Multiple sequence alignment - TraesCS2D01G451400

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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 TraesCS2D01G451400 chr2D 100.000 4981 0 0 1 4981 561046047 561051027 0.000000e+00 9199.0
1 TraesCS2D01G451400 chr2D 85.250 739 61 20 2132 2846 561289493 561290207 0.000000e+00 717.0
2 TraesCS2D01G451400 chr2D 89.587 557 44 4 3377 3923 561316340 561316892 0.000000e+00 695.0
3 TraesCS2D01G451400 chr2D 86.908 359 26 8 2837 3175 561297690 561298047 2.810000e-102 383.0
4 TraesCS2D01G451400 chr2D 78.150 508 56 27 4080 4565 561317356 561317830 6.350000e-69 272.0
5 TraesCS2D01G451400 chr2D 89.041 73 7 1 3948 4020 561317034 561317105 6.870000e-14 89.8
6 TraesCS2D01G451400 chr2D 90.164 61 6 0 4920 4980 561317823 561317883 4.130000e-11 80.5
7 TraesCS2D01G451400 chr2B 86.389 3534 273 101 3 3410 670597617 670594166 0.000000e+00 3670.0
8 TraesCS2D01G451400 chr2B 88.506 1540 118 29 1909 3410 670297934 670296416 0.000000e+00 1808.0
9 TraesCS2D01G451400 chr2B 92.488 639 41 4 3448 4081 670296410 670295774 0.000000e+00 907.0
10 TraesCS2D01G451400 chr2B 85.177 877 82 21 4083 4951 670593416 670592580 0.000000e+00 856.0
11 TraesCS2D01G451400 chr2B 90.221 542 25 9 3448 3961 670594160 670593619 0.000000e+00 682.0
12 TraesCS2D01G451400 chr2B 93.891 311 18 1 1425 1735 670325590 670325281 7.550000e-128 468.0
13 TraesCS2D01G451400 chr2B 80.135 297 45 10 4595 4884 42138966 42139255 5.050000e-50 209.0
14 TraesCS2D01G451400 chr2B 86.885 61 8 0 4920 4980 670295258 670295198 8.950000e-08 69.4
15 TraesCS2D01G451400 chr2B 100.000 30 0 0 139 168 142361453 142361424 6.970000e-04 56.5
16 TraesCS2D01G451400 chr2A 90.240 1291 85 22 2057 3322 701011444 701012718 0.000000e+00 1648.0
17 TraesCS2D01G451400 chr2A 87.882 1015 67 21 1047 2014 701010442 701011447 0.000000e+00 1142.0
18 TraesCS2D01G451400 chr2A 90.210 715 52 11 3378 4079 701012722 701013431 0.000000e+00 917.0
19 TraesCS2D01G451400 chr2A 83.354 793 77 23 5 778 700994636 700995392 0.000000e+00 682.0
20 TraesCS2D01G451400 chr2A 84.783 552 60 15 4433 4980 701014485 701015016 2.640000e-147 532.0
21 TraesCS2D01G451400 chr2A 92.183 371 22 7 4076 4444 701013473 701013838 7.390000e-143 518.0
22 TraesCS2D01G451400 chr2A 81.605 299 42 9 4598 4885 9056210 9055914 8.340000e-58 235.0
23 TraesCS2D01G451400 chr2A 88.298 188 20 2 867 1052 701010227 701010414 1.800000e-54 224.0
24 TraesCS2D01G451400 chrUn 81.333 300 43 11 4595 4887 241852813 241853106 1.080000e-56 231.0
25 TraesCS2D01G451400 chr3B 80.189 318 55 8 1994 2307 214707830 214707517 1.080000e-56 231.0
26 TraesCS2D01G451400 chr3A 80.471 297 49 7 4599 4889 572347817 572347524 8.400000e-53 219.0
27 TraesCS2D01G451400 chr3A 78.824 85 16 2 3473 3556 434491277 434491194 6.970000e-04 56.5
28 TraesCS2D01G451400 chr3D 82.449 245 32 9 4603 4839 486136943 486136702 2.350000e-48 204.0
29 TraesCS2D01G451400 chr3D 79.655 290 52 7 4602 4887 8925115 8924829 8.460000e-48 202.0
30 TraesCS2D01G451400 chr4D 79.779 272 43 8 4590 4853 14439940 14440207 2.370000e-43 187.0
31 TraesCS2D01G451400 chr7D 78.007 291 61 2 4598 4885 629080396 629080106 3.960000e-41 180.0
32 TraesCS2D01G451400 chr4A 95.000 40 2 0 855 894 161427520 161427559 4.160000e-06 63.9


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G451400 chr2D 561046047 561051027 4980 False 9199.000000 9199 100.000000 1 4981 1 chr2D.!!$F1 4980
1 TraesCS2D01G451400 chr2D 561289493 561290207 714 False 717.000000 717 85.250000 2132 2846 1 chr2D.!!$F2 714
2 TraesCS2D01G451400 chr2D 561316340 561317883 1543 False 284.325000 695 86.735500 3377 4980 4 chr2D.!!$F4 1603
3 TraesCS2D01G451400 chr2B 670592580 670597617 5037 True 1736.000000 3670 87.262333 3 4951 3 chr2B.!!$R4 4948
4 TraesCS2D01G451400 chr2B 670295198 670297934 2736 True 928.133333 1808 89.293000 1909 4980 3 chr2B.!!$R3 3071
5 TraesCS2D01G451400 chr2A 701010227 701015016 4789 False 830.166667 1648 88.932667 867 4980 6 chr2A.!!$F2 4113
