Multiple sequence alignment - TraesCS6B01G262800

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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 TraesCS6B01G262800 chr6B 100.000 3094 0 0 713 3806 473070056 473066963 0.000000e+00 5714.0
1 TraesCS6B01G262800 chr6B 100.000 358 0 0 1 358 473070768 473070411 0.000000e+00 662.0
2 TraesCS6B01G262800 chr6B 93.220 59 3 1 3748 3806 256347763 256347706 6.770000e-13 86.1
3 TraesCS6B01G262800 chr6B 92.857 42 3 0 1200 1241 473069491 473069450 1.140000e-05 62.1
4 TraesCS6B01G262800 chr6B 92.857 42 3 0 1278 1319 473069569 473069528 1.140000e-05 62.1
5 TraesCS6B01G262800 chr6D 95.285 3033 106 9 720 3748 306139924 306136925 0.000000e+00 4774.0
6 TraesCS6B01G262800 chr6D 89.197 361 22 11 7 358 306140404 306140052 5.840000e-118 435.0
7 TraesCS6B01G262800 chr6D 95.238 42 2 0 1278 1319 306139444 306139403 2.450000e-07 67.6
8 TraesCS6B01G262800 chr6D 89.286 56 2 2 3749 3801 449141514 449141568 2.450000e-07 67.6
9 TraesCS6B01G262800 chr6D 93.023 43 3 0 1199 1241 306139367 306139325 3.170000e-06 63.9
10 TraesCS6B01G262800 chr6A 94.937 2785 115 7 720 3499 441501937 441499174 0.000000e+00 4338.0
11 TraesCS6B01G262800 chr6A 87.569 362 30 11 7 358 441502429 441502073 4.580000e-109 405.0
12 TraesCS6B01G262800 chr6A 92.222 180 13 1 3567 3746 441499173 441498995 1.750000e-63 254.0
13 TraesCS6B01G262800 chr6A 95.122 82 4 0 1238 1319 441501458 441501377 3.090000e-26 130.0
14 TraesCS6B01G262800 chr6A 93.902 82 4 1 1199 1279 441501419 441501338 5.160000e-24 122.0
15 TraesCS6B01G262800 chr6A 95.238 42 2 0 1278 1319 441501457 441501416 2.450000e-07 67.6
16 TraesCS6B01G262800 chr6A 93.023 43 3 0 1199 1241 441501380 441501338 3.170000e-06 63.9
17 TraesCS6B01G262800 chr7D 98.824 85 1 0 3243 3327 252062992 252063076 6.590000e-33 152.0
18 TraesCS6B01G262800 chr5A 98.810 84 1 0 3245 3328 510463984 510463901 2.370000e-32 150.0
19 TraesCS6B01G262800 chr5A 97.674 86 2 0 3245 3330 510464097 510464182 8.520000e-32 148.0
20 TraesCS6B01G262800 chr7A 97.647 85 2 0 3243 3327 269102302 269102218 3.060000e-31 147.0
21 TraesCS6B01G262800 chr7B 96.552 87 3 0 3243 3329 228827638 228827724 1.100000e-30 145.0
22 TraesCS6B01G262800 chr7B 96.154 52 2 0 3755 3806 28687975 28687924 6.770000e-13 86.1
23 TraesCS6B01G262800 chr5D 95.604 91 2 2 3241 3330 402976701 402976612 1.100000e-30 145.0
