Multiple sequence alignment - TraesCS3D01G135400

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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 TraesCS3D01G135400 chr3D 100.000 4803 0 0 1 4803 94498531 94493729 0.000000e+00 8870.0
1 TraesCS3D01G135400 chr3D 78.689 183 25 7 3133 3314 338923991 338924160 5.080000e-20 110.0
2 TraesCS3D01G135400 chr3A 93.752 3041 130 31 1794 4803 547479747 547476736 0.000000e+00 4508.0
3 TraesCS3D01G135400 chr3A 93.101 1261 55 13 27 1266 547480986 547479737 0.000000e+00 1818.0
4 TraesCS3D01G135400 chr3A 92.063 63 5 0 3133 3195 465834117 465834055 6.620000e-14 89.8
5 TraesCS3D01G135400 chr3B 95.534 1657 52 8 1794 3441 144816237 144814594 0.000000e+00 2630.0
6 TraesCS3D01G135400 chr3B 94.041 1376 62 8 3444 4803 144814275 144812904 0.000000e+00 2069.0
7 TraesCS3D01G135400 chr3B 93.458 1284 49 12 1 1266 144817493 144816227 0.000000e+00 1873.0
8 TraesCS3D01G135400 chr3B 78.857 175 23 7 3141 3314 437499547 437499708 6.570000e-19 106.0
9 TraesCS3D01G135400 chr4B 98.502 534 7 1 1261 1793 232111800 232111267 0.000000e+00 941.0
10 TraesCS3D01G135400 chr4B 97.455 550 11 2 1263 1809 241350807 241350258 0.000000e+00 935.0
11 TraesCS3D01G135400 chr1B 98.117 531 10 0 1263 1793 668427679 668428209 0.000000e+00 926.0
12 TraesCS3D01G135400 chr7B 97.761 536 10 2 1263 1797 25322449 25322983 0.000000e+00 922.0
13 TraesCS3D01G135400 chr2B 97.932 532 10 1 1263 1793 190230346 190229815 0.000000e+00 920.0
14 TraesCS3D01G135400 chr2B 93.220 59 4 0 3221 3279 543554164 543554106 2.380000e-13 87.9
15 TraesCS3D01G135400 chr6A 97.749 533 11 1 1262 1793 181566859 181567391 0.000000e+00 917.0
16 TraesCS3D01G135400 chr5D 97.566 534 12 1 1263 1795 356694450 356694983 0.000000e+00 913.0
17 TraesCS3D01G135400 chr2A 97.556 532 9 2 1263 1793 673006205 673006733 0.000000e+00 907.0
18 TraesCS3D01G135400 chr2A 90.769 65 6 0 3133 3197 174796664 174796600 2.380000e-13 87.9
19 TraesCS3D01G135400 chr5A 97.378 534 10 2 1262 1794 143578029 143578559 0.000000e+00 905.0
20 TraesCS3D01G135400 chr1A 77.833 406 62 14 640 1035 420387617 420388004 4.840000e-55 226.0
21 TraesCS3D01G135400 chr7A 80.952 189 22 6 3125 3312 560305984 560306159 2.330000e-28 137.0
22 TraesCS3D01G135400 chr7D 85.106 94 14 0 3217 3310 264931052 264930959 3.960000e-16 97.1
23 TraesCS3D01G135400 chr1D 92.537 67 5 0 3131 3197 110339030 110338964 3.960000e-16 97.1


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 TraesCS3D01G135400 chr3D 94493729 94498531 4802 True 8870.000000 8870 100.000000 1 4803 1 chr3D.!!$R1 4802
