Multiple sequence alignment - TraesCS6A01G038300

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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 TraesCS6A01G038300 chr6A 100.000 3264 0 0 1 3264 18929810 18933073 0.000000e+00 6028
1 TraesCS6A01G038300 chr6A 86.719 128 14 2 1427 1554 3913282 3913406 4.390000e-29 139
2 TraesCS6A01G038300 chr6D 97.112 1212 30 4 1 1210 18881175 18882383 0.000000e+00 2039
3 TraesCS6A01G038300 chr6D 87.680 763 56 13 2135 2889 18890752 18891484 0.000000e+00 854
4 TraesCS6A01G038300 chr6D 94.631 447 24 0 1208 1654 18884242 18884688 0.000000e+00 693
5 TraesCS6A01G038300 chr6D 93.725 255 16 0 1667 1921 18884947 18885201 1.840000e-102 383
6 TraesCS6A01G038300 chr6D 95.408 196 9 0 1917 2112 18890402 18890597 2.450000e-81 313
7 TraesCS6A01G038300 chr6D 84.167 240 34 3 787 1025 114810649 114810885 2.530000e-56 230
8 TraesCS6A01G038300 chr6D 86.154 130 13 4 1427 1554 4839018 4839144 5.680000e-28 135
9 TraesCS6A01G038300 chr6B 91.458 1159 77 8 397 1537 32818188 32819342 0.000000e+00 1572
10 TraesCS6A01G038300 chr6B 89.673 765 61 10 2135 2891 32820281 32821035 0.000000e+00 959
11 TraesCS6A01G038300 chr6B 93.498 446 29 0 1667 2112 32819679 32820124 0.000000e+00 664
12 TraesCS6A01G038300 chr6B 88.108 370 32 5 2896 3257 32821088 32821453 2.330000e-116 429
13 TraesCS6A01G038300 chr6B 79.769 346 70 0 1767 2112 8901507 8901162 5.410000e-63 252
14 TraesCS6A01G038300 chr6B 84.211 247 31 5 785 1025 134457883 134457639 1.960000e-57 233
15 TraesCS6A01G038300 chr6B 97.590 83 2 0 1572 1654 32819338 32819420 3.390000e-30 143
16 TraesCS6A01G038300 chr6B 84.722 144 19 3 1411 1553 8902092 8901951 1.220000e-29 141
17 TraesCS6A01G038300 chr6B 84.286 140 18 4 1407 1544 9169907 9170044 2.040000e-27 134
18 TraesCS6A01G038300 chr6B 95.000 80 4 0 282 361 32818102 32818181 3.420000e-25 126
19 TraesCS6A01G038300 chr5A 85.356 478 60 6 1073 1546 11135095 11134624 1.360000e-133 486
20 TraesCS6A01G038300 chr5A 82.809 413 69 2 1699 2110 11134294 11133883 5.150000e-98 368
21 TraesCS6A01G038300 chr5B 84.989 473 59 9 1073 1539 13498319 13497853 1.370000e-128 470
22 TraesCS6A01G038300 chr5D 84.100 478 62 7 1073 1546 14536158 14535691 1.790000e-122 449
23 TraesCS6A01G038300 chr5D 82.915 398 66 2 1714 2110 14535340 14534944 1.110000e-94 357
24 TraesCS6A01G038300 chr2B 85.185 243 30 6 785 1025 910592 910354 9.050000e-61 244
