTTCCAAC 58.543 55.000 0.00 0.00 0.00 3.77
3337 10619 8.585471 ATGGGCATACAAATTCCTTCATATAG 57.415 34.615 0.00 0.00 0.00 1.31
3379 10663 7.771183 TGTCTTAAGAAAAACAATTGCTGACT 58.229 30.769 6.78 0.00 0.00 3.41
3380 10664 7.701924 TGTCTTAAGAAAAACAATTGCTGACTG 59.298 33.333 6.78 0.00 0.00 3.51
3381 10665 6.697019 TCTTAAGAAAAACAATTGCTGACTGC 59.303 34.615 5.05 0.00 43.25 4.40
3382 10666 4.660789 AGAAAAACAATTGCTGACTGCT 57.339 36.364 5.05 0.00 43.37 4.24
3383 10667 4.365723 AGAAAAACAATTGCTGACTGCTG 58.634 39.130 5.05 0.00 43.37 4.41
3384 10668 4.098349 AGAAAAACAATTGCTGACTGCTGA 59.902 37.500 5.05 0.00 43.37 4.26
3385 10669 3.360249 AAACAATTGCTGACTGCTGAC 57.640 42.857 5.05 0.00 43.37 3.51
3386 10670 1.971481 ACAATTGCTGACTGCTGACA 58.029 45.000 5.05 0.00 43.37 3.58
3387 10671 1.605710 ACAATTGCTGACTGCTGACAC 59.394 47.619 5.05 0.00 43.37 3.67
3391 10675 1.153597 TGCTGACTGCTGACACAACG 61.154 55.000 5.87 0.00 43.37 4.10
3416 10700 1.093159 CCTTCTGTAGGTACGCGACT 58.907 55.000 15.93 10.70 39.39 4.18
3563 10847 0.753867 TCCTTGCACACCGTGTTCTA 59.246 50.000 0.00 0.00 35.75 2.10
3656 10940 2.634940 AGAGCTCTGGCAGAAGTACAAA 59.365 45.455 17.42 0.00 41.70 2.83
3849 11134 6.101332 CCGGTAATGCTACAGTACAAAACTA 58.899 40.000 7.40 0.00 36.76 2.24
4064 11363 3.442273 GGAGTCACTTCAGAGACTTCGAT 59.558 47.826 8.14 0.00 44.07 3.59
4196 11495 2.032681 GTCCTTGCCTGCTCCGTT 59.967 61.111 0.00 0.00 0.00 4.44
4233 11532 1.072965 CTTCACTGGCTTCCTGAAGGT 59.927 52.381 8.85 0.00 38.06 3.50
4243 11542 3.942115 GCTTCCTGAAGGTCCAATACTTC 59.058 47.826 8.85 0.00 42.57 3.01
4274 11975 3.969312 GGAAATCAAATGGATGGGTGGAT 59.031 43.478 0.00 0.00 36.02 3.41
4282 11983 5.568620 AATGGATGGGTGGATACTAAGAC 57.431 43.478 0.00 0.00 37.61 3.01
4407 12108 7.984617 TCTTTTGGAAACAGAAATTCGGAATTT 59.015 29.630 24.50 24.50 44.54 1.82
4452 12526 6.993079 TGGATAGGTGTAGCATGTTGTATAG 58.007 40.000 0.00 0.00 0.00 1.31
4528 12602 5.246656 TCATGAATTTCTGCCAGGTCAAAAT 59.753 36.000 0.00 0.00 0.00 1.82
4536 12610 3.561143 TGCCAGGTCAAAATTACACTGT 58.439 40.909 0.00 0.00 0.00 3.55
4546 12620 7.591426 GGTCAAAATTACACTGTGATGTTTCTC 59.409 37.037 15.86 6.12 33.85 2.87
4622 12697 7.450627 CAATTGCTGTCTATTTTTAAAGCTGC 58.549 34.615 0.00 0.00 0.00 5.25
4805 12880 0.963962 AAATGCCATGGATCCATCGC 59.036 50.000 30.88 30.88 40.19 4.58
5029 13105 0.524414 CACCATGCTGTCCACACATG 59.476 55.000 11.97 11.97 40.67 3.21
5037 13113 1.948834 CTGTCCACACATGCTGTCAAA 59.051 47.619 0.00 0.00 0.00 2.69
5055 13131 5.704978 TGTCAAATTGCTAGCACAGATGTTA 59.295 36.000 19.17 0.00 0.00 2.41
5058 13134 6.430925 TCAAATTGCTAGCACAGATGTTAACT 59.569 34.615 19.17 0.00 0.00 2.24
5063 13139 2.704572 AGCACAGATGTTAACTGGAGC 58.295 47.619 7.22 6.13 39.38 4.70
5072 13148 7.039504 ACAGATGTTAACTGGAGCATTGAAAAT 60.040 33.333 7.22 0.00 39.38 1.82
5124 13200 8.616598 TCCTAAGGAGTAATAAAATTTGGTCCA 58.383 33.333 0.00 0.00 0.00 4.02
5226 13303 4.026052 CCCAAACCCTAATTGAGCTTCAT 58.974 43.478 0.00 0.00 0.00 2.57
