Multiple sequence alignment - TraesCS7B01G257600

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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 TraesCS7B01G257600 chr7B 100.000 3463 0 0 1 3463 478473584 478477046 0.000000e+00 6396.0
1 TraesCS7B01G257600 chr7B 78.090 178 12 13 6 174 687323261 687323102 1.710000e-13 87.9
2 TraesCS7B01G257600 chr5A 93.202 2530 98 14 670 3178 681458918 681456442 0.000000e+00 3651.0
3 TraesCS7B01G257600 chr5A 83.172 1658 227 38 962 2583 444902320 444900679 0.000000e+00 1469.0
4 TraesCS7B01G257600 chr5A 98.182 110 2 0 3102 3211 681456284 681456175 3.530000e-45 193.0
5 TraesCS7B01G257600 chr5A 93.694 111 7 0 2759 2869 681456164 681456054 2.140000e-37 167.0
6 TraesCS7B01G257600 chr5A 97.403 77 2 0 3102 3178 681456362 681456286 7.800000e-27 132.0
7 TraesCS7B01G257600 chr5A 97.403 77 2 0 3102 3178 681456440 681456364 7.800000e-27 132.0
8 TraesCS7B01G257600 chr5D 84.411 1655 219 25 959 2583 346681105 346682750 0.000000e+00 1591.0
9 TraesCS7B01G257600 chr4D 93.315 1077 42 11 684 1750 500495490 500494434 0.000000e+00 1563.0
10 TraesCS7B01G257600 chr4D 94.505 546 19 2 1941 2475 500494442 500493897 0.000000e+00 832.0
11 TraesCS7B01G257600 chrUn 82.275 677 43 28 1 640 42205008 42204372 6.630000e-142 514.0
12 TraesCS7B01G257600 chr6B 79.592 441 76 10 1190 1623 652522511 652522078 1.560000e-78 303.0
13 TraesCS7B01G257600 chr3B 84.291 261 40 1 178 437 40537189 40537449 1.600000e-63 254.0
14 TraesCS7B01G257600 chr2D 79.213 356 50 9 232 566 80250792 80251144 3.480000e-55 226.0
15 TraesCS7B01G257600 chr7D 84.756 164 22 2 1 161 605180181 605180344 9.950000e-36 161.0
16 TraesCS7B01G257600 chr7D 86.000 150 20 1 3 151 453670092 453669943 3.580000e-35 159.0
17 TraesCS7B01G257600 chr3D 76.562 192 25 11 456 639 591644806 591644985 1.710000e-13 87.9


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 TraesCS7B01G257600 chr7B 478473584 478477046 3462 False 6396.0 6396 100.0000 1 3463 1 chr7B.!!$F1 3462
1 TraesCS7B01G257600 chr5A 444900679 444902320 1641 True 1469.0 1469 83.1720 962 2583 1 chr5A.!!$R1 1621
2 TraesCS7B01G257600 chr5A 681456054 681458918 2864 True 855.0 3651 95.9768 670 3211 5 chr5A.!!$R2 2541
3 TraesCS7B01G257600 chr5D 346681105 346682750 1645 False 1591.0 1591 84.4110 959 2583 1 chr5D.!!$F1 1624
4 TraesCS7B01G257600 chr4D 500493897 500495490 1593 True 1197.5 1563 93.9100 684 2475 2 chr4D.!!$R1 1791
5 TraesCS7B01G257600 chrUn 42204372 42205008 636 True 514.0 514 82.2750 1 640 1 chrUn.!!$R1 639

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
656 698 0.101219 CCCTTACCGCGTACAGTACC 59.899 60.0 4.92 0.0 0.0 3.34 F
1890 1981 0.038892 TACTCGTTGTCAAGTCGCCC 60.039 55.0 0.00 0.0 0.0 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1905 1996 0.029567 GTCGCCACTCCTCTACATCG 59.970 60.0 0.00 0.0 0.00 3.84 R
3328 3696 0.036164 TCGTTGCCTGGCATTACACT 59.964 50.0 24.03 0.0 38.76 3.55 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
42 43 1.976132 GCTGCTCATACCTGGCCTCA 61.976 60.000 3.32 0.00 0.00 3.86
46 47 0.179073 CTCATACCTGGCCTCAACCG 60.179 60.000 3.32 0.00 0.00 4.44
52 53 1.228124 CTGGCCTCAACCGACCAAA 60.228 57.895 3.32 0.00 0.00 3.28
85 86 0.105778 TGACGCATCAGACAACACCA 59.894 50.000 0.00 0.00 0.00 4.17
133 134 2.492418 TCCAAGGCAATGGAATCGC 58.508 52.632 9.33 0.00 46.36 4.58
135 136 1.587088 CAAGGCAATGGAATCGCGC 60.587 57.895 0.00 0.00 0.00 6.86
228 229 2.586792 GCTTGAGCTGATCCGGGT 59.413 61.111 0.00 0.00 38.21 5.28
234 235 2.398588 TGAGCTGATCCGGGTAAAGAT 58.601 47.619 0.00 0.00 0.00 2.40
273 274 0.945813 GACGGTAGAGAGGACCATCG 59.054 60.000 0.00 0.00 36.72 3.84
305 332 2.683933 GGAGGTGGCTCCGGAAGA 60.684 66.667 5.23 0.00 41.99 2.87
338 365 2.025727 CGGCTACGAACCCTAGCG 59.974 66.667 0.00 0.00 44.60 4.26
339 366 2.279318 GGCTACGAACCCTAGCGC 60.279 66.667 0.00 0.00 38.01 5.92
395 422 3.133003 TGGATCCGGATTGAGAAGAGAAC 59.867 47.826 20.22 0.19 0.00 3.01
423 450 2.363018 CGAGGCCACAGAGAGGGA 60.363 66.667 5.01 0.00 0.00 4.20
448 475 4.779733 GCTGGGACGGGGAGAGGA 62.780 72.222 0.00 0.00 33.56 3.71
449 476 2.443016 CTGGGACGGGGAGAGGAG 60.443 72.222 0.00 0.00 0.00 3.69
450 477 2.944954 TGGGACGGGGAGAGGAGA 60.945 66.667 0.00 0.00 0.00 3.71
451 478 2.363361 GGGACGGGGAGAGGAGAA 59.637 66.667 0.00 0.00 0.00 2.87
452 479 2.059190 GGGACGGGGAGAGGAGAAC 61.059 68.421 0.00 0.00 0.00 3.01
453 480 1.000612 GGACGGGGAGAGGAGAACT 59.999 63.158 0.00 0.00 0.00 3.01
454 481 1.324005 GGACGGGGAGAGGAGAACTG 61.324 65.000 0.00 0.00 0.00 3.16
455 482 1.305381 ACGGGGAGAGGAGAACTGG 60.305 63.158 0.00 0.00 0.00 4.00
458 485 0.689412 GGGGAGAGGAGAACTGGAGG 60.689 65.000 0.00 0.00 0.00 4.30
462 489 0.325203 AGAGGAGAACTGGAGGAGGC 60.325 60.000 0.00 0.00 0.00 4.70
484 511 2.825836 GCATGCTTGGGTCGAGGG 60.826 66.667 11.37 0.00 0.00 4.30
485 512 2.124570 CATGCTTGGGTCGAGGGG 60.125 66.667 0.00 0.00 0.00 4.79
495 533 3.401332 TCGAGGGGAGACGACTCT 58.599 61.111 14.36 0.00 42.28 3.24
511 549 1.694696 ACTCTGTGTGGAGTTCCTTCC 59.305 52.381 0.00 0.00 43.14 3.46
