Multiple sequence alignment - TraesCS4D01G135900

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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 TraesCS4D01G135900 chr4D 100.000 4306 0 0 1 4306 122257464 122253159 0.000000e+00 7952.0
1 TraesCS4D01G135900 chr4D 86.146 2512 230 41 574 3036 489728411 489730853 0.000000e+00 2603.0
2 TraesCS4D01G135900 chr4D 85.937 2503 248 38 578 3036 489733691 489736133 0.000000e+00 2577.0
3 TraesCS4D01G135900 chr4D 77.046 1503 290 40 1457 2939 122171001 122169534 0.000000e+00 813.0
4 TraesCS4D01G135900 chr4D 96.084 383 15 0 3036 3418 379506977 379507359 3.660000e-175 625.0
5 TraesCS4D01G135900 chr4D 93.491 169 11 0 245 413 489728245 489728413 7.150000e-63 252.0
6 TraesCS4D01G135900 chr4B 96.598 2469 66 5 574 3036 185867120 185864664 0.000000e+00 4078.0
7 TraesCS4D01G135900 chr4B 88.191 1609 152 18 1463 3036 628069202 628070807 0.000000e+00 1884.0
8 TraesCS4D01G135900 chr4B 76.800 1500 299 37 1457 2939 185222749 185221282 0.000000e+00 797.0
9 TraesCS4D01G135900 chr4B 98.305 413 6 1 1 413 185867529 185867118 0.000000e+00 723.0
10 TraesCS4D01G135900 chr4B 96.373 386 14 0 3035 3420 575617063 575617448 1.690000e-178 636.0
11 TraesCS4D01G135900 chr4B 85.458 557 53 10 800 1351 628068620 628069153 4.870000e-154 555.0
12 TraesCS4D01G135900 chr4B 91.768 328 18 3 3418 3743 172478085 172477765 8.490000e-122 448.0
13 TraesCS4D01G135900 chr4B 87.912 182 12 3 574 754 628068444 628068616 5.640000e-49 206.0
14 TraesCS4D01G135900 chr4B 79.054 148 26 4 1826 1969 653683334 653683188 3.540000e-16 97.1
15 TraesCS4D01G135900 chr4B 92.308 65 4 1 3757 3821 172474361 172474298 1.650000e-14 91.6
16 TraesCS4D01G135900 chr4A 95.526 2481 78 10 562 3036 448105922 448108375 0.000000e+00 3936.0
17 TraesCS4D01G135900 chr4A 76.995 1504 289 46 1457 2939 448527778 448529245 0.000000e+00 808.0
18 TraesCS4D01G135900 chr4A 95.540 426 10 4 1 423 448105422 448105841 0.000000e+00 673.0
19 TraesCS4D01G135900 chr5A 86.647 2389 239 26 574 2940 671183081 671185411 0.000000e+00 2571.0
20 TraesCS4D01G135900 chr5A 86.648 1760 172 21 1310 3036 671178466 671180195 0.000000e+00 1890.0
21 TraesCS4D01G135900 chr5A 84.308 975 84 25 574 1533 671177074 671177994 0.000000e+00 889.0
22 TraesCS4D01G135900 chr5A 95.858 169 7 0 407 575 458198874 458199042 1.530000e-69 274.0
23 TraesCS4D01G135900 chr5A 95.833 168 7 0 408 575 435637332 435637165 5.490000e-69 272.0
24 TraesCS4D01G135900 chr5A 92.982 171 10 1 245 413 671176906 671177076 9.250000e-62 248.0
25 TraesCS4D01G135900 chr5A 91.228 171 10 3 245 413 671182916 671183083 1.200000e-55 228.0
26 TraesCS4D01G135900 chr2A 96.197 710 26 1 3035 3743 203820577 203821286 0.000000e+00 1160.0
27 TraesCS4D01G135900 chr2A 95.902 366 10 2 3941 4306 203821655 203822015 4.800000e-164 588.0
28 TraesCS4D01G135900 chr2A 98.333 60 1 0 3755 3814 203821355 203821414 5.890000e-19 106.0
29 TraesCS4D01G135900 chr2A 97.500 40 1 0 3941 3980 203821500 203821539 7.730000e-08 69.4
30 TraesCS4D01G135900 chr5B 96.067 712 23 3 3036 3742 629274568 629273857 0.000000e+00 1155.0
31 TraesCS4D01G135900 chr5B 95.927 712 24 3 3036 3742 629357138 629356427 0.000000e+00 1149.0
32 TraesCS4D01G135900 chr5B 94.860 214 10 1 4094 4306 629259777 629259564 2.480000e-87 333.0
33 TraesCS4D01G135900 chr5B 94.860 214 10 1 4094 4306 629347822 629347609 2.480000e-87 333.0
34 TraesCS4D01G135900 chr5B 96.815 157 5 0 3941 4097 629355367 629355211 3.300000e-66 263.0
35 TraesCS4D01G135900 chr5B 96.178 157 6 0 3941 4097 629272796 629272640 1.540000e-64 257.0
36 TraesCS4D01G135900 chr5B 100.000 34 0 0 3905 3938 629273890 629273857 3.590000e-06 63.9
37 TraesCS4D01G135900 chr5B 100.000 34 0 0 3905 3938 629356460 629356427 3.590000e-06 63.9
38 TraesCS4D01G135900 chr3D 96.623 385 13 0 3036 3420 380274181 380274565 1.310000e-179 640.0
39 TraesCS4D01G135900 chr3D 96.382 387 14 0 3034 3420 424223122 424222736 4.700000e-179 638.0
40 TraesCS4D01G135900 chr3D 96.114 386 15 0 3035 3420 401004828 401004443 7.860000e-177 630.0
