Multiple sequence alignment - TraesCS3D01G163600

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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 TraesCS3D01G163600 chr3D 100.000 3879 0 0 1 3879 134965428 134961550 0.000000e+00 7164.0
1 TraesCS3D01G163600 chr3D 97.210 1111 25 6 2770 3879 56896776 56895671 0.000000e+00 1875.0
2 TraesCS3D01G163600 chr3D 91.941 608 46 1 5 609 355607512 355608119 0.000000e+00 848.0
3 TraesCS3D01G163600 chr3A 94.571 1971 72 14 818 2772 149717268 149715317 0.000000e+00 3014.0
4 TraesCS3D01G163600 chr6B 89.812 1865 121 26 937 2772 134838166 134839990 0.000000e+00 2327.0
5 TraesCS3D01G163600 chr6B 97.778 45 1 0 839 883 134835100 134835144 1.160000e-10 78.7
6 TraesCS3D01G163600 chr7D 97.032 1112 19 7 2770 3879 66401071 66402170 0.000000e+00 1858.0
7 TraesCS3D01G163600 chr4D 96.783 1119 24 6 2769 3879 435853713 435852599 0.000000e+00 1857.0
8 TraesCS3D01G163600 chr4D 82.738 1176 154 27 1612 2772 374041175 374040034 0.000000e+00 1002.0
9 TraesCS3D01G163600 chr4D 79.902 1428 206 39 959 2329 97962519 97961116 0.000000e+00 972.0
10 TraesCS3D01G163600 chr4D 82.517 1184 134 30 1171 2329 98015647 98014512 0.000000e+00 972.0
11 TraesCS3D01G163600 chr4D 78.689 1586 223 65 1235 2772 435198920 435197402 0.000000e+00 950.0
12 TraesCS3D01G163600 chr4D 79.841 1384 189 50 996 2329 97970254 97968911 0.000000e+00 928.0
13 TraesCS3D01G163600 chr4D 84.906 424 61 1 2349 2772 98014452 98014032 3.580000e-115 425.0
14 TraesCS3D01G163600 chr4D 83.864 471 40 24 3068 3529 282786087 282785644 2.160000e-112 416.0
15 TraesCS3D01G163600 chr4D 89.562 297 29 1 2787 3083 282786397 282786103 3.660000e-100 375.0
16 TraesCS3D01G163600 chr4D 87.540 313 23 6 2772 3083 282809716 282809419 7.980000e-92 348.0
17 TraesCS3D01G163600 chr4D 76.566 495 71 23 1159 1608 98078744 98078250 3.010000e-56 230.0
18 TraesCS3D01G163600 chr4B 81.807 1627 219 37 1170 2772 460156847 460155274 0.000000e+00 1293.0
19 TraesCS3D01G163600 chr4B 80.307 1432 198 46 954 2329 139572263 139570860 0.000000e+00 1005.0
20 TraesCS3D01G163600 chr4B 83.022 1178 120 36 1171 2316 139593889 139592760 0.000000e+00 994.0
21 TraesCS3D01G163600 chr4B 79.530 1446 203 49 954 2329 139549302 139547880 0.000000e+00 944.0
22 TraesCS3D01G163600 chr4B 78.027 1652 246 72 1169 2772 535331733 535330151 0.000000e+00 931.0
23 TraesCS3D01G163600 chr4B 77.258 598 85 19 1224 1773 139627400 139626806 1.750000e-78 303.0
24 TraesCS3D01G163600 chr4B 75.610 656 105 26 1244 1851 132056445 132055797 1.370000e-69 274.0
25 TraesCS3D01G163600 chr6D 88.543 1091 79 14 1691 2772 61003519 61004572 0.000000e+00 1280.0
26 TraesCS3D01G163600 chr6D 88.663 838 58 20 837 1641 61002698 61003531 0.000000e+00 987.0
27 TraesCS3D01G163600 chr5A 92.702 877 38 10 3009 3879 528296004 528296860 0.000000e+00 1242.0
28 TraesCS3D01G163600 chr5A 92.857 252 16 2 2772 3023 528295742 528295991 7.920000e-97 364.0
29 TraesCS3D01G163600 chr5A 76.104 498 88 21 1241 1715 47120848 47121337 8.380000e-57 231.0
30 TraesCS3D01G163600 chr4A 82.264 1184 136 33 1171 2324 478191182 478192321 0.000000e+00 955.0
31 TraesCS3D01G163600 chr4A 77.290 1616 249 70 1209 2772 36607973 36606424 0.000000e+00 843.0
32 TraesCS3D01G163600 chr4A 78.438 1396 201 52 968 2293 478209492 478210857 0.000000e+00 819.0
33 TraesCS3D01G163600 chr4A 89.841 630 57 4 1 624 112860642 112860014 0.000000e+00 802.0
34 TraesCS3D01G163600 chr4A 83.962 424 65 1 2349 2772 478192386 478192806 1.680000e-108 403.0
35 TraesCS3D01G163600 chr6A 87.802 828 78 11 839 1646 77607038 77607862 0.000000e+00 948.0
36 TraesCS3D01G163600 chr1B 78.914 1437 193 68 971 2329 487405518 487406922 0.000000e+00 874.0
37 TraesCS3D01G163600 chr1B 91.028 613 50 3 1 610 391586118 391585508 0.000000e+00 822.0
38 TraesCS3D01G163600 chr5B 92.308 611 42 2 6 613 585030613 585030005 0.000000e+00 863.0
39 TraesCS3D01G163600 chr3B 91.340 612 50 1 1 609 393461677 393461066 0.000000e+00 833.0
40 TraesCS3D01G163600 chr3B 85.025 394 40 3 937 1311 772133591 772133984 2.190000e-102 383.0
41 TraesCS3D01G163600 chr3B 87.571 177 20 2 3531 3707 804742171 804742345 1.830000e-48 204.0
42 TraesCS3D01G163600 chr1D 91.514 601 48 1 5 602 290452124 290451524 0.000000e+00 824.0
43 TraesCS3D01G163600 chr1D 86.667 180 21 3 3529 3707 100080413 100080590 3.060000e-46 196.0
44 TraesCS3D01G163600 chr5D 90.850 612 52 2 1 609 34847208 34847818 0.000000e+00 817.0
45 TraesCS3D01G163600 chr5D 90.686 612 52 3 1 609 377941857 377942466 0.000000e+00 809.0
46 TraesCS3D01G163600 chr5D 75.697 646 115 32 1229 1847 58677816 58678446 6.340000e-73 285.0
47 TraesCS3D01G163600 chr2B 90.850 612 53 1 1 609 583536954 583536343 0.000000e+00 817.0
