Multiple sequence alignment - TraesCS2D01G254100

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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 TraesCS2D01G254100 chr2D 100.000 4305 0 0 1 4305 306349495 306345191 0.000000e+00 7950.0
1 TraesCS2D01G254100 chr2B 94.923 2797 79 18 1528 4305 374266140 374263388 0.000000e+00 4320.0
2 TraesCS2D01G254100 chr2B 86.514 1572 137 35 1 1529 374267752 374266213 0.000000e+00 1659.0
3 TraesCS2D01G254100 chr2A 95.033 1792 52 13 2518 4305 385451363 385449605 0.000000e+00 2782.0
4 TraesCS2D01G254100 chr2A 93.889 1391 43 9 1111 2484 385452721 385451356 0.000000e+00 2060.0
5 TraesCS2D01G254100 chr7B 86.996 223 23 6 115 334 357649511 357649292 3.320000e-61 246.0
6 TraesCS2D01G254100 chr7B 82.906 234 22 12 115 334 347996734 347996505 1.220000e-45 195.0
7 TraesCS2D01G254100 chr7D 87.156 218 21 7 120 334 310987765 310987552 1.550000e-59 241.0
8 TraesCS2D01G254100 chr4A 78.761 339 56 13 1 334 379037799 379037472 3.370000e-51 213.0
9 TraesCS2D01G254100 chr4D 78.550 331 57 11 1 327 211051034 211050714 5.640000e-49 206.0
10 TraesCS2D01G254100 chr5A 79.200 125 23 3 115 237 366718881 366718758 2.760000e-12 84.2


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 TraesCS2D01G254100 chr2D 306345191 306349495 4304 True 7950.0 7950 100.0000 1 4305 1 chr2D.!!$R1 4304
1 TraesCS2D01G254100 chr2B 374263388 374267752 4364 True 2989.5 4320 90.7185 1 4305 2 chr2B.!!$R1 4304
2 TraesCS2D01G254100 chr2A 385449605 385452721 3116 True 2421.0 2782 94.4610 1111 4305 2 chr2A.!!$R1 3194

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
883 884 0.036732 GCCCTTCAGTCACATCCACA 59.963 55.0 0.00 0.00 0.00 4.17 F
1020 1027 0.240945 CAGGTTGATGTCCGGTTTGC 59.759 55.0 0.00 0.00 0.00 3.68 F
1108 1138 0.321919 TCATGTCAGGGAAGCAGTGC 60.322 55.0 7.13 7.13 0.00 4.40 F
2073 2232 0.889186 TCTTTCGAAGGCCAACCAGC 60.889 55.0 5.01 0.00 39.06 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2060 2219 1.132453 GTATTTCGCTGGTTGGCCTTC 59.868 52.381 3.32 0.0 35.27 3.46 R
2407 2566 1.208052 GCAACCCTAGAGTCATGCAGA 59.792 52.381 0.00 0.0 34.10 4.26 R
2575 2734 1.270094 TGTTCGTCAATCAAGCGACCT 60.270 47.619 0.00 0.0 34.21 3.85 R
3330 3519 0.034186 CCAAGCCTTCAGGGTGCATA 60.034 55.000 0.00 0.0 46.73 3.14 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
48 49 1.004745 GGAGTTCAAGGCCTCCATCAA 59.995 52.381 5.23 0.00 45.47 2.57
91 92 3.169099 TCAAGACCTCCTCTTCCTCTTG 58.831 50.000 0.00 0.00 37.08 3.02
108 109 4.401925 CTCTTGTGAATTTGGGGAAGACT 58.598 43.478 0.00 0.00 0.00 3.24
109 110 4.144297 TCTTGTGAATTTGGGGAAGACTG 58.856 43.478 0.00 0.00 0.00 3.51
112 113 2.029918 GTGAATTTGGGGAAGACTGCAC 60.030 50.000 0.00 0.00 0.00 4.57
136 137 4.101741 CCAAGACCTTATCTTCCTAGTGGG 59.898 50.000 0.00 0.00 44.99 4.61
137 138 4.901785 AGACCTTATCTTCCTAGTGGGA 57.098 45.455 0.00 0.00 43.41 4.37
138 139 5.426325 AGACCTTATCTTCCTAGTGGGAT 57.574 43.478 0.00 0.00 44.66 3.85
141 142 6.100424 AGACCTTATCTTCCTAGTGGGATTTG 59.900 42.308 0.00 0.00 44.66 2.32
166 167 8.931568 TGGGAAGAACTTACCCTAATACTTATC 58.068 37.037 12.61 0.00 43.08 1.75
173 174 6.561454 ACTTACCCTAATACTTATCCCCCTTG 59.439 42.308 0.00 0.00 0.00 3.61
198 199 4.819630 TGTTTGTGGATCTTGTGGTACTTC 59.180 41.667 0.00 0.00 0.00 3.01
199 200 4.698201 TTGTGGATCTTGTGGTACTTCA 57.302 40.909 0.00 0.00 0.00 3.02
243 244 5.336213 GCATGTGTGATTGGATCTTGTCTTT 60.336 40.000 0.00 0.00 0.00 2.52
244 245 5.694231 TGTGTGATTGGATCTTGTCTTTG 57.306 39.130 0.00 0.00 0.00 2.77
258 259 1.609072 GTCTTTGAGTGCTTGTTCCCC 59.391 52.381 0.00 0.00 0.00 4.81
262 263 0.550914 TGAGTGCTTGTTCCCCTTGT 59.449 50.000 0.00 0.00 0.00 3.16
281 282 3.620488 TGTGCTCTTGTTTGTTCCTCTT 58.380 40.909 0.00 0.00 0.00 2.85
282 283 3.378112 TGTGCTCTTGTTTGTTCCTCTTG 59.622 43.478 0.00 0.00 0.00 3.02
283 284 3.627577 GTGCTCTTGTTTGTTCCTCTTGA 59.372 43.478 0.00 0.00 0.00 3.02