24 TraesCS6B01G262800 chr5D 96.552 87 2 1 3243 3328 402976795 402976881 3.960000e-30 143.0
25 TraesCS6B01G262800 chr3B 98.333 60 0 1 3747 3806 513989283 513989225 1.870000e-18 104.0
26 TraesCS6B01G262800 chr3B 98.113 53 1 0 3754 3806 316571125 316571177 4.050000e-15 93.5
27 TraesCS6B01G262800 chr1B 95.000 60 3 0 3747 3806 535938277 535938218 1.130000e-15 95.3
28 TraesCS6B01G262800 chr1B 96.226 53 2 0 3754 3806 119492293 119492241 1.880000e-13 87.9
29 TraesCS6B01G262800 chr5B 98.113 53 0 1 3754 3806 477090658 477090607 1.460000e-14 91.6
30 TraesCS6B01G262800 chr3D 96.226 53 2 0 3754 3806 357434642 357434590 1.880000e-13 87.9


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 TraesCS6B01G262800 chr6B 473066963 473070768 3805 True 1625.050000 5714 96.428500 1 3806 4 chr6B.!!$R2 3805
1 TraesCS6B01G262800 chr6D 306136925 306140404 3479 True 1335.125000 4774 93.185750 7 3748 4 chr6D.!!$R1 3741
2 TraesCS6B01G262800 chr6A 441498995 441502429 3434 True 768.642857 4338 93.144714 7 3746 7 chr6A.!!$R1 3739

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
277 286 0.188834 CTCCCCTATCCCTTCCTCGT 59.811 60.000 0.0 0.0 0.0 4.18 F
1156 1167 0.672711 GCGGGGTAGTCAAACTGTCC 60.673 60.000 0.0 0.0 0.0 4.02 F
1276 1287 1.202927 TGAAGAAGGAAAGGGTGCCAG 60.203 52.381 0.0 0.0 0.0 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1164 1175 0.035317 CCAGAGTTAGTGTGCTGCCA 59.965 55.000 0.0 0.0 0.00 4.92 R
2724 2735 1.060729 TGGCCACACCTAACTGCTTA 58.939 50.000 0.0 0.0 40.22 3.09 R
3182 3200 1.613437 CGAAAATGGGCAGGAGTTTGT 59.387 47.619 0.0 0.0 0.00 2.83 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
22 23 0.247736 ACAGCTTAGGCAGAAGTCGG 59.752 55.000 0.00 0.00 41.70 4.79
30 31 1.963338 GCAGAAGTCGGCAAGCAGT 60.963 57.895 0.00 0.00 37.03 4.40
39 40 3.677648 GCAAGCAGTGGGCCACAG 61.678 66.667 36.28 29.93 46.50 3.66
55 57 2.101249 CCACAGTGGCAAGTCAAACATT 59.899 45.455 6.67 0.00 0.00 2.71
64 66 4.083590 GGCAAGTCAAACATTCAGAGAGAC 60.084 45.833 0.00 0.00 0.00 3.36
80 82 7.050377 TCAGAGAGACACATTTGAAAGAGTTT 58.950 34.615 0.00 0.00 0.00 2.66
81 83 7.554118 TCAGAGAGACACATTTGAAAGAGTTTT 59.446 33.333 0.00 0.00 0.00 2.43
119 122 6.152154 TGGACTTTGAGTCATTATCTACGTCA 59.848 38.462 9.99 0.00 46.79 4.35
150 153 7.605410 TCTTTTTGTGAGTAGAAGAACGTTT 57.395 32.000 0.46 0.00 0.00 3.60
151 154 8.706492 TCTTTTTGTGAGTAGAAGAACGTTTA 57.294 30.769 0.46 0.00 0.00 2.01
