Multiple sequence alignment - TraesCS5B01G441400

Loading Multiple Alignment...

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 TraesCS5B01G441400 chr5B 100.000 4215 0 0 1 4215 613629248 613633462 0.000000e+00 7784.0
1 TraesCS5B01G441400 chr5B 85.106 2538 235 66 1416 3913 613641862 613644296 0.000000e+00 2460.0
2 TraesCS5B01G441400 chr5B 91.727 1112 81 6 1552 2655 613280671 613281779 0.000000e+00 1533.0
3 TraesCS5B01G441400 chr5B 84.110 837 91 21 1254 2054 613647081 613647911 0.000000e+00 771.0
4 TraesCS5B01G441400 chr5B 82.486 885 120 18 3004 3874 613283842 613284705 0.000000e+00 743.0
5 TraesCS5B01G441400 chr5B 84.367 774 97 14 1444 2196 613652886 613653656 0.000000e+00 737.0
6 TraesCS5B01G441400 chr5B 87.068 665 44 13 925 1559 613278338 613278990 0.000000e+00 713.0
7 TraesCS5B01G441400 chr5B 84.848 660 80 11 2095 2738 613647918 613648573 0.000000e+00 647.0
8 TraesCS5B01G441400 chr5B 85.714 392 30 7 879 1248 613639708 613640095 1.420000e-104 390.0
9 TraesCS5B01G441400 chr5B 84.722 360 40 7 494 839 613639362 613639720 3.120000e-91 346.0
10 TraesCS5B01G441400 chr5B 90.047 211 21 0 2651 2861 613283510 613283720 1.490000e-69 274.0
11 TraesCS5B01G441400 chr5B 87.500 216 24 1 911 1126 613646697 613646909 3.250000e-61 246.0
12 TraesCS5B01G441400 chr5B 86.432 199 12 8 3920 4107 613649772 613649966 1.990000e-48 204.0
13 TraesCS5B01G441400 chr5B 87.500 184 12 6 1253 1426 613641594 613641776 7.150000e-48 202.0
14 TraesCS5B01G441400 chr5B 83.105 219 25 8 39 254 614049427 614049636 5.560000e-44 189.0
15 TraesCS5B01G441400 chr5B 76.850 419 44 22 42 423 613638731 613639133 2.000000e-43 187.0
16 TraesCS5B01G441400 chr5B 90.698 129 12 0 3073 3201 613654509 613654637 5.600000e-39 172.0
17 TraesCS5B01G441400 chr5B 76.897 290 39 13 67 350 613651212 613651479 5.680000e-29 139.0
18 TraesCS5B01G441400 chr5B 95.833 48 2 0 2927 2974 613632120 613632167 1.260000e-10 78.7
19 TraesCS5B01G441400 chr5B 95.833 48 2 0 2873 2920 613632174 613632221 1.260000e-10 78.7
20 TraesCS5B01G441400 chr5D 92.005 3002 142 38 882 3846 496133774 496136714 0.000000e+00 4124.0
21 TraesCS5B01G441400 chr5D 81.913 2582 336 76 1285 3798 496280112 496282630 0.000000e+00 2060.0
22 TraesCS5B01G441400 chr5D 89.692 1135 70 14 887 1992 496072045 496073161 0.000000e+00 1404.0
23 TraesCS5B01G441400 chr5D 92.281 881 67 1 1986 2866 496075671 496076550 0.000000e+00 1249.0
24 TraesCS5B01G441400 chr5D 86.406 743 84 12 1444 2172 496152479 496153218 0.000000e+00 797.0
25 TraesCS5B01G441400 chr5D 82.774 923 120 19 3004 3907 496076667 496077569 0.000000e+00 787.0
26 TraesCS5B01G441400 chr5D 84.886 483 51 11 3056 3528 495907361 495907831 6.380000e-128 468.0
27 TraesCS5B01G441400 chr5D 83.066 437 40 24 39 464 496071166 496071579 2.390000e-97 366.0
28 TraesCS5B01G441400 chr5D 82.474 388 44 12 879 1248 496279594 496279975 6.800000e-83 318.0
29 TraesCS5B01G441400 chr5D 86.622 299 14 8 150 446 495904783 495905057 1.470000e-79 307.0
30 TraesCS5B01G441400 chr5D 89.637 193 15 4 3920 4107 496136725 496136917 1.510000e-59 241.0
31 TraesCS5B01G441400 chr5D 78.917 351 37 16 1254 1570 496139685 496140032 1.990000e-48 204.0
32 TraesCS5B01G441400 chr5D 78.151 357 34 21 32 348 496132443 496132795 2.000000e-43 187.0
33 TraesCS5B01G441400 chr5D 83.636 220 12 11 29 246 496279083 496279280 7.200000e-43 185.0
34 TraesCS5B01G441400 chr5D 75.235 319 47 14 44 350 496151086 496151384 5.720000e-24 122.0
35 TraesCS5B01G441400 chr5D 93.750 48 3 0 2873 2920 496135816 496135863 5.850000e-09 73.1
36 TraesCS5B01G441400 chr5A 93.305 2569 114 28 1432 3965 619957161 619959706 0.000000e+00 3738.0
37 TraesCS5B01G441400 chr5A 81.303 2578 349 73 1285 3798 620165927 620168435 0.000000e+00 1967.0
38 TraesCS5B01G441400 chr5A 92.383 814 59 3 2051 2861 619852062 619852875 0.000000e+00 1157.0
39 TraesCS5B01G441400 chr5A 85.118 887 99 22 1253 2115 619962596 619963473 0.000000e+00 876.0
40 TraesCS5B01G441400 chr5A 84.528 795 91 18 1439 2207 619967906 619968694 0.000000e+00 758.0
41 TraesCS5B01G441400 chr5A 79.682 881 135 20 3059 3920 619964321 619965176 2.810000e-166 595.0
