Multiple sequence alignment - TraesCS5D01G564700

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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 TraesCS5D01G564700 chr5D 100.000 6202 0 0 1 6202 563607639 563601438 0.000000e+00 11454.0
1 TraesCS5D01G564700 chr5D 89.831 59 5 1 518 575 563718824 563718766 2.400000e-09 75.0
2 TraesCS5D01G564700 chr5B 92.673 2757 134 24 2778 5482 705801569 705798829 0.000000e+00 3910.0
3 TraesCS5D01G564700 chr5B 90.578 2197 118 29 580 2762 705805914 705803793 0.000000e+00 2828.0
4 TraesCS5D01G564700 chr5B 92.308 702 21 7 5514 6202 705798831 705798150 0.000000e+00 966.0
5 TraesCS5D01G564700 chr5B 84.142 536 51 18 68 575 705806871 705806342 7.230000e-134 488.0
6 TraesCS5D01G564700 chr4A 92.029 2095 100 25 2822 4871 608984994 608987066 0.000000e+00 2881.0
7 TraesCS5D01G564700 chr4A 92.775 1398 49 26 833 2202 608983103 608984476 0.000000e+00 1975.0
8 TraesCS5D01G564700 chr4A 93.830 859 38 9 4870 5721 608987148 608987998 0.000000e+00 1279.0
9 TraesCS5D01G564700 chr4A 94.017 585 23 5 1 576 608981987 608982568 0.000000e+00 876.0
10 TraesCS5D01G564700 chr4A 88.166 507 22 13 5721 6191 608988928 608989432 2.510000e-158 569.0
11 TraesCS5D01G564700 chr4A 96.129 155 3 3 580 733 608982914 608983066 3.710000e-62 250.0
12 TraesCS5D01G564700 chr4A 95.402 87 4 0 5721 5807 608988717 608988803 8.380000e-29 139.0
13 TraesCS5D01G564700 chr4A 91.111 90 4 3 5721 5807 608988786 608988874 1.090000e-22 119.0
14 TraesCS5D01G564700 chr4A 91.111 90 4 3 5721 5807 608988857 608988945 1.090000e-22 119.0
15 TraesCS5D01G564700 chr1D 84.000 400 45 10 4595 4978 202548157 202548553 3.530000e-97 366.0
16 TraesCS5D01G564700 chr1B 81.250 400 60 8 4593 4978 296288074 296288472 6.040000e-80 309.0
17 TraesCS5D01G564700 chr3B 84.804 204 27 4 4778 4978 6132345 6132143 1.050000e-47 202.0
18 TraesCS5D01G564700 chr3B 100.000 51 0 0 4796 4846 191255539 191255589 1.840000e-15 95.3
19 TraesCS5D01G564700 chr7D 84.236 203 27 4 4770 4969 65871700 65871900 6.340000e-45 193.0
20 TraesCS5D01G564700 chr3D 85.294 136 17 3 4796 4929 135131599 135131733 3.020000e-28 137.0
21 TraesCS5D01G564700 chr2A 80.240 167 23 5 5926 6084 74585881 74585717 3.930000e-22 117.0
22 TraesCS5D01G564700 chr4B 84.375 64 7 3 5970 6033 25810059 25810119 6.710000e-05 60.2


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 TraesCS5D01G564700 chr5D 563601438 563607639 6201 True 11454.000000 11454 100.00000 1 6202 1 chr5D.!!$R1 6201
1 TraesCS5D01G564700 chr5B 705798150 705806871 8721 True 2048.000000 3910 89.92525 68 6202 4 chr5B.!!$R1 6134
2 TraesCS5D01G564700 chr4A 608981987 608989432 7445 False 911.888889 2881 92.73000 1 6191 9 chr4A.!!$F1 6190

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
893 1360 0.179092 CCGTTGATAAGGGACGGGAC 60.179 60.0 6.27 0.0 39.96 4.46 F
2674 3173 0.037326 CCTAGTTGCCGAAGAGCACA 60.037 55.0 0.00 0.0 43.97 4.57 F
2677 3176 0.320247 AGTTGCCGAAGAGCACAGAG 60.320 55.0 0.00 0.0 43.97 3.35 F
4348 7075 0.034476 CAGAGCACTGTCTTCCTGCA 59.966 55.0 2.59 0.0 39.11 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2690 3189 0.250234 GCACTGGCACATGGAGACTA 59.750 55.000 0.00 0.0 38.20 2.59 R
3952 6675 1.360162 ACCACCCAGGCAGTAGTACTA 59.640 52.381 1.57 0.0 43.14 1.82 R
4511 7253 1.524355 CAACAGTCAGTCGCTTCAGTG 59.476 52.381 0.00 0.0 0.00 3.66 R
5809 9607 0.812549 TGTCCTACGTAAGCGCATCA 59.187 50.000 11.47 0.0 42.83 3.07 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
43 44 9.709495 AATGTATTGTTAAATGCACATCAAACT 57.291 25.926 0.00 0.00 40.58 2.66
44 45 9.709495 ATGTATTGTTAAATGCACATCAAACTT 57.291 25.926 0.00 0.00 40.58 2.66
62 63 7.841956 TCAAACTTTTGAAATACAAGGTGGAA 58.158 30.769 1.81 0.00 43.62 3.53
66 67 9.679661 AACTTTTGAAATACAAGGTGGAATTTT 57.320 25.926 0.00 0.00 39.77 1.82
245 248 4.912766 GCCACGAACATGATTTTAAAACGA 59.087 37.500 1.97 0.00 0.00 3.85
303 306 9.484326 TTTTTGAATCACATGATATCGTTTACG 57.516 29.630 0.00 0.00 35.93 3.18
578 609 4.181010 CACCGGATCCAGGGCCTG 62.181 72.222 27.04 27.04 0.00 4.85
635 1092 1.581934 TTGCACACTCCTTTCTGTCG 58.418 50.000 0.00 0.00 0.00 4.35
