Multiple sequence alignment - TraesCS4B01G115600

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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 TraesCS4B01G115600 chr4B 100.000 3567 0 0 1 3567 132319001 132322567 0.000000e+00 6588.0
1 TraesCS4B01G115600 chr4B 94.949 99 5 0 2922 3020 132322020 132321922 4.770000e-34 156.0
2 TraesCS4B01G115600 chr4B 75.000 300 58 14 31 322 13376275 13375985 4.840000e-24 122.0
3 TraesCS4B01G115600 chr4D 93.647 1212 57 9 1648 2855 93824913 93826108 0.000000e+00 1794.0
4 TraesCS4B01G115600 chr4D 91.396 709 23 9 2885 3567 93826109 93826805 0.000000e+00 937.0
5 TraesCS4B01G115600 chr4D 81.832 644 48 38 823 1453 93823903 93824490 8.960000e-131 477.0
6 TraesCS4B01G115600 chr4D 92.405 158 9 1 472 629 93822733 93822887 4.640000e-54 222.0
7 TraesCS4B01G115600 chr4A 93.063 1182 62 9 1653 2829 487891513 487890347 0.000000e+00 1711.0
8 TraesCS4B01G115600 chr4A 95.078 386 8 4 2877 3262 487890335 487889961 6.590000e-167 597.0
9 TraesCS4B01G115600 chr4A 89.327 431 40 6 1 426 487896166 487895737 1.460000e-148 536.0
10 TraesCS4B01G115600 chr4A 85.478 544 38 16 472 992 487892982 487892457 2.440000e-146 529.0
11 TraesCS4B01G115600 chr4A 86.667 510 19 15 1060 1560 487892426 487891957 1.470000e-143 520.0
12 TraesCS4B01G115600 chr4A 93.231 325 12 1 3253 3567 487889902 487889578 1.500000e-128 470.0
13 TraesCS4B01G115600 chr4A 91.919 99 2 2 2922 3020 487890198 487890290 2.230000e-27 134.0
14 TraesCS4B01G115600 chr4A 81.159 138 14 9 52 181 515460482 515460349 2.270000e-17 100.0
15 TraesCS4B01G115600 chr3D 81.624 234 36 5 86 314 175663075 175662844 1.690000e-43 187.0
16 TraesCS4B01G115600 chr2B 82.456 171 25 5 112 281 41106263 41106429 1.030000e-30 145.0
17 TraesCS4B01G115600 chr5D 78.325 203 32 10 52 248 99384680 99384484 1.740000e-23 121.0
18 TraesCS4B01G115600 chr7A 81.746 126 20 3 195 319 593381060 593381183 6.300000e-18 102.0
19 TraesCS4B01G115600 chr2A 77.778 171 33 3 95 261 507392875 507392706 2.270000e-17 100.0
20 TraesCS4B01G115600 chr7B 73.896 249 58 4 73 319 62763103 62763346 3.790000e-15 93.5
21 TraesCS4B01G115600 chr7B 88.406 69 6 2 198 265 522140531 522140598 8.210000e-12 82.4
22 TraesCS4B01G115600 chr1A 84.722 72 11 0 197 268 484876733 484876804 4.940000e-09 73.1


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 TraesCS4B01G115600 chr4B 132319001 132322567 3566 False 6588.000000 6588 100.000 1 3567 1 chr4B.!!$F1 3566
1 TraesCS4B01G115600 chr4D 93822733 93826805 4072 False 857.500000 1794 89.820 472 3567 4 chr4D.!!$F1 3095
2 TraesCS4B01G115600 chr4A 487889578 487896166 6588 True 727.166667 1711 90.474 1 3567 6 chr4A.!!$R2 3566

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
791 4313 0.170339 GAATTTTCGTCAAGGGCCGG 59.830 55.0 0.00 0.0 0.00 6.13 F
1052 4627 0.101759 ACGCGTAGTGGCACGATTAT 59.898 50.0 11.67 0.0 44.69 1.28 F
1334 4916 0.179048 AAGCAAGCAAGCAAAACCCC 60.179 50.0 3.19 0.0 36.85 4.95 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1632 5214 0.106619 GGGTTGTGGTGGTTGTGGTA 60.107 55.0 0.0 0.0 0.00 3.25 R
2417 6350 0.749818 TCAAGGCTGCAAACGACCAA 60.750 50.0 0.5 0.0 0.00 3.67 R
2817 6757 0.846693 ACCTGGTAGGGATGGATTGC 59.153 55.0 0.0 0.0 40.58 3.56 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
34 36 1.154093 GGCGAACGAGATCACGTCA 60.154 57.895 18.45 0.00 45.83 4.35
38 40 1.136057 CGAACGAGATCACGTCACAGA 60.136 52.381 18.45 0.00 45.83 3.41
44 46 1.273606 AGATCACGTCACAGACTTGGG 59.726 52.381 0.00 0.00 33.52 4.12
46 48 0.828022 TCACGTCACAGACTTGGGTT 59.172 50.000 4.19 0.00 33.52 4.11
63 65 1.073284 GGTTTGAGGAAGGCCACTACA 59.927 52.381 5.01 0.00 36.29 2.74
66 68 4.566907 GGTTTGAGGAAGGCCACTACAATA 60.567 45.833 5.01 0.00 36.29 1.90
77 79 3.200165 GCCACTACAATACTTCCCCTTCT 59.800 47.826 0.00 0.00 0.00 2.85
78 80 4.770795 CCACTACAATACTTCCCCTTCTG 58.229 47.826 0.00 0.00 0.00 3.02
81 83 3.806949 ACAATACTTCCCCTTCTGCAA 57.193 42.857 0.00 0.00 0.00 4.08
178 181 3.500982 CACGTGGTTGGCAATCATTTAG 58.499 45.455 17.40 10.92 0.00 1.85
189 192 5.948758 TGGCAATCATTTAGACCATGTTACA 59.051 36.000 0.00 0.00 0.00 2.41
201 204 5.648092 AGACCATGTTACAAAATGCCTAGTC 59.352 40.000 0.00 0.00 0.00 2.59
221 224 8.142551 CCTAGTCCGCTATAGTTTAGTTGAAAT 58.857 37.037 0.84 0.00 0.00 2.17
246 250 9.921637 ATATGTCGAAAATGTAATGTTTTTGGT 57.078 25.926 0.00 0.00 33.00 3.67
255 259 5.109903 TGTAATGTTTTTGGTCCGGTTTTG 58.890 37.500 0.00 0.00 0.00 2.44
258 262 3.786635 TGTTTTTGGTCCGGTTTTGATG 58.213 40.909 0.00 0.00 0.00 3.07
263 267 4.946478 TTGGTCCGGTTTTGATGAAAAT 57.054 36.364 0.00 0.00 33.63 1.82
264 268 4.513198 TGGTCCGGTTTTGATGAAAATC 57.487 40.909 0.00 0.00 33.63 2.17
265 269 3.891977 TGGTCCGGTTTTGATGAAAATCA 59.108 39.130 0.00 0.00 32.45 2.57
266 270 4.526262 TGGTCCGGTTTTGATGAAAATCAT 59.474 37.500 0.00 0.00 40.34 2.45
283 288 5.741388 AATCATCAGGTTCGTATGAAAGC 57.259 39.130 0.00 0.00 35.46 3.51
291 296 2.486951 TCGTATGAAAGCCGTCTAGC 57.513 50.000 0.00 0.00 0.00 3.42
338 343 1.117150 TGGTCTCCCGTATTACTGCC 58.883 55.000 0.00 0.00 0.00 4.85
349 354 2.335316 ATTACTGCCCGCGGATAAAA 57.665 45.000 30.73 14.36 0.00 1.52
350 355 2.335316 TTACTGCCCGCGGATAAAAT 57.665 45.000 30.73 9.35 0.00 1.82
