Multiple sequence alignment - TraesCS3B01G400100

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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 TraesCS3B01G400100 chr3B 100.000 3534 0 0 1 3534 631660480 631664013 0.000000e+00 6527
1 TraesCS3B01G400100 chr3D 96.209 2664 65 11 620 3255 475121774 475124429 0.000000e+00 4327
2 TraesCS3B01G400100 chr3D 91.232 422 18 8 183 587 475121363 475121782 1.110000e-154 556
3 TraesCS3B01G400100 chr3D 92.996 257 15 2 3281 3534 475124413 475124669 4.310000e-99 372
4 TraesCS3B01G400100 chr3A 95.157 2643 81 19 620 3245 617532132 617534744 0.000000e+00 4128
5 TraesCS3B01G400100 chr3A 86.879 282 21 6 321 587 617531860 617532140 5.730000e-78 302
6 TraesCS3B01G400100 chr3A 88.166 169 10 7 124 285 617531698 617531863 3.600000e-45 193
7 TraesCS3B01G400100 chr1B 75.469 1333 252 52 1243 2540 499593382 499592090 6.580000e-162 580
8 TraesCS3B01G400100 chr1A 78.146 453 74 15 1192 1636 474293259 474292824 7.520000e-67 265
9 TraesCS3B01G400100 chr1D 77.728 449 80 12 1192 1636 375205607 375205175 1.260000e-64 257
10 TraesCS3B01G400100 chr6B 79.348 184 34 4 1401 1581 526337543 526337725 3.700000e-25 126


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 TraesCS3B01G400100 chr3B 631660480 631664013 3533 False 6527.000000 6527 100.000000 1 3534 1 chr3B.!!$F1 3533
1 TraesCS3B01G400100 chr3D 475121363 475124669 3306 False 1751.666667 4327 93.479000 183 3534 3 chr3D.!!$F1 3351
2 TraesCS3B01G400100 chr3A 617531698 617534744 3046 False 1541.000000 4128 90.067333 124 3245 3 chr3A.!!$F1 3121
3 TraesCS3B01G400100 chr1B 499592090 499593382 1292 True 580.000000 580 75.469000 1243 2540 1 chr1B.!!$R1 1297

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
616 647 0.03563 AGCCTCACCTGACATCTTGC 60.036 55.0 0.0 0.0 0.0 4.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2554 2649 1.683707 TGCTGCTGGATCTCGGAGT 60.684 57.895 4.69 0.0 0.0 3.85 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
18 19 2.155065 CAAGGGGTTGGTGAGAGGT 58.845 57.895 0.00 0.00 0.00 3.85
19 20 0.250901 CAAGGGGTTGGTGAGAGGTG 60.251 60.000 0.00 0.00 0.00 4.00
20 21 0.401395 AAGGGGTTGGTGAGAGGTGA 60.401 55.000 0.00 0.00 0.00 4.02
21 22 0.838122 AGGGGTTGGTGAGAGGTGAG 60.838 60.000 0.00 0.00 0.00 3.51
22 23 0.836400 GGGGTTGGTGAGAGGTGAGA 60.836 60.000 0.00 0.00 0.00 3.27
23 24 0.321996 GGGTTGGTGAGAGGTGAGAC 59.678 60.000 0.00 0.00 0.00 3.36
24 25 0.038159 GGTTGGTGAGAGGTGAGACG 60.038 60.000 0.00 0.00 0.00 4.18
25 26 0.959553 GTTGGTGAGAGGTGAGACGA 59.040 55.000 0.00 0.00 0.00 4.20
26 27 1.068194 GTTGGTGAGAGGTGAGACGAG 60.068 57.143 0.00 0.00 0.00 4.18
27 28 0.400594 TGGTGAGAGGTGAGACGAGA 59.599 55.000 0.00 0.00 0.00 4.04
28 29 0.806241 GGTGAGAGGTGAGACGAGAC 59.194 60.000 0.00 0.00 0.00 3.36
29 30 1.612199 GGTGAGAGGTGAGACGAGACT 60.612 57.143 0.00 0.00 0.00 3.24
30 31 2.354906 GGTGAGAGGTGAGACGAGACTA 60.355 54.545 0.00 0.00 0.00 2.59
31 32 3.537580 GTGAGAGGTGAGACGAGACTAT 58.462 50.000 0.00 0.00 0.00 2.12
32 33 3.942748 GTGAGAGGTGAGACGAGACTATT 59.057 47.826 0.00 0.00 0.00 1.73
33 34 5.117584 GTGAGAGGTGAGACGAGACTATTA 58.882 45.833 0.00 0.00 0.00 0.98
34 35 5.235616 GTGAGAGGTGAGACGAGACTATTAG 59.764 48.000 0.00 0.00 0.00 1.73
35 36 4.131596 AGAGGTGAGACGAGACTATTAGC 58.868 47.826 0.00 0.00 0.00 3.09
36 37 4.131596 GAGGTGAGACGAGACTATTAGCT 58.868 47.826 0.00 0.00 0.00 3.32
37 38 4.528920 AGGTGAGACGAGACTATTAGCTT 58.471 43.478 0.00 0.00 0.00 3.74
38 39 4.951094 AGGTGAGACGAGACTATTAGCTTT 59.049 41.667 0.00 0.00 0.00 3.51
39 40 5.419471 AGGTGAGACGAGACTATTAGCTTTT 59.581 40.000 0.00 0.00 0.00 2.27
40 41 5.744819 GGTGAGACGAGACTATTAGCTTTTC 59.255 44.000 0.00 0.00 0.00 2.29
41 42 5.744819 GTGAGACGAGACTATTAGCTTTTCC 59.255 44.000 0.00 0.00 0.00 3.13
42 43 5.652891 TGAGACGAGACTATTAGCTTTTCCT 59.347 40.000 0.00 0.00 0.00 3.36
43 44 6.153000 TGAGACGAGACTATTAGCTTTTCCTT 59.847 38.462 0.00 0.00 0.00 3.36
44 45 6.937392 AGACGAGACTATTAGCTTTTCCTTT 58.063 36.000 0.00 0.00 0.00 3.11
