Multiple sequence alignment - TraesCS7A01G257600

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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 TraesCS7A01G257600 chr7A 100.000 2672 0 0 433 3104 247253038 247250367 0.000000e+00 4935
1 TraesCS7A01G257600 chr7A 93.226 561 34 4 2545 3104 130187356 130187913 0.000000e+00 822
2 TraesCS7A01G257600 chr7A 100.000 103 0 0 1 103 247253470 247253368 1.140000e-44 191
3 TraesCS7A01G257600 chr7A 100.000 103 0 0 1 103 683749765 683749663 1.140000e-44 191
4 TraesCS7A01G257600 chr7A 99.029 103 1 0 1 103 604854858 604854756 5.290000e-43 185
5 TraesCS7A01G257600 chr7B 89.858 1696 80 27 856 2526 206337976 206336348 0.000000e+00 2095
6 TraesCS7A01G257600 chr7B 91.986 574 37 8 2536 3104 520418987 520419556 0.000000e+00 797
7 TraesCS7A01G257600 chr7B 94.215 121 7 0 657 777 206338283 206338163 5.290000e-43 185
8 TraesCS7A01G257600 chr7D 89.145 1732 79 44 856 2523 234349035 234347349 0.000000e+00 2056
9 TraesCS7A01G257600 chr7D 86.010 193 11 6 657 833 234349316 234349124 3.160000e-45 193
10 TraesCS7A01G257600 chr2A 98.039 561 10 1 2545 3104 281660117 281660677 0.000000e+00 974
11 TraesCS7A01G257600 chr2A 91.192 193 14 3 433 622 724116068 724116260 3.070000e-65 259
12 TraesCS7A01G257600 chr2A 96.154 156 6 0 467 622 773822594 773822749 3.970000e-64 255
13 TraesCS7A01G257600 chr3A 95.398 565 24 2 2541 3104 681615024 681615587 0.000000e+00 898
14 TraesCS7A01G257600 chr3A 91.182 533 39 6 2545 3075 737831887 737831361 0.000000e+00 717
15 TraesCS7A01G257600 chr3A 100.000 103 0 0 1 103 536884670 536884772 1.140000e-44 191
16 TraesCS7A01G257600 chr3A 99.029 103 1 0 1 103 169080168 169080066 5.290000e-43 185
17 TraesCS7A01G257600 chr3A 86.061 165 19 4 1743 1906 666222071 666221910 1.140000e-39 174
18 TraesCS7A01G257600 chr3A 75.630 357 65 19 1555 1906 482093140 482093479 1.150000e-34 158
19 TraesCS7A01G257600 chr4A 95.365 561 23 3 2545 3104 589148955 589149513 0.000000e+00 889
20 TraesCS7A01G257600 chr3B 91.622 561 41 4 2545 3104 335436969 335437524 0.000000e+00 771
21 TraesCS7A01G257600 chr3B 89.661 561 52 5 2545 3104 582287931 582287376 0.000000e+00 710
22 TraesCS7A01G257600 chr3B 91.053 190 17 0 433 622 436755144 436755333 1.100000e-64 257
23 TraesCS7A01G257600 chr3B 86.747 166 18 4 1743 1907 703296599 703296437 6.840000e-42 182
24 TraesCS7A01G257600 chr3B 86.000 150 21 0 1757 1906 471485770 471485919 8.910000e-36 161
25 TraesCS7A01G257600 chr5D 90.792 543 44 5 2535 3075 461343599 461344137 0.000000e+00 721
26 TraesCS7A01G257600 chr5D 91.228 171 10 1 433 603 331545416 331545581 8.660000e-56 228
27 TraesCS7A01G257600 chr1A 94.271 192 9 2 433 622 432546213 432546022 3.030000e-75 292
28 TraesCS7A01G257600 chr1A 89.005 191 15 3 433 622 428997596 428997411 6.690000e-57 231
29 TraesCS7A01G257600 chr1A 100.000 103 0 0 1 103 48782053 48782155 1.140000e-44 191
30 TraesCS7A01G257600 chr1A 100.000 103 0 0 1 103 566349572 566349470 1.140000e-44 191
31 TraesCS7A01G257600 chr1A 98.058 103 2 0 1 103 13841655 13841553 2.460000e-41 180
32 TraesCS7A01G257600 chr5A 94.149 188 9 2 433 620 704872928 704873113 5.070000e-73 285
33 TraesCS7A01G257600 chr5A 99.029 103 1 0 1 103 20797155 20797053 5.290000e-43 185
34 TraesCS7A01G257600 chr5A 99.010 101 1 0 1 101 331381652 331381752 6.840000e-42 182
35 TraesCS7A01G257600 chr6A 93.194 191 12 1 433 622 591820238 591820428 2.360000e-71 279
36 TraesCS7A01G257600 chr2B 88.947 190 16 3 433 622 768369970 768369786 2.410000e-56 230
37 TraesCS7A01G257600 chr3D 86.755 151 18 2 1757 1906 531680006 531679857 1.910000e-37 167
38 TraesCS7A01G257600 chr3D 85.333 150 22 0 1757 1906 361777165 361777314 4.140000e-34 156


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 TraesCS7A01G257600 chr7A 247250367 247253470 3103 True 2563.0 4935 100.0000 1 3104 2 chr7A.!!$R3 3103
1 TraesCS7A01G257600 chr7A 130187356 130187913 557 False 822.0 822 93.2260 2545 3104 1 chr7A.!!$F1 559
2 TraesCS7A01G257600 chr7B 206336348 206338283 1935 True 1140.0 2095 92.0365 657 2526 2 chr7B.!!$R1 1869
3 TraesCS7A01G257600 chr7B 520418987 520419556 569 False 797.0 797 91.9860 2536 3104 1 chr7B.!!$F1 568
4 TraesCS7A01G257600 chr7D 234347349 234349316 1967 True 1124.5 2056 87.5775 657 2523 2 chr7D.!!$R1 1866
5 TraesCS7A01G257600 chr2A 281660117 281660677 560 False 974.0 974 98.0390 2545 3104 1 chr2A.!!$F1 559
6 TraesCS7A01G257600 chr3A 681615024 681615587 563 False 898.0 898 95.3980 2541 3104 1 chr3A.!!$F3 563
