Multiple sequence alignment - TraesCS2D01G173500

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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 TraesCS2D01G173500 chr2D 100.000 2261 0 0 1 2261 117201068 117198808 0.000000e+00 4176
1 TraesCS2D01G173500 chr2D 92.266 556 35 4 1510 2065 568884157 568884704 0.000000e+00 782
2 TraesCS2D01G173500 chr2D 86.842 646 74 11 3 643 62609242 62609881 0.000000e+00 712
3 TraesCS2D01G173500 chr2D 82.245 490 63 6 214 691 60771631 60771154 3.500000e-108 401
4 TraesCS2D01G173500 chr2A 90.399 802 33 18 708 1497 118489423 118488654 0.000000e+00 1014
5 TraesCS2D01G173500 chr2B 88.360 799 53 8 708 1497 167499889 167499122 0.000000e+00 924
6 TraesCS2D01G173500 chr2B 87.589 701 71 9 8 694 774477986 774477288 0.000000e+00 798
7 TraesCS2D01G173500 chr2B 87.198 703 72 14 3 691 774540274 774539576 0.000000e+00 784
8 TraesCS2D01G173500 chr5A 88.636 704 63 10 1 692 708702775 708702077 0.000000e+00 841
9 TraesCS2D01G173500 chr5A 82.877 146 10 4 2104 2249 521012074 521012204 1.420000e-22 117
10 TraesCS2D01G173500 chr4D 88.160 701 67 9 3 691 464994463 464993767 0.000000e+00 821
11 TraesCS2D01G173500 chr3D 87.887 710 71 8 3 700 587396334 587397040 0.000000e+00 821
12 TraesCS2D01G173500 chr3D 91.741 557 40 3 1512 2064 22361553 22360999 0.000000e+00 769
13 TraesCS2D01G173500 chr1D 93.128 553 30 2 1512 2064 90515104 90514560 0.000000e+00 804
14 TraesCS2D01G173500 chr1D 86.525 705 74 7 3 695 488755465 488756160 0.000000e+00 756
15 TraesCS2D01G173500 chr1D 91.320 553 40 5 1512 2064 196096321 196095777 0.000000e+00 749
16 TraesCS2D01G173500 chr1A 87.589 701 72 9 3 691 534141524 534142221 0.000000e+00 798
17 TraesCS2D01G173500 chr1A 90.519 559 45 2 1506 2064 121875399 121875949 0.000000e+00 732
18 TraesCS2D01G173500 chr7D 87.304 701 75 7 3 691 131826014 131826712 0.000000e+00 789
19 TraesCS2D01G173500 chr7D 84.518 394 47 6 315 697 620699136 620699526 5.890000e-101 377
20 TraesCS2D01G173500 chr7D 87.805 123 14 1 569 691 581733962 581733841 2.340000e-30 143
21 TraesCS2D01G173500 chr6D 91.622 561 44 2 1506 2064 85813103 85813662 0.000000e+00 773
22 TraesCS2D01G173500 chr3A 90.893 560 41 6 1506 2064 42451338 42451888 0.000000e+00 743
23 TraesCS2D01G173500 chr5D 90.426 564 43 5 1506 2064 141447212 141447769 0.000000e+00 732
24 TraesCS2D01G173500 chr5D 83.231 489 70 6 214 691 212256153 212256640 2.670000e-119 438
25 TraesCS2D01G173500 chr5B 90.357 560 46 4 1506 2065 31179316 31179867 0.000000e+00 728
26 TraesCS2D01G173500 chr5B 81.905 210 25 5 494 692 285968790 285968997 5.000000e-37 165
27 TraesCS2D01G173500 chr7A 83.778 487 67 9 216 691 540948904 540948419 3.420000e-123 451
28 TraesCS2D01G173500 chr6B 82.828 495 71 9 214 696 719932598 719933090 4.460000e-117 431
29 TraesCS2D01G173500 chr4A 81.798 456 64 12 254 691 376723696 376724150 4.590000e-97 364
30 TraesCS2D01G173500 chr3B 81.210 314 39 6 401 696 242163278 242162967 3.750000e-58 235


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 TraesCS2D01G173500 chr2D 117198808 117201068 2260 True 4176 4176 100.000 1 2261 1 chr2D.!!$R2 2260
1 TraesCS2D01G173500 chr2D 568884157 568884704 547 False 782 782 92.266 1510 2065 1 chr2D.!!$F2 555
2 TraesCS2D01G173500 chr2D 62609242 62609881 639 False 712 712 86.842 3 643 1 chr2D.!!$F1 640
3 TraesCS2D01G173500 chr2A 118488654 118489423 769 True 1014 1014 90.399 708 1497 1 chr2A.!!$R1 789
4 TraesCS2D01G173500 chr2B 167499122 167499889 767 True 924 924 88.360 708 1497 1 chr2B.!!$R1 789
5 TraesCS2D01G173500 chr2B 774477288 774477986 698 True 798 798 87.589 8 694 1 chr2B.!!$R2 686
6 TraesCS2D01G173500 chr2B 774539576 774540274 698 True 784 784 87.198 3 691 1 chr2B.!!$R3 688
7 TraesCS2D01G173500 chr5A 708702077 708702775 698 True 841 841 88.636 1 692 1 chr5A.!!$R1 691
8 TraesCS2D01G173500 chr4D 464993767 464994463 696 True 821 821 88.160 3 691 1 chr4D.!!$R1 688
9 TraesCS2D01G173500 chr3D 587396334 587397040 706 False 821 821 87.887 3 700 1 chr3D.!!$F1 697
