Multiple sequence alignment - TraesCS7A01G263400

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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 TraesCS7A01G263400 chr7A 100.000 5504 0 0 1 5504 260903288 260908791 0.000000e+00 10165.0
1 TraesCS7A01G263400 chr7A 85.593 118 10 3 5384 5498 238033849 238033736 3.480000e-22 117.0
2 TraesCS7A01G263400 chr7D 96.059 4238 128 19 519 4743 244770043 244774254 0.000000e+00 6865.0
3 TraesCS7A01G263400 chr7D 93.042 618 34 6 1 609 244769427 244770044 0.000000e+00 894.0
4 TraesCS7A01G263400 chr7D 87.282 401 25 16 4729 5107 244774327 244774723 8.470000e-118 435.0
5 TraesCS7A01G263400 chr7D 92.000 275 20 2 5105 5379 244791699 244791971 8.650000e-103 385.0
6 TraesCS7A01G263400 chr7D 90.580 138 8 2 5367 5504 244792898 244793030 1.580000e-40 178.0
7 TraesCS7A01G263400 chr7D 85.593 118 10 3 5384 5498 225837441 225837328 3.480000e-22 117.0
8 TraesCS7A01G263400 chr7B 93.989 4176 163 35 603 4743 220130996 220135118 0.000000e+00 6240.0
9 TraesCS7A01G263400 chr7B 93.532 603 36 3 1 600 220130315 220130917 0.000000e+00 894.0
10 TraesCS7A01G263400 chr7B 89.005 382 18 5 4740 5106 220140881 220141253 8.410000e-123 451.0
11 TraesCS7A01G263400 chr7B 87.336 229 14 3 4739 4953 220135215 220135442 1.180000e-61 248.0
12 TraesCS7A01G263400 chr7B 94.074 135 6 2 5190 5324 220141951 220142083 2.600000e-48 204.0
13 TraesCS7A01G263400 chr5D 92.308 65 5 0 4440 4504 396806764 396806828 5.870000e-15 93.5
14 TraesCS7A01G263400 chr5D 97.143 35 1 0 4710 4744 80707395 80707361 5.950000e-05 60.2
15 TraesCS7A01G263400 chr5B 92.308 65 5 0 4440 4504 476802508 476802572 5.870000e-15 93.5
16 TraesCS7A01G263400 chr5B 85.714 91 8 4 4712 4798 315928946 315928857 2.110000e-14 91.6
17 TraesCS7A01G263400 chr5B 97.143 35 1 0 4710 4744 89636161 89636127 5.950000e-05 60.2
18 TraesCS7A01G263400 chr5A 90.769 65 6 0 4440 4504 502376912 502376976 2.730000e-13 87.9
19 TraesCS7A01G263400 chr1B 97.500 40 1 0 4705 4744 116255479 116255440 9.890000e-08 69.4
20 TraesCS7A01G263400 chr1B 100.000 37 0 0 4705 4741 146942766 146942802 9.890000e-08 69.4
21 TraesCS7A01G263400 chr1D 82.051 78 10 1 4714 4787 489298858 489298935 4.600000e-06 63.9
22 TraesCS7A01G263400 chr6B 90.909 44 3 1 4711 4753 597080075 597080032 2.140000e-04 58.4


