Multiple sequence alignment - TraesCS5D01G167100

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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 TraesCS5D01G167100 chr5D 100.000 2528 0 0 1 2528 260493153 260495680 0.000000e+00 4669.0
1 TraesCS5D01G167100 chr5A 94.438 917 39 5 1620 2528 345241325 345242237 0.000000e+00 1400.0
2 TraesCS5D01G167100 chr5A 88.114 875 89 9 735 1595 345240333 345241206 0.000000e+00 1026.0
3 TraesCS5D01G167100 chr5A 87.915 331 34 3 398 725 345239941 345240268 3.940000e-103 385.0
4 TraesCS5D01G167100 chr5A 90.511 137 5 1 1 137 345235194 345235322 9.300000e-40 174.0
5 TraesCS5D01G167100 chr5A 88.889 144 11 2 150 288 345237998 345238141 3.340000e-39 172.0
6 TraesCS5D01G167100 chr5A 100.000 28 0 0 1655 1682 570724064 570724091 5.000000e-03 52.8
7 TraesCS5D01G167100 chr5B 92.159 931 44 7 1620 2528 293952096 293951173 0.000000e+00 1288.0
8 TraesCS5D01G167100 chr5B 89.043 575 50 3 735 1297 293960313 293959740 0.000000e+00 701.0
9 TraesCS5D01G167100 chr5B 92.833 293 19 2 1299 1590 293952511 293952220 8.360000e-115 424.0
10 TraesCS5D01G167100 chr5B 87.987 308 34 1 421 725 293960685 293960378 6.650000e-96 361.0
11 TraesCS5D01G167100 chr5B 90.647 139 6 4 1 137 293999024 293998891 7.190000e-41 178.0
12 TraesCS5D01G167100 chr5B 90.323 62 6 0 1620 1681 510733358 510733297 5.800000e-12 82.4
13 TraesCS5D01G167100 chr7B 88.656 811 79 8 735 1533 17355191 17356000 0.000000e+00 976.0
14 TraesCS5D01G167100 chr7B 88.429 821 76 10 735 1538 17213567 17214385 0.000000e+00 972.0
15 TraesCS5D01G167100 chr7B 91.379 348 25 3 383 725 17213155 17213502 2.940000e-129 472.0
16 TraesCS5D01G167100 chr7B 89.972 359 31 3 383 736 17354779 17355137 2.290000e-125 459.0
17 TraesCS5D01G167100 chr7B 89.643 280 20 4 1680 1950 17214383 17214662 5.180000e-92 348.0
18 TraesCS5D01G167100 chr7B 89.531 277 22 4 1681 1950 17356004 17356280 6.700000e-91 344.0
19 TraesCS5D01G167100 chr7A 80.345 290 46 5 457 736 149318046 149317758 2.550000e-50 209.0
20 TraesCS5D01G167100 chr1B 92.063 63 5 0 1620 1682 596258979 596258917 3.460000e-14 89.8
21 TraesCS5D01G167100 chr1B 90.476 63 6 0 1620 1682 192148099 192148161 1.610000e-12 84.2
22 TraesCS5D01G167100 chr1A 90.476 63 3 3 1620 1681 371157623 371157563 2.080000e-11 80.5