45 46 8.064336 AGACGAGACTATTAGCTTTTCCTTTA 57.936 34.615 0.00 0.00 0.00 1.85
46 47 8.192110 AGACGAGACTATTAGCTTTTCCTTTAG 58.808 37.037 0.00 0.00 0.00 1.85
47 48 7.266400 ACGAGACTATTAGCTTTTCCTTTAGG 58.734 38.462 0.00 0.00 0.00 2.69
48 49 7.123847 ACGAGACTATTAGCTTTTCCTTTAGGA 59.876 37.037 0.00 0.00 43.73 2.94
49 50 7.650104 CGAGACTATTAGCTTTTCCTTTAGGAG 59.350 40.741 0.00 0.00 46.36 3.69
50 51 8.382058 AGACTATTAGCTTTTCCTTTAGGAGT 57.618 34.615 0.00 0.00 46.36 3.85
51 52 9.490083 AGACTATTAGCTTTTCCTTTAGGAGTA 57.510 33.333 0.00 0.00 46.36 2.59
52 53 9.752961 GACTATTAGCTTTTCCTTTAGGAGTAG 57.247 37.037 0.00 2.41 46.36 2.57
53 54 9.490083 ACTATTAGCTTTTCCTTTAGGAGTAGA 57.510 33.333 0.00 0.00 46.36 2.59
54 55 9.974980 CTATTAGCTTTTCCTTTAGGAGTAGAG 57.025 37.037 0.00 5.10 46.36 2.43
55 56 8.611051 ATTAGCTTTTCCTTTAGGAGTAGAGA 57.389 34.615 0.00 0.00 46.36 3.10
56 57 8.611051 TTAGCTTTTCCTTTAGGAGTAGAGAT 57.389 34.615 0.00 5.24 46.36 2.75
57 58 7.503492 AGCTTTTCCTTTAGGAGTAGAGATT 57.497 36.000 11.32 0.00 46.36 2.40
58 59 8.611051 AGCTTTTCCTTTAGGAGTAGAGATTA 57.389 34.615 11.32 0.00 46.36 1.75
59 60 9.219715 AGCTTTTCCTTTAGGAGTAGAGATTAT 57.780 33.333 11.32 0.00 46.36 1.28
60 61 9.839817 GCTTTTCCTTTAGGAGTAGAGATTATT 57.160 33.333 11.32 0.00 46.36 1.40
65 66 9.488762 TCCTTTAGGAGTAGAGATTATTTGACA 57.511 33.333 0.00 0.00 39.78 3.58
71 72 8.932610 AGGAGTAGAGATTATTTGACATCATGT 58.067 33.333 0.00 0.00 0.00 3.21
85 86 3.458872 CATGTCGGCCATGTGTAGT 57.541 52.632 2.24 0.00 44.96 2.73
86 87 2.595124 CATGTCGGCCATGTGTAGTA 57.405 50.000 2.24 0.00 44.96 1.82
87 88 3.111853 CATGTCGGCCATGTGTAGTAT 57.888 47.619 2.24 0.00 44.96 2.12
88 89 4.251543 CATGTCGGCCATGTGTAGTATA 57.748 45.455 2.24 0.00 44.96 1.47
89 90 3.720949 TGTCGGCCATGTGTAGTATAC 57.279 47.619 2.24 0.00 43.42 1.47
90 91 3.293337 TGTCGGCCATGTGTAGTATACT 58.707 45.455 10.87 10.87 43.54 2.12
91 92 3.702548 TGTCGGCCATGTGTAGTATACTT 59.297 43.478 11.40 0.00 43.54 2.24
92 93 4.160814 TGTCGGCCATGTGTAGTATACTTT 59.839 41.667 11.40 0.00 43.54 2.66
93 94 4.506654 GTCGGCCATGTGTAGTATACTTTG 59.493 45.833 11.40 2.21 43.54 2.77
94 95 3.247648 CGGCCATGTGTAGTATACTTTGC 59.752 47.826 11.40 0.00 43.54 3.68
95 96 4.451900 GGCCATGTGTAGTATACTTTGCT 58.548 43.478 11.40 0.00 43.54 3.91
96 97 4.881850 GGCCATGTGTAGTATACTTTGCTT 59.118 41.667 11.40 0.00 43.54 3.91
97 98 5.357032 GGCCATGTGTAGTATACTTTGCTTT 59.643 40.000 11.40 0.00 43.54 3.51
98 99 6.127730 GGCCATGTGTAGTATACTTTGCTTTT 60.128 38.462 11.40 0.00 43.54 2.27
99 100 7.312899 GCCATGTGTAGTATACTTTGCTTTTT 58.687 34.615 11.40 0.00 43.54 1.94
122 123 8.915871 TTTTAGTATACACGTGATACTGAACC 57.084 34.615 30.22 12.75 39.80 3.62
142 143 9.248291 CTGAACCAATATACAATACCAAAATGC 57.752 33.333 0.00 0.00 0.00 3.56
180 186 4.785346 AATAAGATGTCACTGCTCCCAT 57.215 40.909 0.00 0.00 0.00 4.00
194 200 2.093235 GCTCCCATCTAACTGCAGTCTT 60.093 50.000 21.95 8.21 0.00 3.01
241 248 9.705290 ATTTCATGTTACAAAGGTTGATAAACC 57.295 29.630 3.39 3.39 43.15 3.27
242 249 7.825331 TCATGTTACAAAGGTTGATAAACCA 57.175 32.000 14.82 0.00 45.23 3.67
243 250 8.415950 TCATGTTACAAAGGTTGATAAACCAT 57.584 30.769 14.82 0.00 45.23 3.55
245 252 6.987386 TGTTACAAAGGTTGATAAACCATGG 58.013 36.000 14.82 11.19 45.23 3.66
246 253 6.778069 TGTTACAAAGGTTGATAAACCATGGA 59.222 34.615 21.47 6.68 45.23 3.41
278 287 6.742718 CGATTGCGAGAAATTTCAGTTACATT 59.257 34.615 19.99 7.21 40.82 2.71
535 564 2.019951 CCCACACTACGCACACGAC 61.020 63.158 0.00 0.00 43.93 4.34
536 565 2.362047 CCACACTACGCACACGACG 61.362 63.158 0.00 0.00 43.93 5.12
537 566 1.369568 CACACTACGCACACGACGA 60.370 57.895 0.00 0.00 43.93 4.20
542 573 1.057636 CTACGCACACGACGAAACAT 58.942 50.000 0.00 0.00 43.93 2.71
578 609 1.911766 AACACCCCATCGTCTCCGT 60.912 57.895 0.00 0.00 35.01 4.69
579 610 1.885163 AACACCCCATCGTCTCCGTC 61.885 60.000 0.00 0.00 35.01 4.79
580 611 2.052690 CACCCCATCGTCTCCGTCT 61.053 63.158 0.00 0.00 35.01 4.18
581 612 1.753463 ACCCCATCGTCTCCGTCTC 60.753 63.158 0.00 0.00 35.01 3.36