48 TraesCS3D01G163600 chr2B 87.791 172 21 0 3536 3707 206758983 206759154 6.570000e-48 202.0
49 TraesCS3D01G163600 chr1A 77.840 1435 217 58 968 2328 463218525 463219932 0.000000e+00 795.0
50 TraesCS3D01G163600 chr1A 92.464 491 25 7 2864 3353 108310011 108309532 0.000000e+00 691.0
51 TraesCS3D01G163600 chr1A 83.376 776 67 26 2772 3529 415305304 415304573 0.000000e+00 662.0
52 TraesCS3D01G163600 chr1A 84.518 394 42 3 940 1314 563281635 563281242 4.730000e-99 372.0
53 TraesCS3D01G163600 chr1A 92.486 173 12 1 2772 2944 108310180 108310009 2.990000e-61 246.0
54 TraesCS3D01G163600 chr2A 92.089 316 22 2 2769 3083 753101914 753101601 3.560000e-120 442.0
55 TraesCS3D01G163600 chr2A 84.429 289 31 10 3247 3529 753100045 753099765 4.940000e-69 272.0
56 TraesCS3D01G163600 chr2A 88.957 163 10 2 3069 3230 753101586 753101431 1.100000e-45 195.0
57 TraesCS3D01G163600 chr7B 87.861 173 19 2 3536 3707 295086462 295086291 6.570000e-48 202.0
58 TraesCS3D01G163600 chr2D 87.075 147 18 1 3561 3707 624917419 624917564 8.620000e-37 165.0


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 TraesCS3D01G163600 chr3D 134961550 134965428 3878 True 7164.00 7164 100.000000 1 3879 1 chr3D.!!$R2 3878
1 TraesCS3D01G163600 chr3D 56895671 56896776 1105 True 1875.00 1875 97.210000 2770 3879 1 chr3D.!!$R1 1109
2 TraesCS3D01G163600 chr3D 355607512 355608119 607 False 848.00 848 91.941000 5 609 1 chr3D.!!$F1 604
3 TraesCS3D01G163600 chr3A 149715317 149717268 1951 True 3014.00 3014 94.571000 818 2772 1 chr3A.!!$R1 1954
4 TraesCS3D01G163600 chr6B 134835100 134839990 4890 False 1202.85 2327 93.795000 839 2772 2 chr6B.!!$F1 1933
5 TraesCS3D01G163600 chr7D 66401071 66402170 1099 False 1858.00 1858 97.032000 2770 3879 1 chr7D.!!$F1 1109
6 TraesCS3D01G163600 chr4D 435852599 435853713 1114 True 1857.00 1857 96.783000 2769 3879 1 chr4D.!!$R7 1110
7 TraesCS3D01G163600 chr4D 374040034 374041175 1141 True 1002.00 1002 82.738000 1612 2772 1 chr4D.!!$R5 1160
8 TraesCS3D01G163600 chr4D 97961116 97962519 1403 True 972.00 972 79.902000 959 2329 1 chr4D.!!$R1 1370
9 TraesCS3D01G163600 chr4D 435197402 435198920 1518 True 950.00 950 78.689000 1235 2772 1 chr4D.!!$R6 1537
10 TraesCS3D01G163600 chr4D 97968911 97970254 1343 True 928.00 928 79.841000 996 2329 1 chr4D.!!$R2 1333
11 TraesCS3D01G163600 chr4D 98014032 98015647 1615 True 698.50 972 83.711500 1171 2772 2 chr4D.!!$R8 1601
12 TraesCS3D01G163600 chr4D 282785644 282786397 753 True 395.50 416 86.713000 2787 3529 2 chr4D.!!$R9 742
13 TraesCS3D01G163600 chr4B 460155274 460156847 1573 True 1293.00 1293 81.807000 1170 2772 1 chr4B.!!$R6 1602
14 TraesCS3D01G163600 chr4B 139570860 139572263 1403 True 1005.00 1005 80.307000 954 2329 1 chr4B.!!$R3 1375
15 TraesCS3D01G163600 chr4B 139592760 139593889 1129 True 994.00 994 83.022000 1171 2316 1 chr4B.!!$R4 1145
16 TraesCS3D01G163600 chr4B 139547880 139549302 1422 True 944.00 944 79.530000 954 2329 1 chr4B.!!$R2 1375
17 TraesCS3D01G163600 chr4B 535330151 535331733 1582 True 931.00 931 78.027000 1169 2772 1 chr4B.!!$R7 1603
18 TraesCS3D01G163600 chr4B 139626806 139627400 594 True 303.00 303 77.258000 1224 1773 1 chr4B.!!$R5 549
19 TraesCS3D01G163600 chr4B 132055797 132056445 648 True 274.00 274 75.610000 1244 1851 1 chr4B.!!$R1 607
20 TraesCS3D01G163600 chr6D 61002698 61004572 1874 False 1133.50 1280 88.603000 837 2772 2 chr6D.!!$F1 1935
21 TraesCS3D01G163600 chr5A 528295742 528296860 1118 False 803.00 1242 92.779500 2772 3879 2 chr5A.!!$F2 1107
22 TraesCS3D01G163600 chr4A 36606424 36607973 1549 True 843.00 843 77.290000 1209 2772 1 chr4A.!!$R1 1563
23 TraesCS3D01G163600 chr4A 478209492 478210857 1365 False 819.00 819 78.438000 968 2293 1 chr4A.!!$F1 1325
24 TraesCS3D01G163600 chr4A 112860014 112860642 628 True 802.00 802 89.841000 1 624 1 chr4A.!!$R2 623
25 TraesCS3D01G163600 chr4A 478191182 478192806 1624 False 679.00 955 83.113000 1171 2772 2 chr4A.!!$F2 1601
26 TraesCS3D01G163600 chr6A 77607038 77607862 824 False 948.00 948 87.802000 839 1646 1 chr6A.!!$F1 807
27 TraesCS3D01G163600 chr1B 487405518 487406922 1404 False 874.00 874 78.914000 971 2329 1 chr1B.!!$F1 1358
28 TraesCS3D01G163600 chr1B 391585508 391586118 610 True 822.00 822 91.028000 1 610 1 chr1B.!!$R1 609
29 TraesCS3D01G163600 chr5B 585030005 585030613 608 True 863.00 863 92.308000 6 613 1 chr5B.!!$R1 607
30 TraesCS3D01G163600 chr3B 393461066 393461677 611 True 833.00 833 91.340000 1 609 1 chr3B.!!$R1 608
31 TraesCS3D01G163600 chr1D 290451524 290452124 600 True 824.00 824 91.514000 5 602 1 chr1D.!!$R1 597
32 TraesCS3D01G163600 chr5D 34847208 34847818 610 False 817.00 817 90.850000 1 609 1 chr5D.!!$F1 608