42 TraesCS5B01G441400 chr5A 86.296 540 34 10 881 1397 619956635 619957157 6.160000e-153 551.0
43 TraesCS5B01G441400 chr5A 86.008 486 28 10 9 464 619955484 619955959 6.340000e-133 484.0
44 TraesCS5B01G441400 chr5A 88.889 225 21 2 907 1130 619962205 619962426 1.490000e-69 274.0
45 TraesCS5B01G441400 chr5A 80.549 401 37 13 879 1248 620165400 620165790 1.930000e-68 270.0
46 TraesCS5B01G441400 chr5A 87.113 194 13 6 3920 4105 619965212 619965401 4.270000e-50 209.0
47 TraesCS5B01G441400 chr5A 99.107 112 0 1 4104 4215 645605621 645605731 2.570000e-47 200.0
48 TraesCS5B01G441400 chr5A 92.857 70 4 1 3844 3912 620168448 620168517 2.680000e-17 100.0
49 TraesCS5B01G441400 chr5A 84.615 65 8 2 2944 3008 166640320 166640258 3.520000e-06 63.9
50 TraesCS5B01G441400 chrUn 83.179 975 111 27 1290 2224 320347414 320346453 0.000000e+00 843.0
51 TraesCS5B01G441400 chrUn 81.122 927 125 28 3005 3915 338057450 338056558 0.000000e+00 697.0
52 TraesCS5B01G441400 chrUn 88.147 464 53 2 2404 2866 338058026 338057564 6.160000e-153 551.0
53 TraesCS5B01G441400 chrUn 87.984 258 20 4 879 1130 320347949 320347697 1.150000e-75 294.0
54 TraesCS5B01G441400 chrUn 98.198 111 2 0 4105 4215 47456148 47456258 1.200000e-45 195.0
55 TraesCS5B01G441400 chrUn 84.615 65 6 4 2944 3007 39673677 39673616 1.270000e-05 62.1
56 TraesCS5B01G441400 chr2B 100.000 112 0 0 4104 4215 183513643 183513754 1.540000e-49 207.0
57 TraesCS5B01G441400 chr2B 84.615 143 19 2 3007 3149 453622433 453622294 5.680000e-29 139.0
58 TraesCS5B01G441400 chr2B 83.784 148 21 1 3005 3152 722693974 722693830 2.040000e-28 137.0
59 TraesCS5B01G441400 chr2B 85.938 64 5 4 2946 3007 510661023 510661084 9.780000e-07 65.8
60 TraesCS5B01G441400 chr1B 100.000 112 0 0 4104 4215 517502483 517502594 1.540000e-49 207.0
61 TraesCS5B01G441400 chr7A 99.107 112 0 1 4104 4215 218258495 218258385 2.570000e-47 200.0
62 TraesCS5B01G441400 chr2A 99.099 111 1 0 4105 4215 461023886 461023996 2.570000e-47 200.0
63 TraesCS5B01G441400 chr2A 86.154 65 5 4 2944 3007 47255582 47255643 2.720000e-07 67.6
64 TraesCS5B01G441400 chr7B 98.198 111 2 0 4105 4215 12805818 12805708 1.200000e-45 195.0
65 TraesCS5B01G441400 chr6B 98.198 111 2 0 4105 4215 30130302 30130412 1.200000e-45 195.0
66 TraesCS5B01G441400 chr4A 96.552 116 3 1 4100 4215 472949520 472949406 1.550000e-44 191.0
67 TraesCS5B01G441400 chr1A 83.439 157 19 4 3235 3384 342036895 342037051 5.680000e-29 139.0
68 TraesCS5B01G441400 chr6D 84.138 145 20 2 3005 3149 416067537 416067678 2.040000e-28 137.0
69 TraesCS5B01G441400 chr1D 84.247 146 18 4 3005 3149 289367438 289367579 2.040000e-28 137.0
70 TraesCS5B01G441400 chr4D 85.938 64 7 2 2944 3007 41831962 41831901 2.720000e-07 67.6
71 TraesCS5B01G441400 chr3A 86.154 65 5 4 2944 3007 230833407 230833346 2.720000e-07 67.6


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 TraesCS5B01G441400 chr5B 613629248 613633462 4214 False 2647.133333 7784 97.222000 1 4215 3 chr5B.!!$F3 4214
1 TraesCS5B01G441400 chr5B 613278338 613284705 6367 False 815.750000 1533 87.832000 925 3874 4 chr5B.!!$F2 2949
2 TraesCS5B01G441400 chr5B 613638731 613654637 15906 False 541.750000 2460 84.562000 42 4107 12 chr5B.!!$F4 4065
3 TraesCS5B01G441400 chr5D 496132443 496140032 7589 False 965.820000 4124 86.492000 32 4107 5 chr5D.!!$F3 4075
4 TraesCS5B01G441400 chr5D 496071166 496077569 6403 False 951.500000 1404 86.953250 39 3907 4 chr5D.!!$F2 3868
5 TraesCS5B01G441400 chr5D 496279083 496282630 3547 False 854.333333 2060 82.674333 29 3798 3 chr5D.!!$F5 3769
6 TraesCS5B01G441400 chr5D 496151086 496153218 2132 False 459.500000 797 80.820500 44 2172 2 chr5D.!!$F4 2128
7 TraesCS5B01G441400 chr5D 495904783 495907831 3048 False 387.500000 468 85.754000 150 3528 2 chr5D.!!$F1 3378
8 TraesCS5B01G441400 chr5A 619852062 619852875 813 False 1157.000000 1157 92.383000 2051 2861 1 chr5A.!!$F1 810
9 TraesCS5B01G441400 chr5A 619955484 619968694 13210 False 935.625000 3738 86.367375 9 4105 8 chr5A.!!$F3 4096
10 TraesCS5B01G441400 chr5A 620165400 620168517 3117 False 779.000000 1967 84.903000 879 3912 3 chr5A.!!$F4 3033
11 TraesCS5B01G441400 chrUn 338056558 338058026 1468 True 624.000000 697 84.634500 2404 3915 2 chrUn.!!$R3 1511