10 TraesCS2D01G173500 chr3D 22360999 22361553 554 True 769 769 91.741 1512 2064 1 chr3D.!!$R1 552
11 TraesCS2D01G173500 chr1D 90514560 90515104 544 True 804 804 93.128 1512 2064 1 chr1D.!!$R1 552
12 TraesCS2D01G173500 chr1D 488755465 488756160 695 False 756 756 86.525 3 695 1 chr1D.!!$F1 692
13 TraesCS2D01G173500 chr1D 196095777 196096321 544 True 749 749 91.320 1512 2064 1 chr1D.!!$R2 552
14 TraesCS2D01G173500 chr1A 534141524 534142221 697 False 798 798 87.589 3 691 1 chr1A.!!$F2 688
15 TraesCS2D01G173500 chr1A 121875399 121875949 550 False 732 732 90.519 1506 2064 1 chr1A.!!$F1 558
16 TraesCS2D01G173500 chr7D 131826014 131826712 698 False 789 789 87.304 3 691 1 chr7D.!!$F1 688
17 TraesCS2D01G173500 chr6D 85813103 85813662 559 False 773 773 91.622 1506 2064 1 chr6D.!!$F1 558
18 TraesCS2D01G173500 chr3A 42451338 42451888 550 False 743 743 90.893 1506 2064 1 chr3A.!!$F1 558
19 TraesCS2D01G173500 chr5D 141447212 141447769 557 False 732 732 90.426 1506 2064 1 chr5D.!!$F1 558
20 TraesCS2D01G173500 chr5B 31179316 31179867 551 False 728 728 90.357 1506 2065 1 chr5B.!!$F1 559

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
649 674 0.250209 AGATGGCTGCATGGATCGAC 60.25 55.0 0.5 0.0 0.0 4.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2104 2159 0.475044 TGGGGCGTAGAAAAACCACT 59.525 50.0 0.0 0.0 0.0 4.0 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
72 73 2.837883 GCGCGTCGTACCCTCCATA 61.838 63.158 8.43 0.00 0.00 2.74
73 74 1.729276 CGCGTCGTACCCTCCATAA 59.271 57.895 0.00 0.00 0.00 1.90
80 81 0.468648 GTACCCTCCATAAAGGCGCT 59.531 55.000 7.64 0.00 37.29 5.92
120 122 1.048724 CGGGGGAGAGTTGCTATGGA 61.049 60.000 0.00 0.00 0.00 3.41
136 138 0.975556 TGGATGAAGGGCTCTGCGTA 60.976 55.000 0.00 0.00 0.00 4.42
144 146 1.439228 GGCTCTGCGTATCAGCTCA 59.561 57.895 4.89 0.00 42.56 4.26
228 230 6.183360 CGTCTGGTAAGAGATGTCAAGTCATA 60.183 42.308 0.00 0.00 31.37 2.15
249 251 2.244117 CTGGCCGACAGGTGCTATGT 62.244 60.000 0.00 0.00 43.70 2.29
302 304 4.693538 TGACAGATCTTTCAGAGTCTCG 57.306 45.455 7.49 0.00 0.00 4.04
362 364 4.735132 CCGTGGTGGCGTCGATGT 62.735 66.667 6.48 0.00 0.00 3.06
438 440 0.678950 TCGATGATGATGGCGGCTTA 59.321 50.000 11.43 0.00 0.00 3.09
480 482 1.202651 ACGCTTTAGGTCTGTTGCACT 60.203 47.619 0.00 0.00 0.00 4.40
487 489 0.663153 GGTCTGTTGCACTGGTTGTC 59.337 55.000 0.00 0.00 0.00 3.18
492 494 2.164219 CTGTTGCACTGGTTGTCTGTTT 59.836 45.455 0.00 0.00 0.00 2.83
551 554 4.690767 ATAGATATGGGGAGTGAGAGCT 57.309 45.455 0.00 0.00 0.00 4.09
555 558 0.636101 ATGGGGAGTGAGAGCTCTCT 59.364 55.000 36.78 22.80 43.25 3.10
556 559 0.324183 TGGGGAGTGAGAGCTCTCTG 60.324 60.000 36.78 0.00 43.25 3.35
567 580 5.863397 GTGAGAGCTCTCTGTATTATCATGC 59.137 44.000 36.78 12.83 43.25 4.06
597 610 2.225019 GCTTCGGATGGCTTGATGTATG 59.775 50.000 0.00 0.00 0.00 2.39
598 611 3.470709 CTTCGGATGGCTTGATGTATGT 58.529 45.455 0.00 0.00 0.00 2.29
599 612 3.558931 TCGGATGGCTTGATGTATGTT 57.441 42.857 0.00 0.00 0.00 2.71
600 613 3.884895 TCGGATGGCTTGATGTATGTTT 58.115 40.909 0.00 0.00 0.00 2.83
601 614 4.269183 TCGGATGGCTTGATGTATGTTTT 58.731 39.130 0.00 0.00 0.00 2.43
602 615 4.704540 TCGGATGGCTTGATGTATGTTTTT 59.295 37.500 0.00 0.00 0.00 1.94
603 616 5.883115 TCGGATGGCTTGATGTATGTTTTTA 59.117 36.000 0.00 0.00 0.00 1.52
604 617 6.545666 TCGGATGGCTTGATGTATGTTTTTAT 59.454 34.615 0.00 0.00 0.00 1.40
605 618 7.717436 TCGGATGGCTTGATGTATGTTTTTATA 59.283 33.333 0.00 0.00 0.00 0.98
606 619 8.349245 CGGATGGCTTGATGTATGTTTTTATAA 58.651 33.333 0.00 0.00 0.00 0.98
607 620 9.683069 GGATGGCTTGATGTATGTTTTTATAAG 57.317 33.333 0.00 0.00 0.00 1.73
643 668 9.715121 AAATAATTAATAAAGATGGCTGCATGG 57.285 29.630 0.50 0.00 0.00 3.66
649 674 0.250209 AGATGGCTGCATGGATCGAC 60.250 55.000 0.50 0.00 0.00 4.20
662 689 1.137872 GGATCGACTGATGCAGAGGTT 59.862 52.381 0.82 0.00 42.10 3.50
663 690 2.362397 GGATCGACTGATGCAGAGGTTA 59.638 50.000 0.82 0.00 42.10 2.85
721 748 6.291479 CGATGTCATATATATGCACTTGCTCG 60.291 42.308 16.59 16.50 42.66 5.03
777 804 1.938625 TGATCGATGCGATGCTCAAA 58.061 45.000 0.54 0.00 47.00 2.69
