Multiple sequence alignment - TraesCS1D01G253100

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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 TraesCS1D01G253100 chr1D 100.000 4403 0 0 1 4403 345380395 345375993 0.000000e+00 8131.0
1 TraesCS1D01G253100 chr1D 95.130 3224 135 12 489 3693 311685181 311688401 0.000000e+00 5064.0
2 TraesCS1D01G253100 chr1A 95.070 2982 136 7 719 3693 391842273 391845250 0.000000e+00 4682.0
3 TraesCS1D01G253100 chr1A 94.513 3007 138 15 489 3469 391675628 391678633 0.000000e+00 4614.0
4 TraesCS1D01G253100 chr1A 95.161 2645 113 6 825 3469 391694081 391696710 0.000000e+00 4161.0
5 TraesCS1D01G253100 chr1A 95.123 2645 116 5 825 3469 391791567 391794198 0.000000e+00 4157.0
6 TraesCS1D01G253100 chr1A 98.361 671 11 0 3733 4403 445504180 445503510 0.000000e+00 1179.0
7 TraesCS1D01G253100 chr1A 93.790 628 22 9 1 623 391841655 391842270 0.000000e+00 928.0
8 TraesCS1D01G253100 chr1A 93.475 613 23 9 16 623 391760613 391761213 0.000000e+00 894.0
9 TraesCS1D01G253100 chr1A 89.954 219 17 2 546 759 391693826 391694044 1.210000e-70 278.0
10 TraesCS1D01G253100 chr1A 89.954 219 17 2 546 759 391791312 391791530 1.210000e-70 278.0
11 TraesCS1D01G253100 chr1A 89.593 221 18 2 544 759 391733387 391733607 4.340000e-70 276.0
12 TraesCS1D01G253100 chr1A 88.811 143 15 1 274 415 391848720 391848862 1.630000e-39 174.0
13 TraesCS1D01G253100 chr1A 89.831 59 3 2 58 116 495446314 495446259 6.110000e-09 73.1
14 TraesCS1D01G253100 chr1B 94.450 2973 126 21 469 3423 421422022 421424973 0.000000e+00 4540.0
15 TraesCS1D01G253100 chr1B 95.160 2872 128 7 825 3693 421531372 421534235 0.000000e+00 4523.0
16 TraesCS1D01G253100 chr1B 93.523 2887 160 16 825 3692 421494341 421497219 0.000000e+00 4270.0
17 TraesCS1D01G253100 chr1B 91.853 1792 116 14 1920 3692 421452509 421454289 0.000000e+00 2473.0
18 TraesCS1D01G253100 chr1B 89.270 1575 108 30 366 1933 421440186 421441706 0.000000e+00 1916.0
19 TraesCS1D01G253100 chr1B 99.255 671 5 0 3733 4403 465387726 465388396 0.000000e+00 1212.0
20 TraesCS1D01G253100 chr1B 86.792 371 27 10 309 664 421493862 421494225 1.150000e-105 394.0
21 TraesCS1D01G253100 chr1B 88.889 243 14 7 435 664 421531014 421531256 2.000000e-73 287.0
22 TraesCS1D01G253100 chr1B 87.500 128 9 1 309 436 421528885 421529005 1.650000e-29 141.0
23 TraesCS1D01G253100 chr1B 94.545 55 3 0 60 114 404967573 404967519 7.850000e-13 86.1
24 TraesCS1D01G253100 chrUn 95.049 2646 103 7 825 3461 920075 917449 0.000000e+00 4137.0
25 TraesCS1D01G253100 chrUn 89.140 221 19 2 544 759 920332 920112 2.020000e-68 270.0
