Multiple sequence alignment - TraesCS6D01G137200

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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 TraesCS6D01G137200 chr6D 100.000 5672 0 0 1 5672 105825143 105819472 0.000000e+00 10475
1 TraesCS6D01G137200 chr6B 95.216 3428 93 25 1 3379 192355660 192352255 0.000000e+00 5356
2 TraesCS6D01G137200 chr6B 96.751 1816 44 8 3380 5189 192351348 192349542 0.000000e+00 3013
3 TraesCS6D01G137200 chr6B 97.049 576 14 3 5099 5672 192349541 192348967 0.000000e+00 966
4 TraesCS6D01G137200 chr6B 86.139 101 10 3 4361 4461 628895850 628895946 7.770000e-19 106
5 TraesCS6D01G137200 chr6A 95.515 1940 53 13 3380 5310 128444652 128442738 0.000000e+00 3070
6 TraesCS6D01G137200 chr6A 91.102 1416 67 18 478 1860 128448654 128447265 0.000000e+00 1862
7 TraesCS6D01G137200 chr6A 95.421 939 24 9 2458 3379 128446360 128445424 0.000000e+00 1478
8 TraesCS6D01G137200 chr6A 93.848 699 38 4 1862 2556 128447051 128446354 0.000000e+00 1048
9 TraesCS6D01G137200 chr6A 96.231 451 13 4 1 451 128449627 128449181 0.000000e+00 736
10 TraesCS6D01G137200 chr6A 98.214 224 3 1 5449 5672 128440869 128440647 1.920000e-104 390
11 TraesCS6D01G137200 chr6A 90.351 114 9 1 5310 5423 128440973 128440862 1.270000e-31 148
12 TraesCS6D01G137200 chr6A 91.011 89 4 2 4371 4459 551840517 551840433 3.590000e-22 117
13 TraesCS6D01G137200 chr5A 85.014 367 26 7 1544 1898 559739227 559738878 4.210000e-91 346
14 TraesCS6D01G137200 chr5A 92.473 93 5 2 1530 1622 559738873 559738783 1.280000e-26 132
15 TraesCS6D01G137200 chr5A 91.209 91 4 2 4371 4461 493820308 493820222 2.780000e-23 121
16 TraesCS6D01G137200 chr5A 91.011 89 4 2 4371 4459 5695991 5695907 3.590000e-22 117
17 TraesCS6D01G137200 chr1A 83.551 383 41 12 1526 1897 518769161 518769532 7.040000e-89 339
18 TraesCS6D01G137200 chr1A 91.011 89 4 2 4371 4459 478362861 478362945 3.590000e-22 117
19 TraesCS6D01G137200 chr7A 86.601 306 33 7 1558 1860 216353679 216353379 1.180000e-86 331
20 TraesCS6D01G137200 chr7A 83.333 288 36 9 1558 1841 25338065 25337786 7.290000e-64 255
21 TraesCS6D01G137200 chr7A 73.599 678 142 34 3424 4088 692879381 692880034 5.720000e-55 226
22 TraesCS6D01G137200 chr7A 91.200 125 11 0 4485 4609 692880354 692880478 2.720000e-38 171
23 TraesCS6D01G137200 chr7A 75.945 291 47 15 2739 3011 692877825 692878110 1.660000e-25 128
24 TraesCS6D01G137200 chr7D 87.085 271 28 5 1594 1860 204256287 204256020 3.320000e-77 300
25 TraesCS6D01G137200 chr7D 73.049 679 145 34 3424 4088 600885696 600886350 7.450000e-49 206
