Multiple sequence alignment - TraesCS7D01G507800

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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 TraesCS7D01G507800 chr7D 100.000 3654 0 0 1 3654 611743018 611746671 0.000000e+00 6748.0
1 TraesCS7D01G507800 chr7D 93.182 88 5 1 1537 1624 40503955 40504041 1.070000e-25 128.0
2 TraesCS7D01G507800 chr5D 91.469 2063 113 22 1627 3654 537335438 537337472 0.000000e+00 2776.0
3 TraesCS7D01G507800 chr5B 94.390 1337 33 9 1537 2845 548527628 548528950 0.000000e+00 2015.0
4 TraesCS7D01G507800 chr5B 95.033 604 22 5 3054 3654 548528957 548529555 0.000000e+00 942.0
5 TraesCS7D01G507800 chr1B 94.170 1338 35 12 1537 2845 326016230 326017553 0.000000e+00 1999.0
6 TraesCS7D01G507800 chr1B 94.702 604 24 5 3054 3654 326017560 326018158 0.000000e+00 931.0
7 TraesCS7D01G507800 chr7B 87.898 1603 105 28 1 1535 701205654 701207235 0.000000e+00 1803.0
8 TraesCS7D01G507800 chr7A 90.643 855 57 12 1 839 701667072 701667919 0.000000e+00 1114.0
9 TraesCS7D01G507800 chr7A 88.000 675 58 14 1 670 14647490 14648146 0.000000e+00 776.0
10 TraesCS7D01G507800 chr7A 87.888 677 58 13 1 670 3165835 3165176 0.000000e+00 774.0
11 TraesCS7D01G507800 chr7A 87.964 673 57 13 5 670 162746797 162747452 0.000000e+00 773.0
12 TraesCS7D01G507800 chr7A 88.060 536 38 9 1013 1535 701672752 701673274 2.410000e-171 612.0
13 TraesCS7D01G507800 chr7A 94.915 59 0 3 854 910 701672252 701672309 5.030000e-14 89.8
14 TraesCS7D01G507800 chr6A 87.297 677 62 15 1 670 138550666 138551325 0.000000e+00 752.0
15 TraesCS7D01G507800 chr6A 86.957 92 10 2 1537 1627 162445745 162445655 6.460000e-18 102.0
16 TraesCS7D01G507800 chr6A 97.959 49 1 0 2919 2967 22928378 22928426 6.500000e-13 86.1
17 TraesCS7D01G507800 chr2A 87.297 677 62 12 1 670 776738592 776739251 0.000000e+00 752.0
18 TraesCS7D01G507800 chr2A 86.411 677 63 19 1 670 604075157 604075811 0.000000e+00 713.0
19 TraesCS7D01G507800 chr2A 86.332 578 50 16 100 670 549131634 549132189 1.450000e-168 603.0
20 TraesCS7D01G507800 chr5A 86.263 677 64 18 1 670 233502617 233503271 0.000000e+00 708.0
21 TraesCS7D01G507800 chr5A 88.043 92 9 2 1537 1627 523445992 523445902 1.390000e-19 108.0
22 TraesCS7D01G507800 chr2B 90.495 505 17 8 2707 3198 705329939 705329453 3.980000e-179 638.0
23 TraesCS7D01G507800 chr2B 90.698 473 21 8 3194 3654 705329217 705328756 3.120000e-170 608.0
24 TraesCS7D01G507800 chr1A 85.121 578 57 16 100 670 439588318 439587763 6.850000e-157 564.0
25 TraesCS7D01G507800 chr1A 82.997 347 27 8 2919 3260 576565376 576565057 5.970000e-73 285.0