25 TraesCS6A01G038300 chr3A 85.000 240 32 3 787 1025 481700541 481700305 1.170000e-59 241
26 TraesCS6A01G038300 chr3A 84.774 243 32 4 785 1025 742912208 742912447 4.210000e-59 239
27 TraesCS6A01G038300 chr7A 85.185 243 24 11 787 1025 735142944 735142710 4.210000e-59 239
28 TraesCS6A01G038300 chr1B 84.774 243 32 4 785 1025 554144950 554145189 4.210000e-59 239
29 TraesCS6A01G038300 chr2D 82.192 146 10 7 2175 2311 22826480 22826342 9.570000e-21 111


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 TraesCS6A01G038300 chr6A 18929810 18933073 3263 False 6028.000000 6028 100.0000 1 3264 1 chr6A.!!$F2 3263
1 TraesCS6A01G038300 chr6D 18881175 18885201 4026 False 1038.333333 2039 95.1560 1 1921 3 chr6D.!!$F3 1920
2 TraesCS6A01G038300 chr6D 18890402 18891484 1082 False 583.500000 854 91.5440 1917 2889 2 chr6D.!!$F4 972
3 TraesCS6A01G038300 chr6B 32818102 32821453 3351 False 648.833333 1572 92.5545 282 3257 6 chr6B.!!$F2 2975
4 TraesCS6A01G038300 chr5A 11133883 11135095 1212 True 427.000000 486 84.0825 1073 2110 2 chr5A.!!$R1 1037
5 TraesCS6A01G038300 chr5D 14534944 14536158 1214 True 403.000000 449 83.5075 1073 2110 2 chr5D.!!$R1 1037

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
75 76 0.610174 TGCTACTGCCCAGACTTCAG 59.390 55.000 1.69 0.0 38.71 3.02 F
106 107 1.003118 TGAGACCCATTACTGCACCAC 59.997 52.381 0.00 0.0 0.00 4.16 F
1262 3142 1.227263 CCCCGGTCGCATACTTCAG 60.227 63.158 0.00 0.0 0.00 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1685 3827 0.537371 GCAGTGGTGGCTAGGTGTTT 60.537 55.0 0.0 0.0 0.00 2.83 R
1860 4008 1.330655 ACCTACGACAGCCATCTGGG 61.331 60.0 0.0 0.0 44.54 4.45 R
2662 4948 0.257039 CCTTCTTAGCAGCCACCCAT 59.743 55.0 0.0 0.0 0.00 4.00 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
27 28 6.717084 TGATCTGAAGACTTGACTCAAGACTA 59.283 38.462 23.08 9.22 43.18 2.59
32 33 8.410673 TGAAGACTTGACTCAAGACTAAGTAT 57.589 34.615 23.08 8.53 43.18 2.12
39 40 9.388346 CTTGACTCAAGACTAAGTATATAAGCG 57.612 37.037 12.82 0.00 43.42 4.68
41 42 9.117183 TGACTCAAGACTAAGTATATAAGCGAA 57.883 33.333 0.00 0.00 0.00 4.70
75 76 0.610174 TGCTACTGCCCAGACTTCAG 59.390 55.000 1.69 0.00 38.71 3.02
85 86 1.664965 AGACTTCAGTTCGCACCGC 60.665 57.895 0.00 0.00 0.00 5.68
106 107 1.003118 TGAGACCCATTACTGCACCAC 59.997 52.381 0.00 0.00 0.00 4.16
141 142 2.479566 ACGAAGGATGCAGATGTTGT 57.520 45.000 0.00 0.00 0.00 3.32
234 235 9.273016 CAATTAAGGAATACACGATGAATAGGT 57.727 33.333 0.00 0.00 0.00 3.08
