Multiple sequence alignment - TraesCS7D01G011400

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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 TraesCS7D01G011400 chr7D 100.000 4150 0 0 1 4150 5094384 5090235 0.000000e+00 7664.0
1 TraesCS7D01G011400 chr7D 88.073 109 13 0 2293 2401 80431646 80431538 3.370000e-26 130.0
2 TraesCS7D01G011400 chr7D 84.553 123 13 6 2281 2401 80488560 80488442 2.620000e-22 117.0
3 TraesCS7D01G011400 chr7A 92.932 3551 137 60 697 4150 6338285 6334752 0.000000e+00 5062.0
4 TraesCS7D01G011400 chr4A 90.266 2219 99 47 697 2853 737479240 737481403 0.000000e+00 2793.0
5 TraesCS7D01G011400 chr4A 90.268 1305 67 29 2886 4150 737481692 737482976 0.000000e+00 1652.0
6 TraesCS7D01G011400 chr4A 83.922 566 61 9 1 560 737478380 737478921 7.960000e-142 514.0
7 TraesCS7D01G011400 chr4A 84.674 261 15 6 1591 1849 624737984 624738221 1.930000e-58 237.0
8 TraesCS7D01G011400 chr4A 95.238 63 2 1 1160 1222 624737906 624737967 9.490000e-17 99.0
9 TraesCS7D01G011400 chr3D 83.641 434 30 20 1417 1849 14127938 14127545 1.820000e-98 370.0
10 TraesCS7D01G011400 chr3D 95.238 63 2 1 1160 1222 387312521 387312460 9.490000e-17 99.0
11 TraesCS7D01G011400 chr6D 89.494 257 24 2 1593 1849 205119454 205119707 5.180000e-84 322.0
12 TraesCS7D01G011400 chr6D 90.476 63 5 1 1160 1222 205119374 205119435 9.560000e-12 82.4
13 TraesCS7D01G011400 chr1D 87.900 281 25 7 1590 1867 487717966 487718240 5.180000e-84 322.0
14 TraesCS7D01G011400 chr6B 83.934 305 46 3 2104 2408 68013545 68013846 5.250000e-74 289.0
15 TraesCS7D01G011400 chr6B 86.792 53 5 2 273 325 401540431 401540481 1.610000e-04 58.4
16 TraesCS7D01G011400 chr1A 84.588 279 19 7 1591 1867 569372604 569372348 5.320000e-64 255.0
17 TraesCS7D01G011400 chr1A 92.063 63 4 1 1160 1222 569372682 569372621 2.060000e-13 87.9
18 TraesCS7D01G011400 chr4D 86.777 121 12 2 2284 2403 343556155 343556272 9.360000e-27 132.0
19 TraesCS7D01G011400 chr4D 96.875 32 1 0 1268 1299 143564335 143564304 2.000000e-03 54.7
20 TraesCS7D01G011400 chr4B 84.615 130 18 2 2276 2403 425290434 425290563 1.210000e-25 128.0
21 TraesCS7D01G011400 chr2D 93.651 63 3 1 1160 1222 8148418 8148357 4.420000e-15 93.5
22 TraesCS7D01G011400 chr5D 82.301 113 7 8 2284 2395 304745910 304745810 7.390000e-13 86.1


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 TraesCS7D01G011400 chr7D 5090235 5094384 4149 True 7664 7664 100.000 1 4150 1 chr7D.!!$R1 4149
1 TraesCS7D01G011400 chr7A 6334752 6338285 3533 True 5062 5062 92.932 697 4150 1 chr7A.!!$R1 3453
2 TraesCS7D01G011400 chr4A 737478380 737482976 4596 False 1653 2793 88.152 1 4150 3 chr4A.!!$F2 4149

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
583 589 0.032130 GCACGAGTTCTGGACTGACA 59.968 55.000 0.00 0.0 39.19 3.58 F
659 665 0.036732 AGGTTTGCTCGCAAGGATGA 59.963 50.000 4.39 0.0 37.24 2.92 F
685 691 0.038526 GTGGTTCGAGCGGAGAGAAA 60.039 55.000 0.00 0.0 0.00 2.52 F
694 700 0.105778 GCGGAGAGAAATGAGAGGGG 59.894 60.000 0.00 0.0 0.00 4.79 F
1021 1251 0.321653 AGAAAAGGCAGCACGTAGGG 60.322 55.000 0.00 0.0 0.00 3.53 F
1544 1816 1.000396 GCAGCAGGTCCATTTCCCT 60.000 57.895 0.00 0.0 0.00 4.20 F
1550 1822 1.077716 GGTCCATTTCCCTGTCCCG 60.078 63.158 0.00 0.0 0.00 5.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2042 2323 3.637273 GTCACCTTCAGGGCCGGT 61.637 66.667 1.90 0.0 40.27 5.28 R
2609 2896 1.234615 CGACGTGGAAGCCATGGTTT 61.235 55.000 14.40 14.4 44.23 3.27 R
2775 3070 6.821388 CCAAGATTGGCTACTAGTACTTGAT 58.179 40.000 21.45 6.9 42.21 2.57 R
2838 3149 3.768406 TCGGCATTTCGAATTTCCATTG 58.232 40.909 0.00 0.0 36.12 2.82 R
3002 3572 3.295093 TGTTGATTTCCACTGGCAAGAA 58.705 40.909 0.00 0.0 0.00 2.52 R
3004 3574 3.553508 CCTTGTTGATTTCCACTGGCAAG 60.554 47.826 0.00 0.0 33.87 4.01 R
3187 3770 4.082787 TCAGCATAAAACCTTAGTTGCAGC 60.083 41.667 0.00 0.0 35.97 5.25 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
32 36 1.831580 GCTGAACCAAGCTCCAGATT 58.168 50.000 0.00 0.00 40.20 2.40
