Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A12 F28 I1 R1	227	52.0	1764248	99.3%	1751898	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,431,067	T→C	Q206Q (CAA→CAG)	dedD ←	cell division protein DedD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,431,067	0	T	C	78.6%	53.0 / 9.9	28	Q206Q (CAA→CAG)	dedD	cell division protein DedD
Reads supporting (aligned to +/- strand): ref base T (3/3); new base C (13/9); total (16/12)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.75e-01

TCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGTTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAGGCATCCGGCCCAACCAGAATACGGGTAATTTTACCCTGCACTGGCGTGGATGGCGACGTATAAACCCGATAACCGGCACCGCGCAGCTTACCGA  >  NC_000913/2430930‑2431203

tCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGCTg                                                                                                                                        >  1:474216/1‑140 (MQ=255)

  ggATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGTTGCt                                                                                                                                      <  1:369021/140‑1 (MQ=255)

                  ccTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGTTGCTTCAACTCACCCAGCGa                                                                                                                      <  1:53394/140‑1 (MQ=255)

                         cGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGCTGCTTCAACTCACCCAGCGAACCTTTc                                                                                                               >  1:606001/1‑140 (MQ=255)

                               aCGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGCTGCTTCAACTCACCCAGCGAACCTTTCAGCTTa                                                                                                         <  1:62668/140‑1 (MQ=255)

                                cGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGCTGCTTCAACTCACCCAGCGAACCTTTCAGCTTAt                                                                                                        <  2:606001/140‑1 (MQ=255)

                                        ccccTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGTTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAg                                                                                                <  1:658204/140‑1 (MQ=255)

                                              cGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGCTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAGGCATcc                                                                                          >  1:739462/1‑140 (MQ=255)

                                                             aCGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGCTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAGGCATCCGGCCCAACCAGAATa                                                                           >  2:377901/1‑140 (MQ=255)

                                                             aCGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGCTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAGGCATCCGGCCCAACCAGAATa                                                                           >  1:760822/1‑140 (MQ=255)

                                                              cgcgCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGCTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAGGCATCCGGCCCAACCAGAATAc                                                                          >  1:64388/1‑140 (MQ=255)

                                                                  ccAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGCTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAGGCATCCGGCCCAACCAGAATACGGGt                                                                      >  1:808104/1‑140 (MQ=255)

                                                                         cGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGCTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAGGCATCCGGCCCAACCAGAATACGGGTAATTTTa                                                               <  1:350122/140‑1 (MQ=255)

                                                                              cAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGCTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAGGCATCCGGCCCAACCAGAATACGGGTAATTTTACCCTg                                                          <  1:11258/140‑1 (MQ=255)

                                                                                ggCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGTTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAGGCATCCGGCCCAACCAGAATACGGGTAATTTTACCCTGCa                                                        >  1:594993/1‑140 (MQ=255)

                                                                                ggCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGCTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAGGCATCCGGCCCAACCAGAATACGGGTAATTTTACCCTGCa                                                        <  2:808104/140‑1 (MQ=255)

                                                                                ggCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGCTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAGGCATCCGGCCCAACCAGAATACGGGTAATTTTACCCTGCa                                                        >  2:575997/1‑140 (MQ=255)

                                                                                ggCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGCTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAGGCATCCGGCCCAACCAGAATACGGGTAATTTTACCCTGCa                                                        <  1:338633/140‑1 (MQ=255)

                                                                                      aCCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGCTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAGGCATCCGGCCCAACCAGAATACGGGTAATTTTACCCTGCACTGGCg                                                  >  1:59108/1‑140 (MQ=255)

                                                                                           aTTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGCTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAGGCATCCGGCCCAACCAGAATACGGGTAATTTTACCCTGCACTGGCGTGGAt                                             >  2:452370/1‑140 (MQ=255)

                                                                                                  cGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGCTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAGGCATCCGGCCCAACCAGAATACGGGTAATTTTACCCTGCACTGGCGTGGATGGCGACg                                      >  1:803613/1‑140 (MQ=255)

                                                                                                         taGCCCATTACCACGCCACTTAAGCCAGAAAGCTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAGGCATCCGGCCCAACCAGAATACGGGTAATTTTACCCTGCACTGGCGTGGATGGCGACGTATAAAc                               >  2:407099/1‑140 (MQ=255)

                                                                                                               aTTACCACGCCACTTAAGCCAGAAAGCTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAGGCATCCGGCCCAACCAGAATACGGGTAATTTTACCCTGCACTGGCGTGGATGGCGACGTATAAACCCGATa                         >  1:827006/1‑140 (MQ=255)

                                                                                                                           cTTAAGCCAGAAAGTTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAGGCATCCGGCCCAACCAGAATACGGGTAATTTTACCCTGCACTGGCGTGGATGGCGACGTATAAACCCGATAACCGGCACcgcg             >  2:92342/1‑140 (MQ=255)

                                                                                                                             tAAGCCAGAAAGCTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAGGCATCCGGCCCAACCAGAATACGGGTAATTTTACCCTGCACTGGCGTGGATGGCGACGTATAAACCCGATAACAGGCACCGCGCa           <  2:739462/140‑1 (MQ=255)

                                                                                                                                 ccAGAAAGTTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAGGCATCCGGCCCAACCAGAATACGGGTAATTTTACCCTGCACTGGCGTGGATGGCGCCGTATAAACCCGATAACCGGCACCGCGCAGCtt       >  2:28388/1‑140 (MQ=255)

                                                                                                                                    gAAAGCTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAGGCATCCGGCCCAACCAGAATACGGTTAATTTTACCCTGCACTGGCGTGGATGGCGACGTATAAACCCGATAACCGGCACCGCGCAGCTTAcc    <  2:803613/140‑1 (MQ=255)

                                                                                                                                      aaGCTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAGGCATCCGGCCCAACCAGAATACGGGTAATTTTACCCTGCACTGGCGTGGATGGCGACGTATAAACCCGATAACCGGCACCGCGCAGCTTACCGa  <  1:452370/140‑1 (MQ=255)

TCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGCCCATTACCACGCCACTTAAGCCAGAAAGTTGCTTCAACTCACCCAGCGAACCTTTCAGCTTATCTTTCGAGGCATCCGGCCCAACCAGAATACGGGTAATTTTACCCTGCACTGGCGTGGATGGCGACGTATAAACCCGATAACCGGCACCGCGCAGCTTACCGA  >  NC_000913/2430930‑2431203

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A