7 TraesCS7A01G257600 chr3A 737831361 737831887 526 True 717.0 717 91.1820 2545 3075 1 chr3A.!!$R3 530
8 TraesCS7A01G257600 chr4A 589148955 589149513 558 False 889.0 889 95.3650 2545 3104 1 chr4A.!!$F1 559
9 TraesCS7A01G257600 chr3B 335436969 335437524 555 False 771.0 771 91.6220 2545 3104 1 chr3B.!!$F1 559
10 TraesCS7A01G257600 chr3B 582287376 582287931 555 True 710.0 710 89.6610 2545 3104 1 chr3B.!!$R1 559
11 TraesCS7A01G257600 chr5D 461343599 461344137 538 False 721.0 721 90.7920 2535 3075 1 chr5D.!!$F2 540

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
98 99 0.03254 AGACGTGGTTTGGTACGGAC 59.967 55.0 0.0 0.0 44.07 4.79 F
614 615 0.03601 CTGGGCCGTCTCATTTGTCT 60.036 55.0 0.0 0.0 0.00 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2072 2244 0.931005 GACGATGGTGATTTCGAGCC 59.069 55.0 0.0 0.0 38.67 4.70 R
2328 2539 0.250727 GCTGGACAACAAGGCTGGTA 60.251 55.0 0.0 0.0 0.00 3.25 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
27 28 3.330720 AGGGCCAAACCTCCTCCG 61.331 66.667 6.18 0.00 35.43 4.63
28 29 3.327404 GGGCCAAACCTCCTCCGA 61.327 66.667 4.39 0.00 39.10 4.55
29 30 2.680370 GGGCCAAACCTCCTCCGAT 61.680 63.158 4.39 0.00 39.10 4.18
30 31 1.153147 GGCCAAACCTCCTCCGATC 60.153 63.158 0.00 0.00 34.51 3.69
31 32 1.521681 GCCAAACCTCCTCCGATCG 60.522 63.158 8.51 8.51 0.00 3.69
32 33 1.956629 GCCAAACCTCCTCCGATCGA 61.957 60.000 18.66 1.60 0.00 3.59
33 34 0.179108 CCAAACCTCCTCCGATCGAC 60.179 60.000 18.66 0.00 0.00 4.20
34 35 0.525668 CAAACCTCCTCCGATCGACG 60.526 60.000 18.66 6.66 42.18 5.12
35 36 0.679002 AAACCTCCTCCGATCGACGA 60.679 55.000 18.66 0.00 45.77 4.20
36 37 1.375098 AACCTCCTCCGATCGACGAC 61.375 60.000 18.66 0.00 45.77 4.34
37 38 2.544698 CCTCCTCCGATCGACGACC 61.545 68.421 18.66 0.00 45.77 4.79
38 39 1.818363 CTCCTCCGATCGACGACCA 60.818 63.158 18.66 0.00 45.77 4.02
39 40 1.374343 CTCCTCCGATCGACGACCAA 61.374 60.000 18.66 0.00 45.77 3.67
40 41 0.961857 TCCTCCGATCGACGACCAAA 60.962 55.000 18.66 0.00 45.77 3.28
41 42 0.108992 CCTCCGATCGACGACCAAAA 60.109 55.000 18.66 0.00 45.77 2.44
42 43 0.989890 CTCCGATCGACGACCAAAAC 59.010 55.000 18.66 0.00 45.77 2.43
43 44 0.599558 TCCGATCGACGACCAAAACT 59.400 50.000 18.66 0.00 45.77 2.66
44 45 1.811965 TCCGATCGACGACCAAAACTA 59.188 47.619 18.66 0.00 45.77 2.24
45 46 1.916000 CCGATCGACGACCAAAACTAC 59.084 52.381 18.66 0.00 45.77 2.73
46 47 1.576246 CGATCGACGACCAAAACTACG 59.424 52.381 10.26 0.00 45.77 3.51
47 48 1.916000 GATCGACGACCAAAACTACGG 59.084 52.381 0.00 0.00 0.00 4.02
48 49 0.664166 TCGACGACCAAAACTACGGC 60.664 55.000 0.00 0.00 0.00 5.68
49 50 1.777199 GACGACCAAAACTACGGCG 59.223 57.895 4.80 4.80 0.00 6.46
50 51 1.620413 GACGACCAAAACTACGGCGG 61.620 60.000 13.24 0.00 0.00 6.13
51 52 1.373246 CGACCAAAACTACGGCGGA 60.373 57.895 13.24 0.00 0.00 5.54
52 53 0.945265 CGACCAAAACTACGGCGGAA 60.945 55.000 13.24 0.00 0.00 4.30
53 54 0.794473 GACCAAAACTACGGCGGAAG 59.206 55.000 13.24 11.09 0.00 3.46
81 82 4.451150 GTGGCGGCCATGTCGAGA 62.451 66.667 26.68 0.00 35.28 4.04
82 83 4.451150 TGGCGGCCATGTCGAGAC 62.451 66.667 19.77 0.00 29.41 3.36
84 85 4.796231 GCGGCCATGTCGAGACGT 62.796 66.667 2.24 0.00 29.41 4.34
85 86 2.880879 CGGCCATGTCGAGACGTG 60.881 66.667 16.25 16.25 45.43 4.49
91 92 0.790207 CATGTCGAGACGTGGTTTGG 59.210 55.000 15.59 0.00 42.91 3.28
92 93 0.391597 ATGTCGAGACGTGGTTTGGT 59.608 50.000 0.00 0.00 0.00 3.67
93 94 1.031235 TGTCGAGACGTGGTTTGGTA 58.969 50.000 0.00 0.00 0.00 3.25
94 95 1.269206 TGTCGAGACGTGGTTTGGTAC 60.269 52.381 0.00 0.00 0.00 3.34
95 96 0.040157 TCGAGACGTGGTTTGGTACG 60.040 55.000 0.00 0.00 45.19 3.67
96 97 1.005294 CGAGACGTGGTTTGGTACGG 61.005 60.000 0.00 0.00 44.07 4.02
97 98 0.314935 GAGACGTGGTTTGGTACGGA 59.685 55.000 0.00 0.00 44.07 4.69
98 99 0.032540 AGACGTGGTTTGGTACGGAC 59.967 55.000 0.00 0.00 44.07 4.79
99 100 1.277495 GACGTGGTTTGGTACGGACG 61.277 60.000 0.00 0.00 44.07 4.79
100 101 2.023223 CGTGGTTTGGTACGGACGG 61.023 63.158 0.00 0.00 36.71 4.79
101 102 2.030862 TGGTTTGGTACGGACGGC 59.969 61.111 0.00 0.00 0.00 5.68
102 103 3.113979 GGTTTGGTACGGACGGCG 61.114 66.667 4.80 4.80 0.00 6.46
450 451 2.587080 TAGTGTCCCTAACAGGCGG 58.413 57.895 0.00 0.00 38.97 6.13
451 452 0.974010 TAGTGTCCCTAACAGGCGGG 60.974 60.000 0.00 0.00 38.97 6.13
452 453 3.712907 TGTCCCTAACAGGCGGGC 61.713 66.667 0.00 0.00 40.41 6.13
453 454 4.484872 GTCCCTAACAGGCGGGCC 62.485 72.222 0.18 0.18 40.41 5.80
455 456 4.796495 CCCTAACAGGCGGGCCAC 62.796 72.222 12.97 0.00 38.92 5.01
514 515 4.696172 CACGCGCGTCCGTTTCAC 62.696 66.667 35.61 0.00 39.83 3.18
