Multiple sequence alignment - TraesCS2B01G491500

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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 TraesCS2B01G491500 chr2B 100.000 4103 0 0 1 4103 689779050 689774948 0.000000e+00 7577.0
1 TraesCS2B01G491500 chr2B 84.615 1638 189 30 1388 2990 712002439 712004048 0.000000e+00 1570.0
2 TraesCS2B01G491500 chr2B 80.128 941 155 23 1398 2313 712360212 712361145 0.000000e+00 673.0
3 TraesCS2B01G491500 chr2B 98.174 219 4 0 1 219 672859739 672859521 2.310000e-102 383.0
4 TraesCS2B01G491500 chr2A 88.541 1693 142 20 1273 2957 712539390 712537742 0.000000e+00 2004.0
5 TraesCS2B01G491500 chr2A 84.032 1622 202 33 1388 2990 723101462 723103045 0.000000e+00 1507.0
6 TraesCS2B01G491500 chr2A 90.946 497 35 5 226 718 712542804 712542314 0.000000e+00 660.0
7 TraesCS2B01G491500 chr2A 91.538 390 18 6 3724 4103 240766691 240766307 1.310000e-144 523.0
8 TraesCS2B01G491500 chr2A 85.748 428 57 3 1397 1821 723160696 723161122 2.250000e-122 449.0
9 TraesCS2B01G491500 chr2A 83.886 422 65 2 1399 1817 723512030 723512451 2.300000e-107 399.0
10 TraesCS2B01G491500 chr2A 80.081 246 32 7 3308 3549 21181990 21182222 2.540000e-37 167.0
11 TraesCS2B01G491500 chr2D 92.078 1237 70 13 1368 2594 573952398 573951180 0.000000e+00 1716.0
12 TraesCS2B01G491500 chr2D 83.920 1648 191 36 1388 2990 588498588 588500206 0.000000e+00 1507.0
13 TraesCS2B01G491500 chr2D 92.969 512 27 3 226 734 573956657 573956152 0.000000e+00 737.0
14 TraesCS2B01G491500 chr2D 79.037 935 171 14 1399 2313 588735993 588736922 5.830000e-173 617.0
15 TraesCS2B01G491500 chr2D 96.000 275 5 2 2997 3265 573916448 573916174 3.760000e-120 442.0
16 TraesCS2B01G491500 chr2D 97.765 179 4 0 1091 1269 573952582 573952404 3.980000e-80 309.0
17 TraesCS2B01G491500 chr2D 83.704 270 20 10 831 1077 573952835 573952567 2.470000e-57 233.0
18 TraesCS2B01G491500 chr2D 95.946 74 3 0 2885 2958 573951180 573951107 2.000000e-23 121.0
19 TraesCS2B01G491500 chr2D 98.077 52 1 0 2949 3000 573916771 573916720 1.570000e-14 91.6
20 TraesCS2B01G491500 chr6B 93.115 886 13 2 3266 4103 449774380 449773495 0.000000e+00 1254.0
21 TraesCS2B01G491500 chr6B 95.169 621 15 1 3266 3871 693800777 693800157 0.000000e+00 966.0
22 TraesCS2B01G491500 chr6B 92.268 388 17 5 3724 4103 688766702 688766320 4.670000e-149 538.0
23 TraesCS2B01G491500 chr6B 99.087 219 2 0 1 219 548650669 548650887 1.070000e-105 394.0
24 TraesCS2B01G491500 chr3B 93.403 864 9 2 3288 4103 24006942 24006079 0.000000e+00 1236.0
25 TraesCS2B01G491500 chr3B 91.753 388 19 5 3724 4103 27178530 27178148 1.010000e-145 527.0
26 TraesCS2B01G491500 chr3B 91.026 390 20 6 3724 4103 9365927 9366311 2.830000e-141 512.0
27 TraesCS2B01G491500 chr3B 84.958 472 50 10 3265 3717 9362826 9363295 3.740000e-125 459.0
28 TraesCS2B01G491500 chr3B 83.198 494 61 9 3243 3717 27179925 27179435 2.270000e-117 433.0
29 TraesCS2B01G491500 chr6A 92.567 861 19 5 3288 4103 57688781 57689641 0.000000e+00 1194.0
30 TraesCS2B01G491500 chr4B 93.243 592 7 4 3545 4103 619603149 619603740 0.000000e+00 841.0
31 TraesCS2B01G491500 chr4B 97.902 286 5 1 3266 3551 619602693 619602977 1.020000e-135 494.0
32 TraesCS2B01G491500 chr1B 93.933 445 12 1 3288 3717 538163720 538163276 0.000000e+00 658.0
33 TraesCS2B01G491500 chr1B 95.668 277 11 1 3827 4103 538163038 538162763 1.050000e-120 444.0
34 TraesCS2B01G491500 chr5B 92.075 429 15 2 3308 3717 712464436 712464008 1.640000e-163 586.0
35 TraesCS2B01G491500 chr5B 84.694 98 13 2 2993 3090 491062860 491062955 3.380000e-16 97.1
36 TraesCS2B01G491500 chr1A 91.026 390 20 7 3724 4103 554841825 554842209 2.830000e-141 512.0
37 TraesCS2B01G491500 chr5A 98.630 219 3 0 1 219 514444444 514444226 4.970000e-104 388.0
38 TraesCS2B01G491500 chr5A 98.174 219 4 0 1 219 514442500 514442282 2.310000e-102 383.0
39 TraesCS2B01G491500 chr5A 98.174 219 4 0 1 219 514447361 514447143 2.310000e-102 383.0
40 TraesCS2B01G491500 chr5A 98.174 219 4 0 1 219 514449307 514449089 2.310000e-102 383.0
41 TraesCS2B01G491500 chr5A 98.174 219 4 0 1 219 514450279 514450061 2.310000e-102 383.0
42 TraesCS2B01G491500 chr7A 98.174 219 4 0 1 219 54814488 54814270 2.310000e-102 383.0
