Multiple sequence alignment - TraesCS3B01G093700

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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 TraesCS3B01G093700 chr3B 100.000 6611 0 0 1 6611 62666578 62673188 0.000000e+00 12209.0
1 TraesCS3B01G093700 chr5B 96.649 3193 76 8 1790 4953 6666923 6670113 0.000000e+00 5275.0
2 TraesCS3B01G093700 chr5B 94.136 1620 71 16 3474 5076 24390866 24392478 0.000000e+00 2444.0
3 TraesCS3B01G093700 chr5B 91.204 1387 93 15 2421 3781 30941682 30940299 0.000000e+00 1858.0
4 TraesCS3B01G093700 chr5B 91.276 1089 73 11 2421 3488 31017526 31016439 0.000000e+00 1465.0
5 TraesCS3B01G093700 chr5B 96.245 799 18 6 5072 5862 24392549 24393343 0.000000e+00 1299.0
6 TraesCS3B01G093700 chr5B 90.385 988 74 12 3807 4784 24627819 24626843 0.000000e+00 1279.0
7 TraesCS3B01G093700 chr5B 90.375 987 74 12 3807 4784 6834931 6833957 0.000000e+00 1277.0
8 TraesCS3B01G093700 chr5B 86.534 854 39 31 923 1764 6666138 6666927 0.000000e+00 870.0
9 TraesCS3B01G093700 chr5B 93.345 556 17 10 6073 6611 24393335 24393887 0.000000e+00 804.0
10 TraesCS3B01G093700 chr5B 82.580 907 116 20 1508 2376 13911513 13910611 0.000000e+00 761.0
11 TraesCS3B01G093700 chr5B 95.065 385 7 1 5072 5456 6671048 6671420 4.410000e-166 595.0
12 TraesCS3B01G093700 chr5B 94.118 323 18 1 915 1237 31017894 31017573 2.140000e-134 490.0
13 TraesCS3B01G093700 chr5B 93.519 324 18 3 915 1237 30942050 30941729 4.640000e-131 479.0
14 TraesCS3B01G093700 chr5B 87.087 333 28 8 5331 5650 30921877 30921547 4.870000e-96 363.0
15 TraesCS3B01G093700 chr5B 82.254 417 60 11 2431 2841 24676734 24676326 1.360000e-91 348.0
16 TraesCS3B01G093700 chr5B 85.799 338 28 10 5331 5650 6833768 6833433 2.280000e-89 340.0
17 TraesCS3B01G093700 chr5B 85.757 337 28 13 5332 5650 24626653 24626319 8.210000e-89 339.0
18 TraesCS3B01G093700 chr5B 93.665 221 13 1 5862 6081 267548109 267547889 4.940000e-86 329.0
19 TraesCS3B01G093700 chr5B 99.010 101 1 0 4951 5051 6670220 6670320 1.460000e-41 182.0
20 TraesCS3B01G093700 chr5B 84.831 178 20 4 6074 6246 30819996 30819821 8.810000e-39 172.0
21 TraesCS3B01G093700 chr5B 83.500 200 15 10 5301 5485 6852969 6852773 3.170000e-38 171.0
22 TraesCS3B01G093700 chr5D 97.903 2671 47 5 2414 5076 5102526 5099857 0.000000e+00 4614.0
23 TraesCS3B01G093700 chr5D 90.903 1495 60 20 915 2387 5103962 5102522 0.000000e+00 1938.0
24 TraesCS3B01G093700 chr5D 84.229 1395 166 37 2400 3774 3930435 3929075 0.000000e+00 1308.0
25 TraesCS3B01G093700 chr5D 85.506 890 109 11 1498 2369 420928307 420927420 0.000000e+00 911.0
26 TraesCS3B01G093700 chr5D 96.324 544 15 1 6073 6611 5099035 5098492 0.000000e+00 889.0
27 TraesCS3B01G093700 chr5D 98.305 472 5 2 5392 5862 5099496 5099027 0.000000e+00 824.0
28 TraesCS3B01G093700 chr5D 98.551 276 4 0 5072 5347 5099786 5099511 7.710000e-134 488.0
29 TraesCS3B01G093700 chr5D 83.438 320 36 9 5304 5606 3927513 3927194 1.400000e-71 281.0
30 TraesCS3B01G093700 chr5D 84.979 233 31 3 5071 5300 235200176 235200407 3.990000e-57 233.0
31 TraesCS3B01G093700 chr5D 92.617 149 8 1 6278 6423 4797617 4797469 1.870000e-50 211.0
32 TraesCS3B01G093700 chr5D 88.276 145 14 2 5667 5810 3927086 3926944 3.170000e-38 171.0
33 TraesCS3B01G093700 chr5A 94.104 2595 100 29 2241 4793 3725343 3727926 0.000000e+00 3895.0
34 TraesCS3B01G093700 chr5A 93.719 2595 109 31 2241 4793 3770510 3773092 0.000000e+00 3840.0
35 TraesCS3B01G093700 chr5A 94.060 2357 89 29 2472 4793 3758145 3760485 0.000000e+00 3530.0
36 TraesCS3B01G093700 chr5A 93.994 1665 63 21 3164 4793 3798938 3800600 0.000000e+00 2486.0
37 TraesCS3B01G093700 chr5A 93.783 933 41 9 2241 3166 3783635 3784557 0.000000e+00 1386.0
38 TraesCS3B01G093700 chr5A 94.229 901 35 9 2241 3134 3712805 3713695 0.000000e+00 1360.0
39 TraesCS3B01G093700 chr5A 84.435 1407 152 38 2400 3773 4608371 4609743 0.000000e+00 1323.0
40 TraesCS3B01G093700 chr5A 93.976 830 44 5 3969 4793 3714076 3714904 0.000000e+00 1251.0
41 TraesCS3B01G093700 chr5A 84.797 592 46 19 915 1482 3756463 3757034 7.490000e-154 555.0
42 TraesCS3B01G093700 chr5A 84.915 590 44 21 915 1479 3769471 3770040 7.490000e-154 555.0
43 TraesCS3B01G093700 chr5A 84.628 592 47 18 915 1482 3711767 3712338 3.480000e-152 549.0
44 TraesCS3B01G093700 chr5A 84.459 592 48 18 915 1482 3724305 3724876 1.620000e-150 544.0
45 TraesCS3B01G093700 chr5A 95.808 334 14 0 2472 2805 3749696 3750029 2.100000e-149 540.0
46 TraesCS3B01G093700 chr5A 92.655 354 24 2 5301 5652 3800798 3801151 5.910000e-140 508.0
47 TraesCS3B01G093700 chr5A 89.516 372 29 4 915 1276 3782707 3783078 4.670000e-126 462.0
48 TraesCS3B01G093700 chr5A 80.561 535 68 23 5307 5810 4611382 4611911 4.840000e-101 379.0
49 TraesCS3B01G093700 chr5A 83.541 401 27 16 6245 6611 3801544 3801939 8.210000e-89 339.0
50 TraesCS3B01G093700 chr5A 81.205 415 43 14 6074 6460 4056199 4056606 1.080000e-77 302.0
51 TraesCS3B01G093700 chr5A 92.647 204 14 1 5301 5503 3773290 3773493 6.480000e-75 292.0
52 TraesCS3B01G093700 chr5A 92.157 204 14 2 5301 5503 3728125 3728327 3.020000e-73 287.0
