Multiple sequence alignment - TraesCS7A01G247700

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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 TraesCS7A01G247700 chr7A 100.000 2890 0 0 1 2890 228491268 228488379 0.000000e+00 5337
1 TraesCS7A01G247700 chr7A 95.202 521 24 1 1 520 228537750 228537230 0.000000e+00 822
2 TraesCS7A01G247700 chr7A 95.202 521 24 1 1 520 390852186 390852706 0.000000e+00 822
3 TraesCS7A01G247700 chr7A 95.202 521 24 1 1 520 429479845 429479325 0.000000e+00 822
4 TraesCS7A01G247700 chr7D 93.102 2392 128 26 521 2890 215227827 215225451 0.000000e+00 3469
5 TraesCS7A01G247700 chr7B 96.008 1929 64 7 936 2855 185300236 185298312 0.000000e+00 3123
6 TraesCS7A01G247700 chr7B 81.295 139 16 7 2749 2883 608365602 608365734 1.420000e-18 104
7 TraesCS7A01G247700 chr2A 95.585 521 22 1 1 520 743185978 743185458 0.000000e+00 833
8 TraesCS7A01G247700 chr2A 95.038 524 24 2 1 523 521842362 521841840 0.000000e+00 822
9 TraesCS7A01G247700 chr6A 95.358 517 24 0 1 517 554877286 554877802 0.000000e+00 822
10 TraesCS7A01G247700 chr4A 95.038 524 25 1 1 523 458757923 458757400 0.000000e+00 822
11 TraesCS7A01G247700 chr1A 95.038 524 25 1 1 523 29688308 29687785 0.000000e+00 822
12 TraesCS7A01G247700 chr1A 95.202 521 24 1 1 520 336496861 336496341 0.000000e+00 822
13 TraesCS7A01G247700 chr1A 89.011 91 5 3 2804 2890 327491729 327491818 1.100000e-19 108
14 TraesCS7A01G247700 chr4D 87.500 144 14 2 2749 2888 40175517 40175374 2.300000e-36 163
15 TraesCS7A01G247700 chr4D 89.011 91 4 4 2804 2890 60365051 60365139 1.100000e-19 108
16 TraesCS7A01G247700 chr3A 89.011 91 6 2 2804 2890 371262113 371262023 3.040000e-20 110
17 TraesCS7A01G247700 chr2B 89.011 91 6 2 2804 2890 298053352 298053262 3.040000e-20 110
18 TraesCS7A01G247700 chr2B 89.011 91 5 3 2804 2890 361859400 361859489 1.100000e-19 108


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 TraesCS7A01G247700 chr7A 228488379 228491268 2889 True 5337 5337 100.000 1 2890 1 chr7A.!!$R1 2889
1 TraesCS7A01G247700 chr7A 228537230 228537750 520 True 822 822 95.202 1 520 1 chr7A.!!$R2 519
2 TraesCS7A01G247700 chr7A 390852186 390852706 520 False 822 822 95.202 1 520 1 chr7A.!!$F1 519
3 TraesCS7A01G247700 chr7A 429479325 429479845 520 True 822 822 95.202 1 520 1 chr7A.!!$R3 519
4 TraesCS7A01G247700 chr7D 215225451 215227827 2376 True 3469 3469 93.102 521 2890 1 chr7D.!!$R1 2369
5 TraesCS7A01G247700 chr7B 185298312 185300236 1924 True 3123 3123 96.008 936 2855 1 chr7B.!!$R1 1919
