Multiple sequence alignment - TraesCS6A01G152500

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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 TraesCS6A01G152500 chr6A 100.000 2899 0 0 1 2899 137382136 137379238 0.000000e+00 5354.0
1 TraesCS6A01G152500 chr6A 87.500 136 14 3 2294 2426 411770272 411770407 1.390000e-33 154.0
2 TraesCS6A01G152500 chr6D 90.599 1702 67 21 1284 2899 112434694 112433000 0.000000e+00 2170.0
3 TraesCS6A01G152500 chr6D 90.029 341 14 12 571 910 112435704 112435383 9.600000e-115 424.0
4 TraesCS6A01G152500 chr6D 94.643 168 7 2 982 1148 112434942 112434776 2.870000e-65 259.0
5 TraesCS6A01G152500 chr6B 92.299 896 34 15 1325 2197 201413199 201412316 0.000000e+00 1240.0
6 TraesCS6A01G152500 chr6B 93.323 674 24 13 2242 2899 201412205 201411537 0.000000e+00 976.0
7 TraesCS6A01G152500 chr6B 89.377 546 22 8 641 1156 201413833 201413294 0.000000e+00 654.0
8 TraesCS6A01G152500 chr6B 96.875 32 0 1 1283 1313 332417053 332417022 5.000000e-03 52.8
9 TraesCS6A01G152500 chr2B 87.453 534 45 4 1 512 704355474 704356007 1.920000e-166 595.0
10 TraesCS6A01G152500 chr2B 100.000 28 0 0 1282 1309 24352436 24352463 5.000000e-03 52.8
11 TraesCS6A01G152500 chr1A 88.813 438 47 1 73 508 39880910 39880473 1.180000e-148 536.0
12 TraesCS6A01G152500 chr1A 83.982 437 64 5 81 513 373337902 373338336 5.780000e-112 414.0
13 TraesCS6A01G152500 chr1A 78.066 424 89 3 87 507 548572649 548573071 6.160000e-67 265.0
14 TraesCS6A01G152500 chr1A 78.706 371 66 12 147 508 589947633 589947999 4.830000e-58 235.0
15 TraesCS6A01G152500 chr1D 90.868 219 15 4 299 512 89241701 89241919 3.660000e-74 289.0
16 TraesCS6A01G152500 chr1D 81.044 364 65 3 147 507 454295462 454295824 1.310000e-73 287.0
17 TraesCS6A01G152500 chr1D 100.000 28 0 0 1282 1309 5397403 5397376 5.000000e-03 52.8
18 TraesCS6A01G152500 chr3A 79.891 368 70 3 150 514 747557750 747557384 1.710000e-67 267.0
19 TraesCS6A01G152500 chr2D 80.109 367 66 6 147 508 577605635 577605999 1.710000e-67 267.0
20 TraesCS6A01G152500 chr5B 86.452 155 18 3 2274 2425 98663177 98663331 1.790000e-37 167.0
21 TraesCS6A01G152500 chr5B 85.507 138 17 3 2292 2426 503219613 503219476 1.080000e-29 141.0
22 TraesCS6A01G152500 chr4B 86.486 148 17 3 2280 2424 482660582 482660729 2.990000e-35 159.0
23 TraesCS6A01G152500 chr4B 92.683 41 3 0 1744 1784 398111640 398111680 3.120000e-05 60.2
24 TraesCS6A01G152500 chr4B 92.683 41 3 0 1744 1784 398119205 398119245 3.120000e-05 60.2
25 TraesCS6A01G152500 chr4B 92.683 41 3 0 1744 1784 398154237 398154277 3.120000e-05 60.2
26 TraesCS6A01G152500 chr4B 92.683 41 3 0 1744 1784 398188999 398189039 3.120000e-05 60.2
27 TraesCS6A01G152500 chr4A 85.235 149 19 3 2279 2424 565304098 565304246 1.800000e-32 150.0
28 TraesCS6A01G152500 chrUn 86.667 135 15 3 2294 2425 126680611 126680477 2.330000e-31 147.0
29 TraesCS6A01G152500 chr5D 84.564 149 19 4 2280 2424 175768972 175769120 8.370000e-31 145.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6A01G152500 chr6A 137379238 137382136 2898 True 5354.000000 5354 100.000000 1 2899 1 chr6A.!!$R1 2898
1 TraesCS6A01G152500 chr6D 112433000 112435704 2704 True 951.000000 2170 91.757000 571 2899 3 chr6D.!!$R1 2328
2 TraesCS6A01G152500 chr6B 201411537 201413833 2296 True 956.666667 1240 91.666333 641 2899 3 chr6B.!!$R2 2258
3 TraesCS6A01G152500 chr2B 704355474 704356007 533 False 595.000000 595 87.453000 1 512 1 chr2B.!!$F2 511

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
540 563 0.031585 CGTCTGTCCGTCCAGAAACA 59.968 55.0 3.14 0.0 42.81 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2028 2535 0.034089 CCCTGACCCATTCTTCCCAC 60.034 60.0 0.0 0.0 0.0 4.61 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
23 24 0.771127 TAGGCAGGCTTTCAAGTGGT 59.229 50.000 0.00 0.00 0.00 4.16
45 46 1.492133 CCACCACCAGAGGGATGTGT 61.492 60.000 0.00 0.00 37.45 3.72
47 48 1.300963 CCACCAGAGGGATGTGTGG 59.699 63.158 0.00 0.00 40.39 4.17
61 62 4.220382 GGATGTGTGGAAATCAATGTGGAA 59.780 41.667 0.00 0.00 0.00 3.53
64 65 2.562298 TGTGGAAATCAATGTGGAAGCC 59.438 45.455 0.00 0.00 0.00 4.35
72 73 3.149196 TCAATGTGGAAGCCAGAGTTTC 58.851 45.455 0.00 0.00 32.34 2.78
