Multiple sequence alignment - TraesCS7B01G120600

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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 TraesCS7B01G120600 chr7B 100.000 2960 0 0 1 2960 140651691 140654650 0.000000e+00 5467.0
1 TraesCS7B01G120600 chr7D 92.606 1934 79 24 1077 2960 174992469 174994388 0.000000e+00 2721.0
2 TraesCS7B01G120600 chr7D 89.908 436 35 6 1 429 174989824 174990257 1.200000e-153 553.0
3 TraesCS7B01G120600 chr7D 86.379 301 32 5 666 963 174991980 174992274 1.320000e-83 320.0
4 TraesCS7B01G120600 chr7D 96.078 153 1 3 930 1080 174992275 174992424 8.200000e-61 244.0
5 TraesCS7B01G120600 chr7A 92.257 904 48 11 1077 1968 177136016 177136909 0.000000e+00 1262.0
6 TraesCS7B01G120600 chr7A 87.127 536 58 10 1 527 177134902 177135435 5.460000e-167 597.0
7 TraesCS7B01G120600 chr7A 91.148 418 27 8 666 1080 177135564 177135974 2.580000e-155 558.0
8 TraesCS7B01G120600 chr7A 82.025 484 48 17 2372 2826 177137577 177138050 2.790000e-100 375.0
9 TraesCS7B01G120600 chr7A 96.226 106 4 0 2348 2453 177137512 177137617 1.090000e-39 174.0
10 TraesCS7B01G120600 chr7A 83.200 125 7 2 2227 2351 177137105 177137215 5.220000e-18 102.0
11 TraesCS7B01G120600 chr6A 94.304 158 9 0 1217 1374 520355710 520355553 2.950000e-60 243.0
12 TraesCS7B01G120600 chr6A 89.474 57 6 0 767 823 607937369 607937313 4.090000e-09 73.1
13 TraesCS7B01G120600 chr6D 93.671 158 10 0 1217 1374 378379440 378379283 1.370000e-58 237.0
14 TraesCS7B01G120600 chr6B 92.405 158 12 0 1217 1374 564993598 564993441 2.970000e-55 226.0
15 TraesCS7B01G120600 chr2D 89.941 169 17 0 1206 1374 32763259 32763427 4.970000e-53 219.0
16 TraesCS7B01G120600 chr2D 81.250 80 15 0 701 780 11387263 11387342 6.850000e-07 65.8
17 TraesCS7B01G120600 chr2B 89.941 169 17 0 1206 1374 54440327 54440495 4.970000e-53 219.0
18 TraesCS7B01G120600 chr2A 90.244 164 16 0 1211 1374 35976009 35976172 6.430000e-52 215.0
19 TraesCS7B01G120600 chr3B 91.447 152 11 2 1216 1366 646003126 646002976 1.080000e-49 207.0
20 TraesCS7B01G120600 chr3B 93.750 48 2 1 678 725 583396481 583396435 1.470000e-08 71.3
21 TraesCS7B01G120600 chr5A 78.344 157 30 4 677 831 621022553 621022399 6.750000e-17 99.0
22 TraesCS7B01G120600 chr3A 88.636 44 5 0 158 201 621871939 621871982 1.000000e-03 54.7


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 TraesCS7B01G120600 chr7B 140651691 140654650 2959 False 5467.000000 5467 100.000000 1 2960 1 chr7B.!!$F1 2959
1 TraesCS7B01G120600 chr7D 174989824 174994388 4564 False 959.500000 2721 91.242750 1 2960 4 chr7D.!!$F1 2959
2 TraesCS7B01G120600 chr7A 177134902 177138050 3148 False 511.333333 1262 88.663833 1 2826 6 chr7A.!!$F1 2825

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
