Multiple sequence alignment - TraesCS3B01G235500

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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 TraesCS3B01G235500 chr3B 100.000 9752 0 0 1 9752 368547919 368538168 0.000000e+00 18009.0
1 TraesCS3B01G235500 chr3B 99.738 381 1 0 1502 1882 368541583 368541203 0.000000e+00 699.0
2 TraesCS3B01G235500 chr3B 75.691 724 119 41 7624 8331 35875405 35874723 9.510000e-80 309.0
3 TraesCS3B01G235500 chr3B 81.126 302 39 6 1124 1407 35876649 35876348 9.850000e-55 226.0
4 TraesCS3B01G235500 chr3B 96.703 91 3 0 6741 6831 35876249 35876159 1.700000e-32 152.0
5 TraesCS3B01G235500 chr3B 96.970 33 1 0 8364 8396 516002695 516002663 1.000000e-03 56.5
6 TraesCS3B01G235500 chr5B 96.223 5242 161 24 1503 6717 631643603 631638372 0.000000e+00 8549.0
7 TraesCS3B01G235500 chr5D 95.254 5246 199 32 1503 6717 436207167 436212393 0.000000e+00 8263.0
8 TraesCS3B01G235500 chr5D 94.293 5239 215 29 1503 6712 525766857 525772040 0.000000e+00 7941.0
9 TraesCS3B01G235500 chr7D 94.986 5245 217 28 1502 6717 16689914 16684687 0.000000e+00 8187.0
10 TraesCS3B01G235500 chr7D 94.663 5246 230 30 1503 6712 619219593 619224824 0.000000e+00 8091.0
11 TraesCS3B01G235500 chr2D 94.410 5259 244 29 1502 6719 646312162 646306913 0.000000e+00 8037.0
12 TraesCS3B01G235500 chr2D 94.570 2781 136 11 3947 6717 646314553 646311778 0.000000e+00 4285.0
13 TraesCS3B01G235500 chr2D 90.476 42 3 1 8351 8392 23336096 23336136 5.000000e-03 54.7
14 TraesCS3B01G235500 chr7A 93.211 5244 315 25 1503 6717 590733890 590739121 0.000000e+00 7673.0
15 TraesCS3B01G235500 chr7A 94.433 4904 238 16 1842 6717 679886086 679890982 0.000000e+00 7511.0
16 TraesCS3B01G235500 chrUn 93.494 3612 186 20 1502 5087 45962625 45959037 0.000000e+00 5323.0
17 TraesCS3B01G235500 chr1B 93.279 3556 223 11 3168 6717 686233396 686236941 0.000000e+00 5228.0
18 TraesCS3B01G235500 chr1B 97.368 38 0 1 7467 7503 38172758 38172721 8.180000e-06 63.9
19 TraesCS3B01G235500 chr1B 97.143 35 1 0 9319 9353 9984928 9984962 1.060000e-04 60.2
20 TraesCS3B01G235500 chr3A 94.968 2007 57 14 7250 9241 368412276 368414253 0.000000e+00 3107.0
21 TraesCS3B01G235500 chr3A 90.999 1522 94 17 1 1502 368410290 368411788 0.000000e+00 2012.0
22 TraesCS3B01G235500 chr3A 94.747 495 14 3 6718 7204 368411783 368412273 0.000000e+00 760.0
23 TraesCS3B01G235500 chr3A 95.115 348 16 1 9406 9752 368414781 368415128 1.850000e-151 547.0
24 TraesCS3B01G235500 chr3A 92.424 198 6 2 9233 9421 368414279 368414476 3.470000e-69 274.0
25 TraesCS3B01G235500 chr3A 81.911 293 41 5 1124 1407 30344859 30345148 4.550000e-58 237.0
26 TraesCS3B01G235500 chr3A 79.272 357 59 12 8400 8752 30346610 30346955 1.640000e-57 235.0
27 TraesCS3B01G235500 chr3A 95.098 102 4 1 6741 6842 30345257 30345357 1.010000e-34 159.0
28 TraesCS3B01G235500 chr3A 100.000 30 0 0 9320 9349 424454669 424454698 1.000000e-03 56.5
29 TraesCS3B01G235500 chr3A 96.970 33 1 0 9322 9354 683438683 683438715 1.000000e-03 56.5
30 TraesCS3B01G235500 chr3D 94.245 1755 65 11 7430 9170 282332466 282330734 0.000000e+00 2649.0
31 TraesCS3B01G235500 chr3D 91.377 951 64 8 1 942 282337527 282336586 0.000000e+00 1286.0
32 TraesCS3B01G235500 chr3D 96.578 526 15 3 979 1503 282336590 282336067 0.000000e+00 869.0
33 TraesCS3B01G235500 chr3D 93.061 490 25 4 6718 7204 282336072 282335589 0.000000e+00 708.0
34 TraesCS3B01G235500 chr3D 92.550 349 19 3 9403 9750 282329698 282329356 2.450000e-135 494.0
35 TraesCS3B01G235500 chr3D 94.054 185 10 1 7250 7433 282335586 282335402 7.460000e-71 279.0
36 TraesCS3B01G235500 chr3D 76.948 308 61 9 27 331 566434629 566434929 6.060000e-37 167.0
37 TraesCS3B01G235500 chr3D 96.774 93 2 1 9238 9330 282330656 282330565 4.720000e-33 154.0
38 TraesCS3B01G235500 chr3D 80.808 99 10 5 9326 9415 564146261 564146163 1.760000e-07 69.4
39 TraesCS3B01G235500 chr3D 87.273 55 6 1 9327 9380 174457698 174457752 2.940000e-05 62.1
40 TraesCS3B01G235500 chr3D 100.000 30 0 0 8363 8392 529787207 529787178 1.000000e-03 56.5