6 TraesCS7A01G247700 chr2A 743185458 743185978 520 True 833 833 95.585 1 520 1 chr2A.!!$R2 519
7 TraesCS7A01G247700 chr2A 521841840 521842362 522 True 822 822 95.038 1 523 1 chr2A.!!$R1 522
8 TraesCS7A01G247700 chr6A 554877286 554877802 516 False 822 822 95.358 1 517 1 chr6A.!!$F1 516
9 TraesCS7A01G247700 chr4A 458757400 458757923 523 True 822 822 95.038 1 523 1 chr4A.!!$R1 522
10 TraesCS7A01G247700 chr1A 29687785 29688308 523 True 822 822 95.038 1 523 1 chr1A.!!$R1 522
11 TraesCS7A01G247700 chr1A 336496341 336496861 520 True 822 822 95.202 1 520 1 chr1A.!!$R2 519

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
932 960 0.179020 CCAGGCCTCACAAGTCACAA 60.179 55.0 0.00 0.0 0.0 3.33 F
1764 1792 0.462047 CTTGCTCCCATCGGTACCAC 60.462 60.0 13.54 0.0 0.0 4.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1770 1798 1.187974 CAAGCCATGGAAGGATGCAA 58.812 50.000 18.4 0.0 0.00 4.08 R
2617 2660 3.313012 TCAGTGTTGGGTCATTAGACG 57.687 47.619 0.0 0.0 45.92 4.18 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
76 77 8.196771 ACAAAAGATGTCATGCAAGTTCTTTTA 58.803 29.630 19.34 0.00 39.75 1.52
149 150 5.349817 CGAATTTGAGCTAGTTCTGTGTCAT 59.650 40.000 8.15 0.00 0.00 3.06
375 376 4.848357 ACTAAACACCTTGCTGCAGATAT 58.152 39.130 20.43 0.00 0.00 1.63
403 404 4.974645 TCTAGGTGTGGTTGAATTGACT 57.025 40.909 0.00 0.00 0.00 3.41
424 425 6.152831 TGACTACTCAGCTGCTAATACTTGAA 59.847 38.462 9.47 0.00 0.00 2.69
465 466 7.175816 TCCCTTGTGTCGAATCAATAAATTTGA 59.824 33.333 0.00 0.00 0.00 2.69
467 468 7.008628 CCTTGTGTCGAATCAATAAATTTGAGC 59.991 37.037 0.00 0.00 31.21 4.26
498 499 1.493311 CCTCGAAAGCTGTTGCGAC 59.507 57.895 0.00 0.00 38.92 5.19
507 508 0.396811 GCTGTTGCGACCCCCTATAT 59.603 55.000 0.45 0.00 0.00 0.86
519 520 4.258457 CCCCCTATATTTGTGGGTTTCA 57.742 45.455 0.00 0.00 39.31 2.69
541 542 2.427410 GCAACGCAAAGCCGACTG 60.427 61.111 0.00 0.00 0.00 3.51
582 583 1.328430 AACCGCTCTACCTAGCCACC 61.328 60.000 0.00 0.00 39.43 4.61
603 604 3.138625 CCACCCGCGACCAGATAT 58.861 61.111 8.23 0.00 0.00 1.63
606 607 2.258591 CCCGCGACCAGATATCGG 59.741 66.667 8.23 10.77 39.99 4.18
608 609 2.801162 CGCGACCAGATATCGGCG 60.801 66.667 0.00 0.00 39.99 6.46
611 612 1.440518 CGACCAGATATCGGCGTCG 60.441 63.158 21.94 21.94 40.15 5.12
612 613 1.729838 GACCAGATATCGGCGTCGC 60.730 63.158 9.22 9.22 36.13 5.19
647 649 0.814410 CACTCGCCTCGTCCTAGCTA 60.814 60.000 0.00 0.00 0.00 3.32
659 661 0.807667 CCTAGCTAGCTTGCACCACG 60.808 60.000 24.88 2.97 34.99 4.94
660 662 0.807667 CTAGCTAGCTTGCACCACGG 60.808 60.000 24.88 1.99 34.99 4.94