41 TraesCS4D01G135900 chr3D 96.450 169 6 0 408 576 566854559 566854727 3.280000e-71 279.0
42 TraesCS4D01G135900 chr7D 96.597 382 13 0 3039 3420 638153605 638153224 6.070000e-178 634.0
43 TraesCS4D01G135900 chr2D 95.427 328 13 2 3418 3743 25857924 25857597 4.930000e-144 521.0
44 TraesCS4D01G135900 chr2D 95.522 67 2 1 3755 3821 25857528 25857463 5.890000e-19 106.0
45 TraesCS4D01G135900 chr2D 97.500 40 1 0 3941 3980 25857382 25857343 7.730000e-08 69.4
46 TraesCS4D01G135900 chr7A 95.385 325 11 4 3418 3740 632039651 632039973 8.260000e-142 514.0
47 TraesCS4D01G135900 chr7A 92.537 67 4 1 3755 3821 632040045 632040110 1.270000e-15 95.3
48 TraesCS4D01G135900 chr7A 97.368 38 1 0 3943 3980 632040194 632040231 9.990000e-07 65.8
49 TraesCS4D01G135900 chr6B 93.333 330 19 3 3417 3743 345157986 345157657 6.470000e-133 484.0
50 TraesCS4D01G135900 chr6B 95.385 65 2 1 3757 3821 345157576 345157513 7.620000e-18 102.0
51 TraesCS4D01G135900 chr7B 93.313 329 19 3 3417 3743 356533541 356533214 2.330000e-132 483.0
52 TraesCS4D01G135900 chr7B 96.407 167 6 0 409 575 595441892 595442058 4.240000e-70 276.0
53 TraesCS4D01G135900 chr7B 93.846 65 3 1 3757 3821 356533133 356533070 3.540000e-16 97.1
54 TraesCS4D01G135900 chr7B 97.500 40 0 1 3941 3980 356532989 356532951 2.780000e-07 67.6
55 TraesCS4D01G135900 chr5D 92.447 331 23 2 3978 4306 381164689 381165019 5.040000e-129 472.0
56 TraesCS4D01G135900 chr5D 97.015 67 2 0 3755 3821 553279058 553278992 3.520000e-21 113.0
57 TraesCS4D01G135900 chr5D 97.297 37 1 0 3944 3980 553278909 553278873 3.590000e-06 63.9
58 TraesCS4D01G135900 chr1B 96.043 278 9 2 3418 3693 159411896 159412173 6.570000e-123 451.0
59 TraesCS4D01G135900 chr1B 98.361 61 1 0 3755 3815 159412261 159412321 1.640000e-19 108.0
60 TraesCS4D01G135900 chr6D 96.386 166 6 0 411 576 243032890 243033055 1.530000e-69 274.0
61 TraesCS4D01G135900 chr6D 96.364 165 6 0 411 575 293177404 293177240 5.490000e-69 272.0
62 TraesCS4D01G135900 chr6D 90.055 181 13 3 4127 4305 395073122 395072945 3.350000e-56 230.0
63 TraesCS4D01G135900 chr6D 95.455 44 1 1 3778 3821 69019490 69019448 7.730000e-08 69.4
64 TraesCS4D01G135900 chr2B 95.294 170 7 1 411 580 208426581 208426749 7.100000e-68 268.0
65 TraesCS4D01G135900 chr2B 95.783 166 7 0 410 575 560444440 560444275 7.100000e-68 268.0
66 TraesCS4D01G135900 chrUn 95.238 168 8 0 408 575 382102448 382102281 2.550000e-67 267.0


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 TraesCS4D01G135900 chr4D 122253159 122257464 4305 True 7952.000000 7952 100.000000 1 4306 1 chr4D.!!$R2 4305
1 TraesCS4D01G135900 chr4D 489728245 489736133 7888 False 1810.666667 2603 88.524667 245 3036 3 chr4D.!!$F2 2791
2 TraesCS4D01G135900 chr4D 122169534 122171001 1467 True 813.000000 813 77.046000 1457 2939 1 chr4D.!!$R1 1482
3 TraesCS4D01G135900 chr4B 185864664 185867529 2865 True 2400.500000 4078 97.451500 1 3036 2 chr4B.!!$R4 3035
4 TraesCS4D01G135900 chr4B 628068444 628070807 2363 False 881.666667 1884 87.187000 574 3036 3 chr4B.!!$F2 2462
5 TraesCS4D01G135900 chr4B 185221282 185222749 1467 True 797.000000 797 76.800000 1457 2939 1 chr4B.!!$R1 1482
6 TraesCS4D01G135900 chr4B 172474298 172478085 3787 True 269.800000 448 92.038000 3418 3821 2 chr4B.!!$R3 403
7 TraesCS4D01G135900 chr4A 448105422 448108375 2953 False 2304.500000 3936 95.533000 1 3036 2 chr4A.!!$F2 3035
8 TraesCS4D01G135900 chr4A 448527778 448529245 1467 False 808.000000 808 76.995000 1457 2939 1 chr4A.!!$F1 1482
9 TraesCS4D01G135900 chr5A 671176906 671185411 8505 False 1165.200000 2571 88.362600 245 3036 5 chr5A.!!$F2 2791
10 TraesCS4D01G135900 chr2A 203820577 203822015 1438 False 480.850000 1160 96.983000 3035 4306 4 chr2A.!!$F1 1271
11 TraesCS4D01G135900 chr5B 629272640 629274568 1928 True 491.966667 1155 97.415000 3036 4097 3 chr5B.!!$R3 1061
12 TraesCS4D01G135900 chr5B 629355211 629357138 1927 True 491.966667 1149 97.580667 3036 4097 3 chr5B.!!$R4 1061