1 TraesCS3D01G135400 chr3A 547476736 547480986 4250 True 3163.000000 4508 93.426500 27 4803 2 chr3A.!!$R2 4776
2 TraesCS3D01G135400 chr3B 144812904 144817493 4589 True 2190.666667 2630 94.344333 1 4803 3 chr3B.!!$R1 4802
3 TraesCS3D01G135400 chr4B 232111267 232111800 533 True 941.000000 941 98.502000 1261 1793 1 chr4B.!!$R1 532
4 TraesCS3D01G135400 chr4B 241350258 241350807 549 True 935.000000 935 97.455000 1263 1809 1 chr4B.!!$R2 546
5 TraesCS3D01G135400 chr1B 668427679 668428209 530 False 926.000000 926 98.117000 1263 1793 1 chr1B.!!$F1 530
6 TraesCS3D01G135400 chr7B 25322449 25322983 534 False 922.000000 922 97.761000 1263 1797 1 chr7B.!!$F1 534
7 TraesCS3D01G135400 chr2B 190229815 190230346 531 True 920.000000 920 97.932000 1263 1793 1 chr2B.!!$R1 530
8 TraesCS3D01G135400 chr6A 181566859 181567391 532 False 917.000000 917 97.749000 1262 1793 1 chr6A.!!$F1 531
9 TraesCS3D01G135400 chr5D 356694450 356694983 533 False 913.000000 913 97.566000 1263 1795 1 chr5D.!!$F1 532
10 TraesCS3D01G135400 chr2A 673006205 673006733 528 False 907.000000 907 97.556000 1263 1793 1 chr2A.!!$F1 530
11 TraesCS3D01G135400 chr5A 143578029 143578559 530 False 905.000000 905 97.378000 1262 1794 1 chr5A.!!$F1 532

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
873 895 0.256464 CTGTCCCTCTCTCCCTACGT 59.744 60.0 0.0 0.0 0.0 3.57 F
1963 2000 3.072211 GGAACTTACTTTGACCCCTTCG 58.928 50.0 0.0 0.0 0.0 3.79 F
3085 3132 0.819582 ATTCCCTGGCAAATTGAGCG 59.180 50.0 0.0 0.0 0.0 5.03 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2552 2594 0.397564 TGAGATGCAAGCAGTGGTCA 59.602 50.0 0.00 0.00 0.00 4.02 R
3259 3306 0.106519 AGCACTTGTGCCAAGAGGTT 60.107 50.0 20.39 7.86 37.19 3.50 R
4479 4860 0.255318 GGTACTCCGAGGACTCAGGA 59.745 60.0 10.70 10.78 33.57 3.86 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
146 159 0.686769 GTTCTCCTCTCCGGCCCTAA 60.687 60.000 0.00 0.00 0.00 2.69
310 323 7.760131 TTAATAGTAGTTTTTATCGCTGCGT 57.240 32.000 22.48 11.78 0.00 5.24
318 331 1.715993 TTATCGCTGCGTGCTTGTTA 58.284 45.000 22.48 0.00 40.11 2.41
319 332 0.996462 TATCGCTGCGTGCTTGTTAC 59.004 50.000 22.48 0.00 40.11 2.50
320 333 1.635663 ATCGCTGCGTGCTTGTTACC 61.636 55.000 22.48 0.00 40.11 2.85
375 388 6.096846 GGTGTAATTTAATCTGGAGGTTGCAT 59.903 38.462 0.00 0.00 0.00 3.96
383 396 3.509442 TCTGGAGGTTGCATCCAAATTT 58.491 40.909 16.12 0.00 46.04 1.82
395 408 6.289834 TGCATCCAAATTTTGTGACATTTCT 58.710 32.000 8.26 0.00 0.00 2.52