352 357 1.157870 ACTGCCCGCGGATAAAATCG 61.158 55.000 30.73 8.26 0.00 3.34
353 358 0.878523 CTGCCCGCGGATAAAATCGA 60.879 55.000 30.73 0.00 0.00 3.59
358 364 2.286184 CCCGCGGATAAAATCGAGTTTG 60.286 50.000 30.73 5.17 0.00 2.93
379 385 8.973182 AGTTTGTTTTAGAGGTTTACATTGGAA 58.027 29.630 0.00 0.00 0.00 3.53
386 392 5.826643 AGAGGTTTACATTGGAAATGGCTA 58.173 37.500 0.00 0.00 0.00 3.93
390 396 5.186992 GGTTTACATTGGAAATGGCTAGGTT 59.813 40.000 0.00 0.00 0.00 3.50
408 414 2.027605 GCCGCGGAATCATCTCGA 59.972 61.111 33.48 0.00 0.00 4.04
415 421 2.866156 GCGGAATCATCTCGATGTGAAA 59.134 45.455 6.78 0.00 39.72 2.69
417 423 4.024556 GCGGAATCATCTCGATGTGAAATT 60.025 41.667 6.78 0.14 39.72 1.82
418 424 5.438117 CGGAATCATCTCGATGTGAAATTG 58.562 41.667 6.78 0.00 39.72 2.32
419 425 5.210715 GGAATCATCTCGATGTGAAATTGC 58.789 41.667 6.78 1.96 39.72 3.56
421 427 2.609002 TCATCTCGATGTGAAATTGCGG 59.391 45.455 6.78 0.00 39.72 5.69
422 428 2.093306 TCTCGATGTGAAATTGCGGT 57.907 45.000 0.00 0.00 0.00 5.68
423 429 1.731709 TCTCGATGTGAAATTGCGGTG 59.268 47.619 0.00 0.00 0.00 4.94
428 3129 3.181507 CGATGTGAAATTGCGGTGAGATT 60.182 43.478 0.00 0.00 0.00 2.40
436 3137 0.320050 TGCGGTGAGATTGCTGTACA 59.680 50.000 0.00 0.00 0.00 2.90
439 3140 2.534298 CGGTGAGATTGCTGTACAGAG 58.466 52.381 27.08 1.96 0.00 3.35
445 3146 0.608130 ATTGCTGTACAGAGCCGACA 59.392 50.000 27.08 10.61 38.28 4.35
447 3148 0.893727 TGCTGTACAGAGCCGACAGA 60.894 55.000 27.08 0.00 42.65 3.41
450 3151 0.173481 TGTACAGAGCCGACAGATGC 59.827 55.000 0.00 0.00 0.00 3.91
451 3152 0.867753 GTACAGAGCCGACAGATGCG 60.868 60.000 0.00 0.00 0.00 4.73
458 3159 1.959899 GCCGACAGATGCGTGACAAG 61.960 60.000 0.00 0.00 0.00 3.16
465 3166 1.895798 AGATGCGTGACAAGAGGAGAA 59.104 47.619 0.00 0.00 0.00 2.87
466 3167 2.499289 AGATGCGTGACAAGAGGAGAAT 59.501 45.455 0.00 0.00 0.00 2.40
467 3168 2.370281 TGCGTGACAAGAGGAGAATC 57.630 50.000 0.00 0.00 0.00 2.52
560 3274 4.394712 CAAGGGACGCGGCTTCCT 62.395 66.667 22.79 8.24 33.17 3.36
611 3325 1.248486 GGGAGAAGAAAAGTGGCACC 58.752 55.000 15.27 0.00 0.00 5.01
669 4191 1.213094 ACAAAGCGAGAACCGTGTCG 61.213 55.000 0.00 0.17 43.15 4.35
681 4203 1.581954 CGTGTCGCTTCCACTCTCT 59.418 57.895 0.00 0.00 0.00 3.10
682 4204 0.803117 CGTGTCGCTTCCACTCTCTA 59.197 55.000 0.00 0.00 0.00 2.43
701 4223 2.430546 AGCTTGAGTCACGTCTTCAG 57.569 50.000 0.00 0.00 0.00 3.02
702 4224 1.683917 AGCTTGAGTCACGTCTTCAGT 59.316 47.619 0.00 0.00 0.00 3.41
707 4229 1.263484 GAGTCACGTCTTCAGTGTCGA 59.737 52.381 0.00 0.00 40.28 4.20
708 4230 1.674441 AGTCACGTCTTCAGTGTCGAA 59.326 47.619 0.00 0.00 40.28 3.71
709 4231 2.293677 AGTCACGTCTTCAGTGTCGAAT 59.706 45.455 0.00 0.00 40.28 3.34
735 4257 3.477530 AGGGTCCTTCTCTTTGTTTTCG 58.522 45.455 0.00 0.00 0.00 3.46
741 4263 3.059800 CCTTCTCTTTGTTTTCGACGGAC 60.060 47.826 0.00 0.00 0.00 4.79
752 4274 3.457610 TTCGACGGACCTTTTTGTAGT 57.542 42.857 0.00 0.00 0.00 2.73
791 4313 0.170339 GAATTTTCGTCAAGGGCCGG 59.830 55.000 0.00 0.00 0.00 6.13
798 4320 1.988406 GTCAAGGGCCGGGTAGACT 60.988 63.158 2.18 0.00 0.00 3.24
815 4337 3.316573 CTTGGGCACTCCTCGTCCC 62.317 68.421 0.00 0.00 39.22 4.46
919 4473 4.323477 CGGCCCCTGTCGGTCAAA 62.323 66.667 0.00 0.00 35.50 2.69
920 4474 2.114411 GGCCCCTGTCGGTCAAAA 59.886 61.111 0.00 0.00 0.00 2.44
988 4562 2.202388 CGCGCAATGCTCCACAAG 60.202 61.111 8.75 0.00 43.27 3.16
992 4566 1.236616 CGCAATGCTCCACAAGACCA 61.237 55.000 2.94 0.00 0.00 4.02
993 4567 0.242017 GCAATGCTCCACAAGACCAC 59.758 55.000 0.00 0.00 0.00 4.16
995 4569 1.955778 CAATGCTCCACAAGACCACAA 59.044 47.619 0.00 0.00 0.00 3.33
996 4570 1.609208 ATGCTCCACAAGACCACAAC 58.391 50.000 0.00 0.00 0.00 3.32
998 4572 1.941812 CTCCACAAGACCACAACGC 59.058 57.895 0.00 0.00 0.00 4.84
999 4573 0.532862 CTCCACAAGACCACAACGCT 60.533 55.000 0.00 0.00 0.00 5.07
1000 4574 0.531974 TCCACAAGACCACAACGCTC 60.532 55.000 0.00 0.00 0.00 5.03
1001 4575 0.532862 CCACAAGACCACAACGCTCT 60.533 55.000 0.00 0.00 0.00 4.09
1002 4576 1.270094 CCACAAGACCACAACGCTCTA 60.270 52.381 0.00 0.00 0.00 2.43
1003 4577 2.612972 CCACAAGACCACAACGCTCTAT 60.613 50.000 0.00 0.00 0.00 1.98
1004 4578 3.368013 CCACAAGACCACAACGCTCTATA 60.368 47.826 0.00 0.00 0.00 1.31
1005 4579 4.433615 CACAAGACCACAACGCTCTATAT 58.566 43.478 0.00 0.00 0.00 0.86
1006 4580 5.451381 CCACAAGACCACAACGCTCTATATA 60.451 44.000 0.00 0.00 0.00 0.86
1007 4581 6.216569 CACAAGACCACAACGCTCTATATAT 58.783 40.000 0.00 0.00 0.00 0.86
1008 4582 6.144563 CACAAGACCACAACGCTCTATATATG 59.855 42.308 0.00 0.00 0.00 1.78
1009 4583 6.183360 ACAAGACCACAACGCTCTATATATGT 60.183 38.462 0.00 0.00 0.00 2.29
1010 4584 5.773575 AGACCACAACGCTCTATATATGTG 58.226 41.667 0.00 5.33 38.25 3.21
1013 4587 6.444633 ACCACAACGCTCTATATATGTGTAC 58.555 40.000 9.79 0.00 37.14 2.90
1023 4597 7.531198 GCTCTATATATGTGTACATACGCGATC 59.469 40.741 15.93 0.00 41.15 3.69
1031 4606 3.976306 TGTACATACGCGATCATTTACCG 59.024 43.478 15.93 0.00 0.00 4.02
1033 4608 3.708890 ACATACGCGATCATTTACCGAA 58.291 40.909 15.93 0.00 0.00 4.30
1034 4609 3.488310 ACATACGCGATCATTTACCGAAC 59.512 43.478 15.93 0.00 0.00 3.95
1036 4611 3.415947 GCGATCATTTACCGAACGC 57.584 52.632 0.00 0.00 45.23 4.84
1037 4612 0.381428 GCGATCATTTACCGAACGCG 60.381 55.000 3.53 3.53 43.19 6.01
