Multiple sequence alignment - TraesCS7A01G205100

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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 TraesCS7A01G205100 chr7A 100.000 3004 0 0 1 3004 167178683 167181686 0.000000e+00 5548.0
1 TraesCS7A01G205100 chr7A 89.899 99 8 2 2710 2807 210779714 210779617 3.140000e-25 126.0
2 TraesCS7A01G205100 chr7D 90.018 2785 132 49 1 2702 165633695 165636416 0.000000e+00 3469.0
3 TraesCS7A01G205100 chr7D 90.598 117 6 1 2893 3004 165636411 165636527 1.870000e-32 150.0
4 TraesCS7A01G205100 chr7B 90.376 2234 135 31 506 2702 128821584 128823774 0.000000e+00 2861.0
5 TraesCS7A01G205100 chr7B 90.041 241 14 5 2 242 128821116 128821346 1.350000e-78 303.0
6 TraesCS7A01G205100 chr7B 94.872 78 4 0 2921 2998 128847883 128847960 4.070000e-24 122.0
7 TraesCS7A01G205100 chr7B 82.677 127 20 2 2710 2835 62817912 62817787 8.800000e-21 111.0
8 TraesCS7A01G205100 chr6D 78.699 615 92 28 991 1591 383745570 383744981 1.020000e-99 374.0
9 TraesCS7A01G205100 chr6D 83.598 378 39 7 1622 1998 157661393 157661748 1.730000e-87 333.0
10 TraesCS7A01G205100 chr6D 86.364 110 14 1 2710 2819 427636567 427636459 5.260000e-23 119.0
11 TraesCS7A01G205100 chr3D 84.987 373 37 7 1629 2001 105197263 105196910 7.920000e-96 361.0
12 TraesCS7A01G205100 chr3D 84.514 381 39 6 1622 2001 105175257 105174896 2.850000e-95 359.0
13 TraesCS7A01G205100 chr3D 84.718 373 39 4 1629 2001 105253028 105252674 1.020000e-94 357.0
14 TraesCS7A01G205100 chr3D 83.690 374 43 4 1628 2001 105280455 105280100 1.330000e-88 337.0
15 TraesCS7A01G205100 chr3D 84.921 126 19 0 2710 2835 563839203 563839078 8.740000e-26 128.0
16 TraesCS7A01G205100 chr5D 83.616 354 38 6 1622 1974 377280378 377280044 6.250000e-82 315.0
17 TraesCS7A01G205100 chr5D 90.909 143 12 1 994 1136 319254265 319254406 1.100000e-44 191.0
18 TraesCS7A01G205100 chr6B 80.170 353 61 7 1243 1593 574021259 574020914 3.840000e-64 255.0
19 TraesCS7A01G205100 chr6B 91.034 145 12 1 999 1143 574021486 574021343 8.500000e-46 195.0
20 TraesCS7A01G205100 chr6A 91.216 148 12 1 991 1138 525992604 525992458 1.830000e-47 200.0
21 TraesCS7A01G205100 chr6A 89.796 147 15 0 1242 1388 525992378 525992232 3.950000e-44 189.0
22 TraesCS7A01G205100 chr6A 88.462 104 12 0 2710 2813 382407889 382407786 3.140000e-25 126.0
23 TraesCS7A01G205100 chr5B 90.909 143 12 1 994 1136 369485433 369485574 1.100000e-44 191.0
24 TraesCS7A01G205100 chr5B 89.831 118 12 0 1470 1587 369485858 369485975 5.190000e-33 152.0
25 TraesCS7A01G205100 chr5A 90.714 140 12 1 997 1136 414934857 414934719 5.110000e-43 185.0
26 TraesCS7A01G205100 chr5A 89.655 116 12 0 1472 1587 414934424 414934309 6.710000e-32 148.0
27 TraesCS7A01G205100 chr4A 97.980 99 2 0 996 1094 406202732 406202634 3.980000e-39 172.0
28 TraesCS7A01G205100 chr1D 89.381 113 11 1 2707 2819 482283825 482283714 1.120000e-29 141.0
29 TraesCS7A01G205100 chr1B 86.614 127 15 2 2710 2835 577916134 577916009 4.040000e-29 139.0
30 TraesCS7A01G205100 chr1B 89.623 106 7 3 2710 2813 54130791 54130688 6.760000e-27 132.0
31 TraesCS7A01G205100 chr2D 91.000 100 9 0 2710 2809 76865059 76864960 5.220000e-28 135.0
32 TraesCS7A01G205100 chr2D 82.171 129 17 6 1254 1379 101872854 101872729 4.100000e-19 106.0
33 TraesCS7A01G205100 chr2D 90.566 53 5 0 1254 1306 101956591 101956539 1.490000e-08 71.3
34 TraesCS7A01G205100 chr2A 84.034 119 17 2 1471 1588 696316041 696316158 2.450000e-21 113.0
35 TraesCS7A01G205100 chr2A 82.171 129 17 5 1254 1379 100826055 100825930 4.100000e-19 106.0
36 TraesCS7A01G205100 chr2A 79.245 106 19 3 1254 1359 100971516 100971414 1.490000e-08 71.3
37 TraesCS7A01G205100 chr2B 81.395 129 18 5 1254 1379 152844327 152844202 1.910000e-17 100.0
38 TraesCS7A01G205100 chr2B 95.455 44 2 0 1254 1297 153126803 153126760 1.490000e-08 71.3


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 TraesCS7A01G205100 chr7A 167178683 167181686 3003 False 5548.0 5548 100.0000 1 3004 1 chr7A.!!$F1 3003
1 TraesCS7A01G205100 chr7D 165633695 165636527 2832 False 1809.5 3469 90.3080 1 3004 2 chr7D.!!$F1 3003
