Multiple sequence alignment - TraesCS2D01G294700

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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 TraesCS2D01G294700 chr2D 100.000 3205 0 0 1 3205 377054824 377058028 0.000000e+00 5919.0
1 TraesCS2D01G294700 chr2B 92.269 2600 129 31 655 3205 448477242 448479818 0.000000e+00 3622.0
2 TraesCS2D01G294700 chr2B 90.323 496 39 6 173 664 448474511 448475001 2.700000e-180 641.0
3 TraesCS2D01G294700 chr2A 94.444 2088 82 17 512 2567 510947801 510949886 0.000000e+00 3182.0
4 TraesCS2D01G294700 chr2A 88.277 563 45 6 2558 3106 510951228 510951783 0.000000e+00 654.0
5 TraesCS2D01G294700 chr2A 87.574 507 50 6 3 506 510947045 510947541 2.770000e-160 575.0
6 TraesCS2D01G294700 chr2A 93.023 43 3 0 3135 3177 510951781 510951823 2.670000e-06 63.9
7 TraesCS2D01G294700 chr5A 78.616 159 29 5 17 173 487858453 487858298 2.030000e-17 100.0
8 TraesCS2D01G294700 chr4D 82.418 91 13 3 62 150 170707847 170707758 3.430000e-10 76.8
9 TraesCS2D01G294700 chr4D 93.750 48 2 1 62 108 14964670 14964623 1.600000e-08 71.3
10 TraesCS2D01G294700 chr7D 88.525 61 5 2 62 120 433286113 433286173 4.430000e-09 73.1
11 TraesCS2D01G294700 chr3B 93.878 49 2 1 62 109 779619712 779619760 4.430000e-09 73.1
12 TraesCS2D01G294700 chr3B 87.302 63 6 2 61 121 122699916 122699978 1.600000e-08 71.3
13 TraesCS2D01G294700 chr6A 83.333 78 11 2 67 142 537465509 537465586 1.600000e-08 71.3
14 TraesCS2D01G294700 chr4B 80.952 84 11 5 27 107 593380940 593381021 9.600000e-06 62.1


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 TraesCS2D01G294700 chr2D 377054824 377058028 3204 False 5919.000 5919 100.0000 1 3205 1 chr2D.!!$F1 3204
1 TraesCS2D01G294700 chr2B 448474511 448479818 5307 False 2131.500 3622 91.2960 173 3205 2 chr2B.!!$F1 3032
2 TraesCS2D01G294700 chr2A 510947045 510951823 4778 False 1118.725 3182 90.8295 3 3177 4 chr2A.!!$F1 3174

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
892 3409 0.031994 GCCACACCAAACACATCACC 59.968 55.0 0.0 0.0 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2634 6541 1.00534 GCAAGCACTGATCTTCTCGG 58.995 55.0 0.0 0.0 36.23 4.63 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
35 36 2.427506 GACCAAACAGCCTACCTTCAG 58.572 52.381 0.00 0.00 0.00 3.02
63 64 3.314693 CCCAGGCAGAGTAAAGGGTATA 58.685 50.000 0.00 0.00 0.00 1.47
83 84 1.219646 CAGGCAACCAAACAACATGC 58.780 50.000 0.00 0.00 36.31 4.06
85 86 1.202557 AGGCAACCAAACAACATGCAG 60.203 47.619 0.00 0.00 38.73 4.41
