Multiple sequence alignment - TraesCS1A01G048400

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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 TraesCS1A01G048400 chr1A 100.000 4702 0 0 1 4702 30143245 30138544 0.000000e+00 8684.0
1 TraesCS1A01G048400 chr1A 97.368 836 22 0 1 836 1103420 1104255 0.000000e+00 1423.0
2 TraesCS1A01G048400 chr1A 91.385 650 39 10 1461 2107 30011777 30012412 0.000000e+00 874.0
3 TraesCS1A01G048400 chr1A 93.893 393 22 2 1073 1465 30011336 30011726 4.050000e-165 592.0
4 TraesCS1A01G048400 chr1A 83.333 90 13 2 1372 1460 30141738 30141650 1.080000e-11 82.4
5 TraesCS1A01G048400 chr1A 83.333 90 13 2 1508 1596 30141874 30141786 1.080000e-11 82.4
6 TraesCS1A01G048400 chr1D 93.679 1408 71 13 1464 2868 30083574 30082182 0.000000e+00 2091.0
7 TraesCS1A01G048400 chr1D 95.701 1070 35 3 2909 3969 30082177 30081110 0.000000e+00 1711.0
8 TraesCS1A01G048400 chr1D 93.968 746 33 7 3957 4702 30081032 30080299 0.000000e+00 1118.0
9 TraesCS1A01G048400 chr1D 92.427 647 35 3 833 1465 30084274 30083628 0.000000e+00 911.0
10 TraesCS1A01G048400 chr1D 75.831 993 187 38 2509 3474 7021391 7022357 5.550000e-124 455.0
11 TraesCS1A01G048400 chr1D 79.470 453 73 16 1647 2088 20948104 20947661 2.130000e-78 303.0
12 TraesCS1A01G048400 chr5A 97.619 840 18 2 1 839 559938195 559939033 0.000000e+00 1439.0
13 TraesCS1A01G048400 chr5A 97.368 836 22 0 1 836 483204277 483203442 0.000000e+00 1423.0
14 TraesCS1A01G048400 chr5A 76.637 1023 169 44 2466 3443 6483697 6482700 7.020000e-138 501.0
15 TraesCS1A01G048400 chr5A 80.174 575 65 26 901 1431 6434816 6434247 7.380000e-103 385.0
16 TraesCS1A01G048400 chr5A 84.536 291 33 10 1639 1926 6434112 6433831 1.290000e-70 278.0
17 TraesCS1A01G048400 chr5A 82.424 330 41 12 1646 1966 6440300 6439979 6.000000e-69 272.0
18 TraesCS1A01G048400 chr5A 76.861 497 96 13 2985 3469 6439425 6438936 3.610000e-66 263.0
19 TraesCS1A01G048400 chr5A 76.861 497 96 13 2985 3469 6445636 6445147 3.610000e-66 263.0
20 TraesCS1A01G048400 chr5A 75.336 596 113 20 3997 4584 439885230 439885799 6.040000e-64 255.0
21 TraesCS1A01G048400 chr5A 76.238 505 86 22 2417 2904 6623303 6622816 2.190000e-58 237.0
22 TraesCS1A01G048400 chr5A 79.801 302 44 8 2484 2781 11046199 11046487 2.220000e-48 204.0
23 TraesCS1A01G048400 chr7A 97.725 835 19 0 2 836 164306674 164307508 0.000000e+00 1437.0
24 TraesCS1A01G048400 chr7A 97.262 840 22 1 1 839 733393977 733393138 0.000000e+00 1423.0
