Multiple sequence alignment - TraesCS5B01G207700

Loading Multiple Alignment...

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 TraesCS5B01G207700 chr5B 100.000 2426 0 0 1 2426 377206700 377209125 0.000000e+00 4481.0
1 TraesCS5B01G207700 chr5B 92.784 582 38 3 1848 2426 270869676 270870256 0.000000e+00 839.0
2 TraesCS5B01G207700 chr5D 93.011 973 55 7 744 1715 324779536 324780496 0.000000e+00 1408.0
3 TraesCS5B01G207700 chr5D 88.684 433 28 6 285 713 324778672 324779087 2.150000e-140 508.0
4 TraesCS5B01G207700 chr5D 83.492 315 19 15 1 287 324761501 324761810 1.850000e-66 263.0
5 TraesCS5B01G207700 chr5D 100.000 33 0 0 704 736 324779513 324779545 7.240000e-06 62.1
6 TraesCS5B01G207700 chr5A 90.665 932 61 11 750 1671 423030157 423031072 0.000000e+00 1216.0
7 TraesCS5B01G207700 chr5A 91.409 291 14 5 536 815 423029867 423030157 2.920000e-104 388.0
8 TraesCS5B01G207700 chr5A 91.855 221 13 3 278 496 423012064 423012281 1.090000e-78 303.0
9 TraesCS5B01G207700 chr5A 86.413 184 6 6 1 169 423010627 423010806 1.480000e-42 183.0
10 TraesCS5B01G207700 chr1A 89.186 786 67 7 723 1507 110160599 110159831 0.000000e+00 965.0
11 TraesCS5B01G207700 chr1A 94.595 74 3 1 670 742 110160960 110160887 1.970000e-21 113.0
12 TraesCS5B01G207700 chr1B 89.737 760 62 8 749 1507 159162159 159162903 0.000000e+00 957.0
13 TraesCS5B01G207700 chr1B 95.353 581 24 2 1849 2426 41640011 41639431 0.000000e+00 920.0
14 TraesCS5B01G207700 chr1B 92.796 583 38 3 1848 2426 52047715 52048297 0.000000e+00 841.0
15 TraesCS5B01G207700 chr4B 93.997 583 31 3 1848 2426 454992912 454993494 0.000000e+00 880.0
16 TraesCS5B01G207700 chr4A 93.333 585 35 3 1845 2426 536767081 536767664 0.000000e+00 861.0
17 TraesCS5B01G207700 chrUn 92.759 580 32 3 1850 2426 288487518 288486946 0.000000e+00 830.0
18 TraesCS5B01G207700 chr7A 92.759 580 32 3 1850 2426 38694045 38693473 0.000000e+00 830.0
19 TraesCS5B01G207700 chr7A 92.759 580 31 4 1850 2426 38724682 38724111 0.000000e+00 828.0
20 TraesCS5B01G207700 chr3A 92.069 580 41 4 1851 2426 235449029 235448451 0.000000e+00 811.0
21 TraesCS5B01G207700 chr3A 80.428 654 94 24 881 1507 601537569 601536923 3.650000e-128 468.0
22 TraesCS5B01G207700 chr1D 88.730 559 47 8 744 1300 107614679 107614135 0.000000e+00 669.0
23 TraesCS5B01G207700 chr1D 90.950 221 13 2 1287 1507 107598766 107598553 8.490000e-75 291.0
24 TraesCS5B01G207700 chr1D 96.875 64 2 0 669 732 107614927 107614864 9.170000e-20 108.0
25 TraesCS5B01G207700 chr3D 82.069 580 93 6 922 1495 459499107 459499681 3.630000e-133 484.0


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 TraesCS5B01G207700 chr5B 377206700 377209125 2425 False 4481.000000 4481 100.000000 1 2426 1 chr5B.!!$F2 2425
1 TraesCS5B01G207700 chr5B 270869676 270870256 580 False 839.000000 839 92.784000 1848 2426 1 chr5B.!!$F1 578
2 TraesCS5B01G207700 chr5D 324778672 324780496 1824 False 659.366667 1408 93.898333 285 1715 3 chr5D.!!$F2 1430
3 TraesCS5B01G207700 chr5A 423029867 423031072 1205 False 802.000000 1216 91.037000 536 1671 2 chr5A.!!$F2 1135
4 TraesCS5B01G207700 chr5A 423010627 423012281 1654 False 243.000000 303 89.134000 1 496 2 chr5A.!!$F1 495
5 TraesCS5B01G207700 chr1A 110159831 110160960 1129 True 539.000000 965 91.890500 670 1507 2 chr1A.!!$R1 837
6 TraesCS5B01G207700 chr1B 159162159 159162903 744 False 957.000000 957 89.737000 749 1507 1 chr1B.!!$F2 758
7 TraesCS5B01G207700 chr1B 41639431 41640011 580 True 920.000000 920 95.353000 1849 2426 1 chr1B.!!$R1 577
8 TraesCS5B01G207700 chr1B 52047715 52048297 582 False 841.000000 841 92.796000 1848 2426 1 chr1B.!!$F1 578
9 TraesCS5B01G207700 chr4B 454992912 454993494 582 False 880.000000 880 93.997000 1848 2426 1 chr4B.!!$F1 578
10 TraesCS5B01G207700 chr4A 536767081 536767664 583 False 861.000000 861 93.333000 1845 2426 1 chr4A.!!$F1 581
11 TraesCS5B01G207700 chrUn 288486946 288487518 572 True 830.000000 830 92.759000 1850 2426 1 chrUn.!!$R1 576
12 TraesCS5B01G207700 chr7A 38693473 38694045 572 True 830.000000 830 92.759000 1850 2426 1 chr7A.!!$R1 576
13 TraesCS5B01G207700 chr7A 38724111 38724682 571 True 828.000000 828 92.759000 1850 2426 1 chr7A.!!$R2 576
14 TraesCS5B01G207700 chr3A 235448451 235449029 578 True 811.000000 811 92.069000 1851 2426 1 chr3A.!!$R1 575
15 TraesCS5B01G207700 chr3A 601536923 601537569 646 True 468.000000 468 80.428000 881 1507 1 chr3A.!!$R2 626
