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
A0 F0 I1 R1	715	38.4	1606192	96.6%	1551581	120.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,449,228	C→T	274 (TAG→TAA)	yfcO ←	DUF2544 family putative outer membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,449,228	0	C	T	100.0%	93.6 / NA	30	274 (TAG→TAA)	yfcO	DUF2544 family putative outer membrane protein
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (15/15); total (15/15)

GTGATGCGGCGTTGTTGGTGTTGATTGAAGTCGAAGAGTGGCTGCCGCCGGAGTTGCCCTGAGGAGTTGAGCGCGTTGCGCCAGGTACGGGTAATGGCAGGGGCGAATGCCCCTGCCTGGTGTATCTAAGGGCTACAACTCATTCAGTATGTACTGGAACCGGCAAGTAGAATCGATTGGCTGCATACTGCTGGTATCAACACGCACGACCATATCGTGTAACTGTTTGTCCGTTATAGGGTGTCGATTTGGCGTGACCGAGAC  >  NC_000913/2449096‑2449359

gTGATGCGGCGTTGTTGGTGTTGATTGAAGTCGAAGAGTGGCTGCCGCCGGAGTTGCCCTGAGGAGTTGAGCGCGTTGCGCCAGGTACGGGTAATGGCAGGGGCGAATGCCCCTGCCTGGTGTATCTAAGGGTTACAAc                                                                                                                               <  1:78809/139‑1 (MQ=255)

         cgTTGTTGGTGTTGATTGAAGTCGAAGAGTGGCTGCCGCCGGAGTTGCCCTGAGGAGTTGAGCGCGTTGCGCCAGGTACGGGTAATGGCAGGGGCGAATGCCCCTGCCTGGTGTATCTAAGGGTTACAACTCATTCAGt                                                                                                                      <  1:670112/139‑1 (MQ=255)

          gttgttGGTGTTGATTGAAGTCGAAGAGTGGCTGCCGCCGGAGTTGCCCTGAGGAGTTGAGCGCGTTGCGCCAGGTACGGGTAATGGCAGGGGCGAATGCCCCTGCCTGGTGTATCTAAGGGTTACAACTCATTCAGTa                                                                                                                     <  2:188806/139‑1 (MQ=255)

             gttgGTGTTGATTGAAGTCGAAGAGTGGCTGCCGCCGGAGTTGCCCTGAGGAGTTGAGCGCGTTGCGCCAGGTACGGGTAATGGCAGGGGCGAATGCCCCTGCCTGGTGTATCTAAGGGTTACAACTCATTCAGTATGt                                                                                                                  >  1:94430/1‑139 (MQ=255)

                            aGTCGAAGAGTGGCTGCCGCCGGAGTTGCCCTGAGGAGTTGAGCGCGTTGCGCCAGGTACGGGTAATGGCAGGGGCGAATGCCCCTGCCTGGTGTATCTAAGGGTTACAACTCATTCAGTATGTACTGGAACCGGCAAg                                                                                                   >  1:328830/1‑139 (MQ=255)

                                                   aGTTGCCCTGAGGAGTTGAGCGCGTTGCGCCAGGTACGGGTAATGGCAGGGGCGAATGCCCCTGCCTGGTGTATCTAAGGGTTACAACTCATTCAGTATGTACTGGAACCGGCAAGTAGAATCGATTGGCTGCATActg                                                                            <  2:246441/139‑1 (MQ=255)

                                                       gCCCTGAGGAGTTGAGCGCGTTGCGCCAGGTACGGGTAATGGCAGGGGCGAATGCCCCTGCCTGGTGTATCTAAGGGTTACAACTCATTCAGTATGTACTGGAACCGGCAAGTAGAATCGATTGGCTGCATACTGCTgg                                                                        >  1:251803/1‑139 (MQ=255)

                                                         ccTGAGGAGTTGAGCGTGTTGCGCCAGGTACGGGTAATGGCAGGGGCGAATGACCCTGCCTGGTGTATCTAAGGGTTACAACTCATTCAGTATGTACTGGAACCGGCAAGTAGAATCGATTGGCTGCATACTGCTGGTa                                                                      <  1:372784/139‑1 (MQ=255)

                                                              ggagTTGAGCGCGTTGCGCCAGGTACGGGTAATGGCAGGGGCGAATGCCCCTGCCTGGTGTATCTAAGGGTTACAACTCATTCAGTATGTACTGGAACCGGCAAGTAGAATCGATTGGCTGCATACTGCTGGTATCAac                                                                 <  1:453688/139‑1 (MQ=255)

                                                                       cgcgTTCCTCCATGTACTGATAATGACCGGGGTGAATGCCCCTGCTTGTTCTCACTAAGGGTTACCACTCAATCAGTATGTATAGGAACCGGCATGTAGAATCGATTGGCTGCATACTGCTGGTATCAAAACGCACGAc                                                        >  1:423928/1‑139 (MQ=255)

                                                                        gcgTTGCGCCAGGTACGGGTAATGGCAGGGGCGAATGCCCCTGCCTGGTGTATCTAAGGGTTACAACTCATTCAGTATGTACTGGAACCGGCAAGTAGAATCGATTGGCTGCATACTGCTGGTATCAACACGCACGAcc                                                       <  2:328830/139‑1 (MQ=255)

                                                                            tGCGCCAGGTACGGGTAATGGCAGGGGCGAATGCCCCTGCCTGGTGTATCTAAGGGTTACAACTCATTCAGTATGTACTGGAACCGGCAAGTAGAATCGATTg                                                                                       <  2:743782/103‑1 (MQ=255)

