Multiple sequence alignment - TraesCS3A01G247500

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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 TraesCS3A01G247500 chr3A 100.000 2996 0 0 1 2996 465541950 465544945 0.000000e+00 5533.0
1 TraesCS3A01G247500 chr3B 92.947 2467 107 30 548 2994 437805488 437803069 0.000000e+00 3530.0
2 TraesCS3A01G247500 chr3B 92.920 339 16 2 198 534 437805803 437805471 1.250000e-133 486.0
3 TraesCS3A01G247500 chr3B 76.761 142 19 8 2290 2430 16613382 16613510 1.930000e-07 67.6
4 TraesCS3A01G247500 chr3D 92.269 1979 73 34 548 2507 339253698 339251781 0.000000e+00 2734.0
5 TraesCS3A01G247500 chr3D 94.567 497 25 2 2500 2994 339250477 339249981 0.000000e+00 767.0
6 TraesCS3A01G247500 chr3D 93.612 407 20 5 131 534 339254084 339253681 1.190000e-168 603.0
7 TraesCS3A01G247500 chr5D 78.977 176 24 11 2442 2609 448131637 448131807 1.140000e-19 108.0
8 TraesCS3A01G247500 chr6B 77.473 182 27 8 2442 2610 693072488 693072668 2.460000e-16 97.1
9 TraesCS3A01G247500 chr6B 79.562 137 16 7 2455 2583 232322830 232322698 1.480000e-13 87.9
10 TraesCS3A01G247500 chr6A 77.473 182 26 9 2442 2610 602635349 602635528 8.840000e-16 95.3
11 TraesCS3A01G247500 chr6A 90.000 60 5 1 2525 2583 173113396 173113337 3.200000e-10 76.8
12 TraesCS3A01G247500 chr1D 78.571 154 21 8 2283 2430 418643484 418643631 1.140000e-14 91.6
13 TraesCS3A01G247500 chr5A 80.800 125 10 9 2305 2425 334746838 334746952 5.320000e-13 86.1
14 TraesCS3A01G247500 chr5A 80.328 122 8 10 2307 2425 450883872 450883764 8.900000e-11 78.7
15 TraesCS3A01G247500 chr5B 79.487 117 12 8 2319 2425 411094512 411094398 4.140000e-09 73.1
16 TraesCS3A01G247500 chr5B 78.226 124 14 6 2305 2425 284002388 284002501 1.930000e-07 67.6
17 TraesCS3A01G247500 chr1B 77.876 113 18 6 2320 2425 45818396 45818508 2.490000e-06 63.9
18 TraesCS3A01G247500 chr2B 90.909 44 4 0 2218 2261 161937350 161937393 3.230000e-05 60.2


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 TraesCS3A01G247500 chr3A 465541950 465544945 2995 False 5533 5533 100.000000 1 2996 1 chr3A.!!$F1 2995
1 TraesCS3A01G247500 chr3B 437803069 437805803 2734 True 2008 3530 92.933500 198 2994 2 chr3B.!!$R1 2796
2 TraesCS3A01G247500 chr3D 339249981 339254084 4103 True 1368 2734 93.482667 131 2994 3 chr3D.!!$R1 2863

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
725 736 0.034616 CACATCTGCCTAGCCTAGCC 59.965 60.000 0.0 0.0 0.00 3.93 F
762 777 0.040499 TATGGAAACCTTGTGGGGCC 59.960 55.000 0.0 0.0 40.03 5.80 F
1516 1531 1.007387 GCCGCCAAGAACAACAAGG 60.007 57.895 0.0 0.0 0.00 3.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1692 1707 0.178767 CATTCGGATCCACAGCCTCA 59.821 55.0 13.41 0.0 0.0 3.86 R
1908 1923 0.876342 CCTCCGGCAGATCGTTAAGC 60.876 60.0 0.00 0.0 0.0 3.09 R
2778 4132 0.674581 CATGTGCTTCTTCTGGGCGA 60.675 55.0 0.00 0.0 0.0 5.54 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
25 26 8.592105 GGCAGCAAATTAATGATATGCTTTAA 57.408 30.769 12.82 0.00 44.43 1.52
26 27 9.211485 GGCAGCAAATTAATGATATGCTTTAAT 57.789 29.630 12.82 0.00 44.43 1.40
36 37 8.954834 AATGATATGCTTTAATTATCCACCCA 57.045 30.769 0.00 0.00 0.00 4.51
37 38 8.585471 ATGATATGCTTTAATTATCCACCCAG 57.415 34.615 0.00 0.00 0.00 4.45
38 39 7.754624 TGATATGCTTTAATTATCCACCCAGA 58.245 34.615 0.00 0.00 0.00 3.86
39 40 8.224025 TGATATGCTTTAATTATCCACCCAGAA 58.776 33.333 0.00 0.00 0.00 3.02
40 41 9.247861 GATATGCTTTAATTATCCACCCAGAAT 57.752 33.333 0.00 0.00 0.00 2.40
41 42 7.919385 ATGCTTTAATTATCCACCCAGAATT 57.081 32.000 0.00 0.00 0.00 2.17
42 43 7.346751 TGCTTTAATTATCCACCCAGAATTC 57.653 36.000 0.00 0.00 0.00 2.17
43 44 6.894654 TGCTTTAATTATCCACCCAGAATTCA 59.105 34.615 8.44 0.00 0.00 2.57
44 45 7.564660 TGCTTTAATTATCCACCCAGAATTCAT 59.435 33.333 8.44 0.00 0.00 2.57