918 961 4.202223 GGATCGACTATAAAAGGAGGCACA 60.202 45.833 0.00 0.00 0.00 4.57
957 1001 2.187946 CCGGCTGCAAGGACTAGG 59.812 66.667 7.51 0.00 0.00 3.02
989 1033 5.451242 GGTTCTGAGCTTCTAGACACCATAG 60.451 48.000 0.00 0.00 30.89 2.23
990 1034 3.634448 TCTGAGCTTCTAGACACCATAGC 59.366 47.826 4.03 4.03 0.00 2.97
991 1035 2.695666 TGAGCTTCTAGACACCATAGCC 59.304 50.000 7.99 2.15 0.00 3.93
1269 1313 2.351336 CTGCCCGTTAGCTACCTCGG 62.351 65.000 18.47 18.47 42.22 4.63
1298 1342 0.176680 ACCTGCTCAGACTAATGCCG 59.823 55.000 0.00 0.00 0.00 5.69
1300 1344 1.134699 CCTGCTCAGACTAATGCCGAA 60.135 52.381 0.00 0.00 0.00 4.30
1327 1371 4.141914 GGCAACATAGTGTCTAAGCCTAGT 60.142 45.833 0.00 0.00 33.86 2.57
1328 1372 4.806247 GCAACATAGTGTCTAAGCCTAGTG 59.194 45.833 0.00 0.00 0.00 2.74
1345 1389 1.148310 GTGTCGTGTGATGGGTTCAG 58.852 55.000 0.00 0.00 34.17 3.02
1355 1399 2.224843 TGATGGGTTCAGCTTGACATGT 60.225 45.455 0.00 0.00 0.00 3.21
1356 1400 1.608055 TGGGTTCAGCTTGACATGTG 58.392 50.000 1.15 0.00 0.00 3.21
1370 1414 5.034852 TGACATGTGAACTTCTCCTGAAA 57.965 39.130 1.15 0.00 0.00 2.69
1371 1415 4.816385 TGACATGTGAACTTCTCCTGAAAC 59.184 41.667 1.15 0.00 0.00 2.78
1372 1416 4.137543 ACATGTGAACTTCTCCTGAAACC 58.862 43.478 0.00 0.00 0.00 3.27
1373 1417 4.141390 ACATGTGAACTTCTCCTGAAACCT 60.141 41.667 0.00 0.00 0.00 3.50
1374 1418 3.808728 TGTGAACTTCTCCTGAAACCTG 58.191 45.455 0.00 0.00 0.00 4.00
1457 1503 8.345565 GCTACTATGTATGCAGTTGCTTAATTT 58.654 33.333 5.62 0.00 39.45 1.82
1482 1528 6.272318 TGAGTGTTTCTGCTGTAAAATTTGG 58.728 36.000 0.00 0.00 0.00 3.28
1497 1543 8.417106 TGTAAAATTTGGAAGTTGCATGAAGTA 58.583 29.630 0.00 0.00 0.00 2.24
1498 1544 9.423061 GTAAAATTTGGAAGTTGCATGAAGTAT 57.577 29.630 0.00 0.00 0.00 2.12
1579 1625 4.002982 TGAAACTATTTCACGCAGCTGAT 58.997 39.130 20.43 2.89 44.21 2.90
1586 1632 5.627499 ATTTCACGCAGCTGATCTTTTTA 57.373 34.783 20.43 0.00 0.00 1.52
1660 1707 4.082523 GCTACACGCCTGGCCAGA 62.083 66.667 34.91 12.10 0.00 3.86
1692 1739 7.463431 TCCCAGACTGCCTAAAAATTACTAAA 58.537 34.615 0.00 0.00 0.00 1.85
1831 1878 3.306818 GCTAGGCGCTACACTGTATAAC 58.693 50.000 7.64 0.00 35.14 1.89
1832 1879 3.004524 GCTAGGCGCTACACTGTATAACT 59.995 47.826 7.64 0.00 35.14 2.24
1855 1906 2.133281 TAGTGTGGCGCCTAACTCTA 57.867 50.000 29.90 24.40 0.00 2.43
1884 1935 6.438763 GCTGCACACTGACTTAGTAATTTTT 58.561 36.000 0.00 0.00 37.60 1.94
1886 1937 7.561021 TGCACACTGACTTAGTAATTTTTGA 57.439 32.000 0.00 0.00 37.60 2.69
1903 1954 1.666553 GAATCACACGGGTGCGACA 60.667 57.895 14.50 0.00 44.87 4.35
1966 2017 2.372040 TAGTGTGGCGCCTTCGTGTT 62.372 55.000 29.70 9.15 38.14 3.32
1986 2037 0.600782 GGGCGTCACACGAAAAGGTA 60.601 55.000 0.00 0.00 46.05 3.08
2020 2075 1.608590 AGTTTCACGGGCAGTTCATTG 59.391 47.619 0.00 0.00 0.00 2.82
2065 2120 6.063404 AGGTCAAATTTGTCAATTTTGCCAT 58.937 32.000 26.52 15.84 40.09 4.40
2066 2121 7.222872 AGGTCAAATTTGTCAATTTTGCCATA 58.777 30.769 26.52 13.38 40.09 2.74
2067 2122 7.173047 AGGTCAAATTTGTCAATTTTGCCATAC 59.827 33.333 26.52 19.48 40.09 2.39
2068 2123 7.041508 GGTCAAATTTGTCAATTTTGCCATACA 60.042 33.333 23.62 10.65 40.09 2.29
2069 2124 8.011106 GTCAAATTTGTCAATTTTGCCATACAG 58.989 33.333 20.61 3.55 40.09 2.74
2070 2125 7.930325 TCAAATTTGTCAATTTTGCCATACAGA 59.070 29.630 20.61 5.74 40.09 3.41
2071 2126 8.723311 CAAATTTGTCAATTTTGCCATACAGAT 58.277 29.630 16.05 0.00 40.09 2.90
2072 2127 8.851541 AATTTGTCAATTTTGCCATACAGATT 57.148 26.923 0.00 0.00 0.00 2.40
2073 2128 7.655236 TTTGTCAATTTTGCCATACAGATTG 57.345 32.000 0.00 0.00 36.08 2.67
2074 2129 6.343716 TGTCAATTTTGCCATACAGATTGT 57.656 33.333 0.00 0.00 36.14 2.71
2075 2130 6.389091 TGTCAATTTTGCCATACAGATTGTC 58.611 36.000 0.00 0.00 36.14 3.18
2076 2131 5.807011 GTCAATTTTGCCATACAGATTGTCC 59.193 40.000 0.00 0.00 36.14 4.02
2077 2132 5.716228 TCAATTTTGCCATACAGATTGTCCT 59.284 36.000 0.00 0.00 36.14 3.85
2078 2133 5.841957 ATTTTGCCATACAGATTGTCCTC 57.158 39.130 0.00 0.00 0.00 3.71
2079 2134 2.602257 TGCCATACAGATTGTCCTCG 57.398 50.000 0.00 0.00 0.00 4.63
