Multiple sequence alignment - TraesCS7D01G178900

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS7D01G178900 chr7D 100.000 1837 0 0 909 2745 131823238 131821402 0.000000e+00 3393.0
1 TraesCS7D01G178900 chr7D 100.000 562 0 0 1 562 131824146 131823585 0.000000e+00 1038.0
2 TraesCS7D01G178900 chr7D 95.703 512 18 1 1 508 575343215 575343726 0.000000e+00 821.0
3 TraesCS7D01G178900 chr7D 80.779 1129 148 41 1125 2235 133194040 133195117 0.000000e+00 819.0
4 TraesCS7D01G178900 chr7D 81.619 457 78 5 1162 1614 194129797 194130251 9.280000e-100 374.0
5 TraesCS7D01G178900 chr7D 82.127 442 69 7 1180 1613 132741563 132742002 1.200000e-98 370.0
6 TraesCS7D01G178900 chr7D 85.950 242 26 6 1676 1910 194130251 194130491 4.540000e-63 252.0
7 TraesCS7D01G178900 chr7D 77.419 403 49 24 1671 2054 132741994 132742373 4.640000e-48 202.0
8 TraesCS7D01G178900 chr7D 100.000 30 0 0 1916 1945 131822198 131822169 3.820000e-04 56.5
9 TraesCS7D01G178900 chr7D 100.000 30 0 0 1949 1978 131822231 131822202 3.820000e-04 56.5
10 TraesCS7D01G178900 chr7B 92.170 894 31 9 1047 1919 93441041 93440166 0.000000e+00 1227.0
11 TraesCS7D01G178900 chr7B 79.167 1176 162 53 1180 2322 94264224 94265349 0.000000e+00 737.0
12 TraesCS7D01G178900 chr7B 92.927 410 25 3 2338 2745 93439791 93439384 6.550000e-166 593.0
13 TraesCS7D01G178900 chr7B 92.857 406 20 8 1941 2346 93440254 93439858 5.100000e-162 580.0
14 TraesCS7D01G178900 chr7B 82.057 457 76 5 1162 1614 157808854 157809308 4.290000e-103 385.0
15 TraesCS7D01G178900 chr7B 86.250 240 29 4 1676 1912 157809308 157809546 9.750000e-65 257.0
16 TraesCS7D01G178900 chr7B 92.941 170 11 1 342 510 594258320 594258489 2.110000e-61 246.0
17 TraesCS7D01G178900 chr7B 89.076 119 6 4 933 1051 93441220 93441109 1.020000e-29 141.0
18 TraesCS7D01G178900 chr7B 80.531 113 14 7 1936 2046 94265243 94265349 2.270000e-11 80.5
19 TraesCS7D01G178900 chr7B 94.444 36 0 2 1909 1944 94265252 94265285 1.000000e-03 54.7
20 TraesCS7D01G178900 chr7A 90.087 807 43 16 1939 2745 130614032 130613263 0.000000e+00 1013.0
21 TraesCS7D01G178900 chr7A 91.994 662 34 10 1182 1833 130614990 130614338 0.000000e+00 911.0
22 TraesCS7D01G178900 chr7A 88.491 530 52 3 1383 1912 131776444 131776964 1.390000e-177 632.0
23 TraesCS7D01G178900 chr7A 88.545 323 25 11 1978 2293 130614209 130613892 5.550000e-102 381.0
24 TraesCS7D01G178900 chr7A 82.151 437 71 5 1180 1614 203697313 203697744 4.320000e-98 368.0
25 TraesCS7D01G178900 chr7A 87.029 239 26 5 1678 1912 203697739 203697976 5.830000e-67 265.0