244 245 5.047590 ACACGATGAATAGGTCACACACTTA 60.048 40.000 0.00 0.00 39.72 2.24
394 395 6.191315 AGAGTAGTACTTCACATGGATCAGT 58.809 40.000 0.00 0.00 0.00 3.41
988 1007 4.191033 TGGCTTCCAAACAGCATTTATG 57.809 40.909 0.00 0.00 39.21 1.90
989 1008 3.577848 TGGCTTCCAAACAGCATTTATGT 59.422 39.130 0.00 0.00 39.21 2.29
1047 1066 9.190858 CATCTTTTATTCACTAATCTCTCTCGG 57.809 37.037 0.00 0.00 0.00 4.63
1249 3129 3.532155 CGCTCTTCCTCTCCCCGG 61.532 72.222 0.00 0.00 0.00 5.73
1262 3142 1.227263 CCCCGGTCGCATACTTCAG 60.227 63.158 0.00 0.00 0.00 3.02
1300 3180 9.686683 AATCAGCACTAACCATTATCTTTACTT 57.313 29.630 0.00 0.00 0.00 2.24
1527 3418 2.027745 CCTCTTCTTGAGTGCCTTGCTA 60.028 50.000 0.00 0.00 41.11 3.49
1541 3432 5.828328 GTGCCTTGCTAGGGTAATTAATCTT 59.172 40.000 16.26 0.00 42.25 2.40
1772 3920 1.583477 GGCTTCTCAACAAGCTGGC 59.417 57.895 5.24 0.00 46.89 4.85
1860 4008 2.685388 GGATGTTCCTCCTTAGCTTTGC 59.315 50.000 0.00 0.00 32.53 3.68
1951 4099 1.153881 GGCCGTCACCGTACTCTTC 60.154 63.158 0.00 0.00 0.00 2.87
2059 4207 3.133691 GCCGCTAATTCAGATCATCACA 58.866 45.455 0.00 0.00 0.00 3.58
2128 4320 1.125093 TGGGGAAAGAGCAACGAGGA 61.125 55.000 0.00 0.00 0.00 3.71
2164 4446 2.098607 ACTGCTCCATTGATCATTTGCG 59.901 45.455 0.00 0.00 0.00 4.85
2173 4455 8.164058 TCCATTGATCATTTGCGTCATATTAA 57.836 30.769 0.00 0.00 0.00 1.40
2198 4480 5.824624 ACATACACAAGAGAATTGGCCTATG 59.175 40.000 3.32 1.10 0.00 2.23
2220 4502 9.302345 CTATGCCTATATACAGATTTTGGTACG 57.698 37.037 0.00 0.00 0.00 3.67
2251 4533 7.766278 TCCTACTTTTCTTGTCTCTGCATTATC 59.234 37.037 0.00 0.00 0.00 1.75
2254 4536 6.944862 ACTTTTCTTGTCTCTGCATTATCCTT 59.055 34.615 0.00 0.00 0.00 3.36
2255 4537 8.103305 ACTTTTCTTGTCTCTGCATTATCCTTA 58.897 33.333 0.00 0.00 0.00 2.69
2256 4538 7.849804 TTTCTTGTCTCTGCATTATCCTTAC 57.150 36.000 0.00 0.00 0.00 2.34
2257 4539 6.544928 TCTTGTCTCTGCATTATCCTTACA 57.455 37.500 0.00 0.00 0.00 2.41
2308 4594 8.141268 GGTTCTCCAACTCAAATGACAATAAAA 58.859 33.333 0.00 0.00 32.50 1.52
2382 4668 5.691754 GTCTTAAAATTTGTTCTGGCACTGG 59.308 40.000 0.00 0.00 0.00 4.00
2469 4755 1.705745 AGGGGAAACTGAGAAGGGAAC 59.294 52.381 0.00 0.00 0.00 3.62
2471 4757 2.553247 GGGGAAACTGAGAAGGGAACTG 60.553 54.545 0.00 0.00 42.68 3.16
2490 4776 2.836981 CTGTGTGGAGAGAAGAAGGGAT 59.163 50.000 0.00 0.00 0.00 3.85
2543 4829 2.596851 GGGCACAGCAGGGAAGAGA 61.597 63.158 0.00 0.00 0.00 3.10
2604 4890 1.668101 GCCACCTCCTCGAACGAGAT 61.668 60.000 22.96 5.38 44.53 2.75