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 TraesCS7A01G263400 chr7A 260903288 260908791 5503 False 10165.000000 10165 100.000000 1 5504 1 chr7A.!!$F1 5503
1 TraesCS7A01G263400 chr7D 244769427 244774723 5296 False 2731.333333 6865 92.127667 1 5107 3 chr7D.!!$F1 5106
2 TraesCS7A01G263400 chr7D 244791699 244793030 1331 False 281.500000 385 91.290000 5105 5504 2 chr7D.!!$F2 399
3 TraesCS7A01G263400 chr7B 220130315 220135442 5127 False 2460.666667 6240 91.619000 1 4953 3 chr7B.!!$F1 4952
4 TraesCS7A01G263400 chr7B 220140881 220142083 1202 False 327.500000 451 91.539500 4740 5324 2 chr7B.!!$F2 584

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
614 701 0.375106 GTTAGCGATTGAGCCTGTGC 59.625 55.0 0.0 0.0 38.01 4.57 F
1333 1430 0.033601 TGTCCATATGCCCACAACCC 60.034 55.0 0.0 0.0 0.00 4.11 F
1334 1431 0.258774 GTCCATATGCCCACAACCCT 59.741 55.0 0.0 0.0 0.00 4.34 F
2896 3017 0.610687 CTGAGAAGACCCCACTCCAC 59.389 60.0 0.0 0.0 0.00 4.02 F
3680 3809 0.673437 ACACAAATGTTGGCCCGAAG 59.327 50.0 0.0 0.0 34.46 3.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1611 1708 2.481952 CTCAAAAGAACTGAGGCTTCCG 59.518 50.000 0.00 0.00 37.29 4.30 R
2827 2948 2.004583 TAACTCAAGATGGGAACGCG 57.995 50.000 3.53 3.53 0.00 6.01 R
3109 3235 3.609853 TGTGCATGATTCCTTAGGTGTC 58.390 45.455 0.00 0.00 0.00 3.67 R
4243 4372 0.539986 TGGTTACCTCGCCTTCATCC 59.460 55.000 2.07 0.00 0.00 3.51 R
5349 6274 0.318614 AACGCTGCAATTTTGGGTCG 60.319 50.000 0.00 0.00 0.00 4.79 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
61 62 4.046998 CGATTCGATTCGGCGGCG 62.047 66.667 27.15 27.15 35.50 6.46
117 118 0.839946 ATGGATGGACAGGCAGGTAC 59.160 55.000 0.00 0.00 0.00 3.34
118 119 1.271840 TGGATGGACAGGCAGGTACC 61.272 60.000 2.73 2.73 0.00 3.34
233 239 3.692406 GGTTCCGCAGTCCGTCCT 61.692 66.667 0.00 0.00 34.38 3.85
235 241 2.282958 TTCCGCAGTCCGTCCTCT 60.283 61.111 0.00 0.00 34.38 3.69
236 242 1.906824 TTCCGCAGTCCGTCCTCTT 60.907 57.895 0.00 0.00 34.38 2.85
305 311 7.120726 CCTGATTTCGGTAGTTTTGAGGTTTAT 59.879 37.037 0.00 0.00 0.00 1.40
340 347 4.710324 TGTTTGTTCGGGATTAACTGACT 58.290 39.130 0.00 0.00 0.00 3.41
359 366 5.316167 TGACTATGTCTTCATTTGTGCCTT 58.684 37.500 0.00 0.00 35.70 4.35
362 369 4.942761 ATGTCTTCATTTGTGCCTTGTT 57.057 36.364 0.00 0.00 0.00 2.83
458 469 4.180057 GCATCAGGCGGAAGATATAGAAG 58.820 47.826 0.00 0.00 0.00 2.85
