Multiple sequence alignment - TraesCS2D01G134400

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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 TraesCS2D01G134400 chr2D 100.000 3752 0 0 1 3752 79090865 79094616 0.000000e+00 6929
1 TraesCS2D01G134400 chr2D 87.218 266 25 6 473 731 526159328 526159065 1.020000e-75 294
2 TraesCS2D01G134400 chr2A 94.808 2870 99 10 913 3752 79351310 79354159 0.000000e+00 4429
3 TraesCS2D01G134400 chr2A 90.234 768 35 11 1 754 79349276 79350017 0.000000e+00 966
4 TraesCS2D01G134400 chr2A 85.714 315 20 11 810 1111 79350308 79350610 3.640000e-80 309
5 TraesCS2D01G134400 chr2B 89.480 1635 95 20 1583 3165 123060570 123062179 0.000000e+00 1995
6 TraesCS2D01G134400 chr2B 91.231 707 36 13 868 1565 123059810 123060499 0.000000e+00 939
7 TraesCS2D01G134400 chr2B 89.076 595 40 10 3158 3752 123062222 123062791 0.000000e+00 715
8 TraesCS2D01G134400 chr7B 86.082 661 71 14 927 1580 615453220 615453866 0.000000e+00 691
9 TraesCS2D01G134400 chr7B 84.444 135 17 3 339 472 624705286 624705417 3.040000e-26 130
10 TraesCS2D01G134400 chr5B 82.651 415 41 9 339 731 586716896 586716491 4.640000e-89 339
11 TraesCS2D01G134400 chr5B 82.029 345 41 16 349 678 576087954 576088292 1.330000e-69 274
12 TraesCS2D01G134400 chr5B 80.170 353 45 9 345 678 461582560 461582906 1.350000e-59 241
13 TraesCS2D01G134400 chr4B 81.560 423 47 20 337 733 34909013 34909430 1.680000e-83 320
14 TraesCS2D01G134400 chr4B 81.657 338 36 14 365 680 12091677 12091344 1.340000e-64 257
15 TraesCS2D01G134400 chr4A 81.311 412 51 14 337 729 466112490 466112894 1.010000e-80 311
16 TraesCS2D01G134400 chr3A 80.387 413 50 8 339 732 57197930 57197530 6.130000e-73 285
17 TraesCS2D01G134400 chr3A 83.735 166 20 6 517 681 546700001 546699842 2.330000e-32 150
18 TraesCS2D01G134400 chr6B 80.992 363 44 14 338 681 18392676 18392320 7.990000e-67 265
19 TraesCS2D01G134400 chr3D 81.096 365 40 16 339 681 45408513 45408156 7.990000e-67 265
20 TraesCS2D01G134400 chr5D 82.353 323 33 6 377 681 437216575 437216891 3.720000e-65 259
21 TraesCS2D01G134400 chr5D 84.674 261 34 6 473 732 99378360 99378105 4.810000e-64 255
22 TraesCS2D01G134400 chr5D 87.379 206 26 0 473 678 34796196 34796401 1.740000e-58 237
23 TraesCS2D01G134400 chr1D 79.109 359 50 14 345 681 58568120 58567765 1.360000e-54 224


