Multiple sequence alignment - TraesCS6D01G203200

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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 TraesCS6D01G203200 chr6D 100.000 4057 0 0 1 4057 287027947 287023891 0.000000e+00 7492.0
1 TraesCS6D01G203200 chr6D 93.023 86 6 0 1445 1530 78083078 78083163 4.260000e-25 126.0
2 TraesCS6D01G203200 chr6D 91.304 92 8 0 1440 1531 309072498 309072589 4.260000e-25 126.0
3 TraesCS6D01G203200 chr6D 91.111 90 7 1 1445 1533 115771486 115771397 1.980000e-23 121.0
4 TraesCS6D01G203200 chr6D 91.860 86 7 0 1446 1531 163130334 163130249 1.980000e-23 121.0
5 TraesCS6D01G203200 chr6D 91.765 85 7 0 1446 1530 59623175 59623259 7.120000e-23 119.0
6 TraesCS6D01G203200 chr6D 90.110 91 8 1 1441 1531 134695799 134695710 2.560000e-22 117.0
7 TraesCS6D01G203200 chr6D 90.805 87 8 0 1445 1531 168293754 168293840 2.560000e-22 117.0
8 TraesCS6D01G203200 chr6D 89.247 93 9 1 1439 1530 334072631 334072723 9.210000e-22 115.0
9 TraesCS6D01G203200 chr6B 93.771 1461 54 13 1 1447 447893142 447891705 0.000000e+00 2159.0
10 TraesCS6D01G203200 chr6B 96.121 464 18 0 2682 3145 447890635 447890172 0.000000e+00 758.0
11 TraesCS6D01G203200 chr6B 96.262 428 14 2 2049 2475 447891301 447890875 0.000000e+00 701.0
12 TraesCS6D01G203200 chr6B 90.799 413 27 10 1529 1936 447891706 447891300 3.570000e-150 542.0
13 TraesCS6D01G203200 chr6B 97.790 181 3 1 2508 2687 447890876 447890696 1.090000e-80 311.0
14 TraesCS6D01G203200 chr6B 93.827 162 10 0 2545 2706 36133665 36133504 1.130000e-60 244.0
15 TraesCS6D01G203200 chr6B 93.939 132 6 2 1920 2050 601043045 601043175 8.890000e-47 198.0
16 TraesCS6D01G203200 chr6B 92.806 139 3 5 3164 3299 447890186 447890052 1.150000e-45 195.0
17 TraesCS6D01G203200 chr6B 92.593 135 6 4 1923 2054 141070072 141070205 1.490000e-44 191.0
18 TraesCS6D01G203200 chr6A 95.799 1333 36 10 1 1324 438578966 438580287 0.000000e+00 2134.0
19 TraesCS6D01G203200 chr6A 95.491 1109 33 8 2049 3145 438581176 438582279 0.000000e+00 1755.0
20 TraesCS6D01G203200 chr6A 96.627 415 13 1 1529 1943 438580480 438580893 0.000000e+00 688.0
21 TraesCS6D01G203200 chr6A 93.525 139 6 2 3164 3299 438582265 438582403 1.910000e-48 204.0
22 TraesCS6D01G203200 chr6A 93.750 128 8 0 1923 2050 610119891 610119764 4.140000e-45 193.0
23 TraesCS6D01G203200 chr6A 87.879 99 6 4 1227 1319 6418628 6418726 1.190000e-20 111.0
24 TraesCS6D01G203200 chr5D 97.128 766 19 2 3292 4056 382292811 382292048 0.000000e+00 1290.0
25 TraesCS6D01G203200 chr5D 91.304 92 8 0 1446 1537 111788728 111788637 4.260000e-25 126.0
26 TraesCS6D01G203200 chr3D 95.709 769 29 3 3290 4057 577157886 577157121 0.000000e+00 1234.0
27 TraesCS6D01G203200 chr3D 91.786 767 62 1 3290 4055 218257749 218256983 0.000000e+00 1066.0
28 TraesCS6D01G203200 chr3D 91.287 769 64 3 3290 4057 282329728 282330494 0.000000e+00 1046.0
29 TraesCS6D01G203200 chr3D 92.135 89 7 0 1442 1530 54370501 54370413 4.260000e-25 126.0
30 TraesCS6D01G203200 chr1B 91.948 770 61 1 3289 4057 632222553 632221784 0.000000e+00 1077.0
31 TraesCS6D01G203200 chr1B 90.897 769 69 1 3290 4057 15272886 15272118 0.000000e+00 1031.0
32 TraesCS6D01G203200 chr7B 91.536 768 60 5 3290 4055 31828193 31828957 0.000000e+00 1053.0
33 TraesCS6D01G203200 chr2B 91.777 754 56 4 3290 4038 737091341 737092093 0.000000e+00 1044.0
34 TraesCS6D01G203200 chr1D 91.169 770 63 4 3290 4057 18677189 18677955 0.000000e+00 1040.0
35 TraesCS6D01G203200 chr1D 93.939 165 10 0 2545 2709 46634454 46634618 2.420000e-62 250.0
36 TraesCS6D01G203200 chr1D 91.489 94 8 0 1437 1530 90207937 90208030 3.290000e-26 130.0
37 TraesCS6D01G203200 chr1D 92.308 91 7 0 1445 1535 252473145 252473235 3.290000e-26 130.0
38 TraesCS6D01G203200 chr1D 93.182 88 6 0 1446 1533 355081215 355081128 3.290000e-26 130.0
39 TraesCS6D01G203200 chr1D 93.103 87 6 0 1444 1530 440050444 440050358 1.180000e-25 128.0
40 TraesCS6D01G203200 chr2A 94.479 163 9 0 2545 2707 135473389 135473227 6.730000e-63 252.0