16 TraesCS5B01G207700 chr1D 107614135 107614927 792 True 388.500000 669 92.802500 669 1300 2 chr1D.!!$R2 631
17 TraesCS5B01G207700 chr3D 459499107 459499681 574 False 484.000000 484 82.069000 922 1495 1 chr3D.!!$F1 573

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
376 1543 0.318784 CTAGCCTCCGGTGTAATCGC 60.319 60.0 0.0 0.0 0.0 4.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1732 3857 0.032912 TATAGCTGACCCGTGGACCA 60.033 55.0 0.0 0.0 0.0 4.02 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
66 67 1.328439 CTCACGCAACGTCTACTCAC 58.672 55.000 0.00 0.00 38.32 3.51
112 113 4.914983 ACATCTCCAGAAATGAAGAAGCA 58.085 39.130 0.00 0.00 0.00 3.91
142 157 0.391661 ACATCGCGTCCTGCTGAAAT 60.392 50.000 5.77 0.00 43.27 2.17
144 159 1.009829 ATCGCGTCCTGCTGAAATTC 58.990 50.000 5.77 0.00 43.27 2.17
145 160 0.320334 TCGCGTCCTGCTGAAATTCA 60.320 50.000 5.77 0.00 43.27 2.57
146 161 0.729116 CGCGTCCTGCTGAAATTCAT 59.271 50.000 0.00 0.00 43.27 2.57
147 162 1.267732 CGCGTCCTGCTGAAATTCATC 60.268 52.381 0.00 0.00 43.27 2.92
148 163 1.739466 GCGTCCTGCTGAAATTCATCA 59.261 47.619 0.00 0.00 41.73 3.07
154 169 4.451629 CTGCTGAAATTCATCAGGCTTT 57.548 40.909 16.55 0.00 45.60 3.51
155 170 5.571784 CTGCTGAAATTCATCAGGCTTTA 57.428 39.130 16.55 0.00 45.60 1.85
169 184 5.216648 TCAGGCTTTATTAACAAAACGCAC 58.783 37.500 0.00 0.00 0.00 5.34
172 187 4.384547 GGCTTTATTAACAAAACGCACAGG 59.615 41.667 0.00 0.00 0.00 4.00
173 188 4.143410 GCTTTATTAACAAAACGCACAGGC 60.143 41.667 0.00 0.00 0.00 4.85
174 189 4.839668 TTATTAACAAAACGCACAGGCT 57.160 36.364 0.00 0.00 38.10 4.58
175 190 5.943706 TTATTAACAAAACGCACAGGCTA 57.056 34.783 0.00 0.00 38.10 3.93
176 191 3.612472 TTAACAAAACGCACAGGCTAC 57.388 42.857 0.00 0.00 38.10 3.58
177 192 1.384525 AACAAAACGCACAGGCTACA 58.615 45.000 0.00 0.00 38.10 2.74
178 193 1.604604 ACAAAACGCACAGGCTACAT 58.395 45.000 0.00 0.00 38.10 2.29
180 195 3.343617 ACAAAACGCACAGGCTACATAT 58.656 40.909 0.00 0.00 38.10 1.78
181 196 4.509616 ACAAAACGCACAGGCTACATATA 58.490 39.130 0.00 0.00 38.10 0.86
182 197 5.123227 ACAAAACGCACAGGCTACATATAT 58.877 37.500 0.00 0.00 38.10 0.86
183 198 6.285224 ACAAAACGCACAGGCTACATATATA 58.715 36.000 0.00 0.00 38.10 0.86
186 252 4.817517 ACGCACAGGCTACATATATAACC 58.182 43.478 0.00 0.00 38.10 2.85
206 272 2.270850 GTGCGTTGGGGGCTCATA 59.729 61.111 0.00 0.00 0.00 2.15
213 279 0.704076 TTGGGGGCTCATACTTGCTT 59.296 50.000 0.00 0.00 0.00 3.91
218 284 0.462759 GGCTCATACTTGCTTCGCCT 60.463 55.000 0.00 0.00 33.47 5.52
242 308 3.435671 GGTCCACACAAGTGCTACATAAC 59.564 47.826 0.00 0.00 44.53 1.89
243 309 3.435671 GTCCACACAAGTGCTACATAACC 59.564 47.826 0.00 0.00 44.53 2.85
244 310 3.071747 TCCACACAAGTGCTACATAACCA 59.928 43.478 0.00 0.00 44.53 3.67
245 311 4.009675 CCACACAAGTGCTACATAACCAT 58.990 43.478 0.00 0.00 44.53 3.55
246 312 4.142622 CCACACAAGTGCTACATAACCATG 60.143 45.833 0.00 0.00 44.53 3.66
248 314 4.009675 CACAAGTGCTACATAACCATGGT 58.990 43.478 13.00 13.00 36.39 3.55
257 1351 3.642141 ACATAACCATGGTTTCCATCCC 58.358 45.455 34.04 0.00 43.15 3.85
287 1381 5.390613 CACCGACAATTGTAGATTTTGGAC 58.609 41.667 18.97 0.00 0.00 4.02
292 1386 5.313712 ACAATTGTAGATTTTGGACGGTCT 58.686 37.500 9.97 0.00 0.00 3.85
360 1527 2.036604 GAGGGGCGGAGAAGAAATCTAG 59.963 54.545 0.00 0.00 38.96 2.43
371 1538 3.028094 AGAAATCTAGCCTCCGGTGTA 57.972 47.619 0.00 0.00 0.00 2.90
373 1540 3.967987 AGAAATCTAGCCTCCGGTGTAAT 59.032 43.478 0.00 0.00 0.00 1.89
376 1543 0.318784 CTAGCCTCCGGTGTAATCGC 60.319 60.000 0.00 0.00 0.00 4.58
400 1567 1.308998 AAGGTGGTTCTTCACAAGCG 58.691 50.000 0.00 0.00 39.27 4.68
522 1689 5.063060 CGCTAAGGAATTGGTTGTGTAGTAC 59.937 44.000 0.00 0.00 0.00 2.73
523 1690 6.171213 GCTAAGGAATTGGTTGTGTAGTACT 58.829 40.000 0.00 0.00 0.00 2.73
524 1691 6.313164 GCTAAGGAATTGGTTGTGTAGTACTC 59.687 42.308 0.00 0.00 0.00 2.59
525 1692 5.161943 AGGAATTGGTTGTGTAGTACTCC 57.838 43.478 0.00 0.00 0.00 3.85
526 1693 4.844655 AGGAATTGGTTGTGTAGTACTCCT 59.155 41.667 0.00 0.00 0.00 3.69
527 1694 5.309806 AGGAATTGGTTGTGTAGTACTCCTT 59.690 40.000 0.00 0.00 0.00 3.36
528 1695 5.411669 GGAATTGGTTGTGTAGTACTCCTTG 59.588 44.000 0.00 0.00 0.00 3.61
529 1696 3.396260 TGGTTGTGTAGTACTCCTTGC 57.604 47.619 0.00 0.00 0.00 4.01
530 1697 2.701423 TGGTTGTGTAGTACTCCTTGCA 59.299 45.455 0.00 0.00 0.00 4.08
531 1698 3.326588 TGGTTGTGTAGTACTCCTTGCAT 59.673 43.478 0.00 0.00 0.00 3.96
532 1699 4.202419 TGGTTGTGTAGTACTCCTTGCATT 60.202 41.667 0.00 0.00 0.00 3.56
