Multiple sequence alignment - TraesCS7D01G164200

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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 TraesCS7D01G164200 chr7D 100.000 3805 0 0 1 3805 113449164 113445360 0.000000e+00 7027
1 TraesCS7D01G164200 chr7B 92.481 3458 195 25 6 3433 73137735 73134313 0.000000e+00 4885
2 TraesCS7D01G164200 chr7B 90.083 363 13 11 3464 3805 73134313 73133953 2.080000e-122 449
3 TraesCS7D01G164200 chr7A 91.899 2148 117 29 1299 3417 118464060 118461941 0.000000e+00 2950
4 TraesCS7D01G164200 chr7A 88.671 971 59 18 341 1261 118465034 118464065 0.000000e+00 1136
5 TraesCS7D01G164200 chr7A 86.264 364 18 13 3464 3805 118461936 118461583 2.160000e-97 366
6 TraesCS7D01G164200 chr1B 88.825 2085 178 21 473 2541 192276692 192274647 0.000000e+00 2508
7 TraesCS7D01G164200 chr1B 86.534 453 41 11 2535 2971 192274586 192274138 7.390000e-132 481
8 TraesCS7D01G164200 chr1B 92.793 111 6 2 364 474 192276831 192276723 3.930000e-35 159
9 TraesCS7D01G164200 chr1A 88.659 2081 173 28 470 2532 146944245 146946280 0.000000e+00 2477
10 TraesCS7D01G164200 chr1A 85.498 462 47 13 2526 2971 146946341 146946798 7.440000e-127 464
11 TraesCS7D01G164200 chr1A 92.623 122 8 1 353 474 146944097 146944217 1.410000e-39 174
12 TraesCS7D01G164200 chr1D 89.729 1217 108 11 1331 2541 143258445 143257240 0.000000e+00 1539
13 TraesCS7D01G164200 chr1D 87.056 873 75 10 473 1335 143263872 143263028 0.000000e+00 952
14 TraesCS7D01G164200 chr1D 92.230 296 21 2 2535 2830 143257179 143256886 5.880000e-113 418
15 TraesCS7D01G164200 chr6A 86.270 874 82 21 473 1339 588864228 588863386 0.000000e+00 915


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 TraesCS7D01G164200 chr7D 113445360 113449164 3804 True 7027.000000 7027 100.000000 1 3805 1 chr7D.!!$R1 3804
1 TraesCS7D01G164200 chr7B 73133953 73137735 3782 True 2667.000000 4885 91.282000 6 3805 2 chr7B.!!$R1 3799
2 TraesCS7D01G164200 chr7A 118461583 118465034 3451 True 1484.000000 2950 88.944667 341 3805 3 chr7A.!!$R1 3464
3 TraesCS7D01G164200 chr1B 192274138 192276831 2693 True 1049.333333 2508 89.384000 364 2971 3 chr1B.!!$R1 2607
4 TraesCS7D01G164200 chr1A 146944097 146946798 2701 False 1038.333333 2477 88.926667 353 2971 3 chr1A.!!$F1 2618
