Multiple sequence alignment - TraesCS5D01G210200

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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 TraesCS5D01G210200 chr5D 100.000 2423 0 0 1 2423 318493832 318491410 0.000000e+00 4475
1 TraesCS5D01G210200 chr5D 87.899 752 68 13 1 737 534877959 534877216 0.000000e+00 863
2 TraesCS5D01G210200 chr5D 86.342 637 67 12 114 737 375050516 375051145 0.000000e+00 676
3 TraesCS5D01G210200 chr5B 93.666 1642 83 15 797 2423 368657207 368655572 0.000000e+00 2436
4 TraesCS5D01G210200 chr5A 94.847 1572 54 8 865 2423 413194143 413192586 0.000000e+00 2429
5 TraesCS5D01G210200 chr3D 85.623 779 95 14 1 770 39849062 39849832 0.000000e+00 802
6 TraesCS5D01G210200 chr3D 92.000 300 19 4 1 297 39848917 39849214 1.340000e-112 416
7 TraesCS5D01G210200 chr7D 87.970 665 64 11 1 657 631597059 631597715 0.000000e+00 771
8 TraesCS5D01G210200 chr7D 92.000 300 20 3 1 297 166264453 166264155 3.730000e-113 418
9 TraesCS5D01G210200 chr6D 85.791 746 77 17 1 737 411398771 411399496 0.000000e+00 763
10 TraesCS5D01G210200 chr1D 86.126 728 71 16 36 737 334036440 334037163 0.000000e+00 758
11 TraesCS5D01G210200 chr1D 86.628 688 81 10 56 737 290350968 290351650 0.000000e+00 750
12 TraesCS5D01G210200 chr1D 92.691 301 16 5 1 297 375180690 375180988 1.720000e-116 429
13 TraesCS5D01G210200 chr2D 86.719 640 69 13 107 737 491336584 491337216 0.000000e+00 697
14 TraesCS5D01G210200 chr2D 83.642 648 76 17 132 770 534920461 534921087 1.250000e-162 582
15 TraesCS5D01G210200 chr2D 89.024 410 42 3 331 737 102537089 102537498 2.780000e-139 505
16 TraesCS5D01G210200 chr6A 86.411 574 60 10 176 737 385830195 385829628 1.590000e-171 612
17 TraesCS5D01G210200 chr4A 92.617 298 15 6 1 292 655732954 655732658 2.880000e-114 422
18 TraesCS5D01G210200 chr4A 92.027 301 18 5 1 297 737255198 737255496 3.730000e-113 418
19 TraesCS5D01G210200 chr4A 91.391 302 20 5 1 297 655732806 655732506 2.240000e-110 409


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 TraesCS5D01G210200 chr5D 318491410 318493832 2422 True 4475 4475 100.0000 1 2423 1 chr5D.!!$R1 2422
1 TraesCS5D01G210200 chr5D 534877216 534877959 743 True 863 863 87.8990 1 737 1 chr5D.!!$R2 736
2 TraesCS5D01G210200 chr5D 375050516 375051145 629 False 676 676 86.3420 114 737 1 chr5D.!!$F1 623
3 TraesCS5D01G210200 chr5B 368655572 368657207 1635 True 2436 2436 93.6660 797 2423 1 chr5B.!!$R1 1626
