Multiple sequence alignment - TraesCS2B01G265900

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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 TraesCS2B01G265900 chr2B 100.000 4766 0 0 1 4766 358051052 358046287 0.000000e+00 8802.0
1 TraesCS2B01G265900 chr2D 94.943 2096 70 17 1001 3091 302427615 302425551 0.000000e+00 3251.0
2 TraesCS2B01G265900 chr2D 86.609 1740 96 49 3083 4766 302425395 302423737 0.000000e+00 1796.0
3 TraesCS2B01G265900 chr2D 85.714 133 15 2 2928 3056 607675734 607675866 2.310000e-28 137.0
4 TraesCS2B01G265900 chr2A 92.080 1957 94 31 1002 2939 379736607 379734693 0.000000e+00 2699.0
5 TraesCS2B01G265900 chr2A 87.004 1108 87 27 3123 4206 379734591 379733517 0.000000e+00 1195.0
6 TraesCS2B01G265900 chr2A 86.192 449 39 6 4319 4766 379733431 379733005 9.340000e-127 464.0
7 TraesCS2B01G265900 chr5B 85.414 953 131 7 1 948 51035614 51034665 0.000000e+00 983.0
8 TraesCS2B01G265900 chr5B 83.682 956 144 10 1 948 703328026 703328977 0.000000e+00 891.0
9 TraesCS2B01G265900 chr5B 85.357 799 108 5 2 795 72013634 72014428 0.000000e+00 819.0
10 TraesCS2B01G265900 chr5B 77.428 731 153 10 221 948 631469584 631468863 4.410000e-115 425.0
11 TraesCS2B01G265900 chr5B 83.019 106 16 2 2833 2937 444748008 444748112 1.410000e-15 95.3
12 TraesCS2B01G265900 chr4B 82.792 924 150 9 1 919 659661737 659662656 0.000000e+00 817.0
13 TraesCS2B01G265900 chr4B 81.767 532 91 6 420 948 496522997 496523525 1.570000e-119 440.0
14 TraesCS2B01G265900 chr4B 83.333 180 26 4 773 948 659662657 659662836 3.820000e-36 163.0
15 TraesCS2B01G265900 chr4B 85.938 128 14 2 2930 3053 167350089 167349962 2.990000e-27 134.0
16 TraesCS2B01G265900 chr3D 85.545 761 95 4 188 944 451883496 451884245 0.000000e+00 782.0
17 TraesCS2B01G265900 chr3D 77.824 965 188 20 1 948 504422162 504423117 1.490000e-159 573.0
18 TraesCS2B01G265900 chr3D 89.076 119 10 1 2935 3050 336588252 336588370 1.380000e-30 145.0
19 TraesCS2B01G265900 chr6D 88.278 546 63 1 211 756 350289029 350288485 0.000000e+00 652.0
20 TraesCS2B01G265900 chr6D 83.981 206 22 9 752 948 350279900 350279697 2.260000e-43 187.0
21 TraesCS2B01G265900 chr6D 90.678 118 11 0 2936 3053 87598596 87598713 1.780000e-34 158.0
22 TraesCS2B01G265900 chr4A 77.643 823 165 14 142 948 302715268 302716087 2.580000e-132 483.0
23 TraesCS2B01G265900 chr4A 87.500 128 12 2 2930 3053 467246609 467246482 1.380000e-30 145.0
24 TraesCS2B01G265900 chr6B 89.273 289 28 3 1 288 189528024 189527738 4.540000e-95 359.0
25 TraesCS2B01G265900 chr4D 87.313 134 13 2 2924 3053 109274959 109275092 2.970000e-32 150.0
26 TraesCS2B01G265900 chr7B 89.256 121 10 1 2935 3052 648913927 648913807 1.070000e-31 148.0
27 TraesCS2B01G265900 chr1D 89.167 120 10 1 2936 3052 216329002 216328883 3.840000e-31 147.0
28 TraesCS2B01G265900 chr1D 83.333 66 7 4 3843 3906 487616209 487616272 1.850000e-04 58.4
29 TraesCS2B01G265900 chr1A 85.938 64 8 1 3843 3906 585692145 585692207 3.080000e-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 TraesCS2B01G265900 chr2B 358046287 358051052 4765 True 8802.000000 8802 100.000000 1 4766 1 chr2B.!!$R1 4765
1 TraesCS2B01G265900 chr2D 302423737 302427615 3878 True 2523.500000 3251 90.776000 1001 4766 2 chr2D.!!$R1 3765
2 TraesCS2B01G265900 chr2A 379733005 379736607 3602 True 1452.666667 2699 88.425333 1002 4766 3 chr2A.!!$R1 3764
3 TraesCS2B01G265900 chr5B 51034665 51035614 949 True 983.000000 983 85.414000 1 948 1 chr5B.!!$R1 947
4 TraesCS2B01G265900 chr5B 703328026 703328977 951 False 891.000000 891 83.682000 1 948 1 chr5B.!!$F3 947
5 TraesCS2B01G265900 chr5B 72013634 72014428 794 False 819.000000 819 85.357000 2 795 1 chr5B.!!$F1 793
6 TraesCS2B01G265900 chr5B 631468863 631469584 721 True 425.000000 425 77.428000 221 948 1 chr5B.!!$R2 727
7 TraesCS2B01G265900 chr4B 659661737 659662836 1099 False 490.000000 817 83.062500 1 948 2 chr4B.!!$F2 947
8 TraesCS2B01G265900 chr4B 496522997 496523525 528 False 440.000000 440 81.767000 420 948 1 chr4B.!!$F1 528
9 TraesCS2B01G265900 chr3D 451883496 451884245 749 False 782.000000 782 85.545000 188 944 1 chr3D.!!$F2 756
10 TraesCS2B01G265900 chr3D 504422162 504423117 955 False 573.000000 573 77.824000 1 948 1 chr3D.!!$F3 947