516 527 4.604976 ACCGTAGCACGTAGTATTGATTC 58.395 43.478 7.68 0.00 41.61 2.52
517 528 3.662645 CCGTAGCACGTAGTATTGATTCG 59.337 47.826 7.68 0.00 41.61 3.34
582 593 8.274322 TCTATTCATGGGTTTAGTCATGTGATT 58.726 33.333 0.00 0.00 40.94 2.57
601 615 6.533723 TGTGATTGGTGTAAGAATAGTTAGCG 59.466 38.462 0.00 0.00 0.00 4.26
609 623 5.983720 TGTAAGAATAGTTAGCGATTGAGCC 59.016 40.000 0.00 0.00 38.01 4.70
611 625 4.626042 AGAATAGTTAGCGATTGAGCCTG 58.374 43.478 0.00 0.00 38.01 4.85
614 701 0.375106 GTTAGCGATTGAGCCTGTGC 59.625 55.000 0.00 0.00 38.01 4.57
728 820 1.163554 CTTGCTCAGGCTCCAAGTTC 58.836 55.000 9.68 0.00 39.59 3.01
746 838 2.462456 TCTGTGTCATCTCCAGTTGC 57.538 50.000 0.00 0.00 0.00 4.17
757 850 2.662596 CAGTTGCGGTAGCCAGGA 59.337 61.111 0.00 0.00 44.33 3.86
759 852 1.609501 AGTTGCGGTAGCCAGGAGA 60.610 57.895 0.00 0.00 44.33 3.71
763 856 2.496817 CGGTAGCCAGGAGAGCAC 59.503 66.667 0.00 0.00 0.00 4.40
802 895 2.109128 TGGTAACCTTGCTTCCAATGGA 59.891 45.455 0.00 0.00 0.00 3.41
848 941 1.613928 TGCCCTTCCGGTGGTGATA 60.614 57.895 0.00 0.00 0.00 2.15
877 971 5.716228 TCAATTGGTGATTTGTCTAGGCATT 59.284 36.000 5.42 0.00 0.00 3.56
947 1041 2.968574 CTGGATAGGTGTACTGCAGGAT 59.031 50.000 19.93 0.00 0.00 3.24
949 1043 2.965831 GGATAGGTGTACTGCAGGATCA 59.034 50.000 19.93 10.92 0.00 2.92
956 1050 4.941263 GGTGTACTGCAGGATCAATTACAA 59.059 41.667 19.93 0.00 0.00 2.41
973 1067 3.344535 ACAAATTGGGGGTCTTCCTTT 57.655 42.857 0.00 0.00 35.33 3.11
1074 1168 2.046892 CCTGTGTCAAGCCCCTCG 60.047 66.667 0.00 0.00 0.00 4.63
1311 1408 4.826183 AGATCTTCTCATAAATTGCAGCCC 59.174 41.667 0.00 0.00 0.00 5.19
1332 1429 1.392589 CTGTCCATATGCCCACAACC 58.607 55.000 0.00 0.00 0.00 3.77
1333 1430 0.033601 TGTCCATATGCCCACAACCC 60.034 55.000 0.00 0.00 0.00 4.11
1334 1431 0.258774 GTCCATATGCCCACAACCCT 59.741 55.000 0.00 0.00 0.00 4.34
1335 1432 1.006813 TCCATATGCCCACAACCCTT 58.993 50.000 0.00 0.00 0.00 3.95
1360 1457 3.181477 TGTGGGCTTTGAATCAAACTGTG 60.181 43.478 4.03 0.00 0.00 3.66
1503 1600 8.225603 TGAAAAATGTGCTCTCTAGAAAGTTT 57.774 30.769 0.00 0.00 0.00 2.66
2177 2274 9.436957 TCAGGTCTAATATTTCTTTCTGTTCAC 57.563 33.333 0.00 0.00 0.00 3.18
2896 3017 0.610687 CTGAGAAGACCCCACTCCAC 59.389 60.000 0.00 0.00 0.00 4.02
3012 3133 7.889873 TGAAGAAAACCAAAGGTTATTCTGA 57.110 32.000 18.27 10.90 46.20 3.27
3013 3134 8.477419 TGAAGAAAACCAAAGGTTATTCTGAT 57.523 30.769 18.27 9.99 46.20 2.90
