Multiple sequence alignment - TraesCS7D01G431300

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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 TraesCS7D01G431300 chr7D 100.000 3355 0 0 1 3355 550799417 550802771 0.000000e+00 6196.0
1 TraesCS7D01G431300 chr7D 90.309 1228 96 12 958 2168 550462905 550464126 0.000000e+00 1587.0
2 TraesCS7D01G431300 chr7D 87.801 1205 85 29 963 2144 550552999 550554164 0.000000e+00 1354.0
3 TraesCS7D01G431300 chr7D 91.853 491 28 4 958 1441 550643172 550643657 0.000000e+00 675.0
4 TraesCS7D01G431300 chr7D 77.253 932 74 70 105 959 550461990 550462860 1.440000e-113 420.0
5 TraesCS7D01G431300 chr7D 75.754 928 73 74 105 959 550642278 550643126 8.980000e-86 327.0
6 TraesCS7D01G431300 chr7D 78.966 561 35 29 447 959 550552423 550552948 4.210000e-79 305.0
7 TraesCS7D01G431300 chr7D 82.833 233 25 11 105 332 550551984 550552206 9.500000e-46 195.0
8 TraesCS7D01G431300 chr7A 89.052 2174 139 48 958 3066 636628964 636631103 0.000000e+00 2604.0
9 TraesCS7D01G431300 chr7A 90.333 1231 82 17 958 2163 636126808 636128026 0.000000e+00 1580.0
10 TraesCS7D01G431300 chr7A 89.084 1255 90 15 958 2171 635860263 635861511 0.000000e+00 1515.0
11 TraesCS7D01G431300 chr7A 92.739 303 17 4 660 959 636628633 636628933 1.850000e-117 433.0
12 TraesCS7D01G431300 chr7A 86.006 343 29 10 1 325 636627809 636628150 1.920000e-92 350.0
13 TraesCS7D01G431300 chr7A 90.909 231 7 4 445 663 636628373 636628601 7.040000e-77 298.0
14 TraesCS7D01G431300 chr7A 84.615 286 36 5 3071 3350 636631163 636631446 9.170000e-71 278.0
15 TraesCS7D01G431300 chr7A 79.545 396 35 20 447 804 636126272 636126659 1.200000e-59 241.0
16 TraesCS7D01G431300 chr7A 78.894 398 36 22 447 804 635859719 635860108 3.370000e-55 226.0
17 TraesCS7D01G431300 chr7A 85.556 180 14 7 2288 2460 636145132 636145306 9.570000e-41 178.0
18 TraesCS7D01G431300 chr7A 88.722 133 5 1 325 447 636628194 636628326 1.610000e-33 154.0
19 TraesCS7D01G431300 chr7A 100.000 40 0 0 823 862 636126658 636126697 1.290000e-09 75.0
20 TraesCS7D01G431300 chr7A 90.698 43 2 2 416 456 635859657 635859699 4.680000e-04 56.5
21 TraesCS7D01G431300 chr7B 92.740 1281 61 12 958 2226 595307264 595308524 0.000000e+00 1821.0
22 TraesCS7D01G431300 chr7B 88.580 1296 103 15 958 2223 595080483 595081763 0.000000e+00 1531.0
23 TraesCS7D01G431300 chr7B 88.518 1289 90 26 958 2202 595007362 595008636 0.000000e+00 1507.0