2 TraesCS7A01G205100 chr7B 128821116 128823774 2658 False 1582.0 2861 90.2085 2 2702 2 chr7B.!!$F2 2700
3 TraesCS7A01G205100 chr6D 383744981 383745570 589 True 374.0 374 78.6990 991 1591 1 chr6D.!!$R1 600
4 TraesCS7A01G205100 chr6B 574020914 574021486 572 True 225.0 255 85.6020 999 1593 2 chr6B.!!$R1 594

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
821 909 0.047176 TCTCTCTCTCCCTCCCTCCT 59.953 60.0 0.0 0.0 0.0 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2259 2416 0.318762 GGATCGATACAGACCAGCCC 59.681 60.0 1.67 0.0 0.0 5.19 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
55 56 0.681733 ACGTGACTTCACCAGATGCT 59.318 50.000 3.77 0.00 43.66 3.79
56 57 1.893137 ACGTGACTTCACCAGATGCTA 59.107 47.619 3.77 0.00 43.66 3.49
57 58 2.094494 ACGTGACTTCACCAGATGCTAG 60.094 50.000 3.77 0.00 43.66 3.42
128 129 1.302285 CACCTCCTGCTGCCATCTT 59.698 57.895 0.00 0.00 0.00 2.40
129 130 0.543277 CACCTCCTGCTGCCATCTTA 59.457 55.000 0.00 0.00 0.00 2.10
191 192 2.171489 GACCGCCGTGCTTCTGTTTC 62.171 60.000 0.00 0.00 0.00 2.78
331 383 7.201830 CCCTAGAATTCTCGTTGACATTCTCTA 60.202 40.741 12.24 0.00 35.81 2.43
332 384 7.860373 CCTAGAATTCTCGTTGACATTCTCTAG 59.140 40.741 12.24 0.00 35.81 2.43
333 385 6.039616 AGAATTCTCGTTGACATTCTCTAGC 58.960 40.000 0.88 0.00 32.43 3.42
334 386 4.783764 TTCTCGTTGACATTCTCTAGCA 57.216 40.909 0.00 0.00 0.00 3.49
335 387 4.362932 TCTCGTTGACATTCTCTAGCAG 57.637 45.455 0.00 0.00 0.00 4.24
336 388 3.759086 TCTCGTTGACATTCTCTAGCAGT 59.241 43.478 0.00 0.00 0.00 4.40
337 389 4.098055 TCGTTGACATTCTCTAGCAGTC 57.902 45.455 0.00 0.00 0.00 3.51
341 393 3.027412 TGACATTCTCTAGCAGTCCTCC 58.973 50.000 0.00 0.00 0.00 4.30
343 395 2.023501 ACATTCTCTAGCAGTCCTCCCT 60.024 50.000 0.00 0.00 0.00 4.20
344 396 2.151502 TTCTCTAGCAGTCCTCCCTG 57.848 55.000 0.00 0.00 35.49 4.45
345 397 0.260230 TCTCTAGCAGTCCTCCCTGG 59.740 60.000 0.00 0.00 32.92 4.45
346 398 0.260230 CTCTAGCAGTCCTCCCTGGA 59.740 60.000 0.00 0.00 43.86 3.86
370 423 4.698201 AGAGGGGAGCTTAATTAAGAGC 57.302 45.455 26.00 14.20 39.17 4.09
371 424 3.392947 AGAGGGGAGCTTAATTAAGAGCC 59.607 47.826 26.00 22.72 39.71 4.70
373 426 2.158798 GGGGAGCTTAATTAAGAGCCGT 60.159 50.000 26.00 6.76 39.71 5.68
383 445 2.623878 TAAGAGCCGTGTTTTGACCA 57.376 45.000 0.00 0.00 0.00 4.02
410 472 2.661537 GGCTTGCCGGCACAAAAC 60.662 61.111 32.95 16.52 38.25 2.43
411 473 2.105930 GCTTGCCGGCACAAAACA 59.894 55.556 32.95 13.16 0.00 2.83
413 475 1.086634 GCTTGCCGGCACAAAACAAA 61.087 50.000 32.95 11.39 0.00 2.83
414 476 1.363744 CTTGCCGGCACAAAACAAAA 58.636 45.000 32.95 10.51 0.00 2.44
416 478 0.460987 TGCCGGCACAAAACAAAAGG 60.461 50.000 29.03 0.00 0.00 3.11
417 479 0.179097 GCCGGCACAAAACAAAAGGA 60.179 50.000 24.80 0.00 0.00 3.36
418 480 1.851658 CCGGCACAAAACAAAAGGAG 58.148 50.000 0.00 0.00 0.00 3.69
419 481 1.208259 CGGCACAAAACAAAAGGAGC 58.792 50.000 0.00 0.00 0.00 4.70
420 482 1.208259 GGCACAAAACAAAAGGAGCG 58.792 50.000 0.00 0.00 0.00 5.03
421 483 1.202359 GGCACAAAACAAAAGGAGCGA 60.202 47.619 0.00 0.00 0.00 4.93
422 484 1.852280 GCACAAAACAAAAGGAGCGAC 59.148 47.619 0.00 0.00 0.00 5.19
447 509 4.312231 GCTGCGAGCGTGCAACAA 62.312 61.111 7.32 0.00 45.74 2.83
450 512 2.252260 GCGAGCGTGCAACAATGT 59.748 55.556 0.00 0.00 35.74 2.71
462 524 3.002102 GCAACAATGTATGGGGCAAAAG 58.998 45.455 0.00 0.00 33.79 2.27
465 527 3.099141 ACAATGTATGGGGCAAAAGGAG 58.901 45.455 0.00 0.00 0.00 3.69
468 530 3.534357 TGTATGGGGCAAAAGGAGAAA 57.466 42.857 0.00 0.00 0.00 2.52
470 532 3.576550 TGTATGGGGCAAAAGGAGAAAAC 59.423 43.478 0.00 0.00 0.00 2.43
492 555 6.839124 ACAATGCAGGATGAAGTTTTGATA 57.161 33.333 0.00 0.00 39.69 2.15
494 557 7.669427 ACAATGCAGGATGAAGTTTTGATAAA 58.331 30.769 0.00 0.00 39.69 1.40
495 558 8.149647 ACAATGCAGGATGAAGTTTTGATAAAA 58.850 29.630 0.00 0.00 39.69 1.52
496 559 8.991026 CAATGCAGGATGAAGTTTTGATAAAAA 58.009 29.630 0.00 0.00 39.69 1.94
529 600 9.468532 GCCTTTAGCTCTTTATATGGAATTTTG 57.531 33.333 0.00 0.00 38.99 2.44
548 619 5.948742 TTTGTGGGGAAGAGAAAAATGTT 57.051 34.783 0.00 0.00 0.00 2.71