25 TraesCS1A01G048400 chr7A 97.143 840 20 2 1 839 49974743 49973907 0.000000e+00 1415.0
26 TraesCS1A01G048400 chr3A 97.166 847 21 2 1 844 20827869 20828715 0.000000e+00 1428.0
27 TraesCS1A01G048400 chr3A 97.368 836 22 0 1 836 730139912 730140747 0.000000e+00 1423.0
28 TraesCS1A01G048400 chr2A 97.368 836 21 1 1 836 742816786 742815952 0.000000e+00 1421.0
29 TraesCS1A01G048400 chr1B 93.666 821 46 6 1462 2281 47633689 47632874 0.000000e+00 1223.0
30 TraesCS1A01G048400 chr1B 93.157 643 30 3 836 1465 47634382 47633741 0.000000e+00 931.0
31 TraesCS1A01G048400 chr1B 93.204 515 25 4 2357 2868 47632879 47632372 0.000000e+00 749.0
32 TraesCS1A01G048400 chr1B 91.928 446 27 1 2909 3345 47632367 47631922 2.400000e-172 616.0
33 TraesCS1A01G048400 chr1B 88.221 416 24 3 3547 3961 47630330 47629939 1.530000e-129 473.0
34 TraesCS1A01G048400 chr1B 78.846 468 71 22 1640 2088 34253116 34252658 1.660000e-74 291.0
35 TraesCS1A01G048400 chr6D 94.766 363 17 1 1035 1397 58114456 58114096 8.830000e-157 564.0
36 TraesCS1A01G048400 chr6B 94.766 363 17 1 1035 1397 395675858 395676218 8.830000e-157 564.0
37 TraesCS1A01G048400 chr5B 94.766 363 17 1 1035 1397 609881667 609881307 8.830000e-157 564.0
38 TraesCS1A01G048400 chr5B 94.766 363 17 1 1035 1397 609890176 609889816 8.830000e-157 564.0
39 TraesCS1A01G048400 chr5B 94.490 363 18 1 1035 1397 609885922 609885562 4.110000e-155 558.0
40 TraesCS1A01G048400 chr5B 81.739 345 43 14 1633 1967 652935173 652935507 2.160000e-68 270.0
41 TraesCS1A01G048400 chr5B 76.190 504 86 23 2418 2904 8540232 8539746 7.870000e-58 235.0
42 TraesCS1A01G048400 chr5B 76.432 454 71 24 2417 2852 22042969 22043404 3.690000e-51 213.0
43 TraesCS1A01G048400 chr5D 76.756 968 167 37 2418 3352 8261438 8262380 5.470000e-134 488.0
44 TraesCS1A01G048400 chr5D 85.036 274 34 5 1646 1917 8050460 8050192 6.000000e-69 272.0
45 TraesCS1A01G048400 chr5D 77.500 400 67 15 2513 2904 8415809 8415425 7.920000e-53 219.0
46 TraesCS1A01G048400 chr4A 80.930 430 55 12 3997 4420 707245376 707244968 9.820000e-82 315.0
47 TraesCS1A01G048400 chr3B 75.702 605 112 26 3997 4595 732821719 732821144 2.160000e-68 270.0
48 TraesCS1A01G048400 chr7B 77.259 343 60 11 4246 4583 616466679 616466350 8.030000e-43 185.0
49 TraesCS1A01G048400 chr4B 75.588 340 70 10 4246 4583 86751393 86751721 6.300000e-34 156.0


