Multiple sequence alignment - TraesCS7D01G241700

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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 TraesCS7D01G241700 chr7D 100.000 4901 0 0 1 4901 205946278 205941378 0.000000e+00 9051.0
1 TraesCS7D01G241700 chr7D 90.000 110 3 2 4211 4319 205942015 205941913 8.560000e-28 135.0
2 TraesCS7D01G241700 chr7D 90.000 110 3 2 4264 4366 205942068 205941960 8.560000e-28 135.0
3 TraesCS7D01G241700 chr7D 94.231 52 3 0 4214 4265 205941966 205941915 4.070000e-11 80.5
4 TraesCS7D01G241700 chr7D 94.231 52 3 0 4313 4364 205942065 205942014 4.070000e-11 80.5
5 TraesCS7D01G241700 chr7A 97.576 1444 29 3 2626 4064 218256876 218255434 0.000000e+00 2468.0
6 TraesCS7D01G241700 chr7A 93.457 1513 73 7 1082 2568 218260090 218258578 0.000000e+00 2222.0
7 TraesCS7D01G241700 chr7A 92.586 553 21 3 535 1085 218260880 218260346 0.000000e+00 776.0
8 TraesCS7D01G241700 chr7A 93.151 365 10 4 1 350 218261240 218260876 5.620000e-144 521.0
9 TraesCS7D01G241700 chr7A 88.986 345 30 6 4556 4900 218254941 218254605 2.110000e-113 420.0
10 TraesCS7D01G241700 chr7A 86.630 359 36 10 4547 4900 45563238 45562887 2.140000e-103 387.0
11 TraesCS7D01G241700 chr7A 86.630 359 36 9 4547 4900 552320034 552320385 2.140000e-103 387.0
12 TraesCS7D01G241700 chr7A 94.505 182 10 0 4084 4265 218255250 218255069 1.040000e-71 281.0
13 TraesCS7D01G241700 chr7B 93.257 1661 92 9 2610 4262 196309834 196311482 0.000000e+00 2429.0
14 TraesCS7D01G241700 chr7B 91.353 1168 68 15 760 1906 196281780 196282935 0.000000e+00 1567.0
15 TraesCS7D01G241700 chr7B 92.385 696 50 3 1913 2608 196309103 196309795 0.000000e+00 989.0
16 TraesCS7D01G241700 chr7B 88.396 767 56 20 1 747 196280968 196281721 0.000000e+00 893.0
17 TraesCS7D01G241700 chr7B 91.738 351 23 3 4547 4897 196311626 196311970 2.650000e-132 483.0
18 TraesCS7D01G241700 chr7B 88.940 217 22 2 4331 4547 196311452 196311666 2.910000e-67 267.0
19 TraesCS7D01G241700 chrUn 76.975 734 161 8 2785 3514 214044042 214044771 3.530000e-111 412.0
20 TraesCS7D01G241700 chrUn 76.975 734 161 8 2785 3514 240301043 240300314 3.530000e-111 412.0
21 TraesCS7D01G241700 chrUn 94.545 55 3 0 222 276 214037368 214037314 8.740000e-13 86.1
22 TraesCS7D01G241700 chr4D 86.872 358 37 7 4547 4900 101925517 101925868 4.600000e-105 392.0
23 TraesCS7D01G241700 chr2B 86.872 358 36 8 4547 4900 249470147 249469797 1.650000e-104 390.0
24 TraesCS7D01G241700 chr1A 86.630 359 36 10 4547 4900 154787003 154787354 2.140000e-103 387.0
25 TraesCS7D01G241700 chr1A 86.592 358 37 9 4547 4900 402286425 402286075 7.700000e-103 385.0
26 TraesCS7D01G241700 chr1A 83.333 156 23 2 4313 4467 218033511 218033664 1.840000e-29 141.0
27 TraesCS7D01G241700 chr1D 86.630 359 34 11 4547 4900 488555633 488555982 7.700000e-103 385.0
28 TraesCS7D01G241700 chr2A 75.828 302 73 0 2858 3159 18545976 18546277 2.360000e-33 154.0
29 TraesCS7D01G241700 chr6B 75.243 206 42 9 4347 4547 56228976 56229177 6.760000e-14 89.8
30 TraesCS7D01G241700 chr5B 88.235 68 6 2 3417 3483 508681051 508680985 4.070000e-11 80.5


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 TraesCS7D01G241700 chr7D 205941378 205946278 4900 True 9051.000000 9051 100.000000 1 4901 1 chr7D.!!$R1 4900
1 TraesCS7D01G241700 chr7A 218254605 218261240 6635 True 1114.666667 2468 93.376833 1 4900 6 chr7A.!!$R2 4899
2 TraesCS7D01G241700 chr7B 196280968 196282935 1967 False 1230.000000 1567 89.874500 1 1906 2 chr7B.!!$F1 1905
3 TraesCS7D01G241700 chr7B 196309103 196311970 2867 False 1042.000000 2429 91.580000 1913 4897 4 chr7B.!!$F2 2984
4 TraesCS7D01G241700 chrUn 214044042 214044771 729 False 412.000000 412 76.975000 2785 3514 1 chrUn.!!$F1 729
5 TraesCS7D01G241700 chrUn 240300314 240301043 729 True 412.000000 412 76.975000 2785 3514 1 chrUn.!!$R2 729

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
496 512 0.108138 CGTAGTCTTTCCAGCAGGGG 60.108 60.000 0.00 0.0 37.22 4.79 F
1617 2009 0.321671 TGCTTTCTCTAGTTGGCGCT 59.678 50.000 7.64 0.0 0.00 5.92 F
2031 2432 0.904649 TCCTCCTGCACATCGTTGAT 59.095 50.000 0.00 0.0 0.00 2.57 F
2367 2774 1.135315 CTTCGTTCCTGCCATTGCG 59.865 57.895 0.00 0.0 41.78 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2031 2432 0.327480 AGGAGCCATATGTCCACCCA 60.327 55.000 13.34 0.00 35.02 4.51 R
3275 5346 1.001974 TCTTGACGTCCCTGTGGATTG 59.998 52.381 14.12 0.00 44.28 2.67 R
3627 5702 0.036388 CCGCTACTTCCTTGGCTTCA 60.036 55.000 0.00 0.00 0.00 3.02 R
4249 6495 0.459759 GGTGGCTGTACTACCGCTTC 60.460 60.000 15.07 0.43 40.50 3.86 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
