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
A6 F28 I1 R1	191	83.5	2830284	99.3%	2810472	139.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,878,540	A→G	intergenic (+922/+29)	iap → / ← cas2	alkaline phosphatase isozyme conversion protein/CRISPR‑associated endoribonuclease Cas2

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,878,540	0	A	G	100.0%	171.5 / NA	47	intergenic (+922/+29)	iap/cas2	alkaline phosphatase isozyme conversion protein/CRISPR‑associated endoribonuclease Cas2
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (33/14); total (33/14)

CGTGAGCGTATCGCCGCGCGTCTGCGAAAGCGGTTTATCCCCGCTGGCGCGGGGAACTCTCTAAAAGTATACATTTGTTCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTATTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTACCGGGGTACGCCTGTTTAACCCAAATGTCTGGAACTCAAATCCCGTTTCCGTATTCGTTGCCC  >  NC_000913/2878405‑2878675

cGTGAGCGTATCGCCGCGCGTCTGCGAAAGCGGTTTATCCCCGCTGGCGCGGGGAACTCTCTAAAAGTATACATTTGTTCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCttgttat                                                                                                                                     >  1:321749/1‑140 (MQ=255)

        tATCGCCGCGCGTCTGCGAAAGCGGTTTATCCCCGCTGGCGCGGGGAACTCTCTAAAAGTATACATTTGTTCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATc                                                                                                                             <  1:729802/140‑1 (MQ=255)

        tATCGCCGCGCGTCTGCGAAAGCGGTTTATCCCCGCTGGCGCGGGGAACTCTCTAAAAGTATACATTTGTTCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATc                                                                                                                             >  1:1155146/1‑140 (MQ=255)

                cgcgTCTGCGAAAGCGGTTTATCCCCGCTGGCGCGGGGAACTCTCTAAAAGTATACATTTGTTCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCt                                                                                                                         >  2:1380678/1‑136 (MQ=255)

                cgcgTCTGCGAAAGCGGTTTATCCCCGCTGGCGCGGGGAACTCTCTAAAAGTATACATTTGTTCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCt                                                                                                                         <  1:1380678/136‑1 (MQ=255)

                  cgTCTGCGAAAGCGGTTTATCCCCGCTGGCGCGGGGAACTCTCTAAAAGTATACATTTGTTCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCt                                                                                                                   <  2:1241661/140‑1 (MQ=255)

                          aaaGCGGTTTATCCCCGCTGGCGCGGGGAACTCTCTAAAAGTATACATTTGTTCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTc                                                                                                           >  1:1309330/1‑140 (MQ=255)

                                           cTGGCGCGGGGAACTCTCTAAAAGTATACATTTGTTCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGac                                                                                          >  2:419075/1‑140 (MQ=255)

                                             ggCGCGGGGAACTCTCTAAAAGTATACATTTGTTCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTCATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGacac                                                                                        <  2:1244000/140‑1 (MQ=255)

                                               cgcgGGGAACTCTCTAAAAGTATACATTTGTTCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCa                                                                                      >  2:29665/1‑140 (MQ=255)

                                               cgcgGGGAACTCTCTAAAAGTATACATTTGTTCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCa                                                                                      >  2:236744/1‑140 (MQ=255)

                                                          ctctAAAAGTATACATTTGTTCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAGACCa                                                                           >  2:1298454/1‑140 (MQ=255)

                                                              aaaaGTATACATTTGTTCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACAcc                                                                                       >  1:904819/1‑124 (MQ=255)

                                                              aaaaGTATACATTTGTTCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACAcc                                                                                       <  2:904819/124‑1 (MQ=255)

                                                               aaaGTATACATTTGTTCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCaa                                                                      <  2:206915/140‑1 (MQ=255)

                                                                   tataCATTTGTTCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCt                                                                  >  1:924581/1‑140 (MQ=255)

                                                                     taCATTTGTTCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACCTTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTa                                                                                <  2:1243658/124‑1 (MQ=255)

                                                                     taCATTTGTTCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTa                                                                                >  1:1243658/1‑124 (MQ=255)

                                                                     taCATTTGTTCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTAc                                                                >  2:488030/1‑140 (MQ=255)

                                                                     taCATTTGTTCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTAc                                                                >  2:127651/1‑140 (MQ=255)

                                                                     taCATTTGTTCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTAc                                                                >  1:554875/1‑140 (MQ=255)

                                                                     taCATTTGTTCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTAc                                                                >  1:401716/1‑140 (MQ=255)

                                                                     taCATTTGTTCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTCTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTAc                                                                >  1:660814/1‑140 (MQ=255)

                                                                             ttCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTAc                                                                >  2:1053042/1‑132 (MQ=255)

                                                                             ttCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTAc                                                                <  1:1053042/132‑1 (MQ=255)

                                                                             ttCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTACCGGGGTAc                                                        >  2:1135510/1‑140 (MQ=255)

                                                                              tCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTACCGGGGTACg                                                       <  2:1309330/140‑1 (MQ=255)