2605 4891 1.676746 CCACCTCCTCGAACGAGATA 58.323 55.000 22.96 11.21 44.53 1.98
2614 4900 6.057627 TCCTCGAACGAGATAAATCTGTAC 57.942 41.667 22.96 0.00 44.53 2.90
2618 4904 4.904724 CGAACGAGATAAATCTGTACGAGG 59.095 45.833 0.00 0.00 37.25 4.63
2631 4917 3.170717 TGTACGAGGTGGAAAAGGAGAT 58.829 45.455 0.00 0.00 0.00 2.75
2636 4922 3.307059 CGAGGTGGAAAAGGAGATGAAGT 60.307 47.826 0.00 0.00 0.00 3.01
2662 4948 2.307686 GGGGTGGACTAACCTTGAATCA 59.692 50.000 0.00 0.00 40.35 2.57
2675 4961 0.918258 TGAATCATGGGTGGCTGCTA 59.082 50.000 0.00 0.00 0.00 3.49
2686 4972 2.684499 GGCTGCTAAGAAGGGGGCT 61.684 63.158 0.00 0.00 0.00 5.19
2697 4986 0.846427 AAGGGGGCTGATTGAGGTCA 60.846 55.000 0.00 0.00 0.00 4.02
2756 5045 2.591715 GCCTCCGTTGTGCACAGT 60.592 61.111 20.59 0.00 0.00 3.55
2795 5087 6.749036 TTTTAAGGGGGAACATGCTTTAAA 57.251 33.333 0.00 0.00 0.00 1.52
2796 5088 6.749036 TTTAAGGGGGAACATGCTTTAAAA 57.251 33.333 0.00 0.00 0.00 1.52
2799 5091 6.943899 AAGGGGGAACATGCTTTAAAAATA 57.056 33.333 0.00 0.00 0.00 1.40
2885 5178 3.932089 GAGCTTTCTCACCAGACAATCTC 59.068 47.826 0.00 0.00 39.16 2.75
2891 5184 1.699083 TCACCAGACAATCTCAAGGCA 59.301 47.619 0.00 0.00 0.00 4.75
2892 5185 2.082231 CACCAGACAATCTCAAGGCAG 58.918 52.381 0.00 0.00 0.00 4.85
2893 5186 1.980765 ACCAGACAATCTCAAGGCAGA 59.019 47.619 0.00 0.00 0.00 4.26
2894 5187 2.027377 ACCAGACAATCTCAAGGCAGAG 60.027 50.000 1.01 1.01 36.97 3.35
2917 5258 7.756395 AGATGTGTCTCTTGATTTGTTGATT 57.244 32.000 0.00 0.00 0.00 2.57
2918 5259 7.591165 AGATGTGTCTCTTGATTTGTTGATTG 58.409 34.615 0.00 0.00 0.00 2.67
2923 5264 8.534778 GTGTCTCTTGATTTGTTGATTGAAAAC 58.465 33.333 0.00 0.00 0.00 2.43
2928 5269 9.381033 TCTTGATTTGTTGATTGAAAACATTGT 57.619 25.926 0.00 0.00 37.38 2.71
2947 5288 8.647143 ACATTGTTTAAAGTTGACATTTCCAG 57.353 30.769 0.00 0.00 0.00 3.86
2956 5297 2.942804 TGACATTTCCAGTCAAGGCAA 58.057 42.857 0.00 0.00 42.57 4.52
2976 5317 2.865119 AGATGTCCACACATTCTGCA 57.135 45.000 0.00 0.00 43.79 4.41
2983 5324 4.094739 TGTCCACACATTCTGCAAATATCG 59.905 41.667 0.00 0.00 0.00 2.92
2985 5326 3.031126 CACACATTCTGCAAATATCGCG 58.969 45.455 0.00 0.00 0.00 5.87
2990 5331 0.179121 TCTGCAAATATCGCGACCGT 60.179 50.000 12.93 0.00 35.54 4.83
3007 5348 1.735559 GTCGCGTCCCACCAAGTAC 60.736 63.158 5.77 0.00 0.00 2.73
3034 5375 1.467734 CAGAGCAGCAGTTGATCAACC 59.532 52.381 30.34 18.42 44.66 3.77
3106 5455 9.654663 GTTCAGTCCTTATTGAACTACATAACT 57.345 33.333 9.43 0.00 44.60 2.24
3150 5499 1.068333 CAAAAGGGTGCGGAATGACAG 60.068 52.381 0.00 0.00 0.00 3.51