26 TraesCS7D01G178900 chr7A 85.306 245 29 5 1674 1912 210253117 210253360 2.110000e-61 246.0
27 TraesCS7D01G178900 chr7A 84.716 229 30 5 1688 1912 131108558 131108331 9.890000e-55 224.0
28 TraesCS7D01G178900 chr7A 83.983 231 31 6 1686 1911 131186650 131186421 1.660000e-52 217.0
29 TraesCS7D01G178900 chr7A 81.780 236 26 5 1679 1912 130783328 130783548 6.040000e-42 182.0
30 TraesCS7D01G178900 chr7A 82.174 230 24 5 1685 1912 131120601 131120387 6.040000e-42 182.0
31 TraesCS7D01G178900 chr7A 88.742 151 12 3 1047 1192 130626117 130625967 2.170000e-41 180.0
32 TraesCS7D01G178900 chr7A 100.000 30 0 0 1916 1945 130614022 130613993 3.820000e-04 56.5
33 TraesCS7D01G178900 chr1D 96.654 508 13 2 1 508 5461977 5462480 0.000000e+00 841.0
34 TraesCS7D01G178900 chr2A 94.851 369 16 1 143 508 75293308 75292940 8.530000e-160 573.0
35 TraesCS7D01G178900 chr2A 96.026 151 5 1 1 151 75303845 75303696 7.590000e-61 244.0
36 TraesCS7D01G178900 chr4B 91.554 296 24 1 214 508 546574803 546574508 9.150000e-110 407.0
37 TraesCS7D01G178900 chr4B 91.667 108 9 0 4 111 546574946 546574839 1.700000e-32 150.0
38 TraesCS7D01G178900 chr4B 91.667 108 9 0 4 111 546597313 546597206 1.700000e-32 150.0
39 TraesCS7D01G178900 chr4B 89.394 66 2 1 128 193 546597221 546597161 8.150000e-11 78.7
40 TraesCS7D01G178900 chr4B 87.879 66 3 1 128 193 546574854 546574794 3.790000e-09 73.1
41 TraesCS7D01G178900 chr1B 88.215 297 28 3 214 508 626691709 626691418 5.630000e-92 348.0
42 TraesCS7D01G178900 chr1B 86.813 91 12 0 3 93 407907108 407907198 4.840000e-18 102.0
43 TraesCS7D01G178900 chr3B 89.811 265 26 1 245 508 448358125 448357861 3.390000e-89 339.0
44 TraesCS7D01G178900 chr5D 84.965 286 38 4 231 515 385695004 385694723 4.470000e-73 285.0
45 TraesCS7D01G178900 chr3D 82.517 286 45 3 227 509 320763129 320763412 2.110000e-61 246.0
46 TraesCS7D01G178900 chr2D 91.156 147 13 0 214 360 563021770 563021624 1.670000e-47 200.0
47 TraesCS7D01G178900 chr2D 93.694 111 4 1 1 111 563021918 563021811 2.190000e-36 163.0
48 TraesCS7D01G178900 chr2D 90.909 66 6 0 128 193 563021826 563021761 3.770000e-14 89.8
49 TraesCS7D01G178900 chr1A 85.470 117 11 3 1 111 486679159 486679275 1.730000e-22 117.0
50 TraesCS7D01G178900 chr2B 85.567 97 14 0 3 99 23989449 23989353 4.840000e-18 102.0
51 TraesCS7D01G178900 chr2B 80.282 142 17 10 1936 2072 726685077 726684942 2.250000e-16 97.1


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 TraesCS7D01G178900 chr7D 131821402 131824146 2744 True 1136.000000 3393 100.0000 1 2745 4 chr7D.!!$R1 2744
1 TraesCS7D01G178900 chr7D 575343215 575343726 511 False 821.000000 821 95.7030 1 508 1 chr7D.!!$F2 507