33 TraesCS3D01G163600 chr5D 377941857 377942466 609 False 809.00 809 90.686000 1 609 1 chr5D.!!$F3 608
34 TraesCS3D01G163600 chr5D 58677816 58678446 630 False 285.00 285 75.697000 1229 1847 1 chr5D.!!$F2 618
35 TraesCS3D01G163600 chr2B 583536343 583536954 611 True 817.00 817 90.850000 1 609 1 chr2B.!!$R1 608
36 TraesCS3D01G163600 chr1A 463218525 463219932 1407 False 795.00 795 77.840000 968 2328 1 chr1A.!!$F1 1360
37 TraesCS3D01G163600 chr1A 415304573 415305304 731 True 662.00 662 83.376000 2772 3529 1 chr1A.!!$R1 757
38 TraesCS3D01G163600 chr1A 108309532 108310180 648 True 468.50 691 92.475000 2772 3353 2 chr1A.!!$R3 581
39 TraesCS3D01G163600 chr2A 753099765 753101914 2149 True 303.00 442 88.491667 2769 3529 3 chr2A.!!$R1 760

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
745 752 0.035343 GTTTGGTGGGCCTCCTAGTC 60.035 60.0 24.13 10.84 35.27 2.59 F
782 789 0.035881 CGATGGATCCCATGACCCAG 59.964 60.0 9.90 0.00 45.26 4.45 F
796 803 0.176680 ACCCAGCTTGTATCTCTGCG 59.823 55.0 0.00 0.00 0.00 5.18 F
800 807 0.248825 AGCTTGTATCTCTGCGAGCG 60.249 55.0 0.00 0.00 46.09 5.03 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2462 5655 1.132588 GCGACCGAATGCACTCTATC 58.867 55.000 0.00 0.0 0.00 2.08 R
2706 5899 2.168728 AGCTCCGAATGGAACCTACTTC 59.831 50.000 0.00 0.0 45.87 3.01 R
2814 6007 7.441458 ACAAATCCAACAGTTGTAGACTTAGAC 59.559 37.037 12.42 0.0 41.52 2.59 R
2930 6201 2.497273 GCCCATGTAACAAATGGAAGCT 59.503 45.455 4.00 0.0 46.44 3.74 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 1.275573 ACCGGCAAGTCTCTTTACTCC 59.724 52.381 0.00 0.00 0.00 3.85
38 39 8.195436 TCTTTACTCCTTCCGTAATACAAGATG 58.805 37.037 0.00 0.00 0.00 2.90
87 88 4.398247 CTTGCAAGCTCTTTACGATGTTC 58.602 43.478 14.65 0.00 0.00 3.18
128 129 4.905416 GAGATATCTCTCCGTCACACGGG 61.905 56.522 23.06 6.28 46.91 5.28
176 177 2.234908 CCAACCCAACAAACACCTTTGA 59.765 45.455 0.27 0.00 39.43 2.69
282 283 3.885724 TGCACGATCTCATGGTCTTAA 57.114 42.857 0.00 0.00 0.00 1.85
298 299 9.186323 CATGGTCTTAAGAATAGATACTTGACG 57.814 37.037 6.78 0.00 0.00 4.35
307 308 9.706691 AAGAATAGATACTTGACGTGAAGAAAA 57.293 29.630 21.91 6.71 0.00 2.29
342 343 5.584253 ACTGATACGATCAACTGCTAAGT 57.416 39.130 0.00 0.00 39.11 2.24
427 428 4.494091 ACTCATGTCCATGGTTAGGAAG 57.506 45.455 12.58 6.46 39.24 3.46
466 467 5.595257 TCAACGAGCTAGTCTAGTAGAGA 57.405 43.478 8.68 0.00 30.15 3.10
467 468 6.164417 TCAACGAGCTAGTCTAGTAGAGAT 57.836 41.667 8.68 0.00 36.29 2.75
469 470 7.049133 TCAACGAGCTAGTCTAGTAGAGATTT 58.951 38.462 8.68 0.00 36.29 2.17
602 609 5.044105 ACCAATTTCTTATTGCCTCTAGGGT 60.044 40.000 0.00 0.00 37.43 4.34
631 638 5.605564 TTAATATGTGTGTCAGTGTGTGC 57.394 39.130 0.00 0.00 0.00 4.57
632 639 1.496934 TATGTGTGTCAGTGTGTGCG 58.503 50.000 0.00 0.00 0.00 5.34
633 640 0.461870 ATGTGTGTCAGTGTGTGCGT 60.462 50.000 0.00 0.00 0.00 5.24
634 641 1.081556 TGTGTGTCAGTGTGTGCGTC 61.082 55.000 0.00 0.00 0.00 5.19
635 642 1.520564 TGTGTCAGTGTGTGCGTCC 60.521 57.895 0.00 0.00 0.00 4.79
636 643 2.279186 TGTCAGTGTGTGCGTCCG 60.279 61.111 0.00 0.00 0.00 4.79
637 644 2.279252 GTCAGTGTGTGCGTCCGT 60.279 61.111 0.00 0.00 0.00 4.69
638 645 1.881252 GTCAGTGTGTGCGTCCGTT 60.881 57.895 0.00 0.00 0.00 4.44
639 646 1.153529 TCAGTGTGTGCGTCCGTTT 60.154 52.632 0.00 0.00 0.00 3.60
640 647 1.011242 CAGTGTGTGCGTCCGTTTG 60.011 57.895 0.00 0.00 0.00 2.93
641 648 2.351888 GTGTGTGCGTCCGTTTGC 60.352 61.111 0.00 0.00 0.00 3.68
642 649 3.931130 TGTGTGCGTCCGTTTGCG 61.931 61.111 0.00 0.00 37.95 4.85
643 650 3.632107 GTGTGCGTCCGTTTGCGA 61.632 61.111 0.00 0.00 41.33 5.10
644 651 2.890961 TGTGCGTCCGTTTGCGAA 60.891 55.556 0.00 0.00 41.33 4.70
645 652 2.248135 TGTGCGTCCGTTTGCGAAT 61.248 52.632 0.00 0.00 41.33 3.34
646 653 0.944788 TGTGCGTCCGTTTGCGAATA 60.945 50.000 0.00 0.00 41.33 1.75
647 654 0.164217 GTGCGTCCGTTTGCGAATAA 59.836 50.000 0.00 0.00 41.33 1.40
648 655 0.164217 TGCGTCCGTTTGCGAATAAC 59.836 50.000 0.00 0.00 41.33 1.89
649 656 0.850391 GCGTCCGTTTGCGAATAACG 60.850 55.000 11.81 11.81 45.79 3.18
660 667 5.585500 TTGCGAATAACGATGTAATAGGC 57.415 39.130 0.00 0.00 45.77 3.93
661 668 3.671459 TGCGAATAACGATGTAATAGGCG 59.329 43.478 0.00 0.00 45.77 5.52
662 669 3.671928 GCGAATAACGATGTAATAGGCGT 59.328 43.478 0.00 0.00 45.77 5.68
663 670 4.149396 GCGAATAACGATGTAATAGGCGTT 59.851 41.667 0.00 0.00 46.92 4.84
664 671 5.595993 CGAATAACGATGTAATAGGCGTTG 58.404 41.667 0.00 0.00 45.26 4.10
665 672 5.400188 CGAATAACGATGTAATAGGCGTTGA 59.600 40.000 0.00 0.00 45.26 3.18
666 673 6.074729 CGAATAACGATGTAATAGGCGTTGAA 60.075 38.462 0.00 0.00 45.26 2.69
667 674 6.764877 ATAACGATGTAATAGGCGTTGAAG 57.235 37.500 0.00 0.00 45.26 3.02
668 675 4.380841 ACGATGTAATAGGCGTTGAAGA 57.619 40.909 0.00 0.00 32.42 2.87
