Multiple sequence alignment - TraesCS7D01G149000

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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 TraesCS7D01G149000 chr7D 100.000 4047 0 0 1 4047 97618186 97614140 0.000000e+00 7474.0
1 TraesCS7D01G149000 chr7B 92.196 3588 137 59 11 3534 52351088 52347580 0.000000e+00 4942.0
2 TraesCS7D01G149000 chr7B 86.228 501 36 16 3533 4016 52347534 52347050 2.790000e-141 512.0
3 TraesCS7D01G149000 chr7A 95.191 1934 57 14 2112 4014 100181078 100179150 0.000000e+00 3024.0
4 TraesCS7D01G149000 chr7A 91.699 1301 61 14 807 2073 100182368 100181081 0.000000e+00 1760.0
5 TraesCS7D01G149000 chr7A 86.514 697 47 14 11 684 100183320 100182648 0.000000e+00 723.0
6 TraesCS7D01G149000 chr7A 97.727 44 1 0 3832 3875 100179295 100179252 4.340000e-10 76.8
7 TraesCS7D01G149000 chr4B 88.462 52 1 5 3997 4046 89569557 89569509 1.570000e-04 58.4
8 TraesCS7D01G149000 chr5D 96.970 33 0 1 4015 4046 357069975 357070007 2.000000e-03 54.7
9 TraesCS7D01G149000 chr5A 94.286 35 1 1 4012 4046 28910703 28910736 7.000000e-03 52.8


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 TraesCS7D01G149000 chr7D 97614140 97618186 4046 True 7474.00 7474 100.00000 1 4047 1 chr7D.!!$R1 4046
1 TraesCS7D01G149000 chr7B 52347050 52351088 4038 True 2727.00 4942 89.21200 11 4016 2 chr7B.!!$R1 4005
2 TraesCS7D01G149000 chr7A 100179150 100183320 4170 True 1395.95 3024 92.78275 11 4014 4 chr7A.!!$R1 4003

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
596 615 0.436531 GCGTGCGAGAAACTGAGAAG 59.563 55.0 0.00 0.0 0.00 2.85 F
1167 1357 0.107703 CACTGATCCCGGCTTGCTTA 60.108 55.0 0.00 0.0 0.00 3.09 F
2109 2361 0.174389 ACGAATCTCTGATGCGTGCT 59.826 50.0 12.17 0.0 33.52 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2593 2847 0.033504 TGAACTCCACGCTCTTGGTC 59.966 55.000 0.0 0.0 37.93 4.02 R
3005 3262 1.079819 CGTCAGGCTTGATGACCGT 60.080 57.895 12.5 0.0 43.36 4.83 R
3253 3510 1.137086 CCTGGTCTCCCTTCATACACG 59.863 57.143 0.0 0.0 0.00 4.49 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
36 38 5.648330 GGAAAGATTGGTCCCTATTACCT 57.352 43.478 0.00 0.00 37.91 3.08
210 216 4.717313 GCGTTCTCCCCCGCCTTT 62.717 66.667 0.00 0.00 43.96 3.11
211 217 2.436115 CGTTCTCCCCCGCCTTTC 60.436 66.667 0.00 0.00 0.00 2.62
212 218 2.045242 GTTCTCCCCCGCCTTTCC 60.045 66.667 0.00 0.00 0.00 3.13