26 TraesCS7D01G507800 chr1A 89.873 79 8 0 2439 2517 576565523 576565445 6.460000e-18 102.0
27 TraesCS7D01G507800 chr3A 84.974 579 56 17 100 670 114914308 114914863 3.190000e-155 558.0
28 TraesCS7D01G507800 chr1D 89.655 87 9 0 1538 1624 356975601 356975687 1.070000e-20 111.0
29 TraesCS7D01G507800 chrUn 88.764 89 8 2 1537 1624 8857716 8857629 1.390000e-19 108.0
30 TraesCS7D01G507800 chr4A 88.043 92 9 2 1537 1627 726411047 726410957 1.390000e-19 108.0
31 TraesCS7D01G507800 chr3B 87.640 89 9 2 1537 1624 787644355 787644442 6.460000e-18 102.0


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 TraesCS7D01G507800 chr7D 611743018 611746671 3653 False 6748.0 6748 100.0000 1 3654 1 chr7D.!!$F2 3653
1 TraesCS7D01G507800 chr5D 537335438 537337472 2034 False 2776.0 2776 91.4690 1627 3654 1 chr5D.!!$F1 2027
2 TraesCS7D01G507800 chr5B 548527628 548529555 1927 False 1478.5 2015 94.7115 1537 3654 2 chr5B.!!$F1 2117
3 TraesCS7D01G507800 chr1B 326016230 326018158 1928 False 1465.0 1999 94.4360 1537 3654 2 chr1B.!!$F1 2117
4 TraesCS7D01G507800 chr7B 701205654 701207235 1581 False 1803.0 1803 87.8980 1 1535 1 chr7B.!!$F1 1534
5 TraesCS7D01G507800 chr7A 701667072 701667919 847 False 1114.0 1114 90.6430 1 839 1 chr7A.!!$F3 838
6 TraesCS7D01G507800 chr7A 14647490 14648146 656 False 776.0 776 88.0000 1 670 1 chr7A.!!$F1 669
7 TraesCS7D01G507800 chr7A 3165176 3165835 659 True 774.0 774 87.8880 1 670 1 chr7A.!!$R1 669
8 TraesCS7D01G507800 chr7A 162746797 162747452 655 False 773.0 773 87.9640 5 670 1 chr7A.!!$F2 665
9 TraesCS7D01G507800 chr7A 701672252 701673274 1022 False 350.9 612 91.4875 854 1535 2 chr7A.!!$F4 681
10 TraesCS7D01G507800 chr6A 138550666 138551325 659 False 752.0 752 87.2970 1 670 1 chr6A.!!$F2 669
11 TraesCS7D01G507800 chr2A 776738592 776739251 659 False 752.0 752 87.2970 1 670 1 chr2A.!!$F3 669
12 TraesCS7D01G507800 chr2A 604075157 604075811 654 False 713.0 713 86.4110 1 670 1 chr2A.!!$F2 669
13 TraesCS7D01G507800 chr2A 549131634 549132189 555 False 603.0 603 86.3320 100 670 1 chr2A.!!$F1 570
14 TraesCS7D01G507800 chr5A 233502617 233503271 654 False 708.0 708 86.2630 1 670 1 chr5A.!!$F1 669
15 TraesCS7D01G507800 chr2B 705328756 705329939 1183 True 623.0 638 90.5965 2707 3654 2 chr2B.!!$R1 947
16 TraesCS7D01G507800 chr1A 439587763 439588318 555 True 564.0 564 85.1210 100 670 1 chr1A.!!$R1 570
17 TraesCS7D01G507800 chr3A 114914308 114914863 555 False 558.0 558 84.9740 100 670 1 chr3A.!!$F1 570

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
250 258 0.179000 CATGTACAGGCCCCAGAGAC 59.821 60.0 0.0 0.0 0.0 3.36 F