669 676 4.110482 ACGATGTAATAGGCGTTGAAGAC 58.890 43.478 0.00 0.00 32.42 3.01
680 687 3.641439 CGTTGAAGACGCTGAATAAGG 57.359 47.619 0.00 0.00 45.86 2.69
681 688 2.222819 CGTTGAAGACGCTGAATAAGGC 60.223 50.000 0.00 0.00 45.86 4.35
682 689 3.003480 GTTGAAGACGCTGAATAAGGCT 58.997 45.455 0.00 0.00 0.00 4.58
683 690 3.334583 TGAAGACGCTGAATAAGGCTT 57.665 42.857 4.58 4.58 0.00 4.35
684 691 3.002791 TGAAGACGCTGAATAAGGCTTG 58.997 45.455 10.69 0.00 0.00 4.01
685 692 2.029838 AGACGCTGAATAAGGCTTGG 57.970 50.000 10.69 0.00 0.00 3.61
686 693 0.378610 GACGCTGAATAAGGCTTGGC 59.621 55.000 10.69 5.58 0.00 4.52
696 703 2.358247 GGCTTGGCCGAAACGAGA 60.358 61.111 0.00 0.00 39.62 4.04
697 704 2.391389 GGCTTGGCCGAAACGAGAG 61.391 63.158 0.00 0.00 39.62 3.20
698 705 2.391389 GCTTGGCCGAAACGAGAGG 61.391 63.158 0.00 0.00 0.00 3.69
699 706 1.741770 CTTGGCCGAAACGAGAGGG 60.742 63.158 0.00 0.00 0.00 4.30
700 707 3.248446 TTGGCCGAAACGAGAGGGG 62.248 63.158 0.00 0.00 0.00 4.79
701 708 3.387947 GGCCGAAACGAGAGGGGA 61.388 66.667 0.00 0.00 0.00 4.81
702 709 2.184579 GCCGAAACGAGAGGGGAG 59.815 66.667 0.00 0.00 0.00 4.30
703 710 2.184579 CCGAAACGAGAGGGGAGC 59.815 66.667 0.00 0.00 0.00 4.70
704 711 2.352032 CCGAAACGAGAGGGGAGCT 61.352 63.158 0.00 0.00 0.00 4.09
705 712 1.153745 CGAAACGAGAGGGGAGCTG 60.154 63.158 0.00 0.00 0.00 4.24
706 713 1.448717 GAAACGAGAGGGGAGCTGC 60.449 63.158 0.00 0.00 0.00 5.25
707 714 3.302347 AAACGAGAGGGGAGCTGCG 62.302 63.158 0.00 0.00 0.00 5.18
708 715 4.742649 ACGAGAGGGGAGCTGCGA 62.743 66.667 0.00 0.00 0.00 5.10
709 716 3.452786 CGAGAGGGGAGCTGCGAA 61.453 66.667 0.00 0.00 0.00 4.70
710 717 2.982130 GAGAGGGGAGCTGCGAAA 59.018 61.111 0.00 0.00 0.00 3.46
711 718 1.448717 GAGAGGGGAGCTGCGAAAC 60.449 63.158 0.00 0.00 0.00 2.78
712 719 2.172483 GAGAGGGGAGCTGCGAAACA 62.172 60.000 0.00 0.00 0.00 2.83
713 720 2.032681 AGGGGAGCTGCGAAACAC 59.967 61.111 0.00 0.00 0.00 3.32
714 721 2.281484 GGGGAGCTGCGAAACACA 60.281 61.111 0.00 0.00 0.00 3.72
715 722 2.328099 GGGGAGCTGCGAAACACAG 61.328 63.158 0.00 0.00 38.22 3.66
716 723 1.301716 GGGAGCTGCGAAACACAGA 60.302 57.895 0.00 0.00 37.32 3.41
717 724 1.294659 GGGAGCTGCGAAACACAGAG 61.295 60.000 0.00 0.00 37.32 3.35
718 725 0.319900 GGAGCTGCGAAACACAGAGA 60.320 55.000 0.00 0.00 37.32 3.10
719 726 1.066914 GAGCTGCGAAACACAGAGAG 58.933 55.000 0.00 0.00 37.32 3.20
720 727 0.676184 AGCTGCGAAACACAGAGAGA 59.324 50.000 0.00 0.00 37.32 3.10
721 728 1.274728 AGCTGCGAAACACAGAGAGAT 59.725 47.619 0.00 0.00 37.32 2.75
722 729 2.493675 AGCTGCGAAACACAGAGAGATA 59.506 45.455 0.00 0.00 37.32 1.98
723 730 2.857152 GCTGCGAAACACAGAGAGATAG 59.143 50.000 0.00 0.00 37.32 2.08
724 731 3.428180 GCTGCGAAACACAGAGAGATAGA 60.428 47.826 0.00 0.00 37.32 1.98
725 732 4.738124 CTGCGAAACACAGAGAGATAGAA 58.262 43.478 0.00 0.00 37.32 2.10
726 733 4.738124 TGCGAAACACAGAGAGATAGAAG 58.262 43.478 0.00 0.00 0.00 2.85
727 734 4.218635 TGCGAAACACAGAGAGATAGAAGT 59.781 41.667 0.00 0.00 0.00 3.01
728 735 5.164954 GCGAAACACAGAGAGATAGAAGTT 58.835 41.667 0.00 0.00 0.00 2.66
729 736 5.635700 GCGAAACACAGAGAGATAGAAGTTT 59.364 40.000 0.00 0.00 0.00 2.66
730 737 6.400515 GCGAAACACAGAGAGATAGAAGTTTG 60.401 42.308 0.00 0.00 0.00 2.93
731 738 6.090088 CGAAACACAGAGAGATAGAAGTTTGG 59.910 42.308 0.00 0.00 0.00 3.28
732 739 6.426646 AACACAGAGAGATAGAAGTTTGGT 57.573 37.500 0.00 0.00 0.00 3.67
733 740 5.788450 ACACAGAGAGATAGAAGTTTGGTG 58.212 41.667 0.00 0.00 0.00 4.17
734 741 5.174395 CACAGAGAGATAGAAGTTTGGTGG 58.826 45.833 0.00 0.00 0.00 4.61
735 742 4.223923 ACAGAGAGATAGAAGTTTGGTGGG 59.776 45.833 0.00 0.00 0.00 4.61
736 743 3.198853 AGAGAGATAGAAGTTTGGTGGGC 59.801 47.826 0.00 0.00 0.00 5.36
737 744 2.239907 AGAGATAGAAGTTTGGTGGGCC 59.760 50.000 0.00 0.00 0.00 5.80
738 745 2.239907 GAGATAGAAGTTTGGTGGGCCT 59.760 50.000 4.53 0.00 35.27 5.19
739 746 2.239907 AGATAGAAGTTTGGTGGGCCTC 59.760 50.000 4.53 0.00 35.27 4.70
740 747 0.696501 TAGAAGTTTGGTGGGCCTCC 59.303 55.000 17.79 17.79 35.27 4.30
741 748 1.068352 AGAAGTTTGGTGGGCCTCCT 61.068 55.000 24.13 4.60 35.27 3.69
742 749 0.696501 GAAGTTTGGTGGGCCTCCTA 59.303 55.000 24.13 15.08 35.27 2.94
743 750 0.698818 AAGTTTGGTGGGCCTCCTAG 59.301 55.000 24.13 0.00 35.27 3.02
744 751 0.475828 AGTTTGGTGGGCCTCCTAGT 60.476 55.000 24.13 12.73 35.27 2.57
745 752 0.035343 GTTTGGTGGGCCTCCTAGTC 60.035 60.000 24.13 10.84 35.27 2.59
746 753 1.205460 TTTGGTGGGCCTCCTAGTCC 61.205 60.000 24.13 6.88 35.27 3.85
747 754 3.155167 GGTGGGCCTCCTAGTCCG 61.155 72.222 17.38 0.00 0.00 4.79
748 755 2.043248 GTGGGCCTCCTAGTCCGA 60.043 66.667 4.53 0.00 0.00 4.55
749 756 2.128507 GTGGGCCTCCTAGTCCGAG 61.129 68.421 4.53 0.00 0.00 4.63
750 757 2.279408 GGGCCTCCTAGTCCGAGT 59.721 66.667 0.84 0.00 0.00 4.18
