Multiple sequence alignment - TraesCS7D01G191500

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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 TraesCS7D01G191500 chr7D 100.000 8286 0 0 1 8286 146835647 146843932 0.000000e+00 15302.0
1 TraesCS7D01G191500 chr7D 88.199 161 14 3 443 602 302417836 302417992 3.950000e-43 187.0
2 TraesCS7D01G191500 chr7D 83.333 156 24 2 2 157 235150968 235151121 8.670000e-30 143.0
3 TraesCS7D01G191500 chr7D 82.432 148 23 3 13 160 428703500 428703356 8.730000e-25 126.0
4 TraesCS7D01G191500 chr7D 81.301 123 11 8 6769 6880 21705789 21705910 1.150000e-13 89.8
5 TraesCS7D01G191500 chr7D 90.000 60 3 3 5418 5474 194484114 194484173 3.210000e-09 75.0
6 TraesCS7D01G191500 chr7A 94.897 5173 173 40 2702 7830 148394772 148399897 0.000000e+00 8006.0
7 TraesCS7D01G191500 chr7A 95.700 1279 41 6 1421 2697 148393466 148394732 0.000000e+00 2045.0
8 TraesCS7D01G191500 chr7A 92.413 1239 49 12 217 1427 148392184 148393405 0.000000e+00 1725.0
9 TraesCS7D01G191500 chr7A 96.444 225 6 1 1 225 148391794 148392016 3.650000e-98 370.0
10 TraesCS7D01G191500 chr7A 88.593 263 21 6 8028 8286 148399992 148400249 2.250000e-80 311.0
11 TraesCS7D01G191500 chr7A 100.000 39 0 0 2723 2761 148394732 148394770 1.150000e-08 73.1
12 TraesCS7D01G191500 chr7A 83.133 83 7 4 6590 6665 23476831 23476913 1.490000e-07 69.4
13 TraesCS7D01G191500 chr7B 97.176 3825 87 12 1424 5240 109667055 109670866 0.000000e+00 6445.0
14 TraesCS7D01G191500 chr7B 93.121 2602 108 22 5250 7800 109677596 109680177 0.000000e+00 3747.0
15 TraesCS7D01G191500 chr7B 91.241 1450 73 23 1 1427 109665572 109666990 0.000000e+00 1925.0
16 TraesCS7D01G191500 chr7B 91.635 263 10 7 8027 8286 109684212 109684465 3.680000e-93 353.0
17 TraesCS7D01G191500 chr7B 88.158 76 8 1 6535 6609 708489433 708489508 1.150000e-13 89.8
18 TraesCS7D01G191500 chr1D 89.809 157 13 2 447 602 37208331 37208177 1.820000e-46 198.0
19 TraesCS7D01G191500 chr1D 83.648 159 24 2 2 160 234015363 234015519 1.860000e-31 148.0
20 TraesCS7D01G191500 chr6B 89.172 157 10 6 448 600 407926747 407926900 1.100000e-43 189.0
21 TraesCS7D01G191500 chr4A 86.982 169 16 5 437 601 596730722 596730888 1.420000e-42 185.0
22 TraesCS7D01G191500 chr4A 83.648 159 24 1 2 160 460906880 460906724 1.860000e-31 148.0
23 TraesCS7D01G191500 chr4A 82.911 158 25 2 2 159 156874242 156874087 3.120000e-29 141.0
24 TraesCS7D01G191500 chr5D 87.578 161 14 4 447 602 48310075 48310234 1.840000e-41 182.0
25 TraesCS7D01G191500 chr5D 84.277 159 21 4 2 159 520951242 520951397 1.440000e-32 152.0
26 TraesCS7D01G191500 chr5D 87.179 117 13 2 43 159 238236125 238236011 1.880000e-26 132.0
27 TraesCS7D01G191500 chr2D 87.342 158 14 4 445 600 354324533 354324686 8.550000e-40 176.0
28 TraesCS7D01G191500 chr3B 86.503 163 16 4 445 602 14312842 14313003 3.070000e-39 174.0
29 TraesCS7D01G191500 chr3B 95.918 49 2 0 5412 5460 434989602 434989650 6.890000e-11 80.5
30 TraesCS7D01G191500 chr1A 84.277 159 23 2 2 160 313309925 313309769 4.000000e-33 154.0
31 TraesCS7D01G191500 chr1A 97.872 47 1 0 5412 5458 555829615 555829569 1.920000e-11 82.4
32 TraesCS7D01G191500 chr2A 83.439 157 22 4 2 157 423028828 423028981 8.670000e-30 143.0
33 TraesCS7D01G191500 chr6D 88.235 119 12 2 43 161 334101207 334101091 3.120000e-29 141.0
34 TraesCS7D01G191500 chr6D 80.368 163 23 9 2 160 48205078 48205235 1.890000e-21 115.0
35 TraesCS7D01G191500 chr6D 79.503 161 26 7 2 159 345890536 345890692 3.160000e-19 108.0
36 TraesCS7D01G191500 chr6D 79.503 161 24 9 2 158 288814291 288814136 1.140000e-18 106.0
37 TraesCS7D01G191500 chr6D 79.141 163 23 11 2 159 100977853 100977697 1.470000e-17 102.0
38 TraesCS7D01G191500 chr6D 77.976 168 31 5 2 166 1367665 1367501 5.290000e-17 100.0
39 TraesCS7D01G191500 chr3D 88.136 118 12 2 43 160 426153664 426153549 1.120000e-28 139.0
40 TraesCS7D01G191500 chr3D 80.864 162 22 9 2 159 316921720 316921876 1.460000e-22 119.0
41 TraesCS7D01G191500 chr4D 87.179 117 13 2 43 159 318445867 318445981 1.880000e-26 132.0
42 TraesCS7D01G191500 chr4D 85.593 118 15 2 43 160 334026618 334026503 1.130000e-23 122.0
43 TraesCS7D01G191500 chr4D 79.503 161 25 8 2 159 93047763 93047608 3.160000e-19 108.0
44 TraesCS7D01G191500 chr4D 79.375 160 28 5 2 160 333608690 333608535 3.160000e-19 108.0
45 TraesCS7D01G191500 chr4D 79.375 160 28 5 2 160 333685657 333685502 3.160000e-19 108.0
46 TraesCS7D01G191500 chr4D 88.889 81 5 4 6586 6665 46416544 46416621 6.850000e-16 97.1
47 TraesCS7D01G191500 chr4B 80.864 162 26 5 2 162 382119435 382119592 1.130000e-23 122.0
48 TraesCS7D01G191500 chr2B 84.483 116 6 9 6769 6878 755584707 755584598 4.090000e-18 104.0
49 TraesCS7D01G191500 chr2B 97.872 47 1 0 5412 5458 40287153 40287107 1.920000e-11 82.4
50 TraesCS7D01G191500 chr2B 95.745 47 1 1 6549 6594 128535080 128535126 3.210000e-09 75.0
51 TraesCS7D01G191500 chr2B 95.745 47 1 1 6549 6594 128536368 128536414 3.210000e-09 75.0
52 TraesCS7D01G191500 chr1B 72.809 445 69 32 6030 6457 207141150 207140741 4.090000e-18 104.0