2080 2135 1.831106 TGCCATACAGATTGTCCTCGT 59.169 47.619 0.00 0.00 0.00 4.18
2081 2136 2.205074 GCCATACAGATTGTCCTCGTG 58.795 52.381 0.00 0.00 0.00 4.35
2082 2137 2.826428 CCATACAGATTGTCCTCGTGG 58.174 52.381 0.00 0.00 0.00 4.94
2083 2138 2.205074 CATACAGATTGTCCTCGTGGC 58.795 52.381 0.00 0.00 0.00 5.01
2084 2139 1.557099 TACAGATTGTCCTCGTGGCT 58.443 50.000 0.00 0.00 0.00 4.75
2085 2140 0.687354 ACAGATTGTCCTCGTGGCTT 59.313 50.000 0.00 0.00 0.00 4.35
2086 2141 1.081892 CAGATTGTCCTCGTGGCTTG 58.918 55.000 0.00 0.00 0.00 4.01
2087 2142 0.674895 AGATTGTCCTCGTGGCTTGC 60.675 55.000 0.00 0.00 0.00 4.01
2088 2143 1.970917 GATTGTCCTCGTGGCTTGCG 61.971 60.000 0.00 0.00 0.00 4.85
2091 2146 4.393155 TCCTCGTGGCTTGCGCAT 62.393 61.111 12.75 0.00 38.10 4.73
2092 2147 3.434319 CCTCGTGGCTTGCGCATT 61.434 61.111 12.75 0.00 38.10 3.56
2093 2148 2.562912 CTCGTGGCTTGCGCATTT 59.437 55.556 12.75 0.00 38.10 2.32
2094 2149 1.081242 CTCGTGGCTTGCGCATTTT 60.081 52.632 12.75 0.00 38.10 1.82
2095 2150 1.339235 CTCGTGGCTTGCGCATTTTG 61.339 55.000 12.75 3.15 38.10 2.44
2096 2151 1.371512 CGTGGCTTGCGCATTTTGA 60.372 52.632 12.75 0.00 38.10 2.69
2097 2152 1.608093 CGTGGCTTGCGCATTTTGAC 61.608 55.000 12.75 4.89 38.10 3.18
2098 2153 0.318955 GTGGCTTGCGCATTTTGACT 60.319 50.000 12.75 0.00 38.10 3.41
2099 2154 1.068610 GTGGCTTGCGCATTTTGACTA 60.069 47.619 12.75 0.00 38.10 2.59
2100 2155 1.068610 TGGCTTGCGCATTTTGACTAC 60.069 47.619 12.75 0.00 38.10 2.73
2101 2156 1.250476 GCTTGCGCATTTTGACTACG 58.750 50.000 12.75 0.00 35.78 3.51
2102 2157 1.399727 GCTTGCGCATTTTGACTACGT 60.400 47.619 12.75 0.00 35.78 3.57
2103 2158 2.233355 CTTGCGCATTTTGACTACGTG 58.767 47.619 12.75 0.00 0.00 4.49
2104 2159 1.503294 TGCGCATTTTGACTACGTGA 58.497 45.000 5.66 0.00 0.00 4.35
2105 2160 1.459209 TGCGCATTTTGACTACGTGAG 59.541 47.619 5.66 0.00 0.00 3.51
2119 2174 1.862827 ACGTGAGTGGTTTTTCTACGC 59.137 47.619 0.00 0.00 46.97 4.42
2120 2175 1.193874 CGTGAGTGGTTTTTCTACGCC 59.806 52.381 0.00 0.00 32.65 5.68
2121 2176 1.534163 GTGAGTGGTTTTTCTACGCCC 59.466 52.381 0.00 0.00 32.65 6.13
2122 2177 1.162698 GAGTGGTTTTTCTACGCCCC 58.837 55.000 0.00 0.00 32.65 5.80
2123 2178 0.475044 AGTGGTTTTTCTACGCCCCA 59.525 50.000 0.00 0.00 32.65 4.96
2124 2179 0.879090 GTGGTTTTTCTACGCCCCAG 59.121 55.000 0.00 0.00 0.00 4.45
2125 2180 0.891904 TGGTTTTTCTACGCCCCAGC 60.892 55.000 0.00 0.00 0.00 4.85
2126 2181 0.608308 GGTTTTTCTACGCCCCAGCT 60.608 55.000 0.00 0.00 36.60 4.24
2127 2182 0.803117 GTTTTTCTACGCCCCAGCTC 59.197 55.000 0.00 0.00 36.60 4.09
2128 2183 0.672401 TTTTTCTACGCCCCAGCTCG 60.672 55.000 0.00 0.00 36.60 5.03
2129 2184 2.515996 TTTTCTACGCCCCAGCTCGG 62.516 60.000 0.00 0.00 36.60 4.63
2130 2185 4.753662 TCTACGCCCCAGCTCGGT 62.754 66.667 0.00 0.00 36.60 4.69
2131 2186 4.514577 CTACGCCCCAGCTCGGTG 62.515 72.222 8.14 8.14 36.60 4.94
2142 2197 4.063967 CTCGGTGCACCCACGCTA 62.064 66.667 29.95 7.80 43.00 4.26
2143 2198 4.367023 TCGGTGCACCCACGCTAC 62.367 66.667 29.95 2.66 43.00 3.58
2145 2200 4.675029 GGTGCACCCACGCTACGT 62.675 66.667 26.31 0.00 43.00 3.57
2146 2201 2.663852 GTGCACCCACGCTACGTT 60.664 61.111 5.22 0.00 38.32 3.99
2147 2202 2.356553 TGCACCCACGCTACGTTC 60.357 61.111 0.00 0.00 38.32 3.95
2148 2203 2.356553 GCACCCACGCTACGTTCA 60.357 61.111 0.00 0.00 38.32 3.18
2149 2204 2.664436 GCACCCACGCTACGTTCAC 61.664 63.158 0.00 0.00 38.32 3.18
2150 2205 2.049802 ACCCACGCTACGTTCACG 60.050 61.111 0.00 0.00 38.32 4.35
2151 2206 3.475774 CCCACGCTACGTTCACGC 61.476 66.667 0.00 0.00 44.43 5.34
2152 2207 2.731721 CCACGCTACGTTCACGCA 60.732 61.111 0.00 0.00 44.43 5.24
2153 2208 2.304401 CCACGCTACGTTCACGCAA 61.304 57.895 0.00 0.00 44.43 4.85
2154 2209 1.127817 CACGCTACGTTCACGCAAG 59.872 57.895 0.00 0.00 44.43 4.01
2155 2210 1.008194 ACGCTACGTTCACGCAAGA 60.008 52.632 0.00 0.00 44.43 3.02
2156 2211 0.595567 ACGCTACGTTCACGCAAGAA 60.596 50.000 0.00 0.00 44.43 2.52
2157 2212 0.505231 CGCTACGTTCACGCAAGAAA 59.495 50.000 0.00 0.00 44.43 2.52
2158 2213 1.071107 CGCTACGTTCACGCAAGAAAA 60.071 47.619 0.00 0.00 44.43 2.29