24 TraesCS7D01G431300 chr7B 92.857 714 32 12 1525 2220 595172824 595173536 0.000000e+00 1018.0
25 TraesCS7D01G431300 chr7B 94.495 436 20 4 445 878 595306488 595306921 0.000000e+00 669.0
26 TraesCS7D01G431300 chr7B 82.447 564 45 23 447 959 595006756 595007316 8.540000e-121 444.0
27 TraesCS7D01G431300 chr7B 86.649 367 22 7 2677 3043 595309530 595309869 6.790000e-102 381.0
28 TraesCS7D01G431300 chr7B 91.336 277 21 3 3067 3341 595309968 595310243 3.160000e-100 375.0
29 TraesCS7D01G431300 chr7B 87.419 310 20 10 664 959 595080137 595080441 4.150000e-89 339.0
30 TraesCS7D01G431300 chr7B 81.064 470 29 24 447 859 595165877 595166343 1.500000e-83 320.0
31 TraesCS7D01G431300 chr7B 87.500 280 23 4 57 325 595305995 595306273 2.510000e-81 313.0
32 TraesCS7D01G431300 chr7B 86.667 300 13 6 660 959 595166146 595166418 1.170000e-79 307.0
33 TraesCS7D01G431300 chr7B 89.744 234 10 7 2241 2465 595308506 595308734 1.520000e-73 287.0
34 TraesCS7D01G431300 chr7B 83.540 322 28 10 958 1259 595166461 595166777 9.170000e-71 278.0
35 TraesCS7D01G431300 chr7B 91.237 194 12 1 1338 1531 595166773 595166961 3.320000e-65 259.0
36 TraesCS7D01G431300 chr7B 94.656 131 6 1 325 454 595306317 595306447 5.680000e-48 202.0
37 TraesCS7D01G431300 chr7B 90.351 114 4 4 343 454 595079692 595079800 3.490000e-30 143.0
38 TraesCS7D01G431300 chr7B 97.500 80 2 0 880 959 595307138 595307217 1.620000e-28 137.0
39 TraesCS7D01G431300 chr7B 79.518 166 18 12 172 332 595165519 595165673 1.650000e-18 104.0
40 TraesCS7D01G431300 chr7B 84.884 86 10 2 360 444 595006639 595006722 2.150000e-12 84.2
41 TraesCS7D01G431300 chr3D 78.924 223 35 7 2845 3066 551433085 551433296 1.250000e-29 141.0
42 TraesCS7D01G431300 chr3D 79.459 185 26 4 2848 3031 551344774 551344601 1.630000e-23 121.0
43 TraesCS7D01G431300 chr3D 85.149 101 7 6 535 627 551350633 551350533 2.760000e-16 97.1
44 TraesCS7D01G431300 chr3B 78.636 220 35 6 2848 3066 731094338 731094130 5.840000e-28 135.0
45 TraesCS7D01G431300 chr4D 77.734 256 30 14 2248 2494 7872991 7872754 7.550000e-27 132.0
46 TraesCS7D01G431300 chr4D 76.684 193 18 13 757 938 7874464 7874288 7.720000e-12 82.4
47 TraesCS7D01G431300 chr4B 77.692 260 29 16 2247 2494 14055774 14056016 7.550000e-27 132.0
48 TraesCS7D01G431300 chr4B 76.531 196 22 7 761 938 14054242 14054431 5.960000e-13 86.1
49 TraesCS7D01G431300 chr4A 76.654 257 32 15 2248 2494 595444013 595444251 2.110000e-22 117.0