13 TraesCS4D01G135900 chr2D 25857343 25857924 581 True 232.133333 521 96.149667 3418 3980 3 chr2D.!!$R1 562
14 TraesCS4D01G135900 chr7A 632039651 632040231 580 False 225.033333 514 95.096667 3418 3980 3 chr7A.!!$F1 562
15 TraesCS4D01G135900 chr7B 356532951 356533541 590 True 215.900000 483 94.886333 3417 3980 3 chr7B.!!$R1 563

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
423 427 1.272872 TGGCTACTACTCCCTCCGTTT 60.273 52.381 0.0 0.0 0.00 3.60 F
1298 1329 0.179936 GCCTCCACCTCCATCTTGAG 59.820 60.000 0.0 0.0 0.00 3.02 F
2032 2755 0.111639 GGGGAAGCACACCTTAACCA 59.888 55.000 0.0 0.0 39.39 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1627 2326 0.996762 TCCTCCTCCTCCTCCTCCTC 60.997 65.0 0.0 0.0 0.00 3.71 R
2884 8996 0.963856 CATCCTTGCAGAAGCCAGCA 60.964 55.0 0.0 0.0 41.13 4.41 R
3873 14254 2.570386 AGTAGGCTTGGGTATGACCT 57.430 50.0 0.0 0.0 38.64 3.85 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
123 124 4.025015 GCAGATGTTTATGTGCTTCCAG 57.975 45.455 2.58 0.00 46.76 3.86
397 401 5.895636 TGGTTAAAGGTTACATGCATCTG 57.104 39.130 0.00 0.00 0.00 2.90
423 427 1.272872 TGGCTACTACTCCCTCCGTTT 60.273 52.381 0.00 0.00 0.00 3.60
424 428 1.408340 GGCTACTACTCCCTCCGTTTC 59.592 57.143 0.00 0.00 0.00 2.78
425 429 2.377073 GCTACTACTCCCTCCGTTTCT 58.623 52.381 0.00 0.00 0.00 2.52
428 432 4.400567 GCTACTACTCCCTCCGTTTCTAAA 59.599 45.833 0.00 0.00 0.00 1.85
431 435 7.039853 GCTACTACTCCCTCCGTTTCTAAATAT 60.040 40.741 0.00 0.00 0.00 1.28
432 436 9.512588 CTACTACTCCCTCCGTTTCTAAATATA 57.487 37.037 0.00 0.00 0.00 0.86
433 437 8.406730 ACTACTCCCTCCGTTTCTAAATATAG 57.593 38.462 0.00 0.00 0.00 1.31
437 441 6.379579 TCCCTCCGTTTCTAAATATAGGTCT 58.620 40.000 0.00 0.00 0.00 3.85
438 442 6.842807 TCCCTCCGTTTCTAAATATAGGTCTT 59.157 38.462 0.00 0.00 0.00 3.01
439 443 7.346436 TCCCTCCGTTTCTAAATATAGGTCTTT 59.654 37.037 0.00 0.00 0.00 2.52
440 444 7.656542 CCCTCCGTTTCTAAATATAGGTCTTTC 59.343 40.741 0.00 0.00 0.00 2.62
441 445 8.422566 CCTCCGTTTCTAAATATAGGTCTTTCT 58.577 37.037 0.00 0.00 0.00 2.52
456 460 7.736447 AGGTCTTTCTAGTGATTTCAACAAG 57.264 36.000 0.00 0.00 0.00 3.16
457 461 7.283329 AGGTCTTTCTAGTGATTTCAACAAGT 58.717 34.615 0.00 0.00 0.00 3.16
458 462 7.227512 AGGTCTTTCTAGTGATTTCAACAAGTG 59.772 37.037 0.00 0.00 0.00 3.16
459 463 7.226720 GGTCTTTCTAGTGATTTCAACAAGTGA 59.773 37.037 0.00 0.00 0.00 3.41
460 464 8.064814 GTCTTTCTAGTGATTTCAACAAGTGAC 58.935 37.037 0.00 0.00 35.39 3.67
461 465 7.987458 TCTTTCTAGTGATTTCAACAAGTGACT 59.013 33.333 0.00 0.00 35.39 3.41
462 466 9.261180 CTTTCTAGTGATTTCAACAAGTGACTA 57.739 33.333 0.00 0.00 35.39 2.59
463 467 8.589335 TTCTAGTGATTTCAACAAGTGACTAC 57.411 34.615 0.00 0.00 35.39 2.73
464 468 7.722363 TCTAGTGATTTCAACAAGTGACTACA 58.278 34.615 0.00 0.00 35.39 2.74
465 469 8.367911 TCTAGTGATTTCAACAAGTGACTACAT 58.632 33.333 0.00 0.00 35.39 2.29
466 470 9.639601 CTAGTGATTTCAACAAGTGACTACATA 57.360 33.333 0.00 0.00 35.39 2.29
467 471 8.311650 AGTGATTTCAACAAGTGACTACATAC 57.688 34.615 0.00 0.00 35.39 2.39
468 472 7.116376 AGTGATTTCAACAAGTGACTACATACG 59.884 37.037 0.00 0.00 35.39 3.06
469 473 6.367695 TGATTTCAACAAGTGACTACATACGG 59.632 38.462 0.00 0.00 35.39 4.02
470 474 5.456548 TTCAACAAGTGACTACATACGGA 57.543 39.130 0.00 0.00 35.39 4.69
471 475 5.055642 TCAACAAGTGACTACATACGGAG 57.944 43.478 0.00 0.00 0.00 4.63
472 476 3.505464 ACAAGTGACTACATACGGAGC 57.495 47.619 0.00 0.00 0.00 4.70
479 483 4.868171 GTGACTACATACGGAGCAAAATGA 59.132 41.667 0.00 0.00 0.00 2.57
483 487 6.112734 ACTACATACGGAGCAAAATGAATGA 58.887 36.000 0.00 0.00 0.00 2.57
489 493 6.124088 ACGGAGCAAAATGAATGAATCTAC 57.876 37.500 0.00 0.00 0.00 2.59
491 495 5.967674 CGGAGCAAAATGAATGAATCTACAC 59.032 40.000 0.00 0.00 0.00 2.90
492 496 6.183360 CGGAGCAAAATGAATGAATCTACACT 60.183 38.462 0.00 0.00 0.00 3.55
495 499 9.102757 GAGCAAAATGAATGAATCTACACTCTA 57.897 33.333 0.00 0.00 0.00 2.43
523 527 9.901172 AGTATGTCTATATACATCCGTATGTGA 57.099 33.333 3.56 0.00 45.99 3.58
527 531 9.901172 TGTCTATATACATCCGTATGTGATAGT 57.099 33.333 17.08 3.55 45.99 2.12