2 TraesCS7D01G178900 chr7D 133194040 133195117 1077 False 819.000000 819 80.7790 1125 2235 1 chr7D.!!$F1 1110
3 TraesCS7D01G178900 chr7D 194129797 194130491 694 False 313.000000 374 83.7845 1162 1910 2 chr7D.!!$F4 748
4 TraesCS7D01G178900 chr7D 132741563 132742373 810 False 286.000000 370 79.7730 1180 2054 2 chr7D.!!$F3 874
5 TraesCS7D01G178900 chr7B 93439384 93441220 1836 True 635.250000 1227 91.7575 933 2745 4 chr7B.!!$R1 1812
6 TraesCS7D01G178900 chr7B 157808854 157809546 692 False 321.000000 385 84.1535 1162 1912 2 chr7B.!!$F3 750
7 TraesCS7D01G178900 chr7B 94264224 94265349 1125 False 290.733333 737 84.7140 1180 2322 3 chr7B.!!$F2 1142
8 TraesCS7D01G178900 chr7A 131776444 131776964 520 False 632.000000 632 88.4910 1383 1912 1 chr7A.!!$F2 529
9 TraesCS7D01G178900 chr7A 130613263 130614990 1727 True 590.375000 1013 92.6565 1182 2745 4 chr7A.!!$R5 1563
10 TraesCS7D01G178900 chr7A 203697313 203697976 663 False 316.500000 368 84.5900 1180 1912 2 chr7A.!!$F4 732
11 TraesCS7D01G178900 chr1D 5461977 5462480 503 False 841.000000 841 96.6540 1 508 1 chr1D.!!$F1 507

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
535 540 0.107361 AATTAGCCCTCCCCGTTTCG 60.107 55.0 0.0 0.0 0.0 3.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2082 2881 0.833287 AGTTCATGACCATCCCTCGG 59.167 55.0 0.0 0.0 0.0 4.63 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
377 382 5.494632 TCAGCTGCATATCAACAATTCTG 57.505 39.130 9.47 0.00 0.00 3.02
456 461 6.534079 GCTGATTTCAGGGATTCAAAATTCAG 59.466 38.462 9.49 0.00 43.94 3.02
532 537 2.615986 AAAAATTAGCCCTCCCCGTT 57.384 45.000 0.00 0.00 0.00 4.44
533 538 2.615986 AAAATTAGCCCTCCCCGTTT 57.384 45.000 0.00 0.00 0.00 3.60
534 539 2.139323 AAATTAGCCCTCCCCGTTTC 57.861 50.000 0.00 0.00 0.00 2.78
535 540 0.107361 AATTAGCCCTCCCCGTTTCG 60.107 55.000 0.00 0.00 0.00 3.46
536 541 2.604299 ATTAGCCCTCCCCGTTTCGC 62.604 60.000 0.00 0.00 0.00 4.70
547 552 2.746277 GTTTCGCACCCGCTCCAT 60.746 61.111 0.00 0.00 35.30 3.41
548 553 2.033448 TTTCGCACCCGCTCCATT 59.967 55.556 0.00 0.00 35.30 3.16
549 554 1.602323 TTTCGCACCCGCTCCATTT 60.602 52.632 0.00 0.00 35.30 2.32
550 555 1.582610 TTTCGCACCCGCTCCATTTC 61.583 55.000 0.00 0.00 35.30 2.17
551 556 3.864686 CGCACCCGCTCCATTTCG 61.865 66.667 0.00 0.00 35.30 3.46
552 557 4.179579 GCACCCGCTCCATTTCGC 62.180 66.667 0.00 0.00 34.30 4.70
553 558 2.745884 CACCCGCTCCATTTCGCA 60.746 61.111 0.00 0.00 0.00 5.10
554 559 2.114670 CACCCGCTCCATTTCGCAT 61.115 57.895 0.00 0.00 0.00 4.73
555 560 0.813610 CACCCGCTCCATTTCGCATA 60.814 55.000 0.00 0.00 0.00 3.14