3014 3135 9.581289 TGAAGAAAACCAAAGGTTATTCTGATA 57.419 29.630 18.27 10.57 46.20 2.15
3109 3235 4.706962 ACATTTTCCCTTAGCTTTAGCCTG 59.293 41.667 0.00 0.00 43.38 4.85
3158 3284 9.561069 AGTGTGTCCTCATGTTTTATATTATCC 57.439 33.333 0.00 0.00 0.00 2.59
3227 3354 8.111928 AGGAAGATTGAAAGAGGGAGAAATAT 57.888 34.615 0.00 0.00 0.00 1.28
3447 3576 5.999600 ACCATTTAGTGCGTACCTTAACTTT 59.000 36.000 0.00 0.00 0.00 2.66
3475 3604 2.516906 TCATGGCATGCACAGAGAAAA 58.483 42.857 22.56 0.00 0.00 2.29
3476 3605 3.093814 TCATGGCATGCACAGAGAAAAT 58.906 40.909 22.56 0.00 0.00 1.82
3477 3606 4.271661 TCATGGCATGCACAGAGAAAATA 58.728 39.130 22.56 0.00 0.00 1.40
3546 3675 5.775195 CCACCTTTTGTTTTCTCTATCCCTT 59.225 40.000 0.00 0.00 0.00 3.95
3634 3763 4.715297 TCCCACTGTTTCTCCCTCTAATAC 59.285 45.833 0.00 0.00 0.00 1.89
3680 3809 0.673437 ACACAAATGTTGGCCCGAAG 59.327 50.000 0.00 0.00 34.46 3.79
4039 4168 1.278985 TGTGCGTCTTCCAGGATCAAT 59.721 47.619 0.00 0.00 0.00 2.57
4105 4234 4.082523 CTCTGCCCCGCCTCGAAA 62.083 66.667 0.00 0.00 0.00 3.46
4156 4285 2.957474 TCCGATCCATCATCTGTACCA 58.043 47.619 0.00 0.00 0.00 3.25
4170 4299 1.484653 TGTACCACAGAGCGGCAATAT 59.515 47.619 1.45 0.00 0.00 1.28
4360 4489 9.569122 TTTAGAAGACCTATGCTAAAGTTTGTT 57.431 29.630 0.00 0.00 31.40 2.83
4389 4518 5.817816 AGCTTACGCATAAATAGTTGCTCTT 59.182 36.000 0.00 0.00 39.10 2.85
4402 4531 5.343307 AGTTGCTCTTTTGTTGGTTGATT 57.657 34.783 0.00 0.00 0.00 2.57
4708 4838 2.365617 GGGTCATCGTCCATATGTCTGT 59.634 50.000 1.24 0.00 0.00 3.41
4725 4855 0.257039 TGTAGTACTCCCTCCGTCCC 59.743 60.000 0.00 0.00 0.00 4.46
4741 4976 4.403432 TCCGTCCCGAATTACTTGTCTTAT 59.597 41.667 0.00 0.00 0.00 1.73
4793 5028 3.256704 ACAGGTAATTTGGGACAGAGGA 58.743 45.455 0.00 0.00 42.39 3.71
4807 5042 6.159575 TGGGACAGAGGAAATACAATATTCCA 59.840 38.462 7.25 0.00 46.14 3.53
4854 5089 1.561542 CCCCATGCTTGGAGTACTCTT 59.438 52.381 21.88 0.00 46.92 2.85
4861 5108 3.901844 TGCTTGGAGTACTCTTGGTAAGT 59.098 43.478 21.88 0.00 31.56 2.24
5050 5328 7.301054 CCCATTTACGATATCAGCTTGAATTC 58.699 38.462 3.12 0.00 0.00 2.17
5073 5351 6.061441 TCATCCTTTTGTTTCTCAAGCTACA 58.939 36.000 0.00 0.00 37.35 2.74
5074 5352 6.545666 TCATCCTTTTGTTTCTCAAGCTACAA 59.454 34.615 0.00 0.00 37.35 2.41
5141 6066 8.589335 TCAACTAAAGATACACAAGTTCTCAC 57.411 34.615 0.00 0.00 0.00 3.51