529 533 9.557061 TCTATATACATCCGTATGTGATAGTCC 57.443 37.037 17.08 0.00 45.99 3.85
530 534 9.338622 CTATATACATCCGTATGTGATAGTCCA 57.661 37.037 3.56 0.00 45.99 4.02
531 535 8.768501 ATATACATCCGTATGTGATAGTCCAT 57.231 34.615 3.56 0.00 45.99 3.41
532 536 5.808366 ACATCCGTATGTGATAGTCCATT 57.192 39.130 0.00 0.00 44.79 3.16
534 538 5.991606 ACATCCGTATGTGATAGTCCATTTG 59.008 40.000 0.00 0.00 44.79 2.32
535 539 5.862678 TCCGTATGTGATAGTCCATTTGA 57.137 39.130 0.00 0.00 0.00 2.69
536 540 6.228616 TCCGTATGTGATAGTCCATTTGAA 57.771 37.500 0.00 0.00 0.00 2.69
537 541 6.645306 TCCGTATGTGATAGTCCATTTGAAA 58.355 36.000 0.00 0.00 0.00 2.69
538 542 7.279615 TCCGTATGTGATAGTCCATTTGAAAT 58.720 34.615 0.00 0.00 0.00 2.17
539 543 7.441157 TCCGTATGTGATAGTCCATTTGAAATC 59.559 37.037 0.00 0.00 0.00 2.17
540 544 7.442364 CCGTATGTGATAGTCCATTTGAAATCT 59.558 37.037 0.00 0.00 0.00 2.40
541 545 8.491152 CGTATGTGATAGTCCATTTGAAATCTC 58.509 37.037 0.00 0.00 0.00 2.75
542 546 9.553064 GTATGTGATAGTCCATTTGAAATCTCT 57.447 33.333 0.00 0.00 0.00 3.10
545 549 9.958180 TGTGATAGTCCATTTGAAATCTCTAAA 57.042 29.630 0.00 0.00 0.00 1.85
551 555 9.579932 AGTCCATTTGAAATCTCTAAAAAGACT 57.420 29.630 0.00 0.00 0.00 3.24
576 580 1.755179 TTAGGAACGGAGGGAGTACG 58.245 55.000 0.00 0.00 0.00 3.67
720 731 4.889832 AAGTTGACTGCTTCTGAAGTTG 57.110 40.909 17.97 13.06 30.68 3.16
844 855 5.176958 CGGACAGTTAAACTAACCTTGTGAG 59.823 44.000 2.85 0.00 39.47 3.51
940 959 6.057533 TGAAATGGATGGATGACAGTGATAC 58.942 40.000 0.00 0.00 0.00 2.24
951 970 3.195610 TGACAGTGATACATCCACTCCAC 59.804 47.826 0.00 0.00 42.44 4.02
1033 1055 1.761174 GAGGAGTTGTTGGGCCTCA 59.239 57.895 4.53 0.87 44.91 3.86
1060 1082 2.905996 GCACCACTGTCCCCATCCA 61.906 63.158 0.00 0.00 0.00 3.41
1081 1103 2.286127 CTTCCTCGACCTTCCTCCGC 62.286 65.000 0.00 0.00 0.00 5.54
1158 1180 4.733371 TCGCGCATGCTCACGGAA 62.733 61.111 17.13 0.00 39.65 4.30
1203 1225 1.537889 CCAGTACCCTGACCACCCA 60.538 63.158 0.00 0.00 41.50 4.51
1298 1329 0.179936 GCCTCCACCTCCATCTTGAG 59.820 60.000 0.00 0.00 0.00 3.02
1326 1357 2.355310 CCAAGGTAACGGCATGGACTTA 60.355 50.000 0.00 0.00 46.39 2.24
1347 1378 2.983592 GTTTCCGGGTGCCAGGTG 60.984 66.667 0.00 0.00 0.00 4.00
1394 2090 3.975591 AGGCACAGGCACAGGCAT 61.976 61.111 0.00 0.00 43.71 4.40
1396 2092 1.678635 GGCACAGGCACAGGCATTA 60.679 57.895 0.00 0.00 43.71 1.90
1629 2328 3.767230 CTGCCGCGTTGTGTCGAG 61.767 66.667 4.92 0.00 0.00 4.04
2032 2755 0.111639 GGGGAAGCACACCTTAACCA 59.888 55.000 0.00 0.00 39.39 3.67
2466 3189 0.179089 CCTTGATGGACGAGAGCCTG 60.179 60.000 0.00 0.00 38.35 4.85
2509 3232 1.203052 GGGACATGGTGCTCAACAATG 59.797 52.381 0.00 0.00 44.77 2.82
3090 9222 2.693591 CGAGAGGGAGCCAAGTATTGTA 59.306 50.000 0.00 0.00 46.99 2.41
3274 9406 6.575244 TTGAGACCATACCACCATATCTTT 57.425 37.500 0.00 0.00 0.00 2.52
3423 9555 3.003897 CCAGATCTCTCGTTGTAGTAGGC 59.996 52.174 0.00 0.00 0.00 3.93
3583 9715 8.997323 GGATGGATGAGTAATTATCAAACAGAG 58.003 37.037 0.00 0.00 0.00 3.35
3723 9860 8.792633 CCATTGAGGAACAAAGTTACATTAGAA 58.207 33.333 0.00 0.00 42.03 2.10
3743 9880 8.570068 TTAGAACACCACATTTTATAAGGACC 57.430 34.615 0.00 0.00 0.00 4.46
3744 9881 6.790319 AGAACACCACATTTTATAAGGACCT 58.210 36.000 0.00 0.00 0.00 3.85
3745 9882 6.659242 AGAACACCACATTTTATAAGGACCTG 59.341 38.462 0.00 0.00 0.00 4.00
3746 9883 5.887754 ACACCACATTTTATAAGGACCTGT 58.112 37.500 0.00 0.00 0.00 4.00
3747 9884 6.311735 ACACCACATTTTATAAGGACCTGTT 58.688 36.000 0.00 0.00 0.00 3.16
3748 9885 6.433093 ACACCACATTTTATAAGGACCTGTTC 59.567 38.462 0.00 0.00 0.00 3.18
3750 9887 7.827236 CACCACATTTTATAAGGACCTGTTCTA 59.173 37.037 0.00 0.00 0.00 2.10
3751 9888 8.387813 ACCACATTTTATAAGGACCTGTTCTAA 58.612 33.333 0.00 0.00 0.00 2.10
3752 9889 9.408648 CCACATTTTATAAGGACCTGTTCTAAT 57.591 33.333 0.00 0.00 0.00 1.73
3763 13300 5.163652 GGACCTGTTCTAATAACAATGTGCC 60.164 44.000 0.00 0.00 0.00 5.01
3848 14229 9.632807 TTATGTTTTCTAATAACAATGTGCCAC 57.367 29.630 0.00 0.00 38.82 5.01
3849 14230 7.043961 TGTTTTCTAATAACAATGTGCCACA 57.956 32.000 0.00 0.00 32.89 4.17