41 TraesCS3B01G235500 chr3D 96.970 33 1 0 9322 9354 546701790 546701822 1.000000e-03 56.5
42 TraesCS3B01G235500 chr4D 75.956 183 35 7 51 231 469874185 469874010 1.750000e-12 86.1
43 TraesCS3B01G235500 chr2B 94.872 39 2 0 8354 8392 628399162 628399200 2.940000e-05 62.1
44 TraesCS3B01G235500 chr6B 88.000 50 6 0 9325 9374 459374474 459374523 1.060000e-04 60.2
45 TraesCS3B01G235500 chr2A 97.143 35 1 0 8358 8392 43283615 43283581 1.060000e-04 60.2
46 TraesCS3B01G235500 chr7B 100.000 30 0 0 8363 8392 56995895 56995866 1.000000e-03 56.5
47 TraesCS3B01G235500 chr5A 100.000 30 0 0 8363 8392 18858237 18858208 1.000000e-03 56.5
48 TraesCS3B01G235500 chr4B 94.444 36 2 0 9319 9354 403672013 403672048 1.000000e-03 56.5


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 TraesCS3B01G235500 chr3B 368538168 368547919 9751 True 18009.000000 18009 100.000000 1 9752 1 chr3B.!!$R1 9751
1 TraesCS3B01G235500 chr3B 35874723 35876649 1926 True 229.000000 309 84.506667 1124 8331 3 chr3B.!!$R4 7207
2 TraesCS3B01G235500 chr5B 631638372 631643603 5231 True 8549.000000 8549 96.223000 1503 6717 1 chr5B.!!$R1 5214
3 TraesCS3B01G235500 chr5D 436207167 436212393 5226 False 8263.000000 8263 95.254000 1503 6717 1 chr5D.!!$F1 5214
4 TraesCS3B01G235500 chr5D 525766857 525772040 5183 False 7941.000000 7941 94.293000 1503 6712 1 chr5D.!!$F2 5209
5 TraesCS3B01G235500 chr7D 16684687 16689914 5227 True 8187.000000 8187 94.986000 1502 6717 1 chr7D.!!$R1 5215
6 TraesCS3B01G235500 chr7D 619219593 619224824 5231 False 8091.000000 8091 94.663000 1503 6712 1 chr7D.!!$F1 5209
7 TraesCS3B01G235500 chr2D 646306913 646314553 7640 True 6161.000000 8037 94.490000 1502 6719 2 chr2D.!!$R1 5217
8 TraesCS3B01G235500 chr7A 590733890 590739121 5231 False 7673.000000 7673 93.211000 1503 6717 1 chr7A.!!$F1 5214
9 TraesCS3B01G235500 chr7A 679886086 679890982 4896 False 7511.000000 7511 94.433000 1842 6717 1 chr7A.!!$F2 4875
10 TraesCS3B01G235500 chrUn 45959037 45962625 3588 True 5323.000000 5323 93.494000 1502 5087 1 chrUn.!!$R1 3585
11 TraesCS3B01G235500 chr1B 686233396 686236941 3545 False 5228.000000 5228 93.279000 3168 6717 1 chr1B.!!$F2 3549
12 TraesCS3B01G235500 chr3A 368410290 368415128 4838 False 1340.000000 3107 93.650600 1 9752 5 chr3A.!!$F4 9751
13 TraesCS3B01G235500 chr3A 30344859 30346955 2096 False 210.333333 237 85.427000 1124 8752 3 chr3A.!!$F3 7628
14 TraesCS3B01G235500 chr3D 282329356 282337527 8171 True 919.857143 2649 94.091286 1 9750 7 chr3D.!!$R3 9749

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
147 148 0.107897 GTATGGTGTGGTGCGGATCA 60.108 55.000 0.00 0.00 0.00 2.92 F
1368 1411 0.614697 TGCATCTCCCTCGACTTCCA 60.615 55.000 0.00 0.00 0.00 3.53 F
1530 2421 0.768221 AAACCCTGTCTCCCTCTGCA 60.768 55.000 0.00 0.00 0.00 4.41 F
1746 2643 1.595929 CGGGCACGTTGGTGTACTT 60.596 57.895 0.00 0.00 46.13 2.24 F
2942 3851 0.391528 CCTCATGATGGCGTGTGTCA 60.392 55.000 0.00 0.00 32.75 3.58 F
3711 4636 1.372997 CCGTCTCTCCACCAACACG 60.373 63.158 0.00 0.00 0.00 4.49 F
4769 5722 0.917533 ATGATGAGGAGCTGCACCTT 59.082 50.000 19.65 5.02 37.93 3.50 F
5532 6489 0.528466 CGATCACACAGGCAGCGTAT 60.528 55.000 0.00 0.00 0.00 3.06 F
6365 7323 0.768221 AAACCCTGTCTCCCTCTGCA 60.768 55.000 0.00 0.00 0.00 4.41 F
6837 7826 0.252558 TCCACAAGGTACCTCCCTCC 60.253 60.000 16.64 0.00 36.75 4.30 F
6851 7840 1.574702 CCCTCCGAAAACCGCTTCAC 61.575 60.000 0.00 0.00 36.84 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1440 1494 1.464997 GCAAAGAACGGCAGGTAAGAG 59.535 52.381 0.00 0.00 0.00 2.85 R
2537 3443 0.108585 ACAGTCAACGATGCAGGGTT 59.891 50.000 0.00 0.00 0.00 4.11 R
2644 3553 0.398318 GTGCTTCCCACTGTTCCTCT 59.602 55.000 0.00 0.00 41.35 3.69 R
3084 4008 0.757561 TCCAGTGTCGAGGAACCACA 60.758 55.000 5.97 0.00 0.00 4.17 R
4144 5089 0.247460 CGCAGGAACCTCACATCAGA 59.753 55.000 0.00 0.00 0.00 3.27 R
4852 5805 1.067974 AGGTGTTGTTGTCGTCGATGA 59.932 47.619 2.39 2.39 0.00 2.92 R
6290 7247 0.523546 CTTGACGTCGACGATCCCAG 60.524 60.000 41.52 25.42 43.02 4.45 R
6834 7823 1.194772 GAAGTGAAGCGGTTTTCGGAG 59.805 52.381 0.00 0.00 39.69 4.63 R