1038 4613 0.918619 CGATCATTTACCGAACGCGT 59.081 50.000 5.58 5.58 35.23 6.01
1039 4614 2.110990 CGATCATTTACCGAACGCGTA 58.889 47.619 14.46 0.00 35.23 4.42
1040 4615 2.150611 CGATCATTTACCGAACGCGTAG 59.849 50.000 14.46 10.26 35.23 3.51
1041 4616 2.634982 TCATTTACCGAACGCGTAGT 57.365 45.000 14.46 13.61 35.23 2.73
1043 4618 1.322338 CATTTACCGAACGCGTAGTGG 59.678 52.381 14.46 17.50 45.78 4.00
1044 4619 1.008361 TTTACCGAACGCGTAGTGGC 61.008 55.000 14.46 0.00 45.78 5.01
1045 4620 2.139888 TTACCGAACGCGTAGTGGCA 62.140 55.000 14.46 2.14 45.78 4.92
1046 4621 2.801113 TACCGAACGCGTAGTGGCAC 62.801 60.000 14.46 10.29 45.78 5.01
1047 4622 3.823421 CGAACGCGTAGTGGCACG 61.823 66.667 14.46 6.43 45.78 5.34
1048 4623 2.429571 GAACGCGTAGTGGCACGA 60.430 61.111 14.46 3.63 44.69 4.35
1049 4624 1.804326 GAACGCGTAGTGGCACGAT 60.804 57.895 14.46 0.00 44.69 3.73
1050 4625 1.349259 GAACGCGTAGTGGCACGATT 61.349 55.000 14.46 0.00 44.69 3.34
1051 4626 0.109179 AACGCGTAGTGGCACGATTA 60.109 50.000 14.46 0.00 44.69 1.75
1052 4627 0.101759 ACGCGTAGTGGCACGATTAT 59.898 50.000 11.67 0.00 44.69 1.28
1053 4628 1.205657 CGCGTAGTGGCACGATTATT 58.794 50.000 12.71 0.00 44.69 1.40
1054 4629 1.591158 CGCGTAGTGGCACGATTATTT 59.409 47.619 12.71 0.00 44.69 1.40
1055 4630 2.790448 CGCGTAGTGGCACGATTATTTA 59.210 45.455 12.71 0.00 44.69 1.40
1056 4631 3.361339 CGCGTAGTGGCACGATTATTTAC 60.361 47.826 12.71 6.44 44.69 2.01
1057 4632 3.552699 GCGTAGTGGCACGATTATTTACA 59.447 43.478 12.71 0.00 44.69 2.41
1058 4633 4.317839 GCGTAGTGGCACGATTATTTACAG 60.318 45.833 12.71 5.48 44.69 2.74
1068 4643 3.548668 CGATTATTTACAGACCAACGCGA 59.451 43.478 15.93 0.00 0.00 5.87
1075 4650 3.456039 GACCAACGCGACGACGAC 61.456 66.667 15.93 1.51 42.66 4.34
1180 4756 1.214325 GCATTTACGCCAACCCACC 59.786 57.895 0.00 0.00 0.00 4.61
1210 4792 2.435410 CCACCGCCGTTTCTACCC 60.435 66.667 0.00 0.00 0.00 3.69
1270 4852 3.395607 CCTCCAGATCCCAAATCACCATA 59.604 47.826 0.00 0.00 0.00 2.74
1283 4865 1.043116 CACCATAGTCGCCTCCCTCA 61.043 60.000 0.00 0.00 0.00 3.86
1298 4880 2.964039 TCATCCCCTCCCCTCCCA 60.964 66.667 0.00 0.00 0.00 4.37
1321 4903 0.944311 CCAGCAAGCAAGCAAGCAAG 60.944 55.000 10.52 3.81 36.85 4.01
1322 4904 1.300697 AGCAAGCAAGCAAGCAAGC 60.301 52.632 10.52 6.16 36.99 4.01
1324 4906 1.155424 GCAAGCAAGCAAGCAAGCAA 61.155 50.000 10.52 0.00 36.81 3.91
1325 4907 0.859232 CAAGCAAGCAAGCAAGCAAG 59.141 50.000 10.52 0.00 36.85 4.01
1326 4908 0.878961 AAGCAAGCAAGCAAGCAAGC 60.879 50.000 10.52 6.16 36.99 4.01
1327 4909 1.593209 GCAAGCAAGCAAGCAAGCA 60.593 52.632 10.52 0.00 36.81 3.91
1328 4910 1.155424 GCAAGCAAGCAAGCAAGCAA 61.155 50.000 10.52 0.00 36.81 3.91
1329 4911 1.292061 CAAGCAAGCAAGCAAGCAAA 58.708 45.000 10.52 0.00 36.85 3.68
1330 4912 1.666700 CAAGCAAGCAAGCAAGCAAAA 59.333 42.857 10.52 0.00 36.85 2.44
1331 4913 1.292992 AGCAAGCAAGCAAGCAAAAC 58.707 45.000 10.52 0.00 36.85 2.43
1332 4914 0.305617 GCAAGCAAGCAAGCAAAACC 59.694 50.000 3.19 0.00 36.85 3.27
1333 4915 0.939419 CAAGCAAGCAAGCAAAACCC 59.061 50.000 3.19 0.00 36.85 4.11
1334 4916 0.179048 AAGCAAGCAAGCAAAACCCC 60.179 50.000 3.19 0.00 36.85 4.95
1335 4917 1.145819 GCAAGCAAGCAAAACCCCA 59.854 52.632 0.00 0.00 0.00 4.96
1336 4918 0.881600 GCAAGCAAGCAAAACCCCAG 60.882 55.000 0.00 0.00 0.00 4.45
1337 4919 0.881600 CAAGCAAGCAAAACCCCAGC 60.882 55.000 0.00 0.00 0.00 4.85
1338 4920 2.356194 GCAAGCAAAACCCCAGCG 60.356 61.111 0.00 0.00 0.00 5.18
1339 4921 2.356194 CAAGCAAAACCCCAGCGC 60.356 61.111 0.00 0.00 0.00 5.92
1340 4922 3.615709 AAGCAAAACCCCAGCGCC 61.616 61.111 2.29 0.00 0.00 6.53
1382 4964 4.194720 CCCGCGTCCTCTTCCTCG 62.195 72.222 4.92 0.00 0.00 4.63
1571 5153 3.909285 GGCGTCGCCTACCCCTAC 61.909 72.222 28.98 0.00 46.69 3.18
1572 5154 3.909285 GCGTCGCCTACCCCTACC 61.909 72.222 5.75 0.00 0.00 3.18
1573 5155 3.222121 CGTCGCCTACCCCTACCC 61.222 72.222 0.00 0.00 0.00 3.69
1574 5156 3.222121 GTCGCCTACCCCTACCCG 61.222 72.222 0.00 0.00 0.00 5.28
1575 5157 4.528039 TCGCCTACCCCTACCCGG 62.528 72.222 0.00 0.00 0.00 5.73
1603 5185 4.514585 GCACCACCACCACCACCA 62.515 66.667 0.00 0.00 0.00 4.17
1604 5186 2.518349 CACCACCACCACCACCAC 60.518 66.667 0.00 0.00 0.00 4.16
1605 5187 3.816090 ACCACCACCACCACCACC 61.816 66.667 0.00 0.00 0.00 4.61
1606 5188 4.596585 CCACCACCACCACCACCC 62.597 72.222 0.00 0.00 0.00 4.61
1607 5189 4.947147 CACCACCACCACCACCCG 62.947 72.222 0.00 0.00 0.00 5.28
1633 5215 2.364579 CCCGCCCTACCACCACTA 60.365 66.667 0.00 0.00 0.00 2.74
1634 5216 2.728435 CCCGCCCTACCACCACTAC 61.728 68.421 0.00 0.00 0.00 2.73
1635 5217 2.728435 CCGCCCTACCACCACTACC 61.728 68.421 0.00 0.00 0.00 3.18
1636 5218 1.985662 CGCCCTACCACCACTACCA 60.986 63.158 0.00 0.00 0.00 3.25
1637 5219 1.600638 GCCCTACCACCACTACCAC 59.399 63.158 0.00 0.00 0.00 4.16
1638 5220 1.196104 GCCCTACCACCACTACCACA 61.196 60.000 0.00 0.00 0.00 4.17
1639 5221 1.354101 CCCTACCACCACTACCACAA 58.646 55.000 0.00 0.00 0.00 3.33
1640 5222 1.002773 CCCTACCACCACTACCACAAC 59.997 57.143 0.00 0.00 0.00 3.32
1641 5223 1.002773 CCTACCACCACTACCACAACC 59.997 57.143 0.00 0.00 0.00 3.77
1642 5224 1.695242 CTACCACCACTACCACAACCA 59.305 52.381 0.00 0.00 0.00 3.67
1643 5225 0.181824 ACCACCACTACCACAACCAC 59.818 55.000 0.00 0.00 0.00 4.16