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 TraesCS5D01G167100 chr5D 260493153 260495680 2527 False 4669.000000 4669 100.000000 1 2528 1 chr5D.!!$F1 2527
1 TraesCS5D01G167100 chr5A 345235194 345242237 7043 False 631.400000 1400 89.973400 1 2528 5 chr5A.!!$F2 2527
2 TraesCS5D01G167100 chr5B 293951173 293952511 1338 True 856.000000 1288 92.496000 1299 2528 2 chr5B.!!$R3 1229
3 TraesCS5D01G167100 chr5B 293959740 293960685 945 True 531.000000 701 88.515000 421 1297 2 chr5B.!!$R4 876
4 TraesCS5D01G167100 chr7B 17213155 17214662 1507 False 597.333333 972 89.817000 383 1950 3 chr7B.!!$F1 1567
5 TraesCS5D01G167100 chr7B 17354779 17356280 1501 False 593.000000 976 89.386333 383 1950 3 chr7B.!!$F2 1567

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
364 4728 0.099968 CCGACTCGCCTCGTCAATAA 59.900 55.0 0.00 0.00 31.35 1.40 F
1209 5650 0.537188 ATCCTTGTAGAGGTGCACCG 59.463 55.0 29.68 13.66 46.39 4.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1406 5856 0.179067 TCGGTCCAAAGCGTTTGACT 60.179 50.0 14.5 0.0 46.21 3.41 R
2238 7044 2.031682 GCAACTACTCCAGCAAACACAG 60.032 50.0 0.0 0.0 0.00 3.66 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
45 46 9.319143 CATGGATTGGTTGTTTTGTTTAAGTTA 57.681 29.630 0.00 0.00 0.00 2.24
51 52 7.987649 TGGTTGTTTTGTTTAAGTTATCGTCT 58.012 30.769 0.00 0.00 0.00 4.18
84 85 7.479916 CACTGAATTTATCTTGCTTTCTCGTTC 59.520 37.037 0.00 0.00 0.00 3.95
91 92 0.934496 TGCTTTCTCGTTCGTGGTTG 59.066 50.000 0.00 0.00 0.00 3.77
92 93 0.935196 GCTTTCTCGTTCGTGGTTGT 59.065 50.000 0.00 0.00 0.00 3.32
93 94 1.329599 GCTTTCTCGTTCGTGGTTGTT 59.670 47.619 0.00 0.00 0.00 2.83
94 95 2.223180 GCTTTCTCGTTCGTGGTTGTTT 60.223 45.455 0.00 0.00 0.00 2.83
95 96 3.604392 CTTTCTCGTTCGTGGTTGTTTC 58.396 45.455 0.00 0.00 0.00 2.78
96 97 2.589798 TCTCGTTCGTGGTTGTTTCT 57.410 45.000 0.00 0.00 0.00 2.52
97 98 3.713858 TCTCGTTCGTGGTTGTTTCTA 57.286 42.857 0.00 0.00 0.00 2.10
98 99 4.247267 TCTCGTTCGTGGTTGTTTCTAT 57.753 40.909 0.00 0.00 0.00 1.98
130 131 4.022068 ACTGTTTGGTTTGTGCCTATGATG 60.022 41.667 0.00 0.00 0.00 3.07
133 134 4.517952 TTGGTTTGTGCCTATGATGTTG 57.482 40.909 0.00 0.00 0.00 3.33
137 138 4.941263 GGTTTGTGCCTATGATGTTGTCTA 59.059 41.667 0.00 0.00 0.00 2.59
140 141 5.876651 TGTGCCTATGATGTTGTCTATCT 57.123 39.130 0.00 0.00 0.00 1.98
143 144 3.923461 GCCTATGATGTTGTCTATCTCGC 59.077 47.826 0.00 0.00 0.00 5.03
