Multiple sequence alignment - TraesCS3B01G578700

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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 TraesCS3B01G578700 chr3B 100.000 3170 0 0 1 3170 808012241 808015410 0.000000e+00 5854.0
1 TraesCS3B01G578700 chr3B 86.217 1792 115 56 831 2567 697577094 697578808 0.000000e+00 1820.0
2 TraesCS3B01G578700 chr3B 88.065 620 58 10 1 610 697573516 697574129 0.000000e+00 721.0
3 TraesCS3B01G578700 chr3B 94.470 217 10 1 2956 3170 697579014 697579230 1.820000e-87 333.0
4 TraesCS3B01G578700 chr3B 92.488 213 14 1 2620 2830 697578805 697579017 1.430000e-78 303.0
5 TraesCS3B01G578700 chr3D 84.133 1689 146 61 897 2523 600640086 600641714 0.000000e+00 1522.0
6 TraesCS3B01G578700 chr3D 84.444 585 55 25 1 577 600636737 600637293 7.730000e-151 544.0
7 TraesCS3B01G578700 chr3D 86.607 112 14 1 2786 2896 600652336 600652447 4.290000e-24 122.0
8 TraesCS3B01G578700 chr3A 91.254 686 42 11 1852 2525 730069131 730069810 0.000000e+00 918.0
9 TraesCS3B01G578700 chr3A 87.865 684 44 19 893 1557 730068075 730068738 0.000000e+00 767.0
10 TraesCS3B01G578700 chr3A 89.219 640 27 17 2535 3170 730069918 730070519 0.000000e+00 761.0
11 TraesCS3B01G578700 chr3A 81.922 614 73 23 1 611 730067280 730067858 4.750000e-133 484.0
12 TraesCS3B01G578700 chr2A 92.174 230 14 3 1124 1350 199086885 199087113 3.940000e-84 322.0
13 TraesCS3B01G578700 chr2A 88.235 187 22 0 608 794 273287894 273287708 1.140000e-54 224.0
14 TraesCS3B01G578700 chr2D 95.876 194 8 0 1154 1347 186646727 186646920 6.600000e-82 315.0
15 TraesCS3B01G578700 chr2B 95.876 194 8 0 1154 1347 239846443 239846636 6.600000e-82 315.0
16 TraesCS3B01G578700 chr2B 76.923 208 27 9 605 797 776973616 776973817 7.240000e-17 99.0
17 TraesCS3B01G578700 chr6D 80.909 330 35 17 1226 1548 202662355 202662663 5.290000e-58 235.0
18 TraesCS3B01G578700 chr6D 87.831 189 21 2 604 791 421923667 421923854 1.480000e-53 220.0
19 TraesCS3B01G578700 chr6D 94.444 72 2 2 1280 1349 297179790 297179719 3.340000e-20 110.0
20 TraesCS3B01G578700 chr7D 88.482 191 22 0 604 794 213517257 213517067 6.840000e-57 231.0
21 TraesCS3B01G578700 chr7D 89.326 178 17 2 622 797 396855990 396856167 4.120000e-54 222.0
22 TraesCS3B01G578700 chr7B 90.698 172 16 0 622 793 101681073 101681244 2.460000e-56 230.0
23 TraesCS3B01G578700 chr7B 84.236 203 25 5 601 796 74816479 74816681 1.160000e-44 191.0
24 TraesCS3B01G578700 chr7B 83.654 104 17 0 1707 1810 623221258 623221155 7.240000e-17 99.0
25 TraesCS3B01G578700 chr7B 74.648 213 34 12 598 793 643727016 643727225 3.390000e-10 76.8
26 TraesCS3B01G578700 chr5D 90.230 174 16 1 621 793 108135227 108135054 3.180000e-55 226.0
27 TraesCS3B01G578700 chr5D 92.424 66 3 2 1280 1343 140961549 140961484 3.370000e-15 93.5
28 TraesCS3B01G578700 chr5B 90.173 173 17 0 622 794 352576848 352576676 3.180000e-55 226.0
29 TraesCS3B01G578700 chr5B 76.285 253 39 9 2647 2896 599242685 599242919 7.190000e-22 115.0
30 TraesCS3B01G578700 chr1A 87.245 196 24 1 603 797 493993630 493993825 4.120000e-54 222.0
31 TraesCS3B01G578700 chr1A 87.831 189 22 1 605 793 262941245 262941432 1.480000e-53 220.0
32 TraesCS3B01G578700 chr1A 91.489 47 4 0 1764 1810 443853751 443853797 7.340000e-07 65.8
33 TraesCS3B01G578700 chr1A 91.489 47 4 0 1764 1810 497975603 497975649 7.340000e-07 65.8
34 TraesCS3B01G578700 chr1A 93.182 44 3 0 1767 1810 575419412 575419455 7.340000e-07 65.8
35 TraesCS3B01G578700 chr1A 91.489 47 4 0 1764 1810 580783465 580783511 7.340000e-07 65.8
36 TraesCS3B01G578700 chr1D 89.595 173 16 2 622 793 358825711 358825882 5.320000e-53 219.0
37 TraesCS3B01G578700 chr1D 82.993 147 18 3 1671 1810 428056030 428055884 3.320000e-25 126.0
38 TraesCS3B01G578700 chr6B 89.222 167 18 0 628 794 718624559 718624393 3.200000e-50 209.0
39 TraesCS3B01G578700 chr4B 75.984 254 38 10 2647 2896 239622692 239622458 3.340000e-20 110.0
40 TraesCS3B01G578700 chr6A 91.489 47 4 0 1764 1810 401364836 401364882 7.340000e-07 65.8
41 TraesCS3B01G578700 chr5A 91.489 47 4 0 1764 1810 133818145 133818191 7.340000e-07 65.8
42 TraesCS3B01G578700 chr4A 91.489 47 4 0 1764 1810 429488532 429488578 7.340000e-07 65.8
43 TraesCS3B01G578700 chr4A 91.489 47 4 0 1764 1810 490341356 490341402 7.340000e-07 65.8


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 TraesCS3B01G578700 chr3B 808012241 808015410 3169 False 5854.00 5854 100.0000 1 3170 1 chr3B.!!$F1 3169