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 TraesCS1A01G048400 chr1A 30138544 30143245 4701 True 2949.60 8684 88.888667 1 4702 3 chr1A.!!$R1 4701
1 TraesCS1A01G048400 chr1A 1103420 1104255 835 False 1423.00 1423 97.368000 1 836 1 chr1A.!!$F1 835
2 TraesCS1A01G048400 chr1A 30011336 30012412 1076 False 733.00 874 92.639000 1073 2107 2 chr1A.!!$F2 1034
3 TraesCS1A01G048400 chr1D 30080299 30084274 3975 True 1457.75 2091 93.943750 833 4702 4 chr1D.!!$R2 3869
4 TraesCS1A01G048400 chr1D 7021391 7022357 966 False 455.00 455 75.831000 2509 3474 1 chr1D.!!$F1 965
5 TraesCS1A01G048400 chr5A 559938195 559939033 838 False 1439.00 1439 97.619000 1 839 1 chr5A.!!$F3 838
6 TraesCS1A01G048400 chr5A 483203442 483204277 835 True 1423.00 1423 97.368000 1 836 1 chr5A.!!$R4 835
7 TraesCS1A01G048400 chr5A 6482700 6483697 997 True 501.00 501 76.637000 2466 3443 1 chr5A.!!$R2 977
8 TraesCS1A01G048400 chr5A 6433831 6434816 985 True 331.50 385 82.355000 901 1926 2 chr5A.!!$R5 1025
9 TraesCS1A01G048400 chr5A 6438936 6440300 1364 True 267.50 272 79.642500 1646 3469 2 chr5A.!!$R6 1823
10 TraesCS1A01G048400 chr5A 439885230 439885799 569 False 255.00 255 75.336000 3997 4584 1 chr5A.!!$F2 587
11 TraesCS1A01G048400 chr7A 164306674 164307508 834 False 1437.00 1437 97.725000 2 836 1 chr7A.!!$F1 834
12 TraesCS1A01G048400 chr7A 733393138 733393977 839 True 1423.00 1423 97.262000 1 839 1 chr7A.!!$R2 838
13 TraesCS1A01G048400 chr7A 49973907 49974743 836 True 1415.00 1415 97.143000 1 839 1 chr7A.!!$R1 838
14 TraesCS1A01G048400 chr3A 20827869 20828715 846 False 1428.00 1428 97.166000 1 844 1 chr3A.!!$F1 843
15 TraesCS1A01G048400 chr3A 730139912 730140747 835 False 1423.00 1423 97.368000 1 836 1 chr3A.!!$F2 835
16 TraesCS1A01G048400 chr2A 742815952 742816786 834 True 1421.00 1421 97.368000 1 836 1 chr2A.!!$R1 835
17 TraesCS1A01G048400 chr1B 47629939 47634382 4443 True 798.40 1223 92.035200 836 3961 5 chr1B.!!$R2 3125
18 TraesCS1A01G048400 chr5B 609881307 609890176 8869 True 562.00 564 94.674000 1035 1397 3 chr5B.!!$R2 362
19 TraesCS1A01G048400 chr5D 8261438 8262380 942 False 488.00 488 76.756000 2418 3352 1 chr5D.!!$F1 934
20 TraesCS1A01G048400 chr3B 732821144 732821719 575 True 270.00 270 75.702000 3997 4595 1 chr3B.!!$R1 598

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
605 609 0.179001 CCTTTGGTCCCGGTTCAAGT 60.179 55.0 0.00 0.0 0.00 3.16 F
1188 1221 0.253044 GGGTGGAGCTAATGTGAGCA 59.747 55.0 0.00 0.0 45.43 4.26 F