5148 6073 9.701098 AAAGATACACAAGTTCTCACGTATTAA 57.299 29.630 0.00 0.00 0.00 1.40
5172 6097 5.477510 TGAAAACAAAAGCAGTCACACAAT 58.522 33.333 0.00 0.00 0.00 2.71
5179 6104 5.574891 AAAGCAGTCACACAATGTGTTTA 57.425 34.783 17.31 5.23 45.08 2.01
5267 6192 1.605710 GGCATCATTTGGTGATCTCCG 59.394 52.381 9.20 0.00 45.76 4.63
5309 6234 2.283449 GCGTTGTTTTGAAAACACGACG 60.283 45.455 29.16 29.16 46.66 5.12
5340 6265 1.804748 CAGGGAGCCGTAAAACAGAAC 59.195 52.381 0.00 0.00 0.00 3.01
5346 6271 4.226761 GAGCCGTAAAACAGAACAATTGG 58.773 43.478 10.83 0.00 0.00 3.16
5389 7253 8.546244 AGCGTTTGAGTAGTTTAGTTTAGTTTC 58.454 33.333 0.00 0.00 0.00 2.78
5396 7260 5.668558 AGTTTAGTTTAGTTTCCAGCACG 57.331 39.130 0.00 0.00 0.00 5.34
5397 7261 4.024302 AGTTTAGTTTAGTTTCCAGCACGC 60.024 41.667 0.00 0.00 0.00 5.34
5398 7262 2.256117 AGTTTAGTTTCCAGCACGCT 57.744 45.000 0.00 0.00 0.00 5.07
5399 7263 2.143925 AGTTTAGTTTCCAGCACGCTC 58.856 47.619 0.00 0.00 0.00 5.03
5431 7295 9.694137 TTTTGACTCGGAAACTTTTTAAGAAAA 57.306 25.926 0.00 0.00 33.86 2.29
5487 7351 6.814644 TGGTAATACGACTTTGTAGACAATGG 59.185 38.462 11.60 4.48 35.91 3.16
5499 7363 0.803380 GACAATGGATGCTTTGCCGC 60.803 55.000 11.98 0.29 0.00 6.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
72 73 4.713321 AGCCAAATGGATTAATCAACAGCT 59.287 37.500 17.07 12.81 37.39 4.24
117 118 2.186826 CAAGCCGGCGATAAAGGGG 61.187 63.158 23.20 0.00 0.00 4.79
118 119 0.179067 TACAAGCCGGCGATAAAGGG 60.179 55.000 23.20 7.92 0.00 3.95
179 184 0.898326 AGAACCAAATTCCCCACCGC 60.898 55.000 0.00 0.00 38.16 5.68
233 239 6.630413 CGAGGAAATGAGAGACCCAAATAAGA 60.630 42.308 0.00 0.00 0.00 2.10
235 241 5.188948 TCGAGGAAATGAGAGACCCAAATAA 59.811 40.000 0.00 0.00 0.00 1.40
236 242 4.714802 TCGAGGAAATGAGAGACCCAAATA 59.285 41.667 0.00 0.00 0.00 1.40
274 280 3.914426 AACTACCGAAATCAGGAGCAT 57.086 42.857 0.00 0.00 0.00 3.79
281 287 7.120138 GGATAAACCTCAAAACTACCGAAATCA 59.880 37.037 0.00 0.00 35.41 2.57
305 311 2.291209 ACAAACAGACATGCATGGGA 57.709 45.000 29.41 0.00 0.00 4.37
340 347 6.215121 CAAACAAGGCACAAATGAAGACATA 58.785 36.000 0.00 0.00 35.50 2.29
359 366 1.271871 CCACTCCATACTGCCCAAACA 60.272 52.381 0.00 0.00 0.00 2.83
362 369 0.911769 CTCCACTCCATACTGCCCAA 59.088 55.000 0.00 0.00 0.00 4.12
458 469 0.520847 GGAGAAGCAAGCTTGTCAGC 59.479 55.000 26.50 13.09 44.87 4.26