552 623 5.660864 TGTGGGGAAGAGAAAAATGTTTTCT 59.339 36.000 14.23 14.23 41.08 2.52
554 625 5.070313 TGGGGAAGAGAAAAATGTTTTCTGG 59.930 40.000 18.15 0.00 38.73 3.86
555 626 5.511373 GGGGAAGAGAAAAATGTTTTCTGGG 60.511 44.000 18.15 0.00 38.73 4.45
556 627 4.991056 GGAAGAGAAAAATGTTTTCTGGGC 59.009 41.667 18.15 6.62 38.73 5.36
557 628 5.221521 GGAAGAGAAAAATGTTTTCTGGGCT 60.222 40.000 18.15 8.46 38.73 5.19
558 629 5.876651 AGAGAAAAATGTTTTCTGGGCTT 57.123 34.783 18.15 0.00 38.73 4.35
559 630 5.604565 AGAGAAAAATGTTTTCTGGGCTTG 58.395 37.500 18.15 0.00 38.73 4.01
560 631 5.363580 AGAGAAAAATGTTTTCTGGGCTTGA 59.636 36.000 18.15 0.00 38.73 3.02
561 632 5.604565 AGAAAAATGTTTTCTGGGCTTGAG 58.395 37.500 13.70 0.00 37.37 3.02
603 674 2.944349 TGGAGCGACGTACATACATACA 59.056 45.455 0.00 0.00 0.00 2.29
604 675 3.566742 TGGAGCGACGTACATACATACAT 59.433 43.478 0.00 0.00 0.00 2.29
605 676 4.756135 TGGAGCGACGTACATACATACATA 59.244 41.667 0.00 0.00 0.00 2.29
606 677 5.084722 GGAGCGACGTACATACATACATAC 58.915 45.833 0.00 0.00 0.00 2.39
666 753 2.826128 AGCAGTGAACATAGTCGAGGAA 59.174 45.455 0.00 0.00 0.00 3.36
753 841 0.601558 GAGAAGGGCTCACACGTACA 59.398 55.000 0.00 0.00 43.38 2.90
774 862 2.364317 CTCCCGGCCCTCTCTTCA 60.364 66.667 0.00 0.00 0.00 3.02
818 906 0.917333 ACGTCTCTCTCTCCCTCCCT 60.917 60.000 0.00 0.00 0.00 4.20
819 907 0.179029 CGTCTCTCTCTCCCTCCCTC 60.179 65.000 0.00 0.00 0.00 4.30
820 908 0.185175 GTCTCTCTCTCCCTCCCTCC 59.815 65.000 0.00 0.00 0.00 4.30
821 909 0.047176 TCTCTCTCTCCCTCCCTCCT 59.953 60.000 0.00 0.00 0.00 3.69
853 941 1.000646 GACTGACCCTCCTCCGTCT 60.001 63.158 0.00 0.00 0.00 4.18
854 942 0.255318 GACTGACCCTCCTCCGTCTA 59.745 60.000 0.00 0.00 0.00 2.59
863 951 4.466726 ACCCTCCTCCGTCTATATAAATGC 59.533 45.833 0.00 0.00 0.00 3.56
869 957 5.073311 TCCGTCTATATAAATGCAGCTCC 57.927 43.478 0.00 0.00 0.00 4.70
893 981 2.301870 TGCACCGATCTTACTTGGAACT 59.698 45.455 0.00 0.00 0.00 3.01
894 982 2.930682 GCACCGATCTTACTTGGAACTC 59.069 50.000 0.00 0.00 0.00 3.01
905 993 1.345741 CTTGGAACTCAGACAGGCAGA 59.654 52.381 0.00 0.00 0.00 4.26
928 1024 2.916556 CGTCACACACACAGTCGCG 61.917 63.158 0.00 0.00 0.00 5.87
954 1050 3.480133 CGGCTCCCGGAATTCCCT 61.480 66.667 19.01 0.00 44.15 4.20
990 1086 1.663074 GATCGAGCCATCACTCCGC 60.663 63.158 0.00 0.00 32.79 5.54
1319 1419 3.081409 GACCTCAAGCGGGGGCTA 61.081 66.667 0.00 0.00 0.00 3.93
1397 1501 0.447011 GCGTGTCTAGTGTAGCTCGT 59.553 55.000 0.00 0.00 0.00 4.18
1414 1518 4.215613 AGCTCGTGTTTTAATTTGGAGTCC 59.784 41.667 0.73 0.73 0.00 3.85
1418 1522 2.559231 TGTTTTAATTTGGAGTCCCGGC 59.441 45.455 6.74 0.00 34.29 6.13
1625 1747 2.311854 CCCTCCTCCCCTGCAACAT 61.312 63.158 0.00 0.00 0.00 2.71
1697 1822 1.447489 CTCACAGCAAGCGGAGGAG 60.447 63.158 0.00 2.30 0.00 3.69
1799 1924 2.060383 CCCTGCCTCGGTCATCTCA 61.060 63.158 0.00 0.00 0.00 3.27
2074 2199 2.278857 CGCCAGTTCGATCTCCCG 60.279 66.667 0.00 0.00 0.00 5.14
2076 2201 1.218316 GCCAGTTCGATCTCCCGTT 59.782 57.895 0.00 0.00 0.00 4.44
2112 2245 3.431486 GCTAGCAGCTTAGTTCCATGTCT 60.431 47.826 10.63 0.00 38.45 3.41
2113 2246 2.983229 AGCAGCTTAGTTCCATGTCTG 58.017 47.619 0.00 0.00 0.00 3.51
2128 2261 2.355197 TGTCTGAATGTTACCGCCATG 58.645 47.619 0.00 0.00 0.00 3.66
2221 2366 6.609237 TTGCTGAATGAATCTCGATAAAGG 57.391 37.500 0.00 0.00 0.00 3.11
2225 2370 6.703607 GCTGAATGAATCTCGATAAAGGAAGA 59.296 38.462 0.00 0.00 0.00 2.87
2245 2402 1.080298 GAAATCCCGACGACCGTGT 60.080 57.895 0.00 0.00 36.31 4.49
2259 2416 1.131218 CGTGTTGTGATGCGAGCAG 59.869 57.895 3.58 0.00 0.00 4.24
2289 2446 2.880268 TGTATCGATCCGAACGTGGTAT 59.120 45.455 0.00 0.00 39.99 2.73
2290 2447 2.417339 ATCGATCCGAACGTGGTATG 57.583 50.000 0.00 0.00 39.99 2.39
2291 2448 0.248743 TCGATCCGAACGTGGTATGC 60.249 55.000 0.00 0.00 31.06 3.14
2292 2449 1.537289 CGATCCGAACGTGGTATGCG 61.537 60.000 0.00 0.00 0.00 4.73
2345 2502 4.389576 GCAAACTGCCGGCGTGAG 62.390 66.667 23.90 16.69 37.42 3.51
2403 2560 0.040067 GCGGTGCAGGAGACTTTTTG 60.040 55.000 0.00 0.00 40.21 2.44
2414 2571 3.067833 GAGACTTTTTGGGTCCGAGAAG 58.932 50.000 6.11 6.11 34.56 2.85