53 TraesCS3B01G093700 chr5A 92.157 204 14 2 5301 5503 3760683 3760885 3.020000e-73 287.0
54 TraesCS3B01G093700 chr5A 91.176 204 16 2 5301 5503 3715102 3715304 6.530000e-70 276.0
55 TraesCS3B01G093700 chr5A 91.257 183 9 3 2241 2416 3757501 3757683 6.620000e-60 243.0
56 TraesCS3B01G093700 chr5A 89.024 164 18 0 4790 4953 3727965 3728128 3.130000e-48 204.0
57 TraesCS3B01G093700 chr5A 89.024 164 18 0 4790 4953 3760523 3760686 3.130000e-48 204.0
58 TraesCS3B01G093700 chr5A 88.415 164 19 0 4790 4953 3714942 3715105 1.450000e-46 198.0
59 TraesCS3B01G093700 chr5A 88.415 164 19 0 4790 4953 3800638 3800801 1.450000e-46 198.0
60 TraesCS3B01G093700 chr5A 87.805 164 20 0 4790 4953 3773130 3773293 6.770000e-45 193.0
61 TraesCS3B01G093700 chr5A 91.892 74 6 0 1409 1482 3783095 3783168 3.260000e-18 104.0
62 TraesCS3B01G093700 chr6B 91.253 926 56 12 1 905 223256133 223257054 0.000000e+00 1238.0
63 TraesCS3B01G093700 chr7B 91.295 919 47 5 1 899 40894812 40893907 0.000000e+00 1223.0
64 TraesCS3B01G093700 chr7B 90.584 924 58 12 1 899 501938206 501937287 0.000000e+00 1197.0
65 TraesCS3B01G093700 chr7B 95.755 212 7 2 5862 6072 645395994 645396204 2.280000e-89 340.0
66 TraesCS3B01G093700 chr7B 95.349 215 5 2 5863 6072 733770551 733770765 2.950000e-88 337.0
67 TraesCS3B01G093700 chr2A 90.337 921 61 10 1 900 346060983 346061896 0.000000e+00 1182.0
68 TraesCS3B01G093700 chr2A 78.799 849 143 24 1516 2332 533883868 533884711 2.710000e-148 536.0
69 TraesCS3B01G093700 chr1B 90.316 919 51 19 2 898 614175919 614176821 0.000000e+00 1170.0
70 TraesCS3B01G093700 chr1B 90.471 850 55 9 70 895 623541475 623542322 0.000000e+00 1098.0
71 TraesCS3B01G093700 chr1B 88.726 683 49 15 243 900 428543089 428542410 0.000000e+00 809.0
72 TraesCS3B01G093700 chr1B 95.794 214 8 1 5863 6075 643043036 643042823 1.760000e-90 344.0
73 TraesCS3B01G093700 chr1B 92.609 230 13 4 5853 6081 593563481 593563255 1.780000e-85 327.0
74 TraesCS3B01G093700 chr1A 90.000 920 64 10 1 899 146943412 146942500 0.000000e+00 1164.0
75 TraesCS3B01G093700 chr1A 89.848 857 59 11 66 899 540889558 540888707 0.000000e+00 1075.0
76 TraesCS3B01G093700 chr1A 94.293 368 18 3 1 367 540889794 540889429 1.610000e-155 560.0
77 TraesCS3B01G093700 chr1A 79.156 758 126 23 1499 2239 20365441 20366183 4.600000e-136 496.0
78 TraesCS3B01G093700 chr1A 96.209 211 8 0 5862 6072 566517310 566517100 4.910000e-91 346.0
79 TraesCS3B01G093700 chr6A 89.902 921 64 11 1 900 534982259 534983171 0.000000e+00 1158.0
80 TraesCS3B01G093700 chr6A 89.805 922 65 11 1 901 499621678 499620765 0.000000e+00 1155.0
81 TraesCS3B01G093700 chr3A 89.378 772 53 10 1 751 125482567 125481804 0.000000e+00 944.0
82 TraesCS3B01G093700 chr2B 79.697 857 131 25 1516 2332 468555022 468555875 4.440000e-161 579.0
83 TraesCS3B01G093700 chr2B 78.207 647 129 10 1729 2367 238629030 238629672 2.870000e-108 403.0
84 TraesCS3B01G093700 chr2B 96.804 219 5 2 5858 6075 27547924 27548141 1.350000e-96 364.0
85 TraesCS3B01G093700 chr2B 84.451 328 51 0 2042 2369 198170584 198170911 2.300000e-84 324.0
86 TraesCS3B01G093700 chr2B 74.732 839 153 35 1501 2307 735856082 735855271 2.970000e-83 320.0
87 TraesCS3B01G093700 chr2D 79.138 858 134 27 1516 2332 395560526 395561379 9.690000e-153 551.0
88 TraesCS3B01G093700 chr2D 86.747 83 10 1 4965 5046 137853072 137853154 2.540000e-14 91.6
89 TraesCS3B01G093700 chr7D 80.134 745 120 20 1642 2369 239011589 239010856 1.260000e-146 531.0
90 TraesCS3B01G093700 chr1D 80.053 752 113 30 1507 2239 18377729 18378462 2.110000e-144 523.0
91 TraesCS3B01G093700 chr7A 95.283 212 9 1 5862 6072 608323754 608323543 1.060000e-87 335.0
92 TraesCS3B01G093700 chrUn 92.982 228 11 3 5854 6078 234337042 234336817 1.780000e-85 327.0
93 TraesCS3B01G093700 chr4A 82.558 258 32 5 5359 5603 18650712 18650969 1.440000e-51 215.0
94 TraesCS3B01G093700 chr4A 82.171 258 33 5 5359 5603 18684525 18684782 6.720000e-50 209.0
95 TraesCS3B01G093700 chr4A 89.051 137 12 2 5675 5810 18666078 18666212 4.100000e-37 167.0
96 TraesCS3B01G093700 chr4A 87.591 137 14 2 5675 5810 18691036 18691170 8.880000e-34 156.0


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 TraesCS3B01G093700 chr3B 62666578 62673188 6610 False 12209.000000 12209 100.000000 1 6611 1 chr3B.!!$F1 6610
1 TraesCS3B01G093700 chr5B 6666138 6671420 5282 False 1730.500000 5275 94.314500 923 5456 4 chr5B.!!$F1 4533
2 TraesCS3B01G093700 chr5B 24390866 24393887 3021 False 1515.666667 2444 94.575333 3474 6611 3 chr5B.!!$F2 3137
3 TraesCS3B01G093700 chr5B 30940299 30942050 1751 True 1168.500000 1858 92.361500 915 3781 2 chr5B.!!$R9 2866
4 TraesCS3B01G093700 chr5B 31016439 31017894 1455 True 977.500000 1465 92.697000 915 3488 2 chr5B.!!$R10 2573
5 TraesCS3B01G093700 chr5B 24626319 24627819 1500 True 809.000000 1279 88.071000 3807 5650 2 chr5B.!!$R8 1843
6 TraesCS3B01G093700 chr5B 6833433 6834931 1498 True 808.500000 1277 88.087000 3807 5650 2 chr5B.!!$R7 1843
7 TraesCS3B01G093700 chr5B 13910611 13911513 902 True 761.000000 761 82.580000 1508 2376 1 chr5B.!!$R2 868
8 TraesCS3B01G093700 chr5D 5098492 5103962 5470 True 1750.600000 4614 96.397200 915 6611 5 chr5D.!!$R4 5696