699 2271 0.246635 ACGTCTCCTCCCATTGAACG 59.753 55.0 0.0 0.0 0.0 3.95 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2425 4421 0.46362 GGCCAAGCTGAACCAACAAA 59.536 50.0 0.0 0.0 0.0 2.83 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
89 91 8.830201 ATTATGCACATCTATTCTTCTCTCAC 57.170 34.615 0.00 0.00 0.00 3.51
131 133 9.403583 TCACTAAGTTCCTCATGTTTTTAAACT 57.596 29.630 6.87 0.00 39.59 2.66
134 136 7.654022 AAGTTCCTCATGTTTTTAAACTCCA 57.346 32.000 6.87 0.00 39.59 3.86
156 162 7.279615 TCCATAATTAATGTGTCCGATTCAGT 58.720 34.615 0.00 0.00 33.34 3.41
185 191 6.496565 TGGTTCATGATTTTGACTGGGTTAAT 59.503 34.615 0.00 0.00 0.00 1.40
225 231 2.429250 GCGGCAACCACCCTATAAAAAT 59.571 45.455 0.00 0.00 0.00 1.82
286 294 7.808381 ACAATATAGTGCATACAACTACTAGCG 59.192 37.037 0.00 0.00 0.00 4.26
298 306 9.702494 ATACAACTACTAGCGTAAGAAACTTTT 57.298 29.630 0.00 0.00 43.02 2.27
301 309 7.870588 ACTACTAGCGTAAGAAACTTTTCTG 57.129 36.000 4.99 0.00 46.22 3.02
313 321 6.314784 AGAAACTTTTCTGCATACGTATTGC 58.685 36.000 17.62 17.62 45.27 3.56
403 411 5.643777 AGAAAACACACTCAATTATCTCCCG 59.356 40.000 0.00 0.00 0.00 5.14
416 424 2.203408 TCCCGCACATGCCAAACA 60.203 55.556 0.00 0.00 37.91 2.83
429 437 8.288913 GCACATGCCAAACAAAGTAATATTTTT 58.711 29.630 0.00 0.00 34.31 1.94
454 1994 6.590068 TCATGAAATCCAAAACACCAACAAT 58.410 32.000 0.00 0.00 0.00 2.71
459 1999 4.148128 TCCAAAACACCAACAATGCAAT 57.852 36.364 0.00 0.00 0.00 3.56
465 2005 4.134379 ACACCAACAATGCAATGAAACA 57.866 36.364 9.20 0.00 0.00 2.83
480 2020 0.822121 AAACACGCCCAACCCTTCTC 60.822 55.000 0.00 0.00 0.00 2.87
488 2028 3.613030 GCCCAACCCTTCTCGTAATAAA 58.387 45.455 0.00 0.00 0.00 1.40
518 2058 4.853196 CACACTTGTCTTTTGTGAACACAG 59.147 41.667 7.67 0.00 42.77 3.66
527 2067 7.094592 TGTCTTTTGTGAACACAGTACAATTGA 60.095 33.333 13.59 0.00 42.94 2.57
529 2069 6.993786 TTTGTGAACACAGTACAATTGAGA 57.006 33.333 13.59 0.00 42.94 3.27
530 2070 7.566760 TTTGTGAACACAGTACAATTGAGAT 57.433 32.000 13.59 0.00 42.94 2.75
533 2073 6.765512 TGTGAACACAGTACAATTGAGATTGA 59.234 34.615 13.59 0.00 39.64 2.57
535 2075 7.747799 GTGAACACAGTACAATTGAGATTGATG 59.252 37.037 13.59 9.48 44.37 3.07
537 2077 7.984422 ACACAGTACAATTGAGATTGATGAA 57.016 32.000 13.59 0.00 44.37 2.57
538 2078 8.037382 ACACAGTACAATTGAGATTGATGAAG 57.963 34.615 13.59 2.98 44.37 3.02
540 2080 8.173775 CACAGTACAATTGAGATTGATGAAGTC 58.826 37.037 13.59 0.00 44.37 3.01
541 2081 7.879677 ACAGTACAATTGAGATTGATGAAGTCA 59.120 33.333 13.59 0.00 44.37 3.41
542 2082 8.173775 CAGTACAATTGAGATTGATGAAGTCAC 58.826 37.037 13.59 0.00 44.37 3.67
543 2083 8.099537 AGTACAATTGAGATTGATGAAGTCACT 58.900 33.333 13.59 0.00 44.37 3.41
544 2084 7.142306 ACAATTGAGATTGATGAAGTCACTG 57.858 36.000 13.59 0.00 44.37 3.66