45 46 9.077885 GCTTTAATTATCCACCCAGAATTCATA 57.922 33.333 8.44 0.00 0.00 2.15
49 50 8.655935 AATTATCCACCCAGAATTCATATTCC 57.344 34.615 8.44 0.00 40.91 3.01
50 51 5.937492 ATCCACCCAGAATTCATATTCCT 57.063 39.130 8.44 0.00 40.91 3.36
51 52 8.518720 TTATCCACCCAGAATTCATATTCCTA 57.481 34.615 8.44 0.00 40.91 2.94
52 53 6.187727 TCCACCCAGAATTCATATTCCTAC 57.812 41.667 8.44 0.00 40.91 3.18
53 54 5.911178 TCCACCCAGAATTCATATTCCTACT 59.089 40.000 8.44 0.00 40.91 2.57
54 55 6.043243 TCCACCCAGAATTCATATTCCTACTC 59.957 42.308 8.44 0.00 40.91 2.59
55 56 6.183361 CCACCCAGAATTCATATTCCTACTCA 60.183 42.308 8.44 0.00 40.91 3.41
56 57 7.282585 CACCCAGAATTCATATTCCTACTCAA 58.717 38.462 8.44 0.00 40.91 3.02
57 58 7.227512 CACCCAGAATTCATATTCCTACTCAAC 59.772 40.741 8.44 0.00 40.91 3.18
58 59 7.127955 ACCCAGAATTCATATTCCTACTCAACT 59.872 37.037 8.44 0.00 40.91 3.16
59 60 8.651389 CCCAGAATTCATATTCCTACTCAACTA 58.349 37.037 8.44 0.00 40.91 2.24
67 68 9.470399 TCATATTCCTACTCAACTAACAGTACA 57.530 33.333 0.00 0.00 0.00 2.90
70 71 8.828688 ATTCCTACTCAACTAACAGTACAAAC 57.171 34.615 0.00 0.00 0.00 2.93
71 72 6.441274 TCCTACTCAACTAACAGTACAAACG 58.559 40.000 0.00 0.00 0.00 3.60
72 73 6.039717 TCCTACTCAACTAACAGTACAAACGT 59.960 38.462 0.00 0.00 0.00 3.99
73 74 6.698766 CCTACTCAACTAACAGTACAAACGTT 59.301 38.462 0.00 0.00 0.00 3.99
74 75 6.579491 ACTCAACTAACAGTACAAACGTTC 57.421 37.500 0.00 0.00 0.00 3.95
75 76 6.101332 ACTCAACTAACAGTACAAACGTTCA 58.899 36.000 0.00 0.00 0.00 3.18
76 77 6.759827 ACTCAACTAACAGTACAAACGTTCAT 59.240 34.615 0.00 0.00 0.00 2.57
77 78 6.939627 TCAACTAACAGTACAAACGTTCATG 58.060 36.000 0.00 0.00 0.00 3.07
78 79 5.338614 ACTAACAGTACAAACGTTCATGC 57.661 39.130 0.00 0.00 0.00 4.06
79 80 4.812091 ACTAACAGTACAAACGTTCATGCA 59.188 37.500 0.00 0.00 0.00 3.96
80 81 3.602390 ACAGTACAAACGTTCATGCAC 57.398 42.857 0.00 0.00 0.00 4.57
81 82 2.033236 ACAGTACAAACGTTCATGCACG 60.033 45.455 16.39 16.39 46.04 5.34
90 91 3.925688 CGTTCATGCACGTATTTAGCT 57.074 42.857 9.85 0.00 35.34 3.32
92 93 4.994734 CGTTCATGCACGTATTTAGCTAG 58.005 43.478 9.85 0.00 35.34 3.42
93 94 4.606232 CGTTCATGCACGTATTTAGCTAGC 60.606 45.833 9.85 6.62 35.34 3.42
94 95 3.390135 TCATGCACGTATTTAGCTAGCC 58.610 45.455 12.13 0.00 0.00 3.93
95 96 1.847818 TGCACGTATTTAGCTAGCCG 58.152 50.000 12.13 9.23 0.00 5.52
96 97 0.507358 GCACGTATTTAGCTAGCCGC 59.493 55.000 12.13 0.00 39.57 6.53
108 109 2.052157 GCTAGCCGCTACATAGAAACG 58.948 52.381 2.29 0.00 35.14 3.60
109 110 2.543238 GCTAGCCGCTACATAGAAACGT 60.543 50.000 2.29 0.00 35.14 3.99
110 111 2.667473 AGCCGCTACATAGAAACGTT 57.333 45.000 0.00 0.00 0.00 3.99
111 112 2.268298 AGCCGCTACATAGAAACGTTG 58.732 47.619 0.00 0.00 0.00 4.10
112 113 2.094390 AGCCGCTACATAGAAACGTTGA 60.094 45.455 0.00 0.00 0.00 3.18
113 114 2.669434 GCCGCTACATAGAAACGTTGAA 59.331 45.455 0.00 0.00 0.00 2.69
114 115 3.241995 GCCGCTACATAGAAACGTTGAAG 60.242 47.826 0.00 0.00 0.00 3.02
115 116 3.306166 CCGCTACATAGAAACGTTGAAGG 59.694 47.826 0.00 0.00 0.00 3.46
116 117 4.171005 CGCTACATAGAAACGTTGAAGGA 58.829 43.478 0.00 0.00 0.00 3.36
117 118 4.624024 CGCTACATAGAAACGTTGAAGGAA 59.376 41.667 0.00 0.00 0.00 3.36
118 119 5.291128 CGCTACATAGAAACGTTGAAGGAAT 59.709 40.000 0.00 0.00 0.00 3.01
119 120 6.183360 CGCTACATAGAAACGTTGAAGGAATT 60.183 38.462 0.00 0.00 0.00 2.17
120 121 6.961554 GCTACATAGAAACGTTGAAGGAATTG 59.038 38.462 0.00 0.00 0.00 2.32
121 122 6.877611 ACATAGAAACGTTGAAGGAATTGT 57.122 33.333 0.00 0.00 0.00 2.71
122 123 7.272037 ACATAGAAACGTTGAAGGAATTGTT 57.728 32.000 0.00 0.00 0.00 2.83
123 124 8.385898 ACATAGAAACGTTGAAGGAATTGTTA 57.614 30.769 0.00 0.00 0.00 2.41
124 125 8.842280 ACATAGAAACGTTGAAGGAATTGTTAA 58.158 29.630 0.00 0.00 0.00 2.01
125 126 9.840427 CATAGAAACGTTGAAGGAATTGTTAAT 57.160 29.630 0.00 0.00 0.00 1.40
127 128 7.368059 AGAAACGTTGAAGGAATTGTTAATCC 58.632 34.615 0.00 0.00 35.88 3.01
