Multiple sequence alignment - TraesCS7A01G049900

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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 TraesCS7A01G049900 chr7A 100.000 3445 0 0 1 3445 23196666 23200110 0.000000e+00 6362.0
1 TraesCS7A01G049900 chr7A 83.431 1364 188 23 986 2321 23151054 23152407 0.000000e+00 1232.0
2 TraesCS7A01G049900 chr7A 77.107 961 168 37 931 1851 23121468 23122416 3.070000e-140 508.0
3 TraesCS7A01G049900 chr7A 79.966 584 79 21 995 1550 23251892 23252465 2.490000e-106 396.0
4 TraesCS7A01G049900 chr7A 82.456 342 47 9 2337 2678 23146968 23147296 1.560000e-73 287.0
5 TraesCS7A01G049900 chr7A 83.618 293 38 8 2333 2622 23155220 23155505 2.040000e-67 267.0
6 TraesCS7A01G049900 chr7A 72.403 308 65 15 1015 1318 94294732 94295023 2.850000e-11 80.5
7 TraesCS7A01G049900 chr4A 83.800 1716 200 44 996 2678 705694235 705695905 0.000000e+00 1557.0
8 TraesCS7A01G049900 chr4A 82.872 1699 173 49 930 2596 705639129 705640741 0.000000e+00 1417.0
9 TraesCS7A01G049900 chr4A 79.972 1423 205 50 946 2326 705551821 705550437 0.000000e+00 976.0
10 TraesCS7A01G049900 chr4A 90.672 729 52 5 2682 3397 705641598 705642323 0.000000e+00 955.0
11 TraesCS7A01G049900 chr4A 86.963 675 57 17 98 753 705705668 705706330 0.000000e+00 730.0
12 TraesCS7A01G049900 chr4A 88.730 488 50 5 2193 2678 705713816 705714300 2.960000e-165 592.0
13 TraesCS7A01G049900 chr4A 81.221 426 57 12 2254 2678 705550385 705549982 4.290000e-84 322.0
14 TraesCS7A01G049900 chr4A 86.697 218 20 7 971 1183 616609478 616609265 2.070000e-57 233.0
15 TraesCS7A01G049900 chr4A 79.202 351 40 19 3053 3397 705611281 705610958 2.690000e-51 213.0
16 TraesCS7A01G049900 chr4A 86.957 115 9 6 3174 3287 705640656 705640765 1.300000e-24 124.0
17 TraesCS7A01G049900 chr4A 98.182 55 1 0 3391 3445 77538766 77538712 2.830000e-16 97.1
18 TraesCS7A01G049900 chr4A 96.364 55 2 0 3391 3445 526586051 526585997 1.320000e-14 91.6
19 TraesCS7A01G049900 chr4A 84.270 89 13 1 1 88 705638278 705638366 6.130000e-13 86.1
20 TraesCS7A01G049900 chr7D 82.531 1786 187 56 932 2682 22654524 22656219 0.000000e+00 1454.0
21 TraesCS7A01G049900 chr7D 87.737 579 55 8 2682 3259 22657771 22658334 0.000000e+00 662.0
22 TraesCS7A01G049900 chr7D 82.448 678 102 8 1505 2173 22672658 22673327 8.290000e-161 577.0
23 TraesCS7A01G049900 chr7D 83.761 351 46 8 3050 3397 22674017 22674359 4.290000e-84 322.0
24 TraesCS7A01G049900 chr7D 85.083 181 19 8 3171 3348 22656044 22656219 9.820000e-41 178.0
25 TraesCS7A01G049900 chr7D 86.335 161 17 3 2431 2591 22658179 22658334 1.640000e-38 171.0
26 TraesCS7A01G049900 chr7D 88.506 87 9 1 1398 1484 22671080 22671165 1.690000e-18 104.0
27 TraesCS7A01G049900 chr7D 82.609 92 14 2 192 282 135250105 135250195 2.850000e-11 80.5
28 TraesCS7A01G049900 chr5B 75.690 761 139 33 1421 2159 685322649 685321913 4.260000e-89 339.0
29 TraesCS7A01G049900 chr5B 86.239 218 21 7 971 1183 700039474 700039687 9.620000e-56 228.0
30 TraesCS7A01G049900 chr5B 71.978 728 174 24 1410 2124 703634550 703635260 1.630000e-43 187.0
31 TraesCS7A01G049900 chr6A 96.364 55 2 0 3391 3445 101615101 101615047 1.320000e-14 91.6
32 TraesCS7A01G049900 chr6A 96.364 55 2 0 3391 3445 245618511 245618457 1.320000e-14 91.6
33 TraesCS7A01G049900 chr6A 96.364 55 2 0 3391 3445 372223052 372223106 1.320000e-14 91.6
34 TraesCS7A01G049900 chr6A 96.364 55 2 0 3391 3445 469128636 469128690 1.320000e-14 91.6
35 TraesCS7A01G049900 chr3A 96.364 55 2 0 3391 3445 98268249 98268303 1.320000e-14 91.6
36 TraesCS7A01G049900 chr1A 96.364 55 2 0 3391 3445 90653746 90653800 1.320000e-14 91.6
37 TraesCS7A01G049900 chr1A 96.364 55 2 0 3391 3445 236907008 236906954 1.320000e-14 91.6


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 TraesCS7A01G049900 chr7A 23196666 23200110 3444 False 6362.000000 6362 100.000000 1 3445 1 chr7A.!!$F2 3444
1 TraesCS7A01G049900 chr7A 23146968 23155505 8537 False 595.333333 1232 83.168333 986 2678 3 chr7A.!!$F5 1692
2 TraesCS7A01G049900 chr7A 23121468 23122416 948 False 508.000000 508 77.107000 931 1851 1 chr7A.!!$F1 920
3 TraesCS7A01G049900 chr7A 23251892 23252465 573 False 396.000000 396 79.966000 995 1550 1 chr7A.!!$F3 555
4 TraesCS7A01G049900 chr4A 705694235 705695905 1670 False 1557.000000 1557 83.800000 996 2678 1 chr4A.!!$F1 1682
5 TraesCS7A01G049900 chr4A 705705668 705706330 662 False 730.000000 730 86.963000 98 753 1 chr4A.!!$F2 655
6 TraesCS7A01G049900 chr4A 705549982 705551821 1839 True 649.000000 976 80.596500 946 2678 2 chr4A.!!$R5 1732
7 TraesCS7A01G049900 chr4A 705638278 705642323 4045 False 645.525000 1417 86.192750 1 3397 4 chr4A.!!$F4 3396