1986 6271 0.596341 GTCAATGCGCCCGTGTTTTT 60.596 50.0 4.18 0.0 0.00 1.94 F
2978 10948 0.517316 ATCTCCGCTGTTCGTTTTGC 59.483 50.0 0.00 0.0 36.19 3.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2303 6588 0.104304 GTAGCATGACCCGGTAGTGG 59.896 60.000 0.0 0.0 0.00 4.00 R
2978 10948 1.466167 CGCACCTGAAATTCCTCACAG 59.534 52.381 0.0 0.0 0.00 3.66 R
3416 12921 1.226974 GTCCAGCTCTAATGCGCGA 60.227 57.895 12.1 0.0 38.13 5.87 R
4398 14002 0.238289 CCACAACATCAACGACCTGC 59.762 55.000 0.0 0.0 0.00 4.85 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
119 120 4.020751 CCACATCCGAATCATAGACAGGAT 60.021 45.833 0.00 0.00 38.87 3.24
321 323 3.998672 GCGGTGAAGACGGGGACA 61.999 66.667 0.00 0.00 0.00 4.02
605 609 0.179001 CCTTTGGTCCCGGTTCAAGT 60.179 55.000 0.00 0.00 0.00 3.16
844 851 5.513267 CCCTTTTCTACTAGTGGAGCAAAGT 60.513 44.000 22.05 0.00 0.00 2.66
889 896 5.731591 ACACCCTTAGAAAAGAAGTATCGG 58.268 41.667 0.00 0.00 34.37 4.18
923 939 7.673180 TGCAAATTCAATCTTTCTCTTGGAAT 58.327 30.769 0.00 0.00 33.53 3.01
1187 1220 0.543749 AGGGTGGAGCTAATGTGAGC 59.456 55.000 0.00 0.00 43.19 4.26
1188 1221 0.253044 GGGTGGAGCTAATGTGAGCA 59.747 55.000 0.00 0.00 45.43 4.26
1196 1229 0.731417 CTAATGTGAGCAGTGCTGGC 59.269 55.000 25.35 15.15 39.88 4.85
1335 1370 5.062528 TGTCACATATTCTTGTGTCTTGCA 58.937 37.500 4.67 0.00 45.73 4.08
1455 1490 5.747197 GCTTTCTTACATAAGCGTGCTACTA 59.253 40.000 0.00 0.00 37.60 1.82
1536 5720 4.599047 AGACCTACTTGATGCTATCTGC 57.401 45.455 0.00 0.00 43.25 4.26
1578 5768 6.677920 GCTGTGCTAAGTGAACTTTTCTGAAA 60.678 38.462 0.21 0.00 37.40 2.69
1600 5790 4.632538 AAGCTTGTTACAGTTTCACCAC 57.367 40.909 0.00 0.00 0.00 4.16
1723 5972 6.245408 ACAGTTTGGTAGATTGCCAATAGAA 58.755 36.000 0.00 0.00 44.44 2.10
1801 6050 4.825422 TGCCAATTTCAACTGTGACAAAA 58.175 34.783 0.00 0.00 31.90 2.44
1986 6271 0.596341 GTCAATGCGCCCGTGTTTTT 60.596 50.000 4.18 0.00 0.00 1.94
2197 6482 4.437682 TGATGAAAACTGTCCCTTGTCT 57.562 40.909 0.00 0.00 0.00 3.41
2278 6563 7.227512 CCTGTAATCATTTGTAATCCCAGTCTC 59.772 40.741 0.00 0.00 0.00 3.36
2281 6566 9.832445 GTAATCATTTGTAATCCCAGTCTCTAA 57.168 33.333 0.00 0.00 0.00 2.10
2312 6597 2.376695 TCCTTAGGATCCACTACCGG 57.623 55.000 15.82 0.00 0.00 5.28
2330 6615 1.312815 GGGTCATGCTACATGCCTTC 58.687 55.000 15.65 3.10 42.00 3.46
2414 6699 6.887376 ACACACTGAATATACAAGTTAGCG 57.113 37.500 0.00 0.00 0.00 4.26