545 2085 6.938596 ACAATTGAGATTGATGAAGTCACTGA 59.061 34.615 13.59 0.00 44.37 3.41
550 2090 9.676861 TTGAGATTGATGAAGTCACTGAATATT 57.323 29.630 0.00 0.00 36.32 1.28
551 2091 9.106070 TGAGATTGATGAAGTCACTGAATATTG 57.894 33.333 0.00 0.00 36.32 1.90
553 2093 9.327628 AGATTGATGAAGTCACTGAATATTGAG 57.672 33.333 0.00 0.00 36.32 3.02
554 2094 9.322773 GATTGATGAAGTCACTGAATATTGAGA 57.677 33.333 9.05 0.00 36.32 3.27
555 2095 9.848710 ATTGATGAAGTCACTGAATATTGAGAT 57.151 29.630 9.05 0.00 36.32 2.75
557 2097 9.978044 TGATGAAGTCACTGAATATTGAGATAG 57.022 33.333 9.05 0.00 0.00 2.08
581 2153 1.926108 ATACCTCCGAGATACTGGGC 58.074 55.000 0.00 0.00 29.20 5.36
589 2161 2.203070 GATACTGGGCCGCCACAG 60.203 66.667 20.34 20.34 40.48 3.66
604 2176 4.758674 CCGCCACAGAATATTGAGATTGAT 59.241 41.667 0.00 0.00 0.00 2.57
645 2217 4.653868 TCTTAGTCAAGAGGAACGTCTCT 58.346 43.478 1.07 1.07 45.22 3.10
661 2233 3.621268 CGTCTCTTTCCACTGAACAAACA 59.379 43.478 0.00 0.00 0.00 2.83
662 2234 4.273480 CGTCTCTTTCCACTGAACAAACAT 59.727 41.667 0.00 0.00 0.00 2.71
663 2235 5.220854 CGTCTCTTTCCACTGAACAAACATT 60.221 40.000 0.00 0.00 0.00 2.71
664 2236 6.018262 CGTCTCTTTCCACTGAACAAACATTA 60.018 38.462 0.00 0.00 0.00 1.90
665 2237 7.307989 CGTCTCTTTCCACTGAACAAACATTAT 60.308 37.037 0.00 0.00 0.00 1.28
666 2238 8.017946 GTCTCTTTCCACTGAACAAACATTATC 58.982 37.037 0.00 0.00 0.00 1.75
667 2239 7.939039 TCTCTTTCCACTGAACAAACATTATCT 59.061 33.333 0.00 0.00 0.00 1.98
668 2240 8.463930 TCTTTCCACTGAACAAACATTATCTT 57.536 30.769 0.00 0.00 0.00 2.40
669 2241 9.567776 TCTTTCCACTGAACAAACATTATCTTA 57.432 29.630 0.00 0.00 0.00 2.10
670 2242 9.831737 CTTTCCACTGAACAAACATTATCTTAG 57.168 33.333 0.00 0.00 0.00 2.18
671 2243 8.918202 TTCCACTGAACAAACATTATCTTAGT 57.082 30.769 0.00 0.00 0.00 2.24
672 2244 8.322906 TCCACTGAACAAACATTATCTTAGTG 57.677 34.615 0.00 0.00 33.51 2.74
673 2245 8.154203 TCCACTGAACAAACATTATCTTAGTGA 58.846 33.333 0.00 0.00 35.15 3.41
674 2246 8.783093 CCACTGAACAAACATTATCTTAGTGAA 58.217 33.333 0.00 0.00 35.15 3.18
675 2247 9.817365 CACTGAACAAACATTATCTTAGTGAAG 57.183 33.333 0.00 0.00 35.15 3.02
676 2248 9.778741 ACTGAACAAACATTATCTTAGTGAAGA 57.221 29.630 0.00 0.00 45.75 2.87
678 2250 9.219603 TGAACAAACATTATCTTAGTGAAGAGG 57.780 33.333 0.00 0.00 44.90 3.69
679 2251 9.436957 GAACAAACATTATCTTAGTGAAGAGGA 57.563 33.333 0.00 0.00 44.90 3.71
680 2252 9.793259 AACAAACATTATCTTAGTGAAGAGGAA 57.207 29.630 0.00 0.00 44.90 3.36
681 2253 9.220767 ACAAACATTATCTTAGTGAAGAGGAAC 57.779 33.333 0.00 0.00 44.90 3.62
682 2254 8.383619 CAAACATTATCTTAGTGAAGAGGAACG 58.616 37.037 0.00 0.00 44.90 3.95
683 2255 7.171630 ACATTATCTTAGTGAAGAGGAACGT 57.828 36.000 0.00 0.00 44.90 3.99
684 2256 7.259161 ACATTATCTTAGTGAAGAGGAACGTC 58.741 38.462 0.00 0.00 44.90 4.34