284 285 4.276926 GTGCTCTTGTTTGTTCCTCTTGAT 59.723 41.667 0.00 0.00 0.00 2.57
285 286 4.516698 TGCTCTTGTTTGTTCCTCTTGATC 59.483 41.667 0.00 0.00 0.00 2.92
286 287 4.083057 GCTCTTGTTTGTTCCTCTTGATCC 60.083 45.833 0.00 0.00 0.00 3.36
297 298 4.883759 TCCTCTTGATCCATCTCCAAGTA 58.116 43.478 0.00 0.00 38.61 2.24
309 310 6.158520 TCCATCTCCAAGTATGAAAGATTGGA 59.841 38.462 5.47 5.47 46.80 3.53
312 313 4.513442 TCCAAGTATGAAAGATTGGACCG 58.487 43.478 1.47 0.00 44.75 4.79
314 315 2.919228 AGTATGAAAGATTGGACCGCC 58.081 47.619 0.00 0.00 0.00 6.13
335 336 3.111038 GGCTTTGCCCTACATCGC 58.889 61.111 0.00 0.00 44.06 4.58
336 337 2.709475 GCTTTGCCCTACATCGCG 59.291 61.111 0.00 0.00 0.00 5.87
349 350 2.103042 ATCGCGGCTCTTGCTTGAC 61.103 57.895 6.13 0.00 39.59 3.18
379 380 3.726517 CAACGAGGGCGCAACCAG 61.727 66.667 10.83 3.15 42.05 4.00
391 392 4.586235 AACCAGGCCACGCTTGCT 62.586 61.111 5.01 0.00 34.24 3.91
398 399 4.081030 CCACGCTTGCTGCACGAG 62.081 66.667 17.81 13.27 43.06 4.18
447 448 3.019799 ACTCCTCATCGGTATGTGTCT 57.980 47.619 0.00 0.00 34.50 3.41
452 453 1.947456 TCATCGGTATGTGTCTCCTCG 59.053 52.381 0.00 0.00 34.50 4.63
457 458 1.822990 GGTATGTGTCTCCTCGGTGAA 59.177 52.381 0.00 0.00 0.00 3.18
469 470 3.379445 GGTGAAGAGGGGCGACGA 61.379 66.667 0.00 0.00 0.00 4.20
487 488 1.276145 GACTGCTGTTGGTCGTCGTC 61.276 60.000 0.00 0.00 0.00 4.20
488 489 1.007271 CTGCTGTTGGTCGTCGTCT 60.007 57.895 0.00 0.00 0.00 4.18
497 498 1.135731 GTCGTCGTCTGAGGAGCAG 59.864 63.158 0.00 0.00 46.31 4.24
507 508 3.322318 GAGGAGCAGAGCACCACCC 62.322 68.421 8.14 0.00 41.64 4.61
514 515 3.403558 GAGCACCACCCCCTCCTC 61.404 72.222 0.00 0.00 0.00 3.71
521 522 1.460305 CACCCCCTCCTCCATCGAT 60.460 63.158 0.00 0.00 0.00 3.59
544 545 2.386100 TGGTGGAGGATGATGGCCC 61.386 63.158 0.00 0.00 0.00 5.80
545 546 2.517919 GTGGAGGATGATGGCCCC 59.482 66.667 0.00 0.00 0.00 5.80
547 548 3.958860 GGAGGATGATGGCCCCGG 61.959 72.222 0.00 0.00 0.00 5.73
551 552 2.427753 GATGATGGCCCCGGAGAC 59.572 66.667 0.73 0.00 0.00 3.36
594 595 0.620556 GAGCTCCCTTTGGATCCACA 59.379 55.000 15.91 7.29 40.80 4.17
595 596 1.213926 GAGCTCCCTTTGGATCCACAT 59.786 52.381 15.91 0.00 40.80 3.21
599 600 1.991813 TCCCTTTGGATCCACATGTCA 59.008 47.619 15.91 0.00 35.03 3.58
602 603 2.439409 CTTTGGATCCACATGTCAGCA 58.561 47.619 15.91 0.00 0.00 4.41
607 608 0.543277 ATCCACATGTCAGCACCGAT 59.457 50.000 0.00 0.00 0.00 4.18
613 614 4.180817 CACATGTCAGCACCGATAACTAA 58.819 43.478 0.00 0.00 0.00 2.24
622 623 3.184541 CACCGATAACTAACCCTTGTCG 58.815 50.000 0.00 0.00 33.46 4.35
650 651 1.680989 TCCATCGCTTGGTCGAGGA 60.681 57.895 0.00 0.90 46.52 3.71
651 652 1.227089 CCATCGCTTGGTCGAGGAG 60.227 63.158 0.00 0.00 42.08 3.69
652 653 1.667154 CCATCGCTTGGTCGAGGAGA 61.667 60.000 0.00 0.00 42.08 3.71
653 654 0.248825 CATCGCTTGGTCGAGGAGAG 60.249 60.000 0.00 0.00 42.08 3.20
654 655 1.388065 ATCGCTTGGTCGAGGAGAGG 61.388 60.000 0.00 0.00 42.14 3.69
655 656 2.046864 CGCTTGGTCGAGGAGAGGA 61.047 63.158 0.00 0.00 0.00 3.71
656 657 1.595993 CGCTTGGTCGAGGAGAGGAA 61.596 60.000 0.00 0.00 0.00 3.36
657 658 0.608640 GCTTGGTCGAGGAGAGGAAA 59.391 55.000 0.00 0.00 0.00 3.13
658 659 1.404851 GCTTGGTCGAGGAGAGGAAAG 60.405 57.143 0.00 0.00 0.00 2.62
659 660 1.205893 CTTGGTCGAGGAGAGGAAAGG 59.794 57.143 0.00 0.00 0.00 3.11
660 661 0.614979 TGGTCGAGGAGAGGAAAGGG 60.615 60.000 0.00 0.00 0.00 3.95
661 662 0.615261 GGTCGAGGAGAGGAAAGGGT 60.615 60.000 0.00 0.00 0.00 4.34
662 663 0.818938 GTCGAGGAGAGGAAAGGGTC 59.181 60.000 0.00 0.00 0.00 4.46
663 664 0.680280 TCGAGGAGAGGAAAGGGTCG 60.680 60.000 0.00 0.00 0.00 4.79
664 665 1.668101 CGAGGAGAGGAAAGGGTCGG 61.668 65.000 0.00 0.00 0.00 4.79
665 666 1.962321 GAGGAGAGGAAAGGGTCGGC 61.962 65.000 0.00 0.00 0.00 5.54
666 667 2.184579 GAGAGGAAAGGGTCGGCG 59.815 66.667 0.00 0.00 0.00 6.46
667 668 2.283676 AGAGGAAAGGGTCGGCGA 60.284 61.111 4.99 4.99 0.00 5.54
668 669 2.125633 GAGGAAAGGGTCGGCGAC 60.126 66.667 30.72 30.72 0.00 5.19