512 550 1.974236 CTCTGTGTGGAGTTCCTTCCT 59.026 52.381 0.00 0.00 38.12 3.36
513 551 2.370189 CTCTGTGTGGAGTTCCTTCCTT 59.630 50.000 0.00 0.00 38.12 3.36
514 552 2.368875 TCTGTGTGGAGTTCCTTCCTTC 59.631 50.000 0.00 0.00 38.12 3.46
515 553 1.070134 TGTGTGGAGTTCCTTCCTTCG 59.930 52.381 0.00 0.00 38.12 3.79
516 554 1.070289 GTGTGGAGTTCCTTCCTTCGT 59.930 52.381 0.00 0.00 38.12 3.85
517 555 2.298163 GTGTGGAGTTCCTTCCTTCGTA 59.702 50.000 0.00 0.00 38.12 3.43
518 556 2.561419 TGTGGAGTTCCTTCCTTCGTAG 59.439 50.000 0.00 0.00 38.12 3.51
519 557 2.561858 GTGGAGTTCCTTCCTTCGTAGT 59.438 50.000 0.00 0.00 38.12 2.73
520 558 2.824341 TGGAGTTCCTTCCTTCGTAGTC 59.176 50.000 0.00 0.00 38.12 2.59
521 559 2.159407 GGAGTTCCTTCCTTCGTAGTCG 60.159 54.545 0.00 0.00 34.27 4.18
522 560 2.487372 GAGTTCCTTCCTTCGTAGTCGT 59.513 50.000 0.00 0.00 38.33 4.34
652 694 2.581409 CGCCCTTACCGCGTACAG 60.581 66.667 4.92 0.00 44.55 2.74
653 695 2.575461 GCCCTTACCGCGTACAGT 59.425 61.111 4.92 0.00 0.00 3.55
654 696 1.809207 GCCCTTACCGCGTACAGTA 59.191 57.895 4.92 0.00 0.00 2.74
655 697 0.526310 GCCCTTACCGCGTACAGTAC 60.526 60.000 4.92 0.00 0.00 2.73
656 698 0.101219 CCCTTACCGCGTACAGTACC 59.899 60.000 4.92 0.00 0.00 3.34
657 699 1.098050 CCTTACCGCGTACAGTACCT 58.902 55.000 4.92 0.00 0.00 3.08
658 700 1.474077 CCTTACCGCGTACAGTACCTT 59.526 52.381 4.92 0.00 0.00 3.50
659 701 2.682856 CCTTACCGCGTACAGTACCTTA 59.317 50.000 4.92 0.00 0.00 2.69
660 702 3.316308 CCTTACCGCGTACAGTACCTTAT 59.684 47.826 4.92 0.00 0.00 1.73
661 703 4.202050 CCTTACCGCGTACAGTACCTTATT 60.202 45.833 4.92 0.00 0.00 1.40
662 704 3.155093 ACCGCGTACAGTACCTTATTG 57.845 47.619 4.92 0.00 0.00 1.90
663 705 2.493278 ACCGCGTACAGTACCTTATTGT 59.507 45.455 4.92 0.00 33.05 2.71
664 706 3.056607 ACCGCGTACAGTACCTTATTGTT 60.057 43.478 4.92 0.00 30.84 2.83
665 707 3.928375 CCGCGTACAGTACCTTATTGTTT 59.072 43.478 4.92 0.00 30.84 2.83
666 708 4.389687 CCGCGTACAGTACCTTATTGTTTT 59.610 41.667 4.92 0.00 30.84 2.43
667 709 5.106987 CCGCGTACAGTACCTTATTGTTTTT 60.107 40.000 4.92 0.00 30.84 1.94
668 710 5.786574 CGCGTACAGTACCTTATTGTTTTTG 59.213 40.000 5.07 0.00 30.84 2.44
674 716 6.027749 CAGTACCTTATTGTTTTTGATCGCC 58.972 40.000 0.00 0.00 0.00 5.54
677 719 5.848406 ACCTTATTGTTTTTGATCGCCAAA 58.152 33.333 0.00 0.00 42.56 3.28
691 733 3.947626 TCGCCAAAAGAAGAAGAAAACG 58.052 40.909 0.00 0.00 0.00 3.60
818 863 2.939460 GCAACGCCAGGTTCATATTT 57.061 45.000 0.00 0.00 36.49 1.40
840 886 3.913799 TCTCCCCAATTTACTGGTCTTCA 59.086 43.478 0.00 0.00 34.33 3.02
841 887 4.010349 CTCCCCAATTTACTGGTCTTCAC 58.990 47.826 0.00 0.00 34.33 3.18
852 898 9.877178 ATTTACTGGTCTTCACTGTCTAAATAG 57.123 33.333 0.00 0.00 0.00 1.73
854 900 5.086104 TGGTCTTCACTGTCTAAATAGGC 57.914 43.478 0.00 0.00 0.00 3.93
936 985 1.568504 TTTGGGATCGCAGTAGGAGT 58.431 50.000 12.66 0.00 0.00 3.85
938 987 0.755698 TGGGATCGCAGTAGGAGTCC 60.756 60.000 8.63 0.00 0.00 3.85
1548 1636 2.146342 CTGATCAAGAACCGCAACTGT 58.854 47.619 0.00 0.00 0.00 3.55
1556 1644 0.107410 AACCGCAACTGTGTCCTTCA 60.107 50.000 0.00 0.00 0.00 3.02
1776 1864 0.984230 TGCAAGTCTACCCTCCCAAG 59.016 55.000 0.00 0.00 0.00 3.61
1783 1871 3.508786 TACCCTCCCAAGCCACCCA 62.509 63.158 0.00 0.00 0.00 4.51
1890 1981 0.038892 TACTCGTTGTCAAGTCGCCC 60.039 55.000 0.00 0.00 0.00 6.13
1899 1990 2.215196 GTCAAGTCGCCCAAGTTTGTA 58.785 47.619 0.00 0.00 0.00 2.41
1905 1996 1.520600 CGCCCAAGTTTGTACACCCC 61.521 60.000 0.00 0.00 0.00 4.95
1930 2021 0.892358 AGAGGAGTGGCGACGTTACA 60.892 55.000 0.00 0.00 0.00 2.41
1938 2029 0.027586 GGCGACGTTACATCATTGCC 59.972 55.000 0.00 0.00 0.00 4.52
1962 2053 7.574592 GCCATCTTCAAGGTGAATATAAGCATC 60.575 40.741 0.00 0.00 35.59 3.91
1963 2054 7.360691 CCATCTTCAAGGTGAATATAAGCATCG 60.361 40.741 0.00 0.00 35.59 3.84
2172 2263 0.669318 CGGCGTTGTGTCAGGTACAT 60.669 55.000 0.00 0.00 41.10 2.29
2194 2285 1.833630 ACGGAAAGGAGATGATCTGCA 59.166 47.619 16.35 0.00 37.29 4.41
2436 2563 2.604912 AAGAACCCAGGATTCCCAAC 57.395 50.000 0.00 0.00 33.88 3.77
2673 2807 1.686355 AAAAATGACCAGCGGTGTCA 58.314 45.000 14.40 16.40 45.98 3.58
2691 2825 5.279809 GGTGTCAGTTTATGTCTACCCAAGA 60.280 44.000 0.00 0.00 0.00 3.02
2764 2898 2.499693 TGCTCGTCCAAGGTGATATTGA 59.500 45.455 0.00 0.00 0.00 2.57
2781 2915 1.300963 GACATCCCTCTGCTTGGCA 59.699 57.895 0.00 0.00 36.92 4.92
2869 3003 8.989980 AGTTTTGTCTTATCTTAAAGAAGGTCG 58.010 33.333 0.00 0.00 37.24 4.79
2913 3047 6.774170 CCTTGATGAATATTGGAAGGATGTCA 59.226 38.462 0.00 0.00 33.17 3.58
2914 3048 7.255381 CCTTGATGAATATTGGAAGGATGTCAC 60.255 40.741 0.00 0.00 33.17 3.67
2936 3070 6.704493 TCACTAAACAACATCAAGTAGACCAC 59.296 38.462 0.00 0.00 0.00 4.16
2937 3071 5.995897 ACTAAACAACATCAAGTAGACCACC 59.004 40.000 0.00 0.00 0.00 4.61
2938 3072 4.431416 AACAACATCAAGTAGACCACCA 57.569 40.909 0.00 0.00 0.00 4.17
2954 3088 1.665679 CACCAGCAGCAAGGTAATACG 59.334 52.381 9.05 0.00 36.07 3.06
3100 3234 5.186797 TGTTTTTGTTTTCTGGGATGACAGT 59.813 36.000 0.00 0.00 39.48 3.55
