Multiple sequence alignment - TraesCS2A01G199900

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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 TraesCS2A01G199900 chr2A 100.000 4010 0 0 1 4010 172536086 172540095 0.000000e+00 7406
1 TraesCS2A01G199900 chr2D 95.188 3741 120 19 1 3699 161898934 161902656 0.000000e+00 5856
2 TraesCS2A01G199900 chr2D 86.147 231 24 6 3771 3995 161903118 161903346 4.000000e-60 243
3 TraesCS2A01G199900 chr2B 93.467 3750 156 36 1 3699 221086150 221089861 0.000000e+00 5485
4 TraesCS2A01G199900 chr2B 95.294 85 3 1 3912 3995 221090034 221090118 2.510000e-27 134
5 TraesCS2A01G199900 chr2B 86.792 106 3 3 3761 3864 221089939 221090035 1.520000e-19 108
6 TraesCS2A01G199900 chr7B 95.781 237 10 0 1869 2105 708484449 708484213 2.260000e-102 383
7 TraesCS2A01G199900 chr7B 90.411 146 14 0 1169 1314 662970643 662970788 4.090000e-45 193
8 TraesCS2A01G199900 chr6D 93.200 250 17 0 2017 2266 43048498 43048249 6.330000e-98 368
9 TraesCS2A01G199900 chr6D 97.887 142 3 0 1869 2010 43049764 43049623 3.100000e-61 246
10 TraesCS2A01G199900 chr1D 78.497 386 67 15 1629 2006 52576431 52576054 5.180000e-59 239
11 TraesCS2A01G199900 chr1B 78.534 382 66 15 1633 2006 83640133 83639760 1.860000e-58 237
12 TraesCS2A01G199900 chr7D 90.909 165 14 1 1151 1314 11941704 11941540 1.880000e-53 220
13 TraesCS2A01G199900 chr7D 90.854 164 13 2 1155 1316 37312530 37312367 6.750000e-53 219
14 TraesCS2A01G199900 chr5B 93.836 146 9 0 1169 1314 8949859 8950004 1.880000e-53 220
15 TraesCS2A01G199900 chr4A 93.151 146 10 0 1169 1314 597183035 597182890 8.730000e-52 215
16 TraesCS2A01G199900 chr4A 76.316 380 77 9 1631 2005 584938743 584938372 1.470000e-44 191
17 TraesCS2A01G199900 chr4B 76.517 379 78 9 1631 2005 26792725 26793096 3.160000e-46 196


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 TraesCS2A01G199900 chr2A 172536086 172540095 4009 False 7406.0 7406 100.0000 1 4010 1 chr2A.!!$F1 4009
1 TraesCS2A01G199900 chr2D 161898934 161903346 4412 False 3049.5 5856 90.6675 1 3995 2 chr2D.!!$F1 3994
2 TraesCS2A01G199900 chr2B 221086150 221090118 3968 False 1909.0 5485 91.8510 1 3995 3 chr2B.!!$F1 3994
3 TraesCS2A01G199900 chr6D 43048249 43049764 1515 True 307.0 368 95.5435 1869 2266 2 chr6D.!!$R1 397