5227 13304 4.467438 CCCAAACCCTAATTGAGCTTCATT 59.533 41.667 0.00 0.00 0.00 2.57
5228 13305 5.656416 CCCAAACCCTAATTGAGCTTCATTA 59.344 40.000 0.00 0.00 0.00 1.90
5229 13306 6.154363 CCCAAACCCTAATTGAGCTTCATTAA 59.846 38.462 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
499 5926 2.240667 CCATTCTCCACATCCCACTCTT 59.759 50.000 0.00 0.00 0.00 2.85
667 6096 2.666317 ACTAGCAGGTTTTGGCACTTT 58.334 42.857 0.00 0.00 0.00 2.66
735 6164 1.823041 GTACTCCCTCCGGTCCTCG 60.823 68.421 0.00 0.00 38.88 4.63
1171 8231 0.118346 ACCTCCACCCATCCACTGTA 59.882 55.000 0.00 0.00 0.00 2.74
1218 8278 1.313772 AGACTCCGATCCAGTCATCG 58.686 55.000 17.67 0.00 42.51 3.84
1292 8352 8.420374 AACGTGTAAATGTGGATGATAAGTAG 57.580 34.615 0.00 0.00 0.00 2.57
1319 8379 0.780002 GAGTTTGTGCTGCAATTGCG 59.220 50.000 24.58 19.32 45.83 4.85
1351 8411 6.860023 GCATTAAGTTCATGCTGAATATGTCC 59.140 38.462 13.62 0.00 43.26 4.02
1425 8506 6.611613 TCAAGTACTCCATCTGAACTGATT 57.388 37.500 0.00 0.00 0.00 2.57
1426 8507 6.611613 TTCAAGTACTCCATCTGAACTGAT 57.388 37.500 0.00 0.00 0.00 2.90
1439 8520 4.503741 TGCTTTGCCATTTCAAGTACTC 57.496 40.909 0.00 0.00 0.00 2.59
1471 8553 5.163723 TGCAAACAAGAGAAACAGAACAGAG 60.164 40.000 0.00 0.00 0.00 3.35
1472 8554 4.699735 TGCAAACAAGAGAAACAGAACAGA 59.300 37.500 0.00 0.00 0.00 3.41
1480 8562 7.689400 CACTGAAAATTTGCAAACAAGAGAAAC 59.311 33.333 15.41 0.67 37.04 2.78
1482 8564 6.183360 GCACTGAAAATTTGCAAACAAGAGAA 60.183 34.615 15.41 0.00 37.04 2.87
1501 8586 1.291184 CTCACAAATCGCGGCACTGA 61.291 55.000 6.13 0.11 0.00 3.41
1662 8764 3.201290 ACTGCGATAAAAGAGCATGGAG 58.799 45.455 0.00 0.00 40.35 3.86
1959 9070 0.874175 GCGCCTTTGGGTTCACAAAC 60.874 55.000 0.00 0.00 35.57 2.93
2139 9264 8.303876 GGTTTGTGAACACATTTATCAGGTAAT 58.696 33.333 8.46 0.00 41.52 1.89
2140 9274 7.504238 AGGTTTGTGAACACATTTATCAGGTAA 59.496 33.333 8.46 0.00 41.52 2.85
2145 9279 8.684386 TCTTAGGTTTGTGAACACATTTATCA 57.316 30.769 8.46 0.00 41.52 2.15
2164 9304 8.258007 TGGTACTAATTCAGTCACATTCTTAGG 58.742 37.037 0.00 0.00 38.80 2.69
2354 9494 7.608308 AGCTTATGTTCATCTCAAAGAGAAC 57.392 36.000 0.29 0.00 42.27 3.01
2357 9497 8.715191 AACTAGCTTATGTTCATCTCAAAGAG 57.285 34.615 0.00 0.00 0.00 2.85
2399 9539 8.313292 AGCAGATCCTCATCTCTATTTACAATC 58.687 37.037 0.00 0.00 37.25 2.67
2401 9541 7.609097 AGCAGATCCTCATCTCTATTTACAA 57.391 36.000 0.00 0.00 37.25 2.41
2582 9741 3.117512 TGGATCCTTATTTCAGAAGGGGC 60.118 47.826 14.23 0.00 43.26 5.80
2610 9769 1.128692 GCAACCATGTTCGCTGAGTAC 59.871 52.381 0.00 0.00 0.00 2.73
2897 10094 3.857052 TGGCTGGAAGTTATTGTACTCG 58.143 45.455 0.00 0.00 35.30 4.18
3149 10348 1.070309 CCGCTGCGAAAATGCTAGATC 60.070 52.381 25.45 0.00 35.36 2.75
3152 10351 1.286501 TACCGCTGCGAAAATGCTAG 58.713 50.000 25.45 5.57 35.36 3.42
3153 10352 1.728068 TTACCGCTGCGAAAATGCTA 58.272 45.000 25.45 0.00 35.36 3.49
3154 10353 1.064060 GATTACCGCTGCGAAAATGCT 59.936 47.619 25.45 2.26 35.36 3.79