113 134 2.901042 GGGACGGAGCTTACCTGG 59.099 66.667 0.00 0.00 0.00 4.45
131 152 0.623723 GGGTTCCTCCATGCTGGTAA 59.376 55.000 2.68 0.00 39.03 2.85
139 160 1.215173 TCCATGCTGGTAATTGAGGGG 59.785 52.381 2.68 0.00 39.03 4.79
144 165 4.390129 TGCTGGTAATTGAGGGGTTAAA 57.610 40.909 0.00 0.00 0.00 1.52
145 166 4.340617 TGCTGGTAATTGAGGGGTTAAAG 58.659 43.478 0.00 0.00 0.00 1.85
146 167 3.699538 GCTGGTAATTGAGGGGTTAAAGG 59.300 47.826 0.00 0.00 0.00 3.11
158 179 3.323115 GGGGTTAAAGGATCCTACTACGG 59.677 52.174 16.55 0.00 0.00 4.02
164 185 3.947612 AGGATCCTACTACGGTTGAGA 57.052 47.619 14.27 0.00 0.00 3.27
170 191 3.376234 TCCTACTACGGTTGAGACAATCG 59.624 47.826 14.16 14.16 0.00 3.34
205 226 2.189594 TGTCTTTGGCACTGGATCTG 57.810 50.000 0.00 0.00 0.00 2.90
211 232 0.256752 TGGCACTGGATCTGGGAATG 59.743 55.000 0.00 0.00 0.00 2.67
215 236 2.883386 GCACTGGATCTGGGAATGAATC 59.117 50.000 0.00 0.00 0.00 2.52
220 241 5.221884 ACTGGATCTGGGAATGAATCATCTC 60.222 44.000 0.00 0.00 0.00 2.75
253 274 3.735591 TGACTGTAAGCAGGTGGTAAAC 58.264 45.455 0.00 0.00 46.62 2.01
273 294 5.378230 AACCATATCCATCAAAGAGCTGA 57.622 39.130 0.00 0.00 0.00 4.26
276 297 4.760715 CCATATCCATCAAAGAGCTGAAGG 59.239 45.833 0.00 0.00 35.85 3.46
307 328 9.163899 CATGGTATTATCATCAAAGAGATCCTG 57.836 37.037 0.00 0.00 33.72 3.86
325 346 7.406104 AGATCCTGCAAACTTCTACCTTATTT 58.594 34.615 0.00 0.00 0.00 1.40
327 348 9.343539 GATCCTGCAAACTTCTACCTTATTTAT 57.656 33.333 0.00 0.00 0.00 1.40
328 349 8.506168 TCCTGCAAACTTCTACCTTATTTATG 57.494 34.615 0.00 0.00 0.00 1.90
330 351 8.398665 CCTGCAAACTTCTACCTTATTTATGTC 58.601 37.037 0.00 0.00 0.00 3.06
331 352 9.167311 CTGCAAACTTCTACCTTATTTATGTCT 57.833 33.333 0.00 0.00 0.00 3.41
351 372 7.743520 TGTCTTGTAATTTTTCGTTTGAACC 57.256 32.000 0.00 0.00 32.71 3.62
377 400 5.398603 AGTCGAATTATGAGGCTCATAGG 57.601 43.478 30.03 21.76 40.13 2.57
393 416 2.489938 TAGGCTTGCTAGGTTTGGTG 57.510 50.000 0.00 0.00 0.00 4.17
399 422 2.335316 TGCTAGGTTTGGTGTTTCGT 57.665 45.000 0.00 0.00 0.00 3.85
405 428 1.335810 GGTTTGGTGTTTCGTTCCCTC 59.664 52.381 0.00 0.00 0.00 4.30
410 433 1.202722 GGTGTTTCGTTCCCTCTTGGA 60.203 52.381 0.00 0.00 43.18 3.53
448 471 1.477700 CATTCCGCATGACCCAATTGT 59.522 47.619 4.43 0.00 34.31 2.71
462 485 6.317642 TGACCCAATTGTAATTCCTATGAACG 59.682 38.462 4.43 0.00 32.13 3.95
472 495 9.369904 TGTAATTCCTATGAACGTTTTAGGTAC 57.630 33.333 25.48 21.73 35.13 3.34
483 506 8.284693 TGAACGTTTTAGGTACTCAATAAAAGC 58.715 33.333 0.46 0.00 41.75 3.51
499 522 1.983224 AGCCTGGCGAGCTTTTCTA 59.017 52.632 13.96 0.00 37.24 2.10
522 545 1.081094 AAAAACTAATCCGACGGCCG 58.919 50.000 26.86 26.86 38.18 6.13
523 546 0.037046 AAAACTAATCCGACGGCCGT 60.037 50.000 34.89 34.89 36.31 5.68
524 547 0.459063 AAACTAATCCGACGGCCGTC 60.459 55.000 41.75 41.75 41.40 4.79
525 548 1.318158 AACTAATCCGACGGCCGTCT 61.318 55.000 44.83 32.79 42.54 4.18
526 549 1.299165 CTAATCCGACGGCCGTCTG 60.299 63.158 44.83 40.25 42.54 3.51
527 550 2.001361 CTAATCCGACGGCCGTCTGT 62.001 60.000 44.83 31.19 42.54 3.41
528 551 1.996786 TAATCCGACGGCCGTCTGTC 61.997 60.000 44.83 27.22 43.53 3.51
535 558 4.436998 GGCCGTCTGTCCGTCCAG 62.437 72.222 0.00 0.00 0.00 3.86
536 559 3.371063 GCCGTCTGTCCGTCCAGA 61.371 66.667 0.00 0.00 39.11 3.86
537 560 2.927580 GCCGTCTGTCCGTCCAGAA 61.928 63.158 3.14 0.00 42.81 3.02
538 561 1.663739 CCGTCTGTCCGTCCAGAAA 59.336 57.895 3.14 0.00 42.81 2.52
539 562 0.666577 CCGTCTGTCCGTCCAGAAAC 60.667 60.000 3.14 0.00 42.81 2.78
540 563 0.031585 CGTCTGTCCGTCCAGAAACA 59.968 55.000 3.14 0.00 42.81 2.83
541 564 1.537348 CGTCTGTCCGTCCAGAAACAA 60.537 52.381 3.14 0.00 42.81 2.83
542 565 2.557317 GTCTGTCCGTCCAGAAACAAA 58.443 47.619 3.14 0.00 42.81 2.83
543 566 2.940410 GTCTGTCCGTCCAGAAACAAAA 59.060 45.455 3.14 0.00 42.81 2.44
544 567 3.564225 GTCTGTCCGTCCAGAAACAAAAT 59.436 43.478 3.14 0.00 42.81 1.82
545 568 4.036380 GTCTGTCCGTCCAGAAACAAAATT 59.964 41.667 3.14 0.00 42.81 1.82
546 569 4.036262 TCTGTCCGTCCAGAAACAAAATTG 59.964 41.667 0.00 0.00 38.49 2.32
547 570 3.049912 GTCCGTCCAGAAACAAAATTGC 58.950 45.455 0.00 0.00 0.00 3.56
548 571 2.955660 TCCGTCCAGAAACAAAATTGCT 59.044 40.909 0.00 0.00 0.00 3.91
549 572 4.023536 GTCCGTCCAGAAACAAAATTGCTA 60.024 41.667 0.00 0.00 0.00 3.49