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
788 821 0.106708 GGTGCTAGCATCCCGATTGA 59.893 55.0 22.51 0.00 0.00 2.57 F
2005 2038 0.031857 CGATGAAGATGAGCTCCGCT 59.968 55.0 12.15 5.37 43.88 5.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2217 3368 0.041312 CAAGGTCTTCAACGGTTGCG 60.041 55.000 15.89 9.4 0.00 4.85 R
3876 5447 1.135315 CAACGGAAAGGAGCATGCG 59.865 57.895 13.01 0.0 36.39 4.73 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
59 60 0.109913 ACGACCTTTCTTTCACCCCC 59.890 55.000 0.00 0.00 0.00 5.40
76 77 2.380410 CCGAGCGAAACCGACCTTG 61.380 63.158 0.00 0.00 0.00 3.61
127 128 3.754530 TCGGCGCCGAATCTCACA 61.755 61.111 46.56 23.99 46.01 3.58
336 348 1.411651 GGATCTCCACCCTACCCAGC 61.412 65.000 0.00 0.00 35.64 4.85
338 350 3.470888 CTCCACCCTACCCAGCCG 61.471 72.222 0.00 0.00 0.00 5.52
352 364 2.807045 GCCGTCTCACTGACAGCG 60.807 66.667 1.25 0.00 45.60 5.18
354 366 1.442857 CCGTCTCACTGACAGCGTC 60.443 63.158 1.25 2.32 45.60 5.19
508 524 3.382832 CGAGTCCTCCCCGCTGTT 61.383 66.667 0.00 0.00 0.00 3.16
526 544 2.241176 TGTTCCTCTCCCTCTCTCTCTC 59.759 54.545 0.00 0.00 0.00 3.20
527 545 1.518367 TCCTCTCCCTCTCTCTCTCC 58.482 60.000 0.00 0.00 0.00 3.71
590 608 2.182030 CCTCTCCGGCGAAGTCAC 59.818 66.667 9.30 0.00 0.00 3.67
660 693 1.279271 GGATTGGATAGGGGTGGATCG 59.721 57.143 0.00 0.00 0.00 3.69
722 755 4.263949 ACTTTCCTAACAATCCTCCCCTTG 60.264 45.833 0.00 0.00 0.00 3.61
788 821 0.106708 GGTGCTAGCATCCCGATTGA 59.893 55.000 22.51 0.00 0.00 2.57
940 973 6.023603 TGAATCTATATAACCCCTCCTGGTC 58.976 44.000 0.00 0.00 37.76 4.02
974 1007 3.624900 CAGATGTGTTGAGCTTGTTGTG 58.375 45.455 0.00 0.00 0.00 3.33
977 1010 1.742831 TGTGTTGAGCTTGTTGTGTCC 59.257 47.619 0.00 0.00 0.00 4.02
985 1018 1.604278 GCTTGTTGTGTCCTCCTTGTC 59.396 52.381 0.00 0.00 0.00 3.18
992 1025 1.142097 GTCCTCCTTGTCCGCTAGC 59.858 63.158 4.06 4.06 0.00 3.42
993 1026 1.304962 TCCTCCTTGTCCGCTAGCA 60.305 57.895 16.45 0.00 0.00 3.49
1109 1142 1.404986 GGACGACGTTGATGGGATGAA 60.405 52.381 10.51 0.00 0.00 2.57
1113 1146 0.394352 ACGTTGATGGGATGAAGGCC 60.394 55.000 0.00 0.00 0.00 5.19
1374 1407 0.322975 AGGTCGTCAAGATGCTGCTT 59.677 50.000 0.00 0.00 0.00 3.91
1983 2016 2.102438 CCGCATCTGCTTCTTCGCA 61.102 57.895 0.09 0.00 39.32 5.10