6 TraesCS2D01G451400 chr2A 700994636 700995392 756 False 682.000000 682 83.354000 5 778 1 chr2A.!!$F1 773

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
427 445 0.321298 TCAGCCAAACCGCTACTTCC 60.321 55.0 0.0 0.0 36.82 3.46 F
1089 1221 0.454600 GTGACTGGATCGCCTCGTAA 59.545 55.0 0.0 0.0 34.31 3.18 F
2071 2259 0.032615 TTTGTTTGGCTGGTCAGGGT 60.033 50.0 0.0 0.0 0.00 4.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2054 2242 1.152777 CACCCTGACCAGCCAAACA 60.153 57.895 0.00 0.00 0.00 2.83 R
2744 2963 0.730494 GGAAACACAGAAGCATGCGC 60.730 55.000 13.01 8.84 38.99 6.09 R
4055 4662 0.625849 CCCTACCACAAATCCCAGCT 59.374 55.000 0.00 0.00 0.00 4.24 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
76 77 5.007136 GCTCCATCCTGATTAGAAAGTTTCG 59.993 44.000 9.91 0.00 34.02 3.46
80 81 7.548075 TCCATCCTGATTAGAAAGTTTCGTAAC 59.452 37.037 9.91 0.00 34.02 2.50
109 111 7.523293 TCTCAATTTATTTTGTCTGAAGGCA 57.477 32.000 0.00 0.00 0.00 4.75
271 288 1.554617 CAATGACCAAAACCCATCCCC 59.445 52.381 0.00 0.00 0.00 4.81
303 320 1.878953 AATTACCCATCGATGGTCGC 58.121 50.000 36.09 0.00 46.65 5.19
325 342 3.432467 CGTAACAGGTACCCATTGCCATA 60.432 47.826 8.74 0.00 0.00 2.74
347 364 1.955778 CACTCTCATCCATCTCGCTCT 59.044 52.381 0.00 0.00 0.00 4.09
359 376 0.463295 CTCGCTCTGCACCAATCCAT 60.463 55.000 0.00 0.00 0.00 3.41
361 378 0.745486 CGCTCTGCACCAATCCATCA 60.745 55.000 0.00 0.00 0.00 3.07
372 389 3.331889 ACCAATCCATCACCTGACTTCTT 59.668 43.478 0.00 0.00 0.00 2.52
393 410 4.154347 CGAGCTCTCCCACTGGCC 62.154 72.222 12.85 0.00 0.00 5.36
427 445 0.321298 TCAGCCAAACCGCTACTTCC 60.321 55.000 0.00 0.00 36.82 3.46
431 449 0.676782 CCAAACCGCTACTTCCCCAG 60.677 60.000 0.00 0.00 0.00 4.45
462 490 3.283751 TCTCCTTCTCCGAAGACATCTC 58.716 50.000 5.24 0.00 0.00 2.75
463 491 3.053991 TCTCCTTCTCCGAAGACATCTCT 60.054 47.826 5.24 0.00 0.00 3.10
495 586 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
496 587 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
499 590 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
506 597 2.769663 TCTCTCTCTCTCTCTAAGCCGT 59.230 50.000 0.00 0.00 0.00 5.68
517 608 3.420214 TAAGCCGTCGACGCCATCC 62.420 63.158 31.73 15.84 38.18 3.51
525 616 3.728373 GACGCCATCCCCTTGGGT 61.728 66.667 4.84 0.00 44.74 4.51
527 618 4.506255 CGCCATCCCCTTGGGTCC 62.506 72.222 4.84 0.00 44.74 4.46
535 626 1.203505 TCCCCTTGGGTCCACTATCAA 60.204 52.381 4.84 0.00 44.74 2.57
536 627 1.064685 CCCCTTGGGTCCACTATCAAC 60.065 57.143 4.84 0.00 38.25 3.18
539 630 2.356125 CCTTGGGTCCACTATCAACCTG 60.356 54.545 0.00 0.00 33.42 4.00
588 679 1.836166 CTCTTCATCCTCCTTCAGGCA 59.164 52.381 0.00 0.00 43.08 4.75
589 680 1.556911 TCTTCATCCTCCTTCAGGCAC 59.443 52.381 0.00 0.00 43.08 5.01
618 709 1.111116 AACGACAAGGAGGTGGACGA 61.111 55.000 0.00 0.00 0.00 4.20
639 730 1.534175 CGACAGATTGGAGTAGCGGAC 60.534 57.143 0.00 0.00 0.00 4.79
662 753 6.170506 ACAATATCCTAGAGTTGTTTTCGCA 58.829 36.000 0.00 0.00 31.20 5.10
724 815 5.508153 GCAGTTGTCTCGTATCTGGATGTAT 60.508 44.000 0.00 0.00 0.00 2.29
725 816 5.917447 CAGTTGTCTCGTATCTGGATGTATG 59.083 44.000 0.00 0.00 0.00 2.39
727 818 3.888930 TGTCTCGTATCTGGATGTATGCA 59.111 43.478 0.00 0.00 0.00 3.96
824 915 2.690778 AAGGATGGCAAGCGCGAAC 61.691 57.895 12.10 0.00 39.92 3.95
825 916 3.127533 GGATGGCAAGCGCGAACT 61.128 61.111 12.10 0.00 39.92 3.01
849 940 1.876799 CGAATGGTAGTTTGTGTGGCA 59.123 47.619 0.00 0.00 0.00 4.92
881 972 5.236047 GCATTTTACAAAACTGCCATGACAA 59.764 36.000 0.00 0.00 31.91 3.18
897 988 7.040617 TGCCATGACAATTTGTTTAATTTGCAT 60.041 29.630 3.08 0.00 34.19 3.96
1045 1146 1.762708 GGGGAGACAGAGAGACAGAG 58.237 60.000 0.00 0.00 0.00 3.35
1082 1214 2.100631 CCAACCGTGACTGGATCGC 61.101 63.158 0.72 0.00 34.35 4.58
1089 1221 0.454600 GTGACTGGATCGCCTCGTAA 59.545 55.000 0.00 0.00 34.31 3.18
1164 1296 2.590007 CGCCTGGGTGCTATGAGC 60.590 66.667 0.00 0.00 42.82 4.26
1168 1300 2.591753 TGGGTGCTATGAGCCAGC 59.408 61.111 0.00 0.00 41.51 4.85