2490 2647 2.362077 GCTTCTTTGACCTTCTTGGCAA 59.638 45.455 0.00 0.00 40.22 4.52
2491 2648 3.551659 GCTTCTTTGACCTTCTTGGCAAG 60.552 47.826 21.17 21.17 40.22 4.01
2492 2649 1.956477 TCTTTGACCTTCTTGGCAAGC 59.044 47.619 22.31 8.51 40.22 4.01
2493 2650 1.682854 CTTTGACCTTCTTGGCAAGCA 59.317 47.619 22.31 11.11 40.22 3.91
2494 2651 1.999648 TTGACCTTCTTGGCAAGCAT 58.000 45.000 22.31 7.18 40.22 3.79
2560 2717 2.933573 TGTTCACCCCGTTTGTTATGT 58.066 42.857 0.00 0.00 0.00 2.29
2561 2718 4.082665 TGTTCACCCCGTTTGTTATGTA 57.917 40.909 0.00 0.00 0.00 2.29
2562 2719 4.653868 TGTTCACCCCGTTTGTTATGTAT 58.346 39.130 0.00 0.00 0.00 2.29
2563 2720 4.456222 TGTTCACCCCGTTTGTTATGTATG 59.544 41.667 0.00 0.00 0.00 2.39
2570 2727 4.394920 CCCGTTTGTTATGTATGCTCAACT 59.605 41.667 0.00 0.00 0.00 3.16
2614 2776 1.689233 ATCCTTGCTAGCCACCGGA 60.689 57.895 9.46 12.51 0.00 5.14
2639 2803 3.254903 TGCATACAGACACGAACAGTAGT 59.745 43.478 0.00 0.00 0.00 2.73
2650 2814 2.662700 GAACAGTAGTGAGACCACACG 58.337 52.381 4.09 0.00 45.54 4.49
2651 2815 1.977056 ACAGTAGTGAGACCACACGA 58.023 50.000 4.09 0.00 45.54 4.35
2652 2816 1.880675 ACAGTAGTGAGACCACACGAG 59.119 52.381 4.09 0.00 45.54 4.18
2653 2817 2.152016 CAGTAGTGAGACCACACGAGA 58.848 52.381 0.00 0.00 45.54 4.04
2702 2866 2.426522 CAAGTCGAGCAAGGGAAATGA 58.573 47.619 0.00 0.00 0.00 2.57
2703 2867 3.012518 CAAGTCGAGCAAGGGAAATGAT 58.987 45.455 0.00 0.00 0.00 2.45
2704 2868 4.191544 CAAGTCGAGCAAGGGAAATGATA 58.808 43.478 0.00 0.00 0.00 2.15
2705 2869 4.065321 AGTCGAGCAAGGGAAATGATAG 57.935 45.455 0.00 0.00 0.00 2.08
2706 2870 3.706594 AGTCGAGCAAGGGAAATGATAGA 59.293 43.478 0.00 0.00 0.00 1.98
2707 2871 4.054671 GTCGAGCAAGGGAAATGATAGAG 58.945 47.826 0.00 0.00 0.00 2.43
2708 2872 3.706594 TCGAGCAAGGGAAATGATAGAGT 59.293 43.478 0.00 0.00 0.00 3.24
2709 2873 4.893524 TCGAGCAAGGGAAATGATAGAGTA 59.106 41.667 0.00 0.00 0.00 2.59
2710 2874 5.540337 TCGAGCAAGGGAAATGATAGAGTAT 59.460 40.000 0.00 0.00 0.00 2.12
2711 2875 6.719829 TCGAGCAAGGGAAATGATAGAGTATA 59.280 38.462 0.00 0.00 0.00 1.47
2712 2876 7.232737 TCGAGCAAGGGAAATGATAGAGTATAA 59.767 37.037 0.00 0.00 0.00 0.98
2713 2877 7.872993 CGAGCAAGGGAAATGATAGAGTATAAA 59.127 37.037 0.00 0.00 0.00 1.40
2714 2878 9.561069 GAGCAAGGGAAATGATAGAGTATAAAA 57.439 33.333 0.00 0.00 0.00 1.52
2715 2879 9.343539 AGCAAGGGAAATGATAGAGTATAAAAC 57.656 33.333 0.00 0.00 0.00 2.43
2716 2880 9.343539 GCAAGGGAAATGATAGAGTATAAAACT 57.656 33.333 0.00 0.00 42.80 2.66
2736 2900 8.851106 AAAACTACTACTTTATAGGCTAGGGT 57.149 34.615 0.00 0.00 0.00 4.34
2737 2901 8.851106 AAACTACTACTTTATAGGCTAGGGTT 57.149 34.615 0.00 0.00 0.00 4.11
2738 2902 8.851106 AACTACTACTTTATAGGCTAGGGTTT 57.149 34.615 0.00 0.00 0.00 3.27
2739 2903 8.476064 ACTACTACTTTATAGGCTAGGGTTTC 57.524 38.462 0.00 0.00 0.00 2.78
2740 2904 8.063770 ACTACTACTTTATAGGCTAGGGTTTCA 58.936 37.037 0.00 0.00 0.00 2.69
2741 2905 7.744678 ACTACTTTATAGGCTAGGGTTTCAA 57.255 36.000 0.00 0.00 0.00 2.69
2742 2906 8.154420 ACTACTTTATAGGCTAGGGTTTCAAA 57.846 34.615 0.00 0.00 0.00 2.69
2743 2907 8.608598 ACTACTTTATAGGCTAGGGTTTCAAAA 58.391 33.333 0.00 0.00 0.00 2.44
2744 2908 9.457436 CTACTTTATAGGCTAGGGTTTCAAAAA 57.543 33.333 0.00 0.00 0.00 1.94
2745 2909 8.118976 ACTTTATAGGCTAGGGTTTCAAAAAC 57.881 34.615 0.00 0.00 0.00 2.43
2746 2910 7.948447 ACTTTATAGGCTAGGGTTTCAAAAACT 59.052 33.333 0.00 0.00 0.00 2.66
2747 2911 8.715190 TTTATAGGCTAGGGTTTCAAAAACTT 57.285 30.769 0.00 0.00 0.00 2.66
2748 2912 9.810870 TTTATAGGCTAGGGTTTCAAAAACTTA 57.189 29.630 0.00 0.00 0.00 2.24
2749 2913 9.984590 TTATAGGCTAGGGTTTCAAAAACTTAT 57.015 29.630 0.00 0.00 0.00 1.73
2750 2914 6.835819 AGGCTAGGGTTTCAAAAACTTATC 57.164 37.500 2.90 0.00 0.00 1.75
2751 2915 6.311735 AGGCTAGGGTTTCAAAAACTTATCA 58.688 36.000 2.90 0.00 0.00 2.15
2752 2916 6.434340 AGGCTAGGGTTTCAAAAACTTATCAG 59.566 38.462 2.90 0.00 0.00 2.90
2753 2917 6.208797 GGCTAGGGTTTCAAAAACTTATCAGT 59.791 38.462 2.90 0.00 33.11 3.41
2754 2918 7.255836 GGCTAGGGTTTCAAAAACTTATCAGTT 60.256 37.037 2.90 0.00 45.89 3.16