144 145 4.321601 GCCTATGATGTTGTCTATCTCGCT 60.322 45.833 0.00 0.00 0.00 4.93
145 146 5.106118 GCCTATGATGTTGTCTATCTCGCTA 60.106 44.000 0.00 0.00 0.00 4.26
146 147 6.550843 CCTATGATGTTGTCTATCTCGCTAG 58.449 44.000 0.00 0.00 0.00 3.42
147 148 4.230314 TGATGTTGTCTATCTCGCTAGC 57.770 45.455 4.06 4.06 0.00 3.42
148 149 3.632145 TGATGTTGTCTATCTCGCTAGCA 59.368 43.478 16.45 0.92 0.00 3.49
150 151 4.450082 TGTTGTCTATCTCGCTAGCAAA 57.550 40.909 16.45 0.58 0.00 3.68
151 152 4.424626 TGTTGTCTATCTCGCTAGCAAAG 58.575 43.478 16.45 11.51 0.00 2.77
163 2828 3.061429 CGCTAGCAAAGAAGCAACTCTAC 59.939 47.826 16.45 0.00 38.70 2.59
170 2835 0.175989 GAAGCAACTCTACCCGAGGG 59.824 60.000 6.63 6.63 44.33 4.30
180 2845 4.335647 CCCGAGGGTTGCTGCAGT 62.336 66.667 16.64 0.00 0.00 4.40
199 2868 5.521010 TGCAGTACAAAACGTATATGTAGGC 59.479 40.000 16.56 16.56 34.31 3.93
210 2879 7.572523 ACGTATATGTAGGCCGCTAAATATA 57.427 36.000 0.00 0.00 0.00 0.86
230 2899 2.479566 TTTAGAGGCTGAGGCAACAG 57.520 50.000 9.23 7.23 40.87 3.16
256 2925 8.882736 GGCAAATTTAGTGAAAATTCCTTATGG 58.117 33.333 0.00 0.00 45.12 2.74
320 4658 4.600062 TGTTCTGGCTAGTATCTCTCACA 58.400 43.478 0.00 0.00 0.00 3.58
330 4668 8.983724 GGCTAGTATCTCTCACAAAATCAATAC 58.016 37.037 0.00 0.00 0.00 1.89
331 4669 8.695284 GCTAGTATCTCTCACAAAATCAATACG 58.305 37.037 0.00 0.00 0.00 3.06
332 4670 9.737427 CTAGTATCTCTCACAAAATCAATACGT 57.263 33.333 0.00 0.00 0.00 3.57
361 4725 4.415332 GCCGACTCGCCTCGTCAA 62.415 66.667 0.00 0.00 31.35 3.18
362 4726 2.490217 CCGACTCGCCTCGTCAAT 59.510 61.111 0.00 0.00 31.35 2.57
364 4728 0.099968 CCGACTCGCCTCGTCAATAA 59.900 55.000 0.00 0.00 31.35 1.40
365 4729 1.468565 CCGACTCGCCTCGTCAATAAA 60.469 52.381 0.00 0.00 31.35 1.40
366 4730 2.460918 CGACTCGCCTCGTCAATAAAT 58.539 47.619 0.00 0.00 0.00 1.40
368 4732 4.039703 CGACTCGCCTCGTCAATAAATAA 58.960 43.478 0.00 0.00 0.00 1.40
370 4734 5.331607 CGACTCGCCTCGTCAATAAATAAAG 60.332 44.000 0.00 0.00 0.00 1.85
371 4735 5.657474 ACTCGCCTCGTCAATAAATAAAGA 58.343 37.500 0.00 0.00 0.00 2.52
372 4736 5.519206 ACTCGCCTCGTCAATAAATAAAGAC 59.481 40.000 0.00 0.00 0.00 3.01
373 4737 4.807304 TCGCCTCGTCAATAAATAAAGACC 59.193 41.667 0.00 0.00 0.00 3.85
375 4739 5.501897 CGCCTCGTCAATAAATAAAGACCAC 60.502 44.000 0.00 0.00 0.00 4.16
376 4740 5.501897 GCCTCGTCAATAAATAAAGACCACG 60.502 44.000 0.00 0.00 0.00 4.94