556 561 0.108585 ACCCGCTCCATTTCGCATAT 59.891 50.000 0.00 0.00 0.00 1.78
557 562 0.518636 CCCGCTCCATTTCGCATATG 59.481 55.000 0.00 0.00 0.00 1.78
558 563 1.511850 CCGCTCCATTTCGCATATGA 58.488 50.000 6.97 0.00 0.00 2.15
559 564 1.462283 CCGCTCCATTTCGCATATGAG 59.538 52.381 6.97 2.88 0.00 2.90
560 565 2.407090 CGCTCCATTTCGCATATGAGA 58.593 47.619 6.97 5.87 0.00 3.27
561 566 2.411069 CGCTCCATTTCGCATATGAGAG 59.589 50.000 6.97 0.00 0.00 3.20
930 935 5.452078 GAGAGAGAGAGAGAGAGAGAGAG 57.548 52.174 0.00 0.00 0.00 3.20
931 936 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
961 966 4.796231 CGTGGCCTTCTACGCGCT 62.796 66.667 5.73 0.00 33.69 5.92
962 967 2.886124 GTGGCCTTCTACGCGCTC 60.886 66.667 5.73 0.00 0.00 5.03
1087 1164 1.146041 TATGCATGCGTCCTCACCC 59.854 57.895 17.45 0.00 0.00 4.61
1088 1165 1.621672 TATGCATGCGTCCTCACCCA 61.622 55.000 17.45 0.00 0.00 4.51
1122 1200 1.080434 GTCCTTCTCTGCGTTCGCT 60.080 57.895 17.63 0.00 0.00 4.93
1157 1258 1.571919 CGAATCGGGGTTCTGATCAC 58.428 55.000 0.00 0.00 37.99 3.06
1158 1259 1.134818 CGAATCGGGGTTCTGATCACA 60.135 52.381 0.00 0.00 37.99 3.58
1159 1260 2.676750 CGAATCGGGGTTCTGATCACAA 60.677 50.000 0.00 0.00 37.99 3.33
1160 1261 2.403252 ATCGGGGTTCTGATCACAAC 57.597 50.000 5.36 5.36 33.98 3.32
1556 1668 2.133195 TTCGTGCTGAAGGTGACCT 58.867 52.632 0.00 0.00 33.87 3.85
1617 1793 2.510382 AGGTGAAGATCGAGTAGGGAGA 59.490 50.000 0.00 0.00 0.00 3.71
1618 1794 2.619646 GGTGAAGATCGAGTAGGGAGAC 59.380 54.545 0.00 0.00 0.00 3.36
1619 1795 3.547746 GTGAAGATCGAGTAGGGAGACT 58.452 50.000 0.00 0.00 0.00 3.24
1620 1796 3.562557 GTGAAGATCGAGTAGGGAGACTC 59.437 52.174 0.00 0.00 42.13 3.36
1621 1797 3.200165 TGAAGATCGAGTAGGGAGACTCA 59.800 47.826 4.53 0.00 45.23 3.41
1622 1798 3.485463 AGATCGAGTAGGGAGACTCAG 57.515 52.381 4.53 0.00 45.23 3.35
1628 1804 1.104577 GTAGGGAGACTCAGGCGAGG 61.105 65.000 4.53 0.00 44.17 4.63
1667 1846 3.632333 AGTACTCATGGAAGACGGATCA 58.368 45.455 0.00 0.00 0.00 2.92
1777 2005 2.765699 TCTTTCTGCCCTGTTTTGCTTT 59.234 40.909 0.00 0.00 0.00 3.51
1831 2080 1.209127 GTGGTGAATTTGGTCGCGG 59.791 57.895 6.13 0.00 0.00 6.46
1833 2082 0.322098 TGGTGAATTTGGTCGCGGAT 60.322 50.000 6.13 0.00 0.00 4.18
1835 2084 2.011222 GGTGAATTTGGTCGCGGATTA 58.989 47.619 6.13 0.00 0.00 1.75
1873 2478 6.636705 AGTTTGGCGTATGATGAACTACTTA 58.363 36.000 0.00 0.00 0.00 2.24
1882 2487 8.755941 CGTATGATGAACTACTTAATGGTGAAG 58.244 37.037 0.00 0.00 0.00 3.02
1921 2600 6.349243 TGTTGATTTCCTCATGCTTGATTT 57.651 33.333 2.33 0.00 32.72 2.17
1937 2616 4.811555 TGATTTCCTCAAGTTTGACGTG 57.188 40.909 0.00 0.00 32.90 4.49