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 TraesCS7D01G431300 chr7D 550799417 550802771 3354 False 6196.000000 6196 100.000000 1 3355 1 chr7D.!!$F1 3354
1 TraesCS7D01G431300 chr7D 550461990 550464126 2136 False 1003.500000 1587 83.781000 105 2168 2 chr7D.!!$F2 2063
2 TraesCS7D01G431300 chr7D 550551984 550554164 2180 False 618.000000 1354 83.200000 105 2144 3 chr7D.!!$F3 2039
3 TraesCS7D01G431300 chr7D 550642278 550643657 1379 False 501.000000 675 83.803500 105 1441 2 chr7D.!!$F4 1336
4 TraesCS7D01G431300 chr7A 636627809 636631446 3637 False 686.166667 2604 88.673833 1 3350 6 chr7A.!!$F4 3349
5 TraesCS7D01G431300 chr7A 636126272 636128026 1754 False 632.000000 1580 89.959333 447 2163 3 chr7A.!!$F3 1716
6 TraesCS7D01G431300 chr7A 635859657 635861511 1854 False 599.166667 1515 86.225333 416 2171 3 chr7A.!!$F2 1755
7 TraesCS7D01G431300 chr7B 595172824 595173536 712 False 1018.000000 1018 92.857000 1525 2220 1 chr7B.!!$F1 695
8 TraesCS7D01G431300 chr7B 595006639 595008636 1997 False 678.400000 1507 85.283000 360 2202 3 chr7B.!!$F2 1842
9 TraesCS7D01G431300 chr7B 595079692 595081763 2071 False 671.000000 1531 88.783333 343 2223 3 chr7B.!!$F3 1880
10 TraesCS7D01G431300 chr7B 595305995 595310243 4248 False 523.125000 1821 91.827500 57 3341 8 chr7B.!!$F5 3284
11 TraesCS7D01G431300 chr7B 595165519 595166961 1442 False 253.600000 320 84.405200 172 1531 5 chr7B.!!$F4 1359

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
132 137 1.014352 ATTTTGGCGCCTACGTGATC 58.986 50.000 29.7 0.0 42.83 2.92 F
1415 2175 1.079612 CAGCAGCAGACCATCGACA 60.080 57.895 0.0 0.0 0.00 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1532 2324 0.247736 CTGCTCCGCCAAAGTAGTCT 59.752 55.0 0.0 0.0 0.0 3.24 R
2398 3220 0.036765 ACCTAAGTCGCCGCAAATCA 60.037 50.0 0.0 0.0 0.0 2.57 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
73 78 5.301551 TGGATCTGCACAGTTTTTGTACAAT 59.698 36.000 9.56 0.00 38.16 2.71
75 80 6.701400 GGATCTGCACAGTTTTTGTACAATTT 59.299 34.615 9.56 0.00 38.16 1.82
94 99 6.697019 ACAATTTTACAAGTCATGTGCTTGAC 59.303 34.615 26.90 9.37 44.29 3.18
97 102 2.936202 ACAAGTCATGTGCTTGACCTT 58.064 42.857 26.90 11.29 45.80 3.50
124 129 1.654023 GCGGTTCTATTTTGGCGCCT 61.654 55.000 29.70 9.99 0.00 5.52
132 137 1.014352 ATTTTGGCGCCTACGTGATC 58.986 50.000 29.70 0.00 42.83 2.92
157 167 5.492895 TCTGTATCCCGCAATTAAAAGACA 58.507 37.500 0.00 0.00 0.00 3.41
168 178 4.859629 ATTAAAAGACAATCGACGCTCC 57.140 40.909 0.00 0.00 0.00 4.70
174 184 1.798813 GACAATCGACGCTCCACTTTT 59.201 47.619 0.00 0.00 0.00 2.27