5 TraesCS7D01G164200 chr1D 143256886 143258445 1559 True 978.500000 1539 90.979500 1331 2830 2 chr1D.!!$R2 1499
6 TraesCS7D01G164200 chr1D 143263028 143263872 844 True 952.000000 952 87.056000 473 1335 1 chr1D.!!$R1 862
7 TraesCS7D01G164200 chr6A 588863386 588864228 842 True 915.000000 915 86.270000 473 1339 1 chr6A.!!$R1 866

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
296 299 0.331278 TAGGGTCCGGACGTTTAGGA 59.669 55.0 27.68 6.21 0.00 2.94 F
560 627 1.098050 CATAACTTCCACCAGCCAGC 58.902 55.0 0.00 0.00 0.00 4.85 F
2087 2208 0.172578 TAAGGATGTCACGCCTGTCG 59.827 55.0 0.00 0.00 45.38 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1148 1245 0.036388 ATCGCCGTAAGCCCCATATG 60.036 55.0 0.0 0.0 38.78 1.78 R
2288 2409 0.177604 TGTTTGCAACTTGGGCTTGG 59.822 50.0 0.0 0.0 0.00 3.61 R
3403 3628 0.263172 TCCCCTTGTTTTCTGCCCAA 59.737 50.0 0.0 0.0 0.00 4.12 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
37 40 3.430042 AGCATGCCCGATGAGAATATT 57.570 42.857 15.66 0.00 33.31 1.28
75 78 3.194861 GCAACTAACGGCATATCAGTGA 58.805 45.455 0.00 0.00 0.00 3.41
81 84 1.956170 GGCATATCAGTGACGGGCG 60.956 63.158 0.00 0.00 0.00 6.13
130 133 3.560068 CACCCGCCACTGATAATTAGTTC 59.440 47.826 0.00 0.00 0.00 3.01
132 135 3.809832 CCCGCCACTGATAATTAGTTCTG 59.190 47.826 0.00 0.00 0.00 3.02
134 137 3.060272 CGCCACTGATAATTAGTTCTGCG 60.060 47.826 0.00 0.00 34.25 5.18
139 142 6.273825 CACTGATAATTAGTTCTGCGGTAGT 58.726 40.000 0.00 0.00 0.00 2.73
142 145 3.975168 AATTAGTTCTGCGGTAGTGGT 57.025 42.857 0.00 0.00 0.00 4.16
153 156 2.766651 TAGTGGTCGGGATGGGCC 60.767 66.667 0.00 0.00 0.00 5.80
154 157 3.326385 TAGTGGTCGGGATGGGCCT 62.326 63.158 4.53 0.00 36.66 5.19
155 158 1.951923 TAGTGGTCGGGATGGGCCTA 61.952 60.000 4.53 0.00 36.66 3.93
163 166 1.705997 GGGATGGGCCTATCCAACGT 61.706 60.000 39.73 8.88 46.89 3.99
165 168 0.468226 GATGGGCCTATCCAACGTGA 59.532 55.000 18.05 0.00 40.62 4.35
192 195 1.906824 TCCGGGCCGTCTCATATCC 60.907 63.158 26.32 0.00 0.00 2.59
203 206 4.082733 CCGTCTCATATCCGTCACACATAT 60.083 45.833 0.00 0.00 0.00 1.78
207 210 3.901222 TCATATCCGTCACACATATGGGT 59.099 43.478 4.28 4.28 33.15 4.51
215 218 5.408299 CCGTCACACATATGGGTTGTATATG 59.592 44.000 8.20 0.00 41.85 1.78
222 225 6.430925 CACATATGGGTTGTATATGAAGGGTG 59.569 42.308 7.80 0.00 39.67 4.61
