Multiple sequence alignment - TraesCS7D01G051300

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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 TraesCS7D01G051300 chr7D 100.000 3376 0 0 1 3376 26733764 26730389 0.000000e+00 6235.0
1 TraesCS7D01G051300 chr7D 80.087 231 36 8 2950 3178 545306017 545306239 2.700000e-36 163.0
2 TraesCS7D01G051300 chr7D 92.708 96 6 1 2587 2681 506141361 506141456 1.630000e-28 137.0
3 TraesCS7D01G051300 chr7D 90.667 75 6 1 469 542 30043677 30043751 7.710000e-17 99.0
4 TraesCS7D01G051300 chr7D 85.393 89 10 2 469 556 485093711 485093625 4.640000e-14 89.8
5 TraesCS7D01G051300 chr4A 89.638 1853 153 22 741 2588 710774022 710772204 0.000000e+00 2322.0
6 TraesCS7D01G051300 chr4A 82.949 434 43 17 1 415 710775279 710774858 2.480000e-96 363.0
7 TraesCS7D01G051300 chr4A 93.627 204 8 2 3172 3374 710771407 710771208 1.970000e-77 300.0
8 TraesCS7D01G051300 chr4A 79.545 440 53 23 41 467 710774587 710774172 2.570000e-71 279.0
9 TraesCS7D01G051300 chr4A 87.967 241 10 7 2616 2855 710771870 710771648 2.000000e-67 267.0
10 TraesCS7D01G051300 chr4A 84.615 273 29 8 8 279 710779403 710779143 3.340000e-65 259.0
11 TraesCS7D01G051300 chr4A 88.152 211 20 4 52 261 710781756 710781550 2.600000e-61 246.0
12 TraesCS7D01G051300 chr4A 90.751 173 14 2 546 717 710774771 710774600 2.620000e-56 230.0
13 TraesCS7D01G051300 chr4A 81.977 172 15 10 313 471 710779147 710778979 7.600000e-27 132.0
14 TraesCS7D01G051300 chr4A 89.024 82 8 1 469 549 633353794 633353713 2.140000e-17 100.0
15 TraesCS7D01G051300 chr7A 90.836 1484 103 18 1457 2930 27106786 27105326 0.000000e+00 1956.0
16 TraesCS7D01G051300 chr7A 88.251 749 73 11 729 1470 27107549 27106809 0.000000e+00 881.0
17 TraesCS7D01G051300 chr7A 82.752 487 46 11 2926 3376 27105009 27104525 1.890000e-107 399.0
18 TraesCS7D01G051300 chr7A 83.333 342 40 7 8 348 27108883 27108558 1.970000e-77 300.0
19 TraesCS7D01G051300 chr7A 89.595 173 15 2 546 717 27108377 27108207 2.040000e-52 217.0
20 TraesCS7D01G051300 chr7A 83.036 224 24 7 43 263 27108192 27107980 1.240000e-44 191.0
21 TraesCS7D01G051300 chr7A 90.099 101 8 2 2590 2689 129876934 129877033 2.730000e-26 130.0
22 TraesCS7D01G051300 chr7A 79.851 134 23 4 2959 3089 509759853 509759721 9.970000e-16 95.3
23 TraesCS7D01G051300 chr6A 91.346 104 7 2 2585 2687 158470315 158470213 1.260000e-29 141.0
24 TraesCS7D01G051300 chr6A 87.963 108 10 3 2595 2700 432513526 432513632 1.270000e-24 124.0
25 TraesCS7D01G051300 chr1D 92.708 96 5 2 2595 2689 477184321 477184227 1.630000e-28 137.0
26 TraesCS7D01G051300 chr1D 91.667 96 6 2 2595 2688 320386828 320386733 7.600000e-27 132.0
27 TraesCS7D01G051300 chr2B 92.632 95 4 3 2594 2686 398321440 398321533 2.110000e-27 134.0
28 TraesCS7D01G051300 chr2B 87.931 116 9 4 2593 2704 575874901 575875015 7.600000e-27 132.0
29 TraesCS7D01G051300 chr2B 89.873 79 7 1 469 546 795585035 795584957 2.140000e-17 100.0
30 TraesCS7D01G051300 chr4D 81.595 163 26 4 2958 3118 451639583 451639743 7.600000e-27 132.0
31 TraesCS7D01G051300 chr5B 84.091 132 16 4 2958 3086 706451726 706451855 4.570000e-24 122.0
32 TraesCS7D01G051300 chr5B 90.667 75 6 1 469 542 529986363 529986289 7.710000e-17 99.0
33 TraesCS7D01G051300 chr3A 82.090 134 19 4 2987 3119 708811351 708811480 3.560000e-20 110.0
34 TraesCS7D01G051300 chr2D 90.667 75 6 1 469 542 300887364 300887438 7.710000e-17 99.0
35 TraesCS7D01G051300 chr2D 89.474 76 6 2 469 542 636644966 636645041 9.970000e-16 95.3
36 TraesCS7D01G051300 chr2D 77.108 166 34 4 2956 3119 643007730 643007567 3.590000e-15 93.5
37 TraesCS7D01G051300 chr2D 85.393 89 11 2 469 556 646425247 646425334 1.290000e-14 91.6
38 TraesCS7D01G051300 chr5A 86.047 86 11 1 469 554 621474398 621474482 1.290000e-14 91.6
39 TraesCS7D01G051300 chr3B 80.315 127 20 1 3041 3167 39446407 39446528 1.290000e-14 91.6
40 TraesCS7D01G051300 chr3B 86.420 81 10 1 2990 3069 666473218 666473298 1.670000e-13 87.9
41 TraesCS7D01G051300 chr6D 77.863 131 22 4 3049 3178 289514813 289514689 1.300000e-09 75.0