1284 1425 0.457851 CTCTCGTCGCCTCCTTGAAT 59.542 55.000 0.00 0.00 0.00 2.57
1336 1483 1.617947 GGTCCGGCTGATGAGGAAGT 61.618 60.000 0.00 0.00 35.60 3.01
1449 1599 3.760684 ACTTCAGGTAATTAGTCGACGGT 59.239 43.478 10.46 0.00 0.00 4.83
1503 1677 1.005032 CGTGGCGTGCTATATGTTGTG 60.005 52.381 0.00 0.00 0.00 3.33
1540 1719 2.991190 GTCACGTTCGGAGATAAAAGCA 59.009 45.455 0.00 0.00 35.04 3.91
1728 1911 9.532494 TTATATTATTAGGCCTGACAATGCAAT 57.468 29.630 17.99 6.96 0.00 3.56
1743 1926 6.225318 ACAATGCAATGTGCTTATGAAAAGT 58.775 32.000 6.61 0.00 45.31 2.66
1808 1993 5.338365 CCTCTGCAATATGAAAAAGCACTC 58.662 41.667 0.00 0.00 0.00 3.51
1809 1994 5.106038 CCTCTGCAATATGAAAAAGCACTCA 60.106 40.000 0.00 0.00 0.00 3.41
1899 2087 9.097257 AGTGGTTTGTCATGAAAATTACTTTTG 57.903 29.630 0.00 0.00 34.73 2.44
1986 2174 7.662669 GGGGTTGTAGTAATTAAGTGAAGTCAA 59.337 37.037 0.00 0.00 0.00 3.18
1997 2185 5.970317 AAGTGAAGTCAATCAATGATGCA 57.030 34.783 0.00 0.00 40.97 3.96
2008 2196 8.186163 GTCAATCAATGATGCATCTTTGTTCTA 58.814 33.333 35.54 25.03 40.97 2.10
2040 2228 8.466617 TTTACCTTGCTAACTTCACCAATTTA 57.533 30.769 0.00 0.00 0.00 1.40
2071 2259 0.032615 TTTGTTTGGCTGGTCAGGGT 60.033 50.000 0.00 0.00 0.00 4.34
2191 2381 0.608582 CTGGCTGCTTCTTTCCTGCT 60.609 55.000 0.00 0.00 0.00 4.24
2237 2427 4.662468 TGAGCTCATTGATAGAGGTGAC 57.338 45.455 13.74 0.00 43.27 3.67
2307 2509 2.772515 AGCTTGATGTACCCTTACCTCC 59.227 50.000 0.00 0.00 0.00 4.30
2443 2657 1.202940 ACAAAGGAAGCCCTCTGGAAC 60.203 52.381 0.00 0.00 43.48 3.62
2445 2659 0.772124 AAGGAAGCCCTCTGGAACCA 60.772 55.000 0.00 0.00 43.48 3.67
2447 2661 0.332972 GGAAGCCCTCTGGAACCAAT 59.667 55.000 0.00 0.00 0.00 3.16
2449 2663 1.821136 GAAGCCCTCTGGAACCAATTG 59.179 52.381 0.00 0.00 0.00 2.32
2450 2664 0.779997 AGCCCTCTGGAACCAATTGT 59.220 50.000 4.43 0.00 0.00 2.71
2452 2666 1.273327 GCCCTCTGGAACCAATTGTTG 59.727 52.381 4.43 0.00 37.29 3.33
2453 2667 2.875296 CCCTCTGGAACCAATTGTTGA 58.125 47.619 4.43 0.00 37.29 3.18
2454 2668 2.558359 CCCTCTGGAACCAATTGTTGAC 59.442 50.000 4.43 0.00 37.29 3.18
2467 2685 6.379988 ACCAATTGTTGACTTCTTTAGGTTGT 59.620 34.615 4.43 0.00 0.00 3.32
2475 2693 6.411376 TGACTTCTTTAGGTTGTCTTTGACA 58.589 36.000 0.00 0.00 41.09 3.58
2510 2728 5.191426 AGAGGTTCATGATCCAATTGTGAG 58.809 41.667 22.09 0.00 0.00 3.51
2511 2729 5.045359 AGAGGTTCATGATCCAATTGTGAGA 60.045 40.000 22.09 0.00 0.00 3.27
2520 2738 7.812690 TGATCCAATTGTGAGATAAGAATGG 57.187 36.000 4.43 0.00 0.00 3.16
2561 2780 5.933463 CGAGGGTGTGTAGTTATGGTTTTTA 59.067 40.000 0.00 0.00 0.00 1.52
2563 2782 7.120138 CGAGGGTGTGTAGTTATGGTTTTTATT 59.880 37.037 0.00 0.00 0.00 1.40
2565 2784 9.810870 AGGGTGTGTAGTTATGGTTTTTATTTA 57.189 29.630 0.00 0.00 0.00 1.40
2654 2873 4.851843 TCATGTGCTCATTCTTCTTCCAT 58.148 39.130 0.00 0.00 31.15 3.41
2661 2880 8.843262 TGTGCTCATTCTTCTTCCATAAATATG 58.157 33.333 0.00 0.00 0.00 1.78
2705 2924 2.719531 TGCGCCTATAATGGTTTGGA 57.280 45.000 4.18 0.00 0.00 3.53
2736 2955 6.721571 TCTGTGCAGCTAATTTTACTGTAC 57.278 37.500 12.93 12.93 44.30 2.90
2768 2987 2.452600 TGCTTCTGTGTTTCCCCTTT 57.547 45.000 0.00 0.00 0.00 3.11
2774 2993 2.627699 TCTGTGTTTCCCCTTTCAATGC 59.372 45.455 0.00 0.00 0.00 3.56
2816 3036 6.981559 GGTTTGTTTTGGCAATAAGACAGTAA 59.018 34.615 0.00 0.00 35.94 2.24
2817 3037 7.169140 GGTTTGTTTTGGCAATAAGACAGTAAG 59.831 37.037 0.00 0.00 35.94 2.34
2821 3041 7.232534 TGTTTTGGCAATAAGACAGTAAGGATT 59.767 33.333 0.00 0.00 35.94 3.01
2882 3102 6.042093 TCTCCACATTTGTCTTCTGTACTCTT 59.958 38.462 0.00 0.00 0.00 2.85
2889 3109 6.911250 TTGTCTTCTGTACTCTTGTCCATA 57.089 37.500 0.00 0.00 0.00 2.74
2899 3119 8.008513 TGTACTCTTGTCCATATTCCTTAGAC 57.991 38.462 0.00 0.00 0.00 2.59
2915 3146 6.971340 TCCTTAGACTACCTCTTCACACTAT 58.029 40.000 0.00 0.00 0.00 2.12
2916 3147 8.098963 TCCTTAGACTACCTCTTCACACTATA 57.901 38.462 0.00 0.00 0.00 1.31
2945 3176 9.421806 CCTGAATATTTCAAAGCAACAATGTTA 57.578 29.630 0.00 0.00 39.58 2.41
2990 3232 6.992063 TTATTCCTTGATTCAGTGAGCTTC 57.008 37.500 0.00 0.00 0.00 3.86