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 TraesCS2D01G134400 chr2D 79090865 79094616 3751 False 6929.000000 6929 100.000 1 3752 1 chr2D.!!$F1 3751
1 TraesCS2D01G134400 chr2A 79349276 79354159 4883 False 1901.333333 4429 90.252 1 3752 3 chr2A.!!$F1 3751
2 TraesCS2D01G134400 chr2B 123059810 123062791 2981 False 1216.333333 1995 89.929 868 3752 3 chr2B.!!$F1 2884
3 TraesCS2D01G134400 chr7B 615453220 615453866 646 False 691.000000 691 86.082 927 1580 1 chr7B.!!$F1 653

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
723 738 0.391793 GAGCTCGGTCTCCAAAAGGG 60.392 60.000 0.0 0.0 38.37 3.95 F
875 1125 1.003545 CCGAAAGACTGCACACTGTTG 60.004 52.381 0.0 0.0 0.00 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1963 3239 0.662619 CTGTTTCAGGCGCAACTTGA 59.337 50.0 10.83 4.24 0.00 3.02 R
2759 4037 0.179097 GGCCCTTGCACAAACGAAAA 60.179 50.0 0.00 0.00 40.13 2.29 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
34 35 5.591643 TCTCATTGTCGCAACTAAAACTC 57.408 39.130 0.00 0.00 0.00 3.01
36 37 5.050363 TCTCATTGTCGCAACTAAAACTCAC 60.050 40.000 0.00 0.00 0.00 3.51
62 63 1.609208 ATGCGTTCACTTGCCTTTCT 58.391 45.000 0.00 0.00 0.00 2.52
83 84 1.658968 CTTTCAAGAAACGTTCGCCG 58.341 50.000 0.00 0.00 44.03 6.46
214 215 6.707608 TGCATCTACTTTTGCCTATGATACTG 59.292 38.462 0.00 0.00 38.08 2.74
282 283 8.655651 AAAATCATTAGTCTAGCTAGCTCAAC 57.344 34.615 23.26 19.72 0.00 3.18
311 312 5.593909 TCAGAAAAGAACTTGATTGCCTCAA 59.406 36.000 0.00 0.00 41.61 3.02
322 323 4.947645 TGATTGCCTCAAGGAACAAAAAG 58.052 39.130 0.00 0.00 37.39 2.27
323 324 4.405358 TGATTGCCTCAAGGAACAAAAAGT 59.595 37.500 0.00 0.00 37.39 2.66
324 325 5.596361 TGATTGCCTCAAGGAACAAAAAGTA 59.404 36.000 0.00 0.00 37.39 2.24
325 326 5.514274 TTGCCTCAAGGAACAAAAAGTAG 57.486 39.130 0.00 0.00 37.39 2.57
326 327 3.317993 TGCCTCAAGGAACAAAAAGTAGC 59.682 43.478 0.00 0.00 37.39 3.58
327 328 3.317993 GCCTCAAGGAACAAAAAGTAGCA 59.682 43.478 0.00 0.00 37.39 3.49
370 372 2.298335 TAGCTCTCGGCCTCCATGGA 62.298 60.000 15.27 15.27 43.05 3.41
371 373 3.136750 CTCTCGGCCTCCATGGAG 58.863 66.667 31.69 31.69 41.63 3.86
379 381 4.743018 CTCCATGGAGGCCGTTTT 57.257 55.556 31.14 0.00 38.51 2.43
380 382 2.961424 CTCCATGGAGGCCGTTTTT 58.039 52.632 31.14 0.00 38.51 1.94