377 4741 5.579511 CCTCGTCAATAAATAAAGACCACGT 59.420 40.000 0.00 0.00 0.00 4.49
378 4742 6.091713 CCTCGTCAATAAATAAAGACCACGTT 59.908 38.462 0.00 0.00 0.00 3.99
379 4743 7.360607 CCTCGTCAATAAATAAAGACCACGTTT 60.361 37.037 0.00 0.00 0.00 3.60
380 4744 7.292292 TCGTCAATAAATAAAGACCACGTTTG 58.708 34.615 0.00 0.00 0.00 2.93
399 4763 1.201647 TGAGACGCTTTAGAGGAACGG 59.798 52.381 0.00 0.00 0.00 4.44
406 4770 2.290134 GCTTTAGAGGAACGGAAACCCT 60.290 50.000 0.00 0.00 0.00 4.34
419 4783 1.755393 AAACCCTGACTCGCTCGGTT 61.755 55.000 0.00 0.00 0.00 4.44
438 4804 1.106351 TGTCGGTTGTTGCAATGGCT 61.106 50.000 0.59 0.00 41.91 4.75
505 4871 5.939457 CGGAGCTTATACATGAAGTATCGA 58.061 41.667 0.00 0.00 42.38 3.59
516 4882 1.918609 GAAGTATCGAACCGTCTGCAC 59.081 52.381 0.00 0.00 0.00 4.57
650 5016 1.374252 CTGTCAGCGCCGTTAACCT 60.374 57.895 2.29 0.00 0.00 3.50
656 5022 0.669625 AGCGCCGTTAACCTTGTCTC 60.670 55.000 2.29 0.00 0.00 3.36
657 5023 0.669625 GCGCCGTTAACCTTGTCTCT 60.670 55.000 0.00 0.00 0.00 3.10
658 5024 1.403249 GCGCCGTTAACCTTGTCTCTA 60.403 52.381 0.00 0.00 0.00 2.43
764 5188 3.803162 GAGCCCCTCTCCCAAGCC 61.803 72.222 0.00 0.00 35.77 4.35
770 5194 1.745264 CCTCTCCCAAGCCGAGATC 59.255 63.158 0.00 0.00 35.85 2.75
786 5213 2.543067 GATCCCTCTGCCGCCTTTGT 62.543 60.000 0.00 0.00 0.00 2.83
789 5216 2.037136 CCTCTGCCGCCTTTGTCAG 61.037 63.158 0.00 0.00 0.00 3.51
813 5240 0.830648 CGCCCAACTATTCCTCTCCA 59.169 55.000 0.00 0.00 0.00 3.86
822 5249 2.856039 ATTCCTCTCCAGCGACCCGA 62.856 60.000 0.00 0.00 0.00 5.14
825 5252 2.044352 TCTCCAGCGACCCGATCA 60.044 61.111 0.00 0.00 0.00 2.92
933 5360 2.185867 GCGGCCTGGACGATACAA 59.814 61.111 29.22 0.00 35.20 2.41
1029 5459 4.455606 TGAGACTCAGCATCTTCGATCTA 58.544 43.478 0.00 0.00 0.00 1.98
1083 5513 1.388065 CCCTCTACACTCCTCTGCGG 61.388 65.000 0.00 0.00 0.00 5.69
1133 5574 2.903855 GGATCCTGGTGGCATGCG 60.904 66.667 12.44 0.00 0.00 4.73
1181 5622 3.948719 GTGGACAAGGACGCCCCA 61.949 66.667 0.00 0.00 37.41 4.96
1209 5650 0.537188 ATCCTTGTAGAGGTGCACCG 59.463 55.000 29.68 13.66 46.39 4.94
1242 5690 2.264480 CGACCGCCTCAACATCCA 59.736 61.111 0.00 0.00 0.00 3.41
1271 5721 2.024871 GACGGATCTCGGCGACTG 59.975 66.667 4.99 4.11 44.45 3.51
1347 5797 5.192927 CCTGCCATTAGGAGAAATTGTGTA 58.807 41.667 0.00 0.00 40.42 2.90