2996 3239 5.006165 CCTTGATTCAGTGAGCTTCGTATTC 59.994 44.000 0.00 0.00 0.00 1.75
3087 3330 0.261991 TCCCTCTTCTACCTCGCCAT 59.738 55.000 0.00 0.00 0.00 4.40
3091 3334 1.067821 CTCTTCTACCTCGCCATGTCC 59.932 57.143 0.00 0.00 0.00 4.02
3098 3341 1.817099 CTCGCCATGTCCTTCCAGC 60.817 63.158 0.00 0.00 0.00 4.85
3224 3469 1.134280 GCTTGAGCAGCTGAGGGAATA 60.134 52.381 20.43 0.00 46.27 1.75
3233 3478 4.036144 GCAGCTGAGGGAATAATCAAACTC 59.964 45.833 20.43 0.00 0.00 3.01
3236 3481 4.036144 GCTGAGGGAATAATCAAACTCTGC 59.964 45.833 0.00 0.00 38.61 4.26
3286 3532 6.184789 GTTTCCAGTAATTTAGATGACCCCA 58.815 40.000 0.00 0.00 0.00 4.96
3332 3585 9.595823 GCTTAACCTTATGTGTACTTAGATTCA 57.404 33.333 0.00 0.00 0.00 2.57
3336 3589 8.948631 ACCTTATGTGTACTTAGATTCATGTG 57.051 34.615 0.00 0.00 0.00 3.21
3337 3590 8.540388 ACCTTATGTGTACTTAGATTCATGTGT 58.460 33.333 0.00 0.00 0.00 3.72
3338 3591 8.820933 CCTTATGTGTACTTAGATTCATGTGTG 58.179 37.037 0.00 0.00 0.00 3.82
3339 3592 8.716646 TTATGTGTACTTAGATTCATGTGTGG 57.283 34.615 0.00 0.00 0.00 4.17
3340 3593 6.353404 TGTGTACTTAGATTCATGTGTGGA 57.647 37.500 0.00 0.00 0.00 4.02
3341 3594 6.946340 TGTGTACTTAGATTCATGTGTGGAT 58.054 36.000 0.00 0.00 0.00 3.41
3342 3595 7.041721 TGTGTACTTAGATTCATGTGTGGATC 58.958 38.462 0.00 0.00 40.17 3.36
3343 3596 7.041721 GTGTACTTAGATTCATGTGTGGATCA 58.958 38.462 0.00 0.00 41.99 2.92
3360 3613 1.466856 TCAGTGGATGAATTGCAGGC 58.533 50.000 0.00 0.00 34.02 4.85
3386 3639 5.706916 CAGTTGCTTTATCACTCTTTGCAT 58.293 37.500 0.00 0.00 0.00 3.96
3421 3674 5.230182 CGTTATATCATGCTTAGAGGCACA 58.770 41.667 0.00 0.00 45.36 4.57
3599 3854 3.503363 ACCAAGTTACACTGTACGATCGA 59.497 43.478 24.34 2.23 0.00 3.59
3622 3881 8.520351 TCGATCTCTTACATTGTCTCTTTGTTA 58.480 33.333 0.00 0.00 0.00 2.41
3625 3884 8.818141 TCTCTTACATTGTCTCTTTGTTACTG 57.182 34.615 0.00 0.00 0.00 2.74
3633 3892 2.441750 TCTCTTTGTTACTGGGCCTGTT 59.558 45.455 21.68 6.10 0.00 3.16
3848 4114 3.940221 CGTTACTGCTCCTACTACTGAGT 59.060 47.826 0.00 0.00 39.92 3.41
3860 4126 2.309162 ACTACTGAGTAGTGAGCCCTGA 59.691 50.000 23.37 0.00 46.06 3.86
4000 4462 7.983484 AGTGTAAATAAACTAAGTATGGACGGG 59.017 37.037 0.00 0.00 0.00 5.28
4001 4463 7.765819 GTGTAAATAAACTAAGTATGGACGGGT 59.234 37.037 0.00 0.00 0.00 5.28
4003 4465 3.515330 AAACTAAGTATGGACGGGTCG 57.485 47.619 0.00 0.00 0.00 4.79
4019 4625 6.455360 ACGGGTCGTTGTATTTCTCTAATA 57.545 37.500 0.00 0.00 36.35 0.98
4039 4646 8.935844 TCTAATATTTTGTGCTTCAGTGTACAG 58.064 33.333 0.00 0.00 34.34 2.74
4055 4662 2.831685 ACAGTCGTTTGGATGCTACA 57.168 45.000 0.00 0.00 0.00 2.74
4081 4688 2.289565 GATTTGTGGTAGGGCTGCTAC 58.710 52.381 0.00 0.00 0.00 3.58
4086 4748 3.112263 TGTGGTAGGGCTGCTACTAAAT 58.888 45.455 0.00 0.00 0.00 1.40
4122 4784 9.000486 GTACTATCTCCAATTAGCATTTAACCC 58.000 37.037 0.00 0.00 0.00 4.11
4140 4802 0.944386 CCGTTCCACAGTTTGACCTG 59.056 55.000 0.00 0.00 38.45 4.00
4207 4869 9.288576 TGAGAATAAAATTGACATGCCTATAGG 57.711 33.333 15.01 15.01 38.53 2.57
4220 4882 6.272324 ACATGCCTATAGGTAGCTTTGGATTA 59.728 38.462 20.10 0.00 37.57 1.75
4252 4915 3.541242 TTTCCATGTGATTGGGAGGTT 57.459 42.857 0.00 0.00 37.37 3.50
4272 4935 8.753133 GGAGGTTGGAAGAAATATTTCAGAATT 58.247 33.333 26.02 13.84 39.61 2.17
4300 4974 7.276438 GCCAAACTGGATCTTCAATCAAAATAC 59.724 37.037 0.00 0.00 40.96 1.89
4323 5000 4.608269 TGCATGACCATTCCATTTTCCTA 58.392 39.130 0.00 0.00 0.00 2.94
4380 5059 8.709386 AATGCGGAATACTTCTGTATCATATC 57.291 34.615 0.68 0.00 39.94 1.63
4416 5096 3.973206 TCTCTCCAAATAGTTTCGGCA 57.027 42.857 0.00 0.00 0.00 5.69
4467 5805 6.205784 TCTAAACCATTTTTCTCGTTTGCAG 58.794 36.000 0.00 0.00 31.29 4.41
4475 5813 9.139174 CCATTTTTCTCGTTTGCAGTATAAAAT 57.861 29.630 0.00 0.00 0.00 1.82
4580 5932 1.734388 AAAGGCGAACCAACCTGTGC 61.734 55.000 0.00 0.00 39.06 4.57
4581 5933 2.594592 GGCGAACCAACCTGTGCT 60.595 61.111 0.00 0.00 35.26 4.40
4582 5934 1.302192 GGCGAACCAACCTGTGCTA 60.302 57.895 0.00 0.00 35.26 3.49