2005 2038 0.031857 CGATGAAGATGAGCTCCGCT 59.968 55.000 12.15 5.37 43.88 5.52
2025 3176 1.607071 TGTGCCTCACAACAGTGGT 59.393 52.632 0.00 0.00 41.69 4.16
2028 3179 2.896801 GCCTCACAACAGTGGTGCG 61.897 63.158 8.45 0.00 36.22 5.34
2100 3251 0.610232 CACTTGGGCTTCTTCCTGGG 60.610 60.000 0.00 0.00 0.00 4.45
2106 3257 1.604915 GCTTCTTCCTGGGTCTCCC 59.395 63.158 0.00 0.00 45.71 4.30
2217 3368 5.142962 CGTTCTTCTTTCAATGCAAGAGAC 58.857 41.667 0.00 0.00 31.84 3.36
2220 3371 2.493035 TCTTTCAATGCAAGAGACGCA 58.507 42.857 0.00 0.00 44.94 5.24
2380 3531 7.042187 CCAGTCTTGAAGATATGTATGCTTCAC 60.042 40.741 0.00 0.00 45.30 3.18
2433 3584 1.135257 CAAGGTCACTCAGCCTACTCG 60.135 57.143 0.00 0.00 34.15 4.18
2635 3786 2.027625 CGTTTCGGAGCCACTGTCC 61.028 63.158 0.00 0.00 0.00 4.02
2637 3788 2.144078 TTTCGGAGCCACTGTCCCA 61.144 57.895 0.00 0.00 0.00 4.37
2665 3816 5.008118 CGTGAGATGTATGAGCAGTTCTCTA 59.992 44.000 0.00 0.00 42.38 2.43
2666 3817 6.458888 CGTGAGATGTATGAGCAGTTCTCTAA 60.459 42.308 0.00 0.00 42.38 2.10
3414 4581 1.066358 TCTGTTCTGCTGCTGATCCTG 60.066 52.381 10.09 8.21 0.00 3.86
3432 4601 4.104086 TCCTGTGATGTATGGTCCTCTTT 58.896 43.478 0.00 0.00 0.00 2.52
3448 4617 0.998727 CTTTCGTTTTGCCGCTCTGC 60.999 55.000 0.00 0.00 0.00 4.26
3524 4701 6.434596 TCAAAACGTGGTTCAGATAAATGTG 58.565 36.000 0.00 0.00 0.00 3.21
3557 4734 7.011763 TGCTCTACAGATGATGTTTATCTTTGC 59.988 37.037 0.00 0.00 39.96 3.68
3572 4749 0.597568 TTTGCCAGACCTGCATTTCG 59.402 50.000 0.00 0.00 38.76 3.46
3574 4751 0.955428 TGCCAGACCTGCATTTCGTC 60.955 55.000 0.00 0.00 32.85 4.20
3666 4844 5.820947 GTGGAACTGTGGACCGAATAATTAT 59.179 40.000 0.00 0.00 0.00 1.28
3699 4878 2.627515 AGCTGTGAAGTGAAGAAGCA 57.372 45.000 0.00 0.00 33.08 3.91
3700 4879 2.492012 AGCTGTGAAGTGAAGAAGCAG 58.508 47.619 0.00 0.00 33.08 4.24
3701 4880 1.534595 GCTGTGAAGTGAAGAAGCAGG 59.465 52.381 0.00 0.00 0.00 4.85
3703 4882 3.672808 CTGTGAAGTGAAGAAGCAGGAT 58.327 45.455 0.00 0.00 0.00 3.24
3704 4883 3.668447 TGTGAAGTGAAGAAGCAGGATC 58.332 45.455 0.00 0.00 0.00 3.36
3743 4963 4.994852 GCACTATCTTGCATATCGGGTAAA 59.005 41.667 0.00 0.00 42.49 2.01
3744 4964 5.643777 GCACTATCTTGCATATCGGGTAAAT 59.356 40.000 0.00 0.00 42.49 1.40
3745 4965 6.183360 GCACTATCTTGCATATCGGGTAAATC 60.183 42.308 0.00 0.00 42.49 2.17