99 100 3.132925 ACATGCAGATGTTGGTTTTTGC 58.867 40.909 0.00 0.00 40.05 3.68
100 101 2.237393 TGCAGATGTTGGTTTTTGCC 57.763 45.000 0.00 0.00 0.00 4.52
101 102 1.202627 TGCAGATGTTGGTTTTTGCCC 60.203 47.619 0.00 0.00 0.00 5.36
102 103 1.782044 CAGATGTTGGTTTTTGCCCG 58.218 50.000 0.00 0.00 0.00 6.13
142 143 5.804639 TCAACTAGGTCAAGTATGCAATGT 58.195 37.500 0.00 0.00 0.00 2.71
143 144 6.237901 TCAACTAGGTCAAGTATGCAATGTT 58.762 36.000 0.00 0.00 0.00 2.71
145 146 4.943705 ACTAGGTCAAGTATGCAATGTTGG 59.056 41.667 0.00 0.00 0.00 3.77
147 148 2.230992 GGTCAAGTATGCAATGTTGGCA 59.769 45.455 10.80 0.00 46.66 4.92
247 254 6.528072 GCATATTTTCCTGTTTGCTTGACTAC 59.472 38.462 0.00 0.00 0.00 2.73
264 272 8.547069 GCTTGACTACATTTTCTCTGTGATATC 58.453 37.037 0.00 0.00 0.00 1.63
330 338 6.576551 TTTTCTTTTCAAAACGCATGTACC 57.423 33.333 0.00 0.00 0.00 3.34
333 341 4.339814 TCTTTTCAAAACGCATGTACCCTT 59.660 37.500 0.00 0.00 0.00 3.95
462 472 2.036475 CCCATATCTGGAGTCAGTTCCG 59.964 54.545 0.00 0.00 46.37 4.30
472 485 3.399330 GAGTCAGTTCCGGTCAAATTGA 58.601 45.455 0.00 0.00 0.00 2.57
478 491 1.790755 TCCGGTCAAATTGAGTGTCG 58.209 50.000 0.00 0.00 0.00 4.35
498 511 0.528684 GGCTGCATAGAGACGACACC 60.529 60.000 0.50 0.00 0.00 4.16
506 519 0.681733 AGAGACGACACCAATGCTGT 59.318 50.000 0.00 0.00 0.00 4.40
507 520 0.792640 GAGACGACACCAATGCTGTG 59.207 55.000 0.00 0.00 39.63 3.66
509 522 1.343142 AGACGACACCAATGCTGTGTA 59.657 47.619 0.00 0.00 46.43 2.90
510 523 1.459592 GACGACACCAATGCTGTGTAC 59.540 52.381 0.00 0.00 46.43 2.90
553 820 2.820197 CTCCCTTTCAGTTTTGGTAGGC 59.180 50.000 0.00 0.00 0.00 3.93
643 910 1.557832 CTCCCATTCACCTTTCCCGTA 59.442 52.381 0.00 0.00 0.00 4.02
713 3230 1.266178 GGACCCCAAATCCCAAACTG 58.734 55.000 0.00 0.00 0.00 3.16
798 3315 3.655486 TGTAAATTCCGTTTCGAGCAGA 58.345 40.909 0.00 0.00 0.00 4.26
822 3339 1.657822 GAGCTAAGCTAACCACCTGC 58.342 55.000 0.00 0.00 39.88 4.85
892 3409 0.031994 GCCACACCAAACACATCACC 59.968 55.000 0.00 0.00 0.00 4.02
947 3465 9.308318 GAGAACTCATCAAGAAATTAGGTAGAC 57.692 37.037 0.00 0.00 0.00 2.59
998 3516 0.460284 AGAATTCGACGCCGCTTCAT 60.460 50.000 0.00 0.00 32.97 2.57
1096 3615 3.998913 ATTTTGGCGGGATTTTCCATT 57.001 38.095 0.00 0.00 38.64 3.16
1108 3627 2.220653 TTTCCATTCCTCTGCTTGGG 57.779 50.000 0.00 0.00 0.00 4.12
1133 3652 1.068083 GATCGCTGATCGCTTGGGA 59.932 57.895 7.71 3.37 38.27 4.37
1262 3781 3.452627 ACTGATCCACGAGCCTTTATCTT 59.547 43.478 0.00 0.00 0.00 2.40
1264 3783 4.191544 TGATCCACGAGCCTTTATCTTTG 58.808 43.478 0.00 0.00 0.00 2.77