637 1094 0.880278 GCACACTCCTTTCTGTCGCA 60.880 55.000 0.00 0.00 0.00 5.10
733 1190 2.045536 GGCTCAAGGCAGGGTGAG 60.046 66.667 0.00 0.00 43.46 3.51
734 1191 2.753029 GCTCAAGGCAGGGTGAGT 59.247 61.111 2.90 0.00 42.72 3.41
751 1208 2.173782 TGAGTAGCCCAAAAGTTGTCCA 59.826 45.455 0.00 0.00 0.00 4.02
752 1209 3.219281 GAGTAGCCCAAAAGTTGTCCAA 58.781 45.455 0.00 0.00 0.00 3.53
753 1210 3.222603 AGTAGCCCAAAAGTTGTCCAAG 58.777 45.455 0.00 0.00 0.00 3.61
754 1211 0.752658 AGCCCAAAAGTTGTCCAAGC 59.247 50.000 0.00 0.00 0.00 4.01
755 1212 0.249868 GCCCAAAAGTTGTCCAAGCC 60.250 55.000 0.00 0.00 0.00 4.35
756 1213 1.413118 CCCAAAAGTTGTCCAAGCCT 58.587 50.000 0.00 0.00 0.00 4.58
757 1214 1.069049 CCCAAAAGTTGTCCAAGCCTG 59.931 52.381 0.00 0.00 0.00 4.85
758 1215 1.756538 CCAAAAGTTGTCCAAGCCTGT 59.243 47.619 0.00 0.00 0.00 4.00
759 1216 2.223805 CCAAAAGTTGTCCAAGCCTGTC 60.224 50.000 0.00 0.00 0.00 3.51
778 1235 5.070981 CCTGTCTATTGGGCTCAAGAAGATA 59.929 44.000 15.18 12.26 36.19 1.98
779 1236 5.918608 TGTCTATTGGGCTCAAGAAGATAC 58.081 41.667 15.18 6.82 36.19 2.24
827 1284 4.853924 AAGCCATTCTTGTTCGTTGAAT 57.146 36.364 0.00 0.00 32.79 2.57
839 1296 1.602323 GTTGAATCCCACGCCACCA 60.602 57.895 0.00 0.00 0.00 4.17
887 1354 2.904905 CCGGCCGTTGATAAGGGA 59.095 61.111 26.12 0.00 38.71 4.20
888 1355 1.523032 CCGGCCGTTGATAAGGGAC 60.523 63.158 26.12 0.47 41.11 4.46
890 1357 1.523032 GGCCGTTGATAAGGGACGG 60.523 63.158 9.59 9.59 45.67 4.79
891 1358 1.523032 GCCGTTGATAAGGGACGGG 60.523 63.158 14.94 0.00 43.41 5.28
892 1359 1.963464 GCCGTTGATAAGGGACGGGA 61.963 60.000 14.94 0.00 43.41 5.14
893 1360 0.179092 CCGTTGATAAGGGACGGGAC 60.179 60.000 6.27 0.00 39.96 4.46
1235 1722 1.571773 AATCCCCTCCCCAAAGTCCG 61.572 60.000 0.00 0.00 0.00 4.79
1236 1723 4.426313 CCCCTCCCCAAAGTCCGC 62.426 72.222 0.00 0.00 0.00 5.54
1265 1753 1.350351 CCTCCCACATCCCATCTGATC 59.650 57.143 0.00 0.00 0.00 2.92
1769 2257 4.343814 TCAAGGTACCATCTCGATTATGCA 59.656 41.667 15.94 0.00 0.00 3.96
1775 2263 4.067896 ACCATCTCGATTATGCAATCCAC 58.932 43.478 0.00 0.00 37.82 4.02
1820 2312 3.670625 CCTAGAACGAAACCAATCCACA 58.329 45.455 0.00 0.00 0.00 4.17
1821 2313 3.435671 CCTAGAACGAAACCAATCCACAC 59.564 47.826 0.00 0.00 0.00 3.82
1822 2314 2.227194 AGAACGAAACCAATCCACACC 58.773 47.619 0.00 0.00 0.00 4.16
1823 2315 1.950909 GAACGAAACCAATCCACACCA 59.049 47.619 0.00 0.00 0.00 4.17
1824 2316 2.060050 ACGAAACCAATCCACACCAA 57.940 45.000 0.00 0.00 0.00 3.67
1825 2317 1.953686 ACGAAACCAATCCACACCAAG 59.046 47.619 0.00 0.00 0.00 3.61
1826 2318 1.335872 CGAAACCAATCCACACCAAGC 60.336 52.381 0.00 0.00 0.00 4.01
1827 2319 1.000843 GAAACCAATCCACACCAAGCC 59.999 52.381 0.00 0.00 0.00 4.35
1828 2320 0.105760 AACCAATCCACACCAAGCCA 60.106 50.000 0.00 0.00 0.00 4.75
1829 2321 0.827507 ACCAATCCACACCAAGCCAC 60.828 55.000 0.00 0.00 0.00 5.01
1830 2322 1.535204 CCAATCCACACCAAGCCACC 61.535 60.000 0.00 0.00 0.00 4.61
1831 2323 0.827089 CAATCCACACCAAGCCACCA 60.827 55.000 0.00 0.00 0.00 4.17
1832 2324 0.114954 AATCCACACCAAGCCACCAT 59.885 50.000 0.00 0.00 0.00 3.55
1833 2325 0.323725 ATCCACACCAAGCCACCATC 60.324 55.000 0.00 0.00 0.00 3.51
1853 2345 2.642311 TCTTCAGTGGAACCCTTGCATA 59.358 45.455 0.00 0.00 37.80 3.14
1917 2413 5.824097 CACATATGATTCTGTGGATTGGTGA 59.176 40.000 10.38 0.00 39.24 4.02
1921 2417 5.434182 TGATTCTGTGGATTGGTGATGTA 57.566 39.130 0.00 0.00 0.00 2.29
1972 2469 6.717997 GGAAGGTGAGTGGAGGTAAAATTTTA 59.282 38.462 6.54 6.54 0.00 1.52
1976 2473 6.150641 GGTGAGTGGAGGTAAAATTTTAGTCC 59.849 42.308 22.14 22.14 31.80 3.85
1977 2474 6.713450 GTGAGTGGAGGTAAAATTTTAGTCCA 59.287 38.462 25.23 25.23 35.85 4.02
1978 2475 7.393515 GTGAGTGGAGGTAAAATTTTAGTCCAT 59.606 37.037 28.59 21.58 38.36 3.41
1988 2485 9.320352 GTAAAATTTTAGTCCATGTGGTTTGTT 57.680 29.630 10.92 0.00 36.34 2.83
2068 2565 6.422223 CAATGTTTCTCAACTCACTGTACAC 58.578 40.000 0.00 0.00 33.58 2.90
2128 2625 6.152323 GGGAAGAGTGTAGTGTATGTAACTCA 59.848 42.308 0.00 0.00 37.18 3.41
2212 2710 7.454260 AAATCAGGAGCTAAAAAGTACAAGG 57.546 36.000 0.00 0.00 0.00 3.61