213 219 3.335729 TTCTCCCCCGCCTTTCCC 61.336 66.667 0.00 0.00 0.00 3.97
214 220 3.883822 TTCTCCCCCGCCTTTCCCT 62.884 63.158 0.00 0.00 0.00 4.20
215 221 3.798511 CTCCCCCGCCTTTCCCTC 61.799 72.222 0.00 0.00 0.00 4.30
434 444 1.359848 CGTCTTCCCCTCGAATGTTG 58.640 55.000 0.00 0.00 0.00 3.33
438 448 2.168521 TCTTCCCCTCGAATGTTGCTAG 59.831 50.000 0.00 0.00 0.00 3.42
439 449 1.568504 TCCCCTCGAATGTTGCTAGT 58.431 50.000 0.00 0.00 0.00 2.57
442 452 2.460918 CCCTCGAATGTTGCTAGTACG 58.539 52.381 0.00 0.00 0.00 3.67
445 455 2.784380 CTCGAATGTTGCTAGTACGAGC 59.216 50.000 19.83 19.83 43.16 5.03
446 456 1.513178 CGAATGTTGCTAGTACGAGCG 59.487 52.381 20.93 3.36 45.99 5.03
595 614 0.944311 GGCGTGCGAGAAACTGAGAA 60.944 55.000 0.00 0.00 0.00 2.87
596 615 0.436531 GCGTGCGAGAAACTGAGAAG 59.563 55.000 0.00 0.00 0.00 2.85
601 622 1.795286 GCGAGAAACTGAGAAGGTGTG 59.205 52.381 0.00 0.00 0.00 3.82
602 623 2.408050 CGAGAAACTGAGAAGGTGTGG 58.592 52.381 0.00 0.00 0.00 4.17
603 624 2.224066 CGAGAAACTGAGAAGGTGTGGT 60.224 50.000 0.00 0.00 0.00 4.16
766 794 2.037687 ACCCCGTCCGTGTATCCA 59.962 61.111 0.00 0.00 0.00 3.41
779 807 2.029623 TGTATCCACCGCTACCTTCTC 58.970 52.381 0.00 0.00 0.00 2.87
904 1090 1.764054 CTCCCTTGCCCTCCTCGAT 60.764 63.158 0.00 0.00 0.00 3.59
1062 1252 5.240403 CACCTTCGGTATCCTAGGTACTTAC 59.760 48.000 9.08 6.97 35.16 2.34
1063 1253 5.103940 ACCTTCGGTATCCTAGGTACTTACA 60.104 44.000 9.08 0.00 35.46 2.41
1064 1254 5.240403 CCTTCGGTATCCTAGGTACTTACAC 59.760 48.000 9.08 0.00 41.75 2.90
1065 1255 4.380531 TCGGTATCCTAGGTACTTACACG 58.619 47.826 9.08 9.03 41.75 4.49
1068 1258 4.522022 GGTATCCTAGGTACTTACACGCAT 59.478 45.833 9.08 0.00 41.75 4.73
1069 1259 4.585955 ATCCTAGGTACTTACACGCATG 57.414 45.455 9.08 0.00 41.75 4.06
1073 1263 2.550978 AGGTACTTACACGCATGCATC 58.449 47.619 19.57 0.00 27.25 3.91
1167 1357 0.107703 CACTGATCCCGGCTTGCTTA 60.108 55.000 0.00 0.00 0.00 3.09
1213 1407 0.459489 TTGCTCAACACACCCTTTGC 59.541 50.000 0.00 0.00 0.00 3.68
1214 1408 0.395586 TGCTCAACACACCCTTTGCT 60.396 50.000 0.00 0.00 0.00 3.91
1217 1411 1.876156 CTCAACACACCCTTTGCTCTC 59.124 52.381 0.00 0.00 0.00 3.20
1301 1495 2.314323 ACTGCCAAACCAAGCTTTTG 57.686 45.000 0.00 0.00 34.31 2.44
1603 1799 3.643763 ACTTAACTGCACTCTCTGTTCG 58.356 45.455 0.00 0.00 31.90 3.95
1677 1896 0.682292 TGTCCCTTGTCATGCGTGTA 59.318 50.000 5.68 0.00 0.00 2.90