233 245 2.613506 GGCGGTGGTTTCGTCCAAG 61.614 63.158 0.00 0.00 39.34 3.61
304 331 6.820335 AGAATGAATGAATGGTCGATCTGTA 58.180 36.000 0.00 0.00 0.00 2.74
305 332 6.703607 AGAATGAATGAATGGTCGATCTGTAC 59.296 38.462 0.00 0.00 0.00 2.90
306 333 4.359706 TGAATGAATGGTCGATCTGTACG 58.640 43.478 0.00 0.00 0.00 3.67
307 334 4.142249 TGAATGAATGGTCGATCTGTACGT 60.142 41.667 0.00 0.00 0.00 3.57
335 406 5.183713 CACCAAAATCAATTCTACCTCTGCA 59.816 40.000 0.00 0.00 0.00 4.41
595 925 1.941209 GCAGAGATCAACGCCTCAACA 60.941 52.381 0.00 0.00 32.07 3.33
617 947 2.488355 CTGCTGATTTGGCGCCAG 59.512 61.111 30.75 18.91 0.00 4.85
626 956 4.203226 TGATTTGGCGCCAGAACATATAA 58.797 39.130 30.75 18.73 0.00 0.98
627 957 4.036262 TGATTTGGCGCCAGAACATATAAC 59.964 41.667 30.75 12.74 0.00 1.89
628 958 1.961793 TGGCGCCAGAACATATAACC 58.038 50.000 29.03 0.00 0.00 2.85
629 959 1.210722 TGGCGCCAGAACATATAACCA 59.789 47.619 29.03 0.00 0.00 3.67
794 1186 8.417884 CGCCATAAATAAAAGGAAAAATCCCTA 58.582 33.333 0.00 0.00 32.77 3.53
807 1199 7.889073 AGGAAAAATCCCTACTAAAAAGGAGAC 59.111 37.037 0.00 0.00 36.08 3.36
810 1202 3.102204 TCCCTACTAAAAAGGAGACGGG 58.898 50.000 0.00 0.00 36.08 5.28
959 1637 1.298859 CGGACCTCCTTTCTTTGCCG 61.299 60.000 0.00 0.00 0.00 5.69
1135 1877 3.991051 GCCTCCGCCGCTGCTATA 61.991 66.667 0.00 0.00 34.43 1.31
1209 1951 1.153901 CGTACGGCGACCACTTCAT 60.154 57.895 16.62 0.00 44.77 2.57
1270 2030 2.403252 ATTCGGAGTTCTTGGCGATT 57.597 45.000 0.00 0.00 0.00 3.34
1277 2037 1.670730 TTCTTGGCGATTGCTGCGA 60.671 52.632 4.59 0.00 42.25 5.10
1296 2056 1.478510 GACTGATCTGGCGAAGAAGGA 59.521 52.381 4.49 0.00 38.79 3.36
1415 2175 1.079612 CAGCAGCAGACCATCGACA 60.080 57.895 0.00 0.00 0.00 4.35
1446 2206 3.674997 TCCTGCTCAAACATGTAAGTCC 58.325 45.455 0.00 0.00 0.00 3.85
1447 2207 2.749621 CCTGCTCAAACATGTAAGTCCC 59.250 50.000 0.00 0.00 0.00 4.46
1448 2208 3.411446 CTGCTCAAACATGTAAGTCCCA 58.589 45.455 0.00 0.00 0.00 4.37
1449 2209 4.012374 CTGCTCAAACATGTAAGTCCCAT 58.988 43.478 0.00 0.00 0.00 4.00
1450 2210 5.172687 TGCTCAAACATGTAAGTCCCATA 57.827 39.130 0.00 0.00 0.00 2.74
1486 2253 1.535226 CGCCACCGATCGATACTTTGA 60.535 52.381 18.66 0.00 36.29 2.69
1531 2323 0.105593 GATGCAGGCGAGGAAGATGA 59.894 55.000 0.00 0.00 0.00 2.92
1532 2324 0.543277 ATGCAGGCGAGGAAGATGAA 59.457 50.000 0.00 0.00 0.00 2.57
2234 3056 4.827284 GGAGTTTCCCTTCTTGATGTCAAA 59.173 41.667 0.00 0.00 35.15 2.69
