Multiple sequence alignment - TraesCS6B01G238700

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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 TraesCS6B01G238700 chr6B 100.000 3089 0 0 1 3089 415791022 415787934 0.000000e+00 5705.0
1 TraesCS6B01G238700 chr6B 99.335 902 6 0 2188 3089 470818848 470817947 0.000000e+00 1633.0
2 TraesCS6B01G238700 chr6B 97.024 504 15 0 1475 1978 415864159 415863656 0.000000e+00 848.0
3 TraesCS6B01G238700 chr6B 95.312 128 6 0 1120 1247 415864360 415864233 1.450000e-48 204.0
4 TraesCS6B01G238700 chr6D 91.995 1549 48 17 679 2167 267238164 267236632 0.000000e+00 2104.0
5 TraesCS6B01G238700 chr6D 98.734 474 6 0 1477 1950 267515190 267514717 0.000000e+00 843.0
6 TraesCS6B01G238700 chr6D 92.593 135 10 0 1113 1247 267515402 267515268 8.740000e-46 195.0
7 TraesCS6B01G238700 chr6D 95.455 44 2 0 622 665 267238194 267238151 1.540000e-08 71.3
8 TraesCS6B01G238700 chr6A 91.375 1542 53 20 679 2163 380362557 380361039 0.000000e+00 2037.0
9 TraesCS6B01G238700 chr6A 96.260 508 19 0 1471 1978 381026138 381025631 0.000000e+00 833.0
10 TraesCS6B01G238700 chr6A 92.701 137 10 0 1113 1249 381026350 381026214 6.760000e-47 198.0
11 TraesCS6B01G238700 chr6A 95.918 49 2 0 617 665 380362592 380362544 2.550000e-11 80.5
12 TraesCS6B01G238700 chr2A 99.558 905 4 0 2185 3089 718829057 718828153 0.000000e+00 1650.0
13 TraesCS6B01G238700 chr2A 92.701 548 37 1 1 545 257858776 257858229 0.000000e+00 787.0
14 TraesCS6B01G238700 chr7B 99.446 903 5 0 2187 3089 399865479 399864577 0.000000e+00 1640.0
15 TraesCS6B01G238700 chr7B 99.336 904 5 1 2187 3089 614405257 614406160 0.000000e+00 1635.0
16 TraesCS6B01G238700 chr7B 99.227 905 7 0 2185 3089 465961403 465960499 0.000000e+00 1633.0
17 TraesCS6B01G238700 chr2B 99.337 905 5 1 2186 3089 137449114 137448210 0.000000e+00 1637.0
18 TraesCS6B01G238700 chr2B 92.545 550 39 2 3 550 148586848 148587397 0.000000e+00 787.0
19 TraesCS6B01G238700 chr1B 99.226 904 7 0 2186 3089 576050450 576051353 0.000000e+00 1631.0
20 TraesCS6B01G238700 chr5A 99.226 904 6 1 2187 3089 99205425 99206328 0.000000e+00 1629.0
21 TraesCS6B01G238700 chr4A 99.225 903 7 0 2187 3089 518797757 518796855 0.000000e+00 1629.0
22 TraesCS6B01G238700 chr4A 93.040 546 38 0 1 546 735876203 735875658 0.000000e+00 798.0
23 TraesCS6B01G238700 chr4A 92.946 482 31 2 1472 1950 640232601 640233082 0.000000e+00 699.0
