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
A42 F60 I1 R1	15	25.4	857350	99.2%	850491	139.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,904,072	G→A	A60T (GCT→ACT)	manZ →	mannose‑specific PTS enzyme IID component

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,904,072	0	G	A	100.0%	67.5 / NA	21	A60T (GCT→ACT)	manZ	mannose‑specific PTS enzyme IID component
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (13/8); total (13/8)

CTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGTTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAGCTCGTAAACAAGCTATTCGCCGTCACCTGGAGTTCTTTAACACCCAGCCGTTCGTGGCTGCGCCGATTCTCGGCGTAACCCTGGCGCTGGAAGAACAGCGTGCTAATGGCGCAGAGATCGACGACGGTGCTATCAA  >  NC_000913/1903935‑1904208

ctcaAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGTTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAACt                                                                                                                                        >  2:424617/1‑140 (MQ=255)

          tatTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGTTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAACTCGTAAACAAg                                                                                                                              >  2:123440/1‑140 (MQ=255)

                 ggCGTCTTCCTGCGTTCTAACCTCTTCCAGGGTTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAACTCGTAAACAAGCTATTCg                                                                                                                       >  1:251737/1‑140 (MQ=255)

                 ggCGTCTTCCTGCGTTCTAACCTCTTCCAGGGTTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAACTCGTAAACAAGCTATTCg                                                                                                                       <  2:199661/140‑1 (MQ=255)

                                     ccTCTTCCAGGGTTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAACTCGTAAACAAGCTATTCGCCGTCACCTGGAGTTCTTTa                                                                                                   <  2:390016/140‑1 (MQ=255)

                                     ccTCTTCCAGGGTTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAACTCGTAAACAAGCTATTCGCCGTCACCTGGAGTTCTTTa                                                                                                   <  2:418790/140‑1 (MQ=255)

                                              gggTTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAACTCGTAAACAAGCTATTCGCCGTCACCTGGAGTTCTTTAACACCCAGc                                                                                          >  2:240112/1‑140 (MQ=255)

                                                   cATGGAACTTCGAACGTATGCAGGCACTGGGCTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAACTCGTAAACAAGCTATTCGCCGTCACCTGGAGTTCTTTAACACCCAGCCGTTc                                                                                     >  1:56605/1‑140 (MQ=255)

                                                        aaCTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAACTCGTAAACAAGCTATTCGCCGTCACCTGGAGTTCTTTAACACCCAGCCGTTCGTGGc                                                                                <  1:424617/140‑1 (MQ=255)

                                                             cGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAACTCGTAAACAAGCTATTCGCCGTCACCTGGAGTTCTTTAACACCCAGCCGTTCGTGGCTgcgc                                                                           >  1:178789/1‑140 (MQ=255)

                                                                              tGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAACTCGTAAACAAGCTATTCGCCGTCACCTGGAGTTCTTTAACACCCAGCCGTTCGTGGCTGCGCCGATTCTCGGCGTAAcc                                                          >  2:382713/1‑140 (MQ=255)

                                                                              tGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAACTCGTAAACAAGCTATTCGCCGTCACCTGGAGTTCTTTAACACCCAGCCGTTCGTGGCTGCGCCGATTCTCGGCGTAAcc                                                          >  1:185406/1‑140 (MQ=255)

                                                                                                tGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAACTCGTAAACAAGCTATTCGCCGTCACCTGGAGTTCTTTAACACCCAGCCGTTCGTGGCTGCGCCGATTCTCGGCGTAACCCTGGCGCTGGAAGAACAg                                        <  1:240112/140‑1 (MQ=255)

                                                                                                        gCAATTCGTCGCCTCTACCCTGAGAACAACGAAACTCGTAAACAAGCTATTCGCCGTCACCTGGAGTTCTTTAACACCCAGCCGTTCGTGGCTGCGCCGATTCTCGGCGTAACCCTGGCGCTGGAAGAACAGCGTGCTaa                                >  1:353882/1‑140 (MQ=255)

                                                                                                        gCAATTCGTCGCCTCTACCCTGAGAACAACGAAACTCGTAAACAAGCTATTCGCCGTCACCTGGAGTTCTTTAACACCCAGCCGTTCGTGGCTGCGCCGATTCTCGGCGTAACCCTGGCGCTGGAAGAACAGCGTGCTaa                                >  2:335591/1‑140 (MQ=255)

                                                                                                             tcgtcgCCTCTACCCTGAGAACAACGAAACTCGTAAACAAGCTATTCGCCGTCACCTGGAGTTCTTTAACACCCAGCCGTTCGTGGCTGCGCCGATTCTCGGCGTAACCCTGGCGCTGGAAGAACAGCGTGCTAATGgcg                           >  2:323911/1‑140 (MQ=255)

                                                                                                                              agaACAACGAAACTCGTAAACAAGCTATTCGCCGTCACCTGGAGTTCTTTAACACCCAGCCGTTCGTGGCTGCGCCGATTCTCGGCGTAACCCTGGCGCTGGAAGAACAGCGTGCTAATGGCGCAGAGATCGACGACGGt          <  2:56164/140‑1 (MQ=255)

                                                                                                                              agaACAACGAAACTCGTAAACAAGCTATTCGCCGTCACCTGGAGTTCTTTAACACCCAGCCGTTCGTGGCTGCGCCGATTCTCGGCGTAACCCTGGCGCTGGAAGAACAGCGTGCTAATGGCGCAGAGATCGACGACGGt          >  1:364398/1‑140 (MQ=255)

                                                                                                                              agaACAACGAAACTCGTAAACAAGCTATTCGCCGTCACCTGGAGTTCTTTAACACCCAGCCGTTCGTGGCTGCGCCGATTCTCGGCGTAACCCTGGCGCTGGAAGAACAGCGTGCTAATGGCGCAGAGATCGACGACGGt          <  1:327553/140‑1 (MQ=255)

                                                                                                                                   aacGAAACTCGTAAACAAGCTATTCGCCGTCACCTGGAGTTCTTTAACACCCAGCCGTTCGTGGCTGCGCCGATTCTCGGCGTAACCCTGGCGCTGGAAGAACAGCGTGCTAATGGCGCAGAGATCGACGACGGTGCTAt     >  2:208120/1‑140 (MQ=255)

                                                                                                                                      gAAACTCGTAAACAAGCTATTCGCCGTCACCTGGAGTTCTTTAACACCCAGCCGTTCGTGGCTGCGCCGATTCTCGGCGTAACCCTGGCGCTGGAAGAACAGCGTGCTAATGGCGCAGAGATCGACGACGGTGCTATCaa  <  2:178789/140‑1 (MQ=255)

CTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGTTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAGCTCGTAAACAAGCTATTCGCCGTCACCTGGAGTTCTTTAACACCCAGCCGTTCGTGGCTGCGCCGATTCTCGGCGTAACCCTGGCGCTGGAAGAACAGCGTGCTAATGGCGCAGAGATCGACGACGGTGCTATCAA  >  NC_000913/1903935‑1904208

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A