682 684 2.125512 GAGCTCCAACGCCGACAT 60.126 61.111 0.87 0.00 0.00 3.06
686 688 0.739813 GCTCCAACGCCGACATAAGT 60.740 55.000 0.00 0.00 0.00 2.24
699 701 4.973051 CCGACATAAGTCTTCATCTTCTCG 59.027 45.833 0.00 0.00 42.73 4.04
721 723 2.660552 CGACGCCACAACCGACTT 60.661 61.111 0.00 0.00 0.00 3.01
722 724 2.935955 GACGCCACAACCGACTTG 59.064 61.111 0.00 0.00 35.77 3.16
729 734 3.680842 ACAACCGACTTGTGTCCTC 57.319 52.632 0.00 0.00 41.87 3.71
741 746 0.816373 GTGTCCTCCTCCTTCGGTAC 59.184 60.000 0.00 0.00 0.00 3.34
744 749 1.750206 GTCCTCCTCCTTCGGTACTTC 59.250 57.143 0.00 0.00 0.00 3.01
745 750 1.112950 CCTCCTCCTTCGGTACTTCC 58.887 60.000 0.00 0.00 0.00 3.46
747 752 1.477295 CTCCTCCTTCGGTACTTCCAC 59.523 57.143 0.00 0.00 35.57 4.02
751 756 0.886563 CCTTCGGTACTTCCACGTCT 59.113 55.000 0.00 0.00 35.57 4.18
752 757 2.086869 CCTTCGGTACTTCCACGTCTA 58.913 52.381 0.00 0.00 35.57 2.59
775 780 3.733684 GCGTCAACTTTTGTTCACCATGT 60.734 43.478 0.00 0.00 41.35 3.21
781 786 7.491048 GTCAACTTTTGTTCACCATGTTGTATT 59.509 33.333 0.00 0.00 41.35 1.89
786 791 5.703978 TGTTCACCATGTTGTATTTCAGG 57.296 39.130 0.00 0.00 0.00 3.86
794 799 5.392919 CCATGTTGTATTTCAGGCAATTCGA 60.393 40.000 0.00 0.00 0.00 3.71
801 806 6.653320 TGTATTTCAGGCAATTCGAAACTACT 59.347 34.615 0.00 0.00 31.87 2.57
815 820 4.374399 GAAACTACTCGAACCTGAAACCA 58.626 43.478 0.00 0.00 0.00 3.67
819 824 4.995487 ACTACTCGAACCTGAAACCATTTC 59.005 41.667 0.00 0.00 40.08 2.17
821 826 3.146066 CTCGAACCTGAAACCATTTCCA 58.854 45.455 0.00 0.00 38.90 3.53
823 828 3.146066 CGAACCTGAAACCATTTCCAGA 58.854 45.455 0.00 0.00 38.90 3.86
834 839 9.486123 TGAAACCATTTCCAGATATCCAAATTA 57.514 29.630 0.00 0.00 38.90 1.40
851 856 9.802039 ATCCAAATTATCGGGTAGCTATTTTTA 57.198 29.630 0.00 0.00 0.00 1.52
852 857 9.802039 TCCAAATTATCGGGTAGCTATTTTTAT 57.198 29.630 0.00 0.00 0.00 1.40
884 889 8.648698 TCTCAGATGTTAATTTTGGAAATCCA 57.351 30.769 0.00 0.00 45.94 3.41
915 943 2.631160 ATCGAATTACCCGAATGCCA 57.369 45.000 0.00 0.00 39.62 4.92
916 944 1.948104 TCGAATTACCCGAATGCCAG 58.052 50.000 0.00 0.00 32.64 4.85
918 946 0.668535 GAATTACCCGAATGCCAGGC 59.331 55.000 3.66 3.66 0.00 4.85
924 952 2.046023 CGAATGCCAGGCCTCACA 60.046 61.111 9.64 3.98 0.00 3.58
925 953 1.675310 CGAATGCCAGGCCTCACAA 60.675 57.895 9.64 0.00 0.00 3.33
926 954 1.651240 CGAATGCCAGGCCTCACAAG 61.651 60.000 9.64 0.00 0.00 3.16
927 955 0.610232 GAATGCCAGGCCTCACAAGT 60.610 55.000 9.64 0.00 0.00 3.16
929 957 1.782201 ATGCCAGGCCTCACAAGTCA 61.782 55.000 9.64 0.00 0.00 3.41