7532 11772 2.607187 ACTCACGATGTTCTTAAGCCG 58.393 47.619 0.00 0.00 0.00 5.52 R
7926 12180 2.894731 TGGATGGAAGACACTGAGAGT 58.105 47.619 0.00 0.00 0.00 3.24 R
8843 13111 3.367395 GGCAATTTTCTTCAGTAGGTGGC 60.367 47.826 0.00 0.00 0.00 5.01 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
136 137 1.290955 CGGACGTGTGGTATGGTGT 59.709 57.895 0.00 0.00 0.00 4.16
147 148 0.107897 GTATGGTGTGGTGCGGATCA 60.108 55.000 0.00 0.00 0.00 2.92
151 152 0.960364 GGTGTGGTGCGGATCATGTT 60.960 55.000 0.00 0.00 0.00 2.71
233 235 2.747686 GCCAGAGTGGGTTTCCGA 59.252 61.111 0.00 0.00 38.19 4.55
240 242 0.818040 AGTGGGTTTCCGACAGTTGC 60.818 55.000 4.02 0.00 35.24 4.17
254 256 4.537015 GACAGTTGCGCTTTCTTTAATGT 58.463 39.130 9.73 0.74 0.00 2.71
291 293 2.939460 GGCAACCTATTTGAATGCGT 57.061 45.000 0.00 0.00 37.39 5.24
304 306 1.038130 AATGCGTAGAGAGCCGTCCT 61.038 55.000 0.00 0.00 0.00 3.85
335 337 1.228094 TGGCATTGAACAGGTGCGA 60.228 52.632 0.00 0.00 39.69 5.10
344 346 1.827399 AACAGGTGCGAAGACCGGAT 61.827 55.000 9.46 0.00 41.61 4.18
411 413 2.732658 GGACCGAGGTGTTGACGT 59.267 61.111 0.00 0.00 0.00 4.34
432 434 4.789075 CGTGCGAACGGTCCGGAT 62.789 66.667 17.28 3.55 0.00 4.18
467 469 1.139498 TCCCCACTGATTTGCCTCCA 61.139 55.000 0.00 0.00 0.00 3.86
492 494 1.893801 ACGAGAAAACAGAGTCGGGAT 59.106 47.619 0.00 0.00 36.74 3.85
524 526 2.166829 CCAATGACAAAATGGGTCCGA 58.833 47.619 0.00 0.00 34.36 4.55
548 550 2.474816 GCTTGATCAGGACGGATACAC 58.525 52.381 9.36 0.00 0.00 2.90
549 551 2.159099 GCTTGATCAGGACGGATACACA 60.159 50.000 9.36 0.00 0.00 3.72
556 558 2.094597 CAGGACGGATACACACGGTTTA 60.095 50.000 0.00 0.00 0.00 2.01
562 564 4.240096 CGGATACACACGGTTTAAGAGTT 58.760 43.478 0.00 0.00 0.00 3.01
563 565 4.687483 CGGATACACACGGTTTAAGAGTTT 59.313 41.667 0.00 0.00 0.00 2.66
578 580 2.165998 GAGTTTGCTTTGGAGATGCCT 58.834 47.619 0.00 0.00 37.63 4.75
598 600 5.836821 CCTTTAGGCTTAGGCTTAAAAGG 57.163 43.478 25.42 25.42 45.01 3.11
615 617 7.921214 GCTTAAAAGGAAGTTTAAGAAAGCTGT 59.079 33.333 17.40 0.00 46.90 4.40
640 642 3.525537 ACTTGCGATATCCTTGTGTCAG 58.474 45.455 0.00 0.00 0.00 3.51
674 676 0.820074 TTTTGGCCGTCCGACATGTT 60.820 50.000 0.00 0.00 34.14 2.71
738 740 4.096382 AGCACGCAAAGAAGAGAAGAAAAA 59.904 37.500 0.00 0.00 0.00 1.94
824 835 2.802247 CGAGCATGACACAAACTGAAGA 59.198 45.455 0.00 0.00 0.00 2.87
968 989 2.762745 GTTAAACGAGCAAGTGGAGGA 58.237 47.619 0.00 0.00 0.00 3.71
972 993 2.097038 CGAGCAAGTGGAGGAAGCG 61.097 63.158 0.00 0.00 0.00 4.68
974 995 3.435186 GCAAGTGGAGGAAGCGGC 61.435 66.667 0.00 0.00 0.00 6.53
975 996 2.747855 CAAGTGGAGGAAGCGGCC 60.748 66.667 0.00 0.00 0.00 6.13
1368 1411 0.614697 TGCATCTCCCTCGACTTCCA 60.615 55.000 0.00 0.00 0.00 3.53
1440 1494 4.957164 CCCTTCCGGGTTCTTAGC 57.043 61.111 0.00 0.00 46.12 3.09
1467 1521 1.001487 CTGCCGTTCTTTGCAATGTCA 60.001 47.619 11.67 0.00 36.98 3.58
1498 1552 1.518367 TCTCCCTCCCTCTCTCTCTC 58.482 60.000 0.00 0.00 0.00 3.20
1499 1553 1.010793 TCTCCCTCCCTCTCTCTCTCT 59.989 57.143 0.00 0.00 0.00 3.10
1500 1554 1.852965 CTCCCTCCCTCTCTCTCTCTT 59.147 57.143 0.00 0.00 0.00 2.85
1530 2421 0.768221 AAACCCTGTCTCCCTCTGCA 60.768 55.000 0.00 0.00 0.00 4.41
1540 2431 2.499289 TCTCCCTCTGCATTCTCTGAAC 59.501 50.000 0.00 0.00 0.00 3.18
1546 2437 5.108517 CCTCTGCATTCTCTGAACTTAGTC 58.891 45.833 0.00 0.00 0.00 2.59
1554 2447 7.041780 GCATTCTCTGAACTTAGTCTGTTTTCA 60.042 37.037 0.00 0.00 0.00 2.69
1746 2643 1.595929 CGGGCACGTTGGTGTACTT 60.596 57.895 0.00 0.00 46.13 2.24
1764 2661 8.178313 GGTGTACTTTTGATGAATAAGAAGAGC 58.822 37.037 0.00 0.00 0.00 4.09
1765 2662 8.721478 GTGTACTTTTGATGAATAAGAAGAGCA 58.279 33.333 0.00 0.00 0.00 4.26
1848 2752 6.496565 TGTTCTTCCTCTCTGAATTCTCTCTT 59.503 38.462 7.05 0.00 0.00 2.85
1852 2756 7.454380 TCTTCCTCTCTGAATTCTCTCTTTCTT 59.546 37.037 7.05 0.00 0.00 2.52
2440 3346 3.951332 GCTGCACTGCGTTCACTA 58.049 55.556 0.00 0.00 0.00 2.74
2496 3402 8.768501 AGAAAATTCCTTTCAGTAGTTCCTTT 57.231 30.769 0.52 0.00 45.15 3.11
2537 3443 3.095912 TCTCGATGTAAACCCTCCTCA 57.904 47.619 0.00 0.00 0.00 3.86
2644 3553 4.025858 GGGCAGCTGCTCCTCACA 62.026 66.667 35.82 0.00 41.70 3.58