2159 2214 2.295696 GCTACGTTCACGCAAGAAAAC 58.704 47.619 0.00 0.00 44.43 2.43
2160 2215 2.033151 GCTACGTTCACGCAAGAAAACT 60.033 45.455 0.00 0.00 44.43 2.66
2161 2216 3.545426 GCTACGTTCACGCAAGAAAACTT 60.545 43.478 0.00 0.00 44.43 2.66
2162 2217 4.318263 GCTACGTTCACGCAAGAAAACTTA 60.318 41.667 0.00 0.00 44.43 2.24
2163 2218 4.191662 ACGTTCACGCAAGAAAACTTAG 57.808 40.909 0.00 0.00 44.43 2.18
2164 2219 2.964768 CGTTCACGCAAGAAAACTTAGC 59.035 45.455 0.00 0.00 43.62 3.09
2165 2220 3.545228 CGTTCACGCAAGAAAACTTAGCA 60.545 43.478 0.00 0.00 43.62 3.49
2166 2221 4.347813 GTTCACGCAAGAAAACTTAGCAA 58.652 39.130 0.00 0.00 43.62 3.91
2167 2222 4.624336 TCACGCAAGAAAACTTAGCAAA 57.376 36.364 0.00 0.00 43.62 3.68
2168 2223 4.987832 TCACGCAAGAAAACTTAGCAAAA 58.012 34.783 0.00 0.00 43.62 2.44
2169 2224 5.587289 TCACGCAAGAAAACTTAGCAAAAT 58.413 33.333 0.00 0.00 43.62 1.82
2170 2225 6.730175 TCACGCAAGAAAACTTAGCAAAATA 58.270 32.000 0.00 0.00 43.62 1.40
2171 2226 7.367285 TCACGCAAGAAAACTTAGCAAAATAT 58.633 30.769 0.00 0.00 43.62 1.28
2172 2227 7.865385 TCACGCAAGAAAACTTAGCAAAATATT 59.135 29.630 0.00 0.00 43.62 1.28
2173 2228 8.487176 CACGCAAGAAAACTTAGCAAAATATTT 58.513 29.630 0.00 0.00 43.62 1.40
2174 2229 9.040939 ACGCAAGAAAACTTAGCAAAATATTTT 57.959 25.926 7.64 7.64 43.62 1.82
2175 2230 9.862585 CGCAAGAAAACTTAGCAAAATATTTTT 57.137 25.926 10.77 0.79 43.02 1.94
2206 2261 9.617523 AAAAATCTGAAACTTTGTGGAAATGAT 57.382 25.926 0.00 0.00 0.00 2.45
2207 2262 9.617523 AAAATCTGAAACTTTGTGGAAATGATT 57.382 25.926 0.00 0.00 0.00 2.57
2242 2297 8.925161 TGTTATAGATGCTTGTAAATTTTGGC 57.075 30.769 0.00 0.00 0.00 4.52
2243 2298 7.700234 TGTTATAGATGCTTGTAAATTTTGGCG 59.300 33.333 0.00 0.00 0.00 5.69
2244 2299 3.253230 AGATGCTTGTAAATTTTGGCGC 58.747 40.909 0.00 0.00 0.00 6.53
2245 2300 2.810439 TGCTTGTAAATTTTGGCGCT 57.190 40.000 7.64 0.00 0.00 5.92
2246 2301 2.671596 TGCTTGTAAATTTTGGCGCTC 58.328 42.857 7.64 0.00 0.00 5.03
2247 2302 2.035193 TGCTTGTAAATTTTGGCGCTCA 59.965 40.909 7.64 0.00 0.00 4.26
2248 2303 3.056304 GCTTGTAAATTTTGGCGCTCAA 58.944 40.909 7.64 7.34 0.00 3.02
2249 2304 3.121778 GCTTGTAAATTTTGGCGCTCAAG 59.878 43.478 7.64 9.28 36.62 3.02
2250 2305 3.296322 TGTAAATTTTGGCGCTCAAGG 57.704 42.857 7.64 0.00 36.62 3.61
2251 2306 2.029470 TGTAAATTTTGGCGCTCAAGGG 60.029 45.455 7.64 0.00 36.62 3.95
2252 2307 1.337118 AAATTTTGGCGCTCAAGGGA 58.663 45.000 7.64 1.14 36.62 4.20
2253 2308 0.603065 AATTTTGGCGCTCAAGGGAC 59.397 50.000 7.64 0.00 36.62 4.46
2254 2309 0.539438 ATTTTGGCGCTCAAGGGACA 60.539 50.000 7.64 0.00 44.80 4.02
2255 2310 0.539438 TTTTGGCGCTCAAGGGACAT 60.539 50.000 7.64 0.00 45.80 3.06
2256 2311 0.960364 TTTGGCGCTCAAGGGACATC 60.960 55.000 7.64 0.00 45.80 3.06
2257 2312 1.841302 TTGGCGCTCAAGGGACATCT 61.841 55.000 7.64 0.00 45.80 2.90
2258 2313 1.817099 GGCGCTCAAGGGACATCTG 60.817 63.158 7.64 0.00 35.84 2.90
2259 2314 1.219124 GCGCTCAAGGGACATCTGA 59.781 57.895 0.00 0.00 0.00 3.27
2260 2315 0.809241 GCGCTCAAGGGACATCTGAG 60.809 60.000 0.00 0.00 0.00 3.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 1.153168 CGCCGTCCCAATCCAAGAT 60.153 57.895 0.00 0.00 0.00 2.40
72 73 2.348998 CTCCCAGACAGCGCCTTT 59.651 61.111 2.29 0.00 0.00 3.11
73 74 3.710722 CCTCCCAGACAGCGCCTT 61.711 66.667 2.29 0.00 0.00 4.35
80 81 2.121963 ACCCAAGCCTCCCAGACA 60.122 61.111 0.00 0.00 0.00 3.41
120 122 1.123077 TGATACGCAGAGCCCTTCAT 58.877 50.000 0.00 0.00 0.00 2.57
144 146 0.960364 CCACACCATTGCCGCTACTT 60.960 55.000 0.00 0.00 0.00 2.24
249 251 1.302431 CCGACCAGGCATGACACAA 60.302 57.895 0.00 0.00 0.00 3.33
419 421 0.678950 TAAGCCGCCATCATCATCGA 59.321 50.000 0.00 0.00 0.00 3.59
438 440 5.164031 CGTACACTACATGCACACGTTTTAT 60.164 40.000 0.00 0.00 30.64 1.40
480 482 3.374220 ACGTATCGAAACAGACAACCA 57.626 42.857 0.00 0.00 0.00 3.67
487 489 5.051039 CCATCCACATAACGTATCGAAACAG 60.051 44.000 0.00 0.00 0.00 3.16
492 494 4.379082 CGATCCATCCACATAACGTATCGA 60.379 45.833 3.53 0.00 36.67 3.59
551 554 4.584743 ACCACTCGCATGATAATACAGAGA 59.415 41.667 0.00 0.00 0.00 3.10