582 613 1.454111 CCCCATCGTCTCCGTCTCT 60.454 63.158 0.00 0.00 35.01 3.10
583 614 0.179026 CCCCATCGTCTCCGTCTCTA 60.179 60.000 0.00 0.00 35.01 2.43
584 615 1.545875 CCCCATCGTCTCCGTCTCTAT 60.546 57.143 0.00 0.00 35.01 1.98
585 616 2.231529 CCCATCGTCTCCGTCTCTATT 58.768 52.381 0.00 0.00 35.01 1.73
586 617 2.226912 CCCATCGTCTCCGTCTCTATTC 59.773 54.545 0.00 0.00 35.01 1.75
587 618 2.879026 CCATCGTCTCCGTCTCTATTCA 59.121 50.000 0.00 0.00 35.01 2.57
588 619 3.504134 CCATCGTCTCCGTCTCTATTCAT 59.496 47.826 0.00 0.00 35.01 2.57
589 620 4.022762 CCATCGTCTCCGTCTCTATTCATT 60.023 45.833 0.00 0.00 35.01 2.57
590 621 4.815040 TCGTCTCCGTCTCTATTCATTC 57.185 45.455 0.00 0.00 35.01 2.67
591 622 4.196971 TCGTCTCCGTCTCTATTCATTCA 58.803 43.478 0.00 0.00 35.01 2.57
592 623 4.035324 TCGTCTCCGTCTCTATTCATTCAC 59.965 45.833 0.00 0.00 35.01 3.18
593 624 4.035792 CGTCTCCGTCTCTATTCATTCACT 59.964 45.833 0.00 0.00 0.00 3.41
594 625 5.449314 CGTCTCCGTCTCTATTCATTCACTT 60.449 44.000 0.00 0.00 0.00 3.16
595 626 5.746245 GTCTCCGTCTCTATTCATTCACTTG 59.254 44.000 0.00 0.00 0.00 3.16
596 627 5.011090 TCCGTCTCTATTCATTCACTTGG 57.989 43.478 0.00 0.00 0.00 3.61
597 628 4.709886 TCCGTCTCTATTCATTCACTTGGA 59.290 41.667 0.00 0.00 0.00 3.53
598 629 5.046529 CCGTCTCTATTCATTCACTTGGAG 58.953 45.833 0.00 0.00 0.00 3.86
599 630 4.505922 CGTCTCTATTCATTCACTTGGAGC 59.494 45.833 0.00 0.00 0.00 4.70
600 631 4.813697 GTCTCTATTCATTCACTTGGAGCC 59.186 45.833 0.00 0.00 0.00 4.70
601 632 4.718774 TCTCTATTCATTCACTTGGAGCCT 59.281 41.667 0.00 0.00 0.00 4.58
602 633 5.028549 TCTATTCATTCACTTGGAGCCTC 57.971 43.478 0.00 0.00 0.00 4.70
603 634 3.726557 ATTCATTCACTTGGAGCCTCA 57.273 42.857 0.00 0.00 0.00 3.86
604 635 2.479566 TCATTCACTTGGAGCCTCAC 57.520 50.000 0.00 0.00 0.00 3.51
605 636 1.003580 TCATTCACTTGGAGCCTCACC 59.996 52.381 0.00 0.00 0.00 4.02
606 637 1.004044 CATTCACTTGGAGCCTCACCT 59.996 52.381 0.00 0.00 0.00 4.00
607 638 0.397941 TTCACTTGGAGCCTCACCTG 59.602 55.000 0.00 0.00 0.00 4.00
608 639 0.471780 TCACTTGGAGCCTCACCTGA 60.472 55.000 0.00 0.00 0.00 3.86
609 640 0.321122 CACTTGGAGCCTCACCTGAC 60.321 60.000 0.00 0.00 0.00 3.51
610 641 0.764369 ACTTGGAGCCTCACCTGACA 60.764 55.000 0.00 0.00 0.00 3.58
611 642 0.617413 CTTGGAGCCTCACCTGACAT 59.383 55.000 0.00 0.00 0.00 3.06
612 643 0.615331 TTGGAGCCTCACCTGACATC 59.385 55.000 0.00 0.00 0.00 3.06
613 644 0.252421 TGGAGCCTCACCTGACATCT 60.252 55.000 0.00 0.00 0.00 2.90
614 645 0.908198 GGAGCCTCACCTGACATCTT 59.092 55.000 0.00 0.00 0.00 2.40
615 646 1.406614 GGAGCCTCACCTGACATCTTG 60.407 57.143 0.00 0.00 0.00 3.02
616 647 0.035630 AGCCTCACCTGACATCTTGC 60.036 55.000 0.00 0.00 0.00 4.01
617 648 1.364626 GCCTCACCTGACATCTTGCG 61.365 60.000 0.00 0.00 0.00 4.85
618 649 1.364626 CCTCACCTGACATCTTGCGC 61.365 60.000 0.00 0.00 0.00 6.09
659 690 2.092968 TCTTCCATCCTCGACCCATTTG 60.093 50.000 0.00 0.00 0.00 2.32
784 815 2.479049 CCGACTCACCGTAATACCAGTG 60.479 54.545 2.77 2.77 0.00 3.66
785 816 2.537401 GACTCACCGTAATACCAGTGC 58.463 52.381 4.01 0.00 0.00 4.40
786 817 2.165845 GACTCACCGTAATACCAGTGCT 59.834 50.000 4.01 0.00 0.00 4.40
787 818 2.165845 ACTCACCGTAATACCAGTGCTC 59.834 50.000 4.01 0.00 0.00 4.26
788 819 1.133598 TCACCGTAATACCAGTGCTCG 59.866 52.381 4.01 0.00 0.00 5.03
789 820 1.133598 CACCGTAATACCAGTGCTCGA 59.866 52.381 0.00 0.00 0.00 4.04
790 821 2.029623 ACCGTAATACCAGTGCTCGAT 58.970 47.619 0.00 0.00 0.00 3.59
791 822 2.034305 ACCGTAATACCAGTGCTCGATC 59.966 50.000 0.00 0.00 0.00 3.69
792 823 2.307929 CGTAATACCAGTGCTCGATCG 58.692 52.381 9.36 9.36 0.00 3.69
793 824 2.052157 GTAATACCAGTGCTCGATCGC 58.948 52.381 11.09 0.00 0.00 4.58
794 825 0.747255 AATACCAGTGCTCGATCGCT 59.253 50.000 11.09 0.00 0.00 4.93
795 826 0.312416 ATACCAGTGCTCGATCGCTC 59.688 55.000 11.09 4.82 0.00 5.03
884 931 1.071814 CCGTTCGTTTTCCCTCCCA 59.928 57.895 0.00 0.00 0.00 4.37
915 962 2.172293 CTCCCTTGCATTTAGCCTCTCT 59.828 50.000 0.00 0.00 44.83 3.10
1040 1093 2.498726 CTCCTCTTCTCTGGGCGC 59.501 66.667 0.00 0.00 0.00 6.53