3850 14231 7.665690 TGTTTTCTAATAACAATGTGCCACAT 58.334 30.769 4.03 4.03 41.31 3.21
3851 14232 7.812191 TGTTTTCTAATAACAATGTGCCACATC 59.188 33.333 11.38 0.00 37.97 3.06
3852 14233 7.701539 TTTCTAATAACAATGTGCCACATCT 57.298 32.000 11.38 1.71 37.97 2.90
3853 14234 8.800370 TTTCTAATAACAATGTGCCACATCTA 57.200 30.769 11.38 3.95 37.97 1.98
3854 14235 8.800370 TTCTAATAACAATGTGCCACATCTAA 57.200 30.769 11.38 0.00 37.97 2.10
3855 14236 8.978874 TCTAATAACAATGTGCCACATCTAAT 57.021 30.769 11.38 0.32 37.97 1.73
3859 14240 8.752005 ATAACAATGTGCCACATCTAATAACT 57.248 30.769 11.38 0.00 37.97 2.24
3860 14241 7.466746 AACAATGTGCCACATCTAATAACTT 57.533 32.000 11.38 0.00 37.97 2.66
3861 14242 7.466746 ACAATGTGCCACATCTAATAACTTT 57.533 32.000 11.38 0.00 37.97 2.66
3862 14243 7.315142 ACAATGTGCCACATCTAATAACTTTG 58.685 34.615 11.38 4.96 37.97 2.77
3863 14244 7.039784 ACAATGTGCCACATCTAATAACTTTGT 60.040 33.333 11.38 5.60 37.97 2.83
3864 14245 6.892658 TGTGCCACATCTAATAACTTTGTT 57.107 33.333 0.00 0.00 0.00 2.83
3865 14246 6.908825 TGTGCCACATCTAATAACTTTGTTC 58.091 36.000 0.00 0.00 0.00 3.18
3866 14247 6.072175 TGTGCCACATCTAATAACTTTGTTCC 60.072 38.462 0.00 0.00 0.00 3.62
3867 14248 5.417580 TGCCACATCTAATAACTTTGTTCCC 59.582 40.000 0.00 0.00 0.00 3.97
3868 14249 5.652452 GCCACATCTAATAACTTTGTTCCCT 59.348 40.000 0.00 0.00 0.00 4.20
3869 14250 6.826741 GCCACATCTAATAACTTTGTTCCCTA 59.173 38.462 0.00 0.00 0.00 3.53
3870 14251 7.201705 GCCACATCTAATAACTTTGTTCCCTAC 60.202 40.741 0.00 0.00 0.00 3.18
3871 14252 8.047310 CCACATCTAATAACTTTGTTCCCTACT 58.953 37.037 0.00 0.00 0.00 2.57
3872 14253 9.449719 CACATCTAATAACTTTGTTCCCTACTT 57.550 33.333 0.00 0.00 0.00 2.24
3881 14262 6.944096 ACTTTGTTCCCTACTTAGGTCATAC 58.056 40.000 1.58 0.00 42.03 2.39
3882 14263 5.945144 TTGTTCCCTACTTAGGTCATACC 57.055 43.478 1.58 0.00 42.03 2.73
3888 14269 3.071167 CCTACTTAGGTCATACCCAAGCC 59.929 52.174 4.46 0.00 40.06 4.35
3890 14271 4.003584 ACTTAGGTCATACCCAAGCCTA 57.996 45.455 4.46 0.00 40.06 3.93
3891 14272 3.710165 ACTTAGGTCATACCCAAGCCTAC 59.290 47.826 4.46 0.00 40.06 3.18
3892 14273 2.570386 AGGTCATACCCAAGCCTACT 57.430 50.000 0.00 0.00 39.75 2.57
3896 14277 3.071167 GGTCATACCCAAGCCTACTTAGG 59.929 52.174 0.00 0.00 40.23 2.69
3900 14281 2.846950 ACCCAAGCCTACTTAGGTCAT 58.153 47.619 4.21 0.00 43.48 3.06
3901 14282 4.003584 ACCCAAGCCTACTTAGGTCATA 57.996 45.455 4.21 0.00 43.48 2.15
3902 14283 3.710165 ACCCAAGCCTACTTAGGTCATAC 59.290 47.826 4.21 0.00 43.48 2.39
3905 14286 3.700863 AGCCTACTTAGGTCATACCCA 57.299 47.619 4.21 0.00 45.42 4.51
3906 14287 4.003584 AGCCTACTTAGGTCATACCCAA 57.996 45.455 4.21 0.00 45.42 4.12
3908 14289 4.409247 AGCCTACTTAGGTCATACCCAAAG 59.591 45.833 4.21 7.07 45.42 2.77
3909 14290 4.163649 GCCTACTTAGGTCATACCCAAAGT 59.836 45.833 15.02 15.02 45.42 2.66
3911 14292 6.126968 GCCTACTTAGGTCATACCCAAAGTTA 60.127 42.308 15.58 5.82 40.19 2.24
3913 14294 6.691255 ACTTAGGTCATACCCAAAGTTACA 57.309 37.500 8.06 0.00 40.19 2.41
3914 14295 7.266905 ACTTAGGTCATACCCAAAGTTACAT 57.733 36.000 8.06 0.00 40.19 2.29
3917 14298 9.326413 CTTAGGTCATACCCAAAGTTACATTAG 57.674 37.037 0.00 0.00 39.75 1.73
3918 14299 7.504926 AGGTCATACCCAAAGTTACATTAGA 57.495 36.000 0.00 0.00 39.75 2.10
3920 14301 6.260271 GGTCATACCCAAAGTTACATTAGAGC 59.740 42.308 0.00 0.00 30.04 4.09
3921 14302 6.821665 GTCATACCCAAAGTTACATTAGAGCA 59.178 38.462 0.00 0.00 0.00 4.26
3922 14303 6.821665 TCATACCCAAAGTTACATTAGAGCAC 59.178 38.462 0.00 0.00 0.00 4.40
3923 14304 4.332828 ACCCAAAGTTACATTAGAGCACC 58.667 43.478 0.00 0.00 0.00 5.01
3924 14305 4.202524 ACCCAAAGTTACATTAGAGCACCA 60.203 41.667 0.00 0.00 0.00 4.17
3925 14306 4.156008 CCCAAAGTTACATTAGAGCACCAC 59.844 45.833 0.00 0.00 0.00 4.16
3926 14307 4.759693 CCAAAGTTACATTAGAGCACCACA 59.240 41.667 0.00 0.00 0.00 4.17
3927 14308 5.415701 CCAAAGTTACATTAGAGCACCACAT 59.584 40.000 0.00 0.00 0.00 3.21
3929 14310 7.370383 CAAAGTTACATTAGAGCACCACATTT 58.630 34.615 0.00 0.00 0.00 2.32
3932 14313 8.807948 AGTTACATTAGAGCACCACATTTTAT 57.192 30.769 0.00 0.00 0.00 1.40