2270 3092 6.601613 GGGTTTCCCTTCTTTTGTTCAATTTT 59.398 34.615 0.00 0.00 41.34 1.82
2271 3093 7.771361 GGGTTTCCCTTCTTTTGTTCAATTTTA 59.229 33.333 0.00 0.00 41.34 1.52
2273 3095 9.378551 GTTTCCCTTCTTTTGTTCAATTTTACT 57.621 29.630 0.00 0.00 0.00 2.24
2276 3098 9.416284 TCCCTTCTTTTGTTCAATTTTACTAGT 57.584 29.630 0.00 0.00 0.00 2.57
2315 3137 7.326454 TGTTGGATCAATTGTTCAACAAGAAA 58.674 30.769 25.67 13.05 41.94 2.52
2316 3138 7.821359 TGTTGGATCAATTGTTCAACAAGAAAA 59.179 29.630 25.67 12.60 41.94 2.29
2418 3254 1.205179 TGATTTGCGGCGACTTAGGTA 59.795 47.619 12.98 0.00 0.00 3.08
2495 3331 3.259374 ACAAGGAGATGACATCAACGACT 59.741 43.478 17.57 5.14 0.00 4.18
2500 3336 3.722147 AGATGACATCAACGACTATGGC 58.278 45.455 17.57 0.00 0.00 4.40
2504 3340 0.179084 CATCAACGACTATGGCGGGT 60.179 55.000 0.00 0.00 0.00 5.28
2505 3341 0.179084 ATCAACGACTATGGCGGGTG 60.179 55.000 0.00 0.00 0.00 4.61
2584 3730 7.942341 TGATTTAGATTTACACAACAGGGAAGT 59.058 33.333 0.00 0.00 0.00 3.01
2608 3755 4.524053 GGTTGAAGATAGGAACCCGATTT 58.476 43.478 0.00 0.00 34.21 2.17
2613 3760 7.374975 TGAAGATAGGAACCCGATTTAGATT 57.625 36.000 0.00 0.00 0.00 2.40
2614 3761 7.802117 TGAAGATAGGAACCCGATTTAGATTT 58.198 34.615 0.00 0.00 0.00 2.17
2673 3820 1.676006 CTTCGCTGACAAAAGGTTGGT 59.324 47.619 0.00 0.00 39.22 3.67
2675 3822 1.403679 TCGCTGACAAAAGGTTGGTTG 59.596 47.619 0.00 0.00 39.22 3.77
2779 4200 8.518430 TTTATAGAAAATATGCTCAACTGGCA 57.482 30.769 0.00 0.00 44.05 4.92
2809 4230 6.017852 GGTTGGTTGCCGAAATTCATTAAAAA 60.018 34.615 0.00 0.00 0.00 1.94
2815 4236 7.579589 TGCCGAAATTCATTAAAAATGACTG 57.420 32.000 1.90 0.00 0.00 3.51
2864 4285 4.335416 TGGATCCAACTGTCCAAAGATTC 58.665 43.478 13.46 0.00 41.36 2.52
2910 4331 0.463620 GCTGGCAAAAGGTTGGTTGA 59.536 50.000 0.00 0.00 35.10 3.18
2950 4371 9.716556 ACCGAATATATAGAAGACCATTATCCT 57.283 33.333 0.00 0.00 0.00 3.24
3045 4467 7.223971 TCGCTGCGTTTACAATTTATAGATCTT 59.776 33.333 22.48 0.00 0.00 2.40
3144 4671 9.533253 TGTTACTGATAATGATGAGTACATGTG 57.467 33.333 9.11 0.00 32.26 3.21
3149 4676 9.379791 CTGATAATGATGAGTACATGTGCATAT 57.620 33.333 16.62 9.38 36.82 1.78
3153 4680 8.543862 AATGATGAGTACATGTGCATATACTG 57.456 34.615 16.62 0.00 31.71 2.74
3155 4682 7.500141 TGATGAGTACATGTGCATATACTGTT 58.500 34.615 16.62 0.00 31.71 3.16
3163 4690 2.364324 GTGCATATACTGTTCGGAGGGA 59.636 50.000 0.00 0.00 0.00 4.20
3190 4717 2.474816 GCCTAGATGCAACGGTTCTAG 58.525 52.381 12.48 12.48 39.00 2.43
3192 4719 3.802948 CTAGATGCAACGGTTCTAGGT 57.197 47.619 11.82 0.00 36.75 3.08