1644 5226 0.536460 CCACCACTACCACAACCACC 60.536 60.000 0.00 0.00 0.00 4.61
1645 5227 0.181587 CACCACTACCACAACCACCA 59.818 55.000 0.00 0.00 0.00 4.17
1646 5228 0.181824 ACCACTACCACAACCACCAC 59.818 55.000 0.00 0.00 0.00 4.16
1907 5840 2.762887 CAAGCTCACCATCTCCTACTCA 59.237 50.000 0.00 0.00 0.00 3.41
1919 5852 0.820074 CCTACTCATCCCTCGTCGCT 60.820 60.000 0.00 0.00 0.00 4.93
2033 5966 2.176273 CGACGTCGACGGGACCTAT 61.176 63.158 37.89 18.30 42.99 2.57
2163 6096 3.017581 GGAGGGCCATGAGGGTGT 61.018 66.667 6.18 0.00 39.65 4.16
2180 6113 1.672356 GTTGTGCGATGGAGTGCCT 60.672 57.895 0.00 0.00 34.31 4.75
2265 6198 2.987821 GTCGTCTTGTGAAGGTTAGCTC 59.012 50.000 0.00 0.00 0.00 4.09
2278 6211 2.615912 GGTTAGCTCACATGATTCCAGC 59.384 50.000 0.00 0.00 0.00 4.85
2304 6237 5.409214 CCTTTTGTGGTTATGCCTTCAATTG 59.591 40.000 0.00 0.00 38.35 2.32
2323 6256 3.339253 TGACATCCAGAGTTCCATGTG 57.661 47.619 0.00 0.00 29.43 3.21
2330 6263 5.255397 TCCAGAGTTCCATGTGGTAAAAT 57.745 39.130 0.00 0.00 35.18 1.82
2331 6264 5.640147 TCCAGAGTTCCATGTGGTAAAATT 58.360 37.500 0.00 0.00 35.18 1.82
2332 6265 6.074648 TCCAGAGTTCCATGTGGTAAAATTT 58.925 36.000 0.00 0.00 35.18 1.82
2333 6266 6.208599 TCCAGAGTTCCATGTGGTAAAATTTC 59.791 38.462 0.00 0.00 35.18 2.17
2338 6271 7.882179 AGTTCCATGTGGTAAAATTTCTGTAC 58.118 34.615 0.00 0.00 36.34 2.90
2342 6275 5.927954 TGTGGTAAAATTTCTGTACGGAC 57.072 39.130 3.16 0.00 0.00 4.79
2357 6290 1.623811 ACGGACTGTAAGAGTGGCAAT 59.376 47.619 0.00 0.00 37.43 3.56
2360 6293 3.368013 CGGACTGTAAGAGTGGCAATGTA 60.368 47.826 0.00 0.00 37.43 2.29
2362 6295 4.811557 GGACTGTAAGAGTGGCAATGTATC 59.188 45.833 0.00 0.00 37.43 2.24
2363 6296 5.395768 GGACTGTAAGAGTGGCAATGTATCT 60.396 44.000 0.00 0.00 37.43 1.98
2364 6297 5.423015 ACTGTAAGAGTGGCAATGTATCTG 58.577 41.667 0.00 0.00 37.43 2.90
2365 6298 5.046304 ACTGTAAGAGTGGCAATGTATCTGT 60.046 40.000 0.00 0.00 37.43 3.41
2366 6299 6.154534 ACTGTAAGAGTGGCAATGTATCTGTA 59.845 38.462 0.00 0.00 37.43 2.74
2367 6300 6.338146 TGTAAGAGTGGCAATGTATCTGTAC 58.662 40.000 0.00 0.00 0.00 2.90
2368 6301 4.408182 AGAGTGGCAATGTATCTGTACC 57.592 45.455 0.00 0.00 0.00 3.34
2376 6309 5.238583 GCAATGTATCTGTACCTATGTCCC 58.761 45.833 0.00 0.00 0.00 4.46
2417 6350 5.234116 GTGGTGATTTGCGAGTTTGAAAATT 59.766 36.000 0.00 0.00 26.90 1.82
2593 6533 9.574516 AAAAATAGTAAGAGTCCAACAGATGTT 57.425 29.630 0.00 0.00 39.12 2.71
2602 6542 2.827604 AACAGATGTTGGAGTCGCG 58.172 52.632 0.00 0.00 36.80 5.87
2604 6544 2.507102 AGATGTTGGAGTCGCGCG 60.507 61.111 26.76 26.76 0.00 6.86
2658 6598 3.703052 AGGCAATAGGAAATCTGGCAAAG 59.297 43.478 0.00 0.00 36.85 2.77
2741 6681 8.732746 ATATATAGGCAAAACAAAGAAGACGT 57.267 30.769 0.00 0.00 0.00 4.34
2742 6682 5.767816 ATAGGCAAAACAAAGAAGACGTT 57.232 34.783 0.00 0.00 0.00 3.99
2743 6683 4.028852 AGGCAAAACAAAGAAGACGTTC 57.971 40.909 0.00 0.00 0.00 3.95
2744 6684 3.442273 AGGCAAAACAAAGAAGACGTTCA 59.558 39.130 0.00 0.00 34.82 3.18
2745 6685 3.791353 GGCAAAACAAAGAAGACGTTCAG 59.209 43.478 0.00 0.00 34.82 3.02
2746 6686 4.412207 GCAAAACAAAGAAGACGTTCAGT 58.588 39.130 0.00 0.00 34.82 3.41
2747 6687 5.448089 GGCAAAACAAAGAAGACGTTCAGTA 60.448 40.000 0.00 0.00 34.82 2.74
2790 6730 6.877855 TCTCATCCTTTGATGTTTCAAGAGAG 59.122 38.462 2.77 0.00 46.96 3.20
2798 6738 5.494724 TGATGTTTCAAGAGAGGGAGATTG 58.505 41.667 0.00 0.00 0.00 2.67
2805 6745 7.502060 TTCAAGAGAGGGAGATTGTCTATTT 57.498 36.000 0.00 0.00 0.00 1.40
2807 6747 8.609617 TCAAGAGAGGGAGATTGTCTATTTTA 57.390 34.615 0.00 0.00 0.00 1.52
2844 6785 0.828022 TCCCTACCAGGTAATGCGTG 59.172 55.000 0.00 0.00 31.93 5.34
2855 6801 2.535485 TAATGCGTGTGAGCTGGGGG 62.535 60.000 0.00 0.00 38.13 5.40
2858 6804 3.314331 CGTGTGAGCTGGGGGTCT 61.314 66.667 0.00 0.00 40.29 3.85
2859 6805 2.348998 GTGTGAGCTGGGGGTCTG 59.651 66.667 0.00 0.00 40.29 3.51
2860 6806 2.930019 TGTGAGCTGGGGGTCTGG 60.930 66.667 0.00 0.00 40.29 3.86
2861 6807 4.416738 GTGAGCTGGGGGTCTGGC 62.417 72.222 0.00 0.00 40.29 4.85
2862 6808 4.664267 TGAGCTGGGGGTCTGGCT 62.664 66.667 0.00 0.00 40.29 4.75
2863 6809 3.791586 GAGCTGGGGGTCTGGCTC 61.792 72.222 0.00 0.00 43.07 4.70
2864 6810 4.664267 AGCTGGGGGTCTGGCTCA 62.664 66.667 0.00 0.00 0.00 4.26
2865 6811 4.106925 GCTGGGGGTCTGGCTCAG 62.107 72.222 0.00 0.00 0.00 3.35
2866 6812 2.608988 CTGGGGGTCTGGCTCAGT 60.609 66.667 2.68 0.00 32.61 3.41
2867 6813 2.607750 TGGGGGTCTGGCTCAGTC 60.608 66.667 2.68 0.00 32.61 3.51
2868 6814 2.607750 GGGGGTCTGGCTCAGTCA 60.608 66.667 2.68 0.00 32.61 3.41
2869 6815 1.997874 GGGGGTCTGGCTCAGTCAT 60.998 63.158 2.68 0.00 32.61 3.06
2870 6816 1.524482 GGGGTCTGGCTCAGTCATC 59.476 63.158 2.68 0.00 32.61 2.92
2871 6817 1.267574 GGGGTCTGGCTCAGTCATCA 61.268 60.000 2.68 0.00 32.61 3.07
2872 6818 0.835941 GGGTCTGGCTCAGTCATCAT 59.164 55.000 2.68 0.00 32.61 2.45
2873 6819 1.211457 GGGTCTGGCTCAGTCATCATT 59.789 52.381 2.68 0.00 32.61 2.57
2874 6820 2.356535 GGGTCTGGCTCAGTCATCATTT 60.357 50.000 2.68 0.00 32.61 2.32
2875 6821 3.350833 GGTCTGGCTCAGTCATCATTTT 58.649 45.455 2.68 0.00 32.61 1.82
2876 6822 3.128242 GGTCTGGCTCAGTCATCATTTTG 59.872 47.826 2.68 0.00 32.61 2.44
2877 6823 3.755378 GTCTGGCTCAGTCATCATTTTGT 59.245 43.478 2.68 0.00 32.61 2.83
2878 6824 4.217118 GTCTGGCTCAGTCATCATTTTGTT 59.783 41.667 2.68 0.00 32.61 2.83