24 TraesCS6B01G238700 chr4A 100.000 29 0 0 972 1000 640232283 640232311 2.000000e-03 54.7
25 TraesCS6B01G238700 chr5D 93.407 546 36 0 1 546 301121023 301121568 0.000000e+00 809.0
26 TraesCS6B01G238700 chr5D 92.547 483 33 2 1471 1950 531971714 531971232 0.000000e+00 689.0
27 TraesCS6B01G238700 chr5D 86.052 466 46 9 1479 1927 531901300 531900837 1.670000e-132 483.0
28 TraesCS6B01G238700 chr5D 91.971 137 11 0 1113 1249 531902146 531902010 3.140000e-45 193.0
29 TraesCS6B01G238700 chr5D 90.511 137 13 0 1113 1249 531971915 531971779 6.800000e-42 182.0
30 TraesCS6B01G238700 chr5D 100.000 30 0 0 971 1000 531903675 531903646 4.300000e-04 56.5
31 TraesCS6B01G238700 chr2D 93.223 546 37 0 1 546 20355771 20356316 0.000000e+00 804.0
32 TraesCS6B01G238700 chr1D 93.370 543 36 0 1 543 645012 644470 0.000000e+00 804.0
33 TraesCS6B01G238700 chr1D 93.040 546 38 0 1 546 178235044 178235589 0.000000e+00 798.0
34 TraesCS6B01G238700 chr5B 92.948 553 35 2 1 550 107923300 107923851 0.000000e+00 802.0
35 TraesCS6B01G238700 chr5B 93.066 548 35 1 1 545 622615569 622616116 0.000000e+00 798.0
36 TraesCS6B01G238700 chr5B 92.489 466 32 2 1488 1950 671188131 671187666 0.000000e+00 664.0
37 TraesCS6B01G238700 chr5B 86.813 273 36 0 1482 1754 671131612 671131340 3.870000e-79 305.0
38 TraesCS6B01G238700 chr5B 92.701 137 10 0 1113 1249 671138053 671137917 6.760000e-47 198.0
39 TraesCS6B01G238700 chr5B 91.852 135 11 0 1115 1249 671188342 671188208 4.070000e-44 189.0
40 TraesCS6B01G238700 chr5B 94.595 37 2 0 972 1008 671138165 671138129 1.200000e-04 58.4


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 TraesCS6B01G238700 chr6B 415787934 415791022 3088 True 5705.000000 5705 100.000000 1 3089 1 chr6B.!!$R1 3088
1 TraesCS6B01G238700 chr6B 470817947 470818848 901 True 1633.000000 1633 99.335000 2188 3089 1 chr6B.!!$R2 901
2 TraesCS6B01G238700 chr6B 415863656 415864360 704 True 526.000000 848 96.168000 1120 1978 2 chr6B.!!$R3 858
3 TraesCS6B01G238700 chr6D 267236632 267238194 1562 True 1087.650000 2104 93.725000 622 2167 2 chr6D.!!$R1 1545
4 TraesCS6B01G238700 chr6D 267514717 267515402 685 True 519.000000 843 95.663500 1113 1950 2 chr6D.!!$R2 837
5 TraesCS6B01G238700 chr6A 380361039 380362592 1553 True 1058.750000 2037 93.646500 617 2163 2 chr6A.!!$R1 1546
6 TraesCS6B01G238700 chr6A 381025631 381026350 719 True 515.500000 833 94.480500 1113 1978 2 chr6A.!!$R2 865