43 TraesCS2B01G491500 chr7A 98.174 219 4 0 1 219 617736038 617736256 2.310000e-102 383.0
44 TraesCS2B01G491500 chrUn 90.365 301 12 3 3432 3717 333923236 333922938 2.990000e-101 379.0
45 TraesCS2B01G491500 chrUn 90.365 301 12 3 3432 3717 333939749 333939451 2.990000e-101 379.0
46 TraesCS2B01G491500 chrUn 82.828 99 14 3 2993 3090 88534499 88534595 7.310000e-13 86.1
47 TraesCS2B01G491500 chr3A 84.528 265 29 5 3288 3549 487445512 487445767 6.810000e-63 252.0
48 TraesCS2B01G491500 chr7B 83.673 98 13 3 2993 3090 42402340 42402434 5.650000e-14 89.8
49 TraesCS2B01G491500 chr3D 87.342 79 9 1 3012 3090 231627023 231627100 5.650000e-14 89.8


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 TraesCS2B01G491500 chr2B 689774948 689779050 4102 True 7577.0 7577 100.0000 1 4103 1 chr2B.!!$R2 4102
1 TraesCS2B01G491500 chr2B 712002439 712004048 1609 False 1570.0 1570 84.6150 1388 2990 1 chr2B.!!$F1 1602
2 TraesCS2B01G491500 chr2B 712360212 712361145 933 False 673.0 673 80.1280 1398 2313 1 chr2B.!!$F2 915
3 TraesCS2B01G491500 chr2A 723101462 723103045 1583 False 1507.0 1507 84.0320 1388 2990 1 chr2A.!!$F2 1602
4 TraesCS2B01G491500 chr2A 712537742 712542804 5062 True 1332.0 2004 89.7435 226 2957 2 chr2A.!!$R2 2731
5 TraesCS2B01G491500 chr2D 588498588 588500206 1618 False 1507.0 1507 83.9200 1388 2990 1 chr2D.!!$F1 1602
6 TraesCS2B01G491500 chr2D 573951107 573956657 5550 True 623.2 1716 92.4924 226 2958 5 chr2D.!!$R2 2732
7 TraesCS2B01G491500 chr2D 588735993 588736922 929 False 617.0 617 79.0370 1399 2313 1 chr2D.!!$F2 914
8 TraesCS2B01G491500 chr2D 573916174 573916771 597 True 266.8 442 97.0385 2949 3265 2 chr2D.!!$R1 316
9 TraesCS2B01G491500 chr6B 449773495 449774380 885 True 1254.0 1254 93.1150 3266 4103 1 chr6B.!!$R1 837
10 TraesCS2B01G491500 chr6B 693800157 693800777 620 True 966.0 966 95.1690 3266 3871 1 chr6B.!!$R3 605
11 TraesCS2B01G491500 chr3B 24006079 24006942 863 True 1236.0 1236 93.4030 3288 4103 1 chr3B.!!$R1 815
12 TraesCS2B01G491500 chr3B 9362826 9366311 3485 False 485.5 512 87.9920 3265 4103 2 chr3B.!!$F1 838
13 TraesCS2B01G491500 chr3B 27178148 27179925 1777 True 480.0 527 87.4755 3243 4103 2 chr3B.!!$R2 860
14 TraesCS2B01G491500 chr6A 57688781 57689641 860 False 1194.0 1194 92.5670 3288 4103 1 chr6A.!!$F1 815
15 TraesCS2B01G491500 chr4B 619602693 619603740 1047 False 667.5 841 95.5725 3266 4103 2 chr4B.!!$F1 837
16 TraesCS2B01G491500 chr1B 538162763 538163720 957 True 551.0 658 94.8005 3288 4103 2 chr1B.!!$R1 815
17 TraesCS2B01G491500 chr5A 514442282 514450279 7997 True 384.0 388 98.2652 1 219 5 chr5A.!!$R1 218

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
784 1761 0.029681 ATAGCCACACTGGAGGGGAT 60.030 55.000 0.00 0.00 40.96 3.85 F
876 5137 0.586802 TATCTCTGTGCCGACGATCG 59.413 55.000 14.88 14.88 40.07 3.69 F
2315 9257 1.069765 CACCGTGGACTTCTGCAGT 59.930 57.895 14.67 0.00 39.07 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2494 9450 0.105039 GCTCCAGGATTCTACCCACG 59.895 60.0 0.0 0.0 0.0 4.94 R
2609 9565 0.260230 TCCTCCTCATCTTCCTCGCT 59.740 55.0 0.0 0.0 0.0 4.93 R
3303 10549 0.468585 ATCCTGTATCGCCGTACCCA 60.469 55.0 0.0 0.0 0.0 4.51 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
181 1154 0.752658 TAGGGACACATGGCATCGAG 59.247 55.000 0.00 0.00 0.00 4.04
208 1181 2.359975 GGCCTCCCGAAACACAGG 60.360 66.667 0.00 0.00 0.00 4.00
244 1217 2.162681 GTGCTGCCCAGTATGAAGTTT 58.837 47.619 0.00 0.00 39.69 2.66
270 1243 0.961019 GTGATGCTGGAAAAGGCACA 59.039 50.000 0.00 0.00 41.39 4.57
278 1251 3.119352 GCTGGAAAAGGCACAGATAAAGG 60.119 47.826 0.00 0.00 34.21 3.11
286 1259 5.453567 AGGCACAGATAAAGGTTTTTGTC 57.546 39.130 0.00 0.00 35.39 3.18
404 1377 2.844146 CACAACGACCTTCGCGTC 59.156 61.111 5.77 0.00 45.12 5.19
452 1425 0.605860 CTGTGGCTCTTGCTCTTGCT 60.606 55.000 0.00 0.00 40.48 3.91
530 1506 4.080299 CCCCTAGTTTCAGGATTGCTTAGT 60.080 45.833 0.00 0.00 38.00 2.24
531 1507 4.878397 CCCTAGTTTCAGGATTGCTTAGTG 59.122 45.833 0.00 0.00 38.00 2.74
534 1510 6.655003 CCTAGTTTCAGGATTGCTTAGTGAAA 59.345 38.462 0.00 0.00 38.00 2.69
535 1511 6.959639 AGTTTCAGGATTGCTTAGTGAAAA 57.040 33.333 0.00 0.00 38.49 2.29
729 1706 0.919710 GGGGCAGACCTAGAAATGGT 59.080 55.000 0.00 0.00 41.07 3.55