36 40 2.290514 TGAACCAAGCTCCAGATTCAGG 60.291 50.000 0.00 0.00 0.00 3.86
39 43 2.579860 ACCAAGCTCCAGATTCAGGAAT 59.420 45.455 0.00 0.00 34.08 3.01
53 57 6.734755 AGATTCAGGAATCCCTATGAGCTTAT 59.265 38.462 16.29 0.00 46.28 1.73
54 58 6.770286 TTCAGGAATCCCTATGAGCTTATT 57.230 37.500 0.00 0.00 42.02 1.40
68 73 4.013050 GAGCTTATTGAGGCCAAAAGAGT 58.987 43.478 5.01 0.00 35.67 3.24
78 83 2.095718 GGCCAAAAGAGTCATTGTCGTC 60.096 50.000 0.00 0.00 0.00 4.20
79 84 2.808543 GCCAAAAGAGTCATTGTCGTCT 59.191 45.455 7.61 0.00 0.00 4.18
104 109 2.358003 ACCTCAGCTCGCTTGCAC 60.358 61.111 0.00 0.00 34.99 4.57
105 110 2.047465 CCTCAGCTCGCTTGCACT 60.047 61.111 0.00 0.00 34.99 4.40
106 111 2.389020 CCTCAGCTCGCTTGCACTG 61.389 63.158 0.00 0.00 34.99 3.66
111 116 2.970974 GCTCGCTTGCACTGGAACC 61.971 63.158 0.00 0.00 0.00 3.62
117 122 1.986882 CTTGCACTGGAACCCTTCTT 58.013 50.000 0.00 0.00 0.00 2.52
126 131 2.290071 TGGAACCCTTCTTCCAATCGAC 60.290 50.000 0.00 0.00 45.61 4.20
130 135 5.368989 GAACCCTTCTTCCAATCGACATAT 58.631 41.667 0.00 0.00 0.00 1.78
159 164 0.181350 CCATAGAGGCACCTCCAACC 59.819 60.000 13.15 0.00 43.70 3.77
166 171 0.755327 GGCACCTCCAACCACTTGTT 60.755 55.000 0.00 0.00 37.80 2.83
223 228 1.128200 CCCACTCCCATTATGGTCGA 58.872 55.000 10.65 0.37 35.17 4.20
225 230 2.903784 CCCACTCCCATTATGGTCGATA 59.096 50.000 10.65 0.00 35.17 2.92
242 247 2.604855 CGATAAGATCACCGAACGAGGG 60.605 54.545 0.00 0.00 35.02 4.30
258 263 3.838903 ACGAGGGGAGAACTTGACTATTT 59.161 43.478 0.00 0.00 0.00 1.40
293 298 1.604593 CAAACTGGGCTGGTCCTGG 60.605 63.158 3.38 0.00 34.39 4.45
294 299 3.513750 AAACTGGGCTGGTCCTGGC 62.514 63.158 13.34 13.34 34.39 4.85
296 301 3.736224 CTGGGCTGGTCCTGGCAT 61.736 66.667 21.59 0.00 34.39 4.40
297 302 4.051167 TGGGCTGGTCCTGGCATG 62.051 66.667 21.59 0.00 34.39 4.06
299 304 4.437587 GGCTGGTCCTGGCATGCT 62.438 66.667 18.92 0.00 0.00 3.79
300 305 3.138798 GCTGGTCCTGGCATGCTG 61.139 66.667 18.92 10.78 0.00 4.41
301 306 2.439701 CTGGTCCTGGCATGCTGG 60.440 66.667 18.92 19.26 0.00 4.85
302 307 4.746309 TGGTCCTGGCATGCTGGC 62.746 66.667 18.92 14.64 44.03 4.85
331 336 3.814268 CGTGCCCGGCCAGAAATG 61.814 66.667 7.03 0.00 0.00 2.32
344 349 4.022329 GGCCAGAAATGTTTATAATCGGGG 60.022 45.833 0.00 0.66 0.00 5.73
345 350 4.583073 GCCAGAAATGTTTATAATCGGGGT 59.417 41.667 4.91 0.00 0.00 4.95
346 351 5.278315 GCCAGAAATGTTTATAATCGGGGTC 60.278 44.000 4.91 0.00 0.00 4.46
347 352 5.825679 CCAGAAATGTTTATAATCGGGGTCA 59.174 40.000 0.00 0.00 0.00 4.02
353 358 1.634960 TATAATCGGGGTCATGCCGA 58.365 50.000 14.16 14.16 40.22 5.54
354 359 0.034896 ATAATCGGGGTCATGCCGAC 59.965 55.000 14.10 0.00 44.57 4.79
362 367 1.663388 GTCATGCCGACACGTGTCA 60.663 57.895 39.14 26.01 44.99 3.58
365 370 3.202216 ATGCCGACACGTGTCACGA 62.202 57.895 39.14 25.55 46.05 4.35
373 378 2.181021 CGTGTCACGACTAGGGCC 59.819 66.667 20.75 0.00 46.05 5.80
375 380 2.282674 TGTCACGACTAGGGCCGT 60.283 61.111 2.24 2.24 39.88 5.68
490 496 5.222027 CCCCCAAAACAACCCAGATAAAATT 60.222 40.000 0.00 0.00 0.00 1.82
505 511 8.539544 CCAGATAAAATTAACCCAAAATCAGGT 58.460 33.333 0.00 0.00 38.27 4.00
506 512 9.369904 CAGATAAAATTAACCCAAAATCAGGTG 57.630 33.333 0.00 0.00 36.19 4.00
507 513 8.539544 AGATAAAATTAACCCAAAATCAGGTGG 58.460 33.333 0.00 0.00 36.19 4.61
512 518 2.669878 CCAAAATCAGGTGGGGTGG 58.330 57.895 0.00 0.00 0.00 4.61
513 519 0.178935 CCAAAATCAGGTGGGGTGGT 60.179 55.000 0.00 0.00 0.00 4.16
542 548 1.163420 TGTGCCGATGGTGTTGTGTC 61.163 55.000 0.00 0.00 0.00 3.67
548 554 0.884704 GATGGTGTTGTGTCGTGCCT 60.885 55.000 0.00 0.00 0.00 4.75
578 584 2.047179 GGGGCACGAGTTCTGGAC 60.047 66.667 0.00 0.00 0.00 4.02
579 585 2.584391 GGGGCACGAGTTCTGGACT 61.584 63.158 0.00 0.00 42.70 3.85
580 586 1.374758 GGGCACGAGTTCTGGACTG 60.375 63.158 0.00 0.00 39.19 3.51
581 587 1.666011 GGCACGAGTTCTGGACTGA 59.334 57.895 0.00 0.00 39.19 3.41
582 588 0.667792 GGCACGAGTTCTGGACTGAC 60.668 60.000 0.00 0.00 39.19 3.51