152 155 9.321562 TCTTTTTGTGAGTAGAAGAACGTTTAT 57.678 29.630 0.46 0.00 0.00 1.40
153 156 9.370126 CTTTTTGTGAGTAGAAGAACGTTTATG 57.630 33.333 0.46 0.00 0.00 1.90
176 185 7.815840 TGTACATGTTGATCCAAAAAGAGAA 57.184 32.000 2.30 0.00 0.00 2.87
277 286 0.188834 CTCCCCTATCCCTTCCTCGT 59.811 60.000 0.00 0.00 0.00 4.18
303 312 4.106925 CCACCCTGCTCTCCTGCC 62.107 72.222 0.00 0.00 0.00 4.85
783 794 6.128117 GCTTTTGGTCATCCGTTGATTACTTA 60.128 38.462 0.00 0.00 36.54 2.24
862 873 2.026905 GCCCCTGGTTTTGTGACTCAA 61.027 52.381 0.00 0.00 0.00 3.02
968 979 2.048444 ACGGTTATCGAGCTGAGGTA 57.952 50.000 0.00 0.00 42.43 3.08
972 983 2.544069 GGTTATCGAGCTGAGGTACTGC 60.544 54.545 0.00 0.00 41.55 4.40
1156 1167 0.672711 GCGGGGTAGTCAAACTGTCC 60.673 60.000 0.00 0.00 0.00 4.02
1161 1172 2.572104 GGGTAGTCAAACTGTCCAGGAT 59.428 50.000 0.00 0.00 0.00 3.24
1164 1175 4.466726 GGTAGTCAAACTGTCCAGGATAGT 59.533 45.833 13.07 13.07 35.60 2.12
1231 1242 5.882557 GCTGATTATGTGAAGAAGGAAAGGA 59.117 40.000 0.00 0.00 0.00 3.36
1276 1287 1.202927 TGAAGAAGGAAAGGGTGCCAG 60.203 52.381 0.00 0.00 0.00 4.85
1420 1431 2.767505 CGAAGAGTGCCTTACCAAAGT 58.232 47.619 0.00 0.00 34.68 2.66
1422 1433 2.457366 AGAGTGCCTTACCAAAGTCG 57.543 50.000 0.00 0.00 0.00 4.18
1452 1463 5.872070 GGTGAAGAAGAAACTGAAGATCGAT 59.128 40.000 0.00 0.00 0.00 3.59
1617 1628 6.295632 CGGTTATCCAATCATATACTGGGTCA 60.296 42.308 0.00 0.00 0.00 4.02
1662 1673 7.380423 TCTCCCTATTCTTTCTGAAATAGGG 57.620 40.000 27.08 27.08 45.31 3.53
1749 1760 2.834549 TGCTCCTTCAAGAGAACTAGGG 59.165 50.000 0.00 0.00 35.82 3.53
1780 1791 3.007398 AGTGCGAGAAGTGGAGAAGATTT 59.993 43.478 0.00 0.00 0.00 2.17
1875 1886 7.148171 GCACTGAAGAAGAACAAGCCTATTATT 60.148 37.037 0.00 0.00 0.00 1.40
2347 2358 2.349817 GCTCATCACAAAGTTGACACCG 60.350 50.000 0.00 0.00 0.00 4.94
2505 2516 2.878406 GCTTGCAAGGTCAACAGTTCTA 59.122 45.455 27.10 0.00 0.00 2.10
2724 2735 5.284079 GCATTTATCATGAGGAAAATGCGT 58.716 37.500 30.05 8.95 42.68 5.24
2886 2898 6.408035 TGGCATTTAGTCCGACTGTATTTTA 58.592 36.000 11.52 0.00 0.00 1.52
2994 3007 4.386867 CATGAGAGCAGGCATTGAAATT 57.613 40.909 0.00 0.00 0.00 1.82
3009 3022 9.213799 GGCATTGAAATTTGAAAATTACCAGTA 57.786 29.630 0.00 0.00 37.62 2.74
3025 3038 4.663636 CCAGTATTTTCTGGTGACGTTC 57.336 45.455 4.75 0.00 46.92 3.95
3046 3059 7.043458 ACGTTCAGCTGTTTATTTTTCAATGTG 60.043 33.333 14.67 0.00 0.00 3.21
3095 3108 0.253160 TGGTGCCCCTCTTATGGAGT 60.253 55.000 0.00 0.00 40.30 3.85