53 TraesCS7D01G191500 chr1B 97.872 47 1 0 5412 5458 639046648 639046602 1.920000e-11 82.4
54 TraesCS7D01G191500 chr6A 96.000 50 2 0 5410 5459 87894830 87894879 1.920000e-11 82.4
55 TraesCS7D01G191500 chr5B 96.000 50 2 0 5412 5461 47095616 47095567 1.920000e-11 82.4
56 TraesCS7D01G191500 chr3A 94.340 53 3 0 6605 6657 671742319 671742371 1.920000e-11 82.4
57 TraesCS7D01G191500 chrUn 94.000 50 2 1 6549 6597 284669407 284669358 3.210000e-09 75.0
58 TraesCS7D01G191500 chrUn 94.000 50 2 1 6549 6597 290415313 290415264 3.210000e-09 75.0
59 TraesCS7D01G191500 chrUn 94.000 50 2 1 6549 6597 296425151 296425200 3.210000e-09 75.0
60 TraesCS7D01G191500 chrUn 94.000 50 2 1 6549 6597 319985380 319985429 3.210000e-09 75.0


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 TraesCS7D01G191500 chr7D 146835647 146843932 8285 False 15302.00 15302 100.0000 1 8286 1 chr7D.!!$F2 8285
1 TraesCS7D01G191500 chr7A 148391794 148400249 8455 False 2088.35 8006 94.6745 1 8286 6 chr7A.!!$F2 8285
2 TraesCS7D01G191500 chr7B 109665572 109670866 5294 False 4185.00 6445 94.2085 1 5240 2 chr7B.!!$F4 5239
3 TraesCS7D01G191500 chr7B 109677596 109680177 2581 False 3747.00 3747 93.1210 5250 7800 1 chr7B.!!$F1 2550

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
720 930 0.096454 GTTAATCTTGCGCCGTCCAC 59.904 55.000 4.18 0.00 0.00 4.02 F
922 1133 0.370273 CGACAGCACAATCCGCTTAC 59.630 55.000 0.00 0.00 37.72 2.34 F
1198 1410 0.821517 TCCACGATGCTCATACGGTT 59.178 50.000 0.00 0.00 0.00 4.44 F
1646 2007 0.997932 GCATGAGTTGTGCTCTCGAG 59.002 55.000 5.93 5.93 44.41 4.04 F
1761 2122 1.363807 GGCAAACAGTTCCTGGTGC 59.636 57.895 11.53 11.53 42.15 5.01 F
2648 3013 2.438392 AGTTTCTCGTGGGAAGTTCCTT 59.562 45.455 21.25 0.00 36.57 3.36 F
4124 4524 4.115516 GTCATGTCGCAGAAGTCATACAT 58.884 43.478 0.00 0.00 39.69 2.29 F
5056 5459 1.810606 CTCAGAGCACACACGAGGGT 61.811 60.000 0.00 0.00 0.00 4.34 F
6718 7163 1.003851 GCGTAAGTGTGTGTGTGTGT 58.996 50.000 0.00 0.00 41.68 3.72 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1632 1993 0.519519 CGAGACTCGAGAGCACAACT 59.480 55.000 21.68 6.22 43.74 3.16 R
2004 2367 2.079170 TGCACTGGAAACCCATTTCA 57.921 45.000 2.48 0.00 45.26 2.69 R
2026 2389 2.472029 TGTGTGAAACCAACCCCAATT 58.528 42.857 0.00 0.00 34.36 2.32 R
3128 3528 4.647424 TGAGGTGAAAACAACATGGAAC 57.353 40.909 0.00 0.00 0.00 3.62 R
3179 3579 7.364522 TCAGTGTTAAATACATGAGCTGAAC 57.635 36.000 0.00 0.00 39.39 3.18 R
4614 5017 2.999355 CTCGAGAGGCTGGAAAAGAAAG 59.001 50.000 6.58 0.00 0.00 2.62 R
5611 6045 0.031178 CAAGCCTCCACTTGTTGTGC 59.969 55.000 0.00 0.00 44.92 4.57 R
6856 7331 0.321671 CTGGCTCGAACCAAGGAAGA 59.678 55.000 9.21 0.00 39.86 2.87 R
7842 8328 0.383949 GGTTTTCTTCCAGCGCACAA 59.616 50.000 11.47 0.00 0.00 3.33 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
77 78 5.185056 ACTTTGCTGGAAACCGCTTATTTAT 59.815 36.000 0.00 0.00 0.00 1.40
78 79 6.376018 ACTTTGCTGGAAACCGCTTATTTATA 59.624 34.615 0.00 0.00 0.00 0.98
190 191 0.465705 CTGTGATGGTGGCGGTCTAT 59.534 55.000 0.00 0.00 0.00 1.98
408 585 1.399744 TATGGCAATCGGACGCTCCT 61.400 55.000 0.00 0.00 33.30 3.69
452 629 7.273815 CACACTTTTAGCTAGCAGTAAGACTAC 59.726 40.741 18.83 0.00 0.00 2.73
458 635 3.385111 GCTAGCAGTAAGACTACCCACAT 59.615 47.826 10.63 0.00 0.00 3.21
513 691 8.100791 TCTAACTCAGCAAATTACTTATGTGGT 58.899 33.333 0.00 0.00 32.33 4.16
555 733 6.926313 AGAGGTAGTTTGAGTAACTTAGCTG 58.074 40.000 0.00 0.00 44.73 4.24
565 743 6.765403 TGAGTAACTTAGCTGGTTACATGTT 58.235 36.000 29.09 17.78 46.49 2.71
720 930 0.096454 GTTAATCTTGCGCCGTCCAC 59.904 55.000 4.18 0.00 0.00 4.02
760 971 1.515954 GGAGATCGGACGGCAAAGA 59.484 57.895 0.00 0.00 0.00 2.52
922 1133 0.370273 CGACAGCACAATCCGCTTAC 59.630 55.000 0.00 0.00 37.72 2.34
1160 1371 1.754803 CCTACTGGATCCACGTGCTTA 59.245 52.381 11.44 0.00 34.57 3.09
1180 1391 6.475727 TGCTTATATGCTTTCAGTTACGAGTC 59.524 38.462 11.48 0.00 0.00 3.36
1198 1410 0.821517 TCCACGATGCTCATACGGTT 59.178 50.000 0.00 0.00 0.00 4.44
1205 1417 2.665649 TGCTCATACGGTTACAGGTG 57.334 50.000 0.00 0.00 0.00 4.00
1337 1557 8.546597 TTCTTCAAATCATCGAATGTGTTAGA 57.453 30.769 0.00 0.00 0.00 2.10
1374 1597 4.764823 TGCTTTTTCCCTCGTGTGAATAAT 59.235 37.500 0.00 0.00 0.00 1.28
1375 1598 5.941058 TGCTTTTTCCCTCGTGTGAATAATA 59.059 36.000 0.00 0.00 0.00 0.98
1376 1599 6.431543 TGCTTTTTCCCTCGTGTGAATAATAA 59.568 34.615 0.00 0.00 0.00 1.40
1378 1601 7.361799 GCTTTTTCCCTCGTGTGAATAATAAGT 60.362 37.037 0.00 0.00 0.00 2.24
1379 1602 7.989416 TTTTCCCTCGTGTGAATAATAAGTT 57.011 32.000 0.00 0.00 0.00 2.66
1380 1603 6.978343 TTCCCTCGTGTGAATAATAAGTTG 57.022 37.500 0.00 0.00 0.00 3.16
1381 1604 6.288941 TCCCTCGTGTGAATAATAAGTTGA 57.711 37.500 0.00 0.00 0.00 3.18
1382 1605 6.103997 TCCCTCGTGTGAATAATAAGTTGAC 58.896 40.000 0.00 0.00 0.00 3.18
1383 1606 6.070995 TCCCTCGTGTGAATAATAAGTTGACT 60.071 38.462 0.00 0.00 0.00 3.41
1384 1607 6.255887 CCCTCGTGTGAATAATAAGTTGACTC 59.744 42.308 0.00 0.00 0.00 3.36