230 233 3.770388 TGTATATGAAGGGTGTCGGACAA 59.230 43.478 13.23 0.00 0.00 3.18
231 234 4.407621 TGTATATGAAGGGTGTCGGACAAT 59.592 41.667 13.23 4.24 0.00 2.71
273 276 1.152922 GGGGTTCGGTTTGGTGACA 60.153 57.895 0.00 0.00 39.83 3.58
286 289 1.003812 TGGTGACATTTTAGGGTCCGG 59.996 52.381 0.00 0.00 33.40 5.14
288 291 2.353323 GTGACATTTTAGGGTCCGGAC 58.647 52.381 27.04 27.04 33.09 4.79
296 299 0.331278 TAGGGTCCGGACGTTTAGGA 59.669 55.000 27.68 6.21 0.00 2.94
372 375 3.488721 GCAAGAAGATAACGACCTCGCTA 60.489 47.826 0.00 0.00 44.43 4.26
481 548 5.204409 TGAAAGCTCTGTTCAAATGCAAT 57.796 34.783 0.00 0.00 32.13 3.56
482 549 5.224888 TGAAAGCTCTGTTCAAATGCAATC 58.775 37.500 0.00 0.00 32.13 2.67
560 627 1.098050 CATAACTTCCACCAGCCAGC 58.902 55.000 0.00 0.00 0.00 4.85
613 689 1.347707 TGCAAGGTTAGTGGGTCTGAG 59.652 52.381 0.00 0.00 0.00 3.35
713 789 6.889177 TGTCCATAATTTTTGCTGTCAGGATA 59.111 34.615 1.14 0.00 0.00 2.59
778 865 2.610374 GCAATGGCAGGCATAATGTTTG 59.390 45.455 10.42 5.65 40.72 2.93
806 893 2.620251 TTATCTTGACTCCCATGCCG 57.380 50.000 0.00 0.00 0.00 5.69
829 916 2.076863 AGAATCTTCGGTTTGCTTCGG 58.923 47.619 0.00 0.00 0.00 4.30
946 1034 5.614324 TCCTCACGATGGAATACTTGATT 57.386 39.130 0.00 0.00 0.00 2.57
1052 1149 3.768406 TGTCATTGTTCTTGTGTTGTGC 58.232 40.909 0.00 0.00 0.00 4.57
1116 1213 3.139565 GACCATAGAGGCCGGTCC 58.860 66.667 14.14 4.26 42.87 4.46
1125 1222 3.834799 GGCCGGTCCCTACAGTCG 61.835 72.222 1.90 0.00 0.00 4.18
1126 1223 3.834799 GCCGGTCCCTACAGTCGG 61.835 72.222 1.90 0.00 43.13 4.79
1148 1245 3.969117 TCATGTTTTCAGTGTGCTCAC 57.031 42.857 10.92 10.92 44.15 3.51
1170 1267 4.929707 GGGGCTTACGGCGATGGG 62.930 72.222 16.62 1.43 42.94 4.00
1276 1379 2.295349 TCGATACGGAAGGCTTACCATC 59.705 50.000 3.32 6.29 39.06 3.51
1355 1458 4.444022 GCTCCTCTTTGAATCCTAGCATCA 60.444 45.833 0.00 0.00 0.00 3.07
1511 1614 6.406093 TTTGCAAACAAAGATGACAAGTTG 57.594 33.333 8.05 0.00 40.84 3.16
1512 1615 4.431809 TGCAAACAAAGATGACAAGTTGG 58.568 39.130 7.96 0.00 0.00 3.77
1513 1616 4.159321 TGCAAACAAAGATGACAAGTTGGA 59.841 37.500 7.96 0.00 0.00 3.53
1536 1639 4.706962 AGTACCAAATTCCAGATTGAAGGC 59.293 41.667 0.00 0.00 0.00 4.35
1617 1720 3.325293 TTGTTCAGATCTGTGAGAGGC 57.675 47.619 21.92 6.74 0.00 4.70
1737 1840 4.973396 TCTAAGTTGCGCATTCATGAAAG 58.027 39.130 12.75 9.46 0.00 2.62