381 383 0.811281 CTCCATGGAGGCCGTTTTTC 59.189 55.000 31.14 0.00 38.51 2.29
382 384 0.404040 TCCATGGAGGCCGTTTTTCT 59.596 50.000 11.44 0.00 37.29 2.52
383 385 0.527565 CCATGGAGGCCGTTTTTCTG 59.472 55.000 5.56 0.00 0.00 3.02
384 386 1.533625 CATGGAGGCCGTTTTTCTGA 58.466 50.000 0.00 0.00 0.00 3.27
479 481 4.343526 TGCCCATGTGTGTAAACTTGAAAT 59.656 37.500 0.00 0.00 0.00 2.17
510 512 9.941325 TTTGTATAAAATGACAAATTCATGGCT 57.059 25.926 0.00 0.00 44.86 4.75
523 525 2.726821 TCATGGCTTGGAAGGATGAAC 58.273 47.619 0.09 0.00 0.00 3.18
534 537 3.624861 GGAAGGATGAACAGTAGCATGTG 59.375 47.826 0.00 0.00 32.52 3.21
536 539 4.292186 AGGATGAACAGTAGCATGTGTT 57.708 40.909 0.00 0.00 39.62 3.32
587 590 6.212955 CACAACCCTCATTTCAACGTATTTT 58.787 36.000 0.00 0.00 0.00 1.82
595 598 8.293867 CCTCATTTCAACGTATTTTGTCCTAAA 58.706 33.333 0.00 0.00 0.00 1.85
596 599 9.672086 CTCATTTCAACGTATTTTGTCCTAAAA 57.328 29.630 0.00 0.00 0.00 1.52
711 726 2.203126 GGCCTCATTGGAGCTCGG 60.203 66.667 7.83 2.99 39.96 4.63
723 738 0.391793 GAGCTCGGTCTCCAAAAGGG 60.392 60.000 0.00 0.00 38.37 3.95
754 769 7.222805 TCGAAAGTCGTAGTGTCGTACTATTAT 59.777 37.037 5.79 0.00 43.44 1.28
755 770 7.848051 CGAAAGTCGTAGTGTCGTACTATTATT 59.152 37.037 5.79 0.17 43.44 1.40
765 780 9.758651 AGTGTCGTACTATTATTAATCAATGCA 57.241 29.630 0.00 0.00 38.04 3.96
849 1099 5.281376 CGATTGCATTCACACTCGTAAAAAG 59.719 40.000 9.14 0.00 37.78 2.27
850 1100 5.743026 TTGCATTCACACTCGTAAAAAGA 57.257 34.783 0.00 0.00 0.00 2.52
851 1101 5.743026 TGCATTCACACTCGTAAAAAGAA 57.257 34.783 0.00 0.00 0.00 2.52
852 1102 6.125327 TGCATTCACACTCGTAAAAAGAAA 57.875 33.333 0.00 0.00 0.00 2.52
853 1103 6.198687 TGCATTCACACTCGTAAAAAGAAAG 58.801 36.000 0.00 0.00 0.00 2.62
854 1104 6.037720 TGCATTCACACTCGTAAAAAGAAAGA 59.962 34.615 0.00 0.00 0.00 2.52
855 1105 6.357240 GCATTCACACTCGTAAAAAGAAAGAC 59.643 38.462 0.00 0.00 0.00 3.01
856 1106 5.978934 TCACACTCGTAAAAAGAAAGACC 57.021 39.130 0.00 0.00 0.00 3.85
857 1107 4.505191 TCACACTCGTAAAAAGAAAGACCG 59.495 41.667 0.00 0.00 0.00 4.79
875 1125 1.003545 CCGAAAGACTGCACACTGTTG 60.004 52.381 0.00 0.00 0.00 3.33
923 1180 1.818060 TCCGGCATTTTGACCAGATTG 59.182 47.619 0.00 0.00 0.00 2.67
1306 2488 3.447025 ATCCTCGTAAGCAGGCGCC 62.447 63.158 21.89 21.89 39.83 6.53
