Multiple sequence alignment - TraesCS6D01G157500

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 TraesCS6D01G157500 chr6D 100.000 4187 0 0 1 4187 133580340 133584526 0.000000e+00 7733.0
1 TraesCS6D01G157500 chr6D 94.361 4203 201 11 1 4184 133881727 133885912 0.000000e+00 6416.0
2 TraesCS6D01G157500 chr6D 92.767 3802 247 17 72 3867 133954086 133957865 0.000000e+00 5472.0
3 TraesCS6D01G157500 chr6D 77.884 945 144 43 2902 3811 133482910 133483824 1.030000e-145 527.0
4 TraesCS6D01G157500 chr6D 80.932 708 80 23 1039 1732 133480581 133481247 3.730000e-140 508.0
5 TraesCS6D01G157500 chr6D 88.554 332 27 2 3867 4187 93968104 93967773 3.920000e-105 392.0
6 TraesCS6D01G157500 chr6D 80.183 328 40 13 602 912 133480107 133480426 5.450000e-54 222.0
7 TraesCS6D01G157500 chr6B 90.439 3807 337 21 72 3865 232589075 232592867 0.000000e+00 4988.0
8 TraesCS6D01G157500 chr6B 77.911 1168 148 62 602 1732 232323302 232324396 9.880000e-176 627.0
9 TraesCS6D01G157500 chr6B 76.476 1016 161 48 2902 3867 232325988 232326975 8.140000e-132 481.0
10 TraesCS6D01G157500 chr6B 95.652 46 2 0 1 46 698493870 698493915 1.610000e-09 75.0
11 TraesCS6D01G157500 chr6A 92.578 1819 118 10 2053 3867 174450733 174452538 0.000000e+00 2595.0
12 TraesCS6D01G157500 chr6A 89.008 1965 197 16 1886 3845 173184704 173186654 0.000000e+00 2414.0
13 TraesCS6D01G157500 chr6A 91.256 1441 120 5 584 2023 174449303 174450738 0.000000e+00 1958.0
14 TraesCS6D01G157500 chr6A 89.122 1241 121 11 1853 3086 173315964 173317197 0.000000e+00 1531.0
15 TraesCS6D01G157500 chr6A 88.122 985 108 8 911 1892 173183529 173184507 0.000000e+00 1162.0
16 TraesCS6D01G157500 chr6A 85.739 582 78 5 1221 1799 173315385 173315964 9.950000e-171 610.0
17 TraesCS6D01G157500 chr6A 90.393 458 32 6 3406 3859 173345169 173345618 3.600000e-165 592.0
18 TraesCS6D01G157500 chr6A 81.188 707 94 23 1039 1732 173433717 173434397 2.220000e-147 532.0
19 TraesCS6D01G157500 chr6A 82.957 575 52 17 618 1192 173314855 173315383 1.050000e-130 477.0
20 TraesCS6D01G157500 chr6A 88.952 353 35 3 3058 3410 173317199 173317547 2.310000e-117 433.0
21 TraesCS6D01G157500 chr6A 90.116 172 17 0 40 211 174403264 174403435 1.510000e-54 224.0
22 TraesCS6D01G157500 chr6A 83.562 219 25 5 602 809 173433266 173433484 1.190000e-45 195.0
23 TraesCS6D01G157500 chr5D 89.759 332 22 3 3868 4187 254399011 254398680 8.380000e-112 414.0
24 TraesCS6D01G157500 chr5D 91.892 74 6 0 77 150 162432721 162432648 2.060000e-18 104.0