7 TraesCS6B01G238700 chr2A 718828153 718829057 904 True 1650.000000 1650 99.558000 2185 3089 1 chr2A.!!$R2 904
8 TraesCS6B01G238700 chr2A 257858229 257858776 547 True 787.000000 787 92.701000 1 545 1 chr2A.!!$R1 544
9 TraesCS6B01G238700 chr7B 399864577 399865479 902 True 1640.000000 1640 99.446000 2187 3089 1 chr7B.!!$R1 902
10 TraesCS6B01G238700 chr7B 614405257 614406160 903 False 1635.000000 1635 99.336000 2187 3089 1 chr7B.!!$F1 902
11 TraesCS6B01G238700 chr7B 465960499 465961403 904 True 1633.000000 1633 99.227000 2185 3089 1 chr7B.!!$R2 904
12 TraesCS6B01G238700 chr2B 137448210 137449114 904 True 1637.000000 1637 99.337000 2186 3089 1 chr2B.!!$R1 903
13 TraesCS6B01G238700 chr2B 148586848 148587397 549 False 787.000000 787 92.545000 3 550 1 chr2B.!!$F1 547
14 TraesCS6B01G238700 chr1B 576050450 576051353 903 False 1631.000000 1631 99.226000 2186 3089 1 chr1B.!!$F1 903
15 TraesCS6B01G238700 chr5A 99205425 99206328 903 False 1629.000000 1629 99.226000 2187 3089 1 chr5A.!!$F1 902
16 TraesCS6B01G238700 chr4A 518796855 518797757 902 True 1629.000000 1629 99.225000 2187 3089 1 chr4A.!!$R1 902
17 TraesCS6B01G238700 chr4A 735875658 735876203 545 True 798.000000 798 93.040000 1 546 1 chr4A.!!$R2 545
18 TraesCS6B01G238700 chr4A 640232283 640233082 799 False 376.850000 699 96.473000 972 1950 2 chr4A.!!$F1 978
19 TraesCS6B01G238700 chr5D 301121023 301121568 545 False 809.000000 809 93.407000 1 546 1 chr5D.!!$F1 545
20 TraesCS6B01G238700 chr5D 531971232 531971915 683 True 435.500000 689 91.529000 1113 1950 2 chr5D.!!$R2 837
21 TraesCS6B01G238700 chr5D 531900837 531903675 2838 True 244.166667 483 92.674333 971 1927 3 chr5D.!!$R1 956
22 TraesCS6B01G238700 chr2D 20355771 20356316 545 False 804.000000 804 93.223000 1 546 1 chr2D.!!$F1 545
23 TraesCS6B01G238700 chr1D 644470 645012 542 True 804.000000 804 93.370000 1 543 1 chr1D.!!$R1 542
24 TraesCS6B01G238700 chr1D 178235044 178235589 545 False 798.000000 798 93.040000 1 546 1 chr1D.!!$F1 545
25 TraesCS6B01G238700 chr5B 107923300 107923851 551 False 802.000000 802 92.948000 1 550 1 chr5B.!!$F1 549
26 TraesCS6B01G238700 chr5B 622615569 622616116 547 False 798.000000 798 93.066000 1 545 1 chr5B.!!$F2 544
27 TraesCS6B01G238700 chr5B 671187666 671188342 676 True 426.500000 664 92.170500 1115 1950 2 chr5B.!!$R3 835

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