669 670 2.603776 AGGAAAGGGTCGGCGACT 60.604 61.111 35.42 19.06 32.47 4.18
670 671 2.434359 GGAAAGGGTCGGCGACTG 60.434 66.667 35.42 0.00 32.47 3.51
671 672 2.342648 GAAAGGGTCGGCGACTGT 59.657 61.111 35.42 21.97 32.47 3.55
672 673 1.737008 GAAAGGGTCGGCGACTGTC 60.737 63.158 35.42 24.81 32.47 3.51
673 674 2.156051 GAAAGGGTCGGCGACTGTCT 62.156 60.000 35.42 26.35 32.47 3.41
674 675 2.436087 AAAGGGTCGGCGACTGTCTG 62.436 60.000 35.42 1.03 32.47 3.51
676 677 4.357947 GGTCGGCGACTGTCTGCA 62.358 66.667 35.42 0.00 32.47 4.41
677 678 2.355837 GTCGGCGACTGTCTGCAA 60.356 61.111 31.15 9.53 0.00 4.08
689 690 1.898472 TGTCTGCAAAGAGGAGAGGAG 59.102 52.381 0.00 0.00 46.04 3.69
691 692 2.765699 GTCTGCAAAGAGGAGAGGAGAT 59.234 50.000 0.00 0.00 46.04 2.75
696 697 3.642848 GCAAAGAGGAGAGGAGATGAGAT 59.357 47.826 0.00 0.00 0.00 2.75
697 698 4.832266 GCAAAGAGGAGAGGAGATGAGATA 59.168 45.833 0.00 0.00 0.00 1.98
707 708 2.757868 GGAGATGAGATACGAGGATGGG 59.242 54.545 0.00 0.00 0.00 4.00
716 717 2.590092 GAGGATGGGGTTGGTCGG 59.410 66.667 0.00 0.00 0.00 4.79
780 781 1.831343 CTTCAATGTAGCGCAATGGC 58.169 50.000 11.47 0.00 0.00 4.40
799 800 0.741915 CCAGAGTAGGCTTCTCGGTC 59.258 60.000 17.17 0.00 37.07 4.79
800 801 1.464734 CAGAGTAGGCTTCTCGGTCA 58.535 55.000 14.42 0.00 37.07 4.02
801 802 2.028130 CAGAGTAGGCTTCTCGGTCAT 58.972 52.381 14.42 0.00 37.07 3.06
803 804 1.002251 GAGTAGGCTTCTCGGTCATCG 60.002 57.143 5.34 0.00 40.90 3.84
804 805 0.595310 GTAGGCTTCTCGGTCATCGC 60.595 60.000 0.00 0.00 39.05 4.58
805 806 1.035385 TAGGCTTCTCGGTCATCGCA 61.035 55.000 0.00 0.00 39.05 5.10
818 819 4.037690 GGTCATCGCATGAACATTAAAGC 58.962 43.478 0.00 0.00 46.21 3.51
819 820 4.438608 GGTCATCGCATGAACATTAAAGCA 60.439 41.667 0.00 0.00 46.21 3.91
821 822 4.395854 TCATCGCATGAACATTAAAGCAGT 59.604 37.500 0.00 0.00 36.11 4.40
825 826 3.611113 GCATGAACATTAAAGCAGTGCTG 59.389 43.478 20.55 9.21 39.62 4.41
838 839 3.645660 TGCTGCCCGTCCATCCAA 61.646 61.111 0.00 0.00 0.00 3.53
845 846 1.089481 CCCGTCCATCCAATCACGTG 61.089 60.000 9.94 9.94 0.00 4.49
855 856 1.390123 CCAATCACGTGCGTCTAACTG 59.610 52.381 11.67 0.00 0.00 3.16
867 868 0.392461 TCTAACTGCCATTCACGCCC 60.392 55.000 0.00 0.00 0.00 6.13
870 871 1.244019 AACTGCCATTCACGCCCTTC 61.244 55.000 0.00 0.00 0.00 3.46
879 880 0.037326 TCACGCCCTTCAGTCACATC 60.037 55.000 0.00 0.00 0.00 3.06
883 884 0.036732 GCCCTTCAGTCACATCCACA 59.963 55.000 0.00 0.00 0.00 4.17
887 888 3.368843 CCCTTCAGTCACATCCACACTAG 60.369 52.174 0.00 0.00 0.00 2.57
920 921 2.865343 CATGAATGCCCAAAGAGAGC 57.135 50.000 0.00 0.00 0.00 4.09
921 922 2.376109 CATGAATGCCCAAAGAGAGCT 58.624 47.619 0.00 0.00 0.00 4.09
928 935 1.204941 GCCCAAAGAGAGCTAGACGAA 59.795 52.381 0.00 0.00 0.00 3.85
932 939 4.499183 CCAAAGAGAGCTAGACGAACAAT 58.501 43.478 0.00 0.00 0.00 2.71
992 999 3.379445 GGAGGTCCGAACGCCAGA 61.379 66.667 0.57 0.00 0.00 3.86
993 1000 2.654877 GAGGTCCGAACGCCAGAA 59.345 61.111 0.00 0.00 0.00 3.02
994 1001 1.005394 GAGGTCCGAACGCCAGAAA 60.005 57.895 0.00 0.00 0.00 2.52
995 1002 1.289800 GAGGTCCGAACGCCAGAAAC 61.290 60.000 0.00 0.00 0.00 2.78
996 1003 2.322830 GGTCCGAACGCCAGAAACC 61.323 63.158 0.00 0.00 0.00 3.27
997 1004 1.301479 GTCCGAACGCCAGAAACCT 60.301 57.895 0.00 0.00 0.00 3.50
998 1005 1.005394 TCCGAACGCCAGAAACCTC 60.005 57.895 0.00 0.00 0.00 3.85
999 1006 2.033194 CCGAACGCCAGAAACCTCC 61.033 63.158 0.00 0.00 0.00 4.30
1000 1007 2.033194 CGAACGCCAGAAACCTCCC 61.033 63.158 0.00 0.00 0.00 4.30
1001 1008 1.674651 GAACGCCAGAAACCTCCCC 60.675 63.158 0.00 0.00 0.00 4.81
1002 1009 2.406002 GAACGCCAGAAACCTCCCCA 62.406 60.000 0.00 0.00 0.00 4.96
1003 1010 2.045926 CGCCAGAAACCTCCCCAG 60.046 66.667 0.00 0.00 0.00 4.45
1004 1011 2.356667 GCCAGAAACCTCCCCAGG 59.643 66.667 0.00 0.00 46.87 4.45
1020 1027 0.240945 CAGGTTGATGTCCGGTTTGC 59.759 55.000 0.00 0.00 0.00 3.68
1023 1030 1.071642 TTGATGTCCGGTTTGCGGA 59.928 52.632 0.00 0.00 0.00 5.54