1385 1608 6.020599 CCTCGTGTGAATAATAAGTTGACTCG 60.021 42.308 0.00 0.00 0.00 4.18
1386 1609 5.287752 TCGTGTGAATAATAAGTTGACTCGC 59.712 40.000 0.00 0.00 0.00 5.03
1387 1610 5.288712 CGTGTGAATAATAAGTTGACTCGCT 59.711 40.000 0.00 0.00 0.00 4.93
1388 1611 6.471198 CGTGTGAATAATAAGTTGACTCGCTA 59.529 38.462 0.00 0.00 0.00 4.26
1389 1612 7.305475 CGTGTGAATAATAAGTTGACTCGCTAG 60.305 40.741 0.00 0.00 0.00 3.42
1447 1805 3.182372 GCGATTTGAACAGTTCTTTTGGC 59.818 43.478 14.51 8.71 0.00 4.52
1496 1857 2.620108 GGTACTAACCGTCTGAGGGACT 60.620 54.545 22.22 11.24 42.44 3.85
1645 2006 3.128259 GCATGAGTTGTGCTCTCGA 57.872 52.632 0.00 0.00 44.41 4.04
1646 2007 0.997932 GCATGAGTTGTGCTCTCGAG 59.002 55.000 5.93 5.93 44.41 4.04
1647 2008 1.671261 GCATGAGTTGTGCTCTCGAGT 60.671 52.381 13.13 0.00 44.41 4.18
1648 2009 2.257894 CATGAGTTGTGCTCTCGAGTC 58.742 52.381 13.13 6.42 44.41 3.36
1703 2064 2.734670 GTGTTGTGTACACGTAGCTGA 58.265 47.619 20.61 0.00 46.94 4.26
1761 2122 1.363807 GGCAAACAGTTCCTGGTGC 59.636 57.895 11.53 11.53 42.15 5.01
1790 2151 8.829373 AGACTGGAAATTAGGCTGATTTATTT 57.171 30.769 16.18 5.42 30.67 1.40
1852 2215 6.384595 TGCATATTCTGTTAACCAGGGTACTA 59.615 38.462 2.48 0.00 41.83 1.82
2004 2367 3.297134 TTCAGGAGCTTTTTGTGGACT 57.703 42.857 0.00 0.00 0.00 3.85
2011 2374 4.301628 GAGCTTTTTGTGGACTGAAATGG 58.698 43.478 0.00 0.00 0.00 3.16
2017 2380 2.593026 TGTGGACTGAAATGGGTTTCC 58.407 47.619 0.00 0.00 42.44 3.13
2026 2389 4.155709 TGAAATGGGTTTCCAGTGCAATA 58.844 39.130 0.00 0.00 43.15 1.90
2595 2959 4.748102 TCGACTAAATTGCACTTTTCGTCT 59.252 37.500 17.68 0.00 0.00 4.18
2648 3013 2.438392 AGTTTCTCGTGGGAAGTTCCTT 59.562 45.455 21.25 0.00 36.57 3.36
3179 3579 6.292274 GCATTCATTTGTGTACTTGGTGTTTG 60.292 38.462 0.00 0.00 0.00 2.93
3764 4164 9.099454 CTGATCTTATCAAGGTAACAACTAACC 57.901 37.037 0.00 0.00 39.11 2.85
3852 4252 4.762289 AAATAGGTAAGTGCAGAGGAGG 57.238 45.455 0.00 0.00 0.00 4.30
4040 4440 4.335594 AGTTTGCAGTAACTTCTGTTGGTC 59.664 41.667 0.00 0.00 34.81 4.02
4091 4491 6.634805 CAGCACTTCTTTTAGTATCTCCTCA 58.365 40.000 0.00 0.00 0.00 3.86
4124 4524 4.115516 GTCATGTCGCAGAAGTCATACAT 58.884 43.478 0.00 0.00 39.69 2.29
4338 4741 6.598753 TGCGGAAAGTAACTATTTATCTGC 57.401 37.500 0.00 0.00 38.02 4.26
4915 5318 9.774413 TCAAAAGGGAAGAGTTTAAGTAAGTAG 57.226 33.333 0.00 0.00 0.00 2.57
5056 5459 1.810606 CTCAGAGCACACACGAGGGT 61.811 60.000 0.00 0.00 0.00 4.34
5334 5745 5.981088 TGTTTGTTCATACCTGATGCATT 57.019 34.783 0.00 0.00 35.29 3.56
5395 5818 7.436118 TCTTGAAAAATTTGTCCTGAGGATTG 58.564 34.615 3.65 0.00 32.73 2.67
5398 5821 8.243961 TGAAAAATTTGTCCTGAGGATTGTAA 57.756 30.769 3.65 0.00 32.73 2.41
5399 5822 8.700051 TGAAAAATTTGTCCTGAGGATTGTAAA 58.300 29.630 3.65 5.15 32.73 2.01
5400 5823 8.887036 AAAAATTTGTCCTGAGGATTGTAAAC 57.113 30.769 3.65 0.00 32.73 2.01
5467 5901 5.186992 AGCCTTTTTCAGTAAAAACAGGTGT 59.813 36.000 4.13 0.00 39.16 4.16
5487 5921 5.221130 GTGTGGTCTAGAGAAACTGTACAC 58.779 45.833 0.00 0.00 0.00 2.90
5580 6014 2.975266 TCTTGTTGTGTACGTGTTGGT 58.025 42.857 0.00 0.00 0.00 3.67
5653 6087 1.144969 CACAGTTATCACGGCGTGTT 58.855 50.000 35.65 30.05 34.79 3.32
5718 6152 3.267483 GGCACTTTCATACTCGGCTTTA 58.733 45.455 0.00 0.00 0.00 1.85
5776 6210 6.984740 TCGTTTTCATTTGCTTTATGTCAC 57.015 33.333 0.00 0.00 0.00 3.67
5897 6331 3.000773 CGCGGCAAAAGAGCAATAAAATC 60.001 43.478 0.00 0.00 35.83 2.17
6170 6610 2.052157 GACCTGACAGACGTTTTCTCG 58.948 52.381 3.32 0.00 28.96 4.04
6176 6616 4.285292 TGACAGACGTTTTCTCGTACTTC 58.715 43.478 0.00 0.00 44.21 3.01
6276 6719 5.128205 TGGATGCTATGGTCATTTCTCTTG 58.872 41.667 0.00 0.00 0.00 3.02
6444 6887 6.183360 TGCGGACATGCTAATTTGATAAATGT 60.183 34.615 0.00 0.00 35.36 2.71
6648 7093 3.821600 CGACTAGTGTATGGGCATAGTCT 59.178 47.826 0.00 0.00 39.99 3.24
6665 7110 1.618837 GTCTGACTAGTGTCTGGCCAA 59.381 52.381 7.01 0.00 43.29 4.52
6668 7113 1.339055 TGACTAGTGTCTGGCCAATGC 60.339 52.381 7.01 0.00 43.29 3.56
6704 7149 4.649310 TGGCGAGTGCGTGCGTAA 62.649 61.111 0.00 0.00 44.10 3.18
6705 7150 3.838795 GGCGAGTGCGTGCGTAAG 61.839 66.667 0.00 0.00 44.10 2.34
6706 7151 3.103911 GCGAGTGCGTGCGTAAGT 61.104 61.111 0.00 0.00 40.36 2.24
6707 7152 2.763248 CGAGTGCGTGCGTAAGTG 59.237 61.111 0.00 0.00 41.68 3.16
6708 7153 2.014554 CGAGTGCGTGCGTAAGTGT 61.015 57.895 0.00 0.00 41.68 3.55
6718 7163 1.003851 GCGTAAGTGTGTGTGTGTGT 58.996 50.000 0.00 0.00 41.68 3.72
6767 7241 1.803334 GTGTAATCGTTGCCCAGTCA 58.197 50.000 0.00 0.00 0.00 3.41
6838 7313 1.351017 GAAATCTCCCTGTGTCCACCA 59.649 52.381 0.00 0.00 0.00 4.17
6845 7320 1.202927 CCCTGTGTCCACCATGTTCTT 60.203 52.381 0.00 0.00 0.00 2.52
6850 7325 1.351017 TGTCCACCATGTTCTTCCTCC 59.649 52.381 0.00 0.00 0.00 4.30
6851 7326 1.630878 GTCCACCATGTTCTTCCTCCT 59.369 52.381 0.00 0.00 0.00 3.69
6852 7327 2.040412 GTCCACCATGTTCTTCCTCCTT 59.960 50.000 0.00 0.00 0.00 3.36
6853 7328 2.716424 TCCACCATGTTCTTCCTCCTTT 59.284 45.455 0.00 0.00 0.00 3.11
6854 7329 3.084786 CCACCATGTTCTTCCTCCTTTC 58.915 50.000 0.00 0.00 0.00 2.62
