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
A2 F1 I1 R1	748	32.0	1685426	92.6%	1560704	103.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,417,157	C→T	R77H (CGC→CAC)	recE ←	Rac prophage, exonuclease VIII, 5' to 3' specific dsDNA exonuclease

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,417,157	0	C	T	100.0%	108.2 / NA	35	R77H (CGC→CAC)	recE	Rac prophage, exonuclease VIII, 5' to 3' specific dsDNA exonuclease
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (16/19); total (16/19)

ATTGGGAGTAGCATATTCTCCTCAATCTCAGTCATGTCTTCGCCGTTGACGTTGGTATTGCCTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGCGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAACAGCTTTAAAATAGCTGCTCAGTTTTTTACCTGACTTAACGATCAGGTAGTC  >  NC_000913/1417022‑1417278

aTTGGGAGTAGCATATTCTCCTCAATCTCAGTCATGTCTTCGCCGTTGACGTTGGTATTGCCTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGtt                                                                                                                        <  1:574750/139‑1 (MQ=255)

   gggAGTAGCATATTCTCCTCAATCTCAGTCATGTCTTCGCCGTTGACGTTGGTATTGCCTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCAc                                                                                                                     <  1:406871/139‑1 (MQ=255)

       gTAGCATATTCTCCTCAATCTCAGTCATGTCTTCGCCGTTGACGTTGGTATTGCCTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCa                                                                                                                 >  1:162635/1‑139 (MQ=255)

                                  tGTCTTCGCCGTTGACGTTGGTATTGCCTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCggg                                                                                      <  2:162635/139‑1 (MQ=255)

                                   gTCTTCGCCGTTGACGTTGGTATTGCCTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGc                                                                                     >  1:496986/1‑139 (MQ=255)

                                    tCTTCGCCGTTGACGTTGGTATTGCCTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCa                                                                                    <  2:496986/139‑1 (MQ=255)

                                             ttGACGTTGGTATTGCCTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAAt                                                                                                         <  1:802206/109‑1 (MQ=255)

                                             ttGACGTTGGTATTGCCTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAAt                                                                                                         >  2:802206/1‑109 (MQ=255)

                                              tGACGTTGGTATTGCCTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAAc                                                                          >  1:276174/1‑139 (MQ=255)

                                                             cTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGt                                                           >  1:321812/1‑139 (MQ=255)

                                                                gATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGtt                                                                                                                        >  2:721267/1‑75 (MQ=255)

                                                                gATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGtt                                                                                                                        <  1:721267/75‑1 (MQ=255)

                                                                   aGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAAc                                                     <  2:371305/139‑1 (MQ=255)

                                                                   aGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAAc                                                     <  2:470925/139‑1 (MQ=255)

                                                                     tGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGtt                                                                                                                        >  1:348588/1‑70 (MQ=255)

                                                                     tGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGtt                                                                                                                        <  2:348588/70‑1 (MQ=255)

                                                                     tGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGtt                                                                                                                        >  1:31818/1‑70 (MQ=255)

                                                                     tGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGtt                                                                                                                        <  2:31818/70‑1 (MQ=255)

                                                                      gAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGtt                                                                                                                        <  1:257194/69‑1 (MQ=255)

                                                                      gAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGtt                                                                                                                        >  2:257194/1‑69 (MQ=255)

                                                                      gAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCggg                                                                                      >  2:455130/1‑103 (MQ=255)

                                                                      gAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCggg                                                                                      <  1:455130/103‑1 (MQ=255)

                                                                       aGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTGCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAACAGCt                                                 >  1:522950/1‑139 (MQ=255)

                                                                                      tgctCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAACAGCTTTAAAATAGCTGCTc                                  <  2:473431/139‑1 (MQ=255)

                                                                                             ggTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGtt                                                                                                                        <  2:581309/46‑1 (MQ=255)

                                                                                             ggTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGtt                                                                                                                        >  1:581309/1‑46 (MQ=255)

                                                                                             ggTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAACAGCTTTAAAATAGCTGCTCAGttttt                           >  2:279999/1‑139 (MQ=255)

                                                                                                 ttAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAACAGCTTTAAAATAGCTGCTCAGTTTTTTAcc                       <  1:279999/139‑1 (MQ=255)

                                                                                                               aTGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGAc                                                                       <  2:386357/77‑1 (MQ=255)

                                                                                                               aTGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGAc                                                                       >  1:386357/1‑77 (MQ=255)

                                                                                                                      cTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAACAGCTTTAAAATAGCTGCTCAGTTTTTTACCTGACTTAACGATCAGGTAGTc  <  2:321812/139‑1 (MQ=255)

                                                                                                                         tGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAACAGCTTTAAAATAGCTGCTCAGTTTTTTACCTGACTTAACGa            <  2:199983/126‑1 (MQ=255)

                                                                                                                         tGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAACAGCTTTAAAATAGCTGCTCAGTTTTTTACCTGACTTAACGa            >  1:199983/1‑126 (MQ=255)

                                                                                                                                 tGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAACAGCTTTAAAATAGCTGCTCAGTTTTTTAc                        >  2:567189/1‑106 (MQ=255)

                                                                                                                                 tGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAACAGCTTTAAAATAGCTGCTCAGTTTTTTAc                        <  1:567189/106‑1 (MQ=255)

ATTGGGAGTAGCATATTCTCCTCAATCTCAGTCATGTCTTCGCCGTTGACGTTGGTATTGCCTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGCGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAACAGCTTTAAAATAGCTGCTCAGTTTTTTACCTGACTTAACGATCAGGTAGTC  >  NC_000913/1417022‑1417278

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A