1757 1995 1.511850 ACACACATGACACATGTCCG 58.488 50.000 13.37 10.25 44.15 4.79
1936 2175 1.560004 CGGTGCAGTGCAGTGTACTG 61.560 60.000 32.68 31.10 46.37 2.74
2026 2278 3.856900 AGGCCCAGGTAAAAACAATTCT 58.143 40.909 0.00 0.00 0.00 2.40
2052 2304 1.224075 CTGGTCGATGCATGGTCATC 58.776 55.000 2.46 0.00 39.47 2.92
2067 2319 5.400066 TGGTCATCATTAACTCTGACGAA 57.600 39.130 0.00 0.00 39.08 3.85
2068 2320 5.977635 TGGTCATCATTAACTCTGACGAAT 58.022 37.500 0.00 0.00 39.08 3.34
2069 2321 6.042777 TGGTCATCATTAACTCTGACGAATC 58.957 40.000 0.00 0.00 39.08 2.52
2070 2322 5.463724 GGTCATCATTAACTCTGACGAATCC 59.536 44.000 0.00 0.00 39.08 3.01
2071 2323 5.463724 GTCATCATTAACTCTGACGAATCCC 59.536 44.000 0.00 0.00 0.00 3.85
2072 2324 5.363868 TCATCATTAACTCTGACGAATCCCT 59.636 40.000 0.00 0.00 0.00 4.20
2073 2325 5.677319 TCATTAACTCTGACGAATCCCTT 57.323 39.130 0.00 0.00 0.00 3.95
2074 2326 6.785337 TCATTAACTCTGACGAATCCCTTA 57.215 37.500 0.00 0.00 0.00 2.69
2075 2327 7.177832 TCATTAACTCTGACGAATCCCTTAA 57.822 36.000 0.00 0.00 0.00 1.85
2076 2328 7.617225 TCATTAACTCTGACGAATCCCTTAAA 58.383 34.615 0.00 0.00 0.00 1.52
2077 2329 8.098286 TCATTAACTCTGACGAATCCCTTAAAA 58.902 33.333 0.00 0.00 0.00 1.52
2078 2330 8.726988 CATTAACTCTGACGAATCCCTTAAAAA 58.273 33.333 0.00 0.00 0.00 1.94
2105 2357 1.851053 CACTGACGAATCTCTGATGCG 59.149 52.381 6.41 6.41 0.00 4.73
2106 2358 1.474478 ACTGACGAATCTCTGATGCGT 59.526 47.619 12.71 12.71 37.97 5.24
2109 2361 0.174389 ACGAATCTCTGATGCGTGCT 59.826 50.000 12.17 0.00 33.52 4.40
2116 2368 1.154093 CTGATGCGTGCTTTGCAGG 60.154 57.895 7.73 7.73 46.98 4.85
2502 2754 2.808543 GCATCATCGTAAGGACCCATTC 59.191 50.000 0.00 0.00 38.47 2.67
2521 2773 6.071334 CCCATTCAATCTTACGGCTAGATCTA 60.071 42.308 1.69 1.69 31.28 1.98
2593 2847 1.817099 GCAGAGGCTTGTGATCCGG 60.817 63.158 0.00 0.00 36.96 5.14
2650 2904 3.997064 CTTCCTGGTCCTCAGCGCG 62.997 68.421 0.00 0.00 42.05 6.86
3253 3510 3.490759 CGACCGACTGCATGCCAC 61.491 66.667 16.68 5.52 0.00 5.01
3254 3511 3.490759 GACCGACTGCATGCCACG 61.491 66.667 16.68 16.93 0.00 4.94
3295 3556 0.877743 TGAGAGCGAGTGTGAGTGAG 59.122 55.000 0.00 0.00 0.00 3.51
3296 3557 0.878416 GAGAGCGAGTGTGAGTGAGT 59.122 55.000 0.00 0.00 0.00 3.41
3297 3558 0.595588 AGAGCGAGTGTGAGTGAGTG 59.404 55.000 0.00 0.00 0.00 3.51