6855 7330 3.245052 CCACCATGTTCTTCCTCCTTTCT 60.245 47.826 0.00 0.00 0.00 2.52
6856 7331 4.401925 CACCATGTTCTTCCTCCTTTCTT 58.598 43.478 0.00 0.00 0.00 2.52
6916 7393 0.971447 GAGGGCGACTAGACAGGGTT 60.971 60.000 0.00 0.00 0.00 4.11
7017 7494 7.859325 TCACAGCCCAAAATATACTAAAGAC 57.141 36.000 0.00 0.00 0.00 3.01
7081 7558 3.003897 GCCCACGTATTTTTGTTGTCTGA 59.996 43.478 0.00 0.00 0.00 3.27
7082 7559 4.320935 GCCCACGTATTTTTGTTGTCTGAT 60.321 41.667 0.00 0.00 0.00 2.90
7331 7809 7.112122 TCATCTGGTTTGCTGTGTAATCTAAT 58.888 34.615 0.00 0.00 0.00 1.73
7380 7858 7.448228 CATCGTGAGTGTTGTTAGAATAGTTG 58.552 38.462 0.00 0.00 0.00 3.16
7466 7944 4.176271 GCCAACCAAATAAGATGCAAGAC 58.824 43.478 0.00 0.00 0.00 3.01
7651 8134 2.480037 TCGTGTGCAGCTCAGTTTATTG 59.520 45.455 0.00 0.00 0.00 1.90
7780 8266 6.537660 ACACTTTTTAGCGGTCTAACCATATC 59.462 38.462 0.00 0.00 38.47 1.63
7781 8267 6.018180 CACTTTTTAGCGGTCTAACCATATCC 60.018 42.308 0.00 0.00 38.47 2.59
7803 8289 5.104527 TCCTAGTAGCACGGTAGTACCTAAA 60.105 44.000 17.29 0.00 35.66 1.85
7819 8305 4.555348 CCTAAAGAGGTCGTAGCACTAG 57.445 50.000 0.00 0.00 38.16 2.57
7822 8308 5.125097 CCTAAAGAGGTCGTAGCACTAGAAA 59.875 44.000 0.00 0.00 38.16 2.52
7823 8309 4.437772 AAGAGGTCGTAGCACTAGAAAC 57.562 45.455 0.00 0.00 0.00 2.78
7824 8310 3.688235 AGAGGTCGTAGCACTAGAAACT 58.312 45.455 0.00 0.00 0.00 2.66
7825 8311 4.841422 AGAGGTCGTAGCACTAGAAACTA 58.159 43.478 0.00 0.00 0.00 2.24
7827 8313 3.693578 AGGTCGTAGCACTAGAAACTACC 59.306 47.826 0.00 0.92 34.14 3.18
7829 8315 4.157472 GGTCGTAGCACTAGAAACTACCTT 59.843 45.833 0.00 0.00 34.14 3.50
7830 8316 5.336293 GGTCGTAGCACTAGAAACTACCTTT 60.336 44.000 0.00 0.00 34.14 3.11
7831 8317 5.572126 GTCGTAGCACTAGAAACTACCTTTG 59.428 44.000 0.00 0.00 34.14 2.77
7832 8318 5.474532 TCGTAGCACTAGAAACTACCTTTGA 59.525 40.000 0.00 0.00 34.14 2.69
7833 8319 5.572126 CGTAGCACTAGAAACTACCTTTGAC 59.428 44.000 0.00 0.00 34.14 3.18
7834 8320 5.546621 AGCACTAGAAACTACCTTTGACA 57.453 39.130 0.00 0.00 0.00 3.58
7835 8321 5.925509 AGCACTAGAAACTACCTTTGACAA 58.074 37.500 0.00 0.00 0.00 3.18
7836 8322 6.354130 AGCACTAGAAACTACCTTTGACAAA 58.646 36.000 0.00 0.00 0.00 2.83
7837 8323 6.483640 AGCACTAGAAACTACCTTTGACAAAG 59.516 38.462 19.20 19.20 38.24 2.77
7838 8324 6.260271 GCACTAGAAACTACCTTTGACAAAGT 59.740 38.462 23.07 14.84 36.77 2.66
7839 8325 7.440255 GCACTAGAAACTACCTTTGACAAAGTA 59.560 37.037 23.07 15.11 36.77 2.24
7840 8326 9.490379 CACTAGAAACTACCTTTGACAAAGTAT 57.510 33.333 23.07 14.76 36.77 2.12
7841 8327 9.708092 ACTAGAAACTACCTTTGACAAAGTATC 57.292 33.333 23.07 12.80 36.77 2.24
7842 8328 9.930693 CTAGAAACTACCTTTGACAAAGTATCT 57.069 33.333 23.07 17.54 36.77 1.98
7850 8336 2.766313 TGACAAAGTATCTTGTGCGCT 58.234 42.857 9.73 0.00 39.63 5.92
7863 8349 1.152860 TGCGCTGGAAGAAAACCCA 60.153 52.632 9.73 0.00 34.07 4.51
7865 8351 0.603065 GCGCTGGAAGAAAACCCATT 59.397 50.000 0.00 0.00 34.07 3.16
7866 8352 1.000843 GCGCTGGAAGAAAACCCATTT 59.999 47.619 0.00 0.00 34.07 2.32
7873 8359 7.518211 CGCTGGAAGAAAACCCATTTTAAAAAG 60.518 37.037 4.44 0.00 38.17 2.27
7876 8362 9.168451 TGGAAGAAAACCCATTTTAAAAAGTTC 57.832 29.630 4.44 1.12 38.17 3.01
7879 8365 7.634718 AGAAAACCCATTTTAAAAAGTTCCCA 58.365 30.769 4.44 0.00 38.17 4.37
7881 8367 7.873719 AAACCCATTTTAAAAAGTTCCCAAG 57.126 32.000 4.44 0.00 0.00 3.61
7882 8368 6.816616 ACCCATTTTAAAAAGTTCCCAAGA 57.183 33.333 4.44 0.00 0.00 3.02
7884 8370 7.811282 ACCCATTTTAAAAAGTTCCCAAGAAT 58.189 30.769 4.44 0.00 33.67 2.40
7886 8372 8.783093 CCCATTTTAAAAAGTTCCCAAGAATTC 58.217 33.333 4.44 0.00 33.67 2.17
7888 8374 9.559732 CATTTTAAAAAGTTCCCAAGAATTCCT 57.440 29.630 4.44 0.00 33.67 3.36
7893 8379 8.727100 AAAAAGTTCCCAAGAATTCCTAGAAT 57.273 30.769 0.65 0.00 33.67 2.40
7894 8380 9.822727 AAAAAGTTCCCAAGAATTCCTAGAATA 57.177 29.630 0.65 0.00 33.67 1.75
7895 8381 9.822727 AAAAGTTCCCAAGAATTCCTAGAATAA 57.177 29.630 0.65 0.00 33.67 1.40
7896 8382 9.997172 AAAGTTCCCAAGAATTCCTAGAATAAT 57.003 29.630 0.65 0.00 33.67 1.28
7897 8383 9.997172 AAGTTCCCAAGAATTCCTAGAATAATT 57.003 29.630 0.65 0.00 33.67 1.40
7898 8384 9.634021 AGTTCCCAAGAATTCCTAGAATAATTC 57.366 33.333 0.65 13.19 40.72 2.17
7899 8385 9.408648 GTTCCCAAGAATTCCTAGAATAATTCA 57.591 33.333 18.95 4.36 42.14 2.57
7900 8386 9.632638 TTCCCAAGAATTCCTAGAATAATTCAG 57.367 33.333 18.95 13.62 42.14 3.02
7901 8387 7.721399 TCCCAAGAATTCCTAGAATAATTCAGC 59.279 37.037 18.95 0.00 42.14 4.26
7902 8388 7.040132 CCCAAGAATTCCTAGAATAATTCAGCC 60.040 40.741 18.95 2.87 42.14 4.85
7903 8389 7.723172 CCAAGAATTCCTAGAATAATTCAGCCT 59.277 37.037 18.95 4.60 42.14 4.58
7904 8390 9.784531 CAAGAATTCCTAGAATAATTCAGCCTA 57.215 33.333 18.95 0.00 42.14 3.93
7945 8431 4.826274 AGTGGTACATCTAGCATGTTGT 57.174 40.909 11.43 0.00 44.52 3.32
7952 8438 6.018425 GGTACATCTAGCATGTTGTGAATCAG 60.018 42.308 11.43 0.00 33.76 2.90
7954 8440 6.643388 ACATCTAGCATGTTGTGAATCAGTA 58.357 36.000 0.00 0.00 0.00 2.74
7960 8446 4.618489 GCATGTTGTGAATCAGTAACAAGC 59.382 41.667 18.01 18.01 39.47 4.01
7962 8448 6.348458 GCATGTTGTGAATCAGTAACAAGCTA 60.348 38.462 22.12 3.11 41.67 3.32