2786 2950 9.753674 TTTTTCTCAGATAACTATCAAATGGGT 57.246 29.630 0.00 0.00 35.17 4.51
2789 2953 8.783660 TCTCAGATAACTATCAAATGGGTAGT 57.216 34.615 0.00 0.00 35.17 2.73
2790 2954 8.861086 TCTCAGATAACTATCAAATGGGTAGTC 58.139 37.037 0.00 0.00 35.17 2.59
2791 2955 7.658261 TCAGATAACTATCAAATGGGTAGTCG 58.342 38.462 0.00 0.00 35.17 4.18
2792 2956 6.868864 CAGATAACTATCAAATGGGTAGTCGG 59.131 42.308 0.00 0.00 35.17 4.79
2793 2957 3.470645 ACTATCAAATGGGTAGTCGGC 57.529 47.619 0.00 0.00 0.00 5.54
2794 2958 3.039011 ACTATCAAATGGGTAGTCGGCT 58.961 45.455 0.00 0.00 0.00 5.52
2795 2959 2.332063 ATCAAATGGGTAGTCGGCTG 57.668 50.000 0.00 0.00 0.00 4.85
2796 2960 0.981183 TCAAATGGGTAGTCGGCTGT 59.019 50.000 0.00 0.00 0.00 4.40
2797 2961 1.349688 TCAAATGGGTAGTCGGCTGTT 59.650 47.619 0.00 0.00 0.00 3.16
2798 2962 2.159382 CAAATGGGTAGTCGGCTGTTT 58.841 47.619 0.00 0.00 0.00 2.83
2799 2963 2.109425 AATGGGTAGTCGGCTGTTTC 57.891 50.000 0.00 0.00 0.00 2.78
2800 2964 0.981183 ATGGGTAGTCGGCTGTTTCA 59.019 50.000 0.00 0.00 0.00 2.69
2801 2965 0.759959 TGGGTAGTCGGCTGTTTCAA 59.240 50.000 0.00 0.00 0.00 2.69
2802 2966 1.141254 TGGGTAGTCGGCTGTTTCAAA 59.859 47.619 0.00 0.00 0.00 2.69
2803 2967 2.223745 GGGTAGTCGGCTGTTTCAAAA 58.776 47.619 0.00 0.00 0.00 2.44
2804 2968 2.619646 GGGTAGTCGGCTGTTTCAAAAA 59.380 45.455 0.00 0.00 0.00 1.94
2826 2990 8.549338 AAAAACCCAAAATCTTCGTTGTTAAA 57.451 26.923 0.00 0.00 0.00 1.52
2827 2991 8.549338 AAAACCCAAAATCTTCGTTGTTAAAA 57.451 26.923 0.00 0.00 0.00 1.52
2828 2992 8.549338 AAACCCAAAATCTTCGTTGTTAAAAA 57.451 26.923 0.00 0.00 0.00 1.94
2871 3035 9.974980 TTTTTGAAACCTTAGCCTGTAAAATAG 57.025 29.630 0.00 0.00 0.00 1.73
2872 3036 8.700439 TTTGAAACCTTAGCCTGTAAAATAGT 57.300 30.769 0.00 0.00 0.00 2.12
2873 3037 9.796180 TTTGAAACCTTAGCCTGTAAAATAGTA 57.204 29.630 0.00 0.00 0.00 1.82
2874 3038 9.444600 TTGAAACCTTAGCCTGTAAAATAGTAG 57.555 33.333 0.00 0.00 0.00 2.57
2875 3039 7.551617 TGAAACCTTAGCCTGTAAAATAGTAGC 59.448 37.037 0.00 0.00 0.00 3.58
2876 3040 6.809976 ACCTTAGCCTGTAAAATAGTAGCT 57.190 37.500 0.00 0.00 0.00 3.32
2877 3041 7.196637 ACCTTAGCCTGTAAAATAGTAGCTT 57.803 36.000 0.00 0.00 0.00 3.74
2878 3042 7.631007 ACCTTAGCCTGTAAAATAGTAGCTTT 58.369 34.615 0.00 0.00 0.00 3.51
2879 3043 8.107729 ACCTTAGCCTGTAAAATAGTAGCTTTT 58.892 33.333 0.00 0.00 0.00 2.27
2880 3044 8.957466 CCTTAGCCTGTAAAATAGTAGCTTTTT 58.043 33.333 0.00 0.00 0.00 1.94
2881 3045 9.774742 CTTAGCCTGTAAAATAGTAGCTTTTTG 57.225 33.333 0.00 0.00 0.00 2.44
2882 3046 6.621613 AGCCTGTAAAATAGTAGCTTTTTGC 58.378 36.000 0.00 0.00 43.29 3.68
2900 3064 7.966204 GCTTTTTGCTATTTACTCGAAATGGTA 59.034 33.333 0.00 0.00 38.08 3.25
2902 3066 6.578020 TTGCTATTTACTCGAAATGGTACG 57.422 37.500 0.00 0.00 38.08 3.67
2905 3069 6.474427 TGCTATTTACTCGAAATGGTACGAAG 59.526 38.462 0.00 0.00 38.08 3.79
2981 3150 4.560743 TCGTGCTTGGCTGCCACA 62.561 61.111 23.30 14.70 30.78 4.17
2998 3167 1.949525 CACAATATTCTTCGCAGGGGG 59.050 52.381 0.00 0.00 0.00 5.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 2.801077 TCGAGTCATGGGAGTCACTA 57.199 50.000 0.00 0.00 42.55 2.74
12 13 3.244318 CCATCATTGATCGAGTCATGGGA 60.244 47.826 0.00 0.00 36.54 4.37
55 56 6.927381 GGAGTACAGCTTTGTTTGAACTACTA 59.073 38.462 0.00 0.00 0.00 1.82
56 57 5.758784 GGAGTACAGCTTTGTTTGAACTACT 59.241 40.000 0.00 0.00 0.00 2.57
57 58 5.526111 TGGAGTACAGCTTTGTTTGAACTAC 59.474 40.000 0.00 0.00 0.00 2.73
128 129 3.746940 CGTTTCACCCCTCTCCTTTTTA 58.253 45.455 0.00 0.00 0.00 1.52
129 130 2.583143 CGTTTCACCCCTCTCCTTTTT 58.417 47.619 0.00 0.00 0.00 1.94
210 211 2.416547 ACATGAAAATCTTCTCCGCGTG 59.583 45.455 4.92 0.00 32.33 5.34
269 318 2.955660 TGCGACCCTTCACAAAAATCTT 59.044 40.909 0.00 0.00 0.00 2.40
271 320 3.057596 TCATGCGACCCTTCACAAAAATC 60.058 43.478 0.00 0.00 0.00 2.17
272 321 2.890311 TCATGCGACCCTTCACAAAAAT 59.110 40.909 0.00 0.00 0.00 1.82
273 322 2.302260 TCATGCGACCCTTCACAAAAA 58.698 42.857 0.00 0.00 0.00 1.94
274 323 1.974265 TCATGCGACCCTTCACAAAA 58.026 45.000 0.00 0.00 0.00 2.44
341 393 0.701147 AAGCTCCCCTCTTTTCCAGG 59.299 55.000 0.00 0.00 0.00 4.45