583 589 0.032130 GCACGAGTTCTGGACTGACA 59.968 55.000 0.00 0.00 39.19 3.58
584 590 1.772182 CACGAGTTCTGGACTGACAC 58.228 55.000 0.00 0.00 39.19 3.67
585 591 0.311165 ACGAGTTCTGGACTGACACG 59.689 55.000 0.00 0.00 39.19 4.49
586 592 0.591659 CGAGTTCTGGACTGACACGA 59.408 55.000 0.00 0.00 39.19 4.35
587 593 1.663445 CGAGTTCTGGACTGACACGAC 60.663 57.143 0.00 0.00 39.19 4.34
588 594 0.674534 AGTTCTGGACTGACACGACC 59.325 55.000 0.00 0.00 37.17 4.79
589 595 0.319641 GTTCTGGACTGACACGACCC 60.320 60.000 0.00 0.00 0.00 4.46
590 596 1.802337 TTCTGGACTGACACGACCCG 61.802 60.000 0.00 0.00 0.00 5.28
591 597 3.916392 CTGGACTGACACGACCCGC 62.916 68.421 0.00 0.00 0.00 6.13
608 614 1.469917 CGCGTATTACGTGTACCTGG 58.530 55.000 19.02 0.00 45.94 4.45
609 615 1.843992 GCGTATTACGTGTACCTGGG 58.156 55.000 16.87 0.00 44.73 4.45
610 616 1.536709 GCGTATTACGTGTACCTGGGG 60.537 57.143 16.87 0.00 44.73 4.96
611 617 1.536709 CGTATTACGTGTACCTGGGGC 60.537 57.143 8.06 0.00 36.74 5.80
612 618 1.758862 GTATTACGTGTACCTGGGGCT 59.241 52.381 0.00 0.00 0.00 5.19
613 619 0.539986 ATTACGTGTACCTGGGGCTG 59.460 55.000 0.00 0.00 0.00 4.85
614 620 1.546589 TTACGTGTACCTGGGGCTGG 61.547 60.000 0.00 0.00 0.00 4.85
615 621 4.096003 CGTGTACCTGGGGCTGGG 62.096 72.222 0.00 0.00 0.00 4.45
616 622 2.933834 GTGTACCTGGGGCTGGGT 60.934 66.667 0.00 0.00 39.40 4.51
617 623 2.933287 TGTACCTGGGGCTGGGTG 60.933 66.667 0.00 0.00 37.07 4.61
618 624 2.933834 GTACCTGGGGCTGGGTGT 60.934 66.667 0.00 0.00 37.07 4.16
619 625 2.933287 TACCTGGGGCTGGGTGTG 60.933 66.667 0.00 0.00 37.07 3.82
646 652 4.085876 CCTGTCTGGCCAGGTTTG 57.914 61.111 32.23 18.61 45.81 2.93
647 653 2.270986 CCTGTCTGGCCAGGTTTGC 61.271 63.158 32.23 16.94 45.81 3.68
648 654 1.228367 CTGTCTGGCCAGGTTTGCT 60.228 57.895 32.23 0.00 0.00 3.91
649 655 1.228245 TGTCTGGCCAGGTTTGCTC 60.228 57.895 32.23 13.82 0.00 4.26
650 656 2.032528 TCTGGCCAGGTTTGCTCG 59.967 61.111 32.23 4.54 0.00 5.03
651 657 3.741476 CTGGCCAGGTTTGCTCGC 61.741 66.667 26.14 0.00 0.00 5.03
652 658 4.577677 TGGCCAGGTTTGCTCGCA 62.578 61.111 0.00 0.00 0.00 5.10
653 659 3.294493 GGCCAGGTTTGCTCGCAA 61.294 61.111 0.00 0.00 0.00 4.85
654 660 2.256461 GCCAGGTTTGCTCGCAAG 59.744 61.111 4.39 0.00 37.24 4.01
655 661 2.956987 CCAGGTTTGCTCGCAAGG 59.043 61.111 4.39 0.00 37.24 3.61
656 662 1.600636 CCAGGTTTGCTCGCAAGGA 60.601 57.895 4.39 0.00 37.24 3.36
657 663 0.962356 CCAGGTTTGCTCGCAAGGAT 60.962 55.000 4.39 0.00 37.24 3.24
658 664 0.169672 CAGGTTTGCTCGCAAGGATG 59.830 55.000 4.39 1.87 37.24 3.51
659 665 0.036732 AGGTTTGCTCGCAAGGATGA 59.963 50.000 4.39 0.00 37.24 2.92
660 666 0.449388 GGTTTGCTCGCAAGGATGAG 59.551 55.000 4.39 0.00 37.24 2.90
661 667 0.449388 GTTTGCTCGCAAGGATGAGG 59.551 55.000 4.39 0.00 37.24 3.86
662 668 0.324614 TTTGCTCGCAAGGATGAGGA 59.675 50.000 4.39 0.00 37.24 3.71
663 669 0.391661 TTGCTCGCAAGGATGAGGAC 60.392 55.000 0.00 0.00 31.95 3.85
664 670 1.880340 GCTCGCAAGGATGAGGACG 60.880 63.158 0.00 0.00 38.47 4.79
665 671 1.227089 CTCGCAAGGATGAGGACGG 60.227 63.158 0.00 0.00 38.47 4.79
666 672 2.202932 CGCAAGGATGAGGACGGG 60.203 66.667 0.00 0.00 0.00 5.28
667 673 2.990479 GCAAGGATGAGGACGGGT 59.010 61.111 0.00 0.00 0.00 5.28
668 674 1.450312 GCAAGGATGAGGACGGGTG 60.450 63.158 0.00 0.00 0.00 4.61
669 675 1.221840 CAAGGATGAGGACGGGTGG 59.778 63.158 0.00 0.00 0.00 4.61
670 676 1.229529 AAGGATGAGGACGGGTGGT 60.230 57.895 0.00 0.00 0.00 4.16
671 677 0.840722 AAGGATGAGGACGGGTGGTT 60.841 55.000 0.00 0.00 0.00 3.67
672 678 1.221021 GGATGAGGACGGGTGGTTC 59.779 63.158 0.00 0.00 0.00 3.62
673 679 1.153628 GATGAGGACGGGTGGTTCG 60.154 63.158 0.00 0.00 0.00 3.95
674 680 1.601419 GATGAGGACGGGTGGTTCGA 61.601 60.000 0.00 0.00 0.00 3.71
675 681 1.605058 ATGAGGACGGGTGGTTCGAG 61.605 60.000 0.00 0.00 0.00 4.04
676 682 3.644399 GAGGACGGGTGGTTCGAGC 62.644 68.421 0.00 0.00 0.00 5.03
680 686 4.796231 CGGGTGGTTCGAGCGGAG 62.796 72.222 0.00 0.00 0.00 4.63
