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
A7 F50 I2 R1	209	44.2	1360995	98.7%	1343302	150.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,641,366	T→C	L142P (CTC→CCC)	yjtD →	putative methyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,641,366	0	T	C	100.0%	99.4 / NA	28	L142P (CTC→CCC)	yjtD	putative methyltransferase
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (14/14); total (14/14)

CTGGTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCGCTCAATCTGGGGCAGGCGGTGATGGTCTATTGCTATCAATTAGCAACATTAATACAACAACCGGCGAAAAGTGATGCAACGGCAGACCAACATCAACTGCAAGCTTTACGCGAACGAGCCATGACATTGCTGACGACTCTGGCAG  >  NC_000913/4641221‑4641509

cTGGTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCGCCCAATc                                                                                                                                            >  1:356393/1‑151 (MQ=255)

       cGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCGCCCAATCTGGGGc                                                                                                                                      >  1:591238/1‑150 (MQ=255)

                  gAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCGCCCAATCTGGGGCAGGCGGTGATgg                                                                                                                          >  1:309959/1‑151 (MQ=255)

                    aaaaTCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCGCCCAATCTGGGGCAGGCGGTGATGGt                                                                                                                         >  1:545435/1‑150 (MQ=255)

                      aaTCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCGCCCAATCTGGGGCAGGCGGAGACgg                                                                                                                          >  2:71376/1‑147 (MQ=255)

                           tCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCGCCCAATCTGGGGCAGGCGGTGATGGTCTATTg                                                                                                                   <  1:283178/149‑1 (MQ=255)

                                gATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCGCCCAATCTGGGGCAGGCGGTGATGGTCTATTGCTATCaa                                                                                                            <  2:75338/151‑1 (MQ=255)

                                    aGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCGCCCAATCTGGGGCAGGCGGTGATGGTCTATTGCTATCAAtt                                                                                                          >  1:677397/1‑149 (MQ=255)

                                    aGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCGCCCAATCTGGGGCAGGCGGTGATGGTCTATTGCTATCAATTAg                                                                                                        <  2:107643/151‑1 (MQ=255)

                                      ccATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCGCCCAATCTGGGGCAGGCGGTGATGGTCTATTGCTATCAATTAGCa                                                                                                      <  2:518273/151‑1 (MQ=255)

                                       cATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCGCCCAATCTGGGGCAGGCGGTGATGGTCTATTGCTATCAATTAGCaa                                                                                                     <  1:434784/151‑1 (MQ=255)

                                          gCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCGCCCAATCTGGGGCAGGCGGTGATGGTCTATTGCTATCAATTAGCAACa                                                                                                   <  2:26019/150‑1 (MQ=255)

                                           ccGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCGCCCAATCTGGGGCAGGCGGTGATGGTCTATTGCTATCAATTAGCAACAtt                                                                                                 <  2:501473/151‑1 (MQ=255)

                                                                       cGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCGCCCAATCTGGGGCAGGCGGTGATGGTCTATTGCTATCAATTAGCAACATTAATACAACAACCGGCGAAAAGTGATGCa                                                                     <  1:485473/151‑1 (MQ=255)

                                                                                   cGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCGCCCAATCTGGGGCAGGCGGTGATGGTCTATTGCTATCAATTAGCAACATTAATACAACAACCGGCGAAAAGTGATGCAACGGCAGACCaa                                                         <  2:194775/151‑1 (MQ=255)

                                                                                                     tGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCGCCCAATCTGGGGCAGGCGGTGATGGTCTATTGCTATCAATTAGCAACATTAATACAACAACCGGCGAAAAGTGATGCAACGGCAGAGCAAGATCAACTGCAAGCttt                                        >  1:40759/1‑150 (MQ=255)

                                                                                                     tGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCGCCCAATCTGGGGCAGGCGGTGATGGTCTATTGCTATCAATTAGCAACATTAATACAACAACCGGCGAAAAGTGATGCAACGGCAGACCAACATCAACTGCAAGCttt                                        >  1:490843/1‑150 (MQ=255)

                                                                                                      gACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCGCCCAATCTGGGGCAGGCGGTGATGGTCTATTGCTATCAATTAGCAACATTAATACAACAACCGGCGAAAAGTGATGCAACGGCAGACCAACATCAACTGCAAGCTTTa                                       <  2:583351/150‑1 (MQ=255)