1406 5856 6.678568 ATGGGTTATTGTGTTTGATTTGGA 57.321 33.333 0.00 0.00 0.00 3.53
1422 5872 1.305201 TGGAGTCAAACGCTTTGGAC 58.695 50.000 2.22 2.22 40.98 4.02
1507 5957 0.984995 GTGGTTCTGCCCTAGAAGGT 59.015 55.000 0.00 0.00 45.71 3.50
1515 5965 0.460722 GCCCTAGAAGGTCCTTCGTC 59.539 60.000 23.17 9.97 44.34 4.20
1537 5987 6.016192 CGTCGAGGCCCTATGATGTATAATAT 60.016 42.308 0.00 0.00 0.00 1.28
1542 5992 6.332901 AGGCCCTATGATGTATAATATTCCCC 59.667 42.308 0.00 0.00 0.00 4.81
1587 6038 9.095065 GCCTATACTTTTCGAGATTCAACTTTA 57.905 33.333 0.00 0.00 0.00 1.85
1648 6193 7.551585 TGGTCAAAGTTAAATCTTCAAAAGCA 58.448 30.769 0.00 0.00 0.00 3.91
1652 6197 8.420222 TCAAAGTTAAATCTTCAAAAGCATGGA 58.580 29.630 0.00 0.00 0.00 3.41
1671 6216 6.073276 GCATGGACGCACTACATTATGAAATA 60.073 38.462 0.00 0.00 0.00 1.40
1677 6222 6.041637 ACGCACTACATTATGAAATAGAGGGA 59.958 38.462 0.00 0.00 0.00 4.20
1756 6547 5.781210 TTTTGTGGTCATTAACATGCTCA 57.219 34.783 0.00 0.00 0.00 4.26
1953 6759 5.538067 TGATTCGCTATATCTCTCTCACG 57.462 43.478 0.00 0.00 0.00 4.35
2102 6908 4.574674 TCTGGAACAATTCTGGTAGCAT 57.425 40.909 0.00 0.00 38.70 3.79
2238 7044 4.864704 TTTAATCCTGGAGCCAAAACAC 57.135 40.909 1.52 0.00 0.00 3.32
2289 7095 5.895636 TCAAAACCACATGACATATGGTC 57.104 39.130 18.58 3.26 46.18 4.02
2393 7199 6.481644 GCTTTCCTTCCAATATGTACTGAGAG 59.518 42.308 0.00 0.00 0.00 3.20
2394 7200 7.633772 GCTTTCCTTCCAATATGTACTGAGAGA 60.634 40.741 0.00 0.00 0.00 3.10
2473 7279 2.775911 TCCAATCAGTTGAGCCTCAG 57.224 50.000 0.00 0.00 37.53 3.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
45 46 2.820059 TTCAGTGACAAGCAGACGAT 57.180 45.000 0.00 0.00 0.00 3.73
51 52 5.474532 AGCAAGATAAATTCAGTGACAAGCA 59.525 36.000 0.00 0.00 0.00 3.91
84 85 3.614616 GCTCAGAGATAGAAACAACCACG 59.385 47.826 0.00 0.00 0.00 4.94
91 92 5.121454 CCAAACAGTGCTCAGAGATAGAAAC 59.879 44.000 0.00 0.00 0.00 2.78
92 93 5.221722 ACCAAACAGTGCTCAGAGATAGAAA 60.222 40.000 0.00 0.00 0.00 2.52
93 94 4.284490 ACCAAACAGTGCTCAGAGATAGAA 59.716 41.667 0.00 0.00 0.00 2.10
94 95 3.834813 ACCAAACAGTGCTCAGAGATAGA 59.165 43.478 0.00 0.00 0.00 1.98
95 96 4.199432 ACCAAACAGTGCTCAGAGATAG 57.801 45.455 0.00 0.00 0.00 2.08
96 97 4.623932 AACCAAACAGTGCTCAGAGATA 57.376 40.909 0.00 0.00 0.00 1.98
97 98 3.498774 AACCAAACAGTGCTCAGAGAT 57.501 42.857 0.00 0.00 0.00 2.75