11 TraesCS2B01G265900 chr6D 350288485 350289029 544 True 652.000000 652 88.278000 211 756 1 chr6D.!!$R2 545
12 TraesCS2B01G265900 chr4A 302715268 302716087 819 False 483.000000 483 77.643000 142 948 1 chr4A.!!$F1 806

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
952 1134 0.318120 CAAATGAAAAGGCAGCCGGT 59.682 50.0 5.55 0.0 0.00 5.28 F
990 1172 0.321671 TTCCGAGGGAAGTGCTGAAG 59.678 55.0 0.00 0.0 36.71 3.02 F
992 1174 0.390472 CCGAGGGAAGTGCTGAAGAC 60.390 60.0 0.00 0.0 0.00 3.01 F
996 1178 0.603975 GGGAAGTGCTGAAGACGCTT 60.604 55.0 0.00 0.0 40.43 4.68 F
1331 1517 0.767375 TGCAGGAGAAGGACAAGCTT 59.233 50.0 0.00 0.0 0.00 3.74 F
1967 2153 1.092921 TTTGGCGTCAGCTGAAACGT 61.093 50.0 20.19 0.0 44.37 3.99 F
3256 3654 0.332632 CCATGGATCAGGTTGTGGGT 59.667 55.0 5.56 0.0 0.00 4.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2604 2804 0.687354 ACGACCATTTCAGAGGCTGT 59.313 50.000 0.00 0.00 32.61 4.40 R
2760 2960 2.030185 CGGAGTACGTGATAAGATGGGG 60.030 54.545 0.00 0.00 37.93 4.96 R
2943 3144 6.373216 CCATTTCTACAAGTAATTTGGGACGA 59.627 38.462 0.00 0.00 41.25 4.20 R
3001 3205 6.697455 TGTCGCAGAAATGAATGTATCTAGAC 59.303 38.462 0.00 0.00 39.69 2.59 R
3174 3572 0.037590 AGTTTTCGCTGGCCATGGTA 59.962 50.000 14.67 1.86 0.00 3.25 R
3604 4011 0.396556 AGGTTCCCGCAACAAAAGGT 60.397 50.000 0.00 0.00 36.61 3.50 R
4579 5036 0.107081 TCCGGCGTGGAGAAAGAAAA 59.893 50.000 6.01 0.00 43.74 2.29 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
79 80 3.116174 GACTAGATGGGAAAGGGTCCTT 58.884 50.000 0.00 0.00 46.92 3.36
117 123 1.168714 GGCTCTTCAAAATCGCCACT 58.831 50.000 0.00 0.00 40.41 4.00
118 124 1.135575 GGCTCTTCAAAATCGCCACTG 60.136 52.381 0.00 0.00 40.41 3.66
132 138 1.065564 GCCACTGGAAAGCAGAGATCT 60.066 52.381 0.00 0.00 0.00 2.75
140 146 4.121317 GGAAAGCAGAGATCTGTGATGAG 58.879 47.826 23.23 0.00 45.45 2.90
242 249 2.491675 TCTCTGACCTCGCAGACTAA 57.508 50.000 0.00 0.00 39.84 2.24
351 358 0.845102 ACGGATCCTTCCCCAGGTTT 60.845 55.000 10.75 0.00 44.37 3.27
380 387 2.731572 CAAGATTTGGGAGGCTCATGT 58.268 47.619 17.69 0.00 0.00 3.21
428 435 2.047179 GGTGCTCCACGGGAAGAC 60.047 66.667 0.00 0.00 34.83 3.01
490 498 1.664873 CCTATCTGCCCTCTCTGCG 59.335 63.158 0.00 0.00 0.00 5.18
520 529 2.608752 CCAGAAACAGCAAATCACCTGC 60.609 50.000 0.00 0.00 40.24 4.85
568 577 2.513897 GGTCGCATGTACAGGGGC 60.514 66.667 18.60 13.43 0.00 5.80
651 660 1.068083 GGATTCGCTCATCGCTCCA 59.932 57.895 0.00 0.00 38.65 3.86
652 661 0.530650 GGATTCGCTCATCGCTCCAA 60.531 55.000 0.00 0.00 38.65 3.53
654 663 1.869767 GATTCGCTCATCGCTCCAATT 59.130 47.619 0.00 0.00 38.27 2.32
728 737 1.841302 ATCTGGAAGGAGCGCAACCA 61.841 55.000 21.98 15.66 0.00 3.67
772 782 3.716195 CCCATGTGGAGGTGGCGA 61.716 66.667 0.00 0.00 37.39 5.54
825 835 1.754234 GGCTTTCGGCATGGTCCAT 60.754 57.895 0.00 0.00 44.01 3.41
891 920 1.752788 CGGGTTTTGTCAGGTTCCCTT 60.753 52.381 0.00 0.00 33.41 3.95
905 934 5.601583 GGTTCCCTTGAAAAACCTAACAA 57.398 39.130 0.00 0.00 39.48 2.83
933 1115 9.862371 TCTGTACATATTCTCTCTTTTTGTCTC 57.138 33.333 0.00 0.00 0.00 3.36
948 1130 3.648339 TGTCTCAAATGAAAAGGCAGC 57.352 42.857 0.00 0.00 0.00 5.25
949 1131 2.297033 TGTCTCAAATGAAAAGGCAGCC 59.703 45.455 1.84 1.84 0.00 4.85
950 1132 1.541147 TCTCAAATGAAAAGGCAGCCG 59.459 47.619 5.55 0.00 0.00 5.52
951 1133 0.602562 TCAAATGAAAAGGCAGCCGG 59.397 50.000 5.55 0.00 0.00 6.13
952 1134 0.318120 CAAATGAAAAGGCAGCCGGT 59.682 50.000 5.55 0.00 0.00 5.28
953 1135 1.047801 AAATGAAAAGGCAGCCGGTT 58.952 45.000 5.55 3.79 0.00 4.44
954 1136 0.603065 AATGAAAAGGCAGCCGGTTC 59.397 50.000 18.63 18.63 0.00 3.62
955 1137 1.250840 ATGAAAAGGCAGCCGGTTCC 61.251 55.000 21.22 1.48 0.00 3.62
956 1138 1.603739 GAAAAGGCAGCCGGTTCCT 60.604 57.895 15.87 4.20 0.00 3.36
957 1139 1.587043 GAAAAGGCAGCCGGTTCCTC 61.587 60.000 15.87 3.67 0.00 3.71
958 1140 3.901797 AAAGGCAGCCGGTTCCTCG 62.902 63.158 5.55 0.00 0.00 4.63
960 1142 4.388499 GGCAGCCGGTTCCTCGAA 62.388 66.667 1.90 0.00 0.00 3.71
961 1143 2.358247 GCAGCCGGTTCCTCGAAA 60.358 61.111 1.90 0.00 0.00 3.46
962 1144 1.964373 GCAGCCGGTTCCTCGAAAA 60.964 57.895 1.90 0.00 0.00 2.29
963 1145 1.512156 GCAGCCGGTTCCTCGAAAAA 61.512 55.000 1.90 0.00 0.00 1.94