                                                                                                      gACGTTCTTAATGGTGTTACGATTGTGGCGGATTATCCTTCGCCCAATCTGGGGCAGGCGGTGATGGTCTATTGTTATCAATTAGCAACATTAATACAACAACCGGCGAAAAGTGATGCAACGGCAGACCAACATCAACTGCACGCTTTa                                       <  2:539248/150‑1 (MQ=255)

                                                                                                             ttACTGGTGTGCCGATGGCGGCGGATTATCCTTCGCCCAATCTGGGGCAGGCGGTGATGGTCTATTGCTATCAATTAGCAACATTAATACAACAACCGGCGAAAAGCGATGCAACGGCAGACCAACATCAACTGCAAGCTTTACGCGaa                                 >  2:299059/1‑149 (MQ=255)

                                                                                                                  ggTGTGCCGATGGTGGCGGATTATCCTTCGCCCAATCTGGGGCAGGCGGTGATGGTCTATTGCTATCAATTAGCAACATTAATACAACAACCGGCGAAAAGTGATGCAACGGCAGACCAACATCAACTGCAAGCTTTACGCGAACGAGcc                           <  1:548898/150‑1 (MQ=255)

                                                                                                                     gtgCCGATGGTGGCGGATTATCCTTCGCCCAATCTGGGGCAGGCGGTGATGGTCTATTGCTATCAATTAGCAACATTAATACAACAACCGGCGAAAAGTGATGCAACGGCAGACCAACATCAACTGCAAGCTTTACGCGAACGAGCCATg                        <  2:48955/150‑1 (MQ=255)

                                                                                                                          gATGGTGGCGGATTATCCTTCGCCCAATCTGGGGCAGGCGGTGATGGTCTATTGCTATCAATTAGCAACATTAATACAACAACCGGCGAAAAGTGATGCAACGGCAGACCAACATCAACTGCAAGCTTTACGCGAACGAGCCATGACAtt                   >  2:648426/1‑150 (MQ=255)

                                                                                                                             ggtggCGGATTATCCTTCGCCCAATCTGGGGCAGGCGGTGATGGTCTATTGCTATCAATTAGCAACATTAATACAACAACCGGCGAAAAGTGATGCAACGGCAGACCAACATCAACTGCAAGCTTTACGCGAACGAGCCATGACATTGCTg               <  1:439935/151‑1 (MQ=255)

                                                                                                                                   ggATTATCCTTCGCCCAATCTGGGGCAGGCGGTGATGGTCTATTGCTATCAATTAGCAACATTAATACAACAACCGGCGAAAAGTGATGCAACGGCAGACCAACATCAACTGCAAGCTTTACGCGAACGAGCCATGACATTGCTgacgac          >  1:597807/1‑150 (MQ=255)

                                                                                                                                     aTTATCCTTCGCCCAATCTGGGGCAGGCGGTGATGGTCTATTGCTATCAATTAGCAACATTAATACAACAACCGGCGAAAAGTGATGCAACGGCAGACCAACATCAACTGCAAGCTTTACGCGAACGAGCCATGACATTGCTGACGActct       >  2:487103/1‑151 (MQ=255)

                                                                                                                                      ttATCCTTCGCCCAATCTGGGGCAGGCGGTGATGGTCTATTGCTATCAATTAGCAACATTAATACAACAACCGGCGAAAAGTGATGCAACGGCAGACCAACATCAACTGCAAGCTTTACGCGAACGAGCCATGACATTGCTGACGACTCtg      >  1:604425/1‑151 (MQ=255)

                                                                                                                                             tCGCCCAATCTGGGGCAGGCGGTGTTGGTCTATTGCTATCAATTATCAACATTAATACTACAACCGGCGAAAAGTGATGCAACGGCAAACCAACATCAACTGCAACCTTTACGCCAACCAGCCACGACATTTCTGGCGACTCtgggcg  >  2:119786/1‑145 (MQ=255)

CTGGTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCGCTCAATCTGGGGCAGGCGGTGATGGTCTATTGCTATCAATTAGCAACATTAATACAACAACCGGCGAAAAGTGATGCAACGGCAGACCAACATCAACTGCAAGCTTTACGCGAACGAGCCATGACATTGCTGACGACTCTGGCAG  >  NC_000913/4641221‑4641509

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A