3115 3483 6.461788 GGGATGACAGTAAACTAGTCCTCATC 60.462 46.154 0.00 5.97 34.51 2.92
3134 3502 4.935205 TCATCGATTTTCACAACGGAAGAT 59.065 37.500 0.00 0.00 0.00 2.40
3211 3579 7.707774 TCATGTCCACGTATTGTTACATATG 57.292 36.000 0.00 0.00 34.43 1.78
3212 3580 5.977171 TGTCCACGTATTGTTACATATGC 57.023 39.130 1.58 0.00 0.00 3.14
3213 3581 5.420409 TGTCCACGTATTGTTACATATGCA 58.580 37.500 1.58 0.00 0.00 3.96
3215 3583 6.540551 TGTCCACGTATTGTTACATATGCATT 59.459 34.615 3.54 0.00 0.00 3.56
3216 3584 7.066404 TGTCCACGTATTGTTACATATGCATTT 59.934 33.333 3.54 0.00 0.00 2.32
3217 3585 7.913297 GTCCACGTATTGTTACATATGCATTTT 59.087 33.333 3.54 0.00 0.00 1.82
3218 3586 7.912773 TCCACGTATTGTTACATATGCATTTTG 59.087 33.333 3.54 6.13 0.00 2.44
3219 3587 7.700234 CCACGTATTGTTACATATGCATTTTGT 59.300 33.333 3.54 12.14 0.00 2.83
3226 3594 8.909708 TGTTACATATGCATTTTGTAAAGCTC 57.090 30.769 24.79 17.27 37.52 4.09
3227 3595 8.739039 TGTTACATATGCATTTTGTAAAGCTCT 58.261 29.630 24.79 4.30 37.52 4.09
3231 3599 8.960591 ACATATGCATTTTGTAAAGCTCTAGTT 58.039 29.630 3.54 0.00 0.00 2.24
3234 3602 7.377766 TGCATTTTGTAAAGCTCTAGTTAGG 57.622 36.000 0.00 0.00 0.00 2.69
3236 3604 6.478588 CATTTTGTAAAGCTCTAGTTAGGCG 58.521 40.000 0.00 0.00 0.00 5.52
3239 3607 1.196012 AAAGCTCTAGTTAGGCGGCT 58.804 50.000 18.33 18.33 0.00 5.52
3240 3608 0.461961 AAGCTCTAGTTAGGCGGCTG 59.538 55.000 23.55 4.05 0.00 4.85
3241 3609 0.395862 AGCTCTAGTTAGGCGGCTGA 60.396 55.000 23.55 11.38 0.00 4.26
3242 3610 0.676736 GCTCTAGTTAGGCGGCTGAT 59.323 55.000 23.55 9.67 0.00 2.90
3243 3611 1.887198 GCTCTAGTTAGGCGGCTGATA 59.113 52.381 23.55 10.33 0.00 2.15
3244 3612 2.351932 GCTCTAGTTAGGCGGCTGATAC 60.352 54.545 23.55 16.17 0.00 2.24
3245 3613 2.885266 CTCTAGTTAGGCGGCTGATACA 59.115 50.000 23.55 0.00 0.00 2.29
3247 3615 3.702548 TCTAGTTAGGCGGCTGATACAAA 59.297 43.478 23.55 3.24 0.00 2.83
3248 3616 3.343941 AGTTAGGCGGCTGATACAAAA 57.656 42.857 23.55 2.39 0.00 2.44
3249 3617 3.886123 AGTTAGGCGGCTGATACAAAAT 58.114 40.909 23.55 2.51 0.00 1.82
3250 3618 3.877508 AGTTAGGCGGCTGATACAAAATC 59.122 43.478 23.55 0.00 0.00 2.17
3251 3619 2.717639 AGGCGGCTGATACAAAATCT 57.282 45.000 12.25 0.00 0.00 2.40
3255 3623 3.198068 GCGGCTGATACAAAATCTCAGA 58.802 45.455 0.00 0.00 38.96 3.27
3256 3624 3.623060 GCGGCTGATACAAAATCTCAGAA 59.377 43.478 0.00 0.00 38.96 3.02
3258 3626 5.220931 GCGGCTGATACAAAATCTCAGAATT 60.221 40.000 0.00 0.00 38.96 2.17
3259 3627 6.678900 GCGGCTGATACAAAATCTCAGAATTT 60.679 38.462 0.00 0.00 38.96 1.82
3260 3628 6.909357 CGGCTGATACAAAATCTCAGAATTTC 59.091 38.462 3.11 0.00 38.96 2.17
3262 3630 9.113838 GGCTGATACAAAATCTCAGAATTTCTA 57.886 33.333 0.00 0.00 38.96 2.10
3265 3633 8.820933 TGATACAAAATCTCAGAATTTCTAGCG 58.179 33.333 0.00 0.00 0.00 4.26
3266 3634 8.948631 ATACAAAATCTCAGAATTTCTAGCGA 57.051 30.769 0.00 0.00 0.00 4.93
3267 3635 7.672983 ACAAAATCTCAGAATTTCTAGCGAA 57.327 32.000 0.00 0.00 0.00 4.70
3268 3636 8.273780 ACAAAATCTCAGAATTTCTAGCGAAT 57.726 30.769 0.00 0.00 0.00 3.34
3269 3637 8.734386 ACAAAATCTCAGAATTTCTAGCGAATT 58.266 29.630 0.00 4.26 0.00 2.17
3273 3641 9.606631 AATCTCAGAATTTCTAGCGAATTAAGT 57.393 29.630 0.00 0.00 0.00 2.24
3283 3651 8.780846 TTCTAGCGAATTAAGTATTTGGAACA 57.219 30.769 0.00 0.00 0.00 3.18
3287 3655 7.752695 AGCGAATTAAGTATTTGGAACAGAAG 58.247 34.615 0.00 0.00 42.39 2.85
3290 3658 9.893305 CGAATTAAGTATTTGGAACAGAAGTTT 57.107 29.630 0.00 0.00 42.39 2.66
3320 3688 8.862325 ATGTGTATTTTACTGACCATTCTTGA 57.138 30.769 0.00 0.00 0.00 3.02
3321 3689 8.322906 TGTGTATTTTACTGACCATTCTTGAG 57.677 34.615 0.00 0.00 0.00 3.02
3322 3690 7.094805 TGTGTATTTTACTGACCATTCTTGAGC 60.095 37.037 0.00 0.00 0.00 4.26
3323 3691 7.119846 GTGTATTTTACTGACCATTCTTGAGCT 59.880 37.037 0.00 0.00 0.00 4.09
3324 3692 5.947228 TTTTACTGACCATTCTTGAGCTG 57.053 39.130 0.00 0.00 0.00 4.24
3325 3693 4.890158 TTACTGACCATTCTTGAGCTGA 57.110 40.909 0.00 0.00 0.00 4.26
3328 3696 4.464008 ACTGACCATTCTTGAGCTGAAAA 58.536 39.130 0.00 0.00 0.00 2.29
3329 3697 4.518211 ACTGACCATTCTTGAGCTGAAAAG 59.482 41.667 0.00 0.00 0.00 2.27
3331 3699 4.276678 TGACCATTCTTGAGCTGAAAAGTG 59.723 41.667 0.00 0.00 0.00 3.16
3332 3700 4.210331 ACCATTCTTGAGCTGAAAAGTGT 58.790 39.130 0.00 0.00 0.00 3.55
3333 3701 5.376625 ACCATTCTTGAGCTGAAAAGTGTA 58.623 37.500 0.00 0.00 0.00 2.90
3334 3702 5.827797 ACCATTCTTGAGCTGAAAAGTGTAA 59.172 36.000 0.00 0.00 0.00 2.41
3335 3703 6.491403 ACCATTCTTGAGCTGAAAAGTGTAAT 59.509 34.615 0.00 0.00 0.00 1.89
3336 3704 6.805271 CCATTCTTGAGCTGAAAAGTGTAATG 59.195 38.462 0.00 0.00 0.00 1.90
3337 3705 5.362556 TCTTGAGCTGAAAAGTGTAATGC 57.637 39.130 0.00 0.00 0.00 3.56
3338 3706 4.216257 TCTTGAGCTGAAAAGTGTAATGCC 59.784 41.667 0.00 0.00 0.00 4.40
3339 3707 3.485394 TGAGCTGAAAAGTGTAATGCCA 58.515 40.909 0.00 0.00 0.00 4.92
3340 3708 3.503363 TGAGCTGAAAAGTGTAATGCCAG 59.497 43.478 0.00 0.00 0.00 4.85
3341 3709 2.821969 AGCTGAAAAGTGTAATGCCAGG 59.178 45.455 0.00 0.00 0.00 4.45
3342 3710 2.672195 GCTGAAAAGTGTAATGCCAGGC 60.672 50.000 3.66 3.66 0.00 4.85