751 758 2.128507 GGGCCTCCTAGTCCGAGTG 61.129 68.421 0.84 0.00 0.00 3.51
752 759 2.787567 GGCCTCCTAGTCCGAGTGC 61.788 68.421 0.00 0.00 0.00 4.40
753 760 2.052690 GCCTCCTAGTCCGAGTGCA 61.053 63.158 0.00 0.00 0.00 4.57
754 761 1.395826 GCCTCCTAGTCCGAGTGCAT 61.396 60.000 0.00 0.00 0.00 3.96
755 762 0.671251 CCTCCTAGTCCGAGTGCATC 59.329 60.000 0.00 0.00 0.00 3.91
756 763 1.393603 CTCCTAGTCCGAGTGCATCA 58.606 55.000 0.00 0.00 0.00 3.07
757 764 1.336440 CTCCTAGTCCGAGTGCATCAG 59.664 57.143 0.00 0.00 0.00 2.90
758 765 1.107114 CCTAGTCCGAGTGCATCAGT 58.893 55.000 0.00 0.00 0.00 3.41
759 766 1.478510 CCTAGTCCGAGTGCATCAGTT 59.521 52.381 0.00 0.00 0.00 3.16
760 767 2.093973 CCTAGTCCGAGTGCATCAGTTT 60.094 50.000 0.00 0.00 0.00 2.66
761 768 1.800805 AGTCCGAGTGCATCAGTTTG 58.199 50.000 0.00 0.00 0.00 2.93
762 769 0.798776 GTCCGAGTGCATCAGTTTGG 59.201 55.000 0.00 0.00 0.00 3.28
763 770 0.955428 TCCGAGTGCATCAGTTTGGC 60.955 55.000 0.00 0.00 0.00 4.52
764 771 1.133253 CGAGTGCATCAGTTTGGCG 59.867 57.895 0.00 0.00 0.00 5.69
765 772 1.291184 CGAGTGCATCAGTTTGGCGA 61.291 55.000 0.00 0.00 0.00 5.54
766 773 1.089920 GAGTGCATCAGTTTGGCGAT 58.910 50.000 0.00 0.00 0.00 4.58
767 774 0.806868 AGTGCATCAGTTTGGCGATG 59.193 50.000 0.00 0.00 41.62 3.84
768 775 0.179156 GTGCATCAGTTTGGCGATGG 60.179 55.000 0.00 0.00 39.54 3.51
769 776 0.322366 TGCATCAGTTTGGCGATGGA 60.322 50.000 0.00 0.00 39.54 3.41
770 777 1.027357 GCATCAGTTTGGCGATGGAT 58.973 50.000 0.00 0.00 39.54 3.41
771 778 1.002033 GCATCAGTTTGGCGATGGATC 60.002 52.381 0.00 0.00 39.54 3.36
772 779 1.605710 CATCAGTTTGGCGATGGATCC 59.394 52.381 4.20 4.20 36.24 3.36
773 780 0.107214 TCAGTTTGGCGATGGATCCC 60.107 55.000 9.90 0.00 0.00 3.85
774 781 0.394216 CAGTTTGGCGATGGATCCCA 60.394 55.000 9.90 0.00 38.19 4.37
776 783 0.670162 GTTTGGCGATGGATCCCATG 59.330 55.000 9.90 0.00 45.26 3.66
777 784 0.550432 TTTGGCGATGGATCCCATGA 59.450 50.000 9.90 0.00 45.26 3.07
778 785 0.179020 TTGGCGATGGATCCCATGAC 60.179 55.000 9.90 0.67 45.26 3.06
779 786 1.302832 GGCGATGGATCCCATGACC 60.303 63.158 9.90 0.41 45.26 4.02
780 787 1.302832 GCGATGGATCCCATGACCC 60.303 63.158 9.90 0.00 45.26 4.46
781 788 2.055689 GCGATGGATCCCATGACCCA 62.056 60.000 9.90 0.00 45.26 4.51
782 789 0.035881 CGATGGATCCCATGACCCAG 59.964 60.000 9.90 0.00 45.26 4.45
783 790 0.251077 GATGGATCCCATGACCCAGC 60.251 60.000 9.90 0.00 45.26 4.85
784 791 0.700269 ATGGATCCCATGACCCAGCT 60.700 55.000 9.90 0.00 43.39 4.24
785 792 0.920763 TGGATCCCATGACCCAGCTT 60.921 55.000 9.90 0.00 0.00 3.74
786 793 0.466922 GGATCCCATGACCCAGCTTG 60.467 60.000 0.00 0.00 0.00 4.01
787 794 0.257039 GATCCCATGACCCAGCTTGT 59.743 55.000 0.00 0.00 0.00 3.16
788 795 1.490490 GATCCCATGACCCAGCTTGTA 59.510 52.381 0.00 0.00 0.00 2.41
789 796 1.595311 TCCCATGACCCAGCTTGTAT 58.405 50.000 0.00 0.00 0.00 2.29
790 797 1.490490 TCCCATGACCCAGCTTGTATC 59.510 52.381 0.00 0.00 0.00 2.24
791 798 1.492176 CCCATGACCCAGCTTGTATCT 59.508 52.381 0.00 0.00 0.00 1.98
792 799 2.486191 CCCATGACCCAGCTTGTATCTC 60.486 54.545 0.00 0.00 0.00 2.75
793 800 2.437281 CCATGACCCAGCTTGTATCTCT 59.563 50.000 0.00 0.00 0.00 3.10
794 801 3.464907 CATGACCCAGCTTGTATCTCTG 58.535 50.000 0.00 0.00 0.00 3.35
795 802 1.208052 TGACCCAGCTTGTATCTCTGC 59.792 52.381 0.00 0.00 0.00 4.26
796 803 0.176680 ACCCAGCTTGTATCTCTGCG 59.823 55.000 0.00 0.00 0.00 5.18
797 804 0.461548 CCCAGCTTGTATCTCTGCGA 59.538 55.000 0.00 0.00 0.00 5.10
798 805 1.537776 CCCAGCTTGTATCTCTGCGAG 60.538 57.143 0.00 0.00 0.00 5.03
799 806 1.207390 CAGCTTGTATCTCTGCGAGC 58.793 55.000 0.00 0.00 42.96 5.03
800 807 0.248825 AGCTTGTATCTCTGCGAGCG 60.249 55.000 0.00 0.00 46.09 5.03
801 808 0.526524 GCTTGTATCTCTGCGAGCGT 60.527 55.000 0.00 0.00 35.20 5.07
802 809 1.914634 CTTGTATCTCTGCGAGCGTT 58.085 50.000 0.00 0.00 0.00 4.84
803 810 2.263077 CTTGTATCTCTGCGAGCGTTT 58.737 47.619 0.00 0.00 0.00 3.60
804 811 3.435566 CTTGTATCTCTGCGAGCGTTTA 58.564 45.455 0.00 0.00 0.00 2.01
805 812 3.710326 TGTATCTCTGCGAGCGTTTAT 57.290 42.857 0.00 0.00 0.00 1.40
806 813 4.823790 TGTATCTCTGCGAGCGTTTATA 57.176 40.909 0.00 0.00 0.00 0.98
807 814 5.372547 TGTATCTCTGCGAGCGTTTATAT 57.627 39.130 0.00 0.00 0.00 0.86
808 815 5.769367 TGTATCTCTGCGAGCGTTTATATT 58.231 37.500 0.00 0.00 0.00 1.28
809 816 5.629435 TGTATCTCTGCGAGCGTTTATATTG 59.371 40.000 0.00 0.00 0.00 1.90
810 817 2.794910 TCTCTGCGAGCGTTTATATTGC 59.205 45.455 0.00 0.00 0.00 3.56
811 818 2.539688 CTCTGCGAGCGTTTATATTGCA 59.460 45.455 0.00 0.00 32.51 4.08
812 819 2.284150 TCTGCGAGCGTTTATATTGCAC 59.716 45.455 0.00 0.00 30.32 4.57
813 820 2.003301 TGCGAGCGTTTATATTGCACA 58.997 42.857 0.00 0.00 0.00 4.57
814 821 2.416893 TGCGAGCGTTTATATTGCACAA 59.583 40.909 0.00 0.00 0.00 3.33