12 TraesCS5B01G441400 chrUn 320346453 320347949 1496 True 568.500000 843 85.581500 879 2224 2 chrUn.!!$R2 1345

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
21 22 0.035534 AGCAACATACATGCCGGTGA 60.036 50.0 1.90 0.0 44.91 4.02 F
22 23 0.098728 GCAACATACATGCCGGTGAC 59.901 55.0 1.90 0.0 37.85 3.67 F
701 1335 0.605589 GCAGGTCGGGATAGGATGAG 59.394 60.0 0.00 0.0 0.00 2.90 F
798 1435 0.752658 AGCTTGTGCCCTTCCAAAAC 59.247 50.0 0.00 0.0 40.80 2.43 F
2743 11356 0.676466 TCAGGCCATACAAACGCAGG 60.676 55.0 5.01 0.0 0.00 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1463 4069 0.248458 AAACGCCGCACAACTTCTTG 60.248 50.000 0.00 0.00 0.00 3.02 R
1831 6139 4.955811 TCTTTTGAGAAGACCTGCAGTA 57.044 40.909 13.81 0.00 0.00 2.74 R
2419 9280 2.501316 TCATCTCTCTTGGGAATTCGCA 59.499 45.455 20.25 20.25 37.01 5.10 R
2783 11396 1.144093 TGTCCGTTTCCATTTGGAGGT 59.856 47.619 0.00 0.00 46.36 3.85 R
3861 23464 0.240945 CAAGGGCAACAACATCGTCC 59.759 55.000 0.00 0.00 39.74 4.79 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
21 22 0.035534 AGCAACATACATGCCGGTGA 60.036 50.000 1.90 0.00 44.91 4.02
22 23 0.098728 GCAACATACATGCCGGTGAC 59.901 55.000 1.90 0.00 37.85 3.67
163 180 5.505173 TCTTTTTCTTTCTTGCAGGTCAG 57.495 39.130 0.00 0.00 0.00 3.51
196 220 3.334054 GTTGGCAGAGGGGAGGCT 61.334 66.667 0.00 0.00 0.00 4.58
449 541 1.038130 ATTCAGTCGGTCTCCCTCGG 61.038 60.000 0.00 0.00 0.00 4.63
476 712 3.276091 CAGTTCCACGTTGCGGCA 61.276 61.111 0.00 0.00 0.00 5.69
491 727 1.592223 GGCAGACGCTGGTTCTAGT 59.408 57.895 8.57 0.00 38.60 2.57
547 1139 1.546476 GTCTTCGCCTTCTTCTCCAGA 59.454 52.381 0.00 0.00 0.00 3.86
554 1146 4.590647 TCGCCTTCTTCTCCAGATTGATAT 59.409 41.667 0.00 0.00 0.00 1.63
555 1147 5.775195 TCGCCTTCTTCTCCAGATTGATATA 59.225 40.000 0.00 0.00 0.00 0.86
566 1181 4.327357 CCAGATTGATATATCGTGCCGTTC 59.673 45.833 8.19 0.00 0.00 3.95
571 1186 4.689071 TGATATATCGTGCCGTTCTTGTT 58.311 39.130 8.19 0.00 0.00 2.83
590 1205 2.046285 CCCTGGCAATGTCCGGTTC 61.046 63.158 0.00 0.00 0.00 3.62
610 1226 1.156736 CTTCCCGGTTGCAGTTACAG 58.843 55.000 0.00 0.00 0.00 2.74
701 1335 0.605589 GCAGGTCGGGATAGGATGAG 59.394 60.000 0.00 0.00 0.00 2.90
747 1383 8.524487 TGTAATCTTAGTCTTCTTCAAGGAGTC 58.476 37.037 0.00 0.00 0.00 3.36
791 1428 6.848069 TGGTTAATATATAGCTTGTGCCCTT 58.152 36.000 0.00 0.00 40.80 3.95
792 1429 6.940298 TGGTTAATATATAGCTTGTGCCCTTC 59.060 38.462 0.00 0.00 40.80 3.46
793 1430 6.374613 GGTTAATATATAGCTTGTGCCCTTCC 59.625 42.308 0.00 0.00 40.80 3.46
798 1435 0.752658 AGCTTGTGCCCTTCCAAAAC 59.247 50.000 0.00 0.00 40.80 2.43
801 1438 2.758009 CTTGTGCCCTTCCAAAACATG 58.242 47.619 0.00 0.00 0.00 3.21
814 1484 8.553696 CCTTCCAAAACATGAAAAAGAATCAAG 58.446 33.333 0.00 0.00 0.00 3.02
818 1488 8.676401 CCAAAACATGAAAAAGAATCAAGGTTT 58.324 29.630 0.00 0.00 36.24 3.27
826 1496 9.664332 TGAAAAAGAATCAAGGTTTCAAATTCA 57.336 25.926 0.00 0.00 35.77 2.57
827 1497 9.920826 GAAAAAGAATCAAGGTTTCAAATTCAC 57.079 29.630 0.00 0.00 0.00 3.18
828 1498 9.447157 AAAAAGAATCAAGGTTTCAAATTCACA 57.553 25.926 0.00 0.00 0.00 3.58
829 1499 9.617523 AAAAGAATCAAGGTTTCAAATTCACAT 57.382 25.926 0.00 0.00 0.00 3.21
830 1500 9.617523 AAAGAATCAAGGTTTCAAATTCACATT 57.382 25.926 0.00 0.00 0.00 2.71
831 1501 8.597662 AGAATCAAGGTTTCAAATTCACATTG 57.402 30.769 0.00 0.00 34.32 2.82
832 1502 8.423349 AGAATCAAGGTTTCAAATTCACATTGA 58.577 29.630 1.59 1.59 43.21 2.57
833 1503 8.597662 AATCAAGGTTTCAAATTCACATTGAG 57.402 30.769 5.09 0.00 42.56 3.02
834 1504 6.514947 TCAAGGTTTCAAATTCACATTGAGG 58.485 36.000 0.00 0.00 36.56 3.86
835 1505 6.323482 TCAAGGTTTCAAATTCACATTGAGGA 59.677 34.615 0.00 0.00 36.56 3.71
836 1506 6.336842 AGGTTTCAAATTCACATTGAGGAG 57.663 37.500 0.00 0.00 38.01 3.69
837 1507 5.835280 AGGTTTCAAATTCACATTGAGGAGT 59.165 36.000 0.00 0.00 38.01 3.85
838 1508 7.004086 AGGTTTCAAATTCACATTGAGGAGTA 58.996 34.615 0.00 0.00 38.01 2.59
839 1509 7.505585 AGGTTTCAAATTCACATTGAGGAGTAA 59.494 33.333 0.00 0.00 38.01 2.24
840 1510 8.306761 GGTTTCAAATTCACATTGAGGAGTAAT 58.693 33.333 0.00 0.00 38.01 1.89
841 1511 9.696917 GTTTCAAATTCACATTGAGGAGTAATT 57.303 29.630 0.00 0.00 38.01 1.40