2237 2735 3.703556 GGTTAGGGTGTTAGGAGACCTAC 59.296 52.174 0.00 0.00 39.15 3.18
2240 2738 3.375699 AGGGTGTTAGGAGACCTACATG 58.624 50.000 0.00 0.00 39.15 3.21
2243 2741 4.019591 GGGTGTTAGGAGACCTACATGTTT 60.020 45.833 2.30 0.00 39.15 2.83
2245 2743 6.338937 GGTGTTAGGAGACCTACATGTTTAG 58.661 44.000 2.30 0.00 35.63 1.85
2260 2758 4.226427 TGTTTAGATGCAGAGAAGCCAT 57.774 40.909 0.00 0.00 0.00 4.40
2277 2775 5.311844 AGCCATAAGGGAGAAGGATAAAC 57.688 43.478 0.00 0.00 40.01 2.01
2280 2778 5.891551 GCCATAAGGGAGAAGGATAAACAAA 59.108 40.000 0.00 0.00 40.01 2.83
2302 2800 4.893829 TGGCTAAAAATACAAAACCCCC 57.106 40.909 0.00 0.00 0.00 5.40
2321 2819 1.479389 CCTCCACACAAAAGGGAAGCT 60.479 52.381 0.00 0.00 0.00 3.74
2322 2820 1.882623 CTCCACACAAAAGGGAAGCTC 59.117 52.381 0.00 0.00 0.00 4.09
2323 2821 0.961753 CCACACAAAAGGGAAGCTCC 59.038 55.000 0.00 0.00 35.23 4.70
2334 2832 0.112412 GGAAGCTCCCAAGTCCCAAA 59.888 55.000 0.00 0.00 0.00 3.28
2416 2914 4.993705 AATGAGGTGTAGGTCCTTGAAA 57.006 40.909 0.00 0.00 35.20 2.69
2437 2935 5.757850 AAAGAACTTTCCACTGTGCTAAG 57.242 39.130 14.60 14.60 0.00 2.18
2438 2936 3.744660 AGAACTTTCCACTGTGCTAAGG 58.255 45.455 18.20 11.20 0.00 2.69
2439 2937 3.136626 AGAACTTTCCACTGTGCTAAGGT 59.863 43.478 18.20 14.28 0.00 3.50
2454 2952 0.621082 AAGGTAAGCAGCCTCCCTTC 59.379 55.000 2.01 0.00 34.81 3.46
2488 2987 7.027778 AGCGTTCCTATGTTTCCAAATATTC 57.972 36.000 0.00 0.00 0.00 1.75
2504 3003 1.202330 ATTCCAGAGAGCAGACCCAG 58.798 55.000 0.00 0.00 0.00 4.45
2505 3004 0.178921 TTCCAGAGAGCAGACCCAGT 60.179 55.000 0.00 0.00 0.00 4.00
2538 3037 2.310538 CCAGGGCTTTTGAAACTGAGT 58.689 47.619 0.00 0.00 0.00 3.41
2555 3054 2.816672 TGAGTCATAGCTAGCCTGATCG 59.183 50.000 17.71 0.32 0.00 3.69
2560 3059 3.891977 TCATAGCTAGCCTGATCGTTTCT 59.108 43.478 12.13 0.00 0.00 2.52
2566 3065 4.201763 GCTAGCCTGATCGTTTCTGAAAAG 60.202 45.833 2.29 7.07 0.00 2.27
2593 3092 1.017387 GAGCGGCCCAAGAGTTATTG 58.983 55.000 0.00 0.00 0.00 1.90
2612 3111 8.621286 AGTTATTGGGAAATCTATAAACAAGCG 58.379 33.333 0.00 0.00 0.00 4.68
2613 3112 8.403236 GTTATTGGGAAATCTATAAACAAGCGT 58.597 33.333 0.00 0.00 0.00 5.07
2614 3113 9.616156 TTATTGGGAAATCTATAAACAAGCGTA 57.384 29.630 0.00 0.00 0.00 4.42
2615 3114 7.548196 TTGGGAAATCTATAAACAAGCGTAG 57.452 36.000 0.00 0.00 0.00 3.51
2618 3117 6.285990 GGAAATCTATAAACAAGCGTAGGGA 58.714 40.000 0.00 0.00 0.00 4.20
2624 3123 7.388437 TCTATAAACAAGCGTAGGGAAAAAGA 58.612 34.615 0.00 0.00 0.00 2.52
2644 3143 9.777575 AAAAAGAGCAATTGAAAAACAAATGAG 57.222 25.926 10.34 0.00 40.61 2.90
2656 3155 0.394899 CAAATGAGCCCTGTCCTCCC 60.395 60.000 0.00 0.00 0.00 4.30
2661 3160 0.325765 GAGCCCTGTCCTCCCTAGTT 60.326 60.000 0.00 0.00 0.00 2.24
2662 3161 0.618968 AGCCCTGTCCTCCCTAGTTG 60.619 60.000 0.00 0.00 0.00 3.16
2663 3162 1.908483 CCCTGTCCTCCCTAGTTGC 59.092 63.158 0.00 0.00 0.00 4.17
2664 3163 1.627297 CCCTGTCCTCCCTAGTTGCC 61.627 65.000 0.00 0.00 0.00 4.52
2665 3164 1.517832 CTGTCCTCCCTAGTTGCCG 59.482 63.158 0.00 0.00 0.00 5.69
2666 3165 0.970937 CTGTCCTCCCTAGTTGCCGA 60.971 60.000 0.00 0.00 0.00 5.54
2667 3166 0.543410 TGTCCTCCCTAGTTGCCGAA 60.543 55.000 0.00 0.00 0.00 4.30
2668 3167 0.175989 GTCCTCCCTAGTTGCCGAAG 59.824 60.000 0.00 0.00 0.00 3.79
2669 3168 0.040646 TCCTCCCTAGTTGCCGAAGA 59.959 55.000 0.00 0.00 0.00 2.87
2670 3169 0.461961 CCTCCCTAGTTGCCGAAGAG 59.538 60.000 0.00 0.00 0.00 2.85
2671 3170 0.179097 CTCCCTAGTTGCCGAAGAGC 60.179 60.000 0.00 0.00 0.00 4.09
2672 3171 0.902984 TCCCTAGTTGCCGAAGAGCA 60.903 55.000 0.00 0.00 42.17 4.26
2673 3172 0.741221 CCCTAGTTGCCGAAGAGCAC 60.741 60.000 0.00 0.00 43.97 4.40
2674 3173 0.037326 CCTAGTTGCCGAAGAGCACA 60.037 55.000 0.00 0.00 43.97 4.57
2675 3174 1.354040 CTAGTTGCCGAAGAGCACAG 58.646 55.000 0.00 0.00 43.97 3.66
2676 3175 0.966179 TAGTTGCCGAAGAGCACAGA 59.034 50.000 0.00 0.00 43.97 3.41
2677 3176 0.320247 AGTTGCCGAAGAGCACAGAG 60.320 55.000 0.00 0.00 43.97 3.35
2690 3189 1.543429 GCACAGAGCACAGTTAACCCT 60.543 52.381 0.88 0.00 44.79 4.34
2762 3261 3.305403 CGACCGACAAGTATCAGCCATAT 60.305 47.826 0.00 0.00 0.00 1.78