3097 3110 0.464554 GTGCCCCTCTTATGGAGTGC 60.465 60.000 0.00 0.00 40.30 4.40
3181 3199 3.001736 GTGCGAGATATGTGAAAAGGCTC 59.998 47.826 0.00 0.00 0.00 4.70
3182 3200 3.198068 GCGAGATATGTGAAAAGGCTCA 58.802 45.455 0.00 0.00 0.00 4.26
3213 3231 2.544069 GCCCATTTTCGTTCGTTTGGAA 60.544 45.455 0.00 0.00 0.00 3.53
3221 3239 9.337091 CATTTTCGTTCGTTTGGAAATAAGTAT 57.663 29.630 0.00 0.00 36.14 2.12
3344 3362 3.306472 TTTTTCAGTGCACCCTACCTT 57.694 42.857 14.63 0.00 0.00 3.50
3345 3363 3.306472 TTTTCAGTGCACCCTACCTTT 57.694 42.857 14.63 0.00 0.00 3.11
3346 3364 2.561478 TTCAGTGCACCCTACCTTTC 57.439 50.000 14.63 0.00 0.00 2.62
3347 3365 0.690762 TCAGTGCACCCTACCTTTCC 59.309 55.000 14.63 0.00 0.00 3.13
3348 3366 0.322546 CAGTGCACCCTACCTTTCCC 60.323 60.000 14.63 0.00 0.00 3.97
3349 3367 1.001269 GTGCACCCTACCTTTCCCC 60.001 63.158 5.22 0.00 0.00 4.81
3350 3368 2.235761 TGCACCCTACCTTTCCCCC 61.236 63.158 0.00 0.00 0.00 5.40
3391 3409 2.821378 TCAGCAACACAATCCTTCCATG 59.179 45.455 0.00 0.00 0.00 3.66
3415 3434 4.120331 GCCCTGATGCGTGCCAAC 62.120 66.667 0.00 0.00 0.00 3.77
3455 3474 0.318614 CCAACCCAAATGCGACACAC 60.319 55.000 0.00 0.00 0.00 3.82
3462 3481 1.135603 CAAATGCGACACACATCCAGG 60.136 52.381 0.00 0.00 0.00 4.45
3507 3526 1.975407 GCCCAGCAGTCAGTTGCAT 60.975 57.895 0.52 0.00 46.47 3.96
3515 3534 4.208460 CAGCAGTCAGTTGCATTTTTCTTG 59.792 41.667 0.52 0.00 46.47 3.02
3534 3553 2.114616 TGTCCCTTTTGTGTGGCAAAT 58.885 42.857 0.00 0.00 45.38 2.32
3535 3554 2.102252 TGTCCCTTTTGTGTGGCAAATC 59.898 45.455 0.00 0.00 45.38 2.17
3537 3556 1.415659 CCCTTTTGTGTGGCAAATCCA 59.584 47.619 0.00 0.00 45.38 3.41
3550 3569 5.495640 TGGCAAATCCAGTTTTTCTTTTGT 58.504 33.333 0.00 0.00 40.72 2.83
3551 3570 5.353678 TGGCAAATCCAGTTTTTCTTTTGTG 59.646 36.000 0.00 0.00 40.72 3.33
3552 3571 5.353956 GGCAAATCCAGTTTTTCTTTTGTGT 59.646 36.000 0.00 0.00 34.01 3.72
3553 3572 6.128035 GGCAAATCCAGTTTTTCTTTTGTGTT 60.128 34.615 0.00 0.00 34.01 3.32
3554 3573 7.065204 GGCAAATCCAGTTTTTCTTTTGTGTTA 59.935 33.333 0.00 0.00 34.01 2.41
3555 3574 8.116136 GCAAATCCAGTTTTTCTTTTGTGTTAG 58.884 33.333 0.00 0.00 0.00 2.34
3556 3575 9.364989 CAAATCCAGTTTTTCTTTTGTGTTAGA 57.635 29.630 0.00 0.00 0.00 2.10
3616 3635 0.875059 AAAAGGGCTTTCGAAGAGCG 59.125 50.000 19.18 4.54 41.03 5.03
3632 3651 2.961768 CGGAGGCGGCAAATTTGT 59.038 55.556 19.03 0.00 0.00 2.83
3697 3716 2.757868 AGCAACCAAAAAGCACTGTGTA 59.242 40.909 9.86 0.00 0.00 2.90