8 TraesCS7A01G049900 chr7D 22654524 22658334 3810 False 616.250000 1454 85.421500 932 3348 4 chr7D.!!$F2 2416
9 TraesCS7A01G049900 chr7D 22671080 22674359 3279 False 334.333333 577 84.905000 1398 3397 3 chr7D.!!$F3 1999
10 TraesCS7A01G049900 chr5B 685321913 685322649 736 True 339.000000 339 75.690000 1421 2159 1 chr5B.!!$R1 738

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
911 1027 0.108567 GACTCGAACCCCAAGAGAGC 60.109 60.0 0.0 0.0 36.03 4.09 F
1345 4474 0.106149 CTATTGTACCCCGGTGCTCC 59.894 60.0 0.0 0.0 0.00 4.70 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2418 10524 0.098200 TACTCGACCGTGCATTCTCG 59.902 55.0 0.0 0.0 0.00 4.04 R
3077 12748 0.522626 CGTGCATTCTCAATGTGCCA 59.477 50.0 0.0 0.0 41.01 4.92 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
58 60 7.918076 AGGTAAATCATCAGAAGTTCCTGTAA 58.082 34.615 0.00 0.00 35.71 2.41
88 90 8.734218 TTGACACTTTGTATGGTTACTTTGTA 57.266 30.769 0.00 0.00 0.00 2.41
89 91 8.911918 TGACACTTTGTATGGTTACTTTGTAT 57.088 30.769 0.00 0.00 0.00 2.29
90 92 8.779303 TGACACTTTGTATGGTTACTTTGTATG 58.221 33.333 0.00 0.00 0.00 2.39
91 93 8.911918 ACACTTTGTATGGTTACTTTGTATGA 57.088 30.769 0.00 0.00 0.00 2.15
133 219 7.039993 TGCTTTTAAACCTCATAGTTTCCCTTC 60.040 37.037 0.00 0.00 40.38 3.46
183 269 2.869801 TCGGTTTGTAAGTGAAGCACAG 59.130 45.455 0.00 0.00 36.74 3.66
245 336 2.132303 TAGGGGCCATACCATGACAT 57.868 50.000 4.39 0.00 42.05 3.06
261 355 6.070653 ACCATGACATTATGCCAAGTTTCATT 60.071 34.615 0.00 0.00 0.00 2.57
262 356 7.123997 ACCATGACATTATGCCAAGTTTCATTA 59.876 33.333 0.00 0.00 0.00 1.90
418 521 7.969690 TCAAATATTGTACCATGAACCCAAT 57.030 32.000 0.00 0.00 0.00 3.16
429 532 5.309282 ACCATGAACCCAATAAAACATTGGT 59.691 36.000 13.48 0.00 45.32 3.67
449 552 8.717821 CATTGGTCGATAACTCTAACAGAAAAA 58.282 33.333 0.00 0.00 0.00 1.94
477 581 7.086230 ACTAAACACCACGAAAACACAATTA 57.914 32.000 0.00 0.00 0.00 1.40
541 655 9.632807 AAAAACGCTTGCACTGATAAAATATTA 57.367 25.926 0.00 0.00 0.00 0.98
577 691 2.489938 TTTGGGCTAACAGCTACTGG 57.510 50.000 0.00 0.00 41.99 4.00
578 692 0.618458 TTGGGCTAACAGCTACTGGG 59.382 55.000 0.00 0.00 41.99 4.45
630 744 1.529152 CCCAAACGTTGCCCTAACCC 61.529 60.000 0.00 0.00 35.84 4.11
632 746 0.538746 CAAACGTTGCCCTAACCCCT 60.539 55.000 0.00 0.00 35.84 4.79
633 747 0.251033 AAACGTTGCCCTAACCCCTC 60.251 55.000 0.00 0.00 35.84 4.30
652 766 2.362717 CTCCCGTATCTCACTTTCTCCC 59.637 54.545 0.00 0.00 0.00 4.30
769 885 4.560856 CGGCGCCCTCTCTCTTCG 62.561 72.222 23.46 0.00 0.00 3.79
773 889 4.214327 GCCCTCTCTCTTCGCCGG 62.214 72.222 0.00 0.00 0.00 6.13
775 891 4.214327 CCTCTCTCTTCGCCGGCC 62.214 72.222 23.46 2.84 0.00 6.13
776 892 3.452786 CTCTCTCTTCGCCGGCCA 61.453 66.667 23.46 4.67 0.00 5.36
777 893 2.759973 TCTCTCTTCGCCGGCCAT 60.760 61.111 23.46 0.00 0.00 4.40
778 894 2.187946 CTCTCTTCGCCGGCCATT 59.812 61.111 23.46 0.00 0.00 3.16
779 895 1.040893 TCTCTCTTCGCCGGCCATTA 61.041 55.000 23.46 3.11 0.00 1.90
781 897 1.144057 CTCTTCGCCGGCCATTACT 59.856 57.895 23.46 0.00 0.00 2.24
784 900 1.202486 TCTTCGCCGGCCATTACTTAG 60.202 52.381 23.46 0.47 0.00 2.18
786 902 1.227556 CGCCGGCCATTACTTAGCT 60.228 57.895 23.46 0.00 0.00 3.32
787 903 1.498865 CGCCGGCCATTACTTAGCTG 61.499 60.000 23.46 0.00 0.00 4.24
788 904 0.179056 GCCGGCCATTACTTAGCTGA 60.179 55.000 18.11 0.00 34.73 4.26
789 905 1.543429 GCCGGCCATTACTTAGCTGAT 60.543 52.381 18.11 0.00 34.73 2.90
790 906 2.851195 CCGGCCATTACTTAGCTGATT 58.149 47.619 2.24 0.00 34.73 2.57
794 910 4.455606 GGCCATTACTTAGCTGATTGTCT 58.544 43.478 0.00 0.00 0.00 3.41
797 913 5.007136 GCCATTACTTAGCTGATTGTCTGAC 59.993 44.000 0.00 0.00 0.00 3.51
798 914 6.344500 CCATTACTTAGCTGATTGTCTGACT 58.656 40.000 9.51 0.00 0.00 3.41
799 915 6.478344 CCATTACTTAGCTGATTGTCTGACTC 59.522 42.308 9.51 0.00 0.00 3.36
801 917 3.759086 ACTTAGCTGATTGTCTGACTCGA 59.241 43.478 9.51 0.00 0.00 4.04
804 920 1.996191 GCTGATTGTCTGACTCGAACC 59.004 52.381 9.51 0.00 0.00 3.62
805 921 2.611518 CTGATTGTCTGACTCGAACCC 58.388 52.381 9.51 0.00 0.00 4.11
806 922 1.067846 TGATTGTCTGACTCGAACCCG 60.068 52.381 9.51 0.00 37.07 5.28
807 923 1.201647 GATTGTCTGACTCGAACCCGA 59.798 52.381 9.51 0.00 43.35 5.14
808 924 1.034356 TTGTCTGACTCGAACCCGAA 58.966 50.000 9.51 0.00 45.04 4.30
809 925 0.596577 TGTCTGACTCGAACCCGAAG 59.403 55.000 9.51 0.00 45.04 3.79
811 927 1.135632 GTCTGACTCGAACCCGAAGAG 60.136 57.143 0.00 0.00 45.04 2.85
812 928 1.166129 CTGACTCGAACCCGAAGAGA 58.834 55.000 0.00 0.00 45.04 3.10
813 929 1.131504 CTGACTCGAACCCGAAGAGAG 59.868 57.143 0.00 0.00 45.04 3.20
814 930 0.452585 GACTCGAACCCGAAGAGAGG 59.547 60.000 0.00 0.00 45.04 3.69
818 934 1.878656 CGAACCCGAAGAGAGGCACT 61.879 60.000 0.00 0.00 39.31 4.40
820 936 2.125350 CCCGAAGAGAGGCACTGC 60.125 66.667 0.00 0.00 41.55 4.40
