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
A27 F74 I0 R1	29	16.5	643684	90.6%	583177	142.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	460,772	T→G	100%	S629A (TCG→GCG)	lon →	Lon protease

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	460,772	0	T	G	100.0%	26.7 / NA	13	S629A (TCG→GCG)	lon	Lon protease
Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (8/5); total (8/5)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GTTTCGACTATGGTCGCGCGGATAACGAAAACCGTGTCGGTCAGGTAACCGGTCTGGCGTGGACGGAAGTGGGCGGTGACTTGCTGACCATTGAAACCGCATGTGTTCCGGGTAAAGGCAAACTGACCTATACCGGTTCGCTCGGCGAAGTGATGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGTGACATCCACGTCCACGTACCG  >  NC_000913/460635‑460894

gTTTCGACTATGGTCGCGCGGATAACGAAAACCGTGTCGGTCAGGTAACCGGTCTGGCGTGGACGGAAGTGGGCGGTGACTTGCTGACCATTGAAACCGCATGTGTTCCGGGTAAAGGCAAACTGAACTATACCGGTgcgccc                                                                                                                       >  2:269485/1‑141 (MQ=255)

attgcgacgaGGGTCGCGCGGATAACGAAAGCCGTGGCGGTCAGGTAACTGGTCTGGCGTGGACGGAAGTGGGCGGTGACTTGCTGTCCATTGAAACCGCTTGTGTTCCAAGTAAAGCCAAACTGACCTATACCGGTGCGCTc                                                                                                                       <  2:23448/139‑1 (MQ=255)

     gACTATGGTCGCGCGGATAACGAAAACCGTGTCGGTCAGGTAACCGGTCTGGCGTGGACGGAAGTGGGCGGTGACTTGCTGACGATTGAAACCGCATGTGTTCCGGGTAAAGGCAAACTGACCTATACCGGTGCGCTCGGCGa                                                                                                                  >  1:184883/1‑143 (MQ=255)

       cTATGGGCGCGCGGAGAATGAAAGGCGCGTGCGTCAGGTAAAAGATTTGGCGTGGGCGGAAGTGGGCGGTGACTTGCTGACCATTGAAACCGCATGTGTCCCGGGTAAAGGCAAACTGACCTATACCGGTGCGCTCGGCGAAg                                                                                                                <  2:110258/143‑1 (MQ=255)

                 gcgGATAACGAAAACCGTGTCGGTCAGGTAACCGGTCTGGCGTGGACGGAAGTGGGCGGTGACTTGCTGACCATTGAAACCGCATGTGTTCCGGGTAAAGGCAAACTGACCTATACCGGTGCGCTCGGCGAAGTGATGCAGGa                                                                                                      <  1:240572/143‑1 (MQ=255)

                     aTAACGAAAACCGTGTCGGTCAGGTAACCGGTCTGGCGTGGACGGAAGTGGGCGGTGACTTGCTGAACATCGAAGGCGGAGTTGTTGGGGGCGAAGACAAACTGACCTATACCGGTGCGGCCGGCGAGGTGATGCAGGGGTcc                                                                                                  >  2:141895/1‑143 (MQ=255)

                            aaaCCGTGTCGGTCAGGTAACCGGTCTGGCGTGGACGGAAGTGGGCGGTGACTTGCTGACCATTGAAACCGCATGTGTTCCGGGTAAAGGCAAACTGACCTATACCGGTGCGCTCGGCGAAGTGATGCAGGAGTCCATTCacg                                                                                           >  1:91756/1‑141 (MQ=255)

                                       gTCAGGTAACCGGTCTGGCGTGGACGGAAGTGGGCGGTGGCTTGCTGACCATTGAAACCGCGTGTGTTCCGGGTAAAGGCAAACTGACCGATACCGGTGCGCTCGGCGAAGTGATGCAGGAGTCCAGTCAGGCGGCGCTAACg                                                                                >  2:101517/1‑143 (MQ=255)

                                         cAGGTAGGCGGTATGGCGTGGACTCGAGTGGGGGGTGTCGTGCTGACCATTGAGCCCGCATGTGTCCCGTGTTAAGGCAAACTGACCTATACCGGTGTGCTCGGCGAAGTGATGCAGGAGTTCATTCTTGCGGCGTTAACggt                                                                              <  2:173160/143‑1 (MQ=255)

                                                                         cGGTGACGTGCTGACCATTGAAACCGCATGTGTTCCGGGTAAAGGCAAACTGACCTATACCGGTGCGCTCGGCGAAGTGATGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCa                                              >  2:55504/1‑143 (MQ=255)

                                                                               cTTGCTGACCATTGAAACCGCATGTGTTCCGGGTAAAGGCAAACTGACCTATACCGGTGCGCTCGGCGAAGTGATGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTg                                        >  2:161286/1‑143 (MQ=255)

                                                                                         aTTGAAACCGCATGTGTTCCGGGTAAAGGCAAACTGACCTATACCGGTGCGCTCGGCGAAGTGATGAAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGa                              >  2:107703/1‑143 (MQ=255)

                                                                                              aaCCGCATGTGTTCCGGGTAAAGGCAAACTGACCTATACCGGTGCGCTCGGCGAAGTGATGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAAc                         <  1:203454/143‑1 (MQ=255)

                                                                                                                     gCAAACTGACCTATACCGGTGCGCTCGGCGAAGTGATGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTCGTGCGCGTGCGGAAACACTGGGGATCAACCCTGCTTGTTACGAACGACGTGACATCCACGTCCACGTACCg  >  2:311548/1‑143 (MQ=255)

GTTTCGACTATGGTCGCGCGGATAACGAAAACCGTGTCGGTCAGGTAACCGGTCTGGCGTGGACGGAAGTGGGCGGTGACTTGCTGACCATTGAAACCGCATGTGTTCCGGGTAAAGGCAAACTGACCTATACCGGTTCGCTCGGCGAAGTGATGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGTGACATCCACGTCCACGTACCG  >  NC_000913/460635‑460894

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 8 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A