734 1711 3.451178 GGCAGACCTAGAAATGGTAGTCA 59.549 47.826 0.00 0.00 38.03 3.41
736 1713 4.160626 GCAGACCTAGAAATGGTAGTCACT 59.839 45.833 0.00 0.00 38.03 3.41
737 1714 5.655488 CAGACCTAGAAATGGTAGTCACTG 58.345 45.833 0.00 0.00 38.03 3.66
738 1715 4.712337 AGACCTAGAAATGGTAGTCACTGG 59.288 45.833 0.00 0.00 38.03 4.00
739 1716 4.684724 ACCTAGAAATGGTAGTCACTGGA 58.315 43.478 0.00 0.00 35.80 3.86
740 1717 5.091552 ACCTAGAAATGGTAGTCACTGGAA 58.908 41.667 0.00 0.00 35.80 3.53
741 1718 5.726793 ACCTAGAAATGGTAGTCACTGGAAT 59.273 40.000 0.00 0.00 35.80 3.01
742 1719 6.215636 ACCTAGAAATGGTAGTCACTGGAATT 59.784 38.462 0.00 0.00 35.80 2.17
743 1720 6.763610 CCTAGAAATGGTAGTCACTGGAATTC 59.236 42.308 0.00 0.00 0.00 2.17
744 1721 6.126863 AGAAATGGTAGTCACTGGAATTCA 57.873 37.500 7.93 0.00 0.00 2.57
745 1722 6.542821 AGAAATGGTAGTCACTGGAATTCAA 58.457 36.000 7.93 0.00 0.00 2.69
746 1723 6.656693 AGAAATGGTAGTCACTGGAATTCAAG 59.343 38.462 8.40 8.40 0.00 3.02
747 1724 4.286297 TGGTAGTCACTGGAATTCAAGG 57.714 45.455 14.48 3.71 0.00 3.61
748 1725 3.009033 TGGTAGTCACTGGAATTCAAGGG 59.991 47.826 14.48 10.41 0.00 3.95
749 1726 3.263425 GGTAGTCACTGGAATTCAAGGGA 59.737 47.826 10.99 10.99 0.00 4.20
750 1727 4.080299 GGTAGTCACTGGAATTCAAGGGAT 60.080 45.833 17.92 9.57 0.00 3.85
751 1728 4.227864 AGTCACTGGAATTCAAGGGATC 57.772 45.455 17.92 11.38 0.00 3.36
752 1729 3.588842 AGTCACTGGAATTCAAGGGATCA 59.411 43.478 17.92 0.00 0.00 2.92
753 1730 4.043310 AGTCACTGGAATTCAAGGGATCAA 59.957 41.667 17.92 0.00 0.00 2.57
754 1731 4.766891 GTCACTGGAATTCAAGGGATCAAA 59.233 41.667 17.92 0.00 0.00 2.69
755 1732 5.012239 TCACTGGAATTCAAGGGATCAAAG 58.988 41.667 10.99 0.00 0.00 2.77
756 1733 4.768968 CACTGGAATTCAAGGGATCAAAGT 59.231 41.667 14.48 0.00 0.00 2.66
757 1734 5.945784 CACTGGAATTCAAGGGATCAAAGTA 59.054 40.000 14.48 0.00 0.00 2.24
758 1735 6.604795 CACTGGAATTCAAGGGATCAAAGTAT 59.395 38.462 14.48 0.00 0.00 2.12
759 1736 6.830838 ACTGGAATTCAAGGGATCAAAGTATC 59.169 38.462 14.48 0.00 0.00 2.24
760 1737 6.730447 TGGAATTCAAGGGATCAAAGTATCA 58.270 36.000 7.93 0.00 0.00 2.15
761 1738 7.356680 TGGAATTCAAGGGATCAAAGTATCAT 58.643 34.615 7.93 0.00 0.00 2.45
762 1739 7.286087 TGGAATTCAAGGGATCAAAGTATCATG 59.714 37.037 7.93 0.00 0.00 3.07
763 1740 7.255730 GGAATTCAAGGGATCAAAGTATCATGG 60.256 40.741 7.93 0.00 0.00 3.66
764 1741 5.715439 TCAAGGGATCAAAGTATCATGGT 57.285 39.130 0.00 0.00 0.00 3.55
765 1742 6.823286 TCAAGGGATCAAAGTATCATGGTA 57.177 37.500 0.00 0.00 0.00 3.25
766 1743 7.392766 TCAAGGGATCAAAGTATCATGGTAT 57.607 36.000 0.00 0.00 0.00 2.73
767 1744 8.504811 TCAAGGGATCAAAGTATCATGGTATA 57.495 34.615 0.00 0.00 0.00 1.47
768 1745 8.597167 TCAAGGGATCAAAGTATCATGGTATAG 58.403 37.037 0.00 0.00 0.00 1.31
769 1746 6.951971 AGGGATCAAAGTATCATGGTATAGC 58.048 40.000 0.00 0.00 0.00 2.97
770 1747 6.069963 AGGGATCAAAGTATCATGGTATAGCC 60.070 42.308 0.00 0.00 37.90 3.93
780 1757 1.496060 TGGTATAGCCACACTGGAGG 58.504 55.000 0.00 0.00 43.61 4.30
781 1758 0.759346 GGTATAGCCACACTGGAGGG 59.241 60.000 0.00 0.00 40.96 4.30
782 1759 0.759346 GTATAGCCACACTGGAGGGG 59.241 60.000 0.00 0.00 40.96 4.79
783 1760 0.639943 TATAGCCACACTGGAGGGGA 59.360 55.000 0.00 0.00 40.96 4.81
784 1761 0.029681 ATAGCCACACTGGAGGGGAT 60.030 55.000 0.00 0.00 40.96 3.85
785 1762 0.982852 TAGCCACACTGGAGGGGATG 60.983 60.000 0.00 0.00 40.96 3.51
786 1763 2.300967 GCCACACTGGAGGGGATGA 61.301 63.158 0.00 0.00 40.96 2.92
787 1764 1.604378 CCACACTGGAGGGGATGAC 59.396 63.158 0.00 0.00 40.96 3.06
788 1765 0.911525 CCACACTGGAGGGGATGACT 60.912 60.000 0.00 0.00 40.96 3.41
789 1766 1.622449 CCACACTGGAGGGGATGACTA 60.622 57.143 0.00 0.00 40.96 2.59
790 1767 2.187958 CACACTGGAGGGGATGACTAA 58.812 52.381 0.00 0.00 0.00 2.24
791 1768 2.774234 CACACTGGAGGGGATGACTAAT 59.226 50.000 0.00 0.00 0.00 1.73
792 1769 3.200825 CACACTGGAGGGGATGACTAATT 59.799 47.826 0.00 0.00 0.00 1.40
793 1770 3.456277 ACACTGGAGGGGATGACTAATTC 59.544 47.826 0.00 0.00 0.00 2.17
794 1771 2.700897 ACTGGAGGGGATGACTAATTCG 59.299 50.000 0.00 0.00 0.00 3.34
795 1772 2.700897 CTGGAGGGGATGACTAATTCGT 59.299 50.000 0.00 0.00 0.00 3.85
796 1773 2.434336 TGGAGGGGATGACTAATTCGTG 59.566 50.000 0.00 0.00 0.00 4.35