64 65 2.032054 TCTCTGCACAGAAAAAGCAACG 59.968 45.455 1.42 0.00 37.89 4.10
159 160 8.865001 CAAGGAATCGCTAGAATTACTATAAGC 58.135 37.037 0.00 0.00 0.00 3.09
362 378 7.352739 CGACTAATGGCAGGTTTTATTGATAC 58.647 38.462 0.00 0.00 0.00 2.24
372 388 9.255304 GCAGGTTTTATTGATACAGTTTTGAAA 57.745 29.630 0.00 0.00 0.00 2.69
448 464 3.129287 AGGAAGCATTTAATGGACTTGCG 59.871 43.478 7.08 0.00 38.32 4.85
453 469 3.798337 GCATTTAATGGACTTGCGGAATG 59.202 43.478 7.08 0.00 0.00 2.67
461 477 2.611292 GGACTTGCGGAATGATCTCTTG 59.389 50.000 0.00 0.00 0.00 3.02
496 512 0.108138 CGTAGTCTTTCCAGCAGGGG 60.108 60.000 0.00 0.00 37.22 4.79
508 532 2.114616 CAGCAGGGGAAGACACTATCT 58.885 52.381 0.00 0.00 40.46 1.98
557 581 3.244976 CAGTTGCATTTAAGGGCTTTCG 58.755 45.455 0.00 0.00 0.00 3.46
576 600 8.448615 GGCTTTCGACACTATAATTACTGTTTT 58.551 33.333 0.00 0.00 0.00 2.43
612 636 0.969409 ATCAAAGAAGCTGGCCTGCC 60.969 55.000 28.96 15.93 0.00 4.85
629 655 4.857251 CCCTGCGAAGGGTGATAC 57.143 61.111 22.01 0.00 44.08 2.24
698 734 9.499479 GAGAGAAGGAAATTCAAGATATATGCA 57.501 33.333 0.00 0.00 40.67 3.96
733 769 3.815401 GGATGAACAGAATGGTATTCCGG 59.185 47.826 0.00 0.00 33.00 5.14
760 859 2.808315 CGCTCTCATGGCGTACCT 59.192 61.111 6.66 0.00 46.37 3.08
761 860 1.299468 CGCTCTCATGGCGTACCTC 60.299 63.158 6.66 0.00 46.37 3.85
762 861 1.729470 CGCTCTCATGGCGTACCTCT 61.729 60.000 6.66 0.00 46.37 3.69
763 862 0.461961 GCTCTCATGGCGTACCTCTT 59.538 55.000 0.00 0.00 36.63 2.85
764 863 1.134670 GCTCTCATGGCGTACCTCTTT 60.135 52.381 0.00 0.00 36.63 2.52
765 864 2.100916 GCTCTCATGGCGTACCTCTTTA 59.899 50.000 0.00 0.00 36.63 1.85
766 865 3.430374 GCTCTCATGGCGTACCTCTTTAA 60.430 47.826 0.00 0.00 36.63 1.52
767 866 4.740934 GCTCTCATGGCGTACCTCTTTAAT 60.741 45.833 0.00 0.00 36.63 1.40
768 867 5.509163 GCTCTCATGGCGTACCTCTTTAATA 60.509 44.000 0.00 0.00 36.63 0.98
769 868 6.665992 TCTCATGGCGTACCTCTTTAATAT 57.334 37.500 0.00 0.00 36.63 1.28
770 869 6.455647 TCTCATGGCGTACCTCTTTAATATG 58.544 40.000 0.00 0.00 36.63 1.78
771 870 4.994852 TCATGGCGTACCTCTTTAATATGC 59.005 41.667 0.00 0.00 36.63 3.14
772 871 4.409718 TGGCGTACCTCTTTAATATGCA 57.590 40.909 0.00 0.00 36.63 3.96
825 924 5.126061 GCATGGAATATGTTGGTCTGACTTT 59.874 40.000 7.85 0.00 0.00 2.66
853 952 4.848299 GTGCTCTTGATAAAGTTTGCTTCG 59.152 41.667 0.00 0.00 33.01 3.79
938 1039 5.295950 AGCAGATAACTAGCATGTCATGAC 58.704 41.667 19.27 19.27 0.00 3.06
1060 1167 4.694339 ACTCTTGCTAACTCTGTTTCGTT 58.306 39.130 0.00 0.00 0.00 3.85
1061 1168 5.116882 ACTCTTGCTAACTCTGTTTCGTTT 58.883 37.500 0.00 0.00 0.00 3.60
1160 1538 3.877508 GGTGTATAATGGACTGGTTCTGC 59.122 47.826 0.00 0.00 0.00 4.26
1234 1612 5.590530 AGCAAAAGTAACCAAATCACACA 57.409 34.783 0.00 0.00 0.00 3.72
1271 1649 5.529060 GGAACATCCCTTAGAGCAGTAATTG 59.471 44.000 0.00 0.00 0.00 2.32
1309 1689 5.069251 ACTGCGAGCAATACTTATCTAGGTT 59.931 40.000 0.00 0.00 0.00 3.50
1375 1756 4.263905 TGGGAGGTCAAGTAATCTGCAAAT 60.264 41.667 0.00 0.00 0.00 2.32
1497 1889 6.003326 TCCAGAACACATAAATTCTTGCTGA 58.997 36.000 0.00 0.00 32.77 4.26
1505 1897 7.397192 ACACATAAATTCTTGCTGAAGGGTAAT 59.603 33.333 0.00 0.00 38.18 1.89
1601 1993 4.696877 TGTGATTGACGAAATGAGAATGCT 59.303 37.500 0.00 0.00 0.00 3.79
1617 2009 0.321671 TGCTTTCTCTAGTTGGCGCT 59.678 50.000 7.64 0.00 0.00 5.92
1657 2058 3.889227 GCAGCATAACACTGGCGA 58.111 55.556 0.00 0.00 35.62 5.54
1792 2193 1.672356 ACCTGCAATGAGACGCACC 60.672 57.895 0.00 0.00 33.75 5.01
1794 2195 2.029288 CTGCAATGAGACGCACCGT 61.029 57.895 0.00 0.00 45.10 4.83
1826 2227 2.034066 CCTGGACAACGGTGCCAT 59.966 61.111 15.47 0.00 33.90 4.40
1830 2231 1.303317 GGACAACGGTGCCATTCCT 60.303 57.895 0.00 0.00 0.00 3.36
1851 2252 2.034687 CCTGGCCCTGAGGTTGTG 59.965 66.667 0.00 0.00 34.57 3.33
1855 2256 2.352805 GCCCTGAGGTTGTGGAGG 59.647 66.667 0.00 0.00 34.57 4.30
1860 2261 1.486726 CCTGAGGTTGTGGAGGTATCC 59.513 57.143 0.00 0.00 46.87 2.59
1899 2300 2.434359 GTCGGGAGCTGGGTTTCG 60.434 66.667 0.00 0.00 0.00 3.46
1910 2311 1.952635 GGGTTTCGCACTTCGTCGT 60.953 57.895 0.00 0.00 39.67 4.34
1911 2312 1.200839 GGTTTCGCACTTCGTCGTG 59.799 57.895 0.00 3.11 39.67 4.35
2011 2412 2.527123 TGGGGTGTGGCTTCCGTA 60.527 61.111 0.00 0.00 0.00 4.02
2031 2432 0.904649 TCCTCCTGCACATCGTTGAT 59.095 50.000 0.00 0.00 0.00 2.57
2142 2543 4.783621 TGCTGCCAGCCGTCCATC 62.784 66.667 15.29 0.00 41.51 3.51
2163 2564 1.299976 GATTGGCCTTCGGTCCTGT 59.700 57.895 3.32 0.00 0.00 4.00
2277 2684 2.267324 GAGCAGGAGTGGTGGAGC 59.733 66.667 0.00 0.00 33.41 4.70
2292 2699 3.836176 GAGCGACGGGTCACACGTT 62.836 63.158 6.51 0.00 45.68 3.99