1755 1858 5.911752 TGAAAGCCACTAGAAAATTGCAAA 58.088 33.333 1.71 0.00 0.00 3.68
1855 1970 2.275134 TTCATTGACAGCCTTGCAGA 57.725 45.000 0.00 0.00 0.00 4.26
1901 2016 9.258826 CACCTTCTAATCATCATCTTACTTCAG 57.741 37.037 0.00 0.00 0.00 3.02
2001 2122 5.106555 ACGTTCTATTCTTGCACAAATCTGG 60.107 40.000 0.00 0.00 0.00 3.86
2022 2143 8.268850 TCTGGAAGTGAATAATTTAGAACTGC 57.731 34.615 0.00 0.00 33.76 4.40
2087 2208 0.172578 TAAGGATGTCACGCCTGTCG 59.827 55.000 0.00 0.00 45.38 4.35
2285 2406 0.601311 GGAGCTTAGGCGATCGCAAT 60.601 55.000 38.00 28.13 44.37 3.56
2288 2409 0.235926 GCTTAGGCGATCGCAATTCC 59.764 55.000 38.00 22.03 44.11 3.01
2468 2589 1.516603 GAACTACTGCGACTCGGCC 60.517 63.158 0.00 0.00 0.00 6.13
2500 2625 7.881142 TGTAATGAACAGGTAAAAGAACATGG 58.119 34.615 0.00 0.00 35.53 3.66
2556 2748 7.142828 CGCATAGATATAATCTAGCGTGTTG 57.857 40.000 20.38 9.09 44.44 3.33
2829 3022 9.468532 GAAAATATATGGCAAGGATTTGAGAAC 57.531 33.333 0.00 0.00 36.36 3.01
2870 3078 5.362430 TGAGCAGAAAGGGTTACATGTTTTT 59.638 36.000 2.30 0.00 0.00 1.94
2945 3156 7.717568 TGAGTAGATAAGTGCAATAGAAGGAC 58.282 38.462 0.00 0.00 0.00 3.85
2982 3193 1.033202 TGTACTAGTGATCGCCGCCA 61.033 55.000 5.39 0.00 0.00 5.69
3249 3469 4.184629 CAGCAGTACTATGAGAACCCAAC 58.815 47.826 0.00 0.00 0.00 3.77
3338 3561 6.314152 GCAGTAAAGTGGCCAAAAAGTTAAAA 59.686 34.615 7.24 0.00 0.00 1.52
3339 3562 7.011950 GCAGTAAAGTGGCCAAAAAGTTAAAAT 59.988 33.333 7.24 0.00 0.00 1.82
3340 3563 9.535878 CAGTAAAGTGGCCAAAAAGTTAAAATA 57.464 29.630 7.24 0.00 0.00 1.40
3371 3594 3.818295 AAGTACAACCAAGGGCCAATA 57.182 42.857 6.18 0.00 0.00 1.90
3377 3600 4.167319 ACAACCAAGGGCCAATATTCTTT 58.833 39.130 6.18 0.00 0.00 2.52
3389 3612 7.425577 GCCAATATTCTTTTTATGGCCAATC 57.574 36.000 10.96 0.00 35.36 2.67
3403 3628 3.245586 TGGCCAATCAGAAGGGTACATTT 60.246 43.478 0.61 0.00 0.00 2.32
3414 3639 3.582164 AGGGTACATTTTGGGCAGAAAA 58.418 40.909 0.00 0.00 0.00 2.29
3420 3645 2.998316 TTTTGGGCAGAAAACAAGGG 57.002 45.000 0.00 0.00 0.00 3.95
3454 3679 5.897377 CCAAAGGGGTTAAGAACTGTATG 57.103 43.478 0.00 0.00 0.00 2.39
3455 3680 4.705023 CCAAAGGGGTTAAGAACTGTATGG 59.295 45.833 0.00 0.00 0.00 2.74
3456 3681 5.515886 CCAAAGGGGTTAAGAACTGTATGGA 60.516 44.000 0.00 0.00 0.00 3.41
3457 3682 5.853572 AAGGGGTTAAGAACTGTATGGAA 57.146 39.130 0.00 0.00 0.00 3.53