343 395 4.675063 AATTAAGCTCCCCTCTTTTCCA 57.325 40.909 0.00 0.00 0.00 3.53
344 396 6.424032 TCTTAATTAAGCTCCCCTCTTTTCC 58.576 40.000 18.68 0.00 33.40 3.13
345 397 6.038825 GCTCTTAATTAAGCTCCCCTCTTTTC 59.961 42.308 18.68 0.00 35.60 2.29
346 398 5.888724 GCTCTTAATTAAGCTCCCCTCTTTT 59.111 40.000 18.68 0.00 35.60 2.27
370 423 1.081509 CGGCATGGTCAAAACACGG 60.082 57.895 0.00 0.00 0.00 4.94
371 424 0.660005 CACGGCATGGTCAAAACACG 60.660 55.000 0.00 0.00 0.00 4.49
373 426 0.665835 GTCACGGCATGGTCAAAACA 59.334 50.000 0.00 0.00 0.00 2.83
410 472 1.205064 CTGCACGTCGCTCCTTTTG 59.795 57.895 10.54 0.00 43.06 2.44
411 473 1.961277 CCTGCACGTCGCTCCTTTT 60.961 57.895 10.54 0.00 43.06 2.27
413 475 4.379243 CCCTGCACGTCGCTCCTT 62.379 66.667 10.54 0.00 43.06 3.36
439 501 0.894141 TGCCCCATACATTGTTGCAC 59.106 50.000 0.00 0.00 0.00 4.57
443 505 3.515104 CTCCTTTTGCCCCATACATTGTT 59.485 43.478 0.00 0.00 0.00 2.83
447 509 3.756082 TTCTCCTTTTGCCCCATACAT 57.244 42.857 0.00 0.00 0.00 2.29
450 512 3.850752 TGTTTTCTCCTTTTGCCCCATA 58.149 40.909 0.00 0.00 0.00 2.74
462 524 4.219288 ACTTCATCCTGCATTGTTTTCTCC 59.781 41.667 0.00 0.00 0.00 3.71
465 527 6.479660 TCAAAACTTCATCCTGCATTGTTTTC 59.520 34.615 0.00 0.00 35.04 2.29
468 530 5.534207 TCAAAACTTCATCCTGCATTGTT 57.466 34.783 0.00 0.00 0.00 2.83
470 532 8.537049 TTTTATCAAAACTTCATCCTGCATTG 57.463 30.769 0.00 0.00 0.00 2.82
501 564 8.946797 AATTCCATATAAAGAGCTAAAGGCAT 57.053 30.769 0.00 0.00 44.79 4.40
503 566 9.468532 CAAAATTCCATATAAAGAGCTAAAGGC 57.531 33.333 0.00 0.00 42.19 4.35
529 600 5.985530 CAGAAAACATTTTTCTCTTCCCCAC 59.014 40.000 10.32 0.00 36.69 4.61
532 603 5.541845 CCCAGAAAACATTTTTCTCTTCCC 58.458 41.667 10.32 0.00 36.69 3.97
548 619 0.473755 TGCACTCTCAAGCCCAGAAA 59.526 50.000 0.00 0.00 0.00 2.52
552 623 1.676635 GCATGCACTCTCAAGCCCA 60.677 57.895 14.21 0.00 0.00 5.36
554 625 0.109412 GTTGCATGCACTCTCAAGCC 60.109 55.000 22.58 0.00 30.38 4.35
555 626 0.453950 CGTTGCATGCACTCTCAAGC 60.454 55.000 22.58 0.00 0.00 4.01
556 627 0.870393 ACGTTGCATGCACTCTCAAG 59.130 50.000 22.58 10.36 0.00 3.02
557 628 0.867746 GACGTTGCATGCACTCTCAA 59.132 50.000 22.58 0.52 0.00 3.02
558 629 0.249826 TGACGTTGCATGCACTCTCA 60.250 50.000 22.58 17.11 0.00 3.27
559 630 0.867746 TTGACGTTGCATGCACTCTC 59.132 50.000 22.58 14.66 0.00 3.20
560 631 0.870393 CTTGACGTTGCATGCACTCT 59.130 50.000 22.58 4.70 0.00 3.24
561 632 0.588252 ACTTGACGTTGCATGCACTC 59.412 50.000 22.58 15.39 0.00 3.51
666 753 0.955428 CAGTAACGCCACCATGCACT 60.955 55.000 0.00 0.00 0.00 4.40
818 906 1.152419 TCAGGTCACGGTGGAAGGA 60.152 57.895 8.50 0.00 0.00 3.36
819 907 1.004918 GTCAGGTCACGGTGGAAGG 60.005 63.158 8.50 0.00 0.00 3.46
820 908 0.319900 CAGTCAGGTCACGGTGGAAG 60.320 60.000 8.50 0.00 0.00 3.46
821 909 0.757561 TCAGTCAGGTCACGGTGGAA 60.758 55.000 8.50 0.00 0.00 3.53
853 941 3.244387 TGCACCGGAGCTGCATTTATATA 60.244 43.478 24.52 0.00 39.76 0.86
854 942 2.154462 GCACCGGAGCTGCATTTATAT 58.846 47.619 17.33 0.00 34.56 0.86
893 981 2.626780 CGACGGTCTGCCTGTCTGA 61.627 63.158 6.57 0.00 36.70 3.27
894 982 2.126307 CGACGGTCTGCCTGTCTG 60.126 66.667 6.57 0.00 36.70 3.51
905 993 1.226859 CTGTGTGTGTGACGACGGT 60.227 57.895 0.00 0.00 0.00 4.83
954 1050 2.947532 CGCTCTGCCCTTCTCACCA 61.948 63.158 0.00 0.00 0.00 4.17
990 1086 2.511452 CCTCCCCATCTGCTACCGG 61.511 68.421 0.00 0.00 0.00 5.28
994 1090 2.446848 GCTGCCTCCCCATCTGCTA 61.447 63.158 0.00 0.00 0.00 3.49
1175 1275 1.828768 GGGAGCAGAGGACTGATGG 59.171 63.158 0.00 0.00 43.07 3.51
1370 1470 1.958579 ACACTAGACACGCACCTGTTA 59.041 47.619 0.00 0.00 0.00 2.41
1397 1501 2.559231 GCCGGGACTCCAAATTAAAACA 59.441 45.455 2.18 0.00 0.00 2.83
1435 1539 3.274586 CATGGTCCATGAGCGCCG 61.275 66.667 25.39 0.00 43.81 6.46
1436 1540 3.589881 GCATGGTCCATGAGCGCC 61.590 66.667 32.16 12.61 43.81 6.53
1502 1624 1.254026 TGATCTCGTTGTCCGTCCTT 58.746 50.000 0.00 0.00 37.94 3.36
1650 1775 4.687215 GTCCAGCTGCTGCCACGA 62.687 66.667 23.86 12.72 40.80 4.35
1673 1798 3.797546 GCTTGCTGTGAGCGCTCC 61.798 66.667 33.23 23.92 46.26 4.70
1682 1807 2.604686 TCCTCCTCCGCTTGCTGT 60.605 61.111 0.00 0.00 0.00 4.40