2750 3659 1.753463 CCGCCTCCTACCTCGACTT 60.753 63.158 0.00 0.00 0.00 3.01
2942 3851 0.391528 CCTCATGATGGCGTGTGTCA 60.392 55.000 0.00 0.00 32.75 3.58
3084 4008 4.473520 CGATCAGGGGCGGCAGTT 62.474 66.667 12.47 0.00 0.00 3.16
3205 4129 2.692557 CGGATCAGAGGTGAAGATCTGT 59.307 50.000 0.00 0.00 42.86 3.41
3364 4288 1.980232 TGGCGTACTCACCATCCGT 60.980 57.895 0.00 0.00 0.00 4.69
3547 4471 3.521126 AGAAGATGGCCAAGAAAGAGCTA 59.479 43.478 10.96 0.00 0.00 3.32
3596 4520 3.322318 GAGGAGCTGTGTGAGGCCC 62.322 68.421 0.00 0.00 0.00 5.80
3676 4601 2.749044 CCGCTGGAGCTTGTGCAT 60.749 61.111 0.00 0.00 42.74 3.96
3711 4636 1.372997 CCGTCTCTCCACCAACACG 60.373 63.158 0.00 0.00 0.00 4.49
4144 5089 2.654877 CGTGGTACGGCAGGAAGT 59.345 61.111 0.00 0.00 38.08 3.01
4584 5535 1.539560 ATGCAGTCACGCCAGAGACT 61.540 55.000 0.00 0.00 46.68 3.24
4609 5560 1.302511 GTGCCCTTCGTGTCACCAT 60.303 57.895 0.00 0.00 0.00 3.55
4769 5722 0.917533 ATGATGAGGAGCTGCACCTT 59.082 50.000 19.65 5.02 37.93 3.50
4959 5912 0.902531 GGATGAGGAAGGGAACGTCA 59.097 55.000 0.00 0.00 40.97 4.35
5070 6023 4.147449 CCGTGCGGCTCATCCTGA 62.147 66.667 0.00 0.00 0.00 3.86
5169 6124 0.839946 GGTCTATGTGTCCCAGCCAT 59.160 55.000 0.00 0.00 0.00 4.40
5186 6141 0.936764 CATCTGGATTCGTCGCGGAG 60.937 60.000 6.13 0.00 0.00 4.63
5358 6315 1.140589 CGAGAGCCTGCTCATCGTT 59.859 57.895 20.38 0.00 44.99 3.85
5433 6390 3.326588 TCGGGTTCAAAGAGGAGATGAAA 59.673 43.478 0.00 0.00 35.07 2.69
5436 6393 4.827284 GGGTTCAAAGAGGAGATGAAACAA 59.173 41.667 5.29 0.00 41.45 2.83
5455 6412 1.846007 ACTCTTCTCCATGAGCGACT 58.154 50.000 0.00 0.00 33.92 4.18
5460 6417 0.614697 TCTCCATGAGCGACTTGGGA 60.615 55.000 14.90 10.25 42.06 4.37
5532 6489 0.528466 CGATCACACAGGCAGCGTAT 60.528 55.000 0.00 0.00 0.00 3.06
5715 6672 1.072116 CGGACATTTCGTTCGCCGTA 61.072 55.000 0.00 0.00 40.45 4.02
6290 7247 1.303155 AGGAGCTGCTTGGCAAGAC 60.303 57.895 30.45 20.51 38.41 3.01
6365 7323 0.768221 AAACCCTGTCTCCCTCTGCA 60.768 55.000 0.00 0.00 0.00 4.41
6375 7334 2.499289 TCTCCCTCTGCATTCTCTGAAC 59.501 50.000 0.00 0.00 0.00 3.18
6381 7340 5.108517 CCTCTGCATTCTCTGAACTTAGTC 58.891 45.833 0.00 0.00 0.00 2.59
6386 7345 5.928839 TGCATTCTCTGAACTTAGTCTGTTC 59.071 40.000 0.00 0.00 42.77 3.18
6388 7347 6.310224 GCATTCTCTGAACTTAGTCTGTTCTC 59.690 42.308 7.89 0.00 42.86 2.87
6389 7348 6.961360 TTCTCTGAACTTAGTCTGTTCTCA 57.039 37.500 7.89 0.00 42.86 3.27
6581 7552 1.595929 CGGGCACGTTGGTGTACTT 60.596 57.895 0.00 0.00 46.13 2.24
6599 7570 8.178313 GGTGTACTTTTGATGAATAAGAAGAGC 58.822 37.037 0.00 0.00 0.00 4.09
6600 7571 8.721478 GTGTACTTTTGATGAATAAGAAGAGCA 58.279 33.333 0.00 0.00 0.00 4.26
6683 7669 6.496565 TGTTCTTCCTCTCTGAATTCTCTCTT 59.503 38.462 7.05 0.00 0.00 2.85
6687 7673 7.454380 TCTTCCTCTCTGAATTCTCTCTTTCTT 59.546 37.037 7.05 0.00 0.00 2.52
6717 7703 5.273208 TCAAGCTAGAGTTTAGGGAGACAT 58.727 41.667 0.00 0.00 0.00 3.06
6718 7704 5.361285 TCAAGCTAGAGTTTAGGGAGACATC 59.639 44.000 0.00 0.00 0.00 3.06
6719 7705 5.137412 AGCTAGAGTTTAGGGAGACATCT 57.863 43.478 0.00 0.00 0.00 2.90
6834 7823 1.486726 CTCATCCACAAGGTACCTCCC 59.513 57.143 16.64 0.00 36.75 4.30
6835 7824 1.080498 TCATCCACAAGGTACCTCCCT 59.920 52.381 16.64 0.00 36.75 4.20
6837 7826 0.252558 TCCACAAGGTACCTCCCTCC 60.253 60.000 16.64 0.00 36.75 4.30
6851 7840 1.574702 CCCTCCGAAAACCGCTTCAC 61.575 60.000 0.00 0.00 36.84 3.18
6925 7914 4.867608 GCTTCTCGCTCTTCTTTTCAGTAT 59.132 41.667 0.00 0.00 35.14 2.12
6930 7919 4.099573 TCGCTCTTCTTTTCAGTATAGGGG 59.900 45.833 0.00 0.00 0.00 4.79
7144 8141 3.503363 CACCAGTGTGATGTGCAACTTAT 59.497 43.478 0.00 0.00 45.76 1.73
7204 8201 2.355007 CCAGACATGACCAGTGCACATA 60.355 50.000 21.04 0.03 0.00 2.29
7206 8203 2.833943 AGACATGACCAGTGCACATAGA 59.166 45.455 21.04 0.00 0.00 1.98
7207 8204 3.261643 AGACATGACCAGTGCACATAGAA 59.738 43.478 21.04 1.46 0.00 2.10
7208 8205 3.338249 ACATGACCAGTGCACATAGAAC 58.662 45.455 21.04 5.77 0.00 3.01
7209 8206 3.008375 ACATGACCAGTGCACATAGAACT 59.992 43.478 21.04 0.00 0.00 3.01
7210 8207 3.769739 TGACCAGTGCACATAGAACTT 57.230 42.857 21.04 0.00 0.00 2.66