801 808 0.103208 CTGGGATTCGGACTTCGGAG 59.897 60.0 0.0 0.0 39.77 4.63 F
802 809 0.323999 TGGGATTCGGACTTCGGAGA 60.324 55.0 0.0 0.0 39.77 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2068 4036 0.993532 TTATCCGTACAGTTTGCGCG 59.006 50.000 0.0 0.0 30.8 6.86 R
2134 4102 9.270576 CTGTCTGAAATCAAATTACTTCATTCG 57.729 33.333 0.0 0.0 0.0 3.34 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
18 19 1.004080 TCTCGTCCTCGTCGGTCTT 60.004 57.895 0.00 0.00 38.33 3.01
72 73 2.896801 GCAAGACTGTGGTGGTGCG 61.897 63.158 0.00 0.00 0.00 5.34
96 97 1.758592 GTGGGTGGCTTGTCTGGTA 59.241 57.895 0.00 0.00 0.00 3.25
102 103 1.185618 TGGCTTGTCTGGTAGAGCGT 61.186 55.000 0.00 0.00 36.02 5.07
216 217 2.358247 TTTCCTGAAGGGCGTCGC 60.358 61.111 9.22 9.22 35.41 5.19
222 223 2.737376 GAAGGGCGTCGCGTCTTT 60.737 61.111 20.21 7.95 32.68 2.52
294 301 0.803380 CAGCAGCGTCATCATCGTCA 60.803 55.000 0.00 0.00 0.00 4.35
375 382 2.114670 CATCTTCGGTGGGCGCAAT 61.115 57.895 10.83 0.00 0.00 3.56
458 465 5.675684 TTCTCTTTTGTTTCTTTTGGGCT 57.324 34.783 0.00 0.00 0.00 5.19
467 474 1.484038 TCTTTTGGGCTTGCTTGTGT 58.516 45.000 0.00 0.00 0.00 3.72
476 483 1.740043 GCTTGCTTGTGTTGTTTGCCT 60.740 47.619 0.00 0.00 0.00 4.75
504 511 3.822940 TGGACTTTTTGTTGTATCGGGT 58.177 40.909 0.00 0.00 0.00 5.28
535 542 2.799017 TCTATATAGCGGGGCGAAAGA 58.201 47.619 4.75 0.00 0.00 2.52
553 560 7.448434 CGAAAGACTTTTTCGTATCTTTTCG 57.552 36.000 12.43 0.00 44.25 3.46
554 561 7.061634 CGAAAGACTTTTTCGTATCTTTTCGT 58.938 34.615 12.43 0.00 44.25 3.85
555 562 7.263618 CGAAAGACTTTTTCGTATCTTTTCGTC 59.736 37.037 12.43 0.00 44.25 4.20
556 563 6.463483 AGACTTTTTCGTATCTTTTCGTCC 57.537 37.500 0.00 0.00 0.00 4.79
557 564 6.221659 AGACTTTTTCGTATCTTTTCGTCCT 58.778 36.000 0.00 0.00 0.00 3.85
558 565 7.373493 AGACTTTTTCGTATCTTTTCGTCCTA 58.627 34.615 0.00 0.00 0.00 2.94
559 566 8.033626 AGACTTTTTCGTATCTTTTCGTCCTAT 58.966 33.333 0.00 0.00 0.00 2.57
560 567 7.960793 ACTTTTTCGTATCTTTTCGTCCTATG 58.039 34.615 0.00 0.00 0.00 2.23
561 568 7.601508 ACTTTTTCGTATCTTTTCGTCCTATGT 59.398 33.333 0.00 0.00 0.00 2.29
562 569 7.894376 TTTTCGTATCTTTTCGTCCTATGTT 57.106 32.000 0.00 0.00 0.00 2.71
563 570 7.894376 TTTCGTATCTTTTCGTCCTATGTTT 57.106 32.000 0.00 0.00 0.00 2.83
564 571 7.515957 TTCGTATCTTTTCGTCCTATGTTTC 57.484 36.000 0.00 0.00 0.00 2.78
565 572 6.860080 TCGTATCTTTTCGTCCTATGTTTCT 58.140 36.000 0.00 0.00 0.00 2.52
