BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	USA300TCH1516_ALE	2,139,513	A→T	36.4%	I16I (ATT→ATA)	USA300HOU_RS10910 ←	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	2,139,513	0	A	T	36.4%	5.1 / 9.5	11	I16I (ATT→ATA)	USA300HOU_RS10910	hypothetical protein
Reads supporting (aligned to +/- strand): ref base A (2/5); new base T (2/2); total (4/7)
Fisher's exact test for biased strand distribution p-value = 5.76e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ATCTTTTTGTTCTTGTATATATTGCTTGATGTGCGGCTTTTTCAATAACCTACACGCTGTCACATGTGCGCTATTTGCGTTATATCCTGCTTTTATGGCACTTTGTGTTACATTCAGTGTTCTAATATACTCATTCACAAAACGTGCTTGCTTTGCAGTTAACTCACTCATTTTATCACCCCCACAATTTTATCTAATATGGTTTCATACC  >  USA300TCH1516_ALE/2139390‑2139600

atcttTTTGTTCTTGTNTATATTGCTTGANGTGTGGCTTCTTTAATAACCTACACCCTGTCACATGTGCACTATTTGCGCTATAACCTGCTTTTATGGCACTTTGTGTCACATTAAGTGTTCTTATATACTCATTCACaaa                                                                        >  1:114420/1‑141 (MQ=255)

atcttTTTGTTCTTGTATATATTGCTTGATGTGTGGCTTCTTTAATAACCTACACCCTGTCACATGTGCACTATTTGCGCTATAACCTGCTTTTATGGCACTTTGTGTCACATTAAGTGTTCTTATATACTCATTCACaaa                                                                        >  1:9094/1‑141 (MQ=255)

              gTATATATTGCTTGATGTGCGGCTTTTTCAATAACCTACACGCTGTCACATGTGCGCTATTTGCGTTATATCCTGCTTTTATGGCACTTTGTGTTACATTCAGTGTTCTAATATACTCATTCACAAAACGTGCTTGCTTTg                                                          <  2:28553/141‑1 (MQ=255)

                        cTTGATGTGCGGCTTTTTCAATAACCTACACGCTGTCACATGTGCGCTATTTGCGTTATATCCTGCTTTTATGGCACTTTGTGTTACATTCAGTGTTCTAATATACTCATTCACAAAACGTGCTTGCTTTGCAGTTAactc                                                <  1:5476/141‑1 (MQ=255)

                        cTTGATGTGCGGCTTTTTCAATAACCTACACGCTGTCACATGTGCGCTATTTGCGTTATATCCTGCTTTTATGGCACTTTGTGTTACATTCAGTGTTCTAATATACTCATTCACAAAACGTGCTTGCTTTGCAGTTAactc                                                <  2:43617/141‑1 (MQ=255)

                                          cAATAACCTACACGCTGTCACATGTGCGCTATTTGCGTTATATCCTGCTTTTATGGCACTTTGTGTTACATTCAGTGTTCTAATATACTCATTCACAAAACGTGCTTGCTTTGCAGTTAACTCACTCATTTTATCAccccc                              <  2:112308/141‑1 (MQ=255)

                                              aaCCTACACGCTGTCACATGTGCGCTATTTGCGTTATATCCTGCTTTTATGGCACTTTGTGTTACATTCAGTGTTCTAATATACTCATTCACAAAACGTGCTTGCTTTGCAGTTAACTCACTCATTTTATCACCCCCACaa                          <  2:100901/141‑1 (MQ=255)

                                                   acacGCTGTCACATGTGCGCTATTTGCGTTATATCCTGCTTTTATGGCACTTTGTGTTACATTCAGTGTTCTAATATACTCATTCACAAAACGTGCTTGCTTTGCAGTTAACTCACTCATTTTATCACCCCCACAATTTTa                     >  1:73958/1‑141 (MQ=255)

                                                           tCACATGTGCGCTATTTGCGTTATATCCTGCTTTTATGGCACTTTGTGTTACATTCAGTGTTCTAATATACTCATTCACAAAACGTGCTTGCTTTGCAGTTAACTCACTCATTTTATCACCCCCACAATTTTATCTAatat             >  2:43218/1‑141 (MQ=255)

                                                                      cTATTTGCGCTATAACCTGCTTTTATGGCACTTTGTGTCACATTAAGTGTTCTTATATACTCATTCACAAAACGCGCTTGCTTTGCCGTTAACTCACTCATTCTATCACCTCCACAATTTTATCTAATAAGGTTTCATAcc  <  2:114420/141‑1 (MQ=255)

                                                                      cTATTTGCGCTATAACCTGCTTTTATGGCACTTTGTGTCACATTAAGTGTTCTTATATACTCATTCACAAAACGCGCTTGCTTTGCCGTTAACTCACTCATTCTATCACCTCCACAATTTTATCTAATAAGGTTTCATAcc  <  2:9094/141‑1 (MQ=255)

ATCTTTTTGTTCTTGTATATATTGCTTGATGTGCGGCTTTTTCAATAACCTACACGCTGTCACATGTGCGCTATTTGCGTTATATCCTGCTTTTATGGCACTTTGTGTTACATTCAGTGTTCTAATATACTCATTCACAAAACGTGCTTGCTTTGCAGTTAACTCACTCATTTTATCACCCCCACAATTTTATCTAATATGGTTTCATACC  >  USA300TCH1516_ALE/2139390‑2139600

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`