930 958 1.968540 GCCAGGCCTCACAAGTCAC 60.969 63.158 0.00 0.00 0.00 3.67
931 959 1.451504 CCAGGCCTCACAAGTCACA 59.548 57.895 0.00 0.00 0.00 3.58
932 960 0.179020 CCAGGCCTCACAAGTCACAA 60.179 55.000 0.00 0.00 0.00 3.33
933 961 0.947244 CAGGCCTCACAAGTCACAAC 59.053 55.000 0.00 0.00 0.00 3.32
934 962 0.546122 AGGCCTCACAAGTCACAACA 59.454 50.000 0.00 0.00 0.00 3.33
935 963 0.663153 GGCCTCACAAGTCACAACAC 59.337 55.000 0.00 0.00 0.00 3.32
936 964 1.378531 GCCTCACAAGTCACAACACA 58.621 50.000 0.00 0.00 0.00 3.72
937 965 1.064060 GCCTCACAAGTCACAACACAC 59.936 52.381 0.00 0.00 0.00 3.82
938 966 1.327460 CCTCACAAGTCACAACACACG 59.673 52.381 0.00 0.00 0.00 4.49
939 967 1.327460 CTCACAAGTCACAACACACGG 59.673 52.381 0.00 0.00 0.00 4.94
940 968 1.066787 TCACAAGTCACAACACACGGA 60.067 47.619 0.00 0.00 0.00 4.69
941 969 1.735018 CACAAGTCACAACACACGGAA 59.265 47.619 0.00 0.00 0.00 4.30
942 970 1.735571 ACAAGTCACAACACACGGAAC 59.264 47.619 0.00 0.00 0.00 3.62
943 971 1.063469 CAAGTCACAACACACGGAACC 59.937 52.381 0.00 0.00 0.00 3.62
944 972 0.463116 AGTCACAACACACGGAACCC 60.463 55.000 0.00 0.00 0.00 4.11
945 973 0.745128 GTCACAACACACGGAACCCA 60.745 55.000 0.00 0.00 0.00 4.51
970 998 1.978580 CCACCCACTCCCCAGTATATC 59.021 57.143 0.00 0.00 0.00 1.63
971 999 2.689658 CACCCACTCCCCAGTATATCA 58.310 52.381 0.00 0.00 0.00 2.15
1258 1286 2.435059 GCCAGTTCCTCTCCGTGC 60.435 66.667 0.00 0.00 0.00 5.34
1302 1330 2.203070 GTCGCGCCCAGGAATGAT 60.203 61.111 0.00 0.00 0.00 2.45
1309 1337 0.548031 GCCCAGGAATGATGACCTCA 59.452 55.000 0.00 0.00 38.53 3.86
1455 1483 2.126424 GAAGTCGCGTTCGCCTCT 60.126 61.111 5.77 7.19 35.26 3.69
1463 1491 2.579738 GTTCGCCTCTGGACCCTC 59.420 66.667 0.00 0.00 0.00 4.30
1575 1603 0.941963 ACAGGGAGGCCTATGAGGTA 59.058 55.000 4.42 0.00 37.80 3.08
1695 1723 1.456518 AAGGGGAGGGAGAGGAGTGT 61.457 60.000 0.00 0.00 0.00 3.55
1764 1792 0.462047 CTTGCTCCCATCGGTACCAC 60.462 60.000 13.54 0.00 0.00 4.16
1770 1798 1.113517 CCCATCGGTACCACGAGGAT 61.114 60.000 13.54 2.94 46.38 3.24
1833 1861 3.043713 CGCTTTGAGCTGCCGACA 61.044 61.111 0.00 0.00 39.60 4.35
1992 2023 6.248569 AGGAAACTATACCCAGTTGTATGG 57.751 41.667 0.00 0.00 38.74 2.74
1994 2025 6.053650 GGAAACTATACCCAGTTGTATGGAC 58.946 44.000 2.19 0.00 43.57 4.02
2012 2043 7.972277 TGTATGGACGAAAACATAGAGTTAGTC 59.028 37.037 0.00 0.00 40.26 2.59
2383 2419 0.700564 ATGTGTCAGGCTGAATGGGT 59.299 50.000 20.62 1.72 0.00 4.51
2384 2420 0.478072 TGTGTCAGGCTGAATGGGTT 59.522 50.000 20.62 0.00 0.00 4.11