3313 10512 7.754624 TCTATATGAAGGAATTTGTATGCCCA 58.245 34.615 0.00 0.00 28.09 5.36
3337 10619 9.530633 TCTTAAGACAAGTAAACTTCAGAACTC 57.469 33.333 0.00 0.00 33.11 3.01
3379 10663 4.159693 AGAAGGATATACGTTGTGTCAGCA 59.840 41.667 0.00 0.00 0.00 4.41
3380 10664 4.504461 CAGAAGGATATACGTTGTGTCAGC 59.496 45.833 0.00 0.00 34.47 4.26
3381 10665 5.651530 ACAGAAGGATATACGTTGTGTCAG 58.348 41.667 0.00 0.00 43.71 3.51
3382 10666 5.654603 ACAGAAGGATATACGTTGTGTCA 57.345 39.130 0.00 0.00 43.71 3.58
3416 10700 3.719268 AACCTGAACATGCCATAGTCA 57.281 42.857 0.00 0.00 0.00 3.41
3563 10847 4.949121 AGTAAGAGTTGGATGAGTACCCT 58.051 43.478 0.00 0.00 0.00 4.34
3593 10877 1.200020 GGTTCCTCAAATGTGCCTTCG 59.800 52.381 0.00 0.00 0.00 3.79
3656 10940 1.405821 CCGTAGAAGGCAAGATCGACT 59.594 52.381 0.00 0.00 0.00 4.18
3849 11134 2.203337 TGAGCCTGCAAAACCGCT 60.203 55.556 0.00 0.00 0.00 5.52
3890 11175 2.230508 ACAGATTGCAATCAGGCTTGTG 59.769 45.455 34.59 25.06 37.89 3.33
4064 11363 1.959226 GAGCTTGCCGAAACCGTGA 60.959 57.895 0.00 0.00 0.00 4.35
4196 11495 1.352622 AAGTCCTGGGGCAGTTGTCA 61.353 55.000 0.00 0.00 0.00 3.58
4233 11532 1.893315 CCCCCTCTGGAAGTATTGGA 58.107 55.000 0.00 0.00 35.39 3.53
4254 11553 5.780731 AGTATCCACCCATCCATTTGATTT 58.219 37.500 0.00 0.00 0.00 2.17
4257 11556 5.669904 TCTTAGTATCCACCCATCCATTTGA 59.330 40.000 0.00 0.00 0.00 2.69
4259 11558 5.454755 CGTCTTAGTATCCACCCATCCATTT 60.455 44.000 0.00 0.00 0.00 2.32
4260 11559 4.040461 CGTCTTAGTATCCACCCATCCATT 59.960 45.833 0.00 0.00 0.00 3.16
4263 11562 3.228453 TCGTCTTAGTATCCACCCATCC 58.772 50.000 0.00 0.00 0.00 3.51
4274 11975 7.173907 ACAGTAACTAGCTTGTTCGTCTTAGTA 59.826 37.037 16.89 0.00 0.00 1.82
4282 11983 8.630278 ATTATGTACAGTAACTAGCTTGTTCG 57.370 34.615 16.89 9.60 0.00 3.95
4407 12108 2.270047 GCAGCAAGCAAGAACAAAACA 58.730 42.857 0.00 0.00 44.79 2.83
4452 12526 0.392461 TGGGAGCCTTGCAATCGTAC 60.392 55.000 0.00 0.00 0.00 3.67
4528 12602 9.554395 TTTTCATAGAGAAACATCACAGTGTAA 57.446 29.630 0.00 0.00 45.48 2.41
4622 12697 1.196808 GGATGTACTGTTTGCACCACG 59.803 52.381 0.00 0.00 0.00 4.94
4696 12771 4.027437 TGTTGGGCCTTTTTGTTTCTAGT 58.973 39.130 4.53 0.00 0.00 2.57
4805 12880 3.021695 AGGCACATCAGATGTTGATTGG 58.978 45.455 13.79 2.77 44.14 3.16
5029 13105 2.485426 TCTGTGCTAGCAATTTGACAGC 59.515 45.455 21.29 3.96 0.00 4.40
5037 13113 4.637534 CCAGTTAACATCTGTGCTAGCAAT 59.362 41.667 21.29 6.79 0.00 3.56
5055 13131 6.458210 CCAGTAAATTTTCAATGCTCCAGTT 58.542 36.000 0.00 0.00 0.00 3.16
5058 13134 4.837860 ACCCAGTAAATTTTCAATGCTCCA 59.162 37.500 0.00 0.00 0.00 3.86
5063 13139 8.303156 TCACACATACCCAGTAAATTTTCAATG 58.697 33.333 0.00 0.00 0.00 2.82
5072 13148 4.103469 ACCTGTTCACACATACCCAGTAAA 59.897 41.667 0.00 0.00 30.39 2.01
5124 13200 5.770162 GGAAGTACCCAGCTTTATTATGCAT 59.230 40.000 3.79 3.79 0.00 3.96


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

AutoCloner maintained by Alex Coulton.