4583 5935 1.298859 GGCGAACCAACCTGTGCTAG 61.299 60.000 0.00 0.00 35.26 3.42
4584 5936 0.320421 GCGAACCAACCTGTGCTAGA 60.320 55.000 0.00 0.00 0.00 2.43
4585 5937 1.676014 GCGAACCAACCTGTGCTAGAT 60.676 52.381 0.00 0.00 0.00 1.98
4586 5938 2.002586 CGAACCAACCTGTGCTAGATG 58.997 52.381 0.00 0.00 0.00 2.90
4587 5939 2.359900 GAACCAACCTGTGCTAGATGG 58.640 52.381 0.00 9.85 38.45 3.51
4588 5940 1.362224 ACCAACCTGTGCTAGATGGT 58.638 50.000 0.00 10.72 39.86 3.55
4589 5941 1.705186 ACCAACCTGTGCTAGATGGTT 59.295 47.619 0.00 0.00 41.02 3.67
4590 5942 2.910319 ACCAACCTGTGCTAGATGGTTA 59.090 45.455 0.00 0.00 41.02 2.85
4591 5943 3.055094 ACCAACCTGTGCTAGATGGTTAG 60.055 47.826 0.00 0.00 41.02 2.34
4592 5944 3.535561 CAACCTGTGCTAGATGGTTAGG 58.464 50.000 0.00 0.00 40.39 2.69
4593 5945 3.116096 ACCTGTGCTAGATGGTTAGGA 57.884 47.619 0.00 0.00 0.00 2.94
4601 5953 6.782494 TGTGCTAGATGGTTAGGATTAGATGA 59.218 38.462 0.00 0.00 0.00 2.92
4615 5967 6.496565 AGGATTAGATGATTAGGAGGACAGTG 59.503 42.308 0.00 0.00 0.00 3.66
4618 5970 4.366267 AGATGATTAGGAGGACAGTGGTT 58.634 43.478 0.00 0.00 0.00 3.67
4638 5990 0.846427 TCCCCAGCCCATCAGAGTTT 60.846 55.000 0.00 0.00 0.00 2.66
4651 6003 6.183360 CCCATCAGAGTTTAAGTCCTAGACTC 60.183 46.154 0.00 0.00 42.59 3.36
4658 6010 6.471146 AGTTTAAGTCCTAGACTCGACACTA 58.529 40.000 0.00 0.00 42.59 2.74
4664 6016 3.011119 CCTAGACTCGACACTAGTGCTT 58.989 50.000 22.90 4.01 35.65 3.91
4665 6017 2.999507 AGACTCGACACTAGTGCTTG 57.000 50.000 22.90 12.46 0.00 4.01
4681 6033 9.740710 ACTAGTGCTTGTATTTTCCTAGATTTT 57.259 29.630 0.00 0.00 0.00 1.82
4684 6036 8.523658 AGTGCTTGTATTTTCCTAGATTTTTCC 58.476 33.333 0.00 0.00 0.00 3.13
4685 6037 8.523658 GTGCTTGTATTTTCCTAGATTTTTCCT 58.476 33.333 0.00 0.00 0.00 3.36
4735 6087 1.065251 GGAGACGTTCCCATCGACTAC 59.935 57.143 0.00 0.00 40.37 2.73
4768 6120 3.262135 GGCGACTTCGTCAATTTCAAA 57.738 42.857 0.00 0.00 44.43 2.69
4771 6123 5.387279 GGCGACTTCGTCAATTTCAAAATA 58.613 37.500 0.00 0.00 44.43 1.40
4800 6152 1.662438 CTCAGTCTCTCGGAGGTGCC 61.662 65.000 4.96 0.00 35.32 5.01
4806 6158 0.468214 CTCTCGGAGGTGCCCATAGA 60.468 60.000 4.96 0.00 0.00 1.98
4818 6170 2.330216 GCCCATAGAGATAGGGTGTGT 58.670 52.381 0.00 0.00 44.69 3.72
4829 6181 0.394938 AGGGTGTGTGTGCGTTCATA 59.605 50.000 0.00 0.00 0.00 2.15
4830 6182 1.202710 AGGGTGTGTGTGCGTTCATAA 60.203 47.619 0.00 0.00 0.00 1.90
4831 6183 1.196808 GGGTGTGTGTGCGTTCATAAG 59.803 52.381 0.00 0.00 0.00 1.73
4855 6207 6.034591 GGGTGAGTGTATATGCGTATGTATC 58.965 44.000 8.77 2.74 0.00 2.24
4857 6209 7.088272 GGTGAGTGTATATGCGTATGTATCAA 58.912 38.462 8.77 0.00 0.00 2.57
4957 6310 9.353431 TGCAACATAATATATGTCCTTGATTGT 57.647 29.630 3.66 0.00 0.00 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
100 101 6.653526 TTTCAGAAAATCATTGCCTTCAGA 57.346 33.333 0.00 0.00 0.00 3.27
102 104 6.819284 ACTTTTCAGAAAATCATTGCCTTCA 58.181 32.000 8.81 0.00 0.00 3.02
106 108 7.481275 TTTGACTTTTCAGAAAATCATTGCC 57.519 32.000 8.81 0.00 31.71 4.52
139 143 4.695217 TCCAGTGTCAGTTGTTGTTTTC 57.305 40.909 0.00 0.00 0.00 2.29
144 148 7.905604 TCTATTAATCCAGTGTCAGTTGTTG 57.094 36.000 0.00 0.00 0.00 3.33
242 251 5.541868 TGGGTTTTGGTCATTGATATGTTGT 59.458 36.000 0.00 0.00 33.34 3.32
292 309 0.248907 CCTGTTACGCGACCATCGAT 60.249 55.000 15.93 0.00 43.74 3.59
325 342 2.557924 GAGCGAGATGGATGAGAGTGAT 59.442 50.000 0.00 0.00 0.00 3.06
347 364 0.697658 TCAGGTGATGGATTGGTGCA 59.302 50.000 0.00 0.00 0.00 4.57
359 376 1.535896 CTCGTCGAAGAAGTCAGGTGA 59.464 52.381 1.95 0.00 39.69 4.02
361 378 0.241481 GCTCGTCGAAGAAGTCAGGT 59.759 55.000 1.95 0.00 39.69 4.00
372 389 2.041115 CAGTGGGAGAGCTCGTCGA 61.041 63.158 8.37 0.00 0.00 4.20
427 445 1.284313 AGGAGAAAGAGAAGGCTGGG 58.716 55.000 0.00 0.00 0.00 4.45
431 449 2.418060 CGGAGAAGGAGAAAGAGAAGGC 60.418 54.545 0.00 0.00 0.00 4.35
462 490 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
463 491 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
495 586 2.789917 GCGTCGACGGCTTAGAGA 59.210 61.111 36.13 0.00 40.23 3.10