3298 3559 0.593618 GAGCGAGTGTGAGTGAGTGA 59.406 55.000 0.00 0.00 0.00 3.41
3601 3924 0.685097 AGCCTTGCGTTCCTCTAACA 59.315 50.000 0.00 0.00 38.03 2.41
3752 4079 1.663702 GCGGCTATGGTACGCGATT 60.664 57.895 15.93 0.00 43.98 3.34
3793 4120 4.009675 ACAGTACATGACAATGGCGATTT 58.990 39.130 0.00 0.00 38.19 2.17
3801 4128 3.119884 TGACAATGGCGATTTCATCACAC 60.120 43.478 0.00 0.00 0.00 3.82
3836 4163 2.423577 CCTTTTAGGTTCAGTCACCGG 58.576 52.381 0.00 0.00 42.33 5.28
3837 4164 2.224450 CCTTTTAGGTTCAGTCACCGGT 60.224 50.000 0.00 0.00 42.33 5.28
3840 4167 2.592102 TAGGTTCAGTCACCGGTAGT 57.408 50.000 6.87 0.00 42.33 2.73
3842 4169 1.203025 AGGTTCAGTCACCGGTAGTCT 60.203 52.381 6.87 2.77 42.33 3.24
3843 4170 1.067776 GGTTCAGTCACCGGTAGTCTG 60.068 57.143 6.87 15.95 0.00 3.51
3844 4171 1.612463 GTTCAGTCACCGGTAGTCTGT 59.388 52.381 22.91 0.36 0.00 3.41
3845 4172 1.531423 TCAGTCACCGGTAGTCTGTC 58.469 55.000 22.91 5.69 0.00 3.51
3849 4176 1.884579 GTCACCGGTAGTCTGTCAAGA 59.115 52.381 6.87 0.00 0.00 3.02
3864 4191 6.796426 TCTGTCAAGACACTATTATTCTCGG 58.204 40.000 0.00 0.00 36.21 4.63
3865 4192 6.377429 TCTGTCAAGACACTATTATTCTCGGT 59.623 38.462 0.00 0.00 36.21 4.69
3866 4193 7.555195 TCTGTCAAGACACTATTATTCTCGGTA 59.445 37.037 0.00 0.00 36.21 4.02
3868 4195 8.692710 TGTCAAGACACTATTATTCTCGGTAAT 58.307 33.333 0.00 0.00 36.21 1.89
3870 4197 8.074370 TCAAGACACTATTATTCTCGGTAATCG 58.926 37.037 0.00 0.00 40.90 3.34
3885 4223 4.171754 GGTAATCGTGGTAGTCTGTCAAC 58.828 47.826 0.00 0.00 0.00 3.18
3978 4316 2.404559 TCTAGGTTGGTGGTCAGTGTT 58.595 47.619 0.00 0.00 0.00 3.32
4039 4377 8.854237 AATTAGGTTAATTATCCTTTTGCCCT 57.146 30.769 18.15 0.00 36.66 5.19
4040 4378 7.891498 TTAGGTTAATTATCCTTTTGCCCTC 57.109 36.000 18.15 0.00 35.51 4.30
4041 4379 5.837829 AGGTTAATTATCCTTTTGCCCTCA 58.162 37.500 9.00 0.00 0.00 3.86
4042 4380 5.893824 AGGTTAATTATCCTTTTGCCCTCAG 59.106 40.000 9.00 0.00 0.00 3.35
4043 4381 5.656859 GGTTAATTATCCTTTTGCCCTCAGT 59.343 40.000 5.46 0.00 0.00 3.41
4044 4382 6.405842 GGTTAATTATCCTTTTGCCCTCAGTG 60.406 42.308 5.46 0.00 0.00 3.66
4045 4383 2.806945 TATCCTTTTGCCCTCAGTGG 57.193 50.000 0.00 0.00 0.00 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.515106 CAATCTTTCCCTAACCACCCATAA 58.485 41.667 0.00 0.00 0.00 1.90
1 2 4.079443 CCAATCTTTCCCTAACCACCCATA 60.079 45.833 0.00 0.00 0.00 2.74
2 3 3.309848 CCAATCTTTCCCTAACCACCCAT 60.310 47.826 0.00 0.00 0.00 4.00