3458 3683 5.175388 AGGGGTTAAGAACTGTATGGAAC 57.825 43.478 0.00 0.00 0.00 3.62
3485 3710 6.419413 GTGCTAGTATACAAGAGCAATCAGTC 59.581 42.308 21.62 10.00 45.92 3.51
3564 3789 0.885196 GGCAAGAATAACGGCAACCA 59.115 50.000 0.00 0.00 0.00 3.67
3609 3855 3.199946 CCCACTGTTGGCTATCTCCTAAA 59.800 47.826 0.00 0.00 42.35 1.85
3610 3856 4.324254 CCCACTGTTGGCTATCTCCTAAAA 60.324 45.833 0.00 0.00 42.35 1.52
3637 3884 0.896923 TTATGTACCGCGGACAACCT 59.103 50.000 35.90 20.32 0.00 3.50
3641 3888 0.457035 GTACCGCGGACAACCTGATA 59.543 55.000 35.90 7.27 0.00 2.15
3801 4048 6.599437 ACTCGCATTGTTGTTTCTGTTATAC 58.401 36.000 0.00 0.00 0.00 1.47
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.498927 TGCTAGCCGTGTACTTTAGAC 57.501 47.619 13.29 0.00 0.00 2.59
1 2 3.737047 GCATGCTAGCCGTGTACTTTAGA 60.737 47.826 13.29 0.00 32.85 2.10
2 3 2.540101 GCATGCTAGCCGTGTACTTTAG 59.460 50.000 13.29 0.00 32.85 1.85
3 4 2.546778 GCATGCTAGCCGTGTACTTTA 58.453 47.619 13.29 0.00 32.85 1.85
4 5 1.369625 GCATGCTAGCCGTGTACTTT 58.630 50.000 13.29 0.00 32.85 2.66
37 40 7.913821 CGTTAGTTGCACTACTACATTCTATCA 59.086 37.037 0.00 0.00 28.93 2.15
65 68 1.956170 GGCGCCCGTCACTGATATG 60.956 63.158 18.11 0.00 0.00 1.78
81 84 0.759346 CCTATAGGTGGTGACAGGGC 59.241 60.000 10.96 0.00 44.46 5.19
130 133 2.423898 ATCCCGACCACTACCGCAG 61.424 63.158 0.00 0.00 0.00 5.18
132 135 2.106332 CATCCCGACCACTACCGC 59.894 66.667 0.00 0.00 0.00 5.68
134 137 3.103091 GCCCATCCCGACCACTACC 62.103 68.421 0.00 0.00 0.00 3.18
139 142 1.841556 GATAGGCCCATCCCGACCA 60.842 63.158 0.00 0.00 34.51 4.02
142 145 1.074090 TTGGATAGGCCCATCCCGA 60.074 57.895 25.36 12.70 43.43 5.14
172 175 1.456892 ATATGAGACGGCCCGGACA 60.457 57.895 8.57 4.75 0.00 4.02
181 184 2.844122 TGTGTGACGGATATGAGACG 57.156 50.000 0.00 0.00 0.00 4.18
185 188 3.901222 ACCCATATGTGTGACGGATATGA 59.099 43.478 12.64 0.00 33.59 2.15
192 195 6.220201 TCATATACAACCCATATGTGTGACG 58.780 40.000 7.51 0.00 37.54 4.35
203 206 3.118555 CGACACCCTTCATATACAACCCA 60.119 47.826 0.00 0.00 0.00 4.51
207 210 3.770388 TGTCCGACACCCTTCATATACAA 59.230 43.478 0.00 0.00 0.00 2.41
215 218 3.154589 GGATTGTCCGACACCCTTC 57.845 57.895 0.00 0.00 0.00 3.46
264 267 3.150767 CGGACCCTAAAATGTCACCAAA 58.849 45.455 0.00 0.00 33.09 3.28
266 269 1.003812 CCGGACCCTAAAATGTCACCA 59.996 52.381 0.00 0.00 33.09 4.17