25 TraesCS6D01G157500 chr2B 88.822 331 22 9 3868 4184 553503592 553503921 3.920000e-105 392.0
26 TraesCS6D01G157500 chr3A 87.812 320 36 3 3867 4184 117783494 117783812 5.110000e-99 372.0
27 TraesCS6D01G157500 chr3A 88.525 305 31 3 3868 4171 95274758 95274457 2.380000e-97 366.0
28 TraesCS6D01G157500 chr3A 90.551 127 11 1 3867 3992 314800446 314800320 2.590000e-37 167.0
29 TraesCS6D01G157500 chr4B 86.420 324 34 6 3868 4182 644865177 644864855 3.100000e-91 346.0
30 TraesCS6D01G157500 chr2A 85.185 324 44 4 3867 4187 763603146 763602824 3.120000e-86 329.0
31 TraesCS6D01G157500 chr2A 95.652 46 2 0 1 46 264872536 264872581 1.610000e-09 75.0
32 TraesCS6D01G157500 chr2A 93.878 49 2 1 1 48 560257075 560257027 5.810000e-09 73.1
33 TraesCS6D01G157500 chr7B 84.591 318 47 2 3867 4182 242516784 242516467 8.740000e-82 315.0
34 TraesCS6D01G157500 chr7B 93.617 47 3 0 76 122 200377144 200377098 2.090000e-08 71.3
35 TraesCS6D01G157500 chr1B 94.667 75 4 0 76 150 261887289 261887215 2.640000e-22 117.0
36 TraesCS6D01G157500 chr5A 87.838 74 9 0 77 150 378248744 378248671 2.070000e-13 87.9
37 TraesCS6D01G157500 chr5A 92.500 40 3 0 76 115 261909196 261909235 1.630000e-04 58.4
38 TraesCS6D01G157500 chr1D 92.157 51 4 0 1 51 195962913 195962863 5.810000e-09 73.1
39 TraesCS6D01G157500 chr1D 90.196 51 5 0 1 51 165678833 165678783 2.700000e-07 67.6
40 TraesCS6D01G157500 chr4D 95.238 42 2 0 1 42 128857900 128857941 2.700000e-07 67.6
41 TraesCS6D01G157500 chr4D 95.238 42 2 0 1 42 384680908 384680949 2.700000e-07 67.6
42 TraesCS6D01G157500 chr4D 95.238 42 2 0 1 42 405514139 405514180 2.700000e-07 67.6


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6D01G157500 chr6D 133580340 133584526 4186 False 7733.00 7733 100.000000 1 4187 1 chr6D.!!$F1 4186
1 TraesCS6D01G157500 chr6D 133881727 133885912 4185 False 6416.00 6416 94.361000 1 4184 1 chr6D.!!$F2 4183
2 TraesCS6D01G157500 chr6D 133954086 133957865 3779 False 5472.00 5472 92.767000 72 3867 1 chr6D.!!$F3 3795
3 TraesCS6D01G157500 chr6D 133480107 133483824 3717 False 419.00 527 79.666333 602 3811 3 chr6D.!!$F4 3209
4 TraesCS6D01G157500 chr6B 232589075 232592867 3792 False 4988.00 4988 90.439000 72 3865 1 chr6B.!!$F1 3793
5 TraesCS6D01G157500 chr6B 232323302 232326975 3673 False 554.00 627 77.193500 602 3867 2 chr6B.!!$F3 3265
6 TraesCS6D01G157500 chr6A 174449303 174452538 3235 False 2276.50 2595 91.917000 584 3867 2 chr6A.!!$F6 3283