                                                                            tGCGCCAGGTACGGGTAATGGCAGGGGCGAATGCCCCTGCCTGGTGTATCTAAGGGTTACAACTCATTCAGTATGTACTGGAACCGGCAAGTAGAATCGATTg                                                                                       >  1:743782/1‑103 (MQ=255)

                                                                                             aTGGCAGGGGCGAATGCCCCTGCCTGGTGTATCTAAGGGTTACAACTCATTCAGTATGTACTGGAACCGGCAAg                                                                                                   >  1:528861/1‑74 (MQ=255)

                                                                                             aTGGCAGGGGCGAATGCCCCTGCCTGGTGTATCTAAGGGTTACAACTCATTCAGTATGTACTGGAACCGGCAAg                                                                                                   <  2:528861/74‑1 (MQ=255)

                                                                                                gCAGGGGCGAATGCCCCTGCCTGGTGTATCTAAGGGTTACAACTCATTCAGTATGTACTGGAACCGGCAAGTAGAATCGATTGGCTGCATACTGCTGGTATCAACACGCACGACCATATCGTGTAACTGTTTGTCCGtt                               >  1:310744/1‑139 (MQ=255)

                                                                                                    gggCGAATGCCCCTGCCTGGTGTATCTAAGGGTTACAACTCAt                                                                                                                           >  1:30587/1‑43 (MQ=255)

                                                                                                    gggCGAATGCCCCTGCCTGGTGTATCTAAGGGTTACAACTCAt                                                                                                                           <  2:30587/43‑1 (MQ=255)

                                                                                                    gggCGAATGCCCCTGCCTGGTGTATCTAAGGGTTACAACTCATTCAGt                                                                                                                      >  1:623099/1‑48 (MQ=255)

                                                                                                    gggCGAATGCCCCTGCCTGGTGTATCTAAGGGTTACAACTCATTCAGt                                                                                                                      <  2:623099/48‑1 (MQ=255)

                                                                                                    gggCGAATGCCCCTGCCTGGTGTATCTAAGGGTTACAACTCATTCAGTATGTACTGGAACCGGCAAGTAGAATCGATTGGCTGCATACTGCTGGTATCAACACGCACGACCATATCGTGTAACTGTTTGTCCGTTATAg                           >  1:622686/1‑139 (MQ=255)

                                                                                                    gggCGAATGCCCCTGCCTGGTGTATCTAAGGGTTACAACTCATTCAGTATGTACTGGAACCGGCAAGTAGAATCGATTGGCTGCATACTGCTGGTATCAACACGCACGACCATATCGTGTAACTGTTTGTCCGTTATAg                           >  1:526134/1‑139 (MQ=255)

                                                                                                              cccTGCCTGGTGTATCTAAGGGTTACAACTCATTCAGTATGTACTGGAACCGGCAAGTAGAATCGATTGGCTGCATACTGCTGGTATCAACACGCACGACCATATCGTGTAACTGTTTGTCCGTTATAGGGTGTCGAtt                 <  2:310744/139‑1 (MQ=255)

                                                                                                                        tgtATCTAAGGGTTACAACTCATTCAGTATGTACTGGAACCg                                                                                                        <  2:462844/42‑1 (MQ=255)

                                                                                                                        tgtATCTAAGGGTTACAACTCATTCAGTATGTACTGGAACCg                                                                                                        >  1:462844/1‑42 (MQ=255)

                                                                                                                        tgtATCTAAGGGTTACAACTCATTCAGTATGTACTGGAACCGGCAAGTAGAATCGATTGGCTGCATACTGCTGGTATCAAcacg                                                              >  2:228041/1‑84 (MQ=255)

                                                                                                                        tgtATCTAAGGGTTACAACTCATTCAGTATGTACTGGAACCGGCAAGTAGAATCGATTGGCTGCATACTGCTGGTATCAAcacg                                                              <  1:228041/84‑1 (MQ=255)

                                                                                                                             cTAAGGGTTACAACTCATTCAGTATGTACTGGAACCGGCAAGTAGAATCGATTGGCTGCATACTGCTGGTATCAACACGCACGACCATATCGTGTAACTGt                                        >  1:338031/1‑101 (MQ=255)

                                                                                                                             cTAAGGGTTACAACTCATTCAGTATGTACTGGAACCGGCAAGTAGAATCGATTGGCTGCATACTGCTGGTATCAACACGCACGACCATATCGTGTAACTGt                                        <  2:338031/101‑1 (MQ=255)

                                                                                                                             cTAAGGGTTACAACTCATTCAGTATGTACTGGAACCGGCAAGTAGAATCGATTGGCTGCATACTGCTGGTATCAACACGCACGACCATATCGTGTAACTGTTTGTCCGTTATAGGGTGTCGATTTGGCGTGACCGAGAc  >  2:575524/1‑139 (MQ=255)

GTGATGCGGCGTTGTTGGTGTTGATTGAAGTCGAAGAGTGGCTGCCGCCGGAGTTGCCCTGAGGAGTTGAGCGCGTTGCGCCAGGTACGGGTAATGGCAGGGGCGAATGCCCCTGCCTGGTGTATCTAAGGGCTACAACTCATTCAGTATGTACTGGAACCGGCAAGTAGAATCGATTGGCTGCATACTGCTGGTATCAACACGCACGACCATATCGTGTAACTGTTTGTCCGTTATAGGGTGTCGATTTGGCGTGACCGAGAC  >  NC_000913/2449096‑2449359

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