9 TraesCS3B01G093700 chr5D 420927420 420928307 887 True 911.000000 911 85.506000 1498 2369 1 chr5D.!!$R2 871
10 TraesCS3B01G093700 chr5D 3926944 3930435 3491 True 586.666667 1308 85.314333 2400 5810 3 chr5D.!!$R3 3410
11 TraesCS3B01G093700 chr5A 3724305 3728327 4022 False 1232.500000 3895 89.936000 915 5503 4 chr5A.!!$F4 4588
12 TraesCS3B01G093700 chr5A 3769471 3773493 4022 False 1220.000000 3840 89.771500 915 5503 4 chr5A.!!$F6 4588
13 TraesCS3B01G093700 chr5A 3756463 3760885 4422 False 963.800000 3530 90.259000 915 5503 5 chr5A.!!$F5 4588
14 TraesCS3B01G093700 chr5A 3798938 3801939 3001 False 882.750000 2486 89.651250 3164 6611 4 chr5A.!!$F8 3447
15 TraesCS3B01G093700 chr5A 4608371 4611911 3540 False 851.000000 1323 82.498000 2400 5810 2 chr5A.!!$F9 3410
16 TraesCS3B01G093700 chr5A 3711767 3715304 3537 False 726.800000 1360 90.484800 915 5503 5 chr5A.!!$F3 4588
17 TraesCS3B01G093700 chr5A 3782707 3784557 1850 False 650.666667 1386 91.730333 915 3166 3 chr5A.!!$F7 2251
18 TraesCS3B01G093700 chr6B 223256133 223257054 921 False 1238.000000 1238 91.253000 1 905 1 chr6B.!!$F1 904
19 TraesCS3B01G093700 chr7B 40893907 40894812 905 True 1223.000000 1223 91.295000 1 899 1 chr7B.!!$R1 898
20 TraesCS3B01G093700 chr7B 501937287 501938206 919 True 1197.000000 1197 90.584000 1 899 1 chr7B.!!$R2 898
21 TraesCS3B01G093700 chr2A 346060983 346061896 913 False 1182.000000 1182 90.337000 1 900 1 chr2A.!!$F1 899
22 TraesCS3B01G093700 chr2A 533883868 533884711 843 False 536.000000 536 78.799000 1516 2332 1 chr2A.!!$F2 816
23 TraesCS3B01G093700 chr1B 614175919 614176821 902 False 1170.000000 1170 90.316000 2 898 1 chr1B.!!$F1 896
24 TraesCS3B01G093700 chr1B 623541475 623542322 847 False 1098.000000 1098 90.471000 70 895 1 chr1B.!!$F2 825
25 TraesCS3B01G093700 chr1B 428542410 428543089 679 True 809.000000 809 88.726000 243 900 1 chr1B.!!$R1 657
26 TraesCS3B01G093700 chr1A 146942500 146943412 912 True 1164.000000 1164 90.000000 1 899 1 chr1A.!!$R1 898
27 TraesCS3B01G093700 chr1A 540888707 540889794 1087 True 817.500000 1075 92.070500 1 899 2 chr1A.!!$R3 898
28 TraesCS3B01G093700 chr1A 20365441 20366183 742 False 496.000000 496 79.156000 1499 2239 1 chr1A.!!$F1 740
29 TraesCS3B01G093700 chr6A 534982259 534983171 912 False 1158.000000 1158 89.902000 1 900 1 chr6A.!!$F1 899
30 TraesCS3B01G093700 chr6A 499620765 499621678 913 True 1155.000000 1155 89.805000 1 901 1 chr6A.!!$R1 900
31 TraesCS3B01G093700 chr3A 125481804 125482567 763 True 944.000000 944 89.378000 1 751 1 chr3A.!!$R1 750
32 TraesCS3B01G093700 chr2B 468555022 468555875 853 False 579.000000 579 79.697000 1516 2332 1 chr2B.!!$F4 816
33 TraesCS3B01G093700 chr2B 238629030 238629672 642 False 403.000000 403 78.207000 1729 2367 1 chr2B.!!$F3 638
34 TraesCS3B01G093700 chr2B 735855271 735856082 811 True 320.000000 320 74.732000 1501 2307 1 chr2B.!!$R1 806
35 TraesCS3B01G093700 chr2D 395560526 395561379 853 False 551.000000 551 79.138000 1516 2332 1 chr2D.!!$F2 816
36 TraesCS3B01G093700 chr7D 239010856 239011589 733 True 531.000000 531 80.134000 1642 2369 1 chr7D.!!$R1 727
37 TraesCS3B01G093700 chr1D 18377729 18378462 733 False 523.000000 523 80.053000 1507 2239 1 chr1D.!!$F1 732

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
611 831 0.040425 CGAACTGCGTTTTTCCTGGG 60.040 55.000 0.00 0.0 34.64 4.45 F
1400 1646 0.034616 CCTCTGGGAGCGGATTGATC 59.965 60.000 0.00 0.0 33.58 2.92 F
1740 2040 0.258774 TTTAGGATCTTGGGCTGGGC 59.741 55.000 0.00 0.0 0.00 5.36 F
2095 2415 0.524862 GACTTCCTCTTGACGCGGTA 59.475 55.000 12.47 0.0 0.00 4.02 F
3296 4116 0.661020 GCGGCACCACAATGTATACC 59.339 55.000 0.00 0.0 0.00 2.73 F
4699 5971 2.889045 ACAACGGAGCACTGTAGACTTA 59.111 45.455 0.00 0.0 34.90 2.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1807 2114 0.905809 ATCCAGGCCAAAGCAATGCA 60.906 50.000 8.35 0.00 42.56 3.96 R
2669 3475 0.037326 TGAGCGGTTCACCATCTGTC 60.037 55.000 0.00 0.00 35.14 3.51 R
3296 4116 1.144936 GGCCATCTGGAGAACGGAG 59.855 63.158 0.00 0.00 38.03 4.63 R
4014 5218 3.865745 CAGGCTTCCATCTAACGTGTTAG 59.134 47.826 12.51 12.51 42.86 2.34 R
4946 6278 0.104487 GAGCTTACGGGGCCTTACTC 59.896 60.000 0.84 0.00 0.00 2.59 R
6016 8300 0.036010 CCGTGCTCCCACTTCATCTT 60.036 55.000 0.00 0.00 39.86 2.40 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
231 406 7.357951 TGTTCGCTTTCTTCAAATTTTGTTT 57.642 28.000 8.89 0.00 0.00 2.83
331 507 5.695816 GCATTGCCAAATTTTGTTCAGAGTA 59.304 36.000 8.26 0.00 0.00 2.59
394 611 8.477984 TCTTCAAATTTTGTTCCAAGTTTCAG 57.522 30.769 8.89 0.00 0.00 3.02
611 831 0.040425 CGAACTGCGTTTTTCCTGGG 60.040 55.000 0.00 0.00 34.64 4.45
643 863 2.124903 TGAACTGCGTTCGAACTTCTC 58.875 47.619 24.80 14.11 44.55 2.87
658 878 7.784176 TCGAACTTCTCAAAAAGTTTAGATCG 58.216 34.615 3.76 6.99 46.69 3.69
702 922 2.491693 TGTTTGCTGCTTAGTATTGGCC 59.508 45.455 0.00 0.00 0.00 5.36
704 924 2.042686 TGCTGCTTAGTATTGGCCAG 57.957 50.000 5.11 0.00 0.00 4.85
782 1004 0.179034 GAATCTCCAGCCGCCTTCAT 60.179 55.000 0.00 0.00 0.00 2.57