3343 3711 2.557924 CTGAAAAGTGTAATGCCAGGCA 59.442 45.455 18.99 18.99 44.86 4.75
3344 3712 2.961741 TGAAAAGTGTAATGCCAGGCAA 59.038 40.909 20.84 0.00 43.62 4.52
3345 3713 3.243704 TGAAAAGTGTAATGCCAGGCAAC 60.244 43.478 20.84 14.16 43.62 4.17
3346 3714 0.881118 AAGTGTAATGCCAGGCAACG 59.119 50.000 20.84 0.00 43.62 4.10
3347 3715 0.036164 AGTGTAATGCCAGGCAACGA 59.964 50.000 20.84 3.36 43.62 3.85
3348 3716 1.094785 GTGTAATGCCAGGCAACGAT 58.905 50.000 20.84 7.93 43.62 3.73
3349 3717 2.093181 AGTGTAATGCCAGGCAACGATA 60.093 45.455 20.84 6.86 43.62 2.92
3350 3718 2.031683 GTGTAATGCCAGGCAACGATAC 59.968 50.000 20.84 18.39 43.62 2.24
3351 3719 2.285083 GTAATGCCAGGCAACGATACA 58.715 47.619 20.84 0.00 43.62 2.29
3352 3720 2.057137 AATGCCAGGCAACGATACAT 57.943 45.000 20.84 0.00 43.62 2.29
3353 3721 1.311859 ATGCCAGGCAACGATACATG 58.688 50.000 20.84 0.00 43.62 3.21
3354 3722 0.251634 TGCCAGGCAACGATACATGA 59.748 50.000 13.33 0.00 46.39 3.07
3355 3723 1.339535 TGCCAGGCAACGATACATGAA 60.340 47.619 13.33 0.00 46.39 2.57
3356 3724 1.949525 GCCAGGCAACGATACATGAAT 59.050 47.619 6.55 0.00 46.39 2.57
3357 3725 2.358898 GCCAGGCAACGATACATGAATT 59.641 45.455 6.55 0.00 46.39 2.17
3358 3726 3.563808 GCCAGGCAACGATACATGAATTA 59.436 43.478 6.55 0.00 46.39 1.40
3359 3727 4.216257 GCCAGGCAACGATACATGAATTAT 59.784 41.667 6.55 0.00 46.39 1.28
3360 3728 5.692814 CCAGGCAACGATACATGAATTATG 58.307 41.667 0.00 0.00 46.39 1.90
3361 3729 5.469760 CCAGGCAACGATACATGAATTATGA 59.530 40.000 0.00 0.00 46.39 2.15
3362 3730 6.149973 CCAGGCAACGATACATGAATTATGAT 59.850 38.462 0.00 0.00 46.39 2.45
3363 3731 7.239271 CAGGCAACGATACATGAATTATGATC 58.761 38.462 0.00 0.00 46.39 2.92
3364 3732 7.118825 CAGGCAACGATACATGAATTATGATCT 59.881 37.037 0.00 0.00 46.39 2.75
3365 3733 7.118825 AGGCAACGATACATGAATTATGATCTG 59.881 37.037 0.00 0.00 46.39 2.90
3366 3734 7.118245 GGCAACGATACATGAATTATGATCTGA 59.882 37.037 0.00 0.00 39.21 3.27
3367 3735 8.663025 GCAACGATACATGAATTATGATCTGAT 58.337 33.333 0.00 0.00 39.21 2.90
3368 3736 9.968743 CAACGATACATGAATTATGATCTGATG 57.031 33.333 0.00 0.00 39.21 3.07
3369 3737 9.716531 AACGATACATGAATTATGATCTGATGT 57.283 29.630 0.00 0.00 39.21 3.06
3370 3738 9.716531 ACGATACATGAATTATGATCTGATGTT 57.283 29.630 0.00 0.00 39.21 2.71
3395 3763 5.490139 GTGATTACACTGGATTGTGGATG 57.510 43.478 0.00 0.00 42.99 3.51
3396 3764 4.943705 GTGATTACACTGGATTGTGGATGT 59.056 41.667 0.00 0.00 42.99 3.06
3397 3765 4.943093 TGATTACACTGGATTGTGGATGTG 59.057 41.667 0.00 0.00 41.84 3.21
3398 3766 2.957402 ACACTGGATTGTGGATGTGT 57.043 45.000 0.00 0.00 41.84 3.72
3399 3767 3.228188 ACACTGGATTGTGGATGTGTT 57.772 42.857 0.00 0.00 41.84 3.32
3400 3768 3.565307 ACACTGGATTGTGGATGTGTTT 58.435 40.909 0.00 0.00 41.84 2.83
3401 3769 3.318839 ACACTGGATTGTGGATGTGTTTG 59.681 43.478 0.00 0.00 41.84 2.93
3402 3770 2.892852 ACTGGATTGTGGATGTGTTTGG 59.107 45.455 0.00 0.00 0.00 3.28
3403 3771 2.892852 CTGGATTGTGGATGTGTTTGGT 59.107 45.455 0.00 0.00 0.00 3.67
3404 3772 3.303938 TGGATTGTGGATGTGTTTGGTT 58.696 40.909 0.00 0.00 0.00 3.67
3405 3773 3.069300 TGGATTGTGGATGTGTTTGGTTG 59.931 43.478 0.00 0.00 0.00 3.77
3406 3774 3.554752 GGATTGTGGATGTGTTTGGTTGG 60.555 47.826 0.00 0.00 0.00 3.77
3407 3775 0.749649 TGTGGATGTGTTTGGTTGGC 59.250 50.000 0.00 0.00 0.00 4.52
3408 3776 0.318614 GTGGATGTGTTTGGTTGGCG 60.319 55.000 0.00 0.00 0.00 5.69
3409 3777 0.466372 TGGATGTGTTTGGTTGGCGA 60.466 50.000 0.00 0.00 0.00 5.54
3410 3778 0.039527 GGATGTGTTTGGTTGGCGAC 60.040 55.000 0.00 0.00 0.00 5.19
3411 3779 0.665835 GATGTGTTTGGTTGGCGACA 59.334 50.000 7.28 0.00 39.83 4.35
3422 3790 3.469564 TGGCGACAACAACAGAACT 57.530 47.368 0.00 0.00 37.44 3.01
3423 3791 2.605837 TGGCGACAACAACAGAACTA 57.394 45.000 0.00 0.00 37.44 2.24
3424 3792 2.479837 TGGCGACAACAACAGAACTAG 58.520 47.619 0.00 0.00 37.44 2.57
3425 3793 1.798813 GGCGACAACAACAGAACTAGG 59.201 52.381 0.00 0.00 0.00 3.02
3426 3794 1.798813 GCGACAACAACAGAACTAGGG 59.201 52.381 0.00 0.00 0.00 3.53
3427 3795 2.547218 GCGACAACAACAGAACTAGGGA 60.547 50.000 0.00 0.00 0.00 4.20
3428 3796 3.724374 CGACAACAACAGAACTAGGGAA 58.276 45.455 0.00 0.00 0.00 3.97
3429 3797 3.493503 CGACAACAACAGAACTAGGGAAC 59.506 47.826 0.00 0.00 0.00 3.62
3430 3798 4.448210 GACAACAACAGAACTAGGGAACA 58.552 43.478 0.00 0.00 0.00 3.18
3431 3799 4.451900 ACAACAACAGAACTAGGGAACAG 58.548 43.478 0.00 0.00 0.00 3.16
3432 3800 4.080526 ACAACAACAGAACTAGGGAACAGT 60.081 41.667 0.00 0.00 0.00 3.55
3433 3801 4.772886 ACAACAGAACTAGGGAACAGTT 57.227 40.909 0.00 0.00 38.92 3.16
3434 3802 5.881923 ACAACAGAACTAGGGAACAGTTA 57.118 39.130 0.00 0.00 36.38 2.24
3435 3803 6.243216 ACAACAGAACTAGGGAACAGTTAA 57.757 37.500 0.00 0.00 36.38 2.01
3436 3804 6.838382 ACAACAGAACTAGGGAACAGTTAAT 58.162 36.000 0.00 0.00 36.38 1.40
3437 3805 6.710744 ACAACAGAACTAGGGAACAGTTAATG 59.289 38.462 0.00 0.00 36.38 1.90
3438 3806 5.246307 ACAGAACTAGGGAACAGTTAATGC 58.754 41.667 0.00 0.00 36.38 3.56
3439 3807 5.013183 ACAGAACTAGGGAACAGTTAATGCT 59.987 40.000 0.00 0.00 36.38 3.79
