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
A7 F1 I2 R1	766	64.2	3232166	90.9%	2938038	104.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,950,558	C→T	intergenic (+1/‑2)	ilvX → / → ilvG	uncharacterized protein/pseudogene, acetolactate synthase 2 large subunit, valine‑insensitive, acetolactate synthase II, large subunit, cryptic, interrupted

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,950,558	0	C	T	100.0%	170.2 / NA	53	intergenic (+1/‑2)	ilvX/ilvG	uncharacterized protein/pseudogene, acetolactate synthase 2 large subunit, valine‑insensitive, acetolactate synthase II, large subunit, cryptic, interrupted
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (29/24); total (29/24)

AAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGGTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAACTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGTTTTCGGTTATCCGGGTGGCGCAATTATGCCGGTTTACGATGCATTGTATGACGGCGGCGTGGAGCACTTGCT  >  NC_000913/3950426‑3950687

aaGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGGTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGaa                                                                                                                             >  2:859935/1‑139 (MQ=255)

            aCTAAGACCCCCGCACCGAAAGGTCCGGGGGTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAgtg                                                                                                                 <  2:1380642/139‑1 (MQ=255)

              tAAGACCCCCGCACCGAAAGGTCCGGGGGTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAgtggg                                                                                                               <  1:547249/139‑1 (MQ=255)

                      ccGCACCGAAAGGTCCGGGGGTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACAt                                                                                                       >  1:1385460/1‑139 (MQ=255)

                              aaaGGTCCGGGGGTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCg                                                                                               <  2:1285383/139‑1 (MQ=255)

                              aaaGGTCCGGGGGTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCg                                                                                               >  1:1422121/1‑139 (MQ=255)

                              aaaGGTCCGGGGGTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCg                                                                                               >  2:1561038/1‑139 (MQ=255)

                                                     ccTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGggtggt                                                                                                           <  2:555544/104‑1 (MQ=255)

                                                     ccTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGggtggt                                                                                                           >  1:555544/1‑104 (MQ=255)

                                                             aCATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGTTTTCGGTTAt                                                                <  2:994055/139‑1 (MQ=255)

                                                                  aCCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGTTTTCGGTTATCCggg                                                           <  2:1422121/139‑1 (MQ=255)

                                                                   ccGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTg                                                                                                 >  1:177491/1‑100 (MQ=255)

                                                                   ccGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTg                                                                                                 <  2:177491/100‑1 (MQ=255)

                                                                      aggagCAGACAATGAATAACAGCACAAAATTCTGTTTCTCATGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTg                                                                                                 >  2:877907/1‑97 (MQ=255)

                                                                      aggagCAGACAATGAATAACAGCACAAAATTCTGTTTCTCATGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTg                                                                                                 <  1:877907/97‑1 (MQ=255)

                                                                      aggagCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGTTTTCGGTTATCCGGGTGgc                                                       >  2:1162065/1‑139 (MQ=255)

                                                                      aggagCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAAGGTGTGAACACCGTTTTCGGTTATCCGGGTGgc                                                       >  1:341667/1‑139 (MQ=255)

                                                                       ggagCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGt                                                                          >  1:82577/1‑119 (MQ=255)

                                                                       ggagCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGt                                                                          <  2:82577/119‑1 (MQ=255)

                                                                                  tGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGTTTTCGGTTATCCGGGTGGCGCAATTATGCCg                                           <  1:859935/139‑1 (MQ=255)

                                                                                  tGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGTTTTCGGTTATCCGGGTGGCGCAATTATGCCg                                           >  1:1222313/1‑139 (MQ=255)

                                                                                         cAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGTGGGCACAGGGTGTGAACACCGTTTTCGGTTATCCGGGTGGCGCAATTATGCCGGTTTACg                                    <  2:1385460/139‑1 (MQ=255)

                                                                                            cacaAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAgtg                                                                                                                 <  1:1293678/59‑1 (MQ=255)

                                                                                            cacaAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAgtg                                                                                                                 >  2:1293678/1‑59 (MQ=255)

                                                                                            cacaAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGtt                                                                         >  2:273234/1‑99 (MQ=255)

                                                                                            cacaAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGtt                                                                         <  1:273234/99‑1 (MQ=255)

                                                                                            cacaAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGTTTTCGGTTATCCGGGTGGCGCAATTATGCCGGTTTACGATg                                 >  2:183423/1‑139 (MQ=255)