810 1034 3.124806 TGCGTTGTTTTTCACGTCAGTAA 59.875 39.130 0.00 0.00 0.00 2.24
901 1131 0.759436 GGCAGATAGGAGGTCCCGAA 60.759 60.000 0.00 0.00 40.87 4.30
905 1135 2.965831 CAGATAGGAGGTCCCGAAATCA 59.034 50.000 0.00 0.00 40.87 2.57
906 1136 3.388024 CAGATAGGAGGTCCCGAAATCAA 59.612 47.826 0.00 0.00 40.87 2.57
907 1137 3.388350 AGATAGGAGGTCCCGAAATCAAC 59.612 47.826 0.00 0.00 40.87 3.18
908 1138 0.249398 AGGAGGTCCCGAAATCAACG 59.751 55.000 0.00 0.00 40.87 4.10
1001 1235 2.598565 TCCCATCGATCGGAGAAAGAT 58.401 47.619 16.41 0.00 43.58 2.40
1013 1247 0.620556 AGAAAGATGATGGGTGCGGT 59.379 50.000 0.00 0.00 0.00 5.68
1015 1249 2.238646 AGAAAGATGATGGGTGCGGTTA 59.761 45.455 0.00 0.00 0.00 2.85
1080 1317 4.452733 CGAGACGACCCCTTGGCC 62.453 72.222 0.00 0.00 33.59 5.36
1158 1395 2.360726 CAGTGGGCGGGGGTTAAC 60.361 66.667 0.00 0.00 0.00 2.01
1244 1487 5.400782 CAGGTATGAATATGATAGCGCGATC 59.599 44.000 21.90 21.90 0.00 3.69
1258 1501 1.591594 CGATCCCCGACCAACATCG 60.592 63.158 0.00 0.00 41.76 3.84
1260 1503 0.393077 GATCCCCGACCAACATCGAT 59.607 55.000 0.00 0.00 45.13 3.59
1397 1643 2.203126 GCCTCTGGGAGCGGATTG 60.203 66.667 0.00 0.00 33.58 2.67
1398 1644 2.735772 GCCTCTGGGAGCGGATTGA 61.736 63.158 0.00 0.00 33.58 2.57
1399 1645 2.049627 GCCTCTGGGAGCGGATTGAT 62.050 60.000 0.00 0.00 33.58 2.57
1400 1646 0.034616 CCTCTGGGAGCGGATTGATC 59.965 60.000 0.00 0.00 33.58 2.92
1401 1647 1.047002 CTCTGGGAGCGGATTGATCT 58.953 55.000 0.00 0.00 32.20 2.75
1740 2040 0.258774 TTTAGGATCTTGGGCTGGGC 59.741 55.000 0.00 0.00 0.00 5.36
1839 2146 0.621571 CCTGGATCCAACTCCCTCCA 60.622 60.000 17.00 0.00 36.40 3.86
2095 2415 0.524862 GACTTCCTCTTGACGCGGTA 59.475 55.000 12.47 0.00 0.00 4.02
2281 2635 6.069684 GATTCTAATCCTTGTGATTGGCAG 57.930 41.667 0.00 0.00 43.57 4.85
3296 4116 0.661020 GCGGCACCACAATGTATACC 59.339 55.000 0.00 0.00 0.00 2.73
3678 4503 7.913789 ACTAATGTGGTGTCTCCTAATTGTTA 58.086 34.615 0.00 0.00 37.07 2.41
3737 4565 9.057089 GTGGTATCTATTTCCTCACTTTTATGG 57.943 37.037 0.00 0.00 0.00 2.74
4059 5317 5.954335 GGTTCCACCAAAGATATGTTGAAG 58.046 41.667 0.00 0.00 38.42 3.02
4468 5738 4.359706 AGAATGTTTTCGTTTCCTGCAAC 58.640 39.130 0.00 0.00 36.93 4.17
4699 5971 2.889045 ACAACGGAGCACTGTAGACTTA 59.111 45.455 0.00 0.00 34.90 2.24
4946 6278 2.416431 GGTAAGTAGGTGGTGTGTAGCG 60.416 54.545 0.00 0.00 0.00 4.26
5731 8006 1.552792 GTCCTCCAAAGTAGCAGCTCT 59.447 52.381 0.00 0.00 0.00 4.09
5732 8007 1.827969 TCCTCCAAAGTAGCAGCTCTC 59.172 52.381 0.00 0.00 0.00 3.20
5753 8028 6.689561 TCTCCTTGTGGGATTTCCTATACTA 58.310 40.000 0.00 0.00 44.15 1.82
5853 8137 1.701292 TGGCTCTGCACATATGGCTAT 59.299 47.619 7.80 0.00 0.00 2.97
5854 8138 2.082231 GGCTCTGCACATATGGCTATG 58.918 52.381 7.80 0.00 40.56 2.23
5855 8139 1.467734 GCTCTGCACATATGGCTATGC 59.532 52.381 7.80 8.29 38.67 3.14
5856 8140 2.774687 CTCTGCACATATGGCTATGCA 58.225 47.619 15.51 15.51 45.45 3.96
5857 8141 3.344515 CTCTGCACATATGGCTATGCAT 58.655 45.455 16.39 3.79 46.35 3.96
5858 8142 3.078837 TCTGCACATATGGCTATGCATG 58.921 45.455 16.39 11.71 46.35 4.06
5859 8143 3.078837 CTGCACATATGGCTATGCATGA 58.921 45.455 16.39 0.00 46.35 3.07
5860 8144 3.078837 TGCACATATGGCTATGCATGAG 58.921 45.455 10.16 4.20 42.92 2.90
5861 8145 2.422479 GCACATATGGCTATGCATGAGG 59.578 50.000 10.16 0.46 38.67 3.86
5862 8146 3.014623 CACATATGGCTATGCATGAGGG 58.985 50.000 10.16 0.00 38.67 4.30
5863 8147 2.025605 ACATATGGCTATGCATGAGGGG 60.026 50.000 10.16 0.00 38.67 4.79
5864 8148 2.043307 TATGGCTATGCATGAGGGGA 57.957 50.000 10.16 0.00 0.00 4.81
5865 8149 0.403271 ATGGCTATGCATGAGGGGAC 59.597 55.000 10.16 0.00 0.00 4.46
5866 8150 1.302033 GGCTATGCATGAGGGGACG 60.302 63.158 10.16 0.00 0.00 4.79
5867 8151 1.748403 GCTATGCATGAGGGGACGA 59.252 57.895 10.16 0.00 0.00 4.20
5868 8152 0.320247 GCTATGCATGAGGGGACGAG 60.320 60.000 10.16 0.00 0.00 4.18
5869 8153 1.332195 CTATGCATGAGGGGACGAGA 58.668 55.000 10.16 0.00 0.00 4.04
5870 8154 1.000283 CTATGCATGAGGGGACGAGAC 60.000 57.143 10.16 0.00 0.00 3.36
5871 8155 0.689080 ATGCATGAGGGGACGAGACT 60.689 55.000 0.00 0.00 0.00 3.24
5872 8156 0.904865 TGCATGAGGGGACGAGACTT 60.905 55.000 0.00 0.00 0.00 3.01
5873 8157 0.460987 GCATGAGGGGACGAGACTTG 60.461 60.000 0.00 0.00 0.00 3.16
5874 8158 0.460987 CATGAGGGGACGAGACTTGC 60.461 60.000 0.00 0.00 0.00 4.01
5875 8159 1.617947 ATGAGGGGACGAGACTTGCC 61.618 60.000 0.00 0.00 0.00 4.52
5876 8160 1.985116 GAGGGGACGAGACTTGCCT 60.985 63.158 0.00 0.00 0.00 4.75
5877 8161 2.232298 GAGGGGACGAGACTTGCCTG 62.232 65.000 0.00 0.00 0.00 4.85
5878 8162 2.435059 GGGACGAGACTTGCCTGC 60.435 66.667 0.00 0.00 0.00 4.85
5879 8163 2.659610 GGACGAGACTTGCCTGCT 59.340 61.111 0.00 0.00 0.00 4.24
5880 8164 1.446966 GGACGAGACTTGCCTGCTC 60.447 63.158 0.00 0.00 0.00 4.26
5881 8165 1.446966 GACGAGACTTGCCTGCTCC 60.447 63.158 0.00 0.00 0.00 4.70
5882 8166 2.125350 CGAGACTTGCCTGCTCCC 60.125 66.667 0.00 0.00 0.00 4.30
5883 8167 2.270527 GAGACTTGCCTGCTCCCC 59.729 66.667 0.00 0.00 0.00 4.81
5884 8168 3.672295 GAGACTTGCCTGCTCCCCG 62.672 68.421 0.00 0.00 0.00 5.73
5902 8186 3.422303 CGTGTGTGCCCATCCGTG 61.422 66.667 0.00 0.00 0.00 4.94
5903 8187 3.737172 GTGTGTGCCCATCCGTGC 61.737 66.667 0.00 0.00 0.00 5.34