3746 4966 6.873605 CACTATCTTGCATATCGGGTAAATCA 59.126 38.462 0.00 0.00 0.00 2.57
3747 4967 7.063898 CACTATCTTGCATATCGGGTAAATCAG 59.936 40.741 0.00 0.00 0.00 2.90
3748 4968 5.545063 TCTTGCATATCGGGTAAATCAGA 57.455 39.130 0.00 0.00 0.00 3.27
3749 4969 5.541845 TCTTGCATATCGGGTAAATCAGAG 58.458 41.667 0.00 0.00 0.00 3.35
3750 4970 4.955811 TGCATATCGGGTAAATCAGAGT 57.044 40.909 0.00 0.00 0.00 3.24
3751 4971 6.266786 TCTTGCATATCGGGTAAATCAGAGTA 59.733 38.462 0.00 0.00 0.00 2.59
3752 4972 6.025749 TGCATATCGGGTAAATCAGAGTAG 57.974 41.667 0.00 0.00 0.00 2.57
3753 4973 5.773176 TGCATATCGGGTAAATCAGAGTAGA 59.227 40.000 0.00 0.00 0.00 2.59
3755 4975 7.039011 TGCATATCGGGTAAATCAGAGTAGATT 60.039 37.037 0.00 0.00 39.81 2.40
3756 4976 7.489757 GCATATCGGGTAAATCAGAGTAGATTC 59.510 40.741 0.00 0.00 37.24 2.52
3757 4977 5.786264 TCGGGTAAATCAGAGTAGATTCC 57.214 43.478 0.00 0.00 37.24 3.01
3758 4978 5.455872 TCGGGTAAATCAGAGTAGATTCCT 58.544 41.667 0.00 0.00 37.24 3.36
3760 4980 6.383147 TCGGGTAAATCAGAGTAGATTCCTTT 59.617 38.462 0.00 0.00 37.24 3.11
3761 4981 7.048512 CGGGTAAATCAGAGTAGATTCCTTTT 58.951 38.462 0.00 0.00 37.24 2.27
3762 4982 7.011482 CGGGTAAATCAGAGTAGATTCCTTTTG 59.989 40.741 0.00 0.00 37.24 2.44
3763 4983 7.829706 GGGTAAATCAGAGTAGATTCCTTTTGT 59.170 37.037 0.00 0.00 37.24 2.83
3764 4984 9.886132 GGTAAATCAGAGTAGATTCCTTTTGTA 57.114 33.333 0.00 0.00 37.24 2.41
3805 5374 1.136169 ACGTTCGCGAGGTAAAAATGC 60.136 47.619 9.59 0.00 44.71 3.56
3833 5404 3.852286 ACGCGGAACATTTCTACACATA 58.148 40.909 12.47 0.00 0.00 2.29
3836 5407 5.353123 ACGCGGAACATTTCTACACATAATT 59.647 36.000 12.47 0.00 0.00 1.40
3868 5439 3.067461 ACCTCGTAAGCTCAGATCACATC 59.933 47.826 0.00 0.00 37.18 3.06
3876 5447 3.067461 AGCTCAGATCACATCGTTAGGAC 59.933 47.826 0.00 0.00 0.00 3.85
3888 5459 1.739067 GTTAGGACGCATGCTCCTTT 58.261 50.000 30.83 17.86 39.09 3.11
3890 5461 0.178068 TAGGACGCATGCTCCTTTCC 59.822 55.000 30.83 20.86 39.09 3.13
3891 5462 2.464459 GGACGCATGCTCCTTTCCG 61.464 63.158 21.85 6.24 0.00 4.30
3893 5464 1.298859 GACGCATGCTCCTTTCCGTT 61.299 55.000 17.13 0.00 0.00 4.44
3894 5465 1.135315 CGCATGCTCCTTTCCGTTG 59.865 57.895 17.13 0.00 0.00 4.10
3895 5466 1.577328 CGCATGCTCCTTTCCGTTGT 61.577 55.000 17.13 0.00 0.00 3.32