26 TraesCS1D01G253100 chr6A 91.619 525 39 2 3884 4403 15543271 15542747 0.000000e+00 721.0
27 TraesCS1D01G253100 chr6A 90.184 489 45 1 3899 4384 15456662 15457150 6.210000e-178 634.0
28 TraesCS1D01G253100 chr6D 91.287 505 41 1 3902 4403 14242079 14241575 0.000000e+00 686.0
29 TraesCS1D01G253100 chr6D 90.000 490 46 1 3899 4385 14201216 14201705 8.040000e-177 630.0
30 TraesCS1D01G253100 chr6D 88.753 489 52 1 3900 4385 14230595 14231083 2.930000e-166 595.0
31 TraesCS1D01G253100 chr6D 94.340 53 2 1 63 114 467150662 467150610 3.650000e-11 80.5
32 TraesCS1D01G253100 chr6B 89.328 506 49 3 3902 4403 26005429 26004925 8.040000e-177 630.0
33 TraesCS1D01G253100 chr6B 89.775 489 47 1 3899 4384 25971698 25972186 1.340000e-174 623.0
34 TraesCS1D01G253100 chr4D 93.651 63 4 0 63 125 277378601 277378539 1.300000e-15 95.3
35 TraesCS1D01G253100 chr4B 96.296 54 2 0 63 116 621432501 621432448 6.070000e-14 89.8
36 TraesCS1D01G253100 chr3D 91.045 67 4 2 63 128 533921957 533922022 6.070000e-14 89.8
37 TraesCS1D01G253100 chr2B 91.803 61 3 2 60 118 742820327 742820267 2.820000e-12 84.2


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 TraesCS1D01G253100 chr1D 345375993 345380395 4402 True 8131.000000 8131 100.000000 1 4403 1 chr1D.!!$R1 4402
1 TraesCS1D01G253100 chr1D 311685181 311688401 3220 False 5064.000000 5064 95.130000 489 3693 1 chr1D.!!$F1 3204
2 TraesCS1D01G253100 chr1A 391675628 391678633 3005 False 4614.000000 4614 94.513000 489 3469 1 chr1A.!!$F1 2980
3 TraesCS1D01G253100 chr1A 391693826 391696710 2884 False 2219.500000 4161 92.557500 546 3469 2 chr1A.!!$F4 2923
4 TraesCS1D01G253100 chr1A 391791312 391794198 2886 False 2217.500000 4157 92.538500 546 3469 2 chr1A.!!$F5 2923
5 TraesCS1D01G253100 chr1A 391841655 391848862 7207 False 1928.000000 4682 92.557000 1 3693 3 chr1A.!!$F6 3692
6 TraesCS1D01G253100 chr1A 445503510 445504180 670 True 1179.000000 1179 98.361000 3733 4403 1 chr1A.!!$R1 670
7 TraesCS1D01G253100 chr1A 391760613 391761213 600 False 894.000000 894 93.475000 16 623 1 chr1A.!!$F3 607
8 TraesCS1D01G253100 chr1B 421422022 421424973 2951 False 4540.000000 4540 94.450000 469 3423 1 chr1B.!!$F1 2954
9 TraesCS1D01G253100 chr1B 421452509 421454289 1780 False 2473.000000 2473 91.853000 1920 3692 1 chr1B.!!$F3 1772
10 TraesCS1D01G253100 chr1B 421493862 421497219 3357 False 2332.000000 4270 90.157500 309 3692 2 chr1B.!!$F5 3383
11 TraesCS1D01G253100 chr1B 421440186 421441706 1520 False 1916.000000 1916 89.270000 366 1933 1 chr1B.!!$F2 1567
12 TraesCS1D01G253100 chr1B 421528885 421534235 5350 False 1650.333333 4523 90.516333 309 3693 3 chr1B.!!$F6 3384