7211 8208 4.882842 TGACCAGTGCACATAGAACTTA 57.117 40.909 21.04 0.00 0.00 2.24
7212 8209 5.420725 TGACCAGTGCACATAGAACTTAT 57.579 39.130 21.04 0.00 0.00 1.73
7213 8210 5.419542 TGACCAGTGCACATAGAACTTATC 58.580 41.667 21.04 2.38 0.00 1.75
7214 8211 5.046663 TGACCAGTGCACATAGAACTTATCA 60.047 40.000 21.04 4.89 0.00 2.15
7215 8212 5.994250 ACCAGTGCACATAGAACTTATCAT 58.006 37.500 21.04 0.00 0.00 2.45
7216 8213 6.051717 ACCAGTGCACATAGAACTTATCATC 58.948 40.000 21.04 0.00 0.00 2.92
7217 8214 6.126940 ACCAGTGCACATAGAACTTATCATCT 60.127 38.462 21.04 0.00 0.00 2.90
7218 8215 6.202379 CCAGTGCACATAGAACTTATCATCTG 59.798 42.308 21.04 1.62 0.00 2.90
7219 8216 6.982724 CAGTGCACATAGAACTTATCATCTGA 59.017 38.462 21.04 0.00 0.00 3.27
7220 8217 7.656542 CAGTGCACATAGAACTTATCATCTGAT 59.343 37.037 21.04 0.00 38.51 2.90
7221 8218 7.871973 AGTGCACATAGAACTTATCATCTGATC 59.128 37.037 21.04 0.00 36.05 2.92
7222 8219 7.654923 GTGCACATAGAACTTATCATCTGATCA 59.345 37.037 13.17 0.00 36.05 2.92
7223 8220 7.654923 TGCACATAGAACTTATCATCTGATCAC 59.345 37.037 0.00 0.00 36.05 3.06
7224 8221 7.117523 GCACATAGAACTTATCATCTGATCACC 59.882 40.741 0.00 0.00 36.05 4.02
7225 8222 8.146412 CACATAGAACTTATCATCTGATCACCA 58.854 37.037 0.00 0.00 36.05 4.17
7226 8223 8.708378 ACATAGAACTTATCATCTGATCACCAA 58.292 33.333 0.00 0.00 36.05 3.67
7227 8224 9.205719 CATAGAACTTATCATCTGATCACCAAG 57.794 37.037 0.00 0.00 36.05 3.61
7228 8225 7.192852 AGAACTTATCATCTGATCACCAAGT 57.807 36.000 0.00 0.00 33.46 3.16
7229 8226 7.046652 AGAACTTATCATCTGATCACCAAGTG 58.953 38.462 6.77 0.00 32.81 3.16
7230 8227 6.305272 ACTTATCATCTGATCACCAAGTGT 57.695 37.500 0.00 0.00 31.86 3.55
7231 8228 6.715280 ACTTATCATCTGATCACCAAGTGTT 58.285 36.000 0.00 0.00 31.86 3.32
7232 8229 6.596888 ACTTATCATCTGATCACCAAGTGTTG 59.403 38.462 0.00 0.00 31.86 3.33
7233 8230 5.430886 TATCATCTGATCACCAAGTGTTGG 58.569 41.667 4.07 4.07 44.69 3.77
7234 8231 5.629834 TATCATCTGATCACCAAGTGTTGGG 60.630 44.000 10.40 0.10 44.08 4.12
7244 8241 3.575965 CAAGTGTTGGGCCAACTTATC 57.424 47.619 40.22 28.40 43.85 1.75
7245 8242 2.890311 CAAGTGTTGGGCCAACTTATCA 59.110 45.455 40.22 23.51 43.85 2.15
7246 8243 3.456380 AGTGTTGGGCCAACTTATCAT 57.544 42.857 40.22 21.62 43.85 2.45
7247 8244 4.584638 AGTGTTGGGCCAACTTATCATA 57.415 40.909 40.22 22.12 43.85 2.15
7248 8245 4.270008 AGTGTTGGGCCAACTTATCATAC 58.730 43.478 40.22 29.90 43.85 2.39
7280 8279 9.632807 TTATAAAATTGGTTTGACAGCACATAC 57.367 29.630 0.00 0.00 30.58 2.39
7386 8686 3.140325 TCCTTCTTGTGTCATCCCAAC 57.860 47.619 0.00 0.00 0.00 3.77
7428 11667 4.137116 TGGTCAAGTATGGAGTGCATAC 57.863 45.455 23.16 23.16 36.16 2.39
7520 11760 4.211374 GTGCACATATAACGTCTTGGGATC 59.789 45.833 13.17 0.00 0.00 3.36
7532 11772 5.585047 ACGTCTTGGGATCAAAAATACTAGC 59.415 40.000 0.00 0.00 31.77 3.42
7560 11800 7.839837 GCTTAAGAACATCGTGAGTAATAAACG 59.160 37.037 6.67 0.00 38.64 3.60
7584 11824 6.813649 CGAAGTTTGAATGTCCTATCTTCTCA 59.186 38.462 0.00 0.00 0.00 3.27
7833 12087 7.751732 TCACATCACATGTTGCTAGAAATAAC 58.248 34.615 0.00 0.00 42.70 1.89
7856 12110 4.332543 CACACACAGCTAAAGTTGTTCTCA 59.667 41.667 0.00 0.00 37.38 3.27
7949 12203 2.093288 TCTCAGTGTCTTCCATCCATGC 60.093 50.000 0.00 0.00 0.00 4.06
7953 12207 2.093075 AGTGTCTTCCATCCATGCTCAG 60.093 50.000 0.00 0.00 0.00 3.35
7996 12250 3.259876 TGTAAGTACGGTTCCTGCTGAAT 59.740 43.478 0.00 0.00 34.90 2.57
8097 12354 1.185315 ATGATTTGAGGCAAACCGGG 58.815 50.000 6.32 0.00 42.76 5.73
8134 12391 8.821894 GTGAAGAGGTTAGTTCATTATCATGTC 58.178 37.037 0.00 0.00 35.22 3.06
8208 12465 0.606604 GATGATCCATTGGCATGCCC 59.393 55.000 33.44 16.58 34.56 5.36
8392 12649 8.393395 TCACTTTCAGTTTCAGAAAAATTTCG 57.607 30.769 0.00 0.00 41.92 3.46
8527 12784 7.989947 TCTATTAAAGAACATGACCCTACCT 57.010 36.000 0.00 0.00 0.00 3.08
8786 13044 2.416296 CCTACATGACGGCGACAAGTTA 60.416 50.000 22.87 10.61 0.00 2.24
8804 13062 7.275183 ACAAGTTAGCAGCATATTATGTCTGA 58.725 34.615 21.81 8.01 36.90 3.27
8868 13136 5.404946 CACCTACTGAAGAAAATTGCCATG 58.595 41.667 0.00 0.00 0.00 3.66
8869 13137 5.183713 CACCTACTGAAGAAAATTGCCATGA 59.816 40.000 0.00 0.00 0.00 3.07