26 TraesCS6D01G137200 chr7D 73.921 556 103 31 2739 3268 600884135 600884674 9.700000e-43 185
27 TraesCS6D01G137200 chr7D 91.200 125 11 0 4485 4609 600886672 600886796 2.720000e-38 171
28 TraesCS6D01G137200 chr2D 80.263 380 47 17 1530 1896 539412731 539413095 1.570000e-65 261
29 TraesCS6D01G137200 chr3B 80.294 340 48 15 1531 1860 26523493 26523163 7.340000e-59 239
30 TraesCS6D01G137200 chr7B 73.560 677 144 32 3424 4088 680115871 680116524 5.720000e-55 226
31 TraesCS6D01G137200 chr7B 73.975 561 105 33 2735 3268 680114318 680114864 7.500000e-44 189
32 TraesCS6D01G137200 chr7B 91.200 125 11 0 4485 4609 680116845 680116969 2.720000e-38 171
33 TraesCS6D01G137200 chr4B 78.966 290 50 8 1556 1840 500080858 500081141 2.700000e-43 187
34 TraesCS6D01G137200 chr2A 91.011 89 4 2 4371 4459 80987383 80987299 3.590000e-22 117
35 TraesCS6D01G137200 chr1B 88.000 100 8 2 4362 4461 39580152 39580057 1.290000e-21 115
36 TraesCS6D01G137200 chr3A 82.500 120 15 5 4371 4488 220743731 220743616 3.620000e-17 100


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 TraesCS6D01G137200 chr6D 105819472 105825143 5671 True 10475.000000 10475 100.000000 1 5672 1 chr6D.!!$R1 5671
1 TraesCS6D01G137200 chr6B 192348967 192355660 6693 True 3111.666667 5356 96.338667 1 5672 3 chr6B.!!$R1 5671
2 TraesCS6D01G137200 chr6A 128440647 128449627 8980 True 1247.428571 3070 94.383143 1 5672 7 chr6A.!!$R2 5671

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
195 196 0.541764 GGATGGGGTTCTTGTTGCCA 60.542 55.000 0.00 0.0 0.00 4.92 F
214 215 0.545071 AAATTGGGAGCTGTTGGGGG 60.545 55.000 0.00 0.0 0.00 5.40 F
704 1214 1.207791 ATGGAGGGCTCGAAATGTCT 58.792 50.000 0.00 0.0 0.00 3.41 F
706 1216 1.339055 TGGAGGGCTCGAAATGTCTTG 60.339 52.381 0.00 0.0 0.00 3.02 F
2236 3000 0.605319 TACTTTGCGTGGCTTCAGGG 60.605 55.000 0.00 0.0 0.00 4.45 F
4101 5882 0.178903 TGGTAAGGCTCTCCACCTGT 60.179 55.000 6.53 0.0 37.67 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1860 2411 1.586028 CCAAGTTCATTGCACCCCG 59.414 57.895 0.00 0.0 37.60 5.73 R
1955 2718 9.378551 CAGCATTATTTTCAGGTAGTAAGTACA 57.621 33.333 0.00 0.0 32.62 2.90 R
2223 2987 2.130073 GACAAACCCTGAAGCCACGC 62.130 60.000 0.00 0.0 0.00 5.34 R
2539 3397 5.034797 CAGCACATATCAAAAGCATCACTG 58.965 41.667 0.00 0.0 0.00 3.66 R
4137 5918 0.657312 CTTCAGCTGCACACGAAACA 59.343 50.000 9.47 0.0 0.00 2.83 R
5485 9133 2.807676 TGTGTAGAGATGGCTGACTGA 58.192 47.619 0.00 0.0 0.00 3.41 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
43 44 5.323371 TGCAAGGTACAATAAAATCCTGC 57.677 39.130 0.00 0.00 0.00 4.85