41 TraesCS6D01G203200 chr2A 98.276 116 2 0 1935 2050 78848936 78848821 1.910000e-48 204.0
42 TraesCS6D01G203200 chr2A 95.968 124 4 1 1927 2050 502330487 502330365 2.470000e-47 200.0
43 TraesCS6D01G203200 chr2A 95.200 125 4 2 1931 2054 609453942 609453819 3.200000e-46 196.0
44 TraesCS6D01G203200 chr7D 87.963 216 20 5 1227 1441 292256294 292256504 2.420000e-62 250.0
45 TraesCS6D01G203200 chr7D 87.500 216 21 5 1227 1441 436466670 436466880 1.130000e-60 244.0
46 TraesCS6D01G203200 chr7D 92.814 167 12 0 2545 2711 602916998 602916832 4.050000e-60 243.0
47 TraesCS6D01G203200 chr7D 94.186 86 5 0 1446 1531 5068086 5068171 9.150000e-27 132.0
48 TraesCS6D01G203200 chr4A 87.907 215 21 5 1227 1440 107208661 107208871 8.710000e-62 248.0
49 TraesCS6D01G203200 chr4D 93.865 163 10 0 2545 2707 479687260 479687422 3.130000e-61 246.0
50 TraesCS6D01G203200 chr4D 93.333 165 11 0 2542 2706 64390635 64390471 1.130000e-60 244.0
51 TraesCS6D01G203200 chr4D 91.398 93 4 4 1445 1535 434161613 434161703 1.530000e-24 124.0
52 TraesCS6D01G203200 chr4D 91.111 90 7 1 1445 1533 352142603 352142514 1.980000e-23 121.0
53 TraesCS6D01G203200 chr4D 89.474 95 10 0 1446 1540 478671936 478671842 1.980000e-23 121.0
54 TraesCS6D01G203200 chr4D 88.776 98 7 3 1435 1530 15150073 15150168 2.560000e-22 117.0
55 TraesCS6D01G203200 chr5A 93.827 162 10 0 2545 2706 320214244 320214405 1.130000e-60 244.0
56 TraesCS6D01G203200 chr5A 97.436 117 3 0 1935 2051 115018752 115018636 2.470000e-47 200.0
57 TraesCS6D01G203200 chr5A 93.333 90 6 0 1446 1535 657059755 657059844 2.540000e-27 134.0
58 TraesCS6D01G203200 chr1A 97.458 118 3 0 1934 2051 385891793 385891910 6.880000e-48 202.0
59 TraesCS6D01G203200 chr1A 91.304 92 8 0 1439 1530 91047451 91047542 4.260000e-25 126.0
60 TraesCS6D01G203200 chrUn 94.444 126 5 2 1926 2051 31310377 31310500 4.140000e-45 193.0
61 TraesCS6D01G203200 chrUn 90.625 96 9 0 1443 1538 68883265 68883360 1.180000e-25 128.0
62 TraesCS6D01G203200 chrUn 91.860 86 7 0 1445 1530 104668893 104668808 1.980000e-23 121.0
63 TraesCS6D01G203200 chrUn 90.909 88 8 0 1443 1530 31861207 31861294 7.120000e-23 119.0
64 TraesCS6D01G203200 chrUn 91.860 86 6 1 1446 1530 84435380 84435465 7.120000e-23 119.0
65 TraesCS6D01G203200 chrUn 88.764 89 9 1 1446 1534 153386242 153386155 1.540000e-19 108.0
66 TraesCS6D01G203200 chrUn 88.889 90 6 3 1444 1531 273925360 273925273 1.540000e-19 108.0
67 TraesCS6D01G203200 chrUn 89.412 85 9 0 1446 1530 461112284 461112368 1.540000e-19 108.0
68 TraesCS6D01G203200 chrUn 89.610 77 8 0 1452 1528 391472532 391472456 9.280000e-17 99.0
69 TraesCS6D01G203200 chrUn 86.170 94 8 4 1446 1537 266536266 266536176 3.340000e-16 97.1
70 TraesCS6D01G203200 chrUn 85.714 91 13 0 1444 1534 397152058 397151968 3.340000e-16 97.1
71 TraesCS6D01G203200 chr7A 94.253 87 5 0 1445 1531 556768060 556767974 2.540000e-27 134.0
72 TraesCS6D01G203200 chr5B 92.308 91 6 1 1445 1535 411947710 411947799 1.180000e-25 128.0
73 TraesCS6D01G203200 chr2D 89.796 98 6 4 1435 1530 270850352 270850257 5.510000e-24 122.0


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 TraesCS6D01G203200 chr6D 287023891 287027947 4056 True 7492.000000 7492 100.0000 1 4057 1 chr6D.!!$R4 4056
1 TraesCS6D01G203200 chr6B 447890052 447893142 3090 True 777.666667 2159 94.5915 1 3299 6 chr6B.!!$R2 3298
2 TraesCS6D01G203200 chr6A 438578966 438582403 3437 False 1195.250000 2134 95.3605 1 3299 4 chr6A.!!$F2 3298
3 TraesCS6D01G203200 chr5D 382292048 382292811 763 True 1290.000000 1290 97.1280 3292 4056 1 chr5D.!!$R2 764
4 TraesCS6D01G203200 chr3D 577157121 577157886 765 True 1234.000000 1234 95.7090 3290 4057 1 chr3D.!!$R3 767
5 TraesCS6D01G203200 chr3D 218256983 218257749 766 True 1066.000000 1066 91.7860 3290 4055 1 chr3D.!!$R2 765
6 TraesCS6D01G203200 chr3D 282329728 282330494 766 False 1046.000000 1046 91.2870 3290 4057 1 chr3D.!!$F1 767