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 TraesCS7D01G051300 chr7D 26730389 26733764 3375 True 6235.000000 6235 100.000000 1 3376 1 chr7D.!!$R1 3375
1 TraesCS7D01G051300 chr4A 710771208 710781756 10548 True 488.666667 2322 86.580111 1 3374 9 chr4A.!!$R2 3373
2 TraesCS7D01G051300 chr7A 27104525 27108883 4358 True 657.333333 1956 86.300500 8 3376 6 chr7A.!!$R2 3368

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
367 6859 0.737367 ACGGACATGTCAGCACGATG 60.737 55.0 26.47 8.25 0.00 3.84 F
1915 9124 0.033601 ATGACCTCGTGGCTCTCTCT 60.034 55.0 2.76 0.00 36.63 3.10 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1972 9181 0.034756 CCATTGTCGTGTCCACCTCA 59.965 55.0 0.0 0.0 0.0 3.86 R
3335 11231 0.327924 ATCCGGGAAGCATGTGACAA 59.672 50.0 0.0 0.0 0.0 3.18 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
75 6552 8.842358 TTAAGACAACCGTCAAATTCTCTATT 57.158 30.769 0.00 0.00 45.23 1.73
84 6561 8.237267 ACCGTCAAATTCTCTATTGAAATCAAC 58.763 33.333 0.00 0.00 38.86 3.18
137 6614 1.687660 TCAACCAGTACGCCTACACAA 59.312 47.619 0.00 0.00 0.00 3.33
139 6616 3.510753 TCAACCAGTACGCCTACACAATA 59.489 43.478 0.00 0.00 0.00 1.90
165 6642 1.009829 CGATTAGCTGTGTTGCTCCC 58.990 55.000 0.00 0.00 42.97 4.30
175 6652 2.040947 TGTGTTGCTCCCCATGTTCATA 59.959 45.455 0.00 0.00 0.00 2.15
180 6657 2.575735 TGCTCCCCATGTTCATAGACAA 59.424 45.455 0.00 0.00 32.47 3.18
181 6658 3.010027 TGCTCCCCATGTTCATAGACAAA 59.990 43.478 0.00 0.00 32.47 2.83
182 6659 4.016444 GCTCCCCATGTTCATAGACAAAA 58.984 43.478 0.00 0.00 32.47 2.44
228 6706 8.902806 GTGATTATTGACTCCAAATATTCCACA 58.097 33.333 0.00 0.00 35.67 4.17
284 6762 9.642343 TGATTAGTAGTTACATACATCTGTCCT 57.358 33.333 0.00 0.00 0.00 3.85
289 6767 9.476928 AGTAGTTACATACATCTGTCCTAAACT 57.523 33.333 0.00 0.00 0.00 2.66
290 6768 9.733219 GTAGTTACATACATCTGTCCTAAACTC 57.267 37.037 0.00 0.00 0.00 3.01
291 6769 7.783042 AGTTACATACATCTGTCCTAAACTCC 58.217 38.462 0.00 0.00 0.00 3.85
292 6770 7.620094 AGTTACATACATCTGTCCTAAACTCCT 59.380 37.037 0.00 0.00 0.00 3.69
305 6783 9.442062 TGTCCTAAACTCCTAATACATCCAATA 57.558 33.333 0.00 0.00 0.00 1.90
331 6809 3.953612 TGCACATCAAAGGTGTCTTTTCT 59.046 39.130 0.00 0.00 40.92 2.52
332 6810 4.402155 TGCACATCAAAGGTGTCTTTTCTT 59.598 37.500 0.00 0.00 40.92 2.52
334 6812 5.915196 GCACATCAAAGGTGTCTTTTCTTAC 59.085 40.000 0.00 0.00 40.92 2.34
367 6859 0.737367 ACGGACATGTCAGCACGATG 60.737 55.000 26.47 8.25 0.00 3.84
392 6896 2.087646 GCTTGTGATCTCCAAGGAACC 58.912 52.381 20.22 6.58 39.72 3.62
408 6912 4.086457 AGGAACCTTTTGTGAAGTTGTGT 58.914 39.130 0.00 0.00 0.00 3.72
415 6927 5.687285 CCTTTTGTGAAGTTGTGTGATTAGC 59.313 40.000 0.00 0.00 0.00 3.09
432 6944 7.501515 GTGATTAGCACAACACAATTTTTAGC 58.498 34.615 0.00 0.00 46.91 3.09
433 6945 7.382218 GTGATTAGCACAACACAATTTTTAGCT 59.618 33.333 0.00 0.00 46.91 3.32
434 6946 7.925483 TGATTAGCACAACACAATTTTTAGCTT 59.075 29.630 0.00 0.00 0.00 3.74
435 6947 5.971895 AGCACAACACAATTTTTAGCTTG 57.028 34.783 0.00 0.00 0.00 4.01
436 6948 5.418676 AGCACAACACAATTTTTAGCTTGT 58.581 33.333 0.00 0.00 36.04 3.16
452 6964 0.749649 TTGTGCAACCCATGTTCACC 59.250 50.000 0.00 0.00 34.45 4.02
461 6973 1.608055 CCATGTTCACCTGCAAGACA 58.392 50.000 0.00 0.00 34.07 3.41
462 6974 1.955778 CCATGTTCACCTGCAAGACAA 59.044 47.619 0.00 0.00 34.07 3.18
471 6983 4.887071 TCACCTGCAAGACAAGTTTTATGT 59.113 37.500 0.00 0.00 34.07 2.29
474 6986 7.023575 CACCTGCAAGACAAGTTTTATGTATC 58.976 38.462 0.00 0.00 34.07 2.24
476 6988 7.094634 ACCTGCAAGACAAGTTTTATGTATCTG 60.095 37.037 0.00 0.00 34.07 2.90
478 6990 6.939730 TGCAAGACAAGTTTTATGTATCTGGA 59.060 34.615 0.00 0.00 0.00 3.86
479 6991 7.094805 TGCAAGACAAGTTTTATGTATCTGGAC 60.095 37.037 0.00 0.00 0.00 4.02
480 6992 7.094805 GCAAGACAAGTTTTATGTATCTGGACA 60.095 37.037 0.00 0.00 0.00 4.02
482 6994 6.590292 AGACAAGTTTTATGTATCTGGACACG 59.410 38.462 0.00 0.00 30.52 4.49
483 6995 6.228258 ACAAGTTTTATGTATCTGGACACGT 58.772 36.000 0.00 0.00 30.52 4.49
488 7000 9.444600 AGTTTTATGTATCTGGACACGTTTTAT 57.555 29.630 0.00 0.00 30.52 1.40
491 7003 8.780846 TTATGTATCTGGACACGTTTTATTGT 57.219 30.769 0.00 0.00 30.52 2.71
