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
A10 F1 I2 R1	757	38.1	1607544	96.5%	1551279	117.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	716,388	C→T	pseudogene (210/651 nt)	ybfG ←	pseudogene

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	716,388	0	C	T	100.0%	104.0 / NA	33	pseudogene (210/651 nt)	ybfG	pseudogene
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (15/18); total (15/18)

TTAAGAGCAAAAATTACCCCTGCGACATCGTCAGCGATGGGTAAAGCCCGCACGCCTGCGAATTCAGGGCGTTGTGTCCAACTTACTGGATCTCGTGGCAACCGGGGGTGACCAGATCCTGCTATGCGTAACTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCATCGGTGATTTTGTTGTCACCTGTAATTGATAAAGTGCGGTTTCGGCTAAATCTTTATTAACCGGTAAGAGTTCGGTATGGTTTG  >  NC_000913/716257‑716521

ttAAGAGCAAAAATTACCCCTGCGACATCGTCAGCGATGGGTAAAGCCCGCACGCCTGCGAATTCAGGGCGTTGTGTCCAACTTACTGGATCTCGTGGCAACCGGGGGTGACCAGATCCTGCTATGCGTAATTAACCAt                                                                                                                                <  2:605396/139‑1 (MQ=255)

               aCCCCTGCGACATCGTCAGCGATGGGTAAAGCCCGCACGCCTGCGAATTCAGGGCGTTGTGTCCAACTTACTGGATCTCGTGGCAACCGGGGGTGACCAGATCCTGCTATGCGTAATTAACCATTATCAATCAGCAGAc                                                                                                                 >  2:355996/1‑139 (MQ=255)

                    tGCGACATCGTCAGCGATGGGTAAAGCCCGCACGCCTGCGAATTCAGGGCGTTGTGTCCAACTTACTGGATCTCGTGGCAACCGGGGGTGACCAGATCCTGCTATGCGTAATTAACCATTATCAATCAGCAGACCTCCg                                                                                                            <  2:158070/139‑1 (MQ=255)

                    tGCGACATCGTCAGCGATGGGTAAAGCCCGCACGCCTGCGAATTCAGGGCGTTGTGTCCAACTTACTGGATCTCGTGGCAACCGGGGGTGACCAGATCCTGCTATGCGTAATTAACCATTATCAATCAGCAGACCTCCg                                                                                                            <  2:134211/139‑1 (MQ=255)

                                aGCGATGGGTAAAGCCCGCACGCCTGCGAATTCAGGGCGTTGTGTCCAACTTACTGGATCTCGTGGCAACCGGGGGTGACCAGATCCTGCTATGCGTAATTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACa                                                                                                >  2:101152/1‑139 (MQ=255)

                                              cccGCACGCCTGCGAATTCAGGGCGTTGTGTCCAACTTACTGGATCTCGTGGCAACCGGGGGTGACCAGATCCTGCTATGCGTAATTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCATCgg                                                                                  <  2:389168/139‑1 (MQ=255)

                                                       cTGCGAATTCAGGGCGTTGTGTCCAACTTACTGGATCTCGTGGCAACCGGGGGTGACCAGATCCTGCTATGCGtaattaac                                                                                                                                   <  2:728423/81‑1 (MQ=255)

                                                       cTGCGAATTCAGGGCGTTGTGTCCAACTTACTGGATCTCGTGGCAACCGGGGGTGACCAGATCCTGCTATGCGtaattaac                                                                                                                                   >  1:728423/1‑81 (MQ=255)

                                                             aTTCAGGGCGTTGTGTCCAACTTACTGGATCTCGTGGCAACCGGGGGTGACCAGATCCTGCTATGCGTAATTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCATCGGTGATTTTGTTGTCAc                                                                   <  1:101152/139‑1 (MQ=255)

                                                             aTTCAGGGCGTTGTGTCCAACTTACTGAATCTCGTGGCAACCGGGGGTGACCAGATCCTGCTATGCGTAATTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCATCGGTGATTTTGTTGTCAc                                                                   <  1:528950/139‑1 (MQ=255)

                                                                 aGGGCGTTGTGTCCAACTTACTGGATCTCGTGGCAACCGGGGGTGACCAGATCCTGCTATGCGTAATTAACCATTATCAATCAGCAGACCTCCg                                                                                                            <  1:15983/94‑1 (MQ=255)

                                                                 aGGGCGTTGTGTCCAACTTACTGGATCTCGTGGCAACCGGGGGTGACCAGATCCTGCTATGCGTAATTAACCATTATCAATCAGCAGACCTCCg                                                                                                            >  2:15983/1‑94 (MQ=255)

                                                                                      tGGATCTCGTGGCAACCGGGGGTGACCAGATCCTGCTATGCGTAATTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCATCGGTGATTTTGTTGTCACCTGTAATTGATAAAGTGCGGTTTCg                                          >  1:792200/1‑139 (MQ=255)

                                                                                      tGGATCTCGTGGCAACCGGGGGTGACCAGATCCTGCTATGCGTAATTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCATCGGTGATTTTGTTGTCACCTGTAATTGATAAAGTGCGGTTTCg                                          >  1:481911/1‑139 (MQ=255)