3896 5467 0.598065 GCATGCTCCTTTCCGTTGTT 59.402 50.000 11.37 0.00 0.00 2.83
3897 5468 1.666888 GCATGCTCCTTTCCGTTGTTG 60.667 52.381 11.37 0.00 0.00 3.33
3898 5469 1.879380 CATGCTCCTTTCCGTTGTTGA 59.121 47.619 0.00 0.00 0.00 3.18
3899 5470 2.045561 TGCTCCTTTCCGTTGTTGAA 57.954 45.000 0.00 0.00 0.00 2.69
3900 5471 1.946768 TGCTCCTTTCCGTTGTTGAAG 59.053 47.619 0.00 0.00 0.00 3.02
3901 5472 1.266989 GCTCCTTTCCGTTGTTGAAGG 59.733 52.381 0.00 0.00 39.97 3.46
3905 5476 2.034179 CCTTTCCGTTGTTGAAGGGTTC 59.966 50.000 0.00 0.00 38.16 3.62
3906 5477 2.721425 TTCCGTTGTTGAAGGGTTCT 57.279 45.000 0.00 0.00 38.16 3.01
3980 5563 1.039856 ACTGACTTGGCGGCATTTTT 58.960 45.000 14.32 0.00 0.00 1.94
3999 5582 5.543507 TTTTTACCAAGGACGTACTACCA 57.456 39.130 0.00 0.00 0.00 3.25
4000 5583 5.743636 TTTTACCAAGGACGTACTACCAT 57.256 39.130 0.00 0.00 0.00 3.55
4001 5584 6.849085 TTTTACCAAGGACGTACTACCATA 57.151 37.500 0.00 0.00 0.00 2.74
4002 5585 6.455360 TTTACCAAGGACGTACTACCATAG 57.545 41.667 0.00 0.00 0.00 2.23
4003 5586 3.973425 ACCAAGGACGTACTACCATAGT 58.027 45.455 0.00 0.00 42.68 2.12
4004 5587 4.347607 ACCAAGGACGTACTACCATAGTT 58.652 43.478 0.00 0.00 40.14 2.24
4005 5588 4.400567 ACCAAGGACGTACTACCATAGTTC 59.599 45.833 0.00 0.00 40.14 3.01
4006 5589 4.202090 CCAAGGACGTACTACCATAGTTCC 60.202 50.000 0.00 0.00 40.14 3.62
4007 5590 4.516652 AGGACGTACTACCATAGTTCCT 57.483 45.455 0.00 3.00 38.25 3.36
4008 5591 4.864726 AGGACGTACTACCATAGTTCCTT 58.135 43.478 0.00 0.00 39.39 3.36
4009 5592 4.643784 AGGACGTACTACCATAGTTCCTTG 59.356 45.833 0.00 0.00 39.39 3.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
59 60 2.380410 CCAAGGTCGGTTTCGCTCG 61.380 63.158 0.00 0.00 36.13 5.03
86 87 0.029035 CTCGGTTGTATCTCCGTCGG 59.971 60.000 4.39 4.39 45.88 4.79
277 289 1.315257 ATGGGAATTCACTGCGTGGC 61.315 55.000 9.56 0.00 33.87 5.01
324 336 2.683933 AGACGGCTGGGTAGGGTG 60.684 66.667 0.00 0.00 0.00 4.61
352 364 4.783734 GGTGGTACGTCGGGCGAC 62.784 72.222 9.82 2.31 44.77 5.19
360 372 3.305516 GTGGTCCCGGTGGTACGT 61.306 66.667 0.00 0.00 0.00 3.57
363 375 3.304721 CGTGTGGTCCCGGTGGTA 61.305 66.667 0.00 0.00 0.00 3.25
508 524 1.274708 TGGAGAGAGAGAGGGAGAGGA 60.275 57.143 0.00 0.00 0.00 3.71
603 621 3.351885 AGCTCCTCCTCCCGTCCT 61.352 66.667 0.00 0.00 0.00 3.85