5904 8188 3.952508 TGTGTGCCCATCCGTGCT 61.953 61.111 0.00 0.00 0.00 4.40
5905 8189 3.127533 GTGTGCCCATCCGTGCTC 61.128 66.667 0.00 0.00 0.00 4.26
5906 8190 4.408821 TGTGCCCATCCGTGCTCC 62.409 66.667 0.00 0.00 0.00 4.70
5918 8202 4.830765 TGCTCCCGCATACGTGGC 62.831 66.667 0.00 0.21 42.25 5.01
5919 8203 4.830765 GCTCCCGCATACGTGGCA 62.831 66.667 13.38 0.00 41.87 4.92
5920 8204 2.108976 CTCCCGCATACGTGGCAT 59.891 61.111 13.38 0.00 41.87 4.40
5921 8205 2.203001 TCCCGCATACGTGGCATG 60.203 61.111 4.87 4.87 41.87 4.06
5922 8206 2.203001 CCCGCATACGTGGCATGA 60.203 61.111 14.82 0.00 41.87 3.07
5923 8207 1.597854 CCCGCATACGTGGCATGAT 60.598 57.895 14.82 0.00 41.87 2.45
5924 8208 1.165907 CCCGCATACGTGGCATGATT 61.166 55.000 14.82 0.00 41.87 2.57
5925 8209 0.662619 CCGCATACGTGGCATGATTT 59.337 50.000 14.82 0.00 35.59 2.17
5926 8210 1.597690 CCGCATACGTGGCATGATTTG 60.598 52.381 14.82 8.58 35.59 2.32
5927 8211 1.330213 CGCATACGTGGCATGATTTGA 59.670 47.619 14.82 0.00 33.53 2.69
5928 8212 2.031769 CGCATACGTGGCATGATTTGAT 60.032 45.455 14.82 0.00 33.53 2.57
5929 8213 3.548616 CGCATACGTGGCATGATTTGATT 60.549 43.478 14.82 0.00 33.53 2.57
5930 8214 3.732219 GCATACGTGGCATGATTTGATTG 59.268 43.478 14.82 1.54 0.00 2.67
5931 8215 2.945447 ACGTGGCATGATTTGATTGG 57.055 45.000 14.82 0.00 0.00 3.16
5932 8216 2.445427 ACGTGGCATGATTTGATTGGA 58.555 42.857 14.82 0.00 0.00 3.53
5933 8217 2.824936 ACGTGGCATGATTTGATTGGAA 59.175 40.909 14.82 0.00 0.00 3.53
5934 8218 3.181397 CGTGGCATGATTTGATTGGAAC 58.819 45.455 0.00 0.00 0.00 3.62
5935 8219 3.367190 CGTGGCATGATTTGATTGGAACA 60.367 43.478 0.00 0.00 0.00 3.18
5949 8233 2.164338 TGGAACAAAATAAGACCCGGC 58.836 47.619 0.00 0.00 31.92 6.13
5950 8234 1.475280 GGAACAAAATAAGACCCGGCC 59.525 52.381 0.00 0.00 0.00 6.13
5951 8235 1.475280 GAACAAAATAAGACCCGGCCC 59.525 52.381 0.00 0.00 0.00 5.80
5952 8236 0.323999 ACAAAATAAGACCCGGCCCC 60.324 55.000 0.00 0.00 0.00 5.80
5953 8237 0.323908 CAAAATAAGACCCGGCCCCA 60.324 55.000 0.00 0.00 0.00 4.96
5954 8238 0.323999 AAAATAAGACCCGGCCCCAC 60.324 55.000 0.00 0.00 0.00 4.61
5955 8239 2.219449 AAATAAGACCCGGCCCCACC 62.219 60.000 0.00 0.00 0.00 4.61
5963 8247 3.663806 CGGCCCCACCCCCTTAAA 61.664 66.667 0.00 0.00 33.26 1.52
5964 8248 2.863275 GGCCCCACCCCCTTAAAA 59.137 61.111 0.00 0.00 0.00 1.52
5965 8249 1.394557 GGCCCCACCCCCTTAAAAT 59.605 57.895 0.00 0.00 0.00 1.82
5966 8250 0.689745 GGCCCCACCCCCTTAAAATC 60.690 60.000 0.00 0.00 0.00 2.17
5967 8251 0.041982 GCCCCACCCCCTTAAAATCA 59.958 55.000 0.00 0.00 0.00 2.57
5968 8252 1.964830 GCCCCACCCCCTTAAAATCAG 60.965 57.143 0.00 0.00 0.00 2.90
5969 8253 1.342975 CCCCACCCCCTTAAAATCAGG 60.343 57.143 0.00 0.00 0.00 3.86
5993 8277 6.716284 GGGGGAGATGATTAGATTAGAAAGG 58.284 44.000 0.00 0.00 0.00 3.11
5994 8278 6.502158 GGGGGAGATGATTAGATTAGAAAGGA 59.498 42.308 0.00 0.00 0.00 3.36
5995 8279 7.017651 GGGGGAGATGATTAGATTAGAAAGGAA 59.982 40.741 0.00 0.00 0.00 3.36
5996 8280 8.440771 GGGGAGATGATTAGATTAGAAAGGAAA 58.559 37.037 0.00 0.00 0.00 3.13
5997 8281 9.853177 GGGAGATGATTAGATTAGAAAGGAAAA 57.147 33.333 0.00 0.00 0.00 2.29
6025 8309 6.937436 AAAAAGACAACCGTAAGATGAAGT 57.063 33.333 0.00 0.00 43.02 3.01
6026 8310 5.924475 AAAGACAACCGTAAGATGAAGTG 57.076 39.130 0.00 0.00 43.02 3.16
6027 8311 3.926616 AGACAACCGTAAGATGAAGTGG 58.073 45.455 0.00 0.00 43.02 4.00
6028 8312 3.000727 GACAACCGTAAGATGAAGTGGG 58.999 50.000 0.00 0.00 43.02 4.61
6029 8313 2.635915 ACAACCGTAAGATGAAGTGGGA 59.364 45.455 0.00 0.00 43.02 4.37
6030 8314 3.262420 CAACCGTAAGATGAAGTGGGAG 58.738 50.000 0.00 0.00 43.02 4.30
6031 8315 1.207329 ACCGTAAGATGAAGTGGGAGC 59.793 52.381 0.00 0.00 43.02 4.70
6032 8316 1.207089 CCGTAAGATGAAGTGGGAGCA 59.793 52.381 0.00 0.00 43.02 4.26
6033 8317 2.271800 CGTAAGATGAAGTGGGAGCAC 58.728 52.381 0.00 0.00 43.02 4.40
6034 8318 2.271800 GTAAGATGAAGTGGGAGCACG 58.728 52.381 0.00 0.00 0.00 5.34
6035 8319 0.036010 AAGATGAAGTGGGAGCACGG 60.036 55.000 0.00 0.00 0.00 4.94
6036 8320 0.904865 AGATGAAGTGGGAGCACGGA 60.905 55.000 0.00 0.00 0.00 4.69
6037 8321 0.179000 GATGAAGTGGGAGCACGGAT 59.821 55.000 0.00 0.00 0.00 4.18
6038 8322 0.107508 ATGAAGTGGGAGCACGGATG 60.108 55.000 0.00 0.00 0.00 3.51
6039 8323 1.450312 GAAGTGGGAGCACGGATGG 60.450 63.158 0.00 0.00 0.00 3.51
6040 8324 2.876368 GAAGTGGGAGCACGGATGGG 62.876 65.000 0.00 0.00 0.00 4.00
6041 8325 3.399181 GTGGGAGCACGGATGGGA 61.399 66.667 0.00 0.00 0.00 4.37
6042 8326 3.083349 TGGGAGCACGGATGGGAG 61.083 66.667 0.00 0.00 0.00 4.30
6043 8327 4.554036 GGGAGCACGGATGGGAGC 62.554 72.222 0.00 0.00 0.00 4.70
6044 8328 3.785859 GGAGCACGGATGGGAGCA 61.786 66.667 0.00 0.00 0.00 4.26
6045 8329 2.507944 GAGCACGGATGGGAGCAT 59.492 61.111 0.00 0.00 0.00 3.79
6046 8330 1.890979 GAGCACGGATGGGAGCATG 60.891 63.158 0.00 0.00 0.00 4.06
6047 8331 2.903855 GCACGGATGGGAGCATGG 60.904 66.667 0.00 0.00 0.00 3.66
6048 8332 2.203252 CACGGATGGGAGCATGGG 60.203 66.667 0.00 0.00 0.00 4.00
6049 8333 3.492353 ACGGATGGGAGCATGGGG 61.492 66.667 0.00 0.00 0.00 4.96
6050 8334 3.170672 CGGATGGGAGCATGGGGA 61.171 66.667 0.00 0.00 0.00 4.81