45 46 4.159506 GCAAGGTACAATAAAATCCTGCCA 59.840 41.667 0.00 0.00 0.00 4.92
52 53 6.705863 ACAATAAAATCCTGCCAGAGAATC 57.294 37.500 0.00 0.00 0.00 2.52
160 161 3.054503 GGCTGCTGACTGCTGGTG 61.055 66.667 12.05 0.00 43.37 4.17
195 196 0.541764 GGATGGGGTTCTTGTTGCCA 60.542 55.000 0.00 0.00 0.00 4.92
214 215 0.545071 AAATTGGGAGCTGTTGGGGG 60.545 55.000 0.00 0.00 0.00 5.40
339 340 4.185394 TGGATTTGCGCGAATCTAACTTA 58.815 39.130 36.91 20.15 36.50 2.24
375 376 3.006967 GGGTGGATCATACGAAGCAGTAT 59.993 47.826 0.00 0.00 37.78 2.12
427 428 9.638176 ATTATCTTGATAAAGAATTCACCTGCT 57.362 29.630 8.44 0.00 31.77 4.24
447 448 8.534496 ACCTGCTGCTTATTTTATCAGAAAAAT 58.466 29.630 0.00 0.00 40.98 1.82
491 991 6.542574 TTTTAATACGTACCACCTTGTGTG 57.457 37.500 0.00 0.00 45.01 3.82
508 1008 8.091449 ACCTTGTGTGTTACATTTTGAAAAGAA 58.909 29.630 0.00 0.00 39.48 2.52
553 1053 6.151985 TGTGATAATTATTGGTGGTGGTTGAC 59.848 38.462 0.00 0.00 0.00 3.18
554 1054 5.355630 TGATAATTATTGGTGGTGGTTGACG 59.644 40.000 0.00 0.00 0.00 4.35
575 1075 6.604735 ACGAAAGTGCCTTAGCTTTATATG 57.395 37.500 0.00 0.00 46.97 1.78
576 1076 5.527582 ACGAAAGTGCCTTAGCTTTATATGG 59.472 40.000 0.00 0.00 46.97 2.74
577 1077 5.527582 CGAAAGTGCCTTAGCTTTATATGGT 59.472 40.000 0.00 0.00 40.80 3.55
578 1078 6.704493 CGAAAGTGCCTTAGCTTTATATGGTA 59.296 38.462 0.00 0.00 40.80 3.25
579 1079 7.095607 CGAAAGTGCCTTAGCTTTATATGGTAG 60.096 40.741 0.00 0.00 40.80 3.18
580 1080 5.552178 AGTGCCTTAGCTTTATATGGTAGC 58.448 41.667 0.00 0.00 40.80 3.58
581 1081 4.695928 GTGCCTTAGCTTTATATGGTAGCC 59.304 45.833 0.00 0.00 40.80 3.93
582 1082 4.349636 TGCCTTAGCTTTATATGGTAGCCA 59.650 41.667 0.00 0.00 40.80 4.75
591 1101 2.516544 TATGGTAGCCATGGGGGTTA 57.483 50.000 15.13 0.00 44.84 2.85
605 1115 1.560146 GGGGTTAGGCTACTTCTGCTT 59.440 52.381 0.00 0.00 0.00 3.91
628 1138 3.020984 CGTGCAGGTATAATTGGGGTTT 58.979 45.455 0.00 0.00 0.00 3.27
629 1139 3.066203 CGTGCAGGTATAATTGGGGTTTC 59.934 47.826 0.00 0.00 0.00 2.78
637 1147 1.408969 AATTGGGGTTTCGCAGTTGT 58.591 45.000 0.00 0.00 35.19 3.32
641 1151 1.370051 GGGTTTCGCAGTTGTTCGC 60.370 57.895 0.00 0.00 0.00 4.70
696 1206 3.557264 GGGTTTCTTATATGGAGGGCTCG 60.557 52.174 0.00 0.00 0.00 5.03
702 1212 4.593206 TCTTATATGGAGGGCTCGAAATGT 59.407 41.667 0.00 0.00 0.00 2.71
703 1213 2.910688 TATGGAGGGCTCGAAATGTC 57.089 50.000 0.00 0.00 0.00 3.06
704 1214 1.207791 ATGGAGGGCTCGAAATGTCT 58.792 50.000 0.00 0.00 0.00 3.41
706 1216 1.339055 TGGAGGGCTCGAAATGTCTTG 60.339 52.381 0.00 0.00 0.00 3.02
714 1224 5.296780 GGGCTCGAAATGTCTTGATGATAAA 59.703 40.000 0.00 0.00 0.00 1.40