566 573 7.988737 TCGTATCTTTTCGTCCTATGTTTCTA 58.011 34.615 0.00 0.00 0.00 2.10
567 574 8.627403 TCGTATCTTTTCGTCCTATGTTTCTAT 58.373 33.333 0.00 0.00 0.00 1.98
568 575 9.888878 CGTATCTTTTCGTCCTATGTTTCTATA 57.111 33.333 0.00 0.00 0.00 1.31
572 579 9.932207 TCTTTTCGTCCTATGTTTCTATACAAA 57.068 29.630 0.00 0.00 0.00 2.83
594 601 9.352784 ACAAATTTTGTTGACATATTATGGACG 57.647 29.630 8.97 0.00 42.22 4.79
595 602 9.566530 CAAATTTTGTTGACATATTATGGACGA 57.433 29.630 8.48 1.94 33.60 4.20
599 606 8.958175 TTTGTTGACATATTATGGACGAAAAC 57.042 30.769 8.48 4.35 33.60 2.43
600 607 7.079182 TGTTGACATATTATGGACGAAAACC 57.921 36.000 8.48 0.00 33.60 3.27
601 608 6.655425 TGTTGACATATTATGGACGAAAACCA 59.345 34.615 8.48 0.00 41.83 3.67
602 609 6.671614 TGACATATTATGGACGAAAACCAC 57.328 37.500 8.48 0.00 40.36 4.16
603 610 6.174049 TGACATATTATGGACGAAAACCACA 58.826 36.000 8.48 0.00 40.36 4.17
604 611 6.655425 TGACATATTATGGACGAAAACCACAA 59.345 34.615 8.48 0.00 40.36 3.33
605 612 6.848451 ACATATTATGGACGAAAACCACAAC 58.152 36.000 8.48 0.00 40.36 3.32
606 613 3.881780 TTATGGACGAAAACCACAACG 57.118 42.857 0.00 0.00 40.36 4.10
607 614 1.956297 ATGGACGAAAACCACAACGA 58.044 45.000 0.00 0.00 40.36 3.85
608 615 1.735386 TGGACGAAAACCACAACGAA 58.265 45.000 0.00 0.00 32.03 3.85
609 616 2.082231 TGGACGAAAACCACAACGAAA 58.918 42.857 0.00 0.00 32.03 3.46
610 617 2.486982 TGGACGAAAACCACAACGAAAA 59.513 40.909 0.00 0.00 32.03 2.29
611 618 3.057736 TGGACGAAAACCACAACGAAAAA 60.058 39.130 0.00 0.00 32.03 1.94
612 619 4.106909 GGACGAAAACCACAACGAAAAAT 58.893 39.130 0.00 0.00 0.00 1.82
613 620 4.205588 GGACGAAAACCACAACGAAAAATC 59.794 41.667 0.00 0.00 0.00 2.17
614 621 4.734917 ACGAAAACCACAACGAAAAATCA 58.265 34.783 0.00 0.00 0.00 2.57
615 622 5.162075 ACGAAAACCACAACGAAAAATCAA 58.838 33.333 0.00 0.00 0.00 2.57
794 801 0.179070 GAAGAGGCTGGGATTCGGAC 60.179 60.000 0.00 0.00 0.00 4.79
795 802 0.618968 AAGAGGCTGGGATTCGGACT 60.619 55.000 0.00 0.00 44.51 3.85
796 803 0.618968 AGAGGCTGGGATTCGGACTT 60.619 55.000 0.00 0.00 41.09 3.01
797 804 0.179070 GAGGCTGGGATTCGGACTTC 60.179 60.000 0.00 0.00 41.09 3.01
798 805 1.521681 GGCTGGGATTCGGACTTCG 60.522 63.158 0.00 0.00 40.90 3.79
799 806 1.521681 GCTGGGATTCGGACTTCGG 60.522 63.158 0.00 0.00 39.77 4.30
801 808 0.103208 CTGGGATTCGGACTTCGGAG 59.897 60.000 0.00 0.00 39.77 4.63
802 809 0.323999 TGGGATTCGGACTTCGGAGA 60.324 55.000 0.00 0.00 39.77 3.71