492 7004 7.681939 ATGTATCTGGACACGTTTTATTGTT 57.318 32.000 0.00 0.00 30.52 2.83
494 7006 8.246908 TGTATCTGGACACGTTTTATTGTTAG 57.753 34.615 0.00 0.00 0.00 2.34
495 7007 8.089597 TGTATCTGGACACGTTTTATTGTTAGA 58.910 33.333 0.00 0.00 0.00 2.10
498 7010 8.470040 TCTGGACACGTTTTATTGTTAGATAC 57.530 34.615 0.00 0.00 0.00 2.24
499 7011 8.089597 TCTGGACACGTTTTATTGTTAGATACA 58.910 33.333 0.00 0.00 34.12 2.29
500 7012 8.780846 TGGACACGTTTTATTGTTAGATACAT 57.219 30.769 0.00 0.00 36.44 2.29
502 7014 9.698617 GGACACGTTTTATTGTTAGATACATTC 57.301 33.333 0.00 0.00 36.44 2.67
503 7015 9.405083 GACACGTTTTATTGTTAGATACATTCG 57.595 33.333 0.00 0.00 36.44 3.34
537 7049 9.190317 ACAAATCTAAGATAAGAATTTGGGACC 57.810 33.333 9.98 0.00 33.29 4.46
538 7050 8.345565 CAAATCTAAGATAAGAATTTGGGACCG 58.654 37.037 0.00 0.00 0.00 4.79
539 7051 6.801718 TCTAAGATAAGAATTTGGGACCGA 57.198 37.500 0.00 0.00 0.00 4.69
540 7052 6.817184 TCTAAGATAAGAATTTGGGACCGAG 58.183 40.000 0.00 0.00 0.00 4.63
541 7053 4.423625 AGATAAGAATTTGGGACCGAGG 57.576 45.455 0.00 0.00 0.00 4.63
542 7054 3.780850 AGATAAGAATTTGGGACCGAGGT 59.219 43.478 0.00 0.00 0.00 3.85
543 7055 4.966805 AGATAAGAATTTGGGACCGAGGTA 59.033 41.667 0.00 0.00 0.00 3.08
544 7056 5.427481 AGATAAGAATTTGGGACCGAGGTAA 59.573 40.000 0.00 0.00 0.00 2.85
545 7057 4.586306 AAGAATTTGGGACCGAGGTAAT 57.414 40.909 0.00 0.00 0.00 1.89
546 7058 5.703730 AAGAATTTGGGACCGAGGTAATA 57.296 39.130 0.00 0.00 0.00 0.98
547 7059 5.032327 AGAATTTGGGACCGAGGTAATAC 57.968 43.478 0.00 0.00 0.00 1.89
548 7060 4.720273 AGAATTTGGGACCGAGGTAATACT 59.280 41.667 0.00 0.00 0.00 2.12
549 7061 5.901276 AGAATTTGGGACCGAGGTAATACTA 59.099 40.000 0.00 0.00 0.00 1.82
550 7062 6.384886 AGAATTTGGGACCGAGGTAATACTAA 59.615 38.462 0.00 0.00 0.00 2.24
590 7102 7.254353 GGGTATTCTAAAGTGTTTTAGCTAGCG 60.254 40.741 9.55 0.00 43.52 4.26
602 7115 6.127814 TGTTTTAGCTAGCGTACAGTATGACT 60.128 38.462 9.55 3.46 39.69 3.41
636 7149 4.803088 TCAACGAAAACTTCAAAATGCAGG 59.197 37.500 0.00 0.00 0.00 4.85
639 7152 3.983344 CGAAAACTTCAAAATGCAGGGAG 59.017 43.478 0.00 0.00 0.00 4.30
644 7157 2.559698 TCAAAATGCAGGGAGAACGA 57.440 45.000 0.00 0.00 0.00 3.85
702 7215 8.598075 GGACAAAGAAAGCAGCAATTAATAATG 58.402 33.333 0.00 0.00 0.00 1.90
704 7217 9.362539 ACAAAGAAAGCAGCAATTAATAATGAG 57.637 29.630 0.00 0.00 0.00 2.90
706 7219 7.344095 AGAAAGCAGCAATTAATAATGAGCT 57.656 32.000 7.20 7.20 34.57 4.09
713 7226 6.700081 CAGCAATTAATAATGAGCTTGCATGT 59.300 34.615 9.55 0.00 40.98 3.21
743 7902 3.880490 ACAAAATAGCACAAAGGACGTCA 59.120 39.130 18.91 0.00 0.00 4.35
746 7905 4.946784 AATAGCACAAAGGACGTCATTC 57.053 40.909 16.69 3.54 0.00 2.67
755 7914 5.178797 CAAAGGACGTCATTCTAGGTCAAT 58.821 41.667 16.69 0.00 36.27 2.57
758 7917 5.903810 AGGACGTCATTCTAGGTCAATTAC 58.096 41.667 18.91 0.00 36.27 1.89
763 7922 7.383687 ACGTCATTCTAGGTCAATTACTTCAA 58.616 34.615 0.00 0.00 0.00 2.69
765 7924 8.543774 CGTCATTCTAGGTCAATTACTTCAATC 58.456 37.037 0.00 0.00 0.00 2.67
775 7934 6.742718 GTCAATTACTTCAATCATCACAACCG 59.257 38.462 0.00 0.00 0.00 4.44
782 7941 5.295431 TCAATCATCACAACCGTCAAATC 57.705 39.130 0.00 0.00 0.00 2.17
785 7944 4.944962 TCATCACAACCGTCAAATCATC 57.055 40.909 0.00 0.00 0.00 2.92
788 7947 5.812127 TCATCACAACCGTCAAATCATCTAG 59.188 40.000 0.00 0.00 0.00 2.43
824 7983 1.876156 GCACTAGGATAGGCATGCAAC 59.124 52.381 21.36 2.42 44.97 4.17
844 8003 2.224185 ACTGATGTCAACGCCTACACAA 60.224 45.455 0.00 0.00 0.00 3.33
845 8004 3.002791 CTGATGTCAACGCCTACACAAT 58.997 45.455 0.00 0.00 0.00 2.71
846 8005 3.407698 TGATGTCAACGCCTACACAATT 58.592 40.909 0.00 0.00 0.00 2.32
848 8007 2.147958 TGTCAACGCCTACACAATTCC 58.852 47.619 0.00 0.00 0.00 3.01
857 8016 4.509970 CGCCTACACAATTCCGAATGATTA 59.490 41.667 0.00 0.00 0.00 1.75
869 8028 3.871006 CCGAATGATTAGCTGTGTTGCTA 59.129 43.478 0.00 0.00 43.74 3.49
891 8050 4.079253 ACCCATGTTCATAGACAACAACC 58.921 43.478 0.00 0.00 37.30 3.77
892 8051 4.078537 CCCATGTTCATAGACAACAACCA 58.921 43.478 0.00 0.00 37.30 3.67
910 8069 8.892723 CAACAACCAGCTAATATTCTTGTGATA 58.107 33.333 0.00 0.00 0.00 2.15
945 8106 7.255139 CCAAATATTCCTCAAATCCCTTACGTC 60.255 40.741 0.00 0.00 0.00 4.34