2564 6851 1.995376 ATTTTGTCCAAACGAGGGCT 58.005 45.000 0.00 0.00 33.35 5.19
2880 10850 9.790344 TTAACTTAACAGTGTAGACTAGAGAGT 57.210 33.333 0.00 0.00 33.51 3.24
2904 10874 3.491342 TCATGCCTAGAGCTAGTGGTAG 58.509 50.000 4.02 0.00 44.23 3.18
2976 10946 4.454504 ACATTAATCTCCGCTGTTCGTTTT 59.545 37.500 0.00 0.00 36.19 2.43
2978 10948 0.517316 ATCTCCGCTGTTCGTTTTGC 59.483 50.000 0.00 0.00 36.19 3.68
3130 11137 0.740149 CTGTTTTGTGTGCTGCAGGA 59.260 50.000 17.12 10.66 0.00 3.86
3362 11388 7.669304 TCCTTTCATATCTGTTGTTTGATTCCA 59.331 33.333 0.00 0.00 0.00 3.53
3416 12921 2.748132 CGGTGCCTATCAGTCTCTCTCT 60.748 54.545 0.00 0.00 0.00 3.10
3422 12927 0.746204 ATCAGTCTCTCTCTCGCGCA 60.746 55.000 8.75 0.00 0.00 6.09
3450 12955 2.237392 CTGGACCCTGAAAGTAAGGAGG 59.763 54.545 0.00 0.00 36.91 4.30
3469 12974 4.811557 GGAGGTCGAGAAATTATTCTGGTG 59.188 45.833 0.00 0.00 45.91 4.17
3483 12988 4.727507 TTCTGGTGAGAGATACTTCTGC 57.272 45.455 0.00 0.00 30.30 4.26
3496 13001 6.064717 AGATACTTCTGCCTTCTTGTGTTTT 58.935 36.000 0.00 0.00 0.00 2.43
3499 13004 4.142381 ACTTCTGCCTTCTTGTGTTTTGTC 60.142 41.667 0.00 0.00 0.00 3.18
3502 13007 2.948979 TGCCTTCTTGTGTTTTGTCGAT 59.051 40.909 0.00 0.00 0.00 3.59
3507 13012 5.277779 CCTTCTTGTGTTTTGTCGATTGCTA 60.278 40.000 0.00 0.00 0.00 3.49
3606 13111 5.569059 GTGTTATTTGTCAGCAGTTACATGC 59.431 40.000 0.00 0.00 46.88 4.06
3636 13141 2.509052 TGCCATCTTCGGTAGAATCG 57.491 50.000 0.00 0.00 36.22 3.34
3740 13245 0.179124 GAGAGAAGCTCACGCGGAAT 60.179 55.000 12.47 0.00 43.38 3.01
3744 13249 3.976701 AAGCTCACGCGGAATGGGG 62.977 63.158 12.47 0.00 42.32 4.96
3903 13408 7.405469 TGTGAAATTTGCATCATGTTTGTAC 57.595 32.000 0.00 0.00 0.00 2.90
3985 13580 6.532365 TTTTTGATTTGTATTTGCCCGTTC 57.468 33.333 0.00 0.00 0.00 3.95
4173 13777 6.416415 TCTCTGACTCTAGGTTTTATCTCGT 58.584 40.000 0.00 0.00 0.00 4.18
4185 13789 1.822506 TATCTCGTGCCTAGATCCCG 58.177 55.000 0.00 0.00 35.36 5.14
4220 13824 2.437897 CCTTGGCTCCAGCAAGGT 59.562 61.111 15.96 0.00 44.36 3.50
4226 13830 4.950479 CTCCAGCAAGGTGCCTAG 57.050 61.111 0.00 0.00 46.52 3.02
4227 13831 2.290847 CTCCAGCAAGGTGCCTAGA 58.709 57.895 0.00 0.00 46.52 2.43
4229 13833 0.833287 TCCAGCAAGGTGCCTAGATC 59.167 55.000 0.00 0.00 46.52 2.75
4232 13836 1.149401 GCAAGGTGCCTAGATCCCC 59.851 63.158 0.00 0.00 37.42 4.81
4233 13837 1.447643 CAAGGTGCCTAGATCCCCG 59.552 63.158 0.00 0.00 0.00 5.73
4234 13838 1.048724 CAAGGTGCCTAGATCCCCGA 61.049 60.000 0.00 0.00 0.00 5.14