518 519 4.973055 CGCGTCCGTTTCACCCCA 62.973 66.667 0.00 0.00 0.00 4.96
519 520 2.592287 GCGTCCGTTTCACCCCAA 60.592 61.111 0.00 0.00 0.00 4.12
520 521 2.188161 GCGTCCGTTTCACCCCAAA 61.188 57.895 0.00 0.00 0.00 3.28
521 522 1.650363 CGTCCGTTTCACCCCAAAC 59.350 57.895 0.00 0.00 33.57 2.93
522 523 1.788067 CGTCCGTTTCACCCCAAACC 61.788 60.000 0.00 0.00 33.37 3.27
523 524 1.526455 TCCGTTTCACCCCAAACCG 60.526 57.895 0.00 0.00 33.37 4.44
524 525 1.526455 CCGTTTCACCCCAAACCGA 60.526 57.895 0.00 0.00 33.37 4.69
525 526 1.512156 CCGTTTCACCCCAAACCGAG 61.512 60.000 0.00 0.00 33.37 4.63
526 527 1.658114 GTTTCACCCCAAACCGAGC 59.342 57.895 0.00 0.00 31.10 5.03
527 528 1.894756 TTTCACCCCAAACCGAGCG 60.895 57.895 0.00 0.00 0.00 5.03
530 531 4.572571 ACCCCAAACCGAGCGCAA 62.573 61.111 11.47 0.00 0.00 4.85
531 532 3.737172 CCCCAAACCGAGCGCAAG 61.737 66.667 11.47 1.89 43.44 4.01
532 533 2.978010 CCCAAACCGAGCGCAAGT 60.978 61.111 11.47 0.00 41.68 3.16
533 534 2.551912 CCCAAACCGAGCGCAAGTT 61.552 57.895 11.47 7.07 41.68 2.66
534 535 1.358759 CCAAACCGAGCGCAAGTTT 59.641 52.632 11.47 13.31 41.68 2.66
535 536 0.934436 CCAAACCGAGCGCAAGTTTG 60.934 55.000 28.51 28.51 46.28 2.93
544 545 4.986708 GCAAGTTTGGGCCGGGGA 62.987 66.667 2.18 0.00 0.00 4.81
545 546 2.037208 CAAGTTTGGGCCGGGGAT 59.963 61.111 2.18 0.00 0.00 3.85
546 547 2.037208 AAGTTTGGGCCGGGGATG 59.963 61.111 2.18 0.00 0.00 3.51
547 548 3.600410 AAGTTTGGGCCGGGGATGG 62.600 63.158 2.18 0.00 0.00 3.51
554 555 4.104183 GCCGGGGATGGGTCGAAA 62.104 66.667 2.18 0.00 0.00 3.46
555 556 2.189521 CCGGGGATGGGTCGAAAG 59.810 66.667 0.00 0.00 0.00 2.62
556 557 2.513897 CGGGGATGGGTCGAAAGC 60.514 66.667 0.00 0.00 0.00 3.51
557 558 2.513897 GGGGATGGGTCGAAAGCG 60.514 66.667 0.00 0.00 39.35 4.68
558 559 2.513897 GGGATGGGTCGAAAGCGG 60.514 66.667 0.00 0.00 38.28 5.52
559 560 2.582436 GGATGGGTCGAAAGCGGA 59.418 61.111 0.00 0.00 38.28 5.54
560 561 1.814169 GGATGGGTCGAAAGCGGAC 60.814 63.158 0.00 0.00 38.28 4.79
561 562 2.125673 ATGGGTCGAAAGCGGACG 60.126 61.111 0.00 0.00 38.28 4.79
562 563 3.659089 ATGGGTCGAAAGCGGACGG 62.659 63.158 0.00 0.00 38.28 4.79
563 564 4.060038 GGGTCGAAAGCGGACGGA 62.060 66.667 0.00 0.00 38.28 4.69
564 565 2.048877 GGTCGAAAGCGGACGGAA 60.049 61.111 0.00 0.00 38.28 4.30
565 566 1.447314 GGTCGAAAGCGGACGGAAT 60.447 57.895 0.00 0.00 38.28 3.01
566 567 1.419107 GGTCGAAAGCGGACGGAATC 61.419 60.000 0.00 0.00 38.28 2.52
567 568 1.153706 TCGAAAGCGGACGGAATCC 60.154 57.895 0.00 0.00 45.20 3.01
579 580 2.024176 CGGAATCCGGACATTTGTCT 57.976 50.000 14.91 0.00 44.15 3.41
587 588 3.691049 CGGACATTTGTCTGTTTGTGT 57.309 42.857 10.73 0.00 44.33 3.72
588 589 3.617669 CGGACATTTGTCTGTTTGTGTC 58.382 45.455 10.73 0.00 44.33 3.67
589 590 3.964909 GGACATTTGTCTGTTTGTGTCC 58.035 45.455 10.32 6.59 45.90 4.02
590 591 3.548014 GGACATTTGTCTGTTTGTGTCCG 60.548 47.826 10.32 0.00 44.06 4.79
591 592 2.223479 ACATTTGTCTGTTTGTGTCCGC 60.223 45.455 0.00 0.00 0.00 5.54
592 593 0.375454 TTTGTCTGTTTGTGTCCGCG 59.625 50.000 0.00 0.00 0.00 6.46
593 594 2.042520 TTGTCTGTTTGTGTCCGCGC 62.043 55.000 0.00 0.00 0.00 6.86
594 595 3.334751 TCTGTTTGTGTCCGCGCG 61.335 61.111 25.67 25.67 0.00 6.86
610 611 2.436646 CGCTGGGCCGTCTCATTT 60.437 61.111 0.00 0.00 0.00 2.32
611 612 2.753966 CGCTGGGCCGTCTCATTTG 61.754 63.158 0.00 0.00 0.00 2.32
612 613 1.675641 GCTGGGCCGTCTCATTTGT 60.676 57.895 0.00 0.00 0.00 2.83
613 614 1.648467 GCTGGGCCGTCTCATTTGTC 61.648 60.000 0.00 0.00 0.00 3.18
614 615 0.036010 CTGGGCCGTCTCATTTGTCT 60.036 55.000 0.00 0.00 0.00 3.41
615 616 0.036388 TGGGCCGTCTCATTTGTCTC 60.036 55.000 0.00 0.00 0.00 3.36
616 617 0.250513 GGGCCGTCTCATTTGTCTCT 59.749 55.000 0.00 0.00 0.00 3.10
617 618 1.339151 GGGCCGTCTCATTTGTCTCTT 60.339 52.381 0.00 0.00 0.00 2.85
618 619 2.427506 GGCCGTCTCATTTGTCTCTTT 58.572 47.619 0.00 0.00 0.00 2.52
619 620 2.814336 GGCCGTCTCATTTGTCTCTTTT 59.186 45.455 0.00 0.00 0.00 2.27
620 621 4.000988 GGCCGTCTCATTTGTCTCTTTTA 58.999 43.478 0.00 0.00 0.00 1.52
621 622 4.142881 GGCCGTCTCATTTGTCTCTTTTAC 60.143 45.833 0.00 0.00 0.00 2.01
622 623 4.434330 GCCGTCTCATTTGTCTCTTTTACG 60.434 45.833 0.00 0.00 0.00 3.18
623 624 4.434330 CCGTCTCATTTGTCTCTTTTACGC 60.434 45.833 0.00 0.00 0.00 4.42
624 625 4.629065 GTCTCATTTGTCTCTTTTACGCG 58.371 43.478 3.53 3.53 0.00 6.01
625 626 3.678072 TCTCATTTGTCTCTTTTACGCGG 59.322 43.478 12.47 0.00 0.00 6.46
626 627 3.655486 TCATTTGTCTCTTTTACGCGGA 58.345 40.909 12.47 0.00 0.00 5.54