807 1784 3.792401 ACTAATTCGTGCCATTCGATCA 58.208 40.909 0.00 0.00 37.18 2.92
809 1786 4.816385 ACTAATTCGTGCCATTCGATCATT 59.184 37.500 0.00 0.00 37.18 2.57
812 1789 5.749596 ATTCGTGCCATTCGATCATTTTA 57.250 34.783 0.00 0.00 37.18 1.52
813 1790 4.794248 TCGTGCCATTCGATCATTTTAG 57.206 40.909 0.00 0.00 32.30 1.85
814 1791 3.002246 TCGTGCCATTCGATCATTTTAGC 59.998 43.478 0.00 0.00 32.30 3.09
815 1792 3.242706 CGTGCCATTCGATCATTTTAGCA 60.243 43.478 0.00 0.00 0.00 3.49
816 1793 4.037690 GTGCCATTCGATCATTTTAGCAC 58.962 43.478 7.66 7.66 40.95 4.40
817 1794 3.947196 TGCCATTCGATCATTTTAGCACT 59.053 39.130 0.00 0.00 0.00 4.40
818 1795 4.201940 TGCCATTCGATCATTTTAGCACTG 60.202 41.667 0.00 0.00 0.00 3.66
821 1798 6.073058 GCCATTCGATCATTTTAGCACTGATA 60.073 38.462 0.00 0.00 30.00 2.15
822 1799 7.520453 GCCATTCGATCATTTTAGCACTGATAA 60.520 37.037 0.00 0.00 30.00 1.75
823 1800 8.344831 CCATTCGATCATTTTAGCACTGATAAA 58.655 33.333 0.00 0.00 30.00 1.40
826 1803 9.935682 TTCGATCATTTTAGCACTGATAAATTC 57.064 29.630 0.43 0.00 30.00 2.17
827 1804 8.559536 TCGATCATTTTAGCACTGATAAATTCC 58.440 33.333 0.43 0.00 30.00 3.01
828 1805 8.344831 CGATCATTTTAGCACTGATAAATTCCA 58.655 33.333 0.43 0.00 30.00 3.53
834 1811 9.995003 TTTTAGCACTGATAAATTCCATTTTGT 57.005 25.926 0.43 0.00 33.82 2.83
835 1812 9.638239 TTTAGCACTGATAAATTCCATTTTGTC 57.362 29.630 0.00 0.00 33.82 3.18
838 5099 6.532657 GCACTGATAAATTCCATTTTGTCCTG 59.467 38.462 0.00 0.00 33.82 3.86
871 5132 4.352887 GAGTAAAGTATCTCTGTGCCGAC 58.647 47.826 0.00 0.00 0.00 4.79
876 5137 0.586802 TATCTCTGTGCCGACGATCG 59.413 55.000 14.88 14.88 40.07 3.69
939 5226 3.429410 GCACCTATTGCCCTTTCAATCAC 60.429 47.826 0.00 0.00 46.63 3.06
951 5238 4.281688 CCTTTCAATCACCAGGTGTCAAAT 59.718 41.667 19.65 2.42 34.79 2.32
959 5246 8.853126 CAATCACCAGGTGTCAAATTGATATAT 58.147 33.333 20.17 1.77 34.79 0.86
992 5279 6.464895 TGCTTTGTTTTCAGTTTTGTTCTG 57.535 33.333 0.00 0.00 0.00 3.02
998 5291 7.171447 TGTTTTCAGTTTTGTTCTGTTTGTG 57.829 32.000 0.00 0.00 34.86 3.33
1041 5344 1.571955 TAGCCCTGCTGATCTCAACA 58.428 50.000 0.00 0.00 40.10 3.33
1047 5351 2.871022 CCTGCTGATCTCAACAGTATGC 59.129 50.000 9.15 0.00 42.53 3.14
1080 5384 5.897377 GCTAAAGCAACCAGGATTTCTAA 57.103 39.130 0.00 0.00 41.59 2.10
1081 5385 6.456795 GCTAAAGCAACCAGGATTTCTAAT 57.543 37.500 0.00 0.00 41.59 1.73
1082 5386 6.867550 GCTAAAGCAACCAGGATTTCTAATT 58.132 36.000 0.00 0.00 41.59 1.40
1083 5387 7.996385 GCTAAAGCAACCAGGATTTCTAATTA 58.004 34.615 0.00 0.00 41.59 1.40
1084 5388 7.915923 GCTAAAGCAACCAGGATTTCTAATTAC 59.084 37.037 0.00 0.00 41.59 1.89
1085 5389 7.775053 AAAGCAACCAGGATTTCTAATTACA 57.225 32.000 0.00 0.00 0.00 2.41
1086 5390 7.775053 AAGCAACCAGGATTTCTAATTACAA 57.225 32.000 0.00 0.00 0.00 2.41
1087 5391 7.775053 AGCAACCAGGATTTCTAATTACAAA 57.225 32.000 0.00 0.00 0.00 2.83
1088 5392 8.189119 AGCAACCAGGATTTCTAATTACAAAA 57.811 30.769 0.00 0.00 0.00 2.44
1089 5393 8.646900 AGCAACCAGGATTTCTAATTACAAAAA 58.353 29.630 0.00 0.00 0.00 1.94
1142 5446 5.447683 GCTGATCTTGCAACATCAAATACGA 60.448 40.000 16.72 0.00 0.00 3.43
1143 5447 5.868257 TGATCTTGCAACATCAAATACGAC 58.132 37.500 14.16 0.00 0.00 4.34
1264 5570 3.268330 GAGATTCGGTCCACTTAAACCC 58.732 50.000 0.00 0.00 31.49 4.11
1265 5571 2.910977 AGATTCGGTCCACTTAAACCCT 59.089 45.455 0.00 0.00 31.49 4.34
1266 5572 3.329814 AGATTCGGTCCACTTAAACCCTT 59.670 43.478 0.00 0.00 31.49 3.95
1267 5573 4.533311 AGATTCGGTCCACTTAAACCCTTA 59.467 41.667 0.00 0.00 31.49 2.69
1268 5574 3.967332 TCGGTCCACTTAAACCCTTAG 57.033 47.619 0.00 0.00 31.49 2.18
1281 8186 1.278238 CCCTTAGCTTAGTCGTTGCG 58.722 55.000 0.00 0.00 0.00 4.85
1300 8205 3.133365 AACGGCAGCCACCTTTCCT 62.133 57.895 13.30 0.00 0.00 3.36
1308 8213 1.757699 AGCCACCTTTCCTAGATCGAC 59.242 52.381 0.00 0.00 0.00 4.20
1314 8219 2.621998 CCTTTCCTAGATCGACGGCTTA 59.378 50.000 0.00 0.00 0.00 3.09
1317 8222 4.500603 TTCCTAGATCGACGGCTTAATC 57.499 45.455 0.00 0.00 0.00 1.75
1389 8295 1.328279 AAAGAAAAGGAAGGGCACGG 58.672 50.000 0.00 0.00 0.00 4.94
1425 8334 2.680352 TGAGCGACCTCCCAGACC 60.680 66.667 0.00 0.00 37.29 3.85
1822 8737 2.648613 ATCGCCCCGATCTGTCTCCT 62.649 60.000 0.00 0.00 43.45 3.69
1826 8741 2.725008 CCGATCTGTCTCCTCCGC 59.275 66.667 0.00 0.00 0.00 5.54