3440 3808 6.212791 ACAGAACTAGGGAACAGTTAATGCTA 59.787 38.462 0.00 0.00 36.38 3.49
3441 3809 7.103641 CAGAACTAGGGAACAGTTAATGCTAA 58.896 38.462 0.00 0.00 36.38 3.09
3442 3810 7.606456 CAGAACTAGGGAACAGTTAATGCTAAA 59.394 37.037 0.00 0.00 36.38 1.85
3443 3811 7.606839 AGAACTAGGGAACAGTTAATGCTAAAC 59.393 37.037 0.00 0.00 36.38 2.01
3444 3812 7.017319 ACTAGGGAACAGTTAATGCTAAACT 57.983 36.000 0.00 0.00 37.67 2.66
3445 3813 8.142485 ACTAGGGAACAGTTAATGCTAAACTA 57.858 34.615 0.00 0.00 35.44 2.24
3446 3814 8.769359 ACTAGGGAACAGTTAATGCTAAACTAT 58.231 33.333 0.00 0.00 35.44 2.12
3447 3815 9.614792 CTAGGGAACAGTTAATGCTAAACTATT 57.385 33.333 0.00 0.00 35.44 1.73
3448 3816 8.281212 AGGGAACAGTTAATGCTAAACTATTG 57.719 34.615 0.00 0.00 35.44 1.90
3449 3817 6.972901 GGGAACAGTTAATGCTAAACTATTGC 59.027 38.462 0.00 2.11 35.44 3.56
3450 3818 7.148069 GGGAACAGTTAATGCTAAACTATTGCT 60.148 37.037 8.11 0.00 33.69 3.91
3451 3819 7.698130 GGAACAGTTAATGCTAAACTATTGCTG 59.302 37.037 0.00 0.00 35.44 4.41
3452 3820 7.921786 ACAGTTAATGCTAAACTATTGCTGA 57.078 32.000 0.00 0.00 35.44 4.26
3453 3821 8.511604 ACAGTTAATGCTAAACTATTGCTGAT 57.488 30.769 0.00 0.00 35.44 2.90
3454 3822 8.616076 ACAGTTAATGCTAAACTATTGCTGATC 58.384 33.333 0.00 0.00 35.44 2.92
3455 3823 7.795734 CAGTTAATGCTAAACTATTGCTGATCG 59.204 37.037 0.00 0.00 35.44 3.69
3456 3824 7.495934 AGTTAATGCTAAACTATTGCTGATCGT 59.504 33.333 0.00 0.00 35.44 3.73
3457 3825 5.663795 ATGCTAAACTATTGCTGATCGTG 57.336 39.130 0.00 0.00 0.00 4.35
3458 3826 4.503910 TGCTAAACTATTGCTGATCGTGT 58.496 39.130 0.00 0.00 0.00 4.49
3459 3827 4.566759 TGCTAAACTATTGCTGATCGTGTC 59.433 41.667 0.00 0.00 0.00 3.67
3460 3828 4.806247 GCTAAACTATTGCTGATCGTGTCT 59.194 41.667 0.00 0.00 0.00 3.41
3461 3829 5.977725 GCTAAACTATTGCTGATCGTGTCTA 59.022 40.000 0.00 0.00 0.00 2.59
3462 3830 6.475727 GCTAAACTATTGCTGATCGTGTCTAA 59.524 38.462 0.00 0.00 0.00 2.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 1.759445 GGTATGAGCAGCTCCTGAGAA 59.241 52.381 20.16 0.00 32.44 2.87
42 43 2.203238 CGTGGGGTTTGGTCGGTT 60.203 61.111 0.00 0.00 0.00 4.44
198 199 3.357079 CAAGCGTGAGGCCACCAC 61.357 66.667 15.82 15.82 45.17 4.16
228 229 1.153168 GCTGCTCCGCCCATCTTTA 60.153 57.895 0.00 0.00 0.00 1.85
248 249 2.513204 CTCTCTACCGTCGCCCGA 60.513 66.667 0.00 0.00 39.56 5.14
257 258 1.889829 CCATCGATGGTCCTCTCTACC 59.110 57.143 32.39 0.00 43.05 3.18
260 261 1.118356 GCCCATCGATGGTCCTCTCT 61.118 60.000 36.09 0.00 46.65 3.10
368 395 1.694150 TCTCAATCCGGATCCATGGAC 59.306 52.381 18.99 11.10 37.02 4.02
395 422 3.839432 GGCCTCGTCTCTTCCCCG 61.839 72.222 0.00 0.00 0.00 5.73
438 465 1.000486 TCCAGTTCTCCTCTCCCCG 60.000 63.158 0.00 0.00 0.00 5.73
444 471 1.671901 CGCCTCCTCCAGTTCTCCTC 61.672 65.000 0.00 0.00 0.00 3.71
445 472 1.684049 CGCCTCCTCCAGTTCTCCT 60.684 63.158 0.00 0.00 0.00 3.69
446 473 2.726351 CCGCCTCCTCCAGTTCTCC 61.726 68.421 0.00 0.00 0.00 3.71
447 474 2.896443 CCGCCTCCTCCAGTTCTC 59.104 66.667 0.00 0.00 0.00 2.87
448 475 3.394836 GCCGCCTCCTCCAGTTCT 61.395 66.667 0.00 0.00 0.00 3.01
449 476 4.821589 CGCCGCCTCCTCCAGTTC 62.822 72.222 0.00 0.00 0.00 3.01
469 496 2.285368 TCCCCTCGACCCAAGCAT 60.285 61.111 0.00 0.00 0.00 3.79
484 511 0.523966 CTCCACACAGAGTCGTCTCC 59.476 60.000 6.04 0.00 41.26 3.71
485 512 1.240256 ACTCCACACAGAGTCGTCTC 58.760 55.000 1.04 1.04 43.76 3.36
494 532 2.772287 GAAGGAAGGAACTCCACACAG 58.228 52.381 0.00 0.00 38.49 3.66
495 533 1.070134 CGAAGGAAGGAACTCCACACA 59.930 52.381 0.00 0.00 38.49 3.72
511 549 2.636830 TCCTTCCCTACGACTACGAAG 58.363 52.381 0.00 0.00 42.66 3.79
512 550 2.787473 TCCTTCCCTACGACTACGAA 57.213 50.000 0.00 0.00 42.66 3.85
513 551 2.749621 GTTTCCTTCCCTACGACTACGA 59.250 50.000 0.00 0.00 42.66 3.43
514 552 2.476854 CGTTTCCTTCCCTACGACTACG 60.477 54.545 0.00 0.00 45.75 3.51
515 553 2.749621 TCGTTTCCTTCCCTACGACTAC 59.250 50.000 0.00 0.00 38.02 2.73
516 554 3.012518 CTCGTTTCCTTCCCTACGACTA 58.987 50.000 0.00 0.00 38.02 2.59
517 555 1.817447 CTCGTTTCCTTCCCTACGACT 59.183 52.381 0.00 0.00 38.02 4.18
518 556 1.815003 TCTCGTTTCCTTCCCTACGAC 59.185 52.381 0.00 0.00 38.02 4.34
519 557 1.815003 GTCTCGTTTCCTTCCCTACGA 59.185 52.381 0.00 0.00 40.32 3.43
520 558 1.467035 CGTCTCGTTTCCTTCCCTACG 60.467 57.143 0.00 0.00 35.46 3.51
521 559 1.815003 TCGTCTCGTTTCCTTCCCTAC 59.185 52.381 0.00 0.00 0.00 3.18
522 560 2.205022 TCGTCTCGTTTCCTTCCCTA 57.795 50.000 0.00 0.00 0.00 3.53
580 618 5.060446 GTGCAGGTGAAAATGCGTTATTAAC 59.940 40.000 0.00 0.00 45.54 2.01
590 628 6.449698 AGATTTTACTGTGCAGGTGAAAATG 58.550 36.000 17.95 0.00 33.49 2.32
591 629 6.655078 AGATTTTACTGTGCAGGTGAAAAT 57.345 33.333 15.23 15.23 34.74 1.82
592 630 6.293190 CGTAGATTTTACTGTGCAGGTGAAAA 60.293 38.462 11.65 7.51 0.00 2.29
594 632 4.688879 CGTAGATTTTACTGTGCAGGTGAA 59.311 41.667 4.11 0.00 0.00 3.18
595 633 4.242475 CGTAGATTTTACTGTGCAGGTGA 58.758 43.478 4.11 0.00 0.00 4.02
596 634 3.994392 ACGTAGATTTTACTGTGCAGGTG 59.006 43.478 4.11 0.00 0.00 4.00
599 637 4.091509 GTCCACGTAGATTTTACTGTGCAG 59.908 45.833 0.00 0.00 0.00 4.41