2763 3262 3.990469 GACCGACAAGTATCAGCCATATG 59.010 47.826 0.00 0.00 0.00 1.78
2765 3264 4.284490 ACCGACAAGTATCAGCCATATGAT 59.716 41.667 3.65 0.00 42.52 2.45
2766 3265 4.628766 CCGACAAGTATCAGCCATATGATG 59.371 45.833 3.65 2.90 40.16 3.07
2806 5517 7.666804 ACGGTTTGGTGTTAGTTAATATTTCCT 59.333 33.333 0.00 0.00 0.00 3.36
2827 5538 7.684317 TCCTATGGTAGTTTGTGGATATGAA 57.316 36.000 0.00 0.00 0.00 2.57
2884 5595 5.646793 GGAGGACAATGGTTTCCTTTAGTAC 59.353 44.000 0.00 0.00 42.68 2.73
2946 5657 4.081642 GTCTTATGACCCACTAGCAAGTCA 60.082 45.833 10.64 10.64 42.95 3.41
3046 5757 9.819267 AAGATAGTTCCTAGTATTTTGTAGTGC 57.181 33.333 0.00 0.00 0.00 4.40
3087 5798 2.379972 GCTAGCTCTGAGGGTGTCTTA 58.620 52.381 7.70 0.00 0.00 2.10
3088 5799 2.962421 GCTAGCTCTGAGGGTGTCTTAT 59.038 50.000 7.70 0.00 0.00 1.73
3214 5925 4.079253 TGAAGGAATTGGGTCTGTTTAGC 58.921 43.478 0.00 0.00 0.00 3.09
3441 6152 5.049267 ACCGTGATTATGTTTGTACCACAAC 60.049 40.000 0.00 0.00 37.90 3.32
3443 6154 5.333492 CGTGATTATGTTTGTACCACAACGT 60.333 40.000 0.00 0.55 37.90 3.99
3446 6157 6.260271 TGATTATGTTTGTACCACAACGTTGA 59.740 34.615 33.66 9.41 37.90 3.18
3447 6158 3.743567 TGTTTGTACCACAACGTTGAC 57.256 42.857 33.66 21.01 37.90 3.18
3448 6159 2.419324 TGTTTGTACCACAACGTTGACC 59.581 45.455 33.66 15.73 37.90 4.02
3449 6160 1.666054 TTGTACCACAACGTTGACCC 58.334 50.000 33.66 16.05 32.34 4.46
3450 6161 0.540454 TGTACCACAACGTTGACCCA 59.460 50.000 33.66 18.19 0.00 4.51
3451 6162 1.065636 TGTACCACAACGTTGACCCAA 60.066 47.619 33.66 12.36 0.00 4.12
3452 6163 2.015587 GTACCACAACGTTGACCCAAA 58.984 47.619 33.66 11.33 0.00 3.28
3453 6164 1.770294 ACCACAACGTTGACCCAAAT 58.230 45.000 33.66 7.42 0.00 2.32
3454 6165 2.933573 ACCACAACGTTGACCCAAATA 58.066 42.857 33.66 0.00 0.00 1.40
3455 6166 2.619646 ACCACAACGTTGACCCAAATAC 59.380 45.455 33.66 0.00 0.00 1.89
3456 6167 2.619177 CCACAACGTTGACCCAAATACA 59.381 45.455 33.66 0.00 0.00 2.29
3458 6169 4.039032 CACAACGTTGACCCAAATACAAC 58.961 43.478 33.66 0.00 39.96 3.32
3518 6229 1.211212 CTGATGCTCCCTGAACATCCA 59.789 52.381 5.34 0.00 39.55 3.41
3617 6331 7.010645 TGGTTATGTGTACTATTTGTGCGTATG 59.989 37.037 0.00 0.00 33.83 2.39
3629 6343 1.323534 GTGCGTATGTTTGCCTAGACG 59.676 52.381 0.00 0.00 0.00 4.18
3774 6495 7.428826 TGGATGAGATGCACGATACATATATC 58.571 38.462 0.00 0.00 34.84 1.63
3776 6497 8.140628 GGATGAGATGCACGATACATATATCTT 58.859 37.037 0.00 0.00 35.88 2.40
3889 6612 4.751767 ATGGATTCCTGTCTCTCAGTTC 57.248 45.455 3.95 0.00 42.19 3.01
3952 6675 3.156293 TCTGTAATTGCTGTGTGCCAAT 58.844 40.909 0.00 0.00 42.00 3.16
3956 6679 5.249420 TGTAATTGCTGTGTGCCAATAGTA 58.751 37.500 0.00 0.00 42.00 1.82
4015 6738 9.139174 CTTGCGGACATATTTTAAAGATTTTGT 57.861 29.630 0.00 0.00 0.00 2.83
4310 7037 5.826643 AGAAAATGTAGGGCCTGAAATACA 58.173 37.500 18.53 12.85 33.04 2.29
4347 7074 1.297456 GCAGAGCACTGTCTTCCTGC 61.297 60.000 12.89 0.00 45.04 4.85
4348 7075 0.034476 CAGAGCACTGTCTTCCTGCA 59.966 55.000 2.59 0.00 39.11 4.41
4349 7076 0.034616 AGAGCACTGTCTTCCTGCAC 59.965 55.000 0.00 0.00 33.06 4.57
4384 7126 4.640201 TCTGCAAATAGTAATTGTCCCAGC 59.360 41.667 0.11 0.00 0.00 4.85
4419 7161 6.957631 TCATTGTCCCTTGTACATGTTCTAT 58.042 36.000 2.30 0.00 0.00 1.98
4454 7196 9.925268 TCGATTTTTGTAAAAACTAGTCTTCAC 57.075 29.630 0.00 0.00 40.33 3.18
4493 7235 3.758554 CCGATTCAGTTTCAAGACCCAAT 59.241 43.478 0.00 0.00 0.00 3.16
4511 7253 3.125316 CCAATGCTCGAACACTAGGAAAC 59.875 47.826 0.00 0.00 0.00 2.78
4582 7325 3.455327 CCAGAGTCATGTATCTGTGCAG 58.545 50.000 20.79 8.40 41.13 4.41
4588 7331 0.462581 ATGTATCTGTGCAGCGGTGG 60.463 55.000 17.54 0.00 0.00 4.61
4617 7360 2.230992 GCTACCAATGCACCAATGTCAA 59.769 45.455 0.00 0.00 0.00 3.18
4637 7380 6.873076 TGTCAAAAACTCATGCAAAAACTTCT 59.127 30.769 0.00 0.00 0.00 2.85
4733 7477 2.797156 CAACTCACACCTCGAGAAACAG 59.203 50.000 15.71 5.46 34.47 3.16
4778 7536 5.216614 TGTTGTTAACTTAAATTGGGCCC 57.783 39.130 17.59 17.59 0.00 5.80
4837 7597 6.054941 TCTCTTGCTGTGAGTTGAATTTACA 58.945 36.000 0.00 0.00 33.59 2.41
4978 7822 0.173481 GTGCACAGGATACGCTCTCA 59.827 55.000 13.17 0.00 46.39 3.27
4979 7823 1.114627 TGCACAGGATACGCTCTCAT 58.885 50.000 0.00 0.00 46.39 2.90