962 8123 7.094549 CCCTTACGTCAATTTAAATGTCCAAGA 60.095 37.037 0.39 0.00 0.00 3.02
1066 8232 5.870978 GCATACATTCTTTCAGGCACATTTT 59.129 36.000 0.00 0.00 0.00 1.82
1090 8256 5.072741 CCACCCATTTGATACTATCCCTTG 58.927 45.833 0.00 0.00 0.00 3.61
1100 8266 6.046593 TGATACTATCCCTTGTTGTTTAGCG 58.953 40.000 0.00 0.00 0.00 4.26
1101 8267 4.281898 ACTATCCCTTGTTGTTTAGCGT 57.718 40.909 0.00 0.00 0.00 5.07
1116 8282 2.371910 AGCGTAGAACTTCAGGAAGC 57.628 50.000 8.89 0.00 41.99 3.86
1232 8398 1.445582 CTACAGTTCGTCGTGCCCC 60.446 63.158 0.00 0.00 0.00 5.80
1334 8500 2.225491 GCACTTCCACGATTGCTTTGTA 59.775 45.455 0.00 0.00 32.00 2.41
1350 8516 7.618502 TGCTTTGTAATGGTACGTAATCAAT 57.381 32.000 0.00 0.00 32.40 2.57
1366 8532 9.620660 ACGTAATCAATTTCTGGTTTTCATAAC 57.379 29.630 0.00 0.00 28.76 1.89
1552 8761 2.289547 GCGTTGAGCTAACAACTTTGGA 59.710 45.455 14.34 0.00 45.19 3.53
1604 8813 1.075698 TCCTTCTGGACTCCTCGAACT 59.924 52.381 0.00 0.00 37.46 3.01
1816 9025 2.100605 ATGTGTCGAAAGCCTTCTCC 57.899 50.000 0.00 0.00 0.00 3.71
1820 9029 1.071567 GTCGAAAGCCTTCTCCGTCG 61.072 60.000 0.00 0.00 0.00 5.12
1861 9070 1.848652 TCTTCGGAATCGAGGACCTT 58.151 50.000 0.00 0.00 44.63 3.50
1894 9103 4.743018 CGGAAGGGGCTCAATGTT 57.257 55.556 0.00 0.00 0.00 2.71
1897 9106 1.683011 CGGAAGGGGCTCAATGTTGAT 60.683 52.381 0.00 0.00 36.46 2.57
1915 9124 0.033601 ATGACCTCGTGGCTCTCTCT 60.034 55.000 2.76 0.00 36.63 3.10
1939 9148 2.347114 CACTCCATCGGTGTGGCA 59.653 61.111 7.22 0.00 41.69 4.92
1972 9181 2.528378 ACCAACCGGCTGTACCCT 60.528 61.111 0.00 0.00 34.57 4.34
1987 9196 2.207229 CCCTGAGGTGGACACGACA 61.207 63.158 0.00 0.00 0.00 4.35
1994 9203 0.034896 GGTGGACACGACAATGGACT 59.965 55.000 0.00 0.00 0.00 3.85
1996 9205 0.320374 TGGACACGACAATGGACTCC 59.680 55.000 0.00 0.00 0.00 3.85
2032 9241 0.394938 TAAAGAAGACGTGCCCAGCA 59.605 50.000 0.00 0.00 35.60 4.41
2173 9382 2.279851 CTCACCCGCAACGACACA 60.280 61.111 0.00 0.00 0.00 3.72
2200 9409 2.427410 GTGCAGGAAAACGCTGCG 60.427 61.111 21.91 21.91 46.05 5.18
2242 9451 3.418913 TTTGCGGCGTCGATGGTG 61.419 61.111 16.53 0.00 39.00 4.17
2303 9512 0.606604 GGTCAGGAAGTTCTGCCGTA 59.393 55.000 2.25 0.00 34.91 4.02
2413 9622 1.004918 ACAGCCGGTCAGTTACTGC 60.005 57.895 7.61 2.99 32.61 4.40
2488 9697 8.675504 TGTAACCTCAAAGAACGAATTTTTACA 58.324 29.630 0.00 0.00 0.00 2.41
2494 9703 9.612620 CTCAAAGAACGAATTTTTACATAGCTT 57.387 29.630 0.00 0.00 0.00 3.74
2532 9742 5.461032 TTTAATTGCCGTTGATTTCCTGT 57.539 34.783 0.00 0.00 0.00 4.00
2580 9790 2.737783 CGCGGGTGTGTTTGATACTTTA 59.262 45.455 0.00 0.00 0.00 1.85
2674 10198 7.649715 ACGTCTTATATTATAGGATGGAGGGA 58.350 38.462 15.54 0.00 0.00 4.20
2726 10253 4.532126 ACTGAGATAGACAAACCATGGACA 59.468 41.667 21.47 0.00 0.00 4.02
2761 10288 1.651240 GCTGTGACATGCCAGCGATT 61.651 55.000 14.46 0.00 43.99 3.34
2819 10346 2.804931 GGTTTGCGGCGTCAATGC 60.805 61.111 9.37 9.14 0.00 3.56
2820 10347 2.050533 GTTTGCGGCGTCAATGCA 60.051 55.556 9.37 0.00 36.28 3.96
2821 10348 1.444212 GTTTGCGGCGTCAATGCAT 60.444 52.632 9.37 0.00 38.60 3.96
2822 10349 1.444042 TTTGCGGCGTCAATGCATG 60.444 52.632 9.37 0.00 38.60 4.06
2862 10389 1.450312 GTGCTCACGGGGATGAAGG 60.450 63.158 0.00 0.00 0.00 3.46
2879 10406 0.768221 AGGGGCAGGAAGTTCTGTCA 60.768 55.000 2.25 0.00 40.85 3.58
2905 10432 7.715657 TGCCATAAACAGCTAAATCATAAAGG 58.284 34.615 0.00 0.00 0.00 3.11
2964 10817 3.587797 TGACGAACTATGAACCCTGAC 57.412 47.619 0.00 0.00 0.00 3.51
2974 10827 1.765904 TGAACCCTGACAAGTGCTACA 59.234 47.619 0.00 0.00 0.00 2.74
2995 10848 0.246635 GTCAGGTACGAGCACATGGT 59.753 55.000 0.00 0.00 31.29 3.55
3000 10853 2.565834 AGGTACGAGCACATGGTAACTT 59.434 45.455 0.00 0.00 36.84 2.66
3009 10862 4.518970 AGCACATGGTAACTTCGAACATTT 59.481 37.500 0.00 0.00 37.61 2.32
3034 10887 1.735700 CGGCAAGTTAGTGATGCGAGA 60.736 52.381 0.00 0.00 40.94 4.04
3046 10899 5.730550 AGTGATGCGAGAATGGTAACTTTA 58.269 37.500 0.00 0.00 33.47 1.85
3056 10909 7.384115 CGAGAATGGTAACTTTAGTTGTCAAGA 59.616 37.037 5.41 0.00 38.90 3.02
3078 10931 5.533903 AGAATGACAACTTTCATGCTTCAGT 59.466 36.000 0.00 0.00 38.58 3.41