8870 13138 5.954150 ACCTACTGAAGAAAATTGCCATGAT 59.046 36.000 0.00 0.00 0.00 2.45
8871 13139 6.127535 ACCTACTGAAGAAAATTGCCATGATG 60.128 38.462 0.00 0.00 0.00 3.07
8872 13140 4.501071 ACTGAAGAAAATTGCCATGATGC 58.499 39.130 0.00 0.00 0.00 3.91
8873 13141 3.864243 TGAAGAAAATTGCCATGATGCC 58.136 40.909 0.00 0.00 0.00 4.40
8874 13142 3.261137 TGAAGAAAATTGCCATGATGCCA 59.739 39.130 0.00 0.00 0.00 4.92
8875 13143 4.080807 TGAAGAAAATTGCCATGATGCCAT 60.081 37.500 0.00 0.00 0.00 4.40
8876 13144 4.067972 AGAAAATTGCCATGATGCCATC 57.932 40.909 0.00 0.00 0.00 3.51
8877 13145 2.519377 AAATTGCCATGATGCCATCG 57.481 45.000 0.00 0.00 0.00 3.84
8878 13146 0.677288 AATTGCCATGATGCCATCGG 59.323 50.000 0.00 0.00 0.00 4.18
8879 13147 0.468585 ATTGCCATGATGCCATCGGT 60.469 50.000 0.00 0.00 0.00 4.69
9137 13406 2.091885 AGTTTCTTCAAGTGCCTTCCCA 60.092 45.455 0.00 0.00 0.00 4.37
9151 13420 3.965347 GCCTTCCCACCTAACAGACTATA 59.035 47.826 0.00 0.00 0.00 1.31
9210 13479 2.954318 AGGAACATGTCATGCATTAGCC 59.046 45.455 12.91 5.60 41.13 3.93
9216 13485 2.093890 TGTCATGCATTAGCCTTGGTG 58.906 47.619 0.00 0.00 41.13 4.17
9336 14482 8.013806 AGGGACATTTATATAGTACTCCCTCT 57.986 38.462 0.00 0.00 42.43 3.69
9366 14512 7.327518 CCAAAATAAATGTCGTGGGTTTAGTTC 59.672 37.037 0.00 0.00 28.95 3.01
9482 14955 5.324409 TGGATTATGCAAGGACAGTTCTTT 58.676 37.500 0.00 0.00 0.00 2.52
9550 15023 9.643693 ATCAAGTGTTTCACATCATATTTTTCC 57.356 29.630 2.80 0.00 36.74 3.13
9566 15039 9.241317 CATATTTTTCCAGTGCTAATCATTGAC 57.759 33.333 0.00 0.00 34.68 3.18
9675 15149 4.595762 ATCACCAAATGCCAGCATTATC 57.404 40.909 17.65 0.00 44.86 1.75
9687 15161 4.736793 GCCAGCATTATCGTGAAAAGAATG 59.263 41.667 0.00 0.00 0.00 2.67
9688 15162 5.276270 CCAGCATTATCGTGAAAAGAATGG 58.724 41.667 0.00 0.00 0.00 3.16
9724 15198 3.749609 GCACGTACAACCAACCTTCTAAT 59.250 43.478 0.00 0.00 0.00 1.73
9735 15209 5.888161 ACCAACCTTCTAATCATCCAATCAC 59.112 40.000 0.00 0.00 0.00 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
136 137 2.045708 GCCAACATGATCCGCACCA 61.046 57.895 0.00 0.00 0.00 4.17
233 235 4.537015 GACATTAAAGAAAGCGCAACTGT 58.463 39.130 11.47 3.13 0.00 3.55
240 242 3.725010 GCCTGACGACATTAAAGAAAGCG 60.725 47.826 0.00 0.00 0.00 4.68
291 293 1.025113 CGTGACAGGACGGCTCTCTA 61.025 60.000 0.00 0.00 35.65 2.43
369 371 2.933878 AAAACCCTCTCGCACACGCA 62.934 55.000 0.00 0.00 39.84 5.24
432 434 2.274104 GATGGGGCTTTACGGGCA 59.726 61.111 0.00 0.00 0.00 5.36
467 469 4.296690 CCGACTCTGTTTTCTCGTAAACT 58.703 43.478 0.00 0.00 38.52 2.66
524 526 1.079127 CCGTCCTGATCAAGCGGTT 60.079 57.895 18.48 0.00 37.87 4.44
548 550 4.041723 CCAAAGCAAACTCTTAAACCGTG 58.958 43.478 0.00 0.00 0.00 4.94
549 551 3.949113 TCCAAAGCAAACTCTTAAACCGT 59.051 39.130 0.00 0.00 0.00 4.83
556 558 2.560105 GGCATCTCCAAAGCAAACTCTT 59.440 45.455 0.00 0.00 34.01 2.85
562 564 3.091545 CCTAAAGGCATCTCCAAAGCAA 58.908 45.455 0.00 0.00 37.29 3.91
563 565 2.726821 CCTAAAGGCATCTCCAAAGCA 58.273 47.619 0.00 0.00 37.29 3.91
578 580 6.549242 ACTTCCTTTTAAGCCTAAGCCTAAA 58.451 36.000 0.00 0.00 41.25 1.85
598 600 8.532341 GCAAGTAAAACAGCTTTCTTAAACTTC 58.468 33.333 0.00 0.00 0.00 3.01
615 617 5.935206 TGACACAAGGATATCGCAAGTAAAA 59.065 36.000 0.00 0.00 39.48 1.52
640 642 1.007849 AAAAACATGACGGCGTGCC 60.008 52.632 21.19 4.04 34.29 5.01
699 701 3.492313 CGTGCTTTATCTGCTTTTGTCC 58.508 45.455 0.00 0.00 0.00 4.02
752 754 9.546428 CTTTCTTCTTTTCTTCTCTTCTCTTCT 57.454 33.333 0.00 0.00 0.00 2.85
824 835 5.913137 TTCCTTGCCGTAATGATCATTTT 57.087 34.783 25.26 6.52 32.50 1.82
1440 1494 1.464997 GCAAAGAACGGCAGGTAAGAG 59.535 52.381 0.00 0.00 0.00 2.85
1467 1521 2.511637 GGGAGGGAGAACTGGATCAAAT 59.488 50.000 0.00 0.00 0.00 2.32
1498 1552 4.099419 AGACAGGGTTTAAGCCAACAAAAG 59.901 41.667 15.91 0.00 38.48 2.27
1499 1553 4.027437 AGACAGGGTTTAAGCCAACAAAA 58.973 39.130 15.91 0.00 38.48 2.44
1500 1554 3.634910 GAGACAGGGTTTAAGCCAACAAA 59.365 43.478 15.91 0.00 38.48 2.83
1530 2421 9.213799 GATGAAAACAGACTAAGTTCAGAGAAT 57.786 33.333 0.00 0.00 32.13 2.40
1546 2437 5.349817 AGCGACACTTATCTGATGAAAACAG 59.650 40.000 0.00 0.00 38.20 3.16