1 TraesCS3B01G578700 chr3B 697573516 697579230 5714 False 794.25 1820 90.3100 1 3170 4 chr3B.!!$F2 3169
2 TraesCS3B01G578700 chr3D 600636737 600641714 4977 False 1033.00 1522 84.2885 1 2523 2 chr3D.!!$F2 2522
3 TraesCS3B01G578700 chr3A 730067280 730070519 3239 False 732.50 918 87.5650 1 3170 4 chr3A.!!$F1 3169

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
147 148 1.092348 GGCCCAGTAAGCTTTTACGG 58.908 55.0 3.20 3.95 32.87 4.02 F
1710 7527 0.583438 CATTTCCAGCGACCGCATAG 59.417 55.0 16.97 5.93 44.88 2.23 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1957 7785 0.038892 AAACCTGCAGCAAAGCGATG 60.039 50.0 8.66 0.0 37.31 3.84 R
3102 9063 0.105593 ATGTAGCGCATGAGGGACTG 59.894 55.0 11.47 0.0 41.55 3.51 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
60 61 7.147949 CCCATTTTCTAGCAATGAAGAGAACAT 60.148 37.037 13.40 0.00 34.05 2.71
70 71 2.499289 TGAAGAGAACATGAGAGCTCCC 59.501 50.000 10.93 0.00 0.00 4.30
74 75 3.704061 AGAGAACATGAGAGCTCCCTAAC 59.296 47.826 10.93 0.00 0.00 2.34
79 80 2.327325 TGAGAGCTCCCTAACCAGTT 57.673 50.000 10.93 0.00 0.00 3.16
147 148 1.092348 GGCCCAGTAAGCTTTTACGG 58.908 55.000 3.20 3.95 32.87 4.02
151 152 3.368739 GCCCAGTAAGCTTTTACGGTCTA 60.369 47.826 3.20 0.00 32.87 2.59
177 178 3.609853 TGCTTGTTTCACACTTCTCTGT 58.390 40.909 0.00 0.00 0.00 3.41
238 244 4.758165 TCTTTGTCTCCGGATAAAACAACC 59.242 41.667 3.57 0.00 33.41 3.77
240 246 4.295141 TGTCTCCGGATAAAACAACCAT 57.705 40.909 3.57 0.00 0.00 3.55
344 353 9.853555 AAATTTTTGGATTTGGAAAAAGTCAAC 57.146 25.926 0.00 0.00 35.20 3.18
488 501 4.343526 AGCACATCTAGATTGACCTAGTGG 59.656 45.833 15.13 0.19 37.84 4.00
516 529 8.024865 TGCACATCTAAGTGATTCAATCAAAAG 58.975 33.333 0.29 0.35 41.69 2.27
517 530 7.008992 GCACATCTAAGTGATTCAATCAAAAGC 59.991 37.037 0.29 0.00 41.69 3.51
563 576 3.801114 TCCACATGAATCTCCGTGTAG 57.199 47.619 0.00 0.00 34.76 2.74
564 577 2.430694 TCCACATGAATCTCCGTGTAGG 59.569 50.000 0.00 0.00 42.97 3.18
591 3172 8.011844 TCAGTGACATATAACTTAGATGTGCT 57.988 34.615 12.72 8.42 40.39 4.40
592 3173 8.478066 TCAGTGACATATAACTTAGATGTGCTT 58.522 33.333 12.72 0.00 40.39 3.91
604 3185 4.627611 AGATGTGCTTGATGTGCAATAC 57.372 40.909 0.00 0.00 42.41 1.89
605 3186 4.267536 AGATGTGCTTGATGTGCAATACT 58.732 39.130 0.00 0.00 42.41 2.12
606 3187 4.703575 AGATGTGCTTGATGTGCAATACTT 59.296 37.500 0.00 0.00 42.41 2.24
607 3188 5.882000 AGATGTGCTTGATGTGCAATACTTA 59.118 36.000 0.00 0.00 42.41 2.24
608 3189 5.550232 TGTGCTTGATGTGCAATACTTAG 57.450 39.130 0.00 0.00 42.41 2.18
609 3190 4.395854 TGTGCTTGATGTGCAATACTTAGG 59.604 41.667 0.00 0.00 42.41 2.69
610 3191 3.378112 TGCTTGATGTGCAATACTTAGGC 59.622 43.478 0.00 0.00 37.51 3.93
611 3192 3.243201 GCTTGATGTGCAATACTTAGGCC 60.243 47.826 0.00 0.00 35.59 5.19
612 3193 3.931907 TGATGTGCAATACTTAGGCCT 57.068 42.857 11.78 11.78 0.00 5.19
613 3194 4.235079 TGATGTGCAATACTTAGGCCTT 57.765 40.909 12.58 0.00 0.00 4.35
614 3195 3.947196 TGATGTGCAATACTTAGGCCTTG 59.053 43.478 12.58 7.32 0.00 3.61
615 3196 3.433306 TGTGCAATACTTAGGCCTTGT 57.567 42.857 12.58 13.69 0.00 3.16
616 3197 4.561500 TGTGCAATACTTAGGCCTTGTA 57.438 40.909 12.58 15.61 0.00 2.41
617 3198 4.258543 TGTGCAATACTTAGGCCTTGTAC 58.741 43.478 12.58 12.59 35.58 2.90
618 3199 4.258543 GTGCAATACTTAGGCCTTGTACA 58.741 43.478 12.58 6.91 35.26 2.90
619 3200 4.698304 GTGCAATACTTAGGCCTTGTACAA 59.302 41.667 12.58 8.28 35.26 2.41
620 3201 5.357032 GTGCAATACTTAGGCCTTGTACAAT 59.643 40.000 12.58 2.88 35.26 2.71
621 3202 5.356751 TGCAATACTTAGGCCTTGTACAATG 59.643 40.000 12.58 14.82 0.00 2.82
622 3203 5.221048 GCAATACTTAGGCCTTGTACAATGG 60.221 44.000 12.58 13.26 0.00 3.16
623 3204 3.366052 ACTTAGGCCTTGTACAATGGG 57.634 47.619 12.58 14.91 0.00 4.00
624 3205 2.916934 ACTTAGGCCTTGTACAATGGGA 59.083 45.455 12.58 0.00 0.00 4.37
625 3206 3.054361 ACTTAGGCCTTGTACAATGGGAG 60.054 47.826 12.58 7.99 0.00 4.30
626 3207 1.668826 AGGCCTTGTACAATGGGAGA 58.331 50.000 16.08 0.00 0.00 3.71
627 3208 2.208872 AGGCCTTGTACAATGGGAGAT 58.791 47.619 16.08 0.53 0.00 2.75
628 3209 2.092212 AGGCCTTGTACAATGGGAGATG 60.092 50.000 16.08 0.00 0.00 2.90
629 3210 1.678101 GCCTTGTACAATGGGAGATGC 59.322 52.381 16.08 3.76 0.00 3.91
630 3211 2.684927 GCCTTGTACAATGGGAGATGCT 60.685 50.000 16.08 0.00 0.00 3.79
631 3212 3.624777 CCTTGTACAATGGGAGATGCTT 58.375 45.455 9.13 0.00 0.00 3.91
632 3213 4.780815 CCTTGTACAATGGGAGATGCTTA 58.219 43.478 9.13 0.00 0.00 3.09
633 3214 4.818546 CCTTGTACAATGGGAGATGCTTAG 59.181 45.833 9.13 0.00 0.00 2.18
634 3215 5.396772 CCTTGTACAATGGGAGATGCTTAGA 60.397 44.000 9.13 0.00 0.00 2.10