6051 8335 2.842058 GGATGGGAGCATGGGGAG 59.158 66.667 0.00 0.00 0.00 4.30
6052 8336 2.838467 GGATGGGAGCATGGGGAGG 61.838 68.421 0.00 0.00 0.00 4.30
6053 8337 2.780040 ATGGGAGCATGGGGAGGG 60.780 66.667 0.00 0.00 0.00 4.30
6054 8338 3.367604 ATGGGAGCATGGGGAGGGA 62.368 63.158 0.00 0.00 0.00 4.20
6055 8339 3.174265 GGGAGCATGGGGAGGGAG 61.174 72.222 0.00 0.00 0.00 4.30
6056 8340 3.883549 GGAGCATGGGGAGGGAGC 61.884 72.222 0.00 0.00 0.00 4.70
6057 8341 3.092511 GAGCATGGGGAGGGAGCA 61.093 66.667 0.00 0.00 0.00 4.26
6058 8342 3.095163 AGCATGGGGAGGGAGCAG 61.095 66.667 0.00 0.00 0.00 4.24
6059 8343 4.201122 GCATGGGGAGGGAGCAGG 62.201 72.222 0.00 0.00 0.00 4.85
6060 8344 4.201122 CATGGGGAGGGAGCAGGC 62.201 72.222 0.00 0.00 0.00 4.85
6061 8345 4.765970 ATGGGGAGGGAGCAGGCA 62.766 66.667 0.00 0.00 0.00 4.75
6063 8347 4.120755 GGGGAGGGAGCAGGCAAG 62.121 72.222 0.00 0.00 0.00 4.01
6064 8348 4.811364 GGGAGGGAGCAGGCAAGC 62.811 72.222 0.00 0.00 0.00 4.01
6065 8349 4.811364 GGAGGGAGCAGGCAAGCC 62.811 72.222 2.02 2.02 34.23 4.35
6068 8352 4.722700 GGGAGCAGGCAAGCCGAA 62.723 66.667 5.28 0.00 41.95 4.30
6069 8353 2.439156 GGAGCAGGCAAGCCGAAT 60.439 61.111 5.28 0.00 41.95 3.34
6070 8354 2.476320 GGAGCAGGCAAGCCGAATC 61.476 63.158 5.28 4.84 41.95 2.52
6071 8355 2.439156 AGCAGGCAAGCCGAATCC 60.439 61.111 5.28 0.00 41.95 3.01
6113 8397 2.886523 TCTTGGCTCATGAACTTTGTGG 59.113 45.455 0.00 0.00 0.00 4.17
6155 8439 7.712264 TTAATTGTTGCTGATTTGTGGAAAG 57.288 32.000 0.00 0.00 0.00 2.62
6165 8449 7.231317 TGCTGATTTGTGGAAAGTCTTTTCTAT 59.769 33.333 5.21 0.00 41.92 1.98
6339 8710 7.615365 ACTTCTAGTCATTTGGCATGGAATTTA 59.385 33.333 0.00 0.00 0.00 1.40
6447 8824 1.081094 TGATGTGCAATGACTCAGCG 58.919 50.000 0.00 0.00 0.00 5.18
6601 9007 5.673337 TTAGATGGCTTCACGCATAAATC 57.327 39.130 3.03 0.00 41.67 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
138 139 6.272318 TGTAACTCTGAACAAAATTTGGCAG 58.728 36.000 18.41 18.41 38.04 4.85
569 789 8.623310 TCGTTTTCAAAACCTGTATCTTTTTC 57.377 30.769 7.44 0.00 0.00 2.29
643 863 4.449743 TCCACGACCGATCTAAACTTTTTG 59.550 41.667 0.00 0.00 0.00 2.44
658 878 7.208080 ACACTATAAGAACATAATCCACGACC 58.792 38.462 0.00 0.00 0.00 4.79
702 922 2.320587 GCACCACTGAGCGTTCCTG 61.321 63.158 0.00 0.00 0.00 3.86
704 924 1.237285 ATTGCACCACTGAGCGTTCC 61.237 55.000 0.00 0.00 0.00 3.62
800 1024 2.329379 GAAGGAGCAGTTACTGACGTG 58.671 52.381 17.40 0.00 32.44 4.49
810 1034 4.021925 GGCCCACGAAGGAGCAGT 62.022 66.667 0.00 0.00 41.22 4.40
901 1131 1.304134 GTTGGGAGGGCCGTTGATT 60.304 57.895 0.00 0.00 33.83 2.57
905 1135 4.280019 GTGGTTGGGAGGGCCGTT 62.280 66.667 0.00 0.00 33.83 4.44
908 1138 3.961414 TTCGTGGTTGGGAGGGCC 61.961 66.667 0.00 0.00 0.00 5.80
909 1139 2.671963 GTTCGTGGTTGGGAGGGC 60.672 66.667 0.00 0.00 0.00 5.19
910 1140 1.599797 GTGTTCGTGGTTGGGAGGG 60.600 63.158 0.00 0.00 0.00 4.30
911 1141 1.959226 CGTGTTCGTGGTTGGGAGG 60.959 63.158 0.00 0.00 0.00 4.30
912 1142 1.068417 TCGTGTTCGTGGTTGGGAG 59.932 57.895 0.00 0.00 38.33 4.30
913 1143 1.227321 GTCGTGTTCGTGGTTGGGA 60.227 57.895 0.00 0.00 38.33 4.37
1001 1235 2.233605 CTCCGTAACCGCACCCATCA 62.234 60.000 0.00 0.00 0.00 3.07
1013 1247 4.610605 TTGTTGTTGGATCTCTCCGTAA 57.389 40.909 0.00 0.00 45.37 3.18
1015 1249 3.485463 TTTGTTGTTGGATCTCTCCGT 57.515 42.857 0.00 0.00 45.37 4.69
1071 1305 0.405585 TCTTCTTCTTGGCCAAGGGG 59.594 55.000 38.60 30.20 38.88 4.79
1080 1317 3.492102 TCCACCACCTTCTTCTTCTTG 57.508 47.619 0.00 0.00 0.00 3.02
1161 1398 3.701542 AGTAGTCATCGCTGAAGGAATCA 59.298 43.478 0.00 0.00 36.38 2.57
1244 1487 1.459450 AAAATCGATGTTGGTCGGGG 58.541 50.000 0.00 0.00 41.74 5.73
1397 1643 2.111878 CCATCCCCACGGCAGATC 59.888 66.667 0.00 0.00 0.00 2.75
1740 2040 2.093783 GCGTCACGAAGTAGGGATTTTG 59.906 50.000 0.00 0.00 41.61 2.44
1807 2114 0.905809 ATCCAGGCCAAAGCAATGCA 60.906 50.000 8.35 0.00 42.56 3.96
1839 2146 2.124277 GGGTTTCCCTTAAGCACGAT 57.876 50.000 0.00 0.00 41.34 3.73
2095 2415 1.152183 AGACCAACGTACCCCACCT 60.152 57.895 0.00 0.00 0.00 4.00
2669 3475 0.037326 TGAGCGGTTCACCATCTGTC 60.037 55.000 0.00 0.00 35.14 3.51
3296 4116 1.144936 GGCCATCTGGAGAACGGAG 59.855 63.158 0.00 0.00 38.03 4.63
3713 4541 9.847224 TTCCATAAAAGTGAGGAAATAGATACC 57.153 33.333 0.00 0.00 37.22 2.73
4014 5218 3.865745 CAGGCTTCCATCTAACGTGTTAG 59.134 47.826 12.51 12.51 42.86 2.34
4056 5314 7.663081 TGCCTACATCAAATCAGATAATCCTTC 59.337 37.037 0.00 0.00 0.00 3.46
4059 5317 6.712095 TGTGCCTACATCAAATCAGATAATCC 59.288 38.462 0.00 0.00 0.00 3.01
4468 5738 6.988580 TCATCAGTGTATTTTCCAGCTGATAG 59.011 38.462 17.39 0.00 40.41 2.08
4673 5945 1.583054 ACAGTGCTCCGTTGTTCTTC 58.417 50.000 0.00 0.00 0.00 2.87
4699 5971 7.231317 TCTCCAAGTTCTGATAATTTTGCAGTT 59.769 33.333 0.00 0.00 0.00 3.16
4792 6121 9.569167 GCATACTTAGCGATAACATTATGTCTA 57.431 33.333 0.00 0.00 0.00 2.59
4803 6132 4.944048 TGAGCTTGCATACTTAGCGATAA 58.056 39.130 1.82 0.00 39.82 1.75
4946 6278 0.104487 GAGCTTACGGGGCCTTACTC 59.896 60.000 0.84 0.00 0.00 2.59
5293 7452 4.417437 TGTTCTCTACAACTTAGGCTCCT 58.583 43.478 0.00 0.00 32.64 3.69
5347 7539 6.373005 TCCAAGTCTACAAATGGAAGATGA 57.627 37.500 0.00 0.00 38.95 2.92