7 TraesCS6D01G203200 chr1B 632221784 632222553 769 True 1077.000000 1077 91.9480 3289 4057 1 chr1B.!!$R2 768
8 TraesCS6D01G203200 chr1B 15272118 15272886 768 True 1031.000000 1031 90.8970 3290 4057 1 chr1B.!!$R1 767
9 TraesCS6D01G203200 chr7B 31828193 31828957 764 False 1053.000000 1053 91.5360 3290 4055 1 chr7B.!!$F1 765
10 TraesCS6D01G203200 chr2B 737091341 737092093 752 False 1044.000000 1044 91.7770 3290 4038 1 chr2B.!!$F1 748
11 TraesCS6D01G203200 chr1D 18677189 18677955 766 False 1040.000000 1040 91.1690 3290 4057 1 chr1D.!!$F1 767

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
978 993 0.026285 CGAAACCGCGCAAATCCTAG 59.974 55.0 8.75 0.0 0.00 3.02 F
1953 2050 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.0 5.23 0.0 44.66 2.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2033 2130 0.846015 TTATACTCCCTCCGTCCGGA 59.154 55.0 0.0 0.0 42.90 5.14 R
3160 3579 0.957395 CAGCATGACTGGGACACACC 60.957 60.0 0.0 0.0 43.19 4.16 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
303 304 0.402121 GACCAGGCCCTGAAAAGTCT 59.598 55.000 13.74 0.00 32.44 3.24
333 334 7.024340 TGACGATACTACAATAGGTGAAGAC 57.976 40.000 0.00 0.00 0.00 3.01
387 388 3.614092 AGACGATGGTTTTGATGATGCT 58.386 40.909 0.00 0.00 0.00 3.79
561 562 9.299963 TGTTGATAATTGTGTCAAAAGTTTCTG 57.700 29.630 4.87 0.00 36.72 3.02
569 570 5.465390 TGTGTCAAAAGTTTCTGTATCCTCG 59.535 40.000 0.00 0.00 0.00 4.63
662 664 7.433719 CGAGGTAAATTGTGTTTGATTTGTTGA 59.566 33.333 0.00 0.00 0.00 3.18
682 684 5.514274 TGAAGATCCAAAAACCAGACAAC 57.486 39.130 0.00 0.00 0.00 3.32
685 687 6.486657 TGAAGATCCAAAAACCAGACAACTAG 59.513 38.462 0.00 0.00 0.00 2.57
708 710 2.497675 TCTGTGGCTTATCTCGCTTTCT 59.502 45.455 0.00 0.00 0.00 2.52
709 711 3.699538 TCTGTGGCTTATCTCGCTTTCTA 59.300 43.478 0.00 0.00 0.00 2.10
717 719 7.336931 TGGCTTATCTCGCTTTCTAATCTTTTT 59.663 33.333 0.00 0.00 0.00 1.94
747 749 3.618774 GCAACTCTATTGCTGCAGC 57.381 52.632 31.89 31.89 41.87 5.25
748 750 0.247974 GCAACTCTATTGCTGCAGCG 60.248 55.000 32.11 19.51 45.83 5.18
749 751 1.081892 CAACTCTATTGCTGCAGCGT 58.918 50.000 32.11 24.92 45.83 5.07
751 753 2.868583 CAACTCTATTGCTGCAGCGTAT 59.131 45.455 32.11 27.53 45.83 3.06
752 754 2.477825 ACTCTATTGCTGCAGCGTATG 58.522 47.619 32.11 21.65 45.83 2.39
753 755 2.101415 ACTCTATTGCTGCAGCGTATGA 59.899 45.455 32.11 24.21 45.83 2.15
755 757 3.320626 TCTATTGCTGCAGCGTATGATC 58.679 45.455 32.11 5.47 45.83 2.92
756 758 0.863799 ATTGCTGCAGCGTATGATCG 59.136 50.000 32.11 0.00 45.83 3.69
757 759 0.460109 TTGCTGCAGCGTATGATCGT 60.460 50.000 32.11 0.00 45.83 3.73
758 760 0.460109 TGCTGCAGCGTATGATCGTT 60.460 50.000 32.11 0.00 45.83 3.85
759 761 1.202359 TGCTGCAGCGTATGATCGTTA 60.202 47.619 32.11 8.56 45.83 3.18
760 762 1.190323 GCTGCAGCGTATGATCGTTAC 59.810 52.381 25.23 0.00 0.00 2.50
900 905 3.127030 GCCTTATCAAAAGTTCAGTCCCG 59.873 47.826 0.00 0.00 0.00 5.14
975 990 0.179174 AATCGAAACCGCGCAAATCC 60.179 50.000 8.75 0.00 0.00 3.01
976 991 1.024579 ATCGAAACCGCGCAAATCCT 61.025 50.000 8.75 0.00 0.00 3.24
977 992 0.390078 TCGAAACCGCGCAAATCCTA 60.390 50.000 8.75 0.00 0.00 2.94
978 993 0.026285 CGAAACCGCGCAAATCCTAG 59.974 55.000 8.75 0.00 0.00 3.02
979 994 0.377203 GAAACCGCGCAAATCCTAGG 59.623 55.000 8.75 0.82 0.00 3.02
1327 1342 5.231147 GTCTTTTGCTAGAAGCTACTCATCG 59.769 44.000 0.00 0.00 42.97 3.84
1391 1477 0.172578 TGCCGTCATAGAGTTCGTGG 59.827 55.000 0.00 0.00 0.00 4.94
1419 1505 7.875041 TCAGAAAGAAAACAGATAGTCCTCTTG 59.125 37.037 0.00 0.00 33.64 3.02
1447 1533 3.643763 CAGACTGGACTGTGTGTTCTAC 58.356 50.000 0.00 0.00 33.73 2.59
1448 1534 3.319405 CAGACTGGACTGTGTGTTCTACT 59.681 47.826 0.00 0.00 33.73 2.57
1449 1535 3.570550 AGACTGGACTGTGTGTTCTACTC 59.429 47.826 0.00 0.00 0.00 2.59
1450 1536 2.628657 ACTGGACTGTGTGTTCTACTCC 59.371 50.000 0.00 0.00 0.00 3.85
1451 1537 1.968493 TGGACTGTGTGTTCTACTCCC 59.032 52.381 0.00 0.00 0.00 4.30
1452 1538 2.249139 GGACTGTGTGTTCTACTCCCT 58.751 52.381 0.00 0.00 0.00 4.20