128 129 5.638596 ACGTTGAAGGAATTGTTAATCCC 57.361 39.130 0.00 0.00 36.31 3.85
129 130 4.155280 ACGTTGAAGGAATTGTTAATCCCG 59.845 41.667 0.00 0.00 36.31 5.14
130 131 4.421058 GTTGAAGGAATTGTTAATCCCGC 58.579 43.478 0.00 0.00 36.31 6.13
131 132 3.691575 TGAAGGAATTGTTAATCCCGCA 58.308 40.909 0.00 0.00 36.31 5.69
132 133 4.082845 TGAAGGAATTGTTAATCCCGCAA 58.917 39.130 0.00 0.00 36.31 4.85
133 134 4.524714 TGAAGGAATTGTTAATCCCGCAAA 59.475 37.500 0.00 0.00 36.31 3.68
134 135 5.011125 TGAAGGAATTGTTAATCCCGCAAAA 59.989 36.000 0.00 0.00 36.31 2.44
135 136 5.675684 AGGAATTGTTAATCCCGCAAAAT 57.324 34.783 0.00 0.00 36.31 1.82
136 137 6.783708 AGGAATTGTTAATCCCGCAAAATA 57.216 33.333 0.00 0.00 36.31 1.40
137 138 6.569780 AGGAATTGTTAATCCCGCAAAATAC 58.430 36.000 0.00 0.00 36.31 1.89
138 139 6.153680 AGGAATTGTTAATCCCGCAAAATACA 59.846 34.615 0.00 0.00 36.31 2.29
139 140 6.983890 GGAATTGTTAATCCCGCAAAATACAT 59.016 34.615 0.00 0.00 0.00 2.29
140 141 8.138712 GGAATTGTTAATCCCGCAAAATACATA 58.861 33.333 0.00 0.00 0.00 2.29
141 142 9.691362 GAATTGTTAATCCCGCAAAATACATAT 57.309 29.630 0.00 0.00 0.00 1.78
167 168 5.292765 CACTACACATAAGCGATGAAGGAT 58.707 41.667 8.45 0.00 39.06 3.24
293 295 1.733402 TTGGTGCCACAAAAGGAGCG 61.733 55.000 0.00 0.00 0.00 5.03
313 315 0.392193 GAGGTGTGGTGAGCTGGATG 60.392 60.000 0.00 0.00 0.00 3.51
318 320 1.352017 TGTGGTGAGCTGGATGTGATT 59.648 47.619 0.00 0.00 0.00 2.57
322 324 3.455543 TGGTGAGCTGGATGTGATTATCA 59.544 43.478 0.00 0.00 0.00 2.15
326 328 4.281688 TGAGCTGGATGTGATTATCATCGA 59.718 41.667 0.00 0.00 41.54 3.59
371 373 8.228206 ACATATGTTCATTCTCCCTCTACTCTA 58.772 37.037 1.41 0.00 0.00 2.43
445 447 6.148480 GGAGATTGGTTCACTATCATATGTGC 59.852 42.308 1.90 0.00 34.34 4.57
454 456 7.288810 TCACTATCATATGTGCTGTATGACA 57.711 36.000 1.90 0.00 40.32 3.58
534 538 5.952064 CGCGACTAGTATTGTGTTGATTTTC 59.048 40.000 0.00 0.00 0.00 2.29
535 539 6.183360 CGCGACTAGTATTGTGTTGATTTTCT 60.183 38.462 0.00 0.00 0.00 2.52
536 540 7.519002 GCGACTAGTATTGTGTTGATTTTCTT 58.481 34.615 0.00 0.00 0.00 2.52
537 541 8.015658 GCGACTAGTATTGTGTTGATTTTCTTT 58.984 33.333 0.00 0.00 0.00 2.52
538 542 9.878599 CGACTAGTATTGTGTTGATTTTCTTTT 57.121 29.630 0.00 0.00 0.00 2.27
542 546 7.840489 AGTATTGTGTTGATTTTCTTTTTGCG 58.160 30.769 0.00 0.00 0.00 4.85
543 547 5.462034 TTGTGTTGATTTTCTTTTTGCGG 57.538 34.783 0.00 0.00 0.00 5.69
544 548 3.868077 TGTGTTGATTTTCTTTTTGCGGG 59.132 39.130 0.00 0.00 0.00 6.13
545 549 3.247411 GTGTTGATTTTCTTTTTGCGGGG 59.753 43.478 0.00 0.00 0.00 5.73
546 550 3.118592 TGTTGATTTTCTTTTTGCGGGGT 60.119 39.130 0.00 0.00 0.00 4.95
547 551 3.828875 TGATTTTCTTTTTGCGGGGTT 57.171 38.095 0.00 0.00 0.00 4.11
548 552 4.939052 TGATTTTCTTTTTGCGGGGTTA 57.061 36.364 0.00 0.00 0.00 2.85
549 553 4.877282 TGATTTTCTTTTTGCGGGGTTAG 58.123 39.130 0.00 0.00 0.00 2.34
550 554 4.342665 TGATTTTCTTTTTGCGGGGTTAGT 59.657 37.500 0.00 0.00 0.00 2.24
551 555 5.535406 TGATTTTCTTTTTGCGGGGTTAGTA 59.465 36.000 0.00 0.00 0.00 1.82
552 556 6.209788 TGATTTTCTTTTTGCGGGGTTAGTAT 59.790 34.615 0.00 0.00 0.00 2.12
553 557 6.408107 TTTTCTTTTTGCGGGGTTAGTATT 57.592 33.333 0.00 0.00 0.00 1.89
554 558 5.379732 TTCTTTTTGCGGGGTTAGTATTG 57.620 39.130 0.00 0.00 0.00 1.90
555 559 4.400120 TCTTTTTGCGGGGTTAGTATTGT 58.600 39.130 0.00 0.00 0.00 2.71
556 560 4.216687 TCTTTTTGCGGGGTTAGTATTGTG 59.783 41.667 0.00 0.00 0.00 3.33
557 561 2.863132 TTGCGGGGTTAGTATTGTGT 57.137 45.000 0.00 0.00 0.00 3.72
558 562 2.863132 TGCGGGGTTAGTATTGTGTT 57.137 45.000 0.00 0.00 0.00 3.32
559 563 2.428491 TGCGGGGTTAGTATTGTGTTG 58.572 47.619 0.00 0.00 0.00 3.33
560 564 2.038689 TGCGGGGTTAGTATTGTGTTGA 59.961 45.455 0.00 0.00 0.00 3.18
561 565 3.275999 GCGGGGTTAGTATTGTGTTGAT 58.724 45.455 0.00 0.00 0.00 2.57
562 566 3.692593 GCGGGGTTAGTATTGTGTTGATT 59.307 43.478 0.00 0.00 0.00 2.57
