Multiple sequence alignment - TraesCS5B01G265200

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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 TraesCS5B01G265200 chr5B 100.000 6109 0 0 644 6752 449206206 449200098 0.000000e+00 11282.0
1 TraesCS5B01G265200 chr5B 100.000 383 0 0 1 383 449206849 449206467 0.000000e+00 708.0
2 TraesCS5B01G265200 chr5A 95.187 3241 107 21 2666 5891 477297821 477294615 0.000000e+00 5075.0
3 TraesCS5B01G265200 chr5A 93.904 1821 57 14 651 2431 477299625 477297819 0.000000e+00 2699.0
4 TraesCS5B01G265200 chr5D 97.467 2211 34 6 644 2836 376308683 376306477 0.000000e+00 3753.0
5 TraesCS5B01G265200 chr5D 97.339 1766 28 9 3871 5629 376305319 376303566 0.000000e+00 2983.0
6 TraesCS5B01G265200 chr5D 98.941 1039 10 1 2835 3872 376306439 376305401 0.000000e+00 1857.0
7 TraesCS5B01G265200 chr5D 94.610 538 15 4 5611 6146 376297804 376297279 0.000000e+00 821.0
8 TraesCS5B01G265200 chr5D 90.306 392 27 4 1 383 376309125 376308736 2.810000e-138 503.0
9 TraesCS5B01G265200 chr5D 84.956 226 9 4 6449 6657 376297210 376296993 8.880000e-49 206.0
10 TraesCS5B01G265200 chr5D 89.256 121 5 2 6639 6751 376296401 376296281 1.960000e-30 145.0
11 TraesCS5B01G265200 chr5D 97.015 67 2 0 6423 6489 376297277 376297211 5.530000e-21 113.0
12 TraesCS5B01G265200 chr5D 100.000 34 0 0 2304 2337 376306439 376306472 5.650000e-06 63.9
13 TraesCS5B01G265200 chr3D 93.776 241 15 0 2428 2668 110402900 110402660 4.980000e-96 363.0
14 TraesCS5B01G265200 chr7B 93.724 239 15 0 2429 2667 414077181 414077419 6.440000e-95 359.0
15 TraesCS5B01G265200 chr7B 85.866 283 36 3 6149 6430 418045024 418044745 1.420000e-76 298.0
16 TraesCS5B01G265200 chr3B 93.750 240 14 1 2429 2668 60855794 60856032 6.440000e-95 359.0
17 TraesCS5B01G265200 chr3B 91.129 248 22 0 2428 2675 136679500 136679747 3.020000e-88 337.0
18 TraesCS5B01G265200 chr7D 92.593 243 18 0 2429 2671 176959307 176959065 3.870000e-92 350.0
19 TraesCS5B01G265200 chr1A 91.406 256 19 3 2428 2681 509710176 509709922 1.390000e-91 348.0
20 TraesCS5B01G265200 chr1A 90.625 256 21 3 2428 2681 509783436 509783182 3.020000e-88 337.0
21 TraesCS5B01G265200 chr7A 92.116 241 19 0 2429 2669 700708867 700708627 2.330000e-89 340.0
22 TraesCS5B01G265200 chr7A 89.552 268 23 4 6155 6421 543445437 543445174 1.090000e-87 335.0
23 TraesCS5B01G265200 chr4D 87.912 273 29 3 6149 6419 460645225 460645495 1.090000e-82 318.0
24 TraesCS5B01G265200 chr4D 87.546 273 25 9 6157 6424 460645497 460645765 2.370000e-79 307.0