1623 2520 2.141122 AACGCAACCAATTGGCGAGG 62.141 55.000 26.94 16.50 38.15 4.63
1848 2752 5.392767 ACTCTAGCTTGATCGTGAAAGAA 57.607 39.130 0.00 0.00 0.00 2.52
1852 2756 5.394224 CCCTAAACTCTAGCTTGATCGTGAA 60.394 44.000 0.00 0.00 0.00 3.18
2515 3421 3.835978 TGAGGAGGGTTTACATCGAGAAA 59.164 43.478 0.00 0.00 0.00 2.52
2525 3431 0.696501 GCAGGGTTGAGGAGGGTTTA 59.303 55.000 0.00 0.00 0.00 2.01
2537 3443 0.108585 ACAGTCAACGATGCAGGGTT 59.891 50.000 0.00 0.00 0.00 4.11
2644 3553 0.398318 GTGCTTCCCACTGTTCCTCT 59.602 55.000 0.00 0.00 41.35 3.69
2750 3659 2.922503 TTGAGCCGAGCCAGGTGA 60.923 61.111 0.00 0.00 0.00 4.02
2942 3851 2.594592 GGCCACGTGCACTTCCTT 60.595 61.111 16.19 0.00 43.89 3.36
3084 4008 0.757561 TCCAGTGTCGAGGAACCACA 60.758 55.000 5.97 0.00 0.00 4.17
3192 4116 1.194781 ACGGCCACAGATCTTCACCT 61.195 55.000 2.24 0.00 0.00 4.00
3596 4520 2.383527 GCTGTTTCCCTGCGAGACG 61.384 63.158 0.00 0.00 0.00 4.18
3809 4750 1.377725 CTGCGGCCTGGAACTTGAT 60.378 57.895 0.00 0.00 0.00 2.57
4038 4982 2.997315 GCCTCCCCCAAAACAGGC 60.997 66.667 0.00 0.00 44.63 4.85
4144 5089 0.247460 CGCAGGAACCTCACATCAGA 59.753 55.000 0.00 0.00 0.00 3.27
4563 5514 1.217511 CTCTGGCGTGACTGCATCT 59.782 57.895 0.00 0.00 36.28 2.90
4769 5722 2.926242 GGTTCCTCCCCCGTCACA 60.926 66.667 0.00 0.00 0.00 3.58
4852 5805 1.067974 AGGTGTTGTTGTCGTCGATGA 59.932 47.619 2.39 2.39 0.00 2.92
4959 5912 2.639327 GGCGGGCTTTGTGCTTGAT 61.639 57.895 0.00 0.00 42.39 2.57
5005 5958 2.154798 CTCCTCGAAGTCCACGCCAA 62.155 60.000 0.00 0.00 0.00 4.52
5169 6124 2.771639 CCTCCGCGACGAATCCAGA 61.772 63.158 8.23 0.00 0.00 3.86
5358 6315 1.647545 GATCGTCGACGTACACCCCA 61.648 60.000 34.40 15.55 40.80 4.96
5433 6390 1.895798 TCGCTCATGGAGAAGAGTTGT 59.104 47.619 0.00 0.00 34.39 3.32
5436 6393 1.846007 AGTCGCTCATGGAGAAGAGT 58.154 50.000 0.00 0.00 34.39 3.24
5532 6489 3.313524 TCGAGCAGCTTGGAGGCA 61.314 61.111 9.98 0.00 34.17 4.75
6072 7029 6.609237 TTGTTGTCAATGAACAGAGAGAAG 57.391 37.500 0.00 0.00 34.85 2.85
6226 7183 5.638596 TTCGTCAGTATGTCTGCTTTCTA 57.361 39.130 0.00 0.00 43.32 2.10
6290 7247 0.523546 CTTGACGTCGACGATCCCAG 60.524 60.000 41.52 25.42 43.02 4.45
6365 7323 7.531857 TGAGAACAGACTAAGTTCAGAGAAT 57.468 36.000 8.54 0.00 45.93 2.40
6375 7334 8.465999 ACACTTATCTGATGAGAACAGACTAAG 58.534 37.037 15.44 5.13 45.19 2.18
6381 7340 4.502282 GCGACACTTATCTGATGAGAACAG 59.498 45.833 15.44 6.07 36.80 3.16
6386 7345 5.008118 TGTCTAGCGACACTTATCTGATGAG 59.992 44.000 7.80 7.80 44.85 2.90
6388 7347 5.175090 TGTCTAGCGACACTTATCTGATG 57.825 43.478 0.00 0.00 44.85 3.07
6458 7425 2.141122 AACGCAACCAATTGGCGAGG 62.141 55.000 26.94 16.50 38.15 4.63
6683 7669 5.392767 ACTCTAGCTTGATCGTGAAAGAA 57.607 39.130 0.00 0.00 0.00 2.52
6687 7673 5.394224 CCCTAAACTCTAGCTTGATCGTGAA 60.394 44.000 0.00 0.00 0.00 3.18
6744 7733 1.663739 CTCCACCTCGTTCACCGAA 59.336 57.895 0.00 0.00 46.75 4.30
6834 7823 1.194772 GAAGTGAAGCGGTTTTCGGAG 59.805 52.381 0.00 0.00 39.69 4.63
6835 7824 1.202604 AGAAGTGAAGCGGTTTTCGGA 60.203 47.619 0.00 0.00 39.69 4.55
6837 7826 3.246699 TGTAAGAAGTGAAGCGGTTTTCG 59.753 43.478 0.00 0.00 42.76 3.46
6851 7840 2.898705 AGAAGCGCCAGATGTAAGAAG 58.101 47.619 2.29 0.00 0.00 2.85
6925 7914 8.896722 TTTAAAAACATATAAACTGCCCCCTA 57.103 30.769 0.00 0.00 0.00 3.53
6930 7919 9.699703 TGAGGTTTTAAAAACATATAAACTGCC 57.300 29.630 17.91 3.42 0.00 4.85
7004 7999 6.379988 GCCAATAAAACCTATTCCTTTCAGGA 59.620 38.462 0.00 0.00 44.10 3.86
7144 8141 3.588955 CCAACACTTCGTGATCAGATGA 58.411 45.455 0.00 0.00 36.96 2.92
7204 8201 7.046652 CACTTGGTGATCAGATGATAAGTTCT 58.953 38.462 0.00 0.00 35.23 3.01
7206 8203 6.715280 ACACTTGGTGATCAGATGATAAGTT 58.285 36.000 0.00 0.00 36.96 2.66
7207 8204 6.305272 ACACTTGGTGATCAGATGATAAGT 57.695 37.500 0.00 0.00 36.96 2.24
7208 8205 6.037940 CCAACACTTGGTGATCAGATGATAAG 59.962 42.308 0.00 0.00 45.93 1.73
7209 8206 5.882000 CCAACACTTGGTGATCAGATGATAA 59.118 40.000 0.00 0.00 45.93 1.75
7210 8207 5.430886 CCAACACTTGGTGATCAGATGATA 58.569 41.667 0.00 0.00 45.93 2.15
7211 8208 4.267536 CCAACACTTGGTGATCAGATGAT 58.732 43.478 0.00 0.00 45.93 2.45