1031 1038 0.453782 CCGGTTTGCGGAAATTCGAC 60.454 55.000 22.16 5.05 0.00 4.20
1032 1039 0.453782 CGGTTTGCGGAAATTCGACC 60.454 55.000 17.98 9.27 0.00 4.79
1033 1040 0.594110 GGTTTGCGGAAATTCGACCA 59.406 50.000 5.09 0.00 0.00 4.02
1034 1041 1.401018 GGTTTGCGGAAATTCGACCAG 60.401 52.381 5.09 0.00 0.00 4.00
1037 1044 0.672401 TGCGGAAATTCGACCAGACC 60.672 55.000 0.00 0.00 0.00 3.85
1059 1089 0.458889 TAGCGGCGTTTCTATGCGTT 60.459 50.000 9.37 0.00 37.15 4.84
1078 1108 1.140312 TGGAGATGCCCTAACCATCC 58.860 55.000 0.00 0.00 39.87 3.51
1092 1122 2.040464 ATCCCGTGGCCTCCTCAT 60.040 61.111 3.32 0.00 0.00 2.90
1104 1134 0.907486 CTCCTCATGTCAGGGAAGCA 59.093 55.000 0.82 0.00 33.81 3.91
1108 1138 0.321919 TCATGTCAGGGAAGCAGTGC 60.322 55.000 7.13 7.13 0.00 4.40
1130 1160 1.246737 GCTTCAGGCCTCCAACCAAG 61.247 60.000 0.00 0.00 34.27 3.61
1310 1374 2.244669 CATCTTCGATGCTGCGCG 59.755 61.111 0.00 0.00 0.00 6.86
1323 1387 4.587189 GCGCGCTCTATTCCCCGT 62.587 66.667 26.67 0.00 0.00 5.28
1350 1414 4.993705 ACTCCAAGGTAAGATGGTTTCA 57.006 40.909 0.00 0.00 37.94 2.69
1540 1686 7.161404 TGCATAGTCAGCTAGAAAAGAAAAGA 58.839 34.615 0.00 0.00 0.00 2.52
1818 1972 3.483421 TGATTCAATGCATAGCTCAGGG 58.517 45.455 0.00 0.00 0.00 4.45
1940 2097 1.070758 AGCACTCTCCAAACATGTCGT 59.929 47.619 0.00 0.00 0.00 4.34
2044 2202 2.027007 TCCCGGGATATTGTCGTTTGTT 60.027 45.455 22.63 0.00 0.00 2.83
2056 2214 6.870971 TTGTCGTTTGTTATTTAGCCTTCT 57.129 33.333 0.00 0.00 0.00 2.85
2060 2219 6.518736 GTCGTTTGTTATTTAGCCTTCTTTCG 59.481 38.462 0.00 0.00 0.00 3.46
2073 2232 0.889186 TCTTTCGAAGGCCAACCAGC 60.889 55.000 5.01 0.00 39.06 4.85
2104 2263 6.043938 ACCTACACCTGAGGAATCACTTTAAA 59.956 38.462 4.99 0.00 37.53 1.52
2115 2274 8.706322 AGGAATCACTTTAAACCAAATGTAGT 57.294 30.769 0.00 0.00 0.00 2.73
2224 2383 8.049117 ACATTTGACATTGGTGTATCATCTACT 58.951 33.333 0.00 0.00 39.09 2.57
2265 2424 1.786937 AAAATGCAGGGTGAACCACA 58.213 45.000 1.16 0.00 43.89 4.17
2407 2566 5.297029 GCGTAGGGAAATGATAAAGAAAGCT 59.703 40.000 0.00 0.00 0.00 3.74
2575 2734 4.314522 TTGGGCCATTCATGAGTCTAAA 57.685 40.909 7.26 0.00 0.00 1.85
2687 2846 2.621338 TCTCATTGGCGTAAGAAGCAG 58.379 47.619 0.00 0.00 43.02 4.24
2797 2956 3.801307 ATATCCATCCTGAAGCATGCA 57.199 42.857 21.98 0.00 0.00 3.96
3010 3169 2.012673 GCTGAGCTGGTATTTGGAGTG 58.987 52.381 0.00 0.00 0.00 3.51
3085 3244 2.040544 ATTCGTGGGAAGGCTTGCG 61.041 57.895 12.78 8.01 35.19 4.85
3091 3250 3.880846 GGAAGGCTTGCGCGGATG 61.881 66.667 8.83 9.04 36.88 3.51
3119 3278 5.295540 GCAAAGATCTGGATTAGAGGAACAC 59.704 44.000 0.00 0.00 39.20 3.32
3148 3307 4.758688 CTTCTTTTTGTTTTGGAGTGGCT 58.241 39.130 0.00 0.00 0.00 4.75
3218 3377 6.099269 TGACTGTTTCCTTGGTTAGTAGTCTT 59.901 38.462 0.00 0.00 34.63 3.01
3311 3500 8.257306 TCATATTGCAGTTGTCTCTATGTAACA 58.743 33.333 0.00 0.00 0.00 2.41
3312 3501 6.727824 ATTGCAGTTGTCTCTATGTAACAC 57.272 37.500 0.00 0.00 0.00 3.32
3313 3502 5.468540 TGCAGTTGTCTCTATGTAACACT 57.531 39.130 0.00 0.00 0.00 3.55
3314 3503 6.584185 TGCAGTTGTCTCTATGTAACACTA 57.416 37.500 0.00 0.00 0.00 2.74
3315 3504 6.621613 TGCAGTTGTCTCTATGTAACACTAG 58.378 40.000 0.00 0.00 0.00 2.57
3316 3505 6.433093 TGCAGTTGTCTCTATGTAACACTAGA 59.567 38.462 0.00 0.00 0.00 2.43
3317 3506 7.039993 TGCAGTTGTCTCTATGTAACACTAGAA 60.040 37.037 0.00 0.00 0.00 2.10
3318 3507 7.976734 GCAGTTGTCTCTATGTAACACTAGAAT 59.023 37.037 0.00 0.00 0.00 2.40
3335 3524 9.448438 ACACTAGAATACAACTCATTTTATGCA 57.552 29.630 0.00 0.00 0.00 3.96
3336 3525 9.708222 CACTAGAATACAACTCATTTTATGCAC 57.292 33.333 0.00 0.00 0.00 4.57
3337 3526 8.893727 ACTAGAATACAACTCATTTTATGCACC 58.106 33.333 0.00 0.00 0.00 5.01
3359 3548 2.228343 CTGAAGGCTTGGCTGAGAAAAG 59.772 50.000 3.46 0.00 0.00 2.27
3390 3579 2.303175 GGGTTTGTCTTGTGCTTACCA 58.697 47.619 0.00 0.00 0.00 3.25
3394 3583 4.982295 GGTTTGTCTTGTGCTTACCATTTC 59.018 41.667 0.00 0.00 0.00 2.17