25 TraesCS5B01G265200 chr4A 87.319 276 28 6 6148 6421 589498177 589498447 6.580000e-80 309.0
26 TraesCS5B01G265200 chr2D 86.411 287 32 5 6147 6431 569393924 569393643 2.370000e-79 307.0
27 TraesCS5B01G265200 chr1B 86.861 274 32 3 6149 6421 70240028 70239758 3.060000e-78 303.0
28 TraesCS5B01G265200 chr6D 86.594 276 33 4 6149 6422 414492242 414492515 1.100000e-77 302.0
29 TraesCS5B01G265200 chr2B 86.496 274 35 2 6150 6422 390940808 390941080 3.960000e-77 300.0


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 TraesCS5B01G265200 chr5B 449200098 449206849 6751 True 5995.00 11282 100.00000 1 6752 2 chr5B.!!$R1 6751
1 TraesCS5B01G265200 chr5A 477294615 477299625 5010 True 3887.00 5075 94.54550 651 5891 2 chr5A.!!$R1 5240
2 TraesCS5B01G265200 chr5D 376303566 376309125 5559 True 2274.00 3753 96.01325 1 5629 4 chr5D.!!$R2 5628
3 TraesCS5B01G265200 chr5D 376296281 376297804 1523 True 321.25 821 91.45925 5611 6751 4 chr5D.!!$R1 1140
4 TraesCS5B01G265200 chr4D 460645225 460645765 540 False 312.50 318 87.72900 6149 6424 2 chr4D.!!$F1 275

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
223 224 0.469331 TATAGGTGAGCCACTCCCGG 60.469 60.000 0.00 0.00 37.19 5.73 F
319 328 1.947146 GGAAACAAAACGGTGCGCC 60.947 57.895 6.11 6.11 0.00 6.53 F
345 354 3.807538 GACATGTGGCGGCAGCTG 61.808 66.667 13.91 15.49 44.37 4.24 F
1803 1860 6.872920 TGCTTCCTTGTTTTCTGTATTGTTT 58.127 32.000 0.00 0.00 0.00 2.83 F
2396 2454 0.249398 ACCTGTCTTACACATCCCGC 59.751 55.000 0.00 0.00 33.23 6.13 F
2457 2515 0.327259 GTCCTGGTTTACTGGTCCCC 59.673 60.000 0.00 0.00 39.12 4.81 F
4186 4368 2.239402 TGCCCTCATGTTGAGCTTCATA 59.761 45.455 0.00 0.00 42.98 2.15 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1409 1429 1.229209 TTCCTGTCGAGCCCTTCCT 60.229 57.895 0.0 0.0 0.00 3.36 R
1803 1860 2.760634 TAACTGCTCTCATCCGCAAA 57.239 45.000 0.0 0.0 35.46 3.68 R
1804 1861 2.988010 ATAACTGCTCTCATCCGCAA 57.012 45.000 0.0 0.0 35.46 4.85 R
2961 3060 7.011950 CGGCATGGTTAAGTAAAGATGATACAA 59.988 37.037 0.0 0.0 0.00 2.41 R
4186 4368 3.960571 ACAAATGAAGCCACTGAGCTAT 58.039 40.909 0.0 0.0 44.11 2.97 R
4701 4895 8.974060 TGTACCTACAGAAGAAAACTGAAAAT 57.026 30.769 0.0 0.0 38.55 1.82 R
6197 6399 0.040425 GACCAACCAACATGCGTCAC 60.040 55.000 0.0 0.0 0.00 3.67 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 6.070995 AGGGTTTTACAATGTGAGAGATACGA 60.071 38.462 0.00 0.00 0.00 3.43
74 75 7.042658 GGGTTTTACAATGTGAGAGATACGATC 60.043 40.741 0.00 0.00 0.00 3.69