1832 8747 1.309950 TCTGTCTCCTCCGCGATAAG 58.690 55.000 8.23 1.29 0.00 1.73
1835 8750 2.097036 TGTCTCCTCCGCGATAAGAAA 58.903 47.619 8.23 0.00 0.00 2.52
1837 8752 2.358267 GTCTCCTCCGCGATAAGAAAGA 59.642 50.000 8.23 5.96 0.00 2.52
1838 8753 2.619177 TCTCCTCCGCGATAAGAAAGAG 59.381 50.000 8.23 2.23 0.00 2.85
1884 8826 2.188829 AACACCGACGACGAGGACA 61.189 57.895 18.00 0.00 42.66 4.02
1888 8830 2.623915 CCGACGACGAGGACAGGTT 61.624 63.158 9.28 0.00 42.66 3.50
2042 8984 3.092511 AGCATCACGGCTCCCCAT 61.093 61.111 0.00 0.00 41.05 4.00
2044 8986 2.189499 GCATCACGGCTCCCCATTC 61.189 63.158 0.00 0.00 0.00 2.67
2157 9099 1.289380 GTCCTCGACAAACGCCTCT 59.711 57.895 0.00 0.00 42.26 3.69
2242 9184 2.187946 GCTGGACTACTGCGGCAT 59.812 61.111 1.75 0.00 39.87 4.40
2270 9212 2.415608 CGAGCCGCTCCTGACCTTA 61.416 63.158 14.85 0.00 0.00 2.69
2315 9257 1.069765 CACCGTGGACTTCTGCAGT 59.930 57.895 14.67 0.00 39.07 4.40
2337 9279 2.040330 CTCTCCGAGGATGCAGAGG 58.960 63.158 0.00 0.00 0.00 3.69
2476 9432 2.359975 CAAGGGCCCCTCGTGAAC 60.360 66.667 21.43 0.00 30.89 3.18
2542 9498 2.716017 CCTGGAGGTCCTGTCGCTC 61.716 68.421 0.00 0.00 36.82 5.03
2595 9551 3.559069 ACAAAGATGATACCATGGGCAG 58.441 45.455 18.09 1.92 32.09 4.85
2602 9558 1.355718 ATACCATGGGCAGGGACCTG 61.356 60.000 18.09 13.99 46.15 4.00
2603 9559 2.484868 TACCATGGGCAGGGACCTGA 62.485 60.000 22.03 1.50 46.30 3.86
2608 9564 2.273449 GGCAGGGACCTGACCATG 59.727 66.667 22.03 0.00 45.96 3.66
2609 9565 2.300967 GGCAGGGACCTGACCATGA 61.301 63.158 22.03 0.00 45.96 3.07
2610 9566 1.222936 GCAGGGACCTGACCATGAG 59.777 63.158 22.03 0.00 46.30 2.90
2611 9567 1.222936 CAGGGACCTGACCATGAGC 59.777 63.158 13.06 0.00 46.30 4.26
2612 9568 2.187946 GGGACCTGACCATGAGCG 59.812 66.667 0.00 0.00 0.00 5.03
2613 9569 2.359169 GGGACCTGACCATGAGCGA 61.359 63.158 0.00 0.00 0.00 4.93
2621 9577 1.137675 TGACCATGAGCGAGGAAGATG 59.862 52.381 0.00 0.00 0.00 2.90
2623 9579 1.411977 ACCATGAGCGAGGAAGATGAG 59.588 52.381 0.00 0.00 0.00 2.90
2635 9591 0.755686 AAGATGAGGAGGATGACGCC 59.244 55.000 0.00 0.00 39.70 5.68
2677 9639 2.103263 GGATGATTCGTTGGTAGCTCCT 59.897 50.000 0.00 0.00 37.07 3.69
2874 9836 2.500442 CGTTCGCGCTGCAGTCTAG 61.500 63.158 16.64 5.95 0.00 2.43
2960 9925 7.638444 TCCCATGAAACAACCTCAGAATAATA 58.362 34.615 0.00 0.00 0.00 0.98
3068 10314 6.720012 GGTGCATTACCTTTACAAAAATGG 57.280 37.500 0.00 0.00 46.51 3.16
3140 10386 7.666063 TCTCATGTTCTCATCCATTCTCTAA 57.334 36.000 0.00 0.00 31.15 2.10
3166 10412 7.382898 AGGAGAATTTCTAGTTGAGACTTGAC 58.617 38.462 0.00 0.00 37.37 3.18
3234 10480 6.503524 GTTTTCATTTGGTCCATATGCGTAT 58.496 36.000 15.45 0.00 0.00 3.06
3506 10753 0.776176 AATGATCATCCAGGCCCTCC 59.224 55.000 9.06 0.00 0.00 4.30
3784 13843 3.106738 CCTAGCAATGGGAGGCAAG 57.893 57.895 0.00 0.00 0.00 4.01
3853 13912 1.135575 GCCAGCAACATCAACTAGCAC 60.136 52.381 0.00 0.00 0.00 4.40
3866 13925 5.626142 TCAACTAGCACTTTTATCCAACCA 58.374 37.500 0.00 0.00 0.00 3.67
3867 13926 6.065374 TCAACTAGCACTTTTATCCAACCAA 58.935 36.000 0.00 0.00 0.00 3.67
3987 15162 2.893637 ACATAAAGCCAGCAGTAGACG 58.106 47.619 0.00 0.00 0.00 4.18
4035 15345 6.946340 TCAACCATACATCAGTACAACATCT 58.054 36.000 0.00 0.00 31.96 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
167 1140 1.361668 GCGAACTCGATGCCATGTGT 61.362 55.000 2.69 0.00 43.02 3.72
223 1196 0.035056 ACTTCATACTGGGCAGCACC 60.035 55.000 0.00 0.00 37.93 5.01
224 1197 1.826385 AACTTCATACTGGGCAGCAC 58.174 50.000 0.00 0.00 0.00 4.40
229 1202 3.306019 CCAAACCAAACTTCATACTGGGC 60.306 47.826 0.00 0.00 32.94 5.36
244 1217 2.079170 TTTCCAGCATCACCAAACCA 57.921 45.000 0.00 0.00 0.00 3.67
270 1243 7.660208 TCTTTAGCGAGACAAAAACCTTTATCT 59.340 33.333 0.00 0.00 0.00 1.98
278 1251 7.530861 CACTTACATCTTTAGCGAGACAAAAAC 59.469 37.037 0.00 0.00 0.00 2.43
286 1259 5.517054 GGAGAACACTTACATCTTTAGCGAG 59.483 44.000 0.00 0.00 0.00 5.03
452 1425 1.620323 CAGTCATGGTCCAGAGACACA 59.380 52.381 22.43 0.00 45.48 3.72
541 1517 9.630098 GACATAAGCAATCATTTCTCAAAAGAA 57.370 29.630 0.00 0.00 39.78 2.52
542 1518 8.795513 TGACATAAGCAATCATTTCTCAAAAGA 58.204 29.630 0.00 0.00 0.00 2.52
543 1519 8.975410 TGACATAAGCAATCATTTCTCAAAAG 57.025 30.769 0.00 0.00 0.00 2.27
547 1523 8.114331 ACTTTGACATAAGCAATCATTTCTCA 57.886 30.769 0.00 0.00 0.00 3.27