2385 2421 0.883833 GTGTCAGGCTGAATGGGTTG 59.116 55.000 20.62 0.00 0.00 3.77
2415 2456 4.154195 TGAGAGGCGAGAAAATTTGCTTAC 59.846 41.667 0.00 0.00 0.00 2.34
2463 2504 2.936919 TGAATGGTGGCTATGCTAGG 57.063 50.000 0.00 0.00 0.00 3.02
2480 2521 4.164843 CTAGGAGGAGTCTTAGCTGTCT 57.835 50.000 0.00 0.00 0.00 3.41
2523 2564 3.744660 AGTTACTTTGTTGGGCTCTCTG 58.255 45.455 0.00 0.00 0.00 3.35
2524 2565 3.136626 AGTTACTTTGTTGGGCTCTCTGT 59.863 43.478 0.00 0.00 0.00 3.41
2525 2566 2.262423 ACTTTGTTGGGCTCTCTGTC 57.738 50.000 0.00 0.00 0.00 3.51
2527 2568 2.173569 ACTTTGTTGGGCTCTCTGTCTT 59.826 45.455 0.00 0.00 0.00 3.01
2528 2569 3.391296 ACTTTGTTGGGCTCTCTGTCTTA 59.609 43.478 0.00 0.00 0.00 2.10
2530 2571 4.640771 TTGTTGGGCTCTCTGTCTTATT 57.359 40.909 0.00 0.00 0.00 1.40
2531 2572 4.207891 TGTTGGGCTCTCTGTCTTATTC 57.792 45.455 0.00 0.00 0.00 1.75
2612 2655 8.130671 AGTACAACCAACAGCTAGTAGAAATA 57.869 34.615 0.00 0.00 0.00 1.40
2617 2660 6.284459 ACCAACAGCTAGTAGAAATATCTGC 58.716 40.000 0.00 0.00 38.45 4.26
2636 2679 1.732259 GCGTCTAATGACCCAACACTG 59.268 52.381 0.00 0.00 39.94 3.66
2684 2727 6.499234 TGTGTCATTTCACATTGTATGAGG 57.501 37.500 1.79 0.00 42.36 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 5.775195 GGGTCCTAATGGAAATTAAGGGATG 59.225 44.000 0.00 0.00 45.18 3.51
14 15 1.133792 CAGCGGGGTCCTAATGGAAAT 60.134 52.381 0.00 0.00 45.18 2.17
76 77 7.027760 CCGAATATAGTCATACGTGCTTATGT 58.972 38.462 0.00 0.00 32.17 2.29
375 376 7.776030 TCAATTCAACCACACCTAGAAACTTAA 59.224 33.333 0.00 0.00 0.00 1.85
431 432 1.028905 CGACACAAGGGAAGCCAAAA 58.971 50.000 0.00 0.00 0.00 2.44
439 440 7.175816 TCAAATTTATTGATTCGACACAAGGGA 59.824 33.333 8.90 0.00 0.00 4.20
465 466 3.579534 TCGAGGGTAGAGTATTCAGCT 57.420 47.619 0.00 0.00 0.00 4.24
467 468 4.339814 AGCTTTCGAGGGTAGAGTATTCAG 59.660 45.833 0.00 0.00 0.00 3.02
517 518 2.844451 GCTTTGCGTTGCAGGGTGA 61.844 57.895 0.00 0.00 40.61 4.02
518 519 2.355009 GCTTTGCGTTGCAGGGTG 60.355 61.111 0.00 0.00 40.61 4.61
519 520 3.605664 GGCTTTGCGTTGCAGGGT 61.606 61.111 0.00 0.00 40.61 4.34
588 589 2.561956 CCGATATCTGGTCGCGGGT 61.562 63.158 6.13 0.00 38.40 5.28
592 593 1.729838 GACGCCGATATCTGGTCGC 60.730 63.158 19.33 13.32 37.75 5.19
594 595 1.729838 GCGACGCCGATATCTGGTC 60.730 63.158 9.14 10.10 38.22 4.02
617 618 3.357079 GCGAGTGGCACCTGGTTG 61.357 66.667 15.27 0.32 42.87 3.77
625 626 3.931190 TAGGACGAGGCGAGTGGCA 62.931 63.158 0.00 0.00 46.16 4.92
627 628 3.111939 CTAGGACGAGGCGAGTGG 58.888 66.667 0.00 0.00 0.00 4.00
629 630 0.533308 CTAGCTAGGACGAGGCGAGT 60.533 60.000 13.32 0.00 0.00 4.18