133 134 3.519913 GGTCTTGGGTTGTCTATCCTTCT 59.480 47.826 0.00 0.00 0.00 2.85
135 136 4.223032 GTCTTGGGTTGTCTATCCTTCTCA 59.777 45.833 0.00 0.00 0.00 3.27
136 137 4.467795 TCTTGGGTTGTCTATCCTTCTCAG 59.532 45.833 0.00 0.00 0.00 3.35
137 138 3.791320 TGGGTTGTCTATCCTTCTCAGT 58.209 45.455 0.00 0.00 0.00 3.41
147 148 6.603997 GTCTATCCTTCTCAGTCTGGTTCTTA 59.396 42.308 0.00 0.00 0.00 2.10
158 159 0.981183 TGGTTCTTATCGCCAGGTGT 59.019 50.000 0.00 0.00 0.00 4.16
223 224 0.469331 TATAGGTGAGCCACTCCCGG 60.469 60.000 0.00 0.00 37.19 5.73
319 328 1.947146 GGAAACAAAACGGTGCGCC 60.947 57.895 6.11 6.11 0.00 6.53
345 354 3.807538 GACATGTGGCGGCAGCTG 61.808 66.667 13.91 15.49 44.37 4.24
1803 1860 6.872920 TGCTTCCTTGTTTTCTGTATTGTTT 58.127 32.000 0.00 0.00 0.00 2.83
1804 1861 7.327214 TGCTTCCTTGTTTTCTGTATTGTTTT 58.673 30.769 0.00 0.00 0.00 2.43
1895 1952 5.122519 GCCCTCAAAATTCTTCCAACAAAA 58.877 37.500 0.00 0.00 0.00 2.44
1898 1955 6.146021 CCCTCAAAATTCTTCCAACAAAATCG 59.854 38.462 0.00 0.00 0.00 3.34
1904 1961 8.757164 AAATTCTTCCAACAAAATCGTTATCC 57.243 30.769 0.00 0.00 0.00 2.59
2084 2141 1.873903 CGGACTGTTCCTGTTGAGGTG 60.874 57.143 0.00 0.00 40.23 4.00
2396 2454 0.249398 ACCTGTCTTACACATCCCGC 59.751 55.000 0.00 0.00 33.23 6.13
2423 2481 5.749109 CACTATAGTACCACACTTGCTTAGC 59.251 44.000 4.74 0.00 38.80 3.09
2449 2507 2.174360 ACTACCTCCGTCCTGGTTTAC 58.826 52.381 0.00 0.00 39.52 2.01
2457 2515 0.327259 GTCCTGGTTTACTGGTCCCC 59.673 60.000 0.00 0.00 39.12 4.81
2584 2642 8.320295 CCAACGATATAATTTTTGTTGACATGC 58.680 33.333 13.41 0.00 39.11 4.06
2600 2658 8.976471 TGTTGACATGCATTAACATTTTGTTAG 58.024 29.630 13.87 0.00 42.93 2.34
2961 3060 5.241506 TGCTTCACTTTGCTATACTTTTGCT 59.758 36.000 0.00 0.00 0.00 3.91
3001 3100 2.351350 CCATGCCGGTGTTTGTAAGAAC 60.351 50.000 1.90 0.00 0.00 3.01
3020 3119 9.274206 GTAAGAACTACAAAGAACCAATTCTCT 57.726 33.333 0.00 0.00 44.82 3.10
3899 4081 7.696992 TTTAACTGTGTTTCCTTCAGTTCTT 57.303 32.000 12.00 0.00 45.36 2.52
4073 4255 4.400961 GAGCTTCGCCTGCCAGGT 62.401 66.667 13.35 0.00 37.80 4.00
4149 4331 4.065088 GCTGATGACCTTGTGAGTGTTTA 58.935 43.478 0.00 0.00 0.00 2.01
4186 4368 2.239402 TGCCCTCATGTTGAGCTTCATA 59.761 45.455 0.00 0.00 42.98 2.15
4701 4895 2.106857 ACCCCTATTTCGGTGTTGTGAA 59.893 45.455 0.00 0.00 0.00 3.18
4745 4940 7.280356 AGGTACAGCAAACAGGGTTATATTAG 58.720 38.462 0.00 0.00 0.00 1.73
4746 4941 6.017357 GGTACAGCAAACAGGGTTATATTAGC 60.017 42.308 0.00 0.00 0.00 3.09
4747 4942 4.887655 ACAGCAAACAGGGTTATATTAGCC 59.112 41.667 1.64 1.64 35.91 3.93