1938 2617 4.447290 TGATTTCCTCAAGTTTGACGTGA 58.553 39.130 0.00 0.00 35.42 4.35
1980 2755 4.873259 TCAAGTTTGACGTGATGAACTGAA 59.127 37.500 0.00 0.00 31.88 3.02
1981 2756 4.795970 AGTTTGACGTGATGAACTGAAC 57.204 40.909 0.00 0.00 31.59 3.18
1982 2757 4.442706 AGTTTGACGTGATGAACTGAACT 58.557 39.130 0.00 0.00 31.59 3.01
1983 2758 4.271049 AGTTTGACGTGATGAACTGAACTG 59.729 41.667 0.00 0.00 31.59 3.16
1984 2759 2.135139 TGACGTGATGAACTGAACTGC 58.865 47.619 0.00 0.00 0.00 4.40
1985 2760 2.135139 GACGTGATGAACTGAACTGCA 58.865 47.619 0.00 0.00 0.00 4.41
2001 2776 2.037511 ACTGCATTGGTGGTGAAATTGG 59.962 45.455 0.00 0.00 0.00 3.16
2003 2778 2.036992 TGCATTGGTGGTGAAATTGGTC 59.963 45.455 0.00 0.00 0.00 4.02
2009 2784 3.963374 TGGTGGTGAAATTGGTCATGAAA 59.037 39.130 0.00 0.00 0.00 2.69
2010 2785 4.202202 TGGTGGTGAAATTGGTCATGAAAC 60.202 41.667 0.00 0.00 0.00 2.78
2014 2789 4.448732 GGTGAAATTGGTCATGAAACTTGC 59.551 41.667 0.00 0.00 0.00 4.01
2015 2790 5.049167 GTGAAATTGGTCATGAAACTTGCA 58.951 37.500 0.00 0.00 0.00 4.08
2016 2791 5.176223 GTGAAATTGGTCATGAAACTTGCAG 59.824 40.000 0.00 0.00 0.00 4.41
2021 2820 3.896888 TGGTCATGAAACTTGCAGGATTT 59.103 39.130 1.40 0.00 0.00 2.17
2027 2826 4.410099 TGAAACTTGCAGGATTTCCTCAT 58.590 39.130 1.40 0.00 46.65 2.90
2035 2834 2.353889 CAGGATTTCCTCATGCTTGACG 59.646 50.000 0.00 0.00 46.65 4.35
2036 2835 2.026822 AGGATTTCCTCATGCTTGACGT 60.027 45.455 0.00 0.00 44.77 4.34
2037 2836 2.096496 GGATTTCCTCATGCTTGACGTG 59.904 50.000 0.00 0.00 36.55 4.49
2108 2952 3.826157 GGGATGGTCATGAACTTTGTTGA 59.174 43.478 12.94 0.00 0.00 3.18
2146 2991 3.777478 CATGATGAACTGATTTGGTGGC 58.223 45.455 0.00 0.00 0.00 5.01
2247 3093 7.175104 TGGAACTTATGATTTACTCCAGCTTT 58.825 34.615 0.00 0.00 0.00 3.51
2321 3167 4.438065 CCTCTAGTCTGACGTGATGAACTG 60.438 50.000 0.00 0.00 0.00 3.16
2385 3308 6.402983 GCTCACTGAAATTTGTGTCTATCCTG 60.403 42.308 0.00 0.00 35.82 3.86
2406 3329 6.762661 TCCTGTGTGTTACTTTTTGTAGGTAC 59.237 38.462 0.00 0.00 32.08 3.34
2429 3352 9.090692 GTACTTGTACTCTTCTTGTGTAAACAA 57.909 33.333 0.00 0.00 0.00 2.83
2519 3442 7.441890 TTGTAACTCACAAGACAAAAGACAA 57.558 32.000 0.00 0.00 42.29 3.18
2583 3507 4.990543 TCAGAAACTCAATGTTAGTGCG 57.009 40.909 0.00 0.00 38.03 5.34
2598 3522 0.593128 GTGCGATGTTTTCCAGTGCT 59.407 50.000 0.00 0.00 0.00 4.40
2617 3541 3.181486 TGCTCTGCTGTATAGTTCCTTCG 60.181 47.826 0.00 0.00 0.00 3.79
2634 3558 3.548818 CCTTCGTCCAAGCTCAAACTTTG 60.549 47.826 0.00 0.00 0.00 2.77
2725 3650 2.302157 ACCTACACAGGAGGCTTACAAC 59.698 50.000 0.00 0.00 45.91 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