13 TraesCS1D01G253100 chr1B 465387726 465388396 670 False 1212.000000 1212 99.255000 3733 4403 1 chr1B.!!$F4 670
14 TraesCS1D01G253100 chrUn 917449 920332 2883 True 2203.500000 4137 92.094500 544 3461 2 chrUn.!!$R1 2917
15 TraesCS1D01G253100 chr6A 15542747 15543271 524 True 721.000000 721 91.619000 3884 4403 1 chr6A.!!$R1 519
16 TraesCS1D01G253100 chr6D 14241575 14242079 504 True 686.000000 686 91.287000 3902 4403 1 chr6D.!!$R1 501
17 TraesCS1D01G253100 chr6B 26004925 26005429 504 True 630.000000 630 89.328000 3902 4403 1 chr6B.!!$R1 501

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 2652 0.030235 CGTAGCCGTCCATCGAATCA 59.970 55.0 0.00 0.0 42.86 2.57 F
733 2784 0.107800 CTCCTCGACCGTCTCCTACA 60.108 60.0 0.00 0.0 0.00 2.74 F
1435 3494 1.033574 CTTCCTCGAGGCCTATCGTT 58.966 55.0 27.39 0.0 43.20 3.85 F
2667 4727 0.179234 TGTGGTTTGGTGAGAGCGAA 59.821 50.0 0.00 0.0 0.00 4.70 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2379 4439 0.677288 TTTCACGAAGAGCGGAAGGA 59.323 50.0 0.00 0.00 46.49 3.36 R
2464 4524 1.271856 TATTGGACGGTCTCCTGCAA 58.728 50.0 8.23 3.82 40.26 4.08 R
3150 5219 0.462759 CGTCTTCCTCCATGGCTTCC 60.463 60.0 6.96 0.00 35.26 3.46 R
3707 5802 0.037590 GTGTTGGCTGGGTGTATGGA 59.962 55.0 0.00 0.00 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
72 73 3.700038 ACAGTGATAAAGTACTCCCTCCG 59.300 47.826 0.00 0.00 0.00 4.63
90 91 4.564821 CCTCCGTCCCAAAATAAGTTGAGA 60.565 45.833 0.00 0.00 0.00 3.27
125 126 6.052405 AGACGGAGGGAGTAGTATATACAG 57.948 45.833 15.18 0.00 0.00 2.74
126 127 5.547276 AGACGGAGGGAGTAGTATATACAGT 59.453 44.000 15.18 4.36 0.00 3.55
127 128 6.728164 AGACGGAGGGAGTAGTATATACAGTA 59.272 42.308 15.18 0.00 0.00 2.74
128 129 7.402650 AGACGGAGGGAGTAGTATATACAGTAT 59.597 40.741 15.18 0.00 0.00 2.12
129 130 8.615360 ACGGAGGGAGTAGTATATACAGTATA 57.385 38.462 15.18 2.62 0.00 1.47
153 154 7.914427 ATTACAACACCAGGAGTATATGAGA 57.086 36.000 0.00 0.00 0.00 3.27
154 155 5.599999 ACAACACCAGGAGTATATGAGAC 57.400 43.478 0.00 0.00 0.00 3.36
203 204 3.855379 GCGTAACGTCATGTCAGATACAA 59.145 43.478 0.00 0.00 42.70 2.41
205 206 5.093457 CGTAACGTCATGTCAGATACAACT 58.907 41.667 0.00 0.00 42.70 3.16
292 294 6.684686 TGGTGTACTACTAGAACATGACAAC 58.315 40.000 0.00 0.00 0.00 3.32
327 330 7.912773 GCTATTTCTTCTCAAAAGTTAGCATCC 59.087 37.037 0.00 0.00 32.01 3.51
421 431 6.477053 AGCTGCAGAATCTATCAACTTCTA 57.523 37.500 20.43 0.00 0.00 2.10
541 2564 7.716612 AGCTTCAGTTAACTGTTAAATTTGCT 58.283 30.769 29.83 22.84 44.12 3.91
614 2652 0.030235 CGTAGCCGTCCATCGAATCA 59.970 55.000 0.00 0.00 42.86 2.57