685 2257 7.122948 ACATTATCTTAGTGAAGAGGAACGTCT 59.877 37.037 0.00 0.00 44.90 4.18
686 2258 5.570234 ATCTTAGTGAAGAGGAACGTCTC 57.430 43.478 0.00 0.00 44.90 3.36
687 2259 3.757493 TCTTAGTGAAGAGGAACGTCTCC 59.243 47.826 8.26 8.26 45.81 3.71
695 2267 3.460648 GGAACGTCTCCTCCCATTG 57.539 57.895 8.87 0.00 41.61 2.82
696 2268 0.902531 GGAACGTCTCCTCCCATTGA 59.097 55.000 8.87 0.00 41.61 2.57
697 2269 1.278127 GGAACGTCTCCTCCCATTGAA 59.722 52.381 8.87 0.00 41.61 2.69
698 2270 2.347731 GAACGTCTCCTCCCATTGAAC 58.652 52.381 0.00 0.00 0.00 3.18
699 2271 0.246635 ACGTCTCCTCCCATTGAACG 59.753 55.000 0.00 0.00 0.00 3.95
700 2272 0.530744 CGTCTCCTCCCATTGAACGA 59.469 55.000 0.00 0.00 0.00 3.85
701 2273 1.067142 CGTCTCCTCCCATTGAACGAA 60.067 52.381 0.00 0.00 0.00 3.85
702 2274 2.347731 GTCTCCTCCCATTGAACGAAC 58.652 52.381 0.00 0.00 0.00 3.95
708 2280 3.119849 CCTCCCATTGAACGAACATTGTC 60.120 47.826 0.00 0.00 0.00 3.18
715 2287 4.209452 TGAACGAACATTGTCAGAAAGC 57.791 40.909 0.00 0.00 0.00 3.51
717 2289 1.880027 ACGAACATTGTCAGAAAGCCC 59.120 47.619 0.00 0.00 0.00 5.19
718 2290 1.135972 CGAACATTGTCAGAAAGCCCG 60.136 52.381 0.00 0.00 0.00 6.13
729 2301 6.155827 TGTCAGAAAGCCCGAAATAAATTTG 58.844 36.000 0.00 0.00 0.00 2.32
739 2311 7.276878 AGCCCGAAATAAATTTGGAAAAATACG 59.723 33.333 0.00 0.00 44.46 3.06
788 2360 6.387465 TGAACTCTAGTGGACTAATTTCACG 58.613 40.000 0.00 0.00 36.60 4.35
829 2405 3.839293 GAGTTACGCTCACTTCACTCAT 58.161 45.455 0.00 0.00 43.58 2.90
835 2411 2.072298 GCTCACTTCACTCATCACACC 58.928 52.381 0.00 0.00 0.00 4.16
843 2419 4.991153 TCACTCATCACACCTGTCTATC 57.009 45.455 0.00 0.00 0.00 2.08
844 2420 4.604156 TCACTCATCACACCTGTCTATCT 58.396 43.478 0.00 0.00 0.00 1.98
845 2421 5.755849 TCACTCATCACACCTGTCTATCTA 58.244 41.667 0.00 0.00 0.00 1.98
846 2422 6.187682 TCACTCATCACACCTGTCTATCTAA 58.812 40.000 0.00 0.00 0.00 2.10
847 2423 6.836007 TCACTCATCACACCTGTCTATCTAAT 59.164 38.462 0.00 0.00 0.00 1.73
848 2424 7.013750 TCACTCATCACACCTGTCTATCTAATC 59.986 40.741 0.00 0.00 0.00 1.75
932 2543 2.432874 TCGCAGCTAAAGGGCAATAGTA 59.567 45.455 0.00 0.00 34.17 1.82
963 2574 3.157949 CGGGGAGGAAGAGGGAGC 61.158 72.222 0.00 0.00 0.00 4.70
1407 3080 1.524165 CTCCTCCTCCGACGTCGAT 60.524 63.158 37.65 0.00 43.02 3.59
1414 3087 0.307146 CTCCGACGTCGATAAGGACC 59.693 60.000 37.65 0.00 43.02 4.46
1420 3093 1.793134 CGTCGATAAGGACCCCTCCG 61.793 65.000 0.00 0.00 42.22 4.63
1452 3125 4.090057 GCCAAGAACGCACGCTCC 62.090 66.667 0.00 0.00 0.00 4.70
1572 3245 3.667087 GGAAGCATGCCGTTCACA 58.333 55.556 15.66 0.00 0.00 3.58
1596 3269 0.899717 TTGGCCCAAGCACCTTCATC 60.900 55.000 0.00 0.00 42.56 2.92
1698 3371 1.125093 TTCCGGCCTTCACCTTCTCA 61.125 55.000 0.00 0.00 0.00 3.27
1742 3415 2.352422 TGCCCCTGCAGTCACATC 59.648 61.111 13.81 0.00 44.23 3.06