3937 14318 8.052748 ACATTAGAGCACCACATTTTATAAGGA 58.947 33.333 0.00 0.00 0.00 3.36
3938 14319 7.859325 TTAGAGCACCACATTTTATAAGGAC 57.141 36.000 0.00 0.00 0.00 3.85
3939 14320 5.193679 AGAGCACCACATTTTATAAGGACC 58.806 41.667 0.00 0.00 0.00 4.46
4074 14618 6.506538 ACCATGCAAGGAGATATTTAGACT 57.493 37.500 16.33 0.00 0.00 3.24
4127 14671 8.422577 AGGCAACAGGAAAATAGAAAGTATTT 57.577 30.769 0.00 0.00 40.18 1.40
4128 14672 9.528489 AGGCAACAGGAAAATAGAAAGTATTTA 57.472 29.630 0.00 0.00 37.54 1.40
4170 14714 0.443869 GTGCATAGTGGCTCACAACG 59.556 55.000 7.86 0.00 36.74 4.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
123 124 8.994429 TGAGATAACTGAAGAAGAAGAATGAC 57.006 34.615 0.00 0.00 0.00 3.06
193 197 8.765219 CACTGAATTTATTGGTCCTCTTATACG 58.235 37.037 0.00 0.00 0.00 3.06
397 401 2.431419 GAGGGAGTAGTAGCCAGTTTCC 59.569 54.545 0.00 0.00 0.00 3.13
431 435 8.429641 ACTTGTTGAAATCACTAGAAAGACCTA 58.570 33.333 0.00 0.00 0.00 3.08
432 436 7.227512 CACTTGTTGAAATCACTAGAAAGACCT 59.772 37.037 0.00 0.00 0.00 3.85
433 437 7.226720 TCACTTGTTGAAATCACTAGAAAGACC 59.773 37.037 0.00 0.00 0.00 3.85
437 441 9.042008 GTAGTCACTTGTTGAAATCACTAGAAA 57.958 33.333 0.00 0.00 35.39 2.52
438 442 8.201464 TGTAGTCACTTGTTGAAATCACTAGAA 58.799 33.333 0.00 0.00 35.39 2.10
439 443 7.722363 TGTAGTCACTTGTTGAAATCACTAGA 58.278 34.615 0.00 0.00 35.39 2.43
440 444 7.946655 TGTAGTCACTTGTTGAAATCACTAG 57.053 36.000 0.00 0.00 35.39 2.57
441 445 9.419297 GTATGTAGTCACTTGTTGAAATCACTA 57.581 33.333 0.00 0.00 35.39 2.74
442 446 7.116376 CGTATGTAGTCACTTGTTGAAATCACT 59.884 37.037 0.00 0.00 35.39 3.41
443 447 7.227461 CGTATGTAGTCACTTGTTGAAATCAC 58.773 38.462 0.00 0.00 35.39 3.06
444 448 6.367695 CCGTATGTAGTCACTTGTTGAAATCA 59.632 38.462 0.00 0.00 35.39 2.57
445 449 6.588756 TCCGTATGTAGTCACTTGTTGAAATC 59.411 38.462 0.00 0.00 35.39 2.17
446 450 6.460781 TCCGTATGTAGTCACTTGTTGAAAT 58.539 36.000 0.00 0.00 35.39 2.17
447 451 5.845103 TCCGTATGTAGTCACTTGTTGAAA 58.155 37.500 0.00 0.00 35.39 2.69
448 452 5.456548 TCCGTATGTAGTCACTTGTTGAA 57.543 39.130 0.00 0.00 35.39 2.69
449 453 4.617530 GCTCCGTATGTAGTCACTTGTTGA 60.618 45.833 0.00 0.00 0.00 3.18
450 454 3.612860 GCTCCGTATGTAGTCACTTGTTG 59.387 47.826 0.00 0.00 0.00 3.33
451 455 3.257375 TGCTCCGTATGTAGTCACTTGTT 59.743 43.478 0.00 0.00 0.00 2.83
452 456 2.823747 TGCTCCGTATGTAGTCACTTGT 59.176 45.455 0.00 0.00 0.00 3.16
453 457 3.503827 TGCTCCGTATGTAGTCACTTG 57.496 47.619 0.00 0.00 0.00 3.16
454 458 4.530710 TTTGCTCCGTATGTAGTCACTT 57.469 40.909 0.00 0.00 0.00 3.16
455 459 4.530710 TTTTGCTCCGTATGTAGTCACT 57.469 40.909 0.00 0.00 0.00 3.41
456 460 4.868171 TCATTTTGCTCCGTATGTAGTCAC 59.132 41.667 0.00 0.00 0.00 3.67
457 461 5.079689 TCATTTTGCTCCGTATGTAGTCA 57.920 39.130 0.00 0.00 0.00 3.41
458 462 6.257849 TCATTCATTTTGCTCCGTATGTAGTC 59.742 38.462 0.00 0.00 0.00 2.59
459 463 6.112734 TCATTCATTTTGCTCCGTATGTAGT 58.887 36.000 0.00 0.00 0.00 2.73
460 464 6.603237 TCATTCATTTTGCTCCGTATGTAG 57.397 37.500 0.00 0.00 0.00 2.74
461 465 6.993786 TTCATTCATTTTGCTCCGTATGTA 57.006 33.333 0.00 0.00 0.00 2.29
462 466 5.895636 TTCATTCATTTTGCTCCGTATGT 57.104 34.783 0.00 0.00 0.00 2.29
463 467 6.732154 AGATTCATTCATTTTGCTCCGTATG 58.268 36.000 0.00 0.00 0.00 2.39
464 468 6.949352 AGATTCATTCATTTTGCTCCGTAT 57.051 33.333 0.00 0.00 0.00 3.06
465 469 6.821160 TGTAGATTCATTCATTTTGCTCCGTA 59.179 34.615 0.00 0.00 0.00 4.02
466 470 5.647658 TGTAGATTCATTCATTTTGCTCCGT 59.352 36.000 0.00 0.00 0.00 4.69
467 471 5.967674 GTGTAGATTCATTCATTTTGCTCCG 59.032 40.000 0.00 0.00 0.00 4.63
468 472 7.066766 AGAGTGTAGATTCATTCATTTTGCTCC 59.933 37.037 0.00 0.00 0.00 4.70
469 473 7.983307 AGAGTGTAGATTCATTCATTTTGCTC 58.017 34.615 0.00 0.00 0.00 4.26
470 474 7.934855 AGAGTGTAGATTCATTCATTTTGCT 57.065 32.000 0.00 0.00 0.00 3.91
507 511 8.589701 AATGGACTATCACATACGGATGTATA 57.410 34.615 14.23 10.59 44.82 1.47
516 520 9.553064 AGAGATTTCAAATGGACTATCACATAC 57.447 33.333 0.00 0.00 0.00 2.39
543 547 9.392259 CCTCCGTTCCTAAATATAAGTCTTTTT 57.608 33.333 0.00 0.00 0.00 1.94