563 567 4.157105 GCGGGGTTAGTATTGTGTTGATTT 59.843 41.667 0.00 0.00 0.00 2.17
564 568 5.336134 GCGGGGTTAGTATTGTGTTGATTTT 60.336 40.000 0.00 0.00 0.00 1.82
575 579 7.920160 ATTGTGTTGATTTTGGTTGTTTTCT 57.080 28.000 0.00 0.00 0.00 2.52
578 582 9.442047 TTGTGTTGATTTTGGTTGTTTTCTTAT 57.558 25.926 0.00 0.00 0.00 1.73
593 599 1.035139 CTTATCCTGCATTGGTGGGC 58.965 55.000 0.00 0.00 0.00 5.36
615 621 4.125695 AAGGACGGCCGTCGCTAC 62.126 66.667 42.69 31.62 45.41 3.58
638 649 4.356405 TGAGTATACTGGGCATTCCATG 57.644 45.455 10.90 0.00 46.01 3.66
645 656 1.894466 CTGGGCATTCCATGTTGTTCA 59.106 47.619 0.00 0.00 46.01 3.18
647 658 1.402720 GGGCATTCCATGTTGTTCACG 60.403 52.381 0.00 0.00 35.00 4.35
705 716 1.333308 CGTGCTGTTGACATGGACAAA 59.667 47.619 8.70 1.49 0.00 2.83
715 726 1.888512 ACATGGACAAACACATCTGCC 59.111 47.619 0.00 0.00 0.00 4.85
717 728 3.244875 ACATGGACAAACACATCTGCCTA 60.245 43.478 0.00 0.00 0.00 3.93
718 729 3.057969 TGGACAAACACATCTGCCTAG 57.942 47.619 0.00 0.00 0.00 3.02
719 730 1.740025 GGACAAACACATCTGCCTAGC 59.260 52.381 0.00 0.00 0.00 3.42
720 731 1.740025 GACAAACACATCTGCCTAGCC 59.260 52.381 0.00 0.00 0.00 3.93
721 732 1.352352 ACAAACACATCTGCCTAGCCT 59.648 47.619 0.00 0.00 0.00 4.58
722 733 2.571653 ACAAACACATCTGCCTAGCCTA 59.428 45.455 0.00 0.00 0.00 3.93
723 734 3.201290 CAAACACATCTGCCTAGCCTAG 58.799 50.000 0.00 0.00 0.00 3.02
724 735 0.755686 ACACATCTGCCTAGCCTAGC 59.244 55.000 0.00 0.00 0.00 3.42
725 736 0.034616 CACATCTGCCTAGCCTAGCC 59.965 60.000 0.00 0.00 0.00 3.93
726 737 1.124477 ACATCTGCCTAGCCTAGCCC 61.124 60.000 0.00 0.00 0.00 5.19
734 745 2.049627 CTAGCCTAGCCCAGCCCAAG 62.050 65.000 0.00 0.00 0.00 3.61
736 747 3.731728 CCTAGCCCAGCCCAAGCA 61.732 66.667 0.00 0.00 43.56 3.91
760 775 4.470334 CAAATATGGAAACCTTGTGGGG 57.530 45.455 0.00 0.00 40.03 4.96
761 776 2.159179 ATATGGAAACCTTGTGGGGC 57.841 50.000 0.00 0.00 40.03 5.80
762 777 0.040499 TATGGAAACCTTGTGGGGCC 59.960 55.000 0.00 0.00 40.03 5.80
1401 1416 3.468063 GTCACCAAGGAGGACGGT 58.532 61.111 0.00 0.00 41.22 4.83
1516 1531 1.007387 GCCGCCAAGAACAACAAGG 60.007 57.895 0.00 0.00 0.00 3.61
1620 1635 2.348666 CGAAATGAACCAGGACGATCAC 59.651 50.000 0.00 0.00 0.00 3.06
1642 1657 1.226746 GGTGGAGAAACAAGACGTGG 58.773 55.000 0.00 0.00 0.00 4.94
1665 1680 2.436824 GGCGAACAAGAGGGGCTC 60.437 66.667 0.00 0.00 0.00 4.70
1908 1923 0.594602 TGTGGTTGACGTACGAGGAG 59.405 55.000 24.41 0.00 0.00 3.69
1952 1967 0.951040 GAGTTCTTGTCGCCCACCAG 60.951 60.000 0.00 0.00 0.00 4.00
1992 2007 0.927537 CGTCTGTCAAGCAACACGAA 59.072 50.000 0.00 0.00 36.23 3.85
2021 2039 4.916831 CGATTGATGACTAGCTGCTAGAAG 59.083 45.833 36.09 18.44 37.49 2.85
2035 2053 3.436704 TGCTAGAAGGATGTTTTCGCTTG 59.563 43.478 0.00 0.00 0.00 4.01
2057 2075 3.341823 CTCTTTGACTTGAGGTGGATGG 58.658 50.000 0.00 0.00 0.00 3.51
2117 2141 1.000283 GCCACTCAGATCCCTGTATCG 60.000 57.143 0.00 0.00 41.16 2.92
2178 2202 7.490962 TGGCGATGAAAATCGTTATATCTTT 57.509 32.000 9.58 0.00 45.11 2.52
2213 2237 5.192927 ACGACATCACATTTGGATGGTATT 58.807 37.500 7.25 0.00 45.01 1.89
2249 2274 4.457949 ACAAACTTTCACCCCGCTTTATAG 59.542 41.667 0.00 0.00 0.00 1.31
2250 2275 4.563140 AACTTTCACCCCGCTTTATAGA 57.437 40.909 0.00 0.00 0.00 1.98
2263 2288 4.600012 CTTTATAGACAAAGCCACACGG 57.400 45.455 0.00 0.00 0.00 4.94
2277 2302 1.801771 CACACGGCCAAACGATAAGAA 59.198 47.619 2.24 0.00 37.61 2.52
2283 2308 3.680937 CGGCCAAACGATAAGAAGTGTTA 59.319 43.478 2.24 0.00 35.47 2.41
2668 4022 0.905337 GACACCCAGGAGCTACCACT 60.905 60.000 0.00 0.00 42.04 4.00
2669 4023 0.473886 ACACCCAGGAGCTACCACTT 60.474 55.000 0.00 0.00 42.04 3.16
2677 4031 4.443598 CCAGGAGCTACCACTTATTTCTCC 60.444 50.000 0.00 0.00 42.04 3.71
2699 4053 6.357367 TCCTAAAAGAATCCTCATACAAGCC 58.643 40.000 0.00 0.00 0.00 4.35
2778 4132 5.661458 CCCTACTGAACATCGATAACTTGT 58.339 41.667 0.00 0.00 0.00 3.16