838 954 1.522569 CCCACGTCTCAATCCCCTC 59.477 63.158 0.00 0.00 0.00 4.30
845 961 0.397254 TCTCAATCCCCTCCGTCCTC 60.397 60.000 0.00 0.00 0.00 3.71
846 962 1.739338 CTCAATCCCCTCCGTCCTCG 61.739 65.000 0.00 0.00 0.00 4.63
847 963 3.155167 AATCCCCTCCGTCCTCGC 61.155 66.667 0.00 0.00 35.54 5.03
852 968 3.967335 CCTCCGTCCTCGCCGATC 61.967 72.222 0.00 0.00 35.54 3.69
853 969 3.967335 CTCCGTCCTCGCCGATCC 61.967 72.222 0.00 0.00 35.54 3.36
857 973 3.607661 GTCCTCGCCGATCCCCTC 61.608 72.222 0.00 0.00 0.00 4.30
858 974 4.916314 TCCTCGCCGATCCCCTCC 62.916 72.222 0.00 0.00 0.00 4.30
859 975 4.924187 CCTCGCCGATCCCCTCCT 62.924 72.222 0.00 0.00 0.00 3.69
861 977 2.838225 TCGCCGATCCCCTCCTTC 60.838 66.667 0.00 0.00 0.00 3.46
862 978 3.930012 CGCCGATCCCCTCCTTCC 61.930 72.222 0.00 0.00 0.00 3.46
864 980 2.512355 GCCGATCCCCTCCTTCCTC 61.512 68.421 0.00 0.00 0.00 3.71
868 984 4.798682 TCCCCTCCTTCCTCCGCC 62.799 72.222 0.00 0.00 0.00 6.13
876 992 3.084646 TTCCTCCGCCCGCCATTA 61.085 61.111 0.00 0.00 0.00 1.90
877 993 3.394635 TTCCTCCGCCCGCCATTAC 62.395 63.158 0.00 0.00 0.00 1.89
878 994 3.861797 CCTCCGCCCGCCATTACT 61.862 66.667 0.00 0.00 0.00 2.24
879 995 2.189521 CTCCGCCCGCCATTACTT 59.810 61.111 0.00 0.00 0.00 2.24
880 996 1.444250 CTCCGCCCGCCATTACTTA 59.556 57.895 0.00 0.00 0.00 2.24
881 997 0.600255 CTCCGCCCGCCATTACTTAG 60.600 60.000 0.00 0.00 0.00 2.18
882 998 2.251642 CCGCCCGCCATTACTTAGC 61.252 63.158 0.00 0.00 0.00 3.09
883 999 1.227556 CGCCCGCCATTACTTAGCT 60.228 57.895 0.00 0.00 0.00 3.32
884 1000 1.498865 CGCCCGCCATTACTTAGCTG 61.499 60.000 0.00 0.00 0.00 4.24
885 1001 0.179056 GCCCGCCATTACTTAGCTGA 60.179 55.000 0.00 0.00 0.00 4.26
886 1002 1.871080 CCCGCCATTACTTAGCTGAG 58.129 55.000 3.53 3.53 0.00 3.35
887 1003 1.139058 CCCGCCATTACTTAGCTGAGT 59.861 52.381 16.17 16.17 0.00 3.41
888 1004 2.205074 CCGCCATTACTTAGCTGAGTG 58.795 52.381 20.67 5.44 0.00 3.51
890 1006 2.860735 CGCCATTACTTAGCTGAGTGTC 59.139 50.000 20.67 4.77 0.00 3.67
891 1007 3.429547 CGCCATTACTTAGCTGAGTGTCT 60.430 47.826 20.67 2.83 0.00 3.41
893 1009 4.382040 GCCATTACTTAGCTGAGTGTCTGA 60.382 45.833 20.67 0.00 0.00 3.27
894 1010 5.105752 CCATTACTTAGCTGAGTGTCTGAC 58.894 45.833 20.67 0.00 0.00 3.51
895 1011 5.105554 CCATTACTTAGCTGAGTGTCTGACT 60.106 44.000 20.67 0.00 37.76 3.41
902 1018 3.796667 GAGTGTCTGACTCGAACCC 57.203 57.895 9.51 0.00 41.91 4.11
903 1019 0.244178 GAGTGTCTGACTCGAACCCC 59.756 60.000 9.51 0.00 41.91 4.95
904 1020 0.469331 AGTGTCTGACTCGAACCCCA 60.469 55.000 9.51 0.00 0.00 4.96
905 1021 0.391597 GTGTCTGACTCGAACCCCAA 59.608 55.000 9.51 0.00 0.00 4.12
906 1022 0.679505 TGTCTGACTCGAACCCCAAG 59.320 55.000 9.51 0.00 0.00 3.61
907 1023 0.966920 GTCTGACTCGAACCCCAAGA 59.033 55.000 0.00 0.00 0.00 3.02
908 1024 1.067495 GTCTGACTCGAACCCCAAGAG 60.067 57.143 0.00 0.00 37.96 2.85
909 1025 1.203013 TCTGACTCGAACCCCAAGAGA 60.203 52.381 0.00 0.00 36.03 3.10
911 1027 0.108567 GACTCGAACCCCAAGAGAGC 60.109 60.000 0.00 0.00 36.03 4.09
912 1028 1.219393 CTCGAACCCCAAGAGAGCC 59.781 63.158 0.00 0.00 34.13 4.70
913 1029 1.535444 TCGAACCCCAAGAGAGCCA 60.535 57.895 0.00 0.00 0.00 4.75
914 1030 1.376037 CGAACCCCAAGAGAGCCAC 60.376 63.158 0.00 0.00 0.00 5.01
917 1033 2.045536 CCCCAAGAGAGCCACTGC 60.046 66.667 0.00 0.00 37.95 4.40
918 1034 2.045536 CCCAAGAGAGCCACTGCC 60.046 66.667 0.00 0.00 38.69 4.85
919 1035 2.045536 CCAAGAGAGCCACTGCCC 60.046 66.667 0.00 0.00 38.69 5.36
920 1036 2.752358 CAAGAGAGCCACTGCCCA 59.248 61.111 0.00 0.00 38.69 5.36
922 1038 3.245668 AAGAGAGCCACTGCCCACG 62.246 63.158 0.00 0.00 38.69 4.94
923 1039 4.008933 GAGAGCCACTGCCCACGT 62.009 66.667 0.00 0.00 38.69 4.49
924 1040 3.941657 GAGAGCCACTGCCCACGTC 62.942 68.421 0.00 0.00 38.69 4.34
926 1042 3.941657 GAGCCACTGCCCACGTCTC 62.942 68.421 0.00 0.00 38.69 3.36
927 1043 4.314440 GCCACTGCCCACGTCTCA 62.314 66.667 0.00 0.00 0.00 3.27
928 1044 2.425592 CCACTGCCCACGTCTCAA 59.574 61.111 0.00 0.00 0.00 3.02
963 1079 0.182775 CCAAACTATTCCCCTCCCGG 59.817 60.000 0.00 0.00 0.00 5.73
1318 4441 1.072505 GGCCGTGTTCTTCTTGGGA 59.927 57.895 0.00 0.00 0.00 4.37
1320 4443 0.591659 GCCGTGTTCTTCTTGGGAAC 59.408 55.000 0.00 0.00 42.17 3.62
1345 4474 0.106149 CTATTGTACCCCGGTGCTCC 59.894 60.000 0.00 0.00 0.00 4.70
1347 4476 1.205460 ATTGTACCCCGGTGCTCCTT 61.205 55.000 0.00 0.00 0.00 3.36
1394 4523 2.266055 GGAGCTGGACGGGTCTTG 59.734 66.667 9.87 0.00 34.55 3.02
1398 4527 2.328099 GCTGGACGGGTCTTGCTTG 61.328 63.158 0.00 0.00 0.00 4.01
1601 6262 1.142748 GGTCTGAGTGGGATGAGCG 59.857 63.158 0.00 0.00 0.00 5.03
1673 6334 1.213013 CCTCTGTCCTCGTCAACGG 59.787 63.158 2.31 0.00 40.29 4.44
1699 6360 0.320374 TCACTTCCTGCTTGGGTACG 59.680 55.000 0.00 0.00 36.20 3.67