4 TraesCS5D01G210200 chr5A 413192586 413194143 1557 True 2429 2429 94.8470 865 2423 1 chr5A.!!$R1 1558
5 TraesCS5D01G210200 chr3D 39848917 39849832 915 False 609 802 88.8115 1 770 2 chr3D.!!$F1 769
6 TraesCS5D01G210200 chr7D 631597059 631597715 656 False 771 771 87.9700 1 657 1 chr7D.!!$F1 656
7 TraesCS5D01G210200 chr6D 411398771 411399496 725 False 763 763 85.7910 1 737 1 chr6D.!!$F1 736
8 TraesCS5D01G210200 chr1D 334036440 334037163 723 False 758 758 86.1260 36 737 1 chr1D.!!$F2 701
9 TraesCS5D01G210200 chr1D 290350968 290351650 682 False 750 750 86.6280 56 737 1 chr1D.!!$F1 681
10 TraesCS5D01G210200 chr2D 491336584 491337216 632 False 697 697 86.7190 107 737 1 chr2D.!!$F2 630
11 TraesCS5D01G210200 chr2D 534920461 534921087 626 False 582 582 83.6420 132 770 1 chr2D.!!$F3 638
12 TraesCS5D01G210200 chr6A 385829628 385830195 567 True 612 612 86.4110 176 737 1 chr6A.!!$R1 561

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
785 1001 0.034477 TCCCTTTCATCCCGCTTTCC 60.034 55.0 0.0 0.0 0.0 3.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1606 1845 0.179145 GCGCAATGCAGAATTCAGCT 60.179 50.0 21.58 6.67 45.45 4.24 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
21 22 2.358615 GAGGCGCCATGTCACACA 60.359 61.111 31.54 0.00 0.00 3.72
22 23 1.746615 GAGGCGCCATGTCACACAT 60.747 57.895 31.54 2.38 39.91 3.21
174 178 2.051971 CGTGTCACGAACCGACGA 60.052 61.111 20.75 0.00 46.05 4.20
222 244 1.282817 CACGACCGAAACACACTTCA 58.717 50.000 0.00 0.00 0.00 3.02
297 486 3.760035 GTTCCCTCGCGCTGGAGA 61.760 66.667 17.46 10.89 36.08 3.71
298 487 2.994995 TTCCCTCGCGCTGGAGAA 60.995 61.111 17.46 15.05 36.08 2.87
299 488 2.359169 TTCCCTCGCGCTGGAGAAT 61.359 57.895 17.46 0.00 36.08 2.40
300 489 1.899437 TTCCCTCGCGCTGGAGAATT 61.899 55.000 17.46 0.00 36.08 2.17
301 490 1.884926 CCCTCGCGCTGGAGAATTC 60.885 63.158 17.46 0.00 36.08 2.17
306 518 1.291184 CGCGCTGGAGAATTCACACA 61.291 55.000 5.56 2.58 0.00 3.72
307 519 1.089920 GCGCTGGAGAATTCACACAT 58.910 50.000 8.44 0.00 0.00 3.21
328 540 1.272490 GTGCCTCTGCTAGTGTACACA 59.728 52.381 27.06 12.48 38.71 3.72
334 546 2.002586 CTGCTAGTGTACACATGTGCC 58.997 52.381 27.06 16.44 0.00 5.01
335 547 1.623311 TGCTAGTGTACACATGTGCCT 59.377 47.619 27.06 17.22 0.00 4.75
336 548 2.271800 GCTAGTGTACACATGTGCCTC 58.728 52.381 27.06 16.09 0.00 4.70
337 549 2.093973 GCTAGTGTACACATGTGCCTCT 60.094 50.000 27.06 21.43 0.00 3.69
338 550 2.462456 AGTGTACACATGTGCCTCTG 57.538 50.000 27.06 1.07 0.00 3.35