1314 3833 2.845739 CGTCCGTACGCGATGCTTG 61.846 63.158 15.93 0.00 43.12 4.01
1323 3842 1.739093 CGCGATGCTTGCAATTGCTG 61.739 55.000 29.37 22.02 42.66 4.41
1372 3892 0.471591 AGTTTCAGCAATTGGGGGCA 60.472 50.000 7.72 0.00 0.00 5.36
1423 3943 9.950496 ATGTAGTTTGACTTCTTGAGATAATGT 57.050 29.630 0.00 0.00 0.00 2.71
1428 3948 6.915544 TGACTTCTTGAGATAATGTGATGC 57.084 37.500 0.00 0.00 0.00 3.91
1451 3971 2.998316 AACTGGCTAGAGATCTTGGC 57.002 50.000 3.17 10.19 42.65 4.52
1558 4078 8.027771 CCTAATATCGAGGTACTAATCACCAAC 58.972 40.741 0.00 0.00 41.55 3.77
1560 4080 2.424601 TCGAGGTACTAATCACCAACCG 59.575 50.000 0.00 0.00 41.55 4.44
1588 4108 2.885135 TGACTCATCAAATGTGGCCT 57.115 45.000 3.32 0.00 30.89 5.19
1589 4109 3.159213 TGACTCATCAAATGTGGCCTT 57.841 42.857 3.32 0.00 30.89 4.35
1590 4110 3.499338 TGACTCATCAAATGTGGCCTTT 58.501 40.909 3.32 0.00 30.89 3.11
1592 4112 3.499338 ACTCATCAAATGTGGCCTTTGA 58.501 40.909 17.98 17.98 44.28 2.69
1594 4114 4.344679 ACTCATCAAATGTGGCCTTTGAAA 59.655 37.500 19.17 11.46 43.61 2.69
1595 4115 4.885413 TCATCAAATGTGGCCTTTGAAAG 58.115 39.130 19.17 15.20 43.61 2.62
1596 4116 4.588106 TCATCAAATGTGGCCTTTGAAAGA 59.412 37.500 19.17 16.75 43.61 2.52
1597 4117 5.070180 TCATCAAATGTGGCCTTTGAAAGAA 59.930 36.000 19.17 6.01 43.61 2.52
1598 4118 5.350504 TCAAATGTGGCCTTTGAAAGAAA 57.649 34.783 14.45 0.00 39.11 2.52
1599 4119 5.358922 TCAAATGTGGCCTTTGAAAGAAAG 58.641 37.500 14.45 0.00 39.11 2.62
1601 4121 5.612725 AATGTGGCCTTTGAAAGAAAGAA 57.387 34.783 6.49 0.00 0.00 2.52
1602 4122 5.612725 ATGTGGCCTTTGAAAGAAAGAAA 57.387 34.783 6.49 0.00 0.00 2.52
1640 4178 4.156922 TGTTGTCTGACAAACCATTTCGTT 59.843 37.500 23.55 0.00 40.15 3.85
1641 4179 4.545823 TGTCTGACAAACCATTTCGTTC 57.454 40.909 8.27 0.00 0.00 3.95
1642 4180 3.314080 TGTCTGACAAACCATTTCGTTCC 59.686 43.478 8.27 0.00 0.00 3.62
1732 4270 4.141344 ACAAGGGTAAGTTGCCAAGTTCTA 60.141 41.667 12.41 0.00 0.00 2.10
2036 4574 5.135508 TCTGTCACTTTGGTAGCTAACTC 57.864 43.478 10.78 0.00 0.00 3.01
2039 4577 4.344102 TGTCACTTTGGTAGCTAACTCTGT 59.656 41.667 10.78 3.00 0.00 3.41
2100 4640 2.030185 CAGAGGTTCTTCTCGTTCCGAA 60.030 50.000 0.00 0.00 38.71 4.30
2277 4828 5.682943 TGGTTGTAGGACAAAAATCGAAG 57.317 39.130 0.00 0.00 40.15 3.79
2281 4832 3.810941 TGTAGGACAAAAATCGAAGCGTT 59.189 39.130 0.00 0.00 0.00 4.84
2286 4837 6.267070 AGGACAAAAATCGAAGCGTTAAAAA 58.733 32.000 0.00 0.00 0.00 1.94
2301 4852 5.517054 GCGTTAAAAAGGTTGACATGAACAA 59.483 36.000 0.00 2.70 0.00 2.83