1778 6439 1.585267 TTGATTGATGCGCCGCTTGT 61.585 50.000 11.67 0.00 0.00 3.16
1799 6472 4.873259 TGTCGAGTCTGTTGTTTTTCATGA 59.127 37.500 0.00 0.00 0.00 3.07
1806 6479 6.207417 AGTCTGTTGTTTTTCATGACCCTATG 59.793 38.462 0.00 0.00 0.00 2.23
1846 6519 1.873486 GCACTTTGGGGTTTGCACATC 60.873 52.381 0.00 0.00 34.97 3.06
1860 6536 4.032960 TGCACATCTGGACAGGTTAATT 57.967 40.909 0.00 0.00 0.00 1.40
1869 6545 5.479375 TCTGGACAGGTTAATTCTCTACGTT 59.521 40.000 0.00 0.00 0.00 3.99
1879 6555 4.884668 ATTCTCTACGTTTGGTCCAGAA 57.115 40.909 0.00 0.00 33.36 3.02
1902 6578 1.048601 TAGATTCCGATGGAGGTGCC 58.951 55.000 0.00 0.00 31.21 5.01
1909 6585 1.150081 GATGGAGGTGCCTCATGGG 59.850 63.158 18.75 0.00 44.40 4.00
1919 6595 1.144057 CCTCATGGGCTCGTGGTAC 59.856 63.158 5.82 0.00 0.00 3.34
1927 6603 2.087009 GCTCGTGGTACAGTCGTGC 61.087 63.158 12.08 12.08 41.80 5.34
1936 6612 2.352814 GGTACAGTCGTGCATCTCAAGT 60.353 50.000 0.00 0.00 0.00 3.16
1950 6626 2.768527 TCTCAAGTGCCTTCTCCCTATG 59.231 50.000 0.00 0.00 0.00 2.23
1951 6627 1.839994 TCAAGTGCCTTCTCCCTATGG 59.160 52.381 0.00 0.00 0.00 2.74
1954 6630 2.122768 AGTGCCTTCTCCCTATGGAAG 58.877 52.381 0.00 0.00 41.17 3.46
1965 6641 2.039613 CCCTATGGAAGATCCCAAGAGC 59.960 54.545 0.00 0.00 40.04 4.09
1967 6643 1.500474 ATGGAAGATCCCAAGAGCGA 58.500 50.000 0.00 0.00 40.04 4.93
1983 6659 3.322254 AGAGCGAACCTATACTGATTGGG 59.678 47.826 0.00 0.00 32.68 4.12
2035 6711 0.527817 CACGGATCTTGGCGTCTACC 60.528 60.000 0.00 0.00 0.00 3.18
2164 6844 8.464404 TGCCTTTCTTCTTTTATGATTCATGAG 58.536 33.333 9.46 5.09 0.00 2.90
2177 6857 6.225981 TGATTCATGAGCAACTCTTAGCTA 57.774 37.500 0.00 0.00 42.04 3.32
2178 6858 6.279123 TGATTCATGAGCAACTCTTAGCTAG 58.721 40.000 0.00 0.00 42.04 3.42
2179 6859 4.052159 TCATGAGCAACTCTTAGCTAGC 57.948 45.455 6.62 6.62 42.04 3.42
2180 6860 3.703556 TCATGAGCAACTCTTAGCTAGCT 59.296 43.478 23.12 23.12 42.04 3.32
2259 7553 9.857957 ATTGAAAATTGTGTTTGAAATTTGCTT 57.142 22.222 0.00 0.00 36.40 3.91
2432 10538 1.443872 ACGTCGAGAATGCACGGTC 60.444 57.895 0.00 0.00 37.86 4.79
2465 10571 6.286240 TGATGCTACTACTCATCAACAAGT 57.714 37.500 2.79 0.00 44.08 3.16
2469 10575 6.090783 TGCTACTACTCATCAACAAGTAACG 58.909 40.000 0.00 0.00 0.00 3.18
2489 10595 1.406539 GTGGCAACTTGGAGGCATATG 59.593 52.381 0.00 0.00 42.48 1.78
2500 10606 2.880890 GGAGGCATATGGTGTGATGAAC 59.119 50.000 4.56 0.00 0.00 3.18
2520 10626 9.465985 GATGAACTATTTCACTACTTAGTAGCC 57.534 37.037 18.29 0.00 44.66 3.93
2525 10631 8.823794 ACTATTTCACTACTTAGTAGCCCTTTT 58.176 33.333 18.29 3.57 39.51 2.27
2584 10690 4.647424 TGGCTTTTGTCTGTTAGTTTGG 57.353 40.909 0.00 0.00 0.00 3.28
2592 10698 3.630312 TGTCTGTTAGTTTGGCAGTTTCC 59.370 43.478 0.00 0.00 0.00 3.13
2596 10702 0.891904 TAGTTTGGCAGTTTCCCCGC 60.892 55.000 0.00 0.00 0.00 6.13
2597 10703 2.123683 TTTGGCAGTTTCCCCGCA 60.124 55.556 0.00 0.00 0.00 5.69
2603 10709 1.794222 CAGTTTCCCCGCATCGTTC 59.206 57.895 0.00 0.00 0.00 3.95
2604 10710 1.740296 AGTTTCCCCGCATCGTTCG 60.740 57.895 0.00 0.00 0.00 3.95
2605 10711 3.122323 TTTCCCCGCATCGTTCGC 61.122 61.111 0.00 0.00 0.00 4.70
2622 10730 1.227999 CGCGTGTCAGTGGGTGAATT 61.228 55.000 0.00 0.00 36.74 2.17
2623 10731 1.803334 GCGTGTCAGTGGGTGAATTA 58.197 50.000 0.00 0.00 36.74 1.40
2625 10733 2.095919 GCGTGTCAGTGGGTGAATTAAC 60.096 50.000 0.00 0.00 36.74 2.01
2636 10744 7.495934 CAGTGGGTGAATTAACTATCTTGTAGG 59.504 40.741 0.00 0.00 0.00 3.18
2637 10745 6.766467 GTGGGTGAATTAACTATCTTGTAGGG 59.234 42.308 0.00 0.00 0.00 3.53
2640 10748 8.050930 GGGTGAATTAACTATCTTGTAGGGAAA 58.949 37.037 0.00 0.00 0.00 3.13
2642 10750 9.444600 GTGAATTAACTATCTTGTAGGGAAACA 57.555 33.333 0.00 0.00 0.00 2.83
2657 10765 8.250332 TGTAGGGAAACATTAATTTCTTGCATC 58.750 33.333 0.00 0.00 38.43 3.91
2671 10779 0.880441 TGCATCCATGTGAACCGTTG 59.120 50.000 0.00 0.00 0.00 4.10
2675 10783 3.057876 GCATCCATGTGAACCGTTGTTAA 60.058 43.478 0.00 0.00 33.97 2.01
2677 10785 5.708948 CATCCATGTGAACCGTTGTTAAAT 58.291 37.500 0.00 0.00 33.97 1.40
2678 10786 6.623986 GCATCCATGTGAACCGTTGTTAAATA 60.624 38.462 0.00 0.00 33.97 1.40
2755 12414 2.412323 ATCTGGCATGTGCTTGCGG 61.412 57.895 4.84 0.00 43.71 5.69
2808 12467 5.540337 TCAGGTGACTTAGAAATCTGACTGT 59.460 40.000 0.00 0.00 40.21 3.55
2815 12474 7.872993 TGACTTAGAAATCTGACTGTGGTTTAG 59.127 37.037 0.00 0.00 0.00 1.85
2817 12476 5.234466 AGAAATCTGACTGTGGTTTAGCT 57.766 39.130 0.00 0.00 0.00 3.32
2820 12479 3.026630 TCTGACTGTGGTTTAGCTTCG 57.973 47.619 0.00 0.00 0.00 3.79
2825 12484 4.201871 TGACTGTGGTTTAGCTTCGTTTTG 60.202 41.667 0.00 0.00 0.00 2.44
2848 12507 9.950680 TTTGTAAAAGAGAAATGTGATTCTGAC 57.049 29.630 0.00 0.00 39.70 3.51
2903 12562 0.892755 TGGTGTCGAGCGGTTAATCT 59.107 50.000 0.00 0.00 0.00 2.40