1453 1539 2.231721 GGACTGTGTGTTCTACTCCCTC 59.768 54.545 0.00 0.00 0.00 4.30
1454 1540 2.231721 GACTGTGTGTTCTACTCCCTCC 59.768 54.545 0.00 0.00 0.00 4.30
1455 1541 1.202582 CTGTGTGTTCTACTCCCTCCG 59.797 57.143 0.00 0.00 0.00 4.63
1456 1542 1.254954 GTGTGTTCTACTCCCTCCGT 58.745 55.000 0.00 0.00 0.00 4.69
1457 1543 1.201880 GTGTGTTCTACTCCCTCCGTC 59.798 57.143 0.00 0.00 0.00 4.79
1458 1544 0.816373 GTGTTCTACTCCCTCCGTCC 59.184 60.000 0.00 0.00 0.00 4.79
1459 1545 0.324091 TGTTCTACTCCCTCCGTCCC 60.324 60.000 0.00 0.00 0.00 4.46
1460 1546 0.324091 GTTCTACTCCCTCCGTCCCA 60.324 60.000 0.00 0.00 0.00 4.37
1461 1547 0.635009 TTCTACTCCCTCCGTCCCAT 59.365 55.000 0.00 0.00 0.00 4.00
1462 1548 1.526315 TCTACTCCCTCCGTCCCATA 58.474 55.000 0.00 0.00 0.00 2.74
1463 1549 1.854939 TCTACTCCCTCCGTCCCATAA 59.145 52.381 0.00 0.00 0.00 1.90
1464 1550 2.449730 TCTACTCCCTCCGTCCCATAAT 59.550 50.000 0.00 0.00 0.00 1.28
1465 1551 3.659195 TCTACTCCCTCCGTCCCATAATA 59.341 47.826 0.00 0.00 0.00 0.98
1466 1552 3.562108 ACTCCCTCCGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
1467 1553 4.687262 ACTCCCTCCGTCCCATAATATA 57.313 45.455 0.00 0.00 0.00 0.86
1468 1554 5.019657 ACTCCCTCCGTCCCATAATATAA 57.980 43.478 0.00 0.00 0.00 0.98
1469 1555 5.024118 ACTCCCTCCGTCCCATAATATAAG 58.976 45.833 0.00 0.00 0.00 1.73
1470 1556 5.222484 ACTCCCTCCGTCCCATAATATAAGA 60.222 44.000 0.00 0.00 0.00 2.10
1471 1557 5.269991 TCCCTCCGTCCCATAATATAAGAG 58.730 45.833 0.00 0.00 0.00 2.85
1472 1558 4.141914 CCCTCCGTCCCATAATATAAGAGC 60.142 50.000 0.00 0.00 0.00 4.09
1473 1559 4.466370 CCTCCGTCCCATAATATAAGAGCA 59.534 45.833 0.00 0.00 0.00 4.26
1474 1560 5.129485 CCTCCGTCCCATAATATAAGAGCAT 59.871 44.000 0.00 0.00 0.00 3.79
1475 1561 6.352222 CCTCCGTCCCATAATATAAGAGCATT 60.352 42.308 0.00 0.00 0.00 3.56
1476 1562 7.016153 TCCGTCCCATAATATAAGAGCATTT 57.984 36.000 0.00 0.00 0.00 2.32
1477 1563 7.458397 TCCGTCCCATAATATAAGAGCATTTT 58.542 34.615 0.00 0.00 0.00 1.82
1478 1564 7.942341 TCCGTCCCATAATATAAGAGCATTTTT 59.058 33.333 0.00 0.00 0.00 1.94
1497 1583 5.617528 TTTTTACACTAGTGTCCAGTCCA 57.382 39.130 31.11 10.04 43.74 4.02
1498 1584 5.617528 TTTTACACTAGTGTCCAGTCCAA 57.382 39.130 31.11 15.54 43.74 3.53
1499 1585 5.617528 TTTACACTAGTGTCCAGTCCAAA 57.382 39.130 31.11 20.14 43.74 3.28
1500 1586 5.617528 TTACACTAGTGTCCAGTCCAAAA 57.382 39.130 31.11 14.11 43.74 2.44
1501 1587 3.805207 ACACTAGTGTCCAGTCCAAAAC 58.195 45.455 22.95 0.00 40.24 2.43
1502 1588 2.800544 CACTAGTGTCCAGTCCAAAACG 59.199 50.000 15.06 0.00 0.00 3.60
1503 1589 1.798813 CTAGTGTCCAGTCCAAAACGC 59.201 52.381 0.00 0.00 0.00 4.84
1504 1590 0.180406 AGTGTCCAGTCCAAAACGCT 59.820 50.000 0.00 0.00 0.00 5.07
1505 1591 0.586802 GTGTCCAGTCCAAAACGCTC 59.413 55.000 0.00 0.00 0.00 5.03
1506 1592 0.468226 TGTCCAGTCCAAAACGCTCT 59.532 50.000 0.00 0.00 0.00 4.09
1507 1593 1.134220 TGTCCAGTCCAAAACGCTCTT 60.134 47.619 0.00 0.00 0.00 2.85
1508 1594 2.103432 TGTCCAGTCCAAAACGCTCTTA 59.897 45.455 0.00 0.00 0.00 2.10
1509 1595 3.244422 TGTCCAGTCCAAAACGCTCTTAT 60.244 43.478 0.00 0.00 0.00 1.73
1510 1596 4.020928 TGTCCAGTCCAAAACGCTCTTATA 60.021 41.667 0.00 0.00 0.00 0.98
1511 1597 5.116882 GTCCAGTCCAAAACGCTCTTATAT 58.883 41.667 0.00 0.00 0.00 0.86
1512 1598 5.585047 GTCCAGTCCAAAACGCTCTTATATT 59.415 40.000 0.00 0.00 0.00 1.28
1513 1599 6.759827 GTCCAGTCCAAAACGCTCTTATATTA 59.240 38.462 0.00 0.00 0.00 0.98
1514 1600 7.441458 GTCCAGTCCAAAACGCTCTTATATTAT 59.559 37.037 0.00 0.00 0.00 1.28
1515 1601 7.441157 TCCAGTCCAAAACGCTCTTATATTATG 59.559 37.037 0.00 0.00 0.00 1.90
1516 1602 7.307989 CCAGTCCAAAACGCTCTTATATTATGG 60.308 40.741 0.00 0.00 0.00 2.74
1517 1603 6.710744 AGTCCAAAACGCTCTTATATTATGGG 59.289 38.462 0.00 0.00 0.00 4.00
1518 1604 6.708949 GTCCAAAACGCTCTTATATTATGGGA 59.291 38.462 0.00 0.00 0.00 4.37
1519 1605 6.708949 TCCAAAACGCTCTTATATTATGGGAC 59.291 38.462 0.00 0.00 0.00 4.46
1520 1606 6.347402 CCAAAACGCTCTTATATTATGGGACG 60.347 42.308 0.00 0.00 0.00 4.79