681 687 3.379445 GGGTGGTTCGAGCGGAGA 61.379 66.667 0.00 0.00 0.00 3.71
682 688 2.182030 GGTGGTTCGAGCGGAGAG 59.818 66.667 0.00 0.00 0.00 3.20
683 689 2.341101 GGTGGTTCGAGCGGAGAGA 61.341 63.158 0.00 0.00 0.00 3.10
684 690 1.585006 GTGGTTCGAGCGGAGAGAA 59.415 57.895 0.00 0.00 0.00 2.87
685 691 0.038526 GTGGTTCGAGCGGAGAGAAA 60.039 55.000 0.00 0.00 0.00 2.52
686 692 0.895530 TGGTTCGAGCGGAGAGAAAT 59.104 50.000 0.00 0.00 0.00 2.17
687 693 1.281899 GGTTCGAGCGGAGAGAAATG 58.718 55.000 0.00 0.00 0.00 2.32
688 694 1.135083 GGTTCGAGCGGAGAGAAATGA 60.135 52.381 0.00 0.00 0.00 2.57
689 695 2.189342 GTTCGAGCGGAGAGAAATGAG 58.811 52.381 0.00 0.00 0.00 2.90
690 696 1.751437 TCGAGCGGAGAGAAATGAGA 58.249 50.000 0.00 0.00 0.00 3.27
691 697 1.673400 TCGAGCGGAGAGAAATGAGAG 59.327 52.381 0.00 0.00 0.00 3.20
692 698 1.268999 CGAGCGGAGAGAAATGAGAGG 60.269 57.143 0.00 0.00 0.00 3.69
693 699 1.068434 GAGCGGAGAGAAATGAGAGGG 59.932 57.143 0.00 0.00 0.00 4.30
694 700 0.105778 GCGGAGAGAAATGAGAGGGG 59.894 60.000 0.00 0.00 0.00 4.79
695 701 1.781786 CGGAGAGAAATGAGAGGGGA 58.218 55.000 0.00 0.00 0.00 4.81
874 1081 5.131594 TCAGATTTCACTCACTCTCACTG 57.868 43.478 0.00 0.00 0.00 3.66
888 1095 2.524394 ACTGAGTCACTGGCCCGT 60.524 61.111 0.00 0.00 0.00 5.28
908 1125 2.143419 GTCCCCATCTCCAGCCGAT 61.143 63.158 0.00 0.00 0.00 4.18
911 1128 2.341543 CCATCTCCAGCCGATCCG 59.658 66.667 0.00 0.00 0.00 4.18
912 1129 2.203082 CCATCTCCAGCCGATCCGA 61.203 63.158 0.00 0.00 0.00 4.55
913 1130 1.288439 CATCTCCAGCCGATCCGAG 59.712 63.158 0.00 0.00 0.00 4.63
914 1131 2.569354 ATCTCCAGCCGATCCGAGC 61.569 63.158 0.00 0.00 0.00 5.03
915 1132 4.292178 CTCCAGCCGATCCGAGCC 62.292 72.222 0.00 0.00 0.00 4.70
979 1209 4.082190 CGGAGGACATAAAAGAGAGACACA 60.082 45.833 0.00 0.00 0.00 3.72
1012 1242 1.688197 TGGCCAAGAAAGAAAAGGCAG 59.312 47.619 0.61 0.00 46.96 4.85
1014 1244 1.069049 GCCAAGAAAGAAAAGGCAGCA 59.931 47.619 0.00 0.00 44.59 4.41
1016 1246 2.388121 CAAGAAAGAAAAGGCAGCACG 58.612 47.619 0.00 0.00 0.00 5.34
1018 1248 2.846193 AGAAAGAAAAGGCAGCACGTA 58.154 42.857 0.00 0.00 0.00 3.57
1019 1249 2.808543 AGAAAGAAAAGGCAGCACGTAG 59.191 45.455 0.00 0.00 0.00 3.51
1020 1250 1.523758 AAGAAAAGGCAGCACGTAGG 58.476 50.000 0.00 0.00 0.00 3.18
1021 1251 0.321653 AGAAAAGGCAGCACGTAGGG 60.322 55.000 0.00 0.00 0.00 3.53
1367 1603 2.202919 CGCTGGATCATGGACGCA 60.203 61.111 0.00 0.00 0.00 5.24
1370 1606 1.890979 CTGGATCATGGACGCAGGC 60.891 63.158 0.00 0.00 0.00 4.85
1544 1816 1.000396 GCAGCAGGTCCATTTCCCT 60.000 57.895 0.00 0.00 0.00 4.20
1548 1820 3.577389 CAGGTCCATTTCCCTGTCC 57.423 57.895 0.00 0.00 42.72 4.02
1550 1822 1.077716 GGTCCATTTCCCTGTCCCG 60.078 63.158 0.00 0.00 0.00 5.14
1551 1823 1.077716 GTCCATTTCCCTGTCCCGG 60.078 63.158 0.00 0.00 0.00 5.73
1554 1826 2.614013 ATTTCCCTGTCCCGGCCT 60.614 61.111 0.00 0.00 0.00 5.19
1584 1859 2.205462 CCGGGGGAGGAGATGGAT 59.795 66.667 0.00 0.00 0.00 3.41
1955 2236 2.733593 GTGCACGTCGTGGACCTC 60.734 66.667 32.37 13.55 46.52 3.85
2273 2554 2.434359 GAAACCTCTGGGCCGACG 60.434 66.667 0.00 0.00 35.63 5.12
2327 2608 3.788766 GCCATCGTGGTGTGCGTC 61.789 66.667 6.02 0.00 40.46 5.19
2419 2700 2.183858 CTCGTCGAGTCGCTGGACAA 62.184 60.000 14.27 3.65 45.92 3.18
2420 2701 2.081212 CGTCGAGTCGCTGGACAAC 61.081 63.158 7.92 0.00 45.92 3.32
2775 3070 7.950512 TCATCTTGCCAAAACTTGAATCTTTA 58.049 30.769 0.00 0.00 0.00 1.85
2838 3149 4.708726 ACTAGCAATTTGAGGCATGAAC 57.291 40.909 0.00 0.00 0.00 3.18
3160 3736 7.110155 TCAACTGATCCCTAATTAAACCAGAC 58.890 38.462 0.00 0.00 0.00 3.51
3164 3740 8.432805 ACTGATCCCTAATTAAACCAGACTATG 58.567 37.037 0.00 0.00 0.00 2.23
3187 3770 7.910441 TGTATGTATGTATGCATCAATCAGG 57.090 36.000 0.19 0.00 36.58 3.86
3374 3957 3.949754 ACACATCAGGATTTGCATACTGG 59.050 43.478 0.00 0.00 41.40 4.00
3375 3958 2.954318 ACATCAGGATTTGCATACTGGC 59.046 45.455 0.00 0.00 41.40 4.85
3376 3959 2.804986 TCAGGATTTGCATACTGGCA 57.195 45.000 0.00 0.00 41.40 4.92