2917 12584 2.681344 GTTAATCTTGGCCACCGGTTAG 59.319 50.000 3.88 0.00 0.00 2.34
2925 12592 1.472188 GCCACCGGTTAGACTAGACT 58.528 55.000 2.97 0.00 0.00 3.24
2945 12615 3.803778 ACTAGTTGGTTTTAACGTCGGTG 59.196 43.478 0.00 0.00 35.73 4.94
2946 12616 1.941975 AGTTGGTTTTAACGTCGGTGG 59.058 47.619 0.00 0.00 35.73 4.61
2947 12617 1.670295 GTTGGTTTTAACGTCGGTGGT 59.330 47.619 0.00 0.00 0.00 4.16
2977 12647 3.057734 CGCTTATATTCCGGGAAGTGTC 58.942 50.000 15.72 1.73 0.00 3.67
2990 12660 3.938963 GGGAAGTGTCGCTTTATTCATCA 59.061 43.478 0.00 0.00 37.59 3.07
2994 12664 3.620374 AGTGTCGCTTTATTCATCAGCAG 59.380 43.478 0.00 0.00 32.71 4.24
3126 12797 8.503458 AGTATGCTGGATGCTATTCATAAATC 57.497 34.615 0.00 0.00 43.37 2.17
3135 12806 8.946085 GGATGCTATTCATAAATCGGAAACATA 58.054 33.333 0.00 0.00 35.05 2.29
3152 12823 5.897377 AACATAACAACTTGGAGGCATAC 57.103 39.130 0.00 0.00 0.00 2.39
3191 12862 5.579904 TGTCAGTACTTAGTACGTAGCTCTG 59.420 44.000 15.73 7.85 43.05 3.35
3240 12913 7.994425 TTCTCATATTAGTGTTGGCTTTTGA 57.006 32.000 0.00 0.00 0.00 2.69
3241 12914 7.994425 TCTCATATTAGTGTTGGCTTTTGAA 57.006 32.000 0.00 0.00 0.00 2.69
3242 12915 8.402798 TCTCATATTAGTGTTGGCTTTTGAAA 57.597 30.769 0.00 0.00 0.00 2.69
3280 12953 1.393539 CCCGTCTCGTTGTTTGCATAG 59.606 52.381 0.00 0.00 0.00 2.23
3287 12961 1.068610 CGTTGTTTGCATAGGTGGTGG 60.069 52.381 0.00 0.00 0.00 4.61
3305 12979 6.357367 GTGGTGGATGGATTATCTTGTAGTT 58.643 40.000 0.00 0.00 36.03 2.24
3307 12981 8.157476 GTGGTGGATGGATTATCTTGTAGTTAT 58.843 37.037 0.00 0.00 36.03 1.89
3398 13077 9.434420 TTCTACAATTTGCTATCCCAATTTTTG 57.566 29.630 0.00 0.00 0.00 2.44
3411 13090 3.981211 CAATTTTTGGGTCTGTGAGTGG 58.019 45.455 0.00 0.00 0.00 4.00
3412 13091 3.593442 ATTTTTGGGTCTGTGAGTGGA 57.407 42.857 0.00 0.00 0.00 4.02
3413 13092 2.341846 TTTTGGGTCTGTGAGTGGAC 57.658 50.000 0.00 0.00 0.00 4.02
3414 13093 1.208706 TTTGGGTCTGTGAGTGGACA 58.791 50.000 0.00 0.00 34.49 4.02
3415 13094 1.434188 TTGGGTCTGTGAGTGGACAT 58.566 50.000 0.00 0.00 34.49 3.06
3416 13095 2.319025 TGGGTCTGTGAGTGGACATA 57.681 50.000 0.00 0.00 34.49 2.29
3417 13096 2.615391 TGGGTCTGTGAGTGGACATAA 58.385 47.619 0.00 0.00 34.49 1.90
3418 13097 2.301870 TGGGTCTGTGAGTGGACATAAC 59.698 50.000 0.00 0.00 34.49 1.89
3419 13098 2.301870 GGGTCTGTGAGTGGACATAACA 59.698 50.000 0.00 0.00 34.49 2.41
3420 13099 3.589988 GGTCTGTGAGTGGACATAACAG 58.410 50.000 0.00 0.00 39.66 3.16
3421 13100 3.006967 GGTCTGTGAGTGGACATAACAGT 59.993 47.826 0.00 0.00 39.39 3.55
3422 13101 4.219944 GGTCTGTGAGTGGACATAACAGTA 59.780 45.833 0.00 0.00 39.39 2.74
3423 13102 5.162075 GTCTGTGAGTGGACATAACAGTAC 58.838 45.833 0.00 0.00 39.39 2.73
3424 13103 4.830600 TCTGTGAGTGGACATAACAGTACA 59.169 41.667 0.00 0.00 39.39 2.90
3436 13115 3.986970 CAGTACACTGTGCTGTCCA 57.013 52.632 16.79 0.00 40.45 4.02
3437 13116 2.462456 CAGTACACTGTGCTGTCCAT 57.538 50.000 16.79 0.00 40.45 3.41
3438 13117 2.071540 CAGTACACTGTGCTGTCCATG 58.928 52.381 16.79 0.00 40.45 3.66
3439 13118 1.694150 AGTACACTGTGCTGTCCATGT 59.306 47.619 7.90 0.00 0.00 3.21
3440 13119 2.897326 AGTACACTGTGCTGTCCATGTA 59.103 45.455 7.90 0.00 0.00 2.29
3441 13120 2.462456 ACACTGTGCTGTCCATGTAG 57.538 50.000 7.90 0.00 0.00 2.74
3442 13121 1.694150 ACACTGTGCTGTCCATGTAGT 59.306 47.619 7.90 0.00 0.00 2.73
3443 13122 2.071540 CACTGTGCTGTCCATGTAGTG 58.928 52.381 0.00 0.00 31.36 2.74
3444 13123 1.970640 ACTGTGCTGTCCATGTAGTGA 59.029 47.619 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 41 7.773224 TCAAACTTTTACAGGAACTTCTGATGA 59.227 33.333 0.00 0.00 34.60 2.92
44 45 6.967199 GTGTCAAACTTTTACAGGAACTTCTG 59.033 38.462 0.00 0.00 34.60 3.02
45 46 6.884836 AGTGTCAAACTTTTACAGGAACTTCT 59.115 34.615 0.00 0.00 34.57 2.85
93 95 8.841300 AGGTTTAAAAGCAAACAAGTTTTCAAA 58.159 25.926 0.00 0.00 39.65 2.69
113 199 6.363167 TTCGAAGGGAAACTATGAGGTTTA 57.637 37.500 0.00 0.00 39.20 2.01
370 466 7.554118 TGAAATTTCATGTAAAACCTTTGGCAA 59.446 29.630 16.91 0.00 31.01 4.52
418 521 9.146984 CTGTTAGAGTTATCGACCAATGTTTTA 57.853 33.333 0.00 0.00 0.00 1.52
449 552 7.086230 TGTGTTTTCGTGGTGTTTAGTATTT 57.914 32.000 0.00 0.00 0.00 1.40
452 555 6.680874 ATTGTGTTTTCGTGGTGTTTAGTA 57.319 33.333 0.00 0.00 0.00 1.82
453 556 5.570234 ATTGTGTTTTCGTGGTGTTTAGT 57.430 34.783 0.00 0.00 0.00 2.24
497 601 1.789523 TTCTAAGGCCTGCTACCGAT 58.210 50.000 5.69 0.00 0.00 4.18
498 602 1.563924 TTTCTAAGGCCTGCTACCGA 58.436 50.000 5.69 0.00 0.00 4.69
503 607 0.881796 GCGTTTTTCTAAGGCCTGCT 59.118 50.000 5.69 0.00 0.00 4.24
541 655 0.769247 AAAAGGCGACCCTGGTAAGT 59.231 50.000 0.00 0.00 41.90 2.24
564 678 2.567615 AGTGTTCCCCAGTAGCTGTTAG 59.432 50.000 0.00 0.00 0.00 2.34
569 683 1.201429 CCCAGTGTTCCCCAGTAGCT 61.201 60.000 0.00 0.00 0.00 3.32