2367 2774 1.135315 CTTCGTTCCTGCCATTGCG 59.865 57.895 0.00 0.00 41.78 4.85
2448 2855 4.607305 GCCACAGCAAGAACAGTATGTGT 61.607 47.826 0.00 0.00 45.28 3.72
2568 2975 1.746220 CGTCTAGCAGCTGGTAAGTCT 59.254 52.381 24.70 10.43 0.00 3.24
2569 2976 2.223386 CGTCTAGCAGCTGGTAAGTCTC 60.223 54.545 24.70 12.70 0.00 3.36
2570 2977 3.020984 GTCTAGCAGCTGGTAAGTCTCT 58.979 50.000 24.70 9.02 0.00 3.10
2571 2978 4.200874 GTCTAGCAGCTGGTAAGTCTCTA 58.799 47.826 24.70 9.67 0.00 2.43
2572 2979 4.274950 GTCTAGCAGCTGGTAAGTCTCTAG 59.725 50.000 24.70 17.68 0.00 2.43
2603 3010 9.109393 GGAATTGTGTAAGCATTAGTTCATCTA 57.891 33.333 0.00 0.00 0.00 1.98
2689 4760 5.418310 ACAGTGTTGTCTGTAAATTTCGG 57.582 39.130 0.00 0.00 45.31 4.30
2754 4825 5.835113 TTTTGCTTCTAGTTCTTGCTGTT 57.165 34.783 0.00 0.00 0.00 3.16
2763 4834 3.019564 AGTTCTTGCTGTTGTCTTTGCT 58.980 40.909 0.00 0.00 0.00 3.91
2795 4866 4.704057 GGTCAAGGATCAGAAAGCAAAGAT 59.296 41.667 0.00 0.00 0.00 2.40
2979 5050 6.260936 CGGTCTACAAAGGCATTTTATCAGAT 59.739 38.462 0.00 0.00 0.00 2.90
2985 5056 7.092716 ACAAAGGCATTTTATCAGATCAACAC 58.907 34.615 0.00 0.00 0.00 3.32
3147 5218 6.903883 TTGCTAATCTACGAGTTCATTTCC 57.096 37.500 0.00 0.00 0.00 3.13
3224 5295 6.821160 TGGAAAGACAGATTACGAATTGCATA 59.179 34.615 0.00 0.00 0.00 3.14
3275 5346 2.939103 ACTCGGCTGCTTTGATATCAAC 59.061 45.455 17.76 8.24 35.28 3.18
3289 5360 7.571786 TTTGATATCAACAATCCACAGGGACG 61.572 42.308 17.76 0.00 40.00 4.79
3772 5847 2.159382 GCGACCCAGAAATGGAAGAAA 58.841 47.619 0.00 0.00 0.00 2.52
3789 5864 4.934075 AGAAATTCCGGTTAAACTACGC 57.066 40.909 0.00 0.00 0.00 4.42
3921 5996 6.997239 TGATCTTGAGGACATTCTTCATTG 57.003 37.500 0.00 0.00 32.38 2.82
3942 6017 3.118629 TGGATTATGTGGTCTCTCTGTGC 60.119 47.826 0.00 0.00 0.00 4.57
4075 6158 9.952030 TGTGTTTATATCTGGAAATACACTTGA 57.048 29.630 0.00 0.00 33.43 3.02
4222 6461 1.888436 CTCTGGCGCCACCTCTGTAA 61.888 60.000 29.03 0.00 40.22 2.41
4233 6479 3.399330 CACCTCTGTAACGTGGTTTCAT 58.601 45.455 0.00 0.00 0.00 2.57
4241 6487 4.757657 TGTAACGTGGTTTCATTGTGCTAT 59.242 37.500 0.00 0.00 0.00 2.97
4247 6493 3.505680 TGGTTTCATTGTGCTATGTGACC 59.494 43.478 10.96 10.96 34.82 4.02
4248 6494 3.119495 GGTTTCATTGTGCTATGTGACCC 60.119 47.826 0.00 0.00 31.49 4.46
4249 6495 2.022764 TCATTGTGCTATGTGACCCG 57.977 50.000 0.00 0.00 0.00 5.28
4250 6496 1.552792 TCATTGTGCTATGTGACCCGA 59.447 47.619 0.00 0.00 0.00 5.14
4251 6497 2.027653 TCATTGTGCTATGTGACCCGAA 60.028 45.455 0.00 0.00 0.00 4.30
4252 6498 2.093306 TTGTGCTATGTGACCCGAAG 57.907 50.000 0.00 0.00 0.00 3.79
4253 6499 0.391130 TGTGCTATGTGACCCGAAGC 60.391 55.000 0.00 0.00 0.00 3.86
4254 6500 1.153647 TGCTATGTGACCCGAAGCG 60.154 57.895 0.00 0.00 35.95 4.68
4256 6502 1.515954 CTATGTGACCCGAAGCGGT 59.484 57.895 5.06 0.00 46.80 5.68
4257 6503 0.742505 CTATGTGACCCGAAGCGGTA 59.257 55.000 5.06 0.00 46.80 4.02
4258 6504 0.742505 TATGTGACCCGAAGCGGTAG 59.257 55.000 5.06 0.00 46.80 3.18
4259 6505 1.255667 ATGTGACCCGAAGCGGTAGT 61.256 55.000 5.06 0.00 46.80 2.73
4260 6506 0.608856 TGTGACCCGAAGCGGTAGTA 60.609 55.000 5.06 0.00 46.80 1.82
4261 6507 0.179153 GTGACCCGAAGCGGTAGTAC 60.179 60.000 5.06 0.00 46.80 2.73
4262 6508 0.608856 TGACCCGAAGCGGTAGTACA 60.609 55.000 2.06 0.00 46.80 2.90
4263 6509 0.100146 GACCCGAAGCGGTAGTACAG 59.900 60.000 2.06 0.00 46.80 2.74
4264 6510 1.226888 CCCGAAGCGGTAGTACAGC 60.227 63.158 16.55 16.55 46.80 4.40
4265 6511 1.226888 CCGAAGCGGTAGTACAGCC 60.227 63.158 19.95 6.69 40.20 4.85
4266 6512 1.509463 CGAAGCGGTAGTACAGCCA 59.491 57.895 19.95 0.00 40.20 4.75
4267 6513 0.801067 CGAAGCGGTAGTACAGCCAC 60.801 60.000 19.95 13.58 40.20 5.01
4268 6514 0.459759 GAAGCGGTAGTACAGCCACC 60.460 60.000 19.95 7.49 40.20 4.61
4269 6515 0.903454 AAGCGGTAGTACAGCCACCT 60.903 55.000 19.95 0.75 40.20 4.00
4270 6516 1.141234 GCGGTAGTACAGCCACCTC 59.859 63.158 13.77 0.00 33.12 3.85
4271 6517 1.321074 GCGGTAGTACAGCCACCTCT 61.321 60.000 13.77 0.00 33.12 3.69
4272 6518 0.456221 CGGTAGTACAGCCACCTCTG 59.544 60.000 2.06 0.00 39.86 3.35
4274 6520 2.731572 GGTAGTACAGCCACCTCTGTA 58.268 52.381 2.06 0.00 44.77 2.74
4278 6524 1.624336 TACAGCCACCTCTGTAACGT 58.376 50.000 1.56 0.00 44.77 3.99
4279 6525 0.033504 ACAGCCACCTCTGTAACGTG 59.966 55.000 0.00 0.00 44.77 4.49
4283 6529 2.249844 CCACCTCTGTAACGTGGTTT 57.750 50.000 0.00 0.00 41.80 3.27
4284 6530 2.140717 CCACCTCTGTAACGTGGTTTC 58.859 52.381 0.00 0.00 41.80 2.78
4285 6531 2.484065 CCACCTCTGTAACGTGGTTTCA 60.484 50.000 0.00 0.00 41.80 2.69
4286 6532 3.399330 CACCTCTGTAACGTGGTTTCAT 58.601 45.455 0.00 0.00 0.00 2.57