873 1543 9.924650 TTTCGAAAAGGAGGATTAGTATATAGC 57.075 33.333 8.44 0.00 0.00 2.97
874 1544 8.880991 TCGAAAAGGAGGATTAGTATATAGCT 57.119 34.615 0.00 0.00 0.00 3.32
875 1545 9.310449 TCGAAAAGGAGGATTAGTATATAGCTT 57.690 33.333 0.00 0.00 0.00 3.74
876 1546 9.360093 CGAAAAGGAGGATTAGTATATAGCTTG 57.640 37.037 0.00 0.00 0.00 4.01
900 1574 7.619965 TGTACATTGAGGAGTACATGAAATCA 58.380 34.615 0.00 0.00 43.92 2.57
902 1576 6.715280 ACATTGAGGAGTACATGAAATCAGT 58.285 36.000 0.00 0.00 0.00 3.41
926 1600 6.545504 TCAAGTGCAAGTCTTCTTATTGTC 57.454 37.500 0.00 0.00 32.07 3.18
952 1626 4.841813 TGACTTAATGTCCTCTTACCACCA 59.158 41.667 0.00 0.00 44.75 4.17
953 1627 5.046591 TGACTTAATGTCCTCTTACCACCAG 60.047 44.000 0.00 0.00 44.75 4.00
954 1628 2.789409 AATGTCCTCTTACCACCAGC 57.211 50.000 0.00 0.00 0.00 4.85
962 1636 3.068873 CCTCTTACCACCAGCTATCACTC 59.931 52.174 0.00 0.00 0.00 3.51
970 1673 6.821388 ACCACCAGCTATCACTCTAAATTAG 58.179 40.000 0.00 0.00 0.00 1.73
1080 1789 9.973661 TTGGATGATGAAAGGAAGTATTTCTTA 57.026 29.630 0.00 0.00 37.51 2.10
1118 1931 4.576053 TGATTTCCAAGATGCGATGGTAAG 59.424 41.667 0.00 0.00 37.94 2.34
1122 1935 1.600957 CAAGATGCGATGGTAAGCCTG 59.399 52.381 0.00 0.00 35.27 4.85
1130 1946 3.714391 CGATGGTAAGCCTGTTACCTAC 58.286 50.000 13.68 7.73 43.64 3.18
1199 2052 5.755409 TTCCTTTGACAGGCAGACTATTA 57.245 39.130 0.00 0.00 43.55 0.98
1274 3630 8.777865 TTTACAAGTAAGATCCAGAGTCATTG 57.222 34.615 0.00 0.00 0.00 2.82
1378 3854 3.609853 TGGATCTTGCGCATAGACTTTT 58.390 40.909 12.75 2.07 0.00 2.27
1385 3863 2.677836 TGCGCATAGACTTTTCATCCAC 59.322 45.455 5.66 0.00 0.00 4.02
1463 4069 6.515272 TTTTCTTTCTGCAGATAATCCCAC 57.485 37.500 19.04 0.00 0.00 4.61
1526 4132 6.098409 AGAGATCAAGCTAGAAACCCGAAATA 59.902 38.462 0.00 0.00 0.00 1.40
1772 6075 6.420604 GGCACATGAAATCGGGTTAAATATTG 59.579 38.462 0.00 0.00 0.00 1.90
1820 6128 4.825085 TCCTGGTACCAAATTTCACTTGAC 59.175 41.667 17.11 0.00 0.00 3.18
2179 9018 3.517602 CAGCATGGTAGCACGTTTAGTA 58.482 45.455 0.00 0.00 36.85 1.82
2393 9254 4.383989 GCTTGTTTCTCTCCAGATCATCCT 60.384 45.833 0.00 0.00 0.00 3.24
2419 9280 5.751243 AGTATTTGTTCAGCGTTTCAAGT 57.249 34.783 0.00 0.00 0.00 3.16
2484 9345 3.430895 ACAGTTACGTAATTGGAGTTGCG 59.569 43.478 27.79 7.22 41.87 4.85
2743 11356 0.676466 TCAGGCCATACAAACGCAGG 60.676 55.000 5.01 0.00 0.00 4.85
2780 11393 1.134580 AGAGATGCCAATGGAGTCACG 60.135 52.381 2.05 0.00 0.00 4.35
2783 11396 0.324614 ATGCCAATGGAGTCACGACA 59.675 50.000 2.05 0.00 0.00 4.35
2878 11496 5.105064 TCAGGTCCCAGTTTACTATTGTAGC 60.105 44.000 0.00 0.00 0.00 3.58
2882 11500 7.347485 AGGTCCCAGTTTACTATTGTAGCTAAT 59.653 37.037 0.00 0.00 0.00 1.73
2883 11501 8.645110 GGTCCCAGTTTACTATTGTAGCTAATA 58.355 37.037 0.00 0.00 0.00 0.98
2906 11524 6.690194 ATTTAGCTCTATTTCTTGGCACAG 57.310 37.500 0.00 0.00 42.39 3.66
2907 11525 2.996631 AGCTCTATTTCTTGGCACAGG 58.003 47.619 0.00 0.00 42.39 4.00
2908 11526 2.573462 AGCTCTATTTCTTGGCACAGGA 59.427 45.455 0.00 0.00 44.66 3.86
2909 11527 3.201708 AGCTCTATTTCTTGGCACAGGAT 59.798 43.478 0.00 0.00 45.92 3.24
2910 11528 4.410228 AGCTCTATTTCTTGGCACAGGATA 59.590 41.667 0.00 0.00 45.92 2.59
2911 11529 5.072872 AGCTCTATTTCTTGGCACAGGATAT 59.927 40.000 0.00 0.00 45.92 1.63
2914 11534 6.662755 TCTATTTCTTGGCACAGGATATTGT 58.337 36.000 0.00 0.00 45.92 2.71
3031 11658 7.171630 AGAAGAATATGGAGTACGTGAAGTT 57.828 36.000 0.00 0.00 0.00 2.66
3034 11661 4.667519 ATATGGAGTACGTGAAGTTCCC 57.332 45.455 0.00 0.00 30.40 3.97
3052 11679 3.765349 CGGTTCCAATTTCACCGTG 57.235 52.632 10.46 0.00 46.90 4.94
3284 11951 2.547430 CCTGCATCGATCATGTAGCTGT 60.547 50.000 13.73 0.00 42.43 4.40
3287 11954 3.569701 TGCATCGATCATGTAGCTGTCTA 59.430 43.478 0.00 0.00 34.56 2.59
3296 11963 8.290325 CGATCATGTAGCTGTCTATGTAAACTA 58.710 37.037 0.00 0.00 0.00 2.24
3419 12089 9.485206 TCCTAATATCGTACAAATTTAGGAAGC 57.515 33.333 16.23 0.00 0.00 3.86
3420 12090 8.433126 CCTAATATCGTACAAATTTAGGAAGCG 58.567 37.037 12.85 0.00 0.00 4.68
3475 12149 5.953183 TGCCATTATCTGCTAACTTTGTTG 58.047 37.500 0.00 0.00 0.00 3.33
3616 17701 1.342074 TAAGCTCAGGATCGGATGGG 58.658 55.000 0.00 0.00 0.00 4.00
3637 17722 7.623124 TGGGAACAGTTTGTAGAAGGCAACT 62.623 44.000 0.00 0.00 43.82 3.16