3 4 2.042433 CCAATCTTTCCCTAACCACCCA 59.958 50.000 0.00 0.00 0.00 4.51
4 5 2.042569 ACCAATCTTTCCCTAACCACCC 59.957 50.000 0.00 0.00 0.00 4.61
5 6 3.353557 GACCAATCTTTCCCTAACCACC 58.646 50.000 0.00 0.00 0.00 4.61
6 7 3.353557 GGACCAATCTTTCCCTAACCAC 58.646 50.000 0.00 0.00 0.00 4.16
7 8 3.732048 GGACCAATCTTTCCCTAACCA 57.268 47.619 0.00 0.00 0.00 3.67
214 220 4.161295 CAATCTCCTGCGGCGGGA 62.161 66.667 27.93 27.93 36.43 5.14
215 221 3.466791 ATCAATCTCCTGCGGCGGG 62.467 63.158 22.11 22.11 0.00 6.13
216 222 1.958205 GATCAATCTCCTGCGGCGG 60.958 63.158 9.78 0.65 0.00 6.13
217 223 2.305853 CGATCAATCTCCTGCGGCG 61.306 63.158 0.51 0.51 0.00 6.46
218 224 1.958205 CCGATCAATCTCCTGCGGC 60.958 63.158 0.00 0.00 31.80 6.53
219 225 0.598680 GACCGATCAATCTCCTGCGG 60.599 60.000 0.00 0.00 43.95 5.69
220 226 0.936764 CGACCGATCAATCTCCTGCG 60.937 60.000 0.00 0.00 0.00 5.18
221 227 0.385751 TCGACCGATCAATCTCCTGC 59.614 55.000 0.00 0.00 0.00 4.85
222 228 2.670479 CATCGACCGATCAATCTCCTG 58.330 52.381 1.46 0.00 31.62 3.86
434 444 2.327244 CCGTCCGCTCGTACTAGC 59.673 66.667 9.28 9.28 39.21 3.42
438 448 4.849329 CTGGCCGTCCGCTCGTAC 62.849 72.222 0.00 0.00 37.74 3.67
442 452 4.388499 TTTCCTGGCCGTCCGCTC 62.388 66.667 0.00 0.00 37.74 5.03
446 456 4.699522 AGCGTTTCCTGGCCGTCC 62.700 66.667 0.00 0.00 0.00 4.79
495 514 1.251527 CCTGGGACGCACTACTGACT 61.252 60.000 0.00 0.00 0.00 3.41
595 614 3.542676 TGCGGTCGAACCACACCT 61.543 61.111 0.00 0.00 38.47 4.00
596 615 3.343421 GTGCGGTCGAACCACACC 61.343 66.667 14.73 0.00 43.59 4.16
684 712 2.592861 CTAATGAGCCTGCCCCGC 60.593 66.667 0.00 0.00 0.00 6.13
689 717 1.167851 TTGCACACTAATGAGCCTGC 58.832 50.000 0.00 0.00 41.32 4.85
749 777 2.037687 TGGATACACGGACGGGGT 59.962 61.111 0.00 0.00 46.17 4.95
766 794 1.378124 GAGAGCGAGAAGGTAGCGGT 61.378 60.000 0.00 0.00 38.56 5.68
841 1026 2.549778 GCTCTTGGAGAACACTTGCTCT 60.550 50.000 0.00 0.00 0.00 4.09
904 1090 4.225942 GGTGGGATGCAATGGATAGATAGA 59.774 45.833 0.00 0.00 0.00 1.98
1062 1252 0.240145 GATGGATGGATGCATGCGTG 59.760 55.000 19.18 0.09 39.04 5.34
1063 1253 0.892358 GGATGGATGGATGCATGCGT 60.892 55.000 13.43 13.43 39.04 5.24
1064 1254 0.891904 TGGATGGATGGATGCATGCG 60.892 55.000 14.09 0.00 46.91 4.73
1065 1255 1.204704 CATGGATGGATGGATGCATGC 59.795 52.381 11.82 11.82 42.81 4.06