600 638 3.991773 GTCCACGTAGATTTTACTGTGCA 59.008 43.478 0.00 0.00 0.00 4.57
640 682 4.157656 ACAATAAGGTACTGTACGCGGTAA 59.842 41.667 12.47 0.00 40.86 2.85
641 683 3.694072 ACAATAAGGTACTGTACGCGGTA 59.306 43.478 12.47 0.00 40.86 4.02
642 684 2.493278 ACAATAAGGTACTGTACGCGGT 59.507 45.455 12.47 0.00 40.86 5.68
643 685 3.155093 ACAATAAGGTACTGTACGCGG 57.845 47.619 12.47 0.00 40.86 6.46
644 686 5.520022 AAAACAATAAGGTACTGTACGCG 57.480 39.130 3.53 3.53 40.86 6.01
645 687 6.890558 TCAAAAACAATAAGGTACTGTACGC 58.109 36.000 11.52 5.32 40.86 4.42
646 688 7.896274 CGATCAAAAACAATAAGGTACTGTACG 59.104 37.037 11.52 0.00 40.86 3.67
647 689 7.691050 GCGATCAAAAACAATAAGGTACTGTAC 59.309 37.037 9.46 9.46 40.86 2.90
648 690 7.148373 GGCGATCAAAAACAATAAGGTACTGTA 60.148 37.037 0.00 0.00 40.86 2.74
649 691 6.349033 GGCGATCAAAAACAATAAGGTACTGT 60.349 38.462 0.00 0.00 40.86 3.55
650 692 6.027749 GGCGATCAAAAACAATAAGGTACTG 58.972 40.000 0.00 0.00 40.86 2.74
651 693 6.207810 TTGGCGATCAAAAACAATAAGGTACT 59.792 34.615 0.00 0.00 33.30 2.73
652 694 5.945155 TGGCGATCAAAAACAATAAGGTAC 58.055 37.500 0.00 0.00 0.00 3.34
653 695 6.576662 TTGGCGATCAAAAACAATAAGGTA 57.423 33.333 0.00 0.00 31.46 3.08
654 696 5.461032 TTGGCGATCAAAAACAATAAGGT 57.539 34.783 0.00 0.00 31.46 3.50
665 707 5.766150 TTCTTCTTCTTTTGGCGATCAAA 57.234 34.783 0.00 0.00 42.98 2.69
666 708 5.766150 TTTCTTCTTCTTTTGGCGATCAA 57.234 34.783 0.00 0.00 0.00 2.57
667 709 5.519722 GTTTTCTTCTTCTTTTGGCGATCA 58.480 37.500 0.00 0.00 0.00 2.92
668 710 4.613031 CGTTTTCTTCTTCTTTTGGCGATC 59.387 41.667 0.00 0.00 0.00 3.69
818 863 3.913799 TGAAGACCAGTAAATTGGGGAGA 59.086 43.478 0.00 0.00 42.76 3.71
840 886 1.139058 CCAGCGGCCTATTTAGACAGT 59.861 52.381 0.00 0.00 0.00 3.55
841 887 1.412710 TCCAGCGGCCTATTTAGACAG 59.587 52.381 0.00 0.00 0.00 3.51
936 985 2.620886 GCCGGAGCTATATACAGGAGGA 60.621 54.545 5.05 0.00 35.50 3.71
938 987 1.751924 GGCCGGAGCTATATACAGGAG 59.248 57.143 5.05 0.00 39.73 3.69
1320 1372 2.607668 TTATCTGGCAGGCGTCGTCG 62.608 60.000 15.73 0.00 40.37 5.12
1321 1373 1.141019 TTATCTGGCAGGCGTCGTC 59.859 57.895 15.73 0.00 0.00 4.20
1322 1374 1.153628 GTTATCTGGCAGGCGTCGT 60.154 57.895 15.73 0.00 0.00 4.34
1548 1636 1.511850 CAGCGTTCATGTGAAGGACA 58.488 50.000 16.93 0.00 41.07 4.02
1556 1644 1.282570 CAAACCGCAGCGTTCATGT 59.717 52.632 15.05 0.23 0.00 3.21
1783 1871 1.227853 GAGCAACAACAGGACCGGT 60.228 57.895 6.92 6.92 0.00 5.28
1890 1981 2.500229 ACATCGGGGTGTACAAACTTG 58.500 47.619 0.00 0.00 0.00 3.16
1899 1990 0.335361 ACTCCTCTACATCGGGGTGT 59.665 55.000 0.00 0.00 31.34 4.16
1905 1996 0.029567 GTCGCCACTCCTCTACATCG 59.970 60.000 0.00 0.00 0.00 3.84
1930 2021 3.972133 TCACCTTGAAGATGGCAATGAT 58.028 40.909 0.00 0.00 0.00 2.45
1938 2029 7.172190 ACGATGCTTATATTCACCTTGAAGATG 59.828 37.037 6.34 0.00 38.58 2.90
2172 2263 2.159043 GCAGATCATCTCCTTTCCGTCA 60.159 50.000 0.00 0.00 0.00 4.35
2194 2285 4.778143 GAAGGGCCGCACGGATGT 62.778 66.667 14.43 0.00 37.50 3.06
2436 2563 2.864946 CTCTCATGCGTGAAATCCTCAG 59.135 50.000 10.41 0.00 33.60 3.35
2666 2800 3.056393 TGGGTAGACATAAACTGACACCG 60.056 47.826 0.00 0.00 0.00 4.94
2668 2802 5.790593 TCTTGGGTAGACATAAACTGACAC 58.209 41.667 0.00 0.00 0.00 3.67
2669 2803 5.046591 CCTCTTGGGTAGACATAAACTGACA 60.047 44.000 0.00 0.00 0.00 3.58
2670 2804 5.187186 TCCTCTTGGGTAGACATAAACTGAC 59.813 44.000 0.00 0.00 36.25 3.51
2671 2805 5.338632 TCCTCTTGGGTAGACATAAACTGA 58.661 41.667 0.00 0.00 36.25 3.41
2672 2806 5.677319 TCCTCTTGGGTAGACATAAACTG 57.323 43.478 0.00 0.00 36.25 3.16
2673 2807 5.964477 TCATCCTCTTGGGTAGACATAAACT 59.036 40.000 0.00 0.00 36.25 2.66
2691 2825 7.477945 AAAGCTCAAATTTTCTCATCATCCT 57.522 32.000 0.00 0.00 0.00 3.24
2764 2898 3.499406 TGCCAAGCAGAGGGATGT 58.501 55.556 0.00 0.00 33.32 3.06
2781 2915 2.636893 ACTGAATGAACCTGCAGACTCT 59.363 45.455 17.39 0.00 32.86 3.24
2869 3003 2.708325 AGGCAGAGGAATGTAGAATCCC 59.292 50.000 0.00 0.00 36.31 3.85
2913 3047 5.995897 GGTGGTCTACTTGATGTTGTTTAGT 59.004 40.000 0.00 0.00 0.00 2.24
2914 3048 5.995282 TGGTGGTCTACTTGATGTTGTTTAG 59.005 40.000 0.00 0.00 0.00 1.85
2936 3070 0.657840 GCGTATTACCTTGCTGCTGG 59.342 55.000 0.00 5.96 0.00 4.85
2937 3071 1.368641 TGCGTATTACCTTGCTGCTG 58.631 50.000 0.00 0.00 0.00 4.41
2938 3072 2.332063 ATGCGTATTACCTTGCTGCT 57.668 45.000 0.00 0.00 0.00 4.24
2954 3088 7.864379 CCCATGAAGTTATAATGACAAGAATGC 59.136 37.037 0.00 0.00 0.00 3.56
3100 3234 7.608153 TGTGAAAATCGATGAGGACTAGTTTA 58.392 34.615 0.00 0.00 0.00 2.01
3115 3483 6.542852 ACAATATCTTCCGTTGTGAAAATCG 58.457 36.000 0.00 0.00 34.98 3.34
3211 3579 6.258899 GCCTAACTAGAGCTTTACAAAATGC 58.741 40.000 0.00 0.00 36.32 3.56
3212 3580 6.456988 CCGCCTAACTAGAGCTTTACAAAATG 60.457 42.308 0.00 0.00 0.00 2.32
3213 3581 5.585047 CCGCCTAACTAGAGCTTTACAAAAT 59.415 40.000 0.00 0.00 0.00 1.82
3215 3583 4.501071 CCGCCTAACTAGAGCTTTACAAA 58.499 43.478 0.00 0.00 0.00 2.83
3216 3584 3.677976 GCCGCCTAACTAGAGCTTTACAA 60.678 47.826 0.00 0.00 0.00 2.41