3377 3960 2.368439 TCAGGATTTGCATACTGGCAC 58.632 47.619 0.00 0.00 44.86 5.01
3379 3962 0.746659 GGATTTGCATACTGGCACCC 59.253 55.000 0.00 0.00 44.86 4.61
3381 3964 2.102578 GATTTGCATACTGGCACCCTT 58.897 47.619 0.00 0.00 44.86 3.95
3382 3965 1.255882 TTTGCATACTGGCACCCTTG 58.744 50.000 0.00 0.00 44.86 3.61
3383 3966 0.112218 TTGCATACTGGCACCCTTGT 59.888 50.000 0.00 0.00 44.86 3.16
3412 3995 6.830324 TCTTTTCCTCCATGAATTATCCTGTG 59.170 38.462 0.00 0.00 0.00 3.66
3413 3996 4.712051 TCCTCCATGAATTATCCTGTGG 57.288 45.455 0.00 0.00 0.00 4.17
3414 3997 4.047166 TCCTCCATGAATTATCCTGTGGT 58.953 43.478 0.00 0.00 0.00 4.16
3416 3999 5.044179 TCCTCCATGAATTATCCTGTGGTTT 60.044 40.000 0.00 0.00 0.00 3.27
3419 4005 7.169158 TCCATGAATTATCCTGTGGTTTTTC 57.831 36.000 0.00 0.00 0.00 2.29
3424 4010 7.695055 TGAATTATCCTGTGGTTTTTCTCCTA 58.305 34.615 0.00 0.00 0.00 2.94
3441 4027 5.018809 TCTCCTAAGCTTGGAAATTGCAAT 58.981 37.500 11.99 5.99 32.61 3.56
3510 4098 3.056607 GGCATGGAAAATGCAACTGTAGT 60.057 43.478 12.01 0.00 46.21 2.73
3561 4153 6.326064 ACATGTATGCTATATCATCCTCCTCC 59.674 42.308 0.00 0.00 0.00 4.30
3608 4206 2.592287 GTTTCGGTTGGGGCGTCA 60.592 61.111 0.00 0.00 0.00 4.35
3697 4297 4.938226 GGAACATTCTGGAAAGAGGTACAG 59.062 45.833 0.00 0.00 0.00 2.74
3747 4347 8.706492 TTTTTCAAATGGCATATGAGATGTTC 57.294 30.769 6.97 0.00 0.00 3.18
3788 4391 9.678260 ATCTATATCTTTTGCTTTCAGAGTTGT 57.322 29.630 0.00 0.00 0.00 3.32
3797 4400 3.821033 GCTTTCAGAGTTGTGGTTGGTAT 59.179 43.478 0.00 0.00 0.00 2.73
3832 4437 4.712051 TGCTACCAATGGATTATGAGCT 57.288 40.909 6.16 0.00 0.00 4.09
3931 4548 4.201990 GCAGCCTCTGTATGAAATCCTTTG 60.202 45.833 0.00 0.00 33.43 2.77
4016 4633 1.717645 GCAAATGAAGCGCAAGTTCAG 59.282 47.619 11.47 0.73 39.46 3.02
4046 4663 6.951971 AGCAGTTTCTATATGAAGTTGAGGT 58.048 36.000 0.00 0.00 35.89 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 3.008330 CTGAATCTGGAGCTTGGTTCAG 58.992 50.000 17.64 17.64 37.36 3.02
21 25 2.174424 GGGATTCCTGAATCTGGAGCTT 59.826 50.000 16.97 0.00 44.90 3.74
29 33 4.906747 AGCTCATAGGGATTCCTGAATC 57.093 45.455 1.39 10.72 44.61 2.52
32 36 5.846164 TCAATAAGCTCATAGGGATTCCTGA 59.154 40.000 1.39 0.00 44.61 3.86
36 40 4.940654 GCCTCAATAAGCTCATAGGGATTC 59.059 45.833 0.00 0.00 0.00 2.52
39 43 2.639839 GGCCTCAATAAGCTCATAGGGA 59.360 50.000 0.00 0.00 0.00 4.20
53 57 3.565307 ACAATGACTCTTTTGGCCTCAA 58.435 40.909 3.32 0.00 0.00 3.02
54 58 3.149196 GACAATGACTCTTTTGGCCTCA 58.851 45.455 3.32 0.00 0.00 3.86
90 95 2.357881 CCAGTGCAAGCGAGCTGA 60.358 61.111 0.00 0.00 34.99 4.26
91 96 1.962822 TTCCAGTGCAAGCGAGCTG 60.963 57.895 0.00 0.00 34.99 4.24
106 111 2.290071 TGTCGATTGGAAGAAGGGTTCC 60.290 50.000 0.00 0.00 45.63 3.62
111 116 4.797604 AGCGATATGTCGATTGGAAGAAGG 60.798 45.833 16.66 0.00 45.39 3.46
117 122 2.094700 GGCTAGCGATATGTCGATTGGA 60.095 50.000 16.66 0.00 45.39 3.53
126 131 3.181482 CCTCTATGGTGGCTAGCGATATG 60.181 52.174 9.00 0.00 0.00 1.78
130 135 1.464376 GCCTCTATGGTGGCTAGCGA 61.464 60.000 14.30 0.68 45.53 4.93
139 144 0.912486 GTTGGAGGTGCCTCTATGGT 59.088 55.000 16.80 0.00 42.38 3.55
166 171 9.359653 GGTCTTCCCTGTATATAGTTGTAGTAA 57.640 37.037 0.00 0.00 0.00 2.24
198 203 1.068352 ATAATGGGAGTGGGAGGGGC 61.068 60.000 0.00 0.00 0.00 5.80
202 207 1.070758 CGACCATAATGGGAGTGGGAG 59.929 57.143 0.00 0.00 43.37 4.30
211 216 4.864806 CGGTGATCTTATCGACCATAATGG 59.135 45.833 0.00 0.00 45.02 3.16
223 228 1.687123 CCCCTCGTTCGGTGATCTTAT 59.313 52.381 0.00 0.00 0.00 1.73
225 230 0.613853 TCCCCTCGTTCGGTGATCTT 60.614 55.000 0.00 0.00 0.00 2.40
273 278 0.607489 CAGGACCAGCCCAGTTTGAG 60.607 60.000 0.00 0.00 37.37 3.02
274 279 1.455849 CAGGACCAGCCCAGTTTGA 59.544 57.895 0.00 0.00 37.37 2.69
279 284 3.736224 ATGCCAGGACCAGCCCAG 61.736 66.667 4.24 0.00 37.37 4.45
293 298 3.360340 GCTATCGGGCCAGCATGC 61.360 66.667 10.51 10.51 37.73 4.06
315 320 1.815817 AAACATTTCTGGCCGGGCAC 61.816 55.000 29.27 10.90 0.00 5.01
322 327 4.583073 ACCCCGATTATAAACATTTCTGGC 59.417 41.667 0.00 0.00 0.00 4.85