3200 4727 2.879462 GGTTCTAGGTGACGCGCG 60.879 66.667 30.96 30.96 0.00 6.86
3277 4806 7.929785 GGAGATAATAACACGGGTAGATTTTCA 59.070 37.037 14.17 0.00 0.00 2.69
3321 4851 8.679344 TCATAACATCCCCTAATCTATGCTTA 57.321 34.615 0.00 0.00 0.00 3.09
3352 4882 9.187455 TGTATTTTCGTCATTTTTAGAAAAGGC 57.813 29.630 7.97 4.61 43.09 4.35
3353 4883 7.652300 ATTTTCGTCATTTTTAGAAAAGGCC 57.348 32.000 0.00 0.00 43.09 5.19
3354 4884 4.413495 TCGTCATTTTTAGAAAAGGCCG 57.587 40.909 0.00 0.00 0.00 6.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
30 31 2.094234 CCACACACGTATCATCACTGGA 60.094 50.000 0.00 0.00 0.00 3.86
32 33 3.230743 TCCACACACGTATCATCACTG 57.769 47.619 0.00 0.00 0.00 3.66
33 34 3.701542 AGATCCACACACGTATCATCACT 59.298 43.478 0.00 0.00 0.00 3.41
34 35 3.798878 CAGATCCACACACGTATCATCAC 59.201 47.826 0.00 0.00 0.00 3.06
35 36 3.737972 GCAGATCCACACACGTATCATCA 60.738 47.826 0.00 0.00 0.00 3.07
36 37 2.797156 GCAGATCCACACACGTATCATC 59.203 50.000 0.00 0.00 0.00 2.92
37 38 2.168313 TGCAGATCCACACACGTATCAT 59.832 45.455 0.00 0.00 0.00 2.45
38 39 1.548269 TGCAGATCCACACACGTATCA 59.452 47.619 0.00 0.00 0.00 2.15
94 99 2.068837 TAGAACCGCACGTAACAAGG 57.931 50.000 0.00 0.00 0.00 3.61
97 102 3.186817 CCAAAATAGAACCGCACGTAACA 59.813 43.478 0.00 0.00 0.00 2.41
132 137 6.038161 TGTCTTTTAATTGCGGGATACAGATG 59.962 38.462 0.00 0.00 39.74 2.90
157 167 1.878953 ACAAAAGTGGAGCGTCGATT 58.121 45.000 0.00 0.00 0.00 3.34
206 217 1.544246 GAAACCACCGCCAGCTTTTAT 59.456 47.619 0.00 0.00 0.00 1.40
255 267 2.890311 CTGTACTTTGGTGCAAATCCCA 59.110 45.455 0.00 0.00 37.59 4.37
304 331 6.072673 GGTAGAATTGATTTTGGTGAGAACGT 60.073 38.462 0.00 0.00 0.00 3.99
305 332 6.149474 AGGTAGAATTGATTTTGGTGAGAACG 59.851 38.462 0.00 0.00 0.00 3.95
306 333 7.391833 AGAGGTAGAATTGATTTTGGTGAGAAC 59.608 37.037 0.00 0.00 0.00 3.01
307 334 7.391554 CAGAGGTAGAATTGATTTTGGTGAGAA 59.608 37.037 0.00 0.00 0.00 2.87
335 406 3.518303 AGGGAGTAAGTTAAAGCGTGGAT 59.482 43.478 0.00 0.00 0.00 3.41
794 1186 5.557576 AGTTAACCCGTCTCCTTTTTAGT 57.442 39.130 0.88 0.00 0.00 2.24
807 1199 0.466739 GGCCCCCAATAGTTAACCCG 60.467 60.000 0.88 0.00 0.00 5.28
810 1202 0.256752 ACCGGCCCCCAATAGTTAAC 59.743 55.000 0.00 0.00 0.00 2.01
876 1308 4.351938 TTGGCGTCCACGTCCTCG 62.352 66.667 0.47 0.00 44.42 4.63
878 1310 4.309950 GGTTGGCGTCCACGTCCT 62.310 66.667 0.47 0.00 44.42 3.85
959 1637 0.105039 CCCCGGAGTTAGTCAGATGC 59.895 60.000 0.73 0.00 0.00 3.91