7 TraesCS6D01G157500 chr6A 173183529 173186654 3125 False 1788.00 2414 88.565000 911 3845 2 chr6A.!!$F3 2934
8 TraesCS6D01G157500 chr6A 173314855 173317547 2692 False 762.75 1531 86.692500 618 3410 4 chr6A.!!$F4 2792
9 TraesCS6D01G157500 chr6A 173433266 173434397 1131 False 363.50 532 82.375000 602 1732 2 chr6A.!!$F5 1130

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
246 247 0.039911 ACAACCTCCTCTAGAGCCGT 59.960 55.0 14.73 6.51 41.74 5.68 F
1300 1418 0.031585 TCAAGCGCACACTAACGACT 59.968 50.0 11.47 0.00 0.00 4.18 F
2203 3050 1.211456 CTCATCCTTCTTGGGCTCCT 58.789 55.0 0.00 0.00 36.20 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1813 1967 0.254462 TGCCAGACACACCTGAACAA 59.746 50.0 0.00 0.00 36.29 2.83 R
3077 4491 0.824109 TCCATCGTCGCCTTCATCTT 59.176 50.0 0.00 0.00 0.00 2.40 R
3881 5381 0.534877 AGTGATGGTCGCAAGTTGCA 60.535 50.0 26.56 11.72 45.36 4.08 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
46 47 0.836400 TTTCGCTCCTCCTCCAAGGT 60.836 55.000 0.00 0.00 37.69 3.50
68 69 9.515226 AAGGTTTTGACTGAGCATAACTAAATA 57.485 29.630 8.87 0.00 32.57 1.40
70 71 8.947115 GGTTTTGACTGAGCATAACTAAATACT 58.053 33.333 8.87 0.00 32.57 2.12
159 160 2.510330 TCCCTACATCAGTCCCCTCTA 58.490 52.381 0.00 0.00 0.00 2.43
216 217 1.395826 GGAGCTAGAGCCACCACGAT 61.396 60.000 9.54 0.00 43.38 3.73
246 247 0.039911 ACAACCTCCTCTAGAGCCGT 59.960 55.000 14.73 6.51 41.74 5.68
292 293 1.215382 CATCGCGAGACACCCTTCA 59.785 57.895 16.66 0.00 46.97 3.02
323 324 3.976490 CTAGGAGGGGCCACGACCA 62.976 68.421 22.60 10.35 40.02 4.02
441 442 1.596934 GGTGAGGGAGATGTTCGCA 59.403 57.895 0.00 0.00 41.01 5.10
463 464 6.771188 CAAGAAGACTTGTTACATCGACTT 57.229 37.500 0.00 0.00 45.73 3.01
507 508 1.732259 CTTTTCACCCGTCAAGATCCG 59.268 52.381 0.00 0.00 0.00 4.18
659 667 2.014128 ACACGAAACCAAGACTTGTGG 58.986 47.619 14.03 3.02 42.28 4.17
712 720 4.358851 CATGGAAAGAAACGCTTGAAACA 58.641 39.130 0.00 0.00 36.80 2.83
747 757 7.718334 TCTTTTCTTTCCTTTTGAACCTCTT 57.282 32.000 0.00 0.00 31.05 2.85
1091 1205 3.276281 TGCTAGGTGCGGAGTTCTA 57.724 52.632 0.00 0.00 46.63 2.10
1118 1232 3.000819 CGCCACTCACCCCTACCA 61.001 66.667 0.00 0.00 0.00 3.25
1163 1277 3.374402 CCTCGACTGTGCGGGAGT 61.374 66.667 0.00 0.00 32.28 3.85
1300 1418 0.031585 TCAAGCGCACACTAACGACT 59.968 50.000 11.47 0.00 0.00 4.18
1304 1423 2.716828 CGCACACTAACGACTGCGG 61.717 63.158 3.01 0.00 46.80 5.69
1515 1643 4.790962 CATGCCTGGAGTGCGGCT 62.791 66.667 15.86 2.69 46.42 5.52