467 478 7.441017 ACTATATTTAGCTCAGGAGAAGCAAG 58.559 38.462 0.00 0.00 0.00 4.01
471 482 8.024285 CGGTTACTATATTTAGCTCAGGAGAAG 58.976 40.741 0.00 0.00 0.00 2.85
516 527 3.801050 CACTACATGATGAAGAGAAGCCG 59.199 47.826 0.00 0.00 0.00 5.52
517 528 4.125703 CCACTACATGATGAAGAGAAGCC 58.874 47.826 0.00 0.00 0.00 4.35
582 593 6.869695 TCAATCGCTAACTATTCTTACACCA 58.130 36.000 0.00 0.00 0.00 4.17
601 615 1.378250 AGCAGGCACAGGCTCAATC 60.378 57.895 0.00 0.00 36.55 2.67
728 820 1.073964 CGCAACTGGAGATGACACAG 58.926 55.000 0.00 0.00 38.19 3.66
746 838 2.496817 GTGCTCTCCTGGCTACCG 59.503 66.667 0.00 0.00 0.00 4.02
757 850 2.100197 TGCCACTACTAATCGTGCTCT 58.900 47.619 0.00 0.00 0.00 4.09
759 852 2.496070 TCTTGCCACTACTAATCGTGCT 59.504 45.455 0.00 0.00 0.00 4.40
763 856 4.060038 ACCATCTTGCCACTACTAATCG 57.940 45.455 0.00 0.00 0.00 3.34
848 941 6.209391 CCTAGACAAATCACCAATTGAAACCT 59.791 38.462 7.12 0.00 37.92 3.50
877 971 3.229293 TGCCATTTCAGTGTCCAAATCA 58.771 40.909 0.00 0.00 0.00 2.57
947 1041 4.775253 GGAAGACCCCCAATTTGTAATTGA 59.225 41.667 12.43 0.00 0.00 2.57
949 1043 5.023514 AGGAAGACCCCCAATTTGTAATT 57.976 39.130 0.00 0.00 36.73 1.40
956 1050 2.525368 CGAAAAGGAAGACCCCCAATT 58.475 47.619 0.00 0.00 36.73 2.32
973 1067 6.499172 CAACTAATCTCTGATACTCAGCGAA 58.501 40.000 1.38 0.00 40.99 4.70
1311 1408 0.747644 TTGTGGGCATATGGACAGCG 60.748 55.000 4.56 0.00 0.00 5.18
1332 1429 2.364970 TGATTCAAAGCCCACAACAAGG 59.635 45.455 0.00 0.00 0.00 3.61
1333 1430 3.731652 TGATTCAAAGCCCACAACAAG 57.268 42.857 0.00 0.00 0.00 3.16
1334 1431 4.081198 AGTTTGATTCAAAGCCCACAACAA 60.081 37.500 12.02 0.00 33.82 2.83
1335 1432 3.450457 AGTTTGATTCAAAGCCCACAACA 59.550 39.130 12.02 0.00 33.82 3.33
1360 1457 1.555075 TGCTGTATCAGGACCTCCAAC 59.445 52.381 0.00 0.00 38.89 3.77
1503 1600 6.124340 AGCAATATTCAGTGAATCACCATGA 58.876 36.000 21.49 5.51 34.49 3.07
1554 1651 4.157246 TGTAGAGTTTCTTACCTGGCTCA 58.843 43.478 0.00 0.00 0.00 4.26
1611 1708 2.481952 CTCAAAAGAACTGAGGCTTCCG 59.518 50.000 0.00 0.00 37.29 4.30
1740 1837 9.891828 GCTAGATGATCATAATAGGATAACGAG 57.108 37.037 20.85 8.59 0.00 4.18
1976 2073 7.466804 ACATGAACTTCTTTTAGGGGTCATAA 58.533 34.615 0.00 0.00 0.00 1.90
2177 2274 9.179909 CCTGGAACTGTAGTATATACTAGATGG 57.820 40.741 20.62 12.18 39.29 3.51
2196 2294 4.015872 TCAACAGTCAATACCCTGGAAC 57.984 45.455 0.00 0.00 32.90 3.62