4235 13839 0.326238 AAGGTGCCTAGATCCCCGAA 60.326 55.000 0.00 0.00 0.00 4.30
4236 13840 1.049289 AGGTGCCTAGATCCCCGAAC 61.049 60.000 0.00 0.00 0.00 3.95
4237 13841 1.067582 GTGCCTAGATCCCCGAACG 59.932 63.158 0.00 0.00 0.00 3.95
4238 13842 2.131709 TGCCTAGATCCCCGAACGG 61.132 63.158 6.25 6.25 0.00 4.44
4274 13878 4.318332 TGATCGCCCTGATGATATTTGAC 58.682 43.478 0.00 0.00 37.47 3.18
4295 13899 3.024547 CGGATCCACTTCCTTGTCTCTA 58.975 50.000 13.41 0.00 33.30 2.43
4301 13905 5.996644 TCCACTTCCTTGTCTCTAAAAACA 58.003 37.500 0.00 0.00 0.00 2.83
4350 13954 2.756207 CAGGTTGTTGCCATGATCATGA 59.244 45.455 32.71 14.43 41.20 3.07
4354 13958 4.098960 GGTTGTTGCCATGATCATGATTCT 59.901 41.667 32.71 0.00 41.20 2.40
4384 13988 0.396811 CCTCCCCTCTTTGTTCGTGT 59.603 55.000 0.00 0.00 0.00 4.49
4398 14002 3.996363 TGTTCGTGTGAGAGATGATTTGG 59.004 43.478 0.00 0.00 0.00 3.28
4407 14011 2.026822 AGAGATGATTTGGCAGGTCGTT 60.027 45.455 0.00 0.00 0.00 3.85
4421 14025 2.151202 GGTCGTTGATGTTGTGGATGT 58.849 47.619 0.00 0.00 0.00 3.06
4521 14125 5.026121 TGACAGTTCCAGAATAGATGGACT 58.974 41.667 0.00 0.00 46.46 3.85
4585 14189 2.582636 AGTAGGAGTTTGGCCATCCATT 59.417 45.455 23.00 8.42 43.05 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
605 609 1.074072 CATTGGTCCCGGTTGGTGA 59.926 57.895 0.00 0.00 34.77 4.02
770 777 2.547990 AGTCCCGGTTTAGTCCAGAAT 58.452 47.619 0.00 0.00 0.00 2.40
870 877 6.422400 GCTGATCCGATACTTCTTTTCTAAGG 59.578 42.308 0.00 0.00 32.02 2.69
873 880 6.716934 AGCTGATCCGATACTTCTTTTCTA 57.283 37.500 0.00 0.00 0.00 2.10
889 896 6.963049 AAGATTGAATTTGCAAAGCTGATC 57.037 33.333 18.19 16.33 0.00 2.92
1136 1165 6.487331 TGCAAGAATGAAAAGCCAATCATTTT 59.513 30.769 9.12 2.69 44.15 1.82
1155 1188 2.702478 CTCCACCCTATCAGATGCAAGA 59.298 50.000 0.00 0.00 0.00 3.02
1187 1220 2.418368 TATAACAAGGGCCAGCACTG 57.582 50.000 6.18 0.00 0.00 3.66
1188 1221 3.555966 GATTATAACAAGGGCCAGCACT 58.444 45.455 6.18 0.00 0.00 4.40
1196 1229 5.529800 CGTTACCAAGGGATTATAACAAGGG 59.470 44.000 0.00 0.00 0.00 3.95
1335 1370 4.949238 TGTTGCATATCACTACAAAGCCAT 59.051 37.500 0.00 0.00 0.00 4.40
1374 1409 3.717400 AGCATCATGTAGGTGTACTCG 57.283 47.619 0.00 0.00 0.00 4.18
1455 1490 9.197694 GCATATCAGTATAAGACAAGTCGAAAT 57.802 33.333 0.00 0.00 34.09 2.17
1578 5768 4.705023 AGTGGTGAAACTGTAACAAGCTTT 59.295 37.500 0.00 0.00 36.74 3.51
1600 5790 5.884792 ACAAAGAGATGGCATAAAGGAGAAG 59.115 40.000 0.00 0.00 0.00 2.85