1135 1877 1.062488 AACAAGGCCCACTCTCTGGT 61.062 55.000 0.00 0.00 38.60 4.00
1197 1939 2.482374 GCAGCATGAAGTGGTCGC 59.518 61.111 0.00 0.00 39.69 5.19
1198 1940 2.743752 CGGCAGCATGAAGTGGTCG 61.744 63.158 0.00 0.00 39.69 4.79
1270 2030 2.125391 GCCAGATCAGTCGCAGCA 60.125 61.111 0.00 0.00 0.00 4.41
1277 2037 1.205893 GTCCTTCTTCGCCAGATCAGT 59.794 52.381 0.00 0.00 0.00 3.41
1446 2206 2.160219 CGGCGATTTGATCATGGTATGG 59.840 50.000 0.00 0.00 0.00 2.74
1447 2207 2.413239 GCGGCGATTTGATCATGGTATG 60.413 50.000 12.98 0.00 0.00 2.39
1448 2208 1.806542 GCGGCGATTTGATCATGGTAT 59.193 47.619 12.98 0.00 0.00 2.73
1449 2209 1.225855 GCGGCGATTTGATCATGGTA 58.774 50.000 12.98 0.00 0.00 3.25
1450 2210 1.447317 GGCGGCGATTTGATCATGGT 61.447 55.000 12.98 0.00 0.00 3.55
1486 2253 2.227194 CCACGGTTAAAGCCTGAAACT 58.773 47.619 0.00 0.00 0.00 2.66
1531 2323 0.685097 TGCTCCGCCAAAGTAGTCTT 59.315 50.000 0.00 0.00 35.14 3.01
1532 2324 0.247736 CTGCTCCGCCAAAGTAGTCT 59.752 55.000 0.00 0.00 0.00 3.24
2247 3069 9.378551 AGTAAAATTGAACAAAAGAAGGGAAAC 57.621 29.630 0.00 0.00 0.00 2.78
2396 3218 1.075542 CTAAGTCGCCGCAAATCACA 58.924 50.000 0.00 0.00 0.00 3.58
2397 3219 0.373716 CCTAAGTCGCCGCAAATCAC 59.626 55.000 0.00 0.00 0.00 3.06
2398 3220 0.036765 ACCTAAGTCGCCGCAAATCA 60.037 50.000 0.00 0.00 0.00 2.57
2399 3221 1.930567 TACCTAAGTCGCCGCAAATC 58.069 50.000 0.00 0.00 0.00 2.17
2418 3254 0.606401 CACCATCTTCCACCGTGCTT 60.606 55.000 0.00 0.00 0.00 3.91
2466 3302 4.100035 TGATGTCATCTCCTTGTCGCTAAT 59.900 41.667 13.90 0.00 0.00 1.73
2471 3307 2.600420 CGTTGATGTCATCTCCTTGTCG 59.400 50.000 13.90 4.93 0.00 4.35
2477 3313 4.302455 CCATAGTCGTTGATGTCATCTCC 58.698 47.826 13.90 3.74 0.00 3.71
2518 3354 0.983905 GACCTCCTTTCTCCCCTCCC 60.984 65.000 0.00 0.00 0.00 4.30
2519 3355 0.252742 TGACCTCCTTTCTCCCCTCC 60.253 60.000 0.00 0.00 0.00 4.30
2520 3356 1.557371 CTTGACCTCCTTTCTCCCCTC 59.443 57.143 0.00 0.00 0.00 4.30
2521 3357 1.152271 TCTTGACCTCCTTTCTCCCCT 59.848 52.381 0.00 0.00 0.00 4.79
2522 3358 1.657804 TCTTGACCTCCTTTCTCCCC 58.342 55.000 0.00 0.00 0.00 4.81
2524 3360 2.907042 TCCTTCTTGACCTCCTTTCTCC 59.093 50.000 0.00 0.00 0.00 3.71
2531 3367 1.407989 CCTGCATCCTTCTTGACCTCC 60.408 57.143 0.00 0.00 0.00 4.30
2558 3666 7.942341 ACTTCCCTGTTGTGTAAATCTAAATCA 59.058 33.333 0.00 0.00 0.00 2.57
2559 3667 8.237267 CACTTCCCTGTTGTGTAAATCTAAATC 58.763 37.037 0.00 0.00 0.00 2.17
2560 3668 7.176690 CCACTTCCCTGTTGTGTAAATCTAAAT 59.823 37.037 0.00 0.00 0.00 1.40