544 548 7.991460 CCCTCCGTTCCTAAATATAAGTCTTTT 59.009 37.037 0.00 0.00 0.00 2.27
545 549 7.346436 TCCCTCCGTTCCTAAATATAAGTCTTT 59.654 37.037 0.00 0.00 0.00 2.52
546 550 6.842807 TCCCTCCGTTCCTAAATATAAGTCTT 59.157 38.462 0.00 0.00 0.00 3.01
547 551 6.379579 TCCCTCCGTTCCTAAATATAAGTCT 58.620 40.000 0.00 0.00 0.00 3.24
548 552 6.267242 ACTCCCTCCGTTCCTAAATATAAGTC 59.733 42.308 0.00 0.00 0.00 3.01
549 553 6.141790 ACTCCCTCCGTTCCTAAATATAAGT 58.858 40.000 0.00 0.00 0.00 2.24
550 554 6.667558 ACTCCCTCCGTTCCTAAATATAAG 57.332 41.667 0.00 0.00 0.00 1.73
551 555 6.207417 CGTACTCCCTCCGTTCCTAAATATAA 59.793 42.308 0.00 0.00 0.00 0.98
552 556 5.707298 CGTACTCCCTCCGTTCCTAAATATA 59.293 44.000 0.00 0.00 0.00 0.86
553 557 4.522022 CGTACTCCCTCCGTTCCTAAATAT 59.478 45.833 0.00 0.00 0.00 1.28
554 558 3.885297 CGTACTCCCTCCGTTCCTAAATA 59.115 47.826 0.00 0.00 0.00 1.40
555 559 2.692041 CGTACTCCCTCCGTTCCTAAAT 59.308 50.000 0.00 0.00 0.00 1.40
556 560 2.094675 CGTACTCCCTCCGTTCCTAAA 58.905 52.381 0.00 0.00 0.00 1.85
557 561 1.004745 ACGTACTCCCTCCGTTCCTAA 59.995 52.381 0.00 0.00 0.00 2.69
558 562 0.620556 ACGTACTCCCTCCGTTCCTA 59.379 55.000 0.00 0.00 0.00 2.94
559 563 0.964358 CACGTACTCCCTCCGTTCCT 60.964 60.000 0.00 0.00 31.46 3.36
560 564 1.246737 ACACGTACTCCCTCCGTTCC 61.247 60.000 0.00 0.00 31.46 3.62
565 569 0.966370 AGCTCACACGTACTCCCTCC 60.966 60.000 0.00 0.00 0.00 4.30
576 580 6.500684 TCCTGAAAATTGATTAGCTCACAC 57.499 37.500 0.00 0.00 32.17 3.82
613 618 7.039784 AGCACTAGCAGGTAAAATCATTGAAAA 60.040 33.333 0.00 0.00 45.49 2.29
720 731 3.373439 GCATTCTGTCCTTGTCTGATCAC 59.627 47.826 0.00 0.00 0.00 3.06
779 790 2.289945 ACACATGGACAAAGAGAGGCTC 60.290 50.000 6.34 6.34 0.00 4.70
844 855 2.866762 GGAACCATCGTAGCTTCACATC 59.133 50.000 0.00 0.00 0.00 3.06
940 959 6.119240 ACTATATTGGATGTGGAGTGGATG 57.881 41.667 0.00 0.00 0.00 3.51
1033 1055 2.388890 GACAGTGGTGCAGGCTCAGT 62.389 60.000 0.00 0.00 0.00 3.41
1060 1082 1.783071 GGAGGAAGGTCGAGGAAGAT 58.217 55.000 0.00 0.00 0.00 2.40
1158 1180 1.535833 ACTTGTCGACGATGTCCTCT 58.464 50.000 11.62 0.00 0.00 3.69
1319 1350 1.706305 ACCCGGAAACCATTAAGTCCA 59.294 47.619 0.73 0.00 0.00 4.02
1326 1357 1.606313 CTGGCACCCGGAAACCATT 60.606 57.895 0.73 0.00 29.82 3.16
1394 2090 1.272425 CCAAACCACTGGGCTCCATAA 60.272 52.381 0.00 0.00 37.90 1.90
1396 2092 1.077265 CCAAACCACTGGGCTCCAT 59.923 57.895 0.00 0.00 37.90 3.41
1627 2326 0.996762 TCCTCCTCCTCCTCCTCCTC 60.997 65.000 0.00 0.00 0.00 3.71
1628 2327 0.998945 CTCCTCCTCCTCCTCCTCCT 60.999 65.000 0.00 0.00 0.00 3.69
1629 2328 1.541672 CTCCTCCTCCTCCTCCTCC 59.458 68.421 0.00 0.00 0.00 4.30
1631 2330 0.998945 CTCCTCCTCCTCCTCCTCCT 60.999 65.000 0.00 0.00 0.00 3.69
2032 2755 3.022406 GGAAGGCTTTGATGAGCTCAAT 58.978 45.455 22.50 9.47 43.30 2.57
2466 3189 1.168714 GGCTCACCATGTCAAAGGTC 58.831 55.000 0.00 0.00 35.52 3.85
2509 3232 1.817099 CCGGCCTCATCTTGCTGAC 60.817 63.158 0.00 0.00 35.88 3.51
2884 8996 0.963856 CATCCTTGCAGAAGCCAGCA 60.964 55.000 0.00 0.00 41.13 4.41
3090 9222 6.942976 TCGACTTGGGTGTCTAAATATTCTT 58.057 36.000 0.00 0.00 35.00 2.52
3423 9555 5.824904 AGCATTCCTAATGTGCAAGTAAG 57.175 39.130 0.00 0.00 41.19 2.34
3583 9715 6.593770 TCTTGCTTTTCTTTTTCCCTTTTGTC 59.406 34.615 0.00 0.00 0.00 3.18
3723 9860 5.887754 ACAGGTCCTTATAAAATGTGGTGT 58.112 37.500 0.00 0.00 0.00 4.16
3743 9880 6.252967 TGTGGCACATTGTTATTAGAACAG 57.747 37.500 17.96 0.00 44.52 3.16
3744 9881 6.658816 AGATGTGGCACATTGTTATTAGAACA 59.341 34.615 31.83 0.00 44.52 3.18
3745 9882 6.968904 CAGATGTGGCACATTGTTATTAGAAC 59.031 38.462 31.83 15.47 44.52 3.01
3746 9883 6.883756 TCAGATGTGGCACATTGTTATTAGAA 59.116 34.615 31.83 11.74 44.52 2.10
3747 9884 6.413892 TCAGATGTGGCACATTGTTATTAGA 58.586 36.000 31.83 17.58 44.52 2.10
3748 9885 6.539826 TCTCAGATGTGGCACATTGTTATTAG 59.460 38.462 31.83 21.06 44.52 1.73
3750 9887 5.255687 TCTCAGATGTGGCACATTGTTATT 58.744 37.500 31.83 11.05 44.52 1.40
3751 9888 4.847198 TCTCAGATGTGGCACATTGTTAT 58.153 39.130 31.83 11.84 44.52 1.89
3752 9889 4.284829 TCTCAGATGTGGCACATTGTTA 57.715 40.909 31.83 17.35 44.52 2.41