635 3216 5.282055 TGTACAATGGGAGATGCTTAGAG 57.718 43.478 0.00 0.00 0.00 2.43
636 3217 4.962362 TGTACAATGGGAGATGCTTAGAGA 59.038 41.667 0.00 0.00 0.00 3.10
637 3218 5.425217 TGTACAATGGGAGATGCTTAGAGAA 59.575 40.000 0.00 0.00 0.00 2.87
638 3219 5.441718 ACAATGGGAGATGCTTAGAGAAA 57.558 39.130 0.00 0.00 0.00 2.52
639 3220 6.011122 ACAATGGGAGATGCTTAGAGAAAT 57.989 37.500 0.00 0.00 0.00 2.17
640 3221 5.826737 ACAATGGGAGATGCTTAGAGAAATG 59.173 40.000 0.00 0.00 0.00 2.32
641 3222 5.901413 ATGGGAGATGCTTAGAGAAATGA 57.099 39.130 0.00 0.00 0.00 2.57
642 3223 5.698741 TGGGAGATGCTTAGAGAAATGAA 57.301 39.130 0.00 0.00 0.00 2.57
643 3224 5.431765 TGGGAGATGCTTAGAGAAATGAAC 58.568 41.667 0.00 0.00 0.00 3.18
644 3225 4.819088 GGGAGATGCTTAGAGAAATGAACC 59.181 45.833 0.00 0.00 0.00 3.62
645 3226 5.431765 GGAGATGCTTAGAGAAATGAACCA 58.568 41.667 0.00 0.00 0.00 3.67
646 3227 5.526846 GGAGATGCTTAGAGAAATGAACCAG 59.473 44.000 0.00 0.00 0.00 4.00
647 3228 6.305272 AGATGCTTAGAGAAATGAACCAGA 57.695 37.500 0.00 0.00 0.00 3.86
648 3229 6.112058 AGATGCTTAGAGAAATGAACCAGAC 58.888 40.000 0.00 0.00 0.00 3.51
649 3230 5.489792 TGCTTAGAGAAATGAACCAGACT 57.510 39.130 0.00 0.00 0.00 3.24
650 3231 5.869579 TGCTTAGAGAAATGAACCAGACTT 58.130 37.500 0.00 0.00 0.00 3.01
651 3232 6.299141 TGCTTAGAGAAATGAACCAGACTTT 58.701 36.000 0.00 0.00 0.00 2.66
652 3233 6.428159 TGCTTAGAGAAATGAACCAGACTTTC 59.572 38.462 0.00 0.00 0.00 2.62
653 3234 6.128145 GCTTAGAGAAATGAACCAGACTTTCC 60.128 42.308 0.00 0.00 0.00 3.13
654 3235 5.574970 AGAGAAATGAACCAGACTTTCCT 57.425 39.130 0.00 0.00 0.00 3.36
655 3236 5.946486 AGAGAAATGAACCAGACTTTCCTT 58.054 37.500 0.00 0.00 0.00 3.36
656 3237 7.079451 AGAGAAATGAACCAGACTTTCCTTA 57.921 36.000 0.00 0.00 0.00 2.69
657 3238 7.518188 AGAGAAATGAACCAGACTTTCCTTAA 58.482 34.615 0.00 0.00 0.00 1.85
658 3239 7.663493 AGAGAAATGAACCAGACTTTCCTTAAG 59.337 37.037 0.00 0.00 39.87 1.85
659 3240 5.966742 AATGAACCAGACTTTCCTTAAGC 57.033 39.130 0.00 0.00 37.37 3.09
660 3241 4.431416 TGAACCAGACTTTCCTTAAGCA 57.569 40.909 0.00 0.00 37.37 3.91
661 3242 4.134563 TGAACCAGACTTTCCTTAAGCAC 58.865 43.478 0.00 0.00 37.37 4.40
662 3243 2.767505 ACCAGACTTTCCTTAAGCACG 58.232 47.619 0.00 0.00 37.37 5.34
663 3244 2.076863 CCAGACTTTCCTTAAGCACGG 58.923 52.381 0.00 0.00 37.37 4.94
664 3245 2.076863 CAGACTTTCCTTAAGCACGGG 58.923 52.381 0.00 0.00 37.37 5.28
665 3246 1.697982 AGACTTTCCTTAAGCACGGGT 59.302 47.619 0.00 0.00 37.37 5.28
666 3247 1.804748 GACTTTCCTTAAGCACGGGTG 59.195 52.381 0.00 0.00 37.37 4.61
679 3260 3.740044 CACGGGTGCTTATTTACACAG 57.260 47.619 0.00 0.00 38.57 3.66
680 3261 2.418628 CACGGGTGCTTATTTACACAGG 59.581 50.000 0.00 0.00 38.57 4.00
681 3262 2.303600 ACGGGTGCTTATTTACACAGGA 59.696 45.455 0.00 0.00 38.57 3.86
682 3263 3.054655 ACGGGTGCTTATTTACACAGGAT 60.055 43.478 0.00 0.00 38.57 3.24
683 3264 3.312421 CGGGTGCTTATTTACACAGGATG 59.688 47.826 0.00 0.00 46.00 3.51
684 3265 3.632145 GGGTGCTTATTTACACAGGATGG 59.368 47.826 0.00 0.00 43.62 3.51
685 3266 4.523083 GGTGCTTATTTACACAGGATGGA 58.477 43.478 0.00 0.00 43.62 3.41
686 3267 4.335594 GGTGCTTATTTACACAGGATGGAC 59.664 45.833 0.00 0.00 43.62 4.02
687 3268 4.034048 GTGCTTATTTACACAGGATGGACG 59.966 45.833 0.00 0.00 43.62 4.79
688 3269 3.002348 GCTTATTTACACAGGATGGACGC 59.998 47.826 0.00 0.00 43.62 5.19
689 3270 4.442706 CTTATTTACACAGGATGGACGCT 58.557 43.478 0.00 0.00 43.62 5.07
690 3271 2.851263 TTTACACAGGATGGACGCTT 57.149 45.000 0.00 0.00 43.62 4.68
691 3272 3.965379 TTTACACAGGATGGACGCTTA 57.035 42.857 0.00 0.00 43.62 3.09
692 3273 3.965379 TTACACAGGATGGACGCTTAA 57.035 42.857 0.00 0.00 43.62 1.85
693 3274 2.094762 ACACAGGATGGACGCTTAAC 57.905 50.000 0.00 0.00 43.62 2.01
694 3275 1.623811 ACACAGGATGGACGCTTAACT 59.376 47.619 0.00 0.00 43.62 2.24
695 3276 2.829720 ACACAGGATGGACGCTTAACTA 59.170 45.455 0.00 0.00 43.62 2.24
696 3277 3.259876 ACACAGGATGGACGCTTAACTAA 59.740 43.478 0.00 0.00 43.62 2.24
697 3278 3.865745 CACAGGATGGACGCTTAACTAAG 59.134 47.826 0.00 0.00 43.62 2.18
718 3299 8.952278 ACTAAGCGTCTCTCATATAGAAATAGG 58.048 37.037 0.00 0.00 32.46 2.57
719 3300 6.202516 AGCGTCTCTCATATAGAAATAGGC 57.797 41.667 0.00 0.00 32.46 3.93
720 3301 5.712446 AGCGTCTCTCATATAGAAATAGGCA 59.288 40.000 0.00 0.00 32.46 4.75
721 3302 5.802956 GCGTCTCTCATATAGAAATAGGCAC 59.197 44.000 0.00 0.00 32.46 5.01
722 3303 6.326375 CGTCTCTCATATAGAAATAGGCACC 58.674 44.000 0.00 0.00 32.46 5.01
723 3304 6.071896 CGTCTCTCATATAGAAATAGGCACCA 60.072 42.308 0.00 0.00 32.46 4.17