550 573 4.764823 TCCGTCCAGAAACAAAATTGCTAT 59.235 37.500 0.00 0.00 0.00 2.97
551 574 4.858692 CCGTCCAGAAACAAAATTGCTATG 59.141 41.667 0.00 0.00 0.00 2.23
552 575 5.335583 CCGTCCAGAAACAAAATTGCTATGA 60.336 40.000 0.00 0.00 0.00 2.15
553 576 6.324819 CGTCCAGAAACAAAATTGCTATGAT 58.675 36.000 0.00 0.00 0.00 2.45
554 577 6.808212 CGTCCAGAAACAAAATTGCTATGATT 59.192 34.615 0.00 0.00 0.00 2.57
555 578 7.201376 CGTCCAGAAACAAAATTGCTATGATTG 60.201 37.037 5.71 5.71 0.00 2.67
556 579 6.591062 TCCAGAAACAAAATTGCTATGATTGC 59.409 34.615 6.78 0.00 0.00 3.56
557 580 6.183360 CCAGAAACAAAATTGCTATGATTGCC 60.183 38.462 0.00 0.00 0.00 4.52
558 581 6.369340 CAGAAACAAAATTGCTATGATTGCCA 59.631 34.615 0.00 0.00 0.00 4.92
559 582 7.065324 CAGAAACAAAATTGCTATGATTGCCAT 59.935 33.333 0.00 0.00 39.25 4.40
560 583 7.608761 AGAAACAAAATTGCTATGATTGCCATT 59.391 29.630 0.00 0.00 36.71 3.16
561 584 7.690952 AACAAAATTGCTATGATTGCCATTT 57.309 28.000 5.38 5.38 37.36 2.32
562 585 7.311364 ACAAAATTGCTATGATTGCCATTTC 57.689 32.000 10.28 0.00 35.61 2.17
563 586 7.107542 ACAAAATTGCTATGATTGCCATTTCT 58.892 30.769 10.28 1.47 35.61 2.52
564 587 7.279313 ACAAAATTGCTATGATTGCCATTTCTC 59.721 33.333 10.28 0.00 35.61 2.87
565 588 6.474140 AATTGCTATGATTGCCATTTCTCA 57.526 33.333 0.00 0.00 36.71 3.27
566 589 5.918426 TTGCTATGATTGCCATTTCTCAA 57.082 34.783 0.00 0.00 36.71 3.02
567 590 5.918426 TGCTATGATTGCCATTTCTCAAA 57.082 34.783 0.00 0.00 36.71 2.69
568 591 6.283544 TGCTATGATTGCCATTTCTCAAAA 57.716 33.333 0.00 0.00 36.71 2.44
569 592 6.699366 TGCTATGATTGCCATTTCTCAAAAA 58.301 32.000 0.00 0.00 36.71 1.94
610 633 3.419759 CGCCCGGTTCCAACGAAG 61.420 66.667 0.00 0.00 0.00 3.79
616 639 2.287368 CCCGGTTCCAACGAAGAAAAAG 60.287 50.000 0.00 0.00 0.00 2.27
618 641 3.065648 CCGGTTCCAACGAAGAAAAAGAA 59.934 43.478 0.00 0.00 0.00 2.52
619 642 4.439016 CCGGTTCCAACGAAGAAAAAGAAA 60.439 41.667 0.00 0.00 0.00 2.52
621 644 4.497966 GGTTCCAACGAAGAAAAAGAAACG 59.502 41.667 0.00 0.00 0.00 3.60
622 645 3.687200 TCCAACGAAGAAAAAGAAACGC 58.313 40.909 0.00 0.00 0.00 4.84
623 646 3.127203 TCCAACGAAGAAAAAGAAACGCA 59.873 39.130 0.00 0.00 0.00 5.24
625 648 4.502645 CCAACGAAGAAAAAGAAACGCAAT 59.497 37.500 0.00 0.00 0.00 3.56
626 649 5.683743 CCAACGAAGAAAAAGAAACGCAATA 59.316 36.000 0.00 0.00 0.00 1.90
627 650 6.129457 CCAACGAAGAAAAAGAAACGCAATAG 60.129 38.462 0.00 0.00 0.00 1.73
628 651 4.909880 ACGAAGAAAAAGAAACGCAATAGC 59.090 37.500 0.00 0.00 37.42 2.97
629 652 4.320953 CGAAGAAAAAGAAACGCAATAGCC 59.679 41.667 0.00 0.00 37.52 3.93
630 653 4.174411 AGAAAAAGAAACGCAATAGCCC 57.826 40.909 0.00 0.00 37.52 5.19
631 654 2.629639 AAAAGAAACGCAATAGCCCG 57.370 45.000 0.00 0.00 37.52 6.13
632 655 1.530323 AAAGAAACGCAATAGCCCGT 58.470 45.000 0.00 0.00 39.70 5.28
634 657 1.084289 AGAAACGCAATAGCCCGTTC 58.916 50.000 0.00 0.00 45.75 3.95
635 658 0.800012 GAAACGCAATAGCCCGTTCA 59.200 50.000 0.00 0.00 45.75 3.18
636 659 0.802494 AAACGCAATAGCCCGTTCAG 59.198 50.000 0.00 0.00 45.75 3.02
637 660 0.321298 AACGCAATAGCCCGTTCAGT 60.321 50.000 0.00 0.00 43.37 3.41
638 661 0.533491 ACGCAATAGCCCGTTCAGTA 59.467 50.000 0.00 0.00 37.52 2.74
639 662 0.928229 CGCAATAGCCCGTTCAGTAC 59.072 55.000 0.00 0.00 37.52 2.73
864 887 1.737363 GCCAGCAGCAGACAGTAGTAC 60.737 57.143 0.00 0.00 42.97 2.73
868 891 3.692101 CAGCAGCAGACAGTAGTACTAGT 59.308 47.826 1.87 3.18 0.00 2.57
869 892 4.876679 CAGCAGCAGACAGTAGTACTAGTA 59.123 45.833 9.94 0.00 0.00 1.82
870 893 5.007234 CAGCAGCAGACAGTAGTACTAGTAG 59.993 48.000 9.94 7.56 0.00 2.57
871 894 5.104859 AGCAGCAGACAGTAGTACTAGTAGA 60.105 44.000 9.94 0.00 0.00 2.59
872 895 5.006941 GCAGCAGACAGTAGTACTAGTAGAC 59.993 48.000 9.94 4.87 0.00 2.59
930 953 0.973632 TAGAAGGCACGCTCAGGAAA 59.026 50.000 0.00 0.00 0.00 3.13
937 960 1.470098 GCACGCTCAGGAAACATCATT 59.530 47.619 0.00 0.00 0.00 2.57
956 1330 1.482954 TGCAGAGAGCTAGCTGTCAT 58.517 50.000 35.35 21.46 45.94 3.06
966 1340 2.688507 CTAGCTGTCATTTGTCCGTGT 58.311 47.619 0.00 0.00 0.00 4.49
1156 1576 8.260550 CGAGTTTATCTCTGAATTAACTTACGC 58.739 37.037 0.00 0.00 40.75 4.42
1159 1579 9.851043 GTTTATCTCTGAATTAACTTACGCATC 57.149 33.333 0.00 0.00 0.00 3.91
1160 1580 8.589335 TTATCTCTGAATTAACTTACGCATCC 57.411 34.615 0.00 0.00 0.00 3.51
1161 1581 5.357257 TCTCTGAATTAACTTACGCATCCC 58.643 41.667 0.00 0.00 0.00 3.85