339 551 0.798776 GTGTACACATGTGCCTCTGC 59.201 55.000 25.68 10.28 38.26 4.26
340 552 0.686789 TGTACACATGTGCCTCTGCT 59.313 50.000 25.68 6.93 38.71 4.24
341 553 1.072173 TGTACACATGTGCCTCTGCTT 59.928 47.619 25.68 6.16 38.71 3.91
342 554 1.466167 GTACACATGTGCCTCTGCTTG 59.534 52.381 25.68 0.00 38.71 4.01
343 555 0.892358 ACACATGTGCCTCTGCTTGG 60.892 55.000 25.68 0.00 38.71 3.61
344 556 1.303888 ACATGTGCCTCTGCTTGGG 60.304 57.895 0.00 0.00 38.71 4.12
345 557 1.303888 CATGTGCCTCTGCTTGGGT 60.304 57.895 0.00 0.00 38.71 4.51
346 558 0.035152 CATGTGCCTCTGCTTGGGTA 60.035 55.000 0.00 0.00 38.71 3.69
347 559 0.035056 ATGTGCCTCTGCTTGGGTAC 60.035 55.000 0.00 0.00 38.41 3.34
348 560 1.374947 GTGCCTCTGCTTGGGTACA 59.625 57.895 0.00 0.00 37.96 2.90
349 561 0.250727 GTGCCTCTGCTTGGGTACAA 60.251 55.000 0.00 0.00 37.96 2.41
350 562 0.250727 TGCCTCTGCTTGGGTACAAC 60.251 55.000 0.00 0.00 38.71 3.32
351 563 0.960861 GCCTCTGCTTGGGTACAACC 60.961 60.000 0.00 0.00 33.81 3.77
352 564 0.673644 CCTCTGCTTGGGTACAACCG 60.674 60.000 0.00 0.00 39.83 4.44
353 565 0.034896 CTCTGCTTGGGTACAACCGT 59.965 55.000 0.00 0.00 39.83 4.83
354 566 0.250124 TCTGCTTGGGTACAACCGTG 60.250 55.000 0.00 0.00 39.83 4.94
355 567 0.534203 CTGCTTGGGTACAACCGTGT 60.534 55.000 0.00 0.00 39.83 4.49
444 657 6.693315 TTTTCCTTACTTGAAAGGTCACAG 57.307 37.500 2.76 0.00 45.37 3.66
479 692 2.053865 TCCCTGCCCGTAACTACCG 61.054 63.158 0.00 0.00 0.00 4.02
611 825 5.141910 AGGGAAAACGGAAAATTCTGGTAA 58.858 37.500 6.90 0.00 37.89 2.85
617 831 8.950208 AAAACGGAAAATTCTGGTAATTCAAA 57.050 26.923 6.90 0.00 37.89 2.69
634 848 4.527509 TCAAAGGTCAAACTGCAAAACA 57.472 36.364 0.00 0.00 0.00 2.83
657 871 1.671845 CGAAACCACAAACCGGAAAGA 59.328 47.619 9.46 0.00 0.00 2.52
658 872 2.540157 CGAAACCACAAACCGGAAAGAC 60.540 50.000 9.46 0.00 0.00 3.01
678 894 2.319890 AAACCGAGAGCCAACCACGT 62.320 55.000 0.00 0.00 0.00 4.49
679 895 2.432628 CCGAGAGCCAACCACGTC 60.433 66.667 0.00 0.00 0.00 4.34
681 897 1.734477 CGAGAGCCAACCACGTCAG 60.734 63.158 0.00 0.00 0.00 3.51
682 898 2.029844 GAGAGCCAACCACGTCAGC 61.030 63.158 0.00 0.00 0.00 4.26
683 899 2.031163 GAGCCAACCACGTCAGCT 59.969 61.111 0.00 0.00 36.25 4.24
685 901 2.280797 GCCAACCACGTCAGCTGA 60.281 61.111 13.74 13.74 0.00 4.26
717 933 3.782244 GCGCTTCAGGCACGACAG 61.782 66.667 0.00 0.00 41.91 3.51
725 941 0.530650 CAGGCACGACAGTTGTCACT 60.531 55.000 12.33 2.42 44.99 3.41
740 956 3.682792 ACTCGCGGAGTGCTAGTT 58.317 55.556 6.13 0.00 46.53 2.24