1749 3422 1.271001 CCTGCAGTCACATCCACAGAA 60.271 52.381 13.81 0.00 0.00 3.02
1929 3602 3.575351 GAACACGGCGAGCTGGACT 62.575 63.158 16.62 0.00 0.00 3.85
2120 3796 4.393693 AGCTTGGCTGCTTCTGTC 57.606 55.556 0.00 0.00 40.93 3.51
2194 3893 7.332430 TGATTGATTACTACGGGTTTGTTGTAG 59.668 37.037 0.00 0.00 41.02 2.74
2199 3898 1.170290 ACGGGTTTGTTGTAGCCAGC 61.170 55.000 0.00 0.00 32.71 4.85
2262 3961 9.877178 AAATATCATGATCGGTACTCCTAATTC 57.123 33.333 12.53 0.00 0.00 2.17
2409 4405 1.496001 TGGTTCAGCATGGCCTATGAT 59.504 47.619 16.46 9.20 39.21 2.45
2425 4421 2.526888 TGATAACTCGGAGTGGGAGT 57.473 50.000 12.12 0.00 46.27 3.85
2456 4493 1.009829 GCTTGGCCTATGACAAGACG 58.990 55.000 16.95 0.00 45.22 4.18
2528 4565 1.300620 CAGTTCTGTTCCGCGGTGA 60.301 57.895 27.15 16.03 0.00 4.02
2552 4589 7.864379 TGATGTGCATTCTTTCTTTCTTTCTTC 59.136 33.333 0.00 0.00 0.00 2.87
2589 4628 9.425577 CCTTTAATTAAGAAGAAGAGAGTCGTT 57.574 33.333 0.00 0.00 35.80 3.85
2605 4644 8.188799 AGAGAGTCGTTCGATAATTATCAAACA 58.811 33.333 22.78 11.48 30.91 2.83
2606 4645 8.341477 AGAGTCGTTCGATAATTATCAAACAG 57.659 34.615 22.78 16.82 30.91 3.16
2607 4646 8.188799 AGAGTCGTTCGATAATTATCAAACAGA 58.811 33.333 22.78 18.25 30.91 3.41
2674 4715 2.017782 ACAATACAACGCACACCACAA 58.982 42.857 0.00 0.00 0.00 3.33
2685 4726 3.733380 CGCACACCACAATGAAGAAAACA 60.733 43.478 0.00 0.00 0.00 2.83
2708 4749 3.364621 TCGTCGAGGTTTTACATTAACGC 59.635 43.478 4.85 0.00 0.00 4.84
2760 4827 2.317609 CCGCCGACCAAGTTCACAG 61.318 63.158 0.00 0.00 0.00 3.66
2794 4861 4.205587 GAGAAGGCACATGAAGATCCAAT 58.794 43.478 0.00 0.00 0.00 3.16
2868 4935 1.261480 GAGCCACAGAGGAGAACTGA 58.739 55.000 0.00 0.00 41.22 3.41
2881 4948 4.677151 ACTGACCCCTCCCCCACC 62.677 72.222 0.00 0.00 0.00 4.61
2888 4955 4.693915 CCTCCCCCACCCCCTTCA 62.694 72.222 0.00 0.00 0.00 3.02
2937 5004 3.729698 TCGGTGCGACATCGACGT 61.730 61.111 10.44 0.00 42.26 4.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
50 51 4.643784 TGTGCATAATTACATGTCCATGCA 59.356 37.500 22.43 22.43 44.60 3.96
126 128 9.621629 AATCGGACACATTAATTATGGAGTTTA 57.378 29.630 2.37 0.00 38.64 2.01
129 131 7.279615 TGAATCGGACACATTAATTATGGAGT 58.720 34.615 2.37 0.00 38.64 3.85
130 132 7.442364 ACTGAATCGGACACATTAATTATGGAG 59.558 37.037 0.00 0.00 38.64 3.86
131 133 7.279615 ACTGAATCGGACACATTAATTATGGA 58.720 34.615 0.00 0.00 38.64 3.41
142 148 4.280436 ACCAAATACTGAATCGGACACA 57.720 40.909 0.00 0.00 0.00 3.72
156 162 6.496565 ACCCAGTCAAAATCATGAACCAAATA 59.503 34.615 0.00 0.00 0.00 1.40
185 191 4.245660 CCGCTAGTTGATTTCAGAAGTCA 58.754 43.478 4.27 4.27 0.00 3.41
238 246 2.752354 TGCTATAATGCCGCAGTGTTTT 59.248 40.909 3.00 0.00 0.00 2.43
286 294 9.262472 CAATACGTATGCAGAAAAGTTTCTTAC 57.738 33.333 9.24 4.34 44.70 2.34
