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
A12 F1 I2 R1	766	55.6	2631458	94.7%	2491990	109.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,467,921	C→T	302 (TAG→TAA)	insD1 ←	IS2 transposase TnpB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,467,921	0	C	T	100.0%	111.5 / NA	37	302 (TAG→TAA)	insD1	IS2 transposase TnpB
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (16/21); total (16/21)

AATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTC  >  NC_000913/1467787‑1468043

aaTTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTtata                                                                                                                         >  2:780230/1‑139 (MQ=255)

 aTTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTatat                                                                                                                        <  2:1099889/139‑1 (MQ=255)

          ggggTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACa                                                                                                               <  1:780230/139‑1 (MQ=255)

           gggTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACAt                                                                                                              <  2:797982/139‑1 (MQ=255)

                 gCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTa                                                                                                        <  1:730607/139‑1 (MQ=255)

                 gCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTa                                                                                                        <  1:530770/139‑1 (MQ=255)

                 gCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTa                                                                                                        >  1:494933/1‑139 (MQ=255)

                      ggTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACt                                                                                                   <  2:494933/139‑1 (MQ=255)

                                gTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTa                                                                                        >  1:1056520/1‑139 (MQ=255)

                                          aaGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCt                                                                              >  2:1159108/1‑139 (MQ=255)

                                                               gTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGgcg                                                         <  1:362181/139‑1 (MQ=255)

                                                               gTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGgcg                                                         <  2:284986/139‑1 (MQ=255)

                                                                           taACAATTCAGGATATTGACAGTTTTGAACATTATGGGACAAGAACCCTGGATTTGTCCTTATATCTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTGCCGCAGATAGTCCCGTGGCGAGCGATAACCCa                                             <  2:1273205/139‑1 (MQ=18)

                                                                              cAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAgcg                                          <  2:133416/139‑1 (MQ=255)

                                                                              cAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAgcg                                          <  1:269596/139‑1 (MQ=255)

                                                                                      gATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTatat                                                                                                                        <  1:1208660/54‑1 (MQ=255)

                                                                                      gATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTatat                                                                                                                        >  2:1208660/1‑54 (MQ=255)

                                                                                       atatTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCg                                 <  2:302188/139‑1 (MQ=255)

                                                                                           tGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTCCCCAAGATATTCCCGTGCCGAGCAAAAACCCAGCGCACTATGCGGATg                             >  2:498678/1‑139 (MQ=17)

                                                                                             aCAGTTTTGAACATCATGGGAAAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGcc                           <  1:498678/139‑1 (MQ=255)

                                                                                               aGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCAt                         <  2:1056520/139‑1 (MQ=255)

                                                                                                gTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTGcc                                                                           <  2:112523/88‑1 (MQ=255)

                                                                                                gTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTGcc                                                                           >  1:112523/1‑88 (MQ=255)

                                                                                                gTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCAtt                        >  1:412287/1‑139 (MQ=255)

                                                                                                    tGAACATCATGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTGCCGCAGATACTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGtt                    >  1:783991/1‑139 (MQ=255)

                                                                                                           catGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTGCCg                                                                          <  1:1060017/78‑1 (MQ=255)

                                                                                                           catGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTGCCg                                                                          >  2:1060017/1‑78 (MQ=255)

                                                                                                           catGGGACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGc             >  1:293986/1‑139 (MQ=255)

                                                                                                                gACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTGCCGCAGATATTCCCGTgg                                                           >  1:724196/1‑88 (MQ=255)

                                                                                                                gACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTGCCGCAGATATTCCCGTgg                                                           <  2:724196/88‑1 (MQ=255)

                                                                                                                gACAAGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATACGGATGCCATTCGTTATAATGCTCGaa        <  2:783991/139‑1 (MQ=255)

                                                                                                                   aaGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGc     <  2:293986/139‑1 (MQ=25)

                                                                                                                    aGAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGcc    >  2:1257512/1‑139 (MQ=21)

                                                                                                                     gAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAACCCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGcc    >  2:867137/1‑139 (MQ=255)

                                                                                                                     gAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATg                             <  1:620149/113‑1 (MQ=21)

                                                                                                                     gAACCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATg                             >  2:620149/1‑113 (MQ=21)

                                                                                                                      aaCCCTGGATTTGCCCTTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCctc  >  1:56890/1‑139 (MQ=18)

AATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAA‑CCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTC  >  NC_000913/1467787‑1468043

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `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