630 2673 0.394352 ATCATTTTCTTCCCGCGCCT 60.394 50.000 0.00 0.00 0.00 5.52
707 2754 3.732938 GGGTCCTGAGCCTGACAT 58.267 61.111 8.11 0.00 45.14 3.06
733 2784 0.107800 CTCCTCGACCGTCTCCTACA 60.108 60.000 0.00 0.00 0.00 2.74
782 2838 3.637273 GCAGAAGACCCACCCCGT 61.637 66.667 0.00 0.00 0.00 5.28
953 3011 2.004733 GGATCGTTTACCCACTTTCCG 58.995 52.381 0.00 0.00 0.00 4.30
1282 3340 1.079057 GTCCGGAAGAACCTGAGGC 60.079 63.158 5.23 0.00 32.74 4.70
1368 3426 4.456253 CTCCCCGTCGACGACACG 62.456 72.222 37.65 20.95 43.02 4.49
1399 3458 1.595929 GCCGGAAACCTGTTCGACA 60.596 57.895 5.05 0.00 0.00 4.35
1435 3494 1.033574 CTTCCTCGAGGCCTATCGTT 58.966 55.000 27.39 0.00 43.20 3.85
1596 3655 1.527380 GGACGAGGAGAGGCTCGAT 60.527 63.158 9.22 0.00 44.85 3.59
1626 3685 4.478195 GACGATGTCGGTGGAGTG 57.522 61.111 7.38 0.00 44.95 3.51
1686 3746 3.774528 CTGCGCCACCCTCAGCTA 61.775 66.667 4.18 0.00 0.00 3.32
1761 3821 1.153349 GACCGGCAAGACCCTCATC 60.153 63.158 0.00 0.00 33.26 2.92
2055 4115 2.444700 CTACCAACCGCCCGAACAGT 62.445 60.000 0.00 0.00 0.00 3.55
2109 4169 1.069765 CCGGGAGATCGACATTGGG 59.930 63.158 0.00 0.00 0.00 4.12
2179 4239 7.148188 CCAAAAACATGAAGCTAGCTGAAGATA 60.148 37.037 20.16 1.66 0.00 1.98
2379 4439 2.584835 TTGCACTAGGGACAAGCAAT 57.415 45.000 0.00 0.00 39.95 3.56
2403 4463 1.202486 TCCGCTCTTCGTGAAACTGTT 60.202 47.619 0.00 0.00 36.19 3.16
2449 4509 2.030027 AGATGTTGGTGGTCTGGAGA 57.970 50.000 0.00 0.00 0.00 3.71
2464 4524 2.370189 CTGGAGAGTGTCAAAAGGGAGT 59.630 50.000 0.00 0.00 0.00 3.85
2667 4727 0.179234 TGTGGTTTGGTGAGAGCGAA 59.821 50.000 0.00 0.00 0.00 4.70
2727 4787 2.508526 GCACCATGTGTCCTCTTCTTT 58.491 47.619 0.00 0.00 35.75 2.52
2799 4859 2.109181 GGTGCCGCTGATAGGGTC 59.891 66.667 0.00 0.00 0.00 4.46
2808 4868 2.103094 CGCTGATAGGGTCCTGAATCAA 59.897 50.000 0.00 0.00 0.00 2.57
2938 4998 7.222872 CCTTGATCAGCTTATCTACATTCCTT 58.777 38.462 9.25 0.00 0.00 3.36
2964 5033 0.400213 ACGTTGAATCCAGGCTCCAA 59.600 50.000 0.00 0.00 0.00 3.53
3150 5219 2.978018 GCGGCTGAAGGAAAACCCG 61.978 63.158 0.00 0.00 40.87 5.28
3357 5426 1.021390 CCGCTGCGACAGATCCTTTT 61.021 55.000 25.45 0.00 32.44 2.27
3474 5543 3.322541 TGTAAGACACGGGAAGAACATGA 59.677 43.478 0.00 0.00 0.00 3.07
3621 5710 5.517054 GCGGTACAATTCTCTTGTTCTCTAG 59.483 44.000 0.00 0.00 34.11 2.43
3698 5793 7.833786 TCTTCTTTTAAATGTACTAGCTCCGA 58.166 34.615 0.00 0.00 0.00 4.55
3699 5794 7.758528 TCTTCTTTTAAATGTACTAGCTCCGAC 59.241 37.037 0.00 0.00 0.00 4.79
3700 5795 6.927416 TCTTTTAAATGTACTAGCTCCGACA 58.073 36.000 0.00 0.00 0.00 4.35
3701 5796 7.380536 TCTTTTAAATGTACTAGCTCCGACAA 58.619 34.615 0.00 0.00 0.00 3.18