5630 7846 3.477530 GCCACACTATAGAAACATCCCC 58.522 50.000 6.78 0.00 0.00 4.81
5732 8007 6.494666 TGTAGTATAGGAAATCCCACAAGG 57.505 41.667 0.00 0.00 37.41 3.61
5753 8028 3.826729 GCACTAAGAGGGGTTTCAATTGT 59.173 43.478 5.13 0.00 0.00 2.71
5853 8137 0.904865 AAGTCTCGTCCCCTCATGCA 60.905 55.000 0.00 0.00 0.00 3.96
5854 8138 0.460987 CAAGTCTCGTCCCCTCATGC 60.461 60.000 0.00 0.00 0.00 4.06
5855 8139 0.460987 GCAAGTCTCGTCCCCTCATG 60.461 60.000 0.00 0.00 0.00 3.07
5856 8140 1.617947 GGCAAGTCTCGTCCCCTCAT 61.618 60.000 0.00 0.00 0.00 2.90
5857 8141 2.283529 GGCAAGTCTCGTCCCCTCA 61.284 63.158 0.00 0.00 0.00 3.86
5858 8142 1.985116 AGGCAAGTCTCGTCCCCTC 60.985 63.158 0.00 0.00 0.00 4.30
5859 8143 2.120718 AGGCAAGTCTCGTCCCCT 59.879 61.111 0.00 0.00 0.00 4.79
5860 8144 2.266055 CAGGCAAGTCTCGTCCCC 59.734 66.667 0.00 0.00 0.00 4.81
5861 8145 2.435059 GCAGGCAAGTCTCGTCCC 60.435 66.667 0.00 0.00 0.00 4.46
5862 8146 1.446966 GAGCAGGCAAGTCTCGTCC 60.447 63.158 0.00 0.00 0.00 4.79
5863 8147 1.446966 GGAGCAGGCAAGTCTCGTC 60.447 63.158 0.00 0.00 0.00 4.20
5864 8148 2.659610 GGAGCAGGCAAGTCTCGT 59.340 61.111 0.00 0.00 0.00 4.18
5865 8149 2.125350 GGGAGCAGGCAAGTCTCG 60.125 66.667 0.00 0.00 0.00 4.04
5866 8150 2.270527 GGGGAGCAGGCAAGTCTC 59.729 66.667 0.00 0.00 0.00 3.36
5867 8151 3.710722 CGGGGAGCAGGCAAGTCT 61.711 66.667 0.00 0.00 0.00 3.24
5885 8169 3.422303 CACGGATGGGCACACACG 61.422 66.667 12.06 12.06 35.82 4.49
5886 8170 3.737172 GCACGGATGGGCACACAC 61.737 66.667 0.00 0.00 0.00 3.82
5887 8171 3.899981 GAGCACGGATGGGCACACA 62.900 63.158 0.00 0.00 0.00 3.72
5888 8172 3.127533 GAGCACGGATGGGCACAC 61.128 66.667 0.00 0.00 0.00 3.82
5889 8173 4.408821 GGAGCACGGATGGGCACA 62.409 66.667 0.00 0.00 0.00 4.57
5903 8187 2.108976 ATGCCACGTATGCGGGAG 59.891 61.111 7.15 0.00 45.97 4.30
5904 8188 2.038814 ATCATGCCACGTATGCGGGA 62.039 55.000 7.15 5.28 45.97 5.14
5905 8189 1.165907 AATCATGCCACGTATGCGGG 61.166 55.000 8.39 2.48 43.45 6.13
5906 8190 0.662619 AAATCATGCCACGTATGCGG 59.337 50.000 8.39 0.00 43.45 5.69
5907 8191 1.330213 TCAAATCATGCCACGTATGCG 59.670 47.619 0.19 0.19 44.93 4.73
5908 8192 3.631145 ATCAAATCATGCCACGTATGC 57.369 42.857 2.46 2.46 0.00 3.14
5909 8193 4.036616 TCCAATCAAATCATGCCACGTATG 59.963 41.667 0.00 0.00 0.00 2.39
5910 8194 4.206375 TCCAATCAAATCATGCCACGTAT 58.794 39.130 0.00 0.00 0.00 3.06
5911 8195 3.615155 TCCAATCAAATCATGCCACGTA 58.385 40.909 0.00 0.00 0.00 3.57
5912 8196 2.445427 TCCAATCAAATCATGCCACGT 58.555 42.857 0.00 0.00 0.00 4.49
5913 8197 3.181397 GTTCCAATCAAATCATGCCACG 58.819 45.455 0.00 0.00 0.00 4.94
5914 8198 4.191033 TGTTCCAATCAAATCATGCCAC 57.809 40.909 0.00 0.00 0.00 5.01
5915 8199 4.886496 TTGTTCCAATCAAATCATGCCA 57.114 36.364 0.00 0.00 0.00 4.92
5916 8200 6.746745 ATTTTGTTCCAATCAAATCATGCC 57.253 33.333 0.00 0.00 35.25 4.40
5917 8201 9.153721 TCTTATTTTGTTCCAATCAAATCATGC 57.846 29.630 0.00 0.00 35.25 4.06
5919 8203 9.657419 GGTCTTATTTTGTTCCAATCAAATCAT 57.343 29.630 0.00 0.00 35.25 2.45
5920 8204 8.093927 GGGTCTTATTTTGTTCCAATCAAATCA 58.906 33.333 0.00 0.00 35.25 2.57
5921 8205 7.275560 CGGGTCTTATTTTGTTCCAATCAAATC 59.724 37.037 0.00 0.00 35.25 2.17
5922 8206 7.096551 CGGGTCTTATTTTGTTCCAATCAAAT 58.903 34.615 0.00 0.00 35.25 2.32
5923 8207 6.451393 CGGGTCTTATTTTGTTCCAATCAAA 58.549 36.000 0.00 0.00 33.76 2.69
5924 8208 5.047660 CCGGGTCTTATTTTGTTCCAATCAA 60.048 40.000 0.00 0.00 0.00 2.57
5925 8209 4.461081 CCGGGTCTTATTTTGTTCCAATCA 59.539 41.667 0.00 0.00 0.00 2.57
5926 8210 4.676986 GCCGGGTCTTATTTTGTTCCAATC 60.677 45.833 2.18 0.00 0.00 2.67
5927 8211 3.194755 GCCGGGTCTTATTTTGTTCCAAT 59.805 43.478 2.18 0.00 0.00 3.16
5928 8212 2.559231 GCCGGGTCTTATTTTGTTCCAA 59.441 45.455 2.18 0.00 0.00 3.53
5929 8213 2.164338 GCCGGGTCTTATTTTGTTCCA 58.836 47.619 2.18 0.00 0.00 3.53
5930 8214 1.475280 GGCCGGGTCTTATTTTGTTCC 59.525 52.381 2.18 0.00 0.00 3.62
5931 8215 1.475280 GGGCCGGGTCTTATTTTGTTC 59.525 52.381 2.18 0.00 0.00 3.18
5932 8216 1.552578 GGGCCGGGTCTTATTTTGTT 58.447 50.000 2.18 0.00 0.00 2.83
5933 8217 0.323999 GGGGCCGGGTCTTATTTTGT 60.324 55.000 2.18 0.00 0.00 2.83
5934 8218 0.323908 TGGGGCCGGGTCTTATTTTG 60.324 55.000 2.18 0.00 0.00 2.44
5935 8219 0.323999 GTGGGGCCGGGTCTTATTTT 60.324 55.000 2.18 0.00 0.00 1.82
5936 8220 1.305287 GTGGGGCCGGGTCTTATTT 59.695 57.895 2.18 0.00 0.00 1.40
5937 8221 2.686572 GGTGGGGCCGGGTCTTATT 61.687 63.158 2.18 0.00 0.00 1.40
5938 8222 3.094498 GGTGGGGCCGGGTCTTAT 61.094 66.667 2.18 0.00 0.00 1.73
5946 8230 2.523740 ATTTTAAGGGGGTGGGGCCG 62.524 60.000 0.00 0.00 38.44 6.13
5947 8231 0.689745 GATTTTAAGGGGGTGGGGCC 60.690 60.000 0.00 0.00 0.00 5.80
5948 8232 0.041982 TGATTTTAAGGGGGTGGGGC 59.958 55.000 0.00 0.00 0.00 5.80
5949 8233 1.342975 CCTGATTTTAAGGGGGTGGGG 60.343 57.143 0.00 0.00 0.00 4.96
5950 8234 2.159179 CCTGATTTTAAGGGGGTGGG 57.841 55.000 0.00 0.00 0.00 4.61
5969 8253 6.502158 TCCTTTCTAATCTAATCATCTCCCCC 59.498 42.308 0.00 0.00 0.00 5.40
5970 8254 7.560796 TCCTTTCTAATCTAATCATCTCCCC 57.439 40.000 0.00 0.00 0.00 4.81
5971 8255 9.853177 TTTTCCTTTCTAATCTAATCATCTCCC 57.147 33.333 0.00 0.00 0.00 4.30