1530 1658 3.311110 GCTGGGGACTCGTGGACA 61.311 66.667 0.00 0.00 0.00 4.02
1535 1663 1.677552 GGGACTCGTGGACACCAAT 59.322 57.895 0.00 0.00 34.18 3.16
1609 1737 3.448686 CTCTCTGGTGCACTTATTACCG 58.551 50.000 17.98 0.00 37.29 4.02
1789 1942 2.432444 TGGACGAAAGGTGCCTATTTG 58.568 47.619 0.00 0.00 35.88 2.32
1802 1956 7.334858 AGGTGCCTATTTGTTTTGAAAAGAAA 58.665 30.769 14.09 14.09 0.00 2.52
1813 1967 8.129496 TGTTTTGAAAAGAAAACTACTCCCTT 57.871 30.769 0.00 0.00 43.40 3.95
1863 2017 7.559170 AGAAAATGTGCATTTATAGGCTCTCTT 59.441 33.333 10.14 0.00 39.88 2.85
1865 2019 6.630444 ATGTGCATTTATAGGCTCTCTTTG 57.370 37.500 0.00 0.00 30.95 2.77
1867 2021 3.885297 TGCATTTATAGGCTCTCTTTGGC 59.115 43.478 0.00 0.00 30.95 4.52
1991 2350 3.620488 GGATGCAAACCTAACTGATGGA 58.380 45.455 0.00 0.00 0.00 3.41
2057 2421 1.538204 CCCATGTATTAGCTCGCACGT 60.538 52.381 0.00 0.00 0.00 4.49
2200 3047 1.222936 CGCTCATCCTTCTTGGGCT 59.777 57.895 0.00 0.00 38.47 5.19
2203 3050 1.211456 CTCATCCTTCTTGGGCTCCT 58.789 55.000 0.00 0.00 36.20 3.69
2225 3072 4.146245 TGGCCATCCCTCTATCTATTGA 57.854 45.455 0.00 0.00 0.00 2.57
2230 3077 5.283763 CCATCCCTCTATCTATTGATCCCA 58.716 45.833 0.00 0.00 34.32 4.37
2238 3085 2.050144 TCTATTGATCCCACCTCAGGC 58.950 52.381 0.00 0.00 0.00 4.85
2241 3088 1.488705 TTGATCCCACCTCAGGCGTT 61.489 55.000 0.00 0.00 0.00 4.84
2285 3132 6.349280 GCTAAGTTTCACAAACATCCATGCTA 60.349 38.462 2.16 0.00 43.79 3.49
2340 3208 1.699083 TGTGGATGTGTGATGAGGTGT 59.301 47.619 0.00 0.00 0.00 4.16
2357 3225 3.712733 AGGTGTCTTGGTGTAGGTGTTTA 59.287 43.478 0.00 0.00 0.00 2.01
2427 3300 6.489675 ACAAAATCTAATAGCACGAGCAATG 58.510 36.000 7.77 0.00 45.49 2.82
2670 4036 2.481276 CGCCTCTTAATCGGTCACATCA 60.481 50.000 0.00 0.00 0.00 3.07
2705 4072 5.899299 AGCAGAGCATATTTTGATCCAAAC 58.101 37.500 0.00 0.00 41.83 2.93
2836 4203 6.164876 TGCTTGTATGGACATGAAATTTTGG 58.835 36.000 0.00 0.00 34.86 3.28
3003 4417 3.760684 AGCTTGATGGAATGGTTTCTGAC 59.239 43.478 0.00 0.00 32.16 3.51
3072 4486 3.118592 CGGGCCTAGAAACAGAAGAAGAT 60.119 47.826 0.84 0.00 0.00 2.40
3073 4487 4.195416 GGGCCTAGAAACAGAAGAAGATG 58.805 47.826 0.84 0.00 0.00 2.90
3074 4488 4.080863 GGGCCTAGAAACAGAAGAAGATGA 60.081 45.833 0.84 0.00 0.00 2.92
3075 4489 5.397334 GGGCCTAGAAACAGAAGAAGATGAT 60.397 44.000 0.84 0.00 0.00 2.45
3076 4490 5.526846 GGCCTAGAAACAGAAGAAGATGATG 59.473 44.000 0.00 0.00 0.00 3.07
3077 4491 6.344500 GCCTAGAAACAGAAGAAGATGATGA 58.656 40.000 0.00 0.00 0.00 2.92