1149 1339 0.107654 GTAAGCAAGCCGGGATCAGT 60.108 55.000 2.18 0.00 0.00 3.41
1150 1340 0.107703 TGTAAGCAAGCCGGGATCAG 60.108 55.000 2.18 0.00 0.00 2.90
1167 1357 0.984230 ACCATGGATCCAACTCGTGT 59.016 50.000 20.67 6.92 0.00 4.49
1213 1407 1.876156 GAACAAGGCACACAAGGAGAG 59.124 52.381 0.00 0.00 0.00 3.20
1214 1408 1.211703 TGAACAAGGCACACAAGGAGA 59.788 47.619 0.00 0.00 0.00 3.71
1217 1411 2.624838 AGATTGAACAAGGCACACAAGG 59.375 45.455 0.00 0.00 0.00 3.61
1301 1495 3.939592 GTGTAACCACTTGATTAGAGGCC 59.060 47.826 0.00 0.00 38.09 5.19
1576 1771 5.163405 ACAGAGAGTGCAGTTAAGTTGAGAA 60.163 40.000 0.00 0.00 0.00 2.87
1577 1772 4.342378 ACAGAGAGTGCAGTTAAGTTGAGA 59.658 41.667 0.00 0.00 0.00 3.27
1603 1799 8.890718 GGGTTACAGTATATTTTTCTGAAGACC 58.109 37.037 0.00 0.00 33.93 3.85
1757 1995 4.201589 CGTTTCCGTCAGTCATGTATTCAC 60.202 45.833 0.00 0.00 0.00 3.18
1894 2133 4.562757 GCACCTACCTAACAGTGACATTCA 60.563 45.833 0.00 0.00 31.79 2.57
1936 2175 6.040878 ACTAACTAACAACCGAGATATGTGC 58.959 40.000 0.00 0.00 0.00 4.57
2052 2304 7.843490 TTTAAGGGATTCGTCAGAGTTAATG 57.157 36.000 0.00 0.00 0.00 1.90
2077 2329 7.962964 TCAGAGATTCGTCAGTGTTATTTTT 57.037 32.000 0.00 0.00 0.00 1.94
2078 2330 7.413438 GCATCAGAGATTCGTCAGTGTTATTTT 60.413 37.037 0.00 0.00 0.00 1.82
2079 2331 6.036517 GCATCAGAGATTCGTCAGTGTTATTT 59.963 38.462 0.00 0.00 0.00 1.40
2080 2332 5.521735 GCATCAGAGATTCGTCAGTGTTATT 59.478 40.000 0.00 0.00 0.00 1.40
2081 2333 5.046529 GCATCAGAGATTCGTCAGTGTTAT 58.953 41.667 0.00 0.00 0.00 1.89
2082 2334 4.424626 GCATCAGAGATTCGTCAGTGTTA 58.575 43.478 0.00 0.00 0.00 2.41
2083 2335 3.257393 GCATCAGAGATTCGTCAGTGTT 58.743 45.455 0.00 0.00 0.00 3.32
2084 2336 2.733542 CGCATCAGAGATTCGTCAGTGT 60.734 50.000 0.00 0.00 0.00 3.55
2085 2337 1.851053 CGCATCAGAGATTCGTCAGTG 59.149 52.381 0.00 0.00 0.00 3.66
2086 2338 1.474478 ACGCATCAGAGATTCGTCAGT 59.526 47.619 0.00 0.00 0.00 3.41
2087 2339 1.851053 CACGCATCAGAGATTCGTCAG 59.149 52.381 1.91 0.00 0.00 3.51
2088 2340 1.913317 CACGCATCAGAGATTCGTCA 58.087 50.000 1.91 0.00 0.00 4.35
2089 2341 0.574454 GCACGCATCAGAGATTCGTC 59.426 55.000 1.91 0.00 0.00 4.20
2090 2342 0.174389 AGCACGCATCAGAGATTCGT 59.826 50.000 0.00 0.00 0.00 3.85
2091 2343 1.284657 AAGCACGCATCAGAGATTCG 58.715 50.000 0.00 0.00 0.00 3.34
2092 2344 2.790468 GCAAAGCACGCATCAGAGATTC 60.790 50.000 0.00 0.00 0.00 2.52