778 1288 4.891168 TGGCACTTATATCCGACTGTCTTA 59.109 41.667 6.21 0.00 0.00 2.10
779 1289 5.009710 TGGCACTTATATCCGACTGTCTTAG 59.990 44.000 6.21 0.00 0.00 2.18
798 1336 7.100409 GTCTTAGGTTCTTGTCTCTGCTATTT 58.900 38.462 0.00 0.00 0.00 1.40
847 1385 4.083271 GGTAGTTGCGCTCTTGATCTTTTT 60.083 41.667 9.73 0.00 0.00 1.94
851 1389 1.733718 GCGCTCTTGATCTTTTTGGCC 60.734 52.381 0.00 0.00 0.00 5.36
922 1460 4.746611 GGTTGATTTTGCTCTTCTGTTTGG 59.253 41.667 0.00 0.00 0.00 3.28
944 1482 4.583489 GGTGATGATTCTTGCCATCTTGAT 59.417 41.667 0.00 0.00 39.75 2.57
946 1484 5.977725 GTGATGATTCTTGCCATCTTGATTG 59.022 40.000 0.00 0.00 39.75 2.67
1068 1606 5.428457 TGGTATCCATTCTACATCACAGGTT 59.572 40.000 0.00 0.00 0.00 3.50
1634 2183 5.163663 TGGCTTCGATTATGACCAAATGTTC 60.164 40.000 0.00 0.00 0.00 3.18
1656 2205 3.280197 AGGTGCTTGCAAAATTTGGTT 57.720 38.095 7.89 0.00 0.00 3.67
2223 2987 3.409026 ACTGCTCCTCCAGTTACTTTG 57.591 47.619 0.00 0.00 43.19 2.77
2236 3000 0.605319 TACTTTGCGTGGCTTCAGGG 60.605 55.000 0.00 0.00 0.00 4.45
2254 3018 3.009033 CAGGGTTTGTCCAATCTAGGTCA 59.991 47.826 0.00 0.00 38.11 4.02
2255 3019 3.655777 AGGGTTTGTCCAATCTAGGTCAA 59.344 43.478 0.00 0.00 35.42 3.18
2420 3184 8.579850 TGAATTGACAAAGAATAGGTATGCTT 57.420 30.769 0.00 0.00 32.90 3.91
2539 3397 5.239359 TGAATCAATGTTGCAGTGATAGC 57.761 39.130 11.58 8.32 46.21 2.97
3065 3937 5.083533 TGGATTTGGCATTTGACATTACC 57.916 39.130 0.00 0.00 30.06 2.85
3576 5357 4.443034 GCCAGGTATGTATTCTCGTTCCTT 60.443 45.833 0.00 0.00 0.00 3.36
3824 5605 2.363306 ATGTTCTGCCTTGTTGGTGA 57.637 45.000 0.00 0.00 38.35 4.02
3829 5610 3.788227 TCTGCCTTGTTGGTGACTTAT 57.212 42.857 0.00 0.00 38.35 1.73
3965 5746 2.562738 GCTGGCACCACCTTAAATTTCT 59.437 45.455 0.00 0.00 40.22 2.52
4036 5817 4.138290 TGCAATCTCGTTTTTAGGTGGAA 58.862 39.130 0.00 0.00 0.00 3.53
4101 5882 0.178903 TGGTAAGGCTCTCCACCTGT 60.179 55.000 6.53 0.00 37.67 4.00
4137 5918 4.458295 CACACTTTCCATCATTGCTCTCTT 59.542 41.667 0.00 0.00 0.00 2.85
4177 5958 5.091261 AGTGCATAACTTAGTAGCAGCTT 57.909 39.130 0.00 0.00 34.57 3.74
4345 6127 9.042450 TCCTATCTAAACAATGTACTTTGGAGA 57.958 33.333 21.54 19.27 0.00 3.71
4359 6141 5.003804 ACTTTGGAGAAGATTACGTTGCAT 58.996 37.500 0.00 0.00 0.00 3.96
4476 6258 9.668497 GAGGGAGTACTTCTTATGTTTAACAAT 57.332 33.333 0.66 0.00 0.00 2.71
4690 6472 6.093219 GTCTTGAGGTTCAGTGAGTATACGTA 59.907 42.308 0.00 0.00 0.00 3.57
4691 6473 6.656270 TCTTGAGGTTCAGTGAGTATACGTAA 59.344 38.462 0.00 0.00 0.00 3.18
4693 6475 6.792326 TGAGGTTCAGTGAGTATACGTAATG 58.208 40.000 0.00 0.75 0.00 1.90