3356 4828 2.590821 AGCTGCCTCAAAGACACATTT 58.409 42.857 0.00 0.00 0.00 2.32
3358 4830 3.385755 AGCTGCCTCAAAGACACATTTTT 59.614 39.130 0.00 0.00 0.00 1.94
3660 5145 6.789262 ACTATCTATGTACGTTGTGGTGTAC 58.211 40.000 0.00 0.00 41.00 2.90
3881 5381 6.374417 ACCACCAGTCACTACAAGAAATAT 57.626 37.500 0.00 0.00 0.00 1.28
3919 5420 4.285775 TCACTATTGGTCACTGAATGGTCA 59.714 41.667 0.00 0.00 0.00 4.02
3958 5470 4.441792 ACCAAAAACAGATGGTCAAAAGC 58.558 39.130 0.00 0.00 46.94 3.51
3974 5486 2.554370 AAGCTGGCCGTTGTAAACTA 57.446 45.000 0.00 0.00 46.99 2.24
4012 5524 0.745468 AGGATAAGGTCGTCGAAGGC 59.255 55.000 0.00 0.00 0.00 4.35
4019 5531 0.389948 GGTCGTCGAAGGCAATGACT 60.390 55.000 5.11 0.00 0.00 3.41
4033 5545 4.679654 GGCAATGACTAAAACAAAAGGTCG 59.320 41.667 0.00 0.00 0.00 4.79
4036 5548 7.148733 CAATGACTAAAACAAAAGGTCGTTG 57.851 36.000 10.49 10.49 42.96 4.10
4039 5551 6.721321 TGACTAAAACAAAAGGTCGTTGATC 58.279 36.000 0.00 0.00 0.00 2.92
4060 5572 3.135167 TCCTACGACCTTCTGTTTTGGTT 59.865 43.478 0.00 0.00 33.74 3.67
4076 5588 2.103042 GTTGCTAGCTGTCTGCCCG 61.103 63.158 17.23 0.00 44.23 6.13
4166 5678 0.331278 AATCAGCCCGGTCCATTTCA 59.669 50.000 0.00 0.00 0.00 2.69
4178 5690 4.991056 CGGTCCATTTCAGTGTCTATATGG 59.009 45.833 0.00 0.00 35.08 2.74
4184 5696 2.889512 TCAGTGTCTATATGGGCCGAT 58.110 47.619 5.29 5.29 0.00 4.18
4185 5697 2.826128 TCAGTGTCTATATGGGCCGATC 59.174 50.000 2.36 0.00 0.00 3.69
4186 5698 2.093973 CAGTGTCTATATGGGCCGATCC 60.094 54.545 2.36 0.00 0.00 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 2.106511 TCAGTCAAAACCTTGGAGGAGG 59.893 50.000 0.07 0.00 37.67 4.30
46 47 9.944376 AGAGTATTTAGTTATGCTCAGTCAAAA 57.056 29.630 0.00 0.00 39.04 2.44
68 69 7.014326 GGTGGATTAAAGGAAGAACAAAAGAGT 59.986 37.037 0.00 0.00 0.00 3.24
70 71 7.066781 AGGTGGATTAAAGGAAGAACAAAAGA 58.933 34.615 0.00 0.00 0.00 2.52
85 86 6.252233 TGTTCATGAATTGGAGGTGGATTAA 58.748 36.000 12.12 0.00 0.00 1.40
86 87 5.825532 TGTTCATGAATTGGAGGTGGATTA 58.174 37.500 12.12 0.00 0.00 1.75
159 160 3.773418 CTCCCATGATGAGCTTGATCT 57.227 47.619 0.00 0.00 0.00 2.75
216 217 3.469863 GAGGTTGTCACGGTGGCCA 62.470 63.158 10.66 0.00 0.00 5.36
246 247 1.126488 GGCAGGAGGAGATGACATCA 58.874 55.000 17.57 0.00 0.00 3.07
292 293 0.747283 CTCCTAGCCGACTACCACGT 60.747 60.000 0.00 0.00 0.00 4.49
323 324 1.229464 AGGAGCTTGAGCCAGAGGT 60.229 57.895 0.00 0.00 43.38 3.85
387 388 1.607467 ACAGCCCATTGCCCACTTC 60.607 57.895 0.00 0.00 42.71 3.01