627 628 4.250464 TCATTTGTCTCTTTTACGCGGAT 58.750 39.130 12.47 0.00 0.00 4.18
628 629 5.412640 TCATTTGTCTCTTTTACGCGGATA 58.587 37.500 12.47 0.00 0.00 2.59
629 630 5.518847 TCATTTGTCTCTTTTACGCGGATAG 59.481 40.000 12.47 2.34 0.00 2.08
630 631 3.431922 TGTCTCTTTTACGCGGATAGG 57.568 47.619 12.47 0.00 0.00 2.57
631 632 3.018856 TGTCTCTTTTACGCGGATAGGA 58.981 45.455 12.47 1.39 0.00 2.94
632 633 3.635373 TGTCTCTTTTACGCGGATAGGAT 59.365 43.478 12.47 0.00 0.00 3.24
633 634 4.823442 TGTCTCTTTTACGCGGATAGGATA 59.177 41.667 12.47 0.00 0.00 2.59
634 635 5.048921 TGTCTCTTTTACGCGGATAGGATAG 60.049 44.000 12.47 0.00 0.00 2.08
635 636 5.180868 GTCTCTTTTACGCGGATAGGATAGA 59.819 44.000 12.47 0.38 0.00 1.98
636 637 5.411977 TCTCTTTTACGCGGATAGGATAGAG 59.588 44.000 12.47 6.47 0.00 2.43
637 638 5.068636 TCTTTTACGCGGATAGGATAGAGT 58.931 41.667 12.47 0.00 0.00 3.24
638 639 5.180868 TCTTTTACGCGGATAGGATAGAGTC 59.819 44.000 12.47 0.00 0.00 3.36
639 640 1.440708 ACGCGGATAGGATAGAGTCG 58.559 55.000 12.47 0.00 0.00 4.18
640 641 0.097325 CGCGGATAGGATAGAGTCGC 59.903 60.000 0.00 0.00 38.56 5.19
641 642 0.097325 GCGGATAGGATAGAGTCGCG 59.903 60.000 0.00 0.00 32.72 5.87
642 643 0.097325 CGGATAGGATAGAGTCGCGC 59.903 60.000 0.00 0.00 0.00 6.86
643 644 0.097325 GGATAGGATAGAGTCGCGCG 59.903 60.000 26.76 26.76 0.00 6.86
644 645 0.097325 GATAGGATAGAGTCGCGCGG 59.903 60.000 31.69 11.75 0.00 6.46
645 646 0.605860 ATAGGATAGAGTCGCGCGGT 60.606 55.000 31.69 18.30 0.00 5.68
646 647 1.504647 TAGGATAGAGTCGCGCGGTG 61.505 60.000 31.69 1.17 0.00 4.94
647 648 2.353607 GATAGAGTCGCGCGGTGG 60.354 66.667 31.69 0.71 0.00 4.61
648 649 2.827190 ATAGAGTCGCGCGGTGGA 60.827 61.111 31.69 7.56 0.00 4.02
649 650 2.131294 GATAGAGTCGCGCGGTGGAT 62.131 60.000 31.69 16.74 0.00 3.41
650 651 1.735376 ATAGAGTCGCGCGGTGGATT 61.735 55.000 31.69 7.00 0.00 3.01
651 652 1.940883 TAGAGTCGCGCGGTGGATTT 61.941 55.000 31.69 11.70 0.00 2.17
652 653 3.083600 GAGTCGCGCGGTGGATTTG 62.084 63.158 31.69 0.00 0.00 2.32
653 654 4.160635 GTCGCGCGGTGGATTTGG 62.161 66.667 31.69 0.00 0.00 3.28
661 662 0.745845 CGGTGGATTTGGCCTCAGAG 60.746 60.000 3.32 0.00 0.00 3.35
695 696 2.637947 GAGCCAGATTCCTGAGAAACC 58.362 52.381 0.00 0.00 43.02 3.27
735 746 5.682943 TCGAACCAATTCTCGTCAAAATT 57.317 34.783 0.00 0.00 36.46 1.82
738 749 5.561919 CGAACCAATTCTCGTCAAAATTCCA 60.562 40.000 0.00 0.00 32.12 3.53
797 817 2.564553 AAGCGTGGCTCCGACAGATC 62.565 60.000 1.39 0.00 38.25 2.75
846 905 0.742281 ACTGCAGTCATCATGCGTCC 60.742 55.000 15.25 0.00 46.87 4.79
849 908 0.460811 GCAGTCATCATGCGTCCAGA 60.461 55.000 0.00 0.00 33.31 3.86
850 909 1.568606 CAGTCATCATGCGTCCAGAG 58.431 55.000 0.00 0.00 0.00 3.35
851 910 0.463204 AGTCATCATGCGTCCAGAGG 59.537 55.000 0.00 0.00 0.00 3.69
977 1124 1.688311 GGCCCTTCCTTCATTAACCCC 60.688 57.143 0.00 0.00 0.00 4.95
978 1125 1.288037 GCCCTTCCTTCATTAACCCCT 59.712 52.381 0.00 0.00 0.00 4.79
1221 1374 4.373116 TGCAACCTCCGCGACCTC 62.373 66.667 8.23 0.00 0.00 3.85
1579 1750 4.814041 AGGAGGAGCAGGGGGAGC 62.814 72.222 0.00 0.00 0.00 4.70
1910 2081 1.064803 CCTCGACATCTTCTGAGACCG 59.935 57.143 0.00 0.00 33.99 4.79
1935 2106 3.221222 GGTCTCCCCATCTGACCG 58.779 66.667 0.00 0.00 40.44 4.79
1945 2116 1.381056 ATCTGACCGCCTCTCAGCT 60.381 57.895 0.00 0.00 35.95 4.24
2028 2199 2.041762 ATCCCTCTGGCCTCTGCA 59.958 61.111 3.32 0.00 40.13 4.41
2110 2287 3.059868 CGTCGAATGTTGTTACAGCTTGT 60.060 43.478 0.34 0.00 37.77 3.16
2120 2297 3.060602 GTTACAGCTTGTCAGAGACCAC 58.939 50.000 0.00 0.00 0.00 4.16
2186 2388 3.740044 TCAGTTCGCAATTCCGATTTC 57.260 42.857 0.00 0.00 37.06 2.17
2225 2427 0.324645 AATCAATCAGGGTGGGTGCC 60.325 55.000 0.00 0.00 0.00 5.01
2290 2498 8.963130 GTTTGACTCGAGATTAATCTATCACTG 58.037 37.037 21.68 8.03 37.25 3.66
2291 2499 7.208225 TGACTCGAGATTAATCTATCACTGG 57.792 40.000 21.68 7.10 37.25 4.00
2415 2639 8.846211 TCGGGAGTTCCAATTGATTAATTAATC 58.154 33.333 25.14 25.14 39.15 1.75
2416 2640 8.850156 CGGGAGTTCCAATTGATTAATTAATCT 58.150 33.333 29.37 14.45 39.30 2.40
2417 2641 9.971922 GGGAGTTCCAATTGATTAATTAATCTG 57.028 33.333 29.37 21.74 39.30 2.90
2418 2642 9.468532 GGAGTTCCAATTGATTAATTAATCTGC 57.531 33.333 29.37 13.87 38.40 4.26
2419 2643 9.468532 GAGTTCCAATTGATTAATTAATCTGCC 57.531 33.333 29.37 12.02 41.93 4.85
2420 2644 8.424133 AGTTCCAATTGATTAATTAATCTGCCC 58.576 33.333 29.37 11.71 41.93 5.36
2421 2645 7.911130 TCCAATTGATTAATTAATCTGCCCA 57.089 32.000 29.37 13.76 41.93 5.36
2422 2646 8.316497 TCCAATTGATTAATTAATCTGCCCAA 57.684 30.769 29.37 19.76 41.93 4.12