3403 3592 3.489785 GTGCTTACCATTTCGTATCCTCG 59.510 47.826 0.00 0.00 0.00 4.63
3986 4184 2.218603 CCACACACCTACAGAAACACC 58.781 52.381 0.00 0.00 0.00 4.16
3989 4187 2.504175 ACACACCTACAGAAACACCAGT 59.496 45.455 0.00 0.00 0.00 4.00
4003 4201 1.066002 CACCAGTGTTTGAGGCACAAG 59.934 52.381 0.00 0.00 39.77 3.16
4079 4277 6.806249 GCTAGATTGATGAAAGATCCTCGTAG 59.194 42.308 0.00 0.00 0.00 3.51
4085 4283 5.830457 TGATGAAAGATCCTCGTAGACAGAT 59.170 40.000 0.00 0.00 0.00 2.90
4286 4484 1.605451 AGACCCCGTGATGACGTCA 60.605 57.895 22.48 22.48 44.54 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
48 49 2.959421 ATCCCTTGGGACTCTTCTCT 57.041 50.000 11.04 0.00 0.00 3.10
91 92 2.029918 GTGCAGTCTTCCCCAAATTCAC 60.030 50.000 0.00 0.00 0.00 3.18
136 137 8.272889 AGTATTAGGGTAAGTTCTTCCCAAATC 58.727 37.037 16.38 7.67 43.31 2.17
137 138 8.171337 AGTATTAGGGTAAGTTCTTCCCAAAT 57.829 34.615 16.38 9.35 43.31 2.32
138 139 7.578458 AGTATTAGGGTAAGTTCTTCCCAAA 57.422 36.000 16.38 4.33 43.31 3.28
141 142 8.373981 GGATAAGTATTAGGGTAAGTTCTTCCC 58.626 40.741 10.13 10.13 41.36 3.97
166 167 1.618343 GATCCACAAACAACAAGGGGG 59.382 52.381 0.00 0.00 0.00 5.40
173 174 4.578928 AGTACCACAAGATCCACAAACAAC 59.421 41.667 0.00 0.00 0.00 3.32
198 199 3.119352 GCCCTCTTTAAGCAAATCCACTG 60.119 47.826 0.00 0.00 0.00 3.66
199 200 3.092301 GCCCTCTTTAAGCAAATCCACT 58.908 45.455 0.00 0.00 0.00 4.00
243 244 0.550914 ACAAGGGGAACAAGCACTCA 59.449 50.000 0.00 0.00 0.00 3.41
244 245 0.954452 CACAAGGGGAACAAGCACTC 59.046 55.000 0.00 0.00 0.00 3.51
258 259 3.629398 AGAGGAACAAACAAGAGCACAAG 59.371 43.478 0.00 0.00 0.00 3.16
262 263 3.884895 TCAAGAGGAACAAACAAGAGCA 58.115 40.909 0.00 0.00 0.00 4.26
281 282 6.813293 TCTTTCATACTTGGAGATGGATCA 57.187 37.500 0.00 0.00 0.00 2.92
282 283 7.174599 CCAATCTTTCATACTTGGAGATGGATC 59.825 40.741 0.00 0.00 40.48 3.36
283 284 7.002879 CCAATCTTTCATACTTGGAGATGGAT 58.997 38.462 0.00 0.00 40.48 3.41
284 285 6.158520 TCCAATCTTTCATACTTGGAGATGGA 59.841 38.462 0.00 0.00 41.60 3.41
285 286 6.261826 GTCCAATCTTTCATACTTGGAGATGG 59.738 42.308 3.22 0.00 45.74 3.51
286 287 6.261826 GGTCCAATCTTTCATACTTGGAGATG 59.738 42.308 3.22 0.00 45.74 2.90
297 298 2.741878 CGTAGGCGGTCCAATCTTTCAT 60.742 50.000 0.00 0.00 33.74 2.57
319 320 2.709475 CGCGATGTAGGGCAAAGC 59.291 61.111 0.00 0.00 0.00 3.51
327 328 0.807667 AAGCAAGAGCCGCGATGTAG 60.808 55.000 8.23 0.00 43.56 2.74
334 335 1.687494 CTACGTCAAGCAAGAGCCGC 61.687 60.000 0.00 0.00 43.56 6.53
335 336 1.078759 CCTACGTCAAGCAAGAGCCG 61.079 60.000 0.00 0.00 43.56 5.52
336 337 0.741221 CCCTACGTCAAGCAAGAGCC 60.741 60.000 0.00 0.00 43.56 4.70
349 350 4.770874 CGTTGCCCCACCCCTACG 62.771 72.222 0.00 0.00 0.00 3.51
420 421 5.047021 CACATACCGATGAGGAGTTCCATAT 60.047 44.000 0.28 0.00 45.00 1.78
421 422 4.280929 CACATACCGATGAGGAGTTCCATA 59.719 45.833 0.28 0.00 45.00 2.74
452 453 3.379445 TCGTCGCCCCTCTTCACC 61.379 66.667 0.00 0.00 0.00 4.02
469 470 1.299926 GACGACGACCAACAGCAGT 60.300 57.895 0.00 0.00 0.00 4.40
487 488 1.079266 GTGGTGCTCTGCTCCTCAG 60.079 63.158 11.18 0.00 42.02 3.35
488 489 2.587247 GGTGGTGCTCTGCTCCTCA 61.587 63.158 11.18 0.00 42.02 3.86
497 498 3.403558 GAGGAGGGGGTGGTGCTC 61.404 72.222 0.00 0.00 0.00 4.26
507 508 2.166829 CACTCTATCGATGGAGGAGGG 58.833 57.143 33.65 20.13 39.43 4.30
514 515 1.615883 CCTCCACCACTCTATCGATGG 59.384 57.143 8.54 5.03 39.57 3.51
521 522 2.682594 CCATCATCCTCCACCACTCTA 58.317 52.381 0.00 0.00 0.00 2.43
526 527 2.386100 GGGCCATCATCCTCCACCA 61.386 63.158 4.39 0.00 0.00 4.17
554 555 3.118454 GTCATGGCACCACGTCCG 61.118 66.667 0.00 0.00 0.00 4.79
560 561 3.716195 CTCCGGGTCATGGCACCA 61.716 66.667 0.00 0.00 38.32 4.17
562 563 4.101448 AGCTCCGGGTCATGGCAC 62.101 66.667 0.00 0.00 0.00 5.01
569 570 2.269241 CAAAGGGAGCTCCGGGTC 59.731 66.667 26.36 12.57 41.52 4.46
594 595 3.431766 GGGTTAGTTATCGGTGCTGACAT 60.432 47.826 0.00 0.00 0.00 3.06