984 1166 5.453567 AAAAAGATTTTCCGAGGGAAGTG 57.546 39.130 0.00 0.00 43.06 3.16
985 1167 2.115343 AGATTTTCCGAGGGAAGTGC 57.885 50.000 0.00 0.00 43.06 4.40
986 1168 1.630878 AGATTTTCCGAGGGAAGTGCT 59.369 47.619 0.00 0.00 43.06 4.40
987 1169 1.740025 GATTTTCCGAGGGAAGTGCTG 59.260 52.381 0.00 0.00 43.06 4.41
988 1170 0.762418 TTTTCCGAGGGAAGTGCTGA 59.238 50.000 0.00 0.00 43.06 4.26
989 1171 0.762418 TTTCCGAGGGAAGTGCTGAA 59.238 50.000 0.00 0.00 43.06 3.02
990 1172 0.321671 TTCCGAGGGAAGTGCTGAAG 59.678 55.000 0.00 0.00 36.71 3.02
991 1173 0.541998 TCCGAGGGAAGTGCTGAAGA 60.542 55.000 0.00 0.00 0.00 2.87
992 1174 0.390472 CCGAGGGAAGTGCTGAAGAC 60.390 60.000 0.00 0.00 0.00 3.01
993 1175 0.734253 CGAGGGAAGTGCTGAAGACG 60.734 60.000 0.00 0.00 0.00 4.18
994 1176 1.004440 AGGGAAGTGCTGAAGACGC 60.004 57.895 0.00 0.00 0.00 5.19
995 1177 1.004440 GGGAAGTGCTGAAGACGCT 60.004 57.895 0.00 0.00 0.00 5.07
996 1178 0.603975 GGGAAGTGCTGAAGACGCTT 60.604 55.000 0.00 0.00 40.43 4.68
997 1179 1.230324 GGAAGTGCTGAAGACGCTTT 58.770 50.000 0.00 0.00 37.96 3.51
998 1180 2.413837 GGAAGTGCTGAAGACGCTTTA 58.586 47.619 0.00 0.00 37.96 1.85
999 1181 2.806244 GGAAGTGCTGAAGACGCTTTAA 59.194 45.455 0.00 0.00 37.96 1.52
1091 1277 2.422832 ACCACGAAAACAAACCGCTTAA 59.577 40.909 0.00 0.00 0.00 1.85
1106 1292 3.464111 GCTTAATGCGAACCTAGGGTA 57.536 47.619 14.81 0.00 33.12 3.69
1146 1332 2.597903 GGCAATCCCTCCCACTCC 59.402 66.667 0.00 0.00 0.00 3.85
1151 1337 2.569373 AATCCCTCCCACTCCCCTCC 62.569 65.000 0.00 0.00 0.00 4.30
1152 1338 3.700350 CCCTCCCACTCCCCTCCT 61.700 72.222 0.00 0.00 0.00 3.69
1153 1339 2.041405 CCTCCCACTCCCCTCCTC 60.041 72.222 0.00 0.00 0.00 3.71
1154 1340 2.443016 CTCCCACTCCCCTCCTCG 60.443 72.222 0.00 0.00 0.00 4.63
1155 1341 3.273654 TCCCACTCCCCTCCTCGT 61.274 66.667 0.00 0.00 0.00 4.18
1156 1342 3.077556 CCCACTCCCCTCCTCGTG 61.078 72.222 0.00 0.00 0.00 4.35
1174 1360 2.683968 GTGCCGTCATACAGTTCTTGA 58.316 47.619 0.00 0.00 0.00 3.02
1265 1451 1.670083 CCGTTTCCCAGTTCGACCC 60.670 63.158 0.00 0.00 0.00 4.46
1266 1452 2.025418 CGTTTCCCAGTTCGACCCG 61.025 63.158 0.00 0.00 0.00 5.28
1292 1478 1.462791 GCAAGGTGTTCGACGTTTTG 58.537 50.000 0.00 0.00 30.06 2.44
1304 1490 1.201414 GACGTTTTGATCCGCCCAAAT 59.799 47.619 0.00 0.00 34.02 2.32
1331 1517 0.767375 TGCAGGAGAAGGACAAGCTT 59.233 50.000 0.00 0.00 0.00 3.74
1412 1598 3.003173 CGGGAGGAGCTCACCCAA 61.003 66.667 32.74 0.00 43.40 4.12
1424 1610 2.762327 GCTCACCCAAATCATCACCAAT 59.238 45.455 0.00 0.00 0.00 3.16
1425 1611 3.196254 GCTCACCCAAATCATCACCAATT 59.804 43.478 0.00 0.00 0.00 2.32
1577 1763 1.451028 CCAGCAGCCCAGTAAGCTC 60.451 63.158 0.00 0.00 38.95 4.09
1620 1806 1.958715 CAATGTCGTCGCCCACACA 60.959 57.895 0.00 0.00 0.00 3.72
1660 1846 8.023021 TGCTGATGATGTAGTAAGGTAGAAAT 57.977 34.615 0.00 0.00 0.00 2.17
1668 1854 9.444600 GATGTAGTAAGGTAGAAATTGGTTGAA 57.555 33.333 0.00 0.00 0.00 2.69
1682 1868 7.595819 AATTGGTTGAACTTAAGAATGACCA 57.404 32.000 10.09 14.01 34.38 4.02
1683 1869 6.633500 TTGGTTGAACTTAAGAATGACCAG 57.367 37.500 10.09 0.00 37.26 4.00
1684 1870 4.518970 TGGTTGAACTTAAGAATGACCAGC 59.481 41.667 10.09 0.24 32.57 4.85
1685 1871 4.378459 GGTTGAACTTAAGAATGACCAGCG 60.378 45.833 10.09 0.00 0.00 5.18
1686 1872 4.265904 TGAACTTAAGAATGACCAGCGA 57.734 40.909 10.09 0.00 0.00 4.93
1687 1873 4.832248 TGAACTTAAGAATGACCAGCGAT 58.168 39.130 10.09 0.00 0.00 4.58
1688 1874 4.631377 TGAACTTAAGAATGACCAGCGATG 59.369 41.667 10.09 0.00 0.00 3.84
1689 1875 4.471904 ACTTAAGAATGACCAGCGATGA 57.528 40.909 10.09 0.00 0.00 2.92
1690 1876 4.832248 ACTTAAGAATGACCAGCGATGAA 58.168 39.130 10.09 0.00 0.00 2.57
1773 1959 4.563580 CCTGAGGTGTACAGCAAGTATGTT 60.564 45.833 25.75 3.36 34.67 2.71
1863 2049 3.449018 GTGGCAAGATCTCTGAAGGTAGA 59.551 47.826 0.00 0.00 0.00 2.59
1883 2069 3.503748 AGAGATTGCTGGTTCTTTTTCCG 59.496 43.478 0.00 0.00 0.00 4.30
1967 2153 1.092921 TTTGGCGTCAGCTGAAACGT 61.093 50.000 20.19 0.00 44.37 3.99
1982 2168 5.263968 TGAAACGTTTGGGCTTAAATGAA 57.736 34.783 20.10 0.00 32.32 2.57
2273 2460 2.768253 AGCATCAACCACAATCTCGA 57.232 45.000 0.00 0.00 0.00 4.04
2338 2525 2.110578 AGAACTTTTGCTTGGTTGCCT 58.889 42.857 0.00 0.00 0.00 4.75
2405 2592 9.349713 TCACTTTAACCTGTAGAAATGATGTTT 57.650 29.630 0.00 0.00 0.00 2.83