1311 2493 2.434359 GTAAGCAGGCGCCTTCGT 60.434 61.111 30.60 23.99 39.83 3.85
1339 2525 1.735018 GGAGAAGAAAAGAAGCTCGCC 59.265 52.381 0.00 0.00 0.00 5.54
1493 2679 3.090532 ATCTTCCGCTCCCCCACC 61.091 66.667 0.00 0.00 0.00 4.61
1580 2766 3.706594 CCCTCTGCTTTCCTCTGTATGTA 59.293 47.826 0.00 0.00 0.00 2.29
1593 2842 7.007116 TCCTCTGTATGTATAACTGAGCATCT 58.993 38.462 5.02 0.00 39.97 2.90
1616 2865 6.691754 TGAATTCAGAAGTGCACAGTTTTA 57.308 33.333 21.04 0.04 0.00 1.52
1702 2957 1.812571 ACAAGAACATTGTCGATGGCC 59.187 47.619 0.00 0.00 40.21 5.36
1836 3091 2.223876 ACGTCCGTGTCAAGCTAGAAAA 60.224 45.455 0.00 0.00 0.00 2.29
1886 3162 2.080286 TCCAAGAGTAGAAACTGCGC 57.920 50.000 0.00 0.00 35.56 6.09
1892 3168 3.024547 AGAGTAGAAACTGCGCAGGATA 58.975 45.455 38.27 22.29 35.56 2.59
1937 3213 5.030295 GCGATGTCATAACACATTTGGAAG 58.970 41.667 0.00 0.00 37.11 3.46
1939 3215 5.391843 CGATGTCATAACACATTTGGAAGCA 60.392 40.000 0.00 0.00 37.11 3.91
2344 3620 2.371179 CCACATGATCCCAGCTGATACT 59.629 50.000 17.39 0.00 0.00 2.12
2407 3683 6.248433 ACATCCTTGATTTAGTGTTCATGGT 58.752 36.000 0.00 0.00 38.01 3.55
2433 3709 8.128582 TGTTTCACTGTTTCAGTATGTCATTTC 58.871 33.333 2.03 0.00 43.43 2.17
2459 3735 4.508461 TGGAATTTCTTGCAGTGTCATG 57.492 40.909 0.00 0.00 0.00 3.07
2613 3891 3.213206 TGCTGACACTGTTCCTTGATT 57.787 42.857 0.00 0.00 0.00 2.57
2741 4019 6.348213 GCTTTAAAGAAGCAACATCGGTTAGA 60.348 38.462 19.48 0.00 42.56 2.10
2759 4037 7.070821 TCGGTTAGATAGGAAATAGAGCCTTTT 59.929 37.037 0.00 0.00 35.73 2.27
2777 4055 1.646189 TTTTTCGTTTGTGCAAGGGC 58.354 45.000 0.00 0.00 41.68 5.19
2825 4103 5.473066 AGAGGAATTTTGGGATTGTTGTG 57.527 39.130 0.00 0.00 0.00 3.33
2856 4134 5.567823 GCCTGTTCTAGTAAGCAGAAAGTCT 60.568 44.000 0.00 0.00 33.95 3.24
3001 4299 5.173854 GTGCTCAACTTTAAACATCTTGCAC 59.826 40.000 0.00 0.00 38.90 4.57
3009 4307 3.885484 AAACATCTTGCACGAAGACTG 57.115 42.857 2.15 0.00 43.71 3.51
3010 4308 1.151668 ACATCTTGCACGAAGACTGC 58.848 50.000 2.15 0.00 43.71 4.40
3200 4552 5.312895 ACATTGTGAGGCACAGTACATTTA 58.687 37.500 0.00 0.00 45.39 1.40
3203 4555 5.159273 TGTGAGGCACAGTACATTTATCA 57.841 39.130 0.00 0.00 39.62 2.15
3227 4579 6.760440 ATCAGGTGATTTCTGATAGGACAT 57.240 37.500 4.95 0.00 46.52 3.06
3228 4580 7.862274 ATCAGGTGATTTCTGATAGGACATA 57.138 36.000 4.95 0.00 46.52 2.29