2879 6825 4.828939 TCTGGCTCAGTCATCATTTTGTTT 59.171 37.500 2.68 0.00 32.61 2.83
2880 6826 4.873817 TGGCTCAGTCATCATTTTGTTTG 58.126 39.130 0.00 0.00 0.00 2.93
2881 6827 4.341806 TGGCTCAGTCATCATTTTGTTTGT 59.658 37.500 0.00 0.00 0.00 2.83
2882 6828 4.682860 GGCTCAGTCATCATTTTGTTTGTG 59.317 41.667 0.00 0.00 0.00 3.33
2883 6829 5.284079 GCTCAGTCATCATTTTGTTTGTGT 58.716 37.500 0.00 0.00 0.00 3.72
2968 6914 7.768582 TCTCAGTCATTTTAGAGACAACAACAA 59.231 33.333 0.00 0.00 37.23 2.83
3105 7060 5.294552 GGTCCTAGAAGTTGTACATGCATTC 59.705 44.000 0.00 0.00 0.00 2.67
3145 7100 5.071250 TGGCTTCTAGTTGTTTGAGACCTAA 59.929 40.000 0.00 0.00 0.00 2.69
3292 7315 1.464997 GGCGAGAAGTGTGAATTGTCC 59.535 52.381 0.00 0.00 0.00 4.02
3330 7353 4.808414 TGAGCTTAGTACTTGCTGTGAT 57.192 40.909 22.30 4.05 37.16 3.06
3423 7453 7.770433 CCATAGTGGTAGACTGAATTGAAATGA 59.230 37.037 0.00 0.00 35.96 2.57
3460 7490 1.755179 AGGGTTGCATCCTCAATTCG 58.245 50.000 13.47 0.00 0.00 3.34
3555 7595 3.799281 ATTGACAGCTCTCACTCTAGC 57.201 47.619 0.00 0.00 39.08 3.42
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 36 2.158608 CCTTCCTCAAACCCAAGTCTGT 60.159 50.000 0.00 0.00 0.00 3.41
38 40 0.178961 GGCCTTCCTCAAACCCAAGT 60.179 55.000 0.00 0.00 0.00 3.16
44 46 2.561478 TGTAGTGGCCTTCCTCAAAC 57.439 50.000 3.32 0.00 0.00 2.93
46 48 3.844211 AGTATTGTAGTGGCCTTCCTCAA 59.156 43.478 3.32 3.89 0.00 3.02
63 65 4.202567 TGAAGTTGCAGAAGGGGAAGTATT 60.203 41.667 0.00 0.00 0.00 1.89
66 68 1.494721 TGAAGTTGCAGAAGGGGAAGT 59.505 47.619 0.00 0.00 0.00 3.01
77 79 1.228124 CCCGGGAAGTGAAGTTGCA 60.228 57.895 18.48 0.00 0.00 4.08
78 80 1.971695 CCCCGGGAAGTGAAGTTGC 60.972 63.158 26.32 0.00 0.00 4.17
81 83 2.529389 AGCCCCGGGAAGTGAAGT 60.529 61.111 26.32 0.00 0.00 3.01
158 160 3.190535 GTCTAAATGATTGCCAACCACGT 59.809 43.478 0.00 0.00 0.00 4.49
165 168 5.948758 TGTAACATGGTCTAAATGATTGCCA 59.051 36.000 0.00 0.00 0.00 4.92
169 172 9.369904 GCATTTTGTAACATGGTCTAAATGATT 57.630 29.630 21.70 0.67 36.88 2.57
178 181 5.163652 GGACTAGGCATTTTGTAACATGGTC 60.164 44.000 0.00 0.00 0.00 4.02
189 192 4.957684 ACTATAGCGGACTAGGCATTTT 57.042 40.909 0.00 0.00 0.00 1.82
201 204 8.425491 CGACATATTTCAACTAAACTATAGCGG 58.575 37.037 0.00 0.00 0.00 5.52
221 224 9.400638 GACCAAAAACATTACATTTTCGACATA 57.599 29.630 0.00 0.00 0.00 2.29
239 243 4.737855 TTCATCAAAACCGGACCAAAAA 57.262 36.364 9.46 0.00 0.00 1.94
258 262 6.688813 GCTTTCATACGAACCTGATGATTTTC 59.311 38.462 0.00 0.00 30.00 2.29
263 267 3.531538 GGCTTTCATACGAACCTGATGA 58.468 45.455 0.00 0.00 0.00 2.92
264 268 2.285220 CGGCTTTCATACGAACCTGATG 59.715 50.000 0.00 0.00 0.00 3.07
265 269 2.093658 ACGGCTTTCATACGAACCTGAT 60.094 45.455 0.00 0.00 0.00 2.90
266 270 1.274167 ACGGCTTTCATACGAACCTGA 59.726 47.619 0.00 0.00 0.00 3.86
267 271 1.659098 GACGGCTTTCATACGAACCTG 59.341 52.381 0.00 0.00 0.00 4.00
268 272 1.549170 AGACGGCTTTCATACGAACCT 59.451 47.619 0.00 0.00 0.00 3.50
283 288 7.829378 AACTAGATTTAAACAAGCTAGACGG 57.171 36.000 12.59 0.00 34.24 4.79
338 343 2.350498 ACAAACTCGATTTTATCCGCGG 59.650 45.455 22.12 22.12 0.00 6.46
349 354 8.617290 ATGTAAACCTCTAAAACAAACTCGAT 57.383 30.769 0.00 0.00 0.00 3.59
350 355 8.339714 CAATGTAAACCTCTAAAACAAACTCGA 58.660 33.333 0.00 0.00 0.00 4.04
352 357 8.626526 TCCAATGTAAACCTCTAAAACAAACTC 58.373 33.333 0.00 0.00 0.00 3.01
353 358 8.528044 TCCAATGTAAACCTCTAAAACAAACT 57.472 30.769 0.00 0.00 0.00 2.66
358 364 7.330946 GCCATTTCCAATGTAAACCTCTAAAAC 59.669 37.037 0.00 0.00 0.00 2.43
371 377 2.497273 GCAACCTAGCCATTTCCAATGT 59.503 45.455 0.00 0.00 0.00 2.71
386 392 1.819632 GATGATTCCGCGGCAACCT 60.820 57.895 23.51 0.03 0.00 3.50
390 396 2.087462 ATCGAGATGATTCCGCGGCA 62.087 55.000 23.51 11.40 31.57 5.69
408 414 3.674138 GCAATCTCACCGCAATTTCACAT 60.674 43.478 0.00 0.00 0.00 3.21
415 421 2.009774 GTACAGCAATCTCACCGCAAT 58.990 47.619 0.00 0.00 0.00 3.56
417 423 0.320050 TGTACAGCAATCTCACCGCA 59.680 50.000 0.00 0.00 0.00 5.69
418 424 1.002366 CTGTACAGCAATCTCACCGC 58.998 55.000 10.54 0.00 0.00 5.68
419 425 2.534298 CTCTGTACAGCAATCTCACCG 58.466 52.381 18.45 0.00 0.00 4.94
421 427 2.275318 GGCTCTGTACAGCAATCTCAC 58.725 52.381 18.45 1.09 41.65 3.51
422 428 1.134995 CGGCTCTGTACAGCAATCTCA 60.135 52.381 18.45 0.00 41.65 3.27
423 429 1.135139 TCGGCTCTGTACAGCAATCTC 59.865 52.381 18.45 3.68 41.65 2.75
428 3129 0.893727 TCTGTCGGCTCTGTACAGCA 60.894 55.000 18.45 8.10 41.65 4.41
436 3137 2.182791 CACGCATCTGTCGGCTCT 59.817 61.111 0.00 0.00 0.00 4.09
439 3140 1.959899 CTTGTCACGCATCTGTCGGC 61.960 60.000 0.00 0.00 0.00 5.54
445 3146 1.550327 TCTCCTCTTGTCACGCATCT 58.450 50.000 0.00 0.00 0.00 2.90
447 3148 2.419297 GGATTCTCCTCTTGTCACGCAT 60.419 50.000 0.00 0.00 32.53 4.73
450 3151 2.493675 TCAGGATTCTCCTCTTGTCACG 59.506 50.000 0.00 0.00 45.66 4.35
451 3152 4.221703 TCTTCAGGATTCTCCTCTTGTCAC 59.778 45.833 0.00 0.00 45.66 3.67
458 3159 7.209475 CACTATCTTTCTTCAGGATTCTCCTC 58.791 42.308 0.00 0.00 45.66 3.71
465 3166 7.865820 TCATTTCCACTATCTTTCTTCAGGAT 58.134 34.615 0.00 0.00 0.00 3.24
466 3167 7.180946 TCTCATTTCCACTATCTTTCTTCAGGA 59.819 37.037 0.00 0.00 0.00 3.86
467 3168 7.334090 TCTCATTTCCACTATCTTTCTTCAGG 58.666 38.462 0.00 0.00 0.00 3.86