441 442 6.281405 ACAAGTCGATGTAACAAGTCTTCTT 58.719 36.000 0.00 0.00 0.00 2.52
607 608 6.349300 ACTATTTGGCCATGTGTACTAAGAG 58.651 40.000 6.09 4.27 0.00 2.85
659 667 3.877951 TCCAGGAGGAGTACGTCTC 57.122 57.895 0.00 9.18 39.61 3.36
712 720 7.862274 AAGGAAAGAAAAGAATGGAGGAAAT 57.138 32.000 0.00 0.00 0.00 2.17
747 757 6.824958 ATATAGTAGTTGGGAGGAAAGCAA 57.175 37.500 0.00 0.00 0.00 3.91
1118 1232 1.583054 GTTGCACTCGTTCTTCACCT 58.417 50.000 0.00 0.00 0.00 4.00
1300 1418 2.596046 ATCCAAAACACCGCCGCA 60.596 55.556 0.00 0.00 0.00 5.69
1304 1423 0.455815 GGATCCATCCAAAACACCGC 59.544 55.000 6.95 0.00 46.38 5.68
1329 1457 4.863131 GTGGTATGACGACTTTCGAATCTT 59.137 41.667 0.00 0.00 43.74 2.40
1365 1493 2.037136 CCGCCTTCAACTCTGCCAG 61.037 63.158 0.00 0.00 0.00 4.85
1467 1595 2.778679 GATGCACTTGACGCCGTC 59.221 61.111 10.96 10.96 0.00 4.79
1515 1643 2.920912 GGTGTCCACGAGTCCCCA 60.921 66.667 0.00 0.00 0.00 4.96
1530 1658 3.073650 AGTGAGCAGAAGAGGAAATTGGT 59.926 43.478 0.00 0.00 0.00 3.67
1535 1663 2.968574 ACTCAGTGAGCAGAAGAGGAAA 59.031 45.455 20.31 0.00 32.04 3.13
1609 1737 2.916716 CAGCAAACGCACAAATATGGAC 59.083 45.455 0.00 0.00 0.00 4.02
1789 1942 8.869897 CAAAGGGAGTAGTTTTCTTTTCAAAAC 58.130 33.333 1.35 1.35 43.73 2.43
1802 1956 3.458487 ACACCTGAACAAAGGGAGTAGTT 59.542 43.478 0.00 0.00 42.11 2.24
1813 1967 0.254462 TGCCAGACACACCTGAACAA 59.746 50.000 0.00 0.00 36.29 2.83
1932 2290 1.257750 CCTCCATCCAGGTGTGTCGA 61.258 60.000 0.00 0.00 39.02 4.20
1991 2350 2.612972 CGTGAACTAGGTGGCATCAAGT 60.613 50.000 0.00 0.00 0.00 3.16
2057 2421 1.413118 TGGAATCGCAGGCTAGATCA 58.587 50.000 0.00 0.00 0.00 2.92
2200 3047 1.224120 AGATAGAGGGATGGCCAAGGA 59.776 52.381 10.96 0.00 35.15 3.36
2203 3050 4.502415 TCAATAGATAGAGGGATGGCCAA 58.498 43.478 10.96 0.00 35.15 4.52
2225 3072 2.671070 CAACGCCTGAGGTGGGAT 59.329 61.111 17.47 0.00 37.55 3.85
2230 3077 1.229082 TACTCCCAACGCCTGAGGT 60.229 57.895 0.00 0.00 0.00 3.85
2285 3132 9.715121 AGCTATGTTTTCAATGTTGATGAAATT 57.285 25.926 2.88 0.00 43.94 1.82
2340 3208 5.313280 ACCAATAAACACCTACACCAAGA 57.687 39.130 0.00 0.00 0.00 3.02
2357 3225 7.301868 ACAAACATTATCCAGTGAAACCAAT 57.698 32.000 0.00 0.00 37.80 3.16
2427 3300 8.679288 TTACAAATACGACTACTTTACTGAGC 57.321 34.615 0.00 0.00 0.00 4.26
2670 4036 1.220206 CTCTGCTCGCAGGGAATGT 59.780 57.895 13.41 0.00 47.00 2.71
2970 4383 3.959293 TCCATCAAGCTGACATCAACAT 58.041 40.909 0.00 0.00 0.00 2.71