409 422 4.177026 GACATTTCTGAGCGTAGTGATGT 58.823 43.478 10.97 10.97 31.82 3.06
432 446 2.366301 TGCGGCTAGGGGGATCAA 60.366 61.111 0.00 0.00 0.00 2.57
447 461 4.571984 GGGGATCAAATGTTGCTTAAATGC 59.428 41.667 0.00 0.00 0.00 3.56
482 496 4.278419 AGGAGCATGGTTGTTCAGTTAAAC 59.722 41.667 0.00 0.00 34.98 2.01
483 497 4.278419 GGAGCATGGTTGTTCAGTTAAACT 59.722 41.667 0.00 0.00 34.98 2.66
484 498 5.221244 GGAGCATGGTTGTTCAGTTAAACTT 60.221 40.000 0.00 0.00 34.98 2.66
485 499 6.016610 GGAGCATGGTTGTTCAGTTAAACTTA 60.017 38.462 0.00 0.00 34.98 2.24
486 500 7.341445 AGCATGGTTGTTCAGTTAAACTTAA 57.659 32.000 0.00 0.00 0.00 1.85
487 501 7.777095 AGCATGGTTGTTCAGTTAAACTTAAA 58.223 30.769 0.00 0.00 0.00 1.52
505 519 8.974060 AACTTAAATATGGGAGCGATTTAGAA 57.026 30.769 0.00 0.00 0.00 2.10
661 683 4.944962 TTCACCTGCTCAATGTTTATCG 57.055 40.909 0.00 0.00 0.00 2.92
861 883 1.867363 AGCGAATTCCTACTGTCCCT 58.133 50.000 0.00 0.00 0.00 4.20
870 892 2.136863 CCTACTGTCCCTCTCTCCCTA 58.863 57.143 0.00 0.00 0.00 3.53
873 895 0.256464 CTGTCCCTCTCTCCCTACGT 59.744 60.000 0.00 0.00 0.00 3.57
954 976 7.395190 TGATAGTTCAATTCCACTTTGATGG 57.605 36.000 0.00 0.00 41.57 3.51
972 994 4.716287 TGATGGATGAATGTAGAGTGTCCA 59.284 41.667 0.00 0.00 38.50 4.02
1367 1390 6.283161 AGCGGTAGATTAAGCGTTTTTATC 57.717 37.500 0.00 0.00 42.15 1.75
1877 1914 7.407393 TCAATCTCATGCCATTGAAATTACA 57.593 32.000 13.75 0.00 36.33 2.41
1916 1953 4.694339 ACAGGAATAGCACGGAAAGATAC 58.306 43.478 0.00 0.00 0.00 2.24
1963 2000 3.072211 GGAACTTACTTTGACCCCTTCG 58.928 50.000 0.00 0.00 0.00 3.79
2057 2094 9.421399 CCCCTAAAAGTGATGTAAAAGGATAAT 57.579 33.333 0.00 0.00 0.00 1.28
2108 2145 4.136796 TGCAACTGTTATGCTTTCTGAGT 58.863 39.130 6.09 0.00 44.14 3.41
2232 2273 4.808895 TCATGTGGCGATACTGTACAATTC 59.191 41.667 0.00 0.00 0.00 2.17
2483 2525 3.498927 CAATAGCTTGCTTTCAGTGGG 57.501 47.619 0.00 0.00 0.00 4.61
2552 2594 4.165372 TGGAGAACCTAGTCAACCTTTGTT 59.835 41.667 0.00 0.00 37.04 2.83
2603 2649 3.678806 CGAACTATAGAACTGGCTTGCCA 60.679 47.826 14.10 14.10 0.00 4.92
2649 2695 1.079543 CTGAGCTCCTGTGTTCCCG 60.080 63.158 12.15 0.00 0.00 5.14
2776 2823 4.275508 CCACAGGCCCACAGCTGT 62.276 66.667 15.25 15.25 43.05 4.40
2808 2855 3.330701 TGGGCTTGGGGTGAGAATATATC 59.669 47.826 0.00 0.00 0.00 1.63
3022 3069 9.882996 CAAACTAGGTGCAATGTTGTATATATG 57.117 33.333 0.00 0.00 0.00 1.78
3074 3121 3.986277 GCATCAGCAAATAATTCCCTGG 58.014 45.455 0.00 0.00 41.58 4.45
3083 3130 5.295045 GCAAATAATTCCCTGGCAAATTGAG 59.705 40.000 12.78 0.00 0.00 3.02