3655 17740 3.834489 ACTAGCTGAAGATGGGTGATG 57.166 47.619 0.00 0.00 0.00 3.07
3657 17742 3.521126 ACTAGCTGAAGATGGGTGATGTT 59.479 43.478 0.00 0.00 0.00 2.71
3698 17786 2.632028 CCGATGAGAGGAGAACCATGAT 59.368 50.000 0.00 0.00 38.94 2.45
3717 23319 1.934589 TGGTCTTTATCATCCGTGCG 58.065 50.000 0.00 0.00 0.00 5.34
3720 23322 2.933906 GGTCTTTATCATCCGTGCGAAA 59.066 45.455 0.00 0.00 0.00 3.46
3739 23341 4.621034 CGAAATTTGTCAATTACTGGGCAC 59.379 41.667 0.00 0.00 31.89 5.01
3759 23361 2.234661 ACGTCTCCAGAATGATGCTGAA 59.765 45.455 0.85 0.00 39.69 3.02
3801 23403 1.224039 GGCTCTTGCTCATCAGGCT 59.776 57.895 0.00 0.00 39.59 4.58
3861 23464 4.433615 TCGCTAAAACTGAAGCTATGGAG 58.566 43.478 0.00 0.00 36.56 3.86
3864 23467 4.572795 GCTAAAACTGAAGCTATGGAGGAC 59.427 45.833 0.00 0.00 35.80 3.85
3896 23506 0.463295 CTTGATGGTGCCTGATCGCT 60.463 55.000 0.00 0.00 0.00 4.93
3954 23605 1.067582 CCTGTCGATCGTAAGGCCC 59.932 63.158 20.51 2.66 38.47 5.80
3965 23616 1.138661 CGTAAGGCCCCGGTTACATTA 59.861 52.381 0.00 1.99 0.00 1.90
3972 23623 4.224370 AGGCCCCGGTTACATTATATAGTG 59.776 45.833 0.00 3.83 0.00 2.74
4015 23666 2.950309 GGTGCTCGATCTACCTCTGTAA 59.050 50.000 5.82 0.00 0.00 2.41
4020 23671 4.446051 GCTCGATCTACCTCTGTAATTTGC 59.554 45.833 0.00 0.00 0.00 3.68
4032 23687 6.535150 CCTCTGTAATTTGCTCGTTATCTTCA 59.465 38.462 0.00 0.00 0.00 3.02
4080 23741 7.918562 TGTAGTTTTTAGCTGCCTTTTAGTTTG 59.081 33.333 0.00 0.00 0.00 2.93
4107 23769 1.891150 CACCTCTGGATGCTGCTTTTT 59.109 47.619 0.00 0.00 0.00 1.94
4147 23809 3.324246 GGAGAGATTCCCCACCTGA 57.676 57.895 0.00 0.00 40.37 3.86
4148 23810 1.584724 GGAGAGATTCCCCACCTGAA 58.415 55.000 0.00 0.00 40.37 3.02
4149 23811 2.131023 GGAGAGATTCCCCACCTGAAT 58.869 52.381 0.00 0.00 40.37 2.57
4151 23813 3.913163 GGAGAGATTCCCCACCTGAATAT 59.087 47.826 0.00 0.00 40.37 1.28
4152 23814 5.094387 GGAGAGATTCCCCACCTGAATATA 58.906 45.833 0.00 0.00 40.37 0.86
4153 23815 5.728741 GGAGAGATTCCCCACCTGAATATAT 59.271 44.000 0.00 0.00 40.37 0.86
4154 23816 6.216456 GGAGAGATTCCCCACCTGAATATATT 59.784 42.308 0.00 0.00 40.37 1.28
4159 23821 3.980022 TCCCCACCTGAATATATTGCTCA 59.020 43.478 1.78 0.00 0.00 4.26
4160 23822 4.415179 TCCCCACCTGAATATATTGCTCAA 59.585 41.667 1.78 0.00 0.00 3.02
4161 23823 5.103728 TCCCCACCTGAATATATTGCTCAAA 60.104 40.000 1.78 0.00 0.00 2.69
4162 23824 5.242393 CCCCACCTGAATATATTGCTCAAAG 59.758 44.000 1.78 0.00 0.00 2.77
4163 23825 5.829924 CCCACCTGAATATATTGCTCAAAGT 59.170 40.000 1.78 0.00 0.00 2.66
4164 23826 6.238842 CCCACCTGAATATATTGCTCAAAGTG 60.239 42.308 1.78 5.90 0.00 3.16
4165 23827 6.238842 CCACCTGAATATATTGCTCAAAGTGG 60.239 42.308 1.78 10.45 37.30 4.00
4166 23828 5.300286 ACCTGAATATATTGCTCAAAGTGGC 59.700 40.000 1.78 0.00 0.00 5.01
4167 23829 5.278660 CCTGAATATATTGCTCAAAGTGGCC 60.279 44.000 1.78 0.00 0.00 5.36
4168 23830 5.199723 TGAATATATTGCTCAAAGTGGCCA 58.800 37.500 0.00 0.00 0.00 5.36
4169 23831 5.655974 TGAATATATTGCTCAAAGTGGCCAA 59.344 36.000 7.24 0.00 0.00 4.52
4170 23832 6.154192 TGAATATATTGCTCAAAGTGGCCAAA 59.846 34.615 7.24 0.00 0.00 3.28
4171 23833 4.888326 ATATTGCTCAAAGTGGCCAAAA 57.112 36.364 7.24 0.00 0.00 2.44
4173 23835 2.529780 TGCTCAAAGTGGCCAAAATG 57.470 45.000 7.24 6.81 0.00 2.32
4174 23836 1.150827 GCTCAAAGTGGCCAAAATGC 58.849 50.000 7.24 3.75 0.00 3.56
4185 23847 2.559440 GCCAAAATGCCAAGTGTTTGA 58.441 42.857 0.00 0.00 36.36 2.69
4186 23848 3.140623 GCCAAAATGCCAAGTGTTTGAT 58.859 40.909 0.00 0.00 36.36 2.57
4187 23849 3.187022 GCCAAAATGCCAAGTGTTTGATC 59.813 43.478 0.00 0.00 36.36 2.92
4188 23850 3.747529 CCAAAATGCCAAGTGTTTGATCC 59.252 43.478 0.00 0.00 36.36 3.36
4189 23851 4.378774 CAAAATGCCAAGTGTTTGATCCA 58.621 39.130 0.00 0.00 36.36 3.41
4190 23852 3.947910 AATGCCAAGTGTTTGATCCAG 57.052 42.857 0.00 0.00 36.36 3.86
4191 23853 2.363306 TGCCAAGTGTTTGATCCAGT 57.637 45.000 0.00 0.00 36.36 4.00
4192 23854 2.665165 TGCCAAGTGTTTGATCCAGTT 58.335 42.857 0.00 0.00 36.36 3.16
4193 23855 3.030291 TGCCAAGTGTTTGATCCAGTTT 58.970 40.909 0.00 0.00 36.36 2.66
4194 23856 4.211125 TGCCAAGTGTTTGATCCAGTTTA 58.789 39.130 0.00 0.00 36.36 2.01
4196 23858 6.007076 TGCCAAGTGTTTGATCCAGTTTATA 58.993 36.000 0.00 0.00 36.36 0.98