4748 4943 4.887071 CAGCAAACAGGGTTATATTAGCCA 59.113 41.667 12.18 0.00 38.16 4.75
5176 5372 0.605319 TCAACATTCTGTCGCCCACC 60.605 55.000 0.00 0.00 0.00 4.61
5233 5429 7.045416 TCGCAGATGTACATGGTTACTTTTAT 58.955 34.615 14.43 0.00 0.00 1.40
5374 5570 5.706916 TCTGATGCTTGAGCTTGATTTTTC 58.293 37.500 4.44 0.00 42.66 2.29
5377 5573 6.518493 TGATGCTTGAGCTTGATTTTTCTTT 58.482 32.000 4.44 0.00 42.66 2.52
5378 5574 6.987992 TGATGCTTGAGCTTGATTTTTCTTTT 59.012 30.769 4.44 0.00 42.66 2.27
5379 5575 6.833342 TGCTTGAGCTTGATTTTTCTTTTC 57.167 33.333 4.44 0.00 42.66 2.29
5456 5652 4.081406 CCCATGAGTGTCATTTCTTTGGA 58.919 43.478 0.00 0.00 34.28 3.53
5516 5712 7.148540 CCAATGGTGAAGATTTTATTGCACTTG 60.149 37.037 0.00 0.00 0.00 3.16
5599 5795 6.206829 ACCTTCTATTCTGTTAAAACCTGTGC 59.793 38.462 0.00 0.00 0.00 4.57
5912 6113 5.140177 GTCACAAGTGATTCGATTCACAAC 58.860 41.667 31.19 20.17 46.81 3.32
5920 6121 9.436957 AAGTGATTCGATTCACAACTATAGTTT 57.563 29.630 31.19 16.77 46.81 2.66
5921 6122 9.436957 AGTGATTCGATTCACAACTATAGTTTT 57.563 29.630 31.19 6.93 46.81 2.43
5997 6199 0.107116 TCGACACTCCCTCCTAGCTC 60.107 60.000 0.00 0.00 0.00 4.09
5998 6200 1.104577 CGACACTCCCTCCTAGCTCC 61.105 65.000 0.00 0.00 0.00 4.70
5999 6201 0.260523 GACACTCCCTCCTAGCTCCT 59.739 60.000 0.00 0.00 0.00 3.69
6104 6306 4.571176 CCTATTACGCTTGGAGTTTCCTTC 59.429 45.833 0.00 0.00 37.46 3.46
6109 6311 1.270826 GCTTGGAGTTTCCTTCTTGCC 59.729 52.381 0.00 0.00 37.46 4.52
6115 6317 3.185299 TTTCCTTCTTGCCGCGGGA 62.185 57.895 29.38 24.35 0.00 5.14
6155 6357 6.867662 CGGAGCTGGATCATTAATTAAACT 57.132 37.500 1.21 0.00 0.00 2.66
6197 6399 1.737816 GCCAACCAGCTATGCCATG 59.262 57.895 0.00 0.00 0.00 3.66
6200 6402 1.682702 CCAACCAGCTATGCCATGTGA 60.683 52.381 0.00 0.00 0.00 3.58
6219 6421 0.749818 ACGCATGTTGGTTGGTCACA 60.750 50.000 0.00 0.00 0.00 3.58
6220 6422 0.383590 CGCATGTTGGTTGGTCACAA 59.616 50.000 0.00 0.00 0.00 3.33
6222 6424 2.406130 GCATGTTGGTTGGTCACAATG 58.594 47.619 0.00 0.00 39.13 2.82
6232 6434 6.068010 TGGTTGGTCACAATGAGAAAGTATT 58.932 36.000 0.00 0.00 39.13 1.89
6233 6435 6.206634 TGGTTGGTCACAATGAGAAAGTATTC 59.793 38.462 0.00 0.00 39.13 1.75
6242 6444 9.766277 CACAATGAGAAAGTATTCTTTTAGAGC 57.234 33.333 0.00 0.00 45.91 4.09
6324 6528 2.425143 AAGATGGTTGCGATGTCCAT 57.575 45.000 0.00 0.00 43.54 3.41
6325 6529 1.671979 AGATGGTTGCGATGTCCATG 58.328 50.000 0.00 0.00 41.33 3.66
6378 6582 4.141551 ACATGATGATGAGGTGTGCATAGT 60.142 41.667 0.00 0.00 33.36 2.12
6382 6586 5.355071 TGATGATGAGGTGTGCATAGTTTTC 59.645 40.000 0.00 0.00 0.00 2.29