                                                                                       aTTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTACCGGGGTACGCCTGTTTaa                                              >  1:1104986/1‑140 (MQ=255)

                                                                                                 aTAAAAACAACCCACCAACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTACCGGGGTACGCCTGTTTAACCCAAATGTc                                    >  2:647041/1‑140 (MQ=255)

                                                                                                               ccaACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTACCGGGGTACGCCTGTTTAACCCAAATGTCTGGAACTCAAATcc                      >  1:852052/1‑140 (MQ=255)

                                                                                                               ccaACCTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTACCGGGGTACGCCTGTTTAACCCAAATGTCTGGAACTCAAATcc                      >  1:1366880/1‑140 (MQ=255)

                                                                                                                   ccTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTACCGGGGTACGCCTGTTTAACCCAAATGTCTGGAACTCAAATCCCGtt                  >  1:49705/1‑140 (MQ=255)

                                                                                                                   ccTTAATGTAACATTTCCTTGTTATTAAAGATCAGCTAACTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTACCGGGGTACGCCTGTTTAACCCAAATGTCTGGAACTCAAATCCCGtt                  >  1:274592/1‑140 (MQ=255)

                                                                                                                     ttAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTACCGGGGTACGCCTGTTTAACCCAAATGTCTGGAACTCAAATCCCGTTTc                <  2:401716/140‑1 (MQ=255)

                                                                                                                     ttAATGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTCTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTACCGGGGTACGCCTGTTTAACCCAAATGTCTGGAACTCAAATCCCGTTTc                <  2:660814/140‑1 (MQ=255)

                                                                                                                        aTGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTACCGGGGTACGCCTGTTTAACCCAAATGTCTGGAACTCAAATCCCGTTTCCGt             >  1:1120643/1‑140 (MQ=255)

                                                                                                                         tGTAACATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTACCGGGGTACGCCTGTTTAACCCAAATGTCTGGAACTCAAATCCCGTTTCCGTa            <  2:924581/140‑1 (MQ=255)

                                                                                                                             aCATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTACCGGGGTACGCCTGTTTAACCCAAATGTCTGGAACTCAAATCCCGTTTCCGTATTCg        >  1:332752/1‑140 (MQ=255)

                                                                                                                             aCATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTACCGGGGTACGCCTGTTTAACCCAAATGTCTGGAACTCAAATCCCGTTTCCGTATTCg        >  1:146076/1‑140 (MQ=255)

                                                                                                                             aCATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTACCGGGGTACGCCTGTTTAACCCAAATGTCTGGAACTCAAATCCCGTTTCCGTATTCg        >  2:666048/1‑140 (MQ=255)

                                                                                                                             aCATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTACCGGGGTACGCCTGTTTAACCCAAATGTCTGGAACTCAAATCCCGTTTCCGTATTCg        >  2:86452/1‑140 (MQ=255)

                                                                                                                              cATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTACCGGGGTACGCCTGTTTAACCCAAATGTCTGGAACTCAAATCCCGTTTCCGTATTCGt       >  1:414719/1‑140 (MQ=255)

                                                                                                                              cATTTCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTACCGGGGTACGCCTGTTTAACCCAAATGTCTGGAACTCAAATCCCGTTTCCGTATTCGt       >  2:993800/1‑140 (MQ=255)

                                                                                                                                  tCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTACCGGGGTACGCCTGTTTAACCCAAATGTCTGGAACTCAAATCCCGTTTCCGTATTCGTTGcc   <  1:86452/140‑1 (MQ=255)

                                                                                                                                  tCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTACCGGGGTACGCCTGTTTAACCCAAATGTCTGGAACTCAAATCCCGTTTCCGTATTCGTTGcc   >  1:603689/1‑140 (MQ=255)

                                                                                                                                  tCCTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTACCGGGGTACGCCTGTTTAACCCAAATGTCTGGAACTCAAATCCCGTTTCCGTATTCGTTGcc   <  2:321749/140‑1 (MQ=255)

                                                                                                                                   ccTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTACCGGGGTACGCCTGTTTAACCCAAATGTCTGGAACTCAAATCCCGTTTCCGTATTCGTTGccc  >  2:93328/1‑140 (MQ=255)

                                                                                                                                   ccTTGTTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTACCGGGGTACGCCTGTTTAACCCAAATGTCTGGAACTCAAATCCCGTTTCCGTATTCGTTGccc  >  2:952110/1‑140 (MQ=255)

CGTGAGCGTATCGCCGCGCGTCTGCGAAAGCGGTTTATCCCCGCTGGCGCGGGGAACTCTCTAAAAGTATACATTTGTTCTTAAAGCATTTTTTCCCATAAAAACAACCCACCAACCTTAATGTAACATTTCCTTATTATTAAAGATCAGCTAATTCTTTGTTTTCAAACAGGTAAAAAAGACACCAACCTTAAACCATCCAAATCTACCGGGGTACGCCTGTTTAACCCAAATGTCTGGAACTCAAATCCCGTTTCCGTATTCGTTGCCC  >  NC_000913/2878405‑2878675

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A