330 335 3.482436 GGCATGACCCCGATTATAAACA 58.518 45.455 0.00 0.00 0.00 2.83
353 358 1.954528 CCCTAGTCGTGACACGTGT 59.045 57.895 23.64 23.64 43.14 4.49
354 359 1.443872 GCCCTAGTCGTGACACGTG 60.444 63.158 26.01 15.48 43.14 4.49
365 370 3.797353 CCCATGCACGGCCCTAGT 61.797 66.667 0.00 0.00 0.00 2.57
387 392 3.660621 GCACTTGTGCCCAGTCTC 58.339 61.111 14.17 0.00 0.00 3.36
482 488 7.768582 CCCACCTGATTTTGGGTTAATTTTATC 59.231 37.037 0.00 0.00 46.74 1.75
505 511 1.859735 ATTTAGCCCCACCACCCCA 60.860 57.895 0.00 0.00 0.00 4.96
506 512 1.381191 CATTTAGCCCCACCACCCC 60.381 63.158 0.00 0.00 0.00 4.95
507 513 0.970427 CACATTTAGCCCCACCACCC 60.970 60.000 0.00 0.00 0.00 4.61
508 514 1.604147 GCACATTTAGCCCCACCACC 61.604 60.000 0.00 0.00 0.00 4.61
509 515 1.604147 GGCACATTTAGCCCCACCAC 61.604 60.000 0.00 0.00 46.50 4.16
510 516 1.304879 GGCACATTTAGCCCCACCA 60.305 57.895 0.00 0.00 46.50 4.17
511 517 3.616086 GGCACATTTAGCCCCACC 58.384 61.111 0.00 0.00 46.50 4.61
560 566 3.691342 TCCAGAACTCGTGCCCCG 61.691 66.667 0.00 0.00 38.13 5.73
561 567 2.047179 GTCCAGAACTCGTGCCCC 60.047 66.667 0.00 0.00 0.00 5.80
562 568 1.374758 CAGTCCAGAACTCGTGCCC 60.375 63.158 0.00 0.00 35.45 5.36
563 569 0.667792 GTCAGTCCAGAACTCGTGCC 60.668 60.000 0.00 0.00 35.45 5.01
564 570 0.032130 TGTCAGTCCAGAACTCGTGC 59.968 55.000 0.00 0.00 35.45 5.34
565 571 1.772182 GTGTCAGTCCAGAACTCGTG 58.228 55.000 0.00 0.00 35.45 4.35
566 572 0.311165 CGTGTCAGTCCAGAACTCGT 59.689 55.000 0.00 0.00 35.45 4.18
567 573 0.591659 TCGTGTCAGTCCAGAACTCG 59.408 55.000 0.00 0.00 35.45 4.18
568 574 1.336056 GGTCGTGTCAGTCCAGAACTC 60.336 57.143 0.00 0.00 35.45 3.01
569 575 0.674534 GGTCGTGTCAGTCCAGAACT 59.325 55.000 0.00 0.00 39.44 3.01
570 576 0.319641 GGGTCGTGTCAGTCCAGAAC 60.320 60.000 0.00 0.00 0.00 3.01
571 577 1.802337 CGGGTCGTGTCAGTCCAGAA 61.802 60.000 0.00 0.00 0.00 3.02
572 578 2.265904 CGGGTCGTGTCAGTCCAGA 61.266 63.158 0.00 0.00 0.00 3.86
573 579 2.258591 CGGGTCGTGTCAGTCCAG 59.741 66.667 0.00 0.00 0.00 3.86
574 580 3.986006 GCGGGTCGTGTCAGTCCA 61.986 66.667 0.00 0.00 0.00 4.02
592 598 1.758862 AGCCCCAGGTACACGTAATAC 59.241 52.381 0.00 0.00 0.00 1.89
593 599 1.758280 CAGCCCCAGGTACACGTAATA 59.242 52.381 0.00 0.00 0.00 0.98
594 600 0.539986 CAGCCCCAGGTACACGTAAT 59.460 55.000 0.00 0.00 0.00 1.89
595 601 1.546589 CCAGCCCCAGGTACACGTAA 61.547 60.000 0.00 0.00 0.00 3.18
596 602 1.985662 CCAGCCCCAGGTACACGTA 60.986 63.158 0.00 0.00 0.00 3.57
597 603 3.319198 CCAGCCCCAGGTACACGT 61.319 66.667 0.00 0.00 0.00 4.49
598 604 4.096003 CCCAGCCCCAGGTACACG 62.096 72.222 0.00 0.00 0.00 4.49
599 605 2.933834 ACCCAGCCCCAGGTACAC 60.934 66.667 0.00 0.00 33.52 2.90
600 606 2.933287 CACCCAGCCCCAGGTACA 60.933 66.667 0.00 0.00 33.52 2.90
601 607 2.933834 ACACCCAGCCCCAGGTAC 60.934 66.667 0.00 0.00 33.52 3.34
602 608 2.933287 CACACCCAGCCCCAGGTA 60.933 66.667 0.00 0.00 33.52 3.08
630 636 1.228367 AGCAAACCTGGCCAGACAG 60.228 57.895 34.91 19.78 38.21 3.51
631 637 1.228245 GAGCAAACCTGGCCAGACA 60.228 57.895 34.91 0.00 0.00 3.41
632 638 2.328099 CGAGCAAACCTGGCCAGAC 61.328 63.158 34.91 16.74 0.00 3.51
633 639 2.032528 CGAGCAAACCTGGCCAGA 59.967 61.111 34.91 0.00 0.00 3.86
634 640 3.741476 GCGAGCAAACCTGGCCAG 61.741 66.667 26.87 26.87 39.15 4.85
635 641 4.577677 TGCGAGCAAACCTGGCCA 62.578 61.111 4.71 4.71 43.82 5.36
636 642 3.273080 CTTGCGAGCAAACCTGGCC 62.273 63.158 11.83 0.00 43.82 5.36
637 643 2.256461 CTTGCGAGCAAACCTGGC 59.744 61.111 11.83 0.00 44.59 4.85
638 644 0.962356 ATCCTTGCGAGCAAACCTGG 60.962 55.000 11.83 9.33 35.33 4.45
639 645 0.169672 CATCCTTGCGAGCAAACCTG 59.830 55.000 11.83 5.58 35.33 4.00
640 646 0.036732 TCATCCTTGCGAGCAAACCT 59.963 50.000 11.83 0.00 35.33 3.50
641 647 0.449388 CTCATCCTTGCGAGCAAACC 59.551 55.000 11.83 0.00 35.33 3.27
642 648 0.449388 CCTCATCCTTGCGAGCAAAC 59.551 55.000 11.83 0.00 35.33 2.93
643 649 0.324614 TCCTCATCCTTGCGAGCAAA 59.675 50.000 11.83 0.00 35.33 3.68