273 276 2.865119 AAACGTCCGGACCCTAAAAT 57.135 45.000 28.52 5.49 0.00 1.82
286 289 3.995048 CCTCCACTTTCTTCCTAAACGTC 59.005 47.826 0.00 0.00 0.00 4.34
288 291 4.246458 CTCCTCCACTTTCTTCCTAAACG 58.754 47.826 0.00 0.00 0.00 3.60
296 299 2.175715 AGCCAAACTCCTCCACTTTCTT 59.824 45.455 0.00 0.00 0.00 2.52
372 375 5.438761 AGATTTCTTGCGCTAACAGTTTT 57.561 34.783 9.73 0.00 0.00 2.43
481 548 1.988107 AGGGAAAGAAGGCATGTGAGA 59.012 47.619 0.00 0.00 0.00 3.27
482 549 2.089980 CAGGGAAAGAAGGCATGTGAG 58.910 52.381 0.00 0.00 0.00 3.51
535 602 3.378427 GGCTGGTGGAAGTTATGAATCAC 59.622 47.826 0.00 0.00 0.00 3.06
560 627 2.698797 ACCCTTACAGATGTATGACCCG 59.301 50.000 7.29 0.00 0.00 5.28
613 689 0.884704 TTTCTTCGGTGCTGCACTCC 60.885 55.000 29.54 15.26 34.40 3.85
713 789 7.507616 TGGGTTTTGAGGTTATTTCAACACTAT 59.492 33.333 4.81 0.00 36.18 2.12
767 854 8.638685 AGATAAATGTGCTTCAAACATTATGC 57.361 30.769 2.48 0.00 45.25 3.14
778 865 4.943705 TGGGAGTCAAGATAAATGTGCTTC 59.056 41.667 0.00 0.00 0.00 3.86
806 893 3.061429 CGAAGCAAACCGAAGATTCTCTC 59.939 47.826 0.00 0.00 0.00 3.20
818 905 0.741915 TGTTTGGACCGAAGCAAACC 59.258 50.000 0.00 0.00 36.89 3.27
820 907 2.293122 CAGATGTTTGGACCGAAGCAAA 59.707 45.455 0.00 0.00 0.00 3.68
826 913 0.605319 GGCACAGATGTTTGGACCGA 60.605 55.000 0.00 0.00 0.00 4.69
829 916 1.956477 AGTTGGCACAGATGTTTGGAC 59.044 47.619 0.00 0.00 42.39 4.02
946 1034 0.401356 TTGGTGCAGAAGCTGATGGA 59.599 50.000 0.00 0.00 42.74 3.41
954 1042 0.956633 ATGTGCTGTTGGTGCAGAAG 59.043 50.000 0.00 0.00 41.41 2.85
1075 1172 1.153168 CATTCGTCGAAGGGGCCAT 60.153 57.895 13.88 0.00 0.00 4.40
1116 1213 4.503910 TGAAAACATGATCCGACTGTAGG 58.496 43.478 0.00 0.00 0.00 3.18
1125 1222 3.503363 TGAGCACACTGAAAACATGATCC 59.497 43.478 0.00 0.00 0.00 3.36
1126 1223 4.023792 TGTGAGCACACTGAAAACATGATC 60.024 41.667 15.43 0.00 46.07 2.92
1148 1245 0.036388 ATCGCCGTAAGCCCCATATG 60.036 55.000 0.00 0.00 38.78 1.78
1178 1275 6.921857 ACTATACATACATACCTTTGTGTCGC 59.078 38.462 0.00 0.00 0.00 5.19
1256 1359 2.673833 GATGGTAAGCCTTCCGTATCG 58.326 52.381 0.00 0.00 34.03 2.92
1276 1379 1.154225 GTGGATGCGCAAGAAACCG 60.154 57.895 17.11 0.00 43.02 4.44
1442 1545 6.198403 GCATGCATGTTCTTGTTATTCATCTG 59.802 38.462 26.79 0.00 0.00 2.90
1511 1614 5.358160 CCTTCAATCTGGAATTTGGTACTCC 59.642 44.000 0.00 0.00 0.00 3.85