4287 6533 3.813166 CACCTCTGTAACGTGGTTTCATT 59.187 43.478 0.00 0.00 0.00 2.57
4288 6534 3.813166 ACCTCTGTAACGTGGTTTCATTG 59.187 43.478 0.00 0.00 0.00 2.82
4289 6535 3.813166 CCTCTGTAACGTGGTTTCATTGT 59.187 43.478 0.00 0.00 0.00 2.71
4290 6536 4.319477 CCTCTGTAACGTGGTTTCATTGTG 60.319 45.833 0.00 0.00 0.00 3.33
4291 6537 3.002862 TCTGTAACGTGGTTTCATTGTGC 59.997 43.478 0.00 0.00 0.00 4.57
4292 6538 2.946329 TGTAACGTGGTTTCATTGTGCT 59.054 40.909 0.00 0.00 0.00 4.40
4293 6539 4.127907 TGTAACGTGGTTTCATTGTGCTA 58.872 39.130 0.00 0.00 0.00 3.49
4294 6540 4.757657 TGTAACGTGGTTTCATTGTGCTAT 59.242 37.500 0.00 0.00 0.00 2.97
4295 6541 5.932883 TGTAACGTGGTTTCATTGTGCTATA 59.067 36.000 0.00 0.00 0.00 1.31
4296 6542 6.596106 TGTAACGTGGTTTCATTGTGCTATAT 59.404 34.615 0.00 0.00 0.00 0.86
4297 6543 5.484173 ACGTGGTTTCATTGTGCTATATG 57.516 39.130 0.00 0.00 0.00 1.78
4298 6544 5.182487 ACGTGGTTTCATTGTGCTATATGA 58.818 37.500 0.00 0.00 0.00 2.15
4299 6545 5.822519 ACGTGGTTTCATTGTGCTATATGAT 59.177 36.000 0.00 0.00 31.34 2.45
4300 6546 6.017934 ACGTGGTTTCATTGTGCTATATGATC 60.018 38.462 0.00 0.00 31.34 2.92
4301 6547 6.566564 CGTGGTTTCATTGTGCTATATGATCC 60.567 42.308 0.00 0.00 31.34 3.36
4302 6548 5.469760 TGGTTTCATTGTGCTATATGATCCG 59.530 40.000 0.00 0.00 32.63 4.18
4303 6549 5.700832 GGTTTCATTGTGCTATATGATCCGA 59.299 40.000 0.00 0.00 31.34 4.55
4304 6550 6.204688 GGTTTCATTGTGCTATATGATCCGAA 59.795 38.462 0.00 0.00 31.34 4.30
4305 6551 7.293745 GTTTCATTGTGCTATATGATCCGAAG 58.706 38.462 0.00 0.00 31.34 3.79
4306 6552 4.931601 TCATTGTGCTATATGATCCGAAGC 59.068 41.667 0.00 0.00 0.00 3.86
4307 6553 2.946564 TGTGCTATATGATCCGAAGCG 58.053 47.619 0.00 0.00 35.95 4.68
4317 6563 3.921521 CCGAAGCGGTAGACCTCT 58.078 61.111 0.00 0.00 42.73 3.69
4318 6564 1.433879 CCGAAGCGGTAGACCTCTG 59.566 63.158 0.00 0.00 42.73 3.35
4319 6565 1.313812 CCGAAGCGGTAGACCTCTGT 61.314 60.000 0.00 0.00 42.73 3.41
4320 6566 1.376543 CGAAGCGGTAGACCTCTGTA 58.623 55.000 0.00 0.00 30.24 2.74
4321 6567 1.741706 CGAAGCGGTAGACCTCTGTAA 59.258 52.381 0.00 0.00 30.24 2.41
4322 6568 2.477525 CGAAGCGGTAGACCTCTGTAAC 60.478 54.545 0.00 0.00 30.24 2.50
4323 6569 1.093159 AGCGGTAGACCTCTGTAACG 58.907 55.000 0.00 0.00 28.28 3.18
4324 6570 0.807496 GCGGTAGACCTCTGTAACGT 59.193 55.000 0.00 0.00 0.00 3.99
4325 6571 1.467035 GCGGTAGACCTCTGTAACGTG 60.467 57.143 0.00 0.00 0.00 4.49
4326 6572 1.131883 CGGTAGACCTCTGTAACGTGG 59.868 57.143 0.00 0.00 0.00 4.94
4327 6573 2.165998 GGTAGACCTCTGTAACGTGGT 58.834 52.381 0.00 0.00 33.75 4.16
4328 6574 2.560105 GGTAGACCTCTGTAACGTGGTT 59.440 50.000 0.00 0.00 31.39 3.67
4329 6575 3.006217 GGTAGACCTCTGTAACGTGGTTT 59.994 47.826 0.00 0.00 31.39 3.27
4330 6576 3.382048 AGACCTCTGTAACGTGGTTTC 57.618 47.619 0.00 0.00 31.39 2.78
4331 6577 2.696707 AGACCTCTGTAACGTGGTTTCA 59.303 45.455 0.00 0.00 31.39 2.69
4332 6578 3.323979 AGACCTCTGTAACGTGGTTTCAT 59.676 43.478 0.00 0.00 31.39 2.57
4333 6579 4.062991 GACCTCTGTAACGTGGTTTCATT 58.937 43.478 0.00 0.00 31.39 2.57
4334 6580 3.813166 ACCTCTGTAACGTGGTTTCATTG 59.187 43.478 0.00 0.00 0.00 2.82
4335 6581 3.813166 CCTCTGTAACGTGGTTTCATTGT 59.187 43.478 0.00 0.00 0.00 2.71
4336 6582 4.319477 CCTCTGTAACGTGGTTTCATTGTG 60.319 45.833 0.00 0.00 0.00 3.33
4337 6583 3.002862 TCTGTAACGTGGTTTCATTGTGC 59.997 43.478 0.00 0.00 0.00 4.57
4338 6584 2.946329 TGTAACGTGGTTTCATTGTGCT 59.054 40.909 0.00 0.00 0.00 4.40
4339 6585 4.127907 TGTAACGTGGTTTCATTGTGCTA 58.872 39.130 0.00 0.00 0.00 3.49
4340 6586 4.757657 TGTAACGTGGTTTCATTGTGCTAT 59.242 37.500 0.00 0.00 0.00 2.97
4341 6587 5.932883 TGTAACGTGGTTTCATTGTGCTATA 59.067 36.000 0.00 0.00 0.00 1.31
4342 6588 6.596106 TGTAACGTGGTTTCATTGTGCTATAT 59.404 34.615 0.00 0.00 0.00 0.86
4343 6589 5.484173 ACGTGGTTTCATTGTGCTATATG 57.516 39.130 0.00 0.00 0.00 1.78
4344 6590 5.182487 ACGTGGTTTCATTGTGCTATATGA 58.818 37.500 0.00 0.00 0.00 2.15
4345 6591 5.822519 ACGTGGTTTCATTGTGCTATATGAT 59.177 36.000 0.00 0.00 31.34 2.45
4377 6623 3.691342 CCGCTGAAGGGTGGACGA 61.691 66.667 0.00 0.00 39.04 4.20
4466 6712 2.159085 GCCTGAAGTGGTAGTATCGCTT 60.159 50.000 8.99 8.99 37.63 4.68
4483 6729 1.394618 CTTCTAGGAGCGGCAGTACT 58.605 55.000 1.45 0.00 0.00 2.73
4522 6768 1.329599 GCATAACGGTTGGATTCGTCC 59.670 52.381 3.07 0.00 38.78 4.79
4525 6771 1.770749 AACGGTTGGATTCGTCCCCA 61.771 55.000 0.00 0.00 38.78 4.96
4536 6782 4.102054 GGATTCGTCCCCACCTATAAAAGA 59.898 45.833 0.00 0.00 0.00 2.52
4537 6783 4.748277 TTCGTCCCCACCTATAAAAGAG 57.252 45.455 0.00 0.00 0.00 2.85
4541 6787 3.136077 GTCCCCACCTATAAAAGAGGGTC 59.864 52.174 0.00 0.00 38.19 4.46