298 306 6.280643 ACTAATCAAGCAATACGTATGCAGA 58.719 36.000 22.96 20.25 46.22 4.26
301 309 7.869016 TCTACTAATCAAGCAATACGTATGC 57.131 36.000 9.24 14.20 44.15 3.14
347 355 5.887214 ACAGAATTTTAGTGGGCCTTTTT 57.113 34.783 4.53 0.00 0.00 1.94
403 411 6.966435 AATATTACTTTGTTTGGCATGTGC 57.034 33.333 0.00 0.00 41.14 4.57
429 437 5.982356 TGTTGGTGTTTTGGATTTCATGAA 58.018 33.333 3.38 3.38 0.00 2.57
431 439 6.660722 CATTGTTGGTGTTTTGGATTTCATG 58.339 36.000 0.00 0.00 0.00 3.07
454 1994 0.249238 GTTGGGCGTGTTTCATTGCA 60.249 50.000 0.00 0.00 0.00 4.08
459 1999 1.076632 AAGGGTTGGGCGTGTTTCA 60.077 52.632 0.00 0.00 0.00 2.69
465 2005 1.474332 TTACGAGAAGGGTTGGGCGT 61.474 55.000 0.00 0.00 35.95 5.68
480 2020 9.878599 AAGACAAGTGTGATTCTTTTTATTACG 57.121 29.630 0.00 0.00 0.00 3.18
488 2028 7.156876 TCACAAAAGACAAGTGTGATTCTTT 57.843 32.000 1.74 0.00 45.02 2.52
509 2049 7.189693 TCAATCTCAATTGTACTGTGTTCAC 57.810 36.000 5.13 0.00 42.46 3.18
518 2058 8.173775 CAGTGACTTCATCAATCTCAATTGTAC 58.826 37.037 5.13 0.00 42.46 2.90
527 2067 9.327628 CTCAATATTCAGTGACTTCATCAATCT 57.672 33.333 0.00 0.00 39.72 2.40
529 2069 9.848710 ATCTCAATATTCAGTGACTTCATCAAT 57.151 29.630 0.00 0.00 39.72 2.57
544 2084 9.743057 CGGAGGTATTCATCTATCTCAATATTC 57.257 37.037 0.00 0.00 31.58 1.75
545 2085 9.480861 TCGGAGGTATTCATCTATCTCAATATT 57.519 33.333 0.00 0.00 31.58 1.28
550 2090 6.128138 TCTCGGAGGTATTCATCTATCTCA 57.872 41.667 4.96 0.00 31.58 3.27
551 2091 7.990886 AGTATCTCGGAGGTATTCATCTATCTC 59.009 40.741 4.96 0.00 0.00 2.75
553 2093 7.012894 CCAGTATCTCGGAGGTATTCATCTATC 59.987 44.444 4.96 0.00 0.00 2.08
554 2094 6.831353 CCAGTATCTCGGAGGTATTCATCTAT 59.169 42.308 4.96 0.00 0.00 1.98
555 2095 6.181190 CCAGTATCTCGGAGGTATTCATCTA 58.819 44.000 4.96 0.00 0.00 1.98
557 2097 4.158764 CCCAGTATCTCGGAGGTATTCATC 59.841 50.000 4.96 0.00 0.00 2.92
558 2098 4.090090 CCCAGTATCTCGGAGGTATTCAT 58.910 47.826 4.96 0.00 0.00 2.57
562 2134 1.550409 GGCCCAGTATCTCGGAGGTAT 60.550 57.143 4.96 0.00 0.00 2.73
563 2135 0.178970 GGCCCAGTATCTCGGAGGTA 60.179 60.000 4.96 0.00 0.00 3.08
581 2153 4.129380 TCAATCTCAATATTCTGTGGCGG 58.871 43.478 0.00 0.00 0.00 6.13
589 2161 7.571026 CGGTGACTTCATCAATCTCAATATTC 58.429 38.462 0.00 0.00 39.72 1.75
604 2176 1.375908 GATGCCTGCGGTGACTTCA 60.376 57.895 0.00 0.00 0.00 3.02
645 2217 9.349713 ACTAAGATAATGTTTGTTCAGTGGAAA 57.650 29.630 0.00 0.00 34.13 3.13
661 2233 7.201839 GGAGACGTTCCTCTTCACTAAGATAAT 60.202 40.741 4.47 0.00 43.16 1.28
662 2234 6.095160 GGAGACGTTCCTCTTCACTAAGATAA 59.905 42.308 4.47 0.00 43.16 1.75
663 2235 5.589452 GGAGACGTTCCTCTTCACTAAGATA 59.411 44.000 4.47 0.00 43.16 1.98
664 2236 4.399934 GGAGACGTTCCTCTTCACTAAGAT 59.600 45.833 4.47 0.00 43.16 2.40
665 2237 3.757493 GGAGACGTTCCTCTTCACTAAGA 59.243 47.826 4.47 0.00 43.16 2.10