2410 2597 7.944729 AACCTGTAGAAATGATGTTTATGCT 57.055 32.000 0.00 0.00 0.00 3.79
2411 2598 7.944729 ACCTGTAGAAATGATGTTTATGCTT 57.055 32.000 0.00 0.00 0.00 3.91
2412 2599 8.353423 ACCTGTAGAAATGATGTTTATGCTTT 57.647 30.769 0.00 0.00 0.00 3.51
2413 2600 8.806146 ACCTGTAGAAATGATGTTTATGCTTTT 58.194 29.630 0.00 0.00 0.00 2.27
2501 2701 9.999009 GCTATAAAATGTTTGGTAAGGAACTAC 57.001 33.333 0.00 0.00 38.49 2.73
2667 2867 6.839454 TGGTTCCTAGTTGTACCATAAACAA 58.161 36.000 0.00 0.00 35.82 2.83
2759 2959 1.250328 TTGCCATGACAAAGAGCCAG 58.750 50.000 0.00 0.00 0.00 4.85
2760 2960 1.246056 TGCCATGACAAAGAGCCAGC 61.246 55.000 0.00 0.00 0.00 4.85
2919 3120 9.906660 ATTCGTTTCTCAAAATTGTATTAGCAA 57.093 25.926 0.00 0.00 0.00 3.91
2969 3173 6.404293 CGTCCCAAATTACTTGTAGAAATGGG 60.404 42.308 0.00 0.00 45.07 4.00
2972 3176 7.832187 TCCCAAATTACTTGTAGAAATGGGTAG 59.168 37.037 15.75 0.00 44.26 3.18
3026 3230 6.697455 GTCTAGATACATTCATTTCTGCGACA 59.303 38.462 0.00 0.00 0.00 4.35
3040 3244 3.689161 TCTGCGACAAGTAATTTGGGATG 59.311 43.478 0.00 0.00 41.25 3.51
3043 3247 3.632145 GCGACAAGTAATTTGGGATGGAT 59.368 43.478 0.00 0.00 41.25 3.41
3174 3572 3.515630 CAGTGTCGCATTGTAGAGTCAT 58.484 45.455 0.00 0.00 0.00 3.06
3256 3654 0.332632 CCATGGATCAGGTTGTGGGT 59.667 55.000 5.56 0.00 0.00 4.51
3426 3825 3.386768 TGCTGTCCAGTCTAAACTCAC 57.613 47.619 0.00 0.00 31.71 3.51
3488 3887 0.390472 GAGACTTGGTGGAGGCTTCG 60.390 60.000 0.00 0.00 34.35 3.79
3521 3920 3.518992 ATAGGAGAGGAGGTAGTCTGC 57.481 52.381 0.00 0.00 0.00 4.26
3523 3922 0.394625 GGAGAGGAGGTAGTCTGCGT 60.395 60.000 0.00 0.00 38.98 5.24
3552 3954 3.551250 GCGCCCTCTCAACTAGTTAGATC 60.551 52.174 8.04 4.29 0.00 2.75
3604 4011 9.717942 TTTGAAAAAGGAAAAAGAAAGACATGA 57.282 25.926 0.00 0.00 0.00 3.07
3638 4045 0.179001 AACCTAGTGTTGTGGTGGCC 60.179 55.000 0.00 0.00 35.31 5.36
3681 4088 0.905357 AACCGGAGCTGCATAAGTCT 59.095 50.000 9.46 0.00 0.00 3.24
3704 4111 1.583709 GCATTCTACGCGGCTTTGC 60.584 57.895 12.47 9.32 0.00 3.68
3840 4258 9.863845 AGAACTTATAGAAGAAGAAAGCAGTAC 57.136 33.333 3.65 0.00 36.45 2.73
3841 4259 9.640963 GAACTTATAGAAGAAGAAAGCAGTACA 57.359 33.333 3.65 0.00 36.45 2.90
3842 4260 9.998106 AACTTATAGAAGAAGAAAGCAGTACAA 57.002 29.630 3.65 0.00 36.45 2.41
3843 4261 9.998106 ACTTATAGAAGAAGAAAGCAGTACAAA 57.002 29.630 3.65 0.00 36.45 2.83
3857 4275 5.820947 AGCAGTACAAAATCCCCTTATAACG 59.179 40.000 0.00 0.00 0.00 3.18
3930 4354 3.559655 GGCCCAATCCGCAAAAATTATTC 59.440 43.478 0.00 0.00 0.00 1.75
3936 4360 3.611970 TCCGCAAAAATTATTCGGGAGA 58.388 40.909 3.56 0.00 40.42 3.71
4054 4479 0.035056 AAGCAACAATCCCTCTCCCG 60.035 55.000 0.00 0.00 0.00 5.14
4055 4480 2.115291 GCAACAATCCCTCTCCCGC 61.115 63.158 0.00 0.00 0.00 6.13
4056 4481 1.452108 CAACAATCCCTCTCCCGCC 60.452 63.158 0.00 0.00 0.00 6.13
4058 4483 0.326238 AACAATCCCTCTCCCGCCTA 60.326 55.000 0.00 0.00 0.00 3.93
4066 4491 1.407025 CCTCTCCCGCCTAAAGTTTCC 60.407 57.143 0.00 0.00 0.00 3.13
4075 4500 2.226674 GCCTAAAGTTTCCTGAGCACAC 59.773 50.000 0.00 0.00 0.00 3.82
4085 4510 1.538629 TGAGCACACCCATCTCCCA 60.539 57.895 0.00 0.00 0.00 4.37
4088 4513 1.377725 GCACACCCATCTCCCACTG 60.378 63.158 0.00 0.00 0.00 3.66
4123 4551 1.118838 GATCCCTCTCCTCACAGGTG 58.881 60.000 0.00 0.00 36.53 4.00
4124 4552 0.415429 ATCCCTCTCCTCACAGGTGT 59.585 55.000 0.00 0.00 36.53 4.16
4165 4593 3.792047 TGCCGTCGACCGTCGTAG 61.792 66.667 19.89 14.35 41.35 3.51
4180 4609 1.612442 GTAGCCACCTCCACCCTCA 60.612 63.158 0.00 0.00 0.00 3.86
4186 4615 0.405585 CACCTCCACCCTCAACCAAT 59.594 55.000 0.00 0.00 0.00 3.16
4187 4616 0.405585 ACCTCCACCCTCAACCAATG 59.594 55.000 0.00 0.00 0.00 2.82
4197 4626 1.024046 TCAACCAATGTCATCGCCCG 61.024 55.000 0.00 0.00 0.00 6.13
4199 4628 3.585990 CCAATGTCATCGCCCGGC 61.586 66.667 0.00 0.00 0.00 6.13
4201 4630 3.797353 AATGTCATCGCCCGGCCT 61.797 61.111 3.10 0.00 0.00 5.19
4202 4631 2.439960 AATGTCATCGCCCGGCCTA 61.440 57.895 3.10 0.00 0.00 3.93
4203 4632 2.383245 AATGTCATCGCCCGGCCTAG 62.383 60.000 3.10 0.00 0.00 3.02
4204 4633 4.301027 GTCATCGCCCGGCCTAGG 62.301 72.222 3.67 3.67 0.00 3.02
4239 4693 2.231380 GGGGAGGAAGGAGGCAACA 61.231 63.158 0.00 0.00 41.41 3.33
4253 4707 1.901833 GGCAACATTCCTCATTGGGTT 59.098 47.619 0.00 0.00 36.20 4.11