1521 1607 4.451629 ACGCTCTTATATTATGGGACGG 57.548 45.455 0.00 0.00 0.00 4.79
1522 1608 4.084287 ACGCTCTTATATTATGGGACGGA 58.916 43.478 0.00 0.00 0.00 4.69
1523 1609 4.082354 ACGCTCTTATATTATGGGACGGAC 60.082 45.833 0.00 0.00 0.00 4.79
1524 1610 4.421948 GCTCTTATATTATGGGACGGACG 58.578 47.826 0.00 0.00 0.00 4.79
1525 1611 4.677250 GCTCTTATATTATGGGACGGACGG 60.677 50.000 0.00 0.00 0.00 4.79
1526 1612 4.665451 TCTTATATTATGGGACGGACGGA 58.335 43.478 0.00 0.00 0.00 4.69
1527 1613 4.703575 TCTTATATTATGGGACGGACGGAG 59.296 45.833 0.00 0.00 0.00 4.63
1560 1646 6.046593 TCTTGACGTGGATGGTGTATTAATC 58.953 40.000 0.00 0.00 0.00 1.75
1561 1647 5.346181 TGACGTGGATGGTGTATTAATCA 57.654 39.130 0.00 0.00 0.00 2.57
1607 1693 6.923199 ATGTGAAGAAATGGACTGGAATTT 57.077 33.333 0.00 0.00 0.00 1.82
1699 1796 3.055819 GGTCATAGTGGGATGCACGATAT 60.056 47.826 0.00 0.00 0.00 1.63
1733 1830 7.669089 TCATAGGTTGGTATGTTAGATGACA 57.331 36.000 0.00 0.00 32.93 3.58
1871 1968 6.024552 TGGATGTTTTATGAGCTTGGAAAC 57.975 37.500 0.00 0.00 0.00 2.78
1945 2042 6.496144 AAAAATATTAGCTACTCCCTCCGT 57.504 37.500 0.00 0.00 0.00 4.69
1946 2043 5.725325 AAATATTAGCTACTCCCTCCGTC 57.275 43.478 0.00 0.00 0.00 4.79
1947 2044 1.998222 ATTAGCTACTCCCTCCGTCC 58.002 55.000 0.00 0.00 0.00 4.79
1948 2045 0.465097 TTAGCTACTCCCTCCGTCCG 60.465 60.000 0.00 0.00 0.00 4.79
1949 2046 2.335092 TAGCTACTCCCTCCGTCCGG 62.335 65.000 0.00 0.00 0.00 5.14
1953 2050 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
1955 2052 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
1956 2053 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
1958 2055 1.472728 CCCTCCGTCCGGAAATACTTG 60.473 57.143 5.23 0.00 44.66 3.16
1959 2056 1.206371 CCTCCGTCCGGAAATACTTGT 59.794 52.381 5.23 0.00 44.66 3.16
1960 2057 2.537401 CTCCGTCCGGAAATACTTGTC 58.463 52.381 5.23 0.00 44.66 3.18
1962 2059 2.564062 TCCGTCCGGAAATACTTGTCTT 59.436 45.455 5.23 0.00 42.05 3.01
1963 2060 3.763360 TCCGTCCGGAAATACTTGTCTTA 59.237 43.478 5.23 0.00 42.05 2.10
1964 2061 4.110482 CCGTCCGGAAATACTTGTCTTAG 58.890 47.826 5.23 0.00 37.50 2.18
1965 2062 4.142315 CCGTCCGGAAATACTTGTCTTAGA 60.142 45.833 5.23 0.00 37.50 2.10
1966 2063 5.404946 CGTCCGGAAATACTTGTCTTAGAA 58.595 41.667 5.23 0.00 0.00 2.10
1967 2064 5.865552 CGTCCGGAAATACTTGTCTTAGAAA 59.134 40.000 5.23 0.00 0.00 2.52
1968 2065 6.534079 CGTCCGGAAATACTTGTCTTAGAAAT 59.466 38.462 5.23 0.00 0.00 2.17
1969 2066 7.464178 CGTCCGGAAATACTTGTCTTAGAAATG 60.464 40.741 5.23 0.00 0.00 2.32
1970 2067 6.821665 TCCGGAAATACTTGTCTTAGAAATGG 59.178 38.462 0.00 0.00 0.00 3.16
1971 2068 6.598064 CCGGAAATACTTGTCTTAGAAATGGT 59.402 38.462 0.00 0.00 0.00 3.55
1972 2069 7.120726 CCGGAAATACTTGTCTTAGAAATGGTT 59.879 37.037 0.00 0.00 0.00 3.67
1973 2070 7.962918 CGGAAATACTTGTCTTAGAAATGGTTG 59.037 37.037 0.00 0.00 0.00 3.77
1974 2071 8.793592 GGAAATACTTGTCTTAGAAATGGTTGT 58.206 33.333 0.00 0.00 0.00 3.32
1980 2077 9.877178 ACTTGTCTTAGAAATGGTTGTATCTAG 57.123 33.333 0.00 0.00 0.00 2.43
1982 2079 9.871238 TTGTCTTAGAAATGGTTGTATCTAGAC 57.129 33.333 0.00 0.00 0.00 2.59
1983 2080 9.256228 TGTCTTAGAAATGGTTGTATCTAGACT 57.744 33.333 0.00 0.00 31.38 3.24
2025 2122 8.697507 ACATCCATTTTATCCATTTCTAGGAC 57.302 34.615 0.00 0.00 38.13 3.85
2026 2123 8.281531 ACATCCATTTTATCCATTTCTAGGACA 58.718 33.333 0.00 0.00 38.13 4.02
2027 2124 9.135189 CATCCATTTTATCCATTTCTAGGACAA 57.865 33.333 0.00 0.00 38.13 3.18
2280 2620 8.935614 AATATGCTACAGGTACATGACTACTA 57.064 34.615 15.54 0.92 0.00 1.82
2359 2699 4.635765 TGGCAACACTTAATATCACTCTGC 59.364 41.667 0.00 0.00 46.17 4.26
2360 2700 4.635765 GGCAACACTTAATATCACTCTGCA 59.364 41.667 0.00 0.00 0.00 4.41
2361 2701 5.297776 GGCAACACTTAATATCACTCTGCAT 59.702 40.000 0.00 0.00 0.00 3.96
2408 2749 2.360801 CCAAAATCTGTTGGTGTTCCGT 59.639 45.455 0.00 0.00 42.74 4.69
2466 2814 4.033684 GTCGTACATGTGACTTCCGTATC 58.966 47.826 9.11 0.00 32.37 2.24
2613 2965 9.729256 TATGGACTACATACGGAGCAAAATGCA 62.729 40.741 5.01 0.00 42.68 3.96