555 558 3.727726 CCACCACTCGCATGATAATACA 58.272 45.455 0.00 0.00 0.00 2.29
556 559 2.480419 GCCACCACTCGCATGATAATAC 59.520 50.000 0.00 0.00 0.00 1.89
567 580 1.811266 CATCCGAAGCCACCACTCG 60.811 63.158 0.00 0.00 0.00 4.18
643 668 2.593346 AACCTCTGCATCAGTCGATC 57.407 50.000 0.00 0.00 32.61 3.69
649 674 1.207791 ACCCCTAACCTCTGCATCAG 58.792 55.000 0.00 0.00 0.00 2.90
662 689 5.666474 TGAAAAAGGAGGTTAAACCCCTA 57.334 39.130 0.00 0.00 39.75 3.53
663 690 4.546224 TGAAAAAGGAGGTTAAACCCCT 57.454 40.909 0.00 0.00 39.75 4.79
691 718 9.533983 CAAGTGCATATATATGACATCGTTTTC 57.466 33.333 24.06 9.17 35.75 2.29
695 722 6.401394 AGCAAGTGCATATATATGACATCGT 58.599 36.000 24.06 11.82 45.16 3.73
696 723 6.291479 CGAGCAAGTGCATATATATGACATCG 60.291 42.308 24.06 19.30 45.16 3.84
697 724 6.533012 ACGAGCAAGTGCATATATATGACATC 59.467 38.462 24.06 13.79 45.16 3.06
698 725 6.401394 ACGAGCAAGTGCATATATATGACAT 58.599 36.000 24.06 10.74 45.16 3.06
699 726 5.783111 ACGAGCAAGTGCATATATATGACA 58.217 37.500 24.06 17.78 45.16 3.58
700 727 6.712241 AACGAGCAAGTGCATATATATGAC 57.288 37.500 24.06 17.81 45.16 3.06
701 728 7.602753 AGTAACGAGCAAGTGCATATATATGA 58.397 34.615 24.06 8.45 45.16 2.15
702 729 7.818493 AGTAACGAGCAAGTGCATATATATG 57.182 36.000 17.01 17.01 45.16 1.78
703 730 7.702772 GCTAGTAACGAGCAAGTGCATATATAT 59.297 37.037 6.00 0.00 45.16 0.86
704 731 7.027760 GCTAGTAACGAGCAAGTGCATATATA 58.972 38.462 6.00 0.00 45.16 0.86
705 732 5.864474 GCTAGTAACGAGCAAGTGCATATAT 59.136 40.000 6.00 0.00 45.16 0.86
706 733 5.220381 GCTAGTAACGAGCAAGTGCATATA 58.780 41.667 6.00 0.00 45.16 0.86
721 748 2.787680 CACTTACCGCGATGCTAGTAAC 59.212 50.000 8.23 0.00 0.00 2.50
755 782 2.486918 TGAGCATCGCATCGATCATTT 58.513 42.857 0.00 0.00 45.19 2.32
777 804 2.029380 GCGGCAAAGGTAAATTTCAGGT 60.029 45.455 0.00 0.00 0.00 4.00
804 831 5.598417 TCCGAATCTCATCTCAGTTATTGGA 59.402 40.000 0.00 0.00 0.00 3.53
942 986 2.808567 GCTTATCCTAGTCCTTGCAGCC 60.809 54.545 0.00 0.00 0.00 4.85
1203 1247 2.048127 AAAGCGACGAGGTGCTCC 60.048 61.111 0.00 0.00 41.46 4.70
1276 1320 2.355108 GGCATTAGTCTGAGCAGGTGAA 60.355 50.000 0.00 0.00 0.00 3.18
1278 1322 1.661341 GGCATTAGTCTGAGCAGGTG 58.339 55.000 0.00 0.00 0.00 4.00
1298 1342 6.073003 GGCTTAGACACTATGTTGCCATATTC 60.073 42.308 0.00 0.00 34.99 1.75
1300 1344 5.072329 AGGCTTAGACACTATGTTGCCATAT 59.928 40.000 0.00 0.00 36.23 1.78
1306 1350 5.967088 ACACTAGGCTTAGACACTATGTTG 58.033 41.667 10.24 0.00 0.00 3.33
1315 1359 2.486982 TCACACGACACTAGGCTTAGAC 59.513 50.000 10.24 0.32 0.00 2.59
1327 1371 0.602638 GCTGAACCCATCACACGACA 60.603 55.000 0.00 0.00 33.47 4.35
1328 1372 0.320771 AGCTGAACCCATCACACGAC 60.321 55.000 0.00 0.00 33.47 4.34
1345 1389 3.188048 CAGGAGAAGTTCACATGTCAAGC 59.812 47.826 5.50 0.00 0.00 4.01
1355 1399 4.771114 TTCAGGTTTCAGGAGAAGTTCA 57.229 40.909 5.50 0.00 34.71 3.18
1356 1400 7.929941 ATTATTCAGGTTTCAGGAGAAGTTC 57.070 36.000 0.00 0.00 34.71 3.01
1370 1414 8.723365 TCCTGGATTTACACATATTATTCAGGT 58.277 33.333 0.00 0.00 38.32 4.00
1371 1415 9.224267 CTCCTGGATTTACACATATTATTCAGG 57.776 37.037 0.00 0.00 38.46 3.86
1457 1503 6.756074 CCAAATTTTACAGCAGAAACACTCAA 59.244 34.615 0.00 0.00 0.00 3.02
1497 1543 9.028284 CAGGTCAAATTTGCCCAATCTATATAT 57.972 33.333 19.76 0.00 0.00 0.86
1498 1544 8.004215 ACAGGTCAAATTTGCCCAATCTATATA 58.996 33.333 19.76 0.00 0.00 0.86
1499 1545 6.840705 ACAGGTCAAATTTGCCCAATCTATAT 59.159 34.615 19.76 0.00 0.00 0.86
1500 1546 6.096705 CACAGGTCAAATTTGCCCAATCTATA 59.903 38.462 19.76 0.00 0.00 1.31
1501 1547 5.025453 ACAGGTCAAATTTGCCCAATCTAT 58.975 37.500 19.76 0.00 0.00 1.98
1502 1548 4.220382 CACAGGTCAAATTTGCCCAATCTA 59.780 41.667 19.76 0.00 0.00 1.98
1503 1549 3.007182 CACAGGTCAAATTTGCCCAATCT 59.993 43.478 19.76 2.97 0.00 2.40
1504 1550 3.328505 CACAGGTCAAATTTGCCCAATC 58.671 45.455 19.76 0.56 0.00 2.67
1508 1554 1.000843 GTCCACAGGTCAAATTTGCCC 59.999 52.381 20.93 16.79 0.00 5.36
1573 1619 3.375299 GGCGTCACATAAAAAGATCAGCT 59.625 43.478 0.00 0.00 0.00 4.24
1579 1625 2.070783 GTCGGGCGTCACATAAAAAGA 58.929 47.619 0.00 0.00 0.00 2.52