2093 2345 1.131883 GCAAAGCACGCATCAGAGATT 59.868 47.619 0.00 0.00 0.00 2.40
2105 2357 4.389576 CGTCGGCCTGCAAAGCAC 62.390 66.667 10.30 0.68 33.79 4.40
2106 2358 4.927782 ACGTCGGCCTGCAAAGCA 62.928 61.111 10.30 0.00 36.92 3.91
2109 2361 0.947180 GTAGAACGTCGGCCTGCAAA 60.947 55.000 0.00 0.00 0.00 3.68
2116 2368 2.084681 CACACGGTAGAACGTCGGC 61.085 63.158 0.00 0.00 46.75 5.54
2521 2773 6.239858 CCCCTTCAATCCACAAACCTTAAAAT 60.240 38.462 0.00 0.00 0.00 1.82
2593 2847 0.033504 TGAACTCCACGCTCTTGGTC 59.966 55.000 0.00 0.00 37.93 4.02
2650 2904 1.138047 CGTACGCGAACCAGATGACC 61.138 60.000 15.93 0.00 41.33 4.02
2863 3117 3.237741 CTGATCCTCCCCTCGGCC 61.238 72.222 0.00 0.00 0.00 6.13
2864 3118 3.934962 GCTGATCCTCCCCTCGGC 61.935 72.222 0.00 0.00 36.68 5.54
2920 3174 3.858868 TTGCTCGTCGACAGCCACC 62.859 63.158 26.34 7.73 35.89 4.61
2959 3216 4.170062 TCGTCGCGGATCACGTCC 62.170 66.667 16.15 0.00 46.52 4.79
3005 3262 1.079819 CGTCAGGCTTGATGACCGT 60.080 57.895 12.50 0.00 43.36 4.83
3253 3510 1.137086 CCTGGTCTCCCTTCATACACG 59.863 57.143 0.00 0.00 0.00 4.49
3254 3511 2.432510 CTCCTGGTCTCCCTTCATACAC 59.567 54.545 0.00 0.00 0.00 2.90
3295 3556 3.407698 TCTCTCTCACTCACTCACTCAC 58.592 50.000 0.00 0.00 0.00 3.51
3296 3557 3.778954 TCTCTCTCACTCACTCACTCA 57.221 47.619 0.00 0.00 0.00 3.41
3297 3558 3.181497 GCATCTCTCTCACTCACTCACTC 60.181 52.174 0.00 0.00 0.00 3.51
3298 3559 2.754552 GCATCTCTCTCACTCACTCACT 59.245 50.000 0.00 0.00 0.00 3.41
3399 3660 2.282407 TGCATGGATCGACAATGACAG 58.718 47.619 7.74 0.00 0.00 3.51
3527 3801 5.539193 CCACCGTATCTTCCTCCTAACTATT 59.461 44.000 0.00 0.00 0.00 1.73
3546 3867 2.098280 TGACACACATTTTTCACCACCG 59.902 45.455 0.00 0.00 0.00 4.94
3752 4079 1.402968 GTAACTCCGCATAGGTCGTCA 59.597 52.381 0.00 0.00 41.99 4.35
3793 4120 5.048083 GGCTAAAAGGTGAATTGTGTGATGA 60.048 40.000 0.00 0.00 0.00 2.92
3801 4128 6.993079 ACCTAAAAGGCTAAAAGGTGAATTG 58.007 36.000 12.33 0.00 39.63 2.32
3840 4167 6.377429 ACCGAGAATAATAGTGTCTTGACAGA 59.623 38.462 3.45 0.00 0.00 3.41
3842 4169 6.525578 ACCGAGAATAATAGTGTCTTGACA 57.474 37.500 0.00 0.00 0.00 3.58
3843 4170 9.182933 GATTACCGAGAATAATAGTGTCTTGAC 57.817 37.037 0.00 0.00 0.00 3.18
3844 4171 8.074370 CGATTACCGAGAATAATAGTGTCTTGA 58.926 37.037 0.00 0.00 41.76 3.02
3845 4172 7.861372 ACGATTACCGAGAATAATAGTGTCTTG 59.139 37.037 0.00 0.00 41.76 3.02