533 1700 4.392138 GGTTGTGTAGTACTCCTTGCATTC 59.608 45.833 0.00 0.00 0.00 2.67
534 1701 3.845178 TGTGTAGTACTCCTTGCATTCG 58.155 45.455 0.00 0.00 0.00 3.34
558 1725 4.202264 CCTGAAGTTGAGTACAGTTCACCT 60.202 45.833 0.00 0.00 31.84 4.00
573 1740 1.962807 TCACCTTGTTCCTGGCAAATG 59.037 47.619 0.00 0.00 0.00 2.32
578 1745 1.164411 TGTTCCTGGCAAATGTAGCG 58.836 50.000 0.00 0.00 0.00 4.26
660 1830 4.160635 CGCGGAAATGGCACGTCC 62.161 66.667 0.00 8.00 0.00 4.79
698 1868 3.120923 CCAAAGATGCATCAAAACGTTGC 60.121 43.478 27.81 0.97 40.21 4.17
736 2344 9.490379 CATTCGCCTCCTAAATAAAATACTAGT 57.510 33.333 0.00 0.00 0.00 2.57
806 2887 8.793592 GGATACTACATATTTGGAAACCAATCC 58.206 37.037 4.03 1.34 43.55 3.01
912 2995 4.769345 AGATTTGATTCACCCTCTCTCC 57.231 45.455 0.00 0.00 0.00 3.71
920 3003 7.878621 TGATTCACCCTCTCTCCATATAAAT 57.121 36.000 0.00 0.00 0.00 1.40
924 3007 5.544176 TCACCCTCTCTCCATATAAATGACC 59.456 44.000 0.00 0.00 34.84 4.02
995 3079 5.452078 AAGTGATTCTCCATCGATCTCTC 57.548 43.478 0.00 0.00 34.08 3.20
1069 3153 6.352516 GTTCTTATGATCATGTCTTCCACCT 58.647 40.000 18.72 0.00 0.00 4.00
1113 3197 5.808540 TGCACGTACAAGTAATAACATCTCC 59.191 40.000 0.00 0.00 0.00 3.71
1148 3236 7.912056 TTCATGTGTTTCCAAATTTTGTTGA 57.088 28.000 8.26 0.00 0.00 3.18
1162 3250 9.956720 CAAATTTTGTTGATCTCTAGAGTTTGT 57.043 29.630 19.21 4.73 0.00 2.83
1257 3368 6.254157 ACGTCAATTCATTGCTCAATTTATGC 59.746 34.615 0.00 0.00 37.68 3.14
1260 3371 3.082698 TCATTGCTCAATTTATGCCGC 57.917 42.857 0.00 0.00 0.00 6.53
1446 3563 2.804527 GCATGATGCTTCTATTCTCGCA 59.195 45.455 10.72 0.00 40.96 5.10
1453 3570 2.115595 CTTCTATTCTCGCACGAGCAG 58.884 52.381 15.04 11.36 41.71 4.24
1496 3619 4.328536 ACAAATGTAGCATTGGTTACCGA 58.671 39.130 0.00 0.00 30.42 4.69
1549 3672 3.500680 GCCACTCGGTTTAGATTTCAACA 59.499 43.478 0.00 0.00 33.28 3.33
1591 3714 1.614317 CCAGCACCCTTAACTTCCCAG 60.614 57.143 0.00 0.00 0.00 4.45
1595 3719 1.073098 ACCCTTAACTTCCCAGTGGG 58.927 55.000 23.57 23.57 46.11 4.61
1635 3760 3.689649 ACTCAGTTTTGACTGTGTTGACC 59.310 43.478 8.07 0.00 40.27 4.02
1662 3787 1.993370 GGCTACGTTTACTGCTGACTG 59.007 52.381 0.00 0.00 0.00 3.51
1663 3788 2.609737 GGCTACGTTTACTGCTGACTGT 60.610 50.000 0.00 0.00 0.00 3.55
1690 3815 1.066858 CCACGTCAGCTTGGACTATGT 60.067 52.381 0.00 0.00 36.23 2.29
1692 3817 1.135373 ACGTCAGCTTGGACTATGTCG 60.135 52.381 3.02 0.00 35.63 4.35
1704 3829 7.061094 GCTTGGACTATGTCGAATTTTTGAAAG 59.939 37.037 0.00 0.00 30.63 2.62
1715 3840 8.748582 GTCGAATTTTTGAAAGGTTATTTTCGT 58.251 29.630 0.00 0.00 39.39 3.85
1716 3841 8.747666 TCGAATTTTTGAAAGGTTATTTTCGTG 58.252 29.630 0.00 0.00 39.39 4.35
1717 3842 8.536407 CGAATTTTTGAAAGGTTATTTTCGTGT 58.464 29.630 0.00 0.00 39.39 4.49
1718 3843 9.631639 GAATTTTTGAAAGGTTATTTTCGTGTG 57.368 29.630 0.00 0.00 39.39 3.82
1719 3844 8.710835 ATTTTTGAAAGGTTATTTTCGTGTGT 57.289 26.923 0.00 0.00 39.39 3.72
1720 3845 8.535690 TTTTTGAAAGGTTATTTTCGTGTGTT 57.464 26.923 0.00 0.00 39.39 3.32
1721 3846 8.535690 TTTTGAAAGGTTATTTTCGTGTGTTT 57.464 26.923 0.00 0.00 39.39 2.83
1722 3847 9.635520 TTTTGAAAGGTTATTTTCGTGTGTTTA 57.364 25.926 0.00 0.00 39.39 2.01
1723 3848 9.635520 TTTGAAAGGTTATTTTCGTGTGTTTAA 57.364 25.926 0.00 0.00 39.39 1.52
1724 3849 9.804758 TTGAAAGGTTATTTTCGTGTGTTTAAT 57.195 25.926 0.00 0.00 39.39 1.40
1725 3850 9.239002 TGAAAGGTTATTTTCGTGTGTTTAATG 57.761 29.630 0.00 0.00 39.39 1.90
1726 3851 9.453325 GAAAGGTTATTTTCGTGTGTTTAATGA 57.547 29.630 0.00 0.00 0.00 2.57
1727 3852 9.804758 AAAGGTTATTTTCGTGTGTTTAATGAA 57.195 25.926 0.00 0.00 0.00 2.57
1728 3853 9.458374 AAGGTTATTTTCGTGTGTTTAATGAAG 57.542 29.630 0.00 0.00 0.00 3.02
1729 3854 8.079809 AGGTTATTTTCGTGTGTTTAATGAAGG 58.920 33.333 0.00 0.00 0.00 3.46
1730 3855 7.863877 GGTTATTTTCGTGTGTTTAATGAAGGT 59.136 33.333 0.00 0.00 0.00 3.50
1731 3856 8.687301 GTTATTTTCGTGTGTTTAATGAAGGTG 58.313 33.333 0.00 0.00 0.00 4.00
1732 3857 5.821516 TTTCGTGTGTTTAATGAAGGTGT 57.178 34.783 0.00 0.00 0.00 4.16
1733 3858 4.804608 TCGTGTGTTTAATGAAGGTGTG 57.195 40.909 0.00 0.00 0.00 3.82
1734 3859 3.562141 TCGTGTGTTTAATGAAGGTGTGG 59.438 43.478 0.00 0.00 0.00 4.17
1735 3860 3.314080 CGTGTGTTTAATGAAGGTGTGGT 59.686 43.478 0.00 0.00 0.00 4.16
1736 3861 4.553938 CGTGTGTTTAATGAAGGTGTGGTC 60.554 45.833 0.00 0.00 0.00 4.02
1737 3862 3.886505 TGTGTTTAATGAAGGTGTGGTCC 59.113 43.478 0.00 0.00 0.00 4.46
1738 3863 3.886505 GTGTTTAATGAAGGTGTGGTCCA 59.113 43.478 0.00 0.00 0.00 4.02
1739 3864 3.886505 TGTTTAATGAAGGTGTGGTCCAC 59.113 43.478 15.64 15.64 43.74 4.02