666 2238 4.099380 GGAGACGTTCCTCTTCACTAAG 57.901 50.000 4.47 0.00 43.16 2.18
678 2250 2.347731 GTTCAATGGGAGGAGACGTTC 58.652 52.381 0.00 0.00 0.00 3.95
679 2251 1.337823 CGTTCAATGGGAGGAGACGTT 60.338 52.381 0.00 0.00 0.00 3.99
680 2252 0.246635 CGTTCAATGGGAGGAGACGT 59.753 55.000 0.00 0.00 0.00 4.34
681 2253 0.530744 TCGTTCAATGGGAGGAGACG 59.469 55.000 0.00 0.00 0.00 4.18
682 2254 2.289444 TGTTCGTTCAATGGGAGGAGAC 60.289 50.000 0.00 0.00 0.00 3.36
683 2255 1.974957 TGTTCGTTCAATGGGAGGAGA 59.025 47.619 0.00 0.00 0.00 3.71
684 2256 2.472695 TGTTCGTTCAATGGGAGGAG 57.527 50.000 0.00 0.00 0.00 3.69
685 2257 3.081061 CAATGTTCGTTCAATGGGAGGA 58.919 45.455 0.00 0.00 0.00 3.71
686 2258 2.819608 ACAATGTTCGTTCAATGGGAGG 59.180 45.455 0.00 0.00 0.00 4.30
687 2259 3.501828 TGACAATGTTCGTTCAATGGGAG 59.498 43.478 0.00 0.00 0.00 4.30
688 2260 3.481453 TGACAATGTTCGTTCAATGGGA 58.519 40.909 0.00 0.00 0.00 4.37
689 2261 3.501828 TCTGACAATGTTCGTTCAATGGG 59.498 43.478 0.00 0.00 0.00 4.00
690 2262 4.747540 TCTGACAATGTTCGTTCAATGG 57.252 40.909 0.00 0.00 0.00 3.16
691 2263 5.116074 GCTTTCTGACAATGTTCGTTCAATG 59.884 40.000 0.00 0.00 0.00 2.82
692 2264 5.215160 GCTTTCTGACAATGTTCGTTCAAT 58.785 37.500 0.00 0.00 0.00 2.57
693 2265 4.497340 GGCTTTCTGACAATGTTCGTTCAA 60.497 41.667 0.00 0.00 0.00 2.69
694 2266 3.003275 GGCTTTCTGACAATGTTCGTTCA 59.997 43.478 0.00 0.00 0.00 3.18
695 2267 3.555518 GGCTTTCTGACAATGTTCGTTC 58.444 45.455 0.00 0.00 0.00 3.95
696 2268 2.293399 GGGCTTTCTGACAATGTTCGTT 59.707 45.455 0.00 0.00 0.00 3.85
697 2269 1.880027 GGGCTTTCTGACAATGTTCGT 59.120 47.619 0.00 0.00 0.00 3.85
698 2270 1.135972 CGGGCTTTCTGACAATGTTCG 60.136 52.381 0.00 0.00 0.00 3.95
699 2271 2.151202 TCGGGCTTTCTGACAATGTTC 58.849 47.619 0.00 0.00 0.00 3.18
700 2272 2.270352 TCGGGCTTTCTGACAATGTT 57.730 45.000 0.00 0.00 0.00 2.71
701 2273 2.270352 TTCGGGCTTTCTGACAATGT 57.730 45.000 0.00 0.00 0.00 2.71
702 2274 3.855689 ATTTCGGGCTTTCTGACAATG 57.144 42.857 0.00 0.00 0.00 2.82
708 2280 5.719173 TCCAAATTTATTTCGGGCTTTCTG 58.281 37.500 0.00 0.00 0.00 3.02
715 2287 8.588789 GTCGTATTTTTCCAAATTTATTTCGGG 58.411 33.333 0.00 0.00 34.29 5.14
717 2289 9.130312 TGGTCGTATTTTTCCAAATTTATTTCG 57.870 29.630 0.00 0.00 34.29 3.46
739 2311 7.376902 AGTCCTAGACTTGCCATTGATGGTC 62.377 48.000 11.43 5.00 44.20 4.02
768 2340 5.950883 TGTCGTGAAATTAGTCCACTAGAG 58.049 41.667 0.00 0.00 0.00 2.43
769 2341 5.970317 TGTCGTGAAATTAGTCCACTAGA 57.030 39.130 0.00 0.00 0.00 2.43
788 2360 4.020128 ACTCAGATGGTTAGGTTCCTTGTC 60.020 45.833 0.00 0.00 0.00 3.18
829 2405 7.785028 ACATTAGGATTAGATAGACAGGTGTGA 59.215 37.037 0.00 0.00 0.00 3.58
843 2419 8.064222 CACGTGCAAAATAGACATTAGGATTAG 58.936 37.037 0.82 0.00 0.00 1.73