2779 4133 5.749109 CCCTACTGAACATCGATAACTTGTC 59.251 44.000 0.00 0.00 0.00 3.18
2796 4150 0.674895 GTCGCCCAGAAGAAGCACAT 60.675 55.000 0.00 0.00 0.00 3.21
2835 4189 1.136329 AGACCACCAAGGCCACTCAT 61.136 55.000 5.01 0.00 43.14 2.90
2866 4220 1.879380 CATGCACCACCTCGAAGAAAA 59.121 47.619 0.00 0.00 34.09 2.29
2880 4234 6.294176 CCTCGAAGAAAACAATGGACTTCATT 60.294 38.462 0.00 0.00 41.08 2.57
2901 4255 0.112218 CAACATCCCCACCAGACCAA 59.888 55.000 0.00 0.00 0.00 3.67
2904 4258 1.151587 ATCCCCACCAGACCAAGGT 60.152 57.895 0.00 0.00 40.85 3.50
2930 4284 1.213296 GGGTCCTTTGCCCTCTCATA 58.787 55.000 0.00 0.00 42.81 2.15
2994 4348 4.089361 TGCCATCACTTGTAAGAGAGAGA 58.911 43.478 0.00 0.00 0.00 3.10
2995 4349 4.159321 TGCCATCACTTGTAAGAGAGAGAG 59.841 45.833 0.00 0.00 0.00 3.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 8.393259 TCTGGGTGGATAATTAAAGCATATCAT 58.607 33.333 0.00 0.00 0.00 2.45
13 14 7.754624 TCTGGGTGGATAATTAAAGCATATCA 58.245 34.615 0.00 0.00 0.00 2.15
14 15 8.635765 TTCTGGGTGGATAATTAAAGCATATC 57.364 34.615 0.00 0.00 0.00 1.63
15 16 9.605951 AATTCTGGGTGGATAATTAAAGCATAT 57.394 29.630 0.00 0.00 0.00 1.78
16 17 9.077885 GAATTCTGGGTGGATAATTAAAGCATA 57.922 33.333 0.00 0.00 0.00 3.14
17 18 7.564660 TGAATTCTGGGTGGATAATTAAAGCAT 59.435 33.333 7.05 0.00 0.00 3.79
18 19 6.894654 TGAATTCTGGGTGGATAATTAAAGCA 59.105 34.615 7.05 0.00 0.00 3.91
19 20 7.346751 TGAATTCTGGGTGGATAATTAAAGC 57.653 36.000 7.05 0.00 0.00 3.51
23 24 9.753674 GGAATATGAATTCTGGGTGGATAATTA 57.246 33.333 7.05 0.00 41.18 1.40
24 25 8.459394 AGGAATATGAATTCTGGGTGGATAATT 58.541 33.333 7.05 0.00 41.18 1.40
25 26 8.004697 AGGAATATGAATTCTGGGTGGATAAT 57.995 34.615 7.05 0.00 41.18 1.28
26 27 7.406620 AGGAATATGAATTCTGGGTGGATAA 57.593 36.000 7.05 0.00 41.18 1.75
27 28 7.739444 AGTAGGAATATGAATTCTGGGTGGATA 59.261 37.037 7.05 0.00 41.18 2.59
28 29 5.937492 AGGAATATGAATTCTGGGTGGAT 57.063 39.130 7.05 0.00 41.18 3.41
29 30 5.911178 AGTAGGAATATGAATTCTGGGTGGA 59.089 40.000 7.05 0.00 41.18 4.02
30 31 6.183361 TGAGTAGGAATATGAATTCTGGGTGG 60.183 42.308 7.05 0.00 41.18 4.61
31 32 6.830912 TGAGTAGGAATATGAATTCTGGGTG 58.169 40.000 7.05 0.00 41.18 4.61
32 33 7.127955 AGTTGAGTAGGAATATGAATTCTGGGT 59.872 37.037 7.05 0.00 41.18 4.51
33 34 7.512992 AGTTGAGTAGGAATATGAATTCTGGG 58.487 38.462 7.05 0.00 41.18 4.45
41 42 9.470399 TGTACTGTTAGTTGAGTAGGAATATGA 57.530 33.333 0.00 0.00 0.00 2.15
44 45 9.918630 GTTTGTACTGTTAGTTGAGTAGGAATA 57.081 33.333 0.00 0.00 0.00 1.75
45 46 7.597743 CGTTTGTACTGTTAGTTGAGTAGGAAT 59.402 37.037 0.00 0.00 0.00 3.01
46 47 6.919662 CGTTTGTACTGTTAGTTGAGTAGGAA 59.080 38.462 0.00 0.00 0.00 3.36
47 48 6.039717 ACGTTTGTACTGTTAGTTGAGTAGGA 59.960 38.462 0.00 0.00 0.00 2.94
48 49 6.211515 ACGTTTGTACTGTTAGTTGAGTAGG 58.788 40.000 0.00 0.00 0.00 3.18
49 50 7.433131 TGAACGTTTGTACTGTTAGTTGAGTAG 59.567 37.037 0.46 0.00 0.00 2.57
50 51 7.257003 TGAACGTTTGTACTGTTAGTTGAGTA 58.743 34.615 0.46 0.00 0.00 2.59
51 52 6.101332 TGAACGTTTGTACTGTTAGTTGAGT 58.899 36.000 0.46 0.00 0.00 3.41
52 53 6.578020 TGAACGTTTGTACTGTTAGTTGAG 57.422 37.500 0.46 0.00 0.00 3.02
53 54 6.510478 GCATGAACGTTTGTACTGTTAGTTGA 60.510 38.462 0.46 0.00 0.00 3.18
54 55 5.619607 GCATGAACGTTTGTACTGTTAGTTG 59.380 40.000 0.46 0.00 0.00 3.16
55 56 5.294799 TGCATGAACGTTTGTACTGTTAGTT 59.705 36.000 0.46 0.00 0.00 2.24
56 57 4.812091 TGCATGAACGTTTGTACTGTTAGT 59.188 37.500 0.46 0.00 0.00 2.24
57 58 5.137403 GTGCATGAACGTTTGTACTGTTAG 58.863 41.667 12.27 0.00 0.00 2.34
58 59 4.318192 CGTGCATGAACGTTTGTACTGTTA 60.318 41.667 18.56 0.00 38.74 2.41
59 60 3.545228 CGTGCATGAACGTTTGTACTGTT 60.545 43.478 18.56 0.00 38.74 3.16
60 61 2.033236 CGTGCATGAACGTTTGTACTGT 60.033 45.455 18.56 0.00 38.74 3.55
61 62 2.559872 CGTGCATGAACGTTTGTACTG 58.440 47.619 18.56 8.35 38.74 2.74