4542 6788 3.014807 TCCCCACCTATAAAAGAGGGTCT 59.985 47.826 0.00 0.00 38.19 3.85
4543 6789 3.786450 CCCCACCTATAAAAGAGGGTCTT 59.214 47.826 0.00 0.00 38.59 3.01
4544 6790 4.141459 CCCCACCTATAAAAGAGGGTCTTC 60.141 50.000 0.00 0.00 35.27 2.87
4545 6791 4.722279 CCCACCTATAAAAGAGGGTCTTCT 59.278 45.833 0.00 0.00 35.27 2.85
4546 6792 5.191921 CCCACCTATAAAAGAGGGTCTTCTT 59.808 44.000 0.00 0.00 35.27 2.52
4547 6793 6.386050 CCCACCTATAAAAGAGGGTCTTCTTA 59.614 42.308 0.00 0.00 35.27 2.10
4548 6794 7.092578 CCCACCTATAAAAGAGGGTCTTCTTAA 60.093 40.741 0.00 0.00 35.27 1.85
4549 6795 7.769507 CCACCTATAAAAGAGGGTCTTCTTAAC 59.230 40.741 0.00 0.00 35.27 2.01
4550 6796 7.491696 CACCTATAAAAGAGGGTCTTCTTAACG 59.508 40.741 0.00 0.00 35.27 3.18
4551 6797 6.985059 CCTATAAAAGAGGGTCTTCTTAACGG 59.015 42.308 0.00 0.00 35.27 4.44
4552 6798 4.701651 AAAAGAGGGTCTTCTTAACGGT 57.298 40.909 0.00 0.00 35.27 4.83
4553 6799 4.701651 AAAGAGGGTCTTCTTAACGGTT 57.298 40.909 0.00 0.00 35.27 4.44
4554 6800 3.679824 AGAGGGTCTTCTTAACGGTTG 57.320 47.619 3.07 0.00 0.00 3.77
4555 6801 2.302157 AGAGGGTCTTCTTAACGGTTGG 59.698 50.000 3.07 0.00 0.00 3.77
4556 6802 2.301009 GAGGGTCTTCTTAACGGTTGGA 59.699 50.000 3.07 0.00 0.00 3.53
4557 6803 2.910977 AGGGTCTTCTTAACGGTTGGAT 59.089 45.455 3.07 0.00 0.00 3.41
4558 6804 3.329814 AGGGTCTTCTTAACGGTTGGATT 59.670 43.478 3.07 0.00 0.00 3.01
4559 6805 3.688185 GGGTCTTCTTAACGGTTGGATTC 59.312 47.826 3.07 0.00 0.00 2.52
4560 6806 3.370061 GGTCTTCTTAACGGTTGGATTCG 59.630 47.826 3.07 0.00 0.00 3.34
4561 6807 3.992427 GTCTTCTTAACGGTTGGATTCGT 59.008 43.478 3.07 0.00 41.71 3.85
4562 6808 4.091075 GTCTTCTTAACGGTTGGATTCGTC 59.909 45.833 3.07 0.00 38.78 4.20
4563 6809 3.947910 TCTTAACGGTTGGATTCGTCT 57.052 42.857 3.07 0.00 38.78 4.18
4564 6810 3.841643 TCTTAACGGTTGGATTCGTCTC 58.158 45.455 3.07 0.00 38.78 3.36
4565 6811 2.660189 TAACGGTTGGATTCGTCTCC 57.340 50.000 3.07 0.00 38.78 3.71
4566 6812 0.682852 AACGGTTGGATTCGTCTCCA 59.317 50.000 4.86 4.86 43.62 3.86
4567 6813 0.902531 ACGGTTGGATTCGTCTCCAT 59.097 50.000 9.07 0.00 44.66 3.41
4568 6814 1.134788 ACGGTTGGATTCGTCTCCATC 60.135 52.381 9.07 8.44 44.66 3.51
4569 6815 1.137086 CGGTTGGATTCGTCTCCATCT 59.863 52.381 9.07 0.00 44.66 2.90
4570 6816 2.361119 CGGTTGGATTCGTCTCCATCTA 59.639 50.000 9.07 0.00 44.66 1.98
4571 6817 3.005897 CGGTTGGATTCGTCTCCATCTAT 59.994 47.826 9.07 0.00 44.66 1.98
4572 6818 4.217767 CGGTTGGATTCGTCTCCATCTATA 59.782 45.833 9.07 0.00 44.66 1.31
4573 6819 5.278808 CGGTTGGATTCGTCTCCATCTATAA 60.279 44.000 9.07 0.00 44.66 0.98
4574 6820 6.522054 GGTTGGATTCGTCTCCATCTATAAA 58.478 40.000 9.07 0.00 44.66 1.40
4575 6821 6.990349 GGTTGGATTCGTCTCCATCTATAAAA 59.010 38.462 9.07 0.00 44.66 1.52
4576 6822 7.497909 GGTTGGATTCGTCTCCATCTATAAAAA 59.502 37.037 9.07 0.00 44.66 1.94
4626 6872 2.897969 TCTAGAGCTCGTGTTTTCCCTT 59.102 45.455 8.37 0.00 0.00 3.95
4697 6944 8.408601 TGATTCTTGTTTCTTCTTGAGGAAAAG 58.591 33.333 9.03 5.42 33.97 2.27
4698 6945 7.938140 TTCTTGTTTCTTCTTGAGGAAAAGA 57.062 32.000 9.03 7.28 33.97 2.52
4699 6946 7.559590 TCTTGTTTCTTCTTGAGGAAAAGAG 57.440 36.000 9.03 9.72 37.48 2.85
4700 6947 7.338710 TCTTGTTTCTTCTTGAGGAAAAGAGA 58.661 34.615 9.03 11.35 37.48 3.10
4746 6993 4.104738 TCTTCCACCAGTCATTTTCTCCTT 59.895 41.667 0.00 0.00 0.00 3.36
4780 7027 4.429854 ACCCTTTGGATCTAGATCTTGC 57.570 45.455 27.65 14.71 37.92 4.01
4787 7034 5.946942 TGGATCTAGATCTTGCAGTTCTT 57.053 39.130 27.65 0.00 37.92 2.52
4798 7045 7.882271 AGATCTTGCAGTTCTTTTATGTTCTCT 59.118 33.333 0.00 0.00 0.00 3.10
4800 7047 7.865707 TCTTGCAGTTCTTTTATGTTCTCTTC 58.134 34.615 0.00 0.00 0.00 2.87
4808 7055 9.439537 GTTCTTTTATGTTCTCTTCTTGTGTTC 57.560 33.333 0.00 0.00 0.00 3.18
4816 7063 7.106239 TGTTCTCTTCTTGTGTTCTTTCTCTT 58.894 34.615 0.00 0.00 0.00 2.85
4853 7100 2.595750 TAGTTGTGGTGGGATTTGGG 57.404 50.000 0.00 0.00 0.00 4.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
209 225 2.036992 ACTCAGTCAGCTTTGGAGTCTG 59.963 50.000 2.20 0.00 33.84 3.51
362 378 5.961263 GTCTTTGCAAGCAATTTCAAAACTG 59.039 36.000 8.46 0.00 35.70 3.16
372 388 3.512724 AGGCATTAGTCTTTGCAAGCAAT 59.487 39.130 8.46 0.00 40.66 3.56
414 430 9.874205 CATTAAATGCTTCCTCTTTTTGGATTA 57.126 29.630 0.00 0.00 33.09 1.75
417 433 6.496565 TCCATTAAATGCTTCCTCTTTTTGGA 59.503 34.615 0.00 0.00 0.00 3.53
428 444 3.128589 TCCGCAAGTCCATTAAATGCTTC 59.871 43.478 0.00 0.00 34.93 3.86
448 464 1.316651 GCTGCCCAAGAGATCATTCC 58.683 55.000 0.00 0.00 0.00 3.01
483 499 0.401738 TGTCTTCCCCTGCTGGAAAG 59.598 55.000 11.88 13.58 43.62 2.62
508 532 3.129638 GGTTTAACAAGTCACTTGCCACA 59.870 43.478 17.93 0.00 44.43 4.17