1740 3865 2.465860 TAATGAAGGTGTGGTCCACG 57.534 50.000 17.27 0.00 45.52 4.94
1741 3866 0.250727 AATGAAGGTGTGGTCCACGG 60.251 55.000 17.27 0.00 45.52 4.94
1742 3867 2.032071 GAAGGTGTGGTCCACGGG 59.968 66.667 17.27 0.00 45.52 5.28
1743 3868 2.770904 AAGGTGTGGTCCACGGGT 60.771 61.111 17.27 0.77 45.52 5.28
1744 3869 2.726822 GAAGGTGTGGTCCACGGGTC 62.727 65.000 17.27 8.07 45.52 4.46
1745 3870 3.552384 GGTGTGGTCCACGGGTCA 61.552 66.667 17.27 0.00 45.52 4.02
1746 3871 2.030562 GTGTGGTCCACGGGTCAG 59.969 66.667 17.27 0.00 37.14 3.51
1747 3872 3.936203 TGTGGTCCACGGGTCAGC 61.936 66.667 17.27 0.00 37.14 4.26
1748 3873 3.626924 GTGGTCCACGGGTCAGCT 61.627 66.667 6.18 0.00 0.00 4.24
1749 3874 2.118732 TGGTCCACGGGTCAGCTA 59.881 61.111 0.00 0.00 0.00 3.32
1750 3875 1.305802 TGGTCCACGGGTCAGCTAT 60.306 57.895 0.00 0.00 0.00 2.97
1751 3876 0.032912 TGGTCCACGGGTCAGCTATA 60.033 55.000 0.00 0.00 0.00 1.31
1752 3877 0.674534 GGTCCACGGGTCAGCTATAG 59.325 60.000 0.00 0.00 0.00 1.31
1753 3878 1.688772 GTCCACGGGTCAGCTATAGA 58.311 55.000 3.21 0.00 0.00 1.98
1754 3879 2.240279 GTCCACGGGTCAGCTATAGAT 58.760 52.381 3.21 0.00 0.00 1.98
1755 3880 2.628657 GTCCACGGGTCAGCTATAGATT 59.371 50.000 3.21 0.00 0.00 2.40
1756 3881 3.825014 GTCCACGGGTCAGCTATAGATTA 59.175 47.826 3.21 0.00 0.00 1.75
1757 3882 4.079970 TCCACGGGTCAGCTATAGATTAG 58.920 47.826 3.21 0.00 0.00 1.73
1758 3883 3.367498 CCACGGGTCAGCTATAGATTAGC 60.367 52.174 3.21 0.00 40.67 3.09
1759 3884 3.255888 CACGGGTCAGCTATAGATTAGCA 59.744 47.826 3.21 0.00 42.68 3.49
1760 3885 3.508012 ACGGGTCAGCTATAGATTAGCAG 59.492 47.826 3.21 1.84 42.68 4.24
1761 3886 3.759086 CGGGTCAGCTATAGATTAGCAGA 59.241 47.826 3.21 1.98 42.68 4.26
1762 3887 4.142491 CGGGTCAGCTATAGATTAGCAGAG 60.142 50.000 3.21 0.00 42.68 3.35
1763 3888 5.013547 GGGTCAGCTATAGATTAGCAGAGA 58.986 45.833 3.21 0.23 42.68 3.10
1764 3889 5.125417 GGGTCAGCTATAGATTAGCAGAGAG 59.875 48.000 3.21 0.00 42.68 3.20
1765 3890 5.125417 GGTCAGCTATAGATTAGCAGAGAGG 59.875 48.000 3.21 0.00 42.68 3.69
1766 3891 5.125417 GTCAGCTATAGATTAGCAGAGAGGG 59.875 48.000 3.21 0.00 42.68 4.30
1767 3892 5.016173 CAGCTATAGATTAGCAGAGAGGGT 58.984 45.833 3.21 0.00 42.68 4.34
1768 3893 5.480073 CAGCTATAGATTAGCAGAGAGGGTT 59.520 44.000 3.21 0.00 42.68 4.11
1769 3894 6.661377 CAGCTATAGATTAGCAGAGAGGGTTA 59.339 42.308 3.21 0.00 42.68 2.85
1770 3895 6.889722 AGCTATAGATTAGCAGAGAGGGTTAG 59.110 42.308 3.21 0.00 42.68 2.34
1771 3896 6.887545 GCTATAGATTAGCAGAGAGGGTTAGA 59.112 42.308 3.21 0.00 40.14 2.10
1772 3897 7.394923 GCTATAGATTAGCAGAGAGGGTTAGAA 59.605 40.741 3.21 0.00 40.14 2.10
1773 3898 9.474313 CTATAGATTAGCAGAGAGGGTTAGAAT 57.526 37.037 0.00 0.00 0.00 2.40
1775 3900 9.830186 ATAGATTAGCAGAGAGGGTTAGAATAA 57.170 33.333 0.00 0.00 0.00 1.40
1776 3901 8.554490 AGATTAGCAGAGAGGGTTAGAATAAA 57.446 34.615 0.00 0.00 0.00 1.40
1777 3902 9.165057 AGATTAGCAGAGAGGGTTAGAATAAAT 57.835 33.333 0.00 0.00 0.00 1.40
1778 3903 9.213799 GATTAGCAGAGAGGGTTAGAATAAATG 57.786 37.037 0.00 0.00 0.00 2.32
1779 3904 5.934781 AGCAGAGAGGGTTAGAATAAATGG 58.065 41.667 0.00 0.00 0.00 3.16
1780 3905 5.066593 GCAGAGAGGGTTAGAATAAATGGG 58.933 45.833 0.00 0.00 0.00 4.00
1781 3906 5.625150 CAGAGAGGGTTAGAATAAATGGGG 58.375 45.833 0.00 0.00 0.00 4.96
1782 3907 4.665483 AGAGAGGGTTAGAATAAATGGGGG 59.335 45.833 0.00 0.00 0.00 5.40
1783 3908 4.652628 AGAGGGTTAGAATAAATGGGGGA 58.347 43.478 0.00 0.00 0.00 4.81
1784 3909 5.243566 AGAGGGTTAGAATAAATGGGGGAT 58.756 41.667 0.00 0.00 0.00 3.85
1785 3910 5.681479 AGAGGGTTAGAATAAATGGGGGATT 59.319 40.000 0.00 0.00 0.00 3.01
1786 3911 6.860480 AGAGGGTTAGAATAAATGGGGGATTA 59.140 38.462 0.00 0.00 0.00 1.75
1787 3912 6.860034 AGGGTTAGAATAAATGGGGGATTAC 58.140 40.000 0.00 0.00 0.00 1.89
1788 3913 6.014647 GGGTTAGAATAAATGGGGGATTACC 58.985 44.000 0.00 0.00 39.11 2.85
1789 3914 5.708697 GGTTAGAATAAATGGGGGATTACCG 59.291 44.000 0.00 0.00 41.60 4.02
1790 3915 6.301486 GTTAGAATAAATGGGGGATTACCGT 58.699 40.000 0.00 0.00 41.60 4.83
1791 3916 7.452562 GTTAGAATAAATGGGGGATTACCGTA 58.547 38.462 0.00 0.00 41.60 4.02
1792 3917 5.872963 AGAATAAATGGGGGATTACCGTAC 58.127 41.667 0.00 0.00 41.60 3.67
1793 3918 2.625695 AAATGGGGGATTACCGTACG 57.374 50.000 8.69 8.69 41.60 3.67
1794 3919 0.107268 AATGGGGGATTACCGTACGC 59.893 55.000 10.49 0.00 41.60 4.42
1795 3920 0.761702 ATGGGGGATTACCGTACGCT 60.762 55.000 10.49 0.00 41.60 5.07