577 691 0.890683 CATTTGAGCCCAGTGTTCCC 59.109 55.000 0.00 0.00 0.00 3.97
578 692 0.244721 GCATTTGAGCCCAGTGTTCC 59.755 55.000 0.00 0.00 0.00 3.62
630 744 2.362717 GGAGAAAGTGAGATACGGGAGG 59.637 54.545 0.00 0.00 0.00 4.30
632 746 2.385803 GGGAGAAAGTGAGATACGGGA 58.614 52.381 0.00 0.00 0.00 5.14
633 747 1.413077 GGGGAGAAAGTGAGATACGGG 59.587 57.143 0.00 0.00 0.00 5.28
652 766 2.092904 TTTTCCAAGGGGAGGCTGGG 62.093 60.000 0.00 0.00 46.01 4.45
681 795 4.035102 GCGGCTGGGGGAGAAAGT 62.035 66.667 0.00 0.00 0.00 2.66
714 828 0.538746 GAGAGAGGATCGGGGAGGAC 60.539 65.000 0.00 0.00 42.67 3.85
753 869 4.882396 GCGAAGAGAGAGGGCGCC 62.882 72.222 21.18 21.18 41.65 6.53
769 885 0.179056 TCAGCTAAGTAATGGCCGGC 60.179 55.000 21.18 21.18 35.85 6.13
773 889 5.007136 GTCAGACAATCAGCTAAGTAATGGC 59.993 44.000 0.00 0.00 35.37 4.40
775 891 6.198029 CGAGTCAGACAATCAGCTAAGTAATG 59.802 42.308 2.66 0.00 0.00 1.90
776 892 6.095580 TCGAGTCAGACAATCAGCTAAGTAAT 59.904 38.462 2.66 0.00 0.00 1.89
777 893 5.414765 TCGAGTCAGACAATCAGCTAAGTAA 59.585 40.000 2.66 0.00 0.00 2.24
778 894 4.941873 TCGAGTCAGACAATCAGCTAAGTA 59.058 41.667 2.66 0.00 0.00 2.24
779 895 3.759086 TCGAGTCAGACAATCAGCTAAGT 59.241 43.478 2.66 0.00 0.00 2.24
781 897 4.486090 GTTCGAGTCAGACAATCAGCTAA 58.514 43.478 2.66 0.00 0.00 3.09
784 900 1.996191 GGTTCGAGTCAGACAATCAGC 59.004 52.381 2.66 0.00 0.00 4.26
786 902 1.067846 CGGGTTCGAGTCAGACAATCA 60.068 52.381 2.66 0.00 39.00 2.57
787 903 1.201647 TCGGGTTCGAGTCAGACAATC 59.798 52.381 2.66 0.00 40.88 2.67
788 904 1.254026 TCGGGTTCGAGTCAGACAAT 58.746 50.000 2.66 0.00 40.88 2.71
789 905 1.000607 CTTCGGGTTCGAGTCAGACAA 60.001 52.381 2.66 0.00 46.75 3.18
790 906 0.596577 CTTCGGGTTCGAGTCAGACA 59.403 55.000 2.66 0.00 46.75 3.41
794 910 1.166129 CTCTCTTCGGGTTCGAGTCA 58.834 55.000 0.00 0.00 46.75 3.41
797 913 1.139947 GCCTCTCTTCGGGTTCGAG 59.860 63.158 0.00 0.00 46.75 4.04
798 914 1.605451 TGCCTCTCTTCGGGTTCGA 60.605 57.895 0.00 0.00 44.44 3.71
799 915 1.446272 GTGCCTCTCTTCGGGTTCG 60.446 63.158 0.00 0.00 37.82 3.95
801 917 1.674057 CAGTGCCTCTCTTCGGGTT 59.326 57.895 0.00 0.00 0.00 4.11
804 920 2.125350 GGCAGTGCCTCTCTTCGG 60.125 66.667 27.48 0.00 46.69 4.30
814 930 1.639298 GATTGAGACGTGGGCAGTGC 61.639 60.000 6.55 6.55 0.00 4.40
818 934 2.668632 GGGATTGAGACGTGGGCA 59.331 61.111 0.00 0.00 0.00 5.36
820 936 1.522569 GAGGGGATTGAGACGTGGG 59.477 63.158 0.00 0.00 0.00 4.61
823 939 1.305046 ACGGAGGGGATTGAGACGT 60.305 57.895 0.00 0.00 0.00 4.34
827 943 1.739338 CGAGGACGGAGGGGATTGAG 61.739 65.000 0.00 0.00 35.72 3.02
845 961 3.930012 GGAAGGAGGGGATCGGCG 61.930 72.222 0.00 0.00 0.00 6.46
846 962 2.446802 AGGAAGGAGGGGATCGGC 60.447 66.667 0.00 0.00 0.00 5.54
847 963 1.839296 GGAGGAAGGAGGGGATCGG 60.839 68.421 0.00 0.00 0.00 4.18
848 964 2.203771 CGGAGGAAGGAGGGGATCG 61.204 68.421 0.00 0.00 0.00 3.69
849 965 2.512355 GCGGAGGAAGGAGGGGATC 61.512 68.421 0.00 0.00 0.00 3.36
850 966 2.446802 GCGGAGGAAGGAGGGGAT 60.447 66.667 0.00 0.00 0.00 3.85
851 967 4.798682 GGCGGAGGAAGGAGGGGA 62.799 72.222 0.00 0.00 0.00 4.81
858 974 3.101796 TAATGGCGGGCGGAGGAAG 62.102 63.158 0.00 0.00 0.00 3.46
859 975 3.084646 TAATGGCGGGCGGAGGAA 61.085 61.111 0.00 0.00 0.00 3.36
861 977 2.035237 TAAGTAATGGCGGGCGGAGG 62.035 60.000 0.00 0.00 0.00 4.30
862 978 0.600255 CTAAGTAATGGCGGGCGGAG 60.600 60.000 0.00 0.00 0.00 4.63
864 980 2.251642 GCTAAGTAATGGCGGGCGG 61.252 63.158 0.00 0.00 0.00 6.13
868 984 2.205074 CACTCAGCTAAGTAATGGCGG 58.795 52.381 0.00 0.00 41.10 6.13
869 985 2.860735 GACACTCAGCTAAGTAATGGCG 59.139 50.000 0.00 0.00 41.10 5.69
870 986 3.868077 CAGACACTCAGCTAAGTAATGGC 59.132 47.826 0.00 0.00 35.37 4.40
871 987 5.105554 AGTCAGACACTCAGCTAAGTAATGG 60.106 44.000 2.66 0.00 0.00 3.16
872 988 5.960113 AGTCAGACACTCAGCTAAGTAATG 58.040 41.667 2.66 0.00 0.00 1.90
885 1001 0.469331 TGGGGTTCGAGTCAGACACT 60.469 55.000 2.66 0.00 38.45 3.55
886 1002 0.391597 TTGGGGTTCGAGTCAGACAC 59.608 55.000 2.66 0.00 0.00 3.67
887 1003 0.679505 CTTGGGGTTCGAGTCAGACA 59.320 55.000 2.66 0.00 0.00 3.41
888 1004 0.966920 TCTTGGGGTTCGAGTCAGAC 59.033 55.000 0.00 0.00 0.00 3.51
890 1006 1.203523 CTCTCTTGGGGTTCGAGTCAG 59.796 57.143 0.00 0.00 0.00 3.51
891 1007 1.257743 CTCTCTTGGGGTTCGAGTCA 58.742 55.000 0.00 0.00 0.00 3.41
893 1009 1.545706 GGCTCTCTTGGGGTTCGAGT 61.546 60.000 0.00 0.00 0.00 4.18
894 1010 1.219393 GGCTCTCTTGGGGTTCGAG 59.781 63.158 0.00 0.00 0.00 4.04
895 1011 1.535444 TGGCTCTCTTGGGGTTCGA 60.535 57.895 0.00 0.00 0.00 3.71
897 1013 0.322008 CAGTGGCTCTCTTGGGGTTC 60.322 60.000 0.00 0.00 0.00 3.62
898 1014 1.763770 CAGTGGCTCTCTTGGGGTT 59.236 57.895 0.00 0.00 0.00 4.11
899 1015 2.900106 GCAGTGGCTCTCTTGGGGT 61.900 63.158 0.00 0.00 36.96 4.95