                                                                                            cacaAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGTTTTCGGTTATCCGGGTGGCGCAATTATGCCGGTTTACGATg                                 >  1:104471/1‑139 (MQ=255)

                                                                                            cacaAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGTTTTCGGTTATCCGGGTGGCGCAATTATGCCGGTTTACGATg                                 >  1:1033995/1‑139 (MQ=255)

                                                                                            cacaAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGTTTTCGGTTATCCGGGTGGCGCAATTATGCCGGTTTACGATg                                 >  1:49380/1‑139 (MQ=255)

                                                                                            cacaAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGTTTTCGGTTATCCGGGTGGCGCAATTATGCCGGTTTACGATg                                 >  1:474389/1‑139 (MQ=255)

                                                                                            cacaAAACTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGTTTTCGGTTATCCGGGTGGCGCAATTATGCCGGTTTACGATg                                 >  1:314839/1‑139 (MQ=255)

                                                                                             acaAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAgtggg                                                                                                               >  2:500109/1‑60 (MQ=255)

                                                                                             acaAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAgtggg                                                                                                               <  1:500109/60‑1 (MQ=255)

                                                                                             acaAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGTTTTCGGTTATCCGGGTGGCGCAATTATGCCGGTTTACGATGc                                >  2:984536/1‑139 (MQ=255)

                                                                                               aaaaCTCTGTTTCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGTTTTCGGTTATCCGGGTGGCGCAATTATGCCGGTTTACGATGCAt                              <  2:314839/139‑1 (MQ=255)

                                                                                                        tttCTCAAGATTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAAGGTGTGAACACCGTTTTCGGTTATCCGGGTGGCGCAATTATGCCGGTTTACGATGCATTGTATGAcg                     <  2:341667/139‑1 (MQ=255)

                                                                                                                 aTTCAGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGTTTTCGGTTATCCGGGTGGCGCAATTATGCCGGTTTACGATGCATTGTATGACGGCGGCGTgg            <  1:984536/139‑1 (MQ=255)

                                                                                                                     aGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTg                                                                                                 >  1:434093/1‑50 (MQ=255)

                                                                                                                     aGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTg                                                                                                 <  2:434093/50‑1 (MQ=255)

                                                                                                                     aGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCggg                                                                                             >  2:233645/1‑54 (MQ=255)

                                                                                                                     aGGACGGGGAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCggg                                                                                             <  1:233645/54‑1 (MQ=255)

                                                                                                                           gggAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGTTTTCGGTTATCCGGGTGGCGCAATTATGCCGGTTTACGATGCATTGTATGACGGCGGCGTGGAGCACTTGCt  >  2:79731/1‑139 (MQ=255)

                                                                                                                            ggAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGcaca                                                                                         <  2:979340/51‑1 (MQ=255)

                                                                                                                            ggAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGcaca                                                                                         >  1:979340/1‑51 (MQ=255)

                                                                                                                            ggAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAaca                                                                              >  2:1571606/1‑62 (MQ=255)

                                                                                                                            ggAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAaca                                                                              <  1:1571606/62‑1 (MQ=255)

                                                                                                                            ggAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGTTTTCGGTTATCCggg                                                           <  1:858693/81‑1 (MQ=255)

                                                                                                                            ggAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGTTTTCGGTTATCCggg                                                           >  2:858693/1‑81 (MQ=255)

                                                                                                                            ggAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGTTTTCGGTTATCCGGGTGGCGCAATTATGCCGGt                                         >  2:111056/1‑99 (MQ=255)

                                                                                                                            ggAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGTTTTCGGTTATCCGGGTGGCGCAATTATGCCGGt                                         <  1:111056/99‑1 (MQ=255)

                                                                                                                            ggAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGTTTTCGGTTATCCGGGTGGCGCAATTATGCCGGTTTACGATg                                 <  1:75416/107‑1 (MQ=255)

                                                                                                                            ggAACTAATTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGTTTTCGGTTATCCGGGTGGCGCAATTATGCCGGTTTACGATg                                 >  2:75416/1‑107 (MQ=255)

AAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGGTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAACTATGAATGGCGCACAGTGGGTGGTACATGCGTTGCGGGCACAGGGTGTGAACACCGTTTTCGGTTATCCGGGTGGCGCAATTATGCCGGTTTACGATGCATTGTATGACGGCGGCGTGGAGCACTTGCT  >  NC_000913/3950426‑3950687

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A