Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
MC JC	NC_000913	3,815,859	Δ82 bp		[rph]–[rph]	[rph], [rph]

Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_000913	3815859	3815940	82	49 [0]	[0] 49	[rph]–[rph]	[rph],[rph]

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 3815858	0 (0.000)	48 (1.080)	42/262	0.1	100%	pseudogene (24/48 nt)	rph	ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH
	?	NC_000913	3815941 =	0 (0.000)					pseudogene (609/669 nt)	rph	ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH

AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGCCGTTCACAATTCCGACAGAAACTGCGGCTACCATCCCT  >  NC_000913/3815801‑3816082                                                                                                                                             |                                                                                                                                              gcctgcttgcgaagcgcaaattcaataaactggcgctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGt                                                                                                                                             <  1:589286‑M2/3‑1 (MQ=255)       ttgctaagcgcaaattcaataaactggcgctgatatggttacatgccttagctcatcatctgacttttctacagacaaaaaaaaggccactcatcagtcgccttacacatcagtttgccagcaccgcctcctgaCgtccccgg                                                                                                                                       >  2:387304‑M2/135‑141 (MQ=255)            aagcgcaaattcaataaactggcgctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACtt                                                                                                                                  <  1:527732‑M2/14‑1 (MQ=255)               cgcaaattcaatacactggcgctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCaa                                                                                                                               <  1:69793‑M2/17‑1 (MQ=255)                  aaattcaatacactggcgctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAatga                                                                                                                            <  1:51972‑M2/20‑1 (MQ=255)                  aaattcaataaactggcgctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTcaatta                                                                                                                            >  1:585206‑M2/124‑141 (MQ=255)                   aattccacaaactggcgctgatatggtttcatgccctcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAatgat                                                                                                                           <  1:137608‑M2/21‑1 (MQ=255)                   aattcaatagactggcgctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTTCCCTGCACTTCAatgat                                                                                                                           <  2:808015‑M2/21‑1 (MQ=255)                    attcaataaactggcgctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAatgatg                                                                                                                          <  1:689954‑M2/22‑1 (MQ=255)                           aaactggcgctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgaCGTCCCCTGCACTTCAATGATGCGCCcgc                                                                                                                   >  2:598093‑M2/115‑142 (MQ=255)                                ggcgctgatatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCg                                                                                                              <  1:270847‑M2/34‑1 (MQ=255)                                ggcgctgatatggtttcatgccttcgctcctcatcttacttgtctacagacaaaaaaaaggcgactcatcagtctccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCg                                                                                                              <  2:715442‑M2/34‑1 (MQ=255)                                ggcgctgatatggtttcatgccttcactcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCg                                                                                                              >  1:370431‑M2/110‑143 (MQ=255)                                   gctgatagggttacatgccgtcgctcctcatcttactttgctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGtc                                                                                                           <  1:514936‑M2/37‑1 (MQ=255)                                     tgatatggtttcatgccttcgctcctcgtcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGtcat                                                                                                         <  2:127542‑M2/39‑1 (MQ=255)                                       atatggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGtcatca                                                                                                       >  1:679926‑M2/103‑143 (MQ=255)                                         atggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCCTCACt                                                                                                     >  1:650861‑M2/101‑143 (MQ=255)                                         atggtttcatgccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGCCCCCTGCCCTTCAATGCTGCCCCCGCCTTCGGTCCTCCCt                                                                                                     >  1:391699‑M2/101‑143 (MQ=255)                                            gttgcatgacgttgcgcctcatcttgcgtttctgcaggcaagaagaaggcgactcttcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGCCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACg                                                                                                  <  2:490392‑M2/46‑1 (MQ=255)                                              ttcatgccatcgctcctcatcttactgttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGtt                                                                                                <  2:626148‑M2/48‑1 (MQ=255)                                                   gccttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCCCTACGTTCATGt                                                                                           >  1:226942‑M2/91‑143 (MQ=255)                                                     cttcgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtagccttaaaactcagtttgccagcgccgccttctgcCGTCCCCTGCACTCACATGATGCGCCCGCCCTCGGTAATAACTAcgctcacgacg                                                                                         >  2:673705‑M2/89‑138 (MQ=255)                                                       tcgctcctcatctgaacttgctccacacaaaaaacaggcgactcatcagtcccgctaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATTCCCCCGTCTTCGGTCATCACTACGTTCATGTCGGt                                                                                       <  2:511470‑M2/57‑1 (MQ=255)                                                        cgctcctcatcttacttttctacatacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGtc                                                                                      <  1:633640‑M2/58‑1 (MQ=255)                                                        cgctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGtc                                                                                      >  1:262310‑M2/86‑143 (MQ=255)                                                          ctcctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGtctc                                                                                    >  1:207210‑M2/84‑143 (MQ=255)                                                             ctcatctttcttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGc                                                                                 <  1:519783‑M2/63‑1 (MQ=255)                                                             ctcatcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGTCCCTTTTCGTTCATCACTACGTTCATGTcgttctcctc                                                                                 >  1:395346‑M2/81‑140 (MQ=255)                                                                 tcttacttttctacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCa                                                                             <  1:60485‑M2/67‑1 (MQ=255)                                                                            tacagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagattgccagcgccgcctgctgcCGTCCCCTGGACTTCAATGCTGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGATCTCTGCGGCACGGGCTTCAAc                                                                  >  2:60598‑M2/66‑143 (MQ=255)                                                                              cagacaaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGt                                                                >  2:271395‑M2/64‑143 (MQ=255)                                                                                   atttttaaggcgactgatgagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTcc                                                           >  1:493944‑M2/59‑143 (MQ=255)                                                                                   aacaaaaaggcgactcatcagtcgccttaaagatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGACTCTTCAACGTATTcc                                                           <  2:743262‑M2/85‑1 (MQ=255)                                                                                   aaaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTcc                                                           >  1:527069‑M2/59‑143 (MQ=255)                                                                                    aaaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCAATTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCa                                                          >  1:539240‑M2/58‑143 (MQ=255)                                                                                     aaaaaaggcgactcatcagtcgccttaaaaatcagtttgccagcgccgccttctgcCCTCCCCTGCGCGACAATGATGCGCCCGTCTTCGGTCCTCACTACCTCCATGTCGGTCTCTGCGGCAGAGCCGTCCGCGCATTCcac                                                         >  2:424955‑M2/57‑142 (MQ=255)                                                                                      tttaaggcgactgatgagtcgccttaaaaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCGTGTCTGTCTCTGCGGCACAGTCTTCAACGTATTCCAGa                                                        >  1:41994‑M2/56‑143 (MQ=255)                                                                                                 tcatcagtcgccttaacaatcaggttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGc                                             <  1:799104‑M2/99‑1 (MQ=255)                                                                                                                 aaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCCTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCACAGTCTTCAACGTATTCCAGAGCGCAAACCCCTTCGCCGTtcaaaact                             >  1:854432‑M2/29‑141 (MQ=255)                                                                                                                 aaatcagtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATCATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGCCTCTGCGGCAGCGTCTTCACCGTATTCCAGACCGCAACCCGCCTCGCCCCTCACACtt                             >  2:832097‑M2/29‑143 (MQ=255)                                                                                                                     cagtcttccagcgccgccttctgcCGTCCCCTGCACTTCAAGCATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCCCTCCGGCACAGTCTTCAACGTACTCCAGCTCGCAAACCGCTTCGCCGTTCACAATTCCGa                         <  2:239727‑M2/119‑1 (MQ=255)                                                                                                                       gtttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTCTTCCAGATCGCAAACAGCTTCGACGTTCACACTACCGact                       >  1:73288‑M2/23‑142 (MQ=255)                                                                                                                         ttgccagcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTCTTCCAGATCCCCCACCCCTTCGCCGTTCACAATTCCGAAAGa                     >  1:316820‑M2/21‑143 (MQ=255)                                                                                                                              agcgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTCCGTTCATGTCGGTCTCTGCGGCAGAGTCTCCAACGTATTCAAGATAGCGACCCGCTTCGCCGCTCACCACTCCGCCACAACCTg                >  1:595947‑M2/16‑143 (MQ=255)                                                                                                                               gcgccgccttctgcCGTCCCCAGCACTACAACGACGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGCCGTTCACAATTCCGACAGAAACTGc               <  1:43061‑M2/129‑1 (MQ=255)                                                                                                                                cgccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGCCGTTCACAATTCCGACAGAAACTGCg              >  1:64798‑M2/14‑143 (MQ=255)                                                                                                                                  ccgccttctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGCCGTTCACAATTCCGACAGAAACTGCGGc            >  1:882143‑M2/12‑143 (MQ=255)                                                                                                                                  ccgcctcctgcCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCACCCCTACGTTCATGTCGGTCTCTGCGGCAGAGGCTGCAACGTATTCCAGATCGCAAACCGCTTCGCCGTTCACAATTCCGACAGAAACTGCGGc            <  1:13666‑M2/132‑1 (MQ=255)                                                                                                                                            cCGTCCGCCGCAGTTCACTGATGCGCCCGTCTTCGGTCATCACTCCGTTCATGTCGTTCTCTGCGGCAGAGTCTTCTACTTATTCTAGATCGCAAACCGCTTCGCCGTTCACAATTCCGACAGAAACTGCGGCTACCATCCCt  <  2:542853‑M2/142‑1 (MQ=255)                                                                                                                                             |                                                                                                                                              AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTCTGCGGCAGAGTCTTCAACGTATTCCAGATCGCAAACCGCTTCGCCGTTCACAATTCCGACAGAAACTGCGGCTACCATCCCT  >  NC_000913/3815801‑3816082

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