6384 6588 5.316167 TGATGAGGTGTGCATAGTTTTCTT 58.684 37.500 0.00 0.00 0.00 2.52
6396 6600 0.387565 GTTTTCTTTCAAGCGGCCCA 59.612 50.000 0.00 0.00 0.00 5.36
6419 6623 1.271840 TAGCAGGCCCCAACCACTAG 61.272 60.000 0.00 0.00 0.00 2.57
6420 6624 2.907179 GCAGGCCCCAACCACTAGT 61.907 63.158 0.00 0.00 0.00 2.57
6438 6642 1.376683 TATCCACCAAGTGCCGCAC 60.377 57.895 16.04 16.04 31.34 5.34
6447 6651 2.933878 AAGTGCCGCACGGTCTTGAA 62.934 55.000 17.64 0.00 39.64 2.69
6507 6752 0.524414 TCCACGGACACACGTAGATG 59.476 55.000 0.00 0.00 46.75 2.90
6549 6811 3.381272 ACGCCTTAATTTGCATGCTACAT 59.619 39.130 20.33 5.12 0.00 2.29
6583 6845 2.299867 TGGCTCCTGAAAATGAAAAGGC 59.700 45.455 0.00 0.00 0.00 4.35
6606 6868 6.705825 GGCAACTCCTTTTATCAATGTGTTTT 59.294 34.615 0.00 0.00 0.00 2.43
6607 6869 7.307337 GGCAACTCCTTTTATCAATGTGTTTTG 60.307 37.037 0.00 0.00 0.00 2.44
6608 6870 7.224557 GCAACTCCTTTTATCAATGTGTTTTGT 59.775 33.333 0.00 0.00 0.00 2.83
6609 6871 9.743057 CAACTCCTTTTATCAATGTGTTTTGTA 57.257 29.630 0.00 0.00 0.00 2.41
6652 6914 8.593945 AAGAACAAATTAATATGGAAGCCTCA 57.406 30.769 0.00 0.00 0.00 3.86
6714 7594 0.475044 TGGGCTTAAGTCCGTTTGGT 59.525 50.000 20.93 0.00 44.44 3.67
6744 7624 0.032813 ATGGGCCCATTTCAGTCCAG 60.033 55.000 32.75 0.00 31.82 3.86
6751 7631 1.068055 CCATTTCAGTCCAGTTGCAGC 60.068 52.381 0.00 0.00 0.00 5.25
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
36 37 1.064906 GTAAAACCCTAGCCTCCACCC 60.065 57.143 0.00 0.00 0.00 4.61
37 38 1.631898 TGTAAAACCCTAGCCTCCACC 59.368 52.381 0.00 0.00 0.00 4.61
38 39 3.428413 TTGTAAAACCCTAGCCTCCAC 57.572 47.619 0.00 0.00 0.00 4.02
72 73 2.190578 GCTGGCGGCAACCTAGAT 59.809 61.111 14.48 0.00 41.35 1.98
99 100 3.181282 AAGACCTTCTTGGCCCCC 58.819 61.111 0.00 0.00 34.98 5.40
123 124 5.199982 AGAACCAGACTGAGAAGGATAGA 57.800 43.478 3.32 0.00 0.00 1.98
133 134 2.176045 TGGCGATAAGAACCAGACTGA 58.824 47.619 3.32 0.00 0.00 3.41
147 148 1.112113 CCTACTACACACCTGGCGAT 58.888 55.000 0.00 0.00 0.00 4.58
294 303 1.139163 CCGTTTTGTTTCCTGCATGC 58.861 50.000 11.82 11.82 0.00 4.06
296 305 1.537990 GCACCGTTTTGTTTCCTGCAT 60.538 47.619 0.00 0.00 0.00 3.96
301 310 1.947146 GGCGCACCGTTTTGTTTCC 60.947 57.895 10.83 0.00 0.00 3.13
838 848 1.134220 TCCCCATTCGGATTTTCGGAG 60.134 52.381 0.00 0.00 0.00 4.63
1409 1429 1.229209 TTCCTGTCGAGCCCTTCCT 60.229 57.895 0.00 0.00 0.00 3.36
1803 1860 2.760634 TAACTGCTCTCATCCGCAAA 57.239 45.000 0.00 0.00 35.46 3.68
1804 1861 2.988010 ATAACTGCTCTCATCCGCAA 57.012 45.000 0.00 0.00 35.46 4.85