803 810 0.386113 GGGATTCGGACTTCGGAGAG 59.614 60.000 0.00 0.00 38.43 3.20
804 811 0.386113 GGATTCGGACTTCGGAGAGG 59.614 60.000 0.00 0.00 38.43 3.69
805 812 1.390565 GATTCGGACTTCGGAGAGGA 58.609 55.000 0.00 0.00 38.43 3.71
1018 1036 3.509442 TCCAAATCCCACAAGAGCAAAT 58.491 40.909 0.00 0.00 0.00 2.32
1050 1080 0.392729 CCAGCTCCTCTCTTGCCTTG 60.393 60.000 0.00 0.00 0.00 3.61
1079 1121 0.953727 CAACAGCAGCCAAGCACTAA 59.046 50.000 0.00 0.00 36.85 2.24
1126 2576 2.125673 GTATGGTCACGGCGCTGT 60.126 61.111 18.16 18.16 0.00 4.40
1330 3227 0.531657 TGGCCATGTATGCAACAAGC 59.468 50.000 0.00 13.81 42.70 4.01
1403 3300 2.483889 CCGGCCAGTAGAAGAATCTTCC 60.484 54.545 18.46 5.37 37.10 3.46
1842 3808 1.990799 CCTTCAACGTCGTCAGCATA 58.009 50.000 0.00 0.00 0.00 3.14
1970 3936 1.679680 GATGTGGAGATCGGAACCGTA 59.320 52.381 12.93 0.98 40.74 4.02
2042 4010 2.871022 AGTATCAGTACGGACTAGCACG 59.129 50.000 0.00 5.25 35.92 5.34
2043 4011 1.747709 ATCAGTACGGACTAGCACGT 58.252 50.000 15.31 15.31 46.17 4.49
2044 4012 2.385013 TCAGTACGGACTAGCACGTA 57.615 50.000 0.00 13.53 43.79 3.57
2134 4102 3.985279 TGTTGTGAGCGTGTAATGACTAC 59.015 43.478 0.00 0.00 0.00 2.73
2142 4110 4.798907 AGCGTGTAATGACTACGAATGAAG 59.201 41.667 8.75 0.00 40.01 3.02
2169 4137 8.779354 AATTTGATTTCAGACAGTAGTACTCC 57.221 34.615 0.00 0.00 0.00 3.85
2170 4138 7.540474 TTTGATTTCAGACAGTAGTACTCCT 57.460 36.000 0.00 0.00 0.00 3.69
2171 4139 8.645814 TTTGATTTCAGACAGTAGTACTCCTA 57.354 34.615 0.00 0.00 0.00 2.94
2172 4140 7.627298 TGATTTCAGACAGTAGTACTCCTAC 57.373 40.000 0.00 0.00 45.47 3.18
2632 4601 1.834896 TCCAAAGCGCCCATACTAAGA 59.165 47.619 2.29 0.00 0.00 2.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 0.612744 TCACCATGGTCATCGAAGCA 59.387 50.000 16.53 0.00 0.00 3.91
72 73 4.025401 CAAGCCACCCACGAACGC 62.025 66.667 0.00 0.00 0.00 4.84
96 97 3.264866 GAACGGTCCGACACGCTCT 62.265 63.158 20.51 0.00 0.00 4.09
196 197 0.737715 CGACGCCCTTCAGGAAAGAG 60.738 60.000 0.00 0.00 37.12 2.85
199 200 2.358247 GCGACGCCCTTCAGGAAA 60.358 61.111 9.14 0.00 38.24 3.13
216 217 1.375523 CGTGGGGAAGGGAAAGACG 60.376 63.158 0.00 0.00 0.00 4.18
262 263 3.002583 TGCTGCCCGGACAGATCA 61.003 61.111 23.28 8.03 40.25 2.92
285 289 3.452264 TCAGGAAGGAACATGACGATGAT 59.548 43.478 0.00 0.00 33.36 2.45
288 292 3.866651 CTTCAGGAAGGAACATGACGAT 58.133 45.455 0.00 0.00 34.87 3.73
362 369 4.652131 AACCATTGCGCCCACCGA 62.652 61.111 4.18 0.00 40.02 4.69