724 3305 7.319646 GTCTCTCATATAGAAATAGGCACCAG 58.680 42.308 0.00 0.00 32.46 4.00
725 3306 7.013220 TCTCTCATATAGAAATAGGCACCAGT 58.987 38.462 0.00 0.00 32.46 4.00
726 3307 6.997655 TCTCATATAGAAATAGGCACCAGTG 58.002 40.000 0.00 0.00 0.00 3.66
727 3308 8.269444 CTCTCATATAGAAATAGGCACCAGTGC 61.269 44.444 14.39 14.39 44.16 4.40
740 3321 3.957468 CACCAGTGCTTCAGAAAAACTC 58.043 45.455 0.00 0.00 0.00 3.01
741 3322 2.614057 ACCAGTGCTTCAGAAAAACTCG 59.386 45.455 0.00 0.00 0.00 4.18
742 3323 2.031682 CCAGTGCTTCAGAAAAACTCGG 60.032 50.000 0.00 0.00 0.00 4.63
743 3324 2.614057 CAGTGCTTCAGAAAAACTCGGT 59.386 45.455 0.00 0.00 0.00 4.69
744 3325 3.065371 CAGTGCTTCAGAAAAACTCGGTT 59.935 43.478 0.00 0.00 0.00 4.44
745 3326 3.694566 AGTGCTTCAGAAAAACTCGGTTT 59.305 39.130 0.00 0.00 37.34 3.27
746 3327 4.879545 AGTGCTTCAGAAAAACTCGGTTTA 59.120 37.500 3.01 0.00 34.43 2.01
747 3328 5.531287 AGTGCTTCAGAAAAACTCGGTTTAT 59.469 36.000 3.01 0.00 34.43 1.40
748 3329 6.039382 AGTGCTTCAGAAAAACTCGGTTTATT 59.961 34.615 3.01 1.51 34.43 1.40
749 3330 6.695713 GTGCTTCAGAAAAACTCGGTTTATTT 59.304 34.615 3.01 0.00 34.43 1.40
750 3331 7.222031 GTGCTTCAGAAAAACTCGGTTTATTTT 59.778 33.333 3.01 0.00 34.43 1.82
751 3332 7.762159 TGCTTCAGAAAAACTCGGTTTATTTTT 59.238 29.630 3.01 0.00 38.03 1.94
772 3353 7.933215 TTTTTAAAGTACCTCCCTAAGCATC 57.067 36.000 0.00 0.00 0.00 3.91
773 3354 6.886178 TTTAAAGTACCTCCCTAAGCATCT 57.114 37.500 0.00 0.00 0.00 2.90
774 3355 6.886178 TTAAAGTACCTCCCTAAGCATCTT 57.114 37.500 0.00 0.00 0.00 2.40
775 3356 5.360649 AAAGTACCTCCCTAAGCATCTTC 57.639 43.478 0.00 0.00 0.00 2.87
776 3357 3.310193 AGTACCTCCCTAAGCATCTTCC 58.690 50.000 0.00 0.00 0.00 3.46
777 3358 2.270434 ACCTCCCTAAGCATCTTCCA 57.730 50.000 0.00 0.00 0.00 3.53
778 3359 2.781667 ACCTCCCTAAGCATCTTCCAT 58.218 47.619 0.00 0.00 0.00 3.41
779 3360 3.126453 ACCTCCCTAAGCATCTTCCATT 58.874 45.455 0.00 0.00 0.00 3.16
780 3361 3.117738 ACCTCCCTAAGCATCTTCCATTG 60.118 47.826 0.00 0.00 0.00 2.82
781 3362 3.117738 CCTCCCTAAGCATCTTCCATTGT 60.118 47.826 0.00 0.00 0.00 2.71
782 3363 4.103153 CCTCCCTAAGCATCTTCCATTGTA 59.897 45.833 0.00 0.00 0.00 2.41
783 3364 5.222007 CCTCCCTAAGCATCTTCCATTGTAT 60.222 44.000 0.00 0.00 0.00 2.29
784 3365 6.013379 CCTCCCTAAGCATCTTCCATTGTATA 60.013 42.308 0.00 0.00 0.00 1.47
785 3366 7.387265 TCCCTAAGCATCTTCCATTGTATAA 57.613 36.000 0.00 0.00 0.00 0.98
786 3367 7.453393 TCCCTAAGCATCTTCCATTGTATAAG 58.547 38.462 0.00 0.00 0.00 1.73
787 3368 6.656693 CCCTAAGCATCTTCCATTGTATAAGG 59.343 42.308 0.00 0.00 0.00 2.69
788 3369 6.150140 CCTAAGCATCTTCCATTGTATAAGGC 59.850 42.308 0.00 0.00 0.00 4.35
828 3409 7.114095 AGATATCCCTTAGCAAAAACCGTTTA 58.886 34.615 0.00 0.00 0.00 2.01
829 3410 4.834357 TCCCTTAGCAAAAACCGTTTAC 57.166 40.909 0.00 0.00 0.00 2.01
890 6470 1.450312 ACTGCTGCATTCCCGCTAC 60.450 57.895 1.31 0.00 0.00 3.58
931 6573 1.526887 CATCCATACCACGGCCTGT 59.473 57.895 0.00 0.00 0.00 4.00
945 6587 1.530655 CCTGTTGGCCCGAGGTTTT 60.531 57.895 0.00 0.00 0.00 2.43
1070 6723 4.697756 CGCCGTCCACCATGGTGT 62.698 66.667 36.62 6.58 44.02 4.16
1370 7034 4.024984 CTCTCCCCCACCCTCCCA 62.025 72.222 0.00 0.00 0.00 4.37
1378 7042 4.354943 CACCCTCCCACCCCCTCT 62.355 72.222 0.00 0.00 0.00 3.69
1379 7043 4.354943 ACCCTCCCACCCCCTCTG 62.355 72.222 0.00 0.00 0.00 3.35
1418 7087 1.578023 GTTCTGATGAGTCGTTACGCG 59.422 52.381 3.53 3.53 43.01 6.01
1423 7092 0.870307 ATGAGTCGTTACGCGCATCC 60.870 55.000 5.73 0.00 41.07 3.51
1430 7099 0.787908 GTTACGCGCATCCAAACACG 60.788 55.000 5.73 0.00 0.00 4.49
1491 7163 8.575589 AGTGAATTAGTGATGCAAACAATTGTA 58.424 29.630 12.39 0.00 38.85 2.41
1523 7198 1.122227 ACATACCCATGCCCAATTGC 58.878 50.000 0.00 0.00 35.39 3.56
1564 7239 2.461110 GGCCTGGTTGCACGTATCG 61.461 63.158 0.00 0.00 0.00 2.92
1597 7370 2.183811 CTCTCTCAGCAGTGGCCG 59.816 66.667 0.00 0.00 42.56 6.13
1620 7393 2.104111 CTCACCACCAGTTACCTGTTCA 59.896 50.000 0.00 0.00 36.95 3.18
1622 7395 2.813754 CACCACCAGTTACCTGTTCATG 59.186 50.000 0.00 0.00 36.95 3.07
1623 7396 1.812571 CCACCAGTTACCTGTTCATGC 59.187 52.381 0.00 0.00 36.95 4.06
1710 7527 0.583438 CATTTCCAGCGACCGCATAG 59.417 55.000 16.97 5.93 44.88 2.23
1718 7535 1.635663 GCGACCGCATAGTGCAAACT 61.636 55.000 9.73 0.00 45.36 2.66
1737 7554 6.709643 CAAACTTAGCCTCGTTAATCTCATG 58.290 40.000 0.00 0.00 0.00 3.07
1750 7569 8.141268 TCGTTAATCTCATGTATCTGCAATGTA 58.859 33.333 0.00 0.00 0.00 2.29
1759 7578 5.118286 TGTATCTGCAATGTATGTGGTCAG 58.882 41.667 0.00 0.00 0.00 3.51