3702 5797 8.038944 TCTTTTAAATGTACTAGCTCCGACAAT 58.961 33.333 0.00 0.00 0.00 2.71
3703 5798 7.534085 TTTAAATGTACTAGCTCCGACAATG 57.466 36.000 0.00 0.00 0.00 2.82
3704 5799 5.339008 AAATGTACTAGCTCCGACAATGA 57.661 39.130 0.00 0.00 0.00 2.57
3707 5802 4.207955 TGTACTAGCTCCGACAATGATCT 58.792 43.478 0.00 0.00 0.00 2.75
3708 5803 4.276183 TGTACTAGCTCCGACAATGATCTC 59.724 45.833 0.00 0.00 0.00 2.75
3712 5807 3.234353 AGCTCCGACAATGATCTCCATA 58.766 45.455 0.00 0.00 34.45 2.74
3713 5808 3.006323 AGCTCCGACAATGATCTCCATAC 59.994 47.826 0.00 0.00 34.45 2.39
3714 5809 3.243873 GCTCCGACAATGATCTCCATACA 60.244 47.826 0.00 0.00 34.45 2.29
3715 5810 4.302455 CTCCGACAATGATCTCCATACAC 58.698 47.826 0.00 0.00 34.45 2.90
3716 5811 3.069586 TCCGACAATGATCTCCATACACC 59.930 47.826 0.00 0.00 34.45 4.16
3717 5812 3.393800 CGACAATGATCTCCATACACCC 58.606 50.000 0.00 0.00 34.45 4.61
3718 5813 3.181466 CGACAATGATCTCCATACACCCA 60.181 47.826 0.00 0.00 34.45 4.51
3719 5814 4.384056 GACAATGATCTCCATACACCCAG 58.616 47.826 0.00 0.00 34.45 4.45
3720 5815 3.144506 CAATGATCTCCATACACCCAGC 58.855 50.000 0.00 0.00 34.45 4.85
3722 5817 1.131638 GATCTCCATACACCCAGCCA 58.868 55.000 0.00 0.00 0.00 4.75
3723 5818 1.490490 GATCTCCATACACCCAGCCAA 59.510 52.381 0.00 0.00 0.00 4.52
3724 5819 0.618458 TCTCCATACACCCAGCCAAC 59.382 55.000 0.00 0.00 0.00 3.77
3725 5820 0.327924 CTCCATACACCCAGCCAACA 59.672 55.000 0.00 0.00 0.00 3.33
3726 5821 0.037590 TCCATACACCCAGCCAACAC 59.962 55.000 0.00 0.00 0.00 3.32
3727 5822 0.965363 CCATACACCCAGCCAACACC 60.965 60.000 0.00 0.00 0.00 4.16
3728 5823 1.002624 ATACACCCAGCCAACACCG 60.003 57.895 0.00 0.00 0.00 4.94
3729 5824 2.478335 ATACACCCAGCCAACACCGG 62.478 60.000 0.00 0.00 0.00 5.28
3766 5861 9.144747 TGAAAAGAAATTCAATCAAAACGAACA 57.855 25.926 0.00 0.00 36.42 3.18
3862 6062 3.308530 GACTCGGAAAGCAAAACCAATG 58.691 45.455 0.00 0.00 0.00 2.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 44 7.068839 AGGGAGTACTTTATCACTGTGAGTATG 59.931 40.741 16.46 10.45 0.00 2.39
90 91 3.581332 TCCCTCCGTCTCAAAATAAGTGT 59.419 43.478 0.00 0.00 0.00 3.55
127 128 9.601810 TCTCATATACTCCTGGTGTTGTAATAT 57.398 33.333 6.73 2.02 0.00 1.28
128 129 8.857098 GTCTCATATACTCCTGGTGTTGTAATA 58.143 37.037 6.73 0.00 0.00 0.98
129 130 7.344612 TGTCTCATATACTCCTGGTGTTGTAAT 59.655 37.037 6.73 0.00 0.00 1.89
134 135 5.663106 ACATGTCTCATATACTCCTGGTGTT 59.337 40.000 6.73 0.00 0.00 3.32
137 138 5.710646 AGACATGTCTCATATACTCCTGGT 58.289 41.667 22.89 0.00 34.17 4.00
166 167 5.126108 CGTTACGCGTACTACTAGTTGTA 57.874 43.478 20.44 12.37 35.54 2.41