1697 1822 3.644399 GACCGCCTTCACGTCCTCC 62.644 68.421 0.00 0.00 0.00 4.30
1799 1924 2.363147 GAGGAGGAGCAGGACGGT 60.363 66.667 0.00 0.00 0.00 4.83
2074 2199 0.561680 TAGCTAGGGGAGGGGAGAAC 59.438 60.000 0.00 0.00 0.00 3.01
2076 2201 1.731324 GCTAGCTAGGGGAGGGGAGA 61.731 65.000 22.10 0.00 0.00 3.71
2112 2245 1.034838 GGGCATGGCGGTAACATTCA 61.035 55.000 13.76 0.00 0.00 2.57
2113 2246 1.034838 TGGGCATGGCGGTAACATTC 61.035 55.000 13.76 0.00 0.00 2.67
2128 2261 0.600057 CAAGAAAAGCTCAGGTGGGC 59.400 55.000 0.00 0.00 0.00 5.36
2221 2366 1.471153 GGTCGTCGGGATTTCCTCTTC 60.471 57.143 0.00 0.00 35.95 2.87
2225 2370 1.980772 ACGGTCGTCGGGATTTCCT 60.981 57.895 0.00 0.00 44.45 3.36
2245 2402 2.747460 GCCCTGCTCGCATCACAA 60.747 61.111 0.00 0.00 0.00 3.33
2259 2416 0.318762 GGATCGATACAGACCAGCCC 59.681 60.000 1.67 0.00 0.00 5.19
2292 2449 4.778415 TCGCCAAGAGAGACGCGC 62.778 66.667 5.73 0.00 44.12 6.86
2344 2501 4.969196 CACACCCACGCTGACGCT 62.969 66.667 0.00 0.00 45.53 5.07
2357 2514 1.261619 CAAACTCGGAAGCTGACACAC 59.738 52.381 0.00 0.00 0.00 3.82
2403 2560 3.787001 CAGCCCCTTCTCGGACCC 61.787 72.222 0.00 0.00 33.16 4.46
2429 2586 2.855280 CGCGCGCGTCATGACAATA 61.855 57.895 42.49 0.00 34.35 1.90
2586 2743 4.217550 TGGCTAGCAAGGATGTTGTAAAAC 59.782 41.667 18.24 0.00 0.00 2.43
2614 2776 2.995939 CTGTTCGTGTCTGTATGCACAT 59.004 45.455 0.00 0.00 35.51 3.21
2685 2849 4.054671 CTCTATCATTTCCCTTGCTCGAC 58.945 47.826 0.00 0.00 0.00 4.20
2686 2850 3.706594 ACTCTATCATTTCCCTTGCTCGA 59.293 43.478 0.00 0.00 0.00 4.04
2710 2874 9.942526 ACCCTAGCCTATAAAGTAGTAGTTTTA 57.057 33.333 8.25 0.00 0.00 1.52
2711 2875 8.851106 ACCCTAGCCTATAAAGTAGTAGTTTT 57.149 34.615 8.25 0.00 0.00 2.43
2712 2876 8.851106 AACCCTAGCCTATAAAGTAGTAGTTT 57.149 34.615 8.04 8.04 0.00 2.66
2713 2877 8.851106 AAACCCTAGCCTATAAAGTAGTAGTT 57.149 34.615 0.00 0.00 0.00 2.24
2714 2878 8.063770 TGAAACCCTAGCCTATAAAGTAGTAGT 58.936 37.037 0.00 0.00 0.00 2.73
2715 2879 8.474710 TGAAACCCTAGCCTATAAAGTAGTAG 57.525 38.462 0.00 0.00 0.00 2.57
2716 2880 8.843308 TTGAAACCCTAGCCTATAAAGTAGTA 57.157 34.615 0.00 0.00 0.00 1.82
2717 2881 7.744678 TTGAAACCCTAGCCTATAAAGTAGT 57.255 36.000 0.00 0.00 0.00 2.73
2718 2882 9.457436 TTTTTGAAACCCTAGCCTATAAAGTAG 57.543 33.333 0.00 0.00 0.00 2.57
2719 2883 9.234827 GTTTTTGAAACCCTAGCCTATAAAGTA 57.765 33.333 0.00 0.00 0.00 2.24
2720 2884 7.948447 AGTTTTTGAAACCCTAGCCTATAAAGT 59.052 33.333 0.27 0.00 0.00 2.66
2721 2885 8.349568 AGTTTTTGAAACCCTAGCCTATAAAG 57.650 34.615 0.27 0.00 0.00 1.85
2722 2886 8.715190 AAGTTTTTGAAACCCTAGCCTATAAA 57.285 30.769 0.27 0.00 0.00 1.40
2723 2887 9.984590 ATAAGTTTTTGAAACCCTAGCCTATAA 57.015 29.630 0.27 0.00 0.00 0.98
2724 2888 9.623000 GATAAGTTTTTGAAACCCTAGCCTATA 57.377 33.333 0.27 0.00 0.00 1.31
2725 2889 8.113462 TGATAAGTTTTTGAAACCCTAGCCTAT 58.887 33.333 0.27 0.00 0.00 2.57
2726 2890 7.463431 TGATAAGTTTTTGAAACCCTAGCCTA 58.537 34.615 0.27 0.00 0.00 3.93
2727 2891 6.311735 TGATAAGTTTTTGAAACCCTAGCCT 58.688 36.000 0.27 0.00 0.00 4.58
2728 2892 6.208797 ACTGATAAGTTTTTGAAACCCTAGCC 59.791 38.462 0.27 0.00 0.00 3.93
2729 2893 7.215719 ACTGATAAGTTTTTGAAACCCTAGC 57.784 36.000 0.27 0.00 0.00 3.42
2760 2924 9.753674 ACCCATTTGATAGTTATCTGAGAAAAA 57.246 29.630 0.00 0.00 33.88 1.94
2763 2927 9.213777 ACTACCCATTTGATAGTTATCTGAGAA 57.786 33.333 0.00 0.00 33.88 2.87
2764 2928 8.783660 ACTACCCATTTGATAGTTATCTGAGA 57.216 34.615 1.26 0.00 33.88 3.27
2765 2929 7.810282 CGACTACCCATTTGATAGTTATCTGAG 59.190 40.741 1.26 0.00 33.88 3.35
2766 2930 7.255836 CCGACTACCCATTTGATAGTTATCTGA 60.256 40.741 1.26 0.00 33.88 3.27
2767 2931 6.868864 CCGACTACCCATTTGATAGTTATCTG 59.131 42.308 1.26 0.00 33.88 2.90
2768 2932 6.518537 GCCGACTACCCATTTGATAGTTATCT 60.519 42.308 1.26 0.00 33.88 1.98
2769 2933 5.638234 GCCGACTACCCATTTGATAGTTATC 59.362 44.000 0.00 0.00 29.25 1.75
2770 2934 5.307196 AGCCGACTACCCATTTGATAGTTAT 59.693 40.000 0.00 0.00 29.25 1.89
2771 2935 4.652421 AGCCGACTACCCATTTGATAGTTA 59.348 41.667 0.00 0.00 29.25 2.24
2772 2936 3.454812 AGCCGACTACCCATTTGATAGTT 59.545 43.478 0.00 0.00 29.25 2.24