514 538 5.197451 TGTCCATGGTTTAACAAGTCACTT 58.803 37.500 12.58 0.00 0.00 3.16
582 606 3.126514 AGCTTCTTTGATTGTGCTCATCG 59.873 43.478 0.00 0.00 0.00 3.84
591 615 1.403780 GCAGGCCAGCTTCTTTGATTG 60.404 52.381 13.78 0.00 0.00 2.67
698 734 2.779430 TGTTCATCCCACCTAGCATCAT 59.221 45.455 0.00 0.00 0.00 2.45
733 769 2.523015 CCATGAGAGCGAATTTTGTGC 58.477 47.619 0.00 0.00 0.00 4.57
756 855 7.445402 GCCTTCAGATTGCATATTAAAGAGGTA 59.555 37.037 0.00 0.00 0.00 3.08
757 856 6.264067 GCCTTCAGATTGCATATTAAAGAGGT 59.736 38.462 0.00 0.00 0.00 3.85
758 857 6.489361 AGCCTTCAGATTGCATATTAAAGAGG 59.511 38.462 0.00 0.00 0.00 3.69
759 858 7.507733 AGCCTTCAGATTGCATATTAAAGAG 57.492 36.000 0.00 0.00 0.00 2.85
760 859 7.340232 ACAAGCCTTCAGATTGCATATTAAAGA 59.660 33.333 0.00 0.00 0.00 2.52
761 860 7.434307 CACAAGCCTTCAGATTGCATATTAAAG 59.566 37.037 0.00 0.00 0.00 1.85
762 861 7.093814 ACACAAGCCTTCAGATTGCATATTAAA 60.094 33.333 0.00 0.00 0.00 1.52
763 862 6.377996 ACACAAGCCTTCAGATTGCATATTAA 59.622 34.615 0.00 0.00 0.00 1.40
764 863 5.887598 ACACAAGCCTTCAGATTGCATATTA 59.112 36.000 0.00 0.00 0.00 0.98
765 864 4.708421 ACACAAGCCTTCAGATTGCATATT 59.292 37.500 0.00 0.00 0.00 1.28
766 865 4.275810 ACACAAGCCTTCAGATTGCATAT 58.724 39.130 0.00 0.00 0.00 1.78
767 866 3.689347 ACACAAGCCTTCAGATTGCATA 58.311 40.909 0.00 0.00 0.00 3.14
768 867 2.490903 GACACAAGCCTTCAGATTGCAT 59.509 45.455 0.00 0.00 0.00 3.96
769 868 1.881973 GACACAAGCCTTCAGATTGCA 59.118 47.619 0.00 0.00 0.00 4.08
770 869 1.200948 GGACACAAGCCTTCAGATTGC 59.799 52.381 0.00 0.00 0.00 3.56
771 870 2.507484 TGGACACAAGCCTTCAGATTG 58.493 47.619 0.00 0.00 0.00 2.67
772 871 2.957402 TGGACACAAGCCTTCAGATT 57.043 45.000 0.00 0.00 0.00 2.40
825 924 4.640771 AACTTTATCAAGAGCACCTGGA 57.359 40.909 0.00 0.00 33.72 3.86
853 952 7.119262 TCAGATCGGTTAAGGATTCTTTCAAAC 59.881 37.037 0.00 0.00 34.59 2.93
1160 1538 2.439409 TGGCTTGACCACATCAGAATG 58.561 47.619 0.00 0.00 46.36 2.67
1271 1649 5.103000 TGCTCGCAGTTTTCTAGAGAATAC 58.897 41.667 0.00 5.10 36.59 1.89
1344 1725 0.329261 CTTGACCTCCCAGGCATGAA 59.671 55.000 0.00 0.00 39.63 2.57
1375 1756 5.506708 TCACATGCCTAGAACTAGTCTACA 58.493 41.667 0.00 0.00 37.84 2.74
1497 1889 5.567423 GCTGCTGTTCATCAAAATTACCCTT 60.567 40.000 0.00 0.00 0.00 3.95
1505 1897 4.751098 GGAATTTGCTGCTGTTCATCAAAA 59.249 37.500 0.00 0.00 42.06 2.44
1549 1941 8.969260 ATGAAGCATGAGTTTCTGAATGTATA 57.031 30.769 0.00 0.00 36.13 1.47
1601 1993 1.608025 CCACAGCGCCAACTAGAGAAA 60.608 52.381 2.29 0.00 0.00 2.52
1617 2009 4.574271 AGCAGCAGCAGCACCACA 62.574 61.111 12.92 0.00 45.49 4.17
1657 2058 0.463654 TTCACGGAACTTGCTGCTGT 60.464 50.000 0.00 0.00 0.00 4.40
1757 2158 3.329889 TGACCATGAAGCCCGGCT 61.330 61.111 5.94 5.94 42.56 5.52
1761 2162 2.048603 GCAGGTGACCATGAAGCCC 61.049 63.158 3.63 0.00 0.00 5.19
1792 2193 2.556287 GAACAGCTTTGGCGGACG 59.444 61.111 0.00 0.00 44.37 4.79
1794 2195 1.600636 CAGGAACAGCTTTGGCGGA 60.601 57.895 0.00 0.00 44.37 5.54
1800 2201 1.308998 CGTTGTCCAGGAACAGCTTT 58.691 50.000 0.00 0.00 0.00 3.51
1826 2227 2.935481 CAGGGCCAGGACCAGGAA 60.935 66.667 16.27 0.00 29.21 3.36
1830 2231 3.810687 AACCTCAGGGCCAGGACCA 62.811 63.158 16.27 0.00 34.75 4.02
1855 2256 1.090052 GTGCTGTTCGCCAGGGATAC 61.090 60.000 4.43 0.00 41.81 2.24
1860 2261 4.988598 ACCGTGCTGTTCGCCAGG 62.989 66.667 4.43 0.00 41.81 4.45
2011 2412 0.904649 TCAACGATGTGCAGGAGGAT 59.095 50.000 0.00 0.00 0.00 3.24
2031 2432 0.327480 AGGAGCCATATGTCCACCCA 60.327 55.000 13.34 0.00 35.02 4.51
2163 2564 1.222766 GCGAGGAGAGCTCGATACGA 61.223 60.000 22.53 0.00 46.06 3.43
2243 2650 2.669229 CCACCATGTGCACGCTCA 60.669 61.111 13.13 0.00 31.34 4.26
2277 2684 0.711670 CATAAACGTGTGACCCGTCG 59.288 55.000 0.00 0.00 37.61 5.12
2292 2699 6.543465 CCATGAAGTATTGCTGAAGACCATAA 59.457 38.462 0.00 0.00 0.00 1.90
2429 2836 4.202253 TGAGACACATACTGTTCTTGCTGT 60.202 41.667 0.00 0.00 31.03 4.40
2448 2855 1.522668 CGCCATTTGTGGAGTTGAGA 58.477 50.000 0.00 0.00 0.00 3.27
2514 2921 4.160065 CCTTGGCATCCATTTGTCATGTAA 59.840 41.667 0.00 0.00 31.53 2.41
2568 2975 4.530553 TGCTTACACAATTCCCTGTCTAGA 59.469 41.667 0.00 0.00 0.00 2.43
2569 2976 4.832248 TGCTTACACAATTCCCTGTCTAG 58.168 43.478 0.00 0.00 0.00 2.43
2570 2977 4.901197 TGCTTACACAATTCCCTGTCTA 57.099 40.909 0.00 0.00 0.00 2.59
2571 2978 3.788227 TGCTTACACAATTCCCTGTCT 57.212 42.857 0.00 0.00 0.00 3.41
2572 2979 5.648092 ACTAATGCTTACACAATTCCCTGTC 59.352 40.000 0.00 0.00 0.00 3.51
2581 2988 9.317936 CAGATAGATGAACTAATGCTTACACAA 57.682 33.333 0.00 0.00 34.56 3.33