3849 4176 6.040166 ACCACGATTACCGAGAATAATAGTGT 59.960 38.462 13.39 3.85 40.86 3.55
3850 4177 6.444633 ACCACGATTACCGAGAATAATAGTG 58.555 40.000 9.63 9.63 41.51 2.74
3851 4178 6.645790 ACCACGATTACCGAGAATAATAGT 57.354 37.500 0.00 0.00 41.76 2.12
3852 4179 7.814642 ACTACCACGATTACCGAGAATAATAG 58.185 38.462 0.00 0.00 41.76 1.73
3854 4181 6.489361 AGACTACCACGATTACCGAGAATAAT 59.511 38.462 0.00 0.00 41.76 1.28
3855 4182 5.824624 AGACTACCACGATTACCGAGAATAA 59.175 40.000 0.00 0.00 41.76 1.40
3861 4188 2.679837 GACAGACTACCACGATTACCGA 59.320 50.000 0.00 0.00 41.76 4.69
3864 4191 4.620184 GTGTTGACAGACTACCACGATTAC 59.380 45.833 0.00 0.00 0.00 1.89
3865 4192 4.278919 TGTGTTGACAGACTACCACGATTA 59.721 41.667 0.00 0.00 0.00 1.75
3866 4193 3.069016 TGTGTTGACAGACTACCACGATT 59.931 43.478 0.00 0.00 0.00 3.34
3868 4195 2.025898 TGTGTTGACAGACTACCACGA 58.974 47.619 0.00 0.00 0.00 4.35
3870 4197 3.454371 AGTGTGTTGACAGACTACCAC 57.546 47.619 11.69 2.77 46.83 4.16
3885 4223 6.362551 CCACGATTACCGAGAATAATAGTGTG 59.637 42.308 13.39 7.02 40.86 3.82
3970 4308 7.328835 GAGGTTATCTCTCGTCAAACACTGAC 61.329 46.154 0.00 0.00 43.49 3.51
4014 4352 8.854237 AGGGCAAAAGGATAATTAACCTAATT 57.146 30.769 14.16 9.96 41.06 1.40
4015 4353 8.065007 TGAGGGCAAAAGGATAATTAACCTAAT 58.935 33.333 14.16 4.74 35.25 1.73
4016 4354 7.415086 TGAGGGCAAAAGGATAATTAACCTAA 58.585 34.615 14.16 0.00 35.25 2.69
4017 4355 6.975949 TGAGGGCAAAAGGATAATTAACCTA 58.024 36.000 14.16 0.00 35.25 3.08
4018 4356 5.837829 TGAGGGCAAAAGGATAATTAACCT 58.162 37.500 8.43 8.43 38.23 3.50
4019 4357 5.656859 ACTGAGGGCAAAAGGATAATTAACC 59.343 40.000 3.60 3.60 0.00 2.85
4020 4358 6.405842 CCACTGAGGGCAAAAGGATAATTAAC 60.406 42.308 0.00 0.00 0.00 2.01
4021 4359 5.656416 CCACTGAGGGCAAAAGGATAATTAA 59.344 40.000 0.00 0.00 0.00 1.40
4022 4360 5.200483 CCACTGAGGGCAAAAGGATAATTA 58.800 41.667 0.00 0.00 0.00 1.40
4023 4361 4.026052 CCACTGAGGGCAAAAGGATAATT 58.974 43.478 0.00 0.00 0.00 1.40
4024 4362 3.635591 CCACTGAGGGCAAAAGGATAAT 58.364 45.455 0.00 0.00 0.00 1.28
4025 4363 3.085952 CCACTGAGGGCAAAAGGATAA 57.914 47.619 0.00 0.00 0.00 1.75
4026 4364 2.806945 CCACTGAGGGCAAAAGGATA 57.193 50.000 0.00 0.00 0.00 2.59
4027 4365 3.677963 CCACTGAGGGCAAAAGGAT 57.322 52.632 0.00 0.00 0.00 3.24


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

AutoCloner maintained by Alex Coulton.