178 179 7.142574 TGTATCTGACATGACGTTACGCGTA 62.143 44.000 16.41 16.41 43.48 4.42
179 180 6.433099 TGTATCTGACATGACGTTACGCGT 62.433 45.833 19.17 19.17 45.14 6.01
180 181 4.027706 TGTATCTGACATGACGTTACGCG 61.028 47.826 3.53 3.53 38.91 6.01
181 182 3.431856 TGTATCTGACATGACGTTACGC 58.568 45.455 4.09 0.00 31.20 4.42
182 183 5.093457 AGTTGTATCTGACATGACGTTACG 58.907 41.667 2.19 2.19 38.07 3.18
183 184 6.323266 AGAGTTGTATCTGACATGACGTTAC 58.677 40.000 0.00 1.28 38.07 2.50
184 185 6.510879 AGAGTTGTATCTGACATGACGTTA 57.489 37.500 0.00 0.00 38.07 3.18
185 186 5.392767 AGAGTTGTATCTGACATGACGTT 57.607 39.130 0.00 0.00 38.07 3.99
215 217 8.928448 ACCTAAGTGCTCATATCTTCAATTCTA 58.072 33.333 0.00 0.00 0.00 2.10
292 294 9.535270 CTTTTGAGAAGAAATAGCTCTTAAACG 57.465 33.333 0.00 0.00 35.76 3.60
421 431 9.969001 AACACTGTTATTTATTATACTGGGTGT 57.031 29.630 0.00 0.00 33.95 4.16
541 2564 3.385384 CGCCCAGCTCCTCTGTCA 61.385 66.667 0.00 0.00 41.25 3.58
614 2652 0.966179 AAAAGGCGCGGGAAGAAAAT 59.034 45.000 8.83 0.00 0.00 1.82
630 2673 2.739292 CGAGACACGGACTGAAGAAAA 58.261 47.619 0.00 0.00 38.46 2.29
953 3011 5.672856 CGATTCGATTCGATTGTTTTCCTTC 59.327 40.000 21.74 0.00 41.62 3.46
980 3038 3.131478 GATGGGACGCGGGTTTGG 61.131 66.667 12.47 0.00 0.00 3.28
1368 3426 4.918201 CCGGCGATCCCTTGGAGC 62.918 72.222 9.30 0.00 34.05 4.70
1369 3427 2.252072 TTTCCGGCGATCCCTTGGAG 62.252 60.000 9.30 0.00 34.05 3.86
1399 3458 2.560158 GGAAGTAGGGTCTCAGGAAGGT 60.560 54.545 0.00 0.00 0.00 3.50
1435 3494 0.793617 AGGTCTCCTTTCCTGAGGGA 59.206 55.000 0.00 0.00 40.36 4.20
1558 3617 2.654079 CCCGCTTGACAGGCTCTCT 61.654 63.158 8.03 0.00 0.00 3.10
1560 3619 2.604686 TCCCGCTTGACAGGCTCT 60.605 61.111 8.03 0.00 0.00 4.09
1626 3685 1.153005 CTGGGCCATCTGCTTCCTC 60.153 63.158 6.72 0.00 40.92 3.71
1686 3746 2.183478 TCACACCGATGCACTTGAAT 57.817 45.000 0.00 0.00 0.00 2.57
1779 3839 0.951040 AGAAGAAGGCGCCTGTTTCG 60.951 55.000 33.60 0.00 0.00 3.46
2055 4115 2.302260 CTTCTGAGAGCAGGGTCGATA 58.698 52.381 0.00 0.00 42.53 2.92
2179 4239 2.234661 TCGAGACATGCTCCAGTTCAAT 59.765 45.455 10.34 0.00 40.70 2.57
2379 4439 0.677288 TTTCACGAAGAGCGGAAGGA 59.323 50.000 0.00 0.00 46.49 3.36
2403 4463 5.067674 CCAAGAGACATTTGGAACTTCAACA 59.932 40.000 0.00 0.00 46.42 3.33
2449 4509 2.301346 CTGCAACTCCCTTTTGACACT 58.699 47.619 0.00 0.00 0.00 3.55
2464 4524 1.271856 TATTGGACGGTCTCCTGCAA 58.728 50.000 8.23 3.82 40.26 4.08
2667 4727 1.538047 AAATCTCACGCACATTGGCT 58.462 45.000 0.00 0.00 0.00 4.75
2727 4787 1.534805 GCAATCGAGTCGAGCTCATCA 60.535 52.381 21.36 0.00 44.33 3.07
2799 4859 3.056536 TCTCGGTGAGAAGTTGATTCAGG 60.057 47.826 0.00 0.00 40.67 3.86