3087 10940 9.640974 CAACTTTCATGCTTCAGTTTATTTTTG 57.359 29.630 0.00 0.00 0.00 2.44
3090 10943 7.621832 TTCATGCTTCAGTTTATTTTTGACG 57.378 32.000 0.00 0.00 0.00 4.35
3104 10957 5.987777 TTTTTGACGGAAACTTATCGTGA 57.012 34.783 0.00 0.00 37.25 4.35
3109 10962 4.082408 TGACGGAAACTTATCGTGAGTCAT 60.082 41.667 0.00 0.00 37.25 3.06
3126 10979 5.009911 TGAGTCATTGAAATTTGTCACCCTG 59.990 40.000 0.00 0.00 0.00 4.45
3127 10980 4.281688 AGTCATTGAAATTTGTCACCCTGG 59.718 41.667 0.00 0.00 0.00 4.45
3132 11009 1.632589 AATTTGTCACCCTGGCCTTC 58.367 50.000 3.32 0.00 0.00 3.46
3183 11060 1.220749 GCCGGAGTGCCACTTATCA 59.779 57.895 5.05 0.00 0.00 2.15
3186 11082 2.643551 CCGGAGTGCCACTTATCATTT 58.356 47.619 0.00 0.00 0.00 2.32
3335 11231 2.705658 TGACAGACCATGGACAAAGTCT 59.294 45.455 21.47 6.61 40.15 3.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 3.666902 CGGTTGTGCAACTAACAGCATAC 60.667 47.826 13.78 0.00 43.44 2.39
2 3 2.482336 CGGTTGTGCAACTAACAGCATA 59.518 45.455 13.78 0.00 43.44 3.14
3 4 1.266718 CGGTTGTGCAACTAACAGCAT 59.733 47.619 13.78 0.00 43.44 3.79
4 5 0.660488 CGGTTGTGCAACTAACAGCA 59.340 50.000 13.78 0.00 40.94 4.41
5 6 0.941542 TCGGTTGTGCAACTAACAGC 59.058 50.000 13.78 0.00 40.94 4.40
6 7 1.070843 CGTCGGTTGTGCAACTAACAG 60.071 52.381 13.78 7.50 40.94 3.16
12 2359 2.027628 AACGACGTCGGTTGTGCAAC 62.028 55.000 37.89 6.52 39.94 4.17
14 2361 2.202770 AACGACGTCGGTTGTGCA 60.203 55.556 37.89 0.00 39.94 4.57
75 6552 5.046591 CCTGTCCTAGTACCAGTTGATTTCA 60.047 44.000 0.00 0.00 0.00 2.69
84 6561 1.202580 GCATGCCTGTCCTAGTACCAG 60.203 57.143 6.36 0.00 0.00 4.00
137 6614 6.094048 AGCAACACAGCTAATCGTTCAAATAT 59.906 34.615 0.00 0.00 44.50 1.28
139 6616 4.216257 AGCAACACAGCTAATCGTTCAAAT 59.784 37.500 0.00 0.00 44.50 2.32
263 6741 9.476928 AGTTTAGGACAGATGTATGTAACTACT 57.523 33.333 0.00 0.00 32.25 2.57
264 6742 9.733219 GAGTTTAGGACAGATGTATGTAACTAC 57.267 37.037 0.00 0.00 32.25 2.73
267 6745 7.783042 AGGAGTTTAGGACAGATGTATGTAAC 58.217 38.462 0.00 0.00 32.25 2.50
274 6752 7.973048 TGTATTAGGAGTTTAGGACAGATGT 57.027 36.000 0.00 0.00 0.00 3.06
280 6758 9.708092 GTATTGGATGTATTAGGAGTTTAGGAC 57.292 37.037 0.00 0.00 0.00 3.85
285 6763 8.850156 GCAATGTATTGGATGTATTAGGAGTTT 58.150 33.333 6.72 0.00 38.21 2.66
286 6764 7.998383 TGCAATGTATTGGATGTATTAGGAGTT 59.002 33.333 6.72 0.00 38.21 3.01
287 6765 7.445402 GTGCAATGTATTGGATGTATTAGGAGT 59.555 37.037 6.72 0.00 40.23 3.85
288 6766 7.445096 TGTGCAATGTATTGGATGTATTAGGAG 59.555 37.037 6.72 0.00 40.23 3.69
289 6767 7.286313 TGTGCAATGTATTGGATGTATTAGGA 58.714 34.615 6.72 0.00 40.23 2.94
290 6768 7.509141 TGTGCAATGTATTGGATGTATTAGG 57.491 36.000 6.72 0.00 40.23 2.69
291 6769 8.785946 TGATGTGCAATGTATTGGATGTATTAG 58.214 33.333 6.72 0.00 40.23 1.73
292 6770 8.688747 TGATGTGCAATGTATTGGATGTATTA 57.311 30.769 6.72 0.00 40.23 0.98
305 6783 3.225104 AGACACCTTTGATGTGCAATGT 58.775 40.909 0.00 0.00 37.22 2.71
331 6809 6.988622 TGTCCGTTTCTTCTTCTTTTGTAA 57.011 33.333 0.00 0.00 0.00 2.41
332 6810 6.540914 ACATGTCCGTTTCTTCTTCTTTTGTA 59.459 34.615 0.00 0.00 0.00 2.41
334 6812 5.821204 ACATGTCCGTTTCTTCTTCTTTTG 58.179 37.500 0.00 0.00 0.00 2.44
350 6842 1.091771 CCCATCGTGCTGACATGTCC 61.092 60.000 22.85 9.16 34.22 4.02
367 6859 0.322816 TTGGAGATCACAAGCAGCCC 60.323 55.000 0.00 0.00 0.00 5.19
373 6877 3.710209 AGGTTCCTTGGAGATCACAAG 57.290 47.619 18.20 18.20 43.73 3.16
392 6896 6.197096 GTGCTAATCACACAACTTCACAAAAG 59.803 38.462 0.00 0.00 44.98 2.27
408 6912 7.432869 AGCTAAAAATTGTGTTGTGCTAATCA 58.567 30.769 0.00 0.00 0.00 2.57
429 6941 1.885887 GAACATGGGTTGCACAAGCTA 59.114 47.619 11.89 6.80 42.74 3.32
430 6942 0.675633 GAACATGGGTTGCACAAGCT 59.324 50.000 11.89 0.00 42.74 3.74
432 6944 1.269726 GGTGAACATGGGTTGCACAAG 60.270 52.381 0.00 0.00 37.36 3.16
433 6945 0.749649 GGTGAACATGGGTTGCACAA 59.250 50.000 0.00 0.00 37.36 3.33
434 6946 0.106268 AGGTGAACATGGGTTGCACA 60.106 50.000 0.00 0.00 37.36 4.57
435 6947 0.314935 CAGGTGAACATGGGTTGCAC 59.685 55.000 0.00 0.00 37.36 4.57
436 6948 1.462731 GCAGGTGAACATGGGTTGCA 61.463 55.000 0.00 0.00 37.36 4.08