506 597 3.781307 CCAAGGGGATGGCGTCGA 61.781 66.667 0.00 0.00 35.59 4.20
517 608 1.064685 GGTTGATAGTGGACCCAAGGG 60.065 57.143 2.91 2.91 42.03 3.95
519 610 2.941415 GCAGGTTGATAGTGGACCCAAG 60.941 54.545 0.00 0.00 33.89 3.61
525 616 1.278985 CCTGTGCAGGTTGATAGTGGA 59.721 52.381 9.96 0.00 43.61 4.02
539 630 3.490759 CCGATGTGTCGCCTGTGC 61.491 66.667 0.00 0.00 46.32 4.57
556 647 1.931007 ATGAAGAGCAGGAAGGGGGC 61.931 60.000 0.00 0.00 0.00 5.80
588 679 3.719883 TTGTCGTTGCACCGTCGGT 62.720 57.895 12.23 12.23 35.62 4.69
589 680 2.938823 CTTGTCGTTGCACCGTCGG 61.939 63.158 10.48 10.48 0.00 4.79
601 692 1.080705 GTCGTCCACCTCCTTGTCG 60.081 63.158 0.00 0.00 0.00 4.35
618 709 0.456221 CCGCTACTCCAATCTGTCGT 59.544 55.000 0.00 0.00 0.00 4.34
639 730 6.662414 TGCGAAAACAACTCTAGGATATTG 57.338 37.500 0.00 0.00 0.00 1.90
675 766 4.520492 CACTTTTGCAGAGAACACCCTAAT 59.480 41.667 6.21 0.00 0.00 1.73
690 781 0.746659 AGACAACTGCCCACTTTTGC 59.253 50.000 0.00 0.00 0.00 3.68
724 815 5.822519 ACAGAGAGAAAAACAACATACTGCA 59.177 36.000 0.00 0.00 0.00 4.41
725 816 6.305693 ACAGAGAGAAAAACAACATACTGC 57.694 37.500 0.00 0.00 0.00 4.40
762 853 9.927081 AGGATTGATGTCCTTTTTCTATTACAT 57.073 29.630 0.00 0.00 46.45 2.29
766 857 7.227512 CGCTAGGATTGATGTCCTTTTTCTATT 59.772 37.037 0.15 0.00 46.45 1.73
768 859 6.049149 CGCTAGGATTGATGTCCTTTTTCTA 58.951 40.000 0.15 0.00 46.45 2.10
769 860 4.878397 CGCTAGGATTGATGTCCTTTTTCT 59.122 41.667 0.15 0.00 46.45 2.52
770 861 4.876107 TCGCTAGGATTGATGTCCTTTTTC 59.124 41.667 0.15 0.00 46.45 2.29
807 898 3.127533 GTTCGCGCTTGCCATCCT 61.128 61.111 5.56 0.00 34.11 3.24
825 916 1.700739 ACACAAACTACCATTCGGGGA 59.299 47.619 0.00 0.00 42.91 4.81
849 940 2.370519 GTTTTGTAAAATGCCACCCCCT 59.629 45.455 0.00 0.00 0.00 4.79
881 972 9.733219 CAAAAACTCCATGCAAATTAAACAAAT 57.267 25.926 0.00 0.00 0.00 2.32
930 1021 0.818296 CCCCGAGTCGTCTGATCTTT 59.182 55.000 12.31 0.00 0.00 2.52
1008 1100 1.211709 CGGCCGTGGGACAATTTTC 59.788 57.895 19.50 0.00 44.16 2.29
1010 1102 2.675075 CCGGCCGTGGGACAATTT 60.675 61.111 26.12 0.00 44.16 1.82
1060 1192 1.838073 ATCCAGTCACGGTTGGGGAC 61.838 60.000 0.00 0.00 35.13 4.46
1123 1255 4.176851 GTCCGACTCCGACGAGGC 62.177 72.222 0.00 0.00 41.25 4.70
1168 1300 3.084579 CCTTCTTAGCACGCGCAG 58.915 61.111 5.73 0.00 42.27 5.18
1202 1334 1.220529 CCATGTCGTCGGATTCCATG 58.779 55.000 3.09 0.00 34.18 3.66
1203 1335 0.532862 GCCATGTCGTCGGATTCCAT 60.533 55.000 3.09 0.00 0.00 3.41
1204 1336 1.153449 GCCATGTCGTCGGATTCCA 60.153 57.895 3.09 0.00 0.00 3.53
1336 1483 1.302993 GCCGCCCACCTTGACTTTA 60.303 57.895 0.00 0.00 0.00 1.85
1449 1599 1.329256 GATCGAATCGGAAGGAGGGA 58.671 55.000 1.76 0.00 0.00 4.20
1503 1677 2.799917 CGTGACATCTTAGGCCTAGCAC 60.800 54.545 13.36 13.39 0.00 4.40
1540 1719 4.202151 TGCAGCATAGTATCGTGATTCAGT 60.202 41.667 0.00 0.00 0.00 3.41
1674 1853 2.164827 TGTGCCAGCTTTCTATGCATTG 59.835 45.455 3.54 2.26 33.62 2.82
1760 1945 4.699637 CCTATACAAATAAGCACCGGTGA 58.300 43.478 38.30 18.34 0.00 4.02
1902 2090 9.599322 GCGAAATCTGTTAGAAATGTATAATGG 57.401 33.333 0.00 0.00 0.00 3.16
2008 2196 7.709182 GGTGAAGTTAGCAAGGTAAAACAAAAT 59.291 33.333 0.00 0.00 0.00 1.82
2040 2228 5.474189 CCAGCCAAACAAATCATGGAAAAAT 59.526 36.000 0.00 0.00 36.27 1.82
2054 2242 1.152777 CACCCTGACCAGCCAAACA 60.153 57.895 0.00 0.00 0.00 2.83
2071 2259 1.476891 GGAGCAGGTTCGTACTCATCA 59.523 52.381 0.00 0.00 0.00 3.07
2237 2427 2.028523 GCATGTGAGAACTTCATCGTCG 59.971 50.000 0.00 0.00 38.29 5.12
2443 2657 6.805713 ACAACCTAAAGAAGTCAACAATTGG 58.194 36.000 10.83 0.00 0.00 3.16
2445 2659 7.881775 AGACAACCTAAAGAAGTCAACAATT 57.118 32.000 0.00 0.00 0.00 2.32
2447 2661 7.392113 TCAAAGACAACCTAAAGAAGTCAACAA 59.608 33.333 0.00 0.00 0.00 2.83
2449 2663 7.148306 TGTCAAAGACAACCTAAAGAAGTCAAC 60.148 37.037 0.00 0.00 39.78 3.18
2450 2664 6.882140 TGTCAAAGACAACCTAAAGAAGTCAA 59.118 34.615 0.00 0.00 39.78 3.18
2452 2666 6.920569 TGTCAAAGACAACCTAAAGAAGTC 57.079 37.500 0.00 0.00 39.78 3.01