1586 1632 3.215597 TTCGTGTCGGGCGTCACAT 62.216 57.895 0.00 0.00 34.69 3.21
1660 1707 1.001641 GGCAGTCTGGGATGCAACT 60.002 57.895 1.14 0.00 44.37 3.16
1692 1739 3.129988 GCTCTTAGGCTTTGCACAATGAT 59.870 43.478 0.00 0.00 0.00 2.45
1831 1878 2.100916 AGTTAGGCGCCACACTATACAG 59.899 50.000 31.54 0.00 0.00 2.74
1832 1879 2.100252 GAGTTAGGCGCCACACTATACA 59.900 50.000 31.54 0.00 0.00 2.29
1855 1906 2.947938 AAGTCAGTGTGCAGCGCCTT 62.948 55.000 2.29 0.00 0.00 4.35
1884 1935 2.737830 TCGCACCCGTGTGATTCA 59.262 55.556 0.90 0.00 45.76 2.57
1903 1954 4.394712 GCTACACGCCTGGCCAGT 62.395 66.667 30.63 15.65 0.00 4.00
1921 1972 2.039418 TGCAACGCCTCATAGATAGGT 58.961 47.619 0.00 0.00 36.43 3.08
1966 2017 1.890041 CCTTTTCGTGTGACGCCCA 60.890 57.895 0.00 0.00 42.21 5.36
1978 2029 0.869730 TTCACGCGGCTTACCTTTTC 59.130 50.000 12.47 0.00 0.00 2.29
1986 2037 2.147958 TGAAACTATTTCACGCGGCTT 58.852 42.857 12.47 0.00 44.21 4.35
2065 2120 1.557099 AGCCACGAGGACAATCTGTA 58.443 50.000 1.86 0.00 36.89 2.74
2066 2121 0.687354 AAGCCACGAGGACAATCTGT 59.313 50.000 1.86 0.00 36.89 3.41
2067 2122 1.081892 CAAGCCACGAGGACAATCTG 58.918 55.000 1.86 0.00 36.89 2.90
2068 2123 0.674895 GCAAGCCACGAGGACAATCT 60.675 55.000 1.86 0.00 36.89 2.40
2069 2124 1.796796 GCAAGCCACGAGGACAATC 59.203 57.895 1.86 0.00 36.89 2.67
2070 2125 2.034879 CGCAAGCCACGAGGACAAT 61.035 57.895 1.86 0.00 36.89 2.71
2071 2126 2.664851 CGCAAGCCACGAGGACAA 60.665 61.111 1.86 0.00 36.89 3.18
2083 2138 2.096466 TCACGTAGTCAAAATGCGCAAG 60.096 45.455 17.11 5.03 41.61 4.01
2084 2139 1.867865 TCACGTAGTCAAAATGCGCAA 59.132 42.857 17.11 0.00 41.61 4.85
2085 2140 1.459209 CTCACGTAGTCAAAATGCGCA 59.541 47.619 14.96 14.96 41.61 6.09
2086 2141 1.459592 ACTCACGTAGTCAAAATGCGC 59.540 47.619 0.00 0.00 41.61 6.09
2087 2142 2.159841 CCACTCACGTAGTCAAAATGCG 60.160 50.000 0.00 0.00 41.61 4.73
2088 2143 2.806244 ACCACTCACGTAGTCAAAATGC 59.194 45.455 0.00 0.00 41.61 3.56
2089 2144 5.418310 AAACCACTCACGTAGTCAAAATG 57.582 39.130 0.00 0.00 41.61 2.32
2090 2145 6.317893 AGAAAAACCACTCACGTAGTCAAAAT 59.682 34.615 0.00 0.00 41.61 1.82
2091 2146 5.644636 AGAAAAACCACTCACGTAGTCAAAA 59.355 36.000 0.00 0.00 41.61 2.44
2092 2147 5.180271 AGAAAAACCACTCACGTAGTCAAA 58.820 37.500 0.00 0.00 41.61 2.69
2093 2148 4.761975 AGAAAAACCACTCACGTAGTCAA 58.238 39.130 0.00 0.00 41.61 3.18
2094 2149 4.395959 AGAAAAACCACTCACGTAGTCA 57.604 40.909 0.00 0.00 41.61 3.41
2095 2150 4.380974 CGTAGAAAAACCACTCACGTAGTC 59.619 45.833 0.00 0.00 41.61 2.59
2097 2152 3.120782 GCGTAGAAAAACCACTCACGTAG 59.879 47.826 0.00 0.00 0.00 3.51
2098 2153 3.052036 GCGTAGAAAAACCACTCACGTA 58.948 45.455 0.00 0.00 0.00 3.57
2099 2154 1.862827 GCGTAGAAAAACCACTCACGT 59.137 47.619 0.00 0.00 0.00 4.49
2100 2155 1.193874 GGCGTAGAAAAACCACTCACG 59.806 52.381 0.00 0.00 0.00 4.35
2101 2156 1.534163 GGGCGTAGAAAAACCACTCAC 59.466 52.381 0.00 0.00 0.00 3.51
2102 2157 1.543871 GGGGCGTAGAAAAACCACTCA 60.544 52.381 0.00 0.00 0.00 3.41
2103 2158 1.162698 GGGGCGTAGAAAAACCACTC 58.837 55.000 0.00 0.00 0.00 3.51
2104 2159 0.475044 TGGGGCGTAGAAAAACCACT 59.525 50.000 0.00 0.00 0.00 4.00
2105 2160 0.879090 CTGGGGCGTAGAAAAACCAC 59.121 55.000 0.00 0.00 0.00 4.16
2106 2161 0.891904 GCTGGGGCGTAGAAAAACCA 60.892 55.000 0.00 0.00 0.00 3.67
2107 2162 0.608308 AGCTGGGGCGTAGAAAAACC 60.608 55.000 0.00 0.00 44.37 3.27
2108 2163 0.803117 GAGCTGGGGCGTAGAAAAAC 59.197 55.000 0.00 0.00 44.37 2.43
2109 2164 0.672401 CGAGCTGGGGCGTAGAAAAA 60.672 55.000 0.00 0.00 44.37 1.94
2110 2165 1.079405 CGAGCTGGGGCGTAGAAAA 60.079 57.895 0.00 0.00 44.37 2.29
2111 2166 2.577059 CGAGCTGGGGCGTAGAAA 59.423 61.111 0.00 0.00 44.37 2.52
2112 2167 3.458163 CCGAGCTGGGGCGTAGAA 61.458 66.667 6.92 0.00 44.37 2.10
2113 2168 4.753662 ACCGAGCTGGGGCGTAGA 62.754 66.667 19.90 0.00 44.64 2.59
2114 2169 4.514577 CACCGAGCTGGGGCGTAG 62.515 72.222 19.90 0.00 44.64 3.51
2125 2180 4.063967 TAGCGTGGGTGCACCGAG 62.064 66.667 29.08 22.05 44.64 4.63
2126 2181 4.367023 GTAGCGTGGGTGCACCGA 62.367 66.667 29.08 23.75 44.64 4.69
2128 2183 4.675029 ACGTAGCGTGGGTGCACC 62.675 66.667 28.57 28.57 39.18 5.01