7965 8451 8.165239 TGTTGTGAATCAGTAACAAGCTAAAT 57.835 30.769 9.62 0.00 34.64 1.40
7966 8452 8.289618 TGTTGTGAATCAGTAACAAGCTAAATC 58.710 33.333 9.62 0.00 34.64 2.17
7972 8458 9.384764 GAATCAGTAACAAGCTAAATCCTTAGT 57.615 33.333 0.00 0.00 37.44 2.24
7973 8459 9.740710 AATCAGTAACAAGCTAAATCCTTAGTT 57.259 29.630 0.00 0.00 37.44 2.24
7988 8474 9.990868 AAATCCTTAGTTATTAGACAATGGGTT 57.009 29.630 0.00 0.00 0.00 4.11
7989 8475 9.990868 AATCCTTAGTTATTAGACAATGGGTTT 57.009 29.630 0.00 0.00 0.00 3.27
7996 8482 9.802039 AGTTATTAGACAATGGGTTTAGACAAA 57.198 29.630 0.00 0.00 0.00 2.83
8002 8488 8.706322 AGACAATGGGTTTAGACAAATAAACT 57.294 30.769 8.70 0.00 42.63 2.66
8003 8489 9.143155 AGACAATGGGTTTAGACAAATAAACTT 57.857 29.630 8.70 0.00 42.63 2.66
8004 8490 9.406828 GACAATGGGTTTAGACAAATAAACTTC 57.593 33.333 8.70 3.96 42.63 3.01
8005 8491 8.364894 ACAATGGGTTTAGACAAATAAACTTCC 58.635 33.333 8.70 4.34 42.63 3.46
8006 8492 8.364142 CAATGGGTTTAGACAAATAAACTTCCA 58.636 33.333 8.70 8.70 42.63 3.53
8007 8493 7.279750 TGGGTTTAGACAAATAAACTTCCAC 57.720 36.000 8.70 0.00 42.63 4.02
8008 8494 6.265876 TGGGTTTAGACAAATAAACTTCCACC 59.734 38.462 8.70 3.24 42.63 4.61
8009 8495 6.376177 GGTTTAGACAAATAAACTTCCACCG 58.624 40.000 8.70 0.00 42.63 4.94
8010 8496 5.616488 TTAGACAAATAAACTTCCACCGC 57.384 39.130 0.00 0.00 0.00 5.68
8011 8497 3.482436 AGACAAATAAACTTCCACCGCA 58.518 40.909 0.00 0.00 0.00 5.69
8012 8498 3.886505 AGACAAATAAACTTCCACCGCAA 59.113 39.130 0.00 0.00 0.00 4.85
8013 8499 4.339814 AGACAAATAAACTTCCACCGCAAA 59.660 37.500 0.00 0.00 0.00 3.68
8014 8500 5.012328 ACAAATAAACTTCCACCGCAAAA 57.988 34.783 0.00 0.00 0.00 2.44
8015 8501 5.420409 ACAAATAAACTTCCACCGCAAAAA 58.580 33.333 0.00 0.00 0.00 1.94
8054 8540 8.541133 AGAGAAATAAACTTACTGCTTCAGTC 57.459 34.615 2.39 0.00 41.21 3.51
8060 8546 9.944376 AATAAACTTACTGCTTCAGTCTGAATA 57.056 29.630 15.60 7.48 41.21 1.75
8061 8547 9.944376 ATAAACTTACTGCTTCAGTCTGAATAA 57.056 29.630 15.60 10.18 41.21 1.40
8063 8549 7.659652 ACTTACTGCTTCAGTCTGAATAAAC 57.340 36.000 15.60 6.87 41.21 2.01
8067 8553 7.659652 ACTGCTTCAGTCTGAATAAACTAAC 57.340 36.000 15.60 0.35 41.21 2.34
8072 8561 7.412455 GCTTCAGTCTGAATAAACTAACAGCTC 60.412 40.741 15.60 0.00 35.59 4.09
8087 8576 2.954753 GCTCAAACGAGGTGGCACG 61.955 63.158 12.17 2.62 0.00 5.34
8090 8579 1.885388 CAAACGAGGTGGCACGTCA 60.885 57.895 32.04 0.00 41.87 4.35
8118 8607 1.616865 TGTTACGGCTACAGCTCAAGT 59.383 47.619 0.54 0.27 41.70 3.16
8137 8626 4.301072 AGTTTGCAAGCAGGATAAGGTA 57.699 40.909 16.04 0.00 0.00 3.08
8138 8627 4.265073 AGTTTGCAAGCAGGATAAGGTAG 58.735 43.478 16.04 0.00 0.00 3.18
8139 8628 4.010349 GTTTGCAAGCAGGATAAGGTAGT 58.990 43.478 8.58 0.00 0.00 2.73
8140 8629 5.045869 AGTTTGCAAGCAGGATAAGGTAGTA 60.046 40.000 16.04 0.00 0.00 1.82
8141 8630 5.630415 TTGCAAGCAGGATAAGGTAGTAT 57.370 39.130 0.00 0.00 0.00 2.12
8144 8633 6.759272 TGCAAGCAGGATAAGGTAGTATAAG 58.241 40.000 0.00 0.00 0.00 1.73
8145 8634 6.553476 TGCAAGCAGGATAAGGTAGTATAAGA 59.447 38.462 0.00 0.00 0.00 2.10
8214 8703 2.440409 AGCATGCATTCGAAAGGACTT 58.560 42.857 21.98 0.00 0.00 3.01
8280 8769 1.664151 GGGCGACATTTCTTCCTAACG 59.336 52.381 0.00 0.00 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 8.270744 AGTATTCTCTGCAAATGGTAGAAGATT 58.729 33.333 0.00 0.00 37.81 2.40
77 78 6.380274 AGACCCAACGAGATGTAGAAGAAATA 59.620 38.462 0.00 0.00 0.00 1.40
78 79 5.187967 AGACCCAACGAGATGTAGAAGAAAT 59.812 40.000 0.00 0.00 0.00 2.17
190 191 7.865889 CGTAGTCTTTCACATGCCTATGTATAA 59.134 37.037 0.00 0.00 45.53 0.98
271 448 1.003116 CATGTAGGCAGCTTTCGCATC 60.003 52.381 0.00 0.00 39.10 3.91
314 491 9.050154 TCATCATCCCATTATATATCGCCATAT 57.950 33.333 0.00 0.00 0.00 1.78
391 568 3.371097 GAGGAGCGTCCGATTGCCA 62.371 63.158 0.00 0.00 42.75 4.92
408 585 3.006967 GTGTGGGAAAGAGCAACTCTAGA 59.993 47.826 0.00 0.00 40.28 2.43
458 635 4.101898 TGTTACTGCTGAAGTTACTCCCAA 59.898 41.667 6.50 0.00 38.87 4.12
503 680 8.768397 TCCTCATTAACTCATTACCACATAAGT 58.232 33.333 0.00 0.00 0.00 2.24
513 691 8.282982 ACTACCTCTCTCCTCATTAACTCATTA 58.717 37.037 0.00 0.00 0.00 1.90
555 733 7.975616 ACTCATATTGCATTGAAACATGTAACC 59.024 33.333 0.00 0.00 0.00 2.85
628 817 7.617041 ATGTTTCAACATTCTTAGTCTAGCC 57.383 36.000 0.00 0.00 46.95 3.93
760 971 2.379972 CGTGAGACTAGGGAGGATGTT 58.620 52.381 0.00 0.00 0.00 2.71
826 1037 0.109132 ATTAGTTTTGGCTGCTGCGC 60.109 50.000 9.65 0.00 40.82 6.09
842 1053 0.747255 GCGGCTCTGTCTCCTGATTA 59.253 55.000 0.00 0.00 0.00 1.75
989 1200 2.753043 GAGCCATGCAGGTGTGGG 60.753 66.667 6.21 0.00 40.61 4.61
1160 1371 5.109903 GTGGACTCGTAACTGAAAGCATAT 58.890 41.667 0.00 0.00 37.60 1.78
1180 1391 2.124903 GTAACCGTATGAGCATCGTGG 58.875 52.381 0.00 0.00 38.61 4.94
1294 1506 0.254178 AATAGTGAGCAGTGCCCCAG 59.746 55.000 12.58 0.00 0.00 4.45
1337 1557 0.895100 AAAGCATGCGTCCACCACAT 60.895 50.000 13.01 0.00 0.00 3.21
1385 1608 3.057174 ATAGTTGATGCCTAGCGACTAGC 60.057 47.826 7.99 5.40 41.22 3.42
1386 1609 4.775058 ATAGTTGATGCCTAGCGACTAG 57.225 45.455 6.85 6.85 41.22 2.57