5011 7855 4.410555 GGAATATCCCTCTTCCTCACAACT 59.589 45.833 0.00 0.00 38.31 3.16
5027 7871 9.246670 TCCTCACAACTCATGATTGATTATTTT 57.753 29.630 18.66 0.00 0.00 1.82
5052 7896 4.742417 TGGACATGTCTGTTTGTTGTTTG 58.258 39.130 24.50 0.00 35.14 2.93
5058 7902 6.928492 ACATGTCTGTTTGTTGTTTGACTTTT 59.072 30.769 0.00 0.00 28.70 2.27
5123 7967 0.948141 GTGCTCTGTCTGTGCAGGTC 60.948 60.000 6.70 0.00 44.44 3.85
5216 8072 4.841617 TGATCGCCTCCGCCTCCT 62.842 66.667 0.00 0.00 0.00 3.69
5336 8192 4.157849 TGGGTGCACCATTATTCGAATA 57.842 40.909 35.78 13.85 46.80 1.75
5406 8262 2.067013 CTGGCGATGCTATGACATGAG 58.933 52.381 0.00 0.00 0.00 2.90
5436 8292 7.284489 TGAGGTTTAAGTTAAATGTCTTGTGCT 59.716 33.333 11.12 0.00 0.00 4.40
5617 8479 4.273318 ACTAAATCTCAGGGAAATGCCAC 58.727 43.478 0.00 0.00 38.95 5.01
5702 8565 4.222810 TCTTGTCTGGAGCAATGCTAGTAA 59.777 41.667 8.12 3.00 39.88 2.24
5912 9711 8.772250 TCAAGATGACCAGGAATAAGATAAACT 58.228 33.333 0.00 0.00 0.00 2.66
5988 9787 3.633065 TCGGTGATTTCGGTTTTCCTTTT 59.367 39.130 0.00 0.00 37.95 2.27
6127 9955 7.277981 AGGCAGTTATTTCAGTATGTAACGAAG 59.722 37.037 0.00 0.00 37.40 3.79
6157 9996 4.081697 TGAAAGTGAGAACCATGATCGCTA 60.082 41.667 0.00 0.00 33.60 4.26
6183 10022 6.248433 ACTTGTTCAGAACCATCCATGTAAT 58.752 36.000 10.93 0.00 0.00 1.89
6184 10023 6.151648 ACTTGTTCAGAACCATCCATGTAATG 59.848 38.462 10.93 0.00 46.21 1.90
6186 10025 6.716284 TGTTCAGAACCATCCATGTAATGTA 58.284 36.000 10.93 0.00 44.81 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
113 114 6.418226 ACACTTGAAAATATTTTGCGCGTTTA 59.582 30.769 17.98 0.00 0.00 2.01
117 118 4.884257 ACACTTGAAAATATTTTGCGCG 57.116 36.364 17.98 0.00 0.00 6.86
119 120 9.352163 GTTTGTAACACTTGAAAATATTTTGCG 57.648 29.630 17.98 8.30 0.00 4.85
319 340 5.898630 AACGTTCACCATGCATTAAAAAC 57.101 34.783 0.00 0.00 0.00 2.43
431 452 0.890683 CTTGGGCTGGCCAACTAAAG 59.109 55.000 29.42 16.92 37.98 1.85
515 545 3.521531 TGCCTTGTATAGTTGGACATGGA 59.478 43.478 10.23 0.00 41.27 3.41
576 607 7.736447 AGATTTAATCTTTCGGATTAGGCAG 57.264 36.000 0.99 0.00 44.61 4.85
733 1190 2.288213 GCTTGGACAACTTTTGGGCTAC 60.288 50.000 0.00 0.00 34.12 3.58
734 1191 1.960689 GCTTGGACAACTTTTGGGCTA 59.039 47.619 0.00 0.00 34.12 3.93
754 1211 3.198635 TCTTCTTGAGCCCAATAGACAGG 59.801 47.826 0.00 0.00 0.00 4.00
755 1212 4.478206 TCTTCTTGAGCCCAATAGACAG 57.522 45.455 0.00 0.00 0.00 3.51
756 1213 5.663106 AGTATCTTCTTGAGCCCAATAGACA 59.337 40.000 0.00 0.00 30.67 3.41
757 1214 6.168270 AGTATCTTCTTGAGCCCAATAGAC 57.832 41.667 0.00 0.00 30.67 2.59
758 1215 7.014711 CACTAGTATCTTCTTGAGCCCAATAGA 59.985 40.741 0.00 0.00 31.70 1.98
759 1216 7.151308 CACTAGTATCTTCTTGAGCCCAATAG 58.849 42.308 0.00 0.00 0.00 1.73
778 1235 2.035312 ACTCCGTCGCCCACTAGT 59.965 61.111 0.00 0.00 0.00 2.57
779 1236 2.772691 GGACTCCGTCGCCCACTAG 61.773 68.421 0.00 0.00 32.65 2.57
811 1268 3.188460 CGTGGGATTCAACGAACAAGAAT 59.812 43.478 0.00 0.00 34.88 2.40
887 1354 4.259131 CAACAACCCCCGTCCCGT 62.259 66.667 0.00 0.00 0.00 5.28
890 1357 3.855503 GACCCAACAACCCCCGTCC 62.856 68.421 0.00 0.00 0.00 4.79
891 1358 2.281970 GACCCAACAACCCCCGTC 60.282 66.667 0.00 0.00 0.00 4.79
892 1359 3.893399 GGACCCAACAACCCCCGT 61.893 66.667 0.00 0.00 0.00 5.28
893 1360 3.438615 TTGGACCCAACAACCCCCG 62.439 63.158 0.00 0.00 0.00 5.73
894 1361 2.609920 TTGGACCCAACAACCCCC 59.390 61.111 0.00 0.00 0.00 5.40
1235 1722 1.575447 ATGTGGGAGGGGAAAGGAGC 61.575 60.000 0.00 0.00 0.00 4.70
1236 1723 0.548510 GATGTGGGAGGGGAAAGGAG 59.451 60.000 0.00 0.00 0.00 3.69
1769 2257 3.642848 ACAGACAAGCAAAATGGTGGATT 59.357 39.130 0.00 0.00 0.00 3.01
1775 2263 4.582701 TTACCACAGACAAGCAAAATGG 57.417 40.909 0.00 0.00 0.00 3.16
1820 2312 0.773644 ACTGAAGATGGTGGCTTGGT 59.226 50.000 0.00 0.00 0.00 3.67
1821 2313 1.171308 CACTGAAGATGGTGGCTTGG 58.829 55.000 0.00 0.00 0.00 3.61
1822 2314 1.171308 CCACTGAAGATGGTGGCTTG 58.829 55.000 0.00 0.00 44.94 4.01
1823 2315 3.658398 CCACTGAAGATGGTGGCTT 57.342 52.632 0.00 0.00 44.94 4.35
1827 2319 1.352352 AGGGTTCCACTGAAGATGGTG 59.648 52.381 0.00 0.00 38.47 4.17