3229 4581 7.295322 TCAGGTGATTTCTGATAGGACATAG 57.705 40.000 0.00 0.00 36.46 2.23
3230 4582 6.268617 TCAGGTGATTTCTGATAGGACATAGG 59.731 42.308 0.00 0.00 36.46 2.57
3231 4583 6.268617 CAGGTGATTTCTGATAGGACATAGGA 59.731 42.308 0.00 0.00 34.36 2.94
3232 4584 6.496565 AGGTGATTTCTGATAGGACATAGGAG 59.503 42.308 0.00 0.00 0.00 3.69
3233 4585 6.268847 GGTGATTTCTGATAGGACATAGGAGT 59.731 42.308 0.00 0.00 0.00 3.85
3234 4586 7.451877 GGTGATTTCTGATAGGACATAGGAGTA 59.548 40.741 0.00 0.00 0.00 2.59
3454 4807 3.192422 CCGGTTATTGCAATTGTGAGGAA 59.808 43.478 18.75 0.40 0.00 3.36
3467 4820 2.288666 GTGAGGAACAGTTGCTTGTGA 58.711 47.619 8.95 0.00 0.00 3.58
3470 4823 3.953612 TGAGGAACAGTTGCTTGTGATTT 59.046 39.130 8.95 0.00 0.00 2.17
3502 4855 0.882927 GGGCGTACTTGCTTGTGACA 60.883 55.000 0.00 0.00 34.52 3.58
3588 4941 5.335897 GGCTCAAATTGAATTAGCTGTGACA 60.336 40.000 11.25 0.00 33.67 3.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 3.787785 TCTGTGAGTTTTAGTTGCGACA 58.212 40.909 6.90 0.00 0.00 4.35
34 35 3.061006 GCAAGTGAACGCATTTTTCTGTG 60.061 43.478 0.00 0.00 0.00 3.66
36 37 2.472488 GGCAAGTGAACGCATTTTTCTG 59.528 45.455 0.00 0.00 0.00 3.02
62 63 1.600485 GGCGAACGTTTCTTGAAAGGA 59.400 47.619 18.63 0.00 0.00 3.36
83 84 9.281371 ACTAGACAAAAACCAGAATTACTAACC 57.719 33.333 0.00 0.00 0.00 2.85
178 179 2.621338 AGTAGATGCACACCGTCAATG 58.379 47.619 0.00 0.00 31.60 2.82
183 184 1.535462 GCAAAAGTAGATGCACACCGT 59.465 47.619 0.00 0.00 42.12 4.83
214 215 3.727970 GCGCTAGACTAATGTTTGCAACC 60.728 47.826 0.00 0.00 0.00 3.77
280 281 6.867662 ATCAAGTTCTTTTCTGACATCGTT 57.132 33.333 0.00 0.00 0.00 3.85
282 283 5.566774 GCAATCAAGTTCTTTTCTGACATCG 59.433 40.000 0.00 0.00 0.00 3.84
311 312 6.033966 CGACTTTTTGCTACTTTTTGTTCCT 58.966 36.000 0.00 0.00 0.00 3.36
318 319 6.759827 TCACTCTACGACTTTTTGCTACTTTT 59.240 34.615 0.00 0.00 0.00 2.27
322 323 4.621886 CCTCACTCTACGACTTTTTGCTAC 59.378 45.833 0.00 0.00 0.00 3.58
323 324 4.806330 CCTCACTCTACGACTTTTTGCTA 58.194 43.478 0.00 0.00 0.00 3.49
324 325 3.654414 CCTCACTCTACGACTTTTTGCT 58.346 45.455 0.00 0.00 0.00 3.91
325 326 2.157863 GCCTCACTCTACGACTTTTTGC 59.842 50.000 0.00 0.00 0.00 3.68
326 327 2.408704 CGCCTCACTCTACGACTTTTTG 59.591 50.000 0.00 0.00 0.00 2.44
327 328 2.035576 ACGCCTCACTCTACGACTTTTT 59.964 45.455 0.00 0.00 0.00 1.94