709 742 2.280079 GGGGCAAGGGGAGGATTG 59.720 66.667 0.00 0.00 0.00 2.67
765 798 2.434843 CGGGATGCTAGCACCAGGA 61.435 63.158 26.96 5.78 0.00 3.86
766 799 1.762522 ATCGGGATGCTAGCACCAGG 61.763 60.000 26.96 20.58 0.00 4.45
767 800 0.107456 AATCGGGATGCTAGCACCAG 59.893 55.000 26.96 24.27 0.00 4.00
788 821 3.249687 GGAACCAATCAGCCGAACT 57.750 52.632 0.00 0.00 0.00 3.01
843 876 1.166129 GGCGAGGAAAAGGAAAGGTC 58.834 55.000 0.00 0.00 0.00 3.85
901 934 0.540923 ATTCAGCAGCTGGAGGAGAC 59.459 55.000 22.62 0.00 31.51 3.36
940 973 0.392193 ACATCTGCGGAAGAGGCAAG 60.392 55.000 4.46 0.00 40.47 4.01
974 1007 1.142097 GCTAGCGGACAAGGAGGAC 59.858 63.158 0.00 0.00 0.00 3.85
977 1010 0.037326 TTGTGCTAGCGGACAAGGAG 60.037 55.000 14.73 0.00 44.94 3.69
985 1018 1.430632 CCATTGCTTGTGCTAGCGG 59.569 57.895 10.77 0.00 44.18 5.52
992 1025 1.815003 GAAGGTCTCCCATTGCTTGTG 59.185 52.381 0.00 0.00 0.00 3.33
993 1026 1.272147 GGAAGGTCTCCCATTGCTTGT 60.272 52.381 0.00 0.00 38.44 3.16
1143 1176 4.498520 ACGTCATCGGCCAGCTCG 62.499 66.667 2.24 3.02 41.85 5.03
1345 1378 4.773117 GACGACCTGGACGGCGTC 62.773 72.222 30.72 30.72 46.68 5.19
1605 1638 0.390860 GATCCACGGTGATGGGAGAG 59.609 60.000 10.28 0.00 40.49 3.20
1815 1848 2.680913 GCAAGGCACCGCAGTGTAG 61.681 63.158 1.33 0.00 46.35 2.74
1983 2016 1.202348 CGGAGCTCATCTTCATCGTGT 60.202 52.381 17.19 0.00 0.00 4.49
2005 2038 1.419762 ACCACTGTTGTGAGGCACATA 59.580 47.619 0.62 0.00 44.16 2.29
2025 3176 2.731571 GGGTGATAGCAGACCCGCA 61.732 63.158 0.00 0.00 42.61 5.69
2100 3251 2.633860 CACAAAGTGCCTGGGAGAC 58.366 57.895 0.00 0.00 0.00 3.36
2217 3368 0.041312 CAAGGTCTTCAACGGTTGCG 60.041 55.000 15.89 9.40 0.00 4.85
2220 3371 0.182775 AGCCAAGGTCTTCAACGGTT 59.817 50.000 0.00 0.00 0.00 4.44
2310 3461 0.107848 TGCTAAGGCCGGTAGAAAGC 60.108 55.000 17.89 7.15 37.74 3.51
2380 3531 1.012086 CTCGGTGACATTGCCATCTG 58.988 55.000 0.00 0.00 0.00 2.90
2433 3584 2.575461 GCTGATTTGTGGGCTGGC 59.425 61.111 0.00 0.00 0.00 4.85
2635 3786 2.467838 CTCATACATCTCACGCTGTGG 58.532 52.381 8.46 1.42 33.87 4.17
2637 3788 1.478105 TGCTCATACATCTCACGCTGT 59.522 47.619 0.00 0.00 0.00 4.40
2665 3816 2.419057 GCTGGTGCTTGTTCAGGTT 58.581 52.632 0.00 0.00 36.03 3.50
2666 3817 4.164258 GCTGGTGCTTGTTCAGGT 57.836 55.556 0.00 0.00 36.03 4.00