1162 1582 5.128827 TCTCTGAATTAACTTACGCATCCCT 59.871 40.000 0.00 0.00 0.00 4.20
1163 1583 5.741011 TCTGAATTAACTTACGCATCCCTT 58.259 37.500 0.00 0.00 0.00 3.95
1164 1584 5.584649 TCTGAATTAACTTACGCATCCCTTG 59.415 40.000 0.00 0.00 0.00 3.61
1165 1585 4.638421 TGAATTAACTTACGCATCCCTTGG 59.362 41.667 0.00 0.00 0.00 3.61
1166 1586 3.706600 TTAACTTACGCATCCCTTGGT 57.293 42.857 0.00 0.00 0.00 3.67
1167 1587 2.579410 AACTTACGCATCCCTTGGTT 57.421 45.000 0.00 0.00 0.00 3.67
1168 1588 2.579410 ACTTACGCATCCCTTGGTTT 57.421 45.000 0.00 0.00 0.00 3.27
1169 1589 2.159382 ACTTACGCATCCCTTGGTTTG 58.841 47.619 0.00 0.00 0.00 2.93
1170 1590 1.472480 CTTACGCATCCCTTGGTTTGG 59.528 52.381 0.00 0.00 0.00 3.28
1171 1591 0.402504 TACGCATCCCTTGGTTTGGT 59.597 50.000 0.00 0.00 0.00 3.67
1172 1592 0.469144 ACGCATCCCTTGGTTTGGTT 60.469 50.000 0.00 0.00 0.00 3.67
1173 1593 1.202952 ACGCATCCCTTGGTTTGGTTA 60.203 47.619 0.00 0.00 0.00 2.85
1174 1594 1.472480 CGCATCCCTTGGTTTGGTTAG 59.528 52.381 0.00 0.00 0.00 2.34
1175 1595 1.204704 GCATCCCTTGGTTTGGTTAGC 59.795 52.381 0.00 0.00 0.00 3.09
1176 1596 2.524306 CATCCCTTGGTTTGGTTAGCA 58.476 47.619 0.00 0.00 0.00 3.49
1177 1597 2.990740 TCCCTTGGTTTGGTTAGCAT 57.009 45.000 0.00 0.00 0.00 3.79
1178 1598 2.524306 TCCCTTGGTTTGGTTAGCATG 58.476 47.619 0.00 0.00 0.00 4.06
1179 1599 1.550072 CCCTTGGTTTGGTTAGCATGG 59.450 52.381 0.00 0.00 39.33 3.66
1180 1600 1.066929 CCTTGGTTTGGTTAGCATGGC 60.067 52.381 0.00 0.00 35.12 4.40
1181 1601 1.895131 CTTGGTTTGGTTAGCATGGCT 59.105 47.619 0.00 0.00 43.41 4.75
1182 1602 2.008242 TGGTTTGGTTAGCATGGCTT 57.992 45.000 0.00 0.00 40.44 4.35
1183 1603 1.892474 TGGTTTGGTTAGCATGGCTTC 59.108 47.619 0.00 0.00 40.44 3.86
1184 1604 2.171003 GGTTTGGTTAGCATGGCTTCT 58.829 47.619 0.00 0.00 40.44 2.85
1185 1605 2.562738 GGTTTGGTTAGCATGGCTTCTT 59.437 45.455 0.00 0.00 40.44 2.52
1186 1606 3.578688 GTTTGGTTAGCATGGCTTCTTG 58.421 45.455 0.00 0.00 40.44 3.02
1187 1607 2.877097 TGGTTAGCATGGCTTCTTGA 57.123 45.000 0.00 0.00 40.44 3.02
1188 1608 3.370840 TGGTTAGCATGGCTTCTTGAT 57.629 42.857 0.00 0.00 40.44 2.57
1189 1609 4.502105 TGGTTAGCATGGCTTCTTGATA 57.498 40.909 0.00 0.00 40.44 2.15
1190 1610 5.052693 TGGTTAGCATGGCTTCTTGATAT 57.947 39.130 0.00 0.00 40.44 1.63
1191 1611 6.186420 TGGTTAGCATGGCTTCTTGATATA 57.814 37.500 0.00 0.00 40.44 0.86
1192 1612 6.782986 TGGTTAGCATGGCTTCTTGATATAT 58.217 36.000 0.00 0.00 40.44 0.86
1193 1613 6.881065 TGGTTAGCATGGCTTCTTGATATATC 59.119 38.462 5.73 5.73 40.44 1.63
1194 1614 6.036517 GGTTAGCATGGCTTCTTGATATATCG 59.963 42.308 8.19 0.00 40.44 2.92
1195 1615 5.411831 AGCATGGCTTCTTGATATATCGA 57.588 39.130 8.19 5.40 33.89 3.59
1196 1616 5.417811 AGCATGGCTTCTTGATATATCGAG 58.582 41.667 20.23 20.23 33.89 4.04
1197 1617 4.033817 GCATGGCTTCTTGATATATCGAGC 59.966 45.833 21.14 18.24 38.05 5.03
1198 1618 3.838120 TGGCTTCTTGATATATCGAGCG 58.162 45.455 21.14 15.93 38.05 5.03
1199 1619 3.255888 TGGCTTCTTGATATATCGAGCGT 59.744 43.478 21.14 0.00 38.05 5.07
1200 1620 3.610242 GGCTTCTTGATATATCGAGCGTG 59.390 47.826 21.14 14.87 38.05 5.34
1201 1621 3.060098 GCTTCTTGATATATCGAGCGTGC 59.940 47.826 21.14 19.11 38.05 5.34
1202 1622 2.851534 TCTTGATATATCGAGCGTGCG 58.148 47.619 21.14 2.49 38.05 5.34
1203 1623 2.482721 TCTTGATATATCGAGCGTGCGA 59.517 45.455 21.14 4.36 45.22 5.10
1214 1634 0.818296 AGCGTGCGATTAGTTCCTCT 59.182 50.000 0.00 0.00 0.00 3.69
1220 1640 4.220572 GTGCGATTAGTTCCTCTATCGAC 58.779 47.826 7.44 0.60 34.67 4.20
1256 1678 1.291877 CTTGCACTCCCTCCGTTTCG 61.292 60.000 0.00 0.00 0.00 3.46
1264 1686 3.007182 ACTCCCTCCGTTTCGAAATACAA 59.993 43.478 14.69 0.00 0.00 2.41
1270 1692 2.843643 CCGTTTCGAAATACAATTGCCG 59.156 45.455 14.69 9.10 0.00 5.69
1274 1696 2.428491 TCGAAATACAATTGCCGTGGT 58.572 42.857 5.05 0.00 0.00 4.16
1293 1737 7.419204 CCGTGGTTTTAGTTCAAGTATTTTGA 58.581 34.615 0.00 0.00 0.00 2.69
1323 1767 7.115947 GGAGGGAGTAATTACGAAATGATTACG 59.884 40.741 9.91 0.00 42.09 3.18
1343 1787 2.159572 CGGTTGCTGCACTTTGTATACC 60.160 50.000 0.00 3.62 0.00 2.73
1390 1848 7.670605 AGCAGTAGTAGTATATGTTTTCCCA 57.329 36.000 0.00 0.00 0.00 4.37
1392 1850 8.204836 AGCAGTAGTAGTATATGTTTTCCCAAG 58.795 37.037 0.00 0.00 0.00 3.61