3003 4417 8.143835 GGATCAACAATGAAAGTTATATTGGGG 58.856 37.037 13.46 7.42 39.49 4.96
3010 4424 7.530010 CGTCTTGGATCAACAATGAAAGTTAT 58.470 34.615 0.00 0.00 39.49 1.89
3072 4486 1.476488 TCGTCGCCTTCATCTTCATCA 59.524 47.619 0.00 0.00 0.00 3.07
3073 4487 2.209838 TCGTCGCCTTCATCTTCATC 57.790 50.000 0.00 0.00 0.00 2.92
3074 4488 2.477825 CATCGTCGCCTTCATCTTCAT 58.522 47.619 0.00 0.00 0.00 2.57
3075 4489 1.471501 CCATCGTCGCCTTCATCTTCA 60.472 52.381 0.00 0.00 0.00 3.02
3076 4490 1.202417 TCCATCGTCGCCTTCATCTTC 60.202 52.381 0.00 0.00 0.00 2.87
3077 4491 0.824109 TCCATCGTCGCCTTCATCTT 59.176 50.000 0.00 0.00 0.00 2.40
3205 4658 5.768317 ACCATGTCTAAATTGGTGAAAACG 58.232 37.500 0.00 0.00 42.09 3.60
3350 4822 9.108449 CAATTGCATTACAACATGAAAAATGTG 57.892 29.630 0.00 0.00 42.27 3.21
3356 4828 7.281774 ACCAAACAATTGCATTACAACATGAAA 59.718 29.630 5.05 0.00 42.27 2.69
3358 4830 6.202379 CACCAAACAATTGCATTACAACATGA 59.798 34.615 5.05 0.00 42.27 3.07
3634 5119 7.395190 ACACCACAACGTACATAGATAGTTA 57.605 36.000 0.00 0.00 0.00 2.24
3648 5133 3.953874 TGTCAAATGTACACCACAACG 57.046 42.857 0.00 0.00 41.55 4.10
3660 5145 8.430801 TTTTAACAGAAAACCCATGTCAAATG 57.569 30.769 0.00 0.00 0.00 2.32
3881 5381 0.534877 AGTGATGGTCGCAAGTTGCA 60.535 50.000 26.56 11.72 45.36 4.08
3894 5395 5.188434 ACCATTCAGTGACCAATAGTGATG 58.812 41.667 0.00 0.00 0.00 3.07
3919 5420 7.175641 TGTTTTTGGTCACAAATGGAAAACAAT 59.824 29.630 8.50 0.00 45.31 2.71
3958 5470 6.303733 CGTTAATTTTAGTTTACAACGGCCAG 59.696 38.462 2.24 0.00 35.05 4.85
3995 5507 2.288961 TTGCCTTCGACGACCTTATC 57.711 50.000 0.00 0.00 0.00 1.75
4006 5518 5.402270 CCTTTTGTTTTAGTCATTGCCTTCG 59.598 40.000 0.00 0.00 0.00 3.79
4012 5524 6.970043 TCAACGACCTTTTGTTTTAGTCATTG 59.030 34.615 0.00 0.00 33.30 2.82
4019 5531 6.073657 CGTAGGATCAACGACCTTTTGTTTTA 60.074 38.462 12.97 0.00 42.90 1.52
4033 5545 3.870633 ACAGAAGGTCGTAGGATCAAC 57.129 47.619 0.00 0.00 0.00 3.18
4036 5548 3.933332 CCAAAACAGAAGGTCGTAGGATC 59.067 47.826 0.00 0.00 0.00 3.36
4039 5551 3.121738 ACCAAAACAGAAGGTCGTAGG 57.878 47.619 0.00 0.00 0.00 3.18
4060 5572 3.774528 CCGGGCAGACAGCTAGCA 61.775 66.667 18.83 0.00 44.79 3.49
4130 5642 5.123979 GGCTGATTCTTATCAACGACCTTTT 59.876 40.000 0.00 0.00 40.17 2.27
4138 5650 2.872858 GACCGGGCTGATTCTTATCAAC 59.127 50.000 6.32 0.00 40.17 3.18
4166 5678 2.180276 GGATCGGCCCATATAGACACT 58.820 52.381 0.00 0.00 0.00 3.55


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

AutoCloner maintained by Alex Coulton.