1387 1610 5.314529 ACTATAGTTGATGCCTAGCGACTA 58.685 41.667 0.00 0.00 41.90 2.59
1388 1611 4.145807 ACTATAGTTGATGCCTAGCGACT 58.854 43.478 0.00 0.00 40.04 4.18
1389 1612 4.506886 ACTATAGTTGATGCCTAGCGAC 57.493 45.455 0.00 0.00 0.00 5.19
1496 1857 1.837439 ACCGGAGTCTGCATCCATTTA 59.163 47.619 9.46 0.00 36.57 1.40
1632 1993 0.519519 CGAGACTCGAGAGCACAACT 59.480 55.000 21.68 6.22 43.74 3.16
1643 2004 7.050281 ACAGAAAACAAATTATCGAGACTCG 57.950 36.000 18.91 18.91 42.10 4.18
1645 2006 9.877178 AGATACAGAAAACAAATTATCGAGACT 57.123 29.630 0.00 0.00 0.00 3.24
1646 2007 9.907576 CAGATACAGAAAACAAATTATCGAGAC 57.092 33.333 0.00 0.00 0.00 3.36
1647 2008 9.653287 ACAGATACAGAAAACAAATTATCGAGA 57.347 29.630 0.00 0.00 0.00 4.04
1648 2009 9.694520 CACAGATACAGAAAACAAATTATCGAG 57.305 33.333 0.00 0.00 0.00 4.04
1695 2056 2.030717 CCTGCCTACACTATCAGCTACG 60.031 54.545 0.00 0.00 0.00 3.51
1722 2083 4.217118 GCCATCCGCATATCTGAAGATTTT 59.783 41.667 0.00 0.00 37.47 1.82
1723 2084 3.755378 GCCATCCGCATATCTGAAGATTT 59.245 43.478 0.00 0.00 37.47 2.17
1724 2085 3.244665 TGCCATCCGCATATCTGAAGATT 60.245 43.478 0.00 0.00 44.64 2.40
1725 2086 2.303890 TGCCATCCGCATATCTGAAGAT 59.696 45.455 0.00 0.00 44.64 2.40
1761 2122 2.939103 CAGCCTAATTTCCAGTCTTCCG 59.061 50.000 0.00 0.00 0.00 4.30
1852 2215 3.632145 CACAACAAAAGACTTGCTACCCT 59.368 43.478 0.00 0.00 0.00 4.34
2004 2367 2.079170 TGCACTGGAAACCCATTTCA 57.921 45.000 2.48 0.00 45.26 2.69
2011 2374 3.369366 CCCCAATTATTGCACTGGAAACC 60.369 47.826 0.00 0.00 0.00 3.27
2017 2380 2.566724 ACCAACCCCAATTATTGCACTG 59.433 45.455 0.00 0.00 0.00 3.66
2026 2389 2.472029 TGTGTGAAACCAACCCCAATT 58.528 42.857 0.00 0.00 34.36 2.32
2081 2444 9.079833 CAAAACATAGCTAGGAAACAAATCATG 57.920 33.333 13.23 0.00 0.00 3.07
2145 2508 5.356882 TTGAATCAAACAGGAACGATGTC 57.643 39.130 0.00 0.00 0.00 3.06
2146 2509 5.964958 ATTGAATCAAACAGGAACGATGT 57.035 34.783 0.00 0.00 0.00 3.06
2147 2510 7.381948 TGAAAATTGAATCAAACAGGAACGATG 59.618 33.333 0.00 0.00 0.00 3.84
2148 2511 7.432869 TGAAAATTGAATCAAACAGGAACGAT 58.567 30.769 0.00 0.00 0.00 3.73
2149 2512 6.800543 TGAAAATTGAATCAAACAGGAACGA 58.199 32.000 0.00 0.00 0.00 3.85
2150 2513 7.336975 GTTGAAAATTGAATCAAACAGGAACG 58.663 34.615 0.00 0.00 37.31 3.95
2151 2514 7.279758 TGGTTGAAAATTGAATCAAACAGGAAC 59.720 33.333 12.89 1.47 45.58 3.62
3104 3504 8.962884 ACTAATGATATTTAGCACATCACACA 57.037 30.769 0.00 0.00 33.34 3.72
3128 3528 4.647424 TGAGGTGAAAACAACATGGAAC 57.353 40.909 0.00 0.00 0.00 3.62
3179 3579 7.364522 TCAGTGTTAAATACATGAGCTGAAC 57.635 36.000 0.00 0.00 39.39 3.18
3852 4252 5.029807 TCCCCATTTGTCAAAAAGGAAAC 57.970 39.130 17.34 0.00 36.44 2.78
4040 4440 3.889815 TCTCAGCAATCCCTTACCATTG 58.110 45.455 0.00 0.00 33.77 2.82
4068 4468 6.859112 TGAGGAGATACTAAAAGAAGTGCT 57.141 37.500 0.00 0.00 0.00 4.40
4317 4717 9.692749 TCATAGCAGATAAATAGTTACTTTCCG 57.307 33.333 0.00 0.00 0.00 4.30
4338 4741 6.350864 CCCTACAGGTCTGAATATGCTCATAG 60.351 46.154 4.84 0.00 0.00 2.23
4614 5017 2.999355 CTCGAGAGGCTGGAAAAGAAAG 59.001 50.000 6.58 0.00 0.00 2.62
4915 5318 4.504858 TCCTAACTCAATTCTTCTTCCGC 58.495 43.478 0.00 0.00 0.00 5.54
5056 5459 4.565166 CGAATAAACGATAACCTGTGCTCA 59.435 41.667 0.00 0.00 35.09 4.26
5395 5818 0.309612 CACCCGCACCTGTTGTTTAC 59.690 55.000 0.00 0.00 0.00 2.01
5398 5821 2.518349 CCACCCGCACCTGTTGTT 60.518 61.111 0.00 0.00 0.00 2.83
5399 5822 2.847366 AAACCACCCGCACCTGTTGT 62.847 55.000 0.00 0.00 0.00 3.32
5400 5823 2.124693 AAACCACCCGCACCTGTTG 61.125 57.895 0.00 0.00 0.00 3.33
5453 5887 5.601313 TCTCTAGACCACACCTGTTTTTACT 59.399 40.000 0.00 0.00 0.00 2.24
5458 5892 4.409247 AGTTTCTCTAGACCACACCTGTTT 59.591 41.667 0.00 0.00 0.00 2.83
5467 5901 6.665992 ATTGTGTACAGTTTCTCTAGACCA 57.334 37.500 0.00 0.00 0.00 4.02
5487 5921 8.511321 TGCCACTAATGAGTAGTTTGTTTATTG 58.489 33.333 0.00 0.00 41.37 1.90
5580 6014 2.505337 CGCGGACCGTGATCGAAA 60.505 61.111 22.98 0.00 39.94 3.46
5611 6045 0.031178 CAAGCCTCCACTTGTTGTGC 59.969 55.000 0.00 0.00 44.92 4.57
5653 6087 0.323360 GCCAATGCCTACAGGGTTCA 60.323 55.000 0.00 0.00 37.43 3.18
5718 6152 6.071221 TGCTTGAAAATTGCTCTATTCCACAT 60.071 34.615 0.00 0.00 0.00 3.21
5776 6210 5.882557 ACCTAGCCAAACACAAAGATAGATG 59.117 40.000 0.00 0.00 0.00 2.90
5949 6389 5.574188 AGTAGCAAAAGATTCCACCATTCT 58.426 37.500 0.00 0.00 0.00 2.40
6170 6610 8.409358 AAATGATATAAATGCAGGGGAAGTAC 57.591 34.615 0.00 0.00 0.00 2.73
6176 6616 8.186709 AGAAAGAAATGATATAAATGCAGGGG 57.813 34.615 0.00 0.00 0.00 4.79
6379 6822 6.183360 CGCATACATATGGCCCAAATACTTAG 60.183 42.308 7.80 0.00 34.32 2.18
6444 6887 5.786311 ACATGGTTACGTGTTTTCTAGCTA 58.214 37.500 0.00 0.00 44.19 3.32
6648 7093 3.940052 TGCATTGGCCAGACACTAGTCA 61.940 50.000 5.11 0.00 42.86 3.41
6665 7110 2.573869 CTCGACCTGGACGTGCAT 59.426 61.111 11.16 0.00 0.00 3.96
6668 7113 4.436998 GGGCTCGACCTGGACGTG 62.437 72.222 17.38 15.86 39.10 4.49
6692 7137 1.227147 ACACACTTACGCACGCACT 60.227 52.632 0.00 0.00 0.00 4.40
6703 7148 1.164411 CCACACACACACACACACTT 58.836 50.000 0.00 0.00 0.00 3.16