742 958 1.390565 ACTCGCGGAGTGCTAGTTAT 58.609 50.000 6.13 0.00 46.53 1.89
752 968 1.111277 TGCTAGTTATGAGCGCTCCA 58.889 50.000 33.23 21.52 43.19 3.86
756 972 4.021104 TGCTAGTTATGAGCGCTCCATTAT 60.021 41.667 33.23 21.97 43.19 1.28
766 982 3.134458 GCGCTCCATTATCTAGTTGCTT 58.866 45.455 0.00 0.00 0.00 3.91
770 986 4.202409 GCTCCATTATCTAGTTGCTTCCCT 60.202 45.833 0.00 0.00 0.00 4.20
771 987 5.688766 GCTCCATTATCTAGTTGCTTCCCTT 60.689 44.000 0.00 0.00 0.00 3.95
772 988 6.327386 TCCATTATCTAGTTGCTTCCCTTT 57.673 37.500 0.00 0.00 0.00 3.11
773 989 6.357367 TCCATTATCTAGTTGCTTCCCTTTC 58.643 40.000 0.00 0.00 0.00 2.62
774 990 6.069673 TCCATTATCTAGTTGCTTCCCTTTCA 60.070 38.462 0.00 0.00 0.00 2.69
775 991 6.774656 CCATTATCTAGTTGCTTCCCTTTCAT 59.225 38.462 0.00 0.00 0.00 2.57
776 992 7.040823 CCATTATCTAGTTGCTTCCCTTTCATC 60.041 40.741 0.00 0.00 0.00 2.92
777 993 4.222124 TCTAGTTGCTTCCCTTTCATCC 57.778 45.455 0.00 0.00 0.00 3.51
778 994 2.222227 AGTTGCTTCCCTTTCATCCC 57.778 50.000 0.00 0.00 0.00 3.85
779 995 0.811281 GTTGCTTCCCTTTCATCCCG 59.189 55.000 0.00 0.00 0.00 5.14
780 996 0.965363 TTGCTTCCCTTTCATCCCGC 60.965 55.000 0.00 0.00 0.00 6.13
781 997 1.077429 GCTTCCCTTTCATCCCGCT 60.077 57.895 0.00 0.00 0.00 5.52
782 998 0.681243 GCTTCCCTTTCATCCCGCTT 60.681 55.000 0.00 0.00 0.00 4.68
783 999 1.839424 CTTCCCTTTCATCCCGCTTT 58.161 50.000 0.00 0.00 0.00 3.51
784 1000 1.745653 CTTCCCTTTCATCCCGCTTTC 59.254 52.381 0.00 0.00 0.00 2.62
785 1001 0.034477 TCCCTTTCATCCCGCTTTCC 60.034 55.000 0.00 0.00 0.00 3.13
786 1002 1.376609 CCCTTTCATCCCGCTTTCCG 61.377 60.000 0.00 0.00 0.00 4.30
787 1003 1.429423 CTTTCATCCCGCTTTCCGC 59.571 57.895 0.00 0.00 35.03 5.54
813 1029 2.733593 GGTCGTGTCACCGCTGAC 60.734 66.667 3.82 3.82 46.34 3.51
836 1052 1.067495 GTGTCTAGCTTTGCGAGGAGT 60.067 52.381 0.00 0.00 32.33 3.85
837 1053 1.618837 TGTCTAGCTTTGCGAGGAGTT 59.381 47.619 0.00 0.00 32.33 3.01
838 1054 2.037251 TGTCTAGCTTTGCGAGGAGTTT 59.963 45.455 0.00 0.00 32.33 2.66
839 1055 2.413453 GTCTAGCTTTGCGAGGAGTTTG 59.587 50.000 0.00 0.00 32.33 2.93
840 1056 2.299013 TCTAGCTTTGCGAGGAGTTTGA 59.701 45.455 0.00 0.00 32.33 2.69
841 1057 1.517242 AGCTTTGCGAGGAGTTTGAG 58.483 50.000 0.00 0.00 0.00 3.02
847 1063 1.891060 GCGAGGAGTTTGAGCACGTG 61.891 60.000 12.28 12.28 0.00 4.49
903 1132 1.543871 GGTTTCTACGCCTGTTCCCAA 60.544 52.381 0.00 0.00 0.00 4.12
910 1139 0.036010 CGCCTGTTCCCAACATCTCT 60.036 55.000 0.00 0.00 41.26 3.10