644 650 0.391661 GTCCTCATCCTTGCGAGCAA 60.392 55.000 10.28 10.28 0.00 3.91
645 651 1.219124 GTCCTCATCCTTGCGAGCA 59.781 57.895 0.00 0.00 0.00 4.26
646 652 1.880340 CGTCCTCATCCTTGCGAGC 60.880 63.158 0.00 0.00 0.00 5.03
647 653 1.227089 CCGTCCTCATCCTTGCGAG 60.227 63.158 0.00 0.00 0.00 5.03
648 654 2.721167 CCCGTCCTCATCCTTGCGA 61.721 63.158 0.00 0.00 0.00 5.10
649 655 2.202932 CCCGTCCTCATCCTTGCG 60.203 66.667 0.00 0.00 0.00 4.85
650 656 1.450312 CACCCGTCCTCATCCTTGC 60.450 63.158 0.00 0.00 0.00 4.01
651 657 1.221840 CCACCCGTCCTCATCCTTG 59.778 63.158 0.00 0.00 0.00 3.61
652 658 0.840722 AACCACCCGTCCTCATCCTT 60.841 55.000 0.00 0.00 0.00 3.36
653 659 1.229529 AACCACCCGTCCTCATCCT 60.230 57.895 0.00 0.00 0.00 3.24
654 660 1.221021 GAACCACCCGTCCTCATCC 59.779 63.158 0.00 0.00 0.00 3.51
655 661 1.153628 CGAACCACCCGTCCTCATC 60.154 63.158 0.00 0.00 0.00 2.92
656 662 1.605058 CTCGAACCACCCGTCCTCAT 61.605 60.000 0.00 0.00 0.00 2.90
657 663 2.203523 TCGAACCACCCGTCCTCA 60.204 61.111 0.00 0.00 0.00 3.86
658 664 2.572284 CTCGAACCACCCGTCCTC 59.428 66.667 0.00 0.00 0.00 3.71
659 665 3.692406 GCTCGAACCACCCGTCCT 61.692 66.667 0.00 0.00 0.00 3.85
663 669 4.796231 CTCCGCTCGAACCACCCG 62.796 72.222 0.00 0.00 0.00 5.28
664 670 3.358076 CTCTCCGCTCGAACCACCC 62.358 68.421 0.00 0.00 0.00 4.61
665 671 1.874345 TTCTCTCCGCTCGAACCACC 61.874 60.000 0.00 0.00 0.00 4.61
666 672 0.038526 TTTCTCTCCGCTCGAACCAC 60.039 55.000 0.00 0.00 0.00 4.16
667 673 0.895530 ATTTCTCTCCGCTCGAACCA 59.104 50.000 0.00 0.00 0.00 3.67
668 674 1.135083 TCATTTCTCTCCGCTCGAACC 60.135 52.381 0.00 0.00 0.00 3.62
669 675 2.159366 TCTCATTTCTCTCCGCTCGAAC 60.159 50.000 0.00 0.00 0.00 3.95
670 676 2.092323 TCTCATTTCTCTCCGCTCGAA 58.908 47.619 0.00 0.00 0.00 3.71
671 677 1.673400 CTCTCATTTCTCTCCGCTCGA 59.327 52.381 0.00 0.00 0.00 4.04
672 678 1.268999 CCTCTCATTTCTCTCCGCTCG 60.269 57.143 0.00 0.00 0.00 5.03
673 679 1.068434 CCCTCTCATTTCTCTCCGCTC 59.932 57.143 0.00 0.00 0.00 5.03
674 680 1.118838 CCCTCTCATTTCTCTCCGCT 58.881 55.000 0.00 0.00 0.00 5.52
675 681 0.105778 CCCCTCTCATTTCTCTCCGC 59.894 60.000 0.00 0.00 0.00 5.54
676 682 1.686052 CTCCCCTCTCATTTCTCTCCG 59.314 57.143 0.00 0.00 0.00 4.63
677 683 3.039252 TCTCCCCTCTCATTTCTCTCC 57.961 52.381 0.00 0.00 0.00 3.71
678 684 5.130145 TGAATTCTCCCCTCTCATTTCTCTC 59.870 44.000 7.05 0.00 0.00 3.20
679 685 5.035556 TGAATTCTCCCCTCTCATTTCTCT 58.964 41.667 7.05 0.00 0.00 3.10
680 686 5.122519 GTGAATTCTCCCCTCTCATTTCTC 58.877 45.833 7.05 0.00 0.00 2.87
681 687 4.080072 GGTGAATTCTCCCCTCTCATTTCT 60.080 45.833 14.48 0.00 0.00 2.52
682 688 4.203226 GGTGAATTCTCCCCTCTCATTTC 58.797 47.826 14.48 0.00 0.00 2.17
683 689 3.593328 TGGTGAATTCTCCCCTCTCATTT 59.407 43.478 20.95 0.00 0.00 2.32
684 690 3.192944 TGGTGAATTCTCCCCTCTCATT 58.807 45.455 20.95 0.00 0.00 2.57
685 691 2.850833 TGGTGAATTCTCCCCTCTCAT 58.149 47.619 20.95 0.00 0.00 2.90
686 692 2.342406 TGGTGAATTCTCCCCTCTCA 57.658 50.000 20.95 1.61 0.00 3.27
687 693 3.549794 CATTGGTGAATTCTCCCCTCTC 58.450 50.000 20.95 0.00 0.00 3.20
688 694 2.357569 GCATTGGTGAATTCTCCCCTCT 60.358 50.000 20.95 3.49 0.00 3.69
689 695 2.027385 GCATTGGTGAATTCTCCCCTC 58.973 52.381 20.95 6.73 0.00 4.30
690 696 1.358787 TGCATTGGTGAATTCTCCCCT 59.641 47.619 20.95 7.85 0.00 4.79
691 697 1.851304 TGCATTGGTGAATTCTCCCC 58.149 50.000 20.95 11.95 0.00 4.81
692 698 3.959535 TTTGCATTGGTGAATTCTCCC 57.040 42.857 20.95 14.15 0.00 4.30
693 699 4.093850 GCAATTTGCATTGGTGAATTCTCC 59.906 41.667 17.85 17.85 44.26 3.71
694 700 5.212589 GCAATTTGCATTGGTGAATTCTC 57.787 39.130 16.35 2.70 44.26 2.87
811 1014 1.384191 CTGTTGGAAGGGGAAGGGG 59.616 63.158 0.00 0.00 0.00 4.79
874 1081 3.591254 GACCACGGGCCAGTGACTC 62.591 68.421 34.08 23.31 44.43 3.36
918 1135 2.373707 GGGTGGATGGAGCTCAGCT 61.374 63.158 17.19 0.00 43.88 4.24
919 1136 1.992519 ATGGGTGGATGGAGCTCAGC 61.993 60.000 17.19 4.43 0.00 4.26
920 1137 0.108207 GATGGGTGGATGGAGCTCAG 59.892 60.000 17.19 0.00 0.00 3.35