468 3169 8.783833 TTCTCATTTCCACTATCTTTCTTCAG 57.216 34.615 0.00 0.00 0.00 3.02
469 3170 9.170734 CATTCTCATTTCCACTATCTTTCTTCA 57.829 33.333 0.00 0.00 0.00 3.02
470 3171 9.388506 TCATTCTCATTTCCACTATCTTTCTTC 57.611 33.333 0.00 0.00 0.00 2.87
511 3225 3.659092 CCCTTCGCGCACAAGCAA 61.659 61.111 8.75 0.00 42.27 3.91
560 3274 2.199652 CCCGCACCAGCAGGAAAAA 61.200 57.895 0.35 0.00 40.99 1.94
586 3300 2.555757 CCACTTTTCTTCTCCCAGCTTG 59.444 50.000 0.00 0.00 0.00 4.01
611 3325 1.614317 GGTGAAAGGGATGAGTGGTGG 60.614 57.143 0.00 0.00 0.00 4.61
669 4191 2.495669 ACTCAAGCTAGAGAGTGGAAGC 59.504 50.000 13.65 0.00 43.09 3.86
681 4203 2.885266 ACTGAAGACGTGACTCAAGCTA 59.115 45.455 0.00 0.00 0.00 3.32
682 4204 1.683917 ACTGAAGACGTGACTCAAGCT 59.316 47.619 0.00 0.00 0.00 3.74
701 4223 0.458025 GGACCCTCGACATTCGACAC 60.458 60.000 0.00 0.00 44.82 3.67
702 4224 0.611062 AGGACCCTCGACATTCGACA 60.611 55.000 0.00 0.00 44.82 4.35
707 4229 2.239681 AGAGAAGGACCCTCGACATT 57.760 50.000 0.00 0.00 35.88 2.71
708 4230 2.234908 CAAAGAGAAGGACCCTCGACAT 59.765 50.000 0.00 0.00 35.88 3.06
709 4231 1.618837 CAAAGAGAAGGACCCTCGACA 59.381 52.381 0.00 0.00 35.88 4.35
735 4257 3.656559 TGCTACTACAAAAAGGTCCGTC 58.343 45.455 0.00 0.00 0.00 4.79
741 4263 7.201478 CGAATCTTCTCTGCTACTACAAAAAGG 60.201 40.741 0.00 0.00 0.00 3.11
752 4274 1.676529 CCGTCCGAATCTTCTCTGCTA 59.323 52.381 0.00 0.00 0.00 3.49
791 4313 0.537653 GAGGAGTGCCCAAGTCTACC 59.462 60.000 0.00 0.00 37.41 3.18
815 4337 1.264826 GCAAATTGCAAAAGTGGCAGG 59.735 47.619 13.73 0.00 44.26 4.85
816 4338 2.673976 GCAAATTGCAAAAGTGGCAG 57.326 45.000 13.73 0.00 44.26 4.85
906 4460 2.685897 TCTTTTGTTTTGACCGACAGGG 59.314 45.455 0.00 0.00 43.47 4.45
916 4470 9.064804 GCTTTTGGAATCTTTTCTTTTGTTTTG 57.935 29.630 0.00 0.00 32.16 2.44
917 4471 9.013229 AGCTTTTGGAATCTTTTCTTTTGTTTT 57.987 25.926 0.00 0.00 32.16 2.43
918 4472 8.453320 CAGCTTTTGGAATCTTTTCTTTTGTTT 58.547 29.630 0.00 0.00 32.16 2.83
919 4473 7.977904 CAGCTTTTGGAATCTTTTCTTTTGTT 58.022 30.769 0.00 0.00 32.16 2.83
920 4474 7.543947 CAGCTTTTGGAATCTTTTCTTTTGT 57.456 32.000 0.00 0.00 32.16 2.83
973 4547 1.236616 TGGTCTTGTGGAGCATTGCG 61.237 55.000 2.38 0.00 45.96 4.85
988 4562 5.529791 ACACATATATAGAGCGTTGTGGTC 58.470 41.667 13.67 0.00 45.59 4.02
992 4566 7.961283 CGTATGTACACATATATAGAGCGTTGT 59.039 37.037 0.00 0.00 40.53 3.32
993 4567 7.044901 GCGTATGTACACATATATAGAGCGTTG 60.045 40.741 0.00 0.00 40.53 4.10
995 4569 6.484540 GCGTATGTACACATATATAGAGCGT 58.515 40.000 0.00 0.00 40.53 5.07
996 4570 5.615982 CGCGTATGTACACATATATAGAGCG 59.384 44.000 0.00 11.06 40.53 5.03
998 4572 8.548721 TGATCGCGTATGTACACATATATAGAG 58.451 37.037 5.77 1.59 40.53 2.43
999 4573 8.428186 TGATCGCGTATGTACACATATATAGA 57.572 34.615 5.77 4.48 40.53 1.98
1000 4574 9.665264 AATGATCGCGTATGTACACATATATAG 57.335 33.333 5.77 0.71 40.53 1.31
1002 4576 8.926715 AAATGATCGCGTATGTACACATATAT 57.073 30.769 5.77 0.00 40.53 0.86
1003 4577 9.281075 GTAAATGATCGCGTATGTACACATATA 57.719 33.333 5.77 0.00 40.53 0.86
1004 4578 7.274904 GGTAAATGATCGCGTATGTACACATAT 59.725 37.037 5.77 0.00 40.53 1.78
1005 4579 6.583427 GGTAAATGATCGCGTATGTACACATA 59.417 38.462 5.77 0.00 37.76 2.29
1006 4580 5.404366 GGTAAATGATCGCGTATGTACACAT 59.596 40.000 5.77 0.00 40.22 3.21
1007 4581 4.741185 GGTAAATGATCGCGTATGTACACA 59.259 41.667 5.77 0.00 0.00 3.72
1008 4582 4.143680 CGGTAAATGATCGCGTATGTACAC 60.144 45.833 5.77 0.00 0.00 2.90
1009 4583 3.976306 CGGTAAATGATCGCGTATGTACA 59.024 43.478 5.77 0.00 0.00 2.90
1010 4584 4.221342 TCGGTAAATGATCGCGTATGTAC 58.779 43.478 5.77 8.98 0.00 2.90
1013 4587 3.420035 CGTTCGGTAAATGATCGCGTATG 60.420 47.826 5.77 0.00 0.00 2.39
1023 4597 1.322338 CCACTACGCGTTCGGTAAATG 59.678 52.381 20.78 0.00 40.69 2.32
1031 4606 1.349259 AATCGTGCCACTACGCGTTC 61.349 55.000 20.78 2.46 43.75 3.95
1033 4608 0.101759 ATAATCGTGCCACTACGCGT 59.898 50.000 19.17 19.17 43.75 6.01
1034 4609 1.205657 AATAATCGTGCCACTACGCG 58.794 50.000 3.53 3.53 43.40 6.01
1036 4611 5.038683 TCTGTAAATAATCGTGCCACTACG 58.961 41.667 0.00 0.00 44.98 3.51
1037 4612 5.233689 GGTCTGTAAATAATCGTGCCACTAC 59.766 44.000 0.00 0.00 0.00 2.73
1038 4613 5.105269 TGGTCTGTAAATAATCGTGCCACTA 60.105 40.000 0.00 0.00 0.00 2.74
1039 4614 4.189231 GGTCTGTAAATAATCGTGCCACT 58.811 43.478 0.00 0.00 0.00 4.00
1040 4615 3.936453 TGGTCTGTAAATAATCGTGCCAC 59.064 43.478 0.00 0.00 0.00 5.01
1041 4616 4.209307 TGGTCTGTAAATAATCGTGCCA 57.791 40.909 0.00 0.00 0.00 4.92
1042 4617 4.493545 CGTTGGTCTGTAAATAATCGTGCC 60.494 45.833 0.00 0.00 0.00 5.01
1043 4618 4.574759 CGTTGGTCTGTAAATAATCGTGC 58.425 43.478 0.00 0.00 0.00 5.34
1044 4619 4.574759 GCGTTGGTCTGTAAATAATCGTG 58.425 43.478 0.00 0.00 0.00 4.35
1045 4620 3.305094 CGCGTTGGTCTGTAAATAATCGT 59.695 43.478 0.00 0.00 0.00 3.73
1046 4621 3.548668 TCGCGTTGGTCTGTAAATAATCG 59.451 43.478 5.77 0.00 0.00 3.34
1047 4622 4.547587 CGTCGCGTTGGTCTGTAAATAATC 60.548 45.833 5.77 0.00 0.00 1.75
1048 4623 3.305094 CGTCGCGTTGGTCTGTAAATAAT 59.695 43.478 5.77 0.00 0.00 1.28
1049 4624 2.662637 CGTCGCGTTGGTCTGTAAATAA 59.337 45.455 5.77 0.00 0.00 1.40
1050 4625 2.095314 TCGTCGCGTTGGTCTGTAAATA 60.095 45.455 5.77 0.00 0.00 1.40
1051 4626 1.065358 CGTCGCGTTGGTCTGTAAAT 58.935 50.000 5.77 0.00 0.00 1.40