7212 8209 3.678289 CCAACACTTGGTGATCAGATGA 58.322 45.455 0.00 0.00 45.93 2.92
7224 8221 2.890311 TGATAAGTTGGCCCAACACTTG 59.110 45.455 27.49 0.00 45.66 3.16
7225 8222 3.237268 TGATAAGTTGGCCCAACACTT 57.763 42.857 27.49 16.62 45.66 3.16
7226 8223 2.969821 TGATAAGTTGGCCCAACACT 57.030 45.000 27.49 16.47 45.66 3.55
7227 8224 3.064820 CGTATGATAAGTTGGCCCAACAC 59.935 47.826 27.49 14.03 45.66 3.32
7228 8225 3.055021 TCGTATGATAAGTTGGCCCAACA 60.055 43.478 27.49 9.26 45.66 3.33
7229 8226 3.537580 TCGTATGATAAGTTGGCCCAAC 58.462 45.455 19.12 19.12 43.83 3.77
7230 8227 3.199071 ACTCGTATGATAAGTTGGCCCAA 59.801 43.478 0.00 0.00 0.00 4.12
7231 8228 2.769663 ACTCGTATGATAAGTTGGCCCA 59.230 45.455 0.00 0.00 0.00 5.36
7232 8229 3.470645 ACTCGTATGATAAGTTGGCCC 57.529 47.619 0.00 0.00 0.00 5.80
7233 8230 9.865321 TTATAATACTCGTATGATAAGTTGGCC 57.135 33.333 0.00 0.00 29.65 5.36
7248 8245 9.221775 GCTGTCAAACCAATTTTATAATACTCG 57.778 33.333 0.00 0.00 0.00 4.18
7386 8686 5.595542 ACCAATCACCATTATGTTGGATCAG 59.404 40.000 16.03 3.79 41.36 2.90
7457 11696 6.144402 CACACCAGTCAAGTAAATGCAAAATC 59.856 38.462 0.00 0.00 0.00 2.17
7520 11760 6.837992 TGTTCTTAAGCCGCTAGTATTTTTG 58.162 36.000 0.00 0.00 0.00 2.44
7532 11772 2.607187 ACTCACGATGTTCTTAAGCCG 58.393 47.619 0.00 0.00 0.00 5.52
7560 11800 8.553459 TTGAGAAGATAGGACATTCAAACTTC 57.447 34.615 0.00 0.00 34.62 3.01
7584 11824 8.692710 TCGACAGTTCCAATCATACTAGTATTT 58.307 33.333 12.87 3.46 0.00 1.40
7833 12087 4.332543 TGAGAACAACTTTAGCTGTGTGTG 59.667 41.667 0.00 0.00 0.00 3.82
7856 12110 8.482128 TCAAACAAATCAAAAACCTGGATTACT 58.518 29.630 0.00 0.00 31.40 2.24
7926 12180 2.894731 TGGATGGAAGACACTGAGAGT 58.105 47.619 0.00 0.00 0.00 3.24
7949 12203 4.686191 AATCTTATCCTCCACAGCTGAG 57.314 45.455 23.35 13.32 0.00 3.35
7953 12207 8.677148 TTACAATTAATCTTATCCTCCACAGC 57.323 34.615 0.00 0.00 0.00 4.40
7996 12250 7.572814 TCATCACATTAATATGGACAGGTGAA 58.427 34.615 5.43 0.00 37.54 3.18
8097 12354 5.638234 ACTAACCTCTTCACGCTCAATAAAC 59.362 40.000 0.00 0.00 0.00 2.01
8339 12596 5.243060 CCATGCATCCACACAAGATGATTAT 59.757 40.000 0.00 0.00 43.15 1.28
8392 12649 5.345202 CGTCAAGTCAACACTTACATCTACC 59.655 44.000 0.00 0.00 41.24 3.18
8527 12784 8.691661 AGCTTTCAAACTCAAACCTTAGATAA 57.308 30.769 0.00 0.00 0.00 1.75
8786 13044 4.063689 GCTGTCAGACATAATATGCTGCT 58.936 43.478 2.97 3.49 35.68 4.24
8804 13062 4.437239 CCGATATTCAACAAGAGAGCTGT 58.563 43.478 0.00 0.00 0.00 4.40
8843 13111 3.367395 GGCAATTTTCTTCAGTAGGTGGC 60.367 47.826 0.00 0.00 0.00 5.01
8868 13136 0.391661 ACAGTCACACCGATGGCATC 60.392 55.000 17.58 17.58 0.00 3.91
8869 13137 0.036732 AACAGTCACACCGATGGCAT 59.963 50.000 0.00 0.00 0.00 4.40
8870 13138 0.884259 CAACAGTCACACCGATGGCA 60.884 55.000 0.00 0.00 0.00 4.92
8871 13139 0.602638 TCAACAGTCACACCGATGGC 60.603 55.000 0.00 0.00 0.00 4.40
8872 13140 2.099141 ATCAACAGTCACACCGATGG 57.901 50.000 0.00 0.00 0.00 3.51
8873 13141 2.807967 ACAATCAACAGTCACACCGATG 59.192 45.455 0.00 0.00 0.00 3.84
8874 13142 2.807967 CACAATCAACAGTCACACCGAT 59.192 45.455 0.00 0.00 0.00 4.18
8875 13143 2.209273 CACAATCAACAGTCACACCGA 58.791 47.619 0.00 0.00 0.00 4.69
8876 13144 1.939934 ACACAATCAACAGTCACACCG 59.060 47.619 0.00 0.00 0.00 4.94
8877 13145 3.002656 CAGACACAATCAACAGTCACACC 59.997 47.826 0.00 0.00 33.56 4.16
8878 13146 3.623060 ACAGACACAATCAACAGTCACAC 59.377 43.478 0.00 0.00 33.56 3.82
8879 13147 3.871006 GACAGACACAATCAACAGTCACA 59.129 43.478 0.00 0.00 33.56 3.58
8919 13187 2.874664 CGTGGTCCTTGGTTCGGGA 61.875 63.158 0.00 0.00 0.00 5.14
9319 13628 6.791847 TGGGACAGAGGGAGTACTATATAA 57.208 41.667 0.00 0.00 0.00 0.98
9336 14482 3.508012 CCCACGACATTTATTTTGGGACA 59.492 43.478 0.00 0.00 45.81 4.02
9550 15023 4.389992 ACTTCACGTCAATGATTAGCACTG 59.610 41.667 0.00 0.00 0.00 3.66
9566 15039 7.167136 AGTCGAAGAAACTTACTTTACTTCACG 59.833 37.037 0.00 0.00 39.69 4.35
9636 15110 2.290367 TGATTGGTGTGAGTTCGCTTTG 59.710 45.455 0.00 0.00 0.00 2.77
9675 15149 1.812571 CCAGGGACCATTCTTTTCACG 59.187 52.381 0.00 0.00 0.00 4.35


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

AutoCloner maintained by Alex Coulton.