3748 3767 1.072505 ATGCCCTCGTCAACCGTTT 59.927 52.632 0.00 0.00 37.94 3.60
3749 3768 0.536460 ATGCCCTCGTCAACCGTTTT 60.536 50.000 0.00 0.00 37.94 2.43
3750 3769 0.748729 TGCCCTCGTCAACCGTTTTT 60.749 50.000 0.00 0.00 37.94 1.94
3771 3790 7.821595 TTTTTCTTTCTCGAATACGCATAGA 57.178 32.000 0.00 0.00 39.58 1.98
3772 3791 7.451281 TTTTCTTTCTCGAATACGCATAGAG 57.549 36.000 0.00 0.00 39.58 2.43
3773 3792 4.537965 TCTTTCTCGAATACGCATAGAGC 58.462 43.478 0.00 0.00 39.58 4.09
3788 3807 6.471976 GCATAGAGCGTATCATTTCATTGA 57.528 37.500 0.00 0.00 0.00 2.57
3789 3808 7.069852 GCATAGAGCGTATCATTTCATTGAT 57.930 36.000 0.00 0.00 39.60 2.57
3790 3809 8.189709 GCATAGAGCGTATCATTTCATTGATA 57.810 34.615 0.00 0.00 37.51 2.15
3791 3810 8.326713 GCATAGAGCGTATCATTTCATTGATAG 58.673 37.037 0.00 0.00 38.83 2.08
3792 3811 8.815189 CATAGAGCGTATCATTTCATTGATAGG 58.185 37.037 8.89 8.89 42.88 2.57
3793 3812 6.763355 AGAGCGTATCATTTCATTGATAGGT 58.237 36.000 12.85 5.99 42.39 3.08
3794 3813 7.896811 AGAGCGTATCATTTCATTGATAGGTA 58.103 34.615 12.85 0.00 42.39 3.08
3795 3814 8.031864 AGAGCGTATCATTTCATTGATAGGTAG 58.968 37.037 12.85 1.44 42.39 3.18
3796 3815 7.896811 AGCGTATCATTTCATTGATAGGTAGA 58.103 34.615 12.85 0.00 42.39 2.59
3797 3816 8.031864 AGCGTATCATTTCATTGATAGGTAGAG 58.968 37.037 12.85 0.00 42.39 2.43
3798 3817 7.276658 GCGTATCATTTCATTGATAGGTAGAGG 59.723 40.741 12.85 0.00 42.39 3.69
3799 3818 8.523658 CGTATCATTTCATTGATAGGTAGAGGA 58.476 37.037 6.17 0.00 38.83 3.71
3800 3819 9.868277 GTATCATTTCATTGATAGGTAGAGGAG 57.132 37.037 0.00 0.00 38.83 3.69
3801 3820 7.921041 TCATTTCATTGATAGGTAGAGGAGT 57.079 36.000 0.00 0.00 0.00 3.85
3802 3821 8.324191 TCATTTCATTGATAGGTAGAGGAGTT 57.676 34.615 0.00 0.00 0.00 3.01
3803 3822 8.772250 TCATTTCATTGATAGGTAGAGGAGTTT 58.228 33.333 0.00 0.00 0.00 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.924290 CGACTTCTGCCTAAGCTGTAAC 59.076 50.000 0.00 0.00 40.80 2.50
1 2 2.094182 CCGACTTCTGCCTAAGCTGTAA 60.094 50.000 0.00 0.00 40.80 2.41
2 3 1.476891 CCGACTTCTGCCTAAGCTGTA 59.523 52.381 0.00 0.00 40.80 2.74
3 4 0.247736 CCGACTTCTGCCTAAGCTGT 59.752 55.000 0.00 0.00 40.80 4.40
4 5 1.086634 GCCGACTTCTGCCTAAGCTG 61.087 60.000 0.00 0.00 40.80 4.24
5 6 1.219393 GCCGACTTCTGCCTAAGCT 59.781 57.895 0.00 0.00 40.80 3.74
22 23 3.677648 CTGTGGCCCACTGCTTGC 61.678 66.667 16.23 0.00 40.92 4.01