2423 2647 8.766476 TCCAATTGATTAATTAATCTGCCCAAA 58.234 29.630 29.37 18.76 41.93 3.28
2424 2648 9.393512 CCAATTGATTAATTAATCTGCCCAAAA 57.606 29.630 29.37 18.22 41.93 2.44
2444 2668 1.076549 AAAAATCTGCCCCGCTCCA 59.923 52.632 0.00 0.00 0.00 3.86
2454 2678 4.135153 CCGCTCCACTCCACTCCG 62.135 72.222 0.00 0.00 0.00 4.63
2486 2715 5.627499 TCTCAGGCATGAACACATTTAAC 57.373 39.130 1.37 0.00 34.23 2.01
2500 2729 7.865706 ACACATTTAACTCACTCTTCACTTT 57.134 32.000 0.00 0.00 0.00 2.66
2508 2737 2.693591 TCACTCTTCACTTTCGTGGAGT 59.306 45.455 1.09 0.79 45.37 3.85
2526 2755 7.445096 TCGTGGAGTGCATTTCATATTCATATT 59.555 33.333 0.00 0.00 0.00 1.28
2527 2756 8.720562 CGTGGAGTGCATTTCATATTCATATTA 58.279 33.333 0.00 0.00 0.00 0.98
2529 2758 8.733458 TGGAGTGCATTTCATATTCATATTAGC 58.267 33.333 0.00 0.00 0.00 3.09
2530 2759 8.733458 GGAGTGCATTTCATATTCATATTAGCA 58.267 33.333 0.00 0.00 0.00 3.49
2672 2904 9.750125 GACATGAACAAACTCTTTAAAATCCTT 57.250 29.630 0.00 0.00 0.00 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 3.330720 CGGAGGAGGTTTGGCCCT 61.331 66.667 0.00 0.00 38.26 5.19
11 12 2.610532 GATCGGAGGAGGTTTGGCCC 62.611 65.000 0.00 0.00 38.26 5.80
12 13 1.153147 GATCGGAGGAGGTTTGGCC 60.153 63.158 0.00 0.00 37.58 5.36
13 14 1.521681 CGATCGGAGGAGGTTTGGC 60.522 63.158 7.38 0.00 0.00 4.52
14 15 0.179108 GTCGATCGGAGGAGGTTTGG 60.179 60.000 16.41 0.00 0.00 3.28
15 16 0.525668 CGTCGATCGGAGGAGGTTTG 60.526 60.000 16.41 0.00 35.71 2.93
16 17 0.679002 TCGTCGATCGGAGGAGGTTT 60.679 55.000 16.41 0.00 40.32 3.27
17 18 1.077930 TCGTCGATCGGAGGAGGTT 60.078 57.895 16.41 0.00 40.32 3.50
18 19 1.818785 GTCGTCGATCGGAGGAGGT 60.819 63.158 16.41 0.00 40.01 3.85
19 20 2.544698 GGTCGTCGATCGGAGGAGG 61.545 68.421 16.41 1.38 40.01 4.30
20 21 1.374343 TTGGTCGTCGATCGGAGGAG 61.374 60.000 16.41 2.75 40.01 3.69
21 22 0.961857 TTTGGTCGTCGATCGGAGGA 60.962 55.000 16.41 10.15 40.32 3.71
22 23 0.108992 TTTTGGTCGTCGATCGGAGG 60.109 55.000 16.41 7.97 40.32 4.30
23 24 0.989890 GTTTTGGTCGTCGATCGGAG 59.010 55.000 16.41 9.77 40.32 4.63
24 25 0.599558 AGTTTTGGTCGTCGATCGGA 59.400 50.000 16.41 2.18 40.32 4.55
25 26 1.916000 GTAGTTTTGGTCGTCGATCGG 59.084 52.381 16.41 0.00 40.32 4.18
26 27 1.576246 CGTAGTTTTGGTCGTCGATCG 59.424 52.381 9.36 9.36 41.41 3.69
27 28 1.916000 CCGTAGTTTTGGTCGTCGATC 59.084 52.381 0.00 0.00 0.00 3.69
28 29 1.986698 CCGTAGTTTTGGTCGTCGAT 58.013 50.000 0.00 0.00 0.00 3.59
29 30 0.664166 GCCGTAGTTTTGGTCGTCGA 60.664 55.000 0.00 0.00 0.00 4.20
30 31 1.777199 GCCGTAGTTTTGGTCGTCG 59.223 57.895 0.00 0.00 0.00 5.12
31 32 1.620413 CCGCCGTAGTTTTGGTCGTC 61.620 60.000 0.00 0.00 0.00 4.20
32 33 1.665599 CCGCCGTAGTTTTGGTCGT 60.666 57.895 0.00 0.00 0.00 4.34
33 34 0.945265 TTCCGCCGTAGTTTTGGTCG 60.945 55.000 0.00 0.00 0.00 4.79
34 35 0.794473 CTTCCGCCGTAGTTTTGGTC 59.206 55.000 0.00 0.00 0.00 4.02
35 36 1.232621 GCTTCCGCCGTAGTTTTGGT 61.233 55.000 0.00 0.00 0.00 3.67
36 37 1.500396 GCTTCCGCCGTAGTTTTGG 59.500 57.895 0.00 0.00 0.00 3.28
37 38 1.131826 CGCTTCCGCCGTAGTTTTG 59.868 57.895 0.00 0.00 0.00 2.44
38 39 3.557824 CGCTTCCGCCGTAGTTTT 58.442 55.556 0.00 0.00 0.00 2.43
64 65 4.451150 TCTCGACATGGCCGCCAC 62.451 66.667 16.16 0.61 35.80 5.01
65 66 4.451150 GTCTCGACATGGCCGCCA 62.451 66.667 16.17 16.17 38.19 5.69
67 68 4.796231 ACGTCTCGACATGGCCGC 62.796 66.667 0.00 0.00 0.00 6.53
68 69 2.880879 CACGTCTCGACATGGCCG 60.881 66.667 0.00 0.00 0.00 6.13
69 70 2.509336 CCACGTCTCGACATGGCC 60.509 66.667 0.00 0.00 37.88 5.36
72 73 0.790207 CCAAACCACGTCTCGACATG 59.210 55.000 0.00 0.00 0.00 3.21
73 74 0.391597 ACCAAACCACGTCTCGACAT 59.608 50.000 0.00 0.00 0.00 3.06
74 75 1.031235 TACCAAACCACGTCTCGACA 58.969 50.000 0.00 0.00 0.00 4.35
75 76 1.412387 GTACCAAACCACGTCTCGAC 58.588 55.000 0.00 0.00 0.00 4.20
76 77 0.040157 CGTACCAAACCACGTCTCGA 60.040 55.000 0.00 0.00 33.56 4.04
77 78 1.005294 CCGTACCAAACCACGTCTCG 61.005 60.000 0.00 0.00 36.44 4.04
78 79 0.314935 TCCGTACCAAACCACGTCTC 59.685 55.000 0.00 0.00 36.44 3.36
79 80 0.032540 GTCCGTACCAAACCACGTCT 59.967 55.000 0.00 0.00 36.44 4.18
80 81 1.277495 CGTCCGTACCAAACCACGTC 61.277 60.000 0.00 0.00 36.44 4.34
81 82 1.300080 CGTCCGTACCAAACCACGT 60.300 57.895 0.00 0.00 36.44 4.49
82 83 2.023223 CCGTCCGTACCAAACCACG 61.023 63.158 0.00 0.00 37.89 4.94
83 84 2.319841 GCCGTCCGTACCAAACCAC 61.320 63.158 0.00 0.00 0.00 4.16
84 85 2.030862 GCCGTCCGTACCAAACCA 59.969 61.111 0.00 0.00 0.00 3.67
85 86 3.113979 CGCCGTCCGTACCAAACC 61.114 66.667 0.00 0.00 0.00 3.27
432 433 2.587080 CCGCCTGTTAGGGACACTA 58.413 57.895 0.00 0.00 35.37 2.74