595 596 2.093869 GGGTTAGTTATCGGTGCTGACA 60.094 50.000 0.00 0.00 0.00 3.58
599 600 2.570302 ACAAGGGTTAGTTATCGGTGCT 59.430 45.455 0.00 0.00 0.00 4.40
602 603 2.417787 GCGACAAGGGTTAGTTATCGGT 60.418 50.000 0.00 0.00 0.00 4.69
607 608 2.028748 GTCTGGCGACAAGGGTTAGTTA 60.029 50.000 0.00 0.00 42.06 2.24
613 614 1.071471 CAAGTCTGGCGACAAGGGT 59.929 57.895 0.00 0.00 42.73 4.34
622 623 0.674895 AAGCGATGGACAAGTCTGGC 60.675 55.000 0.00 0.00 0.00 4.85
650 651 2.283676 TCGCCGACCCTTTCCTCT 60.284 61.111 0.00 0.00 0.00 3.69
651 652 2.125633 GTCGCCGACCCTTTCCTC 60.126 66.667 5.81 0.00 0.00 3.71
652 653 2.603776 AGTCGCCGACCCTTTCCT 60.604 61.111 14.60 0.00 32.18 3.36
653 654 2.434359 CAGTCGCCGACCCTTTCC 60.434 66.667 14.60 0.00 32.18 3.13
654 655 1.737008 GACAGTCGCCGACCCTTTC 60.737 63.158 14.60 1.46 32.18 2.62
655 656 2.207924 AGACAGTCGCCGACCCTTT 61.208 57.895 14.60 0.00 32.18 3.11
656 657 2.600769 AGACAGTCGCCGACCCTT 60.601 61.111 14.60 0.00 32.18 3.95
657 658 3.374402 CAGACAGTCGCCGACCCT 61.374 66.667 14.60 6.11 32.18 4.34
659 660 3.858868 TTGCAGACAGTCGCCGACC 62.859 63.158 14.60 0.00 32.18 4.79
660 661 1.891060 CTTTGCAGACAGTCGCCGAC 61.891 60.000 9.71 9.71 0.00 4.79
661 662 1.664649 CTTTGCAGACAGTCGCCGA 60.665 57.895 12.81 0.00 0.00 5.54
662 663 1.621301 CTCTTTGCAGACAGTCGCCG 61.621 60.000 12.81 0.28 0.00 6.46
663 664 1.294659 CCTCTTTGCAGACAGTCGCC 61.295 60.000 12.81 1.69 0.00 5.54
664 665 0.319900 TCCTCTTTGCAGACAGTCGC 60.320 55.000 9.60 9.60 0.00 5.19
665 666 1.270826 TCTCCTCTTTGCAGACAGTCG 59.729 52.381 0.00 0.00 0.00 4.18
666 667 2.353605 CCTCTCCTCTTTGCAGACAGTC 60.354 54.545 0.00 0.00 0.00 3.51
667 668 1.622811 CCTCTCCTCTTTGCAGACAGT 59.377 52.381 0.00 0.00 0.00 3.55
668 669 1.898472 TCCTCTCCTCTTTGCAGACAG 59.102 52.381 0.00 0.00 0.00 3.51
669 670 1.898472 CTCCTCTCCTCTTTGCAGACA 59.102 52.381 0.00 0.00 0.00 3.41
670 671 2.175202 TCTCCTCTCCTCTTTGCAGAC 58.825 52.381 0.00 0.00 0.00 3.51
671 672 2.612285 TCTCCTCTCCTCTTTGCAGA 57.388 50.000 0.00 0.00 0.00 4.26
672 673 2.765135 TCATCTCCTCTCCTCTTTGCAG 59.235 50.000 0.00 0.00 0.00 4.41
673 674 2.765135 CTCATCTCCTCTCCTCTTTGCA 59.235 50.000 0.00 0.00 0.00 4.08
674 675 3.030291 TCTCATCTCCTCTCCTCTTTGC 58.970 50.000 0.00 0.00 0.00 3.68
675 676 5.048782 CGTATCTCATCTCCTCTCCTCTTTG 60.049 48.000 0.00 0.00 0.00 2.77
676 677 5.070001 CGTATCTCATCTCCTCTCCTCTTT 58.930 45.833 0.00 0.00 0.00 2.52
677 678 4.349636 TCGTATCTCATCTCCTCTCCTCTT 59.650 45.833 0.00 0.00 0.00 2.85
689 690 2.530701 ACCCCATCCTCGTATCTCATC 58.469 52.381 0.00 0.00 0.00 2.92
691 692 2.039418 CAACCCCATCCTCGTATCTCA 58.961 52.381 0.00 0.00 0.00 3.27
696 697 1.324740 CGACCAACCCCATCCTCGTA 61.325 60.000 0.00 0.00 0.00 3.43
697 698 2.656069 CGACCAACCCCATCCTCGT 61.656 63.158 0.00 0.00 0.00 4.18
707 708 4.643387 AGGCTGCACCGACCAACC 62.643 66.667 0.50 0.00 46.52 3.77
741 742 4.265056 ACGTTGGCCACCTGACCC 62.265 66.667 3.88 0.00 0.00 4.46
780 781 0.741915 GACCGAGAAGCCTACTCTGG 59.258 60.000 0.00 0.00 35.70 3.86
799 800 4.497966 CACTGCTTTAATGTTCATGCGATG 59.502 41.667 0.00 0.00 0.00 3.84
800 801 4.665212 CACTGCTTTAATGTTCATGCGAT 58.335 39.130 0.00 0.00 0.00 4.58
801 802 3.670359 GCACTGCTTTAATGTTCATGCGA 60.670 43.478 0.00 0.00 0.00 5.10
803 804 3.611113 CAGCACTGCTTTAATGTTCATGC 59.389 43.478 0.00 0.00 36.40 4.06
818 819 2.821366 GATGGACGGGCAGCACTG 60.821 66.667 0.00 0.00 0.00 3.66
819 820 4.101448 GGATGGACGGGCAGCACT 62.101 66.667 0.00 0.00 0.00 4.40
821 822 2.891941 GATTGGATGGACGGGCAGCA 62.892 60.000 0.00 0.00 0.00 4.41
825 826 2.180204 CGTGATTGGATGGACGGGC 61.180 63.158 0.00 0.00 0.00 6.13
829 830 1.019278 ACGCACGTGATTGGATGGAC 61.019 55.000 22.23 0.00 0.00 4.02
830 831 0.739462 GACGCACGTGATTGGATGGA 60.739 55.000 22.23 0.00 0.00 3.41
838 839 0.736325 GGCAGTTAGACGCACGTGAT 60.736 55.000 22.23 6.01 0.00 3.06
845 846 0.370273 CGTGAATGGCAGTTAGACGC 59.630 55.000 0.00 0.00 0.00 5.19