38 39 3.554934 TCTGAATGTTTGACTTGCCACT 58.445 40.909 0.00 0.00 0.00 4.00
39 40 3.565482 TCTCTGAATGTTTGACTTGCCAC 59.435 43.478 0.00 0.00 0.00 5.01
55 57 6.166984 ACTCTTTCAAATGTGTCTCTCTGA 57.833 37.500 0.00 0.00 0.00 3.27
132 135 7.650890 TGTACATAAACGTTCTTCTACTCACA 58.349 34.615 0.00 0.00 0.00 3.58
143 146 7.067532 TGGATCAACATGTACATAAACGTTC 57.932 36.000 8.32 2.17 0.00 3.95
147 150 9.906660 TCTTTTTGGATCAACATGTACATAAAC 57.093 29.630 8.32 0.00 0.00 2.01
150 153 9.513906 TTCTCTTTTTGGATCAACATGTACATA 57.486 29.630 8.32 0.00 0.00 2.29
151 154 8.408043 TTCTCTTTTTGGATCAACATGTACAT 57.592 30.769 1.41 1.41 0.00 2.29
152 155 7.815840 TTCTCTTTTTGGATCAACATGTACA 57.184 32.000 0.00 0.00 0.00 2.90
153 156 9.528018 TTTTTCTCTTTTTGGATCAACATGTAC 57.472 29.630 0.00 0.00 0.00 2.90
303 312 1.540367 TTGGGGTGGGTAGGTCAGG 60.540 63.158 0.00 0.00 0.00 3.86
717 728 1.153429 CGGGATTGAGAACGGGGAC 60.153 63.158 0.00 0.00 0.00 4.46
718 729 3.026431 GCGGGATTGAGAACGGGGA 62.026 63.158 0.00 0.00 0.00 4.81
783 794 7.813087 AATTGGGGGAAATTAGTTTGAGAAT 57.187 32.000 0.00 0.00 0.00 2.40
831 842 1.457643 CCAGGGGCGGATCTAGACA 60.458 63.158 0.00 0.00 0.00 3.41
862 873 1.779061 AATCAGGCAACCGGGTCAGT 61.779 55.000 6.32 0.00 37.17 3.41
916 927 9.118236 GTTTCAAACACTTTATATCTCAGCAAC 57.882 33.333 0.00 0.00 0.00 4.17
951 962 2.544069 GCAGTACCTCAGCTCGATAACC 60.544 54.545 0.00 0.00 0.00 2.85
972 983 6.598525 TGCTATTACTGAACAATGTCAAACG 58.401 36.000 0.00 0.00 0.00 3.60
1156 1167 0.251354 AGTGTGCTGCCACTATCCTG 59.749 55.000 18.13 0.00 43.71 3.86
1161 1172 2.029020 CAGAGTTAGTGTGCTGCCACTA 60.029 50.000 20.00 20.00 43.71 2.74
1164 1175 0.035317 CCAGAGTTAGTGTGCTGCCA 59.965 55.000 0.00 0.00 0.00 4.92
1231 1242 1.042229 TCAGCTTTGCTTTGTGGCAT 58.958 45.000 0.00 0.00 42.09 4.40
1276 1287 6.615088 TCTTCACATAATCAGCTTTGCTTTC 58.385 36.000 0.00 0.00 36.40 2.62
1337 1348 4.996122 CACTGAAAGCAGAATCTCTTGAGT 59.004 41.667 0.00 0.00 45.17 3.41
1388 1399 0.901124 ACTCTTCGCTGGCTTCAGAT 59.099 50.000 0.00 0.00 40.86 2.90
1420 1431 0.756294 TTCTTCTTCACCACTGGCGA 59.244 50.000 0.00 0.00 0.00 5.54
1422 1433 2.291741 CAGTTTCTTCTTCACCACTGGC 59.708 50.000 0.00 0.00 0.00 4.85
1452 1463 5.301551 TGAACTTGCAGAAAATAAAGCCTCA 59.698 36.000 0.00 0.00 0.00 3.86
1725 1736 3.845781 AGTTCTCTTGAAGGAGCAACA 57.154 42.857 0.00 0.00 33.70 3.33
1780 1791 4.624913 AGTCTCTTATCATCAGGACCCAA 58.375 43.478 0.00 0.00 0.00 4.12