1828 2320 1.747444 AGGGTTCCACTGAAGATGGT 58.253 50.000 0.00 0.00 38.47 3.55
1829 2321 2.440409 CAAGGGTTCCACTGAAGATGG 58.560 52.381 0.00 0.00 38.71 3.51
1830 2322 1.815003 GCAAGGGTTCCACTGAAGATG 59.185 52.381 0.00 0.00 0.00 2.90
1831 2323 1.425066 TGCAAGGGTTCCACTGAAGAT 59.575 47.619 0.00 0.00 0.00 2.40
1832 2324 0.843309 TGCAAGGGTTCCACTGAAGA 59.157 50.000 0.00 0.00 0.00 2.87
1833 2325 1.915141 ATGCAAGGGTTCCACTGAAG 58.085 50.000 0.00 0.00 0.00 3.02
1883 2375 6.715280 ACAGAATCATATGTGATCCATACCC 58.285 40.000 5.32 0.00 44.20 3.69
1917 2413 8.611257 ACTACTCTAGCTCCTCATATTCTACAT 58.389 37.037 0.00 0.00 0.00 2.29
1921 2417 7.085476 TCACTACTCTAGCTCCTCATATTCT 57.915 40.000 0.00 0.00 0.00 2.40
1972 2469 4.998051 AGGATTAACAAACCACATGGACT 58.002 39.130 4.53 0.00 38.94 3.85
1991 2488 6.493458 GGGCTAGGCATGAAATTATTTAAGGA 59.507 38.462 19.14 0.00 0.00 3.36
2212 2710 2.765135 GTCTCCTAACACCCTAACCTCC 59.235 54.545 0.00 0.00 0.00 4.30
2237 2735 3.943381 TGGCTTCTCTGCATCTAAACATG 59.057 43.478 0.00 0.00 34.04 3.21
2240 2738 5.238214 CCTTATGGCTTCTCTGCATCTAAAC 59.762 44.000 0.00 0.00 34.04 2.01
2243 2741 3.326006 CCCTTATGGCTTCTCTGCATCTA 59.674 47.826 0.00 0.00 34.04 1.98
2245 2743 2.105477 TCCCTTATGGCTTCTCTGCATC 59.895 50.000 0.00 0.00 34.04 3.91
2260 2758 5.891551 GCCATTTGTTTATCCTTCTCCCTTA 59.108 40.000 0.00 0.00 0.00 2.69
2277 2775 6.150307 GGGGGTTTTGTATTTTTAGCCATTTG 59.850 38.462 0.00 0.00 0.00 2.32
2280 2778 5.097948 AGGGGGTTTTGTATTTTTAGCCAT 58.902 37.500 0.00 0.00 0.00 4.40
2302 2800 1.882623 GAGCTTCCCTTTTGTGTGGAG 59.117 52.381 0.00 0.00 0.00 3.86
2321 2819 5.321927 GTCTCTTTAATTTGGGACTTGGGA 58.678 41.667 0.00 0.00 0.00 4.37
2322 2820 4.462834 GGTCTCTTTAATTTGGGACTTGGG 59.537 45.833 6.00 0.00 0.00 4.12
2323 2821 5.325239 AGGTCTCTTTAATTTGGGACTTGG 58.675 41.667 6.00 0.00 0.00 3.61
2324 2822 6.003950 TGAGGTCTCTTTAATTTGGGACTTG 58.996 40.000 0.00 0.00 0.00 3.16
2325 2823 6.004574 GTGAGGTCTCTTTAATTTGGGACTT 58.995 40.000 0.00 0.00 0.00 3.01
2326 2824 5.515008 GGTGAGGTCTCTTTAATTTGGGACT 60.515 44.000 0.00 0.00 0.00 3.85
2327 2825 4.700692 GGTGAGGTCTCTTTAATTTGGGAC 59.299 45.833 0.00 0.00 0.00 4.46
2334 2832 4.105697 TGGTTTGGGTGAGGTCTCTTTAAT 59.894 41.667 0.00 0.00 0.00 1.40
2368 2866 1.069022 CGGGTGAAAGACAAGCACATG 60.069 52.381 0.00 0.00 34.33 3.21
2369 2867 1.238439 CGGGTGAAAGACAAGCACAT 58.762 50.000 0.00 0.00 34.33 3.21
2400 2898 4.715713 AGTTCTTTTCAAGGACCTACACC 58.284 43.478 0.00 0.00 37.77 4.16
2416 2914 4.137543 CCTTAGCACAGTGGAAAGTTCTT 58.862 43.478 1.84 0.00 0.00 2.52
2426 2924 1.734465 GCTGCTTACCTTAGCACAGTG 59.266 52.381 0.00 0.00 45.72 3.66
2437 2935 0.328258 TTGAAGGGAGGCTGCTTACC 59.672 55.000 4.55 4.55 0.00 2.85
2438 2936 2.200373 TTTGAAGGGAGGCTGCTTAC 57.800 50.000 5.84 0.00 0.00 2.34
2439 2937 2.969821 TTTTGAAGGGAGGCTGCTTA 57.030 45.000 5.84 0.00 0.00 3.09
2448 2946 2.593026 ACGCTCCAATTTTTGAAGGGA 58.407 42.857 0.00 0.00 0.00 4.20
2454 2952 5.059404 ACATAGGAACGCTCCAATTTTTG 57.941 39.130 7.76 0.00 45.24 2.44
2488 2987 1.205893 GTTACTGGGTCTGCTCTCTGG 59.794 57.143 0.00 0.00 0.00 3.86
2504 3003 2.956333 AGCCCTGGTTTGTTGAAGTTAC 59.044 45.455 0.00 0.00 0.00 2.50
2505 3004 3.306472 AGCCCTGGTTTGTTGAAGTTA 57.694 42.857 0.00 0.00 0.00 2.24
2538 3037 3.891977 AGAAACGATCAGGCTAGCTATGA 59.108 43.478 20.46 20.46 0.00 2.15
2555 3054 4.602006 GCTCACTTGGACTTTTCAGAAAC 58.398 43.478 0.00 0.00 0.00 2.78
2560 3059 1.593196 CCGCTCACTTGGACTTTTCA 58.407 50.000 0.00 0.00 0.00 2.69
2566 3065 3.842925 TTGGGCCGCTCACTTGGAC 62.843 63.158 0.00 0.00 0.00 4.02
2593 3092 5.469084 CCCTACGCTTGTTTATAGATTTCCC 59.531 44.000 0.00 0.00 0.00 3.97
2600 3099 7.605410 TCTTTTTCCCTACGCTTGTTTATAG 57.395 36.000 0.00 0.00 0.00 1.31
2602 3101 5.106277 GCTCTTTTTCCCTACGCTTGTTTAT 60.106 40.000 0.00 0.00 0.00 1.40
2603 3102 4.214758 GCTCTTTTTCCCTACGCTTGTTTA 59.785 41.667 0.00 0.00 0.00 2.01
2606 3105 2.152016 GCTCTTTTTCCCTACGCTTGT 58.848 47.619 0.00 0.00 0.00 3.16
2607 3106 2.151202 TGCTCTTTTTCCCTACGCTTG 58.849 47.619 0.00 0.00 0.00 4.01
2610 3109 3.190535 TCAATTGCTCTTTTTCCCTACGC 59.809 43.478 0.00 0.00 0.00 4.42