3154 5503 1.026718 GGGTGCGGAATGACAGAAGG 61.027 60.000 0.00 0.00 0.00 3.46
3164 5513 0.833409 TGACAGAAGGGAGCTGAGCA 60.833 55.000 7.39 0.00 36.86 4.26
3191 5540 4.435436 CACGAGTGCAGCGGCCTA 62.435 66.667 6.32 0.00 40.13 3.93
3224 5573 8.189119 ACAACCCATGTGTCAGTTTAAATAAT 57.811 30.769 0.00 0.00 41.93 1.28
3257 5606 1.019673 CATGGCTGTGCATAGTGGTC 58.980 55.000 12.41 1.06 0.00 4.02
3258 5607 0.620030 ATGGCTGTGCATAGTGGTCA 59.380 50.000 12.41 6.40 0.00 4.02
3259 5608 0.399833 TGGCTGTGCATAGTGGTCAA 59.600 50.000 12.41 0.00 0.00 3.18
3260 5609 1.004628 TGGCTGTGCATAGTGGTCAAT 59.995 47.619 12.41 0.00 0.00 2.57
3261 5610 1.672881 GGCTGTGCATAGTGGTCAATC 59.327 52.381 12.41 0.00 0.00 2.67
3262 5611 1.672881 GCTGTGCATAGTGGTCAATCC 59.327 52.381 12.41 0.00 0.00 3.01
3263 5612 2.940971 GCTGTGCATAGTGGTCAATCCA 60.941 50.000 12.41 0.00 45.01 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 8.388103 GCAAATTAAAGTCTGACTTCGCTTATA 58.612 33.333 22.24 8.18 37.47 0.98
34 35 6.426937 AGCAAATTAAAGTCTGACTTCGCTTA 59.573 34.615 22.24 9.20 37.47 3.09
39 40 7.018235 GCAGTAGCAAATTAAAGTCTGACTTC 58.982 38.462 22.24 8.94 37.90 3.01
41 42 5.412904 GGCAGTAGCAAATTAAAGTCTGACT 59.587 40.000 4.06 4.06 44.61 3.41
75 76 3.112709 GGTCTCAGCGGTGCGAAC 61.113 66.667 9.12 8.00 0.00 3.95
85 86 1.278985 TGGTGCAGTAATGGGTCTCAG 59.721 52.381 0.00 0.00 0.00 3.35
106 107 3.550842 CCTTCGTTTTCTTTCAGCTTGGG 60.551 47.826 0.00 0.00 0.00 4.12
234 235 6.656632 AATCTCTCTCACTTAAGTGTGTGA 57.343 37.500 29.83 28.47 45.76 3.58
244 245 5.337788 AGTTGGAGGTAATCTCTCTCACTT 58.662 41.667 0.00 0.00 42.10 3.16
988 1007 3.817084 GGTATTTATACCCGGGCAGAAAC 59.183 47.826 24.08 7.43 45.62 2.78
989 1008 4.089408 GGTATTTATACCCGGGCAGAAA 57.911 45.455 24.08 19.36 45.62 2.52
1034 1053 8.244802 TGAAAAGTAAAGACCGAGAGAGATTAG 58.755 37.037 0.00 0.00 0.00 1.73
1047 1066 6.021704 GCTTGTTCAACGTGAAAAGTAAAGAC 60.022 38.462 0.00 0.00 38.22 3.01
1225 3105 4.577246 GAGGAAGAGCGCGGCGAT 62.577 66.667 28.54 22.42 0.00 4.58
1249 3129 2.685897 ACCTCTCTCTGAAGTATGCGAC 59.314 50.000 0.00 0.00 0.00 5.19
1262 3142 3.936564 AGTGCTGATTCAAACCTCTCTC 58.063 45.455 0.00 0.00 0.00 3.20
1315 3197 6.610830 AGTGATGAATATGGGCCAAACAATAA 59.389 34.615 11.89 0.00 0.00 1.40
1654 3545 2.586425 CCAATCAGGTCAACACTTGGT 58.414 47.619 0.00 0.00 30.44 3.67
1685 3827 0.537371 GCAGTGGTGGCTAGGTGTTT 60.537 55.000 0.00 0.00 0.00 2.83