2808 4868 0.811915 CGTCCATCTCGGTGAGAAGT 59.188 55.000 0.00 0.00 42.27 3.01
2938 4998 1.522668 CTGGATTCAACGTCAGGCAA 58.477 50.000 0.00 0.00 0.00 4.52
2964 5033 1.213926 CTAAGGCAGGCCCTGAAGATT 59.786 52.381 16.85 5.21 45.62 2.40
3150 5219 0.462759 CGTCTTCCTCCATGGCTTCC 60.463 60.000 6.96 0.00 35.26 3.46
3357 5426 1.960040 CTGCCGTGGTAGAGGATGCA 61.960 60.000 0.00 0.00 0.00 3.96
3598 5687 6.853720 TCTAGAGAACAAGAGAATTGTACCG 58.146 40.000 0.00 0.00 31.50 4.02
3621 5710 0.179018 AATACCCTTGATGCGGCCTC 60.179 55.000 0.00 0.00 0.00 4.70
3693 5788 4.302455 GTGTATGGAGATCATTGTCGGAG 58.698 47.826 0.00 0.00 37.30 4.63
3696 5791 3.181466 TGGGTGTATGGAGATCATTGTCG 60.181 47.826 0.00 0.00 37.30 4.35
3698 5793 3.434167 GCTGGGTGTATGGAGATCATTGT 60.434 47.826 0.00 0.00 37.30 2.71
3699 5794 3.144506 GCTGGGTGTATGGAGATCATTG 58.855 50.000 0.00 0.00 37.30 2.82
3700 5795 2.107204 GGCTGGGTGTATGGAGATCATT 59.893 50.000 0.00 0.00 37.30 2.57
3701 5796 1.701847 GGCTGGGTGTATGGAGATCAT 59.298 52.381 0.00 0.00 39.78 2.45
3702 5797 1.131638 GGCTGGGTGTATGGAGATCA 58.868 55.000 0.00 0.00 0.00 2.92
3703 5798 1.131638 TGGCTGGGTGTATGGAGATC 58.868 55.000 0.00 0.00 0.00 2.75
3704 5799 1.212935 GTTGGCTGGGTGTATGGAGAT 59.787 52.381 0.00 0.00 0.00 2.75
3707 5802 0.037590 GTGTTGGCTGGGTGTATGGA 59.962 55.000 0.00 0.00 0.00 3.41
3708 5803 0.965363 GGTGTTGGCTGGGTGTATGG 60.965 60.000 0.00 0.00 0.00 2.74
3712 5807 4.579384 CCGGTGTTGGCTGGGTGT 62.579 66.667 0.00 0.00 0.00 4.16
3720 5815 3.801068 TTTGGAGGGCCGGTGTTGG 62.801 63.158 1.90 0.00 36.79 3.77
3722 5817 2.203437 GTTTGGAGGGCCGGTGTT 60.203 61.111 1.90 0.00 36.79 3.32
3723 5818 3.175710 AGTTTGGAGGGCCGGTGT 61.176 61.111 1.90 0.00 36.79 4.16
3724 5819 2.672996 CAGTTTGGAGGGCCGGTG 60.673 66.667 1.90 0.00 36.79 4.94
3725 5820 2.002018 TTTCAGTTTGGAGGGCCGGT 62.002 55.000 1.90 0.00 36.79 5.28
3726 5821 0.825840 TTTTCAGTTTGGAGGGCCGG 60.826 55.000 0.00 0.00 36.79 6.13
3727 5822 0.598065 CTTTTCAGTTTGGAGGGCCG 59.402 55.000 0.00 0.00 36.79 6.13
3728 5823 1.995376 TCTTTTCAGTTTGGAGGGCC 58.005 50.000 0.00 0.00 0.00 5.80
3729 5824 4.607293 ATTTCTTTTCAGTTTGGAGGGC 57.393 40.909 0.00 0.00 0.00 5.19
3730 5825 6.160576 TGAATTTCTTTTCAGTTTGGAGGG 57.839 37.500 0.00 0.00 32.07 4.30
3731 5826 7.927629 TGATTGAATTTCTTTTCAGTTTGGAGG 59.072 33.333 0.00 0.00 36.97 4.30
3766 5861 1.714899 GAGTGGCGTGTTTGTGCTGT 61.715 55.000 0.00 0.00 0.00 4.40
3895 6576 0.676184 CATCTCCGATGTGATCCGGT 59.324 55.000 0.00 0.00 45.48 5.28


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

AutoCloner maintained by Alex Coulton.