921 1138 1.348008 GGATGGGTGGATGGAGCTCA 61.348 60.000 17.19 1.87 0.00 4.26
985 1215 5.221621 CCTTTTCTTTCTTGGCCACCATTTA 60.222 40.000 3.88 0.00 31.53 1.40
1012 1242 1.287425 GTGTATGCTTCCCTACGTGC 58.713 55.000 0.00 0.00 0.00 5.34
1014 1244 0.179119 GCGTGTATGCTTCCCTACGT 60.179 55.000 0.00 0.00 34.37 3.57
1016 1246 1.488261 GCGCGTGTATGCTTCCCTAC 61.488 60.000 8.43 0.00 0.00 3.18
1018 1248 2.511600 GCGCGTGTATGCTTCCCT 60.512 61.111 8.43 0.00 0.00 4.20
1019 1249 2.817834 TGCGCGTGTATGCTTCCC 60.818 61.111 8.43 0.00 0.00 3.97
1020 1250 2.387445 TGTGCGCGTGTATGCTTCC 61.387 57.895 8.43 0.00 0.00 3.46
1021 1251 1.225745 GTGTGCGCGTGTATGCTTC 60.226 57.895 8.43 0.00 0.00 3.86
1082 1315 2.158755 GGTGGTGATCATAAGTGGAGGG 60.159 54.545 0.00 0.00 0.00 4.30
1083 1316 2.505407 TGGTGGTGATCATAAGTGGAGG 59.495 50.000 0.00 0.00 0.00 4.30
2042 2323 3.637273 GTCACCTTCAGGGCCGGT 61.637 66.667 1.90 0.00 40.27 5.28
2606 2893 1.804396 CGTGGAAGCCATGGTTTGCA 61.804 55.000 27.58 27.58 36.92 4.08
2609 2896 1.234615 CGACGTGGAAGCCATGGTTT 61.235 55.000 14.40 14.40 44.23 3.27
2775 3070 6.821388 CCAAGATTGGCTACTAGTACTTGAT 58.179 40.000 21.45 6.90 42.21 2.57
2838 3149 3.768406 TCGGCATTTCGAATTTCCATTG 58.232 40.909 0.00 0.00 36.12 2.82
2912 3480 5.884792 TGGCATAATACACAATGATCACACA 59.115 36.000 0.00 0.00 0.00 3.72
3002 3572 3.295093 TGTTGATTTCCACTGGCAAGAA 58.705 40.909 0.00 0.00 0.00 2.52
3004 3574 3.553508 CCTTGTTGATTTCCACTGGCAAG 60.554 47.826 0.00 0.00 33.87 4.01
3011 3581 5.852827 TGGAAAATCCTTGTTGATTTCCAC 58.147 37.500 12.80 1.53 42.58 4.02
3140 3716 8.331931 ACATAGTCTGGTTTAATTAGGGATCA 57.668 34.615 0.00 0.00 0.00 2.92
3164 3740 6.596888 AGCCTGATTGATGCATACATACATAC 59.403 38.462 0.00 0.00 36.35 2.39
3187 3770 4.082787 TCAGCATAAAACCTTAGTTGCAGC 60.083 41.667 0.00 0.00 35.97 5.25
3245 3828 5.183904 CCAAAGAAAATACAGAGGGGACAAG 59.816 44.000 0.00 0.00 0.00 3.16
3374 3957 4.119862 GAGGAAAAGAAAAACAAGGGTGC 58.880 43.478 0.00 0.00 0.00 5.01
3375 3958 4.161377 TGGAGGAAAAGAAAAACAAGGGTG 59.839 41.667 0.00 0.00 0.00 4.61
3376 3959 4.358214 TGGAGGAAAAGAAAAACAAGGGT 58.642 39.130 0.00 0.00 0.00 4.34
3377 3960 5.070313 TCATGGAGGAAAAGAAAAACAAGGG 59.930 40.000 0.00 0.00 0.00 3.95
3379 3962 8.667076 AATTCATGGAGGAAAAGAAAAACAAG 57.333 30.769 0.00 0.00 0.00 3.16
3381 3964 9.927668 GATAATTCATGGAGGAAAAGAAAAACA 57.072 29.630 0.00 0.00 0.00 2.83
3382 3965 9.371136 GGATAATTCATGGAGGAAAAGAAAAAC 57.629 33.333 0.00 0.00 0.00 2.43
3383 3966 9.325248 AGGATAATTCATGGAGGAAAAGAAAAA 57.675 29.630 0.00 0.00 0.00 1.94
3412 3995 5.784578 TTTCCAAGCTTAGGAGAAAAACC 57.215 39.130 14.59 0.00 36.33 3.27
3413 3996 6.146184 GCAATTTCCAAGCTTAGGAGAAAAAC 59.854 38.462 14.59 6.44 36.33 2.43
3414 3997 6.183360 TGCAATTTCCAAGCTTAGGAGAAAAA 60.183 34.615 14.59 8.93 36.33 1.94
3416 3999 4.832266 TGCAATTTCCAAGCTTAGGAGAAA 59.168 37.500 14.59 13.59 36.33 2.52
3419 4005 4.789012 TTGCAATTTCCAAGCTTAGGAG 57.211 40.909 14.59 7.32 36.33 3.69
3424 4010 7.930865 TGTAGTAAAATTGCAATTTCCAAGCTT 59.069 29.630 31.78 19.34 37.62 3.74
3441 4027 4.775058 ATTGCGGCAATGTGTAGTAAAA 57.225 36.364 26.15 0.00 32.39 1.52
3458 4046 4.244862 CAACCCCACACTATTCAAATTGC 58.755 43.478 0.00 0.00 0.00 3.56
3510 4098 7.716799 ACCCTAAATTTCAGTATTTGATGCA 57.283 32.000 0.00 0.00 35.27 3.96
3561 4153 7.495934 CCCTTGTTTAACAGTAGGTATGATGAG 59.504 40.741 13.01 0.00 26.67 2.90
3747 4347 9.775854 AAAGATATAGATGAATTGAGTGACAGG 57.224 33.333 0.00 0.00 0.00 4.00
3788 4391 2.746904 CTGCAAATCGACATACCAACCA 59.253 45.455 0.00 0.00 0.00 3.67
3797 4400 1.804151 GGTAGCAACTGCAAATCGACA 59.196 47.619 4.22 0.00 45.16 4.35
3864 4481 1.300620 CGGACTCCGCTGAAACACA 60.301 57.895 4.10 0.00 41.17 3.72
3931 4548 2.220313 AGGTAATAGCGACGACTCCTC 58.780 52.381 0.00 0.00 0.00 3.71
4016 4633 7.313951 ACTTCATATAGAAACTGCTCAAAGC 57.686 36.000 0.00 0.00 37.50 3.51


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

AutoCloner maintained by Alex Coulton.