2724 2735 1.060729 TGGCCACACCTAACTGCTTA 58.939 50.000 0.00 0.00 40.22 3.09
2975 2987 3.827876 TCAAATTTCAATGCCTGCTCTCA 59.172 39.130 0.00 0.00 0.00 3.27
2979 2991 6.887626 AATTTTCAAATTTCAATGCCTGCT 57.112 29.167 0.00 0.00 35.16 4.24
3009 3022 2.549754 CAGCTGAACGTCACCAGAAAAT 59.450 45.455 8.42 0.00 32.37 1.82
3025 3038 6.479660 ACCACACATTGAAAAATAAACAGCTG 59.520 34.615 13.48 13.48 0.00 4.24
3046 3059 2.472695 TCCAGCTGTACATCAACCAC 57.527 50.000 13.81 0.00 0.00 4.16
3057 3070 5.163519 GCACCAAAACATATAATCCAGCTGT 60.164 40.000 13.81 0.00 0.00 4.40
3095 3108 2.741759 TCTCACAAATCGCAGTAGCA 57.258 45.000 0.00 0.00 42.27 3.49
3097 3110 4.428209 AGTCATCTCACAAATCGCAGTAG 58.572 43.478 0.00 0.00 0.00 2.57
3181 3199 2.607771 CGAAAATGGGCAGGAGTTTGTG 60.608 50.000 0.00 0.00 0.00 3.33
3182 3200 1.613437 CGAAAATGGGCAGGAGTTTGT 59.387 47.619 0.00 0.00 0.00 2.83
3221 3239 9.797642 ATTTGTGAAATGTATAGCATCCAGATA 57.202 29.630 0.00 0.00 36.67 1.98
3223 3241 9.276590 CTATTTGTGAAATGTATAGCATCCAGA 57.723 33.333 0.00 0.00 36.67 3.86
3235 3253 7.062957 AGCTATAAGGGCTATTTGTGAAATGT 58.937 34.615 0.00 0.00 38.36 2.71
3328 3346 0.690762 GGAAAGGTAGGGTGCACTGA 59.309 55.000 17.98 0.00 0.00 3.41
3330 3348 1.498176 GGGGAAAGGTAGGGTGCACT 61.498 60.000 17.98 0.00 0.00 4.40
3331 3349 1.001269 GGGGAAAGGTAGGGTGCAC 60.001 63.158 8.80 8.80 0.00 4.57
3332 3350 2.235761 GGGGGAAAGGTAGGGTGCA 61.236 63.158 0.00 0.00 0.00 4.57
3333 3351 2.681591 GGGGGAAAGGTAGGGTGC 59.318 66.667 0.00 0.00 0.00 5.01
3347 3365 6.437162 TGAGAAAGATTAAAAACATGAGGGGG 59.563 38.462 0.00 0.00 0.00 5.40
3348 3366 7.466746 TGAGAAAGATTAAAAACATGAGGGG 57.533 36.000 0.00 0.00 0.00 4.79
3349 3367 7.031975 GCTGAGAAAGATTAAAAACATGAGGG 58.968 38.462 0.00 0.00 0.00 4.30
3350 3368 7.596494 TGCTGAGAAAGATTAAAAACATGAGG 58.404 34.615 0.00 0.00 0.00 3.86
3351 3369 8.909671 GTTGCTGAGAAAGATTAAAAACATGAG 58.090 33.333 0.00 0.00 0.00 2.90
3352 3370 8.412456 TGTTGCTGAGAAAGATTAAAAACATGA 58.588 29.630 0.00 0.00 0.00 3.07
3366 3384 3.569701 GGAAGGATTGTGTTGCTGAGAAA 59.430 43.478 0.00 0.00 0.00 2.52
3455 3474 7.099266 TGCATATGTAAAAAGAACCTGGATG 57.901 36.000 0.00 0.00 0.00 3.51
3462 3481 7.593825 AGTTCCACTGCATATGTAAAAAGAAC 58.406 34.615 4.29 10.12 0.00 3.01
3491 3510 2.806608 AAAATGCAACTGACTGCTGG 57.193 45.000 0.00 0.00 43.07 4.85
3507 3526 4.826556 CCACACAAAAGGGACAAGAAAAA 58.173 39.130 0.00 0.00 0.00 1.94
3544 3563 9.838339 AAGGAGGACATATATCTAACACAAAAG 57.162 33.333 0.00 0.00 0.00 2.27