1052 4627 0.030504 TCGTCGCGTTGGTCTGTAAA 59.969 50.000 5.77 0.00 0.00 2.01
1053 4628 0.661187 GTCGTCGCGTTGGTCTGTAA 60.661 55.000 5.77 0.00 0.00 2.41
1054 4629 1.081906 GTCGTCGCGTTGGTCTGTA 60.082 57.895 5.77 0.00 0.00 2.74
1055 4630 2.354305 GTCGTCGCGTTGGTCTGT 60.354 61.111 5.77 0.00 0.00 3.41
1056 4631 3.458579 CGTCGTCGCGTTGGTCTG 61.459 66.667 5.77 0.00 0.00 3.51
1057 4632 3.653009 TCGTCGTCGCGTTGGTCT 61.653 61.111 5.77 0.00 36.96 3.85
1058 4633 3.456039 GTCGTCGTCGCGTTGGTC 61.456 66.667 5.77 0.00 36.96 4.02
1068 4643 4.678269 CGCACGTCAGGTCGTCGT 62.678 66.667 0.00 0.00 42.27 4.34
1210 4792 1.819229 CAGGAGGATGGAGTCGGTG 59.181 63.158 0.00 0.00 0.00 4.94
1283 4865 2.629569 GATGGGAGGGGAGGGGAT 59.370 66.667 0.00 0.00 0.00 3.85
1298 4880 1.228956 TTGCTTGCTTGCTGGGGAT 60.229 52.632 3.47 0.00 0.00 3.85
1321 4903 2.356194 CGCTGGGGTTTTGCTTGC 60.356 61.111 0.00 0.00 0.00 4.01
1322 4904 2.356194 GCGCTGGGGTTTTGCTTG 60.356 61.111 0.00 0.00 0.00 4.01
1364 4946 2.754658 GAGGAAGAGGACGCGGGA 60.755 66.667 12.47 0.00 0.00 5.14
1367 4949 2.100603 GACGAGGAAGAGGACGCG 59.899 66.667 3.53 3.53 0.00 6.01
1586 5168 4.514585 TGGTGGTGGTGGTGGTGC 62.515 66.667 0.00 0.00 0.00 5.01
1587 5169 2.518349 GTGGTGGTGGTGGTGGTG 60.518 66.667 0.00 0.00 0.00 4.17
1588 5170 3.816090 GGTGGTGGTGGTGGTGGT 61.816 66.667 0.00 0.00 0.00 4.16
1589 5171 4.596585 GGGTGGTGGTGGTGGTGG 62.597 72.222 0.00 0.00 0.00 4.61
1590 5172 4.947147 CGGGTGGTGGTGGTGGTG 62.947 72.222 0.00 0.00 0.00 4.17
1615 5197 3.988050 TAGTGGTGGTAGGGCGGGG 62.988 68.421 0.00 0.00 0.00 5.73
1616 5198 2.364579 TAGTGGTGGTAGGGCGGG 60.365 66.667 0.00 0.00 0.00 6.13
1617 5199 2.728435 GGTAGTGGTGGTAGGGCGG 61.728 68.421 0.00 0.00 0.00 6.13
1618 5200 1.985662 TGGTAGTGGTGGTAGGGCG 60.986 63.158 0.00 0.00 0.00 6.13
1619 5201 1.196104 TGTGGTAGTGGTGGTAGGGC 61.196 60.000 0.00 0.00 0.00 5.19
1620 5202 1.002773 GTTGTGGTAGTGGTGGTAGGG 59.997 57.143 0.00 0.00 0.00 3.53
1621 5203 1.002773 GGTTGTGGTAGTGGTGGTAGG 59.997 57.143 0.00 0.00 0.00 3.18
1622 5204 1.695242 TGGTTGTGGTAGTGGTGGTAG 59.305 52.381 0.00 0.00 0.00 3.18
1623 5205 1.417145 GTGGTTGTGGTAGTGGTGGTA 59.583 52.381 0.00 0.00 0.00 3.25
1624 5206 0.181824 GTGGTTGTGGTAGTGGTGGT 59.818 55.000 0.00 0.00 0.00 4.16
1625 5207 0.536460 GGTGGTTGTGGTAGTGGTGG 60.536 60.000 0.00 0.00 0.00 4.61
1626 5208 0.181587 TGGTGGTTGTGGTAGTGGTG 59.818 55.000 0.00 0.00 0.00 4.17
1627 5209 0.181824 GTGGTGGTTGTGGTAGTGGT 59.818 55.000 0.00 0.00 0.00 4.16
1628 5210 0.181587 TGTGGTGGTTGTGGTAGTGG 59.818 55.000 0.00 0.00 0.00 4.00
1629 5211 1.673920 GTTGTGGTGGTTGTGGTAGTG 59.326 52.381 0.00 0.00 0.00 2.74
1630 5212 1.409101 GGTTGTGGTGGTTGTGGTAGT 60.409 52.381 0.00 0.00 0.00 2.73
1631 5213 1.314730 GGTTGTGGTGGTTGTGGTAG 58.685 55.000 0.00 0.00 0.00 3.18
1632 5214 0.106619 GGGTTGTGGTGGTTGTGGTA 60.107 55.000 0.00 0.00 0.00 3.25
1633 5215 1.380650 GGGTTGTGGTGGTTGTGGT 60.381 57.895 0.00 0.00 0.00 4.16
1634 5216 2.131067 GGGGTTGTGGTGGTTGTGG 61.131 63.158 0.00 0.00 0.00 4.17
1635 5217 0.183971 TAGGGGTTGTGGTGGTTGTG 59.816 55.000 0.00 0.00 0.00 3.33
1636 5218 0.184211 GTAGGGGTTGTGGTGGTTGT 59.816 55.000 0.00 0.00 0.00 3.32
1637 5219 0.538746 GGTAGGGGTTGTGGTGGTTG 60.539 60.000 0.00 0.00 0.00 3.77
1638 5220 0.994591 TGGTAGGGGTTGTGGTGGTT 60.995 55.000 0.00 0.00 0.00 3.67
1639 5221 1.386200 TGGTAGGGGTTGTGGTGGT 60.386 57.895 0.00 0.00 0.00 4.16
1640 5222 1.378762 CTGGTAGGGGTTGTGGTGG 59.621 63.158 0.00 0.00 0.00 4.61
1641 5223 1.378762 CCTGGTAGGGGTTGTGGTG 59.621 63.158 0.00 0.00 0.00 4.17
1642 5224 2.535331 GCCTGGTAGGGGTTGTGGT 61.535 63.158 0.00 0.00 35.37 4.16
1643 5225 2.355115 GCCTGGTAGGGGTTGTGG 59.645 66.667 0.00 0.00 35.37 4.17
1644 5226 2.046314 CGCCTGGTAGGGGTTGTG 60.046 66.667 3.94 0.00 42.78 3.33
1645 5227 3.327404 CCGCCTGGTAGGGGTTGT 61.327 66.667 10.50 0.00 45.96 3.32
1646 5228 4.796495 GCCGCCTGGTAGGGGTTG 62.796 72.222 10.50 0.00 45.96 3.77
1919 5852 2.658422 GGGGCGAGGTCAACGTAA 59.342 61.111 0.00 0.00 0.00 3.18
1925 5858 4.779733 GAGGAGGGGGCGAGGTCA 62.780 72.222 0.00 0.00 0.00 4.02
1955 5888 4.772231 AAGGGCGCGAGGGAGGTA 62.772 66.667 12.10 0.00 0.00 3.08
2111 6044 1.672854 CCCCTCTATCGAACACGGCA 61.673 60.000 0.00 0.00 0.00 5.69
2117 6050 1.749033 CCAGCCCCCTCTATCGAAC 59.251 63.158 0.00 0.00 0.00 3.95
2163 6096 1.672030 CAGGCACTCCATCGCACAA 60.672 57.895 0.00 0.00 34.60 3.33
2265 6198 3.006110 ACAAAAGGTGCTGGAATCATGTG 59.994 43.478 0.00 0.00 0.00 3.21
2304 6237 2.026822 ACCACATGGAACTCTGGATGTC 60.027 50.000 4.53 0.00 38.94 3.06
2323 6256 7.599998 TCTTACAGTCCGTACAGAAATTTTACC 59.400 37.037 0.00 0.00 0.00 2.85
2330 6263 4.022589 CCACTCTTACAGTCCGTACAGAAA 60.023 45.833 0.00 0.00 30.26 2.52
2331 6264 3.504906 CCACTCTTACAGTCCGTACAGAA 59.495 47.826 0.00 0.00 30.26 3.02
2332 6265 3.079578 CCACTCTTACAGTCCGTACAGA 58.920 50.000 0.00 0.00 30.26 3.41
2333 6266 2.415625 GCCACTCTTACAGTCCGTACAG 60.416 54.545 0.00 0.00 30.26 2.74
2338 6271 2.002586 CATTGCCACTCTTACAGTCCG 58.997 52.381 0.00 0.00 30.26 4.79
2342 6275 5.423015 ACAGATACATTGCCACTCTTACAG 58.577 41.667 0.00 0.00 0.00 2.74
2357 6290 9.696572 GAATATAGGGACATAGGTACAGATACA 57.303 37.037 0.00 0.00 32.40 2.29