1512 1615 5.163612 GCCTTCAATCTGGAATTTGGTACTC 60.164 44.000 0.00 0.00 0.00 2.59
1513 1616 4.706962 GCCTTCAATCTGGAATTTGGTACT 59.293 41.667 0.00 0.00 0.00 2.73
1536 1639 0.404040 TTGGAGGGGCTACCAAAGTG 59.596 55.000 0.00 0.00 42.18 3.16
1730 1833 5.472148 TGCAATTTTCTAGTGGCTTTCATG 58.528 37.500 0.00 0.00 0.00 3.07
1737 1840 5.752955 TGAAACTTTGCAATTTTCTAGTGGC 59.247 36.000 23.96 11.33 31.68 5.01
1839 1948 1.884579 CTTGTCTGCAAGGCTGTCAAT 59.115 47.619 7.82 0.00 46.17 2.57
1855 1970 0.532862 CACTCACCGTTGGAGCTTGT 60.533 55.000 0.00 0.00 35.79 3.16
1901 2016 4.636206 ACAAGGCTACTCGATTGGAAAATC 59.364 41.667 0.00 0.00 0.00 2.17
1904 2024 3.695830 ACAAGGCTACTCGATTGGAAA 57.304 42.857 0.00 0.00 0.00 3.13
2001 2122 9.548208 GTTCAGCAGTTCTAAATTATTCACTTC 57.452 33.333 0.00 0.00 0.00 3.01
2022 2143 1.068055 GTGGATTTGCTGGCTGTTCAG 60.068 52.381 0.00 0.00 37.79 3.02
2087 2208 2.238847 TAGTGCCGGGTGCTGTGATC 62.239 60.000 2.18 0.00 42.00 2.92
2285 2406 0.689080 TTGCAACTTGGGCTTGGGAA 60.689 50.000 0.00 0.00 0.00 3.97
2288 2409 0.177604 TGTTTGCAACTTGGGCTTGG 59.822 50.000 0.00 0.00 0.00 3.61
2468 2589 6.567687 TTTACCTGTTCATTACATGGTGTG 57.432 37.500 0.00 0.00 38.17 3.82
2870 3078 4.442706 GGAAAATCAGAGGAAGCGTATCA 58.557 43.478 0.00 0.00 0.00 2.15
2945 3156 3.374220 ACACTTCAATGTTGGCATGTG 57.626 42.857 0.00 0.00 35.15 3.21
3136 3355 4.454728 TGCTCAAAAGGGTTTATGCATC 57.545 40.909 0.19 0.00 32.63 3.91
3227 3447 4.184629 GTTGGGTTCTCATAGTACTGCTG 58.815 47.826 5.39 3.25 0.00 4.41
3249 3469 7.712264 TTGATAGCCAAAATTTGAACTTGTG 57.288 32.000 7.37 0.00 0.00 3.33
3339 3562 8.656806 CCCTTGGTTGTACTTTGGATATAGATA 58.343 37.037 0.00 0.00 0.00 1.98
3340 3563 7.518188 CCCTTGGTTGTACTTTGGATATAGAT 58.482 38.462 0.00 0.00 0.00 1.98
3343 3566 5.442391 GCCCTTGGTTGTACTTTGGATATA 58.558 41.667 0.00 0.00 0.00 0.86
3359 3582 6.290605 CCATAAAAAGAATATTGGCCCTTGG 58.709 40.000 0.00 0.00 0.00 3.61
3371 3594 6.126968 CCCTTCTGATTGGCCATAAAAAGAAT 60.127 38.462 6.09 0.00 0.00 2.40
3377 3600 3.756082 ACCCTTCTGATTGGCCATAAA 57.244 42.857 6.09 0.00 0.00 1.40
3388 3611 2.109128 TGCCCAAAATGTACCCTTCTGA 59.891 45.455 0.00 0.00 0.00 3.27
3389 3612 2.493278 CTGCCCAAAATGTACCCTTCTG 59.507 50.000 0.00 0.00 0.00 3.02
3403 3628 0.263172 TCCCCTTGTTTTCTGCCCAA 59.737 50.000 0.00 0.00 0.00 4.12