3546 3565 9.613428 CAAAGGAGGACATATATCTAACACAAA 57.387 33.333 0.00 0.00 0.00 2.83
3547 3566 8.210946 CCAAAGGAGGACATATATCTAACACAA 58.789 37.037 0.00 0.00 0.00 3.33
3548 3567 7.567250 TCCAAAGGAGGACATATATCTAACACA 59.433 37.037 0.00 0.00 31.23 3.72
3549 3568 7.963532 TCCAAAGGAGGACATATATCTAACAC 58.036 38.462 0.00 0.00 31.23 3.32
3616 3635 0.109132 CTGACAAATTTGCCGCCTCC 60.109 55.000 18.12 0.34 0.00 4.30
3632 3651 4.948257 AGCGATGCAGATTGCTGA 57.052 50.000 1.07 0.00 46.17 4.26
3657 3676 4.905429 TGCTACTTGCTGGAGAAACATAA 58.095 39.130 0.00 0.00 43.37 1.90
3683 3702 5.108517 CAACACCAATACACAGTGCTTTTT 58.891 37.500 0.00 0.00 34.83 1.94
3697 3716 1.122227 AACAAGGCTGCAACACCAAT 58.878 45.000 0.50 0.00 0.00 3.16
3748 3767 6.019801 GCTCTATGCGTATTCGAGAAAGAAAA 60.020 38.462 13.83 0.00 39.71 2.29
3749 3768 5.459107 GCTCTATGCGTATTCGAGAAAGAAA 59.541 40.000 13.83 0.00 39.71 2.52
3750 3769 4.976731 GCTCTATGCGTATTCGAGAAAGAA 59.023 41.667 13.83 0.00 39.71 2.52
3751 3770 4.537965 GCTCTATGCGTATTCGAGAAAGA 58.462 43.478 13.83 0.00 39.71 2.52
3752 3771 4.877270 GCTCTATGCGTATTCGAGAAAG 57.123 45.455 13.83 0.00 39.71 2.62
3765 3784 6.471976 TCAATGAAATGATACGCTCTATGC 57.528 37.500 0.00 0.00 38.57 3.14
3766 3785 8.815189 CCTATCAATGAAATGATACGCTCTATG 58.185 37.037 0.00 0.00 40.44 2.23
3767 3786 8.535335 ACCTATCAATGAAATGATACGCTCTAT 58.465 33.333 0.00 0.00 40.44 1.98
3768 3787 7.896811 ACCTATCAATGAAATGATACGCTCTA 58.103 34.615 0.00 0.00 40.44 2.43
3769 3788 6.763355 ACCTATCAATGAAATGATACGCTCT 58.237 36.000 0.00 0.00 40.44 4.09
3770 3789 8.029522 TCTACCTATCAATGAAATGATACGCTC 58.970 37.037 0.00 0.00 40.44 5.03
3771 3790 7.896811 TCTACCTATCAATGAAATGATACGCT 58.103 34.615 0.00 0.00 40.44 5.07
3772 3791 7.276658 CCTCTACCTATCAATGAAATGATACGC 59.723 40.741 0.00 0.00 40.44 4.42
3773 3792 8.523658 TCCTCTACCTATCAATGAAATGATACG 58.476 37.037 0.00 0.00 40.44 3.06
3774 3793 9.868277 CTCCTCTACCTATCAATGAAATGATAC 57.132 37.037 0.00 0.00 40.44 2.24
3775 3794 9.607333 ACTCCTCTACCTATCAATGAAATGATA 57.393 33.333 0.00 0.00 40.44 2.15
3776 3795 8.503428 ACTCCTCTACCTATCAATGAAATGAT 57.497 34.615 0.00 0.00 42.52 2.45
3777 3796 7.921041 ACTCCTCTACCTATCAATGAAATGA 57.079 36.000 0.00 0.00 0.00 2.57
3778 3797 8.970859 AAACTCCTCTACCTATCAATGAAATG 57.029 34.615 0.00 0.00 0.00 2.32


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

AutoCloner maintained by Alex Coulton.