6704 7149 0.676466 CCCACACACACACACACACT 60.676 55.000 0.00 0.00 0.00 3.55
6705 7150 0.958382 ACCCACACACACACACACAC 60.958 55.000 0.00 0.00 0.00 3.82
6706 7151 0.675208 GACCCACACACACACACACA 60.675 55.000 0.00 0.00 0.00 3.72
6707 7152 0.392461 AGACCCACACACACACACAC 60.392 55.000 0.00 0.00 0.00 3.82
6708 7153 0.392327 CAGACCCACACACACACACA 60.392 55.000 0.00 0.00 0.00 3.72
6718 7163 0.888619 CTCTCGCTAACAGACCCACA 59.111 55.000 0.00 0.00 0.00 4.17
6747 7221 0.719465 GACTGGGCAACGATTACACG 59.281 55.000 0.00 0.00 39.31 4.49
6838 7313 5.311913 AGGAAGAAGAAAGGAGGAAGAACAT 59.688 40.000 0.00 0.00 0.00 2.71
6845 7320 3.327439 ACCAAGGAAGAAGAAAGGAGGA 58.673 45.455 0.00 0.00 0.00 3.71
6850 7325 3.187432 GCTCGAACCAAGGAAGAAGAAAG 59.813 47.826 0.00 0.00 0.00 2.62
6851 7326 3.139077 GCTCGAACCAAGGAAGAAGAAA 58.861 45.455 0.00 0.00 0.00 2.52
6852 7327 2.550208 GGCTCGAACCAAGGAAGAAGAA 60.550 50.000 0.00 0.00 0.00 2.52
6853 7328 1.002087 GGCTCGAACCAAGGAAGAAGA 59.998 52.381 0.00 0.00 0.00 2.87
6854 7329 1.270839 TGGCTCGAACCAAGGAAGAAG 60.271 52.381 4.72 0.00 36.55 2.85
6855 7330 0.762418 TGGCTCGAACCAAGGAAGAA 59.238 50.000 4.72 0.00 36.55 2.52
6856 7331 0.321671 CTGGCTCGAACCAAGGAAGA 59.678 55.000 9.21 0.00 39.86 2.87
7017 7494 7.742963 GCAATAACAAGAAATGCAATTCACTTG 59.257 33.333 16.58 14.27 46.23 3.16
7134 7611 3.838565 TCATCCTGTTTAGGCCACAAAA 58.161 40.909 5.01 0.00 44.22 2.44
7198 7676 1.252175 TCTCTGTCACAGTGAGAGCC 58.748 55.000 20.64 2.61 37.65 4.70
7362 7840 9.052759 CCAACTTACAACTATTCTAACAACACT 57.947 33.333 0.00 0.00 0.00 3.55
7363 7841 7.801783 GCCAACTTACAACTATTCTAACAACAC 59.198 37.037 0.00 0.00 0.00 3.32
7364 7842 7.040961 GGCCAACTTACAACTATTCTAACAACA 60.041 37.037 0.00 0.00 0.00 3.33
7365 7843 7.303261 GGCCAACTTACAACTATTCTAACAAC 58.697 38.462 0.00 0.00 0.00 3.32
7380 7858 2.351350 CCAAATCACACGGCCAACTTAC 60.351 50.000 2.24 0.00 0.00 2.34
7628 8111 1.597742 AAACTGAGCTGCACACGATT 58.402 45.000 1.02 0.00 0.00 3.34
7651 8134 5.817816 ACGTCATTCATATTTCTCCCTGAAC 59.182 40.000 0.00 0.00 33.88 3.18
7695 8178 8.081633 TCAATCCACATATCAAGAAACAAACAC 58.918 33.333 0.00 0.00 0.00 3.32
7697 8180 9.643693 ATTCAATCCACATATCAAGAAACAAAC 57.356 29.630 0.00 0.00 0.00 2.93
7780 8266 3.205784 AGGTACTACCGTGCTACTAGG 57.794 52.381 0.00 0.00 44.90 3.02
7781 8267 6.051717 TCTTTAGGTACTACCGTGCTACTAG 58.948 44.000 0.00 0.00 44.90 2.57
7803 8289 3.688235 AGTTTCTAGTGCTACGACCTCT 58.312 45.455 0.00 0.00 0.00 3.69
7808 8294 5.474532 TCAAAGGTAGTTTCTAGTGCTACGA 59.525 40.000 0.00 4.85 36.78 3.43
7811 8297 6.659745 TGTCAAAGGTAGTTTCTAGTGCTA 57.340 37.500 0.00 0.00 0.00 3.49
7819 8305 8.837389 ACAAGATACTTTGTCAAAGGTAGTTTC 58.163 33.333 25.38 12.10 42.82 2.78
7822 8308 6.204882 GCACAAGATACTTTGTCAAAGGTAGT 59.795 38.462 25.38 10.80 42.82 2.73
7823 8309 6.603095 GCACAAGATACTTTGTCAAAGGTAG 58.397 40.000 25.38 13.08 42.82 3.18
7824 8310 5.178623 CGCACAAGATACTTTGTCAAAGGTA 59.821 40.000 25.38 16.38 42.82 3.08
7825 8311 4.024048 CGCACAAGATACTTTGTCAAAGGT 60.024 41.667 25.38 15.46 42.82 3.50
7827 8313 3.908382 GCGCACAAGATACTTTGTCAAAG 59.092 43.478 21.34 21.34 39.17 2.77
7829 8315 3.058983 CAGCGCACAAGATACTTTGTCAA 60.059 43.478 11.47 0.00 39.17 3.18
7830 8316 2.480037 CAGCGCACAAGATACTTTGTCA 59.520 45.455 11.47 0.00 39.17 3.58
7831 8317 2.159653 CCAGCGCACAAGATACTTTGTC 60.160 50.000 11.47 0.00 39.17 3.18
7832 8318 1.806542 CCAGCGCACAAGATACTTTGT 59.193 47.619 11.47 0.00 41.77 2.83
7833 8319 2.076100 TCCAGCGCACAAGATACTTTG 58.924 47.619 11.47 0.00 0.00 2.77
7834 8320 2.472695 TCCAGCGCACAAGATACTTT 57.527 45.000 11.47 0.00 0.00 2.66
7835 8321 2.028112 TCTTCCAGCGCACAAGATACTT 60.028 45.455 11.47 0.00 0.00 2.24
7836 8322 1.550524 TCTTCCAGCGCACAAGATACT 59.449 47.619 11.47 0.00 0.00 2.12
7837 8323 2.010145 TCTTCCAGCGCACAAGATAC 57.990 50.000 11.47 0.00 0.00 2.24
7838 8324 2.760634 TTCTTCCAGCGCACAAGATA 57.239 45.000 11.47 2.55 0.00 1.98
7839 8325 1.896220 TTTCTTCCAGCGCACAAGAT 58.104 45.000 11.47 0.00 0.00 2.40
7840 8326 1.333619 GTTTTCTTCCAGCGCACAAGA 59.666 47.619 11.47 10.94 0.00 3.02
7841 8327 1.600413 GGTTTTCTTCCAGCGCACAAG 60.600 52.381 11.47 8.48 0.00 3.16
7842 8328 0.383949 GGTTTTCTTCCAGCGCACAA 59.616 50.000 11.47 0.00 0.00 3.33
7850 8336 9.168451 GAACTTTTTAAAATGGGTTTTCTTCCA 57.832 29.630 15.81 0.00 38.44 3.53
7865 8351 9.649316 TCTAGGAATTCTTGGGAACTTTTTAAA 57.351 29.630 5.23 0.00 33.96 1.52
7866 8352 9.649316 TTCTAGGAATTCTTGGGAACTTTTTAA 57.351 29.630 5.23 0.00 33.96 1.52
7873 8359 9.408648 TGAATTATTCTAGGAATTCTTGGGAAC 57.591 33.333 18.38 0.00 40.94 3.62
7876 8362 7.040132 GGCTGAATTATTCTAGGAATTCTTGGG 60.040 40.741 18.38 0.00 40.94 4.12
7909 8395 9.535170 AGATGTACCACTTATATGCTACTATGT 57.465 33.333 0.00 0.00 0.00 2.29
7912 8398 9.175312 GCTAGATGTACCACTTATATGCTACTA 57.825 37.037 0.00 0.00 0.00 1.82
7913 8399 7.670140 TGCTAGATGTACCACTTATATGCTACT 59.330 37.037 0.00 0.00 0.00 2.57
7914 8400 7.827701 TGCTAGATGTACCACTTATATGCTAC 58.172 38.462 0.00 0.00 0.00 3.58