3085 3132 0.819582 ATTCCCTGGCAAATTGAGCG 59.180 50.000 0.00 0.00 0.00 5.03
3117 3164 6.036408 TGCAATGATATGTCTCGACTTTTCTG 59.964 38.462 0.00 0.00 0.00 3.02
3160 3207 1.488393 GACCCATTGCTAGAAGCTCCT 59.512 52.381 0.00 0.00 42.97 3.69
3203 3250 1.000607 GGATTATACGAGGCTGCGTCA 60.001 52.381 20.67 4.17 44.39 4.35
3230 3277 2.237392 AGGACCATACTCCTGCAAAGTC 59.763 50.000 4.75 0.00 39.40 3.01
3259 3306 4.373116 GGCTGCGTCGAACCCAGA 62.373 66.667 11.17 0.00 0.00 3.86
3291 3341 2.700897 ACAAGTGCTGAGTACTTCACCT 59.299 45.455 13.08 5.24 36.42 4.00
3326 3376 3.250762 TGTCCTTCTGAATTTTCTGCACG 59.749 43.478 0.00 0.00 0.00 5.34
3541 3907 6.839124 TTCTGACATTTGAATAAGTGCCAT 57.161 33.333 0.00 0.00 0.00 4.40
3642 4008 4.347583 TGCCATGTTTCCTTTTGATTCCTT 59.652 37.500 0.00 0.00 0.00 3.36
3994 4360 2.023673 TCCAAGACCAAAGTTGTGCTG 58.976 47.619 0.00 0.00 0.00 4.41
4038 4413 0.771756 CATGCGTGTTGAGTTTTGCG 59.228 50.000 0.00 0.00 0.00 4.85
4040 4415 0.522286 TGCGTGTTGAGTTTTGCGTG 60.522 50.000 0.00 0.00 0.00 5.34
4114 4489 6.338214 TCTTCTCTAGCTCGCAATATCAAT 57.662 37.500 0.00 0.00 0.00 2.57
4155 4530 4.780021 TCTTCCTCCAATAGACTTTGCTCT 59.220 41.667 0.00 0.00 0.00 4.09
4327 4702 0.040942 AGAGCTGCCTCCTGAAGAGA 59.959 55.000 0.00 0.00 46.50 3.10
4340 4715 4.008330 CCTGAAGAGATGTTGCTGTTGAT 58.992 43.478 0.00 0.00 0.00 2.57
4353 4734 2.165030 GCTGTTGATGAACCATTCCCAG 59.835 50.000 0.00 0.00 0.00 4.45
4388 4769 2.846206 TGAACCCAAGTCCAGATATGCT 59.154 45.455 0.00 0.00 0.00 3.79
4406 4787 8.494433 AGATATGCTTATTTCAGGAGGTAAACA 58.506 33.333 0.00 0.00 0.00 2.83
4454 4835 4.710167 TGCAGCAGCCGCATCTGT 62.710 61.111 0.00 0.00 42.27 3.41
4477 4858 1.237533 ATGTGTCGCTGTTGCATTGA 58.762 45.000 0.00 0.00 39.64 2.57
4479 4860 1.608109 TGTGTCGCTGTTGCATTGATT 59.392 42.857 0.00 0.00 39.64 2.57
4482 4863 1.470098 GTCGCTGTTGCATTGATTCCT 59.530 47.619 0.00 0.00 39.64 3.36
4490 4871 3.272574 TGCATTGATTCCTGAGTCCTC 57.727 47.619 0.00 0.00 0.00 3.71
4521 4902 5.395657 CCAGCCTGTTATCTGTGATGAGTTA 60.396 44.000 0.00 0.00 0.00 2.24
4604 4985 1.299648 CAACGCCCCTGGATCAAGA 59.700 57.895 0.00 0.00 0.00 3.02
4639 5020 6.470235 GTGATGTTATTATGTTGCTCTTGTGC 59.530 38.462 0.00 0.00 0.00 4.57
4643 5024 1.825090 TATGTTGCTCTTGTGCTGGG 58.175 50.000 0.00 0.00 0.00 4.45
4644 5025 0.178981 ATGTTGCTCTTGTGCTGGGT 60.179 50.000 0.00 0.00 0.00 4.51
4645 5026 1.102809 TGTTGCTCTTGTGCTGGGTG 61.103 55.000 0.00 0.00 0.00 4.61
4647 5028 0.819259 TTGCTCTTGTGCTGGGTGAC 60.819 55.000 0.00 0.00 0.00 3.67