62 63 2.941891 CGTGCATGAACGTTTGTACT 57.058 45.000 18.56 0.00 38.74 2.73
71 72 4.318831 GGCTAGCTAAATACGTGCATGAAC 60.319 45.833 15.72 0.00 0.00 3.18
72 73 3.807622 GGCTAGCTAAATACGTGCATGAA 59.192 43.478 15.72 0.00 0.00 2.57
73 74 3.390135 GGCTAGCTAAATACGTGCATGA 58.610 45.455 15.72 0.00 0.00 3.07
74 75 2.155732 CGGCTAGCTAAATACGTGCATG 59.844 50.000 15.72 3.82 0.00 4.06
75 76 2.404215 CGGCTAGCTAAATACGTGCAT 58.596 47.619 15.72 0.00 0.00 3.96
76 77 1.847818 CGGCTAGCTAAATACGTGCA 58.152 50.000 15.72 0.00 0.00 4.57
77 78 0.507358 GCGGCTAGCTAAATACGTGC 59.493 55.000 15.72 0.00 44.04 5.34
89 90 3.351020 ACGTTTCTATGTAGCGGCTAG 57.649 47.619 10.54 0.00 0.00 3.42
90 91 3.129113 TCAACGTTTCTATGTAGCGGCTA 59.871 43.478 5.42 5.42 0.00 3.93
91 92 2.094390 TCAACGTTTCTATGTAGCGGCT 60.094 45.455 7.98 7.98 0.00 5.52
92 93 2.264813 TCAACGTTTCTATGTAGCGGC 58.735 47.619 0.00 0.00 0.00 6.53
93 94 3.306166 CCTTCAACGTTTCTATGTAGCGG 59.694 47.826 0.00 0.00 0.00 5.52
94 95 4.171005 TCCTTCAACGTTTCTATGTAGCG 58.829 43.478 0.00 0.00 0.00 4.26
95 96 6.663944 ATTCCTTCAACGTTTCTATGTAGC 57.336 37.500 0.00 0.00 0.00 3.58
96 97 8.029642 ACAATTCCTTCAACGTTTCTATGTAG 57.970 34.615 0.00 0.00 0.00 2.74
97 98 7.972832 ACAATTCCTTCAACGTTTCTATGTA 57.027 32.000 0.00 0.00 0.00 2.29
98 99 6.877611 ACAATTCCTTCAACGTTTCTATGT 57.122 33.333 0.00 0.00 0.00 2.29
99 100 9.840427 ATTAACAATTCCTTCAACGTTTCTATG 57.160 29.630 0.00 0.00 0.00 2.23
101 102 8.508875 GGATTAACAATTCCTTCAACGTTTCTA 58.491 33.333 0.00 0.00 0.00 2.10
102 103 7.368059 GGATTAACAATTCCTTCAACGTTTCT 58.632 34.615 0.00 0.00 0.00 2.52
103 104 6.584942 GGGATTAACAATTCCTTCAACGTTTC 59.415 38.462 0.00 0.00 33.39 2.78
104 105 6.452242 GGGATTAACAATTCCTTCAACGTTT 58.548 36.000 0.00 0.00 33.39 3.60
105 106 5.335348 CGGGATTAACAATTCCTTCAACGTT 60.335 40.000 0.00 0.00 34.06 3.99
106 107 4.155280 CGGGATTAACAATTCCTTCAACGT 59.845 41.667 0.00 0.00 34.06 3.99
107 108 4.658071 CGGGATTAACAATTCCTTCAACG 58.342 43.478 0.00 0.00 34.06 4.10
108 109 4.082463 TGCGGGATTAACAATTCCTTCAAC 60.082 41.667 0.00 0.00 34.06 3.18
109 110 4.082845 TGCGGGATTAACAATTCCTTCAA 58.917 39.130 0.00 0.00 34.06 2.69
110 111 3.691575 TGCGGGATTAACAATTCCTTCA 58.308 40.909 0.00 0.00 34.06 3.02
111 112 4.712122 TTGCGGGATTAACAATTCCTTC 57.288 40.909 0.00 0.00 34.06 3.46
112 113 5.476091 TTTTGCGGGATTAACAATTCCTT 57.524 34.783 0.00 0.00 34.06 3.36
113 114 5.675684 ATTTTGCGGGATTAACAATTCCT 57.324 34.783 0.00 0.00 34.06 3.36
114 115 6.334202 TGTATTTTGCGGGATTAACAATTCC 58.666 36.000 0.00 0.00 32.76 3.01
115 116 9.691362 ATATGTATTTTGCGGGATTAACAATTC 57.309 29.630 0.00 0.00 0.00 2.17
118 119 8.569641 GGTATATGTATTTTGCGGGATTAACAA 58.430 33.333 0.00 0.00 0.00 2.83
119 120 7.720074 TGGTATATGTATTTTGCGGGATTAACA 59.280 33.333 0.00 0.00 0.00 2.41
120 121 8.019094 GTGGTATATGTATTTTGCGGGATTAAC 58.981 37.037 0.00 0.00 0.00 2.01
121 122 7.940137 AGTGGTATATGTATTTTGCGGGATTAA 59.060 33.333 0.00 0.00 0.00 1.40
122 123 7.455058 AGTGGTATATGTATTTTGCGGGATTA 58.545 34.615 0.00 0.00 0.00 1.75
123 124 6.303839 AGTGGTATATGTATTTTGCGGGATT 58.696 36.000 0.00 0.00 0.00 3.01
124 125 5.876357 AGTGGTATATGTATTTTGCGGGAT 58.124 37.500 0.00 0.00 0.00 3.85
125 126 5.298989 AGTGGTATATGTATTTTGCGGGA 57.701 39.130 0.00 0.00 0.00 5.14
126 127 5.992829 TGTAGTGGTATATGTATTTTGCGGG 59.007 40.000 0.00 0.00 0.00 6.13
127 128 6.480651 TGTGTAGTGGTATATGTATTTTGCGG 59.519 38.462 0.00 0.00 0.00 5.69
128 129 7.471657 TGTGTAGTGGTATATGTATTTTGCG 57.528 36.000 0.00 0.00 0.00 4.85
132 133 9.419297 CGCTTATGTGTAGTGGTATATGTATTT 57.581 33.333 0.00 0.00 0.00 1.40
133 134 8.799367 TCGCTTATGTGTAGTGGTATATGTATT 58.201 33.333 0.00 0.00 0.00 1.89
134 135 8.344446 TCGCTTATGTGTAGTGGTATATGTAT 57.656 34.615 0.00 0.00 0.00 2.29
135 136 7.748691 TCGCTTATGTGTAGTGGTATATGTA 57.251 36.000 0.00 0.00 0.00 2.29