252 277 0.904865 TGTACAGGCCCCAGAGACAG 60.905 60.0 0.0 0.0 0.0 3.51 F
1284 1730 0.392998 AAGGCTACAATGCTCCACGG 60.393 55.0 0.0 0.0 0.0 4.94 F
2233 2706 0.172803 GAAGGACTGACGTACCGCAT 59.827 55.0 0.0 0.0 0.0 4.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1093 1527 0.818040 GAAGAACAACGGTGCCACCT 60.818 55.000 12.94 0.0 35.66 4.00 R
1442 1888 0.947180 TAAAACACCTCGCTCCGTGC 60.947 55.000 0.00 0.0 33.09 5.34 R
2322 2796 2.236395 CCTTAGGGATGTCACCTCGTTT 59.764 50.000 0.00 0.0 39.54 3.60 R
3415 4170 1.459592 ACTCATTTTTCGCCGAAGACG 59.540 47.619 0.00 0.0 39.43 4.18 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
64 65 7.037438 ACAAAAGGATGCAGCATATAAACAAG 58.963 34.615 8.22 0.00 0.00 3.16
197 199 2.311463 AGTGGTACATCAGGGAGATCG 58.689 52.381 0.00 0.00 44.52 3.69
199 201 0.318762 GGTACATCAGGGAGATCGGC 59.681 60.000 0.00 0.00 33.72 5.54
236 244 2.108157 GGATCACGCGCCCATGTA 59.892 61.111 5.73 0.00 0.00 2.29
237 245 2.244651 GGATCACGCGCCCATGTAC 61.245 63.158 5.73 0.00 0.00 2.90
238 246 1.520564 GATCACGCGCCCATGTACA 60.521 57.895 5.73 0.00 0.00 2.90
239 247 1.490693 GATCACGCGCCCATGTACAG 61.491 60.000 5.73 0.00 0.00 2.74
250 258 0.179000 CATGTACAGGCCCCAGAGAC 59.821 60.000 0.00 0.00 0.00 3.36
252 277 0.904865 TGTACAGGCCCCAGAGACAG 60.905 60.000 0.00 0.00 0.00 3.51
342 367 5.460419 CAGAAGTTACCAGATGCGTCTAATC 59.540 44.000 8.44 0.00 32.09 1.75
417 442 1.235281 TATCCCTCGACGGATCTGCG 61.235 60.000 17.82 6.74 41.92 5.18
449 474 2.363018 CGAGAGAGGGGGTCAGCA 60.363 66.667 0.00 0.00 0.00 4.41
621 649 3.117171 CGGAGGTCGTCGTCGTCT 61.117 66.667 10.98 1.47 38.33 4.18
638 672 3.738246 TCGCGAGCACGAGAGCTT 61.738 61.111 3.71 0.00 46.75 3.74
639 673 3.243892 CGCGAGCACGAGAGCTTC 61.244 66.667 8.01 0.00 46.75 3.86
640 674 2.180518 GCGAGCACGAGAGCTTCT 59.819 61.111 8.01 0.00 46.75 2.85
641 675 1.871789 GCGAGCACGAGAGCTTCTC 60.872 63.158 8.01 0.00 46.75 2.87
660 694 3.849574 TCTCTTCTCTTCTCTCCTCTCCA 59.150 47.826 0.00 0.00 0.00 3.86
688 725 3.303135 TGCCGTCCGTCTGCTCTT 61.303 61.111 0.00 0.00 0.00 2.85
753 790 1.281867 TGGACTCATCGGGCTTCATTT 59.718 47.619 0.00 0.00 0.00 2.32
779 816 2.520982 CCGCTCTCCCCCGACATA 60.521 66.667 0.00 0.00 0.00 2.29
880 943 4.722700 AACGAGCCGGCTTGCCAT 62.723 61.111 38.47 24.28 0.00 4.40
926 992 1.933247 CTTTTTGCTTTCCAACGGCA 58.067 45.000 0.00 0.00 31.97 5.69
957 1023 4.489771 CACGGACCATGCCCCCTC 62.490 72.222 0.00 0.00 0.00 4.30
1007 1079 3.010314 TGTTTATCCCCCGCCGGT 61.010 61.111 1.90 0.00 0.00 5.28
1061 1490 2.671070 CCGCCCCTCTCACACATT 59.329 61.111 0.00 0.00 0.00 2.71