1794 7616 6.430000 AGTTTTGTACATGACTGTATTGGGTC 59.570 38.462 0.00 0.00 39.93 4.46
1798 7620 2.279741 CATGACTGTATTGGGTCGGTG 58.720 52.381 0.00 0.00 35.45 4.94
1926 7754 1.318158 GCTCAAATCCCACAGCCAGG 61.318 60.000 0.00 0.00 0.00 4.45
1932 7760 0.974010 ATCCCACAGCCAGGCATTTG 60.974 55.000 15.80 5.84 0.00 2.32
1943 7771 3.739519 GCCAGGCATTTGTTGTTAACACA 60.740 43.478 8.07 7.25 41.97 3.72
1957 7785 8.984764 TGTTGTTAACACATACTAACTGTGATC 58.015 33.333 8.07 0.00 45.44 2.92
1961 7789 8.532341 GTTAACACATACTAACTGTGATCATCG 58.468 37.037 10.17 0.00 45.44 3.84
1962 7790 5.043903 ACACATACTAACTGTGATCATCGC 58.956 41.667 10.17 0.00 45.44 4.58
1965 7793 6.256539 CACATACTAACTGTGATCATCGCTTT 59.743 38.462 0.00 0.00 45.44 3.51
2030 7860 4.141620 CCAGATCATGCCTTTACCAGTAGT 60.142 45.833 0.00 0.00 0.00 2.73
2032 7862 2.985896 TCATGCCTTTACCAGTAGTGC 58.014 47.619 0.00 0.00 0.00 4.40
2076 7910 6.143438 CGTCTGTGTTCAGTAAACGAGTTTAT 59.857 38.462 11.04 0.00 39.86 1.40
2077 7911 7.306399 CGTCTGTGTTCAGTAAACGAGTTTATT 60.306 37.037 11.04 5.04 39.86 1.40
2078 7912 8.002665 GTCTGTGTTCAGTAAACGAGTTTATTC 58.997 37.037 11.04 1.06 41.02 1.75
2125 7960 1.780309 TGTTGGGACCTGTGAGGATTT 59.220 47.619 0.00 0.00 37.67 2.17
2145 7980 6.922957 GGATTTTGTGTTATTTCACTTGCTGA 59.077 34.615 0.00 0.00 38.90 4.26
2201 8043 9.630098 CTATATAAATTGATTGGATTGCACACC 57.370 33.333 0.00 0.00 0.00 4.16
2231 8073 5.104982 TCCTCCTTGTTTGTTTTGCATTTCT 60.105 36.000 0.00 0.00 0.00 2.52
2242 8084 5.007823 TGTTTTGCATTTCTTTGAAGCCATG 59.992 36.000 0.00 0.00 0.00 3.66
2278 8122 4.641541 TGAGATGCCATATGTCTGGTTTTG 59.358 41.667 1.24 0.00 38.63 2.44
2432 8289 6.491403 GTCCCAAATGCAGATCCAGTATAATT 59.509 38.462 0.00 0.00 0.00 1.40
2542 8499 3.754323 CACGAAGGGTTGCTATTTTACCA 59.246 43.478 0.00 0.00 33.51 3.25
2595 8552 1.111277 GGGACAACAACAAACTGGCT 58.889 50.000 0.00 0.00 0.00 4.75
2597 8554 1.748493 GGACAACAACAAACTGGCTCA 59.252 47.619 0.00 0.00 0.00 4.26
2749 8710 1.895707 CGCTGGAATCTGCCATCCC 60.896 63.158 0.00 0.00 37.30 3.85
2759 8720 0.947244 CTGCCATCCCAGTTATTCGC 59.053 55.000 0.00 0.00 0.00 4.70
2785 8746 3.133003 CGATTGGAGTCTTATGTGAGGGT 59.867 47.826 0.00 0.00 0.00 4.34
2786 8747 4.698575 GATTGGAGTCTTATGTGAGGGTC 58.301 47.826 0.00 0.00 0.00 4.46
2811 8772 2.836981 ACAATGCTCTCCTGAAGCTACT 59.163 45.455 0.00 0.00 0.00 2.57
2848 8809 4.339814 CCTGACTGAGTCCTGGTATAGTTC 59.660 50.000 10.52 0.00 0.00 3.01
2864 8825 9.237187 TGGTATAGTTCATACATTTGCTGAAAA 57.763 29.630 0.00 0.00 41.26 2.29
2901 8862 1.068055 CCTGCTTGCACTGAATGGAAC 60.068 52.381 0.00 0.00 32.99 3.62
2912 8873 2.066262 TGAATGGAACGAGCGTCTTTC 58.934 47.619 0.00 0.52 0.00 2.62
2925 8886 2.839474 CGTCTTTCGCCACAAGATTTC 58.161 47.619 0.00 0.00 32.86 2.17
2926 8887 2.412847 CGTCTTTCGCCACAAGATTTCC 60.413 50.000 0.00 0.00 32.86 3.13
2927 8888 2.095212 GTCTTTCGCCACAAGATTTCCC 60.095 50.000 0.00 0.00 32.86 3.97
2928 8889 1.202348 CTTTCGCCACAAGATTTCCCC 59.798 52.381 0.00 0.00 0.00 4.81
2929 8890 0.404040 TTCGCCACAAGATTTCCCCT 59.596 50.000 0.00 0.00 0.00 4.79
3010 8971 7.577426 GCCAAGAAATTAGGAACAATCATGTCA 60.577 37.037 0.00 0.00 39.40 3.58
3011 8972 7.756722 CCAAGAAATTAGGAACAATCATGTCAC 59.243 37.037 0.00 0.00 39.40 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 2.205074 CATAATCTGTGTGAGCGGTCC 58.795 52.381 12.85 4.15 0.00 4.46
19 20 3.668141 AATGGGCCATAATCTGTGTGA 57.332 42.857 21.54 0.00 0.00 3.58
60 61 2.180276 GAACTGGTTAGGGAGCTCTCA 58.820 52.381 17.82 0.00 0.00 3.27
70 71 1.079503 GCGCTGAAGGAACTGGTTAG 58.920 55.000 0.00 0.00 40.86 2.34
74 75 0.392193 ATCAGCGCTGAAGGAACTGG 60.392 55.000 40.83 11.08 43.58 4.00
79 80 0.035317 AACACATCAGCGCTGAAGGA 59.965 50.000 40.83 21.38 43.58 3.36
320 329 8.806429 AGTTGACTTTTTCCAAATCCAAAAAT 57.194 26.923 0.00 0.00 32.45 1.82
488 501 6.845302 TGATTGAATCACTTAGATGTGCAAC 58.155 36.000 3.29 0.00 36.96 4.17
563 576 9.416794 CACATCTAAGTTATATGTCACTGATCC 57.583 37.037 10.16 0.00 31.60 3.36
564 577 8.920665 GCACATCTAAGTTATATGTCACTGATC 58.079 37.037 10.16 0.00 31.60 2.92
569 582 8.648557 TCAAGCACATCTAAGTTATATGTCAC 57.351 34.615 10.16 6.81 31.60 3.67
591 3172 4.235079 AGGCCTAAGTATTGCACATCAA 57.765 40.909 1.29 0.00 39.32 2.57
592 3173 3.931907 AGGCCTAAGTATTGCACATCA 57.068 42.857 1.29 0.00 0.00 3.07
604 3185 3.199946 TCTCCCATTGTACAAGGCCTAAG 59.800 47.826 14.66 4.24 0.00 2.18
605 3186 3.186283 TCTCCCATTGTACAAGGCCTAA 58.814 45.455 14.66 0.00 0.00 2.69
606 3187 2.840511 TCTCCCATTGTACAAGGCCTA 58.159 47.619 14.66 1.57 0.00 3.93