855 856 1.648467 GACTGAAGGGCGTGAATGGC 61.648 60.000 0.00 0.00 0.00 4.40
867 868 4.742417 CTCTAGTGTGGATGTGACTGAAG 58.258 47.826 0.00 0.00 0.00 3.02
870 871 2.733542 CGCTCTAGTGTGGATGTGACTG 60.734 54.545 0.00 0.00 0.00 3.51
879 880 0.179150 GCACTCTCGCTCTAGTGTGG 60.179 60.000 5.58 0.00 44.03 4.17
883 884 2.766400 GCCGCACTCTCGCTCTAGT 61.766 63.158 0.00 0.00 0.00 2.57
887 888 3.260483 CATGCCGCACTCTCGCTC 61.260 66.667 0.00 0.00 0.00 5.03
910 911 3.577649 TGTTCGTCTAGCTCTCTTTGG 57.422 47.619 0.00 0.00 0.00 3.28
915 916 3.378742 TCCTCATTGTTCGTCTAGCTCTC 59.621 47.826 0.00 0.00 0.00 3.20
917 918 3.129638 AGTCCTCATTGTTCGTCTAGCTC 59.870 47.826 0.00 0.00 0.00 4.09
918 919 3.093057 AGTCCTCATTGTTCGTCTAGCT 58.907 45.455 0.00 0.00 0.00 3.32
919 920 3.512033 AGTCCTCATTGTTCGTCTAGC 57.488 47.619 0.00 0.00 0.00 3.42
920 921 5.067936 ACCATAGTCCTCATTGTTCGTCTAG 59.932 44.000 0.00 0.00 0.00 2.43
921 922 4.954202 ACCATAGTCCTCATTGTTCGTCTA 59.046 41.667 0.00 0.00 0.00 2.59
928 935 2.242196 CCCCAACCATAGTCCTCATTGT 59.758 50.000 0.00 0.00 0.00 2.71
932 939 1.279025 GGCCCCAACCATAGTCCTCA 61.279 60.000 0.00 0.00 0.00 3.86
976 983 1.005394 TTTCTGGCGTTCGGACCTC 60.005 57.895 0.00 0.00 0.00 3.85
983 990 1.674651 GGGGAGGTTTCTGGCGTTC 60.675 63.158 0.00 0.00 0.00 3.95
994 1001 1.208165 GGACATCAACCTGGGGAGGT 61.208 60.000 7.50 7.50 45.55 3.85
995 1002 1.609783 GGACATCAACCTGGGGAGG 59.390 63.158 0.00 0.00 0.00 4.30
996 1003 1.221840 CGGACATCAACCTGGGGAG 59.778 63.158 0.00 0.00 0.00 4.30
997 1004 2.297895 CCGGACATCAACCTGGGGA 61.298 63.158 0.00 0.00 0.00 4.81
998 1005 2.137177 AACCGGACATCAACCTGGGG 62.137 60.000 9.46 0.00 0.00 4.96
999 1006 0.251165 AAACCGGACATCAACCTGGG 60.251 55.000 9.46 0.00 0.00 4.45
1000 1007 0.881118 CAAACCGGACATCAACCTGG 59.119 55.000 9.46 0.00 0.00 4.45
1001 1008 0.240945 GCAAACCGGACATCAACCTG 59.759 55.000 9.46 0.00 0.00 4.00
1002 1009 1.234615 CGCAAACCGGACATCAACCT 61.235 55.000 9.46 0.00 0.00 3.50
1003 1010 1.209127 CGCAAACCGGACATCAACC 59.791 57.895 9.46 0.00 0.00 3.77
1004 1011 4.838959 CGCAAACCGGACATCAAC 57.161 55.556 9.46 0.00 0.00 3.18
1020 1027 2.094762 AAGGTCTGGTCGAATTTCCG 57.905 50.000 0.00 0.00 0.00 4.30
1023 1030 3.000727 CGCTAAAGGTCTGGTCGAATTT 58.999 45.455 0.00 0.00 0.00 1.82
1031 1038 0.953960 AAACGCCGCTAAAGGTCTGG 60.954 55.000 0.00 0.00 0.00 3.86
1032 1039 0.442699 GAAACGCCGCTAAAGGTCTG 59.557 55.000 0.00 0.00 0.00 3.51
1033 1040 0.320697 AGAAACGCCGCTAAAGGTCT 59.679 50.000 0.00 0.00 0.00 3.85
1034 1041 2.000429 TAGAAACGCCGCTAAAGGTC 58.000 50.000 0.00 0.00 0.00 3.85
1037 1044 1.332028 CGCATAGAAACGCCGCTAAAG 60.332 52.381 0.00 0.00 0.00 1.85
1059 1089 1.140312 GGATGGTTAGGGCATCTCCA 58.860 55.000 0.00 0.00 36.21 3.86
1078 1108 2.187946 GACATGAGGAGGCCACGG 59.812 66.667 5.01 0.00 0.00 4.94
1092 1122 0.535780 CTTGCACTGCTTCCCTGACA 60.536 55.000 1.98 0.00 0.00 3.58
1104 1134 1.303155 GAGGCCTGAAGCTTGCACT 60.303 57.895 12.00 0.75 43.05 4.40
1108 1138 1.246737 GGTTGGAGGCCTGAAGCTTG 61.247 60.000 12.00 0.00 43.05 4.01
1130 1160 3.050275 GACCTGCCGGAAGTGTGC 61.050 66.667 9.15 0.00 0.00 4.57
1185 1249 4.124238 CCTTCGGTACACAGTTCTGAAAA 58.876 43.478 6.83 0.00 30.25 2.29
1323 1387 1.927487 TCTTACCTTGGAGTACGGCA 58.073 50.000 0.00 0.00 0.00 5.69
1350 1414 1.928868 CCCAAGGGAAATCAAGCAGT 58.071 50.000 0.00 0.00 37.50 4.40
1540 1686 0.618981 GGATTTGGGAGGTCGGAACT 59.381 55.000 0.00 0.00 0.00 3.01
1600 1746 2.022718 TTTCCACCCCCAATTCCTTG 57.977 50.000 0.00 0.00 0.00 3.61
1841 1995 4.345257 CCCATAGCTACACTGAAGGTACAT 59.655 45.833 0.00 0.00 30.31 2.29
1842 1996 3.704566 CCCATAGCTACACTGAAGGTACA 59.295 47.826 0.00 0.00 30.31 2.90
1940 2097 5.252547 TGGCTCTGCTGTAAATTATTGACA 58.747 37.500 0.00 0.00 0.00 3.58
2056 2214 2.258013 CGCTGGTTGGCCTTCGAAA 61.258 57.895 3.32 0.00 34.10 3.46
2060 2219 1.132453 GTATTTCGCTGGTTGGCCTTC 59.868 52.381 3.32 0.00 35.27 3.46
2069 2228 2.167693 TCAGGTGTAGGTATTTCGCTGG 59.832 50.000 0.00 0.00 0.00 4.85