2561 3669 6.488683 CCACTTCCCTGTTGTGTAAATCTAAA 59.511 38.462 0.00 0.00 0.00 1.85
2562 3670 6.001460 CCACTTCCCTGTTGTGTAAATCTAA 58.999 40.000 0.00 0.00 0.00 2.10
2568 3714 1.847737 ACCCACTTCCCTGTTGTGTAA 59.152 47.619 0.00 0.00 0.00 2.41
2608 3755 9.753674 AAGTCAATCTTTGGACCATTAAATCTA 57.246 29.630 0.00 0.00 34.58 1.98
2613 3760 7.831691 TTCAAGTCAATCTTTGGACCATTAA 57.168 32.000 0.00 0.00 34.58 1.40
2614 3761 8.421249 AATTCAAGTCAATCTTTGGACCATTA 57.579 30.769 0.00 0.00 34.58 1.90
2617 3764 6.729690 AAATTCAAGTCAATCTTTGGACCA 57.270 33.333 0.00 0.00 34.58 4.02
2649 3796 2.851195 ACCTTTTGTCAGCGAAGACAT 58.149 42.857 10.54 0.00 46.90 3.06
2651 3798 2.287009 CCAACCTTTTGTCAGCGAAGAC 60.287 50.000 0.00 0.00 38.99 3.01
2779 4200 3.552132 ATTTCGGCAACCAACCTTTTT 57.448 38.095 0.00 0.00 0.00 1.94
2955 4376 8.642935 TCTTCACCACCACATAAATGAAATTA 57.357 30.769 0.00 0.00 33.67 1.40
2957 4378 7.309990 CCTTCTTCACCACCACATAAATGAAAT 60.310 37.037 0.00 0.00 0.00 2.17
2958 4379 6.015519 CCTTCTTCACCACCACATAAATGAAA 60.016 38.462 0.00 0.00 0.00 2.69
2959 4380 5.476599 CCTTCTTCACCACCACATAAATGAA 59.523 40.000 0.00 0.00 0.00 2.57
2960 4381 5.009631 CCTTCTTCACCACCACATAAATGA 58.990 41.667 0.00 0.00 0.00 2.57
2961 4382 4.766891 ACCTTCTTCACCACCACATAAATG 59.233 41.667 0.00 0.00 0.00 2.32
2962 4383 4.766891 CACCTTCTTCACCACCACATAAAT 59.233 41.667 0.00 0.00 0.00 1.40
2963 4384 4.141287 CACCTTCTTCACCACCACATAAA 58.859 43.478 0.00 0.00 0.00 1.40
3045 4467 2.418197 CGGTTCCTATCTTCCTTTCGCA 60.418 50.000 0.00 0.00 0.00 5.10
3144 4671 3.589988 CATCCCTCCGAACAGTATATGC 58.410 50.000 0.00 0.00 0.00 3.14
3149 4676 1.138859 CATGCATCCCTCCGAACAGTA 59.861 52.381 0.00 0.00 0.00 2.74
3152 4679 1.224315 CCATGCATCCCTCCGAACA 59.776 57.895 0.00 0.00 0.00 3.18
3153 4680 2.189499 GCCATGCATCCCTCCGAAC 61.189 63.158 0.00 0.00 0.00 3.95
3155 4682 2.963391 TAGGCCATGCATCCCTCCGA 62.963 60.000 16.64 0.31 0.00 4.55
3182 4709 2.879462 GCGCGTCACCTAGAACCG 60.879 66.667 8.43 0.00 0.00 4.44
3200 4727 1.140375 AACGGACGTATCCCTTCGC 59.860 57.895 0.00 0.00 42.83 4.70
3210 4737 2.293677 CCATCTCTATAGCAACGGACGT 59.706 50.000 0.00 0.00 0.00 4.34
3295 4824 7.192852 AGCATAGATTAGGGGATGTTATGAG 57.807 40.000 0.00 0.00 0.00 2.90
3298 4827 8.718656 GGATAAGCATAGATTAGGGGATGTTAT 58.281 37.037 0.00 0.00 0.00 1.89
3299 4828 7.682459 TGGATAAGCATAGATTAGGGGATGTTA 59.318 37.037 0.00 0.00 0.00 2.41


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

AutoCloner maintained by Alex Coulton.