1063 1492 1.811266 CGCCCCTCTCACACATTCG 60.811 63.158 0.00 0.00 0.00 3.34
1064 1493 1.450312 GCCCCTCTCACACATTCGG 60.450 63.158 0.00 0.00 0.00 4.30
1093 1527 1.068943 TTTCAGGGCAAGGGGGTGTA 61.069 55.000 0.00 0.00 0.00 2.90
1100 1542 2.121689 AAGGGGGTGTAGGTGGCA 60.122 61.111 0.00 0.00 0.00 4.92
1115 1557 2.613506 GGCACCGTTGTTCTTCCCG 61.614 63.158 0.00 0.00 0.00 5.14
1125 1567 2.257207 TGTTCTTCCCGAATGAGGAGT 58.743 47.619 0.00 0.00 34.08 3.85
1134 1576 1.306141 AATGAGGAGTCGGGGCTCA 60.306 57.895 2.37 0.00 37.24 4.26
1246 1692 2.423892 GACGACATTCCTCTAGAGCACA 59.576 50.000 14.73 0.22 0.00 4.57
1256 1702 3.761218 CCTCTAGAGCACAAGTCTCTTGA 59.239 47.826 14.73 1.61 40.95 3.02
1263 1709 2.485479 GCACAAGTCTCTTGAGGTTCCA 60.485 50.000 15.04 0.00 0.00 3.53
1270 1716 2.443255 TCTCTTGAGGTTCCAAAAGGCT 59.557 45.455 0.00 0.00 0.00 4.58
1275 1721 4.112634 TGAGGTTCCAAAAGGCTACAAT 57.887 40.909 0.00 0.00 0.00 2.71
1283 1729 1.453155 AAAGGCTACAATGCTCCACG 58.547 50.000 0.00 0.00 0.00 4.94
1284 1730 0.392998 AAGGCTACAATGCTCCACGG 60.393 55.000 0.00 0.00 0.00 4.94
1287 1733 1.709147 GCTACAATGCTCCACGGCAG 61.709 60.000 0.00 0.00 45.75 4.85
1288 1734 1.078497 TACAATGCTCCACGGCAGG 60.078 57.895 0.00 0.00 45.75 4.85
1289 1735 1.836999 TACAATGCTCCACGGCAGGT 61.837 55.000 0.00 0.00 45.75 4.00
1290 1736 2.360350 AATGCTCCACGGCAGGTG 60.360 61.111 0.45 0.45 45.75 4.00
1307 1753 1.656652 GTGCTGCATATCAGTCCGTT 58.343 50.000 5.27 0.00 44.66 4.44
1431 1877 3.067180 GTCATAATCTCGTGGGTTACCGA 59.933 47.826 0.00 0.00 40.75 4.69
1442 1888 0.671472 GGTTACCGAGTTGGAACCCG 60.671 60.000 15.13 0.00 39.81 5.28
1479 1925 6.481313 GTGTTTTACGGTAAAGAGGAGAAACT 59.519 38.462 12.61 0.00 0.00 2.66
1535 1981 9.038458 CGAATTATACGTTCTACAACTATCGAG 57.962 37.037 0.00 0.00 0.00 4.04
1646 2094 5.917541 ATGTACCTAACTGAACAAACACG 57.082 39.130 0.00 0.00 0.00 4.49
1709 2158 5.982465 GAAGATGTCTTCTGGATAGTTGC 57.018 43.478 14.02 0.00 46.59 4.17
1909 2382 6.143915 AGGTCAACTGGGCTATAGAATTCTA 58.856 40.000 17.32 17.32 0.00 2.10
2047 2520 2.368548 AGTTCACTAGGACACACATGCA 59.631 45.455 0.00 0.00 0.00 3.96
2229 2702 0.456312 CTGCGAAGGACTGACGTACC 60.456 60.000 0.00 0.00 0.00 3.34
2233 2706 0.172803 GAAGGACTGACGTACCGCAT 59.827 55.000 0.00 0.00 0.00 4.73
2624 3100 1.333308 TGTTGCTGATGTTGTCAACGG 59.667 47.619 11.03 3.00 41.03 4.44
2855 3342 4.757149 GGAGATAAAGCAAACACACTGACT 59.243 41.667 0.00 0.00 0.00 3.41
2888 3375 7.936847 TGTTGTGACTTACTTGGATTAGATTGT 59.063 33.333 0.00 0.00 0.00 2.71
2892 3379 9.220767 GTGACTTACTTGGATTAGATTGTCTTT 57.779 33.333 0.00 0.00 0.00 2.52
3013 3501 4.081420 TGTGGGTGTTTGTAAAATTGCACT 60.081 37.500 0.00 0.00 0.00 4.40