4708 6494 2.093973 CGTAATGAGAAGGCTCCACTGT 60.094 50.000 0.00 0.00 40.55 3.55
4789 6577 1.832912 CACTCTGGCTGGGGTATCC 59.167 63.158 0.00 0.00 0.00 2.59
5011 6799 2.289133 TGTATGCTGTAAACGTGGCTGA 60.289 45.455 0.00 0.00 0.00 4.26
5066 6854 3.289834 CTGCGGCTGTGGCTGTTT 61.290 61.111 0.00 0.00 45.94 2.83
5205 7086 6.857437 TCAAGATAGGTCAGAATCAGTTCA 57.143 37.500 0.00 0.00 36.79 3.18
5334 8981 5.592587 TGGGAAGAATTAGACAGGGAAAA 57.407 39.130 0.00 0.00 0.00 2.29
5485 9133 4.082125 CCCATTCAGCTAGGAAACAAAGT 58.918 43.478 0.00 0.00 0.00 2.66
5532 9180 6.631962 ACCAAAACAACCAAGACGATAAAAA 58.368 32.000 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 44 4.190772 GAGAAAGGAAGCAGATTCTCTGG 58.809 47.826 6.30 0.00 44.43 3.86
45 46 3.766591 TCGAGAAAGGAAGCAGATTCTCT 59.233 43.478 11.30 0.00 43.47 3.10
52 53 1.664659 CTGCATCGAGAAAGGAAGCAG 59.335 52.381 4.88 4.88 45.83 4.24
121 122 1.248785 CCTCGAGAAACCCGACCTCA 61.249 60.000 15.71 0.00 32.18 3.86
160 161 2.487934 CATCCCAAGATCGACCATGAC 58.512 52.381 0.00 0.00 0.00 3.06
195 196 0.545071 CCCCCAACAGCTCCCAATTT 60.545 55.000 0.00 0.00 0.00 1.82
214 215 5.070981 TCAAATCTATCATCTCCACTCCACC 59.929 44.000 0.00 0.00 0.00 4.61
339 340 3.583054 CACCCATGGAGCACATTCT 57.417 52.632 15.22 0.00 37.84 2.40
375 376 7.896383 ATTGAATAAAATAAGCAGCCACCTA 57.104 32.000 0.00 0.00 0.00 3.08
409 410 5.573337 AAGCAGCAGGTGAATTCTTTATC 57.427 39.130 3.02 0.00 0.00 1.75
410 411 7.651027 AATAAGCAGCAGGTGAATTCTTTAT 57.349 32.000 3.02 0.00 0.00 1.40
411 412 7.466746 AAATAAGCAGCAGGTGAATTCTTTA 57.533 32.000 3.02 0.00 0.00 1.85
483 983 8.472683 TTCTTTTCAAAATGTAACACACAAGG 57.527 30.769 0.00 0.00 41.55 3.61
525 1025 7.732222 ACCACCACCAATAATTATCACAATT 57.268 32.000 0.00 0.00 0.00 2.32
542 1042 0.028902 GCACTTTCGTCAACCACCAC 59.971 55.000 0.00 0.00 0.00 4.16
563 1063 5.280985 CCCCATGGCTACCATATAAAGCTAA 60.281 44.000 6.09 0.00 43.15 3.09
568 1068 3.341338 ACCCCCATGGCTACCATATAAA 58.659 45.455 6.09 0.00 43.15 1.40
569 1069 3.012570 ACCCCCATGGCTACCATATAA 57.987 47.619 6.09 0.00 43.15 0.98
570 1070 2.753031 ACCCCCATGGCTACCATATA 57.247 50.000 6.09 0.00 43.15 0.86
571 1071 1.846803 AACCCCCATGGCTACCATAT 58.153 50.000 6.09 0.00 43.15 1.78
572 1072 2.344592 CTAACCCCCATGGCTACCATA 58.655 52.381 6.09 0.00 43.15 2.74
573 1073 1.149101 CTAACCCCCATGGCTACCAT 58.851 55.000 6.09 0.00 46.37 3.55
574 1074 0.991355 CCTAACCCCCATGGCTACCA 60.991 60.000 6.09 0.00 37.83 3.25
575 1075 1.844130 CCTAACCCCCATGGCTACC 59.156 63.158 6.09 0.00 37.83 3.18
576 1076 1.150764 GCCTAACCCCCATGGCTAC 59.849 63.158 6.09 0.00 41.92 3.58