210 215 5.067413 GGAGATGTTGTCAGGAATCGTAGTA 59.933 44.000 0.00 0.00 0.00 1.82
281 286 4.498009 CGAATTTAAAATCTGCCGCTGGAT 60.498 41.667 1.96 0.00 0.00 3.41
377 382 1.273327 CCTTGAGTGCATTCCCAAACC 59.727 52.381 6.77 0.00 0.00 3.27
456 461 4.499037 ACACGAAAGCTAAATCAAACCC 57.501 40.909 0.00 0.00 0.00 4.11
513 518 2.615986 AACGGGGAGGGCTAATTTTT 57.384 45.000 0.00 0.00 0.00 1.94
514 519 2.453521 GAAACGGGGAGGGCTAATTTT 58.546 47.619 0.00 0.00 0.00 1.82
515 520 1.680860 CGAAACGGGGAGGGCTAATTT 60.681 52.381 0.00 0.00 0.00 1.82
516 521 0.107361 CGAAACGGGGAGGGCTAATT 60.107 55.000 0.00 0.00 0.00 1.40
517 522 1.525442 CGAAACGGGGAGGGCTAAT 59.475 57.895 0.00 0.00 0.00 1.73
518 523 2.983791 CGAAACGGGGAGGGCTAA 59.016 61.111 0.00 0.00 0.00 3.09
519 524 3.777910 GCGAAACGGGGAGGGCTA 61.778 66.667 0.00 0.00 0.00 3.93
535 540 4.179579 GCGAAATGGAGCGGGTGC 62.180 66.667 0.00 0.00 43.24 5.01
536 541 0.813610 TATGCGAAATGGAGCGGGTG 60.814 55.000 0.00 0.00 35.87 4.61
537 542 0.108585 ATATGCGAAATGGAGCGGGT 59.891 50.000 0.00 0.00 35.87 5.28
538 543 0.518636 CATATGCGAAATGGAGCGGG 59.481 55.000 0.00 0.00 35.87 6.13
539 544 1.462283 CTCATATGCGAAATGGAGCGG 59.538 52.381 0.00 0.00 35.87 5.52
540 545 2.407090 TCTCATATGCGAAATGGAGCG 58.593 47.619 0.00 0.00 35.87 5.03
908 913 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
909 914 5.136068 TCTCTCTCTCTCTCTCTCTCTCT 57.864 47.826 0.00 0.00 0.00 3.10
910 915 4.892934 ACTCTCTCTCTCTCTCTCTCTCTC 59.107 50.000 0.00 0.00 0.00 3.20
911 916 4.877773 ACTCTCTCTCTCTCTCTCTCTCT 58.122 47.826 0.00 0.00 0.00 3.10
912 917 4.038642 GGACTCTCTCTCTCTCTCTCTCTC 59.961 54.167 0.00 0.00 0.00 3.20
913 918 3.964031 GGACTCTCTCTCTCTCTCTCTCT 59.036 52.174 0.00 0.00 0.00 3.10
914 919 3.243569 CGGACTCTCTCTCTCTCTCTCTC 60.244 56.522 0.00 0.00 0.00 3.20
915 920 2.695666 CGGACTCTCTCTCTCTCTCTCT 59.304 54.545 0.00 0.00 0.00 3.10
916 921 2.224066 CCGGACTCTCTCTCTCTCTCTC 60.224 59.091 0.00 0.00 0.00 3.20
917 922 1.762957 CCGGACTCTCTCTCTCTCTCT 59.237 57.143 0.00 0.00 0.00 3.10
918 923 1.485066 ACCGGACTCTCTCTCTCTCTC 59.515 57.143 9.46 0.00 0.00 3.20
919 924 1.209504 CACCGGACTCTCTCTCTCTCT 59.790 57.143 9.46 0.00 0.00 3.10
920 925 1.663695 CACCGGACTCTCTCTCTCTC 58.336 60.000 9.46 0.00 0.00 3.20
921 926 0.393808 GCACCGGACTCTCTCTCTCT 60.394 60.000 9.46 0.00 0.00 3.10
922 927 1.711060 CGCACCGGACTCTCTCTCTC 61.711 65.000 9.46 0.00 0.00 3.20
923 928 1.747367 CGCACCGGACTCTCTCTCT 60.747 63.158 9.46 0.00 0.00 3.10
924 929 2.795297 CGCACCGGACTCTCTCTC 59.205 66.667 9.46 0.00 0.00 3.20