1063 1116 1.620739 ATGCATGAGGCTGTCGAGGT 61.621 55.000 0.00 0.00 45.15 3.85
1067 1120 3.462678 GAGGCTGTCGAGGTCCCC 61.463 72.222 0.00 0.00 0.00 4.81
1221 1274 1.832167 GAGGATCCAGGAGCTCGCT 60.832 63.158 15.82 3.11 0.00 4.93
1752 1817 1.154016 CGATCAGCGGTTCGACAGT 60.154 57.895 11.24 0.00 38.25 3.55
2216 2299 2.025727 CGATCACGACCGGTAGGC 59.974 66.667 19.45 0.07 42.76 3.93
2293 2384 2.281276 GACGGGCGGTGGTTTCTT 60.281 61.111 1.11 0.00 0.00 2.52
2619 2714 9.837525 GAACACGAAGAAAAAGAGTATAGTAGA 57.162 33.333 0.00 0.00 0.00 2.59
2675 2771 2.156343 GAAGTCCACGCACTTCTCTT 57.844 50.000 12.87 0.00 46.11 2.85
2754 2851 2.675844 GCTTATACATTCACACGGCACA 59.324 45.455 0.00 0.00 0.00 4.57
2755 2852 3.242413 GCTTATACATTCACACGGCACAG 60.242 47.826 0.00 0.00 0.00 3.66
2798 2898 0.323629 TGGCTTGTTTACGGGGAGAG 59.676 55.000 0.00 0.00 0.00 3.20
2800 2900 0.036294 GCTTGTTTACGGGGAGAGCT 60.036 55.000 0.00 0.00 0.00 4.09
3063 3181 3.414700 GCTTGCGGAGTCACGGTG 61.415 66.667 0.56 0.56 0.00 4.94
3091 3209 0.539051 AGTGGTGATGTGAGGCTAGC 59.461 55.000 6.04 6.04 0.00 3.42
3114 3232 7.575505 AGCCTGTCGTACTATAGATATGGTAT 58.424 38.462 6.78 0.00 33.24 2.73
3115 3233 8.712103 AGCCTGTCGTACTATAGATATGGTATA 58.288 37.037 6.78 0.00 33.24 1.47
3172 3295 1.745115 GGCCGCATGTAACTCTGCA 60.745 57.895 0.00 0.00 38.30 4.41
3213 3336 2.415983 TCTCCAGTTCTCCCCTGAAA 57.584 50.000 0.00 0.00 31.38 2.69
3250 3373 2.418368 ACACGCATCTCTCTCTCTCT 57.582 50.000 0.00 0.00 0.00 3.10
3255 3378 3.062763 CGCATCTCTCTCTCTCTCTCTC 58.937 54.545 0.00 0.00 0.00 3.20
3256 3379 3.244009 CGCATCTCTCTCTCTCTCTCTCT 60.244 52.174 0.00 0.00 0.00 3.10
3257 3380 4.314121 GCATCTCTCTCTCTCTCTCTCTC 58.686 52.174 0.00 0.00 0.00 3.20
3258 3381 4.040217 GCATCTCTCTCTCTCTCTCTCTCT 59.960 50.000 0.00 0.00 0.00 3.10
3259 3382 5.782047 CATCTCTCTCTCTCTCTCTCTCTC 58.218 50.000 0.00 0.00 0.00 3.20
3260 3383 5.136068 TCTCTCTCTCTCTCTCTCTCTCT 57.864 47.826 0.00 0.00 0.00 3.10
3261 3384 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
3262 3385 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
3263 3386 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
3264 3387 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
3265 3388 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
3266 3389 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
3267 3390 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
3268 3391 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
3269 3392 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
3270 3393 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
3271 3394 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
3272 3395 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
3273 3396 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
3274 3397 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
3275 3398 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
3276 3399 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
3277 3400 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
3278 3401 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
3279 3402 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
3280 3403 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
3281 3404 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
3282 3405 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
3283 3406 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
3284 3407 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
3285 3408 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
3286 3409 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
3287 3410 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
3288 3411 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
3289 3412 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
3290 3413 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
3291 3414 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
3292 3415 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