98 99 2.945008 CAAACCAAACAGTGCTCAGAGA 59.055 45.455 0.00 0.00 0.00 3.10
130 131 4.673441 TCTTTGCTAGCGAGATAGACAAC 58.327 43.478 14.57 0.00 0.00 3.32
133 134 3.733727 GCTTCTTTGCTAGCGAGATAGAC 59.266 47.826 18.02 11.60 0.00 2.59
137 138 2.675348 GTTGCTTCTTTGCTAGCGAGAT 59.325 45.455 18.02 0.00 40.26 2.75
140 141 2.069273 GAGTTGCTTCTTTGCTAGCGA 58.931 47.619 10.77 5.12 40.26 4.93
143 144 3.935828 GGGTAGAGTTGCTTCTTTGCTAG 59.064 47.826 0.00 0.00 0.00 3.42
144 145 3.616560 CGGGTAGAGTTGCTTCTTTGCTA 60.617 47.826 0.00 0.00 0.00 3.49
145 146 2.784347 GGGTAGAGTTGCTTCTTTGCT 58.216 47.619 0.00 0.00 0.00 3.91
146 147 1.464997 CGGGTAGAGTTGCTTCTTTGC 59.535 52.381 0.00 0.00 0.00 3.68
147 148 2.996621 CTCGGGTAGAGTTGCTTCTTTG 59.003 50.000 0.00 0.00 41.99 2.77
148 149 2.028020 CCTCGGGTAGAGTTGCTTCTTT 60.028 50.000 0.00 0.00 45.44 2.52
150 151 1.187087 CCTCGGGTAGAGTTGCTTCT 58.813 55.000 0.00 0.00 45.44 2.85
151 152 0.175989 CCCTCGGGTAGAGTTGCTTC 59.824 60.000 0.00 0.00 45.44 3.86
163 2828 2.954684 TACTGCAGCAACCCTCGGG 61.955 63.158 15.27 0.00 42.03 5.14
170 2835 2.468532 ACGTTTTGTACTGCAGCAAC 57.531 45.000 15.27 13.23 0.00 4.17
171 2836 5.410132 ACATATACGTTTTGTACTGCAGCAA 59.590 36.000 15.27 8.23 35.44 3.91
172 2837 4.932799 ACATATACGTTTTGTACTGCAGCA 59.067 37.500 15.27 0.00 35.44 4.41
173 2838 5.464965 ACATATACGTTTTGTACTGCAGC 57.535 39.130 15.27 0.00 35.44 5.25
174 2839 6.292168 GCCTACATATACGTTTTGTACTGCAG 60.292 42.308 13.48 13.48 35.44 4.41
176 2841 5.050567 GGCCTACATATACGTTTTGTACTGC 60.051 44.000 0.00 3.85 35.44 4.40
177 2842 5.174398 CGGCCTACATATACGTTTTGTACTG 59.826 44.000 0.00 0.00 35.44 2.74
179 2844 4.084900 GCGGCCTACATATACGTTTTGTAC 60.085 45.833 0.00 0.00 35.44 2.90
180 2845 4.050553 GCGGCCTACATATACGTTTTGTA 58.949 43.478 0.00 0.00 37.49 2.41
210 2879 2.356535 CCTGTTGCCTCAGCCTCTAAAT 60.357 50.000 0.48 0.00 38.69 1.40
217 2886 1.538687 ATTTGCCTGTTGCCTCAGCC 61.539 55.000 0.48 0.00 40.16 4.85
230 2899 8.882736 CCATAAGGAATTTTCACTAAATTTGCC 58.117 33.333 0.00 0.00 44.46 4.52
256 2925 4.403734 TCAATAAAGAACTTGGTCCCACC 58.596 43.478 0.00 0.00 39.22 4.61
305 4643 8.695284 CGTATTGATTTTGTGAGAGATACTAGC 58.305 37.037 0.00 0.00 0.00 3.42
320 4658 5.687166 TCCCTCCACTACGTATTGATTTT 57.313 39.130 13.97 0.00 0.00 1.82
330 4668 2.050350 TCGGCTTCCCTCCACTACG 61.050 63.158 0.00 0.00 0.00 3.51