3017 3505 5.234116 GGGTGTTTGTAAAATTGCACTTCTG 59.766 40.000 0.00 0.00 0.00 3.02
3045 3533 2.094286 TGGCAGTTTTGTTGTTGACAGG 60.094 45.455 0.00 0.00 39.94 4.00
3146 3645 1.740043 CGTGTGCTGTGATGCATAGGA 60.740 52.381 0.00 0.00 45.23 2.94
3189 3688 3.336568 AGTGCATGCCCTGGAGCT 61.337 61.111 16.68 0.00 0.00 4.09
3190 3689 1.997311 AGTGCATGCCCTGGAGCTA 60.997 57.895 16.68 0.00 0.00 3.32
3191 3690 1.525535 GTGCATGCCCTGGAGCTAG 60.526 63.158 16.68 0.00 0.00 3.42
3202 3944 4.411927 CCCTGGAGCTAGTAGTATGATGT 58.588 47.826 0.00 0.00 0.00 3.06
3227 3971 2.280119 TCTGTGACGTGCAGGTGC 60.280 61.111 18.18 10.01 42.50 5.01
3337 4091 0.814457 TTGCAAATGTATCCCCGCAC 59.186 50.000 0.00 0.00 0.00 5.34
3338 4092 0.322906 TGCAAATGTATCCCCGCACA 60.323 50.000 0.00 0.00 0.00 4.57
3339 4093 1.032014 GCAAATGTATCCCCGCACAT 58.968 50.000 0.00 0.00 36.96 3.21
3340 4094 1.269206 GCAAATGTATCCCCGCACATG 60.269 52.381 0.00 0.00 35.59 3.21
3342 4096 0.843309 AATGTATCCCCGCACATGGA 59.157 50.000 0.00 0.00 35.59 3.41
3415 4170 3.056607 ACTGAATTTGTGTGCCATAAGCC 60.057 43.478 0.00 0.00 42.71 4.35
3491 4250 1.860326 CCAAGCTTGGTTCGCAAAAAG 59.140 47.619 33.46 6.91 43.43 2.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 3.118738 ACCAATCGACAGATGTAGGAACC 60.119 47.826 0.00 0.00 37.14 3.62
154 156 1.209128 CATCGCCGTTGCTTAGGTAG 58.791 55.000 0.00 0.00 34.43 3.18
155 157 0.808453 GCATCGCCGTTGCTTAGGTA 60.808 55.000 12.62 0.00 37.14 3.08
156 158 2.106683 GCATCGCCGTTGCTTAGGT 61.107 57.895 12.62 0.00 37.14 3.08
197 199 3.121030 AAGCGTGTCGATGCTGCC 61.121 61.111 10.02 0.00 44.13 4.85
199 201 2.780643 CCAAGCGTGTCGATGCTG 59.219 61.111 10.02 5.53 44.13 4.41
229 237 1.987807 CTCTGGGGCCTGTACATGGG 61.988 65.000 0.84 5.34 0.00 4.00
230 238 0.982852 TCTCTGGGGCCTGTACATGG 60.983 60.000 0.84 1.26 0.00 3.66
231 239 0.179000 GTCTCTGGGGCCTGTACATG 59.821 60.000 0.84 0.00 0.00 3.21
232 240 0.252696 TGTCTCTGGGGCCTGTACAT 60.253 55.000 0.84 0.00 0.00 2.29
233 241 0.904865 CTGTCTCTGGGGCCTGTACA 60.905 60.000 0.84 0.00 0.00 2.90
234 242 0.905337 ACTGTCTCTGGGGCCTGTAC 60.905 60.000 0.84 1.56 0.00 2.90
235 243 0.178903 AACTGTCTCTGGGGCCTGTA 60.179 55.000 0.84 0.00 0.00 2.74
236 244 1.462238 AACTGTCTCTGGGGCCTGT 60.462 57.895 0.84 0.00 0.00 4.00
237 245 1.298014 GAACTGTCTCTGGGGCCTG 59.702 63.158 0.84 0.00 0.00 4.85
238 246 1.920835 GGAACTGTCTCTGGGGCCT 60.921 63.158 0.84 0.00 0.00 5.19
239 247 2.224159 TGGAACTGTCTCTGGGGCC 61.224 63.158 0.00 0.00 0.00 5.80
250 258 1.001181 CTGGCCAATTTGGTGGAACTG 59.999 52.381 16.62 3.80 41.65 3.16
252 277 0.321346 CCTGGCCAATTTGGTGGAAC 59.679 55.000 16.62 0.00 41.65 3.62