2353 4904 6.248569 AGGTGGTATAGGTTTCCATGTAAG 57.751 41.667 0.00 0.00 33.68 2.34
2460 5013 5.009610 CCATATTTATGCTGGTACACCAACC 59.990 44.000 2.14 0.00 46.97 3.77
2514 5067 7.750458 TCATTGCGATAGAACATTGAAAAACTC 59.250 33.333 0.00 0.00 39.76 3.01
2540 5093 4.081642 AGCTACACCAAAGCGATCTAGAAA 60.082 41.667 0.00 0.00 44.87 2.52
2607 6511 7.626999 TGTATATGGTAGAAAAGCAGGGTAT 57.373 36.000 0.00 0.00 39.39 2.73
2687 6602 5.653330 ACTAACCTCAAAGAAACCGGAAAAA 59.347 36.000 9.46 0.00 0.00 1.94
2738 6653 4.389687 GCAAAGGTTTGAATAGTTGCATGG 59.610 41.667 6.63 0.00 40.74 3.66
2875 6790 7.052873 ACTTAGGAAGAAGACAATGATCATGG 58.947 38.462 9.46 9.03 0.00 3.66
2913 6828 1.298859 GCTGAAACACCACTAGCCCG 61.299 60.000 0.00 0.00 0.00 6.13
2920 6835 0.537188 CACCACTAGCCCGAGACAAT 59.463 55.000 0.00 0.00 0.00 2.71
2935 6850 4.253685 GAGACAATAGCTACAAAGGCACA 58.746 43.478 0.00 0.00 0.00 4.57
2942 6857 2.162681 GCTACAAAGGCACACCAGAAT 58.837 47.619 0.00 0.00 39.06 2.40
2984 6899 9.466497 AGACATTTATTCCACACAACATATCTT 57.534 29.630 0.00 0.00 0.00 2.40
3005 6920 4.498894 TGAGCATTGAGACTCCATTGAT 57.501 40.909 0.00 0.00 31.65 2.57
3042 6969 4.637534 GCAAGCATGAAAGATCTGGAGTTA 59.362 41.667 0.00 0.00 0.00 2.24
3076 7003 1.742831 GTGGCAAATACATCGGCAAGA 59.257 47.619 0.00 0.00 36.92 3.02
3089 7019 1.756430 GGCAAGAATGAGGGGAACTC 58.244 55.000 0.00 0.00 46.78 3.01
3099 7029 2.104170 GAGGGGAACTCAGAGACGATT 58.896 52.381 3.79 0.00 45.85 3.34
3100 7030 1.827969 AGGGGAACTCAGAGACGATTG 59.172 52.381 3.79 0.00 0.00 2.67
3120 7050 2.224670 TGTGGTAAACTTGGTGGCTAGG 60.225 50.000 0.00 0.00 0.00 3.02
3138 7068 6.000840 GGCTAGGGTTCTAGTTATACGTACT 58.999 44.000 0.00 0.00 43.68 2.73
3147 7077 7.706281 TCTAGTTATACGTACTGTCAGCTAC 57.294 40.000 0.00 1.63 0.00 3.58
3178 7108 5.705905 TCCTCCGCGTGATCATATATATAGG 59.294 44.000 4.92 0.00 0.00 2.57
3188 7118 7.659390 GTGATCATATATATAGGCTTTGCTCCC 59.341 40.741 0.00 0.00 0.00 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 1.893544 TTGGTCGCCCGATTGTTTAA 58.106 45.000 0.00 0.00 0.00 1.52
2 3 1.536331 GTTTGGTCGCCCGATTGTTTA 59.464 47.619 0.00 0.00 0.00 2.01
4 5 0.820074 TGTTTGGTCGCCCGATTGTT 60.820 50.000 0.00 0.00 0.00 2.83
6 7 1.501741 CTGTTTGGTCGCCCGATTG 59.498 57.895 0.00 0.00 0.00 2.67
7 8 2.332654 GCTGTTTGGTCGCCCGATT 61.333 57.895 0.00 0.00 0.00 3.34
8 9 2.746277 GCTGTTTGGTCGCCCGAT 60.746 61.111 0.00 0.00 0.00 4.18
13 14 0.605589 AAGGTAGGCTGTTTGGTCGC 60.606 55.000 0.00 0.00 0.00 5.19