564 1540 6.318648 GCAATCCATAGGACATAACTTTGACA 59.681 38.462 0.00 0.00 32.98 3.58
729 1706 4.782691 TGATCCCTTGAATTCCAGTGACTA 59.217 41.667 2.27 0.00 0.00 2.59
734 1711 5.003096 ACTTTGATCCCTTGAATTCCAGT 57.997 39.130 2.27 0.00 0.00 4.00
736 1713 6.730447 TGATACTTTGATCCCTTGAATTCCA 58.270 36.000 2.27 0.00 0.00 3.53
737 1714 7.255730 CCATGATACTTTGATCCCTTGAATTCC 60.256 40.741 2.27 0.00 0.00 3.01
738 1715 7.286316 ACCATGATACTTTGATCCCTTGAATTC 59.714 37.037 0.00 0.00 0.00 2.17
739 1716 7.128077 ACCATGATACTTTGATCCCTTGAATT 58.872 34.615 0.00 0.00 0.00 2.17
740 1717 6.676558 ACCATGATACTTTGATCCCTTGAAT 58.323 36.000 0.00 0.00 0.00 2.57
741 1718 6.078456 ACCATGATACTTTGATCCCTTGAA 57.922 37.500 0.00 0.00 0.00 2.69
742 1719 5.715439 ACCATGATACTTTGATCCCTTGA 57.285 39.130 0.00 0.00 0.00 3.02
743 1720 7.335422 GCTATACCATGATACTTTGATCCCTTG 59.665 40.741 0.00 0.00 0.00 3.61
744 1721 7.398024 GCTATACCATGATACTTTGATCCCTT 58.602 38.462 0.00 0.00 0.00 3.95
745 1722 6.069963 GGCTATACCATGATACTTTGATCCCT 60.070 42.308 0.00 0.00 38.86 4.20
746 1723 6.116126 GGCTATACCATGATACTTTGATCCC 58.884 44.000 0.00 0.00 38.86 3.85
747 1724 6.711277 TGGCTATACCATGATACTTTGATCC 58.289 40.000 0.00 0.00 46.36 3.36
762 1739 0.759346 CCCTCCAGTGTGGCTATACC 59.241 60.000 0.00 0.00 37.47 2.73
763 1740 0.759346 CCCCTCCAGTGTGGCTATAC 59.241 60.000 0.00 0.00 37.47 1.47
764 1741 0.639943 TCCCCTCCAGTGTGGCTATA 59.360 55.000 0.00 0.00 37.47 1.31
765 1742 0.029681 ATCCCCTCCAGTGTGGCTAT 60.030 55.000 0.00 0.00 37.47 2.97
766 1743 0.982852 CATCCCCTCCAGTGTGGCTA 60.983 60.000 0.00 0.00 37.47 3.93
767 1744 2.125912 ATCCCCTCCAGTGTGGCT 59.874 61.111 0.00 0.00 37.47 4.75
768 1745 2.273449 CATCCCCTCCAGTGTGGC 59.727 66.667 0.00 0.00 37.47 5.01
769 1746 0.911525 AGTCATCCCCTCCAGTGTGG 60.912 60.000 0.00 0.00 39.43 4.17
770 1747 1.866015 TAGTCATCCCCTCCAGTGTG 58.134 55.000 0.00 0.00 0.00 3.82
771 1748 2.642171 TTAGTCATCCCCTCCAGTGT 57.358 50.000 0.00 0.00 0.00 3.55
772 1749 3.493350 CGAATTAGTCATCCCCTCCAGTG 60.493 52.174 0.00 0.00 0.00 3.66
773 1750 2.700897 CGAATTAGTCATCCCCTCCAGT 59.299 50.000 0.00 0.00 0.00 4.00
774 1751 2.700897 ACGAATTAGTCATCCCCTCCAG 59.299 50.000 0.00 0.00 0.00 3.86
775 1752 2.434336 CACGAATTAGTCATCCCCTCCA 59.566 50.000 0.00 0.00 0.00 3.86
776 1753 2.807108 GCACGAATTAGTCATCCCCTCC 60.807 54.545 0.00 0.00 0.00 4.30
777 1754 2.484889 GCACGAATTAGTCATCCCCTC 58.515 52.381 0.00 0.00 0.00 4.30
778 1755 1.141053 GGCACGAATTAGTCATCCCCT 59.859 52.381 0.00 0.00 0.00 4.79
779 1756 1.134220 TGGCACGAATTAGTCATCCCC 60.134 52.381 0.00 0.00 0.00 4.81
780 1757 2.325583 TGGCACGAATTAGTCATCCC 57.674 50.000 0.00 0.00 0.00 3.85
781 1758 3.059597 CGAATGGCACGAATTAGTCATCC 60.060 47.826 0.00 0.00 0.00 3.51
782 1759 3.802139 TCGAATGGCACGAATTAGTCATC 59.198 43.478 0.00 0.00 36.84 2.92
783 1760 3.792401 TCGAATGGCACGAATTAGTCAT 58.208 40.909 0.00 0.00 36.84 3.06
784 1761 3.239587 TCGAATGGCACGAATTAGTCA 57.760 42.857 0.00 0.00 36.84 3.41
785 1762 3.802139 TGATCGAATGGCACGAATTAGTC 59.198 43.478 4.25 0.00 42.80 2.59
786 1763 3.792401 TGATCGAATGGCACGAATTAGT 58.208 40.909 4.25 0.00 42.80 2.24
787 1764 4.997905 ATGATCGAATGGCACGAATTAG 57.002 40.909 4.25 0.00 42.80 1.73
788 1765 5.749596 AAATGATCGAATGGCACGAATTA 57.250 34.783 4.25 0.00 42.80 1.40
789 1766 4.637483 AAATGATCGAATGGCACGAATT 57.363 36.364 4.25 0.00 42.80 2.17
790 1767 4.637483 AAAATGATCGAATGGCACGAAT 57.363 36.364 4.25 0.00 42.80 3.34
791 1768 4.495679 GCTAAAATGATCGAATGGCACGAA 60.496 41.667 4.25 0.00 42.80 3.85
792 1769 3.002246 GCTAAAATGATCGAATGGCACGA 59.998 43.478 2.56 2.56 43.65 4.35
793 1770 3.242706 TGCTAAAATGATCGAATGGCACG 60.243 43.478 0.00 0.00 0.00 5.34
794 1771 4.037690 GTGCTAAAATGATCGAATGGCAC 58.962 43.478 11.29 11.29 40.11 5.01
795 1772 3.947196 AGTGCTAAAATGATCGAATGGCA 59.053 39.130 0.00 0.00 0.00 4.92
796 1773 4.035558 TCAGTGCTAAAATGATCGAATGGC 59.964 41.667 0.00 0.00 0.00 4.40
822 1799 5.082425 AGAGAAGCAGGACAAAATGGAATT 58.918 37.500 0.00 0.00 38.98 2.17
823 1800 4.670765 AGAGAAGCAGGACAAAATGGAAT 58.329 39.130 0.00 0.00 0.00 3.01
825 1802 3.328931 AGAGAGAAGCAGGACAAAATGGA 59.671 43.478 0.00 0.00 0.00 3.41
826 1803 3.683802 AGAGAGAAGCAGGACAAAATGG 58.316 45.455 0.00 0.00 0.00 3.16