2360 6293 9.845214 AAAGAATATAGGGACATAGGTACAGAT 57.155 33.333 0.00 0.00 0.00 2.90
2362 6295 8.532819 GGAAAGAATATAGGGACATAGGTACAG 58.467 40.741 0.00 0.00 0.00 2.74
2363 6296 8.239478 AGGAAAGAATATAGGGACATAGGTACA 58.761 37.037 0.00 0.00 0.00 2.90
2364 6297 8.532819 CAGGAAAGAATATAGGGACATAGGTAC 58.467 40.741 0.00 0.00 0.00 3.34
2365 6298 8.461854 TCAGGAAAGAATATAGGGACATAGGTA 58.538 37.037 0.00 0.00 0.00 3.08
2366 6299 7.313731 TCAGGAAAGAATATAGGGACATAGGT 58.686 38.462 0.00 0.00 0.00 3.08
2367 6300 7.798710 TCAGGAAAGAATATAGGGACATAGG 57.201 40.000 0.00 0.00 0.00 2.57
2368 6301 8.820831 ACATCAGGAAAGAATATAGGGACATAG 58.179 37.037 0.00 0.00 0.00 2.23
2376 6309 8.915057 AATCACCACATCAGGAAAGAATATAG 57.085 34.615 0.00 0.00 0.00 1.31
2417 6350 0.749818 TCAAGGCTGCAAACGACCAA 60.750 50.000 0.50 0.00 0.00 3.67
2587 6527 1.929806 TACGCGCGACTCCAACATCT 61.930 55.000 39.36 12.01 0.00 2.90
2592 6532 2.424705 AAGGTTACGCGCGACTCCAA 62.425 55.000 39.36 17.99 0.00 3.53
2593 6533 2.807631 GAAGGTTACGCGCGACTCCA 62.808 60.000 39.36 12.74 0.00 3.86
2602 6542 8.983307 ATATTATTAGTAGCTGAAGGTTACGC 57.017 34.615 0.00 0.00 36.85 4.42
2636 6576 3.386932 TTGCCAGATTTCCTATTGCCT 57.613 42.857 0.00 0.00 0.00 4.75
2641 6581 3.700538 TGCACTTTGCCAGATTTCCTAT 58.299 40.909 0.00 0.00 44.23 2.57
2705 6645 9.420118 TGTTTTGCCTATATATCCTCACAAATT 57.580 29.630 0.00 0.00 0.00 1.82
2706 6646 8.995027 TGTTTTGCCTATATATCCTCACAAAT 57.005 30.769 0.00 0.00 0.00 2.32
2723 6663 3.765026 TGAACGTCTTCTTTGTTTTGCC 58.235 40.909 0.00 0.00 0.00 4.52
2747 6687 8.943085 AGGATGAGAGTGGATTATTAACTGATT 58.057 33.333 0.00 0.00 0.00 2.57
2817 6757 0.846693 ACCTGGTAGGGATGGATTGC 59.153 55.000 0.00 0.00 40.58 3.56
2844 6785 4.416738 GCCAGACCCCCAGCTCAC 62.417 72.222 0.00 0.00 0.00 3.51
2855 6801 3.755378 ACAAAATGATGACTGAGCCAGAC 59.245 43.478 8.91 3.94 35.18 3.51
2856 6802 4.025040 ACAAAATGATGACTGAGCCAGA 57.975 40.909 8.91 0.00 35.18 3.86
2857 6803 4.778534 AACAAAATGATGACTGAGCCAG 57.221 40.909 1.16 1.16 37.52 4.85
2858 6804 4.341806 ACAAACAAAATGATGACTGAGCCA 59.658 37.500 0.00 0.00 0.00 4.75
2859 6805 4.682860 CACAAACAAAATGATGACTGAGCC 59.317 41.667 0.00 0.00 0.00 4.70
2860 6806 5.284079 ACACAAACAAAATGATGACTGAGC 58.716 37.500 0.00 0.00 0.00 4.26
2861 6807 6.857964 GGTACACAAACAAAATGATGACTGAG 59.142 38.462 0.00 0.00 0.00 3.35
2862 6808 6.319911 TGGTACACAAACAAAATGATGACTGA 59.680 34.615 0.00 0.00 0.00 3.41
2863 6809 6.502652 TGGTACACAAACAAAATGATGACTG 58.497 36.000 0.00 0.00 0.00 3.51
2864 6810 6.707440 TGGTACACAAACAAAATGATGACT 57.293 33.333 0.00 0.00 0.00 3.41
2865 6811 6.754209 TGTTGGTACACAAACAAAATGATGAC 59.246 34.615 0.00 0.00 41.58 3.06
2866 6812 6.867550 TGTTGGTACACAAACAAAATGATGA 58.132 32.000 0.00 0.00 41.58 2.92
2867 6813 7.095691 GGATGTTGGTACACAAACAAAATGATG 60.096 37.037 6.41 0.00 41.58 3.07
2868 6814 6.928492 GGATGTTGGTACACAAACAAAATGAT 59.072 34.615 6.41 0.00 41.58 2.45
2869 6815 6.127338 TGGATGTTGGTACACAAACAAAATGA 60.127 34.615 6.41 0.00 41.58 2.57
2870 6816 6.019156 GTGGATGTTGGTACACAAACAAAATG 60.019 38.462 6.41 0.00 41.58 2.32
2871 6817 6.045955 GTGGATGTTGGTACACAAACAAAAT 58.954 36.000 6.41 0.00 41.58 1.82
2872 6818 5.186021 AGTGGATGTTGGTACACAAACAAAA 59.814 36.000 6.41 0.00 41.58 2.44
2873 6819 4.707448 AGTGGATGTTGGTACACAAACAAA 59.293 37.500 6.41 0.00 41.58 2.83
2874 6820 4.274147 AGTGGATGTTGGTACACAAACAA 58.726 39.130 6.41 0.00 41.58 2.83
2875 6821 3.880490 GAGTGGATGTTGGTACACAAACA 59.120 43.478 4.83 4.83 41.58 2.83
2876 6822 3.252458 GGAGTGGATGTTGGTACACAAAC 59.748 47.826 0.00 0.00 41.58 2.93
2877 6823 3.117851 TGGAGTGGATGTTGGTACACAAA 60.118 43.478 0.00 0.00 41.58 2.83
2878 6824 2.439880 TGGAGTGGATGTTGGTACACAA 59.560 45.455 0.00 0.00 39.29 3.33
2879 6825 2.050918 TGGAGTGGATGTTGGTACACA 58.949 47.619 0.00 0.00 39.29 3.72
2880 6826 2.851263 TGGAGTGGATGTTGGTACAC 57.149 50.000 0.00 0.00 39.29 2.90
2881 6827 4.078537 CAAATGGAGTGGATGTTGGTACA 58.921 43.478 0.00 0.00 38.95 2.90
2882 6828 3.443681 CCAAATGGAGTGGATGTTGGTAC 59.556 47.826 0.00 0.00 38.54 3.34
2883 6829 3.075283 ACCAAATGGAGTGGATGTTGGTA 59.925 43.478 6.42 0.00 45.22 3.25
2968 6914 6.039382 GTCATTTTAGAGACAACAACAAGGGT 59.961 38.462 0.00 0.00 34.93 4.34
3039 6994 9.587772 GCTAAAATCTAACATGAGACAGTAGAA 57.412 33.333 0.00 0.00 0.00 2.10
3113 7068 4.917906 ACAACTAGAAGCCATCCTCTTT 57.082 40.909 0.00 0.00 0.00 2.52
3114 7069 4.917906 AACAACTAGAAGCCATCCTCTT 57.082 40.909 0.00 0.00 0.00 2.85
3115 7070 4.287067 TCAAACAACTAGAAGCCATCCTCT 59.713 41.667 0.00 0.00 0.00 3.69
3116 7071 4.579869 TCAAACAACTAGAAGCCATCCTC 58.420 43.478 0.00 0.00 0.00 3.71
3117 7072 4.287067 TCTCAAACAACTAGAAGCCATCCT 59.713 41.667 0.00 0.00 0.00 3.24
3145 7100 8.878769 CACTTGCAAACTTTACTTTGGTAAATT 58.121 29.630 0.00 0.00 43.97 1.82
3292 7315 5.440234 AGCTCAATCACAGGTATAGTACG 57.560 43.478 0.00 0.00 0.00 3.67
3423 7453 6.694447 CAACCCTCAAACAGATCATTTGATT 58.306 36.000 19.64 12.01 43.31 2.57
3434 7464 1.915141 AGGATGCAACCCTCAAACAG 58.085 50.000 9.78 0.00 0.00 3.16
3456 7486 5.121768 GTGTGTGTTAATACAAGAGCCGAAT 59.878 40.000 6.62 0.00 35.69 3.34
3460 7490 4.069304 TGGTGTGTGTTAATACAAGAGCC 58.931 43.478 6.62 7.49 35.69 4.70


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

AutoCloner maintained by Alex Coulton.