1772 3920 3.941483 GACTGTAGGATGAACCACATTGG 59.059 47.826 0.00 0.00 45.02 3.16
1860 4008 1.330655 ACCTACGACAGCCATCTGGG 61.331 60.000 0.00 0.00 44.54 4.45
1951 4099 4.657824 AACACTCCGACACCCGCG 62.658 66.667 0.00 0.00 36.84 6.46
1979 4127 4.573210 CCATGTCATGGCCAGGAG 57.427 61.111 22.70 9.41 44.70 3.69
2059 4207 4.194720 GCGACGTCGATCCCAGCT 62.195 66.667 39.74 0.00 43.02 4.24
2128 4320 4.080356 TGGAGCAGTCTAATATGGTGCTTT 60.080 41.667 0.00 0.00 44.42 3.51
2173 4455 4.666512 AGGCCAATTCTCTTGTGTATGTT 58.333 39.130 5.01 0.00 0.00 2.71
2198 4480 9.649167 ATTACGTACCAAAATCTGTATATAGGC 57.351 33.333 0.00 0.00 0.00 3.93
2214 4496 7.444299 ACAAGAAAAGTAGGAATTACGTACCA 58.556 34.615 0.00 0.00 39.70 3.25
2220 4502 7.387948 TGCAGAGACAAGAAAAGTAGGAATTAC 59.612 37.037 0.00 0.00 0.00 1.89
2257 4539 9.799106 CCATGAGTTTGATCCTTTATTAGGTAT 57.201 33.333 0.00 0.00 45.03 2.73
2382 4668 9.241317 CATGGTTATGATCTTTGCTTTACATTC 57.759 33.333 0.00 0.00 36.36 2.67
2469 4755 2.251818 TCCCTTCTTCTCTCCACACAG 58.748 52.381 0.00 0.00 0.00 3.66
2470 4756 2.398754 TCCCTTCTTCTCTCCACACA 57.601 50.000 0.00 0.00 0.00 3.72
2471 4757 5.363939 CAATATCCCTTCTTCTCTCCACAC 58.636 45.833 0.00 0.00 0.00 3.82
2490 4776 2.852449 AGCTCCAGGATCCAAACCAATA 59.148 45.455 15.82 0.00 0.00 1.90
2531 4817 2.355193 GGTCGCTCTCTTCCCTGCT 61.355 63.158 0.00 0.00 0.00 4.24
2533 4819 0.539051 AATGGTCGCTCTCTTCCCTG 59.461 55.000 0.00 0.00 0.00 4.45
2539 4825 1.115467 CCAGGTAATGGTCGCTCTCT 58.885 55.000 0.00 0.00 44.91 3.10
2604 4890 5.246656 TCCTTTTCCACCTCGTACAGATTTA 59.753 40.000 0.00 0.00 0.00 1.40
2605 4891 4.041198 TCCTTTTCCACCTCGTACAGATTT 59.959 41.667 0.00 0.00 0.00 2.17
2614 4900 3.265791 CTTCATCTCCTTTTCCACCTCG 58.734 50.000 0.00 0.00 0.00 4.63
2618 4904 5.877564 CCTCTTACTTCATCTCCTTTTCCAC 59.122 44.000 0.00 0.00 0.00 4.02
2631 4917 2.715763 AGTCCACCCCTCTTACTTCA 57.284 50.000 0.00 0.00 0.00 3.02
2636 4922 3.178865 CAAGGTTAGTCCACCCCTCTTA 58.821 50.000 0.00 0.00 37.58 2.10
2662 4948 0.257039 CCTTCTTAGCAGCCACCCAT 59.743 55.000 0.00 0.00 0.00 4.00
2675 4961 0.627986 CCTCAATCAGCCCCCTTCTT 59.372 55.000 0.00 0.00 0.00 2.52
2686 4972 2.264480 CGCCGGTGACCTCAATCA 59.736 61.111 10.20 0.00 0.00 2.57
2706 4995 1.140804 GAGAGAGACAAGGAGCGGC 59.859 63.158 0.00 0.00 0.00 6.53
2742 5031 1.522806 GTCCACTGTGCACAACGGA 60.523 57.895 25.69 25.69 38.65 4.69
2776 5068 5.841267 ATTTTTAAAGCATGTTCCCCCTT 57.159 34.783 0.00 0.00 0.00 3.95
2893 5186 7.446319 TCAATCAACAAATCAAGAGACACATCT 59.554 33.333 0.00 0.00 38.15 2.90