2453 2667 7.339466 ACAATGTCAAAGACAACCTAAAGAAGT 59.661 33.333 3.74 0.00 45.96 3.01
2454 2668 7.707104 ACAATGTCAAAGACAACCTAAAGAAG 58.293 34.615 3.74 0.00 45.96 2.85
2467 2685 8.463930 ACCTCTCAAATTTACAATGTCAAAGA 57.536 30.769 0.00 0.00 0.00 2.52
2475 2693 8.689972 GGATCATGAACCTCTCAAATTTACAAT 58.310 33.333 14.49 0.00 37.67 2.71
2520 2738 0.963355 TCGTAAAAGCATGGGCCACC 60.963 55.000 9.28 2.42 42.56 4.61
2677 2896 8.511321 CAAACCATTATAGGCGCATAAAGATTA 58.489 33.333 10.83 0.00 0.00 1.75
2705 2924 9.626045 GTAAAATTAGCTGCACAGATAAACTTT 57.374 29.630 11.92 14.78 41.81 2.66
2736 2955 2.804527 ACAGAAGCATGCGCATAGTATG 59.195 45.455 24.84 19.28 44.39 2.39
2744 2963 0.730494 GGAAACACAGAAGCATGCGC 60.730 55.000 13.01 8.84 38.99 6.09
2768 2987 5.125900 CCAGGTAAATGACAGAATGCATTGA 59.874 40.000 18.59 0.00 40.26 2.57
2774 2993 6.331369 ACAAACCAGGTAAATGACAGAATG 57.669 37.500 0.00 0.00 46.00 2.67
2816 3036 9.075678 CAGAGGAATTCATTTTGCTATAATCCT 57.924 33.333 7.93 0.00 0.00 3.24
2817 3037 8.854117 ACAGAGGAATTCATTTTGCTATAATCC 58.146 33.333 7.93 0.00 0.00 3.01
2821 3041 9.466497 AGAAACAGAGGAATTCATTTTGCTATA 57.534 29.630 7.93 0.00 0.00 1.31
2882 3102 6.923670 AGAGGTAGTCTAAGGAATATGGACA 58.076 40.000 0.00 0.00 31.71 4.02
2889 3109 6.257586 AGTGTGAAGAGGTAGTCTAAGGAAT 58.742 40.000 0.00 0.00 32.65 3.01
2899 3119 8.693120 TTCAGGTATATAGTGTGAAGAGGTAG 57.307 38.462 0.00 0.00 0.00 3.18
2916 3147 9.590451 CATTGTTGCTTTGAAATATTCAGGTAT 57.410 29.630 0.00 0.00 41.38 2.73
2982 3224 5.708877 AGGGTATAGAATACGAAGCTCAC 57.291 43.478 0.00 0.00 0.00 3.51
2983 3225 5.243283 GGAAGGGTATAGAATACGAAGCTCA 59.757 44.000 0.00 0.00 0.00 4.26
2984 3226 5.477637 AGGAAGGGTATAGAATACGAAGCTC 59.522 44.000 0.00 0.00 0.00 4.09
2985 3227 5.395611 AGGAAGGGTATAGAATACGAAGCT 58.604 41.667 0.00 0.00 0.00 3.74
2986 3228 5.725325 AGGAAGGGTATAGAATACGAAGC 57.275 43.478 0.00 0.00 0.00 3.86
2987 3229 7.094291 CCAGTAGGAAGGGTATAGAATACGAAG 60.094 44.444 0.00 0.00 36.89 3.79
2990 3232 6.243900 TCCAGTAGGAAGGGTATAGAATACG 58.756 44.000 0.00 0.00 42.23 3.06
3087 3330 1.887956 GCAATTCAGGCTGGAAGGACA 60.888 52.381 15.73 0.00 0.00 4.02
3091 3334 2.019984 GTAGGCAATTCAGGCTGGAAG 58.980 52.381 15.73 4.36 44.89 3.46
3215 3460 5.441718 AGCAGAGTTTGATTATTCCCTCA 57.558 39.130 0.00 0.00 0.00 3.86
3224 3469 3.067106 CACACGGTAGCAGAGTTTGATT 58.933 45.455 0.00 0.00 0.00 2.57
3281 3527 2.917713 TGCATAAACAGGAATGGGGT 57.082 45.000 0.00 0.00 0.00 4.95
3282 3528 3.569491 AGATGCATAAACAGGAATGGGG 58.431 45.455 0.00 0.00 0.00 4.96
3332 3585 4.515028 ATTCATCCACTGATCCACACAT 57.485 40.909 0.00 0.00 32.72 3.21
3336 3589 3.018856 TGCAATTCATCCACTGATCCAC 58.981 45.455 0.00 0.00 32.72 4.02
3337 3590 3.284617 CTGCAATTCATCCACTGATCCA 58.715 45.455 0.00 0.00 32.72 3.41
3338 3591 2.621998 CCTGCAATTCATCCACTGATCC 59.378 50.000 0.00 0.00 32.72 3.36
3339 3592 2.034305 GCCTGCAATTCATCCACTGATC 59.966 50.000 0.00 0.00 32.72 2.92
3340 3593 2.029623 GCCTGCAATTCATCCACTGAT 58.970 47.619 0.00 0.00 32.72 2.90
3341 3594 1.272037 TGCCTGCAATTCATCCACTGA 60.272 47.619 0.00 0.00 0.00 3.41
3342 3595 1.134367 CTGCCTGCAATTCATCCACTG 59.866 52.381 0.00 0.00 0.00 3.66
3343 3596 1.471119 CTGCCTGCAATTCATCCACT 58.529 50.000 0.00 0.00 0.00 4.00
3386 3639 7.564793 AGCATGATATAACGCCCAATTCTATA 58.435 34.615 0.00 0.00 0.00 1.31
3421 3674 3.511146 CCCTGTCCTAAAACATGTGCATT 59.489 43.478 0.00 0.00 0.00 3.56
3430 3683 8.762481 ACCATTAATTATCCCTGTCCTAAAAC 57.238 34.615 0.00 0.00 0.00 2.43
3585 3840 4.874396 TGTAAGAGATCGATCGTACAGTGT 59.126 41.667 23.92 0.00 38.62 3.55
3592 3847 5.529430 AGAGACAATGTAAGAGATCGATCGT 59.471 40.000 19.33 11.43 0.00 3.73
3594 3849 7.704472 ACAAAGAGACAATGTAAGAGATCGATC 59.296 37.037 17.91 17.91 0.00 3.69
3599 3854 9.429359 CAGTAACAAAGAGACAATGTAAGAGAT 57.571 33.333 0.00 0.00 0.00 2.75
3633 3892 3.256879 TGCAAACACAGTCCACTGAAAAA 59.743 39.130 13.75 0.00 46.59 1.94
3848 4114 2.497675 GTGACTGAATCAGGGCTCACTA 59.502 50.000 19.14 0.00 38.28 2.74
4001 4463 9.982291 GCACAAAATATTAGAGAAATACAACGA 57.018 29.630 0.00 0.00 32.86 3.85