375 382 5.563085 CGAAAACGATGATAACCCAAAACCA 60.563 40.000 0.00 0.00 0.00 3.67
458 465 1.547820 TGAGGCAAACAACACAAGCAA 59.452 42.857 0.00 0.00 0.00 3.91
476 483 4.734398 ACAACAAAAAGTCCAATGCTGA 57.266 36.364 0.00 0.00 0.00 4.26
489 496 2.034812 GCAACCACCCGATACAACAAAA 59.965 45.455 0.00 0.00 0.00 2.44
535 542 7.601508 ACATAGGACGAAAAGATACGAAAAAGT 59.398 33.333 0.00 0.00 0.00 2.66
569 576 9.566530 TCGTCCATAATATGTCAACAAAATTTG 57.433 29.630 3.89 3.89 0.00 2.32
573 580 9.400638 GTTTTCGTCCATAATATGTCAACAAAA 57.599 29.630 0.00 3.29 0.00 2.44
574 581 8.024285 GGTTTTCGTCCATAATATGTCAACAAA 58.976 33.333 0.00 0.00 0.00 2.83
575 582 7.175119 TGGTTTTCGTCCATAATATGTCAACAA 59.825 33.333 0.00 0.00 0.00 2.83
576 583 6.655425 TGGTTTTCGTCCATAATATGTCAACA 59.345 34.615 0.00 0.00 0.00 3.33
577 584 6.964934 GTGGTTTTCGTCCATAATATGTCAAC 59.035 38.462 0.00 0.00 37.30 3.18
578 585 6.655425 TGTGGTTTTCGTCCATAATATGTCAA 59.345 34.615 0.00 0.00 37.30 3.18
579 586 6.174049 TGTGGTTTTCGTCCATAATATGTCA 58.826 36.000 0.00 0.00 37.30 3.58
580 587 6.671614 TGTGGTTTTCGTCCATAATATGTC 57.328 37.500 0.00 0.00 37.30 3.06
581 588 6.402766 CGTTGTGGTTTTCGTCCATAATATGT 60.403 38.462 0.00 0.00 38.09 2.29
582 589 5.963004 CGTTGTGGTTTTCGTCCATAATATG 59.037 40.000 0.00 0.00 38.09 1.78
583 590 5.875910 TCGTTGTGGTTTTCGTCCATAATAT 59.124 36.000 0.00 0.00 38.09 1.28
584 591 5.236282 TCGTTGTGGTTTTCGTCCATAATA 58.764 37.500 0.00 0.00 38.09 0.98
585 592 4.066490 TCGTTGTGGTTTTCGTCCATAAT 58.934 39.130 0.00 0.00 38.09 1.28
586 593 3.464907 TCGTTGTGGTTTTCGTCCATAA 58.535 40.909 0.00 0.00 37.30 1.90
587 594 3.109044 TCGTTGTGGTTTTCGTCCATA 57.891 42.857 0.00 0.00 37.30 2.74
588 595 1.956297 TCGTTGTGGTTTTCGTCCAT 58.044 45.000 0.00 0.00 37.30 3.41
589 596 1.735386 TTCGTTGTGGTTTTCGTCCA 58.265 45.000 0.00 0.00 0.00 4.02
590 597 2.828874 TTTCGTTGTGGTTTTCGTCC 57.171 45.000 0.00 0.00 0.00 4.79
591 598 4.794246 TGATTTTTCGTTGTGGTTTTCGTC 59.206 37.500 0.00 0.00 0.00 4.20
592 599 4.734917 TGATTTTTCGTTGTGGTTTTCGT 58.265 34.783 0.00 0.00 0.00 3.85
593 600 5.688348 TTGATTTTTCGTTGTGGTTTTCG 57.312 34.783 0.00 0.00 0.00 3.46
594 601 8.121167 TGTATTGATTTTTCGTTGTGGTTTTC 57.879 30.769 0.00 0.00 0.00 2.29
595 602 8.655651 ATGTATTGATTTTTCGTTGTGGTTTT 57.344 26.923 0.00 0.00 0.00 2.43
596 603 8.655651 AATGTATTGATTTTTCGTTGTGGTTT 57.344 26.923 0.00 0.00 0.00 3.27