925 930 3.444805 GCGCACCGGACTCTCTCT 61.445 66.667 9.46 0.00 0.00 3.10
926 931 4.500116 GGCGCACCGGACTCTCTC 62.500 72.222 9.46 0.00 0.00 3.20
1004 1009 4.748144 CTCCTTGCCCTGGGTGCC 62.748 72.222 15.56 0.00 0.00 5.01
1069 1146 1.146041 GGGTGAGGACGCATGCATA 59.854 57.895 19.57 0.00 35.13 3.14
1070 1147 2.124570 GGGTGAGGACGCATGCAT 60.125 61.111 19.57 0.36 35.13 3.96
1071 1148 3.635191 TGGGTGAGGACGCATGCA 61.635 61.111 19.57 0.00 39.95 3.96
1097 1174 4.116328 CAGAGAAGGACGCGGCGA 62.116 66.667 30.94 0.00 0.00 5.54
1157 1258 0.031178 AAGAGCGGCAAAAGCTGTTG 59.969 50.000 12.62 12.62 44.80 3.33
1158 1259 0.031178 CAAGAGCGGCAAAAGCTGTT 59.969 50.000 1.45 0.00 46.98 3.16
1159 1260 0.819259 TCAAGAGCGGCAAAAGCTGT 60.819 50.000 1.45 0.00 46.13 4.40
1160 1261 0.524862 ATCAAGAGCGGCAAAAGCTG 59.475 50.000 1.45 0.00 46.13 4.24
1230 1333 1.107114 CTCCATCAGAGCGTACAGGT 58.893 55.000 0.00 0.00 35.31 4.00
1556 1668 1.075482 CCTCCTTCAGCTTGGGCAA 59.925 57.895 0.00 0.00 41.70 4.52
1617 1793 2.045242 TACTCGCCTCGCCTGAGT 60.045 61.111 0.00 0.00 44.63 3.41
1618 1794 2.054140 GACTACTCGCCTCGCCTGAG 62.054 65.000 0.00 0.00 42.18 3.35
1619 1795 2.045242 ACTACTCGCCTCGCCTGA 60.045 61.111 0.00 0.00 0.00 3.86
1620 1796 2.409651 GACTACTCGCCTCGCCTG 59.590 66.667 0.00 0.00 0.00 4.85
1621 1797 2.584261 TACGACTACTCGCCTCGCCT 62.584 60.000 0.00 0.00 44.33 5.52
1622 1798 2.103581 CTACGACTACTCGCCTCGCC 62.104 65.000 0.00 0.00 44.33 5.54
1628 1804 2.275318 ACTACCACTACGACTACTCGC 58.725 52.381 0.00 0.00 44.33 5.03
1667 1846 5.725822 ACTACCACTACCACTACTAGACTCT 59.274 44.000 0.00 0.00 0.00 3.24
1777 2005 2.606108 CACGATCCAAGACGATCAACA 58.394 47.619 0.00 0.00 38.91 3.33
1873 2478 5.867903 TTTTCATGACCAACTTCACCATT 57.132 34.783 0.00 0.00 0.00 3.16
1882 2487 8.069574 GGAAATCAACAAATTTTCATGACCAAC 58.930 33.333 0.00 0.00 32.30 3.77
1921 2600 3.744238 TCATCACGTCAAACTTGAGGA 57.256 42.857 16.70 3.41 43.66 3.71
1929 2608 5.553290 TCAACAAAGTTCATCACGTCAAA 57.447 34.783 0.00 0.00 0.00 2.69
1933 2612 5.299279 AGGAAATCAACAAAGTTCATCACGT 59.701 36.000 0.00 0.00 0.00 4.49
1934 2613 5.762045 AGGAAATCAACAAAGTTCATCACG 58.238 37.500 0.00 0.00 0.00 4.35
1935 2614 6.738114 TGAGGAAATCAACAAAGTTCATCAC 58.262 36.000 0.00 0.00 36.27 3.06
1936 2615 6.957920 TGAGGAAATCAACAAAGTTCATCA 57.042 33.333 0.00 0.00 38.17 3.07
1937 2616 7.428826 ACTTGAGGAAATCAACAAAGTTCATC 58.571 34.615 0.00 0.00 43.09 2.92
1938 2617 7.352079 ACTTGAGGAAATCAACAAAGTTCAT 57.648 32.000 0.00 0.00 43.09 2.57
1980 2755 2.037511 CCAATTTCACCACCAATGCAGT 59.962 45.455 0.00 0.00 0.00 4.40
1981 2756 2.037511 ACCAATTTCACCACCAATGCAG 59.962 45.455 0.00 0.00 0.00 4.41