827 1804 3.370366 CGAGAGAGAAGCAGGACAAAATG 59.630 47.826 0.00 0.00 0.00 2.32
828 1805 3.259374 TCGAGAGAGAAGCAGGACAAAAT 59.741 43.478 0.00 0.00 34.84 1.82
829 1806 2.628178 TCGAGAGAGAAGCAGGACAAAA 59.372 45.455 0.00 0.00 34.84 2.44
832 1809 3.652581 TCGAGAGAGAAGCAGGACA 57.347 52.632 0.00 0.00 34.84 4.02
876 5137 0.603975 GCATAGGCAGTTCGGGATCC 60.604 60.000 1.92 1.92 40.72 3.36
877 5138 0.394565 AGCATAGGCAGTTCGGGATC 59.605 55.000 0.67 0.00 44.61 3.36
878 5139 0.394565 GAGCATAGGCAGTTCGGGAT 59.605 55.000 0.67 0.00 44.61 3.85
879 5140 0.687757 AGAGCATAGGCAGTTCGGGA 60.688 55.000 0.67 0.00 44.61 5.14
880 5141 0.179000 AAGAGCATAGGCAGTTCGGG 59.821 55.000 0.67 0.00 44.61 5.14
881 5142 1.576356 GAAGAGCATAGGCAGTTCGG 58.424 55.000 0.67 0.00 44.61 4.30
882 5143 1.134699 TGGAAGAGCATAGGCAGTTCG 60.135 52.381 0.67 0.00 44.61 3.95
887 5162 3.107601 ACTAACTGGAAGAGCATAGGCA 58.892 45.455 0.67 0.00 39.42 4.75
920 5207 3.364549 TGGTGATTGAAAGGGCAATAGG 58.635 45.455 0.00 0.00 38.53 2.57
966 5253 8.819974 CAGAACAAAACTGAAAACAAAGCATAT 58.180 29.630 0.00 0.00 37.54 1.78
980 5267 4.033129 CCATGCACAAACAGAACAAAACTG 59.967 41.667 0.00 0.00 40.68 3.16
985 5272 1.479730 TGCCATGCACAAACAGAACAA 59.520 42.857 0.00 0.00 31.71 2.83
986 5273 1.067364 CTGCCATGCACAAACAGAACA 59.933 47.619 0.00 0.00 33.79 3.18
992 5279 2.749076 TCTACATCTGCCATGCACAAAC 59.251 45.455 0.00 0.00 33.79 2.93
998 5291 5.005740 TCCATAATTCTACATCTGCCATGC 58.994 41.667 0.00 0.00 0.00 4.06
1041 5344 5.447818 GCTTTAGCAAGAACATTCGCATACT 60.448 40.000 0.00 0.00 41.59 2.12
1088 5392 6.183360 CCTCCAACAAATCCTGGTTACTTTTT 60.183 38.462 0.00 0.00 34.11 1.94
1089 5393 5.304357 CCTCCAACAAATCCTGGTTACTTTT 59.696 40.000 0.00 0.00 34.11 2.27
1090 5394 4.832823 CCTCCAACAAATCCTGGTTACTTT 59.167 41.667 0.00 0.00 34.11 2.66
1091 5395 4.141018 ACCTCCAACAAATCCTGGTTACTT 60.141 41.667 0.00 0.00 34.11 2.24
1092 5396 3.397955 ACCTCCAACAAATCCTGGTTACT 59.602 43.478 0.00 0.00 34.11 2.24
1093 5397 3.763057 ACCTCCAACAAATCCTGGTTAC 58.237 45.455 0.00 0.00 34.11 2.50
1094 5398 4.600111 ACTACCTCCAACAAATCCTGGTTA 59.400 41.667 0.00 0.00 34.11 2.85
1095 5399 3.397955 ACTACCTCCAACAAATCCTGGTT 59.602 43.478 0.00 0.00 34.11 3.67
1096 5400 2.986728 ACTACCTCCAACAAATCCTGGT 59.013 45.455 0.00 0.00 34.11 4.00
1097 5401 3.347216 CACTACCTCCAACAAATCCTGG 58.653 50.000 0.00 0.00 0.00 4.45
1098 5402 2.749621 GCACTACCTCCAACAAATCCTG 59.250 50.000 0.00 0.00 0.00 3.86
1099 5403 2.644798 AGCACTACCTCCAACAAATCCT 59.355 45.455 0.00 0.00 0.00 3.24
1100 5404 2.749621 CAGCACTACCTCCAACAAATCC 59.250 50.000 0.00 0.00 0.00 3.01
1101 5405 3.674997 TCAGCACTACCTCCAACAAATC 58.325 45.455 0.00 0.00 0.00 2.17
1142 5446 1.349259 GCAACCGACTAATCACGCGT 61.349 55.000 5.58 5.58 0.00 6.01
1143 5447 1.343821 GCAACCGACTAATCACGCG 59.656 57.895 3.53 3.53 0.00 6.01
1181 5485 1.539827 GCTTGTTGGCAACCGACTAAT 59.460 47.619 26.31 0.00 38.66 1.73
1264 5570 3.619751 GTTCGCAACGACTAAGCTAAG 57.380 47.619 0.00 0.00 34.89 2.18
1281 8186 2.626780 GGAAAGGTGGCTGCCGTTC 61.627 63.158 14.98 13.72 43.24 3.95
1288 8193 1.757699 GTCGATCTAGGAAAGGTGGCT 59.242 52.381 0.00 0.00 0.00 4.75
1293 8198 1.033574 AGCCGTCGATCTAGGAAAGG 58.966 55.000 0.00 0.00 0.00 3.11
1300 8205 2.327081 GCGATTAAGCCGTCGATCTA 57.673 50.000 0.00 0.00 40.11 1.98
1314 8219 2.031069 CGATCCGATATATCCGGCGATT 60.031 50.000 9.30 0.00 46.10 3.34
1317 8222 0.040336 CCGATCCGATATATCCGGCG 60.040 60.000 13.08 0.00 46.10 6.46
1325 8230 0.615331 AAGCCATGCCGATCCGATAT 59.385 50.000 0.00 0.00 0.00 1.63
1326 8231 0.037326 GAAGCCATGCCGATCCGATA 60.037 55.000 0.00 0.00 0.00 2.92
1363 8269 1.408422 CTTCCTTTTCTTTTGCGGCG 58.592 50.000 0.51 0.51 0.00 6.46
1364 8270 1.605457 CCCTTCCTTTTCTTTTGCGGC 60.605 52.381 0.00 0.00 0.00 6.53
1365 8271 1.605457 GCCCTTCCTTTTCTTTTGCGG 60.605 52.381 0.00 0.00 0.00 5.69
1366 8272 1.068434 TGCCCTTCCTTTTCTTTTGCG 59.932 47.619 0.00 0.00 0.00 4.85
1425 8334 4.394712 GACGTGGTCCAGCAGGGG 62.395 72.222 0.00 0.00 37.22 4.79
1435 8344 0.685660 GAGGAAGGAAAGGACGTGGT 59.314 55.000 0.00 0.00 0.00 4.16
1445 8354 0.690762 CCTTGTTCGGGAGGAAGGAA 59.309 55.000 0.00 0.00 37.74 3.36
1699 8608 3.998672 GGTGGCACCGGTCGAAGA 61.999 66.667 22.83 0.00 0.00 2.87