433 434 3.388841 CCGCCTGTTAGGGACACT 58.611 61.111 0.00 0.00 35.37 3.55
497 498 4.696172 GTGAAACGGACGCGCGTG 62.696 66.667 42.90 29.05 0.00 5.34
501 502 4.973055 TGGGGTGAAACGGACGCG 62.973 66.667 3.53 3.53 38.12 6.01
502 503 2.188161 TTTGGGGTGAAACGGACGC 61.188 57.895 0.00 0.00 38.12 5.19
503 504 1.650363 GTTTGGGGTGAAACGGACG 59.350 57.895 0.00 0.00 38.12 4.79
504 505 1.788067 CGGTTTGGGGTGAAACGGAC 61.788 60.000 0.00 0.00 38.01 4.79
505 506 1.526455 CGGTTTGGGGTGAAACGGA 60.526 57.895 0.00 0.00 38.01 4.69
506 507 1.512156 CTCGGTTTGGGGTGAAACGG 61.512 60.000 0.00 0.00 38.12 4.44
507 508 1.946267 CTCGGTTTGGGGTGAAACG 59.054 57.895 0.00 0.00 38.12 3.60
508 509 1.658114 GCTCGGTTTGGGGTGAAAC 59.342 57.895 0.00 0.00 35.45 2.78
509 510 1.894756 CGCTCGGTTTGGGGTGAAA 60.895 57.895 0.00 0.00 0.00 2.69
510 511 2.281208 CGCTCGGTTTGGGGTGAA 60.281 61.111 0.00 0.00 0.00 3.18
513 514 4.572571 TTGCGCTCGGTTTGGGGT 62.573 61.111 9.73 0.00 0.00 4.95
514 515 3.737172 CTTGCGCTCGGTTTGGGG 61.737 66.667 9.73 0.00 0.00 4.96
515 516 2.070654 AAACTTGCGCTCGGTTTGGG 62.071 55.000 19.08 0.36 32.84 4.12
516 517 0.934436 CAAACTTGCGCTCGGTTTGG 60.934 55.000 28.14 17.85 43.19 3.28
517 518 0.934436 CCAAACTTGCGCTCGGTTTG 60.934 55.000 28.50 28.50 45.14 2.93
518 519 1.358759 CCAAACTTGCGCTCGGTTT 59.641 52.632 9.73 13.79 34.10 3.27
519 520 2.551912 CCCAAACTTGCGCTCGGTT 61.552 57.895 9.73 8.16 0.00 4.44
520 521 2.978010 CCCAAACTTGCGCTCGGT 60.978 61.111 9.73 1.34 0.00 4.69
521 522 4.404654 GCCCAAACTTGCGCTCGG 62.405 66.667 9.73 0.61 0.00 4.63
522 523 4.404654 GGCCCAAACTTGCGCTCG 62.405 66.667 9.73 1.27 32.76 5.03
523 524 4.404654 CGGCCCAAACTTGCGCTC 62.405 66.667 9.73 0.00 32.76 5.03
527 528 4.986708 TCCCCGGCCCAAACTTGC 62.987 66.667 0.00 0.00 0.00 4.01
528 529 2.037208 ATCCCCGGCCCAAACTTG 59.963 61.111 0.00 0.00 0.00 3.16
529 530 2.037208 CATCCCCGGCCCAAACTT 59.963 61.111 0.00 0.00 0.00 2.66
530 531 4.060667 CCATCCCCGGCCCAAACT 62.061 66.667 0.00 0.00 0.00 2.66
537 538 4.104183 TTTCGACCCATCCCCGGC 62.104 66.667 0.00 0.00 0.00 6.13
538 539 2.189521 CTTTCGACCCATCCCCGG 59.810 66.667 0.00 0.00 0.00 5.73
539 540 2.513897 GCTTTCGACCCATCCCCG 60.514 66.667 0.00 0.00 0.00 5.73
540 541 2.513897 CGCTTTCGACCCATCCCC 60.514 66.667 0.00 0.00 38.10 4.81
541 542 2.513897 CCGCTTTCGACCCATCCC 60.514 66.667 0.00 0.00 38.10 3.85
542 543 1.814169 GTCCGCTTTCGACCCATCC 60.814 63.158 0.00 0.00 38.10 3.51
543 544 2.165301 CGTCCGCTTTCGACCCATC 61.165 63.158 0.00 0.00 38.10 3.51
544 545 2.125673 CGTCCGCTTTCGACCCAT 60.126 61.111 0.00 0.00 38.10 4.00
545 546 4.367023 CCGTCCGCTTTCGACCCA 62.367 66.667 0.00 0.00 38.10 4.51
546 547 2.847435 ATTCCGTCCGCTTTCGACCC 62.847 60.000 0.00 0.00 38.10 4.46
547 548 1.419107 GATTCCGTCCGCTTTCGACC 61.419 60.000 0.00 0.00 38.10 4.79
548 549 1.419107 GGATTCCGTCCGCTTTCGAC 61.419 60.000 0.00 0.00 37.23 4.20
549 550 1.153706 GGATTCCGTCCGCTTTCGA 60.154 57.895 0.00 0.00 37.23 3.71
550 551 3.395669 GGATTCCGTCCGCTTTCG 58.604 61.111 0.00 0.00 37.23 3.46
557 558 1.014352 CAAATGTCCGGATTCCGTCC 58.986 55.000 22.83 13.25 46.80 4.79
558 559 1.664151 GACAAATGTCCGGATTCCGTC 59.336 52.381 22.83 15.53 46.80 4.79
559 560 1.278127 AGACAAATGTCCGGATTCCGT 59.722 47.619 22.83 1.21 46.80 4.69
560 561 1.665679 CAGACAAATGTCCGGATTCCG 59.334 52.381 18.33 18.33 45.85 4.30
561 562 2.711542 ACAGACAAATGTCCGGATTCC 58.288 47.619 7.81 0.00 45.85 3.01
562 563 4.023193 ACAAACAGACAAATGTCCGGATTC 60.023 41.667 7.81 0.00 45.85 2.52
563 564 3.888930 ACAAACAGACAAATGTCCGGATT 59.111 39.130 7.81 0.00 45.85 3.01
564 565 3.253188 CACAAACAGACAAATGTCCGGAT 59.747 43.478 7.81 0.00 45.85 4.18
565 566 2.616376 CACAAACAGACAAATGTCCGGA 59.384 45.455 0.00 0.00 45.85 5.14
566 567 2.357637 ACACAAACAGACAAATGTCCGG 59.642 45.455 9.84 0.00 45.85 5.14
567 568 3.548014 GGACACAAACAGACAAATGTCCG 60.548 47.826 9.84 2.65 44.75 4.79
568 569 3.964909 GGACACAAACAGACAAATGTCC 58.035 45.455 9.84 5.53 46.69 4.02
569 570 3.617669 CGGACACAAACAGACAAATGTC 58.382 45.455 5.40 5.40 45.08 3.06
570 571 2.223479 GCGGACACAAACAGACAAATGT 60.223 45.455 0.00 0.00 33.96 2.71
571 572 2.384382 GCGGACACAAACAGACAAATG 58.616 47.619 0.00 0.00 0.00 2.32
572 573 1.002900 CGCGGACACAAACAGACAAAT 60.003 47.619 0.00 0.00 0.00 2.32
573 574 0.375454 CGCGGACACAAACAGACAAA 59.625 50.000 0.00 0.00 0.00 2.83
574 575 2.010670 CGCGGACACAAACAGACAA 58.989 52.632 0.00 0.00 0.00 3.18
575 576 2.530497 GCGCGGACACAAACAGACA 61.530 57.895 8.83 0.00 0.00 3.41
576 577 2.248431 GCGCGGACACAAACAGAC 59.752 61.111 8.83 0.00 0.00 3.51