1895 1952 6.046593 TGCGATTTCTTTACAGGATAACGAT 58.953 36.000 0.00 0.00 0.00 3.73
1898 1955 7.180748 GTCTTGCGATTTCTTTACAGGATAAC 58.819 38.462 0.00 0.00 0.00 1.89
1904 1961 3.432252 ACCGTCTTGCGATTTCTTTACAG 59.568 43.478 0.00 0.00 44.77 2.74
2020 2077 6.314917 AGGTACTGGATGTTCTTCCATTTTT 58.685 36.000 7.67 0.00 44.66 1.94
2280 2338 6.541278 TGTTCCATATCAGCAGAAAAGAGATG 59.459 38.462 0.00 0.00 32.39 2.90
2396 2454 6.452494 AGCAAGTGTGGTACTATAGTGTAG 57.548 41.667 15.90 0.00 39.18 2.74
2423 2481 1.405821 CAGGACGGAGGTAGTAAGCAG 59.594 57.143 0.00 0.00 0.00 4.24
2457 2515 7.385752 AGTCAAAATTTGGCACAGAATACAATG 59.614 33.333 13.11 0.00 42.39 2.82
2603 2661 8.729805 TTGTGCCAAATTTTGACTAAAGATTT 57.270 26.923 10.72 0.00 0.00 2.17
2961 3060 7.011950 CGGCATGGTTAAGTAAAGATGATACAA 59.988 37.037 0.00 0.00 0.00 2.41
3001 3100 8.103948 ACATCAAGAGAATTGGTTCTTTGTAG 57.896 34.615 0.00 0.00 44.57 2.74
3899 4081 6.581712 TGCAGAGTTACTTGCATACATATCA 58.418 36.000 14.69 0.00 31.54 2.15
4073 4255 7.656412 TCACAAGAACAAAAATTATGCTGCTA 58.344 30.769 0.00 0.00 0.00 3.49
4149 4331 6.827586 TGAGGGCAAAATAATTTCTAACGT 57.172 33.333 0.00 0.00 0.00 3.99
4186 4368 3.960571 ACAAATGAAGCCACTGAGCTAT 58.039 40.909 0.00 0.00 44.11 2.97
4701 4895 8.974060 TGTACCTACAGAAGAAAACTGAAAAT 57.026 30.769 0.00 0.00 38.55 1.82
4745 4940 1.152673 CCATAAGGGGAAGGCTGGC 60.153 63.158 0.00 0.00 0.00 4.85
4746 4941 0.631212 AACCATAAGGGGAAGGCTGG 59.369 55.000 0.00 0.00 42.91 4.85
4747 4942 1.410224 GGAACCATAAGGGGAAGGCTG 60.410 57.143 0.00 0.00 42.91 4.85
4748 4943 0.927029 GGAACCATAAGGGGAAGGCT 59.073 55.000 0.00 0.00 42.91 4.58
5052 5248 1.852895 GCGCTCGGACTTATAACTGTG 59.147 52.381 0.00 0.00 0.00 3.66
5176 5372 0.731514 ACGACTACATCCACGCAACG 60.732 55.000 0.00 0.00 0.00 4.10
5374 5570 4.758674 TCAAGCTCAAGTCTCATGGAAAAG 59.241 41.667 0.00 0.00 0.00 2.27
5377 5573 3.580022 TCTCAAGCTCAAGTCTCATGGAA 59.420 43.478 0.00 0.00 0.00 3.53
5378 5574 3.168292 TCTCAAGCTCAAGTCTCATGGA 58.832 45.455 0.00 0.00 0.00 3.41
5379 5575 3.606595 TCTCAAGCTCAAGTCTCATGG 57.393 47.619 0.00 0.00 0.00 3.66
5456 5652 1.141657 TCACAGTTGCAGCTTTCTCCT 59.858 47.619 0.00 0.00 0.00 3.69
5516 5712 3.769844 TGAACATAACAGAGAGAGACCCC 59.230 47.826 0.00 0.00 0.00 4.95
5627 5827 8.616076 CACCAAAAATAACAAATTGCTTAACCA 58.384 29.630 0.00 0.00 0.00 3.67
5650 5850 1.681264 CTGGACAGGACCAAAAACACC 59.319 52.381 0.00 0.00 39.59 4.16
5699 5899 1.358152 TCCTCCTTCGACCATTGGTT 58.642 50.000 10.29 0.00 35.25 3.67
5921 6122 5.404096 GTTCTTCTTTTGTCCGACCAAAAA 58.596 37.500 11.56 0.00 42.10 1.94