2583 2990 7.439356 TGCAGATAGATGAACTAATGCTTACAC 59.561 37.037 10.19 0.00 42.80 2.90
2585 2992 7.095439 GGTGCAGATAGATGAACTAATGCTTAC 60.095 40.741 10.19 3.57 42.80 2.34
2635 4706 9.678260 AAGCCTGCTTGAAATTATATATCCTAG 57.322 33.333 3.09 0.00 34.60 3.02
2668 4739 4.219033 GCCGAAATTTACAGACAACACTG 58.781 43.478 0.00 0.00 42.78 3.66
2669 4740 3.880490 TGCCGAAATTTACAGACAACACT 59.120 39.130 0.00 0.00 0.00 3.55
2795 4866 7.943079 TGCTTGAAGAAATATTCCTTCATCA 57.057 32.000 16.72 14.33 45.43 3.07
2955 5026 7.283127 TGATCTGATAAAATGCCTTTGTAGACC 59.717 37.037 0.00 0.00 0.00 3.85
2985 5056 5.856126 TGGACTTCTTTATAGCAACAACG 57.144 39.130 0.00 0.00 0.00 4.10
3051 5122 4.096833 TGATTGATTTGAGAAAGGATGGCG 59.903 41.667 0.00 0.00 0.00 5.69
3224 5295 3.493176 GGCCAAAGAACTTGCAACTTCAT 60.493 43.478 17.57 6.26 33.27 2.57
3275 5346 1.001974 TCTTGACGTCCCTGTGGATTG 59.998 52.381 14.12 0.00 44.28 2.67
3627 5702 0.036388 CCGCTACTTCCTTGGCTTCA 60.036 55.000 0.00 0.00 0.00 3.02
3772 5847 2.289569 TGTGGCGTAGTTTAACCGGAAT 60.290 45.455 9.46 0.00 0.00 3.01
3789 5864 4.935702 TGCTTCTTTCAAATGTTCTGTGG 58.064 39.130 0.00 0.00 0.00 4.17
3921 5996 3.462021 GCACAGAGAGACCACATAATCC 58.538 50.000 0.00 0.00 0.00 3.01
3942 6017 8.180267 AGAACTTTATGATGAATTTCAGAAGCG 58.820 33.333 5.21 0.00 31.21 4.68
4075 6158 9.726438 ATTCAGCTGTAAGAACTACATAAAGTT 57.274 29.630 14.67 0.00 42.36 2.66
4222 6461 3.058293 CACATAGCACAATGAAACCACGT 60.058 43.478 0.00 0.00 0.00 4.49
4233 6479 1.943968 GCTTCGGGTCACATAGCACAA 60.944 52.381 0.00 0.00 0.00 3.33
4248 6494 0.801067 GTGGCTGTACTACCGCTTCG 60.801 60.000 10.06 0.00 33.53 3.79
4249 6495 0.459759 GGTGGCTGTACTACCGCTTC 60.460 60.000 15.07 0.43 40.50 3.86
4250 6496 1.595357 GGTGGCTGTACTACCGCTT 59.405 57.895 15.07 0.00 40.50 4.68
4251 6497 3.295800 GGTGGCTGTACTACCGCT 58.704 61.111 15.07 0.00 40.50 5.52
4259 6505 1.271379 CACGTTACAGAGGTGGCTGTA 59.729 52.381 0.00 0.00 46.67 2.74
4261 6507 2.827604 CACGTTACAGAGGTGGCTG 58.172 57.895 0.00 0.00 39.78 4.85
4265 6511 2.828877 TGAAACCACGTTACAGAGGTG 58.171 47.619 0.00 0.00 42.37 4.00
4266 6512 3.764237 ATGAAACCACGTTACAGAGGT 57.236 42.857 0.00 0.00 36.66 3.85
4267 6513 3.813166 ACAATGAAACCACGTTACAGAGG 59.187 43.478 0.00 0.00 0.00 3.69
4268 6514 4.772434 CACAATGAAACCACGTTACAGAG 58.228 43.478 0.00 0.00 0.00 3.35
4269 6515 3.002862 GCACAATGAAACCACGTTACAGA 59.997 43.478 0.00 0.00 0.00 3.41
4270 6516 3.003275 AGCACAATGAAACCACGTTACAG 59.997 43.478 0.00 0.00 0.00 2.74
4271 6517 2.946329 AGCACAATGAAACCACGTTACA 59.054 40.909 0.00 0.00 0.00 2.41
4272 6518 3.619233 AGCACAATGAAACCACGTTAC 57.381 42.857 0.00 0.00 0.00 2.50
4273 6519 6.819146 TCATATAGCACAATGAAACCACGTTA 59.181 34.615 0.00 0.00 0.00 3.18
4274 6520 5.645929 TCATATAGCACAATGAAACCACGTT 59.354 36.000 0.00 0.00 0.00 3.99
4275 6521 5.182487 TCATATAGCACAATGAAACCACGT 58.818 37.500 0.00 0.00 0.00 4.49
4276 6522 5.733226 TCATATAGCACAATGAAACCACG 57.267 39.130 0.00 0.00 0.00 4.94
4277 6523 6.566564 CGGATCATATAGCACAATGAAACCAC 60.567 42.308 0.00 0.00 35.82 4.16
4278 6524 5.469760 CGGATCATATAGCACAATGAAACCA 59.530 40.000 0.00 0.00 35.82 3.67
4279 6525 5.700832 TCGGATCATATAGCACAATGAAACC 59.299 40.000 0.00 5.73 35.82 3.27
4280 6526 6.785488 TCGGATCATATAGCACAATGAAAC 57.215 37.500 0.00 0.00 35.82 2.78
4281 6527 6.073058 GCTTCGGATCATATAGCACAATGAAA 60.073 38.462 0.00 0.00 35.82 2.69
4282 6528 5.409520 GCTTCGGATCATATAGCACAATGAA 59.590 40.000 0.00 0.00 35.82 2.57
4283 6529 4.931601 GCTTCGGATCATATAGCACAATGA 59.068 41.667 0.00 0.00 36.60 2.57
4284 6530 4.201656 CGCTTCGGATCATATAGCACAATG 60.202 45.833 0.00 0.00 0.00 2.82
4285 6531 3.928992 CGCTTCGGATCATATAGCACAAT 59.071 43.478 0.00 0.00 0.00 2.71
4286 6532 3.317150 CGCTTCGGATCATATAGCACAA 58.683 45.455 0.00 0.00 0.00 3.33
4287 6533 2.946564 CGCTTCGGATCATATAGCACA 58.053 47.619 0.00 0.00 0.00 4.57
4301 6547 1.376543 TACAGAGGTCTACCGCTTCG 58.623 55.000 2.29 0.00 43.92 3.79
4302 6548 2.477525 CGTTACAGAGGTCTACCGCTTC 60.478 54.545 2.29 0.00 43.92 3.86
4303 6549 1.471684 CGTTACAGAGGTCTACCGCTT 59.528 52.381 2.29 0.00 43.92 4.68
4305 6551 0.807496 ACGTTACAGAGGTCTACCGC 59.193 55.000 0.00 0.00 42.08 5.68
4306 6552 1.131883 CCACGTTACAGAGGTCTACCG 59.868 57.143 0.00 0.00 42.08 4.02
4307 6553 2.165998 ACCACGTTACAGAGGTCTACC 58.834 52.381 0.00 0.00 28.91 3.18
4308 6554 3.930634 AACCACGTTACAGAGGTCTAC 57.069 47.619 0.00 0.00 34.00 2.59
4309 6555 3.890756 TGAAACCACGTTACAGAGGTCTA 59.109 43.478 0.00 0.00 34.00 2.59
4310 6556 2.696707 TGAAACCACGTTACAGAGGTCT 59.303 45.455 0.00 0.00 34.00 3.85
4311 6557 3.102052 TGAAACCACGTTACAGAGGTC 57.898 47.619 0.00 0.00 34.00 3.85