1796 3921 1.068585 GGGGGATTACCGTACGCTG 59.931 63.158 10.49 0.00 41.60 5.18
1797 3922 1.394266 GGGGGATTACCGTACGCTGA 61.394 60.000 10.49 0.00 41.60 4.26
1798 3923 0.677842 GGGGATTACCGTACGCTGAT 59.322 55.000 10.49 0.00 41.60 2.90
1799 3924 1.336609 GGGGATTACCGTACGCTGATC 60.337 57.143 10.49 8.26 41.60 2.92
1800 3925 1.338973 GGGATTACCGTACGCTGATCA 59.661 52.381 10.49 0.00 36.97 2.92
1801 3926 2.391879 GGATTACCGTACGCTGATCAC 58.608 52.381 10.49 0.00 0.00 3.06
1802 3927 2.223641 GGATTACCGTACGCTGATCACA 60.224 50.000 10.49 0.00 0.00 3.58
1803 3928 3.552273 GGATTACCGTACGCTGATCACAT 60.552 47.826 10.49 0.00 0.00 3.21
1804 3929 2.485266 TACCGTACGCTGATCACATG 57.515 50.000 10.49 0.00 0.00 3.21
1805 3930 0.179111 ACCGTACGCTGATCACATGG 60.179 55.000 10.49 0.00 0.00 3.66
1806 3931 1.490693 CCGTACGCTGATCACATGGC 61.491 60.000 10.49 0.00 0.00 4.40
1807 3932 0.528466 CGTACGCTGATCACATGGCT 60.528 55.000 0.52 0.00 0.00 4.75
1808 3933 1.269051 CGTACGCTGATCACATGGCTA 60.269 52.381 0.52 0.00 0.00 3.93
1809 3934 2.608016 CGTACGCTGATCACATGGCTAT 60.608 50.000 0.52 0.00 0.00 2.97
1810 3935 1.875009 ACGCTGATCACATGGCTATG 58.125 50.000 8.74 8.74 40.24 2.23
1811 3936 1.154197 CGCTGATCACATGGCTATGG 58.846 55.000 15.11 3.76 38.66 2.74
1812 3937 1.531423 GCTGATCACATGGCTATGGG 58.469 55.000 15.11 10.86 39.14 4.00
1813 3938 1.531423 CTGATCACATGGCTATGGGC 58.469 55.000 15.11 0.00 37.63 5.36
1821 3946 1.447217 TGGCTATGGGCACATCTCG 59.553 57.895 3.67 0.00 43.20 4.04
1822 3947 1.963338 GGCTATGGGCACATCTCGC 60.963 63.158 3.67 7.01 44.01 5.03
1823 3948 1.227645 GCTATGGGCACATCTCGCA 60.228 57.895 3.67 0.00 41.35 5.10
1824 3949 1.226686 GCTATGGGCACATCTCGCAG 61.227 60.000 3.67 0.00 41.35 5.18
1825 3950 0.105593 CTATGGGCACATCTCGCAGT 59.894 55.000 3.67 0.00 38.53 4.40
1826 3951 0.179076 TATGGGCACATCTCGCAGTG 60.179 55.000 3.67 0.00 38.53 3.66
1827 3952 1.902765 ATGGGCACATCTCGCAGTGA 61.903 55.000 0.00 0.00 37.97 3.41
1828 3953 1.153289 GGGCACATCTCGCAGTGAT 60.153 57.895 0.00 0.00 41.83 3.06
1829 3954 1.156645 GGGCACATCTCGCAGTGATC 61.157 60.000 0.00 0.00 38.83 2.92
1830 3955 1.485838 GGCACATCTCGCAGTGATCG 61.486 60.000 0.00 0.00 38.83 3.69
1831 3956 0.526310 GCACATCTCGCAGTGATCGA 60.526 55.000 0.00 0.00 38.83 3.59
1832 3957 1.195347 CACATCTCGCAGTGATCGAC 58.805 55.000 0.00 0.00 38.83 4.20
1833 3958 1.098869 ACATCTCGCAGTGATCGACT 58.901 50.000 0.00 0.00 38.83 4.18
1991 4117 2.568090 GAACATGCAACCGGCCTG 59.432 61.111 0.00 0.00 43.89 4.85
2043 4171 3.194116 CACAAGCAGCCAGTCCAAAATAT 59.806 43.478 0.00 0.00 0.00 1.28
2066 4194 1.284657 CACGAGCAGCATCTTAGTGG 58.715 55.000 0.00 0.00 0.00 4.00
2119 4247 1.556451 CATGGCCTCCATCATCCGATA 59.444 52.381 3.32 0.00 43.15 2.92
2130 4258 0.367887 CATCCGATATGCATCACGCG 59.632 55.000 0.19 3.53 46.97 6.01
2134 4262 0.161658 CGATATGCATCACGCGGTTC 59.838 55.000 12.47 0.00 46.97 3.62
2141 4269 3.198953 ATCACGCGGTTCCCCCAAA 62.199 57.895 12.47 0.00 0.00 3.28
2232 4360 7.012610 TGTGTTCGATAGTCATCTTATTACGGA 59.987 37.037 0.00 0.00 37.40 4.69
2324 4452 1.288335 AGAAGGATCCCACGTAGGTCT 59.712 52.381 8.55 0.00 34.66 3.85
2398 4528 0.517316 CAAAACGAGCTAGGTGGCAC 59.483 55.000 9.70 9.70 34.17 5.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 6.488006 GTGTTACCCTCGGTGTATCTATCTAA 59.512 42.308 0.00 0.00 36.19 2.10
8 9 6.000219 GTGTTACCCTCGGTGTATCTATCTA 59.000 44.000 0.00 0.00 36.19 1.98
11 12 3.567164 CGTGTTACCCTCGGTGTATCTAT 59.433 47.826 0.00 0.00 36.19 1.98
25 26 0.604243 TGTGTCATGCCCGTGTTACC 60.604 55.000 0.00 0.00 0.00 2.85
88 89 5.877012 TGCTTCTTCATTTCTGGAGATGTAC 59.123 40.000 1.96 0.00 36.86 2.90
142 157 6.584563 GCGTTTTGTTAATAAAGCCTGATGAA 59.415 34.615 6.07 0.00 0.00 2.57
144 159 5.861251 TGCGTTTTGTTAATAAAGCCTGATG 59.139 36.000 6.07 0.00 0.00 3.07
145 160 5.861787 GTGCGTTTTGTTAATAAAGCCTGAT 59.138 36.000 6.07 0.00 0.00 2.90
146 161 5.216648 GTGCGTTTTGTTAATAAAGCCTGA 58.783 37.500 6.07 0.00 0.00 3.86
147 162 4.979197 TGTGCGTTTTGTTAATAAAGCCTG 59.021 37.500 6.07 0.00 0.00 4.85
148 163 5.189659 TGTGCGTTTTGTTAATAAAGCCT 57.810 34.783 6.07 0.00 0.00 4.58
149 164 4.384547 CCTGTGCGTTTTGTTAATAAAGCC 59.615 41.667 6.07 1.26 0.00 4.35
151 166 5.219633 AGCCTGTGCGTTTTGTTAATAAAG 58.780 37.500 0.00 0.00 44.33 1.85
152 167 5.189659 AGCCTGTGCGTTTTGTTAATAAA 57.810 34.783 0.00 0.00 44.33 1.40
154 169 4.755629 TGTAGCCTGTGCGTTTTGTTAATA 59.244 37.500 0.00 0.00 44.33 0.98
155 170 3.566322 TGTAGCCTGTGCGTTTTGTTAAT 59.434 39.130 0.00 0.00 44.33 1.40