4019 4625 4.024893 CGACTGTACACTGAAGCACAAAAT 60.025 41.667 0.00 0.00 0.00 1.82
4039 4646 1.394917 CAGCTGTAGCATCCAAACGAC 59.605 52.381 5.25 0.00 45.16 4.34
4055 4662 0.625849 CCCTACCACAAATCCCAGCT 59.374 55.000 0.00 0.00 0.00 4.24
4122 4784 1.948104 TCAGGTCAAACTGTGGAACG 58.052 50.000 0.00 0.00 42.39 3.95
4140 4802 7.009907 GGATGACATTTAGCTTTCTTGCATTTC 59.990 37.037 0.00 0.00 34.99 2.17
4220 4882 8.934825 CCAATCACATGGAAAAATTTATTTCGT 58.065 29.630 0.00 0.00 43.54 3.85
4252 4915 6.440010 TGGCCAATTCTGAAATATTTCTTCCA 59.560 34.615 24.77 16.64 38.02 3.53
4272 4935 2.673775 TTGAAGATCCAGTTTGGCCA 57.326 45.000 0.00 0.00 37.47 5.36
4300 4974 3.449737 AGGAAAATGGAATGGTCATGCAG 59.550 43.478 0.00 0.00 0.00 4.41
4389 5068 9.052759 GCCGAAACTATTTGGAGAGATAATAAA 57.947 33.333 0.00 0.00 42.04 1.40
4391 5070 7.732025 TGCCGAAACTATTTGGAGAGATAATA 58.268 34.615 0.00 0.00 42.04 0.98
4412 5092 6.868339 AGTTTTAATCAAATTCCTTTCTGCCG 59.132 34.615 0.00 0.00 0.00 5.69
4453 5791 7.367285 AGCATTTTATACTGCAAACGAGAAAA 58.633 30.769 0.00 0.00 40.88 2.29
4582 5934 9.265862 CTCCTAATCATCTAATCCTAACCATCT 57.734 37.037 0.00 0.00 0.00 2.90
4583 5935 8.482128 CCTCCTAATCATCTAATCCTAACCATC 58.518 40.741 0.00 0.00 0.00 3.51
4584 5936 8.186985 TCCTCCTAATCATCTAATCCTAACCAT 58.813 37.037 0.00 0.00 0.00 3.55
4585 5937 7.455008 GTCCTCCTAATCATCTAATCCTAACCA 59.545 40.741 0.00 0.00 0.00 3.67
4586 5938 7.455008 TGTCCTCCTAATCATCTAATCCTAACC 59.545 40.741 0.00 0.00 0.00 2.85
4587 5939 8.423906 TGTCCTCCTAATCATCTAATCCTAAC 57.576 38.462 0.00 0.00 0.00 2.34
4588 5940 8.235230 ACTGTCCTCCTAATCATCTAATCCTAA 58.765 37.037 0.00 0.00 0.00 2.69
4589 5941 7.671819 CACTGTCCTCCTAATCATCTAATCCTA 59.328 40.741 0.00 0.00 0.00 2.94
4590 5942 6.496565 CACTGTCCTCCTAATCATCTAATCCT 59.503 42.308 0.00 0.00 0.00 3.24
4591 5943 6.295575 CCACTGTCCTCCTAATCATCTAATCC 60.296 46.154 0.00 0.00 0.00 3.01
4592 5944 6.268847 ACCACTGTCCTCCTAATCATCTAATC 59.731 42.308 0.00 0.00 0.00 1.75
4593 5945 6.146760 ACCACTGTCCTCCTAATCATCTAAT 58.853 40.000 0.00 0.00 0.00 1.73
4618 5970 0.846427 AACTCTGATGGGCTGGGGAA 60.846 55.000 0.00 0.00 0.00 3.97
4638 5990 5.417811 CACTAGTGTCGAGTCTAGGACTTA 58.582 45.833 15.06 0.00 43.53 2.24
4651 6003 4.929808 AGGAAAATACAAGCACTAGTGTCG 59.070 41.667 23.44 14.30 0.00 4.35
4658 6010 8.523658 GGAAAAATCTAGGAAAATACAAGCACT 58.476 33.333 0.00 0.00 0.00 4.40
4681 6033 3.467226 CGCCGGAAGCCCTAGGAA 61.467 66.667 11.48 0.00 38.78 3.36
4683 6035 3.234730 ATCGCCGGAAGCCCTAGG 61.235 66.667 5.05 0.06 38.78 3.02
4684 6036 2.029666 CATCGCCGGAAGCCCTAG 59.970 66.667 5.05 0.00 38.78 3.02
4685 6037 2.762459 ACATCGCCGGAAGCCCTA 60.762 61.111 5.05 0.00 38.78 3.53
4708 6060 0.612174 TGGGAACGTCTCCTCTCCTG 60.612 60.000 13.94 0.00 44.68 3.86
4712 6064 0.034380 TCGATGGGAACGTCTCCTCT 60.034 55.000 13.94 4.78 44.68 3.69
4726 6078 4.441087 CCACATACACATTCGTAGTCGATG 59.559 45.833 0.00 0.00 45.65 3.84
4727 6079 4.607955 CCACATACACATTCGTAGTCGAT 58.392 43.478 0.00 0.00 45.65 3.59
4735 6087 1.640428 AGTCGCCACATACACATTCG 58.360 50.000 0.00 0.00 0.00 3.34
4763 6115 2.822561 TGAGCCGGCACATTATTTTGAA 59.177 40.909 31.54 0.00 0.00 2.69
4768 6120 1.210478 AGACTGAGCCGGCACATTATT 59.790 47.619 31.54 12.94 0.00 1.40
4771 6123 1.078848 GAGACTGAGCCGGCACATT 60.079 57.895 31.54 23.47 0.00 2.71
4800 6152 3.493350 GCACACACACCCTATCTCTATGG 60.493 52.174 0.00 0.00 0.00 2.74
4806 6158 0.685097 AACGCACACACACCCTATCT 59.315 50.000 0.00 0.00 0.00 1.98
4818 6170 1.346395 ACTCACCCTTATGAACGCACA 59.654 47.619 0.00 0.00 0.00 4.57
4829 6181 4.344102 ACATACGCATATACACTCACCCTT 59.656 41.667 0.00 0.00 0.00 3.95
4830 6182 3.895656 ACATACGCATATACACTCACCCT 59.104 43.478 0.00 0.00 0.00 4.34
4831 6183 4.252971 ACATACGCATATACACTCACCC 57.747 45.455 0.00 0.00 0.00 4.61
4922 6275 9.338291 GACATATATTATGTTGCATGAGCTTTG 57.662 33.333 0.00 0.00 35.39 2.77


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

AutoCloner maintained by Alex Coulton.