2894 5187 7.587629 TCAATCAACAAATCAAGAGACACATC 58.412 34.615 0.00 0.00 0.00 3.06
2895 5188 7.514784 TCAATCAACAAATCAAGAGACACAT 57.485 32.000 0.00 0.00 0.00 3.21
2896 5189 6.940831 TCAATCAACAAATCAAGAGACACA 57.059 33.333 0.00 0.00 0.00 3.72
2897 5190 8.534778 GTTTTCAATCAACAAATCAAGAGACAC 58.465 33.333 0.00 0.00 0.00 3.67
2898 5191 8.249638 TGTTTTCAATCAACAAATCAAGAGACA 58.750 29.630 0.00 0.00 31.05 3.41
2899 5192 8.633075 TGTTTTCAATCAACAAATCAAGAGAC 57.367 30.769 0.00 0.00 31.05 3.36
2900 5193 9.820725 AATGTTTTCAATCAACAAATCAAGAGA 57.179 25.926 0.00 0.00 37.67 3.10
2901 5194 9.858247 CAATGTTTTCAATCAACAAATCAAGAG 57.142 29.630 0.00 0.00 37.67 2.85
2923 5264 8.647143 ACTGGAAATGTCAACTTTAAACAATG 57.353 30.769 0.00 0.00 0.00 2.82
2928 5269 7.488322 CCTTGACTGGAAATGTCAACTTTAAA 58.512 34.615 5.36 0.00 45.77 1.52
2943 5284 2.553028 GGACATCTTTGCCTTGACTGGA 60.553 50.000 0.00 0.00 0.00 3.86
2947 5288 2.030805 GTGTGGACATCTTTGCCTTGAC 60.031 50.000 0.00 0.00 0.00 3.18
2953 5294 3.829948 CAGAATGTGTGGACATCTTTGC 58.170 45.455 0.00 0.00 42.30 3.68
2954 5295 3.253921 TGCAGAATGTGTGGACATCTTTG 59.746 43.478 0.00 0.00 42.30 2.77
2956 5297 3.144657 TGCAGAATGTGTGGACATCTT 57.855 42.857 0.00 0.00 42.30 2.40
2990 5331 1.870055 GAGTACTTGGTGGGACGCGA 61.870 60.000 15.93 0.00 41.51 5.87
2996 5337 1.276421 CTGGTCAGAGTACTTGGTGGG 59.724 57.143 0.00 0.00 0.00 4.61
3034 5375 0.682292 GGGGAATCCGGCTCTCTAAG 59.318 60.000 0.00 0.00 0.00 2.18
3102 5451 9.246670 TGCTACAGTATTTCCTGTAACTAGTTA 57.753 33.333 11.38 11.38 44.88 2.24
3106 5455 8.301252 TGATGCTACAGTATTTCCTGTAACTA 57.699 34.615 3.01 0.00 44.88 2.24
3115 5464 6.555315 CACCCTTTTGATGCTACAGTATTTC 58.445 40.000 0.00 0.00 0.00 2.17
3118 5467 3.947834 GCACCCTTTTGATGCTACAGTAT 59.052 43.478 0.00 0.00 36.40 2.12
3150 5499 0.322975 TTCTGTGCTCAGCTCCCTTC 59.677 55.000 10.95 0.00 41.10 3.46
3154 5503 1.155042 CACTTTCTGTGCTCAGCTCC 58.845 55.000 10.95 0.00 40.06 4.70
3178 5527 3.190738 TTTGGTAGGCCGCTGCACT 62.191 57.895 1.55 0.00 40.13 4.40
3191 5540 3.222287 ACATGGGTTGTGCTTTGGT 57.778 47.368 0.00 0.00 37.11 3.67
3218 5567 7.679783 GCCATGGGCTCCTTTATTAATTATTT 58.320 34.615 15.13 0.00 46.69 1.40
3219 5568 7.244886 GCCATGGGCTCCTTTATTAATTATT 57.755 36.000 15.13 0.00 46.69 1.40
3220 5569 6.857437 GCCATGGGCTCCTTTATTAATTAT 57.143 37.500 15.13 0.00 46.69 1.28


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

AutoCloner maintained by Alex Coulton.