1431 1889 1.523758 CCAAGGAAAGAACAGGTCCG 58.476 55.000 0.00 0.00 36.49 4.79
1500 1961 1.467920 ACCTATGCTGCCTTTGCTTC 58.532 50.000 0.00 0.00 38.71 3.86
1502 1963 1.404391 CCTATGCTGCCTTTGCTTCTG 59.596 52.381 0.00 0.00 38.71 3.02
1506 1967 1.230635 GCTGCCTTTGCTTCTGACGA 61.231 55.000 0.00 0.00 38.71 4.20
1535 1996 8.645814 ATTTGGACATATACATAGTACTCCGA 57.354 34.615 0.00 0.00 0.00 4.55
1536 1997 7.444629 TTGGACATATACATAGTACTCCGAC 57.555 40.000 0.00 0.00 0.00 4.79
1537 1998 5.942236 TGGACATATACATAGTACTCCGACC 59.058 44.000 0.00 0.00 0.00 4.79
1538 1999 5.942236 GGACATATACATAGTACTCCGACCA 59.058 44.000 0.00 0.00 0.00 4.02
1539 2000 6.093771 GGACATATACATAGTACTCCGACCAG 59.906 46.154 0.00 0.00 0.00 4.00
1543 2004 0.822532 ATAGTACTCCGACCAGGCCG 60.823 60.000 0.00 0.00 40.77 6.13
1549 2010 2.202932 CCGACCAGGCCGATGAAG 60.203 66.667 0.00 0.00 0.00 3.02
1631 2093 5.419542 TGCTAGCCAAATGTAGTCTTACAG 58.580 41.667 13.29 0.00 42.72 2.74
1641 2103 8.524487 CAAATGTAGTCTTACAGAACTAGGAGT 58.476 37.037 0.00 0.00 42.72 3.85
1642 2104 7.868906 ATGTAGTCTTACAGAACTAGGAGTC 57.131 40.000 0.00 0.00 42.72 3.36
1645 2107 5.632118 AGTCTTACAGAACTAGGAGTCACA 58.368 41.667 0.00 0.00 0.00 3.58
1921 2428 2.094659 CGCGACTGAATTCTGGCGT 61.095 57.895 32.57 14.12 46.22 5.68
1922 2429 1.421485 GCGACTGAATTCTGGCGTG 59.579 57.895 32.57 13.79 46.22 5.34
1939 2446 2.348104 TGGATAGCGGCGACACTGT 61.348 57.895 12.98 0.00 0.00 3.55
1963 2470 8.154203 TGTCGCCATCTAATAATCTCCAATAAA 58.846 33.333 0.00 0.00 0.00 1.40
2028 2535 3.716872 ACCTGTAAGATGTTAGATGGGGG 59.283 47.826 0.00 0.00 34.07 5.40
2142 2649 2.224426 ACTGTGGCTTAATCCGTGTGAA 60.224 45.455 0.00 0.00 0.00 3.18
2164 2671 5.573337 AGATGCTACAAATTTCAAGCTCC 57.427 39.130 17.71 11.40 35.95 4.70
2207 2714 3.053019 TGGAATAAGCATCCAATGTCCCA 60.053 43.478 0.00 0.00 43.84 4.37
2229 2736 5.163622 CCATGCTAATGTCCAAGTAAAGTGG 60.164 44.000 0.00 0.00 37.51 4.00
2247 2754 4.360889 AGTGGGGCAAATGATCCAAAATA 58.639 39.130 0.00 0.00 0.00 1.40
2248 2755 4.782156 AGTGGGGCAAATGATCCAAAATAA 59.218 37.500 0.00 0.00 0.00 1.40
2249 2756 4.875536 GTGGGGCAAATGATCCAAAATAAC 59.124 41.667 0.00 0.00 0.00 1.89
2298 2879 4.600111 ACCTCCTCCGCCCATTATTATAAA 59.400 41.667 0.00 0.00 0.00 1.40
2373 2955 5.408880 TGTTCACCATTTCAGTCCGTATA 57.591 39.130 0.00 0.00 0.00 1.47
2376 2958 7.557724 TGTTCACCATTTCAGTCCGTATATAA 58.442 34.615 0.00 0.00 0.00 0.98
2379 2961 5.404366 CACCATTTCAGTCCGTATATAACCG 59.596 44.000 0.00 0.00 0.00 4.44
2598 3181 8.611257 TCCCTAAAGATAGACAAAAATTCTCCA 58.389 33.333 0.00 0.00 0.00 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 0.698238 CATCCCTCTGGTGGTGGAAA 59.302 55.000 0.00 0.00 0.00 3.13
45 46 2.827322 CTGGCTTCCACATTGATTTCCA 59.173 45.455 0.00 0.00 0.00 3.53
47 48 3.760684 ACTCTGGCTTCCACATTGATTTC 59.239 43.478 0.00 0.00 0.00 2.17
64 65 3.793144 GCCGCTGCCGAAACTCTG 61.793 66.667 0.00 0.00 36.29 3.35
102 123 0.542333 GGAGGAACCCAGGTAAGCTC 59.458 60.000 0.00 0.00 0.00 4.09
131 152 5.297799 AGTAGGATCCTTTAACCCCTCAAT 58.702 41.667 22.03 0.00 0.00 2.57
139 160 6.096001 TCTCAACCGTAGTAGGATCCTTTAAC 59.904 42.308 22.03 12.57 34.73 2.01
144 165 3.053842 TGTCTCAACCGTAGTAGGATCCT 60.054 47.826 20.48 20.48 34.73 3.24
145 166 3.285484 TGTCTCAACCGTAGTAGGATCC 58.715 50.000 2.48 2.48 34.73 3.36
146 167 4.978083 TTGTCTCAACCGTAGTAGGATC 57.022 45.455 0.00 0.00 34.73 3.36
158 179 1.733912 TCTGCATGCGATTGTCTCAAC 59.266 47.619 14.09 0.00 0.00 3.18
164 185 0.463295 CCCTCTCTGCATGCGATTGT 60.463 55.000 14.09 0.00 0.00 2.71
205 226 4.252073 CGATCTGGAGATGATTCATTCCC 58.748 47.826 17.72 14.12 34.37 3.97
211 232 4.255833 AGAAGCGATCTGGAGATGATTC 57.744 45.455 0.00 2.31 36.88 2.52
253 274 4.760715 CCTTCAGCTCTTTGATGGATATGG 59.239 45.833 2.70 0.00 42.19 2.74
273 294 9.736414 CTTTGATGATAATACCATGATCTCCTT 57.264 33.333 0.00 0.00 0.00 3.36
307 328 9.774742 CAAGACATAAATAAGGTAGAAGTTTGC 57.225 33.333 0.00 0.00 0.00 3.68
325 346 9.453325 GGTTCAAACGAAAAATTACAAGACATA 57.547 29.630 0.00 0.00 0.00 2.29
327 348 7.540299 AGGTTCAAACGAAAAATTACAAGACA 58.460 30.769 0.00 0.00 0.00 3.41
328 349 7.097168 CGAGGTTCAAACGAAAAATTACAAGAC 60.097 37.037 0.00 0.00 0.00 3.01
330 351 6.908284 TCGAGGTTCAAACGAAAAATTACAAG 59.092 34.615 0.00 0.00 33.20 3.16