3293 3416 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
3294 3417 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
3295 3418 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
3296 3419 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
3297 3420 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
3298 3421 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
3299 3422 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
3300 3423 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
3301 3424 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
3382 3505 6.477053 TTCCTAGAGAAATGACAGGATGAG 57.523 41.667 0.00 0.00 39.69 2.90
3399 3522 3.883830 TGAGAGAGATTCCACTTCAGC 57.116 47.619 0.00 0.00 0.00 4.26
3400 3523 3.168292 TGAGAGAGATTCCACTTCAGCA 58.832 45.455 0.00 0.00 0.00 4.41
3402 3525 4.040829 TGAGAGAGATTCCACTTCAGCAAA 59.959 41.667 0.00 0.00 0.00 3.68
3441 3567 7.065803 CCATTATCTTAATGGCTAATGTACGGG 59.934 40.741 12.11 0.00 40.51 5.28
3449 3575 1.858091 CTAATGTACGGGAGCTGCTG 58.142 55.000 13.21 13.21 0.00 4.41
3502 3628 5.298989 TGGCTTTTCAGGTGTCTTTAGTA 57.701 39.130 0.00 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 0.401395 TCACCTCTCACCAACCCCTT 60.401 55.000 0.00 0.00 0.00 3.95
2 3 0.838122 CTCACCTCTCACCAACCCCT 60.838 60.000 0.00 0.00 0.00 4.79
3 4 0.836400 TCTCACCTCTCACCAACCCC 60.836 60.000 0.00 0.00 0.00 4.95
6 7 0.959553 TCGTCTCACCTCTCACCAAC 59.040 55.000 0.00 0.00 0.00 3.77
7 8 1.202891 TCTCGTCTCACCTCTCACCAA 60.203 52.381 0.00 0.00 0.00 3.67
8 9 0.400594 TCTCGTCTCACCTCTCACCA 59.599 55.000 0.00 0.00 0.00 4.17
9 10 0.806241 GTCTCGTCTCACCTCTCACC 59.194 60.000 0.00 0.00 0.00 4.02
10 11 1.816074 AGTCTCGTCTCACCTCTCAC 58.184 55.000 0.00 0.00 0.00 3.51
11 12 3.916359 ATAGTCTCGTCTCACCTCTCA 57.084 47.619 0.00 0.00 0.00 3.27
12 13 4.212636 GCTAATAGTCTCGTCTCACCTCTC 59.787 50.000 0.00 0.00 0.00 3.20
13 14 4.131596 GCTAATAGTCTCGTCTCACCTCT 58.868 47.826 0.00 0.00 0.00 3.69
14 15 4.131596 AGCTAATAGTCTCGTCTCACCTC 58.868 47.826 0.00 0.00 0.00 3.85
15 16 4.159244 AGCTAATAGTCTCGTCTCACCT 57.841 45.455 0.00 0.00 0.00 4.00
16 17 4.904253 AAGCTAATAGTCTCGTCTCACC 57.096 45.455 0.00 0.00 0.00 4.02
17 18 5.744819 GGAAAAGCTAATAGTCTCGTCTCAC 59.255 44.000 0.00 0.00 0.00 3.51
18 19 5.652891 AGGAAAAGCTAATAGTCTCGTCTCA 59.347 40.000 0.00 0.00 0.00 3.27
19 20 6.139048 AGGAAAAGCTAATAGTCTCGTCTC 57.861 41.667 0.00 0.00 0.00 3.36
20 21 6.532988 AAGGAAAAGCTAATAGTCTCGTCT 57.467 37.500 0.00 0.00 0.00 4.18
21 22 7.435784 CCTAAAGGAAAAGCTAATAGTCTCGTC 59.564 40.741 0.00 0.00 37.39 4.20
22 23 7.123847 TCCTAAAGGAAAAGCTAATAGTCTCGT 59.876 37.037 0.00 0.00 42.18 4.18
23 24 7.490000 TCCTAAAGGAAAAGCTAATAGTCTCG 58.510 38.462 0.00 0.00 42.18 4.04
24 25 8.479689 ACTCCTAAAGGAAAAGCTAATAGTCTC 58.520 37.037 0.00 0.00 44.91 3.36
25 26 8.382058 ACTCCTAAAGGAAAAGCTAATAGTCT 57.618 34.615 0.00 0.00 44.91 3.24
26 27 9.752961 CTACTCCTAAAGGAAAAGCTAATAGTC 57.247 37.037 0.00 0.00 44.91 2.59
27 28 9.490083 TCTACTCCTAAAGGAAAAGCTAATAGT 57.510 33.333 0.00 0.00 44.91 2.12
28 29 9.974980 CTCTACTCCTAAAGGAAAAGCTAATAG 57.025 37.037 0.00 0.00 44.91 1.73
29 30 9.710818 TCTCTACTCCTAAAGGAAAAGCTAATA 57.289 33.333 0.00 0.00 44.91 0.98
30 31 8.611051 TCTCTACTCCTAAAGGAAAAGCTAAT 57.389 34.615 0.00 0.00 44.91 1.73
31 32 8.611051 ATCTCTACTCCTAAAGGAAAAGCTAA 57.389 34.615 0.00 0.00 44.91 3.09
32 33 8.611051 AATCTCTACTCCTAAAGGAAAAGCTA 57.389 34.615 0.00 0.00 44.91 3.32
33 34 7.503492 AATCTCTACTCCTAAAGGAAAAGCT 57.497 36.000 0.00 0.00 44.91 3.74
34 35 9.839817 AATAATCTCTACTCCTAAAGGAAAAGC 57.160 33.333 0.00 0.00 44.91 3.51
39 40 9.488762 TGTCAAATAATCTCTACTCCTAAAGGA 57.511 33.333 0.00 0.00 43.08 3.36
45 46 8.932610 ACATGATGTCAAATAATCTCTACTCCT 58.067 33.333 0.00 0.00 0.00 3.69
46 47 9.202273 GACATGATGTCAAATAATCTCTACTCC 57.798 37.037 19.96 0.00 46.22 3.85
68 69 3.895656 AGTATACTACACATGGCCGACAT 59.104 43.478 2.75 0.00 41.57 3.06
69 70 3.293337 AGTATACTACACATGGCCGACA 58.707 45.455 2.75 0.00 0.00 4.35