18 19 3.058914 CGAAACTGAAGGTAGGCTGTTTG 60.059 47.826 0.00 0.00 36.65 2.93
51 52 3.847780 TGGTTGCCTGTATACCCTTTACT 59.152 43.478 0.00 0.00 0.00 2.24
52 53 4.224991 TGGTTGCCTGTATACCCTTTAC 57.775 45.455 0.00 0.00 0.00 2.01
63 64 1.473080 GCATGTTGTTTGGTTGCCTGT 60.473 47.619 0.00 0.00 0.00 4.00
83 84 1.068434 ACGGGCAAAAACCAACATCTG 59.932 47.619 0.00 0.00 0.00 2.90
85 86 2.232756 AACGGGCAAAAACCAACATC 57.767 45.000 0.00 0.00 0.00 3.06
115 116 3.118592 GCATACTTGACCTAGTTGAGCCT 60.119 47.826 0.00 0.00 0.00 4.58
125 126 2.493278 GCCAACATTGCATACTTGACCT 59.507 45.455 0.00 0.00 0.00 3.85
126 127 2.230992 TGCCAACATTGCATACTTGACC 59.769 45.455 0.00 0.00 32.85 4.02
157 158 4.639171 GGCGTGTTTGGTTGCCGG 62.639 66.667 0.00 0.00 37.81 6.13
160 161 1.151172 CTTTGGGCGTGTTTGGTTGC 61.151 55.000 0.00 0.00 0.00 4.17
217 224 7.281774 TCAAGCAAACAGGAAAATATGCAAAAA 59.718 29.630 0.00 0.00 36.30 1.94
218 225 6.765036 TCAAGCAAACAGGAAAATATGCAAAA 59.235 30.769 0.00 0.00 36.30 2.44
219 226 6.202570 GTCAAGCAAACAGGAAAATATGCAAA 59.797 34.615 0.00 0.00 36.30 3.68
220 227 5.695816 GTCAAGCAAACAGGAAAATATGCAA 59.304 36.000 0.00 0.00 36.30 4.08
221 228 5.010922 AGTCAAGCAAACAGGAAAATATGCA 59.989 36.000 0.00 0.00 36.30 3.96
231 238 6.016777 AGAGAAAATGTAGTCAAGCAAACAGG 60.017 38.462 0.00 0.00 0.00 4.00
247 254 7.294676 TGTTCACGATATCACAGAGAAAATG 57.705 36.000 3.12 0.00 0.00 2.32
264 272 8.055609 TGCAAACATTTAACTATTTGTTCACG 57.944 30.769 0.00 0.00 39.89 4.35
321 329 0.725117 GGACGAAAAGGGTACATGCG 59.275 55.000 0.00 0.00 0.00 4.73
449 459 1.124780 TTTGACCGGAACTGACTCCA 58.875 50.000 9.46 0.00 34.91 3.86
462 472 0.521735 GCCCGACACTCAATTTGACC 59.478 55.000 0.00 0.00 0.00 4.02
472 485 0.684479 TCTCTATGCAGCCCGACACT 60.684 55.000 0.00 0.00 0.00 3.55
478 491 0.528684 GTGTCGTCTCTATGCAGCCC 60.529 60.000 0.00 0.00 0.00 5.19
498 511 4.998788 TGAGCTACTAGTACACAGCATTG 58.001 43.478 15.86 0.00 36.47 2.82
509 522 8.802267 GGAGATCAGAATTATTGAGCTACTAGT 58.198 37.037 10.99 0.00 41.03 2.57
510 523 8.250332 GGGAGATCAGAATTATTGAGCTACTAG 58.750 40.741 15.60 0.00 41.03 2.57
553 820 4.504461 GCTATTAGATGGTGTGACACGAAG 59.496 45.833 9.90 0.22 34.83 3.79
713 3230 4.038402 GGGTCATGGGATTGATTCATTGAC 59.962 45.833 0.00 0.00 0.00 3.18
777 3294 3.655486 TCTGCTCGAAACGGAATTTACA 58.345 40.909 0.00 0.00 0.00 2.41
798 3315 0.976073 TGGTTAGCTTAGCTCGGCCT 60.976 55.000 11.09 0.00 40.44 5.19
892 3409 2.754664 GATAATGGCCGCCCCTCCAG 62.755 65.000 7.03 0.00 35.57 3.86
947 3465 2.026822 AGGCCAAGATCTGTGTAACCTG 60.027 50.000 5.01 0.00 34.36 4.00