3432 3657 4.705023 CCATACAGTTCTTAACCCCTTTGG 59.295 45.833 0.00 0.00 41.37 3.28
3433 3658 5.566469 TCCATACAGTTCTTAACCCCTTTG 58.434 41.667 0.00 0.00 0.00 2.77
3434 3659 5.853572 TCCATACAGTTCTTAACCCCTTT 57.146 39.130 0.00 0.00 0.00 3.11
3435 3660 5.073965 TGTTCCATACAGTTCTTAACCCCTT 59.926 40.000 0.00 0.00 31.68 3.95
3436 3661 4.600111 TGTTCCATACAGTTCTTAACCCCT 59.400 41.667 0.00 0.00 31.68 4.79
3437 3662 4.913784 TGTTCCATACAGTTCTTAACCCC 58.086 43.478 0.00 0.00 31.68 4.95
3449 3674 7.340999 TCTTGTATACTAGCACTGTTCCATACA 59.659 37.037 9.20 0.00 34.95 2.29
3450 3675 7.713750 TCTTGTATACTAGCACTGTTCCATAC 58.286 38.462 9.20 0.00 0.00 2.39
3451 3676 7.470147 GCTCTTGTATACTAGCACTGTTCCATA 60.470 40.741 15.91 0.00 35.05 2.74
3452 3677 6.684111 GCTCTTGTATACTAGCACTGTTCCAT 60.684 42.308 15.91 0.00 35.05 3.41
3453 3678 5.394224 GCTCTTGTATACTAGCACTGTTCCA 60.394 44.000 15.91 0.00 35.05 3.53
3454 3679 5.044558 GCTCTTGTATACTAGCACTGTTCC 58.955 45.833 15.91 0.00 35.05 3.62
3455 3680 5.651530 TGCTCTTGTATACTAGCACTGTTC 58.348 41.667 18.22 2.66 39.92 3.18
3456 3681 5.661056 TGCTCTTGTATACTAGCACTGTT 57.339 39.130 18.22 0.00 39.92 3.16
3457 3682 5.661056 TTGCTCTTGTATACTAGCACTGT 57.339 39.130 20.49 0.00 44.19 3.55
3458 3683 6.276091 TGATTGCTCTTGTATACTAGCACTG 58.724 40.000 20.49 8.77 44.19 3.66
3459 3684 6.097554 ACTGATTGCTCTTGTATACTAGCACT 59.902 38.462 20.49 17.11 44.19 4.40
3460 3685 6.276847 ACTGATTGCTCTTGTATACTAGCAC 58.723 40.000 20.49 13.92 44.19 4.40
3461 3686 6.461648 GGACTGATTGCTCTTGTATACTAGCA 60.462 42.308 18.22 18.22 42.91 3.49
3462 3687 5.923684 GGACTGATTGCTCTTGTATACTAGC 59.076 44.000 9.20 12.33 35.51 3.42
3485 3710 1.193874 GTTTGGCGAAACTGACTACGG 59.806 52.381 16.14 0.00 38.78 4.02
3564 3789 6.382282 GGGTAGATACTTAGGTAAGTTGGTGT 59.618 42.308 7.68 0.00 43.57 4.16
3609 3855 2.613691 CGCGGTACATAAGAGGTTGTT 58.386 47.619 0.00 0.00 0.00 2.83
3610 3856 1.134907 CCGCGGTACATAAGAGGTTGT 60.135 52.381 19.50 0.00 0.00 3.32
3637 3884 3.966979 ACACTGACCATTTGGCATATCA 58.033 40.909 0.00 0.00 39.32 2.15
3641 3888 3.507233 CACTTACACTGACCATTTGGCAT 59.493 43.478 0.00 0.00 39.32 4.40
3708 3955 1.004918 CTTCGTCAAGAGGGCGGTT 60.005 57.895 0.00 0.00 0.00 4.44


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

AutoCloner maintained by Alex Coulton.