2612 3111 7.494298 TGTTTTTCAATTGCTCTTTTTCCCTAC 59.506 33.333 0.00 0.00 0.00 3.18
2613 3112 7.560368 TGTTTTTCAATTGCTCTTTTTCCCTA 58.440 30.769 0.00 0.00 0.00 3.53
2614 3113 6.413892 TGTTTTTCAATTGCTCTTTTTCCCT 58.586 32.000 0.00 0.00 0.00 4.20
2615 3114 6.676237 TGTTTTTCAATTGCTCTTTTTCCC 57.324 33.333 0.00 0.00 0.00 3.97
2618 3117 9.777575 CTCATTTGTTTTTCAATTGCTCTTTTT 57.222 25.926 0.00 0.00 37.34 1.94
2624 3123 4.516321 GGGCTCATTTGTTTTTCAATTGCT 59.484 37.500 0.00 0.00 37.34 3.91
2644 3143 1.908483 CAACTAGGGAGGACAGGGC 59.092 63.158 0.00 0.00 0.00 5.19
2656 3155 1.067565 TCTGTGCTCTTCGGCAACTAG 60.068 52.381 0.00 0.00 44.18 2.57
2661 3160 2.047844 GCTCTGTGCTCTTCGGCA 60.048 61.111 0.00 0.00 40.15 5.69
2662 3161 2.047844 TGCTCTGTGCTCTTCGGC 60.048 61.111 3.20 0.00 43.37 5.54
2663 3162 1.005748 TGTGCTCTGTGCTCTTCGG 60.006 57.895 3.20 0.00 43.37 4.30
2664 3163 0.319383 ACTGTGCTCTGTGCTCTTCG 60.319 55.000 3.20 0.00 43.37 3.79
2665 3164 1.876322 AACTGTGCTCTGTGCTCTTC 58.124 50.000 3.20 0.00 43.37 2.87
2666 3165 3.134458 GTTAACTGTGCTCTGTGCTCTT 58.866 45.455 0.00 0.00 43.37 2.85
2667 3166 2.548920 GGTTAACTGTGCTCTGTGCTCT 60.549 50.000 5.42 0.00 43.37 4.09
2668 3167 1.801178 GGTTAACTGTGCTCTGTGCTC 59.199 52.381 5.42 0.19 43.37 4.26
2669 3168 1.543429 GGGTTAACTGTGCTCTGTGCT 60.543 52.381 5.42 0.00 43.37 4.40
2670 3169 0.875059 GGGTTAACTGTGCTCTGTGC 59.125 55.000 5.42 0.00 43.25 4.57
2671 3170 2.550830 AGGGTTAACTGTGCTCTGTG 57.449 50.000 5.42 0.00 0.00 3.66
2672 3171 3.240302 ACTAGGGTTAACTGTGCTCTGT 58.760 45.455 5.42 0.00 0.00 3.41
2673 3172 3.511934 AGACTAGGGTTAACTGTGCTCTG 59.488 47.826 5.42 0.00 0.00 3.35
2674 3173 3.764972 GAGACTAGGGTTAACTGTGCTCT 59.235 47.826 5.42 0.95 0.00 4.09
2675 3174 3.119065 GGAGACTAGGGTTAACTGTGCTC 60.119 52.174 5.42 5.59 0.00 4.26
2676 3175 2.832733 GGAGACTAGGGTTAACTGTGCT 59.167 50.000 5.42 0.00 0.00 4.40
2677 3176 2.565834 TGGAGACTAGGGTTAACTGTGC 59.434 50.000 5.42 0.00 0.00 4.57
2690 3189 0.250234 GCACTGGCACATGGAGACTA 59.750 55.000 0.00 0.00 38.20 2.59
2743 3242 4.257267 TCATATGGCTGATACTTGTCGG 57.743 45.455 2.13 0.00 0.00 4.79
2762 3261 5.617528 ACCGTGTATAATGTAACCCATCA 57.382 39.130 0.00 0.00 31.75 3.07
2763 3262 6.238538 CCAAACCGTGTATAATGTAACCCATC 60.239 42.308 0.00 0.00 31.75 3.51
2765 3264 4.942483 CCAAACCGTGTATAATGTAACCCA 59.058 41.667 0.00 0.00 0.00 4.51
2766 3265 4.943093 ACCAAACCGTGTATAATGTAACCC 59.057 41.667 0.00 0.00 0.00 4.11
2767 3266 5.412286 ACACCAAACCGTGTATAATGTAACC 59.588 40.000 0.00 0.00 45.08 2.85
2768 3267 6.484818 ACACCAAACCGTGTATAATGTAAC 57.515 37.500 0.00 0.00 45.08 2.50
2771 3270 6.232692 ACTAACACCAAACCGTGTATAATGT 58.767 36.000 0.00 0.00 46.19 2.71
2772 3271 6.730960 ACTAACACCAAACCGTGTATAATG 57.269 37.500 0.00 0.00 46.19 1.90
2773 3272 8.845413 TTAACTAACACCAAACCGTGTATAAT 57.155 30.769 0.00 0.00 46.19 1.28
2774 3273 8.845413 ATTAACTAACACCAAACCGTGTATAA 57.155 30.769 0.00 0.00 46.19 0.98
2776 3275 9.452287 AATATTAACTAACACCAAACCGTGTAT 57.548 29.630 0.00 0.00 46.19 2.29
2781 5492 8.047413 AGGAAATATTAACTAACACCAAACCG 57.953 34.615 0.00 0.00 0.00 4.44
2884 5595 9.995957 CTACGAATCTACATATATCTCAACTGG 57.004 37.037 0.00 0.00 0.00 4.00
2946 5657 4.486125 AAGGGCTTTGTGTTGAATGTTT 57.514 36.364 0.00 0.00 0.00 2.83
3109 5820 8.022550 CAGGCAAACAAAAACAAAAAGAGAAAT 58.977 29.630 0.00 0.00 0.00 2.17
3322 6033 7.780271 TGCCTCTTCAAGTCTAGATCATACTTA 59.220 37.037 0.00 0.00 32.35 2.24
3342 6053 0.042431 ATGAGTGTCCCTCTGCCTCT 59.958 55.000 0.00 0.00 41.11 3.69
3392 6103 0.396435 ACGACTCAGCCAATCCACAA 59.604 50.000 0.00 0.00 0.00 3.33
3443 6154 7.332557 ACTATATCACGTTGTATTTGGGTCAA 58.667 34.615 0.00 0.00 0.00 3.18
3446 6157 7.414762 GCAAACTATATCACGTTGTATTTGGGT 60.415 37.037 0.00 0.00 0.00 4.51
3447 6158 6.910433 GCAAACTATATCACGTTGTATTTGGG 59.090 38.462 0.00 0.00 0.00 4.12
3448 6159 7.693952 AGCAAACTATATCACGTTGTATTTGG 58.306 34.615 0.00 0.00 0.00 3.28
3449 6160 8.387354 TGAGCAAACTATATCACGTTGTATTTG 58.613 33.333 0.00 0.00 0.00 2.32
3450 6161 8.487313 TGAGCAAACTATATCACGTTGTATTT 57.513 30.769 0.00 0.00 0.00 1.40