998 3516 0.108945 CAGCAGCTCGACAGACATCA 60.109 55.000 0.00 0.00 0.00 3.07
1096 3615 2.604686 AGTCGCCCAAGCAGAGGA 60.605 61.111 0.00 0.00 39.83 3.71
1133 3652 1.002134 CCCGAACAGAACCCTGCAT 60.002 57.895 0.00 0.00 44.16 3.96
1262 3781 6.139679 ACCAAAGAATGAGGATTACTCCAA 57.860 37.500 1.48 0.00 46.01 3.53
1264 3783 6.434340 ACAAACCAAAGAATGAGGATTACTCC 59.566 38.462 0.00 0.00 46.01 3.85
1314 3833 6.040842 TCCTAAATCCTAATTCCAGCAATTGC 59.959 38.462 23.05 23.05 35.34 3.56
1323 3842 2.479275 GCGCGTCCTAAATCCTAATTCC 59.521 50.000 8.43 0.00 0.00 3.01
1372 3892 2.522836 TTTTGGCAATTGCGTGATGT 57.477 40.000 23.48 0.00 43.26 3.06
1420 3940 5.039920 TCTAGCCAGTTATTGCATCACAT 57.960 39.130 0.00 0.00 0.00 3.21
1423 3943 5.306419 AGATCTCTAGCCAGTTATTGCATCA 59.694 40.000 0.00 0.00 0.00 3.07
1428 3948 4.754114 GCCAAGATCTCTAGCCAGTTATTG 59.246 45.833 0.00 0.00 0.00 1.90
1451 3971 1.446907 ATTCGTCAAGCTCTGCAAGG 58.553 50.000 0.00 0.00 0.00 3.61
1558 4078 2.349590 TGATGAGTCAATGAGTTGCGG 58.650 47.619 0.00 0.00 35.26 5.69
1560 4080 5.571741 CACATTTGATGAGTCAATGAGTTGC 59.428 40.000 9.08 0.00 43.49 4.17
1602 4122 9.342308 TGTCAGACAACATATTTCTTTCTTTCT 57.658 29.630 0.00 0.00 0.00 2.52
1616 4154 4.338118 ACGAAATGGTTTGTCAGACAACAT 59.662 37.500 15.93 13.51 37.90 2.71
1640 4178 1.826487 TCGGAATCCTGCGATCGGA 60.826 57.895 18.30 14.06 40.84 4.55
1641 4179 2.728180 TCGGAATCCTGCGATCGG 59.272 61.111 18.30 0.17 40.84 4.18
1732 4270 4.263639 ACATGGATCAATCAACAGACCACT 60.264 41.667 0.00 0.00 0.00 4.00
1816 4354 4.790962 CTGCATCACCAGCGGCCT 62.791 66.667 0.00 0.00 33.85 5.19
2020 4558 5.304614 TCTGAACAGAGTTAGCTACCAAAGT 59.695 40.000 0.00 0.00 32.82 2.66
2036 4574 3.241773 CGCGACATGTAACATCTGAACAG 60.242 47.826 0.00 0.00 0.00 3.16
2039 4577 3.224884 TCGCGACATGTAACATCTGAA 57.775 42.857 3.71 0.00 0.00 3.02
2100 4640 3.756783 CCTCTCCCCTCGGTCCCT 61.757 72.222 0.00 0.00 0.00 4.20
2110 4650 4.214327 CGAAGCTCGGCCTCTCCC 62.214 72.222 0.00 0.00 36.00 4.30
2277 4828 5.038033 TGTTCATGTCAACCTTTTTAACGC 58.962 37.500 0.00 0.00 0.00 4.84
2281 4832 6.872920 AGCTTTGTTCATGTCAACCTTTTTA 58.127 32.000 0.00 0.00 0.00 1.52
2286 4837 4.718961 AGTAGCTTTGTTCATGTCAACCT 58.281 39.130 0.00 2.73 0.00 3.50
2301 4852 6.313519 TCCACAATCAAATAGGAGTAGCTT 57.686 37.500 0.00 0.00 0.00 3.74
2353 4904 4.210120 GTGATAATCAGCCTGAACATCGAC 59.790 45.833 0.00 2.97 0.00 4.20
2435 4988 4.724399 TGGTGTACCAGCATAAATATGGG 58.276 43.478 0.00 0.00 42.01 4.00
2514 5067 2.744202 AGATCGCTTTGGTGTAGCTTTG 59.256 45.455 0.00 0.00 36.49 2.77