4198 23860 7.029563 GCCAAGTGTTTGATCCAGTTTATAAG 58.970 38.462 0.00 0.00 36.36 1.73
4200 23862 7.393234 CCAAGTGTTTGATCCAGTTTATAAGGA 59.607 37.037 0.00 0.00 36.36 3.36
4201 23863 8.792633 CAAGTGTTTGATCCAGTTTATAAGGAA 58.207 33.333 0.00 0.00 36.36 3.36
4204 23866 9.406828 GTGTTTGATCCAGTTTATAAGGAAAAC 57.593 33.333 10.10 10.10 34.80 2.43
4208 23870 5.502089 TCCAGTTTATAAGGAAAACCGGA 57.498 39.130 9.46 0.63 39.79 5.14
4210 23872 6.117488 TCCAGTTTATAAGGAAAACCGGATC 58.883 40.000 9.46 2.88 38.09 3.36
4213 23875 6.314400 CAGTTTATAAGGAAAACCGGATCGAA 59.686 38.462 9.46 0.00 37.51 3.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 1.208293 TCACCGGCATGTATGTTGCTA 59.792 47.619 0.00 0.00 40.03 3.49
3 4 0.098728 GTCACCGGCATGTATGTTGC 59.901 55.000 0.00 0.00 39.41 4.17
4 5 0.732571 GGTCACCGGCATGTATGTTG 59.267 55.000 0.00 0.00 0.00 3.33
5 6 0.326595 TGGTCACCGGCATGTATGTT 59.673 50.000 0.00 0.00 0.00 2.71
6 7 0.107703 CTGGTCACCGGCATGTATGT 60.108 55.000 0.00 0.00 0.00 2.29
77 78 3.114616 CGGCGTGTTGGAGAGCTG 61.115 66.667 0.00 0.00 0.00 4.24
137 154 7.158021 TGACCTGCAAGAAAGAAAAAGAAAAA 58.842 30.769 0.00 0.00 34.07 1.94
142 159 4.047142 GCTGACCTGCAAGAAAGAAAAAG 58.953 43.478 0.00 0.00 34.07 2.27
363 438 5.565509 AGGGAGAGGTTCATTCTTTCTTTC 58.434 41.667 0.00 0.00 0.00 2.62
375 452 3.074094 AGGGTTTGTTTAGGGAGAGGTTC 59.926 47.826 0.00 0.00 0.00 3.62
476 712 0.522180 CGACACTAGAACCAGCGTCT 59.478 55.000 0.00 0.00 0.00 4.18
491 727 0.250793 ATCCCACATAAACGCCGACA 59.749 50.000 0.00 0.00 0.00 4.35
566 1181 0.890683 GGACATTGCCAGGGAACAAG 59.109 55.000 0.00 0.00 0.00 3.16
571 1186 2.478335 GAACCGGACATTGCCAGGGA 62.478 60.000 9.46 0.00 0.00 4.20
599 1215 3.402110 CATGGAGTCACTGTAACTGCAA 58.598 45.455 9.45 0.00 46.18 4.08
633 1267 1.683385 CTCGATACATCACCTGCTCCA 59.317 52.381 0.00 0.00 0.00 3.86
747 1383 4.580580 ACCAAGTCCAAGCTTTACAAGAAG 59.419 41.667 0.00 0.00 0.00 2.85
791 1428 7.563906 ACCTTGATTCTTTTTCATGTTTTGGA 58.436 30.769 0.00 0.00 0.00 3.53
792 1429 7.790823 ACCTTGATTCTTTTTCATGTTTTGG 57.209 32.000 0.00 0.00 0.00 3.28
793 1430 9.706846 GAAACCTTGATTCTTTTTCATGTTTTG 57.293 29.630 0.00 0.00 32.85 2.44
801 1438 9.920826 GTGAATTTGAAACCTTGATTCTTTTTC 57.079 29.630 0.00 0.00 0.00 2.29
814 1484 6.089249 ACTCCTCAATGTGAATTTGAAACC 57.911 37.500 0.00 0.00 32.98 3.27
847 1517 9.924650 GCTATATACTAATCCTCCTTTTCGAAA 57.075 33.333 6.47 6.47 0.00 3.46
848 1518 9.310449 AGCTATATACTAATCCTCCTTTTCGAA 57.690 33.333 0.00 0.00 0.00 3.71
849 1519 8.880991 AGCTATATACTAATCCTCCTTTTCGA 57.119 34.615 0.00 0.00 0.00 3.71
850 1520 9.360093 CAAGCTATATACTAATCCTCCTTTTCG 57.640 37.037 0.00 0.00 0.00 3.46
854 1524 9.824216 TGTACAAGCTATATACTAATCCTCCTT 57.176 33.333 0.00 0.00 0.00 3.36
855 1525 9.998752 ATGTACAAGCTATATACTAATCCTCCT 57.001 33.333 0.00 0.00 0.00 3.69
863 1533 9.809395 ACTCCTCAATGTACAAGCTATATACTA 57.191 33.333 0.00 0.00 0.00 1.82
864 1534 8.713708 ACTCCTCAATGTACAAGCTATATACT 57.286 34.615 0.00 0.00 0.00 2.12
865 1535 9.843334 GTACTCCTCAATGTACAAGCTATATAC 57.157 37.037 0.00 0.00 38.92 1.47
866 1536 9.582648 TGTACTCCTCAATGTACAAGCTATATA 57.417 33.333 0.00 0.00 43.80 0.86
867 1537 8.478775 TGTACTCCTCAATGTACAAGCTATAT 57.521 34.615 0.00 0.00 43.80 0.86
868 1538 7.891498 TGTACTCCTCAATGTACAAGCTATA 57.109 36.000 0.00 0.00 43.80 1.31
869 1539 6.791867 TGTACTCCTCAATGTACAAGCTAT 57.208 37.500 0.00 0.00 43.80 2.97
876 1546 7.766278 ACTGATTTCATGTACTCCTCAATGTAC 59.234 37.037 0.00 0.00 39.37 2.90
877 1547 7.851228 ACTGATTTCATGTACTCCTCAATGTA 58.149 34.615 0.00 0.00 0.00 2.29
900 1574 6.543831 ACAATAAGAAGACTTGCACTTGAACT 59.456 34.615 0.00 0.00 37.53 3.01
902 1576 6.017109 GGACAATAAGAAGACTTGCACTTGAA 60.017 38.462 0.00 0.00 37.53 2.69
952 1626 8.669243 GTGCAAAACTAATTTAGAGTGATAGCT 58.331 33.333 10.39 0.00 0.00 3.32
953 1627 8.669243 AGTGCAAAACTAATTTAGAGTGATAGC 58.331 33.333 10.39 5.55 37.36 2.97
954 1628 9.979270 CAGTGCAAAACTAATTTAGAGTGATAG 57.021 33.333 10.39 0.00 36.83 2.08
962 1636 6.088824 CCTCTGCAGTGCAAAACTAATTTAG 58.911 40.000 20.22 2.67 38.41 1.85
970 1673 1.662044 CCCCTCTGCAGTGCAAAAC 59.338 57.895 20.22 0.00 38.41 2.43
1080 1789 3.763897 GGAAATCACCCAACATAAGCACT 59.236 43.478 0.00 0.00 0.00 4.40