2773 2937 3.039011 AGCCGACTACCCATTTGATAGT 58.961 45.455 0.00 0.00 31.79 2.12
2774 2938 3.181465 ACAGCCGACTACCCATTTGATAG 60.181 47.826 0.00 0.00 0.00 2.08
2775 2939 2.769663 ACAGCCGACTACCCATTTGATA 59.230 45.455 0.00 0.00 0.00 2.15
2776 2940 1.559682 ACAGCCGACTACCCATTTGAT 59.440 47.619 0.00 0.00 0.00 2.57
2777 2941 0.981183 ACAGCCGACTACCCATTTGA 59.019 50.000 0.00 0.00 0.00 2.69
2778 2942 1.821216 AACAGCCGACTACCCATTTG 58.179 50.000 0.00 0.00 0.00 2.32
2779 2943 2.224670 TGAAACAGCCGACTACCCATTT 60.225 45.455 0.00 0.00 0.00 2.32
2780 2944 1.349688 TGAAACAGCCGACTACCCATT 59.650 47.619 0.00 0.00 0.00 3.16
2781 2945 0.981183 TGAAACAGCCGACTACCCAT 59.019 50.000 0.00 0.00 0.00 4.00
2782 2946 0.759959 TTGAAACAGCCGACTACCCA 59.240 50.000 0.00 0.00 0.00 4.51
2783 2947 1.886886 TTTGAAACAGCCGACTACCC 58.113 50.000 0.00 0.00 0.00 3.69
2784 2948 3.974871 TTTTTGAAACAGCCGACTACC 57.025 42.857 0.00 0.00 0.00 3.18
2801 2965 8.549338 TTTAACAACGAAGATTTTGGGTTTTT 57.451 26.923 0.00 0.00 0.00 1.94
2802 2966 8.549338 TTTTAACAACGAAGATTTTGGGTTTT 57.451 26.923 0.00 0.00 0.00 2.43
2803 2967 8.549338 TTTTTAACAACGAAGATTTTGGGTTT 57.451 26.923 0.00 0.00 0.00 3.27
2845 3009 9.974980 CTATTTTACAGGCTAAGGTTTCAAAAA 57.025 29.630 0.00 0.00 0.00 1.94
2846 3010 9.138596 ACTATTTTACAGGCTAAGGTTTCAAAA 57.861 29.630 0.00 0.00 0.00 2.44
2847 3011 8.700439 ACTATTTTACAGGCTAAGGTTTCAAA 57.300 30.769 0.00 0.00 0.00 2.69
2848 3012 9.444600 CTACTATTTTACAGGCTAAGGTTTCAA 57.555 33.333 0.00 0.00 0.00 2.69
2849 3013 7.551617 GCTACTATTTTACAGGCTAAGGTTTCA 59.448 37.037 0.00 0.00 0.00 2.69
2850 3014 7.769507 AGCTACTATTTTACAGGCTAAGGTTTC 59.230 37.037 0.00 0.00 0.00 2.78
2851 3015 7.631007 AGCTACTATTTTACAGGCTAAGGTTT 58.369 34.615 0.00 0.00 0.00 3.27
2852 3016 7.196637 AGCTACTATTTTACAGGCTAAGGTT 57.803 36.000 0.00 0.00 0.00 3.50
2853 3017 6.809976 AGCTACTATTTTACAGGCTAAGGT 57.190 37.500 0.00 0.00 0.00 3.50
2854 3018 8.507524 AAAAGCTACTATTTTACAGGCTAAGG 57.492 34.615 0.00 0.00 0.00 2.69
2855 3019 9.774742 CAAAAAGCTACTATTTTACAGGCTAAG 57.225 33.333 0.00 0.00 29.93 2.18
2856 3020 8.241367 GCAAAAAGCTACTATTTTACAGGCTAA 58.759 33.333 0.00 0.00 41.15 3.09
2857 3021 7.758495 GCAAAAAGCTACTATTTTACAGGCTA 58.242 34.615 0.00 0.00 41.15 3.93
2858 3022 6.621613 GCAAAAAGCTACTATTTTACAGGCT 58.378 36.000 0.00 0.00 41.15 4.58
2859 3023 6.871044 GCAAAAAGCTACTATTTTACAGGC 57.129 37.500 0.00 0.00 41.15 4.85
2874 3038 6.806739 ACCATTTCGAGTAAATAGCAAAAAGC 59.193 34.615 0.00 0.00 38.53 3.51
2875 3039 9.274065 GTACCATTTCGAGTAAATAGCAAAAAG 57.726 33.333 0.00 0.00 35.54 2.27
2876 3040 7.958567 CGTACCATTTCGAGTAAATAGCAAAAA 59.041 33.333 0.00 0.00 35.54 1.94
2877 3041 7.331440 TCGTACCATTTCGAGTAAATAGCAAAA 59.669 33.333 0.00 0.00 35.54 2.44
2878 3042 6.812656 TCGTACCATTTCGAGTAAATAGCAAA 59.187 34.615 0.00 0.00 35.54 3.68
2879 3043 6.331845 TCGTACCATTTCGAGTAAATAGCAA 58.668 36.000 0.00 0.00 35.54 3.91
2880 3044 5.893687 TCGTACCATTTCGAGTAAATAGCA 58.106 37.500 0.00 0.00 35.54 3.49
2881 3045 6.074463 CCTTCGTACCATTTCGAGTAAATAGC 60.074 42.308 0.00 0.00 35.54 2.97
2882 3046 6.420008 CCCTTCGTACCATTTCGAGTAAATAG 59.580 42.308 0.00 0.00 35.54 1.73
2883 3047 6.275335 CCCTTCGTACCATTTCGAGTAAATA 58.725 40.000 0.00 0.00 35.54 1.40
2884 3048 5.114081 CCCTTCGTACCATTTCGAGTAAAT 58.886 41.667 0.00 0.00 38.36 1.40
2885 3049 4.497300 CCCTTCGTACCATTTCGAGTAAA 58.503 43.478 0.00 0.00 37.38 2.01
2886 3050 3.676873 GCCCTTCGTACCATTTCGAGTAA 60.677 47.826 0.00 0.00 37.38 2.24
2887 3051 2.159198 GCCCTTCGTACCATTTCGAGTA 60.159 50.000 0.00 0.00 37.38 2.59
2888 3052 1.405121 GCCCTTCGTACCATTTCGAGT 60.405 52.381 0.00 0.00 37.38 4.18
2889 3053 1.287425 GCCCTTCGTACCATTTCGAG 58.713 55.000 0.00 0.00 37.38 4.04
2890 3054 0.609151 TGCCCTTCGTACCATTTCGA 59.391 50.000 0.00 0.00 0.00 3.71
2891 3055 1.444836 TTGCCCTTCGTACCATTTCG 58.555 50.000 0.00 0.00 0.00 3.46
2900 3064 4.494515 GGAACCTTTGCCCTTCGT 57.505 55.556 0.00 0.00 0.00 3.85
2937 3106 1.040646 TCACGAGAGGAACAGCAACT 58.959 50.000 0.00 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.