2685 3836 4.404098 GGCGAACCCACGGATGGT 62.404 66.667 0.00 0.00 45.66 3.55
2697 3848 0.934496 CATTAGAATTCCGCGGCGAA 59.066 50.000 25.92 11.69 0.00 4.70
2703 3854 2.355756 TGAAGCAGCATTAGAATTCCGC 59.644 45.455 0.65 0.22 0.00 5.54
3015 4166 4.021925 GTGGACTTGGCCGCCTCT 62.022 66.667 11.61 0.00 32.25 3.69
3377 4544 9.683069 GCAGAACAGAATGAGATTTTTAAAGAA 57.317 29.630 0.00 0.00 39.69 2.52
3379 4546 9.125906 CAGCAGAACAGAATGAGATTTTTAAAG 57.874 33.333 0.00 0.00 39.69 1.85
3382 4549 6.432162 AGCAGCAGAACAGAATGAGATTTTTA 59.568 34.615 0.00 0.00 39.69 1.52
3384 4551 4.765856 AGCAGCAGAACAGAATGAGATTTT 59.234 37.500 0.00 0.00 39.69 1.82
3385 4552 4.156190 CAGCAGCAGAACAGAATGAGATTT 59.844 41.667 0.00 0.00 39.69 2.17
3386 4553 3.690139 CAGCAGCAGAACAGAATGAGATT 59.310 43.478 0.00 0.00 39.69 2.40
3387 4554 3.055312 TCAGCAGCAGAACAGAATGAGAT 60.055 43.478 0.00 0.00 39.69 2.75
3388 4555 2.301009 TCAGCAGCAGAACAGAATGAGA 59.699 45.455 0.00 0.00 39.69 3.27
3392 4559 2.239150 AGGATCAGCAGCAGAACAGAAT 59.761 45.455 0.00 0.00 0.00 2.40
3414 4581 4.124851 ACGAAAGAGGACCATACATCAC 57.875 45.455 0.00 0.00 0.00 3.06
3484 4656 4.377431 CGTTTTGAAGCATACAGACTGTCC 60.377 45.833 12.39 2.08 0.00 4.02
3557 4734 1.522668 TTGACGAAATGCAGGTCTGG 58.477 50.000 10.17 0.00 0.00 3.86
3572 4749 2.159181 CGGTTCCCGTGTCATTGAC 58.841 57.895 9.93 9.93 42.73 3.18
3666 4844 5.758296 ACTTCACAGCTAAAAGTTCGAATCA 59.242 36.000 0.00 0.00 29.09 2.57
3699 4878 1.958288 AGGGTGCAACTACAGATCCT 58.042 50.000 0.00 0.00 36.74 3.24
3700 4879 2.359900 CAAGGGTGCAACTACAGATCC 58.640 52.381 0.00 0.00 36.74 3.36
3730 4950 6.268825 TCTACTCTGATTTACCCGATATGC 57.731 41.667 0.00 0.00 0.00 3.14
3749 4969 9.968743 CGACAAACTAATACAAAAGGAATCTAC 57.031 33.333 0.00 0.00 0.00 2.59
3750 4970 8.662141 GCGACAAACTAATACAAAAGGAATCTA 58.338 33.333 0.00 0.00 0.00 1.98
3751 4971 7.527457 GCGACAAACTAATACAAAAGGAATCT 58.473 34.615 0.00 0.00 0.00 2.40
3752 4972 6.464834 CGCGACAAACTAATACAAAAGGAATC 59.535 38.462 0.00 0.00 0.00 2.52
3753 4973 6.148150 TCGCGACAAACTAATACAAAAGGAAT 59.852 34.615 3.71 0.00 0.00 3.01
3755 4975 4.989797 TCGCGACAAACTAATACAAAAGGA 59.010 37.500 3.71 0.00 0.00 3.36
3756 4976 5.272167 TCGCGACAAACTAATACAAAAGG 57.728 39.130 3.71 0.00 0.00 3.11
3757 4977 7.532546 TCATTTCGCGACAAACTAATACAAAAG 59.467 33.333 9.15 0.00 0.00 2.27