2632 2753 5.350365 CCAAAATGGCTTGTCAAATGAGATG 59.650 40.000 0.00 0.00 0.00 2.90
2805 2926 8.662141 ACGCGTATAACAACTCAATAGAATTTT 58.338 29.630 11.67 0.00 0.00 1.82
2811 2932 5.051240 GGGAACGCGTATAACAACTCAATAG 60.051 44.000 14.46 0.00 0.00 1.73
2827 2948 2.004583 TAACTCAAGATGGGAACGCG 57.995 50.000 3.53 3.53 0.00 6.01
2896 3017 3.990469 AGTCGTAGTTGCAGAAGAATGTG 59.010 43.478 0.00 0.00 0.00 3.21
3010 3131 7.598118 CACATTTGTGTTTTGGTGCTAATATCA 59.402 33.333 2.48 0.00 40.96 2.15
3011 3132 7.952339 CACATTTGTGTTTTGGTGCTAATATC 58.048 34.615 2.48 0.00 40.96 1.63
3012 3133 7.887996 CACATTTGTGTTTTGGTGCTAATAT 57.112 32.000 2.48 0.00 40.96 1.28
3109 3235 3.609853 TGTGCATGATTCCTTAGGTGTC 58.390 45.455 0.00 0.00 0.00 3.67
3435 3564 9.043079 GCCATGATACTTCTAAAGTTAAGGTAC 57.957 37.037 0.00 0.00 42.81 3.34
3447 3576 4.101430 TCTGTGCATGCCATGATACTTCTA 59.899 41.667 16.68 0.00 0.00 2.10
3634 3763 4.336433 TGGTCTTGCTTTCTTCTTTCACTG 59.664 41.667 0.00 0.00 0.00 3.66
3680 3809 1.436600 CACATGAGACACACTGAGCC 58.563 55.000 0.00 0.00 0.00 4.70
3791 3920 9.784531 AAAGACAAAGAAATAATCAGAGACTCA 57.215 29.630 5.02 0.00 0.00 3.41
3856 3985 3.067106 TGTGCGTCTCTTTTCTGATTCC 58.933 45.455 0.00 0.00 0.00 3.01
4039 4168 1.754745 GCCTCCACCTGAACTGTCA 59.245 57.895 0.00 0.00 0.00 3.58
4105 4234 7.865706 ACGTAGCATAGATTTTGAGGATTTT 57.134 32.000 0.00 0.00 0.00 1.82
4156 4285 0.541392 TCACCATATTGCCGCTCTGT 59.459 50.000 0.00 0.00 0.00 3.41
4159 4288 0.940126 CAGTCACCATATTGCCGCTC 59.060 55.000 0.00 0.00 0.00 5.03
4170 4299 3.981516 ATCTCCTATCCTCAGTCACCA 57.018 47.619 0.00 0.00 0.00 4.17
4237 4366 1.068753 CTCGCCTTCATCCGCATCT 59.931 57.895 0.00 0.00 0.00 2.90
4243 4372 0.539986 TGGTTACCTCGCCTTCATCC 59.460 55.000 2.07 0.00 0.00 3.51
4389 4518 5.694006 CGAATTTAGCCAATCAACCAACAAA 59.306 36.000 0.00 0.00 0.00 2.83
4402 4531 5.049680 GCGATTAAATCCTCGAATTTAGCCA 60.050 40.000 0.51 0.00 37.05 4.75
4543 4673 2.000447 AGAGTTTTCGCTTATCGGTGC 59.000 47.619 0.00 0.00 39.05 5.01
4553 4683 8.609176 TGGAATAAATATGTACAGAGTTTTCGC 58.391 33.333 8.61 7.42 0.00 4.70
4775 5010 6.184789 TGTATTTCCTCTGTCCCAAATTACC 58.815 40.000 0.00 0.00 0.00 2.85
4807 5042 7.492524 ACACGATACACAATACTTCATGATCT 58.507 34.615 0.00 0.00 0.00 2.75
4817 5052 3.864243 TGGGGAACACGATACACAATAC 58.136 45.455 0.00 0.00 0.00 1.89
4854 5089 3.433274 CGACTGAGTACGTACACTTACCA 59.567 47.826 26.55 12.78 0.00 3.25