437 6949 1.290009 GCAGGTGAACATGGGTTGC 59.710 57.895 0.00 0.00 37.36 4.17
438 6950 1.000060 CTTGCAGGTGAACATGGGTTG 60.000 52.381 0.00 0.00 37.36 3.77
439 6951 1.133513 TCTTGCAGGTGAACATGGGTT 60.134 47.619 0.00 0.00 40.76 4.11
452 6964 7.119699 TCCAGATACATAAAACTTGTCTTGCAG 59.880 37.037 0.00 0.00 0.00 4.41
461 6973 7.739498 AAACGTGTCCAGATACATAAAACTT 57.261 32.000 0.00 0.00 0.00 2.66
462 6974 7.739498 AAAACGTGTCCAGATACATAAAACT 57.261 32.000 0.00 0.00 0.00 2.66
474 6986 8.246908 TGTATCTAACAATAAAACGTGTCCAG 57.753 34.615 0.00 0.00 34.29 3.86
476 6988 9.698617 GAATGTATCTAACAATAAAACGTGTCC 57.301 33.333 0.00 0.00 42.70 4.02
478 6990 8.928733 ACGAATGTATCTAACAATAAAACGTGT 58.071 29.630 0.00 0.00 42.70 4.49
511 7023 9.190317 GGTCCCAAATTCTTATCTTAGATTTGT 57.810 33.333 0.00 0.00 0.00 2.83
512 7024 8.345565 CGGTCCCAAATTCTTATCTTAGATTTG 58.654 37.037 0.00 0.00 0.00 2.32
513 7025 8.272173 TCGGTCCCAAATTCTTATCTTAGATTT 58.728 33.333 0.00 0.00 0.00 2.17
514 7026 7.802117 TCGGTCCCAAATTCTTATCTTAGATT 58.198 34.615 0.00 0.00 0.00 2.40
515 7027 7.374975 TCGGTCCCAAATTCTTATCTTAGAT 57.625 36.000 0.00 0.00 0.00 1.98
516 7028 6.183360 CCTCGGTCCCAAATTCTTATCTTAGA 60.183 42.308 0.00 0.00 0.00 2.10
517 7029 5.992217 CCTCGGTCCCAAATTCTTATCTTAG 59.008 44.000 0.00 0.00 0.00 2.18
518 7030 5.427481 ACCTCGGTCCCAAATTCTTATCTTA 59.573 40.000 0.00 0.00 0.00 2.10
519 7031 4.227527 ACCTCGGTCCCAAATTCTTATCTT 59.772 41.667 0.00 0.00 0.00 2.40
520 7032 3.780850 ACCTCGGTCCCAAATTCTTATCT 59.219 43.478 0.00 0.00 0.00 1.98
521 7033 4.152284 ACCTCGGTCCCAAATTCTTATC 57.848 45.455 0.00 0.00 0.00 1.75
522 7034 5.703730 TTACCTCGGTCCCAAATTCTTAT 57.296 39.130 0.00 0.00 0.00 1.73
523 7035 5.703730 ATTACCTCGGTCCCAAATTCTTA 57.296 39.130 0.00 0.00 0.00 2.10
524 7036 4.586306 ATTACCTCGGTCCCAAATTCTT 57.414 40.909 0.00 0.00 0.00 2.52
525 7037 4.720273 AGTATTACCTCGGTCCCAAATTCT 59.280 41.667 0.00 0.00 0.00 2.40
526 7038 5.032327 AGTATTACCTCGGTCCCAAATTC 57.968 43.478 0.00 0.00 0.00 2.17
527 7039 6.564557 TTAGTATTACCTCGGTCCCAAATT 57.435 37.500 0.00 0.00 0.00 1.82
528 7040 6.758806 ATTAGTATTACCTCGGTCCCAAAT 57.241 37.500 0.00 0.00 0.00 2.32
529 7041 6.564557 AATTAGTATTACCTCGGTCCCAAA 57.435 37.500 0.00 0.00 0.00 3.28
530 7042 6.564557 AAATTAGTATTACCTCGGTCCCAA 57.435 37.500 0.00 0.00 0.00 4.12
531 7043 6.564557 AAAATTAGTATTACCTCGGTCCCA 57.435 37.500 0.00 0.00 0.00 4.37
532 7044 8.424133 TCTAAAAATTAGTATTACCTCGGTCCC 58.576 37.037 0.00 0.00 0.00 4.46
533 7045 9.473640 CTCTAAAAATTAGTATTACCTCGGTCC 57.526 37.037 0.00 0.00 0.00 4.46
539 7051 9.490379 CCGCATCTCTAAAAATTAGTATTACCT 57.510 33.333 0.00 0.00 0.00 3.08
540 7052 8.718734 CCCGCATCTCTAAAAATTAGTATTACC 58.281 37.037 0.00 0.00 0.00 2.85
541 7053 9.269453 ACCCGCATCTCTAAAAATTAGTATTAC 57.731 33.333 0.00 0.00 0.00 1.89
545 7057 9.485206 GAATACCCGCATCTCTAAAAATTAGTA 57.515 33.333 0.00 0.00 0.00 1.82
546 7058 8.211629 AGAATACCCGCATCTCTAAAAATTAGT 58.788 33.333 0.00 0.00 0.00 2.24
547 7059 8.608844 AGAATACCCGCATCTCTAAAAATTAG 57.391 34.615 0.00 0.00 0.00 1.73
549 7061 8.974060 TTAGAATACCCGCATCTCTAAAAATT 57.026 30.769 0.00 0.00 0.00 1.82
550 7062 8.974060 TTTAGAATACCCGCATCTCTAAAAAT 57.026 30.769 0.00 0.00 36.27 1.82
590 7102 8.997621 TGATGTTTCCTTAAGTCATACTGTAC 57.002 34.615 0.97 0.00 0.00 2.90
602 7115 7.763356 TGAAGTTTTCGTTGATGTTTCCTTAA 58.237 30.769 0.00 0.00 0.00 1.85
663 7176 9.342308 TGCTTTCTTTGTCCTAATAATATGGAG 57.658 33.333 0.00 0.00 0.00 3.86
668 7181 8.574251 TTGCTGCTTTCTTTGTCCTAATAATA 57.426 30.769 0.00 0.00 0.00 0.98
717 7230 6.977213 ACGTCCTTTGTGCTATTTTGTTATT 58.023 32.000 0.00 0.00 0.00 1.40
718 7231 6.205853 TGACGTCCTTTGTGCTATTTTGTTAT 59.794 34.615 14.12 0.00 0.00 1.89
720 7233 4.336993 TGACGTCCTTTGTGCTATTTTGTT 59.663 37.500 14.12 0.00 0.00 2.83
721 7234 3.880490 TGACGTCCTTTGTGCTATTTTGT 59.120 39.130 14.12 0.00 0.00 2.83
722 7235 4.481930 TGACGTCCTTTGTGCTATTTTG 57.518 40.909 14.12 0.00 0.00 2.44
725 7238 4.579869 AGAATGACGTCCTTTGTGCTATT 58.420 39.130 14.12 2.25 0.00 1.73
726 7239 4.207891 AGAATGACGTCCTTTGTGCTAT 57.792 40.909 14.12 0.00 0.00 2.97
727 7240 3.678056 AGAATGACGTCCTTTGTGCTA 57.322 42.857 14.12 0.00 0.00 3.49