3217 3585 2.159142 GCCGCCTAACTAGAGCTTTACA 60.159 50.000 0.00 0.00 0.00 2.41
3218 3586 2.101082 AGCCGCCTAACTAGAGCTTTAC 59.899 50.000 0.00 0.00 0.00 2.01
3219 3587 2.100916 CAGCCGCCTAACTAGAGCTTTA 59.899 50.000 0.00 0.00 0.00 1.85
3222 3590 0.395862 TCAGCCGCCTAACTAGAGCT 60.396 55.000 0.00 0.00 0.00 4.09
3223 3591 0.676736 ATCAGCCGCCTAACTAGAGC 59.323 55.000 0.00 0.00 0.00 4.09
3224 3592 2.885266 TGTATCAGCCGCCTAACTAGAG 59.115 50.000 0.00 0.00 0.00 2.43
3226 3594 3.728076 TTGTATCAGCCGCCTAACTAG 57.272 47.619 0.00 0.00 0.00 2.57
3227 3595 4.475051 TTTTGTATCAGCCGCCTAACTA 57.525 40.909 0.00 0.00 0.00 2.24
3228 3596 3.343941 TTTTGTATCAGCCGCCTAACT 57.656 42.857 0.00 0.00 0.00 2.24
3229 3597 3.877508 AGATTTTGTATCAGCCGCCTAAC 59.122 43.478 0.00 0.00 0.00 2.34
3231 3599 3.133901 TGAGATTTTGTATCAGCCGCCTA 59.866 43.478 0.00 0.00 0.00 3.93
3232 3600 2.092968 TGAGATTTTGTATCAGCCGCCT 60.093 45.455 0.00 0.00 0.00 5.52
3233 3601 2.288666 TGAGATTTTGTATCAGCCGCC 58.711 47.619 0.00 0.00 0.00 6.13
3234 3602 3.198068 TCTGAGATTTTGTATCAGCCGC 58.802 45.455 0.00 0.00 44.10 6.53
3236 3604 7.994194 AGAAATTCTGAGATTTTGTATCAGCC 58.006 34.615 7.02 0.00 44.10 4.85
3239 3607 8.820933 CGCTAGAAATTCTGAGATTTTGTATCA 58.179 33.333 5.64 0.00 29.75 2.15
3240 3608 9.035607 TCGCTAGAAATTCTGAGATTTTGTATC 57.964 33.333 5.64 3.31 29.75 2.24
3241 3609 8.948631 TCGCTAGAAATTCTGAGATTTTGTAT 57.051 30.769 5.64 0.00 29.75 2.29
3242 3610 8.771920 TTCGCTAGAAATTCTGAGATTTTGTA 57.228 30.769 5.64 6.75 32.65 2.41
3243 3611 7.672983 TTCGCTAGAAATTCTGAGATTTTGT 57.327 32.000 5.64 5.99 32.65 2.83
3247 3615 9.606631 ACTTAATTCGCTAGAAATTCTGAGATT 57.393 29.630 5.64 2.35 40.15 2.40
3258 3626 8.780846 TGTTCCAAATACTTAATTCGCTAGAA 57.219 30.769 0.00 0.00 41.13 2.10
3259 3627 8.255206 TCTGTTCCAAATACTTAATTCGCTAGA 58.745 33.333 0.00 0.00 0.00 2.43
3260 3628 8.420374 TCTGTTCCAAATACTTAATTCGCTAG 57.580 34.615 0.00 0.00 0.00 3.42
3262 3630 7.390718 ACTTCTGTTCCAAATACTTAATTCGCT 59.609 33.333 0.00 0.00 0.00 4.93
3263 3631 7.527457 ACTTCTGTTCCAAATACTTAATTCGC 58.473 34.615 0.00 0.00 0.00 4.70
3264 3632 9.893305 AAACTTCTGTTCCAAATACTTAATTCG 57.107 29.630 0.00 0.00 34.96 3.34
3295 3663 8.862325 TCAAGAATGGTCAGTAAAATACACAT 57.138 30.769 0.00 0.00 0.00 3.21
3296 3664 7.094805 GCTCAAGAATGGTCAGTAAAATACACA 60.095 37.037 0.00 0.00 0.00 3.72
3298 3666 7.119699 CAGCTCAAGAATGGTCAGTAAAATACA 59.880 37.037 0.00 0.00 0.00 2.29
3299 3667 7.334421 TCAGCTCAAGAATGGTCAGTAAAATAC 59.666 37.037 0.00 0.00 0.00 1.89
3301 3669 6.240894 TCAGCTCAAGAATGGTCAGTAAAAT 58.759 36.000 0.00 0.00 0.00 1.82
3304 3672 4.890158 TCAGCTCAAGAATGGTCAGTAA 57.110 40.909 0.00 0.00 0.00 2.24
3307 3675 4.518211 ACTTTTCAGCTCAAGAATGGTCAG 59.482 41.667 4.22 0.00 0.00 3.51
3309 3677 4.276926 ACACTTTTCAGCTCAAGAATGGTC 59.723 41.667 4.22 0.00 0.00 4.02
3310 3678 4.210331 ACACTTTTCAGCTCAAGAATGGT 58.790 39.130 4.22 0.00 0.00 3.55
3311 3679 4.843220 ACACTTTTCAGCTCAAGAATGG 57.157 40.909 4.22 0.00 0.00 3.16
3312 3680 6.307318 GCATTACACTTTTCAGCTCAAGAATG 59.693 38.462 4.22 5.21 0.00 2.67
3313 3681 6.385033 GCATTACACTTTTCAGCTCAAGAAT 58.615 36.000 4.22 0.00 0.00 2.40
3314 3682 5.278463 GGCATTACACTTTTCAGCTCAAGAA 60.278 40.000 4.22 0.00 0.00 2.52
3316 3684 4.022935 TGGCATTACACTTTTCAGCTCAAG 60.023 41.667 0.00 0.00 0.00 3.02
3317 3685 3.888323 TGGCATTACACTTTTCAGCTCAA 59.112 39.130 0.00 0.00 0.00 3.02
3319 3687 3.119708 CCTGGCATTACACTTTTCAGCTC 60.120 47.826 0.00 0.00 0.00 4.09
3320 3688 2.821969 CCTGGCATTACACTTTTCAGCT 59.178 45.455 0.00 0.00 0.00 4.24
3321 3689 2.672195 GCCTGGCATTACACTTTTCAGC 60.672 50.000 15.17 0.00 0.00 4.26
3322 3690 2.557924 TGCCTGGCATTACACTTTTCAG 59.442 45.455 19.30 0.00 31.71 3.02
3323 3691 2.591923 TGCCTGGCATTACACTTTTCA 58.408 42.857 19.30 0.00 31.71 2.69
3324 3692 3.317150 GTTGCCTGGCATTACACTTTTC 58.683 45.455 24.03 0.00 38.76 2.29
3325 3693 2.288152 CGTTGCCTGGCATTACACTTTT 60.288 45.455 24.03 0.00 38.76 2.27
3328 3696 0.036164 TCGTTGCCTGGCATTACACT 59.964 50.000 24.03 0.00 38.76 3.55
3329 3697 1.094785 ATCGTTGCCTGGCATTACAC 58.905 50.000 24.03 16.36 38.76 2.90
3331 3699 2.285083 TGTATCGTTGCCTGGCATTAC 58.715 47.619 24.03 17.50 38.76 1.89
3332 3700 2.700722 TGTATCGTTGCCTGGCATTA 57.299 45.000 24.03 11.32 38.76 1.90
3333 3701 1.677576 CATGTATCGTTGCCTGGCATT 59.322 47.619 24.03 10.40 38.76 3.56
3334 3702 1.134128 TCATGTATCGTTGCCTGGCAT 60.134 47.619 24.03 10.19 38.76 4.40
3335 3703 0.251634 TCATGTATCGTTGCCTGGCA 59.748 50.000 19.30 19.30 36.47 4.92
3336 3704 1.378531 TTCATGTATCGTTGCCTGGC 58.621 50.000 12.87 12.87 0.00 4.85
3337 3705 5.469760 TCATAATTCATGTATCGTTGCCTGG 59.530 40.000 0.00 0.00 35.96 4.45
3338 3706 6.544038 TCATAATTCATGTATCGTTGCCTG 57.456 37.500 0.00 0.00 35.96 4.85
3339 3707 7.118825 CAGATCATAATTCATGTATCGTTGCCT 59.881 37.037 0.00 0.00 35.96 4.75
3340 3708 7.118245 TCAGATCATAATTCATGTATCGTTGCC 59.882 37.037 0.00 0.00 35.96 4.52
3341 3709 8.021955 TCAGATCATAATTCATGTATCGTTGC 57.978 34.615 0.00 0.00 35.96 4.17
3342 3710 9.968743 CATCAGATCATAATTCATGTATCGTTG 57.031 33.333 0.00 0.00 35.96 4.10