607 3188 1.668826 TCTCCCATTGTACAAGGCCT 58.331 50.000 14.66 0.00 0.00 5.19
608 3189 2.301346 CATCTCCCATTGTACAAGGCC 58.699 52.381 14.66 0.00 0.00 5.19
609 3190 1.678101 GCATCTCCCATTGTACAAGGC 59.322 52.381 14.66 0.00 0.00 4.35
610 3191 3.287867 AGCATCTCCCATTGTACAAGG 57.712 47.619 14.65 13.92 0.00 3.61
611 3192 5.674525 TCTAAGCATCTCCCATTGTACAAG 58.325 41.667 14.65 6.30 0.00 3.16
612 3193 5.425217 TCTCTAAGCATCTCCCATTGTACAA 59.575 40.000 11.41 11.41 0.00 2.41
613 3194 4.962362 TCTCTAAGCATCTCCCATTGTACA 59.038 41.667 0.00 0.00 0.00 2.90
614 3195 5.537300 TCTCTAAGCATCTCCCATTGTAC 57.463 43.478 0.00 0.00 0.00 2.90
615 3196 6.560003 TTTCTCTAAGCATCTCCCATTGTA 57.440 37.500 0.00 0.00 0.00 2.41
616 3197 5.441718 TTTCTCTAAGCATCTCCCATTGT 57.558 39.130 0.00 0.00 0.00 2.71
617 3198 6.060136 TCATTTCTCTAAGCATCTCCCATTG 58.940 40.000 0.00 0.00 0.00 2.82
618 3199 6.257994 TCATTTCTCTAAGCATCTCCCATT 57.742 37.500 0.00 0.00 0.00 3.16
619 3200 5.901413 TCATTTCTCTAAGCATCTCCCAT 57.099 39.130 0.00 0.00 0.00 4.00
620 3201 5.431765 GTTCATTTCTCTAAGCATCTCCCA 58.568 41.667 0.00 0.00 0.00 4.37
621 3202 4.819088 GGTTCATTTCTCTAAGCATCTCCC 59.181 45.833 0.00 0.00 0.00 4.30
622 3203 5.431765 TGGTTCATTTCTCTAAGCATCTCC 58.568 41.667 0.00 0.00 0.00 3.71
623 3204 6.257630 GTCTGGTTCATTTCTCTAAGCATCTC 59.742 42.308 0.00 0.00 30.97 2.75
624 3205 6.070309 AGTCTGGTTCATTTCTCTAAGCATCT 60.070 38.462 0.00 0.00 30.97 2.90
625 3206 6.112058 AGTCTGGTTCATTTCTCTAAGCATC 58.888 40.000 0.00 0.00 30.97 3.91
626 3207 6.059787 AGTCTGGTTCATTTCTCTAAGCAT 57.940 37.500 0.00 0.00 30.97 3.79
627 3208 5.489792 AGTCTGGTTCATTTCTCTAAGCA 57.510 39.130 0.00 0.00 0.00 3.91
628 3209 6.128145 GGAAAGTCTGGTTCATTTCTCTAAGC 60.128 42.308 0.00 0.00 33.25 3.09
629 3210 7.164803 AGGAAAGTCTGGTTCATTTCTCTAAG 58.835 38.462 0.00 0.00 33.25 2.18
630 3211 7.079451 AGGAAAGTCTGGTTCATTTCTCTAA 57.921 36.000 0.00 0.00 33.25 2.10
631 3212 6.688073 AGGAAAGTCTGGTTCATTTCTCTA 57.312 37.500 0.00 0.00 33.25 2.43
632 3213 5.574970 AGGAAAGTCTGGTTCATTTCTCT 57.425 39.130 0.00 0.00 33.25 3.10
633 3214 7.574030 GCTTAAGGAAAGTCTGGTTCATTTCTC 60.574 40.741 4.29 0.00 37.53 2.87
634 3215 6.207614 GCTTAAGGAAAGTCTGGTTCATTTCT 59.792 38.462 4.29 0.00 37.53 2.52
635 3216 6.016276 TGCTTAAGGAAAGTCTGGTTCATTTC 60.016 38.462 4.29 0.00 37.53 2.17
636 3217 5.833131 TGCTTAAGGAAAGTCTGGTTCATTT 59.167 36.000 4.29 0.00 37.53 2.32
637 3218 5.241728 GTGCTTAAGGAAAGTCTGGTTCATT 59.758 40.000 4.29 0.00 37.53 2.57
638 3219 4.762251 GTGCTTAAGGAAAGTCTGGTTCAT 59.238 41.667 4.29 0.00 37.53 2.57
639 3220 4.134563 GTGCTTAAGGAAAGTCTGGTTCA 58.865 43.478 4.29 0.00 37.53 3.18
640 3221 3.186613 CGTGCTTAAGGAAAGTCTGGTTC 59.813 47.826 4.29 0.00 37.53 3.62
641 3222 3.139077 CGTGCTTAAGGAAAGTCTGGTT 58.861 45.455 4.29 0.00 37.53 3.67
642 3223 2.550208 CCGTGCTTAAGGAAAGTCTGGT 60.550 50.000 4.29 0.00 37.53 4.00
643 3224 2.076863 CCGTGCTTAAGGAAAGTCTGG 58.923 52.381 4.29 0.00 37.53 3.86
644 3225 2.076863 CCCGTGCTTAAGGAAAGTCTG 58.923 52.381 4.29 0.00 37.53 3.51
645 3226 1.697982 ACCCGTGCTTAAGGAAAGTCT 59.302 47.619 4.29 0.00 37.53 3.24
646 3227 1.804748 CACCCGTGCTTAAGGAAAGTC 59.195 52.381 4.29 0.00 37.53 3.01
647 3228 1.892209 CACCCGTGCTTAAGGAAAGT 58.108 50.000 4.29 0.00 37.53 2.66
659 3240 2.418628 CCTGTGTAAATAAGCACCCGTG 59.581 50.000 0.00 0.00 34.94 4.94
660 3241 2.303600 TCCTGTGTAAATAAGCACCCGT 59.696 45.455 0.00 0.00 34.94 5.28
661 3242 2.980568 TCCTGTGTAAATAAGCACCCG 58.019 47.619 0.00 0.00 34.94 5.28
662 3243 3.632145 CCATCCTGTGTAAATAAGCACCC 59.368 47.826 0.00 0.00 34.94 4.61
663 3244 4.335594 GTCCATCCTGTGTAAATAAGCACC 59.664 45.833 0.00 0.00 34.94 5.01
664 3245 4.034048 CGTCCATCCTGTGTAAATAAGCAC 59.966 45.833 0.00 0.00 36.26 4.40
665 3246 4.188462 CGTCCATCCTGTGTAAATAAGCA 58.812 43.478 0.00 0.00 0.00 3.91
666 3247 3.002348 GCGTCCATCCTGTGTAAATAAGC 59.998 47.826 0.00 0.00 0.00 3.09
667 3248 4.442706 AGCGTCCATCCTGTGTAAATAAG 58.557 43.478 0.00 0.00 0.00 1.73
668 3249 4.481368 AGCGTCCATCCTGTGTAAATAA 57.519 40.909 0.00 0.00 0.00 1.40
669 3250 4.481368 AAGCGTCCATCCTGTGTAAATA 57.519 40.909 0.00 0.00 0.00 1.40
670 3251 3.350219 AAGCGTCCATCCTGTGTAAAT 57.650 42.857 0.00 0.00 0.00 1.40
671 3252 2.851263 AAGCGTCCATCCTGTGTAAA 57.149 45.000 0.00 0.00 0.00 2.01
672 3253 3.259876 AGTTAAGCGTCCATCCTGTGTAA 59.740 43.478 0.00 0.00 0.00 2.41
673 3254 2.829720 AGTTAAGCGTCCATCCTGTGTA 59.170 45.455 0.00 0.00 0.00 2.90
674 3255 1.623811 AGTTAAGCGTCCATCCTGTGT 59.376 47.619 0.00 0.00 0.00 3.72