647 649 4.643387 GTCCCCGTGGTGCAAGCT 62.643 66.667 0.00 0.00 33.76 3.74
682 684 5.296035 TCGCATACGAGAAGATGAAGACTTA 59.704 40.000 0.00 0.00 45.12 2.24
699 701 2.782615 GGTTGTGGCGTCGCATAC 59.217 61.111 20.50 17.10 32.95 2.39
751 756 3.271729 TGGTGAACAAAAGTTGACGCTA 58.728 40.909 0.00 0.00 0.00 4.26
752 757 2.088423 TGGTGAACAAAAGTTGACGCT 58.912 42.857 0.00 0.00 0.00 5.07
760 765 7.169645 CCTGAAATACAACATGGTGAACAAAAG 59.830 37.037 19.90 7.88 0.00 2.27
775 780 6.325919 AGTTTCGAATTGCCTGAAATACAA 57.674 33.333 0.00 0.00 34.47 2.41
781 786 3.678072 CGAGTAGTTTCGAATTGCCTGAA 59.322 43.478 0.00 0.00 43.03 3.02
794 799 4.411256 TGGTTTCAGGTTCGAGTAGTTT 57.589 40.909 0.00 0.00 0.00 2.66
801 806 3.146066 CTGGAAATGGTTTCAGGTTCGA 58.854 45.455 4.98 0.00 41.43 3.71
808 813 7.976414 ATTTGGATATCTGGAAATGGTTTCA 57.024 32.000 2.05 0.00 41.43 2.69
815 820 7.470192 ACCCGATAATTTGGATATCTGGAAAT 58.530 34.615 2.05 2.95 36.69 2.17
819 824 5.817816 GCTACCCGATAATTTGGATATCTGG 59.182 44.000 2.05 0.00 39.02 3.86
821 826 6.875972 AGCTACCCGATAATTTGGATATCT 57.124 37.500 2.05 0.00 0.00 1.98
823 828 9.975218 AAAATAGCTACCCGATAATTTGGATAT 57.025 29.630 0.00 0.00 0.00 1.63
899 904 0.668535 GCCTGGCATTCGGGTAATTC 59.331 55.000 15.17 0.00 43.94 2.17
900 905 0.755327 GGCCTGGCATTCGGGTAATT 60.755 55.000 22.05 0.00 43.94 1.40
901 906 1.152756 GGCCTGGCATTCGGGTAAT 60.153 57.895 22.05 0.00 43.94 1.89
902 907 2.265467 GAGGCCTGGCATTCGGGTAA 62.265 60.000 22.05 0.00 43.94 2.85
915 943 0.546122 TGTTGTGACTTGTGAGGCCT 59.454 50.000 3.86 3.86 0.00 5.19
916 944 0.663153 GTGTTGTGACTTGTGAGGCC 59.337 55.000 0.00 0.00 0.00 5.19
918 946 1.327460 CGTGTGTTGTGACTTGTGAGG 59.673 52.381 0.00 0.00 0.00 3.86
924 952 1.375551 GGTTCCGTGTGTTGTGACTT 58.624 50.000 0.00 0.00 0.00 3.01
925 953 0.463116 GGGTTCCGTGTGTTGTGACT 60.463 55.000 0.00 0.00 0.00 3.41
926 954 0.745128 TGGGTTCCGTGTGTTGTGAC 60.745 55.000 0.00 0.00 0.00 3.67
927 955 0.745128 GTGGGTTCCGTGTGTTGTGA 60.745 55.000 0.00 0.00 0.00 3.58
929 957 1.452470 GGTGGGTTCCGTGTGTTGT 60.452 57.895 0.00 0.00 0.00 3.32
930 958 1.452289 TGGTGGGTTCCGTGTGTTG 60.452 57.895 0.00 0.00 0.00 3.33
931 959 1.452470 GTGGTGGGTTCCGTGTGTT 60.452 57.895 0.00 0.00 0.00 3.32
932 960 2.191109 GTGGTGGGTTCCGTGTGT 59.809 61.111 0.00 0.00 0.00 3.72
933 961 2.593436 GGTGGTGGGTTCCGTGTG 60.593 66.667 0.00 0.00 0.00 3.82
934 962 3.881104 GGGTGGTGGGTTCCGTGT 61.881 66.667 0.00 0.00 0.00 4.49
935 963 3.879885 TGGGTGGTGGGTTCCGTG 61.880 66.667 0.00 0.00 0.00 4.94