597 604 8.655651 AAATGTATTGATTTTTCGTTGTGGTT 57.344 26.923 0.00 0.00 0.00 3.67
598 605 8.547069 CAAAATGTATTGATTTTTCGTTGTGGT 58.453 29.630 0.00 0.00 34.05 4.16
599 606 8.759641 TCAAAATGTATTGATTTTTCGTTGTGG 58.240 29.630 0.00 0.00 34.05 4.17
675 682 4.202151 GCCCGAGCCTAAATCATCATTTTT 60.202 41.667 0.00 0.00 33.95 1.94
676 683 3.319122 GCCCGAGCCTAAATCATCATTTT 59.681 43.478 0.00 0.00 33.95 1.82
677 684 2.887152 GCCCGAGCCTAAATCATCATTT 59.113 45.455 0.00 0.00 36.18 2.32
694 701 2.476534 AATCAAACTGCAAGCGCCCG 62.477 55.000 2.29 0.00 37.60 6.13
794 801 3.929610 GTCAAATCTTGTCCTCTCCGAAG 59.070 47.826 0.00 0.00 0.00 3.79
795 802 3.578716 AGTCAAATCTTGTCCTCTCCGAA 59.421 43.478 0.00 0.00 0.00 4.30
796 803 3.165875 AGTCAAATCTTGTCCTCTCCGA 58.834 45.455 0.00 0.00 0.00 4.55
797 804 3.601443 AGTCAAATCTTGTCCTCTCCG 57.399 47.619 0.00 0.00 0.00 4.63
798 805 4.006319 CCAAGTCAAATCTTGTCCTCTCC 58.994 47.826 5.86 0.00 42.01 3.71
799 806 4.006319 CCCAAGTCAAATCTTGTCCTCTC 58.994 47.826 5.86 0.00 42.01 3.20
801 808 4.006319 CTCCCAAGTCAAATCTTGTCCTC 58.994 47.826 5.86 0.00 42.01 3.71
802 809 3.812167 GCTCCCAAGTCAAATCTTGTCCT 60.812 47.826 5.86 0.00 42.01 3.85
803 810 2.489722 GCTCCCAAGTCAAATCTTGTCC 59.510 50.000 5.86 0.00 42.01 4.02
804 811 2.160417 CGCTCCCAAGTCAAATCTTGTC 59.840 50.000 5.86 0.00 42.01 3.18
805 812 2.154462 CGCTCCCAAGTCAAATCTTGT 58.846 47.619 5.86 0.00 42.01 3.16
1018 1036 0.110486 GAGCTGGGGGACAAGTTTGA 59.890 55.000 0.00 0.00 0.00 2.69
1050 1080 1.687494 GCTGCTGTTGTCGATCGGAC 61.687 60.000 16.41 12.44 46.27 4.79
1110 2560 1.739929 CAACAGCGCCGTGACCATA 60.740 57.895 2.29 0.00 0.00 2.74
1126 2576 4.329545 GGCGAGGACCACCAGCAA 62.330 66.667 0.00 0.00 41.43 3.91
1251 2730 4.495844 GCCAAACAAGGAAGCATATACGAC 60.496 45.833 0.00 0.00 0.00 4.34
1330 3227 2.031682 GGCATGCGACAAGGCTAATTAG 60.032 50.000 12.44 8.20 0.00 1.73
1469 3416 5.551233 CTGGTCAAGGATCAGTTAAGTTGA 58.449 41.667 0.00 0.00 36.18 3.18
1816 3782 2.654877 GACGTTGAAGGCGGAGGA 59.345 61.111 0.00 0.00 0.00 3.71
1911 3877 6.205464 TGCGTTTCTCAATGAAGAAGAAGAAT 59.795 34.615 0.00 0.00 36.66 2.40
1970 3936 3.430790 GGAGAAAGCCAACAAACTTTGCT 60.431 43.478 1.14 0.00 36.28 3.91
2068 4036 0.993532 TTATCCGTACAGTTTGCGCG 59.006 50.000 0.00 0.00 30.80 6.86
2134 4102 9.270576 CTGTCTGAAATCAAATTACTTCATTCG 57.729 33.333 0.00 0.00 0.00 3.34


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

AutoCloner maintained by Alex Coulton.