306 331 3.414700 CTTCTGCGTGCGTGGGTC 61.415 66.667 0.00 0.00 0.00 4.46
342 367 2.755469 CTCGCCCCCATGGTTTGG 60.755 66.667 11.73 9.36 46.00 3.28
417 442 4.373116 TCGCCTCGCCTTGTGGAC 62.373 66.667 0.00 0.00 32.77 4.02
621 649 3.669036 GAAGCTCTCGTGCTCGCGA 62.669 63.158 9.26 9.26 43.24 5.87
638 672 3.849574 TGGAGAGGAGAGAAGAGAAGAGA 59.150 47.826 0.00 0.00 0.00 3.10
639 673 3.947834 GTGGAGAGGAGAGAAGAGAAGAG 59.052 52.174 0.00 0.00 0.00 2.85
640 674 3.308832 GGTGGAGAGGAGAGAAGAGAAGA 60.309 52.174 0.00 0.00 0.00 2.87
641 675 3.023832 GGTGGAGAGGAGAGAAGAGAAG 58.976 54.545 0.00 0.00 0.00 2.85
660 694 4.664677 GACGGCACAGCAGACGGT 62.665 66.667 4.14 0.00 0.00 4.83
721 758 1.079750 GAGTCCAGACCCAAGCGAC 60.080 63.158 0.00 0.00 0.00 5.19
727 764 1.685765 CCCGATGAGTCCAGACCCA 60.686 63.158 0.00 0.00 0.00 4.51
731 768 0.614697 TGAAGCCCGATGAGTCCAGA 60.615 55.000 0.00 0.00 0.00 3.86
776 813 2.124736 CTGTGGTGGGCCGGTATG 60.125 66.667 1.90 0.00 37.67 2.39
777 814 1.279025 ATTCTGTGGTGGGCCGGTAT 61.279 55.000 1.90 0.00 37.67 2.73
779 816 3.256960 ATTCTGTGGTGGGCCGGT 61.257 61.111 1.90 0.00 37.67 5.28
979 1051 0.108520 GGATAAACACGAGGTGGCGA 60.109 55.000 0.42 0.00 37.94 5.54
1061 1490 3.008157 TGCCCTGAAAATTGTACTACCGA 59.992 43.478 0.00 0.00 0.00 4.69
1063 1492 4.157840 CCTTGCCCTGAAAATTGTACTACC 59.842 45.833 0.00 0.00 0.00 3.18
1064 1493 4.157840 CCCTTGCCCTGAAAATTGTACTAC 59.842 45.833 0.00 0.00 0.00 2.73
1093 1527 0.818040 GAAGAACAACGGTGCCACCT 60.818 55.000 12.94 0.00 35.66 4.00
1100 1542 1.071071 TCATTCGGGAAGAACAACGGT 59.929 47.619 0.00 0.00 42.39 4.83
1115 1557 1.330655 TGAGCCCCGACTCCTCATTC 61.331 60.000 0.00 0.00 35.72 2.67
1179 1621 1.153369 GCTCATGCGGCCAGAGTAA 60.153 57.895 16.69 0.00 0.00 2.24
1246 1692 4.464947 CCTTTTGGAACCTCAAGAGACTT 58.535 43.478 0.00 0.00 44.07 3.01
1256 1702 2.562738 GCATTGTAGCCTTTTGGAACCT 59.437 45.455 0.00 0.00 44.07 3.50
1263 1709 1.812571 CGTGGAGCATTGTAGCCTTTT 59.187 47.619 0.00 0.00 34.23 2.27
1270 1716 1.078497 CCTGCCGTGGAGCATTGTA 60.078 57.895 0.00 0.00 43.09 2.41
1292 1738 3.817709 TGATGAACGGACTGATATGCA 57.182 42.857 0.00 0.00 0.00 3.96
1293 1739 5.679734 AAATGATGAACGGACTGATATGC 57.320 39.130 0.00 0.00 0.00 3.14
1294 1740 8.611757 TGTTAAAATGATGAACGGACTGATATG 58.388 33.333 0.00 0.00 0.00 1.78
1295 1741 8.731275 TGTTAAAATGATGAACGGACTGATAT 57.269 30.769 0.00 0.00 0.00 1.63
1296 1742 8.554835 TTGTTAAAATGATGAACGGACTGATA 57.445 30.769 0.00 0.00 0.00 2.15
1297 1743 7.447374 TTGTTAAAATGATGAACGGACTGAT 57.553 32.000 0.00 0.00 0.00 2.90
1298 1744 6.869315 TTGTTAAAATGATGAACGGACTGA 57.131 33.333 0.00 0.00 0.00 3.41