5930 6132 2.543031 GCAACCGGTTCTTCTTTTGTCC 60.543 50.000 19.24 0.00 0.00 4.02
5997 6199 0.472471 AGAGGAGCTAGACGAGGAGG 59.528 60.000 0.00 0.00 0.00 4.30
5998 6200 1.542547 GGAGAGGAGCTAGACGAGGAG 60.543 61.905 0.00 0.00 0.00 3.69
5999 6201 0.470766 GGAGAGGAGCTAGACGAGGA 59.529 60.000 0.00 0.00 0.00 3.71
6080 6282 3.773119 AGGAAACTCCAAGCGTAATAGGA 59.227 43.478 0.00 0.00 39.61 2.94
6104 6306 4.183686 CAGCATTCCCGCGGCAAG 62.184 66.667 22.85 6.58 36.85 4.01
6109 6311 2.753966 CCTCAACAGCATTCCCGCG 61.754 63.158 0.00 0.00 36.85 6.46
6146 6348 9.386010 TCTAGCGCCTTTTAATGAGTTTAATTA 57.614 29.630 2.29 0.00 30.03 1.40
6147 6349 8.276252 TCTAGCGCCTTTTAATGAGTTTAATT 57.724 30.769 2.29 0.00 30.03 1.40
6155 6357 4.335315 CACCATTCTAGCGCCTTTTAATGA 59.665 41.667 2.29 0.00 0.00 2.57
6162 6364 1.452108 GCCACCATTCTAGCGCCTT 60.452 57.895 2.29 0.00 0.00 4.35
6197 6399 0.040425 GACCAACCAACATGCGTCAC 60.040 55.000 0.00 0.00 0.00 3.67
6200 6402 0.749818 TGTGACCAACCAACATGCGT 60.750 50.000 0.00 0.00 0.00 5.24
6207 6409 4.277476 ACTTTCTCATTGTGACCAACCAA 58.723 39.130 0.00 0.00 32.26 3.67
6299 6503 4.394920 GGACATCGCAACCATCTTAAAAGA 59.605 41.667 0.00 0.00 39.78 2.52
6351 6555 3.441222 GCACACCTCATCATCATGTCAAA 59.559 43.478 0.00 0.00 0.00 2.69
6378 6582 0.387565 GTGGGCCGCTTGAAAGAAAA 59.612 50.000 10.52 0.00 0.00 2.29
6382 6586 0.742990 TATCGTGGGCCGCTTGAAAG 60.743 55.000 16.24 0.00 36.19 2.62
6384 6588 1.153449 CTATCGTGGGCCGCTTGAA 60.153 57.895 16.24 0.00 36.19 2.69
6396 6600 2.590092 GTTGGGGCCTGCTATCGT 59.410 61.111 0.84 0.00 0.00 3.73
6398 6602 1.453928 GTGGTTGGGGCCTGCTATC 60.454 63.158 0.84 0.00 0.00 2.08
6401 6605 2.531685 TAGTGGTTGGGGCCTGCT 60.532 61.111 0.84 0.00 0.00 4.24
6404 6608 1.508256 GATACTAGTGGTTGGGGCCT 58.492 55.000 5.39 0.00 0.00 5.19
6419 6623 1.376683 TGCGGCACTTGGTGGATAC 60.377 57.895 0.00 0.00 33.64 2.24
6420 6624 1.376683 GTGCGGCACTTGGTGGATA 60.377 57.895 25.08 0.00 33.64 2.59
6447 6651 2.373707 GCTCCATGGAGTCTGGGCT 61.374 63.158 36.32 0.00 43.70 5.19
6507 6752 7.971455 AGGCGTTCTAGAAATATGTTTAACAC 58.029 34.615 6.78 0.00 0.00 3.32
6549 6811 4.661222 TCAGGAGCCACATGTCATTTTTA 58.339 39.130 0.00 0.00 0.00 1.52
6583 6845 8.647143 ACAAAACACATTGATAAAAGGAGTTG 57.353 30.769 0.00 0.00 34.38 3.16
6652 6914 2.022195 CAGCTTGCAGCATGTTCCTAT 58.978 47.619 9.87 0.00 45.56 2.57
6714 7594 2.363975 GGGCCCATGACACGTCCTA 61.364 63.158 19.95 0.00 0.00 2.94


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

AutoCloner maintained by Alex Coulton.