1006 1244 1.675310 CCAAAGCCCACGATGAGCA 60.675 57.895 0.00 0.00 0.00 4.26
1168 1406 2.357517 ACAAGTTCGCGCTCCAGG 60.358 61.111 5.56 0.00 0.00 4.45
1230 1468 2.123897 ACGGCCAAGCACACCTTT 60.124 55.556 2.24 0.00 0.00 3.11
1266 1504 2.176247 TCACCTCCTTCTACATCCCC 57.824 55.000 0.00 0.00 0.00 4.81
1379 1617 2.107953 GGAGCAGTGGATCGAGGC 59.892 66.667 0.00 0.00 0.00 4.70
1424 1662 3.458163 CAAGGCCGCCGAGTAGGA 61.458 66.667 3.05 0.00 45.00 2.94
1425 1663 3.148279 AAGGCCGCCGAGTAGGAG 61.148 66.667 3.05 0.00 45.00 3.69
1547 1786 7.381766 TGTGAGAATAAACTTGGACATGATG 57.618 36.000 0.00 0.00 0.00 3.07
1606 1845 2.445682 AGTTTGGTTGGTGGTTGCTA 57.554 45.000 0.00 0.00 0.00 3.49
1607 1846 2.306847 AGTTTGGTTGGTGGTTGCTAG 58.693 47.619 0.00 0.00 0.00 3.42
1707 1946 7.643123 TGAGATGAGCCTATACATATCCACTA 58.357 38.462 0.00 0.00 34.95 2.74
1780 2019 2.230266 CCACGTTTGGGGATCGAAATTT 59.770 45.455 0.00 0.00 39.57 1.82
1785 2024 4.557695 CGTTTGGGGATCGAAATTTGACAA 60.558 41.667 0.00 0.00 0.00 3.18
1848 2087 9.740710 ATTTTAGTTATGTTTTGCCTAGAGAGT 57.259 29.630 0.00 0.00 0.00 3.24
2030 2273 1.378531 AGTGCTCAACAACGCAAAGA 58.621 45.000 0.00 0.00 37.97 2.52
2219 2467 1.068753 CATCATCCGCGGCTTCTCT 59.931 57.895 23.51 0.00 0.00 3.10
2233 2481 4.133078 GGCTTCTCTGGACATATTTGAGG 58.867 47.826 0.00 0.00 0.00 3.86
2253 2501 2.486907 GGGCAGAGGATGAAGATGAAGG 60.487 54.545 0.00 0.00 0.00 3.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 0.601057 TGTCCGTCGATGTGTGACAT 59.399 50.000 10.12 0.00 42.43 3.06
21 22 2.503375 GACGCGTTGTCCGTCGAT 60.503 61.111 15.53 0.00 44.40 3.59
165 169 2.166985 CGCGTTGTTCGTCGGTTC 59.833 61.111 0.00 0.00 42.13 3.62
166 170 3.992019 GCGCGTTGTTCGTCGGTT 61.992 61.111 8.43 0.00 42.13 4.44
200 222 1.011574 GTGTGTTTCGGTCGTGCAC 60.012 57.895 6.82 6.82 0.00 4.57
222 244 1.681229 TCTTGAAGGGGGCATAGGTT 58.319 50.000 0.00 0.00 0.00 3.50
263 435 3.452786 CCTCCTGCTCGCCTTCGA 61.453 66.667 0.00 0.00 43.28 3.71
306 518 2.093973 GTGTACACTAGCAGAGGCACAT 60.094 50.000 18.92 0.00 44.61 3.21
307 519 1.272490 GTGTACACTAGCAGAGGCACA 59.728 52.381 18.92 0.00 44.61 4.57
328 540 0.035056 GTACCCAAGCAGAGGCACAT 60.035 55.000 0.00 0.00 44.61 3.21
334 546 0.034896 ACGGTTGTACCCAAGCAGAG 59.965 55.000 5.61 0.00 46.88 3.35
335 547 0.250124 CACGGTTGTACCCAAGCAGA 60.250 55.000 5.61 0.00 46.88 4.26
336 548 0.534203 ACACGGTTGTACCCAAGCAG 60.534 55.000 5.61 0.45 46.88 4.24
337 549 0.533308 GACACGGTTGTACCCAAGCA 60.533 55.000 5.61 0.00 46.88 3.91
