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
A4 F1 I1 R1	73	24.7	1166784	93.9%	1095610	107.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	573,440	C→T	R24C (CGC→TGC)	rusA →	DLP12 prophage, endonuclease RUS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	573,440	0	C	T	100.0%	89.6 / NA	27	R24C (CGC→TGC)	rusA	DLP12 prophage, endonuclease RUS
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (13/14); total (13/14)

AGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGCGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGAAAATCCGCATTGAGTGCCACATGCCGGATCGCCGTCGCC  >  NC_000913/573305‑573575

aGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACTGCCATAATCGCGGGtgca                                                                                                                                      >  2:390670/1‑139 (MQ=255)

  aaTGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGtgcacg                                                                                                                                    <  2:328826/139‑1 (MQ=255)

    tGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGtgcacgca                                                                                                                                  >  2:156538/1‑139 (MQ=255)

     gcgcgcTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGtgcacg                                                                                                                                    <  2:357541/136‑1 (MQ=255)

     gcgcgcTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGtgcacg                                                                                                                                    >  1:357541/1‑136 (MQ=255)

                     ggCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGggc                                                                                                                 >  2:36717/1‑139 (MQ=255)

                           aaCACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCAt                                                                                                           >  1:550814/1‑139 (MQ=255)

                                      tCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAAc                                                                                                <  1:156538/139‑1 (MQ=255)

                                            tGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGcc                                                                                          >  1:394555/1‑139 (MQ=255)

                                                 gagGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAAt                                                                                     <  2:550814/139‑1 (MQ=255)

                                                    ggggTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAgggg                                                                                                                  <  2:506959/107‑1 (MQ=255)

                                                    ggggTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAgggg                                                                                                                  >  1:506959/1‑107 (MQ=255)

                                                          attaAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTaaaaa                                                                            >  2:286304/1‑139 (MQ=255)

                                                              aGGCGTGAATACCTACAGCTTCACATGACCCGGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCa                                                                        <  1:372009/139‑1 (MQ=255)

                                                              aGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCa                                                                        <  1:7062/139‑1 (MQ=255)

                                                                     aaTACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAATCGCAATGCTgg                                                                 >  2:376496/1‑139 (MQ=255)

                                                                             cAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATGGGc                                                         <  1:376496/139‑1 (MQ=255)

                                                                             cAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGc                                                         <  1:390670/139‑1 (MQ=255)

                                                                             cAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGc                                                         <  1:266713/139‑1 (MQ=255)

                                                                             cAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGc                                                         <  1:286304/139‑1 (MQ=255)

                                                                              aGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGcc                                                        >  1:3799/1‑139 (MQ=255)

                                                                                  tCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGc                                                                                           >  1:205187/1‑100 (MQ=255)

                                                                                  tCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGc                                                                                           <  2:205187/100‑1 (MQ=255)

                                                                                       ttACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGc                                               <  2:3799/139‑1 (MQ=255)

                                                                                                    cGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCa                                                                        <  1:538371/101‑1 (MQ=255)

                                                                                                    cGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCa                                                                        >  2:538371/1‑101 (MQ=255)

                                                                                                         aataatCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGAAAATCCGCATTg                             >  1:296142/1‑139 (MQ=255)

                                                                                                                          ccATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGAAAATcc                                   <  1:3323/116‑1 (MQ=255)

                                                                                                                          ccATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGAAAATcc                                   >  2:3323/1‑116 (MQ=255)

                                                                                                                            aTAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGAAAATCCGCATTGAGTGCCACATGCCGGAtcg          >  1:574089/1‑139 (MQ=255)

                                                                                                                              aaTCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGAAAATCCGCATTGAGTGCCACATGCCGGAtcgcc        >  2:129849/1‑139 (MQ=255)

                                                                                                                                    gggTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGAAAATCCGCATTGAGTGCCACATGCCGGAtcgccgtcgcc  <  2:394555/139‑1 (MQ=255)

AGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGCGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGAAAATCCGCATTGAGTGCCACATGCCGGATCGCCGTCGCC  >  NC_000913/573305‑573575

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A