4861 5108 4.550577 TTTTCACGACTGAGTACGTACA 57.449 40.909 26.55 7.09 40.76 2.90
4900 5177 9.646427 GATGATTGTTCTATGTAGTTCCTATCC 57.354 37.037 0.00 0.00 0.00 2.59
4940 5217 7.596749 AGTATGTGTTTTAGTCTTGGATTCG 57.403 36.000 0.00 0.00 0.00 3.34
5034 5312 8.411683 ACAAAAGGATGAATTCAAGCTGATATC 58.588 33.333 13.09 2.55 0.00 1.63
5050 5328 6.317789 TGTAGCTTGAGAAACAAAAGGATG 57.682 37.500 0.00 0.00 38.08 3.51
5130 6055 8.832521 TGTTTTCATTAATACGTGAGAACTTGT 58.167 29.630 0.00 0.00 39.10 3.16
5135 6060 9.176181 GCTTTTGTTTTCATTAATACGTGAGAA 57.824 29.630 0.00 0.00 0.00 2.87
5139 6064 8.280909 ACTGCTTTTGTTTTCATTAATACGTG 57.719 30.769 0.00 0.00 0.00 4.49
5141 6066 8.417176 GTGACTGCTTTTGTTTTCATTAATACG 58.583 33.333 0.00 0.00 0.00 3.06
5147 6072 5.477510 TGTGTGACTGCTTTTGTTTTCATT 58.522 33.333 0.00 0.00 0.00 2.57
5148 6073 5.070770 TGTGTGACTGCTTTTGTTTTCAT 57.929 34.783 0.00 0.00 0.00 2.57
5172 6097 5.361285 ACCTTGTGTGCCTTAAATAAACACA 59.639 36.000 2.98 2.98 46.81 3.72
5179 6104 9.651913 CATTAATAAACCTTGTGTGCCTTAAAT 57.348 29.630 0.00 0.00 0.00 1.40
5267 6192 9.162793 CAACGCATATAAGTTTGAGATCATTTC 57.837 33.333 0.00 0.00 0.00 2.17
5346 6271 1.418373 GCTGCAATTTTGGGTCGAAC 58.582 50.000 0.00 0.00 0.00 3.95
5349 6274 0.318614 AACGCTGCAATTTTGGGTCG 60.319 50.000 0.00 0.00 0.00 4.79
5352 6277 1.794116 CTCAAACGCTGCAATTTTGGG 59.206 47.619 14.64 9.92 32.20 4.12
5354 6279 4.290155 ACTACTCAAACGCTGCAATTTTG 58.710 39.130 0.00 6.27 0.00 2.44
5389 7253 1.788308 CAAAACAATTGAGCGTGCTGG 59.212 47.619 13.59 0.00 0.00 4.85
5396 7260 3.896648 TCCGAGTCAAAACAATTGAGC 57.103 42.857 13.59 0.00 0.00 4.26
5397 7261 5.821204 AGTTTCCGAGTCAAAACAATTGAG 58.179 37.500 13.59 0.00 37.74 3.02
5398 7262 5.828299 AGTTTCCGAGTCAAAACAATTGA 57.172 34.783 13.59 0.00 37.74 2.57
5399 7263 6.885735 AAAGTTTCCGAGTCAAAACAATTG 57.114 33.333 16.31 3.24 37.74 2.32
5431 7295 0.324943 CACCGACCCAAACATCTCCT 59.675 55.000 0.00 0.00 0.00 3.69
5458 7322 3.581024 ACAAAGTCGTATTACCAGCGA 57.419 42.857 0.00 0.00 0.00 4.93
5463 7327 7.037438 TCCATTGTCTACAAAGTCGTATTACC 58.963 38.462 0.00 0.00 39.55 2.85
5475 7339 3.193267 GGCAAAGCATCCATTGTCTACAA 59.807 43.478 0.00 0.00 40.51 2.41
5476 7340 2.754552 GGCAAAGCATCCATTGTCTACA 59.245 45.455 0.00 0.00 0.00 2.74


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

AutoCloner maintained by Alex Coulton.