                                                                                             cGTGGCAAGCGGGGGTGACCAGATCCTGCTATGCGTAATTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCATCGGTGATTTTGTTGTCACCTGTAATTGATAAAGTGCGGATTCGGCTCAAt                                   >  2:522069/1‑139 (MQ=255)

                                                                                             cGTGGCAACCGGGGGTGACCAGATCCTGCTATGCGTAATTAACCATTATCAATCAGCAGACCTCCg                                                                                                            <  2:44341/66‑1 (MQ=255)

                                                                                             cGTGGCAACCGGGGGTGACCAGATCCTGCTATGCGTAATTAACCATTATCAATCAGCAGACCTCCg                                                                                                            >  1:44341/1‑66 (MQ=255)

                                                                                             cGTGGCAACCGGGGGTGACCAGATCCTGCTATGCGTAATTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCATCGGTGATTTTGTTGTCACCTGTAATTGATAAAGTGCGGTTTCGGCTAAAt                                   >  1:471759/1‑139 (MQ=255)

                                                                                                ggCAACCGGGGGTGACCAGATCCTGCTATGCGTAATTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCATCGGTGATTTTGTTGTCACCTGTAATTGATAAAGTGCGGTTTCGGCTAAATCtt                                >  1:350781/1‑139 (MQ=255)

                                                                                                    aCCGGGGGTGACCAGATCCTGCTATGCGTAATTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCATCGGTGATTTTGTTGTCACCTGTAATTGATAAAGTGCGGTTTCGGCTAAATCTttatt                            <  2:602926/139‑1 (MQ=255)

                                                                                                     ccGGGGGTGACCAGATCCTGCTATGCGTAATTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCAt                                                                                     >  2:647548/1‑81 (MQ=255)

                                                                                                     ccGGGGGTGACCAGATCCTGCTATGCGTAATTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCAt                                                                                     <  1:647548/81‑1 (MQ=255)

                                                                                                          ggTGACCAGATCCTGCTATGCGTAATTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCATCGGTGATTTTGTTGTCACCTGTAATTGATAAAGTGCGGTTTCGGCTAAATCTTTATTAACCgg                      <  2:455499/139‑1 (MQ=255)

                                                                                                           gTGACCAGATCCTGCTATGCGGAATTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCATCGGTGATTTTGTTGTCACCTGTAATTGATAAAGTGCGGTTTCGGCTAAATCTTTATTAACCGGt                     <  2:471759/139‑1 (MQ=255)

                                                                                                              aCCAGATCCTGCTATGCGTAATTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCATCGGTGATTTTGTTGTCAc                                                                   <  2:80394/90‑1 (MQ=255)

                                                                                                              aCCAGATCCTGCTATGCGTAATTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCATCGGTGATTTTGTTGTCAc                                                                   >  1:80394/1‑90 (MQ=255)

                                                                                                                cAGATCCTGCTATGCGTAATTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCATCGGTGATTTTGTTGTCACCTGTAATTGATAAAGTGCGGTTTCGGCTAAAt                                   <  2:47547/120‑1 (MQ=255)

                                                                                                                cAGATCCTGCTATGCGTAATTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCATCGGTGATTTTGTTGTCACCTGTAATTGATAAAGTGCGGTTTCGGCTAAAt                                   >  1:47547/1‑120 (MQ=255)

                                                                                                                  gATCCTGCTATGCGTACTTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCAACGGTGATTTTGTTGTCACCTGTAATTGATAAAGTGCGGTTTCGGCTAAATCTTTATTAACCGGTAAGAGtt              <  1:679624/139‑1 (MQ=255)

                                                                                                                          tATGCGTAATTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCATCGGTGATTTTGTTGTCACCTGTAATTGATAAAGTGCGGt                                              >  2:200647/1‑99 (MQ=255)

                                                                                                                          tATGCGTAATTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCATCGGTGATTTTGTTGTCACCTGTAATTGATAAAGTGCGGt                                              <  1:200647/99‑1 (MQ=255)

                                                                                                                             gCGTAATTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCATCGGTGATTTTGTTGTCACCTGTAATTGATAAAGTGCGGTTTCGGCTAAATCTTTATTAACCGGTAAGAGTTCGGTATGGttt   <  2:350781/139‑1 (MQ=255)

                                                                                                                              cGTAATTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCATCgg                                                                                  >  1:575973/1‑59 (MQ=255)

                                                                                                                              cGTAATTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCATCgg                                                                                  <  2:575973/59‑1 (MQ=255)

                                                                                                                              cGTAATTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCATCGGTGATTTTGTTGTCACCTGTAATTGATAAAGTGCGGTTTCGGCTAAATCTTTATTAACCGGTAAGAGTTCGGTATGGTTtg  >  2:548958/1‑139 (MQ=255)

TTAAGAGCAAAAATTACCCCTGCGACATCGTCAGCGATGGGTAAAGCCCGCACGCCTGCGAATTCAGGGCGTTGTGTCCAACTTACTGGATCTCGTGGCAACCGGGGGTGACCAGATCCTGCTATGCGTAACTAACCATTATCAATCAGCAGACCTCCGGAGCCATAGACAAGCGCACCCATCGGTGATTTTGTTGTCACCTGTAATTGATAAAGTGCGGTTTCGGCTAAATCTTTATTAACCGGTAAGAGTTCGGTATGGTTTG  >  NC_000913/716257‑716521

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