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
A143 F1 I1 R1	16	39.8	2536279	96.2%	2439900	76.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	REL606	1,579,770	C→T	M175I (ATG→ATA)	yneH ←	predicted glutaminase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	REL606	1,579,770	0	C	T	100.0%	89.9 / NA	25	M175I (ATG→ATA)	yneH	predicted glutaminase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (13/12); total (13/12)

AGCGCAGTAATGAAAGTAGTTTTGCAGAACGGTTGTCACGTCATGATGGAAATTGCCAAACGACTTCATCAGCCAGGCGATAGCCGCATTTCGCGAGGAATGTTCAAATTCGGAACGCGCTACCACCGTATCGTAGG  >  REL606/1579704‑1579840

agCGCAGTAATGAAAGTAGTTTTGCAGAACGGTTGTCACGTCATGATGGAAATTGCCAAACGACTTTATCAGCCAg                                                               >  2:337120/1‑76 (MQ=255)

 gcgcAGTAATGAAAGTAGTTTTGCAGAACGGTTGTCACGTCATGATGGAAATTGCCAAACGACTTTATCAGCCAgn                                                              <  1:258282/76‑2 (MQ=255)

     aGTAATGAAAGTAGTTTTGCAGAACGGTTGTCACGTCATGATGGAAATTGCCAAACGACTTTATCAGCCAGGCGAt                                                          <  1:999129/76‑1 (MQ=255)

           naaaGTAGTTTTGCAGAACGGTTGTCACGTCATGATGGAAATTGCCAAACGACTTTATCAGCCAGGCGATAGCCGc                                                    >  1:309453/2‑76 (MQ=255)

            aaaGTAGTTTTGCAGAACGGTTGTCACGTCATGATGGAAATTGCCACACGACTTTATCAGCCAGGCGATAGCCGCa                                                   >  2:40512/1‑76 (MQ=255)

            aaaGTAGTTTTGCAGAACGGTTGTCACGTCATGATGGAAATTGCCAAACGACTTTATCAGCCAGGCGATAGCCGCa                                                   >  2:1075385/1‑76 (MQ=255)

              agtagtTTTGCAGAACGGTTGTCACGTCATGATGGAAATTGCCAAACGACTTTATCAGCCAGGCGATAGCCGCAtt                                                 >  2:727434/1‑76 (MQ=255)

                tagtTTTGCAGAACGGTTGTCACGTCATGATGGAAATTGCCAAACGACTTTATCAGCCAGGCGATAGCCGCATTTc                                               >  2:797217/1‑76 (MQ=255)

                tagtTTTGCAGAACGGTTGTCACGTCATGATGGAAATTGCCAAACGACTTTATCAGCCAGGCGATAGCCGCATTTc                                               >  2:797209/1‑76 (MQ=255)

                   ttttGCAGTACGGTTGTCACGTCATGATGGAAATTGCCAAACGACTTTATCAGCCAGGCGATAGCCGCATTTcgcg                                            <  1:829911/76‑1 (MQ=255)

                        cAGAACGGTTGTCACGTCATGATGGAAATTGCCAAACGACTTTATCAGCCAGGCGATAGCCGCATTTCGCGAGGaa                                       >  2:377662/1‑76 (MQ=255)

                        cAGAACGGTTGTCACGTCATGATGGAAATTGCCAAACGACTTTATCAGCCAGGAGAGAGCCGCATTTCGCGAGGaa                                       >  1:60091/1‑76 (MQ=255)

                         aGAACGGTTGTCACGTCATGATGGAAATTGCCAAACGACTTTATCAGCCAGGCGATAGCCGCATTTCGCGAGGAAt                                      <  2:1172524/76‑1 (MQ=255)

                          gAACGGTTGTCACGTCATGATGGAAATTGCCAAACGACTTTATCAGCCAGGCGATAGCCGCATTTCGCGAGGAATg                                     <  2:387351/76‑1 (MQ=255)

                           aaCGGTTGTCACGTCATGATGGAAATTGCCAAACGACTTTATCAGCCAGGCGATAGCCGCATTTCGCGAGGAATGt                                    >  1:1002359/1‑76 (MQ=255)

                           aaCGGTTGTCACGTCATGATGGAAATTGCCAAACGACTTTATCAGCCAGGCGATAGCCGCATTTCGCGAGGAATGt                                    <  2:804646/76‑1 (MQ=255)

                              ggTTGTCACGTCATGATGGAAATTGCCAAACGACTTTATCAGCCAGGCGATAGCCGCATTTCGCGAGGAATGTTCa                                 >  1:467962/1‑76 (MQ=255)

                               gTTGTCACGTCATGATGGAAATTGCCAAACGACTTTATCAGCCAGGCGATAGCCGCATTTCGCGAGGAATGTTCaa                                <  1:750033/76‑1 (MQ=255)

                                 tGTCACGTCATGATGGAAATTGCCAAACGACTTTATCAGCCAGGCGATAGCCGCATTTCGCGAGGAATGTTCAAAt                              <  1:1145922/76‑1 (MQ=255)

                                       gTCATGATGGAAATTGCCAAACGACTTTATCAGCCAGGCGATAGCCGCATTTCGCGAGGAAAGTTCAAATTCGGaa                        <  1:111203/76‑1 (MQ=255)

                                         cATGATGGAAATTGCCAAACGACTTTATCAGCCAGGCGATAGCCGCATTTCGCGAGGAATGTTCAAATTCGGAAcg                      <  2:949802/76‑1 (MQ=255)

                                                  aaTTGCCAAACGACTTTATCAGCCAGGCGATAGCCGCATTTCGCGAGGAATGTTCAAATTCGGAACGCGCTaccac             >  1:359224/1‑76 (MQ=255)

                                                       ccAAACGACTTTATCAGCCAGGCGATAGCCGCATTTCGNGAGGAATGTTCAAATTCGGAACGCGCTACCACCGTAt        <  1:1238580/76‑1 (MQ=255)

                                                       ccAAACGACTTTATCAGCCAGGCGATAGCCGCATTTCGCGAGGAATGTTCAAATTCGGAACGCGCTACCACCGTAt        <  2:741721/76‑1 (MQ=255)

                                                       ccAAACGACTTNATNAGCCAGGCGATAGCCGCATTTCGCGAGGAATGTTCAAATTCGGGACGCGCTACCTCCGTAt        <  2:196584/76‑1 (MQ=255)

                                                          aaCTACTTTATCAGCCAGGCGATAGCCGCATTTCGCGAGGAATGTTCAAATTCGGAACGCGCTACCACCGTATCGt     <  2:274740/76‑1 (MQ=255)

                                                             gACTTTATCAGCCAGGCGATAGCCGCATTTCGCGAGGAATGTTCAAATTCGGAACGCGCTACCACCGTATCGTAgg  >  1:692869/1‑76 (MQ=255)

AGCGCAGTAATGAAAGTAGTTTTGCAGAACGGTTGTCACGTCATGATGGAAATTGCCAAACGACTTCATCAGCCAGGCGATAGCCGCATTTCGCGAGGAATGTTCAAATTCGGAACGCGCTACCACCGTATCGTAGG  >  REL606/1579704‑1579840

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 20 ≤` `ATCG/ATCG` `< 29 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A