7915 8401 8.470002 CATGCTAGATGTACCACTTATATGCTA 58.530 37.037 0.00 0.00 0.00 3.49
7916 8402 6.918067 TGCTAGATGTACCACTTATATGCT 57.082 37.500 0.00 0.00 0.00 3.79
7917 8403 7.099764 ACATGCTAGATGTACCACTTATATGC 58.900 38.462 0.00 0.00 0.00 3.14
7918 8404 8.929746 CAACATGCTAGATGTACCACTTATATG 58.070 37.037 0.00 0.00 0.00 1.78
7919 8405 8.651389 ACAACATGCTAGATGTACCACTTATAT 58.349 33.333 0.00 0.00 0.00 0.86
7920 8406 7.926018 CACAACATGCTAGATGTACCACTTATA 59.074 37.037 0.00 0.00 0.00 0.98
7921 8407 6.763135 CACAACATGCTAGATGTACCACTTAT 59.237 38.462 0.00 0.00 0.00 1.73
7922 8408 6.071051 TCACAACATGCTAGATGTACCACTTA 60.071 38.462 0.00 0.00 0.00 2.24
7923 8409 4.937620 CACAACATGCTAGATGTACCACTT 59.062 41.667 0.00 0.00 0.00 3.16
7924 8410 4.222810 TCACAACATGCTAGATGTACCACT 59.777 41.667 0.00 0.00 0.00 4.00
7925 8411 4.503910 TCACAACATGCTAGATGTACCAC 58.496 43.478 0.00 0.00 0.00 4.16
7926 8412 4.817318 TCACAACATGCTAGATGTACCA 57.183 40.909 0.00 0.00 0.00 3.25
7927 8413 5.817296 TGATTCACAACATGCTAGATGTACC 59.183 40.000 0.00 0.00 0.00 3.34
7928 8414 6.536582 ACTGATTCACAACATGCTAGATGTAC 59.463 38.462 0.00 0.00 0.00 2.90
7929 8415 6.643388 ACTGATTCACAACATGCTAGATGTA 58.357 36.000 0.00 0.00 0.00 2.29
7934 8420 6.726258 TGTTACTGATTCACAACATGCTAG 57.274 37.500 0.00 0.00 0.00 3.42
7937 8423 4.618489 GCTTGTTACTGATTCACAACATGC 59.382 41.667 20.07 20.07 41.62 4.06
7945 8431 9.383519 CTAAGGATTTAGCTTGTTACTGATTCA 57.616 33.333 0.00 0.00 30.63 2.57
7962 8448 9.990868 AACCCATTGTCTAATAACTAAGGATTT 57.009 29.630 0.00 0.00 0.00 2.17
7976 8462 9.802039 AGTTTATTTGTCTAAACCCATTGTCTA 57.198 29.630 3.73 0.00 40.77 2.59
7977 8463 8.706322 AGTTTATTTGTCTAAACCCATTGTCT 57.294 30.769 3.73 0.00 40.77 3.41
7978 8464 9.406828 GAAGTTTATTTGTCTAAACCCATTGTC 57.593 33.333 3.73 0.00 40.77 3.18
7979 8465 8.364894 GGAAGTTTATTTGTCTAAACCCATTGT 58.635 33.333 3.73 0.00 40.77 2.71
7980 8466 8.364142 TGGAAGTTTATTTGTCTAAACCCATTG 58.636 33.333 3.73 0.00 40.77 2.82
7981 8467 8.364894 GTGGAAGTTTATTTGTCTAAACCCATT 58.635 33.333 7.49 0.00 40.77 3.16
7982 8468 7.039293 GGTGGAAGTTTATTTGTCTAAACCCAT 60.039 37.037 7.49 0.00 40.77 4.00
7983 8469 6.265876 GGTGGAAGTTTATTTGTCTAAACCCA 59.734 38.462 3.73 3.07 40.77 4.51
7984 8470 6.569035 CGGTGGAAGTTTATTTGTCTAAACCC 60.569 42.308 3.73 0.97 40.77 4.11
7985 8471 6.376177 CGGTGGAAGTTTATTTGTCTAAACC 58.624 40.000 3.73 0.00 40.77 3.27
7986 8472 5.854866 GCGGTGGAAGTTTATTTGTCTAAAC 59.145 40.000 0.00 0.00 40.38 2.01
7987 8473 5.531659 TGCGGTGGAAGTTTATTTGTCTAAA 59.468 36.000 0.00 0.00 0.00 1.85
7988 8474 5.064558 TGCGGTGGAAGTTTATTTGTCTAA 58.935 37.500 0.00 0.00 0.00 2.10
7989 8475 4.643463 TGCGGTGGAAGTTTATTTGTCTA 58.357 39.130 0.00 0.00 0.00 2.59
7990 8476 3.482436 TGCGGTGGAAGTTTATTTGTCT 58.518 40.909 0.00 0.00 0.00 3.41
7991 8477 3.907894 TGCGGTGGAAGTTTATTTGTC 57.092 42.857 0.00 0.00 0.00 3.18
7992 8478 4.657436 TTTGCGGTGGAAGTTTATTTGT 57.343 36.364 0.00 0.00 0.00 2.83
7993 8479 5.975410 TTTTTGCGGTGGAAGTTTATTTG 57.025 34.783 0.00 0.00 0.00 2.32
8045 8531 6.147821 GCTGTTAGTTTATTCAGACTGAAGCA 59.852 38.462 21.78 10.49 40.05 3.91
8046 8532 6.370166 AGCTGTTAGTTTATTCAGACTGAAGC 59.630 38.462 21.78 15.16 40.05 3.86
8047 8533 7.600375 TGAGCTGTTAGTTTATTCAGACTGAAG 59.400 37.037 21.78 6.58 40.05 3.02
8050 8536 7.658179 TTGAGCTGTTAGTTTATTCAGACTG 57.342 36.000 0.00 0.00 0.00 3.51
8054 8540 7.117241 TCGTTTGAGCTGTTAGTTTATTCAG 57.883 36.000 0.00 0.00 0.00 3.02
8060 8546 3.560068 CACCTCGTTTGAGCTGTTAGTTT 59.440 43.478 0.00 0.00 41.13 2.66
8061 8547 3.131396 CACCTCGTTTGAGCTGTTAGTT 58.869 45.455 0.00 0.00 41.13 2.24
8063 8549 2.069273 CCACCTCGTTTGAGCTGTTAG 58.931 52.381 0.00 0.00 41.13 2.34
8067 8553 1.597854 TGCCACCTCGTTTGAGCTG 60.598 57.895 0.00 0.00 41.13 4.24
8072 8561 1.885388 TGACGTGCCACCTCGTTTG 60.885 57.895 0.00 0.00 40.78 2.93
8087 8576 1.419922 CCGTAACAGCGCATGTGAC 59.580 57.895 11.47 13.26 43.00 3.67
8090 8579 1.082117 GTAGCCGTAACAGCGCATGT 61.082 55.000 11.47 8.55 46.97 3.21
8112 8601 4.380233 CCTTATCCTGCTTGCAAACTTGAG 60.380 45.833 0.00 0.00 0.00 3.02
8118 8607 4.301072 ACTACCTTATCCTGCTTGCAAA 57.699 40.909 0.00 0.00 0.00 3.68
8162 8651 6.477033 CGTACAGACAAGGTAGTAGTACGTAT 59.523 42.308 16.62 0.00 43.68 3.06
8163 8652 5.805486 CGTACAGACAAGGTAGTAGTACGTA 59.195 44.000 16.62 0.00 43.68 3.57
8164 8653 4.627467 CGTACAGACAAGGTAGTAGTACGT 59.373 45.833 16.62 0.00 43.68 3.57
8165 8654 5.136250 CGTACAGACAAGGTAGTAGTACG 57.864 47.826 13.38 13.38 43.46 3.67
8166 8655 4.493220 CGCGTACAGACAAGGTAGTAGTAC 60.493 50.000 0.00 0.00 33.38 2.73
8167 8656 3.618594 CGCGTACAGACAAGGTAGTAGTA 59.381 47.826 0.00 0.00 0.00 1.82
8168 8657 2.417933 CGCGTACAGACAAGGTAGTAGT 59.582 50.000 0.00 0.00 0.00 2.73
8169 8658 2.790468 GCGCGTACAGACAAGGTAGTAG 60.790 54.545 8.43 0.00 0.00 2.57
8170 8659 1.131126 GCGCGTACAGACAAGGTAGTA 59.869 52.381 8.43 0.00 0.00 1.82
8214 8703 1.067425 CAGGGTGACGTGTTCGGATTA 60.067 52.381 0.00 0.00 41.23 1.75


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

AutoCloner maintained by Alex Coulton.