70 71 4.317671 AAGTATACTACACATGGCCGAC 57.682 45.455 5.65 0.00 0.00 4.79
71 72 4.689071 CAAAGTATACTACACATGGCCGA 58.311 43.478 5.65 0.00 0.00 5.54
72 73 3.247648 GCAAAGTATACTACACATGGCCG 59.752 47.826 5.65 0.00 0.00 6.13
73 74 4.451900 AGCAAAGTATACTACACATGGCC 58.548 43.478 5.65 0.00 0.00 5.36
74 75 6.436843 AAAGCAAAGTATACTACACATGGC 57.563 37.500 5.65 0.00 0.00 4.40
96 97 9.357652 GGTTCAGTATCACGTGTATACTAAAAA 57.642 33.333 26.14 20.41 37.93 1.94
97 98 8.522003 TGGTTCAGTATCACGTGTATACTAAAA 58.478 33.333 26.14 21.89 37.93 1.52
98 99 8.054152 TGGTTCAGTATCACGTGTATACTAAA 57.946 34.615 26.14 20.51 37.93 1.85
99 100 7.628769 TGGTTCAGTATCACGTGTATACTAA 57.371 36.000 26.14 17.34 37.93 2.24
100 101 7.628769 TTGGTTCAGTATCACGTGTATACTA 57.371 36.000 26.14 16.59 37.93 1.82
101 102 6.519679 TTGGTTCAGTATCACGTGTATACT 57.480 37.500 23.44 23.44 40.07 2.12
104 105 8.635328 TGTATATTGGTTCAGTATCACGTGTAT 58.365 33.333 16.51 10.27 0.00 2.29
105 106 7.998580 TGTATATTGGTTCAGTATCACGTGTA 58.001 34.615 16.51 4.61 0.00 2.90
106 107 6.869695 TGTATATTGGTTCAGTATCACGTGT 58.130 36.000 16.51 5.66 0.00 4.49
107 108 7.764695 TTGTATATTGGTTCAGTATCACGTG 57.235 36.000 9.94 9.94 0.00 4.49
108 109 9.472361 GTATTGTATATTGGTTCAGTATCACGT 57.528 33.333 0.00 0.00 0.00 4.49
109 110 8.922676 GGTATTGTATATTGGTTCAGTATCACG 58.077 37.037 0.00 0.00 0.00 4.35
110 111 9.772973 TGGTATTGTATATTGGTTCAGTATCAC 57.227 33.333 0.00 0.00 0.00 3.06
116 117 9.248291 GCATTTTGGTATTGTATATTGGTTCAG 57.752 33.333 0.00 0.00 0.00 3.02
117 118 8.753133 TGCATTTTGGTATTGTATATTGGTTCA 58.247 29.630 0.00 0.00 0.00 3.18
118 119 9.762933 ATGCATTTTGGTATTGTATATTGGTTC 57.237 29.630 0.00 0.00 0.00 3.62
159 165 4.411540 AGATGGGAGCAGTGACATCTTATT 59.588 41.667 11.75 0.00 45.57 1.40
160 166 3.972638 AGATGGGAGCAGTGACATCTTAT 59.027 43.478 11.75 0.00 45.57 1.73
165 171 3.110705 AGTTAGATGGGAGCAGTGACAT 58.889 45.455 0.00 0.00 0.00 3.06
172 178 1.208052 GACTGCAGTTAGATGGGAGCA 59.792 52.381 22.65 0.00 0.00 4.26
180 186 8.677148 ATTTCAGTAAAAAGACTGCAGTTAGA 57.323 30.769 22.65 5.98 45.44 2.10
239 246 2.095263 CGCAATCGTCTTTTTCCATGGT 60.095 45.455 12.58 0.00 0.00 3.55
241 248 3.125146 TCTCGCAATCGTCTTTTTCCATG 59.875 43.478 0.00 0.00 36.96 3.66
242 249 3.334691 TCTCGCAATCGTCTTTTTCCAT 58.665 40.909 0.00 0.00 36.96 3.41
243 250 2.761559 TCTCGCAATCGTCTTTTTCCA 58.238 42.857 0.00 0.00 36.96 3.53
245 252 6.359617 TGAAATTTCTCGCAATCGTCTTTTTC 59.640 34.615 18.64 0.00 36.96 2.29
246 253 6.205784 TGAAATTTCTCGCAATCGTCTTTTT 58.794 32.000 18.64 0.00 36.96 1.94
367 383 5.888724 TGTTCATGGGTTGTAGTTTTCAGAA 59.111 36.000 0.00 0.00 0.00 3.02
368 384 5.298276 GTGTTCATGGGTTGTAGTTTTCAGA 59.702 40.000 0.00 0.00 0.00 3.27
369 385 5.067153 TGTGTTCATGGGTTGTAGTTTTCAG 59.933 40.000 0.00 0.00 0.00 3.02
370 386 4.950475 TGTGTTCATGGGTTGTAGTTTTCA 59.050 37.500 0.00 0.00 0.00 2.69
371 387 5.163602 TGTGTGTTCATGGGTTGTAGTTTTC 60.164 40.000 0.00 0.00 0.00 2.29
372 388 4.707448 TGTGTGTTCATGGGTTGTAGTTTT 59.293 37.500 0.00 0.00 0.00 2.43
373 389 4.274147 TGTGTGTTCATGGGTTGTAGTTT 58.726 39.130 0.00 0.00 0.00 2.66
374 390 3.892284 TGTGTGTTCATGGGTTGTAGTT 58.108 40.909 0.00 0.00 0.00 2.24
578 609 4.718774 AGGCTCCAAGTGAATGAATAGAGA 59.281 41.667 0.00 0.00 0.00 3.10
579 610 5.033589 AGGCTCCAAGTGAATGAATAGAG 57.966 43.478 0.00 0.00 0.00 2.43
580 611 4.471025 TGAGGCTCCAAGTGAATGAATAGA 59.529 41.667 12.86 0.00 0.00 1.98
581 612 4.574013 GTGAGGCTCCAAGTGAATGAATAG 59.426 45.833 12.86 0.00 0.00 1.73
582 613 4.517285 GTGAGGCTCCAAGTGAATGAATA 58.483 43.478 12.86 0.00 0.00 1.75
583 614 3.350833 GTGAGGCTCCAAGTGAATGAAT 58.649 45.455 12.86 0.00 0.00 2.57
584 615 2.553028 GGTGAGGCTCCAAGTGAATGAA 60.553 50.000 12.86 0.00 0.00 2.57
585 616 1.003580 GGTGAGGCTCCAAGTGAATGA 59.996 52.381 12.86 0.00 0.00 2.57
586 617 1.004044 AGGTGAGGCTCCAAGTGAATG 59.996 52.381 12.86 0.00 0.00 2.67
587 618 1.004044 CAGGTGAGGCTCCAAGTGAAT 59.996 52.381 12.86 0.00 0.00 2.57
588 619 0.397941 CAGGTGAGGCTCCAAGTGAA 59.602 55.000 12.86 0.00 0.00 3.18