1819 8731 1.681793 CCTCTTTCTTATCGCGGAGGA 59.318 52.381 15.92 4.07 41.83 3.71
1822 8737 1.065102 CGTCCTCTTTCTTATCGCGGA 59.935 52.381 6.13 0.00 0.00 5.54
1826 8741 2.733517 GCCTCGTCCTCTTTCTTATCG 58.266 52.381 0.00 0.00 0.00 2.92
1832 8747 1.446272 CACCGCCTCGTCCTCTTTC 60.446 63.158 0.00 0.00 0.00 2.62
1835 8750 4.361971 TCCACCGCCTCGTCCTCT 62.362 66.667 0.00 0.00 0.00 3.69
1837 8752 4.988716 TGTCCACCGCCTCGTCCT 62.989 66.667 0.00 0.00 0.00 3.85
1838 8753 4.436998 CTGTCCACCGCCTCGTCC 62.437 72.222 0.00 0.00 0.00 4.79
1884 8826 2.177594 CTCCTCAGCTTGGCGAACCT 62.178 60.000 0.00 0.00 36.63 3.50
1888 8830 4.087892 GCCTCCTCAGCTTGGCGA 62.088 66.667 0.00 0.00 35.79 5.54
2042 8984 2.367202 GCTCCTCCCACCATCGGAA 61.367 63.158 0.00 0.00 0.00 4.30
2044 8986 2.388890 GATGCTCCTCCCACCATCGG 62.389 65.000 0.00 0.00 0.00 4.18
2095 9037 1.810030 GCTTCCAGCGTTAGGTCGG 60.810 63.158 0.00 0.00 0.00 4.79
2337 9279 4.089408 TGAACACCCTAAACCCTGTAAC 57.911 45.455 0.00 0.00 0.00 2.50
2494 9450 0.105039 GCTCCAGGATTCTACCCACG 59.895 60.000 0.00 0.00 0.00 4.94
2575 9531 2.889045 CCTGCCCATGGTATCATCTTTG 59.111 50.000 11.73 0.00 0.00 2.77
2595 9551 2.187946 CGCTCATGGTCAGGTCCC 59.812 66.667 0.00 0.00 0.00 4.46
2602 9558 1.410517 TCATCTTCCTCGCTCATGGTC 59.589 52.381 0.00 0.00 0.00 4.02
2603 9559 1.411977 CTCATCTTCCTCGCTCATGGT 59.588 52.381 0.00 0.00 0.00 3.55
2604 9560 1.270199 CCTCATCTTCCTCGCTCATGG 60.270 57.143 0.00 0.00 0.00 3.66
2605 9561 1.685517 TCCTCATCTTCCTCGCTCATG 59.314 52.381 0.00 0.00 0.00 3.07
2606 9562 1.962807 CTCCTCATCTTCCTCGCTCAT 59.037 52.381 0.00 0.00 0.00 2.90
2607 9563 1.397672 CTCCTCATCTTCCTCGCTCA 58.602 55.000 0.00 0.00 0.00 4.26
2608 9564 0.673437 CCTCCTCATCTTCCTCGCTC 59.327 60.000 0.00 0.00 0.00 5.03
2609 9565 0.260230 TCCTCCTCATCTTCCTCGCT 59.740 55.000 0.00 0.00 0.00 4.93
2610 9566 1.000731 CATCCTCCTCATCTTCCTCGC 59.999 57.143 0.00 0.00 0.00 5.03
2611 9567 2.295909 GTCATCCTCCTCATCTTCCTCG 59.704 54.545 0.00 0.00 0.00 4.63
2612 9568 2.295909 CGTCATCCTCCTCATCTTCCTC 59.704 54.545 0.00 0.00 0.00 3.71
2613 9569 2.315176 CGTCATCCTCCTCATCTTCCT 58.685 52.381 0.00 0.00 0.00 3.36
2621 9577 2.105128 CACGGCGTCATCCTCCTC 59.895 66.667 10.85 0.00 0.00 3.71
2623 9579 3.432051 CTCCACGGCGTCATCCTCC 62.432 68.421 10.85 0.00 0.00 4.30
2635 9591 1.472376 GCATCCTTCTCCTTCTCCACG 60.472 57.143 0.00 0.00 0.00 4.94
2677 9639 1.839994 GGAACCATGGACTCCTCATCA 59.160 52.381 21.47 0.00 0.00 3.07
2687 9649 0.895530 GACTCGTCAGGAACCATGGA 59.104 55.000 21.47 0.00 0.00 3.41
2779 9741 1.228184 CCTGGCCATCATCCTCTGC 60.228 63.158 5.51 0.00 0.00 4.26
2815 9777 2.873245 GCACATCCTCTCAAGCACAAGA 60.873 50.000 0.00 0.00 0.00 3.02
2864 9826 2.615869 GTTCTTGAGCCTAGACTGCAG 58.384 52.381 13.48 13.48 0.00 4.41
2874 9836 1.402259 TCTCGATCTCGTTCTTGAGCC 59.598 52.381 0.00 0.00 40.80 4.70
2960 9925 4.816385 CCTAACTAATCATGTCACGGCAAT 59.184 41.667 0.00 0.00 0.00 3.56
3021 10261 6.293955 CCGATCAGTGGATTAGTTTGTTGTTT 60.294 38.462 0.00 0.00 32.67 2.83
3030 10270 1.831106 TGCACCGATCAGTGGATTAGT 59.169 47.619 11.00 0.00 38.24 2.24
3031 10271 2.602257 TGCACCGATCAGTGGATTAG 57.398 50.000 11.00 0.00 38.24 1.73
3068 10314 1.290009 GGCACCACCACAAAGATGC 59.710 57.895 0.00 0.00 38.86 3.91
3140 10386 7.875554 GTCAAGTCTCAACTAGAAATTCTCCTT 59.124 37.037 0.00 0.00 35.47 3.36
3166 10412 9.823098 CAATTCTTCTCTATTTCACACTCTTTG 57.177 33.333 0.00 0.00 0.00 2.77
3234 10480 4.380531 GACAATGGAAACTCTGTCTCACA 58.619 43.478 0.00 0.00 38.68 3.58
3303 10549 0.468585 ATCCTGTATCGCCGTACCCA 60.469 55.000 0.00 0.00 0.00 4.51
3506 10753 4.330250 ACACCATGAGAAATTGAGGAGTG 58.670 43.478 0.00 0.00 0.00 3.51
3784 13843 7.862873 GGGTAAAATTACTTGCTGATATTGCTC 59.137 37.037 3.55 0.00 34.16 4.26
3853 13912 7.148086 TGCTAGCTAATGTTGGTTGGATAAAAG 60.148 37.037 17.23 0.00 0.00 2.27
3866 13925 4.826274 TCTGTTCCTGCTAGCTAATGTT 57.174 40.909 17.23 0.00 0.00 2.71
3867 13926 4.500545 CGATCTGTTCCTGCTAGCTAATGT 60.501 45.833 17.23 0.00 0.00 2.71
3987 15162 2.057137 TTGATGTATGCTTGGGGCTC 57.943 50.000 0.00 0.00 42.39 4.70
4035 15345 1.420532 AAGGTAAACACCCGAGCCCA 61.421 55.000 0.00 0.00 0.00 5.36


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

AutoCloner maintained by Alex Coulton.