432 434 8.293867 GCATAACATCCTTGTTTAGTTGTACAA 58.706 33.333 3.59 3.59 43.57 2.41
459 461 4.382457 CGCATTTCAAGTTTACACACATGG 59.618 41.667 0.00 0.00 0.00 3.66
495 497 3.258872 CCTTCCAAGCCATGAATTTGTCA 59.741 43.478 0.00 0.00 41.67 3.58
502 504 3.091545 GTTCATCCTTCCAAGCCATGAA 58.908 45.455 0.00 7.40 34.27 2.57
510 512 4.263462 ACATGCTACTGTTCATCCTTCCAA 60.263 41.667 0.00 0.00 0.00 3.53
523 525 5.048782 TGGAGCTTTTTAACACATGCTACTG 60.049 40.000 0.00 0.00 33.00 2.74
534 537 8.648557 AAAAGACAAATCTGGAGCTTTTTAAC 57.351 30.769 0.00 0.00 34.48 2.01
561 564 1.336440 CGTTGAAATGAGGGTTGTGCA 59.664 47.619 0.00 0.00 0.00 4.57
562 565 1.336755 ACGTTGAAATGAGGGTTGTGC 59.663 47.619 0.00 0.00 0.00 4.57
694 709 2.203126 CCGAGCTCCAATGAGGCC 60.203 66.667 8.47 0.00 39.14 5.19
695 710 1.522580 GACCGAGCTCCAATGAGGC 60.523 63.158 8.47 0.00 39.14 4.70
711 726 9.826617 CGACTTTCGAAAATCCCTTTTGGAGAC 62.827 44.444 13.26 0.00 44.87 3.36
723 738 4.380974 ACGACACTACGACTTTCGAAAATC 59.619 41.667 12.41 10.76 43.74 2.17
800 815 9.388346 CGCACACAACTTGTAAGATTTAATAAA 57.612 29.630 0.00 0.00 35.67 1.40
802 817 8.312896 TCGCACACAACTTGTAAGATTTAATA 57.687 30.769 0.00 0.00 35.67 0.98
803 818 7.197071 TCGCACACAACTTGTAAGATTTAAT 57.803 32.000 0.00 0.00 35.67 1.40
805 820 6.795098 ATCGCACACAACTTGTAAGATTTA 57.205 33.333 0.00 0.00 35.67 1.40
806 821 5.689383 ATCGCACACAACTTGTAAGATTT 57.311 34.783 0.00 0.00 35.67 2.17
808 823 4.613622 GCAATCGCACACAACTTGTAAGAT 60.614 41.667 0.00 0.00 35.67 2.40
841 1091 6.127403 CAGTCTTTCGGTCTTTCTTTTTACG 58.873 40.000 0.00 0.00 0.00 3.18
849 1099 2.032808 GTGTGCAGTCTTTCGGTCTTTC 60.033 50.000 0.00 0.00 0.00 2.62
850 1100 1.940613 GTGTGCAGTCTTTCGGTCTTT 59.059 47.619 0.00 0.00 0.00 2.52
851 1101 1.139058 AGTGTGCAGTCTTTCGGTCTT 59.861 47.619 0.00 0.00 0.00 3.01
852 1102 0.753262 AGTGTGCAGTCTTTCGGTCT 59.247 50.000 0.00 0.00 0.00 3.85
853 1103 0.861837 CAGTGTGCAGTCTTTCGGTC 59.138 55.000 0.00 0.00 0.00 4.79
854 1104 0.178068 ACAGTGTGCAGTCTTTCGGT 59.822 50.000 0.00 0.00 0.00 4.69
855 1105 1.003545 CAACAGTGTGCAGTCTTTCGG 60.004 52.381 0.00 0.00 0.00 4.30
856 1106 1.595489 GCAACAGTGTGCAGTCTTTCG 60.595 52.381 0.00 0.00 44.29 3.46
857 1107 2.111041 GCAACAGTGTGCAGTCTTTC 57.889 50.000 0.00 0.00 44.29 2.62
875 1125 1.272769 CGGGCTAGGGTAGTGATTAGC 59.727 57.143 0.00 0.00 38.19 3.09