844 2420 7.551262 ACACGTGCAAAATAGACATTAGGATTA 59.449 33.333 17.22 0.00 0.00 1.75
845 2421 6.374333 ACACGTGCAAAATAGACATTAGGATT 59.626 34.615 17.22 0.00 0.00 3.01
846 2422 5.880332 ACACGTGCAAAATAGACATTAGGAT 59.120 36.000 17.22 0.00 0.00 3.24
847 2423 5.121611 CACACGTGCAAAATAGACATTAGGA 59.878 40.000 17.22 0.00 0.00 2.94
848 2424 5.106712 ACACACGTGCAAAATAGACATTAGG 60.107 40.000 17.22 0.00 0.00 2.69
963 2574 0.941463 AAATATCCTCAGAGCGCGCG 60.941 55.000 28.44 28.44 0.00 6.86
970 2581 4.161565 AGCGGTTGTGTAAATATCCTCAGA 59.838 41.667 0.00 0.00 0.00 3.27
1396 3069 1.097547 GGGTCCTTATCGACGTCGGA 61.098 60.000 35.05 21.95 40.29 4.55
1397 3070 1.358046 GGGTCCTTATCGACGTCGG 59.642 63.158 35.05 20.02 40.29 4.79
1398 3071 1.099879 AGGGGTCCTTATCGACGTCG 61.100 60.000 31.30 31.30 41.45 5.12
1431 3104 3.777925 CGTGCGTTCTTGGCCTCG 61.778 66.667 3.32 2.39 0.00 4.63
1518 3191 2.551006 GGCACATGCACCAACGTCA 61.551 57.895 6.15 0.00 44.36 4.35
1627 3300 2.100631 CCTGGTCGGTGAACATCGC 61.101 63.158 2.41 0.00 34.38 4.58
1741 3414 2.338620 CGACGGCTGTTCTGTGGA 59.661 61.111 0.00 0.00 33.57 4.02
1742 3415 2.022129 GACGACGGCTGTTCTGTGG 61.022 63.158 0.00 0.00 36.07 4.17
2006 3679 3.482783 GCTGGAGCAAGCGACGAC 61.483 66.667 0.00 0.00 41.59 4.34
2035 3708 2.601763 CGGTGGTTACGATTAGACAAGC 59.398 50.000 0.00 0.00 0.00 4.01
2120 3796 3.829886 TTGCTAGCATGGAAAGAAACG 57.170 42.857 20.13 0.00 0.00 3.60
2169 3868 6.490566 ACAACAAACCCGTAGTAATCAATC 57.509 37.500 0.00 0.00 0.00 2.67
2249 3948 6.640092 CCGTCGAAATTAGAATTAGGAGTACC 59.360 42.308 0.00 0.00 0.00 3.34
2262 3961 2.666508 CAGTCCACACCGTCGAAATTAG 59.333 50.000 0.00 0.00 0.00 1.73
2425 4421 0.463620 GGCCAAGCTGAACCAACAAA 59.536 50.000 0.00 0.00 0.00 2.83
2456 4493 1.269998 AGTAGAAGAGCGTGTCACACC 59.730 52.381 1.24 0.00 0.00 4.16
2528 4565 7.949434 AGAAGAAAGAAAGAAAGAATGCACAT 58.051 30.769 0.00 0.00 0.00 3.21
2552 4589 5.365619 TCTTAATTAAAGGCTCCGGCTAAG 58.634 41.667 0.00 0.00 37.50 2.18
2615 4654 6.838239 CAGCAGATTGTGATGACTTTTGTCTC 60.838 42.308 0.00 0.00 46.14 3.36
2674 4715 3.926616 ACCTCGACGATGTTTTCTTCAT 58.073 40.909 0.00 0.00 0.00 2.57
2685 4726 4.032104 GCGTTAATGTAAAACCTCGACGAT 59.968 41.667 0.00 0.00 0.00 3.73
2708 4749 4.864916 AAGTCGAACGATGAATCAATGG 57.135 40.909 0.00 0.00 0.00 3.16
2760 4827 1.975363 GCCTTCTCACTCATGTGCGC 61.975 60.000 0.00 0.00 43.49 6.09
2794 4861 1.133513 AGGTGGTCAATTGCTTGTGGA 60.134 47.619 0.00 0.00 33.87 4.02
2844 4911 0.323816 TCTCCTCTGTGGCTCATCGT 60.324 55.000 0.00 0.00 35.26 3.73
2935 5002 2.096218 CCTTTCTTGCTTTTCCTCGACG 60.096 50.000 0.00 0.00 0.00 5.12
2937 5004 2.504367 CCCTTTCTTGCTTTTCCTCGA 58.496 47.619 0.00 0.00 0.00 4.04


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

AutoCloner maintained by Alex Coulton.