1723 5972 2.505407 TGTACCATACTCAGCAGCCAAT 59.495 45.455 0.00 0.00 0.00 3.16
1801 6050 0.248907 CGATACCGTCAACGCTCCAT 60.249 55.000 0.00 0.00 38.18 3.41
1816 6065 6.709018 TCCATCTTCACATGACTAACGATA 57.291 37.500 0.00 0.00 0.00 2.92
1820 6069 7.615582 TGATTTCCATCTTCACATGACTAAC 57.384 36.000 0.00 0.00 0.00 2.34
1986 6271 0.893270 ACCGCAAAGCAGGCACATAA 60.893 50.000 0.00 0.00 0.00 1.90
1987 6272 1.303236 ACCGCAAAGCAGGCACATA 60.303 52.632 0.00 0.00 0.00 2.29
1988 6273 2.598394 ACCGCAAAGCAGGCACAT 60.598 55.556 0.00 0.00 0.00 3.21
1991 6276 0.955428 CTTAGACCGCAAAGCAGGCA 60.955 55.000 0.00 0.00 0.00 4.75
2132 6417 5.812642 CAGTTGTCACTTTCTACAGACAGTT 59.187 40.000 0.00 0.00 41.46 3.16
2303 6588 0.104304 GTAGCATGACCCGGTAGTGG 59.896 60.000 0.00 0.00 0.00 4.00
2330 6615 6.540438 TGGTCTAACTAACTACCATGGAAG 57.460 41.667 21.47 9.72 37.09 3.46
2391 6676 5.810587 CCGCTAACTTGTATATTCAGTGTGT 59.189 40.000 0.00 0.00 0.00 3.72
2414 6699 4.574599 ATGAACTCAAGAAACAGTTGCC 57.425 40.909 0.00 0.00 32.83 4.52
2504 6789 8.015185 ACATAATAACTTGGTCAGGTATACGT 57.985 34.615 0.00 0.00 33.84 3.57
2505 6790 8.882415 AACATAATAACTTGGTCAGGTATACG 57.118 34.615 0.00 0.00 33.84 3.06
2564 6851 3.287222 CCCTTGTTGTTTCAGGTCAGAA 58.713 45.455 0.00 0.00 0.00 3.02
2742 7082 2.233271 AGACATTGCCAAGGTCAAGTG 58.767 47.619 22.54 0.00 44.16 3.16
2744 7084 5.452078 TTTTAGACATTGCCAAGGTCAAG 57.548 39.130 22.54 0.00 44.16 3.02
2872 10832 5.068987 AGCTCTAGGCATGAAAACTCTCTAG 59.931 44.000 0.00 0.00 44.79 2.43
2874 10834 3.774216 AGCTCTAGGCATGAAAACTCTCT 59.226 43.478 0.00 0.00 44.79 3.10
2880 10850 3.519510 ACCACTAGCTCTAGGCATGAAAA 59.480 43.478 0.00 0.00 44.79 2.29
2949 10919 3.610040 ACAGCGGAGATTAATGTGTCA 57.390 42.857 0.00 0.00 0.00 3.58
2976 10946 2.507484 CACCTGAAATTCCTCACAGCA 58.493 47.619 0.00 0.00 0.00 4.41
2978 10948 1.466167 CGCACCTGAAATTCCTCACAG 59.534 52.381 0.00 0.00 0.00 3.66
3067 11046 2.192664 TTCCATGCTGCTCGGTTTAA 57.807 45.000 0.00 0.00 0.00 1.52
3130 11137 5.524284 CGTCGAAGTTATCCATCTTCAGAT 58.476 41.667 0.00 0.00 39.70 2.90
3416 12921 1.226974 GTCCAGCTCTAATGCGCGA 60.227 57.895 12.10 0.00 38.13 5.87
3422 12927 3.185455 ACTTTCAGGGTCCAGCTCTAAT 58.815 45.455 0.00 0.00 0.00 1.73
3450 12955 6.565234 TCTCTCACCAGAATAATTTCTCGAC 58.435 40.000 0.00 0.00 40.28 4.20
3469 12974 5.108517 CACAAGAAGGCAGAAGTATCTCTC 58.891 45.833 0.00 0.00 32.03 3.20