6002 8286 6.238648 CCACTTCATCTTACGGTTGTCTTTTT 60.239 38.462 0.00 0.00 0.00 1.94
6003 8287 5.238650 CCACTTCATCTTACGGTTGTCTTTT 59.761 40.000 0.00 0.00 0.00 2.27
6004 8288 4.755123 CCACTTCATCTTACGGTTGTCTTT 59.245 41.667 0.00 0.00 0.00 2.52
6005 8289 4.315803 CCACTTCATCTTACGGTTGTCTT 58.684 43.478 0.00 0.00 0.00 3.01
6006 8290 3.306780 CCCACTTCATCTTACGGTTGTCT 60.307 47.826 0.00 0.00 0.00 3.41
6007 8291 3.000727 CCCACTTCATCTTACGGTTGTC 58.999 50.000 0.00 0.00 0.00 3.18
6008 8292 2.635915 TCCCACTTCATCTTACGGTTGT 59.364 45.455 0.00 0.00 0.00 3.32
6009 8293 3.262420 CTCCCACTTCATCTTACGGTTG 58.738 50.000 0.00 0.00 0.00 3.77
6010 8294 2.354805 GCTCCCACTTCATCTTACGGTT 60.355 50.000 0.00 0.00 0.00 4.44
6011 8295 1.207329 GCTCCCACTTCATCTTACGGT 59.793 52.381 0.00 0.00 0.00 4.83
6012 8296 1.207089 TGCTCCCACTTCATCTTACGG 59.793 52.381 0.00 0.00 0.00 4.02
6013 8297 2.271800 GTGCTCCCACTTCATCTTACG 58.728 52.381 0.00 0.00 38.93 3.18
6014 8298 2.271800 CGTGCTCCCACTTCATCTTAC 58.728 52.381 0.00 0.00 39.86 2.34
6015 8299 1.207089 CCGTGCTCCCACTTCATCTTA 59.793 52.381 0.00 0.00 39.86 2.10
6016 8300 0.036010 CCGTGCTCCCACTTCATCTT 60.036 55.000 0.00 0.00 39.86 2.40
6017 8301 0.904865 TCCGTGCTCCCACTTCATCT 60.905 55.000 0.00 0.00 39.86 2.90
6018 8302 0.179000 ATCCGTGCTCCCACTTCATC 59.821 55.000 0.00 0.00 39.86 2.92
6019 8303 0.107508 CATCCGTGCTCCCACTTCAT 60.108 55.000 0.00 0.00 39.86 2.57
6020 8304 1.296392 CATCCGTGCTCCCACTTCA 59.704 57.895 0.00 0.00 39.86 3.02
6021 8305 1.450312 CCATCCGTGCTCCCACTTC 60.450 63.158 0.00 0.00 39.86 3.01
6022 8306 2.671070 CCATCCGTGCTCCCACTT 59.329 61.111 0.00 0.00 39.86 3.16
6023 8307 3.402681 CCCATCCGTGCTCCCACT 61.403 66.667 0.00 0.00 39.86 4.00
6024 8308 3.391665 CTCCCATCCGTGCTCCCAC 62.392 68.421 0.00 0.00 38.62 4.61
6025 8309 3.083349 CTCCCATCCGTGCTCCCA 61.083 66.667 0.00 0.00 0.00 4.37
6026 8310 4.554036 GCTCCCATCCGTGCTCCC 62.554 72.222 0.00 0.00 0.00 4.30
6027 8311 3.112205 ATGCTCCCATCCGTGCTCC 62.112 63.158 0.00 0.00 0.00 4.70
6028 8312 1.890979 CATGCTCCCATCCGTGCTC 60.891 63.158 0.00 0.00 0.00 4.26
6029 8313 2.191375 CATGCTCCCATCCGTGCT 59.809 61.111 0.00 0.00 0.00 4.40
6030 8314 2.903855 CCATGCTCCCATCCGTGC 60.904 66.667 0.00 0.00 0.00 5.34
6031 8315 2.203252 CCCATGCTCCCATCCGTG 60.203 66.667 0.00 0.00 0.00 4.94
6032 8316 3.492353 CCCCATGCTCCCATCCGT 61.492 66.667 0.00 0.00 0.00 4.69
6033 8317 3.170672 TCCCCATGCTCCCATCCG 61.171 66.667 0.00 0.00 0.00 4.18
6034 8318 2.838467 CCTCCCCATGCTCCCATCC 61.838 68.421 0.00 0.00 0.00 3.51
6035 8319 2.838467 CCCTCCCCATGCTCCCATC 61.838 68.421 0.00 0.00 0.00 3.51
6036 8320 2.780040 CCCTCCCCATGCTCCCAT 60.780 66.667 0.00 0.00 0.00 4.00
6037 8321 4.037413 TCCCTCCCCATGCTCCCA 62.037 66.667 0.00 0.00 0.00 4.37
6038 8322 3.174265 CTCCCTCCCCATGCTCCC 61.174 72.222 0.00 0.00 0.00 4.30
6039 8323 3.883549 GCTCCCTCCCCATGCTCC 61.884 72.222 0.00 0.00 0.00 4.70
6040 8324 3.092511 TGCTCCCTCCCCATGCTC 61.093 66.667 0.00 0.00 0.00 4.26
6041 8325 3.095163 CTGCTCCCTCCCCATGCT 61.095 66.667 0.00 0.00 0.00 3.79
6042 8326 4.201122 CCTGCTCCCTCCCCATGC 62.201 72.222 0.00 0.00 0.00 4.06
6043 8327 4.201122 GCCTGCTCCCTCCCCATG 62.201 72.222 0.00 0.00 0.00 3.66
6044 8328 4.765970 TGCCTGCTCCCTCCCCAT 62.766 66.667 0.00 0.00 0.00 4.00
6046 8330 4.120755 CTTGCCTGCTCCCTCCCC 62.121 72.222 0.00 0.00 0.00 4.81
6047 8331 4.811364 GCTTGCCTGCTCCCTCCC 62.811 72.222 0.00 0.00 0.00 4.30
6048 8332 4.811364 GGCTTGCCTGCTCCCTCC 62.811 72.222 4.11 0.00 0.00 4.30
6051 8335 4.722700 TTCGGCTTGCCTGCTCCC 62.723 66.667 10.12 0.00 0.00 4.30
6052 8336 2.439156 ATTCGGCTTGCCTGCTCC 60.439 61.111 10.12 0.00 0.00 4.70
6053 8337 2.476320 GGATTCGGCTTGCCTGCTC 61.476 63.158 10.12 3.36 0.00 4.26
6054 8338 2.439156 GGATTCGGCTTGCCTGCT 60.439 61.111 10.12 0.00 0.00 4.24
6055 8339 2.439156 AGGATTCGGCTTGCCTGC 60.439 61.111 10.12 0.00 0.00 4.85
6056 8340 3.506108 CAGGATTCGGCTTGCCTG 58.494 61.111 10.12 0.00 41.62 4.85
6057 8341 2.439156 GCAGGATTCGGCTTGCCT 60.439 61.111 10.12 0.00 35.12 4.75
6058 8342 2.123428 ATGCAGGATTCGGCTTGCC 61.123 57.895 0.75 0.75 39.82 4.52
6059 8343 1.065273 CATGCAGGATTCGGCTTGC 59.935 57.895 0.00 0.00 40.82 4.01
6060 8344 0.661552 CTCATGCAGGATTCGGCTTG 59.338 55.000 0.00 5.76 39.36 4.01
6061 8345 3.091318 CTCATGCAGGATTCGGCTT 57.909 52.632 0.00 0.00 35.13 4.35
6062 8346 4.872357 CTCATGCAGGATTCGGCT 57.128 55.556 0.00 0.00 35.13 5.52
6070 8354 1.001764 TTGGTGCTCCTCATGCAGG 60.002 57.895 6.34 0.00 45.15 4.85
6071 8355 0.322277 ACTTGGTGCTCCTCATGCAG 60.322 55.000 6.34 0.00 41.41 4.41
6135 8419 4.402155 AGACTTTCCACAAATCAGCAACAA 59.598 37.500 0.00 0.00 0.00 2.83
6155 8439 6.402222 ACAGTCAGATCACCATAGAAAAGAC 58.598 40.000 0.00 0.00 0.00 3.01
6165 8449 4.681074 TGTGTTTACAGTCAGATCACCA 57.319 40.909 0.00 0.00 31.91 4.17
6339 8710 2.358322 AAATCAACAGGGAACACCGT 57.642 45.000 0.00 0.00 46.96 4.83
6447 8824 8.553459 TTCAGTCTAAGAGAAAATGGAATCAC 57.447 34.615 0.00 0.00 0.00 3.06
6584 8988 6.686378 AATCTAGAGATTTATGCGTGAAGCCA 60.686 38.462 0.00 0.00 42.76 4.75


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

AutoCloner maintained by Alex Coulton.