3758 4978 7.353497 TCATTTCGCGACAAACTAATACAAAA 58.647 30.769 9.15 0.00 0.00 2.44
3760 4980 6.469139 TCATTTCGCGACAAACTAATACAA 57.531 33.333 9.15 0.00 0.00 2.41
3761 4981 6.469139 TTCATTTCGCGACAAACTAATACA 57.531 33.333 9.15 0.00 0.00 2.29
3762 4982 6.023564 CGTTTCATTTCGCGACAAACTAATAC 60.024 38.462 9.15 0.00 0.00 1.89
3763 4983 6.010675 CGTTTCATTTCGCGACAAACTAATA 58.989 36.000 9.15 0.00 0.00 0.98
3764 4984 4.843984 CGTTTCATTTCGCGACAAACTAAT 59.156 37.500 9.15 1.09 0.00 1.73
3765 4985 4.205334 CGTTTCATTTCGCGACAAACTAA 58.795 39.130 9.15 0.00 0.00 2.24
3766 4986 3.245754 ACGTTTCATTTCGCGACAAACTA 59.754 39.130 9.15 0.00 0.00 2.24
3767 4987 2.031191 ACGTTTCATTTCGCGACAAACT 59.969 40.909 9.15 3.81 0.00 2.66
3768 4988 2.368685 ACGTTTCATTTCGCGACAAAC 58.631 42.857 9.15 14.31 0.00 2.93
3805 5374 6.032042 GTGTAGAAATGTTCCGCGTAAAAATG 59.968 38.462 4.92 0.00 0.00 2.32
3876 5447 1.135315 CAACGGAAAGGAGCATGCG 59.865 57.895 13.01 0.00 36.39 4.73
3879 5450 2.270352 TCAACAACGGAAAGGAGCAT 57.730 45.000 0.00 0.00 0.00 3.79
3881 5452 1.266989 CCTTCAACAACGGAAAGGAGC 59.733 52.381 0.00 0.00 0.00 4.70
3888 5459 1.766496 AGAGAACCCTTCAACAACGGA 59.234 47.619 0.00 0.00 0.00 4.69
3890 5461 3.113260 AGAGAGAACCCTTCAACAACG 57.887 47.619 0.00 0.00 0.00 4.10
3891 5462 4.709250 AGAAGAGAGAACCCTTCAACAAC 58.291 43.478 0.00 0.00 40.78 3.32
3893 5464 4.227197 AGAGAAGAGAGAACCCTTCAACA 58.773 43.478 0.00 0.00 40.78 3.33
3894 5465 4.882842 AGAGAAGAGAGAACCCTTCAAC 57.117 45.455 0.00 0.00 40.78 3.18
3895 5466 4.656112 ACAAGAGAAGAGAGAACCCTTCAA 59.344 41.667 0.00 0.00 40.78 2.69
3896 5467 4.227197 ACAAGAGAAGAGAGAACCCTTCA 58.773 43.478 0.00 0.00 40.78 3.02
3897 5468 4.882842 ACAAGAGAAGAGAGAACCCTTC 57.117 45.455 0.00 0.00 39.14 3.46
3898 5469 4.656112 TGAACAAGAGAAGAGAGAACCCTT 59.344 41.667 0.00 0.00 0.00 3.95
3899 5470 4.227197 TGAACAAGAGAAGAGAGAACCCT 58.773 43.478 0.00 0.00 0.00 4.34
3900 5471 4.282195 TCTGAACAAGAGAAGAGAGAACCC 59.718 45.833 0.00 0.00 0.00 4.11
3901 5472 5.461032 TCTGAACAAGAGAAGAGAGAACC 57.539 43.478 0.00 0.00 0.00 3.62
3980 5563 5.509498 ACTATGGTAGTACGTCCTTGGTAA 58.491 41.667 0.00 0.00 37.23 2.85


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

AutoCloner maintained by Alex Coulton.