331 352 6.783162 TCGAGGTTCAAACGAAAAATTACAA 58.217 32.000 0.00 0.00 33.20 2.41
342 363 1.762419 TTCGACTCGAGGTTCAAACG 58.238 50.000 18.41 10.13 37.14 3.60
351 372 3.003793 TGAGCCTCATAATTCGACTCGAG 59.996 47.826 11.84 11.84 37.14 4.04
377 400 2.604614 CGAAACACCAAACCTAGCAAGC 60.605 50.000 0.00 0.00 0.00 4.01
405 428 2.548493 CCAACCACAAATGCCTTCCAAG 60.548 50.000 0.00 0.00 0.00 3.61
410 433 1.053264 TGCCCAACCACAAATGCCTT 61.053 50.000 0.00 0.00 0.00 4.35
448 471 9.807649 GAGTACCTAAAACGTTCATAGGAATTA 57.192 33.333 31.41 18.53 38.81 1.40
462 485 7.535997 CCAGGCTTTTATTGAGTACCTAAAAC 58.464 38.462 0.00 0.00 0.00 2.43
469 492 3.267483 TCGCCAGGCTTTTATTGAGTAC 58.733 45.455 10.54 0.00 0.00 2.73
472 495 1.064654 GCTCGCCAGGCTTTTATTGAG 59.935 52.381 10.54 7.86 0.00 3.02
481 504 0.324943 TTAGAAAAGCTCGCCAGGCT 59.675 50.000 10.54 0.00 42.31 4.58
483 506 3.915437 TTTTTAGAAAAGCTCGCCAGG 57.085 42.857 0.00 0.00 0.00 4.45
519 542 2.430382 TTTCTGGACGGACAGACGGC 62.430 60.000 10.35 0.00 46.44 5.68
520 543 0.666577 GTTTCTGGACGGACAGACGG 60.667 60.000 10.35 0.00 46.44 4.79
521 544 0.031585 TGTTTCTGGACGGACAGACG 59.968 55.000 10.35 0.00 46.44 4.18
522 545 2.234300 TTGTTTCTGGACGGACAGAC 57.766 50.000 10.35 2.96 46.44 3.51
523 546 2.992124 TTTGTTTCTGGACGGACAGA 57.008 45.000 7.16 7.16 45.22 3.41
524 547 4.290155 CAATTTTGTTTCTGGACGGACAG 58.710 43.478 2.55 2.55 39.84 3.51
525 548 3.490078 GCAATTTTGTTTCTGGACGGACA 60.490 43.478 0.00 0.00 0.00 4.02
526 549 3.049912 GCAATTTTGTTTCTGGACGGAC 58.950 45.455 0.00 0.00 0.00 4.79
527 550 2.955660 AGCAATTTTGTTTCTGGACGGA 59.044 40.909 0.00 0.00 0.00 4.69
528 551 3.369546 AGCAATTTTGTTTCTGGACGG 57.630 42.857 0.00 0.00 0.00 4.79
529 552 5.698832 TCATAGCAATTTTGTTTCTGGACG 58.301 37.500 0.00 0.00 0.00 4.79
530 553 7.412237 GCAATCATAGCAATTTTGTTTCTGGAC 60.412 37.037 0.00 0.00 0.00 4.02
531 554 6.591062 GCAATCATAGCAATTTTGTTTCTGGA 59.409 34.615 0.00 0.00 0.00 3.86
532 555 6.183360 GGCAATCATAGCAATTTTGTTTCTGG 60.183 38.462 0.00 0.00 0.00 3.86
533 556 6.369340 TGGCAATCATAGCAATTTTGTTTCTG 59.631 34.615 0.00 0.00 0.00 3.02
534 557 6.465948 TGGCAATCATAGCAATTTTGTTTCT 58.534 32.000 0.00 0.00 0.00 2.52
535 558 6.724694 TGGCAATCATAGCAATTTTGTTTC 57.275 33.333 0.00 0.00 0.00 2.78
536 559 7.690952 AATGGCAATCATAGCAATTTTGTTT 57.309 28.000 0.00 0.00 31.73 2.83
537 560 7.608761 AGAAATGGCAATCATAGCAATTTTGTT 59.391 29.630 0.00 0.00 43.67 2.83
538 561 7.107542 AGAAATGGCAATCATAGCAATTTTGT 58.892 30.769 0.00 0.00 43.67 2.83
539 562 7.279090 TGAGAAATGGCAATCATAGCAATTTTG 59.721 33.333 0.00 0.00 43.67 2.44
540 563 7.332557 TGAGAAATGGCAATCATAGCAATTTT 58.667 30.769 0.00 0.00 43.67 1.82
541 564 6.880484 TGAGAAATGGCAATCATAGCAATTT 58.120 32.000 0.47 0.47 45.67 1.82
542 565 6.474140 TGAGAAATGGCAATCATAGCAATT 57.526 33.333 0.00 0.00 37.22 2.32
543 566 6.474140 TTGAGAAATGGCAATCATAGCAAT 57.526 33.333 0.00 0.00 34.44 3.56
544 567 5.918426 TTGAGAAATGGCAATCATAGCAA 57.082 34.783 0.00 0.00 34.44 3.91
545 568 5.918426 TTTGAGAAATGGCAATCATAGCA 57.082 34.783 0.00 0.00 34.44 3.49
573 596 3.450578 CGCTGGCAATCATAGCATTTTT 58.549 40.909 0.00 0.00 37.29 1.94
574 597 2.800629 GCGCTGGCAATCATAGCATTTT 60.801 45.455 0.00 0.00 39.62 1.82
575 598 1.269413 GCGCTGGCAATCATAGCATTT 60.269 47.619 0.00 0.00 39.62 2.32
576 599 0.313043 GCGCTGGCAATCATAGCATT 59.687 50.000 0.00 0.00 39.62 3.56
577 600 1.521450 GGCGCTGGCAATCATAGCAT 61.521 55.000 7.64 0.00 42.47 3.79
578 601 2.188829 GGCGCTGGCAATCATAGCA 61.189 57.895 7.64 0.00 42.47 3.49
579 602 2.641559 GGCGCTGGCAATCATAGC 59.358 61.111 7.64 0.00 42.47 2.97
610 633 2.914838 CGGGCTATTGCGTTTCTTTTTC 59.085 45.455 0.00 0.00 40.82 2.29
616 639 0.800012 TGAACGGGCTATTGCGTTTC 59.200 50.000 0.00 0.00 40.82 2.78
618 641 0.321298 ACTGAACGGGCTATTGCGTT 60.321 50.000 0.00 0.00 40.82 4.84
619 642 0.533491 TACTGAACGGGCTATTGCGT 59.467 50.000 0.00 0.00 40.82 5.24
621 644 1.933853 CTGTACTGAACGGGCTATTGC 59.066 52.381 0.00 0.00 38.76 3.56
622 645 3.247006 ACTGTACTGAACGGGCTATTG 57.753 47.619 6.77 0.00 38.95 1.90
623 646 3.765511 TGTACTGTACTGAACGGGCTATT 59.234 43.478 17.98 0.00 38.95 1.73
625 648 2.751259 CTGTACTGTACTGAACGGGCTA 59.249 50.000 17.98 0.00 38.95 3.93
626 649 1.544691 CTGTACTGTACTGAACGGGCT 59.455 52.381 17.98 0.00 38.95 5.19