3451 6162 8.662781 ATGAGCAAACTATATCACGTTGTATT 57.337 30.769 0.00 0.00 0.00 1.89
3452 6163 7.385205 GGATGAGCAAACTATATCACGTTGTAT 59.615 37.037 0.00 0.00 0.00 2.29
3453 6164 6.700081 GGATGAGCAAACTATATCACGTTGTA 59.300 38.462 0.00 0.00 0.00 2.41
3454 6165 5.523916 GGATGAGCAAACTATATCACGTTGT 59.476 40.000 0.00 0.00 0.00 3.32
3455 6166 5.050091 GGGATGAGCAAACTATATCACGTTG 60.050 44.000 0.00 0.00 0.00 4.10
3456 6167 5.057149 GGGATGAGCAAACTATATCACGTT 58.943 41.667 0.00 0.00 0.00 3.99
3458 6169 4.631131 TGGGATGAGCAAACTATATCACG 58.369 43.478 0.00 0.00 29.64 4.35
3459 6170 6.942532 TTTGGGATGAGCAAACTATATCAC 57.057 37.500 0.00 0.00 0.00 3.06
3460 6171 9.234827 CATATTTGGGATGAGCAAACTATATCA 57.765 33.333 0.00 0.00 0.00 2.15
3549 6262 7.849804 TTCAGCTGTCAATATCCTTAAAGTC 57.150 36.000 14.67 0.00 0.00 3.01
3598 6312 5.506832 GCAAACATACGCACAAATAGTACAC 59.493 40.000 0.00 0.00 0.00 2.90
3617 6331 4.931002 TGTTACCATAACGTCTAGGCAAAC 59.069 41.667 0.00 0.71 0.00 2.93
3629 6343 7.747357 CGGAAATACAAGTTGTGTTACCATAAC 59.253 37.037 18.90 0.00 41.98 1.89
3745 6459 5.473039 TGTATCGTGCATCTCATCCAATAG 58.527 41.667 0.00 0.00 0.00 1.73
3889 6612 4.271049 CCAACAACATAAGGCGATGTAGAG 59.729 45.833 8.25 5.26 39.16 2.43
3952 6675 1.360162 ACCACCCAGGCAGTAGTACTA 59.640 52.381 1.57 0.00 43.14 1.82
3956 6679 2.283529 CGACCACCCAGGCAGTAGT 61.284 63.158 0.00 0.00 43.14 2.73
4174 6897 4.335400 TGCCGCATTACATATTCTCTCA 57.665 40.909 0.00 0.00 0.00 3.27
4188 6912 2.418368 TTACCATTCTCTTGCCGCAT 57.582 45.000 0.00 0.00 0.00 4.73
4310 7037 4.293494 TCTGCATCCTCTCCTATTTCACT 58.707 43.478 0.00 0.00 0.00 3.41
4384 7126 1.683011 GGGACAATGATGGACACCCTG 60.683 57.143 0.00 0.00 33.79 4.45
4393 7135 5.649395 AGAACATGTACAAGGGACAATGATG 59.351 40.000 0.00 0.00 0.00 3.07
4394 7136 5.819991 AGAACATGTACAAGGGACAATGAT 58.180 37.500 0.00 0.00 0.00 2.45
4395 7137 5.241403 AGAACATGTACAAGGGACAATGA 57.759 39.130 0.00 0.00 0.00 2.57
4454 7196 7.040892 ACTGAATCGGATTGGATAATGATGTTG 60.041 37.037 8.18 0.00 0.00 3.33
4493 7235 2.364324 AGTGTTTCCTAGTGTTCGAGCA 59.636 45.455 0.00 0.00 0.00 4.26
4511 7253 1.524355 CAACAGTCAGTCGCTTCAGTG 59.476 52.381 0.00 0.00 0.00 3.66
4582 7325 1.574702 GGTAGCACAAGAACCACCGC 61.575 60.000 0.00 0.00 33.28 5.68
4617 7360 7.903995 TTTGAGAAGTTTTTGCATGAGTTTT 57.096 28.000 0.00 0.00 0.00 2.43
4733 7477 8.752766 ACATTCATGTCATGATTTGTCTTTTC 57.247 30.769 16.19 0.00 39.39 2.29
4778 7536 4.742438 AATAGTTGTGGTAGTGCAAACG 57.258 40.909 0.00 0.00 0.00 3.60
4913 7757 5.533154 TGGACCGAACATCAAAAACTTGTAT 59.467 36.000 0.00 0.00 0.00 2.29
4988 7832 4.410555 AGTTGTGAGGAAGAGGGATATTCC 59.589 45.833 0.00 0.00 44.49 3.01
4991 7835 4.624913 TGAGTTGTGAGGAAGAGGGATAT 58.375 43.478 0.00 0.00 0.00 1.63
5011 7855 7.407393 TGTCCAGCAAAATAATCAATCATGA 57.593 32.000 0.00 0.00 40.57 3.07
5027 7871 2.346766 ACAAACAGACATGTCCAGCA 57.653 45.000 22.21 0.00 39.29 4.41
5058 7902 8.512956 GCGTACCTGTTAGATCAGATTATCTAA 58.487 37.037 0.00 2.89 43.11 2.10
5064 7908 5.599999 AAGCGTACCTGTTAGATCAGATT 57.400 39.130 0.00 0.00 37.61 2.40
5123 7967 1.334992 ACAGATCGAACGTCGTTGCG 61.335 55.000 16.75 17.47 41.35 4.85
5126 7970 0.453950 CGGACAGATCGAACGTCGTT 60.454 55.000 11.08 11.08 41.35 3.85
5425 8281 4.083643 CGTGAAATTCTCAGCACAAGACAT 60.084 41.667 0.00 0.00 33.60 3.06
5436 8292 4.756642 AGCAAGACATTCGTGAAATTCTCA 59.243 37.500 0.00 0.00 0.00 3.27
5548 8410 7.278724 AGTACTGATGAGATAGGTAGGCTAT 57.721 40.000 0.00 0.00 0.00 2.97
5617 8479 3.772025 CTCCTACCTAGCCCTGGATTATG 59.228 52.174 0.00 0.00 0.00 1.90
5702 8565 8.027189 TGCTAAATAGATATTTACGATGCGTCT 58.973 33.333 4.05 0.00 41.54 4.18
5809 9607 0.812549 TGTCCTACGTAAGCGCATCA 59.187 50.000 11.47 0.00 42.83 3.07
5912 9711 4.530553 TCAAAACCATGACAGAGGTAGCTA 59.469 41.667 0.00 0.00 37.07 3.32
5988 9787 1.550130 ATTTCAGTCCTTCGGCCCGA 61.550 55.000 0.00 0.00 0.00 5.14
6127 9955 7.259290 TCATGGTTCTCACTTTCAGTAAAAC 57.741 36.000 0.00 0.00 0.00 2.43
6157 9996 5.819991 ACATGGATGGTTCTGAACAAGTAT 58.180 37.500 21.01 9.92 0.00 2.12


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

AutoCloner maintained by Alex Coulton.