331 4669 0.971447 AGTCGGCTTCCCTCCACTAC 60.971 60.000 0.00 0.00 0.00 2.73
332 4670 0.683504 GAGTCGGCTTCCCTCCACTA 60.684 60.000 0.00 0.00 0.00 2.74
333 4671 1.985116 GAGTCGGCTTCCCTCCACT 60.985 63.158 0.00 0.00 0.00 4.00
361 4725 7.057149 CGTCTCAAACGTGGTCTTTATTTAT 57.943 36.000 0.00 0.00 46.42 1.40
362 4726 6.456447 CGTCTCAAACGTGGTCTTTATTTA 57.544 37.500 0.00 0.00 46.42 1.40
364 4728 4.985044 CGTCTCAAACGTGGTCTTTATT 57.015 40.909 0.00 0.00 46.42 1.40
376 4740 3.121445 CGTTCCTCTAAAGCGTCTCAAAC 59.879 47.826 0.00 0.00 0.00 2.93
377 4741 3.314553 CGTTCCTCTAAAGCGTCTCAAA 58.685 45.455 0.00 0.00 0.00 2.69
378 4742 2.352421 CCGTTCCTCTAAAGCGTCTCAA 60.352 50.000 0.00 0.00 0.00 3.02
379 4743 1.201647 CCGTTCCTCTAAAGCGTCTCA 59.798 52.381 0.00 0.00 0.00 3.27
380 4744 1.471684 TCCGTTCCTCTAAAGCGTCTC 59.528 52.381 0.00 0.00 0.00 3.36
399 4763 1.446272 CCGAGCGAGTCAGGGTTTC 60.446 63.158 0.00 0.00 0.00 2.78
406 4770 2.254350 CGACAACCGAGCGAGTCA 59.746 61.111 0.00 0.00 41.76 3.41
419 4783 1.106351 AGCCATTGCAACAACCGACA 61.106 50.000 0.00 0.00 41.13 4.35
492 4858 3.770666 CAGACGGTTCGATACTTCATGT 58.229 45.455 0.00 0.00 0.00 3.21
495 4861 1.542472 TGCAGACGGTTCGATACTTCA 59.458 47.619 0.00 0.00 0.00 3.02
516 4882 1.143969 GGATTTGGTCTACGTCGGCG 61.144 60.000 8.42 8.42 44.93 6.46
636 5002 0.949105 AGACAAGGTTAACGGCGCTG 60.949 55.000 16.39 16.39 0.00 5.18
650 5016 2.972713 AGCAAGGAGTGGTTAGAGACAA 59.027 45.455 0.00 0.00 32.77 3.18
656 5022 0.678048 GGGCAGCAAGGAGTGGTTAG 60.678 60.000 0.00 0.00 35.13 2.34
657 5023 1.378762 GGGCAGCAAGGAGTGGTTA 59.621 57.895 0.00 0.00 35.13 2.85
658 5024 2.116125 GGGCAGCAAGGAGTGGTT 59.884 61.111 0.00 0.00 35.13 3.67
728 5097 1.524165 CCAGAGGATCAGCAGCAGC 60.524 63.158 0.00 0.00 37.82 5.25
736 5105 2.040464 GGGGCTCCCAGAGGATCA 60.040 66.667 7.34 0.00 44.65 2.92
764 5188 4.292178 GGCGGCAGAGGGATCTCG 62.292 72.222 3.07 0.00 44.47 4.04
770 5194 2.747855 GACAAAGGCGGCAGAGGG 60.748 66.667 13.08 0.00 0.00 4.30
786 5213 1.895020 AATAGTTGGGCGACGGCTGA 61.895 55.000 21.48 7.25 39.81 4.26
789 5216 2.178235 GGAATAGTTGGGCGACGGC 61.178 63.158 13.84 13.84 38.90 5.68
933 5360 1.837499 GCCTATAGGGTGCTCGGGT 60.837 63.158 20.58 0.00 37.43 5.28
1029 5459 1.302285 CTTGGGAGGATGCTGCTGT 59.698 57.895 5.58 0.00 0.00 4.40
1083 5513 2.960129 CGGCTTGGATACCGCGTC 60.960 66.667 4.92 0.00 43.44 5.19