940 2095 2.512515 AGATTCAAGAGCGGCGGC 60.513 61.111 9.78 8.43 40.37 6.53
942 2097 2.233654 CGGAGATTCAAGAGCGGCG 61.234 63.158 0.51 0.51 0.00 6.46
950 2105 4.830765 CGGGCGGCGGAGATTCAA 62.831 66.667 11.32 0.00 0.00 2.69
1263 2445 3.997400 CTGGTCGAGCGGGGAGAGA 62.997 68.421 15.76 0.00 0.00 3.10
1306 2488 2.267681 CTTCTCCGGGTCCGACGAAG 62.268 65.000 11.39 15.95 42.83 3.79
1311 2493 0.606604 CTTTTCTTCTCCGGGTCCGA 59.393 55.000 11.39 0.00 42.83 4.55
1339 2525 1.402968 CCAAGAATCCATCAGCCAACG 59.597 52.381 0.00 0.00 0.00 4.10
1493 2679 0.608130 TGACCATGTCCTCGAACAGG 59.392 55.000 0.00 0.00 45.15 4.00
1593 2842 5.581126 AAAACTGTGCACTTCTGAATTCA 57.419 34.783 19.41 8.12 0.00 2.57
1696 2951 3.807538 CACAGCGCAGTGGCCATC 61.808 66.667 23.79 2.38 35.88 3.51
1734 2989 4.623932 TCTTCAGTACCAGCTGAACATT 57.376 40.909 17.39 0.00 46.74 2.71
1736 2991 3.834813 AGATCTTCAGTACCAGCTGAACA 59.165 43.478 17.39 0.00 46.74 3.18
1788 3043 2.436417 TCTTGCTGCGCTTCCTTTTAT 58.564 42.857 9.73 0.00 0.00 1.40
1816 3071 2.060326 TTTCTAGCTTGACACGGACG 57.940 50.000 0.00 0.00 0.00 4.79
1836 3091 3.314357 GCACTCCAACTCGGTAAACTTTT 59.686 43.478 0.00 0.00 35.57 2.27
1886 3162 3.005554 CAGTTGCCACTCTTGTATCCTG 58.994 50.000 0.00 0.00 0.00 3.86
1892 3168 1.768870 AGTACCAGTTGCCACTCTTGT 59.231 47.619 0.00 0.00 0.00 3.16
1937 3213 4.382345 AGCTAGCCAATTTTTCATCTGC 57.618 40.909 12.13 0.00 0.00 4.26
1939 3215 4.752146 GCAAGCTAGCCAATTTTTCATCT 58.248 39.130 12.13 0.00 0.00 2.90
1963 3239 0.662619 CTGTTTCAGGCGCAACTTGA 59.337 50.000 10.83 4.24 0.00 3.02
1989 3265 7.279536 GCTCTGAAGAATCAAATGACTGACATA 59.720 37.037 0.00 0.00 38.38 2.29
2344 3620 6.127647 CCTGCTTTAAATGCCTAATTGTCTCA 60.128 38.462 7.04 0.00 0.00 3.27
2407 3683 7.566760 AATGACATACTGAAACAGTGAAACA 57.433 32.000 13.62 9.34 45.01 2.83
2433 3709 5.181811 TGACACTGCAAGAAATTCCATACAG 59.818 40.000 0.00 0.00 37.43 2.74
2459 3735 4.933400 AGATTTGATGGTGCTTGCAATTTC 59.067 37.500 0.00 0.00 0.00 2.17
2618 3896 6.929049 CCATAGCTCGAACCTGTATCAAATAA 59.071 38.462 0.00 0.00 0.00 1.40
2619 3897 6.455647 CCATAGCTCGAACCTGTATCAAATA 58.544 40.000 0.00 0.00 0.00 1.40
2759 4037 0.179097 GGCCCTTGCACAAACGAAAA 60.179 50.000 0.00 0.00 40.13 2.29
2777 4055 2.896685 TGTAAGTTGATTTTGGCAGGGG 59.103 45.455 0.00 0.00 0.00 4.79