3483 12988 3.730715 GCAATCGACAAAACACAAGAAGG 59.269 43.478 0.00 0.00 0.00 3.46
3496 13001 5.912892 TGAATTCTACCATAGCAATCGACA 58.087 37.500 7.05 0.00 0.00 4.35
3499 13004 6.703607 AGAACTGAATTCTACCATAGCAATCG 59.296 38.462 7.05 0.00 46.38 3.34
3606 13111 2.607771 CGAAGATGGCAAACACCCAAAG 60.608 50.000 0.00 0.00 35.67 2.77
3636 13141 6.808008 TCAGAACATGGAAATGAAGAACTC 57.192 37.500 0.00 0.00 0.00 3.01
3740 13245 3.775316 GAGAACAGGTAAAGATCTCCCCA 59.225 47.826 0.00 0.00 31.11 4.96
3744 13249 4.641094 TCCGAGAGAACAGGTAAAGATCTC 59.359 45.833 0.00 0.00 35.77 2.75
3903 13408 2.079158 CACTGCCACACTTCTACCATG 58.921 52.381 0.00 0.00 0.00 3.66
3967 13562 2.494073 TGGGAACGGGCAAATACAAATC 59.506 45.455 0.00 0.00 0.00 2.17
4018 13613 3.765511 TGCTAAATCAAATGAAGCCAGCT 59.234 39.130 3.79 0.00 32.14 4.24
4173 13777 2.131709 CCGTTCCGGGATCTAGGCA 61.132 63.158 0.00 0.00 44.15 4.75
4185 13789 4.547367 CCATCGAGCCCCCGTTCC 62.547 72.222 0.00 0.00 0.00 3.62
4220 13824 2.131709 CCGTTCGGGGATCTAGGCA 61.132 63.158 3.04 0.00 0.00 4.75
4232 13836 1.310216 GGGAAAATCACCCCCGTTCG 61.310 60.000 0.00 0.00 41.38 3.95
4233 13837 2.575108 GGGAAAATCACCCCCGTTC 58.425 57.895 0.00 0.00 41.38 3.95
4234 13838 4.856789 GGGAAAATCACCCCCGTT 57.143 55.556 0.00 0.00 41.38 4.44
4240 13844 1.025041 GGCGATCAGGGAAAATCACC 58.975 55.000 0.00 0.00 0.00 4.02
4241 13845 1.025041 GGGCGATCAGGGAAAATCAC 58.975 55.000 0.00 0.00 0.00 3.06
4242 13846 0.918983 AGGGCGATCAGGGAAAATCA 59.081 50.000 0.00 0.00 0.00 2.57
4243 13847 1.134098 TCAGGGCGATCAGGGAAAATC 60.134 52.381 0.00 0.00 0.00 2.17
4244 13848 0.918983 TCAGGGCGATCAGGGAAAAT 59.081 50.000 0.00 0.00 0.00 1.82
4274 13878 1.827969 AGAGACAAGGAAGTGGATCCG 59.172 52.381 7.39 0.00 44.60 4.18
4301 13905 1.944024 TGGAACGCGAGAAACAATTGT 59.056 42.857 15.93 4.92 0.00 2.71
4350 13954 5.738606 AGAGGGGAGGAAAGGAATAAAGAAT 59.261 40.000 0.00 0.00 0.00 2.40
4354 13958 5.075900 ACAAAGAGGGGAGGAAAGGAATAAA 59.924 40.000 0.00 0.00 0.00 1.40
4384 13988 2.419159 CGACCTGCCAAATCATCTCTCA 60.419 50.000 0.00 0.00 0.00 3.27
4398 14002 0.238289 CCACAACATCAACGACCTGC 59.762 55.000 0.00 0.00 0.00 4.85
4407 14011 4.040829 AGAGAACAGACATCCACAACATCA 59.959 41.667 0.00 0.00 0.00 3.07
4421 14025 2.656947 CCCCCAACAAAGAGAACAGA 57.343 50.000 0.00 0.00 0.00 3.41
4521 14125 4.819105 ACTTAGAAACATCCGTCCATGA 57.181 40.909 0.00 0.00 0.00 3.07


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

AutoCloner maintained by Alex Coulton.