735 7894 5.657302 AGTAATTGACCTAGAATGACGTCCT 59.343 40.000 14.12 5.54 0.00 3.85
736 7895 5.903810 AGTAATTGACCTAGAATGACGTCC 58.096 41.667 14.12 0.00 0.00 4.79
739 7898 7.827819 TTGAAGTAATTGACCTAGAATGACG 57.172 36.000 0.00 0.00 0.00 4.35
746 7905 8.722480 TGTGATGATTGAAGTAATTGACCTAG 57.278 34.615 0.00 0.00 0.00 3.02
755 7914 5.301555 TGACGGTTGTGATGATTGAAGTAA 58.698 37.500 0.00 0.00 0.00 2.24
758 7917 4.747540 TTGACGGTTGTGATGATTGAAG 57.252 40.909 0.00 0.00 0.00 3.02
763 7922 5.188434 AGATGATTTGACGGTTGTGATGAT 58.812 37.500 0.00 0.00 0.00 2.45
765 7924 4.952262 AGATGATTTGACGGTTGTGATG 57.048 40.909 0.00 0.00 0.00 3.07
767 7926 5.147330 ACTAGATGATTTGACGGTTGTGA 57.853 39.130 0.00 0.00 0.00 3.58
768 7927 8.135529 TCTATACTAGATGATTTGACGGTTGTG 58.864 37.037 0.00 0.00 0.00 3.33
782 7941 8.147058 AGTGCAGGTGAATTTCTATACTAGATG 58.853 37.037 0.00 0.00 34.22 2.90
785 7944 8.085296 CCTAGTGCAGGTGAATTTCTATACTAG 58.915 40.741 0.00 0.00 39.91 2.57
788 7947 6.817184 TCCTAGTGCAGGTGAATTTCTATAC 58.183 40.000 0.00 0.00 45.71 1.47
798 7957 1.342975 TGCCTATCCTAGTGCAGGTGA 60.343 52.381 0.00 0.00 45.71 4.02
803 7962 1.130777 TGCATGCCTATCCTAGTGCA 58.869 50.000 16.68 0.00 39.94 4.57
805 7964 3.136763 CAGTTGCATGCCTATCCTAGTG 58.863 50.000 16.68 1.52 0.00 2.74
818 7977 0.523072 GGCGTTGACATCAGTTGCAT 59.477 50.000 0.00 0.00 0.00 3.96
824 7983 2.078849 TGTGTAGGCGTTGACATCAG 57.921 50.000 0.00 0.00 0.00 2.90
844 8003 4.201950 GCAACACAGCTAATCATTCGGAAT 60.202 41.667 0.00 0.00 0.00 3.01
845 8004 3.126858 GCAACACAGCTAATCATTCGGAA 59.873 43.478 0.00 0.00 0.00 4.30
846 8005 2.677836 GCAACACAGCTAATCATTCGGA 59.322 45.455 0.00 0.00 0.00 4.55
857 8016 0.401738 ACATGGGTAGCAACACAGCT 59.598 50.000 0.00 0.00 43.85 4.24
869 8028 4.079253 GGTTGTTGTCTATGAACATGGGT 58.921 43.478 0.00 0.00 33.41 4.51
910 8069 8.613922 ATTTGAGGAATATTTGGAGGTCAATT 57.386 30.769 0.00 0.00 34.98 2.32
962 8123 6.304624 ACAGATGCATGTAAGGATCAATCAT 58.695 36.000 2.46 0.00 38.64 2.45
972 8133 5.232202 CGTACAGGTTACAGATGCATGTAAG 59.768 44.000 2.46 0.30 44.18 2.34
1066 8232 4.577096 AGGGATAGTATCAAATGGGTGGA 58.423 43.478 12.19 0.00 0.00 4.02
1090 8256 4.986659 TCCTGAAGTTCTACGCTAAACAAC 59.013 41.667 4.17 0.00 0.00 3.32
1100 8266 2.937433 GCCCAGCTTCCTGAAGTTCTAC 60.937 54.545 4.17 0.00 41.77 2.59
1101 8267 1.279271 GCCCAGCTTCCTGAAGTTCTA 59.721 52.381 4.17 0.00 41.77 2.10
1116 8282 0.323178 AGCTTCACCATCTTGCCCAG 60.323 55.000 0.00 0.00 0.00 4.45
1232 8398 0.871722 TGATTGTTTCCTCGGCGTTG 59.128 50.000 6.85 0.75 0.00 4.10
1334 8500 7.696992 AACCAGAAATTGATTACGTACCATT 57.303 32.000 0.00 0.00 0.00 3.16
1368 8534 9.421399 AGAAAGAAAGGAAGAAGGAAATGTTAA 57.579 29.630 0.00 0.00 0.00 2.01
1405 8571 8.165239 TGGGATGTTCATATATAACACAAAGC 57.835 34.615 5.25 0.00 39.51 3.51
1417 8583 8.117956 AGCAATGGTATATTGGGATGTTCATAT 58.882 33.333 0.00 0.00 0.00 1.78
1422 8588 6.135454 TGAAGCAATGGTATATTGGGATGTT 58.865 36.000 0.00 0.00 0.00 2.71
1552 8761 2.367567 ACAACCCTAGTGACATCAACGT 59.632 45.455 0.00 0.00 0.00 3.99
1798 9007 0.319555 CGGAGAAGGCTTTCGACACA 60.320 55.000 0.00 0.00 38.38 3.72
1820 9029 2.769617 CGACGGCATGTTCGTGAC 59.230 61.111 18.06 6.65 41.22 3.67
1861 9070 4.680237 CGGGTGAAGCTGCCGACA 62.680 66.667 0.00 0.00 0.00 4.35
1879 9088 2.424956 GTCATCAACATTGAGCCCCTTC 59.575 50.000 0.23 0.00 41.08 3.46
1894 9103 0.323816 AGAGAGCCACGAGGTCATCA 60.324 55.000 0.00 0.00 45.87 3.07
1897 9106 0.962855 CAGAGAGAGCCACGAGGTCA 60.963 60.000 0.00 0.00 45.87 4.02
1939 9148 2.031163 GTGAAGCCGGAGCAGTGT 59.969 61.111 5.05 0.00 43.56 3.55
1972 9181 0.034756 CCATTGTCGTGTCCACCTCA 59.965 55.000 0.00 0.00 0.00 3.86
1987 9196 1.227556 GGCGTATGCGGAGTCCATT 60.228 57.895 10.49 0.00 44.10 3.16
1994 9203 2.183300 GTCTGTGGCGTATGCGGA 59.817 61.111 5.09 0.00 44.10 5.54
1996 9205 0.179121 TTAGGTCTGTGGCGTATGCG 60.179 55.000 0.00 0.00 44.10 4.73
2200 9409 1.143073 ACCTTCCACAACAAGGAGTCC 59.857 52.381 0.00 0.00 42.94 3.85
2242 9451 3.181506 GCACTTCGATGTTTCCCATCTTC 60.182 47.826 0.39 0.00 46.56 2.87
2260 9469 1.066143 CCATTCGTCCCTGTAAGCACT 60.066 52.381 0.00 0.00 0.00 4.40