4651 5032 2.023673 CTCTTGTGCTGGGTGACAAAA 58.976 47.619 0.00 0.00 31.83 2.44
4653 5034 3.030291 TCTTGTGCTGGGTGACAAAATT 58.970 40.909 0.00 0.00 31.83 1.82
4654 5035 3.068024 TCTTGTGCTGGGTGACAAAATTC 59.932 43.478 0.00 0.00 31.83 2.17
4655 5036 1.336440 TGTGCTGGGTGACAAAATTCG 59.664 47.619 0.00 0.00 0.00 3.34
4656 5037 0.313672 TGCTGGGTGACAAAATTCGC 59.686 50.000 0.00 0.00 0.00 4.70
4657 5038 0.313672 GCTGGGTGACAAAATTCGCA 59.686 50.000 0.00 0.00 0.00 5.10
4661 5042 4.057432 CTGGGTGACAAAATTCGCAAAAT 58.943 39.130 0.00 0.00 0.00 1.82
4671 5052 7.186128 ACAAAATTCGCAAAATGGAAAGAAAC 58.814 30.769 0.00 0.00 0.00 2.78
4738 5120 1.809547 GCCTGAGCTCTTCAAAGAACC 59.190 52.381 16.19 0.00 34.81 3.62
4739 5121 2.072298 CCTGAGCTCTTCAAAGAACCG 58.928 52.381 16.19 0.00 34.81 4.44
4760 5142 3.177228 GGAGGTCATATATGGCAGAGGT 58.823 50.000 18.65 0.00 33.08 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
204 217 1.959226 GCGAGTTGTTCAAGGCGGA 60.959 57.895 0.00 0.00 0.00 5.54
285 298 8.273557 CACGCAGCGATAAAAACTACTATTAAT 58.726 33.333 24.65 0.00 0.00 1.40
294 307 3.676091 GCACGCAGCGATAAAAACT 57.324 47.368 24.65 0.00 0.00 2.66
310 323 5.062934 CGATTCAATCTAACGGTAACAAGCA 59.937 40.000 0.00 0.00 0.00 3.91
350 363 5.417580 TGCAACCTCCAGATTAAATTACACC 59.582 40.000 0.00 0.00 0.00 4.16
375 388 5.984926 GCTCAGAAATGTCACAAAATTTGGA 59.015 36.000 10.71 2.10 34.12 3.53
383 396 3.740832 CACTACGCTCAGAAATGTCACAA 59.259 43.478 0.00 0.00 0.00 3.33
395 408 3.253230 CACATTGACATCACTACGCTCA 58.747 45.455 0.00 0.00 0.00 4.26
409 422 2.589540 CCCCTAGCCGCACATTGA 59.410 61.111 0.00 0.00 0.00 2.57
432 446 2.568509 AGGCCAGCATTTAAGCAACATT 59.431 40.909 5.01 0.00 36.85 2.71
447 461 1.059006 ATGCTCCTCCCTAAGGCCAG 61.059 60.000 5.01 0.00 45.78 4.85
485 499 9.750125 GAATTTTTCTAAATCGCTCCCATATTT 57.250 29.630 0.00 0.00 32.85 1.40
486 500 9.136323 AGAATTTTTCTAAATCGCTCCCATATT 57.864 29.630 0.00 0.00 38.49 1.28
487 501 8.697507 AGAATTTTTCTAAATCGCTCCCATAT 57.302 30.769 0.00 0.00 38.49 1.78
505 519 6.202516 TGTCGTGAAAACCAGAAGAATTTT 57.797 33.333 0.00 0.00 0.00 1.82
543 557 6.211584 TCCATCAGCTACCAGAAGGATATAAC 59.788 42.308 0.00 0.00 38.69 1.89
688 710 6.434340 GGGGTAAAGTCTGAAACATCATTTCT 59.566 38.462 1.48 0.00 0.00 2.52
847 869 2.090999 GGGAGAGAGGGACAGTAGGAAT 60.091 54.545 0.00 0.00 0.00 3.01
861 883 1.064685 TGAGATGCACGTAGGGAGAGA 60.065 52.381 0.00 0.00 0.00 3.10
870 892 2.223363 CGTCTACTGATGAGATGCACGT 60.223 50.000 0.00 0.00 0.00 4.49
986 1008 6.306199 AGCTTTACCATGTTGCATATCCATA 58.694 36.000 0.00 0.00 0.00 2.74