2990 3409 2.203153 GTGTTGTGGTGCCTCGGT 60.203 61.111 0.00 0.00 0.00 4.69
3069 3488 4.711846 TGCTCTCCTGACTGTTGTATATGT 59.288 41.667 0.00 0.00 0.00 2.29
3091 3510 2.120232 GTGCGGTTGATAGATGACTCG 58.880 52.381 0.00 0.00 0.00 4.18
3143 3562 4.598257 GGACGTGTCCCAGTCATG 57.402 61.111 7.86 0.00 43.94 3.07
3144 3563 1.741770 GGACGTGTCCCAGTCATGC 60.742 63.158 7.86 0.00 43.94 4.06
3145 3564 1.741770 GACGTGTCCCAGTCATGCC 60.742 63.158 0.00 0.00 37.34 4.40
3146 3565 2.172483 GACGTGTCCCAGTCATGCCT 62.172 60.000 0.00 0.00 37.34 4.75
3147 3566 1.003355 CGTGTCCCAGTCATGCCTT 60.003 57.895 0.00 0.00 0.00 4.35
3148 3567 0.606401 CGTGTCCCAGTCATGCCTTT 60.606 55.000 0.00 0.00 0.00 3.11
3149 3568 1.620822 GTGTCCCAGTCATGCCTTTT 58.379 50.000 0.00 0.00 0.00 2.27
3150 3569 1.963515 GTGTCCCAGTCATGCCTTTTT 59.036 47.619 0.00 0.00 0.00 1.94
3224 3643 5.066505 AGGAGATGTGAGTGTTGTTGTTTTC 59.933 40.000 0.00 0.00 0.00 2.29
3271 3692 1.404035 GGTCTTTTGTGTCTGGCGTTT 59.596 47.619 0.00 0.00 0.00 3.60
3283 3704 1.482593 CTGGCGTTTAGACCCTGAGAT 59.517 52.381 0.00 0.00 0.00 2.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
303 304 6.206829 CACCTATTGTAGTATCGTCATCTCCA 59.793 42.308 0.00 0.00 0.00 3.86
333 334 1.448540 CGCTTGAGGCCCTACACTG 60.449 63.158 0.00 0.00 37.74 3.66
387 388 0.546122 AGCCCAATTACTCGGCATCA 59.454 50.000 0.00 0.00 45.56 3.07
561 562 1.382522 TGACCGTACCACGAGGATAC 58.617 55.000 5.68 3.93 46.05 2.24
569 570 4.067972 ACCATGATAATGACCGTACCAC 57.932 45.455 0.00 0.00 0.00 4.16
662 664 6.601332 TCTAGTTGTCTGGTTTTTGGATCTT 58.399 36.000 0.00 0.00 0.00 2.40
682 684 3.505680 AGCGAGATAAGCCACAGATCTAG 59.494 47.826 0.00 0.00 34.64 2.43
685 687 2.810439 AGCGAGATAAGCCACAGATC 57.190 50.000 0.00 0.00 34.64 2.75
708 710 9.077885 AGTTGCTCTCCATTTACAAAAAGATTA 57.922 29.630 0.00 0.00 0.00 1.75
709 711 7.955918 AGTTGCTCTCCATTTACAAAAAGATT 58.044 30.769 0.00 0.00 0.00 2.40
717 719 5.586243 GCAATAGAGTTGCTCTCCATTTACA 59.414 40.000 1.54 0.00 43.71 2.41
729 731 0.247974 CGCTGCAGCAATAGAGTTGC 60.248 55.000 36.03 7.81 44.68 4.17
742 744 2.863401 AGTAACGATCATACGCTGCA 57.137 45.000 0.00 0.00 36.70 4.41
746 748 5.850128 ACGAGATAAAGTAACGATCATACGC 59.150 40.000 0.00 0.00 36.70 4.42
759 761 9.811995 TGCATTACAGTTTATACGAGATAAAGT 57.188 29.630 7.28 7.81 0.00 2.66
777 782 2.746904 CCATTTCACCGAGTGCATTACA 59.253 45.455 0.00 0.00 32.98 2.41
779 784 3.066291 ACCATTTCACCGAGTGCATTA 57.934 42.857 0.00 0.00 32.98 1.90
900 905 3.292159 GGACGGTTTGCCCCACAC 61.292 66.667 0.00 0.00 0.00 3.82
1327 1342 8.426881 TGCAATTTAGTAAGGGAAACAAAAAC 57.573 30.769 0.00 0.00 0.00 2.43
1391 1477 7.875554 AGAGGACTATCTGTTTTCTTTCTGAAC 59.124 37.037 0.00 0.00 33.88 3.18
1419 1505 1.066573 CACAGTCCAGTCTGTCATCCC 60.067 57.143 0.00 0.00 45.37 3.85
1428 1514 3.305471 GGAGTAGAACACACAGTCCAGTC 60.305 52.174 0.00 0.00 0.00 3.51
1447 1533 5.269991 TCTTATATTATGGGACGGAGGGAG 58.730 45.833 0.00 0.00 0.00 4.30
1448 1534 5.269991 CTCTTATATTATGGGACGGAGGGA 58.730 45.833 0.00 0.00 0.00 4.20
1449 1535 4.141914 GCTCTTATATTATGGGACGGAGGG 60.142 50.000 0.00 0.00 0.00 4.30
1450 1536 4.466370 TGCTCTTATATTATGGGACGGAGG 59.534 45.833 0.00 0.00 0.00 4.30
1451 1537 5.661056 TGCTCTTATATTATGGGACGGAG 57.339 43.478 0.00 0.00 0.00 4.63
1452 1538 6.620877 AATGCTCTTATATTATGGGACGGA 57.379 37.500 0.00 0.00 0.00 4.69
1453 1539 7.687941 AAAATGCTCTTATATTATGGGACGG 57.312 36.000 0.00 0.00 0.00 4.79
1475 1561 5.617528 TGGACTGGACACTAGTGTAAAAA 57.382 39.130 27.98 12.79 45.05 1.94
1476 1562 5.617528 TTGGACTGGACACTAGTGTAAAA 57.382 39.130 27.98 15.13 45.05 1.52
1477 1563 5.617528 TTTGGACTGGACACTAGTGTAAA 57.382 39.130 27.98 18.78 45.05 2.01
1478 1564 5.362263 GTTTTGGACTGGACACTAGTGTAA 58.638 41.667 27.98 17.86 45.05 2.41
1479 1565 4.500205 CGTTTTGGACTGGACACTAGTGTA 60.500 45.833 27.98 13.12 45.05 2.90
1481 1567 2.800544 CGTTTTGGACTGGACACTAGTG 59.199 50.000 21.44 21.44 0.00 2.74
1482 1568 2.805657 GCGTTTTGGACTGGACACTAGT 60.806 50.000 0.00 0.00 0.00 2.57
1483 1569 1.798813 GCGTTTTGGACTGGACACTAG 59.201 52.381 0.00 0.00 0.00 2.57