4312 6558 3.764237 ATGAAACCACGTTACAGAGGT 57.236 42.857 0.00 0.00 36.66 3.85
4313 6559 3.813166 ACAATGAAACCACGTTACAGAGG 59.187 43.478 0.00 0.00 0.00 3.69
4314 6560 4.772434 CACAATGAAACCACGTTACAGAG 58.228 43.478 0.00 0.00 0.00 3.35
4315 6561 3.002862 GCACAATGAAACCACGTTACAGA 59.997 43.478 0.00 0.00 0.00 3.41
4316 6562 3.003275 AGCACAATGAAACCACGTTACAG 59.997 43.478 0.00 0.00 0.00 2.74
4317 6563 2.946329 AGCACAATGAAACCACGTTACA 59.054 40.909 0.00 0.00 0.00 2.41
4318 6564 3.619233 AGCACAATGAAACCACGTTAC 57.381 42.857 0.00 0.00 0.00 2.50
4319 6565 6.819146 TCATATAGCACAATGAAACCACGTTA 59.181 34.615 0.00 0.00 0.00 3.18
4320 6566 5.645929 TCATATAGCACAATGAAACCACGTT 59.354 36.000 0.00 0.00 0.00 3.99
4321 6567 5.182487 TCATATAGCACAATGAAACCACGT 58.818 37.500 0.00 0.00 0.00 4.49
4322 6568 5.733226 TCATATAGCACAATGAAACCACG 57.267 39.130 0.00 0.00 0.00 4.94
4323 6569 6.566564 CGGATCATATAGCACAATGAAACCAC 60.567 42.308 0.00 0.00 35.82 4.16
4324 6570 5.469760 CGGATCATATAGCACAATGAAACCA 59.530 40.000 0.00 0.00 35.82 3.67
4325 6571 5.700832 TCGGATCATATAGCACAATGAAACC 59.299 40.000 0.00 5.73 35.82 3.27
4326 6572 6.785488 TCGGATCATATAGCACAATGAAAC 57.215 37.500 0.00 0.00 35.82 2.78
4327 6573 6.073058 GCTTCGGATCATATAGCACAATGAAA 60.073 38.462 0.00 0.00 35.82 2.69
4328 6574 5.409520 GCTTCGGATCATATAGCACAATGAA 59.590 40.000 0.00 0.00 35.82 2.57
4329 6575 4.931601 GCTTCGGATCATATAGCACAATGA 59.068 41.667 0.00 0.00 36.60 2.57
4330 6576 4.201656 CGCTTCGGATCATATAGCACAATG 60.202 45.833 0.00 0.00 0.00 2.82
4331 6577 3.928992 CGCTTCGGATCATATAGCACAAT 59.071 43.478 0.00 0.00 0.00 2.71
4332 6578 3.317150 CGCTTCGGATCATATAGCACAA 58.683 45.455 0.00 0.00 0.00 3.33
4333 6579 2.946564 CGCTTCGGATCATATAGCACA 58.053 47.619 0.00 0.00 0.00 4.57
4400 6646 3.037833 CGTTCAGTGCTGCTGCGA 61.038 61.111 11.21 0.00 44.66 5.10
4466 6712 2.795165 CAGTACTGCCGCTCCTAGA 58.205 57.895 10.54 0.00 0.00 2.43
4477 6723 2.537401 GCCCGTAGTAAAGCAGTACTG 58.463 52.381 18.93 18.93 35.85 2.74
4483 6729 0.035820 CCTTGGCCCGTAGTAAAGCA 60.036 55.000 0.00 0.00 0.00 3.91
4522 6768 4.722279 AGAAGACCCTCTTTTATAGGTGGG 59.278 45.833 1.64 1.64 36.73 4.61
4525 6771 7.364497 CCGTTAAGAAGACCCTCTTTTATAGGT 60.364 40.741 0.00 0.00 36.73 3.08
4536 6782 2.332117 TCCAACCGTTAAGAAGACCCT 58.668 47.619 0.00 0.00 0.00 4.34
4537 6783 2.845363 TCCAACCGTTAAGAAGACCC 57.155 50.000 0.00 0.00 0.00 4.46
4541 6787 4.243270 AGACGAATCCAACCGTTAAGAAG 58.757 43.478 0.00 0.00 39.30 2.85
4542 6788 4.240096 GAGACGAATCCAACCGTTAAGAA 58.760 43.478 0.00 0.00 39.30 2.52
4543 6789 3.367703 GGAGACGAATCCAACCGTTAAGA 60.368 47.826 5.90 0.00 39.30 2.10
4544 6790 2.928116 GGAGACGAATCCAACCGTTAAG 59.072 50.000 5.90 0.00 39.30 1.85
4545 6791 2.299582 TGGAGACGAATCCAACCGTTAA 59.700 45.455 10.31 0.00 46.45 2.01
4546 6792 1.894466 TGGAGACGAATCCAACCGTTA 59.106 47.619 10.31 0.00 46.45 3.18
4547 6793 0.682852 TGGAGACGAATCCAACCGTT 59.317 50.000 10.31 0.00 46.45 4.44
4548 6794 2.358039 TGGAGACGAATCCAACCGT 58.642 52.632 10.31 0.00 46.45 4.83
4573 6819 4.835056 CCATTGGAGAAGAAGACCCTTTTT 59.165 41.667 0.00 0.00 0.00 1.94
4574 6820 4.140924 ACCATTGGAGAAGAAGACCCTTTT 60.141 41.667 10.37 0.00 0.00 2.27
4575 6821 3.399305 ACCATTGGAGAAGAAGACCCTTT 59.601 43.478 10.37 0.00 0.00 3.11
4576 6822 2.989571 ACCATTGGAGAAGAAGACCCTT 59.010 45.455 10.37 0.00 0.00 3.95
4577 6823 2.637165 ACCATTGGAGAAGAAGACCCT 58.363 47.619 10.37 0.00 0.00 4.34
4578 6824 3.009584 AGAACCATTGGAGAAGAAGACCC 59.990 47.826 10.37 0.00 0.00 4.46
4579 6825 4.293662 AGAACCATTGGAGAAGAAGACC 57.706 45.455 10.37 0.00 0.00 3.85
4580 6826 7.334858 AGATAAGAACCATTGGAGAAGAAGAC 58.665 38.462 10.37 0.00 0.00 3.01
4581 6827 7.401493 AGAGATAAGAACCATTGGAGAAGAAGA 59.599 37.037 10.37 0.00 0.00 2.87
4589 6835 6.139671 AGCTCTAGAGATAAGAACCATTGGA 58.860 40.000 24.24 0.00 0.00 3.53
4626 6872 4.464008 AGCTCAAAGAAGGTCAACAATGA 58.536 39.130 0.00 0.00 0.00 2.57
4780 7027 8.616076 ACACAAGAAGAGAACATAAAAGAACTG 58.384 33.333 0.00 0.00 0.00 3.16
4787 7034 9.396022 AGAAAGAACACAAGAAGAGAACATAAA 57.604 29.630 0.00 0.00 0.00 1.40
4798 7045 9.408648 AGGAAAATAAGAGAAAGAACACAAGAA 57.591 29.630 0.00 0.00 0.00 2.52
4800 7047 8.293157 GGAGGAAAATAAGAGAAAGAACACAAG 58.707 37.037 0.00 0.00 0.00 3.16
4808 7055 8.688747 ATGCTATGGAGGAAAATAAGAGAAAG 57.311 34.615 0.00 0.00 0.00 2.62
4816 7063 7.502226 CCACAACTAATGCTATGGAGGAAAATA 59.498 37.037 0.00 0.00 0.00 1.40
4853 7100 0.980423 AGTGCCCAAGTCCTTCTCTC 59.020 55.000 0.00 0.00 0.00 3.20


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

AutoCloner maintained by Alex Coulton.