589 620 0.471780 TCAGGTGAGGCTCCAAGTGA 60.472 55.000 12.86 6.93 0.00 3.41
590 621 0.321122 GTCAGGTGAGGCTCCAAGTG 60.321 60.000 12.86 4.56 0.00 3.16
591 622 0.764369 TGTCAGGTGAGGCTCCAAGT 60.764 55.000 12.86 0.00 0.00 3.16
592 623 0.617413 ATGTCAGGTGAGGCTCCAAG 59.383 55.000 12.86 0.00 0.00 3.61
593 624 0.615331 GATGTCAGGTGAGGCTCCAA 59.385 55.000 12.86 0.00 0.00 3.53
594 625 0.252421 AGATGTCAGGTGAGGCTCCA 60.252 55.000 12.86 1.35 0.00 3.86
595 626 0.908198 AAGATGTCAGGTGAGGCTCC 59.092 55.000 12.86 3.14 0.00 4.70
596 627 2.011046 GCAAGATGTCAGGTGAGGCTC 61.011 57.143 7.79 7.79 0.00 4.70
597 628 0.035630 GCAAGATGTCAGGTGAGGCT 60.036 55.000 0.00 0.00 0.00 4.58
598 629 1.364626 CGCAAGATGTCAGGTGAGGC 61.365 60.000 0.00 0.00 43.02 4.70
599 630 1.364626 GCGCAAGATGTCAGGTGAGG 61.365 60.000 0.30 0.00 43.02 3.86
600 631 0.390866 AGCGCAAGATGTCAGGTGAG 60.391 55.000 11.47 0.00 43.02 3.51
601 632 0.390340 GAGCGCAAGATGTCAGGTGA 60.390 55.000 11.47 0.00 43.02 4.02
602 633 1.364626 GGAGCGCAAGATGTCAGGTG 61.365 60.000 11.47 0.00 43.02 4.00
603 634 1.078848 GGAGCGCAAGATGTCAGGT 60.079 57.895 11.47 0.00 43.02 4.00
604 635 1.817099 GGGAGCGCAAGATGTCAGG 60.817 63.158 11.47 0.00 43.02 3.86
605 636 0.392193 AAGGGAGCGCAAGATGTCAG 60.392 55.000 11.47 0.00 43.02 3.51
606 637 0.036732 AAAGGGAGCGCAAGATGTCA 59.963 50.000 11.47 0.00 43.02 3.58
607 638 1.131315 GAAAAGGGAGCGCAAGATGTC 59.869 52.381 11.47 0.00 43.02 3.06
608 639 1.168714 GAAAAGGGAGCGCAAGATGT 58.831 50.000 11.47 0.00 43.02 3.06
609 640 1.399791 GAGAAAAGGGAGCGCAAGATG 59.600 52.381 11.47 0.00 43.02 2.90
610 641 1.743996 GAGAAAAGGGAGCGCAAGAT 58.256 50.000 11.47 0.00 43.02 2.40
611 642 0.670546 CGAGAAAAGGGAGCGCAAGA 60.671 55.000 11.47 0.00 43.02 3.02
612 643 0.951040 ACGAGAAAAGGGAGCGCAAG 60.951 55.000 11.47 0.00 43.44 4.01
613 644 0.534203 AACGAGAAAAGGGAGCGCAA 60.534 50.000 11.47 0.00 0.00 4.85
614 645 0.949105 GAACGAGAAAAGGGAGCGCA 60.949 55.000 11.47 0.00 0.00 6.09
615 646 0.670854 AGAACGAGAAAAGGGAGCGC 60.671 55.000 0.00 0.00 0.00 5.92
616 647 1.727335 GAAGAACGAGAAAAGGGAGCG 59.273 52.381 0.00 0.00 0.00 5.03
617 648 1.727335 CGAAGAACGAGAAAAGGGAGC 59.273 52.381 0.00 0.00 45.77 4.70
618 649 2.987821 GACGAAGAACGAGAAAAGGGAG 59.012 50.000 0.00 0.00 45.77 4.30
659 690 1.225854 GCTCACTCGACGCAAATGC 60.226 57.895 0.00 0.00 37.78 3.56
784 815 2.278206 TGAAGCGAGCGATCGAGC 60.278 61.111 29.29 19.70 34.64 5.03
785 816 2.282361 CGTGAAGCGAGCGATCGAG 61.282 63.158 29.29 10.29 44.77 4.04
786 817 2.277310 CGTGAAGCGAGCGATCGA 60.277 61.111 29.29 1.83 44.77 3.59
787 818 2.277310 TCGTGAAGCGAGCGATCG 60.277 61.111 20.40 20.40 45.68 3.69
884 931 2.009302 GCAAGGGAGGGGAAGGGAT 61.009 63.158 0.00 0.00 0.00 3.85
939 986 1.884075 GACGGTTGGGAAAATGGCCC 61.884 60.000 0.00 0.00 46.22 5.80
980 1027 0.667792 GAGTCACTCACCGCAACCTC 60.668 60.000 0.00 0.00 0.00 3.85
1029 1082 4.161295 CATCCGGCGCCCAGAGAA 62.161 66.667 23.46 0.00 0.00 2.87
1040 1093 1.890979 GACAGCCTCATGCATCCGG 60.891 63.158 0.00 0.00 44.83 5.14
1044 1097 1.145598 CCTCGACAGCCTCATGCAT 59.854 57.895 0.00 0.00 44.83 3.96
1048 1101 2.060980 GGGACCTCGACAGCCTCAT 61.061 63.158 0.00 0.00 0.00 2.90
1200 1253 1.178534 CGAGCTCCTGGATCCTCCTC 61.179 65.000 14.23 9.85 37.46 3.71
1413 1478 4.814294 ATGGACGAGAACGCCCGC 62.814 66.667 0.00 0.00 44.73 6.13
1752 1817 2.135139 GAGAACATGTTGAGCGACACA 58.865 47.619 17.58 0.00 31.30 3.72
1899 1964 2.262915 GCCTGTGACTCGTCCTGG 59.737 66.667 0.00 0.00 0.00 4.45
2234 2322 4.530094 GACATTGTGTCGAACAGTTTGA 57.470 40.909 0.00 0.00 40.74 2.69
2554 2649 1.683707 TGCTGCTGGATCTCGGAGT 60.684 57.895 4.69 0.00 0.00 3.85
2649 2745 3.423154 GCGTGGACTTCTTGCGGG 61.423 66.667 0.00 0.00 0.00 6.13
2675 2771 1.907807 GTTGGCCAAGCACATGGGA 60.908 57.895 21.21 0.00 41.01 4.37
2754 2851 2.086054 AAACGAGAGATTCTTGCGCT 57.914 45.000 9.73 0.00 30.88 5.92
2755 2852 2.882742 AAAACGAGAGATTCTTGCGC 57.117 45.000 0.00 0.00 30.88 6.09
2798 2898 1.919600 ATTGCACCCCTCCTCTCAGC 61.920 60.000 0.00 0.00 0.00 4.26