4258 4712 1.133025 CATTCCTCATTGGGTTGTCGC 59.867 52.381 0.00 0.00 36.20 5.19
4279 4733 2.282180 GACCAAGAAGCCCCGCAA 60.282 61.111 0.00 0.00 0.00 4.85
4294 4748 1.008538 GCAACCACAACTGCTTCGG 60.009 57.895 0.00 0.00 35.62 4.30
4295 4749 1.008538 CAACCACAACTGCTTCGGC 60.009 57.895 0.00 0.00 42.19 5.54
4296 4750 2.193536 AACCACAACTGCTTCGGCC 61.194 57.895 0.00 0.00 40.91 6.13
4297 4751 2.281761 CCACAACTGCTTCGGCCT 60.282 61.111 0.00 0.00 40.91 5.19
4298 4752 2.328099 CCACAACTGCTTCGGCCTC 61.328 63.158 0.00 0.00 40.91 4.70
4299 4753 2.032681 ACAACTGCTTCGGCCTCC 59.967 61.111 0.00 0.00 40.91 4.30
4300 4754 2.348998 CAACTGCTTCGGCCTCCT 59.651 61.111 0.00 0.00 40.91 3.69
4301 4755 1.302832 CAACTGCTTCGGCCTCCTT 60.303 57.895 0.00 0.00 40.91 3.36
4302 4756 1.003233 AACTGCTTCGGCCTCCTTC 60.003 57.895 0.00 0.00 40.91 3.46
4303 4757 1.768684 AACTGCTTCGGCCTCCTTCA 61.769 55.000 0.00 0.00 40.91 3.02
4304 4758 1.222936 CTGCTTCGGCCTCCTTCAT 59.777 57.895 0.00 0.00 40.91 2.57
4305 4759 1.078214 TGCTTCGGCCTCCTTCATG 60.078 57.895 0.00 0.00 40.91 3.07
4306 4760 1.821332 GCTTCGGCCTCCTTCATGG 60.821 63.158 0.00 0.00 34.32 3.66
4311 4765 2.899339 GCCTCCTTCATGGCGAGC 60.899 66.667 0.00 0.00 39.71 5.03
4312 4766 2.203126 CCTCCTTCATGGCGAGCC 60.203 66.667 7.26 7.26 35.26 4.70
4313 4767 2.587194 CTCCTTCATGGCGAGCCG 60.587 66.667 9.78 0.00 39.42 5.52
4314 4768 3.376935 CTCCTTCATGGCGAGCCGT 62.377 63.158 9.78 6.29 39.42 5.68
4315 4769 2.892425 CCTTCATGGCGAGCCGTC 60.892 66.667 5.76 0.00 39.42 4.79
4327 4781 4.162690 GCCGTCGGCCTCCTTCAT 62.163 66.667 26.23 0.00 44.06 2.57
4487 4944 9.703892 CAAAACACCATCATAGTTTTAAATGGA 57.296 29.630 8.40 0.00 41.86 3.41
4521 4978 8.867112 ATGCTCATTTGTTTCATATTTGCTAG 57.133 30.769 0.00 0.00 0.00 3.42
4542 4999 8.246871 TGCTAGTATGTAGTGAGCAATCATATC 58.753 37.037 0.00 0.00 40.07 1.63
4587 5044 8.169268 CGGTAGACATACAAGACATTTTCTTTC 58.831 37.037 0.00 0.00 42.37 2.62
4627 5084 2.369203 TGTGAACGGTAATGGGAGTGAA 59.631 45.455 0.00 0.00 0.00 3.18
4722 5179 7.810282 TCATTTGGACCATTTGTTATGTTTACG 59.190 33.333 0.00 0.00 0.00 3.18
4725 5182 7.741027 TGGACCATTTGTTATGTTTACGTTA 57.259 32.000 0.00 0.00 0.00 3.18
4758 5215 6.483974 TGAAGGATTTGCTACGTTTCACTTTA 59.516 34.615 0.00 0.00 0.00 1.85
4760 5217 6.665465 AGGATTTGCTACGTTTCACTTTAAC 58.335 36.000 0.00 0.00 0.00 2.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
79 80 2.274104 GGGGCCCAGCAATCGTAA 59.726 61.111 26.86 0.00 0.00 3.18
132 138 0.907486 CCTGAAGCTCCCTCATCACA 59.093 55.000 0.00 0.00 0.00 3.58
140 146 0.108567 GTTCTCGTCCTGAAGCTCCC 60.109 60.000 0.00 0.00 0.00 4.30
181 188 2.425592 CTGTGCGGGTGTCTCCAA 59.574 61.111 0.00 0.00 38.11 3.53
375 382 4.406972 AGCTTACATTCTGGCTCTACATGA 59.593 41.667 0.00 0.00 0.00 3.07
388 395 3.118445 AGCCAGGAGAAGAGCTTACATTC 60.118 47.826 0.00 0.00 29.27 2.67
490 498 2.904866 TGTTTCTGGTGCCCGCAC 60.905 61.111 11.41 11.41 45.49 5.34
520 529 1.569493 CAAACGGACAGTCCTTGCG 59.431 57.895 17.95 6.71 33.30 4.85
586 595 1.828832 GGTAGCGACATCGAGTTCAG 58.171 55.000 5.26 0.00 43.02 3.02
728 737 1.201414 GGGTTCCGTTGAAAATGCGAT 59.799 47.619 0.00 0.00 30.79 4.58
772 782 4.974989 GTTGTCGAACGCGGGGGT 62.975 66.667 12.47 0.00 38.28 4.95
776 786 1.058695 GTCTTATGTTGTCGAACGCGG 59.941 52.381 12.47 0.00 38.28 6.46
787 797 2.092212 CCATGGCCCTCTGTCTTATGTT 60.092 50.000 0.00 0.00 0.00 2.71
825 835 2.266372 CCAATACCGGTCGCCACA 59.734 61.111 12.40 0.00 0.00 4.17
891 920 9.787435 ATATGTACAGAGTTGTTAGGTTTTTCA 57.213 29.630 0.33 0.00 38.76 2.69
905 934 9.646427 GACAAAAAGAGAGAATATGTACAGAGT 57.354 33.333 0.33 0.00 0.00 3.24
928 1110 2.297033 GGCTGCCTTTTCATTTGAGACA 59.703 45.455 12.43 0.00 0.00 3.41
933 1115 0.318120 ACCGGCTGCCTTTTCATTTG 59.682 50.000 17.92 0.00 0.00 2.32
962 1144 4.262036 GCACTTCCCTCGGAAAATCTTTTT 60.262 41.667 0.00 0.00 41.54 1.94
963 1145 3.255888 GCACTTCCCTCGGAAAATCTTTT 59.744 43.478 0.00 0.00 41.54 2.27
964 1146 2.820197 GCACTTCCCTCGGAAAATCTTT 59.180 45.455 0.00 0.00 41.54 2.52
965 1147 2.040412 AGCACTTCCCTCGGAAAATCTT 59.960 45.455 0.00 0.00 41.54 2.40
966 1148 1.630878 AGCACTTCCCTCGGAAAATCT 59.369 47.619 0.00 0.00 41.54 2.40
967 1149 1.740025 CAGCACTTCCCTCGGAAAATC 59.260 52.381 0.00 0.00 41.54 2.17