577 578 3.334751 CGCGCGGACACAAACAGA 61.335 61.111 24.84 0.00 0.00 3.41
593 594 2.436646 AAATGAGACGGCCCAGCG 60.437 61.111 0.00 0.00 0.00 5.18
594 595 1.648467 GACAAATGAGACGGCCCAGC 61.648 60.000 0.00 0.00 0.00 4.85
595 596 0.036010 AGACAAATGAGACGGCCCAG 60.036 55.000 0.00 0.00 0.00 4.45
596 597 0.036388 GAGACAAATGAGACGGCCCA 60.036 55.000 0.00 0.00 0.00 5.36
597 598 0.250513 AGAGACAAATGAGACGGCCC 59.749 55.000 0.00 0.00 0.00 5.80
598 599 2.100605 AAGAGACAAATGAGACGGCC 57.899 50.000 0.00 0.00 0.00 6.13
599 600 4.434330 CGTAAAAGAGACAAATGAGACGGC 60.434 45.833 0.00 0.00 0.00 5.68
600 601 4.434330 GCGTAAAAGAGACAAATGAGACGG 60.434 45.833 0.00 0.00 0.00 4.79
601 602 4.629065 GCGTAAAAGAGACAAATGAGACG 58.371 43.478 0.00 0.00 0.00 4.18
602 603 4.434330 CCGCGTAAAAGAGACAAATGAGAC 60.434 45.833 4.92 0.00 0.00 3.36
603 604 3.678072 CCGCGTAAAAGAGACAAATGAGA 59.322 43.478 4.92 0.00 0.00 3.27
604 605 3.678072 TCCGCGTAAAAGAGACAAATGAG 59.322 43.478 4.92 0.00 0.00 2.90
605 606 3.655486 TCCGCGTAAAAGAGACAAATGA 58.345 40.909 4.92 0.00 0.00 2.57
606 607 4.600012 ATCCGCGTAAAAGAGACAAATG 57.400 40.909 4.92 0.00 0.00 2.32
607 608 4.809426 CCTATCCGCGTAAAAGAGACAAAT 59.191 41.667 4.92 0.00 0.00 2.32
608 609 4.082081 TCCTATCCGCGTAAAAGAGACAAA 60.082 41.667 4.92 0.00 0.00 2.83
609 610 3.444742 TCCTATCCGCGTAAAAGAGACAA 59.555 43.478 4.92 0.00 0.00 3.18
610 611 3.018856 TCCTATCCGCGTAAAAGAGACA 58.981 45.455 4.92 0.00 0.00 3.41
611 612 3.705043 TCCTATCCGCGTAAAAGAGAC 57.295 47.619 4.92 0.00 0.00 3.36
612 613 5.311265 TCTATCCTATCCGCGTAAAAGAGA 58.689 41.667 4.92 0.00 0.00 3.10
613 614 5.181622 ACTCTATCCTATCCGCGTAAAAGAG 59.818 44.000 4.92 8.44 34.36 2.85
614 615 5.068636 ACTCTATCCTATCCGCGTAAAAGA 58.931 41.667 4.92 0.00 0.00 2.52
615 616 5.373981 ACTCTATCCTATCCGCGTAAAAG 57.626 43.478 4.92 0.00 0.00 2.27
616 617 4.083643 CGACTCTATCCTATCCGCGTAAAA 60.084 45.833 4.92 0.00 0.00 1.52
617 618 3.434641 CGACTCTATCCTATCCGCGTAAA 59.565 47.826 4.92 0.00 0.00 2.01
618 619 2.998670 CGACTCTATCCTATCCGCGTAA 59.001 50.000 4.92 0.00 0.00 3.18
619 620 2.614779 CGACTCTATCCTATCCGCGTA 58.385 52.381 4.92 0.00 0.00 4.42
620 621 1.440708 CGACTCTATCCTATCCGCGT 58.559 55.000 4.92 0.00 0.00 6.01
621 622 0.097325 GCGACTCTATCCTATCCGCG 59.903 60.000 0.00 0.00 0.00 6.46
622 623 0.097325 CGCGACTCTATCCTATCCGC 59.903 60.000 0.00 0.00 38.07 5.54
623 624 0.097325 GCGCGACTCTATCCTATCCG 59.903 60.000 12.10 0.00 0.00 4.18
624 625 0.097325 CGCGCGACTCTATCCTATCC 59.903 60.000 28.94 0.00 0.00 2.59
625 626 0.097325 CCGCGCGACTCTATCCTATC 59.903 60.000 34.63 0.00 0.00 2.08
626 627 0.605860 ACCGCGCGACTCTATCCTAT 60.606 55.000 34.63 0.00 0.00 2.57
627 628 1.227764 ACCGCGCGACTCTATCCTA 60.228 57.895 34.63 0.00 0.00 2.94
628 629 2.516460 ACCGCGCGACTCTATCCT 60.516 61.111 34.63 0.00 0.00 3.24
629 630 2.353607 CACCGCGCGACTCTATCC 60.354 66.667 34.63 0.00 0.00 2.59
630 631 2.131294 ATCCACCGCGCGACTCTATC 62.131 60.000 34.63 0.00 0.00 2.08
631 632 1.735376 AATCCACCGCGCGACTCTAT 61.735 55.000 34.63 14.82 0.00 1.98
632 633 1.940883 AAATCCACCGCGCGACTCTA 61.941 55.000 34.63 12.98 0.00 2.43
633 634 3.296709 AAATCCACCGCGCGACTCT 62.297 57.895 34.63 8.83 0.00 3.24
634 635 2.813908 AAATCCACCGCGCGACTC 60.814 61.111 34.63 0.00 0.00 3.36
635 636 3.118454 CAAATCCACCGCGCGACT 61.118 61.111 34.63 13.47 0.00 4.18
636 637 4.160635 CCAAATCCACCGCGCGAC 62.161 66.667 34.63 0.00 0.00 5.19
640 641 3.508840 GAGGCCAAATCCACCGCG 61.509 66.667 5.01 0.00 0.00 6.46
641 642 2.361104 TGAGGCCAAATCCACCGC 60.361 61.111 5.01 0.00 0.00 5.68
642 643 0.745845 CTCTGAGGCCAAATCCACCG 60.746 60.000 5.01 0.00 0.00 4.94
643 644 0.329596 ACTCTGAGGCCAAATCCACC 59.670 55.000 5.01 0.00 0.00 4.61
644 645 2.911484 CTACTCTGAGGCCAAATCCAC 58.089 52.381 5.01 0.00 0.00 4.02
645 646 1.210478 GCTACTCTGAGGCCAAATCCA 59.790 52.381 5.01 0.00 0.00 3.41
646 647 1.488393 AGCTACTCTGAGGCCAAATCC 59.512 52.381 5.01 0.00 0.00 3.01
647 648 2.998316 AGCTACTCTGAGGCCAAATC 57.002 50.000 5.01 0.00 0.00 2.17
648 649 2.103941 GCTAGCTACTCTGAGGCCAAAT 59.896 50.000 7.70 0.00 0.00 2.32
649 650 1.482593 GCTAGCTACTCTGAGGCCAAA 59.517 52.381 7.70 0.00 0.00 3.28
650 651 1.115467 GCTAGCTACTCTGAGGCCAA 58.885 55.000 7.70 0.00 0.00 4.52
651 652 1.103987 CGCTAGCTACTCTGAGGCCA 61.104 60.000 13.93 0.00 0.00 5.36
652 653 0.820074 TCGCTAGCTACTCTGAGGCC 60.820 60.000 13.93 0.00 0.00 5.19
653 654 1.243902 ATCGCTAGCTACTCTGAGGC 58.756 55.000 13.93 3.72 0.00 4.70
654 655 2.030363 CCAATCGCTAGCTACTCTGAGG 60.030 54.545 13.93 0.15 0.00 3.86