2800 2900 1.565390 CCATTGCACCCCTCCTCTCA 61.565 60.000 0.00 0.00 0.00 3.27
3063 3181 1.608590 CACATCACCACTTTCCACCAC 59.391 52.381 0.00 0.00 0.00 4.16
3114 3232 2.963782 GGAGCGGATTCCCTCTACTTTA 59.036 50.000 16.18 0.00 0.00 1.85
3115 3233 1.763545 GGAGCGGATTCCCTCTACTTT 59.236 52.381 16.18 0.00 0.00 2.66
3172 3295 7.013083 GGAGATATTCTCATTGCTTGTTCATGT 59.987 37.037 6.83 0.00 45.12 3.21
3234 3357 3.062763 GAGAGAGAGAGAGAGAGATGCG 58.937 54.545 0.00 0.00 0.00 4.73
3250 3373 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
3255 3378 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
3256 3379 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
3257 3380 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
3258 3381 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
3259 3382 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
3260 3383 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
3261 3384 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
3262 3385 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
3263 3386 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
3264 3387 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
3265 3388 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
3266 3389 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
3267 3390 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
3268 3391 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
3269 3392 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
3270 3393 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
3271 3394 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
3272 3395 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
3273 3396 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
3274 3397 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
3275 3398 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
3276 3399 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
3277 3400 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
3278 3401 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
3279 3402 4.892345 TGAGAGAGAGAGAGAGAGAGAGAG 59.108 50.000 0.00 0.00 0.00 3.20
3280 3403 4.871822 TGAGAGAGAGAGAGAGAGAGAGA 58.128 47.826 0.00 0.00 0.00 3.10
3281 3404 5.604758 TTGAGAGAGAGAGAGAGAGAGAG 57.395 47.826 0.00 0.00 0.00 3.20
3282 3405 7.069344 TCTATTGAGAGAGAGAGAGAGAGAGA 58.931 42.308 0.00 0.00 0.00 3.10
3283 3406 7.295322 TCTATTGAGAGAGAGAGAGAGAGAG 57.705 44.000 0.00 0.00 0.00 3.20
3284 3407 7.675161 TTCTATTGAGAGAGAGAGAGAGAGA 57.325 40.000 0.00 0.00 31.77 3.10
3285 3408 7.094890 GCATTCTATTGAGAGAGAGAGAGAGAG 60.095 44.444 0.00 0.00 31.77 3.20
3286 3409 6.712095 GCATTCTATTGAGAGAGAGAGAGAGA 59.288 42.308 0.00 0.00 31.77 3.10
3287 3410 6.487668 TGCATTCTATTGAGAGAGAGAGAGAG 59.512 42.308 0.00 0.00 31.77 3.20
3288 3411 6.363882 TGCATTCTATTGAGAGAGAGAGAGA 58.636 40.000 0.00 0.00 31.77 3.10
3289 3412 6.638096 TGCATTCTATTGAGAGAGAGAGAG 57.362 41.667 0.00 0.00 31.77 3.20
3290 3413 6.776603 TGATGCATTCTATTGAGAGAGAGAGA 59.223 38.462 0.00 0.00 31.77 3.10
3291 3414 6.983984 TGATGCATTCTATTGAGAGAGAGAG 58.016 40.000 0.00 0.00 31.77 3.20
3292 3415 6.517027 GCTGATGCATTCTATTGAGAGAGAGA 60.517 42.308 0.00 0.00 39.41 3.10
3293 3416 5.636121 GCTGATGCATTCTATTGAGAGAGAG 59.364 44.000 0.00 0.00 39.41 3.20
3294 3417 5.070047 TGCTGATGCATTCTATTGAGAGAGA 59.930 40.000 0.00 0.00 45.31 3.10
3295 3418 5.298347 TGCTGATGCATTCTATTGAGAGAG 58.702 41.667 0.00 0.00 45.31 3.20
3296 3419 5.286267 TGCTGATGCATTCTATTGAGAGA 57.714 39.130 0.00 0.00 45.31 3.10
3330 3453 4.438148 CCTTCCGAAGAATCTTTCCTCTC 58.562 47.826 9.87 0.00 0.00 3.20
3382 3505 5.638783 CAATTTGCTGAAGTGGAATCTCTC 58.361 41.667 0.00 0.00 29.96 3.20
3428 3554 0.880718 GCAGCTCCCGTACATTAGCC 60.881 60.000 6.69 0.00 35.54 3.93
3441 3567 5.613358 TTAAGCTAAAAGTTCAGCAGCTC 57.387 39.130 10.96 0.00 41.58 4.09


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

AutoCloner maintained by Alex Coulton.