1706 1729 3.209429 CGCAGCTTAATCGCACTTG 57.791 52.632 0.00 0.00 0.00 3.16
1916 1953 2.664568 GTGTGCTGTGCTGCATAAATTG 59.335 45.455 5.27 0.00 45.23 2.32
1963 2000 4.899239 CGAGTCTGATGGGCGGGC 62.899 72.222 0.00 0.00 0.00 6.13
2057 2094 5.163343 ACGTAAAGGAAGCTAATGATGGCTA 60.163 40.000 0.00 0.00 43.38 3.93
2146 2187 4.273148 ACGAAATGAAGCTAGGACAACT 57.727 40.909 0.00 0.00 0.00 3.16
2147 2188 4.142881 GGAACGAAATGAAGCTAGGACAAC 60.143 45.833 0.00 0.00 0.00 3.32
2148 2189 4.000988 GGAACGAAATGAAGCTAGGACAA 58.999 43.478 0.00 0.00 0.00 3.18
2149 2190 3.596214 GGAACGAAATGAAGCTAGGACA 58.404 45.455 0.00 0.00 0.00 4.02
2471 2513 5.355596 CACAATTTAAACCCACTGAAAGCA 58.644 37.500 0.00 0.00 37.60 3.91
2483 2525 8.974408 GGTCAAATCTTACACCACAATTTAAAC 58.026 33.333 0.00 0.00 0.00 2.01
2552 2594 0.397564 TGAGATGCAAGCAGTGGTCA 59.602 50.000 0.00 0.00 0.00 4.02
2649 2695 0.460987 CCGATCTGCAGAAGGGTGAC 60.461 60.000 22.50 5.64 0.00 3.67
2776 2823 2.856231 ACCCCAAGCCCAAATATCACTA 59.144 45.455 0.00 0.00 0.00 2.74
2808 2855 1.606668 TCGCAACAAACTTAAGCCCAG 59.393 47.619 1.29 0.00 0.00 4.45
3022 3069 2.224793 ACCTCCAGGCCAAACTAGAAAC 60.225 50.000 5.01 0.00 39.32 2.78
3083 3130 0.313043 ATATCATTGCAAGCAGGCGC 59.687 50.000 4.94 0.00 36.28 6.53
3085 3132 2.621998 AGACATATCATTGCAAGCAGGC 59.378 45.455 4.94 0.00 0.00 4.85
3138 3185 2.092699 GGAGCTTCTAGCAATGGGTCTT 60.093 50.000 1.09 0.00 45.56 3.01
3160 3207 3.703804 CCAGACCCTACCTGGTGTA 57.296 57.895 10.23 0.00 44.66 2.90
3203 3250 2.361085 AGGAGTATGGTCCTGGGTTT 57.639 50.000 0.00 0.00 45.91 3.27
3259 3306 0.106519 AGCACTTGTGCCAAGAGGTT 60.107 50.000 20.39 7.86 37.19 3.50
3277 3324 2.165437 GAGGCAGAGGTGAAGTACTCAG 59.835 54.545 0.00 0.00 36.20 3.35
3278 3325 2.171840 GAGGCAGAGGTGAAGTACTCA 58.828 52.381 0.00 0.00 36.20 3.41
3326 3376 6.043411 ACTGAGTAAATATCTTTCTGGCGAC 58.957 40.000 0.00 0.00 0.00 5.19
3421 3471 7.093858 GGTCATATAAGTACAGGGGACACTATC 60.094 44.444 0.00 0.00 0.00 2.08
3428 3478 5.282129 TGTTGGTCATATAAGTACAGGGGA 58.718 41.667 0.00 0.00 0.00 4.81
3642 4008 1.117142 AGGACGGACGTTTTCCCTGA 61.117 55.000 0.00 0.00 42.27 3.86
3830 4196 9.899226 GGTGCAAAAATAATAGTATCTTCATCC 57.101 33.333 0.00 0.00 0.00 3.51
3994 4360 9.841295 TGTAGTACATCATTTATTCCTTAACCC 57.159 33.333 0.00 0.00 0.00 4.11
4023 4389 1.201976 TGTCACGCAAAACTCAACACG 60.202 47.619 0.00 0.00 0.00 4.49
4066 4441 7.244886 ACCATATTGCAGTACAGCTATATCA 57.755 36.000 19.17 2.19 39.67 2.15
4114 4489 6.366340 AGGAAGACGAAGAGGACTATATGAA 58.634 40.000 0.00 0.00 0.00 2.57