675 3256 2.386661 AGTTAAGCGTCCATCCTGTG 57.613 50.000 0.00 0.00 0.00 3.66
676 3257 4.124851 CTTAGTTAAGCGTCCATCCTGT 57.875 45.455 0.00 0.00 0.00 4.00
687 3268 8.291032 TTCTATATGAGAGACGCTTAGTTAAGC 58.709 37.037 12.72 12.72 44.08 3.09
692 3273 8.952278 CCTATTTCTATATGAGAGACGCTTAGT 58.048 37.037 0.00 0.00 34.93 2.24
693 3274 7.913297 GCCTATTTCTATATGAGAGACGCTTAG 59.087 40.741 0.00 0.00 34.93 2.18
694 3275 7.393515 TGCCTATTTCTATATGAGAGACGCTTA 59.606 37.037 0.00 0.00 34.93 3.09
695 3276 6.209589 TGCCTATTTCTATATGAGAGACGCTT 59.790 38.462 0.00 0.00 34.93 4.68
696 3277 5.712446 TGCCTATTTCTATATGAGAGACGCT 59.288 40.000 0.00 0.00 34.93 5.07
697 3278 5.802956 GTGCCTATTTCTATATGAGAGACGC 59.197 44.000 0.00 0.00 34.93 5.19
698 3279 6.071896 TGGTGCCTATTTCTATATGAGAGACG 60.072 42.308 0.00 0.00 34.93 4.18
699 3280 7.039363 ACTGGTGCCTATTTCTATATGAGAGAC 60.039 40.741 0.00 0.00 34.93 3.36
700 3281 7.013220 ACTGGTGCCTATTTCTATATGAGAGA 58.987 38.462 0.00 0.00 34.93 3.10
701 3282 7.095910 CACTGGTGCCTATTTCTATATGAGAG 58.904 42.308 0.00 0.00 34.93 3.20
702 3283 6.997655 CACTGGTGCCTATTTCTATATGAGA 58.002 40.000 0.00 0.00 0.00 3.27
719 3300 3.546815 CGAGTTTTTCTGAAGCACTGGTG 60.547 47.826 7.95 0.00 0.00 4.17
720 3301 2.614057 CGAGTTTTTCTGAAGCACTGGT 59.386 45.455 7.95 0.00 0.00 4.00
721 3302 2.031682 CCGAGTTTTTCTGAAGCACTGG 60.032 50.000 7.95 7.03 0.00 4.00
722 3303 2.614057 ACCGAGTTTTTCTGAAGCACTG 59.386 45.455 7.95 0.00 0.00 3.66
723 3304 2.919228 ACCGAGTTTTTCTGAAGCACT 58.081 42.857 3.87 3.87 0.00 4.40
724 3305 3.692791 AACCGAGTTTTTCTGAAGCAC 57.307 42.857 0.00 0.00 0.00 4.40
725 3306 6.385649 AATAAACCGAGTTTTTCTGAAGCA 57.614 33.333 7.22 0.00 37.01 3.91
726 3307 7.694388 AAAATAAACCGAGTTTTTCTGAAGC 57.306 32.000 7.22 0.00 37.01 3.86
748 3329 7.696017 AGATGCTTAGGGAGGTACTTTAAAAA 58.304 34.615 0.00 0.00 41.55 1.94
749 3330 7.266905 AGATGCTTAGGGAGGTACTTTAAAA 57.733 36.000 0.00 0.00 41.55 1.52
750 3331 6.886178 AGATGCTTAGGGAGGTACTTTAAA 57.114 37.500 0.00 0.00 41.55 1.52
751 3332 6.126854 GGAAGATGCTTAGGGAGGTACTTTAA 60.127 42.308 0.00 0.00 41.55 1.52
752 3333 5.365895 GGAAGATGCTTAGGGAGGTACTTTA 59.634 44.000 0.00 0.00 41.55 1.85
753 3334 4.164413 GGAAGATGCTTAGGGAGGTACTTT 59.836 45.833 0.00 0.00 41.55 2.66
754 3335 3.712218 GGAAGATGCTTAGGGAGGTACTT 59.288 47.826 0.00 0.00 41.55 2.24
756 3337 3.039011 TGGAAGATGCTTAGGGAGGTAC 58.961 50.000 0.00 0.00 0.00 3.34
757 3338 3.414759 TGGAAGATGCTTAGGGAGGTA 57.585 47.619 0.00 0.00 0.00 3.08
758 3339 2.270434 TGGAAGATGCTTAGGGAGGT 57.730 50.000 0.00 0.00 0.00 3.85
759 3340 3.117738 ACAATGGAAGATGCTTAGGGAGG 60.118 47.826 0.00 0.00 0.00 4.30
760 3341 4.162040 ACAATGGAAGATGCTTAGGGAG 57.838 45.455 0.00 0.00 0.00 4.30
761 3342 5.912149 ATACAATGGAAGATGCTTAGGGA 57.088 39.130 0.00 0.00 0.00 4.20
762 3343 6.656693 CCTTATACAATGGAAGATGCTTAGGG 59.343 42.308 0.00 0.00 0.00 3.53
763 3344 6.150140 GCCTTATACAATGGAAGATGCTTAGG 59.850 42.308 0.00 0.00 0.00 2.69
764 3345 6.150140 GGCCTTATACAATGGAAGATGCTTAG 59.850 42.308 0.00 0.00 0.00 2.18
765 3346 6.003950 GGCCTTATACAATGGAAGATGCTTA 58.996 40.000 0.00 0.00 0.00 3.09
766 3347 4.829492 GGCCTTATACAATGGAAGATGCTT 59.171 41.667 0.00 0.00 0.00 3.91
767 3348 4.105377 AGGCCTTATACAATGGAAGATGCT 59.895 41.667 0.00 0.00 0.00 3.79
768 3349 4.401925 AGGCCTTATACAATGGAAGATGC 58.598 43.478 0.00 0.00 0.00 3.91
769 3350 6.656693 CCTAAGGCCTTATACAATGGAAGATG 59.343 42.308 25.37 8.46 0.00 2.90
770 3351 6.240292 CCCTAAGGCCTTATACAATGGAAGAT 60.240 42.308 25.37 0.00 0.00 2.40
771 3352 5.073144 CCCTAAGGCCTTATACAATGGAAGA 59.927 44.000 25.37 0.36 0.00 2.87
772 3353 5.316987 CCCTAAGGCCTTATACAATGGAAG 58.683 45.833 25.37 11.29 0.00 3.46
773 3354 5.319043 CCCTAAGGCCTTATACAATGGAA 57.681 43.478 25.37 1.14 0.00 3.53
774 3355 4.993705 CCCTAAGGCCTTATACAATGGA 57.006 45.455 25.37 1.93 0.00 3.41
931 6573 1.271707 CCTAGAAAAACCTCGGGCCAA 60.272 52.381 4.39 0.00 0.00 4.52
945 6587 4.038282 TGGCGAGCGAATTTATACCTAGAA 59.962 41.667 0.00 0.00 0.00 2.10
1070 6723 2.119611 TCGGAGAGGGGCTCAACA 59.880 61.111 0.00 0.00 45.81 3.33
1370 7034 2.125225 GGAAGGGACAGAGGGGGT 59.875 66.667 0.00 0.00 0.00 4.95
1374 7038 2.121948 TGATCATGGAAGGGACAGAGG 58.878 52.381 0.00 0.00 0.00 3.69
1375 7039 3.199508 ACTTGATCATGGAAGGGACAGAG 59.800 47.826 12.76 0.00 0.00 3.35
1377 7041 3.276857 CACTTGATCATGGAAGGGACAG 58.723 50.000 12.76 0.00 0.00 3.51
1378 7042 2.644299 ACACTTGATCATGGAAGGGACA 59.356 45.455 12.76 0.00 0.00 4.02
1379 7043 3.356529 ACACTTGATCATGGAAGGGAC 57.643 47.619 12.76 0.00 0.00 4.46