577 1077 3.668832 GCCTAACCCCCATGGCTA 58.331 61.111 6.09 0.00 41.92 3.93
579 1079 1.150764 GTAGCCTAACCCCCATGGC 59.849 63.158 6.09 0.00 45.21 4.40
580 1080 1.143073 GAAGTAGCCTAACCCCCATGG 59.857 57.143 4.14 4.14 41.37 3.66
581 1081 2.127708 AGAAGTAGCCTAACCCCCATG 58.872 52.381 0.00 0.00 0.00 3.66
582 1082 2.127708 CAGAAGTAGCCTAACCCCCAT 58.872 52.381 0.00 0.00 0.00 4.00
591 1101 0.247736 CACGGAAGCAGAAGTAGCCT 59.752 55.000 0.00 0.00 0.00 4.58
605 1115 1.142060 CCCCAATTATACCTGCACGGA 59.858 52.381 8.91 0.00 36.31 4.69
628 1138 0.808060 TCACAAGCGAACAACTGCGA 60.808 50.000 0.00 0.00 35.87 5.10
629 1139 0.654472 GTCACAAGCGAACAACTGCG 60.654 55.000 0.00 0.00 35.87 5.18
637 1147 3.059884 GACATCAGAAGTCACAAGCGAA 58.940 45.455 0.71 0.00 36.06 4.70
641 1151 3.672397 CGACAGACATCAGAAGTCACAAG 59.328 47.826 8.47 0.00 38.46 3.16
702 1212 6.730447 TCCCAACTCCAATTTATCATCAAGA 58.270 36.000 0.00 0.00 0.00 3.02
703 1213 7.408756 TTCCCAACTCCAATTTATCATCAAG 57.591 36.000 0.00 0.00 0.00 3.02
704 1214 7.454380 AGTTTCCCAACTCCAATTTATCATCAA 59.546 33.333 0.00 0.00 39.15 2.57
706 1216 7.410120 AGTTTCCCAACTCCAATTTATCATC 57.590 36.000 0.00 0.00 39.15 2.92
714 1224 8.164070 GGACATATATAGTTTCCCAACTCCAAT 58.836 37.037 0.00 0.00 42.66 3.16
737 1247 2.423538 GCCATGTATCACCAACAAGGAC 59.576 50.000 1.92 0.00 37.81 3.85
778 1288 5.936956 CAGAAAATAGCAGAGACAAGAACCT 59.063 40.000 0.00 0.00 0.00 3.50
779 1289 5.391416 GCAGAAAATAGCAGAGACAAGAACC 60.391 44.000 0.00 0.00 0.00 3.62
798 1336 7.362834 CCAAATTACCACATAACAGATGCAGAA 60.363 37.037 0.00 0.00 0.00 3.02
867 1405 4.798574 CCCAAATAGCAACAGAAAGACAC 58.201 43.478 0.00 0.00 0.00 3.67
868 1406 3.255642 GCCCAAATAGCAACAGAAAGACA 59.744 43.478 0.00 0.00 0.00 3.41
922 1460 5.769484 ATCAAGATGGCAAGAATCATCAC 57.231 39.130 0.00 0.00 41.45 3.06
944 1482 6.039382 GGAAGCTAAAAAGTTCCTGAAGACAA 59.961 38.462 0.00 0.00 37.38 3.18
946 1484 5.765677 AGGAAGCTAAAAAGTTCCTGAAGAC 59.234 40.000 0.00 0.00 46.81 3.01
1068 1606 7.711846 ACACATTTGCTAACAGTGAAACATAA 58.288 30.769 17.63 0.00 41.43 1.90
1388 1936 2.289547 ACAACAACACGCATCAAGGTAC 59.710 45.455 0.00 0.00 0.00 3.34
1436 1984 8.303876 CCATTGGTTGTTTGTACTTTATAAGCT 58.696 33.333 0.00 0.00 0.00 3.74
1634 2183 3.993920 ACCAAATTTTGCAAGCACCTAG 58.006 40.909 0.00 0.00 0.00 3.02
1656 2205 2.234414 GCTCCTTGGATTTCATTTGGCA 59.766 45.455 0.00 0.00 0.00 4.92
1860 2411 1.586028 CCAAGTTCATTGCACCCCG 59.414 57.895 0.00 0.00 37.60 5.73
1955 2718 9.378551 CAGCATTATTTTCAGGTAGTAAGTACA 57.621 33.333 0.00 0.00 32.62 2.90
2223 2987 2.130073 GACAAACCCTGAAGCCACGC 62.130 60.000 0.00 0.00 0.00 5.34