900 1016 2.045536 GCAGTGGCTCTCTTGGGG 60.046 66.667 0.00 0.00 36.96 4.96
901 1017 2.045536 GGCAGTGGCTCTCTTGGG 60.046 66.667 9.90 0.00 40.87 4.12
902 1018 2.045536 GGGCAGTGGCTCTCTTGG 60.046 66.667 17.16 0.00 37.60 3.61
903 1019 1.673665 GTGGGCAGTGGCTCTCTTG 60.674 63.158 17.16 0.00 42.67 3.02
904 1020 2.753029 GTGGGCAGTGGCTCTCTT 59.247 61.111 17.16 0.00 42.67 2.85
905 1021 3.699894 CGTGGGCAGTGGCTCTCT 61.700 66.667 17.16 0.00 42.67 3.10
906 1022 3.941657 GACGTGGGCAGTGGCTCTC 62.942 68.421 17.16 6.87 42.67 3.20
907 1023 4.008933 GACGTGGGCAGTGGCTCT 62.009 66.667 17.16 0.00 42.67 4.09
908 1024 3.941657 GAGACGTGGGCAGTGGCTC 62.942 68.421 17.16 6.10 42.48 4.70
909 1025 4.008933 GAGACGTGGGCAGTGGCT 62.009 66.667 17.16 0.00 40.87 4.75
911 1027 1.003355 ATTGAGACGTGGGCAGTGG 60.003 57.895 0.00 0.00 0.00 4.00
912 1028 1.021390 GGATTGAGACGTGGGCAGTG 61.021 60.000 0.00 0.00 0.00 3.66
913 1029 1.296715 GGATTGAGACGTGGGCAGT 59.703 57.895 0.00 0.00 0.00 4.40
914 1030 1.450312 GGGATTGAGACGTGGGCAG 60.450 63.158 0.00 0.00 0.00 4.85
917 1033 2.186903 CGGGGATTGAGACGTGGG 59.813 66.667 0.00 0.00 0.00 4.61
918 1034 2.511600 GCGGGGATTGAGACGTGG 60.512 66.667 0.00 0.00 0.00 4.94
919 1035 2.511600 GGCGGGGATTGAGACGTG 60.512 66.667 0.00 0.00 0.00 4.49
920 1036 3.782443 GGGCGGGGATTGAGACGT 61.782 66.667 0.00 0.00 0.00 4.34
922 1038 2.124695 GTGGGCGGGGATTGAGAC 60.125 66.667 0.00 0.00 0.00 3.36
923 1039 3.407967 GGTGGGCGGGGATTGAGA 61.408 66.667 0.00 0.00 0.00 3.27
924 1040 4.856801 CGGTGGGCGGGGATTGAG 62.857 72.222 0.00 0.00 0.00 3.02
963 1079 3.471806 GGAGGCGAGGGAGGGTTC 61.472 72.222 0.00 0.00 0.00 3.62
1251 4371 4.243008 TGCGTGGGCTCGGTGAAA 62.243 61.111 5.07 0.00 40.82 2.69
1320 4443 3.202906 CACCGGGGTACAATAGTCATTG 58.797 50.000 6.32 0.00 45.94 2.82
1333 4456 2.763645 AAACAAGGAGCACCGGGGT 61.764 57.895 5.12 0.00 41.83 4.95
1390 4519 0.253044 AAGCTATCGGGCAAGCAAGA 59.747 50.000 0.00 0.00 41.32 3.02
1392 4521 2.780595 GAAGCTATCGGGCAAGCAA 58.219 52.632 0.00 0.00 41.32 3.91
1566 6209 0.469144 ACCAAAAATCAGGGCACGGT 60.469 50.000 0.00 0.00 0.00 4.83
1673 6334 1.510480 AAGCAGGAAGTGAAGTGCGC 61.510 55.000 0.00 0.00 40.97 6.09
1699 6360 4.819630 TCCTACACGGGCATTATCATTTTC 59.180 41.667 0.00 0.00 0.00 2.29
1778 6439 4.272504 GGTCATGAAAAACAACAGACTCGA 59.727 41.667 0.00 0.00 33.02 4.04
1806 6479 1.340248 CCATCCTTCATTGCCATGAGC 59.660 52.381 0.24 0.00 40.66 4.26
1846 6519 5.326200 ACGTAGAGAATTAACCTGTCCAG 57.674 43.478 0.00 0.00 0.00 3.86
1860 6536 4.675976 TTTTCTGGACCAAACGTAGAGA 57.324 40.909 0.00 0.00 0.00 3.10
1869 6545 5.811190 TCGGAATCTATTTTTCTGGACCAA 58.189 37.500 0.00 0.00 31.64 3.67
1879 6555 4.137543 GCACCTCCATCGGAATCTATTTT 58.862 43.478 0.00 0.00 0.00 1.82
1902 6578 0.179100 CTGTACCACGAGCCCATGAG 60.179 60.000 0.00 0.00 0.00 2.90
1909 6585 2.087009 GCACGACTGTACCACGAGC 61.087 63.158 9.65 9.34 36.67 5.03
1919 6595 0.441533 GCACTTGAGATGCACGACTG 59.558 55.000 0.00 0.00 42.88 3.51
1927 6603 7.713147 CCATAGGGAGAAGGCACTTGAGATG 62.713 52.000 0.00 0.00 43.87 2.90
1936 6612 2.568546 TCTTCCATAGGGAGAAGGCA 57.431 50.000 0.00 0.00 46.01 4.75
1950 6626 1.657822 GTTCGCTCTTGGGATCTTCC 58.342 55.000 0.00 0.00 35.06 3.46
1951 6627 1.208293 AGGTTCGCTCTTGGGATCTTC 59.792 52.381 0.00 0.00 35.06 2.87
1954 6630 3.574826 AGTATAGGTTCGCTCTTGGGATC 59.425 47.826 0.00 0.00 35.06 3.36
1965 6641 4.099573 ACAGACCCAATCAGTATAGGTTCG 59.900 45.833 0.00 0.00 0.00 3.95
1967 6643 4.164221 CCACAGACCCAATCAGTATAGGTT 59.836 45.833 0.00 0.00 0.00 3.50
1983 6659 1.327690 TATCACCGCCCTCCACAGAC 61.328 60.000 0.00 0.00 0.00 3.51
2035 6711 6.974048 CACTCTAGTGTCTTGAGATCAATCTG 59.026 42.308 13.18 0.00 40.96 2.90
2061 6737 3.638860 TCGTCCCTTCATTAGCTCCTTA 58.361 45.455 0.00 0.00 0.00 2.69
2164 6844 5.068067 AGTTACCTAGCTAGCTAAGAGTTGC 59.932 44.000 24.12 16.13 0.00 4.17
2178 6858 9.694137 CCACTAACTGATAAATAGTTACCTAGC 57.306 37.037 0.00 0.00 39.06 3.42
2354 10459 9.028284 ACAGTTTTATCCATGTGATTCTTCAAT 57.972 29.630 2.58 0.00 34.76 2.57
2355 10460 8.298854 CACAGTTTTATCCATGTGATTCTTCAA 58.701 33.333 0.00 0.00 44.56 2.69
2358 10463 7.765695 ACACAGTTTTATCCATGTGATTCTT 57.234 32.000 10.84 0.00 44.56 2.52
2359 10464 7.765695 AACACAGTTTTATCCATGTGATTCT 57.234 32.000 10.84 0.00 44.56 2.40
2418 10524 0.098200 TACTCGACCGTGCATTCTCG 59.902 55.000 0.00 0.00 0.00 4.04
2432 10538 5.335191 TGAGTAGTAGCATCATGCATACTCG 60.335 44.000 27.41 0.00 46.87 4.18
2465 10571 0.887387 GCCTCCAAGTTGCCACGTTA 60.887 55.000 0.00 0.00 0.00 3.18
2469 10575 1.406539 CATATGCCTCCAAGTTGCCAC 59.593 52.381 0.00 0.00 0.00 5.01
2489 10595 7.907214 AAGTAGTGAAATAGTTCATCACACC 57.093 36.000 9.08 0.00 45.38 4.16
2500 10606 9.099454 CAAAAGGGCTACTAAGTAGTGAAATAG 57.901 37.037 3.81 0.00 38.30 1.73