1982 2757 2.036992 GACCAATTTCACCACCAATGCA 59.963 45.455 0.00 0.00 0.00 3.96
1983 2758 2.036992 TGACCAATTTCACCACCAATGC 59.963 45.455 0.00 0.00 0.00 3.56
1984 2759 4.021280 TCATGACCAATTTCACCACCAATG 60.021 41.667 0.00 0.00 0.00 2.82
1985 2760 4.158786 TCATGACCAATTTCACCACCAAT 58.841 39.130 0.00 0.00 0.00 3.16
2001 2776 4.219288 AGGAAATCCTGCAAGTTTCATGAC 59.781 41.667 15.65 0.00 46.55 3.06
2003 2778 4.796038 AGGAAATCCTGCAAGTTTCATG 57.204 40.909 15.65 0.00 46.55 3.07
2016 2791 2.096496 CACGTCAAGCATGAGGAAATCC 59.904 50.000 17.59 0.00 42.66 3.01
2021 2820 1.550072 TCATCACGTCAAGCATGAGGA 59.450 47.619 17.59 4.70 42.66 3.71
2027 2826 2.524569 TCAGTTCATCACGTCAAGCA 57.475 45.000 0.00 0.00 0.00 3.91
2032 2831 4.466828 CACCAAAATCAGTTCATCACGTC 58.533 43.478 0.00 0.00 0.00 4.34
2033 2832 3.253188 CCACCAAAATCAGTTCATCACGT 59.747 43.478 0.00 0.00 0.00 4.49
2035 2834 4.278170 TCACCACCAAAATCAGTTCATCAC 59.722 41.667 0.00 0.00 0.00 3.06
2036 2835 4.468713 TCACCACCAAAATCAGTTCATCA 58.531 39.130 0.00 0.00 0.00 3.07
2037 2836 5.452078 TTCACCACCAAAATCAGTTCATC 57.548 39.130 0.00 0.00 0.00 2.92
2082 2881 0.833287 AGTTCATGACCATCCCTCGG 59.167 55.000 0.00 0.00 0.00 4.63
2084 2883 3.690460 ACAAAGTTCATGACCATCCCTC 58.310 45.455 0.00 0.00 0.00 4.30
2085 2884 3.814504 ACAAAGTTCATGACCATCCCT 57.185 42.857 0.00 0.00 0.00 4.20
2086 2885 3.826157 TCAACAAAGTTCATGACCATCCC 59.174 43.478 0.00 0.00 0.00 3.85
2146 2991 4.552166 ACAAAGTTCATGACCACTTTCG 57.448 40.909 18.46 16.09 40.52 3.46
2247 3093 6.433716 TCACCATCAAATAAGTTCATCAAGCA 59.566 34.615 0.00 0.00 0.00 3.91
2321 3167 0.971386 TCCCGTTCACCACTAACTCC 59.029 55.000 0.00 0.00 0.00 3.85
2385 3308 7.977904 ACAAGTACCTACAAAAAGTAACACAC 58.022 34.615 0.00 0.00 30.92 3.82
2406 3329 7.065324 TGGTTGTTTACACAAGAAGAGTACAAG 59.935 37.037 0.00 0.00 43.83 3.16
2429 3352 2.092429 ACAAACGCCCATCTCATATGGT 60.092 45.455 2.13 0.00 37.48 3.55
2512 3435 9.822185 AGAATGTGCTAAATTTCTTTTGTCTTT 57.178 25.926 0.00 0.00 0.00 2.52
2519 3442 6.925165 CACACCAGAATGTGCTAAATTTCTTT 59.075 34.615 0.00 0.00 43.29 2.52
2583 3507 2.095364 CAGCAGAGCACTGGAAAACATC 60.095 50.000 13.26 0.00 43.62 3.06
2598 3522 3.380637 GGACGAAGGAACTATACAGCAGA 59.619 47.826 0.00 0.00 38.49 4.26
2617 3541 5.009010 TCTGAATCAAAGTTTGAGCTTGGAC 59.991 40.000 22.03 9.43 43.98 4.02
2634 3558 5.552870 TCCTAGCTGGGTATTTCTGAATC 57.447 43.478 16.69 0.00 36.20 2.52
2713 3637 0.322008 AGCTGCAGTTGTAAGCCTCC 60.322 55.000 16.64 0.00 37.68 4.30


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

AutoCloner maintained by Alex Coulton.