627 650 1.992170 CTGTACTGTACTGAACGGGC 58.008 55.000 17.98 0.00 38.95 6.13
628 651 1.731424 CGCTGTACTGTACTGAACGGG 60.731 57.143 23.64 10.19 38.95 5.28
629 652 1.614385 CGCTGTACTGTACTGAACGG 58.386 55.000 23.64 5.70 40.63 4.44
630 653 0.982673 GCGCTGTACTGTACTGAACG 59.017 55.000 23.64 19.04 0.00 3.95
631 654 2.060326 TGCGCTGTACTGTACTGAAC 57.940 50.000 23.64 15.85 0.00 3.18
632 655 3.313012 AATGCGCTGTACTGTACTGAA 57.687 42.857 23.64 11.55 0.00 3.02
634 657 2.474526 GCAAATGCGCTGTACTGTACTG 60.475 50.000 17.98 17.68 0.00 2.74
635 658 1.732259 GCAAATGCGCTGTACTGTACT 59.268 47.619 17.98 0.00 0.00 2.73
636 659 2.159467 GCAAATGCGCTGTACTGTAC 57.841 50.000 9.73 10.98 0.00 2.90
730 753 3.122971 GTTTACAGGGTCGCCGGC 61.123 66.667 19.07 19.07 0.00 6.13
734 757 1.925185 GAGATTCGTTTACAGGGTCGC 59.075 52.381 0.00 0.00 0.00 5.19
864 887 9.960936 GGCCTTATATAGGACGGGGTCTACTAG 62.961 51.852 0.00 0.00 43.93 2.57
868 891 3.309410 GGCCTTATATAGGACGGGGTCTA 60.309 52.174 0.00 0.00 43.93 2.59
869 892 2.559252 GGCCTTATATAGGACGGGGTCT 60.559 54.545 0.00 0.00 43.93 3.85
870 893 1.829849 GGCCTTATATAGGACGGGGTC 59.170 57.143 0.00 0.00 43.93 4.46
871 894 1.948391 GGCCTTATATAGGACGGGGT 58.052 55.000 0.00 0.00 43.93 4.95
919 942 1.470098 GCAATGATGTTTCCTGAGCGT 59.530 47.619 0.00 0.00 0.00 5.07
920 943 1.469703 TGCAATGATGTTTCCTGAGCG 59.530 47.619 0.00 0.00 0.00 5.03
923 946 4.259356 CTCTCTGCAATGATGTTTCCTGA 58.741 43.478 0.00 0.00 0.00 3.86
930 953 2.435069 AGCTAGCTCTCTGCAATGATGT 59.565 45.455 12.68 0.00 45.94 3.06
937 960 1.482954 ATGACAGCTAGCTCTCTGCA 58.517 50.000 16.15 8.98 45.94 4.41
1108 1501 1.071542 TGCAGAAACGATGGAGGTTGA 59.928 47.619 0.00 0.00 0.00 3.18
1133 1526 9.851043 GATGCGTAAGTTAATTCAGAGATAAAC 57.149 33.333 0.00 0.00 41.68 2.01
1153 1573 0.469144 AACCAAACCAAGGGATGCGT 60.469 50.000 0.00 0.00 0.00 5.24
1156 1576 2.524306 TGCTAACCAAACCAAGGGATG 58.476 47.619 0.00 0.00 0.00 3.51
1159 1579 1.550072 CCATGCTAACCAAACCAAGGG 59.450 52.381 0.00 0.00 0.00 3.95
1160 1580 1.066929 GCCATGCTAACCAAACCAAGG 60.067 52.381 0.00 0.00 0.00 3.61
1161 1581 1.895131 AGCCATGCTAACCAAACCAAG 59.105 47.619 0.00 0.00 36.99 3.61
1162 1582 2.008242 AGCCATGCTAACCAAACCAA 57.992 45.000 0.00 0.00 36.99 3.67
1163 1583 1.892474 GAAGCCATGCTAACCAAACCA 59.108 47.619 0.00 0.00 38.25 3.67
1164 1584 2.171003 AGAAGCCATGCTAACCAAACC 58.829 47.619 0.00 0.00 38.25 3.27
1165 1585 3.255642 TCAAGAAGCCATGCTAACCAAAC 59.744 43.478 0.00 0.00 38.25 2.93
1166 1586 3.495331 TCAAGAAGCCATGCTAACCAAA 58.505 40.909 0.00 0.00 38.25 3.28
1167 1587 3.153369 TCAAGAAGCCATGCTAACCAA 57.847 42.857 0.00 0.00 38.25 3.67
1168 1588 2.877097 TCAAGAAGCCATGCTAACCA 57.123 45.000 0.00 0.00 38.25 3.67
1169 1589 6.036517 CGATATATCAAGAAGCCATGCTAACC 59.963 42.308 13.11 0.00 38.25 2.85
1170 1590 6.813649 TCGATATATCAAGAAGCCATGCTAAC 59.186 38.462 13.11 0.00 38.25 2.34
1171 1591 6.935167 TCGATATATCAAGAAGCCATGCTAA 58.065 36.000 13.11 0.00 38.25 3.09
1172 1592 6.530019 TCGATATATCAAGAAGCCATGCTA 57.470 37.500 13.11 0.00 38.25 3.49
1173 1593 5.411831 TCGATATATCAAGAAGCCATGCT 57.588 39.130 13.11 0.00 42.56 3.79
1174 1594 4.033817 GCTCGATATATCAAGAAGCCATGC 59.966 45.833 13.11 0.00 0.00 4.06
1175 1595 4.267214 CGCTCGATATATCAAGAAGCCATG 59.733 45.833 13.11 0.00 0.00 3.66
1176 1596 4.081972 ACGCTCGATATATCAAGAAGCCAT 60.082 41.667 13.11 3.71 0.00 4.40
1177 1597 3.255888 ACGCTCGATATATCAAGAAGCCA 59.744 43.478 13.11 0.00 0.00 4.75
1178 1598 3.610242 CACGCTCGATATATCAAGAAGCC 59.390 47.826 13.11 0.00 0.00 4.35
1179 1599 3.060098 GCACGCTCGATATATCAAGAAGC 59.940 47.826 13.11 12.92 0.00 3.86
1180 1600 3.299281 CGCACGCTCGATATATCAAGAAG 59.701 47.826 13.11 4.63 0.00 2.85
1181 1601 3.058501 TCGCACGCTCGATATATCAAGAA 60.059 43.478 13.11 0.00 33.02 2.52
1182 1602 2.482721 TCGCACGCTCGATATATCAAGA 59.517 45.455 13.11 2.31 33.02 3.02
1183 1603 2.851534 TCGCACGCTCGATATATCAAG 58.148 47.619 13.11 4.92 33.02 3.02
1184 1604 2.981400 TCGCACGCTCGATATATCAA 57.019 45.000 13.11 0.00 33.02 2.57
1187 1607 9.725613 GAGGAACTAATCGCACGCTCGATATAT 62.726 44.444 11.89 1.46 43.99 0.86
1188 1608 8.522350 GAGGAACTAATCGCACGCTCGATATA 62.522 46.154 11.89 7.03 43.99 0.86
1189 1609 7.815603 GAGGAACTAATCGCACGCTCGATAT 62.816 48.000 11.89 6.40 43.99 1.63