2519 10625 1.741525 CACCACTGCACCAAAAGGG 59.258 57.895 0.00 0.00 44.81 3.95
2520 10626 1.067916 GCACCACTGCACCAAAAGG 59.932 57.895 0.00 0.00 43.62 3.11
2546 10652 6.655078 AAAGCCAACACTAACATGAGAAAT 57.345 33.333 0.00 0.00 0.00 2.17
2555 10661 4.632538 ACAGACAAAAGCCAACACTAAC 57.367 40.909 0.00 0.00 0.00 2.34
2596 10702 1.412226 CACTGACACGCGAACGATG 59.588 57.895 15.93 1.61 43.93 3.84
2597 10703 1.733041 CCACTGACACGCGAACGAT 60.733 57.895 15.93 0.00 43.93 3.73
2603 10709 1.227999 AATTCACCCACTGACACGCG 61.228 55.000 3.53 3.53 0.00 6.01
2604 10710 1.803334 TAATTCACCCACTGACACGC 58.197 50.000 0.00 0.00 0.00 5.34
2605 10711 3.399330 AGTTAATTCACCCACTGACACG 58.601 45.455 0.00 0.00 0.00 4.49
2610 10718 7.495934 CCTACAAGATAGTTAATTCACCCACTG 59.504 40.741 0.00 0.00 0.00 3.66
2636 10744 7.550196 ACATGGATGCAAGAAATTAATGTTTCC 59.450 33.333 0.00 0.00 38.55 3.13
2637 10745 8.385111 CACATGGATGCAAGAAATTAATGTTTC 58.615 33.333 0.00 0.00 38.16 2.78
2640 10748 7.172868 TCACATGGATGCAAGAAATTAATGT 57.827 32.000 0.00 0.00 0.00 2.71
2642 10750 7.043565 GGTTCACATGGATGCAAGAAATTAAT 58.956 34.615 0.00 0.00 0.00 1.40
2657 10765 8.527567 AAAATATTTAACAACGGTTCACATGG 57.472 30.769 0.01 0.00 38.45 3.66
2808 12467 7.066043 TCTCTTTTACAAAACGAAGCTAAACCA 59.934 33.333 0.00 0.00 0.00 3.67
2815 12474 7.431084 TCACATTTCTCTTTTACAAAACGAAGC 59.569 33.333 0.00 0.00 0.00 3.86
2817 12476 9.796120 AATCACATTTCTCTTTTACAAAACGAA 57.204 25.926 0.00 0.00 0.00 3.85
2825 12484 9.766277 GATGTCAGAATCACATTTCTCTTTTAC 57.234 33.333 0.00 0.00 34.49 2.01
2848 12507 2.223409 CCGTGCATGGTCAATTCAGATG 60.223 50.000 17.42 0.00 0.00 2.90
2903 12562 0.899720 CTAGTCTAACCGGTGGCCAA 59.100 55.000 8.52 0.00 0.00 4.52
2917 12584 6.304208 CGACGTTAAAACCAACTAGTCTAGTC 59.696 42.308 12.98 0.00 38.26 2.59
2925 12592 3.129871 CCACCGACGTTAAAACCAACTA 58.870 45.455 0.00 0.00 0.00 2.24
2945 12615 3.439129 GGAATATAAGCGGTGCCATAACC 59.561 47.826 0.00 0.00 36.82 2.85
2946 12616 3.124636 CGGAATATAAGCGGTGCCATAAC 59.875 47.826 0.00 0.00 0.00 1.89
2947 12617 3.331150 CGGAATATAAGCGGTGCCATAA 58.669 45.455 0.00 0.00 0.00 1.90
2977 12647 4.604843 TCAACTGCTGATGAATAAAGCG 57.395 40.909 0.94 0.00 39.88 4.68
2990 12660 2.902486 TGATCCTCACTCTTCAACTGCT 59.098 45.455 0.00 0.00 0.00 4.24
2994 12664 6.634805 TGTTAGATGATCCTCACTCTTCAAC 58.365 40.000 0.62 0.00 0.00 3.18
3077 12748 0.522626 CGTGCATTCTCAATGTGCCA 59.477 50.000 0.00 0.00 41.01 4.92
3126 12797 3.365969 GCCTCCAAGTTGTTATGTTTCCG 60.366 47.826 1.45 0.00 0.00 4.30
3135 12806 1.073284 ACGGTATGCCTCCAAGTTGTT 59.927 47.619 1.45 0.00 0.00 2.83
3152 12823 6.042777 AGTACTGACATAATTCATCACACGG 58.957 40.000 0.00 0.00 0.00 4.94
3191 12862 2.519302 AGGCACCACTGCACCAAC 60.519 61.111 0.00 0.00 46.28 3.77
3240 12913 4.337274 CGGGGAAACTGTCAAACTAACTTT 59.663 41.667 0.00 0.00 0.00 2.66
3241 12914 3.881089 CGGGGAAACTGTCAAACTAACTT 59.119 43.478 0.00 0.00 0.00 2.66
3242 12915 3.118149 ACGGGGAAACTGTCAAACTAACT 60.118 43.478 0.00 0.00 31.40 2.24
3280 12953 4.170468 ACAAGATAATCCATCCACCACC 57.830 45.455 0.00 0.00 33.75 4.61
3305 12979 7.707464 CACATGCATGCAAGAAATTAAAGGATA 59.293 33.333 28.20 0.00 0.00 2.59
3307 12981 5.870433 CACATGCATGCAAGAAATTAAAGGA 59.130 36.000 28.20 0.00 0.00 3.36
3393 13072 2.025793 TGTCCACTCACAGACCCAAAAA 60.026 45.455 0.00 0.00 31.76 1.94
3397 13076 2.301870 GTTATGTCCACTCACAGACCCA 59.698 50.000 0.00 0.00 31.76 4.51
3398 13077 2.301870 TGTTATGTCCACTCACAGACCC 59.698 50.000 0.00 0.00 31.76 4.46
3399 13078 3.006967 ACTGTTATGTCCACTCACAGACC 59.993 47.826 4.67 0.00 38.59 3.85
3400 13079 4.258702 ACTGTTATGTCCACTCACAGAC 57.741 45.455 4.67 0.00 38.59 3.51
3401 13080 4.830600 TGTACTGTTATGTCCACTCACAGA 59.169 41.667 4.67 0.00 38.59 3.41
3402 13081 4.923871 GTGTACTGTTATGTCCACTCACAG 59.076 45.833 0.00 0.00 40.65 3.66
3403 13082 4.587262 AGTGTACTGTTATGTCCACTCACA 59.413 41.667 0.00 0.00 32.86 3.58
3404 13083 4.923871 CAGTGTACTGTTATGTCCACTCAC 59.076 45.833 3.88 0.00 35.43 3.51
3405 13084 5.134202 CAGTGTACTGTTATGTCCACTCA 57.866 43.478 3.88 0.00 35.43 3.41
3419 13098 1.694150 ACATGGACAGCACAGTGTACT 59.306 47.619 1.61 0.00 31.83 2.73
3420 13099 2.169832 ACATGGACAGCACAGTGTAC 57.830 50.000 1.61 0.00 0.00 2.90
3421 13100 2.897326 ACTACATGGACAGCACAGTGTA 59.103 45.455 1.61 0.00 0.00 2.90
3422 13101 1.694150 ACTACATGGACAGCACAGTGT 59.306 47.619 1.61 0.00 0.00 3.55
3423 13102 2.071540 CACTACATGGACAGCACAGTG 58.928 52.381 0.00 0.00 0.00 3.66
3424 13103 1.970640 TCACTACATGGACAGCACAGT 59.029 47.619 0.00 0.00 0.00 3.55
3425 13104 2.749280 TCACTACATGGACAGCACAG 57.251 50.000 0.00 0.00 0.00 3.66


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

AutoCloner maintained by Alex Coulton.