169 184 5.178797 GCACCAGGTTATATATGTAGCCTG 58.821 45.833 25.93 25.93 46.60 4.85
172 187 4.817517 ACGCACCAGGTTATATATGTAGC 58.182 43.478 0.00 0.00 0.00 3.58
173 188 5.637810 CCAACGCACCAGGTTATATATGTAG 59.362 44.000 0.00 0.00 0.00 2.74
174 189 5.511716 CCCAACGCACCAGGTTATATATGTA 60.512 44.000 0.00 0.00 0.00 2.29
175 190 4.385825 CCAACGCACCAGGTTATATATGT 58.614 43.478 0.00 0.00 0.00 2.29
176 191 3.751175 CCCAACGCACCAGGTTATATATG 59.249 47.826 0.00 0.00 0.00 1.78
177 192 3.244770 CCCCAACGCACCAGGTTATATAT 60.245 47.826 0.00 0.00 0.00 0.86
178 193 2.105134 CCCCAACGCACCAGGTTATATA 59.895 50.000 0.00 0.00 0.00 0.86
180 195 0.253610 CCCCAACGCACCAGGTTATA 59.746 55.000 0.00 0.00 0.00 0.98
181 196 1.001393 CCCCAACGCACCAGGTTAT 60.001 57.895 0.00 0.00 0.00 1.89
182 197 2.432563 CCCCAACGCACCAGGTTA 59.567 61.111 0.00 0.00 0.00 2.85
183 198 4.596585 CCCCCAACGCACCAGGTT 62.597 66.667 0.00 0.00 0.00 3.50
213 279 1.227823 CTTGTGTGGACCAAGGCGA 60.228 57.895 0.00 0.00 36.50 5.54
218 284 1.210722 TGTAGCACTTGTGTGGACCAA 59.789 47.619 0.00 0.00 43.97 3.67
242 308 0.546122 TCTCGGGATGGAAACCATGG 59.454 55.000 11.19 11.19 45.26 3.66
243 309 1.475751 CCTCTCGGGATGGAAACCATG 60.476 57.143 8.06 0.00 45.26 3.66
245 311 1.910580 GCCTCTCGGGATGGAAACCA 61.911 60.000 5.11 0.00 37.23 3.67
246 312 1.153147 GCCTCTCGGGATGGAAACC 60.153 63.158 5.11 0.00 37.23 3.27
248 314 1.602237 GTGCCTCTCGGGATGGAAA 59.398 57.895 5.11 0.00 37.23 3.13
257 1351 0.670546 ACAATTGTCGGTGCCTCTCG 60.671 55.000 4.92 0.00 0.00 4.04
273 1367 4.529377 ACCTAGACCGTCCAAAATCTACAA 59.471 41.667 0.00 0.00 0.00 2.41
287 1381 1.221021 GGGCTCCAAACCTAGACCG 59.779 63.158 0.00 0.00 29.20 4.79
292 1386 3.087065 GCCTGGGCTCCAAACCTA 58.913 61.111 4.12 0.00 38.26 3.08
371 1538 1.002773 AGAACCACCTTAACGGCGATT 59.997 47.619 16.62 6.95 35.61 3.34
373 1540 0.393820 AAGAACCACCTTAACGGCGA 59.606 50.000 16.62 0.00 35.61 5.54
376 1543 2.841215 TGTGAAGAACCACCTTAACGG 58.159 47.619 0.00 0.00 36.26 4.44
378 1545 3.303791 CGCTTGTGAAGAACCACCTTAAC 60.304 47.826 0.00 0.00 36.26 2.01
496 1663 3.074412 ACACAACCAATTCCTTAGCGAG 58.926 45.455 0.00 0.00 0.00 5.03
499 1666 6.171213 AGTACTACACAACCAATTCCTTAGC 58.829 40.000 0.00 0.00 0.00 3.09
501 1668 6.499350 AGGAGTACTACACAACCAATTCCTTA 59.501 38.462 8.10 0.00 0.00 2.69
502 1669 5.309806 AGGAGTACTACACAACCAATTCCTT 59.690 40.000 8.10 0.00 0.00 3.36
503 1670 4.844655 AGGAGTACTACACAACCAATTCCT 59.155 41.667 8.10 0.00 0.00 3.36
522 1689 0.731417 CTTCAGGCGAATGCAAGGAG 59.269 55.000 0.00 0.00 45.35 3.69
523 1690 0.036732 ACTTCAGGCGAATGCAAGGA 59.963 50.000 0.00 0.00 45.35 3.36
524 1691 0.883833 AACTTCAGGCGAATGCAAGG 59.116 50.000 0.00 0.00 45.35 3.61
525 1692 1.536766 TCAACTTCAGGCGAATGCAAG 59.463 47.619 0.00 0.00 45.35 4.01
526 1693 1.536766 CTCAACTTCAGGCGAATGCAA 59.463 47.619 0.00 0.00 45.35 4.08
527 1694 1.159285 CTCAACTTCAGGCGAATGCA 58.841 50.000 0.00 0.00 45.35 3.96
528 1695 1.160137 ACTCAACTTCAGGCGAATGC 58.840 50.000 0.00 0.00 41.71 3.56
529 1696 3.325870 TGTACTCAACTTCAGGCGAATG 58.674 45.455 0.00 0.00 0.00 2.67
530 1697 3.006967 ACTGTACTCAACTTCAGGCGAAT 59.993 43.478 0.00 0.00 32.92 3.34
531 1698 2.364324 ACTGTACTCAACTTCAGGCGAA 59.636 45.455 0.00 0.00 32.92 4.70
532 1699 1.961394 ACTGTACTCAACTTCAGGCGA 59.039 47.619 0.00 0.00 32.92 5.54
533 1700 2.440539 ACTGTACTCAACTTCAGGCG 57.559 50.000 0.00 0.00 32.92 5.52
534 1701 3.495001 GTGAACTGTACTCAACTTCAGGC 59.505 47.826 0.00 0.00 32.92 4.85
558 1725 1.539388 CGCTACATTTGCCAGGAACAA 59.461 47.619 0.00 0.00 0.00 2.83
573 1740 1.250476 CGCAATTTTCACAGCGCTAC 58.750 50.000 10.99 0.00 43.80 3.58
578 1745 1.269517 TGGGTTCGCAATTTTCACAGC 60.270 47.619 0.00 0.00 0.00 4.40
660 1830 6.698766 GCATCTTTGGAATTATTACAGGCAAG 59.301 38.462 0.00 0.00 0.00 4.01
698 1868 0.248621 GGCGAATGCAAGGAAATCCG 60.249 55.000 0.00 0.00 45.35 4.18
774 2780 9.274206 GTTTCCAAATATGTAGTATCCTCTTCC 57.726 37.037 0.00 0.00 0.00 3.46
870 2953 6.662865 TCTTTGTCATTAAAATGCCTTCCA 57.337 33.333 0.00 0.00 36.36 3.53
887 2970 5.885465 AGAGAGGGTGAATCAAATCTTTGT 58.115 37.500 2.82 0.00 39.18 2.83
912 2995 8.156820 TCTGGTCCTTGTATGGTCATTTATATG 58.843 37.037 0.00 0.00 0.00 1.78
920 3003 3.184382 TCTCTGGTCCTTGTATGGTCA 57.816 47.619 0.00 0.00 0.00 4.02
924 3007 4.099573 ACGGTAATCTCTGGTCCTTGTATG 59.900 45.833 0.00 0.00 0.00 2.39
995 3079 1.746615 CTCTTGGGTGCCATGACGG 60.747 63.158 0.00 0.00 34.63 4.79
1069 3153 4.021192 TGCATAGCAGGACGATGATGATAA 60.021 41.667 0.00 0.00 33.53 1.75