1190 1610 6.600317 GAGGAACTAATCGCACGCTCGATA 62.600 50.000 11.89 2.36 43.99 2.92
1191 1611 5.919732 GAGGAACTAATCGCACGCTCGAT 62.920 52.174 6.58 6.58 45.80 3.59
1192 1612 0.524816 GGAACTAATCGCACGCTCGA 60.525 55.000 2.11 2.11 43.09 4.04
1193 1613 0.525668 AGGAACTAATCGCACGCTCG 60.526 55.000 0.00 0.00 36.02 5.03
1194 1614 1.201343 GAGGAACTAATCGCACGCTC 58.799 55.000 0.00 0.00 41.55 5.03
1195 1615 0.818296 AGAGGAACTAATCGCACGCT 59.182 50.000 0.00 0.00 41.55 5.07
1196 1616 2.486951 TAGAGGAACTAATCGCACGC 57.513 50.000 0.00 0.00 41.55 5.34
1197 1617 3.059120 TCGATAGAGGAACTAATCGCACG 60.059 47.826 8.00 0.00 47.00 5.34
1198 1618 4.485024 TCGATAGAGGAACTAATCGCAC 57.515 45.455 8.00 0.00 47.00 5.34
1239 1659 1.750341 TTCGAAACGGAGGGAGTGCA 61.750 55.000 0.00 0.00 0.00 4.57
1241 1661 2.094762 ATTTCGAAACGGAGGGAGTG 57.905 50.000 13.81 0.00 0.00 3.51
1256 1678 6.153756 ACTAAAACCACGGCAATTGTATTTC 58.846 36.000 7.40 0.00 0.00 2.17
1264 1686 3.634910 ACTTGAACTAAAACCACGGCAAT 59.365 39.130 0.00 0.00 0.00 3.56
1274 1696 9.724839 CTCCGTTTCAAAATACTTGAACTAAAA 57.275 29.630 0.00 0.00 38.05 1.52
1293 1737 4.806640 TTCGTAATTACTCCCTCCGTTT 57.193 40.909 13.56 0.00 0.00 3.60
1323 1767 2.817258 TGGTATACAAAGTGCAGCAACC 59.183 45.455 5.01 0.00 0.00 3.77
1392 1850 9.066892 TCCTTGGCACATTTGTCTATTTATATC 57.933 33.333 0.00 0.00 39.30 1.63
1431 1889 5.288472 CGCCCTTTGATTTTACTTTATGCAC 59.712 40.000 0.00 0.00 0.00 4.57
1500 1961 6.745116 TGTATATGTCCAAATAGGTCGTCAG 58.255 40.000 0.00 0.00 39.02 3.51
1502 1963 8.521176 ACTATGTATATGTCCAAATAGGTCGTC 58.479 37.037 0.00 0.00 39.02 4.20
1532 1993 2.202932 CTTCATCGGCCTGGTCGG 60.203 66.667 21.87 5.67 0.00 4.79
1533 1994 1.227089 CTCTTCATCGGCCTGGTCG 60.227 63.158 15.85 15.85 0.00 4.79
1534 1995 1.144936 CCTCTTCATCGGCCTGGTC 59.855 63.158 0.00 0.00 0.00 4.02
1535 1996 1.201429 AACCTCTTCATCGGCCTGGT 61.201 55.000 0.00 0.00 0.00 4.00
1536 1997 0.035056 AAACCTCTTCATCGGCCTGG 60.035 55.000 0.00 0.00 0.00 4.45
1537 1998 1.826385 AAAACCTCTTCATCGGCCTG 58.174 50.000 0.00 0.00 0.00 4.85
1538 1999 2.586648 AAAAACCTCTTCATCGGCCT 57.413 45.000 0.00 0.00 0.00 5.19
1631 2093 7.379750 AGTAGAAAATGTGTGACTCCTAGTTC 58.620 38.462 0.00 0.00 0.00 3.01
1848 2355 2.035237 AACGACGCCCTCCAGAACAA 62.035 55.000 0.00 0.00 0.00 2.83
1849 2356 2.430382 GAACGACGCCCTCCAGAACA 62.430 60.000 0.00 0.00 0.00 3.18
1921 2428 2.279502 GACAGTGTCGCCGCTATCCA 62.280 60.000 7.68 0.00 0.00 3.41
1922 2429 1.589196 GACAGTGTCGCCGCTATCC 60.589 63.158 7.68 0.00 0.00 2.59
1939 2446 7.606456 GGTTTATTGGAGATTATTAGATGGCGA 59.394 37.037 0.00 0.00 0.00 5.54
1963 2470 1.910722 CCAGATGGTAGCAGCAGGT 59.089 57.895 13.30 0.00 0.00 4.00
1993 2500 7.170965 ACATCTTACAGGTGAACATCATTCTT 58.829 34.615 0.00 0.00 0.00 2.52
2028 2535 0.034089 CCCTGACCCATTCTTCCCAC 60.034 60.000 0.00 0.00 0.00 4.61
2142 2649 4.095483 CGGAGCTTGAAATTTGTAGCATCT 59.905 41.667 18.31 3.57 36.11 2.90
2164 2671 0.110056 GCCACAAGCACACAAGATCG 60.110 55.000 0.00 0.00 42.97 3.69
2202 2709 3.004752 ACTTGGACATTAGCATGGGAC 57.995 47.619 0.00 0.00 34.27 4.46
2207 2714 4.949856 CCCACTTTACTTGGACATTAGCAT 59.050 41.667 0.00 0.00 36.02 3.79
2229 2736 7.446001 TTTTGTTATTTTGGATCATTTGCCC 57.554 32.000 0.00 0.00 0.00 5.36
2256 2830 8.706322 AGGAGGTATCTGTGTGTTTTAATTTT 57.294 30.769 0.00 0.00 0.00 1.82
2259 2833 6.415573 GGAGGAGGTATCTGTGTGTTTTAAT 58.584 40.000 0.00 0.00 0.00 1.40
2261 2835 4.081862 CGGAGGAGGTATCTGTGTGTTTTA 60.082 45.833 0.00 0.00 0.00 1.52
2262 2836 3.306780 CGGAGGAGGTATCTGTGTGTTTT 60.307 47.826 0.00 0.00 0.00 2.43
2272 2846 1.640917 TAATGGGCGGAGGAGGTATC 58.359 55.000 0.00 0.00 0.00 2.24
2278 2852 6.548321 ACATTTTATAATAATGGGCGGAGGA 58.452 36.000 17.25 0.00 37.32 3.71
2326 2907 8.492748 CAAACACACTAAAACGTGTCTACATAT 58.507 33.333 0.00 0.00 45.74 1.78
2373 2955 8.990163 AGGTTTGGATATTTGAATACGGTTAT 57.010 30.769 0.00 0.00 0.00 1.89
2376 2958 6.659824 AGAGGTTTGGATATTTGAATACGGT 58.340 36.000 0.00 0.00 0.00 4.83
2532 3115 4.530710 TCAGTCGCTTTACATTACACCT 57.469 40.909 0.00 0.00 0.00 4.00
2598 3181 6.485830 TCTCCATCGTGATTTAAAGGAGAT 57.514 37.500 13.36 4.83 43.67 2.75


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

AutoCloner maintained by Alex Coulton.