2129 2184 2.663852 AACGTAGCGTGGGTGCAC 60.664 61.111 8.80 8.80 39.99 4.57
2130 2185 2.356553 GAACGTAGCGTGGGTGCA 60.357 61.111 0.00 0.00 39.99 4.57
2131 2186 2.356553 TGAACGTAGCGTGGGTGC 60.357 61.111 0.00 0.00 39.99 5.01
2132 2187 2.369629 CGTGAACGTAGCGTGGGTG 61.370 63.158 0.00 0.00 39.99 4.61
2133 2188 2.049802 CGTGAACGTAGCGTGGGT 60.050 61.111 0.00 0.00 39.99 4.51
2134 2189 3.475774 GCGTGAACGTAGCGTGGG 61.476 66.667 4.59 0.00 39.99 4.61
2135 2190 2.210524 CTTGCGTGAACGTAGCGTGG 62.211 60.000 4.59 0.00 39.99 4.94
2136 2191 1.127817 CTTGCGTGAACGTAGCGTG 59.872 57.895 4.59 0.00 39.99 5.34
2137 2192 0.595567 TTCTTGCGTGAACGTAGCGT 60.596 50.000 4.59 0.00 43.97 5.07
2138 2193 0.505231 TTTCTTGCGTGAACGTAGCG 59.495 50.000 4.59 0.00 42.22 4.26
2139 2194 2.033151 AGTTTTCTTGCGTGAACGTAGC 60.033 45.455 4.59 0.00 42.22 3.58
2140 2195 3.854286 AGTTTTCTTGCGTGAACGTAG 57.146 42.857 4.59 3.16 42.22 3.51
2141 2196 4.318263 GCTAAGTTTTCTTGCGTGAACGTA 60.318 41.667 4.59 0.00 40.70 3.57
2142 2197 3.545426 GCTAAGTTTTCTTGCGTGAACGT 60.545 43.478 4.59 0.00 40.70 3.99
2143 2198 2.964768 GCTAAGTTTTCTTGCGTGAACG 59.035 45.455 0.00 0.00 40.70 3.95
2144 2199 3.947626 TGCTAAGTTTTCTTGCGTGAAC 58.052 40.909 0.00 0.00 40.70 3.18
2145 2200 4.624336 TTGCTAAGTTTTCTTGCGTGAA 57.376 36.364 0.00 0.00 40.70 3.18
2146 2201 4.624336 TTTGCTAAGTTTTCTTGCGTGA 57.376 36.364 0.00 0.00 40.70 4.35
2147 2202 5.888412 ATTTTGCTAAGTTTTCTTGCGTG 57.112 34.783 0.00 0.00 40.70 5.34
2148 2203 8.587952 AAATATTTTGCTAAGTTTTCTTGCGT 57.412 26.923 0.00 0.00 40.70 5.24
2149 2204 9.862585 AAAAATATTTTGCTAAGTTTTCTTGCG 57.137 25.926 14.04 0.00 40.70 4.85
2180 2235 9.617523 ATCATTTCCACAAAGTTTCAGATTTTT 57.382 25.926 0.00 0.00 0.00 1.94
2181 2236 9.617523 AATCATTTCCACAAAGTTTCAGATTTT 57.382 25.926 0.00 0.00 0.00 1.82
2216 2271 9.533253 GCCAAAATTTACAAGCATCTATAACAT 57.467 29.630 0.00 0.00 0.00 2.71
2217 2272 7.700234 CGCCAAAATTTACAAGCATCTATAACA 59.300 33.333 0.00 0.00 0.00 2.41
2218 2273 7.305993 GCGCCAAAATTTACAAGCATCTATAAC 60.306 37.037 0.00 0.00 0.00 1.89
2219 2274 6.695278 GCGCCAAAATTTACAAGCATCTATAA 59.305 34.615 0.00 0.00 0.00 0.98
2220 2275 6.039270 AGCGCCAAAATTTACAAGCATCTATA 59.961 34.615 2.29 0.00 0.00 1.31
2221 2276 5.043248 GCGCCAAAATTTACAAGCATCTAT 58.957 37.500 0.00 0.00 0.00 1.98
2222 2277 4.157656 AGCGCCAAAATTTACAAGCATCTA 59.842 37.500 2.29 0.00 0.00 1.98
2223 2278 3.056607 AGCGCCAAAATTTACAAGCATCT 60.057 39.130 2.29 1.73 0.00 2.90
2224 2279 3.253230 AGCGCCAAAATTTACAAGCATC 58.747 40.909 2.29 0.00 0.00 3.91
2225 2280 3.253230 GAGCGCCAAAATTTACAAGCAT 58.747 40.909 2.29 0.00 0.00 3.79
2226 2281 2.035193 TGAGCGCCAAAATTTACAAGCA 59.965 40.909 2.29 0.00 0.00 3.91
2227 2282 2.671596 TGAGCGCCAAAATTTACAAGC 58.328 42.857 2.29 0.00 0.00 4.01
2228 2283 3.674753 CCTTGAGCGCCAAAATTTACAAG 59.325 43.478 2.29 6.38 33.76 3.16
2229 2284 3.553922 CCCTTGAGCGCCAAAATTTACAA 60.554 43.478 2.29 0.00 33.76 2.41
2230 2285 2.029470 CCCTTGAGCGCCAAAATTTACA 60.029 45.455 2.29 0.00 33.76 2.41
2231 2286 2.230266 TCCCTTGAGCGCCAAAATTTAC 59.770 45.455 2.29 0.00 33.76 2.01
2232 2287 2.230266 GTCCCTTGAGCGCCAAAATTTA 59.770 45.455 2.29 0.00 33.76 1.40
2233 2288 1.000843 GTCCCTTGAGCGCCAAAATTT 59.999 47.619 2.29 0.00 33.76 1.82
2234 2289 0.603065 GTCCCTTGAGCGCCAAAATT 59.397 50.000 2.29 0.00 33.76 1.82
2235 2290 0.539438 TGTCCCTTGAGCGCCAAAAT 60.539 50.000 2.29 0.00 33.76 1.82
2236 2291 0.539438 ATGTCCCTTGAGCGCCAAAA 60.539 50.000 2.29 0.00 33.76 2.44
2237 2292 0.960364 GATGTCCCTTGAGCGCCAAA 60.960 55.000 2.29 0.00 33.76 3.28
2238 2293 1.377202 GATGTCCCTTGAGCGCCAA 60.377 57.895 2.29 7.51 0.00 4.52
2239 2294 2.268920 GATGTCCCTTGAGCGCCA 59.731 61.111 2.29 0.00 0.00 5.69
2240 2295 1.817099 CAGATGTCCCTTGAGCGCC 60.817 63.158 2.29 0.00 0.00 6.53
2241 2296 0.809241 CTCAGATGTCCCTTGAGCGC 60.809 60.000 0.00 0.00 0.00 5.92
2242 2297 3.359194 CTCAGATGTCCCTTGAGCG 57.641 57.895 0.00 0.00 0.00 5.03


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

AutoCloner maintained by Alex Coulton.