1484 1570 1.414919 AGCGTTTTGGACTGGACACTA 59.585 47.619 0.00 0.00 0.00 2.74
1485 1571 0.180406 AGCGTTTTGGACTGGACACT 59.820 50.000 0.00 0.00 0.00 3.55
1486 1572 0.586802 GAGCGTTTTGGACTGGACAC 59.413 55.000 0.00 0.00 0.00 3.67
1487 1573 0.468226 AGAGCGTTTTGGACTGGACA 59.532 50.000 0.00 0.00 0.00 4.02
1488 1574 1.594331 AAGAGCGTTTTGGACTGGAC 58.406 50.000 0.00 0.00 0.00 4.02
1489 1575 3.695830 ATAAGAGCGTTTTGGACTGGA 57.304 42.857 0.00 0.00 0.00 3.86
1490 1576 7.307989 CCATAATATAAGAGCGTTTTGGACTGG 60.308 40.741 0.00 0.00 0.00 4.00
1491 1577 7.307989 CCCATAATATAAGAGCGTTTTGGACTG 60.308 40.741 0.00 0.00 0.00 3.51
1492 1578 6.710744 CCCATAATATAAGAGCGTTTTGGACT 59.289 38.462 0.00 0.00 0.00 3.85
1493 1579 6.708949 TCCCATAATATAAGAGCGTTTTGGAC 59.291 38.462 0.00 0.00 0.00 4.02
1494 1580 6.708949 GTCCCATAATATAAGAGCGTTTTGGA 59.291 38.462 0.00 0.00 0.00 3.53
1495 1581 6.347402 CGTCCCATAATATAAGAGCGTTTTGG 60.347 42.308 0.00 0.00 0.00 3.28
1496 1582 6.347402 CCGTCCCATAATATAAGAGCGTTTTG 60.347 42.308 0.00 0.00 0.00 2.44
1497 1583 5.699458 CCGTCCCATAATATAAGAGCGTTTT 59.301 40.000 0.00 0.00 0.00 2.43
1498 1584 5.011329 TCCGTCCCATAATATAAGAGCGTTT 59.989 40.000 0.00 0.00 0.00 3.60
1499 1585 4.525487 TCCGTCCCATAATATAAGAGCGTT 59.475 41.667 0.00 0.00 0.00 4.84
1500 1586 4.082354 GTCCGTCCCATAATATAAGAGCGT 60.082 45.833 0.00 0.00 0.00 5.07
1501 1587 4.421948 GTCCGTCCCATAATATAAGAGCG 58.578 47.826 0.00 0.00 0.00 5.03
1502 1588 4.421948 CGTCCGTCCCATAATATAAGAGC 58.578 47.826 0.00 0.00 0.00 4.09
1503 1589 4.703575 TCCGTCCGTCCCATAATATAAGAG 59.296 45.833 0.00 0.00 0.00 2.85
1504 1590 4.665451 TCCGTCCGTCCCATAATATAAGA 58.335 43.478 0.00 0.00 0.00 2.10
1505 1591 4.461781 ACTCCGTCCGTCCCATAATATAAG 59.538 45.833 0.00 0.00 0.00 1.73
1506 1592 4.410099 ACTCCGTCCGTCCCATAATATAA 58.590 43.478 0.00 0.00 0.00 0.98
1507 1593 4.038271 ACTCCGTCCGTCCCATAATATA 57.962 45.455 0.00 0.00 0.00 0.86
1508 1594 2.885616 ACTCCGTCCGTCCCATAATAT 58.114 47.619 0.00 0.00 0.00 1.28
1509 1595 2.369983 ACTCCGTCCGTCCCATAATA 57.630 50.000 0.00 0.00 0.00 0.98
1510 1596 2.369983 TACTCCGTCCGTCCCATAAT 57.630 50.000 0.00 0.00 0.00 1.28
1511 1597 2.369983 ATACTCCGTCCGTCCCATAA 57.630 50.000 0.00 0.00 0.00 1.90
1512 1598 3.009363 TCATATACTCCGTCCGTCCCATA 59.991 47.826 0.00 0.00 0.00 2.74
1513 1599 2.168496 CATATACTCCGTCCGTCCCAT 58.832 52.381 0.00 0.00 0.00 4.00
1514 1600 1.143481 TCATATACTCCGTCCGTCCCA 59.857 52.381 0.00 0.00 0.00 4.37
1515 1601 1.538950 GTCATATACTCCGTCCGTCCC 59.461 57.143 0.00 0.00 0.00 4.46
1516 1602 2.502295 AGTCATATACTCCGTCCGTCC 58.498 52.381 0.00 0.00 30.33 4.79
1526 1612 5.010112 CCATCCACGTCAAGAGTCATATACT 59.990 44.000 0.00 0.00 42.80 2.12
1527 1613 5.221263 ACCATCCACGTCAAGAGTCATATAC 60.221 44.000 0.00 0.00 0.00 1.47
1535 1621 3.526931 ATACACCATCCACGTCAAGAG 57.473 47.619 0.00 0.00 0.00 2.85
1542 1628 4.956085 TCCTGATTAATACACCATCCACG 58.044 43.478 0.00 0.00 0.00 4.94
1599 1685 6.075762 TGTCAACACAAGATGAAATTCCAG 57.924 37.500 0.00 0.00 0.00 3.86
1607 1693 6.095300 AGTTCACATTTGTCAACACAAGATGA 59.905 34.615 0.35 5.80 43.54 2.92
1759 1856 9.007901 GGGAAGAAAGATAATCCAATAGATGTG 57.992 37.037 0.00 0.00 34.56 3.21
1871 1968 1.672898 CCCACCACATTTGCAAGGG 59.327 57.895 0.00 0.68 0.00 3.95
1943 2040 4.990257 TCTAAGACAAGTATTTCCGGACG 58.010 43.478 1.83 0.00 0.00 4.79
1944 2041 7.201617 CCATTTCTAAGACAAGTATTTCCGGAC 60.202 40.741 1.83 0.00 0.00 4.79
1945 2042 6.821665 CCATTTCTAAGACAAGTATTTCCGGA 59.178 38.462 0.00 0.00 0.00 5.14
1946 2043 6.598064 ACCATTTCTAAGACAAGTATTTCCGG 59.402 38.462 0.00 0.00 0.00 5.14
1947 2044 7.611213 ACCATTTCTAAGACAAGTATTTCCG 57.389 36.000 0.00 0.00 0.00 4.30
1948 2045 8.793592 ACAACCATTTCTAAGACAAGTATTTCC 58.206 33.333 0.00 0.00 0.00 3.13
1956 2053 9.871238 GTCTAGATACAACCATTTCTAAGACAA 57.129 33.333 0.00 0.00 0.00 3.18
1999 2096 9.793259 GTCCTAGAAATGGATAAAATGGATGTA 57.207 33.333 0.00 0.00 35.87 2.29