2236 3000 5.794894 TCTCTTGACCTAGATTGGACAAAC 58.205 41.667 0.00 0.00 40.14 2.93
2254 3018 6.729690 AATAGTGCTTCTATGCTCTCTCTT 57.270 37.500 0.00 0.00 39.10 2.85
2255 3019 8.421249 AATAATAGTGCTTCTATGCTCTCTCT 57.579 34.615 0.00 0.00 39.10 3.10
2420 3184 7.663043 ACCTATGACCCAAAACTAAAACAAA 57.337 32.000 0.00 0.00 0.00 2.83
2539 3397 5.034797 CAGCACATATCAAAAGCATCACTG 58.965 41.667 0.00 0.00 0.00 3.66
2577 3435 5.122239 TGCAACAGAAAAATAGGTCAGATCG 59.878 40.000 0.00 0.00 0.00 3.69
3065 3937 7.649370 AGTCTTTATCATGTTGATGCTATCG 57.351 36.000 0.30 0.00 37.70 2.92
3319 4194 7.290014 AGGTCCACACATCAACAGTATCATATA 59.710 37.037 0.00 0.00 0.00 0.86
3793 5574 9.515226 AACAAGGCAGAACATACTAATAAAAGA 57.485 29.630 0.00 0.00 0.00 2.52
3824 5605 7.796054 ACACAAAGGCACTCATATAGATAAGT 58.204 34.615 0.00 0.00 38.49 2.24
3829 5610 5.897250 TCCTACACAAAGGCACTCATATAGA 59.103 40.000 0.00 0.00 38.49 1.98
3965 5746 5.591067 TCATTGCAGATCATGATTAAGTGCA 59.409 36.000 22.14 22.14 37.66 4.57
4036 5817 5.075493 AGAAAGTCATCCTCATTGCAAAGT 58.925 37.500 1.71 0.00 0.00 2.66
4137 5918 0.657312 CTTCAGCTGCACACGAAACA 59.343 50.000 9.47 0.00 0.00 2.83
4177 5958 2.420547 GGTCAGATGAAGCATAGCACCA 60.421 50.000 0.00 0.00 0.00 4.17
4345 6127 5.431420 TGACAAACATGCAACGTAATCTT 57.569 34.783 0.00 0.00 0.00 2.40
4359 6141 5.304686 ACAGAGGGAGTATTTGACAAACA 57.695 39.130 1.94 0.00 0.00 2.83
4476 6258 2.294233 GCTCTCCTGCATTTTTGTGTCA 59.706 45.455 0.00 0.00 0.00 3.58
4557 6339 1.080093 GTTGTCGCATCCGTCTCCA 60.080 57.895 0.00 0.00 35.54 3.86
4690 6472 2.787994 CAACAGTGGAGCCTTCTCATT 58.212 47.619 0.00 0.00 41.13 2.57
4691 6473 1.612726 GCAACAGTGGAGCCTTCTCAT 60.613 52.381 0.00 0.00 41.13 2.90
4693 6475 0.036022 AGCAACAGTGGAGCCTTCTC 59.964 55.000 5.56 0.00 38.62 2.87
4708 6494 0.612174 AGAGCCGTAGACCTCAGCAA 60.612 55.000 0.00 0.00 0.00 3.91
4964 6752 9.840427 ACACAAACTATAGCATAACAAAACATC 57.160 29.630 0.00 0.00 0.00 3.06
5136 7016 7.096551 GGCTAGATATTTTCTTGGCAAACAAA 58.903 34.615 0.00 3.68 46.94 2.83
5205 7086 8.345724 ACAATTTCTTGAATACTTGCATCTCT 57.654 30.769 0.00 0.00 36.20 3.10
5334 8981 7.230108 CAGAATTATATGTGCATCAGAGGGTTT 59.770 37.037 0.00 0.00 0.00 3.27
5394 9041 7.391148 TGGTTTATTCAGGCAGATCTTAAAC 57.609 36.000 12.49 12.49 31.95 2.01
5485 9133 2.807676 TGTGTAGAGATGGCTGACTGA 58.192 47.619 0.00 0.00 0.00 3.41
5532 9180 4.911514 AGTGAAACCTGCGTTGTAAATT 57.088 36.364 0.00 0.00 37.80 1.82
5533 9181 4.911514 AAGTGAAACCTGCGTTGTAAAT 57.088 36.364 0.00 0.00 37.80 1.40


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

AutoCloner maintained by Alex Coulton.