3343 3711 9.716531 ACATCAGATCATAATTCATGTATCGTT 57.283 29.630 0.00 0.00 35.96 3.85
3344 3712 9.716531 AACATCAGATCATAATTCATGTATCGT 57.283 29.630 0.00 0.00 35.96 3.73
3373 3741 4.943705 ACATCCACAATCCAGTGTAATCAC 59.056 41.667 0.00 0.00 44.15 3.06
3374 3742 4.943093 CACATCCACAATCCAGTGTAATCA 59.057 41.667 0.00 0.00 37.82 2.57
3375 3743 4.943705 ACACATCCACAATCCAGTGTAATC 59.056 41.667 0.00 0.00 38.32 1.75
3376 3744 4.922206 ACACATCCACAATCCAGTGTAAT 58.078 39.130 0.00 0.00 38.32 1.89
3377 3745 4.365514 ACACATCCACAATCCAGTGTAA 57.634 40.909 0.00 0.00 38.32 2.41
3378 3746 4.365514 AACACATCCACAATCCAGTGTA 57.634 40.909 0.00 0.00 39.07 2.90
3379 3747 2.957402 ACACATCCACAATCCAGTGT 57.043 45.000 0.00 0.00 37.82 3.55
3380 3748 3.305539 CCAAACACATCCACAATCCAGTG 60.306 47.826 0.00 0.00 39.21 3.66
3381 3749 2.892852 CCAAACACATCCACAATCCAGT 59.107 45.455 0.00 0.00 0.00 4.00
3382 3750 2.892852 ACCAAACACATCCACAATCCAG 59.107 45.455 0.00 0.00 0.00 3.86
3383 3751 2.956132 ACCAAACACATCCACAATCCA 58.044 42.857 0.00 0.00 0.00 3.41
3384 3752 3.554752 CCAACCAAACACATCCACAATCC 60.555 47.826 0.00 0.00 0.00 3.01
3385 3753 3.652274 CCAACCAAACACATCCACAATC 58.348 45.455 0.00 0.00 0.00 2.67
3386 3754 2.224257 GCCAACCAAACACATCCACAAT 60.224 45.455 0.00 0.00 0.00 2.71
3387 3755 1.137872 GCCAACCAAACACATCCACAA 59.862 47.619 0.00 0.00 0.00 3.33
3388 3756 0.749649 GCCAACCAAACACATCCACA 59.250 50.000 0.00 0.00 0.00 4.17
3389 3757 0.318614 CGCCAACCAAACACATCCAC 60.319 55.000 0.00 0.00 0.00 4.02
3390 3758 0.466372 TCGCCAACCAAACACATCCA 60.466 50.000 0.00 0.00 0.00 3.41
3391 3759 0.039527 GTCGCCAACCAAACACATCC 60.040 55.000 0.00 0.00 0.00 3.51
3392 3760 0.665835 TGTCGCCAACCAAACACATC 59.334 50.000 0.00 0.00 0.00 3.06
3393 3761 1.107114 TTGTCGCCAACCAAACACAT 58.893 45.000 0.00 0.00 0.00 3.21
3394 3762 0.171455 GTTGTCGCCAACCAAACACA 59.829 50.000 0.00 0.00 44.25 3.72
3395 3763 2.952273 GTTGTCGCCAACCAAACAC 58.048 52.632 0.00 0.00 44.25 3.32
3403 3771 1.745232 AGTTCTGTTGTTGTCGCCAA 58.255 45.000 0.00 0.00 0.00 4.52
3404 3772 2.479837 CTAGTTCTGTTGTTGTCGCCA 58.520 47.619 0.00 0.00 0.00 5.69
3405 3773 1.798813 CCTAGTTCTGTTGTTGTCGCC 59.201 52.381 0.00 0.00 0.00 5.54
3406 3774 1.798813 CCCTAGTTCTGTTGTTGTCGC 59.201 52.381 0.00 0.00 0.00 5.19
3407 3775 3.380479 TCCCTAGTTCTGTTGTTGTCG 57.620 47.619 0.00 0.00 0.00 4.35
3408 3776 4.448210 TGTTCCCTAGTTCTGTTGTTGTC 58.552 43.478 0.00 0.00 0.00 3.18
3409 3777 4.080526 ACTGTTCCCTAGTTCTGTTGTTGT 60.081 41.667 0.00 0.00 0.00 3.32
3410 3778 4.451900 ACTGTTCCCTAGTTCTGTTGTTG 58.548 43.478 0.00 0.00 0.00 3.33
3411 3779 4.772886 ACTGTTCCCTAGTTCTGTTGTT 57.227 40.909 0.00 0.00 0.00 2.83
3412 3780 4.772886 AACTGTTCCCTAGTTCTGTTGT 57.227 40.909 0.00 0.00 33.28 3.32
3413 3781 6.348540 GCATTAACTGTTCCCTAGTTCTGTTG 60.349 42.308 0.00 0.00 39.06 3.33
3414 3782 5.705905 GCATTAACTGTTCCCTAGTTCTGTT 59.294 40.000 0.00 0.00 39.06 3.16
3415 3783 5.013183 AGCATTAACTGTTCCCTAGTTCTGT 59.987 40.000 0.00 0.00 39.06 3.41
3416 3784 5.491982 AGCATTAACTGTTCCCTAGTTCTG 58.508 41.667 0.00 0.00 39.06 3.02
3417 3785 5.763876 AGCATTAACTGTTCCCTAGTTCT 57.236 39.130 0.00 0.00 39.06 3.01
3418 3786 7.606839 AGTTTAGCATTAACTGTTCCCTAGTTC 59.393 37.037 0.00 0.00 39.06 3.01
3419 3787 7.459234 AGTTTAGCATTAACTGTTCCCTAGTT 58.541 34.615 0.00 0.00 41.06 2.24
3420 3788 7.017319 AGTTTAGCATTAACTGTTCCCTAGT 57.983 36.000 0.00 0.00 34.68 2.57
3421 3789 9.614792 AATAGTTTAGCATTAACTGTTCCCTAG 57.385 33.333 0.00 0.00 33.43 3.02
3422 3790 9.391006 CAATAGTTTAGCATTAACTGTTCCCTA 57.609 33.333 0.00 0.00 35.58 3.53
3423 3791 7.148069 GCAATAGTTTAGCATTAACTGTTCCCT 60.148 37.037 0.00 0.00 35.58 4.20
3424 3792 6.972901 GCAATAGTTTAGCATTAACTGTTCCC 59.027 38.462 0.00 0.34 35.58 3.97
3425 3793 7.698130 CAGCAATAGTTTAGCATTAACTGTTCC 59.302 37.037 0.00 0.08 35.58 3.62
3426 3794 8.450964 TCAGCAATAGTTTAGCATTAACTGTTC 58.549 33.333 0.00 3.90 35.58 3.18
3427 3795 8.335532 TCAGCAATAGTTTAGCATTAACTGTT 57.664 30.769 0.00 0.00 37.40 3.16
3428 3796 7.921786 TCAGCAATAGTTTAGCATTAACTGT 57.078 32.000 7.99 0.20 36.56 3.55
3429 3797 7.795734 CGATCAGCAATAGTTTAGCATTAACTG 59.204 37.037 7.99 0.00 36.56 3.16
3430 3798 7.495934 ACGATCAGCAATAGTTTAGCATTAACT 59.504 33.333 0.00 0.00 39.13 2.24
3431 3799 7.584123 CACGATCAGCAATAGTTTAGCATTAAC 59.416 37.037 0.00 0.00 0.00 2.01
3432 3800 7.279981 ACACGATCAGCAATAGTTTAGCATTAA 59.720 33.333 0.00 0.00 0.00 1.40
3433 3801 6.761242 ACACGATCAGCAATAGTTTAGCATTA 59.239 34.615 0.00 0.00 0.00 1.90
3434 3802 5.586243 ACACGATCAGCAATAGTTTAGCATT 59.414 36.000 0.00 0.00 0.00 3.56
3435 3803 5.118990 ACACGATCAGCAATAGTTTAGCAT 58.881 37.500 0.00 0.00 0.00 3.79
3436 3804 4.503910 ACACGATCAGCAATAGTTTAGCA 58.496 39.130 0.00 0.00 0.00 3.49
3437 3805 4.806247 AGACACGATCAGCAATAGTTTAGC 59.194 41.667 0.00 0.00 0.00 3.09
3438 3806 7.987268 TTAGACACGATCAGCAATAGTTTAG 57.013 36.000 0.00 0.00 0.00 1.85


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

AutoCloner maintained by Alex Coulton.