815 822 3.120165 TGCGAGCGTTTATATTGCACAAA 60.120 39.130 0.00 0.00 0.00 2.83
816 823 3.237433 GCGAGCGTTTATATTGCACAAAC 59.763 43.478 0.00 0.00 0.00 2.93
823 830 6.586844 GCGTTTATATTGCACAAACCCTTAAA 59.413 34.615 0.00 0.00 0.00 1.52
919 3872 2.047061 TCGATGGATCTTTCCCGGAAT 58.953 47.619 0.73 0.00 41.83 3.01
1108 4102 2.438021 CCTTCCCTTGAATCCGGTGATA 59.562 50.000 0.00 0.00 0.00 2.15
1252 4258 4.477975 GACTCCGTCGACCGCCTG 62.478 72.222 10.58 0.00 34.38 4.85
2242 5395 2.664436 CGTTTCGGAGTCCGCAACC 61.664 63.158 32.06 19.07 46.86 3.77
2390 5583 5.247862 ACTGCATGTACATTTGACTGATCA 58.752 37.500 5.37 0.00 0.00 2.92
2417 5610 0.736325 AGTCTGCGAAAACCGATCGG 60.736 55.000 32.20 32.20 41.76 4.18
2462 5655 0.250424 TCTGGCATGAGTGTGGTGTG 60.250 55.000 0.00 0.00 0.00 3.82
2706 5899 3.118956 GGTCACTGTACCTTCTGATCCTG 60.119 52.174 0.00 0.00 36.53 3.86
2829 6022 7.607223 AGTTATCTCACGTCTAAGTCTACAACT 59.393 37.037 0.00 0.00 41.10 3.16
2922 6193 1.946768 TCGGCCTGTTTTCTTGTTCAG 59.053 47.619 0.00 0.00 0.00 3.02
2930 6201 6.624352 CTGTTTTCTTGTTCAGGAAGATGA 57.376 37.500 0.00 0.00 29.60 2.92
2961 6233 6.509418 TTTGTTACATGGGCTGTCTTATTC 57.491 37.500 0.00 0.00 39.39 1.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 5.229469 GTCACGACATCTTGTATTACGGAAG 59.771 44.000 0.00 0.00 0.00 3.46
38 39 3.858238 GTGCCTAATGAGTTAGTCACGAC 59.142 47.826 0.00 0.00 37.15 4.34
87 88 5.249780 TCTCTAGGCCCTCTCAGTAATAG 57.750 47.826 0.00 0.00 0.00 1.73
128 129 1.275291 TCGAGACTGGGATTTGTCACC 59.725 52.381 0.00 0.00 35.81 4.02
176 177 6.554982 TCATAAAGGTGCTCTACAGGTATCAT 59.445 38.462 0.00 0.00 0.00 2.45
247 248 0.250901 GTGCAACTCCCTGACACCAT 60.251 55.000 0.00 0.00 0.00 3.55
282 283 9.141400 GTTTTCTTCACGTCAAGTATCTATTCT 57.859 33.333 0.00 0.00 0.00 2.40
342 343 3.935818 TGGACAAGACCCAACTGTAAA 57.064 42.857 0.00 0.00 0.00 2.01
389 390 5.937540 ACATGAGTTGTCATTTGATAACGGA 59.062 36.000 12.58 5.87 46.44 4.69
415 416 6.302269 AGATGATTAAGGCTTCCTAACCATG 58.698 40.000 1.30 0.00 31.13 3.66
427 428 6.363577 TCGTTGATCAAAGATGATTAAGGC 57.636 37.500 18.50 0.00 46.30 4.35
615 622 1.079474 ACGCACACACTGACACACA 60.079 52.632 0.00 0.00 0.00 3.72
616 623 1.636340 GACGCACACACTGACACAC 59.364 57.895 0.00 0.00 0.00 3.82
617 624 1.520564 GGACGCACACACTGACACA 60.521 57.895 0.00 0.00 0.00 3.72
618 625 2.585869 CGGACGCACACACTGACAC 61.586 63.158 0.00 0.00 0.00 3.67
619 626 2.279186 CGGACGCACACACTGACA 60.279 61.111 0.00 0.00 0.00 3.58
620 627 1.426041 AAACGGACGCACACACTGAC 61.426 55.000 0.00 0.00 0.00 3.51
621 628 1.153529 AAACGGACGCACACACTGA 60.154 52.632 0.00 0.00 0.00 3.41
622 629 1.011242 CAAACGGACGCACACACTG 60.011 57.895 0.00 0.00 0.00 3.66
623 630 2.819552 GCAAACGGACGCACACACT 61.820 57.895 0.00 0.00 0.00 3.55
624 631 2.351888 GCAAACGGACGCACACAC 60.352 61.111 0.00 0.00 0.00 3.82
625 632 3.931130 CGCAAACGGACGCACACA 61.931 61.111 0.00 0.00 34.97 3.72
626 633 2.438385 ATTCGCAAACGGACGCACAC 62.438 55.000 0.00 0.00 40.63 3.82
627 634 0.944788 TATTCGCAAACGGACGCACA 60.945 50.000 0.00 0.00 40.63 4.57
628 635 0.164217 TTATTCGCAAACGGACGCAC 59.836 50.000 0.00 0.00 40.63 5.34
629 636 0.164217 GTTATTCGCAAACGGACGCA 59.836 50.000 0.00 0.00 40.63 5.24
630 637 0.850391 CGTTATTCGCAAACGGACGC 60.850 55.000 8.33 0.00 44.49 5.19
631 638 3.177468 CGTTATTCGCAAACGGACG 57.823 52.632 8.33 0.00 44.49 4.79
636 643 5.844396 GCCTATTACATCGTTATTCGCAAAC 59.156 40.000 0.00 0.00 39.67 2.93
637 644 5.332732 CGCCTATTACATCGTTATTCGCAAA 60.333 40.000 0.00 0.00 39.67 3.68
638 645 4.149221 CGCCTATTACATCGTTATTCGCAA 59.851 41.667 0.00 0.00 39.67 4.85
639 646 3.671459 CGCCTATTACATCGTTATTCGCA 59.329 43.478 0.00 0.00 39.67 5.10
640 647 3.671928 ACGCCTATTACATCGTTATTCGC 59.328 43.478 0.00 0.00 39.67 4.70
641 648 5.400188 TCAACGCCTATTACATCGTTATTCG 59.600 40.000 0.00 0.00 42.32 3.34
642 649 6.758593 TCAACGCCTATTACATCGTTATTC 57.241 37.500 0.00 0.00 42.32 1.75
643 650 6.982141 TCTTCAACGCCTATTACATCGTTATT 59.018 34.615 0.00 0.00 42.32 1.40
644 651 6.420008 GTCTTCAACGCCTATTACATCGTTAT 59.580 38.462 0.00 0.00 42.32 1.89
645 652 5.745294 GTCTTCAACGCCTATTACATCGTTA 59.255 40.000 0.00 0.00 42.32 3.18
646 653 4.565564 GTCTTCAACGCCTATTACATCGTT 59.434 41.667 0.00 0.00 44.62 3.85
647 654 4.110482 GTCTTCAACGCCTATTACATCGT 58.890 43.478 0.00 0.00 36.67 3.73
648 655 3.179795 CGTCTTCAACGCCTATTACATCG 59.820 47.826 0.00 0.00 45.76 3.84
649 656 4.694012 CGTCTTCAACGCCTATTACATC 57.306 45.455 0.00 0.00 45.76 3.06
661 668 3.003480 AGCCTTATTCAGCGTCTTCAAC 58.997 45.455 0.00 0.00 0.00 3.18
662 669 3.334583 AGCCTTATTCAGCGTCTTCAA 57.665 42.857 0.00 0.00 0.00 2.69
663 670 3.002791 CAAGCCTTATTCAGCGTCTTCA 58.997 45.455 0.00 0.00 0.00 3.02