1118 1931 5.186198 AGAAACATCATGTAGGTAACAGGC 58.814 41.667 0.00 0.00 42.70 4.85
1199 2052 6.608002 TGTGGGAAATTGGTGTAAACTAACTT 59.392 34.615 0.00 0.00 0.00 2.66
1249 2103 8.375506 ACAATGACTCTGGATCTTACTTGTAAA 58.624 33.333 0.00 0.00 0.00 2.01
1378 3854 7.894708 TGCAGAAAAATAGATTTTGTGGATGA 58.105 30.769 11.25 0.00 46.77 2.92
1463 4069 0.248458 AAACGCCGCACAACTTCTTG 60.248 50.000 0.00 0.00 0.00 3.02
1526 4132 5.185056 GGTTCTTGGCAACCACAATATAACT 59.815 40.000 0.00 0.00 44.79 2.24
1772 6075 8.579682 AAACAAAGCAGTGAATAATGAAGTTC 57.420 30.769 0.00 0.00 0.00 3.01
1820 6128 8.668510 AGAAGACCTGCAGTACAAAATATATG 57.331 34.615 13.81 0.00 0.00 1.78
1831 6139 4.955811 TCTTTTGAGAAGACCTGCAGTA 57.044 40.909 13.81 0.00 0.00 2.74
2086 8923 7.980099 GCAAAGACTACATATAGTTGGTGTACT 59.020 37.037 0.00 0.00 41.98 2.73
2336 9190 5.578005 TTGAAAAATGGACCGTAAACACA 57.422 34.783 0.00 0.00 0.00 3.72
2337 9191 5.805994 TGTTTGAAAAATGGACCGTAAACAC 59.194 36.000 7.38 0.00 33.44 3.32
2393 9254 7.225931 ACTTGAAACGCTGAACAAATACTTCTA 59.774 33.333 0.00 0.00 0.00 2.10
2419 9280 2.501316 TCATCTCTCTTGGGAATTCGCA 59.499 45.455 20.25 20.25 37.01 5.10
2484 9345 6.581171 AGGACAAGATTTCCATTGTTCTTC 57.419 37.500 0.00 0.00 41.50 2.87
2589 9451 8.620416 TCATCAAAGATTATGACATTAAACCGG 58.380 33.333 0.00 0.00 0.00 5.28
2743 11356 6.148264 GCATCTCTTTCCTTATGCTAAATGC 58.852 40.000 0.00 0.00 41.16 3.56
2755 11368 2.579860 ACTCCATTGGCATCTCTTTCCT 59.420 45.455 0.00 0.00 0.00 3.36
2780 11393 1.539827 CCGTTTCCATTTGGAGGTGTC 59.460 52.381 0.00 0.00 46.36 3.67
2783 11396 1.144093 TGTCCGTTTCCATTTGGAGGT 59.856 47.619 0.00 0.00 46.36 3.85
2882 11500 6.767902 CCTGTGCCAAGAAATAGAGCTAAATA 59.232 38.462 0.00 0.00 0.00 1.40
2883 11501 5.591877 CCTGTGCCAAGAAATAGAGCTAAAT 59.408 40.000 0.00 0.00 0.00 1.40
2884 11502 4.943705 CCTGTGCCAAGAAATAGAGCTAAA 59.056 41.667 0.00 0.00 0.00 1.85
2885 11503 4.225042 TCCTGTGCCAAGAAATAGAGCTAA 59.775 41.667 0.00 0.00 0.00 3.09
2886 11504 3.774766 TCCTGTGCCAAGAAATAGAGCTA 59.225 43.478 0.00 0.00 0.00 3.32
2888 11506 2.991250 TCCTGTGCCAAGAAATAGAGC 58.009 47.619 0.00 0.00 0.00 4.09
2890 11508 6.662755 ACAATATCCTGTGCCAAGAAATAGA 58.337 36.000 0.00 0.00 0.00 1.98
2891 11509 6.949352 ACAATATCCTGTGCCAAGAAATAG 57.051 37.500 0.00 0.00 0.00 1.73
2892 11510 7.615365 AGAAACAATATCCTGTGCCAAGAAATA 59.385 33.333 0.00 0.00 0.00 1.40
2895 11513 5.324409 AGAAACAATATCCTGTGCCAAGAA 58.676 37.500 0.00 0.00 0.00 2.52
2896 11514 4.922206 AGAAACAATATCCTGTGCCAAGA 58.078 39.130 0.00 0.00 0.00 3.02
2897 11515 4.701651 TGAGAAACAATATCCTGTGCCAAG 59.298 41.667 0.00 0.00 0.00 3.61
2899 11517 4.299586 TGAGAAACAATATCCTGTGCCA 57.700 40.909 0.00 0.00 0.00 4.92
2900 11518 7.516198 AATATGAGAAACAATATCCTGTGCC 57.484 36.000 0.00 0.00 0.00 5.01
2901 11519 9.807649 AAAAATATGAGAAACAATATCCTGTGC 57.192 29.630 0.00 0.00 0.00 4.57
3031 11658 3.349879 GGTGAAATTGGAACCGGGA 57.650 52.632 6.32 0.00 0.00 5.14
3052 11679 1.905894 AGCCTGACCTTCTTCTTCCTC 59.094 52.381 0.00 0.00 0.00 3.71
3475 12149 5.236695 GTCTGGGAAAAGTCTGTTTACAGTC 59.763 44.000 9.53 4.60 44.12 3.51
3572 17657 1.404477 GCCATTGTTTTCACCGAACG 58.596 50.000 0.00 0.00 0.00 3.95
3616 17701 5.334182 GCTAGTTGCCTTCTACAAACTGTTC 60.334 44.000 0.00 0.00 35.15 3.18
3637 17722 4.264253 CAAACATCACCCATCTTCAGCTA 58.736 43.478 0.00 0.00 0.00 3.32
3655 17740 5.041287 GGTCAACAGTTTAAAGAGGCAAAC 58.959 41.667 0.00 0.00 35.36 2.93
3657 17742 3.314080 CGGTCAACAGTTTAAAGAGGCAA 59.686 43.478 0.00 0.00 0.00 4.52
3698 17786 1.478916 TCGCACGGATGATAAAGACCA 59.521 47.619 0.00 0.00 0.00 4.02
3717 23319 4.621034 CGTGCCCAGTAATTGACAAATTTC 59.379 41.667 0.00 0.00 37.23 2.17
3720 23322 3.153919 ACGTGCCCAGTAATTGACAAAT 58.846 40.909 0.00 0.00 0.00 2.32
3739 23341 2.591571 TCAGCATCATTCTGGAGACG 57.408 50.000 0.00 0.00 32.63 4.18
3801 23403 2.891936 GGATCACGCGCTGCATCA 60.892 61.111 5.73 0.00 0.00 3.07
3806 23408 4.827087 AGCCAGGATCACGCGCTG 62.827 66.667 5.73 4.63 0.00 5.18
3821 23423 1.135859 CGATGTGAAGCAACCTTGAGC 60.136 52.381 0.00 0.00 0.00 4.26
3861 23464 0.240945 CAAGGGCAACAACATCGTCC 59.759 55.000 0.00 0.00 39.74 4.79
3864 23467 1.135315 CCATCAAGGGCAACAACATCG 60.135 52.381 0.00 0.00 39.74 3.84