1113 3197 8.417780 TTGGAAACACATGAATAAAACAACAG 57.582 30.769 0.00 0.00 42.67 3.16
1148 3236 8.361139 CAAATACCCGATACAAACTCTAGAGAT 58.639 37.037 26.57 12.12 0.00 2.75
1162 3250 1.792115 ACGGACCCAAATACCCGATA 58.208 50.000 6.66 0.00 44.29 2.92
1257 3368 3.108881 CGATGATCCATATAAGTCGCGG 58.891 50.000 6.13 0.00 0.00 6.46
1260 3371 6.049263 TCGATCGATGATCCATATAAGTCG 57.951 41.667 15.15 0.00 35.83 4.18
1549 3672 5.012354 TGGATTACCGGTTTTAGAGTTGAGT 59.988 40.000 15.04 0.00 39.42 3.41
1595 3719 3.244770 TGAGTAGGGGGTTGATTTGTGAC 60.245 47.826 0.00 0.00 0.00 3.67
1635 3760 2.663606 GCAGTAAACGTAGCCAAAACCG 60.664 50.000 0.00 0.00 0.00 4.44
1662 3787 1.219522 AAGCTGACGTGGCGTTGTAC 61.220 55.000 0.00 0.00 41.37 2.90
1663 3788 1.068417 AAGCTGACGTGGCGTTGTA 59.932 52.632 0.00 0.00 41.37 2.41
1690 3815 8.747666 CACGAAAATAACCTTTCAAAAATTCGA 58.252 29.630 0.00 0.00 39.20 3.71
1692 3817 9.631639 CACACGAAAATAACCTTTCAAAAATTC 57.368 29.630 0.00 0.00 35.43 2.17
1704 3829 7.863877 ACCTTCATTAAACACACGAAAATAACC 59.136 33.333 0.00 0.00 0.00 2.85
1715 3840 3.886505 GGACCACACCTTCATTAAACACA 59.113 43.478 0.00 0.00 0.00 3.72
1716 3841 3.886505 TGGACCACACCTTCATTAAACAC 59.113 43.478 0.00 0.00 0.00 3.32
1717 3842 3.886505 GTGGACCACACCTTCATTAAACA 59.113 43.478 20.14 0.00 44.49 2.83
1718 3843 4.499037 GTGGACCACACCTTCATTAAAC 57.501 45.455 20.14 0.00 44.49 2.01
1729 3854 2.030562 CTGACCCGTGGACCACAC 59.969 66.667 24.18 12.18 46.78 3.82
1730 3855 3.936203 GCTGACCCGTGGACCACA 61.936 66.667 24.18 3.49 33.40 4.17
1731 3856 1.614241 ATAGCTGACCCGTGGACCAC 61.614 60.000 15.13 15.13 0.00 4.16
1732 3857 0.032912 TATAGCTGACCCGTGGACCA 60.033 55.000 0.00 0.00 0.00 4.02
1733 3858 0.674534 CTATAGCTGACCCGTGGACC 59.325 60.000 0.00 0.00 0.00 4.46
1734 3859 1.688772 TCTATAGCTGACCCGTGGAC 58.311 55.000 0.00 0.00 0.00 4.02
1735 3860 2.677542 ATCTATAGCTGACCCGTGGA 57.322 50.000 0.00 0.00 0.00 4.02
1736 3861 3.367498 GCTAATCTATAGCTGACCCGTGG 60.367 52.174 0.00 0.00 37.56 4.94
1737 3862 3.255888 TGCTAATCTATAGCTGACCCGTG 59.744 47.826 0.00 0.00 40.95 4.94
1738 3863 3.497332 TGCTAATCTATAGCTGACCCGT 58.503 45.455 0.00 0.00 40.95 5.28
1739 3864 3.759086 TCTGCTAATCTATAGCTGACCCG 59.241 47.826 11.47 0.00 41.43 5.28
1740 3865 5.013547 TCTCTGCTAATCTATAGCTGACCC 58.986 45.833 11.47 0.00 41.43 4.46
1741 3866 5.125417 CCTCTCTGCTAATCTATAGCTGACC 59.875 48.000 11.47 0.00 41.43 4.02
1742 3867 5.125417 CCCTCTCTGCTAATCTATAGCTGAC 59.875 48.000 11.47 0.00 41.43 3.51
1743 3868 5.222233 ACCCTCTCTGCTAATCTATAGCTGA 60.222 44.000 13.87 13.87 43.15 4.26
1744 3869 5.016173 ACCCTCTCTGCTAATCTATAGCTG 58.984 45.833 0.00 8.20 40.95 4.24
1745 3870 5.269554 ACCCTCTCTGCTAATCTATAGCT 57.730 43.478 8.73 0.00 40.95 3.32
1746 3871 5.993748 AACCCTCTCTGCTAATCTATAGC 57.006 43.478 0.00 0.59 40.76 2.97
1747 3872 8.871629 TTCTAACCCTCTCTGCTAATCTATAG 57.128 38.462 0.00 0.00 0.00 1.31
1749 3874 9.830186 TTATTCTAACCCTCTCTGCTAATCTAT 57.170 33.333 0.00 0.00 0.00 1.98
1750 3875 9.656323 TTTATTCTAACCCTCTCTGCTAATCTA 57.344 33.333 0.00 0.00 0.00 1.98
1751 3876 8.554490 TTTATTCTAACCCTCTCTGCTAATCT 57.446 34.615 0.00 0.00 0.00 2.40
1752 3877 9.213799 CATTTATTCTAACCCTCTCTGCTAATC 57.786 37.037 0.00 0.00 0.00 1.75
1753 3878 8.160106 CCATTTATTCTAACCCTCTCTGCTAAT 58.840 37.037 0.00 0.00 0.00 1.73
1754 3879 7.420214 CCCATTTATTCTAACCCTCTCTGCTAA 60.420 40.741 0.00 0.00 0.00 3.09
1755 3880 6.043243 CCCATTTATTCTAACCCTCTCTGCTA 59.957 42.308 0.00 0.00 0.00 3.49
1756 3881 5.163152 CCCATTTATTCTAACCCTCTCTGCT 60.163 44.000 0.00 0.00 0.00 4.24
1757 3882 5.066593 CCCATTTATTCTAACCCTCTCTGC 58.933 45.833 0.00 0.00 0.00 4.26
1758 3883 5.456763 CCCCCATTTATTCTAACCCTCTCTG 60.457 48.000 0.00 0.00 0.00 3.35
1759 3884 4.665483 CCCCCATTTATTCTAACCCTCTCT 59.335 45.833 0.00 0.00 0.00 3.10
1760 3885 4.663592 TCCCCCATTTATTCTAACCCTCTC 59.336 45.833 0.00 0.00 0.00 3.20
1761 3886 4.652628 TCCCCCATTTATTCTAACCCTCT 58.347 43.478 0.00 0.00 0.00 3.69
1762 3887 5.600669 ATCCCCCATTTATTCTAACCCTC 57.399 43.478 0.00 0.00 0.00 4.30
1763 3888 6.183361 GGTAATCCCCCATTTATTCTAACCCT 60.183 42.308 0.00 0.00 0.00 4.34
1764 3889 6.014647 GGTAATCCCCCATTTATTCTAACCC 58.985 44.000 0.00 0.00 0.00 4.11
1765 3890 5.708697 CGGTAATCCCCCATTTATTCTAACC 59.291 44.000 0.00 0.00 0.00 2.85
1766 3891 6.301486 ACGGTAATCCCCCATTTATTCTAAC 58.699 40.000 0.00 0.00 0.00 2.34
1767 3892 6.518516 ACGGTAATCCCCCATTTATTCTAA 57.481 37.500 0.00 0.00 0.00 2.10
1768 3893 6.295236 CGTACGGTAATCCCCCATTTATTCTA 60.295 42.308 7.57 0.00 0.00 2.10