2303 9512 9.073475 TGTCTTAACAATTTAGCTGTTTATGGT 57.927 29.630 0.00 0.00 38.05 3.55
2413 9622 7.315247 TGTGAATCATCTAACCAAAATACCG 57.685 36.000 0.00 0.00 0.00 4.02
2488 9697 1.826385 AGCGCACCTTTTCAAGCTAT 58.174 45.000 11.47 0.00 32.73 2.97
2490 9699 0.746659 AAAGCGCACCTTTTCAAGCT 59.253 45.000 11.47 0.00 40.85 3.74
2532 9742 9.367444 GACTTCGAAAGAACTTATCCAAATAGA 57.633 33.333 0.00 0.00 46.92 1.98
2580 9790 8.087303 ACGGAGGGAGTAGTTAAATAAGATTT 57.913 34.615 0.00 0.00 0.00 2.17
2595 9805 2.671896 ATATTACGGACGGAGGGAGT 57.328 50.000 0.00 0.00 0.00 3.85
2663 10187 8.188501 TGATTATATACTACTCCCTCCATCCT 57.811 38.462 0.00 0.00 0.00 3.24
2692 10218 9.606631 GTTTGTCTATCTCAGTAATCTTCCAAT 57.393 33.333 0.00 0.00 0.00 3.16
2694 10220 7.180229 TGGTTTGTCTATCTCAGTAATCTTCCA 59.820 37.037 0.00 0.00 0.00 3.53
2695 10221 7.556844 TGGTTTGTCTATCTCAGTAATCTTCC 58.443 38.462 0.00 0.00 0.00 3.46
2714 10241 2.560861 CGGCGTGTCCATGGTTTG 59.439 61.111 12.58 1.64 34.01 2.93
2761 10288 1.070601 TCAGCAGTGCTTTCAGCTACA 59.929 47.619 16.89 0.00 42.97 2.74
2819 10346 4.875536 TCGATGTTTACCATCTTGACCATG 59.124 41.667 0.00 0.00 46.56 3.66
2820 10347 5.097742 TCGATGTTTACCATCTTGACCAT 57.902 39.130 0.00 0.00 46.56 3.55
2821 10348 4.503910 CTCGATGTTTACCATCTTGACCA 58.496 43.478 0.00 0.00 46.56 4.02
2822 10349 3.871594 CCTCGATGTTTACCATCTTGACC 59.128 47.826 0.00 0.00 46.56 4.02
2862 10389 1.457346 CATGACAGAACTTCCTGCCC 58.543 55.000 0.00 0.00 37.68 5.36
2879 10406 8.362639 CCTTTATGATTTAGCTGTTTATGGCAT 58.637 33.333 4.88 4.88 0.00 4.40
2882 10409 7.945134 AGCCTTTATGATTTAGCTGTTTATGG 58.055 34.615 0.00 0.00 0.00 2.74
2932 10781 6.731164 TCATAGTTCGTCAAGCGTTCATATA 58.269 36.000 0.00 0.00 42.13 0.86
2935 10784 3.845178 TCATAGTTCGTCAAGCGTTCAT 58.155 40.909 0.00 0.00 42.13 2.57
2943 10792 3.322541 TGTCAGGGTTCATAGTTCGTCAA 59.677 43.478 0.00 0.00 0.00 3.18
2946 10795 3.323979 ACTTGTCAGGGTTCATAGTTCGT 59.676 43.478 0.00 0.00 0.00 3.85
2948 10797 3.437049 GCACTTGTCAGGGTTCATAGTTC 59.563 47.826 0.00 0.00 0.00 3.01
2955 10804 2.143925 GTGTAGCACTTGTCAGGGTTC 58.856 52.381 0.00 0.00 0.00 3.62
2956 10805 1.540363 CGTGTAGCACTTGTCAGGGTT 60.540 52.381 0.00 0.00 31.34 4.11
2964 10817 2.325761 GTACCTGACGTGTAGCACTTG 58.674 52.381 0.00 0.00 31.34 3.16
2985 10838 3.064207 TGTTCGAAGTTACCATGTGCTC 58.936 45.455 0.00 0.00 0.00 4.26
3009 10862 3.120477 CGCATCACTAACTTGCCGTAAAA 60.120 43.478 0.00 0.00 32.76 1.52
3014 10867 0.647410 CTCGCATCACTAACTTGCCG 59.353 55.000 0.00 0.00 32.76 5.69
3028 10881 5.302360 ACAACTAAAGTTACCATTCTCGCA 58.698 37.500 0.00 0.00 36.32 5.10
3034 10887 9.349713 TCATTCTTGACAACTAAAGTTACCATT 57.650 29.630 0.00 0.00 36.32 3.16
3056 10909 5.779529 ACTGAAGCATGAAAGTTGTCATT 57.220 34.783 0.00 0.00 36.04 2.57
3066 10919 6.640499 CCGTCAAAAATAAACTGAAGCATGAA 59.360 34.615 0.00 0.00 0.00 2.57
3067 10920 6.016693 TCCGTCAAAAATAAACTGAAGCATGA 60.017 34.615 0.00 0.00 0.00 3.07
3069 10922 6.325919 TCCGTCAAAAATAAACTGAAGCAT 57.674 33.333 0.00 0.00 0.00 3.79
3074 10927 9.887406 GATAAGTTTCCGTCAAAAATAAACTGA 57.113 29.630 0.00 0.00 39.60 3.41
3078 10931 8.557864 TCACGATAAGTTTCCGTCAAAAATAAA 58.442 29.630 0.00 0.00 33.96 1.40
3087 10940 3.829948 TGACTCACGATAAGTTTCCGTC 58.170 45.455 0.00 0.00 33.96 4.79
3090 10943 6.721571 TTCAATGACTCACGATAAGTTTCC 57.278 37.500 0.00 0.00 0.00 3.13
3099 10952 5.277779 GGTGACAAATTTCAATGACTCACGA 60.278 40.000 0.00 0.00 0.00 4.35
3104 10957 4.281688 CCAGGGTGACAAATTTCAATGACT 59.718 41.667 0.00 0.00 0.00 3.41
3109 10962 1.691434 GGCCAGGGTGACAAATTTCAA 59.309 47.619 0.00 0.00 0.00 2.69
3126 10979 1.815003 CAATTCCAGTCACTGAAGGCC 59.185 52.381 6.30 0.00 32.44 5.19
3127 10980 1.200948 GCAATTCCAGTCACTGAAGGC 59.799 52.381 6.30 3.95 32.44 4.35
3150 11027 2.725641 GGCCTTGCCGTTTTTCGT 59.274 55.556 0.00 0.00 39.62 3.85
3201 11097 9.893305 CTTACCCAAATACACAGAAAGTTAAAG 57.107 33.333 0.00 0.00 0.00 1.85
3213 11109 8.843262 ACTTCAAAAGTACTTACCCAAATACAC 58.157 33.333 8.92 0.00 40.69 2.90
3335 11231 0.327924 ATCCGGGAAGCATGTGACAA 59.672 50.000 0.00 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.