936 964 3.881104 GTGGGTGGTGGGTTCCGT 61.881 66.667 0.00 0.00 0.00 4.69
937 965 4.653888 GGTGGGTGGTGGGTTCCG 62.654 72.222 0.00 0.00 0.00 4.30
938 966 4.295199 GGGTGGGTGGTGGGTTCC 62.295 72.222 0.00 0.00 0.00 3.62
939 967 3.503839 TGGGTGGGTGGTGGGTTC 61.504 66.667 0.00 0.00 0.00 3.62
940 968 3.828023 GTGGGTGGGTGGTGGGTT 61.828 66.667 0.00 0.00 0.00 4.11
941 969 4.855230 AGTGGGTGGGTGGTGGGT 62.855 66.667 0.00 0.00 0.00 4.51
942 970 3.966543 GAGTGGGTGGGTGGTGGG 61.967 72.222 0.00 0.00 0.00 4.61
943 971 3.966543 GGAGTGGGTGGGTGGTGG 61.967 72.222 0.00 0.00 0.00 4.61
944 972 3.966543 GGGAGTGGGTGGGTGGTG 61.967 72.222 0.00 0.00 0.00 4.17
970 998 5.182001 CCTTGAGGTTTGATTACAGAGGTTG 59.818 44.000 0.00 0.00 0.00 3.77
971 999 5.073144 TCCTTGAGGTTTGATTACAGAGGTT 59.927 40.000 0.00 0.00 36.34 3.50
1083 1111 0.384669 GACGGTGAAGGAGATACGGG 59.615 60.000 0.00 0.00 0.00 5.28
1258 1286 2.811317 GTGGAAGAGGTCGCGCTG 60.811 66.667 5.56 0.00 0.00 5.18
1302 1330 1.984570 CTCGGGGAAGCTGAGGTCA 60.985 63.158 0.00 0.00 0.00 4.02
1309 1337 2.352032 CGTTCTCCTCGGGGAAGCT 61.352 63.158 5.02 0.00 41.69 3.74
1455 1483 1.411216 GGATTCTCTACCGAGGGTCCA 60.411 57.143 0.00 0.00 39.22 4.02
1575 1603 2.283529 ATCCCCAACAGCGACGAGT 61.284 57.895 0.00 0.00 0.00 4.18
1770 1798 1.187974 CAAGCCATGGAAGGATGCAA 58.812 50.000 18.40 0.00 0.00 4.08
1833 1861 2.496470 GGTCTCGTACTTGGGATTGTCT 59.504 50.000 0.00 0.00 0.00 3.41
1992 2023 4.855388 TGCGACTAACTCTATGTTTTCGTC 59.145 41.667 11.21 0.00 41.26 4.20
1994 2025 5.093457 TCTGCGACTAACTCTATGTTTTCG 58.907 41.667 0.00 0.00 41.69 3.46
2012 2043 2.917701 TGCACAAAACCATATCTGCG 57.082 45.000 0.00 0.00 0.00 5.18
2062 2093 4.142622 CCTTGCAGCATCGAAATAACAGAA 60.143 41.667 0.00 0.00 0.00 3.02
2148 2181 5.404946 CATCTACAAAATTTCCCAGCACAG 58.595 41.667 0.00 0.00 0.00 3.66
2383 2419 8.506168 AATTTTCTCGCCTCTCAATATAACAA 57.494 30.769 0.00 0.00 0.00 2.83
2384 2420 8.397906 CAAATTTTCTCGCCTCTCAATATAACA 58.602 33.333 0.00 0.00 0.00 2.41
2385 2421 7.377131 GCAAATTTTCTCGCCTCTCAATATAAC 59.623 37.037 0.00 0.00 0.00 1.89
2463 2504 2.729194 TCCAGACAGCTAAGACTCCTC 58.271 52.381 0.00 0.00 0.00 3.71
2479 2520 3.904136 AGTTTCAACGAAGCATTCCAG 57.096 42.857 0.00 0.00 43.81 3.86
2480 2521 6.170506 ACTATAGTTTCAACGAAGCATTCCA 58.829 36.000 0.00 0.00 43.81 3.53
2617 2660 3.313012 TCAGTGTTGGGTCATTAGACG 57.687 47.619 0.00 0.00 45.92 4.18
2636 2679 5.063880 AGGTCAATACTTGTGTTCAGGTTC 58.936 41.667 0.00 0.00 35.54 3.62


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

AutoCloner maintained by Alex Coulton.