4155 4530 1.887198 GAAGAACAGGAGACTCCACGA 59.113 52.381 23.60 0.00 39.61 4.35
4200 4575 3.953612 GGATAATGATGTGGCACCTTGAA 59.046 43.478 16.26 0.00 0.00 2.69
4275 4650 1.535028 CAGCTTGTACGACAAATGGCA 59.465 47.619 0.00 0.00 37.69 4.92
4313 4688 1.339438 GCAACATCTCTTCAGGAGGCA 60.339 52.381 0.00 0.00 42.10 4.75
4327 4702 4.322198 GGAATGGTTCATCAACAGCAACAT 60.322 41.667 0.00 0.00 33.70 2.71
4340 4715 4.626287 GCTCAATACTCTGGGAATGGTTCA 60.626 45.833 0.00 0.00 0.00 3.18
4353 4734 2.501723 TGGGTTCAGGAGCTCAATACTC 59.498 50.000 17.19 8.13 0.00 2.59
4388 4769 5.250774 AGCTCCTGTTTACCTCCTGAAATAA 59.749 40.000 0.00 0.00 0.00 1.40
4406 4787 2.042831 GCAATCCGCAACAGCTCCT 61.043 57.895 0.00 0.00 41.79 3.69
4454 4835 1.587547 TGCAACAGCGACACATACAA 58.412 45.000 0.00 0.00 0.00 2.41
4477 4858 2.657143 GTACTCCGAGGACTCAGGAAT 58.343 52.381 3.22 6.80 34.00 3.01
4479 4860 0.255318 GGTACTCCGAGGACTCAGGA 59.745 60.000 10.70 10.78 33.57 3.86
4482 4863 0.680280 GCTGGTACTCCGAGGACTCA 60.680 60.000 10.70 6.29 36.30 3.41
4490 4871 2.032620 AGATAACAGGCTGGTACTCCG 58.967 52.381 15.75 0.00 36.30 4.63
4604 4985 9.142515 CAACATAATAACATCACTTGTGCAATT 57.857 29.630 0.00 0.00 38.99 2.32
4639 5020 2.791383 TTGCGAATTTTGTCACCCAG 57.209 45.000 0.00 0.00 0.00 4.45
4643 5024 5.649602 TTCCATTTTGCGAATTTTGTCAC 57.350 34.783 0.00 0.00 0.00 3.67
4644 5025 6.045318 TCTTTCCATTTTGCGAATTTTGTCA 58.955 32.000 0.00 0.00 0.00 3.58
4645 5026 6.523676 TCTTTCCATTTTGCGAATTTTGTC 57.476 33.333 0.00 0.00 0.00 3.18
4647 5028 7.185453 TGTTTCTTTCCATTTTGCGAATTTTG 58.815 30.769 0.00 0.00 0.00 2.44
4651 5032 5.990996 ACATGTTTCTTTCCATTTTGCGAAT 59.009 32.000 0.00 0.00 0.00 3.34
4653 5034 4.942852 ACATGTTTCTTTCCATTTTGCGA 58.057 34.783 0.00 0.00 0.00 5.10
4654 5035 5.433855 CAACATGTTTCTTTCCATTTTGCG 58.566 37.500 8.77 0.00 0.00 4.85
4655 5036 5.207033 GCAACATGTTTCTTTCCATTTTGC 58.793 37.500 8.77 1.14 43.36 3.68
4656 5037 6.360844 TGCAACATGTTTCTTTCCATTTTG 57.639 33.333 8.77 0.00 33.81 2.44
4657 5038 6.998968 TTGCAACATGTTTCTTTCCATTTT 57.001 29.167 8.77 0.00 0.00 1.82
4661 5042 3.870419 GCTTTGCAACATGTTTCTTTCCA 59.130 39.130 8.77 0.00 0.00 3.53
4696 5077 2.357034 TCGGTGCGTCCTGCTTTC 60.357 61.111 0.00 0.00 46.63 2.62
4738 5120 2.167281 CCTCTGCCATATATGACCTCCG 59.833 54.545 14.54 0.00 0.00 4.63
4739 5121 3.055530 CACCTCTGCCATATATGACCTCC 60.056 52.174 14.54 0.00 0.00 4.30
4746 5128 0.615331 CCGCCACCTCTGCCATATAT 59.385 55.000 0.00 0.00 0.00 0.86


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

AutoCloner maintained by Alex Coulton.