968 1150 1.351017 TCAGCACTTCCCTCGGAAAAT 59.649 47.619 0.00 0.00 41.54 1.82
969 1151 0.762418 TCAGCACTTCCCTCGGAAAA 59.238 50.000 0.00 0.00 41.54 2.29
970 1152 0.762418 TTCAGCACTTCCCTCGGAAA 59.238 50.000 0.00 0.00 41.54 3.13
971 1153 0.321671 CTTCAGCACTTCCCTCGGAA 59.678 55.000 0.00 0.00 39.66 4.30
972 1154 0.541998 TCTTCAGCACTTCCCTCGGA 60.542 55.000 0.00 0.00 0.00 4.55
973 1155 0.390472 GTCTTCAGCACTTCCCTCGG 60.390 60.000 0.00 0.00 0.00 4.63
974 1156 0.734253 CGTCTTCAGCACTTCCCTCG 60.734 60.000 0.00 0.00 0.00 4.63
975 1157 1.016653 GCGTCTTCAGCACTTCCCTC 61.017 60.000 0.00 0.00 34.19 4.30
976 1158 1.004440 GCGTCTTCAGCACTTCCCT 60.004 57.895 0.00 0.00 34.19 4.20
977 1159 0.603975 AAGCGTCTTCAGCACTTCCC 60.604 55.000 0.00 0.00 37.01 3.97
978 1160 1.230324 AAAGCGTCTTCAGCACTTCC 58.770 50.000 0.00 0.00 37.01 3.46
979 1161 3.120511 CCTTAAAGCGTCTTCAGCACTTC 60.121 47.826 0.00 0.00 37.01 3.01
980 1162 2.808543 CCTTAAAGCGTCTTCAGCACTT 59.191 45.455 0.00 0.00 37.01 3.16
981 1163 2.417719 CCTTAAAGCGTCTTCAGCACT 58.582 47.619 0.00 0.00 37.01 4.40
982 1164 1.135944 GCCTTAAAGCGTCTTCAGCAC 60.136 52.381 0.00 0.00 37.01 4.40
983 1165 1.156736 GCCTTAAAGCGTCTTCAGCA 58.843 50.000 0.00 0.00 37.01 4.41
984 1166 3.978063 GCCTTAAAGCGTCTTCAGC 57.022 52.632 0.00 0.00 0.00 4.26
1018 1200 3.610669 CGAGCGGATGGAGGGAGG 61.611 72.222 0.00 0.00 0.00 4.30
1091 1277 2.431057 CAGAAGTACCCTAGGTTCGCAT 59.569 50.000 8.29 0.00 37.09 4.73
1097 1283 1.685491 CGGAGCAGAAGTACCCTAGGT 60.685 57.143 8.29 0.00 40.16 3.08
1129 1315 2.597903 GGAGTGGGAGGGATTGCC 59.402 66.667 0.00 0.00 37.90 4.52
1154 1340 2.683968 TCAAGAACTGTATGACGGCAC 58.316 47.619 0.00 0.00 0.00 5.01
1155 1341 3.394674 TTCAAGAACTGTATGACGGCA 57.605 42.857 0.00 0.00 0.00 5.69
1156 1342 3.000322 CGATTCAAGAACTGTATGACGGC 60.000 47.826 0.00 0.00 0.00 5.68
1194 1380 2.787473 TGTCAATCTGGGCGAATTCT 57.213 45.000 3.52 0.00 0.00 2.40
1198 1384 1.134401 GGAGATGTCAATCTGGGCGAA 60.134 52.381 0.00 0.00 43.48 4.70
1209 1395 1.471119 GTACCTCCGTGGAGATGTCA 58.529 55.000 17.52 0.00 44.53 3.58
1331 1517 4.758251 CGCATCACCTCGGCCACA 62.758 66.667 2.24 0.00 0.00 4.17
1412 1598 4.134563 GGCGGTAGTAATTGGTGATGATT 58.865 43.478 0.00 0.00 0.00 2.57
1424 1610 2.493030 GCTCGCTGGCGGTAGTAA 59.507 61.111 14.94 0.00 40.25 2.24
1577 1763 6.740453 GCAAGATCTAAAGAAGAAGAAAAGCG 59.260 38.462 0.00 0.00 37.89 4.68
1629 1815 6.765036 ACCTTACTACATCATCAGCAAAGATG 59.235 38.462 7.30 7.30 45.28 2.90
1660 1846 5.009610 GCTGGTCATTCTTAAGTTCAACCAA 59.990 40.000 17.14 0.24 35.29 3.67
1668 1854 4.471904 TCATCGCTGGTCATTCTTAAGT 57.528 40.909 1.63 0.00 0.00 2.24
1685 1871 4.184629 ACCTAAACACAGCTCGATTCATC 58.815 43.478 0.00 0.00 0.00 2.92
1686 1872 4.207891 ACCTAAACACAGCTCGATTCAT 57.792 40.909 0.00 0.00 0.00 2.57
1687 1873 3.678056 ACCTAAACACAGCTCGATTCA 57.322 42.857 0.00 0.00 0.00 2.57
1688 1874 5.810587 TGATTACCTAAACACAGCTCGATTC 59.189 40.000 0.00 0.00 0.00 2.52
1689 1875 5.730550 TGATTACCTAAACACAGCTCGATT 58.269 37.500 0.00 0.00 0.00 3.34
1690 1876 5.339008 TGATTACCTAAACACAGCTCGAT 57.661 39.130 0.00 0.00 0.00 3.59
1773 1959 1.686325 GGGCACGCTCCTTATCCTCA 61.686 60.000 0.00 0.00 0.00 3.86
1863 2049 3.253432 GTCGGAAAAAGAACCAGCAATCT 59.747 43.478 0.00 0.00 0.00 2.40
1883 2069 5.105837 ACGATAAAACCTCCTGACTACTGTC 60.106 44.000 0.00 0.00 43.20 3.51
1934 2120 1.813862 CGCCAAAGGTCCTCTGAAACA 60.814 52.381 0.00 0.00 0.00 2.83
1967 2153 6.493115 TCTCATCAGTTTCATTTAAGCCCAAA 59.507 34.615 0.00 0.00 0.00 3.28
1982 2168 2.057922 ACAGGGTGGTTCTCATCAGTT 58.942 47.619 0.00 0.00 0.00 3.16
2110 2297 2.094675 CCTGGGCAAAGATACCAAGTG 58.905 52.381 0.00 0.00 33.13 3.16
2397 2584 8.015185 AGAGGCATTAAAAGCATAAACATCAT 57.985 30.769 5.74 0.00 0.00 2.45
2398 2585 7.122501 TGAGAGGCATTAAAAGCATAAACATCA 59.877 33.333 5.74 0.00 0.00 3.07
2399 2586 7.483307 TGAGAGGCATTAAAAGCATAAACATC 58.517 34.615 5.74 0.00 0.00 3.06
2403 2590 9.153721 CATTTTGAGAGGCATTAAAAGCATAAA 57.846 29.630 5.74 0.00 0.00 1.40
2405 2592 8.065473 TCATTTTGAGAGGCATTAAAAGCATA 57.935 30.769 5.74 0.00 0.00 3.14
2406 2593 6.938507 TCATTTTGAGAGGCATTAAAAGCAT 58.061 32.000 5.74 0.00 0.00 3.79
2407 2594 6.343716 TCATTTTGAGAGGCATTAAAAGCA 57.656 33.333 5.74 0.00 0.00 3.91
2408 2595 6.815142 ACATCATTTTGAGAGGCATTAAAAGC 59.185 34.615 0.00 0.00 0.00 3.51