3753 9890 3.144657 TCTCAGATGTGGCACATTGTT 57.855 42.857 31.83 18.54 44.52 2.83
3763 13300 7.856398 GCATTTTCATGTTCTATCTCAGATGTG 59.144 37.037 0.00 0.00 31.77 3.21
3823 14204 8.797438 TGTGGCACATTGTTATTAGAAAACATA 58.203 29.630 17.96 0.00 44.52 2.29
3824 14205 7.665690 TGTGGCACATTGTTATTAGAAAACAT 58.334 30.769 17.96 0.00 44.52 2.71
3826 14207 8.028938 AGATGTGGCACATTGTTATTAGAAAAC 58.971 33.333 31.83 14.87 44.52 2.43
3827 14208 8.121305 AGATGTGGCACATTGTTATTAGAAAA 57.879 30.769 31.83 0.00 44.52 2.29
3828 14209 7.701539 AGATGTGGCACATTGTTATTAGAAA 57.298 32.000 31.83 0.46 44.52 2.52
3829 14210 8.800370 TTAGATGTGGCACATTGTTATTAGAA 57.200 30.769 31.83 13.51 44.52 2.10
3830 14211 8.978874 ATTAGATGTGGCACATTGTTATTAGA 57.021 30.769 31.83 11.79 44.52 2.10
3833 14214 9.189156 AGTTATTAGATGTGGCACATTGTTATT 57.811 29.630 31.83 20.73 44.52 1.40
3834 14215 8.752005 AGTTATTAGATGTGGCACATTGTTAT 57.248 30.769 31.83 22.08 44.52 1.89
3835 14216 8.574251 AAGTTATTAGATGTGGCACATTGTTA 57.426 30.769 31.83 21.12 44.52 2.41
3836 14217 7.466746 AAGTTATTAGATGTGGCACATTGTT 57.533 32.000 31.83 22.04 44.52 2.83
3837 14218 7.039784 ACAAAGTTATTAGATGTGGCACATTGT 60.040 33.333 31.83 24.05 44.52 2.71
3838 14219 7.315142 ACAAAGTTATTAGATGTGGCACATTG 58.685 34.615 31.83 23.46 44.52 2.82
3839 14220 7.466746 ACAAAGTTATTAGATGTGGCACATT 57.533 32.000 31.83 22.68 44.52 2.71
3840 14221 7.362920 GGAACAAAGTTATTAGATGTGGCACAT 60.363 37.037 31.84 31.84 44.52 3.21
3841 14222 6.072175 GGAACAAAGTTATTAGATGTGGCACA 60.072 38.462 24.36 24.36 0.00 4.57
3842 14223 6.322491 GGAACAAAGTTATTAGATGTGGCAC 58.678 40.000 11.55 11.55 0.00 5.01
3843 14224 5.417580 GGGAACAAAGTTATTAGATGTGGCA 59.582 40.000 0.00 0.00 0.00 4.92
3844 14225 5.652452 AGGGAACAAAGTTATTAGATGTGGC 59.348 40.000 0.00 0.00 0.00 5.01
3845 14226 8.047310 AGTAGGGAACAAAGTTATTAGATGTGG 58.953 37.037 0.00 0.00 0.00 4.17
3846 14227 9.449719 AAGTAGGGAACAAAGTTATTAGATGTG 57.550 33.333 0.00 0.00 0.00 3.21
3871 14252 4.003584 AGTAGGCTTGGGTATGACCTAA 57.996 45.455 0.00 0.00 38.64 2.69
3872 14253 3.700863 AGTAGGCTTGGGTATGACCTA 57.299 47.619 0.00 0.00 38.64 3.08
3873 14254 2.570386 AGTAGGCTTGGGTATGACCT 57.430 50.000 0.00 0.00 38.64 3.85
3874 14255 3.071167 CCTAAGTAGGCTTGGGTATGACC 59.929 52.174 0.00 0.00 45.11 4.02
3875 14256 4.338379 CCTAAGTAGGCTTGGGTATGAC 57.662 50.000 0.00 0.00 45.11 3.06
3891 14272 9.326413 CTAATGTAACTTTGGGTATGACCTAAG 57.674 37.037 9.13 9.13 45.14 2.18
3892 14273 9.049050 TCTAATGTAACTTTGGGTATGACCTAA 57.951 33.333 0.00 0.00 36.92 2.69
3896 14277 6.821665 TGCTCTAATGTAACTTTGGGTATGAC 59.178 38.462 0.00 0.00 0.00 3.06
3900 14281 5.013287 TGGTGCTCTAATGTAACTTTGGGTA 59.987 40.000 0.00 0.00 0.00 3.69
3901 14282 4.202524 TGGTGCTCTAATGTAACTTTGGGT 60.203 41.667 0.00 0.00 0.00 4.51
3902 14283 4.156008 GTGGTGCTCTAATGTAACTTTGGG 59.844 45.833 0.00 0.00 0.00 4.12
3905 14286 7.524717 AAATGTGGTGCTCTAATGTAACTTT 57.475 32.000 0.00 0.00 0.00 2.66
3906 14287 7.524717 AAAATGTGGTGCTCTAATGTAACTT 57.475 32.000 0.00 0.00 0.00 2.66
3911 14292 8.052748 TCCTTATAAAATGTGGTGCTCTAATGT 58.947 33.333 0.00 0.00 0.00 2.71
3913 14294 7.502561 GGTCCTTATAAAATGTGGTGCTCTAAT 59.497 37.037 0.00 0.00 0.00 1.73
3914 14295 6.826741 GGTCCTTATAAAATGTGGTGCTCTAA 59.173 38.462 0.00 0.00 0.00 2.10
3917 14298 4.947388 TGGTCCTTATAAAATGTGGTGCTC 59.053 41.667 0.00 0.00 0.00 4.26
3918 14299 4.929479 TGGTCCTTATAAAATGTGGTGCT 58.071 39.130 0.00 0.00 0.00 4.40
3920 14301 9.184523 TCTTAATGGTCCTTATAAAATGTGGTG 57.815 33.333 0.00 0.00 0.00 4.17
3921 14302 9.762381 TTCTTAATGGTCCTTATAAAATGTGGT 57.238 29.630 0.00 0.00 0.00 4.16
4097 14641 4.000988 TCTATTTTCCTGTTGCCTTCGAC 58.999 43.478 0.00 0.00 0.00 4.20
4146 14690 0.692476 TGAGCCACTATGCACAACCT 59.308 50.000 0.00 0.00 0.00 3.50
4170 14714 2.888834 TTTGAAGGCAAAGAAGGCAC 57.111 45.000 0.00 0.00 38.99 5.01
4287 14831 2.932663 CGTGGACCACATGAAGCTT 58.067 52.632 24.18 0.00 38.41 3.74


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

AutoCloner maintained by Alex Coulton.