338 550 0.250166 AGACACGGTTGTACCCAAGC 60.250 55.000 0.00 0.00 43.89 4.01
339 551 3.604875 ATAGACACGGTTGTACCCAAG 57.395 47.619 0.00 0.00 35.47 3.61
340 552 3.831333 TGTATAGACACGGTTGTACCCAA 59.169 43.478 0.00 0.00 35.47 4.12
341 553 3.429492 TGTATAGACACGGTTGTACCCA 58.571 45.455 0.00 0.00 35.47 4.51
342 554 3.696051 TCTGTATAGACACGGTTGTACCC 59.304 47.826 0.00 0.00 35.47 3.69
343 555 4.970662 TCTGTATAGACACGGTTGTACC 57.029 45.455 0.00 0.00 35.47 3.34
344 556 7.008992 GTGAATTCTGTATAGACACGGTTGTAC 59.991 40.741 7.05 0.00 35.47 2.90
345 557 7.031372 GTGAATTCTGTATAGACACGGTTGTA 58.969 38.462 7.05 0.00 35.47 2.41
346 558 5.867716 GTGAATTCTGTATAGACACGGTTGT 59.132 40.000 7.05 0.00 39.32 3.32
347 559 5.867174 TGTGAATTCTGTATAGACACGGTTG 59.133 40.000 7.05 0.00 32.83 3.77
348 560 5.867716 GTGTGAATTCTGTATAGACACGGTT 59.132 40.000 7.05 0.00 32.83 4.44
349 561 5.408356 GTGTGAATTCTGTATAGACACGGT 58.592 41.667 7.05 0.00 32.83 4.83
350 562 4.499399 CGTGTGAATTCTGTATAGACACGG 59.501 45.833 25.63 14.18 42.51 4.94
351 563 5.329493 TCGTGTGAATTCTGTATAGACACG 58.671 41.667 26.62 26.62 44.90 4.49
352 564 7.488150 TCAATCGTGTGAATTCTGTATAGACAC 59.512 37.037 7.05 9.53 31.21 3.67
353 565 7.543756 TCAATCGTGTGAATTCTGTATAGACA 58.456 34.615 7.05 0.00 31.21 3.41
354 566 7.987268 TCAATCGTGTGAATTCTGTATAGAC 57.013 36.000 7.05 0.00 31.21 2.59
355 567 7.220108 CGTTCAATCGTGTGAATTCTGTATAGA 59.780 37.037 7.05 0.00 39.61 1.98
444 657 4.504858 CAGGGACTACCAACACTATCAAC 58.495 47.826 0.00 0.00 43.89 3.18
479 692 4.015872 TCCGGGTAATGGAGATTTATGC 57.984 45.455 0.00 0.00 0.00 3.14
611 825 5.351189 GTGTTTTGCAGTTTGACCTTTGAAT 59.649 36.000 0.00 0.00 0.00 2.57
617 831 2.415357 CGTGTGTTTTGCAGTTTGACCT 60.415 45.455 0.00 0.00 0.00 3.85
634 848 0.392729 TCCGGTTTGTGGTTTCGTGT 60.393 50.000 0.00 0.00 0.00 4.49
657 871 0.818040 GTGGTTGGCTCTCGGTTTGT 60.818 55.000 0.00 0.00 0.00 2.83
658 872 1.841663 CGTGGTTGGCTCTCGGTTTG 61.842 60.000 0.00 0.00 0.00 2.93
668 883 1.237285 AATCAGCTGACGTGGTTGGC 61.237 55.000 20.97 0.00 0.00 4.52
678 894 2.858622 CGCAAGGGAAATCAGCTGA 58.141 52.632 20.79 20.79 0.00 4.26
705 921 4.750460 GACAACTGTCGTGCCTGA 57.250 55.556 0.00 0.00 35.12 3.86
737 953 4.881019 AGATAATGGAGCGCTCATAACT 57.119 40.909 36.27 24.53 0.00 2.24
738 954 5.715070 ACTAGATAATGGAGCGCTCATAAC 58.285 41.667 36.27 22.98 0.00 1.89
739 955 5.984695 ACTAGATAATGGAGCGCTCATAA 57.015 39.130 36.27 22.40 0.00 1.90