2409 2596 8.767478 AACATCATTTTGAGAGGCATTAAAAG 57.233 30.769 0.00 0.00 0.00 2.27
2412 2599 9.806203 CATAAACATCATTTTGAGAGGCATTAA 57.194 29.630 0.00 0.00 0.00 1.40
2413 2600 7.922278 GCATAAACATCATTTTGAGAGGCATTA 59.078 33.333 0.00 0.00 0.00 1.90
2414 2601 6.759827 GCATAAACATCATTTTGAGAGGCATT 59.240 34.615 0.00 0.00 0.00 3.56
2415 2602 6.097839 AGCATAAACATCATTTTGAGAGGCAT 59.902 34.615 0.00 0.00 0.00 4.40
2416 2603 5.419788 AGCATAAACATCATTTTGAGAGGCA 59.580 36.000 0.00 0.00 0.00 4.75
2417 2604 5.899299 AGCATAAACATCATTTTGAGAGGC 58.101 37.500 0.00 0.00 0.00 4.70
2437 2624 5.163663 CGTTATGGAGAAGGCATTAAAAGCA 60.164 40.000 5.74 0.00 0.00 3.91
2604 2804 0.687354 ACGACCATTTCAGAGGCTGT 59.313 50.000 0.00 0.00 32.61 4.40
2675 2875 7.823745 AGCTGGAAAAGAAAAGAGTTCATAA 57.176 32.000 0.00 0.00 0.00 1.90
2693 2893 6.115446 CACTATGTAAAATCCTGAAGCTGGA 58.885 40.000 0.00 0.00 36.01 3.86
2759 2959 2.288886 GGAGTACGTGATAAGATGGGGC 60.289 54.545 0.00 0.00 0.00 5.80
2760 2960 2.030185 CGGAGTACGTGATAAGATGGGG 60.030 54.545 0.00 0.00 37.93 4.96
2943 3144 6.373216 CCATTTCTACAAGTAATTTGGGACGA 59.627 38.462 0.00 0.00 41.25 4.20
3001 3205 6.697455 TGTCGCAGAAATGAATGTATCTAGAC 59.303 38.462 0.00 0.00 39.69 2.59
3026 3230 5.472301 ACTCCATCCATCCCAAATTACTT 57.528 39.130 0.00 0.00 0.00 2.24
3040 3244 3.570550 CCTGTGCTACTAGTACTCCATCC 59.429 52.174 0.00 0.00 31.77 3.51
3043 3247 3.733883 ACCTGTGCTACTAGTACTCCA 57.266 47.619 0.00 0.00 31.77 3.86
3174 3572 0.037590 AGTTTTCGCTGGCCATGGTA 59.962 50.000 14.67 1.86 0.00 3.25
3256 3654 2.514803 TCTGCTGTAGCTGTACTGACA 58.485 47.619 3.61 0.00 42.66 3.58
3403 3802 4.574828 GTGAGTTTAGACTGGACAGCAAAA 59.425 41.667 0.00 0.00 35.88 2.44
3426 3825 2.724690 CTCAAGTTCGTCGTTGTACTGG 59.275 50.000 0.00 0.00 0.00 4.00
3488 3887 3.153919 CTCTCCTATACAGCCCTCAGAC 58.846 54.545 0.00 0.00 0.00 3.51
3531 3932 3.304123 CGATCTAACTAGTTGAGAGGGCG 60.304 52.174 18.56 15.13 0.00 6.13
3532 3933 3.884091 TCGATCTAACTAGTTGAGAGGGC 59.116 47.826 18.56 9.22 0.00 5.19
3533 3934 5.237779 GTCTCGATCTAACTAGTTGAGAGGG 59.762 48.000 18.56 10.79 31.77 4.30
3552 3954 0.520827 GTCACGTCTTAGGCGTCTCG 60.521 60.000 9.54 0.00 40.90 4.04
3604 4011 0.396556 AGGTTCCCGCAACAAAAGGT 60.397 50.000 0.00 0.00 36.61 3.50
3629 4036 3.414136 AAGCTGAACGGCCACCACA 62.414 57.895 2.24 0.00 0.00 4.17
3631 4038 2.046009 TACAAGCTGAACGGCCACCA 62.046 55.000 2.24 0.00 0.00 4.17
3638 4045 2.472886 CGAAGTGCATACAAGCTGAACG 60.473 50.000 0.00 0.00 34.99 3.95
3681 4088 1.948104 AGCCGCGTAGAATGCATAAA 58.052 45.000 4.92 0.00 0.00 1.40
3696 4103 1.507141 AACCTGAACGAGCAAAGCCG 61.507 55.000 0.00 0.00 0.00 5.52
3704 4111 1.493311 GCGAGCAAACCTGAACGAG 59.507 57.895 0.00 0.00 0.00 4.18
3737 4144 2.666508 GACAACGCATCACTTGTATCGT 59.333 45.455 0.00 0.00 30.59 3.73
3739 4146 3.679980 ACAGACAACGCATCACTTGTATC 59.320 43.478 0.00 0.00 30.59 2.24
3743 4150 1.866601 TGACAGACAACGCATCACTTG 59.133 47.619 0.00 0.00 0.00 3.16
3862 4280 4.649218 CCCAACTCCCCGATATCAATTTTT 59.351 41.667 3.12 0.00 0.00 1.94
3867 4285 0.472471 GCCCAACTCCCCGATATCAA 59.528 55.000 3.12 0.00 0.00 2.57
3874 4298 1.834822 TTTTTGGCCCAACTCCCCG 60.835 57.895 0.00 0.00 0.00 5.73
3903 4327 2.424842 TTTGCGGATTGGGCCTCTGT 62.425 55.000 4.53 0.00 0.00 3.41
3936 4360 7.781324 AATAAGTTGAGATGTTTTGATGGGT 57.219 32.000 0.00 0.00 0.00 4.51
3990 4415 0.325296 GGGAGGGGGTCAATTTTCCC 60.325 60.000 6.23 6.23 42.73 3.97
3991 4416 0.325296 GGGGAGGGGGTCAATTTTCC 60.325 60.000 0.00 0.00 0.00 3.13
3992 4417 0.411848 TGGGGAGGGGGTCAATTTTC 59.588 55.000 0.00 0.00 0.00 2.29
3993 4418 0.871024 TTGGGGAGGGGGTCAATTTT 59.129 50.000 0.00 0.00 0.00 1.82
3994 4419 1.101195 ATTGGGGAGGGGGTCAATTT 58.899 50.000 0.00 0.00 0.00 1.82
3995 4420 1.573857 GTATTGGGGAGGGGGTCAATT 59.426 52.381 0.00 0.00 32.81 2.32
3996 4421 1.231963 GTATTGGGGAGGGGGTCAAT 58.768 55.000 0.00 0.00 34.65 2.57
3997 4422 0.922243 GGTATTGGGGAGGGGGTCAA 60.922 60.000 0.00 0.00 0.00 3.18
3998 4423 1.308392 GGTATTGGGGAGGGGGTCA 60.308 63.158 0.00 0.00 0.00 4.02
3999 4424 1.308392 TGGTATTGGGGAGGGGGTC 60.308 63.158 0.00 0.00 0.00 4.46
4000 4425 1.621514 GTGGTATTGGGGAGGGGGT 60.622 63.158 0.00 0.00 0.00 4.95
4001 4426 2.391972 GGTGGTATTGGGGAGGGGG 61.392 68.421 0.00 0.00 0.00 5.40