2000 2097 8.281531 TGTCCTAGAAATGGATAAAATGGATGT 58.718 33.333 0.00 0.00 35.87 3.06
2001 2098 8.696043 TGTCCTAGAAATGGATAAAATGGATG 57.304 34.615 0.00 0.00 35.87 3.51
2002 2099 9.713684 TTTGTCCTAGAAATGGATAAAATGGAT 57.286 29.630 0.00 0.00 40.18 3.41
2003 2100 9.713684 ATTTGTCCTAGAAATGGATAAAATGGA 57.286 29.630 8.34 0.00 44.00 3.41
2010 2107 9.502091 CGGAAATATTTGTCCTAGAAATGGATA 57.498 33.333 5.17 0.00 35.87 2.59
2011 2108 7.448469 CCGGAAATATTTGTCCTAGAAATGGAT 59.552 37.037 5.17 0.00 35.87 3.41
2012 2109 6.770785 CCGGAAATATTTGTCCTAGAAATGGA 59.229 38.462 5.17 0.00 0.00 3.41
2013 2110 6.770785 TCCGGAAATATTTGTCCTAGAAATGG 59.229 38.462 0.00 0.00 0.00 3.16
2014 2111 7.518370 CGTCCGGAAATATTTGTCCTAGAAATG 60.518 40.741 5.23 0.00 0.00 2.32
2015 2112 6.482308 CGTCCGGAAATATTTGTCCTAGAAAT 59.518 38.462 5.23 0.00 0.00 2.17
2016 2113 5.813672 CGTCCGGAAATATTTGTCCTAGAAA 59.186 40.000 5.23 0.00 0.00 2.52
2017 2114 5.353938 CGTCCGGAAATATTTGTCCTAGAA 58.646 41.667 5.23 0.00 0.00 2.10
2018 2115 4.202182 CCGTCCGGAAATATTTGTCCTAGA 60.202 45.833 5.23 0.00 37.50 2.43
2019 2116 4.056050 CCGTCCGGAAATATTTGTCCTAG 58.944 47.826 5.23 0.00 37.50 3.02
2020 2117 3.705579 TCCGTCCGGAAATATTTGTCCTA 59.294 43.478 5.23 0.00 42.05 2.94
2021 2118 2.502538 TCCGTCCGGAAATATTTGTCCT 59.497 45.455 5.23 0.00 42.05 3.85
2022 2119 2.870411 CTCCGTCCGGAAATATTTGTCC 59.130 50.000 5.23 0.46 44.66 4.02
2023 2120 2.870411 CCTCCGTCCGGAAATATTTGTC 59.130 50.000 5.23 0.00 44.66 3.18
2024 2121 2.420967 CCCTCCGTCCGGAAATATTTGT 60.421 50.000 5.23 0.00 44.66 2.83
2025 2122 2.158871 TCCCTCCGTCCGGAAATATTTG 60.159 50.000 5.23 0.00 44.66 2.32
2026 2123 2.104281 CTCCCTCCGTCCGGAAATATTT 59.896 50.000 5.23 0.00 44.66 1.40
2027 2124 1.692519 CTCCCTCCGTCCGGAAATATT 59.307 52.381 5.23 0.00 44.66 1.28
2033 2130 0.846015 TTATACTCCCTCCGTCCGGA 59.154 55.000 0.00 0.00 42.90 5.14
2034 2131 1.202855 TCTTATACTCCCTCCGTCCGG 60.203 57.143 0.00 0.00 0.00 5.14
2035 2132 1.878734 GTCTTATACTCCCTCCGTCCG 59.121 57.143 0.00 0.00 0.00 4.79
2223 2563 6.106673 TCTTTACTAAGGCAGCAATGTCTAC 58.893 40.000 0.00 0.00 32.02 2.59
2280 2620 6.714810 TCACCACTTTAGCACAGTCATAAAAT 59.285 34.615 0.00 0.00 0.00 1.82
2379 2720 3.565905 CAACAGATTTTGGAGCCTGAC 57.434 47.619 0.00 0.00 0.00 3.51
2415 2756 2.700371 AGGATGCGATGATAGTCCACAA 59.300 45.455 0.00 0.00 0.00 3.33
2485 2837 4.159506 TGGTTATTCACTTATTTGCTGCCC 59.840 41.667 0.00 0.00 0.00 5.36
2635 2987 8.725256 AGGGACTACATACGGATGTATATAGAT 58.275 37.037 20.64 3.69 45.42 1.98
2891 3310 1.904771 CGGGTCCTTGATGTAGCCA 59.095 57.895 0.00 0.00 0.00 4.75
2970 3389 1.172180 CCGAGGCACCACAACACAAT 61.172 55.000 0.00 0.00 0.00 2.71
2990 3409 8.646004 TCTTCCACCAAAATCATGAAAACATAA 58.354 29.630 0.00 0.00 0.00 1.90
3069 3488 3.521560 GAGTCATCTATCAACCGCACAA 58.478 45.455 0.00 0.00 0.00 3.33
3091 3510 6.127479 ACAACTAATGGACAGTGAGAGATCTC 60.127 42.308 15.29 15.29 43.15 2.75
3160 3579 0.957395 CAGCATGACTGGGACACACC 60.957 60.000 0.00 0.00 43.19 4.16
3161 3580 2.548178 CAGCATGACTGGGACACAC 58.452 57.895 0.00 0.00 43.19 3.82
3169 3588 2.616634 ATGTCTAGCCAGCATGACTG 57.383 50.000 0.00 3.35 46.77 3.51
3170 3589 3.641434 AAATGTCTAGCCAGCATGACT 57.359 42.857 0.00 0.00 39.69 3.41
3171 3590 3.441572 ACAAAATGTCTAGCCAGCATGAC 59.558 43.478 0.00 7.72 39.69 3.06
3172 3591 3.689347 ACAAAATGTCTAGCCAGCATGA 58.311 40.909 0.00 0.00 39.69 3.07
3173 3592 4.445452 AACAAAATGTCTAGCCAGCATG 57.555 40.909 0.00 0.00 0.00 4.06
3174 3593 6.588719 TTAAACAAAATGTCTAGCCAGCAT 57.411 33.333 0.00 0.00 0.00 3.79
3175 3594 6.588719 ATTAAACAAAATGTCTAGCCAGCA 57.411 33.333 0.00 0.00 0.00 4.41
3224 3643 1.268794 CGGTCTGAGAGCCGTGATAAG 60.269 57.143 6.02 0.00 42.73 1.73
3323 3745 7.757624 GGTTTTTCATAAAATAGCATGACGGAA 59.242 33.333 0.00 0.00 35.80 4.30
3361 3786 3.741249 TGTACTGCGGGTTTAATGTCAA 58.259 40.909 0.00 0.00 0.00 3.18
3990 4418 4.901868 TGGTCTTAACCTACAAAAGCGAT 58.098 39.130 0.00 0.00 46.60 4.58


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

AutoCloner maintained by Alex Coulton.