1299 1745 8.519492 AATTTGTTAAAATGATGAACGGACTG 57.481 30.769 0.00 0.00 36.11 3.51
1307 1753 5.641209 CGCCCCAAATTTGTTAAAATGATGA 59.359 36.000 16.73 0.00 36.11 2.92
1431 1877 3.530910 CTCCGTGCGGGTTCCAACT 62.531 63.158 10.94 0.00 37.00 3.16
1442 1888 0.947180 TAAAACACCTCGCTCCGTGC 60.947 55.000 0.00 0.00 33.09 5.34
1479 1925 3.433598 CCCTTTGGCTTTCCGATCATAGA 60.434 47.826 0.00 0.00 34.14 1.98
1535 1981 6.367695 ACAACAGAAGCAAAAACTAAAACACC 59.632 34.615 0.00 0.00 0.00 4.16
1624 2072 4.753107 CCGTGTTTGTTCAGTTAGGTACAT 59.247 41.667 0.00 0.00 0.00 2.29
1646 2094 3.848726 CTTGTGGGTGACAATTTATGCC 58.151 45.455 0.00 0.00 43.78 4.40
1834 2305 1.227823 TAGCACACACGGCTGCTTT 60.228 52.632 3.40 0.00 41.04 3.51
1835 2308 1.669115 CTAGCACACACGGCTGCTT 60.669 57.895 3.40 0.00 41.04 3.91
1846 2319 1.965935 TCAAACAGCAAGCTAGCACA 58.034 45.000 18.83 0.00 36.85 4.57
1909 2382 9.601810 TGACAATTATCCTATACTATGGAGTGT 57.398 33.333 0.00 0.00 36.28 3.55
2229 2702 3.179048 TCTTGAAGTATGTCGACATGCG 58.821 45.455 35.46 22.22 42.61 4.73
2233 2706 6.752351 GCTTATTCTCTTGAAGTATGTCGACA 59.248 38.462 22.48 22.48 35.44 4.35
2322 2796 2.236395 CCTTAGGGATGTCACCTCGTTT 59.764 50.000 0.00 0.00 39.54 3.60
2624 3100 4.090057 GGCCTGTTTCACGCTCGC 62.090 66.667 0.00 0.00 0.00 5.03
2691 3167 3.799574 GCCACTCAAATTGAACATGTGCA 60.800 43.478 1.03 1.03 0.00 4.57
2692 3168 2.733026 GCCACTCAAATTGAACATGTGC 59.267 45.455 0.00 0.00 0.00 4.57
2693 3169 3.979948 TGCCACTCAAATTGAACATGTG 58.020 40.909 0.00 1.86 0.00 3.21
2855 3342 3.620427 AGTAAGTCACAACACACACCA 57.380 42.857 0.00 0.00 0.00 4.17
3013 3501 4.469657 ACAAAACTGCCAGGTAATCAGAA 58.530 39.130 0.00 0.00 0.00 3.02
3017 3505 4.584327 ACAACAAAACTGCCAGGTAATC 57.416 40.909 0.00 0.00 0.00 1.75
3045 3533 6.030228 GGTTGTGTTATCAATCTAAGCAAGC 58.970 40.000 0.00 0.00 0.00 4.01
3146 3645 6.320164 GTCACTTCACTAGACCTCATCACTAT 59.680 42.308 0.00 0.00 0.00 2.12
3227 3971 2.821378 TGCATGTTCCATTGTTCAGGAG 59.179 45.455 0.00 0.00 34.91 3.69
3337 4091 6.753279 CACACTAAACAATGGCTAATTCCATG 59.247 38.462 0.00 0.00 45.64 3.66
3339 4093 5.184864 CCACACTAAACAATGGCTAATTCCA 59.815 40.000 0.00 0.00 40.97 3.53
3340 4094 5.185056 ACCACACTAAACAATGGCTAATTCC 59.815 40.000 0.00 0.00 35.49 3.01
3342 4096 6.664428 AACCACACTAAACAATGGCTAATT 57.336 33.333 0.00 0.00 35.49 1.40
3415 4170 1.459592 ACTCATTTTTCGCCGAAGACG 59.540 47.619 0.00 0.00 39.43 4.18
3538 4297 1.949525 TGTTCAGGCAGCTTGTTTCTC 59.050 47.619 4.15 0.00 0.00 2.87


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

AutoCloner maintained by Alex Coulton.