4002 4427 2.391972 GGGTGGTATTGGGGAGGGG 61.392 68.421 0.00 0.00 0.00 4.79
4003 4428 2.391972 GGGGTGGTATTGGGGAGGG 61.392 68.421 0.00 0.00 0.00 4.30
4004 4429 1.218439 TTGGGGTGGTATTGGGGAGG 61.218 60.000 0.00 0.00 0.00 4.30
4005 4430 0.933700 ATTGGGGTGGTATTGGGGAG 59.066 55.000 0.00 0.00 0.00 4.30
4044 4469 0.252558 AACTTTAGGCGGGAGAGGGA 60.253 55.000 0.00 0.00 0.00 4.20
4054 4479 2.226674 GTGTGCTCAGGAAACTTTAGGC 59.773 50.000 0.00 0.00 40.21 3.93
4055 4480 2.814336 GGTGTGCTCAGGAAACTTTAGG 59.186 50.000 0.00 0.00 40.21 2.69
4056 4481 2.814336 GGGTGTGCTCAGGAAACTTTAG 59.186 50.000 0.00 0.00 40.21 1.85
4058 4483 1.064017 TGGGTGTGCTCAGGAAACTTT 60.064 47.619 0.00 0.00 40.21 2.66
4066 4491 1.222936 GGGAGATGGGTGTGCTCAG 59.777 63.158 0.00 0.00 0.00 3.35
4075 4500 2.446848 ATCGGCAGTGGGAGATGGG 61.447 63.158 0.00 0.00 0.00 4.00
4151 4579 3.792047 TGGCTACGACGGTCGACG 61.792 66.667 34.40 23.77 43.74 5.12
4153 4581 3.434319 GGTGGCTACGACGGTCGA 61.434 66.667 34.40 17.78 43.74 4.20
4161 4589 2.683933 AGGGTGGAGGTGGCTACG 60.684 66.667 0.00 0.00 0.00 3.51
4163 4591 1.159905 TTGAGGGTGGAGGTGGCTA 59.840 57.895 0.00 0.00 0.00 3.93
4165 4593 2.034221 GTTGAGGGTGGAGGTGGC 59.966 66.667 0.00 0.00 0.00 5.01
4180 4609 1.748879 CCGGGCGATGACATTGGTT 60.749 57.895 4.81 0.00 0.00 3.67
4186 4615 3.536917 CTAGGCCGGGCGATGACA 61.537 66.667 23.81 3.92 0.00 3.58
4187 4616 4.301027 CCTAGGCCGGGCGATGAC 62.301 72.222 23.81 0.00 0.00 3.06
4239 4693 1.463674 GCGACAACCCAATGAGGAAT 58.536 50.000 0.00 0.00 41.22 3.01
4277 4731 1.008538 GCCGAAGCAGTTGTGGTTG 60.009 57.895 0.00 0.00 44.50 3.77
4279 4733 2.594592 GGCCGAAGCAGTTGTGGT 60.595 61.111 0.00 0.00 42.56 4.16
4295 4749 2.203126 GGCTCGCCATGAAGGAGG 60.203 66.667 2.41 0.00 41.22 4.30
4296 4750 2.587194 CGGCTCGCCATGAAGGAG 60.587 66.667 8.87 0.00 41.22 3.69
4297 4751 3.371097 GACGGCTCGCCATGAAGGA 62.371 63.158 8.87 0.00 41.22 3.36
4298 4752 2.892425 GACGGCTCGCCATGAAGG 60.892 66.667 8.87 0.00 41.84 3.46
4299 4753 3.257561 CGACGGCTCGCCATGAAG 61.258 66.667 8.87 0.00 35.37 3.02
4300 4754 4.812476 CCGACGGCTCGCCATGAA 62.812 66.667 0.00 0.00 38.70 2.57
4311 4765 2.202932 CATGAAGGAGGCCGACGG 60.203 66.667 10.29 10.29 0.00 4.79
4312 4766 2.202932 CCATGAAGGAGGCCGACG 60.203 66.667 0.00 0.00 41.22 5.12
4313 4767 3.309582 TCCATGAAGGAGGCCGAC 58.690 61.111 0.00 0.00 43.07 4.79
4327 4781 2.050350 GGACGTCGGGACATCTCCA 61.050 63.158 9.92 0.00 38.52 3.86
4448 4905 7.899974 TGATGGTGTTTTGTGAAAATTAAACG 58.100 30.769 0.00 0.00 34.16 3.60
4460 4917 9.487790 CCATTTAAAACTATGATGGTGTTTTGT 57.512 29.630 11.69 0.00 41.86 2.83
4493 4950 7.604927 AGCAAATATGAAACAAATGAGCATTGT 59.395 29.630 0.00 0.00 0.00 2.71
4542 4999 7.534578 GTCTACCGACTCGTTCATCATATTAAG 59.465 40.741 0.00 0.00 37.19 1.85
4544 5001 6.484308 TGTCTACCGACTCGTTCATCATATTA 59.516 38.462 0.00 0.00 40.86 0.98
4569 5026 6.348540 GCGTGGAGAAAGAAAATGTCTTGTAT 60.349 38.462 0.00 0.00 46.36 2.29
4570 5027 5.049680 GCGTGGAGAAAGAAAATGTCTTGTA 60.050 40.000 0.00 0.00 46.36 2.41
4571 5028 4.261197 GCGTGGAGAAAGAAAATGTCTTGT 60.261 41.667 0.00 0.00 46.36 3.16
4572 5029 4.222114 GCGTGGAGAAAGAAAATGTCTTG 58.778 43.478 0.00 0.00 46.36 3.02
4574 5031 2.814336 GGCGTGGAGAAAGAAAATGTCT 59.186 45.455 0.00 0.00 38.69 3.41
4575 5032 2.412847 CGGCGTGGAGAAAGAAAATGTC 60.413 50.000 0.00 0.00 0.00 3.06
4576 5033 1.535462 CGGCGTGGAGAAAGAAAATGT 59.465 47.619 0.00 0.00 0.00 2.71
4577 5034 1.135689 CCGGCGTGGAGAAAGAAAATG 60.136 52.381 6.01 0.00 42.00 2.32
4578 5035 1.165270 CCGGCGTGGAGAAAGAAAAT 58.835 50.000 6.01 0.00 42.00 1.82
4579 5036 0.107081 TCCGGCGTGGAGAAAGAAAA 59.893 50.000 6.01 0.00 43.74 2.29
4580 5037 1.749665 TCCGGCGTGGAGAAAGAAA 59.250 52.632 6.01 0.00 43.74 2.52
4581 5038 3.462169 TCCGGCGTGGAGAAAGAA 58.538 55.556 6.01 0.00 43.74 2.52
4627 5084 3.788227 TCAAACATAGAGCAACACCCT 57.212 42.857 0.00 0.00 0.00 4.34
4722 5179 8.798153 CGTAGCAAATCCTTCAAATGATTTAAC 58.202 33.333 5.91 5.10 38.73 2.01
4725 5182 6.924111 ACGTAGCAAATCCTTCAAATGATTT 58.076 32.000 0.00 1.58 40.79 2.17
4734 5191 5.358298 AAGTGAAACGTAGCAAATCCTTC 57.642 39.130 0.00 0.00 45.86 3.46


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

AutoCloner maintained by Alex Coulton.