1418 7087 0.094730 GCTCGTACGTGTTTGGATGC 59.905 55.000 16.05 3.70 0.00 3.91
1423 7092 3.047796 ACTTACTGCTCGTACGTGTTTG 58.952 45.455 16.05 9.46 30.30 2.93
1430 7099 7.807687 TTCAAGATTTACTTACTGCTCGTAC 57.192 36.000 0.00 0.00 37.03 3.67
1491 7163 6.318396 GGCATGGGTATGTTGCAAAATAAAAT 59.682 34.615 10.98 3.07 38.12 1.82
1523 7198 2.033049 GCCAACATGCTTCTAGCTGATG 59.967 50.000 0.00 0.00 42.97 3.07
1649 7441 5.163405 GGATCTGACCAAGTGCTAACTGATA 60.163 44.000 0.00 0.00 36.51 2.15
1658 7450 2.191128 ACAAGGATCTGACCAAGTGC 57.809 50.000 0.00 0.00 0.00 4.40
1710 7527 4.392138 AGATTAACGAGGCTAAGTTTGCAC 59.608 41.667 11.39 4.08 0.00 4.57
1718 7535 7.371159 CAGATACATGAGATTAACGAGGCTAA 58.629 38.462 0.00 0.00 0.00 3.09
1737 7554 5.235186 GTCTGACCACATACATTGCAGATAC 59.765 44.000 0.00 0.00 34.00 2.24
1750 7569 5.489792 AACTGAATAGTGTCTGACCACAT 57.510 39.130 5.17 0.00 37.19 3.21
1759 7578 8.223769 CAGTCATGTACAAAACTGAATAGTGTC 58.776 37.037 25.60 4.98 41.26 3.67
1794 7616 2.490328 AACACAATTTGAGCACACCG 57.510 45.000 2.79 0.00 0.00 4.94
1798 7620 7.201617 GGACCTATACTAACACAATTTGAGCAC 60.202 40.741 2.79 0.00 0.00 4.40
1926 7754 8.901748 CAGTTAGTATGTGTTAACAACAAATGC 58.098 33.333 10.51 5.94 44.16 3.56
1932 7760 8.984764 TGATCACAGTTAGTATGTGTTAACAAC 58.015 33.333 10.51 5.30 46.49 3.32
1943 7771 5.235186 GCAAAGCGATGATCACAGTTAGTAT 59.765 40.000 0.00 0.00 0.00 2.12
1957 7785 0.038892 AAACCTGCAGCAAAGCGATG 60.039 50.000 8.66 0.00 37.31 3.84
1961 7789 1.211743 GTTCAAACCTGCAGCAAAGC 58.788 50.000 8.66 0.00 0.00 3.51
1962 7790 1.202290 ACGTTCAAACCTGCAGCAAAG 60.202 47.619 8.66 0.00 0.00 2.77
1965 7793 1.444119 GGACGTTCAAACCTGCAGCA 61.444 55.000 8.66 0.00 0.00 4.41
2030 7860 2.159393 GCTGCTAAATCCAACATTCGCA 60.159 45.455 0.00 0.00 0.00 5.10
2032 7862 2.095853 ACGCTGCTAAATCCAACATTCG 59.904 45.455 0.00 0.00 0.00 3.34
2076 7910 8.268605 ACATCTCAGTCTAGTACATACTCAGAA 58.731 37.037 0.00 0.00 37.73 3.02
2077 7911 7.797062 ACATCTCAGTCTAGTACATACTCAGA 58.203 38.462 0.00 0.00 37.73 3.27
2078 7912 9.549078 TTACATCTCAGTCTAGTACATACTCAG 57.451 37.037 0.00 0.00 37.73 3.35
2088 7922 5.958380 TCCCAACATTACATCTCAGTCTAGT 59.042 40.000 0.00 0.00 0.00 2.57
2098 7932 3.941483 CTCACAGGTCCCAACATTACATC 59.059 47.826 0.00 0.00 0.00 3.06
2125 7960 6.691754 TCTTCAGCAAGTGAAATAACACAA 57.308 33.333 0.00 0.00 44.83 3.33
2201 8043 6.128063 TGCAAAACAAACAAGGAGGAAAAATG 60.128 34.615 0.00 0.00 0.00 2.32
2231 8073 3.806380 ACAAACAATGCATGGCTTCAAA 58.194 36.364 0.00 0.00 0.00 2.69
2242 8084 3.248266 GGCATCTCAGAACAAACAATGC 58.752 45.455 0.00 0.00 37.80 3.56
2278 8122 1.339929 GGTTTCACCATCACAACCACC 59.660 52.381 0.00 0.00 38.89 4.61
2315 8160 1.834263 AGAACTTCCTTGGATCCTCCG 59.166 52.381 14.23 0.85 40.17 4.63
2351 8198 4.114794 GCAGAAGAACAACACAAAATGCT 58.885 39.130 0.00 0.00 0.00 3.79
2432 8289 5.733620 AACCGGTATCTTTCTCTGTAACA 57.266 39.130 8.00 0.00 0.00 2.41
2450 8307 2.788786 GACATGTCAAGCAACAAAACCG 59.211 45.455 21.07 0.00 31.81 4.44
2595 8552 2.516906 TCATTTGCATTGCTGGACTGA 58.483 42.857 10.49 3.70 0.00 3.41
2597 8554 4.275810 AGTATCATTTGCATTGCTGGACT 58.724 39.130 10.49 4.97 0.00 3.85
2759 8720 3.116300 CACATAAGACTCCAATCGTCGG 58.884 50.000 0.00 0.00 36.53 4.79
2785 8746 3.867600 GCTTCAGGAGAGCATTGTTCAGA 60.868 47.826 3.25 0.00 0.00 3.27
2786 8747 2.419324 GCTTCAGGAGAGCATTGTTCAG 59.581 50.000 3.25 0.00 0.00 3.02
2811 8772 2.173782 CAGTCAGGACTAGGAGGCTCTA 59.826 54.545 15.23 4.15 40.20 2.43
2864 8825 4.222336 AGCAGGAGAGCAGAATACTATGT 58.778 43.478 0.00 0.00 36.85 2.29
2872 8833 0.604780 GTGCAAGCAGGAGAGCAGAA 60.605 55.000 0.00 0.00 37.72 3.02
2912 8873 1.032114 GGAGGGGAAATCTTGTGGCG 61.032 60.000 0.00 0.00 0.00 5.69
2925 8886 1.271840 TTGGAGAACCATCGGAGGGG 61.272 60.000 13.92 5.31 46.34 4.79
2926 8887 0.618458 TTTGGAGAACCATCGGAGGG 59.382 55.000 7.23 7.23 46.34 4.30
2927 8888 2.489938 TTTTGGAGAACCATCGGAGG 57.510 50.000 0.00 0.00 46.34 4.30
2928 8889 5.368145 TGATATTTTGGAGAACCATCGGAG 58.632 41.667 0.00 0.00 46.34 4.63
2929 8890 5.366482 TGATATTTTGGAGAACCATCGGA 57.634 39.130 0.00 0.00 46.34 4.55
3010 8971 2.897969 ACACAAGGTCCATAACTCTCGT 59.102 45.455 0.00 0.00 0.00 4.18
3011 8972 3.594603 ACACAAGGTCCATAACTCTCG 57.405 47.619 0.00 0.00 0.00 4.04
3102 9063 0.105593 ATGTAGCGCATGAGGGACTG 59.894 55.000 11.47 0.00 41.55 3.51
3105 9066 1.760029 TGTAATGTAGCGCATGAGGGA 59.240 47.619 11.47 0.00 37.96 4.20


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

AutoCloner maintained by Alex Coulton.