2073 2232 4.730949 TTCCTCAGGTGTAGGTATTTCG 57.269 45.455 0.00 0.00 35.48 3.46
2104 2263 6.306987 AGGAAATCAGACAACTACATTTGGT 58.693 36.000 0.00 0.00 0.00 3.67
2115 2274 8.806429 TTCTGCATTTATAGGAAATCAGACAA 57.194 30.769 0.00 0.06 30.82 3.18
2265 2424 2.974698 GAACAGCAGTGCAGCGGT 60.975 61.111 19.20 3.31 44.71 5.68
2407 2566 1.208052 GCAACCCTAGAGTCATGCAGA 59.792 52.381 0.00 0.00 34.10 4.26
2575 2734 1.270094 TGTTCGTCAATCAAGCGACCT 60.270 47.619 0.00 0.00 34.21 3.85
2797 2956 2.366570 GCCTCCTCCACCTCCTCT 59.633 66.667 0.00 0.00 0.00 3.69
3010 3169 9.774742 CAAGAAATAGTAAAATGTTACTCTGCC 57.225 33.333 11.71 1.69 45.63 4.85
3085 3244 1.530293 CAGATCTTTGCTAGCATCCGC 59.470 52.381 20.13 7.57 38.99 5.54
3091 3250 5.011533 TCCTCTAATCCAGATCTTTGCTAGC 59.988 44.000 8.10 8.10 31.13 3.42
3119 3278 3.551485 CCAAAACAAAAAGAAGCACTCCG 59.449 43.478 0.00 0.00 0.00 4.63
3148 3307 7.603180 AATACCAGCTCAACATAGTCATCTA 57.397 36.000 0.00 0.00 0.00 1.98
3258 3418 5.978814 TCCTATCACTTGGCTTTCTCTTAC 58.021 41.667 0.00 0.00 0.00 2.34
3311 3500 8.893727 GGTGCATAAAATGAGTTGTATTCTAGT 58.106 33.333 0.00 0.00 0.00 2.57
3312 3501 8.345565 GGGTGCATAAAATGAGTTGTATTCTAG 58.654 37.037 0.00 0.00 0.00 2.43
3313 3502 8.052748 AGGGTGCATAAAATGAGTTGTATTCTA 58.947 33.333 0.00 0.00 0.00 2.10
3314 3503 6.891908 AGGGTGCATAAAATGAGTTGTATTCT 59.108 34.615 0.00 0.00 0.00 2.40
3315 3504 6.974622 CAGGGTGCATAAAATGAGTTGTATTC 59.025 38.462 0.00 0.00 0.00 1.75
3316 3505 6.663093 TCAGGGTGCATAAAATGAGTTGTATT 59.337 34.615 0.00 0.00 0.00 1.89
3317 3506 6.186957 TCAGGGTGCATAAAATGAGTTGTAT 58.813 36.000 0.00 0.00 0.00 2.29
3318 3507 5.565509 TCAGGGTGCATAAAATGAGTTGTA 58.434 37.500 0.00 0.00 0.00 2.41
3319 3508 4.406456 TCAGGGTGCATAAAATGAGTTGT 58.594 39.130 0.00 0.00 0.00 3.32
3320 3509 5.389859 TTCAGGGTGCATAAAATGAGTTG 57.610 39.130 0.00 0.00 0.00 3.16
3321 3510 4.463891 CCTTCAGGGTGCATAAAATGAGTT 59.536 41.667 0.00 0.00 0.00 3.01
3322 3511 4.019174 CCTTCAGGGTGCATAAAATGAGT 58.981 43.478 0.00 0.00 0.00 3.41
3323 3512 3.181483 GCCTTCAGGGTGCATAAAATGAG 60.181 47.826 0.00 0.00 37.43 2.90
3324 3513 2.760092 GCCTTCAGGGTGCATAAAATGA 59.240 45.455 0.00 0.00 37.43 2.57
3325 3514 2.762327 AGCCTTCAGGGTGCATAAAATG 59.238 45.455 0.00 0.00 45.50 2.32
3326 3515 3.105959 AGCCTTCAGGGTGCATAAAAT 57.894 42.857 0.00 0.00 45.50 1.82
3327 3516 2.562298 CAAGCCTTCAGGGTGCATAAAA 59.438 45.455 0.00 0.00 46.73 1.52
3328 3517 2.170166 CAAGCCTTCAGGGTGCATAAA 58.830 47.619 0.00 0.00 46.73 1.40
3329 3518 1.616725 CCAAGCCTTCAGGGTGCATAA 60.617 52.381 0.00 0.00 46.73 1.90
3330 3519 0.034186 CCAAGCCTTCAGGGTGCATA 60.034 55.000 0.00 0.00 46.73 3.14
3331 3520 1.304713 CCAAGCCTTCAGGGTGCAT 60.305 57.895 0.00 0.00 46.73 3.96
3332 3521 2.115910 CCAAGCCTTCAGGGTGCA 59.884 61.111 0.00 0.00 46.73 4.57
3333 3522 3.376918 GCCAAGCCTTCAGGGTGC 61.377 66.667 0.00 0.00 46.73 5.01
3334 3523 1.975407 CAGCCAAGCCTTCAGGGTG 60.975 63.158 0.00 0.00 46.73 4.61
3336 3525 1.378250 CTCAGCCAAGCCTTCAGGG 60.378 63.158 0.00 0.00 35.18 4.45
3337 3526 0.037303 TTCTCAGCCAAGCCTTCAGG 59.963 55.000 0.00 0.00 38.53 3.86
3359 3548 0.966179 GACAAACCCCCAACACATCC 59.034 55.000 0.00 0.00 0.00 3.51
3403 3592 5.147162 CAAAAGCAAACCTCATTCGTAGAC 58.853 41.667 0.00 0.00 34.32 2.59
3919 4117 3.698040 AGATGGCAATGTCTCATTGGTTC 59.302 43.478 19.44 7.12 0.00 3.62
3986 4184 1.027357 AGCTTGTGCCTCAAACACTG 58.973 50.000 0.00 0.00 40.80 3.66
3989 4187 2.618241 CTGTTAGCTTGTGCCTCAAACA 59.382 45.455 0.00 0.00 40.80 2.83
4003 4201 1.332997 GGATGCTCATGTGCTGTTAGC 59.667 52.381 19.60 7.28 42.82 3.09
4079 4277 1.213926 AGGCCTGGGATCAAATCTGTC 59.786 52.381 3.11 0.00 0.00 3.51
4085 4283 3.264574 CGAAAGGCCTGGGATCAAA 57.735 52.632 5.69 0.00 0.00 2.69
4167 4365 1.874345 GCTTCGGACTCGGAGAACCA 61.874 60.000 12.86 3.69 44.53 3.67


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

AutoCloner maintained by Alex Coulton.