664 671 2.352960 CCAAGCCTTATTCAGCGTCTTC 59.647 50.000 0.00 0.00 0.00 2.87
665 672 2.359900 CCAAGCCTTATTCAGCGTCTT 58.640 47.619 0.00 0.00 0.00 3.01
666 673 2.014068 GCCAAGCCTTATTCAGCGTCT 61.014 52.381 0.00 0.00 0.00 4.18
667 674 0.378610 GCCAAGCCTTATTCAGCGTC 59.621 55.000 0.00 0.00 0.00 5.19
668 675 1.032114 GGCCAAGCCTTATTCAGCGT 61.032 55.000 0.00 0.00 46.69 5.07
669 676 1.729881 GGCCAAGCCTTATTCAGCG 59.270 57.895 0.00 0.00 46.69 5.18
679 686 2.358247 TCTCGTTTCGGCCAAGCC 60.358 61.111 2.24 0.00 46.75 4.35
680 687 2.391389 CCTCTCGTTTCGGCCAAGC 61.391 63.158 2.24 0.00 0.00 4.01
681 688 1.741770 CCCTCTCGTTTCGGCCAAG 60.742 63.158 2.24 0.00 0.00 3.61
682 689 2.345991 CCCTCTCGTTTCGGCCAA 59.654 61.111 2.24 0.00 0.00 4.52
683 690 3.702048 CCCCTCTCGTTTCGGCCA 61.702 66.667 2.24 0.00 0.00 5.36
684 691 3.372554 CTCCCCTCTCGTTTCGGCC 62.373 68.421 0.00 0.00 0.00 6.13
685 692 2.184579 CTCCCCTCTCGTTTCGGC 59.815 66.667 0.00 0.00 0.00 5.54
686 693 2.184579 GCTCCCCTCTCGTTTCGG 59.815 66.667 0.00 0.00 0.00 4.30
687 694 1.153745 CAGCTCCCCTCTCGTTTCG 60.154 63.158 0.00 0.00 0.00 3.46
688 695 1.448717 GCAGCTCCCCTCTCGTTTC 60.449 63.158 0.00 0.00 0.00 2.78
689 696 2.665603 GCAGCTCCCCTCTCGTTT 59.334 61.111 0.00 0.00 0.00 3.60
690 697 3.764466 CGCAGCTCCCCTCTCGTT 61.764 66.667 0.00 0.00 0.00 3.85
691 698 4.742649 TCGCAGCTCCCCTCTCGT 62.743 66.667 0.00 0.00 0.00 4.18
692 699 3.006756 TTTCGCAGCTCCCCTCTCG 62.007 63.158 0.00 0.00 0.00 4.04
693 700 1.448717 GTTTCGCAGCTCCCCTCTC 60.449 63.158 0.00 0.00 0.00 3.20
694 701 2.217038 TGTTTCGCAGCTCCCCTCT 61.217 57.895 0.00 0.00 0.00 3.69
695 702 2.035442 GTGTTTCGCAGCTCCCCTC 61.035 63.158 0.00 0.00 0.00 4.30
696 703 2.032681 GTGTTTCGCAGCTCCCCT 59.967 61.111 0.00 0.00 0.00 4.79
697 704 2.281484 TGTGTTTCGCAGCTCCCC 60.281 61.111 0.00 0.00 0.00 4.81
698 705 1.294659 CTCTGTGTTTCGCAGCTCCC 61.295 60.000 5.57 0.00 41.21 4.30
699 706 0.319900 TCTCTGTGTTTCGCAGCTCC 60.320 55.000 5.57 0.00 41.21 4.70
700 707 1.066914 CTCTCTGTGTTTCGCAGCTC 58.933 55.000 5.57 0.00 41.21 4.09
701 708 0.676184 TCTCTCTGTGTTTCGCAGCT 59.324 50.000 5.57 0.00 41.21 4.24
702 709 1.719600 ATCTCTCTGTGTTTCGCAGC 58.280 50.000 5.57 0.00 41.21 5.25
703 710 4.362932 TCTATCTCTCTGTGTTTCGCAG 57.637 45.455 4.22 4.22 42.60 5.18
704 711 4.218635 ACTTCTATCTCTCTGTGTTTCGCA 59.781 41.667 0.00 0.00 0.00 5.10
705 712 4.739195 ACTTCTATCTCTCTGTGTTTCGC 58.261 43.478 0.00 0.00 0.00 4.70
706 713 6.090088 CCAAACTTCTATCTCTCTGTGTTTCG 59.910 42.308 0.00 0.00 0.00 3.46
707 714 6.931840 ACCAAACTTCTATCTCTCTGTGTTTC 59.068 38.462 0.00 0.00 0.00 2.78
708 715 6.708054 CACCAAACTTCTATCTCTCTGTGTTT 59.292 38.462 0.00 0.00 0.00 2.83
709 716 6.226787 CACCAAACTTCTATCTCTCTGTGTT 58.773 40.000 0.00 0.00 0.00 3.32
710 717 5.279708 CCACCAAACTTCTATCTCTCTGTGT 60.280 44.000 0.00 0.00 0.00 3.72
711 718 5.174395 CCACCAAACTTCTATCTCTCTGTG 58.826 45.833 0.00 0.00 0.00 3.66
712 719 4.223923 CCCACCAAACTTCTATCTCTCTGT 59.776 45.833 0.00 0.00 0.00 3.41
713 720 4.764172 CCCACCAAACTTCTATCTCTCTG 58.236 47.826 0.00 0.00 0.00 3.35
714 721 3.198853 GCCCACCAAACTTCTATCTCTCT 59.801 47.826 0.00 0.00 0.00 3.10
715 722 3.536570 GCCCACCAAACTTCTATCTCTC 58.463 50.000 0.00 0.00 0.00 3.20
716 723 2.239907 GGCCCACCAAACTTCTATCTCT 59.760 50.000 0.00 0.00 35.26 3.10
717 724 2.239907 AGGCCCACCAAACTTCTATCTC 59.760 50.000 0.00 0.00 39.06 2.75
718 725 2.239907 GAGGCCCACCAAACTTCTATCT 59.760 50.000 0.00 0.00 39.06 1.98
719 726 2.644676 GAGGCCCACCAAACTTCTATC 58.355 52.381 0.00 0.00 39.06 2.08
720 727 1.285078 GGAGGCCCACCAAACTTCTAT 59.715 52.381 11.18 0.00 39.06 1.98
721 728 0.696501 GGAGGCCCACCAAACTTCTA 59.303 55.000 11.18 0.00 39.06 2.10
722 729 1.068352 AGGAGGCCCACCAAACTTCT 61.068 55.000 17.23 0.00 39.06 2.85
723 730 0.696501 TAGGAGGCCCACCAAACTTC 59.303 55.000 17.23 0.00 39.06 3.01
724 731 0.698818 CTAGGAGGCCCACCAAACTT 59.301 55.000 17.23 0.86 39.06 2.66
725 732 0.475828 ACTAGGAGGCCCACCAAACT 60.476 55.000 17.23 1.19 39.06 2.66
726 733 0.035343 GACTAGGAGGCCCACCAAAC 60.035 60.000 17.23 4.08 39.06 2.93
727 734 1.205460 GGACTAGGAGGCCCACCAAA 61.205 60.000 17.23 5.64 37.46 3.28
728 735 1.615424 GGACTAGGAGGCCCACCAA 60.615 63.158 17.23 0.00 37.46 3.67
729 736 2.040606 GGACTAGGAGGCCCACCA 59.959 66.667 17.23 4.51 37.46 4.17
730 737 3.155167 CGGACTAGGAGGCCCACC 61.155 72.222 0.00 3.23 41.74 4.61
731 738 2.043248 TCGGACTAGGAGGCCCAC 60.043 66.667 0.00 0.00 41.74 4.61
732 739 2.279073 CTCGGACTAGGAGGCCCA 59.721 66.667 0.00 0.00 41.74 5.36
733 740 2.128507 CACTCGGACTAGGAGGCCC 61.129 68.421 0.00 0.00 41.74 5.80
734 741 2.787567 GCACTCGGACTAGGAGGCC 61.788 68.421 0.00 0.00 41.17 5.19
735 742 1.395826 ATGCACTCGGACTAGGAGGC 61.396 60.000 0.00 0.00 35.82 4.70