136 137 6.644248 TCGCTTATGTGTAGTGGTATATGT 57.356 37.500 0.00 0.00 0.00 2.29
137 138 7.312899 TCATCGCTTATGTGTAGTGGTATATG 58.687 38.462 0.00 0.00 36.89 1.78
138 139 7.462571 TCATCGCTTATGTGTAGTGGTATAT 57.537 36.000 0.00 0.00 36.89 0.86
139 140 6.887626 TCATCGCTTATGTGTAGTGGTATA 57.112 37.500 0.00 0.00 36.89 1.47
140 141 5.784578 TCATCGCTTATGTGTAGTGGTAT 57.215 39.130 0.00 0.00 36.89 2.73
141 142 5.451381 CCTTCATCGCTTATGTGTAGTGGTA 60.451 44.000 0.00 0.00 36.89 3.25
142 143 4.433615 CTTCATCGCTTATGTGTAGTGGT 58.566 43.478 0.00 0.00 36.89 4.16
143 144 3.804325 CCTTCATCGCTTATGTGTAGTGG 59.196 47.826 0.00 0.00 36.89 4.00
156 157 3.957468 GGATCAACAAATCCTTCATCGC 58.043 45.455 0.00 0.00 41.78 4.58
184 185 6.498651 CCAAGTTCCTCCCATGACTACTATAT 59.501 42.308 0.00 0.00 0.00 0.86
293 295 1.557269 ATCCAGCTCACCACACCTCC 61.557 60.000 0.00 0.00 0.00 4.30
340 342 8.184304 AGAGGGAGAATGAACATATGTAGTAC 57.816 38.462 9.21 2.43 0.00 2.73
341 343 9.298250 GTAGAGGGAGAATGAACATATGTAGTA 57.702 37.037 9.21 0.00 0.00 1.82
342 344 8.007742 AGTAGAGGGAGAATGAACATATGTAGT 58.992 37.037 9.21 0.00 0.00 2.73
343 345 8.415950 AGTAGAGGGAGAATGAACATATGTAG 57.584 38.462 9.21 0.00 0.00 2.74
371 373 6.591935 ACATGTACAAATCAGAATACCCGAT 58.408 36.000 0.00 0.00 0.00 4.18
425 427 5.744171 ACAGCACATATGATAGTGAACCAA 58.256 37.500 10.38 0.00 37.97 3.67
509 513 2.871133 TCAACACAATACTAGTCGCGG 58.129 47.619 6.13 0.00 0.00 6.46
534 538 4.022676 ACACAATACTAACCCCGCAAAAAG 60.023 41.667 0.00 0.00 0.00 2.27
535 539 3.890147 ACACAATACTAACCCCGCAAAAA 59.110 39.130 0.00 0.00 0.00 1.94
536 540 3.488363 ACACAATACTAACCCCGCAAAA 58.512 40.909 0.00 0.00 0.00 2.44
537 541 3.143211 ACACAATACTAACCCCGCAAA 57.857 42.857 0.00 0.00 0.00 3.68
538 542 2.814919 CAACACAATACTAACCCCGCAA 59.185 45.455 0.00 0.00 0.00 4.85
539 543 2.038689 TCAACACAATACTAACCCCGCA 59.961 45.455 0.00 0.00 0.00 5.69
540 544 2.702261 TCAACACAATACTAACCCCGC 58.298 47.619 0.00 0.00 0.00 6.13
541 545 5.890424 AAATCAACACAATACTAACCCCG 57.110 39.130 0.00 0.00 0.00 5.73
542 546 6.014925 ACCAAAATCAACACAATACTAACCCC 60.015 38.462 0.00 0.00 0.00 4.95
543 547 6.988522 ACCAAAATCAACACAATACTAACCC 58.011 36.000 0.00 0.00 0.00 4.11
544 548 7.923878 ACAACCAAAATCAACACAATACTAACC 59.076 33.333 0.00 0.00 0.00 2.85
545 549 8.865590 ACAACCAAAATCAACACAATACTAAC 57.134 30.769 0.00 0.00 0.00 2.34
546 550 9.877178 AAACAACCAAAATCAACACAATACTAA 57.123 25.926 0.00 0.00 0.00 2.24
547 551 9.877178 AAAACAACCAAAATCAACACAATACTA 57.123 25.926 0.00 0.00 0.00 1.82
548 552 8.785329 AAAACAACCAAAATCAACACAATACT 57.215 26.923 0.00 0.00 0.00 2.12
549 553 8.878769 AGAAAACAACCAAAATCAACACAATAC 58.121 29.630 0.00 0.00 0.00 1.89
550 554 9.442047 AAGAAAACAACCAAAATCAACACAATA 57.558 25.926 0.00 0.00 0.00 1.90
551 555 7.920160 AGAAAACAACCAAAATCAACACAAT 57.080 28.000 0.00 0.00 0.00 2.71
552 556 7.736447 AAGAAAACAACCAAAATCAACACAA 57.264 28.000 0.00 0.00 0.00 3.33
553 557 9.092876 GATAAGAAAACAACCAAAATCAACACA 57.907 29.630 0.00 0.00 0.00 3.72
554 558 8.547894 GGATAAGAAAACAACCAAAATCAACAC 58.452 33.333 0.00 0.00 0.00 3.32
555 559 8.482128 AGGATAAGAAAACAACCAAAATCAACA 58.518 29.630 0.00 0.00 0.00 3.33
556 560 8.764287 CAGGATAAGAAAACAACCAAAATCAAC 58.236 33.333 0.00 0.00 0.00 3.18
557 561 7.440856 GCAGGATAAGAAAACAACCAAAATCAA 59.559 33.333 0.00 0.00 0.00 2.57
558 562 6.928492 GCAGGATAAGAAAACAACCAAAATCA 59.072 34.615 0.00 0.00 0.00 2.57
559 563 6.928492 TGCAGGATAAGAAAACAACCAAAATC 59.072 34.615 0.00 0.00 0.00 2.17
560 564 6.825610 TGCAGGATAAGAAAACAACCAAAAT 58.174 32.000 0.00 0.00 0.00 1.82
561 565 6.227298 TGCAGGATAAGAAAACAACCAAAA 57.773 33.333 0.00 0.00 0.00 2.44
562 566 5.860941 TGCAGGATAAGAAAACAACCAAA 57.139 34.783 0.00 0.00 0.00 3.28
563 567 6.222389 CAATGCAGGATAAGAAAACAACCAA 58.778 36.000 0.00 0.00 0.00 3.67
564 568 5.279406 CCAATGCAGGATAAGAAAACAACCA 60.279 40.000 0.00 0.00 0.00 3.67