3896 23506 1.885887 CCACGCCAGATTTTTCCTTGA 59.114 47.619 0.00 0.00 0.00 3.02
3924 23571 2.279469 CGACAGGATCGCTCGTTTC 58.721 57.895 0.00 0.00 45.52 2.78
3946 23597 3.497103 ATAATGTAACCGGGGCCTTAC 57.503 47.619 6.32 6.05 0.00 2.34
3954 23605 9.415544 GTTTCTACCACTATATAATGTAACCGG 57.584 37.037 0.00 0.00 0.00 5.28
3972 23623 5.124936 ACCACAACAGTTTCAAGTTTCTACC 59.875 40.000 0.00 0.00 0.00 3.18
4015 23666 3.375299 GCCTGTGAAGATAACGAGCAAAT 59.625 43.478 0.00 0.00 0.00 2.32
4020 23671 2.544685 CAGGCCTGTGAAGATAACGAG 58.455 52.381 25.53 0.00 0.00 4.18
4032 23687 1.159664 AGAGGAGTTCCAGGCCTGT 59.840 57.895 30.63 13.02 38.89 4.00
4080 23741 1.930908 GCATCCAGAGGTGCAACAGC 61.931 60.000 3.64 0.00 40.94 4.40
4109 23771 1.526455 CCCCGGTGACCGTTCAAAA 60.526 57.895 23.73 0.00 46.80 2.44
4110 23772 2.111460 CCCCGGTGACCGTTCAAA 59.889 61.111 23.73 0.00 46.80 2.69
4131 23793 6.523150 GCAATATATTCAGGTGGGGAATCTCT 60.523 42.308 0.00 0.00 36.45 3.10
4132 23794 5.649831 GCAATATATTCAGGTGGGGAATCTC 59.350 44.000 0.00 0.00 36.45 2.75
4133 23795 5.314306 AGCAATATATTCAGGTGGGGAATCT 59.686 40.000 0.00 0.00 36.45 2.40
4135 23797 5.074929 TGAGCAATATATTCAGGTGGGGAAT 59.925 40.000 0.00 0.00 38.46 3.01
4136 23798 4.415179 TGAGCAATATATTCAGGTGGGGAA 59.585 41.667 0.00 0.00 0.00 3.97
4137 23799 3.980022 TGAGCAATATATTCAGGTGGGGA 59.020 43.478 0.00 0.00 0.00 4.81
4138 23800 4.371624 TGAGCAATATATTCAGGTGGGG 57.628 45.455 0.00 0.00 0.00 4.96
4139 23801 5.829924 ACTTTGAGCAATATATTCAGGTGGG 59.170 40.000 0.00 0.00 0.00 4.61
4140 23802 6.238842 CCACTTTGAGCAATATATTCAGGTGG 60.239 42.308 16.68 16.68 38.66 4.61
4141 23803 6.732154 CCACTTTGAGCAATATATTCAGGTG 58.268 40.000 0.00 5.03 0.00 4.00
4142 23804 5.300286 GCCACTTTGAGCAATATATTCAGGT 59.700 40.000 0.00 0.00 0.00 4.00
4143 23805 5.278660 GGCCACTTTGAGCAATATATTCAGG 60.279 44.000 0.00 0.00 0.00 3.86
4144 23806 5.300034 TGGCCACTTTGAGCAATATATTCAG 59.700 40.000 0.00 0.00 0.00 3.02
4145 23807 5.199723 TGGCCACTTTGAGCAATATATTCA 58.800 37.500 0.00 0.00 0.00 2.57
4147 23809 6.543430 TTTGGCCACTTTGAGCAATATATT 57.457 33.333 3.88 0.00 0.00 1.28
4148 23810 6.543430 TTTTGGCCACTTTGAGCAATATAT 57.457 33.333 3.88 0.00 0.00 0.86
4149 23811 5.991933 TTTTGGCCACTTTGAGCAATATA 57.008 34.783 3.88 0.00 0.00 0.86
4151 23813 4.567971 CATTTTGGCCACTTTGAGCAATA 58.432 39.130 3.88 0.00 0.00 1.90
4152 23814 3.404899 CATTTTGGCCACTTTGAGCAAT 58.595 40.909 3.88 0.00 0.00 3.56
4153 23815 2.836262 CATTTTGGCCACTTTGAGCAA 58.164 42.857 3.88 0.00 0.00 3.91
4154 23816 1.540797 GCATTTTGGCCACTTTGAGCA 60.541 47.619 3.88 0.00 0.00 4.26
4165 23827 2.559440 TCAAACACTTGGCATTTTGGC 58.441 42.857 9.92 0.00 44.03 4.52
4166 23828 3.747529 GGATCAAACACTTGGCATTTTGG 59.252 43.478 0.00 0.00 33.01 3.28
4167 23829 4.378774 TGGATCAAACACTTGGCATTTTG 58.621 39.130 0.00 0.00 33.01 2.44
4168 23830 4.101430 ACTGGATCAAACACTTGGCATTTT 59.899 37.500 0.00 0.00 33.01 1.82
4169 23831 3.642848 ACTGGATCAAACACTTGGCATTT 59.357 39.130 0.00 0.00 33.01 2.32
4170 23832 3.233507 ACTGGATCAAACACTTGGCATT 58.766 40.909 0.00 0.00 33.01 3.56
4171 23833 2.880443 ACTGGATCAAACACTTGGCAT 58.120 42.857 0.00 0.00 33.01 4.40
4173 23835 3.733443 AAACTGGATCAAACACTTGGC 57.267 42.857 0.00 0.00 33.01 4.52
4174 23836 7.393234 TCCTTATAAACTGGATCAAACACTTGG 59.607 37.037 0.00 0.00 33.01 3.61
4175 23837 8.335532 TCCTTATAAACTGGATCAAACACTTG 57.664 34.615 0.00 0.00 0.00 3.16
4178 23840 9.406828 GTTTTCCTTATAAACTGGATCAAACAC 57.593 33.333 11.25 0.00 33.87 3.32
4179 23841 8.581578 GGTTTTCCTTATAAACTGGATCAAACA 58.418 33.333 14.95 0.00 34.66 2.83
4180 23842 7.753580 CGGTTTTCCTTATAAACTGGATCAAAC 59.246 37.037 0.00 9.20 37.92 2.93
4181 23843 7.822658 CGGTTTTCCTTATAAACTGGATCAAA 58.177 34.615 0.00 0.00 37.92 2.69
4182 23844 7.385778 CGGTTTTCCTTATAAACTGGATCAA 57.614 36.000 0.00 0.00 37.92 2.57
4188 23850 5.813672 TCGATCCGGTTTTCCTTATAAACTG 59.186 40.000 0.00 0.00 40.12 3.16
4189 23851 5.981174 TCGATCCGGTTTTCCTTATAAACT 58.019 37.500 0.00 0.00 36.12 2.66
4190 23852 6.667007 TTCGATCCGGTTTTCCTTATAAAC 57.333 37.500 0.00 0.00 37.95 2.01


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

AutoCloner maintained by Alex Coulton.