736 743 0.671251 GATGCACTCGGACTAGGAGG 59.329 60.000 0.00 0.00 35.82 4.30
737 744 1.336440 CTGATGCACTCGGACTAGGAG 59.664 57.143 0.00 0.00 37.54 3.69
738 745 1.341089 ACTGATGCACTCGGACTAGGA 60.341 52.381 10.69 0.00 34.09 2.94
739 746 1.107114 ACTGATGCACTCGGACTAGG 58.893 55.000 10.69 0.00 34.09 3.02
740 747 2.926200 CAAACTGATGCACTCGGACTAG 59.074 50.000 10.69 0.00 34.09 2.57
741 748 2.353704 CCAAACTGATGCACTCGGACTA 60.354 50.000 10.69 0.00 34.09 2.59
742 749 1.609061 CCAAACTGATGCACTCGGACT 60.609 52.381 10.69 0.00 34.09 3.85
743 750 0.798776 CCAAACTGATGCACTCGGAC 59.201 55.000 10.69 0.00 34.09 4.79
744 751 0.955428 GCCAAACTGATGCACTCGGA 60.955 55.000 10.69 0.00 34.09 4.55
745 752 1.503542 GCCAAACTGATGCACTCGG 59.496 57.895 0.00 0.00 36.23 4.63
746 753 1.133253 CGCCAAACTGATGCACTCG 59.867 57.895 0.00 0.00 0.00 4.18
747 754 1.089920 ATCGCCAAACTGATGCACTC 58.910 50.000 0.00 0.00 0.00 3.51
748 755 0.806868 CATCGCCAAACTGATGCACT 59.193 50.000 0.00 0.00 35.97 4.40
749 756 0.179156 CCATCGCCAAACTGATGCAC 60.179 55.000 0.00 0.00 40.48 4.57
750 757 0.322366 TCCATCGCCAAACTGATGCA 60.322 50.000 0.00 0.00 40.48 3.96
751 758 1.002033 GATCCATCGCCAAACTGATGC 60.002 52.381 0.00 0.00 40.48 3.91
752 759 1.605710 GGATCCATCGCCAAACTGATG 59.394 52.381 6.95 0.00 41.27 3.07
753 760 1.477558 GGGATCCATCGCCAAACTGAT 60.478 52.381 15.23 0.00 34.06 2.90
754 761 0.107214 GGGATCCATCGCCAAACTGA 60.107 55.000 15.23 0.00 34.06 3.41
755 762 0.394216 TGGGATCCATCGCCAAACTG 60.394 55.000 15.23 0.00 38.81 3.16
756 763 0.552848 ATGGGATCCATCGCCAAACT 59.447 50.000 15.23 0.00 40.74 2.66
757 764 0.670162 CATGGGATCCATCGCCAAAC 59.330 55.000 15.23 0.00 43.15 2.93
758 765 0.550432 TCATGGGATCCATCGCCAAA 59.450 50.000 15.23 0.00 43.15 3.28
759 766 0.179020 GTCATGGGATCCATCGCCAA 60.179 55.000 15.23 0.00 43.15 4.52
760 767 1.451504 GTCATGGGATCCATCGCCA 59.548 57.895 15.23 1.59 43.15 5.69
761 768 1.302832 GGTCATGGGATCCATCGCC 60.303 63.158 15.23 5.00 43.15 5.54
762 769 1.302832 GGGTCATGGGATCCATCGC 60.303 63.158 15.23 3.43 43.15 4.58
767 774 0.466922 CAAGCTGGGTCATGGGATCC 60.467 60.000 1.92 1.92 45.22 3.36
768 775 0.257039 ACAAGCTGGGTCATGGGATC 59.743 55.000 0.00 0.00 0.00 3.36
769 776 1.595311 TACAAGCTGGGTCATGGGAT 58.405 50.000 0.00 0.00 0.00 3.85
770 777 1.490490 GATACAAGCTGGGTCATGGGA 59.510 52.381 0.00 0.00 0.00 4.37
771 778 1.492176 AGATACAAGCTGGGTCATGGG 59.508 52.381 0.00 0.00 0.00 4.00
772 779 2.437281 AGAGATACAAGCTGGGTCATGG 59.563 50.000 0.00 0.00 0.00 3.66
773 780 3.464907 CAGAGATACAAGCTGGGTCATG 58.535 50.000 0.00 0.00 0.00 3.07
774 781 2.158842 GCAGAGATACAAGCTGGGTCAT 60.159 50.000 0.00 0.00 0.00 3.06
775 782 1.208052 GCAGAGATACAAGCTGGGTCA 59.792 52.381 0.00 0.00 0.00 4.02
776 783 1.804372 CGCAGAGATACAAGCTGGGTC 60.804 57.143 0.00 0.00 37.68 4.46
777 784 0.176680 CGCAGAGATACAAGCTGGGT 59.823 55.000 0.00 0.00 37.68 4.51
778 785 0.461548 TCGCAGAGATACAAGCTGGG 59.538 55.000 0.00 0.00 42.04 4.45
791 798 2.284150 GTGCAATATAAACGCTCGCAGA 59.716 45.455 0.00 0.00 0.00 4.26
792 799 2.030335 TGTGCAATATAAACGCTCGCAG 59.970 45.455 0.00 0.00 0.00 5.18
793 800 2.003301 TGTGCAATATAAACGCTCGCA 58.997 42.857 0.00 0.00 0.00 5.10
794 801 2.730183 TGTGCAATATAAACGCTCGC 57.270 45.000 0.00 0.00 0.00 5.03
795 802 3.783943 GGTTTGTGCAATATAAACGCTCG 59.216 43.478 0.00 0.00 40.19 5.03
796 803 4.102649 GGGTTTGTGCAATATAAACGCTC 58.897 43.478 18.38 7.12 44.42 5.03
797 804 4.104696 GGGTTTGTGCAATATAAACGCT 57.895 40.909 18.38 0.00 44.42 5.07
798 805 4.104696 AGGGTTTGTGCAATATAAACGC 57.895 40.909 18.17 18.17 46.53 4.84
799 806 8.522178 TTTTAAGGGTTTGTGCAATATAAACG 57.478 30.769 0.00 0.00 40.19 3.60
835 842 5.241662 GGGCTTGCCAACAATAAAATTGTA 58.758 37.500 14.04 0.00 34.61 2.41
892 3844 4.417426 GGAAAGATCCATCGAACCCTTA 57.583 45.455 0.00 0.00 45.79 2.69
919 3872 2.180276 GACTAGTGGGCTTTGAGAGGA 58.820 52.381 0.00 0.00 0.00 3.71
966 3944 1.286257 GGAGGAGAGGGGAAATTGCTT 59.714 52.381 0.00 0.00 0.00 3.91
2208 5361 2.281761 CGCACCTCCAAAGCCAGT 60.282 61.111 0.00 0.00 0.00 4.00
2390 5583 4.041723 CGGTTTTCGCAGACTGAAAATTT 58.958 39.130 6.65 0.00 44.44 1.82
2417 5610 1.518903 GGTTCAGCTTGCCAGTGGAC 61.519 60.000 15.20 4.87 0.00 4.02
2462 5655 1.132588 GCGACCGAATGCACTCTATC 58.867 55.000 0.00 0.00 0.00 2.08
2529 5722 4.762289 AGAAGTATTTGAGGAAGGCGAT 57.238 40.909 0.00 0.00 0.00 4.58
2706 5899 2.168728 AGCTCCGAATGGAACCTACTTC 59.831 50.000 0.00 0.00 45.87 3.01
2814 6007 7.441458 ACAAATCCAACAGTTGTAGACTTAGAC 59.559 37.037 12.42 0.00 41.52 2.59
2930 6201 2.497273 GCCCATGTAACAAATGGAAGCT 59.503 45.455 4.00 0.00 46.44 3.74
2961 6233 5.175856 CGGTGTAACAGTCAGAGAGAAAAAG 59.824 44.000 0.00 0.00 39.98 2.27


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

AutoCloner maintained by Alex Coulton.