575 579 0.630673 AGCCCACCAATGCAGGATAA 59.369 50.000 0.00 0.00 0.00 1.75
578 582 0.899717 GAAAGCCCACCAATGCAGGA 60.900 55.000 0.00 0.00 0.00 3.86
593 599 2.380410 CGACGGCCGTCCTTGAAAG 61.380 63.158 43.58 28.03 41.76 2.62
615 621 4.422073 TGGAATGCCCAGTATACTCAAG 57.578 45.455 1.26 0.00 40.82 3.02
638 649 4.992381 ATTTACTGAGCTCGTGAACAAC 57.008 40.909 17.67 0.00 0.00 3.32
645 656 5.869888 CACTTTCCTTATTTACTGAGCTCGT 59.130 40.000 9.64 12.33 0.00 4.18
647 658 7.907214 TTCACTTTCCTTATTTACTGAGCTC 57.093 36.000 6.82 6.82 0.00 4.09
705 716 0.755686 GCTAGGCTAGGCAGATGTGT 59.244 55.000 22.40 0.00 0.00 3.72
719 730 3.731728 TGCTTGGGCTGGGCTAGG 61.732 66.667 0.00 0.00 39.59 3.02
720 731 2.439156 GTGCTTGGGCTGGGCTAG 60.439 66.667 0.00 0.00 39.59 3.42
721 732 4.047125 GGTGCTTGGGCTGGGCTA 62.047 66.667 0.00 0.00 39.59 3.93
724 735 3.981538 TATTTGGGTGCTTGGGCTGGG 62.982 57.143 0.00 0.00 39.59 4.45
725 736 0.614415 TATTTGGGTGCTTGGGCTGG 60.614 55.000 0.00 0.00 39.59 4.85
726 737 1.137479 CATATTTGGGTGCTTGGGCTG 59.863 52.381 0.00 0.00 39.59 4.85
734 745 3.260632 ACAAGGTTTCCATATTTGGGTGC 59.739 43.478 2.06 0.00 43.81 5.01
736 747 3.837731 CCACAAGGTTTCCATATTTGGGT 59.162 43.478 2.06 0.00 43.81 4.51
762 777 2.445845 TGCTACCCGGATCCCAGG 60.446 66.667 0.73 12.98 0.00 4.45
1201 1216 4.717629 CTCGTCGCCGTTGCTGGA 62.718 66.667 0.00 0.00 34.43 3.86
1362 1377 0.108615 ACGAGAAGTTCTGGCGATGG 60.109 55.000 17.91 0.00 0.00 3.51
1416 1431 3.687321 CTCCACCATGAGCCACCCG 62.687 68.421 0.00 0.00 0.00 5.28
1620 1635 0.949105 CGTCTTGTTTCTCCACCGGG 60.949 60.000 6.32 0.00 0.00 5.73
1642 1657 2.815647 CTCTTGTTCGCCGGCCTC 60.816 66.667 23.46 12.06 0.00 4.70
1651 1666 1.446272 CGACGAGCCCCTCTTGTTC 60.446 63.158 0.00 0.00 39.52 3.18
1691 1706 1.135094 ATTCGGATCCACAGCCTCAT 58.865 50.000 13.41 0.00 0.00 2.90
1692 1707 0.178767 CATTCGGATCCACAGCCTCA 59.821 55.000 13.41 0.00 0.00 3.86
1697 1712 3.533606 AGAAGTCATTCGGATCCACAG 57.466 47.619 13.41 0.00 40.58 3.66
1908 1923 0.876342 CCTCCGGCAGATCGTTAAGC 60.876 60.000 0.00 0.00 0.00 3.09
1952 1967 1.198713 TCTCATCTCCTCCAGCAACC 58.801 55.000 0.00 0.00 0.00 3.77
1992 2007 5.418524 AGCAGCTAGTCATCAATCGATCTAT 59.581 40.000 0.00 0.00 0.00 1.98
2021 2039 2.982470 CAAAGAGCAAGCGAAAACATCC 59.018 45.455 0.00 0.00 0.00 3.51
2035 2053 2.550830 TCCACCTCAAGTCAAAGAGC 57.449 50.000 0.00 0.00 0.00 4.09
2057 2075 6.759497 ACTGAATTAGGACAATAACAAGGC 57.241 37.500 0.00 0.00 0.00 4.35
2178 2202 6.735678 ATGTGATGTCGTACTTAAAATGCA 57.264 33.333 0.00 0.00 0.00 3.96
2218 2242 3.003378 GGGGTGAAAGTTTGTTTCGAGAG 59.997 47.826 0.00 0.00 0.00 3.20
2263 2288 7.357303 TCTTTTAACACTTCTTATCGTTTGGC 58.643 34.615 0.00 0.00 0.00 4.52
2298 2323 1.003718 GGACACCCGGGAGTTGAAG 60.004 63.158 32.02 9.85 0.00 3.02
2300 2325 2.926242 GGGACACCCGGGAGTTGA 60.926 66.667 32.02 0.00 32.13 3.18
2514 3864 6.491394 TCTACACATGGAAAACAAAAAGTCG 58.509 36.000 0.00 0.00 0.00 4.18
2633 3987 1.568504 TGTCCCTACACCCTCATGAC 58.431 55.000 0.00 0.00 0.00 3.06
2677 4031 5.237344 CCGGCTTGTATGAGGATTCTTTTAG 59.763 44.000 0.00 0.00 0.00 1.85
2699 4053 8.752766 TTGTCTACTATAGTTTTCTTTGACCG 57.247 34.615 11.40 0.00 0.00 4.79
2778 4132 0.674581 CATGTGCTTCTTCTGGGCGA 60.675 55.000 0.00 0.00 0.00 5.54
2779 4133 0.674581 TCATGTGCTTCTTCTGGGCG 60.675 55.000 0.00 0.00 0.00 6.13
2880 4234 1.074775 GTCTGGTGGGGATGTTGCA 59.925 57.895 0.00 0.00 0.00 4.08
2901 4255 1.840635 GCAAAGGACCCTATCTGACCT 59.159 52.381 0.00 0.00 0.00 3.85
2904 4258 1.213296 GGGCAAAGGACCCTATCTGA 58.787 55.000 0.00 0.00 44.68 3.27
2930 4284 2.815308 GATGCTCCACGGTCCGAT 59.185 61.111 20.51 0.00 0.00 4.18
2966 4320 3.776969 TCTTACAAGTGATGGCATCCTCT 59.223 43.478 23.92 18.28 0.00 3.69


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

AutoCloner maintained by Alex Coulton.