655 656 2.881513 TCCAATCGCTAGCTACTCTGAG 59.118 50.000 13.93 2.45 0.00 3.35
661 662 0.389391 TGGCTCCAATCGCTAGCTAC 59.611 55.000 13.93 0.00 36.48 3.58
695 696 1.212616 GATTTGAGCGATCTGGTCCG 58.787 55.000 0.90 0.00 44.62 4.79
735 746 0.554305 ATCCATGGATGCTGCTTGGA 59.446 50.000 26.78 12.08 43.89 3.53
738 749 1.542767 CGAGATCCATGGATGCTGCTT 60.543 52.381 32.05 6.73 34.60 3.91
777 788 2.842394 ATCTGTCGGAGCCACGCTTG 62.842 60.000 0.00 0.00 39.88 4.01
778 789 2.564553 GATCTGTCGGAGCCACGCTT 62.565 60.000 0.00 0.00 39.88 4.68
780 791 2.583593 GATCTGTCGGAGCCACGC 60.584 66.667 0.00 0.00 0.00 5.34
846 905 3.573772 TTGAGCACCGCGTCCTCTG 62.574 63.158 4.92 0.00 0.00 3.35
849 908 4.681978 GGTTGAGCACCGCGTCCT 62.682 66.667 4.92 0.00 35.12 3.85
957 1104 1.688311 GGGGTTAATGAAGGAAGGGCC 60.688 57.143 0.00 0.00 0.00 5.80
1550 1721 3.532155 CCTCCTCTTCCTCCGCCG 61.532 72.222 0.00 0.00 0.00 6.46
1551 1722 2.042843 TCCTCCTCTTCCTCCGCC 60.043 66.667 0.00 0.00 0.00 6.13
1552 1723 2.791868 GCTCCTCCTCTTCCTCCGC 61.792 68.421 0.00 0.00 0.00 5.54
1553 1724 1.380515 TGCTCCTCCTCTTCCTCCG 60.381 63.158 0.00 0.00 0.00 4.63
1640 1811 2.436292 GCTCCTGCTCCTGCTGTG 60.436 66.667 0.00 0.00 40.48 3.66
1641 1812 2.926779 TGCTCCTGCTCCTGCTGT 60.927 61.111 0.00 0.00 40.48 4.40
1642 1813 2.125065 CTGCTCCTGCTCCTGCTG 60.125 66.667 0.00 0.00 40.48 4.41
1643 1814 3.400928 CCTGCTCCTGCTCCTGCT 61.401 66.667 0.00 0.00 40.48 4.24
1648 1819 4.154347 CGGGTCCTGCTCCTGCTC 62.154 72.222 0.00 0.00 40.48 4.26
1920 2091 2.764128 GGCGGTCAGATGGGGAGA 60.764 66.667 0.00 0.00 0.00 3.71
1990 2161 7.356024 AGGGATCTATCTATGTCTGGATCCTAT 59.644 40.741 14.23 5.09 44.85 2.57
2028 2199 5.855740 TTTCCGGGTTTTACAGAAAATGT 57.144 34.783 0.00 0.00 46.45 2.71
2072 2244 0.931005 GACGATGGTGATTTCGAGCC 59.069 55.000 0.00 0.00 38.67 4.70
2110 2287 5.417266 CAGAAGAAGTGATAGTGGTCTCTGA 59.583 44.000 0.00 0.00 0.00 3.27
2186 2388 0.872388 GGTTACCAACACGGAGCAAG 59.128 55.000 0.00 0.00 38.63 4.01
2227 2429 4.351054 CTGCCACCACCCAGACCC 62.351 72.222 0.00 0.00 0.00 4.46
2228 2430 4.351054 CCTGCCACCACCCAGACC 62.351 72.222 0.00 0.00 0.00 3.85
2229 2431 1.774894 TAACCTGCCACCACCCAGAC 61.775 60.000 0.00 0.00 0.00 3.51
2230 2432 1.063070 TTAACCTGCCACCACCCAGA 61.063 55.000 0.00 0.00 0.00 3.86
2291 2499 1.401905 CCTGGCAGAAAGTAATTCCGC 59.598 52.381 17.94 0.00 40.13 5.54
2327 2538 1.523758 CTGGACAACAAGGCTGGTAC 58.476 55.000 0.00 0.00 0.00 3.34
2328 2539 0.250727 GCTGGACAACAAGGCTGGTA 60.251 55.000 0.00 0.00 0.00 3.25
2329 2540 1.529244 GCTGGACAACAAGGCTGGT 60.529 57.895 0.00 0.00 0.00 4.00
2426 2650 1.076549 TGGAGCGGGGCAGATTTTT 59.923 52.632 0.00 0.00 0.00 1.94
2427 2651 1.678970 GTGGAGCGGGGCAGATTTT 60.679 57.895 0.00 0.00 0.00 1.82
2428 2652 2.044946 GTGGAGCGGGGCAGATTT 60.045 61.111 0.00 0.00 0.00 2.17
2429 2653 3.011517 AGTGGAGCGGGGCAGATT 61.012 61.111 0.00 0.00 0.00 2.40
2430 2654 3.474570 GAGTGGAGCGGGGCAGAT 61.475 66.667 0.00 0.00 0.00 2.90
2435 2659 3.775654 GAGTGGAGTGGAGCGGGG 61.776 72.222 0.00 0.00 0.00 5.73
2436 2660 3.775654 GGAGTGGAGTGGAGCGGG 61.776 72.222 0.00 0.00 0.00 6.13
2444 2668 1.819229 CTGCATAGCGGAGTGGAGT 59.181 57.895 0.00 0.00 37.02 3.85
2500 2729 4.512484 TGAATATGAAATGCACTCCACGA 58.488 39.130 0.00 0.00 0.00 4.35
2527 2756 9.807649 CCTTTTGCTAATATGAATACTTTTGCT 57.192 29.630 0.00 0.00 0.00 3.91
2528 2757 9.034544 CCCTTTTGCTAATATGAATACTTTTGC 57.965 33.333 0.00 0.00 0.00 3.68
2529 2758 9.034544 GCCCTTTTGCTAATATGAATACTTTTG 57.965 33.333 0.00 0.00 0.00 2.44
2530 2759 8.204160 GGCCCTTTTGCTAATATGAATACTTTT 58.796 33.333 0.00 0.00 0.00 2.27
2531 2760 7.202001 GGGCCCTTTTGCTAATATGAATACTTT 60.202 37.037 17.04 0.00 0.00 2.66
2532 2761 6.267699 GGGCCCTTTTGCTAATATGAATACTT 59.732 38.462 17.04 0.00 0.00 2.24
2533 2762 5.775195 GGGCCCTTTTGCTAATATGAATACT 59.225 40.000 17.04 0.00 0.00 2.12
2534 2763 5.335661 CGGGCCCTTTTGCTAATATGAATAC 60.336 44.000 22.43 0.00 0.00 1.89
2535 2764 4.764823 CGGGCCCTTTTGCTAATATGAATA 59.235 41.667 22.43 0.00 0.00 1.75
2536 2765 3.573967 CGGGCCCTTTTGCTAATATGAAT 59.426 43.478 22.43 0.00 0.00 2.57
2537 2766 2.955660 CGGGCCCTTTTGCTAATATGAA 59.044 45.455 22.43 0.00 0.00 2.57
2538 2767 2.092103 ACGGGCCCTTTTGCTAATATGA 60.092 45.455 22.43 0.00 0.00 2.15
2539 2768 2.034558 CACGGGCCCTTTTGCTAATATG 59.965 50.000 22.43 0.90 0.00 1.78
2543 2772 2.272447 GCACGGGCCCTTTTGCTAA 61.272 57.895 25.28 0.00 32.00 3.09


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

AutoCloner maintained by Alex Coulton.