1181 5622 2.028130 CTCTACAAGGATCACGAGGCT 58.972 52.381 0.00 0.00 0.00 4.58
1235 5683 0.995024 CACCTTCTCCCCTGGATGTT 59.005 55.000 0.00 0.00 0.00 2.71
1242 5690 0.688087 GATCCGTCACCTTCTCCCCT 60.688 60.000 0.00 0.00 0.00 4.79
1271 5721 2.821810 GGCCCAAGAAGAGCGAGC 60.822 66.667 0.00 0.00 0.00 5.03
1314 5764 2.422093 CCTAATGGCAGGGAAGTCCTTC 60.422 54.545 0.00 0.00 45.47 3.46
1347 5797 5.431420 TTGTGTCGTGCTTCACAAAATAT 57.569 34.783 8.02 0.00 46.72 1.28
1357 5807 1.378531 TGCTTTCTTGTGTCGTGCTT 58.621 45.000 0.00 0.00 0.00 3.91
1406 5856 0.179067 TCGGTCCAAAGCGTTTGACT 60.179 50.000 14.50 0.00 46.21 3.41
1422 5872 1.003118 TCTTGTGGGTGAGGAATTCGG 59.997 52.381 0.00 0.00 0.00 4.30
1507 5957 1.107538 CATAGGGCCTCGACGAAGGA 61.108 60.000 10.74 0.00 38.87 3.36
1515 5965 7.155328 GGAATATTATACATCATAGGGCCTCG 58.845 42.308 10.74 2.09 0.00 4.63
1542 5992 2.548067 GGCGACTACAGTATGGAATGGG 60.548 54.545 0.00 0.00 43.62 4.00
1621 6085 9.691362 GCTTTTGAAGATTTAACTTTGACCATA 57.309 29.630 0.00 0.00 0.00 2.74
1622 6086 8.203485 TGCTTTTGAAGATTTAACTTTGACCAT 58.797 29.630 0.00 0.00 0.00 3.55
1623 6087 7.551585 TGCTTTTGAAGATTTAACTTTGACCA 58.448 30.769 0.00 0.00 0.00 4.02
1624 6088 8.490355 CATGCTTTTGAAGATTTAACTTTGACC 58.510 33.333 0.00 0.00 0.00 4.02
1625 6089 8.490355 CCATGCTTTTGAAGATTTAACTTTGAC 58.510 33.333 0.00 0.00 0.00 3.18
1640 6185 1.804151 GTAGTGCGTCCATGCTTTTGA 59.196 47.619 0.00 0.00 35.36 2.69
1648 6193 7.441836 TCTATTTCATAATGTAGTGCGTCCAT 58.558 34.615 0.00 0.00 0.00 3.41
1652 6197 6.041637 TCCCTCTATTTCATAATGTAGTGCGT 59.958 38.462 0.00 0.00 0.00 5.24
1671 6216 8.560124 AAATAGTTGAATGAGATACTCCCTCT 57.440 34.615 0.00 0.00 0.00 3.69
1756 6547 6.296145 CCTCCTTCTTTACTTCCAGATCAACT 60.296 42.308 0.00 0.00 0.00 3.16
1810 6602 8.286800 CGACAACACCTCTTATTTTGTGATTTA 58.713 33.333 0.00 0.00 30.60 1.40
1816 6608 4.514066 GGTCGACAACACCTCTTATTTTGT 59.486 41.667 18.91 0.00 33.12 2.83
1953 6759 5.900425 TGTGAGAGATAGCATTCAGAACTC 58.100 41.667 0.00 0.00 0.00 3.01
2238 7044 2.031682 GCAACTACTCCAGCAAACACAG 60.032 50.000 0.00 0.00 0.00 3.66
2289 7095 6.816640 TGAGATAGTTTATTCCAAACCTCACG 59.183 38.462 0.00 0.00 0.00 4.35
2473 7279 4.083855 TCAGAACTGAATGACAAACATCGC 60.084 41.667 1.79 0.00 38.38 4.58


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

AutoCloner maintained by Alex Coulton.