2825 4103 2.762535 TACTAGAACAGGCAGCAACC 57.237 50.000 0.00 0.00 0.00 3.77
2856 4134 4.476846 TCATGAAGGGGAAAATAGGCTACA 59.523 41.667 0.00 0.00 0.00 2.74
2980 4278 5.747565 TCGTGCAAGATGTTTAAAGTTGAG 58.252 37.500 0.00 0.00 0.00 3.02
3009 4307 1.769733 TTCAACAAATTGCGCTCTGC 58.230 45.000 9.73 0.00 46.70 4.26
3010 4308 3.982701 TCATTTCAACAAATTGCGCTCTG 59.017 39.130 9.73 2.86 35.63 3.35
3061 4363 8.836268 TGTTGTTAATGATAGACCTTTTACGT 57.164 30.769 0.00 0.00 0.00 3.57
3200 4552 7.147426 TGTCCTATCAGAAATCACCTGATTGAT 60.147 37.037 10.39 4.26 46.03 2.57
3203 4555 6.566079 TGTCCTATCAGAAATCACCTGATT 57.434 37.500 10.39 0.00 46.03 2.57
3222 4574 6.919775 ACCATGTAGAATACTCCTATGTCC 57.080 41.667 0.00 0.00 43.54 4.02
3223 4575 8.204836 ACAAACCATGTAGAATACTCCTATGTC 58.795 37.037 0.00 0.00 43.54 3.06
3224 4576 7.987458 CACAAACCATGTAGAATACTCCTATGT 59.013 37.037 0.00 0.00 43.54 2.29
3225 4577 7.987458 ACACAAACCATGTAGAATACTCCTATG 59.013 37.037 0.00 0.00 43.54 2.23
3226 4578 8.090788 ACACAAACCATGTAGAATACTCCTAT 57.909 34.615 0.00 0.00 43.54 2.57
3227 4579 7.490657 ACACAAACCATGTAGAATACTCCTA 57.509 36.000 0.00 0.00 43.54 2.94
3228 4580 6.374417 ACACAAACCATGTAGAATACTCCT 57.626 37.500 0.00 0.00 43.54 3.69
3229 4581 6.879458 AGAACACAAACCATGTAGAATACTCC 59.121 38.462 0.00 0.00 43.54 3.85
3230 4582 7.602644 TCAGAACACAAACCATGTAGAATACTC 59.397 37.037 0.00 0.00 43.54 2.59
3231 4583 7.450074 TCAGAACACAAACCATGTAGAATACT 58.550 34.615 0.00 0.00 43.54 2.12
3232 4584 7.667043 TCAGAACACAAACCATGTAGAATAC 57.333 36.000 0.00 0.00 41.46 1.89
3233 4585 7.717436 TGTTCAGAACACAAACCATGTAGAATA 59.283 33.333 12.24 0.00 41.46 1.75
3234 4586 6.545666 TGTTCAGAACACAAACCATGTAGAAT 59.454 34.615 12.24 0.00 41.46 2.40
3283 4635 6.647334 TGCACAAGTTCTTCCATAATCAAA 57.353 33.333 0.00 0.00 0.00 2.69
3454 4807 5.590530 TGGTTTAAATCACAAGCAACTGT 57.409 34.783 0.00 0.00 0.00 3.55
3467 4820 2.367241 ACGCCCAGCTTTTGGTTTAAAT 59.633 40.909 0.00 0.00 46.25 1.40
3470 4823 1.881324 GTACGCCCAGCTTTTGGTTTA 59.119 47.619 0.00 0.00 46.25 2.01
3482 4835 0.882927 GTCACAAGCAAGTACGCCCA 60.883 55.000 0.00 0.00 0.00 5.36
3502 4855 3.566351 CTGGAAAAAGAAGAGGGTGGTT 58.434 45.455 0.00 0.00 0.00 3.67


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

AutoCloner maintained by Alex Coulton.