740 956 5.714047 CAACTAGATAATGGAGCGCTCATA 58.286 41.667 36.27 25.29 0.00 2.15
742 958 3.800261 GCAACTAGATAATGGAGCGCTCA 60.800 47.826 36.27 23.25 0.00 4.26
750 966 6.122277 TGAAAGGGAAGCAACTAGATAATGG 58.878 40.000 0.00 0.00 0.00 3.16
752 968 7.001073 GGATGAAAGGGAAGCAACTAGATAAT 58.999 38.462 0.00 0.00 0.00 1.28
756 972 3.054361 GGGATGAAAGGGAAGCAACTAGA 60.054 47.826 0.00 0.00 0.00 2.43
766 982 0.034477 GGAAAGCGGGATGAAAGGGA 60.034 55.000 0.00 0.00 0.00 4.20
770 986 3.585856 GCGGAAAGCGGGATGAAA 58.414 55.556 0.00 0.00 35.41 2.69
789 1005 3.103911 GTGACACGACCGAAGCCG 61.104 66.667 0.00 0.00 0.00 5.52
790 1006 2.737376 GGTGACACGACCGAAGCC 60.737 66.667 0.00 0.00 0.00 4.35
813 1029 1.263776 CTCGCAAAGCTAGACACTCG 58.736 55.000 0.00 0.00 0.00 4.18
836 1052 1.855213 GCTGATGCCACGTGCTCAAA 61.855 55.000 10.91 2.81 42.00 2.69
837 1053 2.327343 GCTGATGCCACGTGCTCAA 61.327 57.895 10.91 0.00 42.00 3.02
838 1054 2.743538 GCTGATGCCACGTGCTCA 60.744 61.111 10.91 10.62 42.00 4.26
873 1102 0.736325 CGTAGAAACCTGTGGCTCGG 60.736 60.000 0.00 0.00 0.00 4.63
903 1132 2.317594 AGGGGAAGAGAGGAAGAGATGT 59.682 50.000 0.00 0.00 0.00 3.06
910 1139 0.684805 GCTCGAGGGGAAGAGAGGAA 60.685 60.000 15.58 0.00 36.65 3.36
1093 1331 0.390866 CAGTCGGAGCAGTTGCAGAT 60.391 55.000 6.90 0.00 45.16 2.90
1182 1420 2.112279 AGGTGTAGGTGGTGAGGAAA 57.888 50.000 0.00 0.00 0.00 3.13
1266 1504 4.388499 CCGTCGGGGTTGGACCTG 62.388 72.222 2.34 0.00 38.64 4.00
1426 1664 4.394712 CACGGGCCAGGTCAGGTC 62.395 72.222 8.08 0.00 0.00 3.85
1547 1786 4.937201 AAATTCAGGACAAGTTTGGACC 57.063 40.909 0.00 0.39 0.00 4.46
1606 1845 0.179145 GCGCAATGCAGAATTCAGCT 60.179 50.000 21.58 6.67 45.45 4.24
1607 1846 2.285154 GCGCAATGCAGAATTCAGC 58.715 52.632 15.36 15.36 45.45 4.26
1785 2024 2.996249 AGAGCATCCACAATCACGAT 57.004 45.000 0.00 0.00 33.66 3.73
1822 2061 9.740710 ACTCTCTAGGCAAAACATAACTAAAAT 57.259 29.630 0.00 0.00 0.00 1.82
1864 2103 5.091552 TCAGGAAAGGTAAGTCACTATGGT 58.908 41.667 0.00 0.00 0.00 3.55
1915 2154 0.548031 TGCTTGGGCTCTCCATAAGG 59.452 55.000 0.00 0.00 46.52 2.69
2030 2273 6.777580 AGTGTTTGTATGTTCATTTCCCTTCT 59.222 34.615 0.00 0.00 0.00 2.85
2219 2467 2.173356 CCTCTGCCCTCAAATATGTCCA 59.827 50.000 0.00 0.00 0.00 4.02
2233 2481 2.848691 CCTTCATCTTCATCCTCTGCC 58.151 52.381 0.00 0.00 0.00 4.85
2253 2501 0.953727 TAGCATCGATTTGCCATGGC 59.046 50.000 30.54 30.54 43.83 4.40


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

AutoCloner maintained by Alex Coulton.