1769 3894 5.511888 CGTACGGTAATCCCCCATTTATTCT 60.512 44.000 7.57 0.00 0.00 2.40
1770 3895 4.692155 CGTACGGTAATCCCCCATTTATTC 59.308 45.833 7.57 0.00 0.00 1.75
1771 3896 4.644498 CGTACGGTAATCCCCCATTTATT 58.356 43.478 7.57 0.00 0.00 1.40
1772 3897 3.557686 GCGTACGGTAATCCCCCATTTAT 60.558 47.826 18.39 0.00 0.00 1.40
1773 3898 2.224257 GCGTACGGTAATCCCCCATTTA 60.224 50.000 18.39 0.00 0.00 1.40
1774 3899 1.475571 GCGTACGGTAATCCCCCATTT 60.476 52.381 18.39 0.00 0.00 2.32
1775 3900 0.107268 GCGTACGGTAATCCCCCATT 59.893 55.000 18.39 0.00 0.00 3.16
1776 3901 0.761702 AGCGTACGGTAATCCCCCAT 60.762 55.000 19.91 0.00 0.00 4.00
1777 3902 1.381599 AGCGTACGGTAATCCCCCA 60.382 57.895 19.91 0.00 0.00 4.96
1778 3903 1.068585 CAGCGTACGGTAATCCCCC 59.931 63.158 20.88 0.00 0.00 5.40
1779 3904 0.677842 ATCAGCGTACGGTAATCCCC 59.322 55.000 20.88 0.00 0.00 4.81
1780 3905 1.338973 TGATCAGCGTACGGTAATCCC 59.661 52.381 23.97 11.41 0.00 3.85
1781 3906 2.223641 TGTGATCAGCGTACGGTAATCC 60.224 50.000 23.97 16.62 0.00 3.01
1782 3907 3.074504 TGTGATCAGCGTACGGTAATC 57.925 47.619 21.08 21.08 0.00 1.75
1783 3908 3.381045 CATGTGATCAGCGTACGGTAAT 58.619 45.455 20.88 11.93 0.00 1.89
1784 3909 2.480587 CCATGTGATCAGCGTACGGTAA 60.481 50.000 20.88 6.11 0.00 2.85
1785 3910 1.066454 CCATGTGATCAGCGTACGGTA 59.934 52.381 20.88 9.19 0.00 4.02
1786 3911 0.179111 CCATGTGATCAGCGTACGGT 60.179 55.000 15.34 15.34 0.00 4.83
1787 3912 1.490693 GCCATGTGATCAGCGTACGG 61.491 60.000 18.39 0.69 0.00 4.02
1788 3913 0.528466 AGCCATGTGATCAGCGTACG 60.528 55.000 11.84 11.84 0.00 3.67
1789 3914 2.509052 TAGCCATGTGATCAGCGTAC 57.491 50.000 0.00 0.00 0.00 3.67
1790 3915 2.289010 CCATAGCCATGTGATCAGCGTA 60.289 50.000 0.00 0.00 0.00 4.42
1791 3916 1.541889 CCATAGCCATGTGATCAGCGT 60.542 52.381 0.00 0.00 0.00 5.07
1792 3917 1.154197 CCATAGCCATGTGATCAGCG 58.846 55.000 0.00 0.00 0.00 5.18
1793 3918 1.531423 CCCATAGCCATGTGATCAGC 58.469 55.000 0.00 0.00 0.00 4.26
1794 3919 1.202842 TGCCCATAGCCATGTGATCAG 60.203 52.381 0.00 0.00 42.71 2.90
1795 3920 0.845337 TGCCCATAGCCATGTGATCA 59.155 50.000 0.00 0.00 42.71 2.92
1796 3921 1.242076 GTGCCCATAGCCATGTGATC 58.758 55.000 0.00 0.00 42.71 2.92
1797 3922 0.552363 TGTGCCCATAGCCATGTGAT 59.448 50.000 0.00 0.00 42.71 3.06
1798 3923 0.552363 ATGTGCCCATAGCCATGTGA 59.448 50.000 0.00 0.00 42.71 3.58
1799 3924 0.956633 GATGTGCCCATAGCCATGTG 59.043 55.000 0.00 0.00 42.71 3.21
1800 3925 0.848735 AGATGTGCCCATAGCCATGT 59.151 50.000 0.00 0.00 42.71 3.21
1801 3926 1.531423 GAGATGTGCCCATAGCCATG 58.469 55.000 0.00 0.00 42.71 3.66
1802 3927 0.035881 CGAGATGTGCCCATAGCCAT 59.964 55.000 0.00 0.00 42.71 4.40
1803 3928 1.447217 CGAGATGTGCCCATAGCCA 59.553 57.895 0.00 0.00 42.71 4.75
1804 3929 1.963338 GCGAGATGTGCCCATAGCC 60.963 63.158 0.00 0.00 42.71 3.93
1805 3930 1.226686 CTGCGAGATGTGCCCATAGC 61.227 60.000 0.00 0.00 44.14 2.97
1806 3931 0.105593 ACTGCGAGATGTGCCCATAG 59.894 55.000 0.00 0.00 0.00 2.23
1807 3932 0.179076 CACTGCGAGATGTGCCCATA 60.179 55.000 0.00 0.00 0.00 2.74
1808 3933 1.450848 CACTGCGAGATGTGCCCAT 60.451 57.895 0.00 0.00 0.00 4.00
1809 3934 1.902765 ATCACTGCGAGATGTGCCCA 61.903 55.000 0.00 0.00 34.49 5.36
1810 3935 1.153289 ATCACTGCGAGATGTGCCC 60.153 57.895 0.00 0.00 34.49 5.36
1811 3936 1.485838 CGATCACTGCGAGATGTGCC 61.486 60.000 0.00 0.00 34.49 5.01
1812 3937 0.526310 TCGATCACTGCGAGATGTGC 60.526 55.000 0.00 0.00 34.49 4.57
1813 3938 1.195347 GTCGATCACTGCGAGATGTG 58.805 55.000 0.00 0.00 38.59 3.21
1814 3939 1.098869 AGTCGATCACTGCGAGATGT 58.901 50.000 0.00 0.00 38.59 3.06
1815 3940 1.475045 CAGTCGATCACTGCGAGATG 58.525 55.000 10.89 0.00 46.30 2.90
1816 3941 3.934521 CAGTCGATCACTGCGAGAT 57.065 52.632 10.89 0.00 46.30 2.75
1868 3993 2.658373 TTAAAGCCAGACGCATCGTA 57.342 45.000 0.00 0.00 41.37 3.43
1991 4117 5.347364 GTGTTGCTGTCTTTCTCTATCAGAC 59.653 44.000 0.00 0.00 37.95 3.51
1992 4118 5.244851 AGTGTTGCTGTCTTTCTCTATCAGA 59.755 40.000 0.00 0.00 0.00 3.27
2043 4171 0.894835 TAAGATGCTGCTCGTGGTGA 59.105 50.000 0.00 0.00 0.00 4.02
2066 4194 0.179189 CGATTCAGTTTGAAGCCCGC 60.179 55.000 1.93 0.00 39.42 6.13
2119 4247 2.824041 GGGAACCGCGTGATGCAT 60.824 61.111 4.92 0.00 46.97 3.96
2134 4262 0.611896 GACATGGACACCTTTGGGGG 60.612 60.000 0.00 0.00 42.98 5.40
2324 4452 1.140852 CTGAATCCCCATACGGCTTCA 59.859 52.381 0.00 0.00 33.26 3.02


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

AutoCloner maintained by Alex Coulton.