2540 5093 6.620678 CAATTGGTGGAATTTGAGATAACGT 58.379 36.000 0.00 0.00 31.41 3.99
2634 6541 1.005340 GCAAGCACTGATCTTCTCGG 58.995 55.000 0.00 0.00 36.23 4.63
2635 6542 1.392853 GTGCAAGCACTGATCTTCTCG 59.607 52.381 17.37 0.00 43.12 4.04
2648 6555 2.003301 GTTAGTCTAGCCTGTGCAAGC 58.997 52.381 0.00 0.00 41.13 4.01
2697 6612 6.126940 ACCTTTGCAGATAGTCTATCATGTGT 60.127 38.462 19.77 6.59 37.65 3.72
2768 6683 3.068590 ACAATGTGTTCAAGCCTTCAAGG 59.931 43.478 0.00 0.00 38.80 3.61
2769 6684 4.046462 CACAATGTGTTCAAGCCTTCAAG 58.954 43.478 5.00 0.00 0.00 3.02
2770 6685 3.181477 CCACAATGTGTTCAAGCCTTCAA 60.181 43.478 12.79 0.00 0.00 2.69
2771 6686 2.361757 CCACAATGTGTTCAAGCCTTCA 59.638 45.455 12.79 0.00 0.00 3.02
2772 6687 2.362077 ACCACAATGTGTTCAAGCCTTC 59.638 45.455 12.79 0.00 0.00 3.46
2773 6688 2.362077 GACCACAATGTGTTCAAGCCTT 59.638 45.455 12.79 0.00 0.00 4.35
2774 6689 1.956477 GACCACAATGTGTTCAAGCCT 59.044 47.619 12.79 0.00 0.00 4.58
2775 6690 1.956477 AGACCACAATGTGTTCAAGCC 59.044 47.619 13.26 0.00 27.20 4.35
2776 6691 3.189287 CCTAGACCACAATGTGTTCAAGC 59.811 47.826 13.26 0.00 27.20 4.01
2839 6754 6.486993 GTCTTCTTCCTAAGTTCCACAACAAT 59.513 38.462 0.00 0.00 34.60 2.71
2889 6804 2.551071 GCTAGTGGTGTTTCAGCCTCTT 60.551 50.000 0.00 0.00 31.87 2.85
2913 6828 4.093556 GTGTGCCTTTGTAGCTATTGTCTC 59.906 45.833 0.00 0.00 0.00 3.36
2920 6835 1.974957 TCTGGTGTGCCTTTGTAGCTA 59.025 47.619 0.00 0.00 35.27 3.32
2935 6850 4.107149 TCCTAGCTCCATCTCTATTCTGGT 59.893 45.833 0.00 0.00 0.00 4.00
2942 6857 5.332106 AATGTCTCCTAGCTCCATCTCTA 57.668 43.478 0.00 0.00 0.00 2.43
2984 6899 3.986996 TCAATGGAGTCTCAATGCTCA 57.013 42.857 1.47 0.00 33.66 4.26
3005 6920 1.737355 GCTTGCTTTGTGTGCCCTCA 61.737 55.000 0.00 0.00 0.00 3.86
3068 6995 0.035439 GTTCCCCTCATTCTTGCCGA 60.035 55.000 0.00 0.00 0.00 5.54
3089 7019 4.152402 CCAAGTTTACCACAATCGTCTCTG 59.848 45.833 0.00 0.00 0.00 3.35
3090 7020 4.202326 ACCAAGTTTACCACAATCGTCTCT 60.202 41.667 0.00 0.00 0.00 3.10
3099 7029 2.224670 CCTAGCCACCAAGTTTACCACA 60.225 50.000 0.00 0.00 0.00 4.17
3100 7030 2.433436 CCTAGCCACCAAGTTTACCAC 58.567 52.381 0.00 0.00 0.00 4.16
3120 7050 6.038050 AGCTGACAGTACGTATAACTAGAACC 59.962 42.308 3.99 0.00 0.00 3.62
3138 7068 1.540267 GAGGAGAACACGTAGCTGACA 59.460 52.381 0.00 0.00 0.00 3.58
3147 7077 2.543687 ATCACGCGGAGGAGAACACG 62.544 60.000 12.47 0.00 0.00 4.49


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

AutoCloner maintained by Alex Coulton.