New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_hsa_pgi	= 291401	NA (NA)	32 (0.320)	26/296	4.5	33.3%	intergenic (‑55/‑3)	insA/yagJ	IS1 repressor TnpA/CP4‑6 prophage; uncharacterized protein;Phage or Prophage Related
	?	NC_000913_3_hsa_pgi	314984 =	64 (0.630)					pseudogene (628/872 nt)	eaeH	pseudogene, attaching and effacing protein homology;factor; Not classified
Rejected: Coverage evenness skew score above cutoff.

GCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913_3_hsa_pgi/291292‑291401 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGAAAAAATCGCCGGATATTGAGGATTATCAGGAACGCCCGGCGAATGGCTGGGATATTCGTGCTGAGGGCTATTTACCCGCCTGGCCGCAGCTTGGCGCAAGCCTGATG  >  NC_000913_3_hsa_pgi/314984‑315127                                                                                                                                                                                                                                                                GCACCACCCCGTCAGTAGCGGAACAGGAGGCACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCATTAAGTTGGCAGCATCACCCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGAAA                                                                                                           <  1:1309884/149‑1        CCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCAATGGAGCACCTCAACAACACCATCATACACTAAATCAGTAAGTTGGCCGCCCCACCCTGAGCGCCAATGGTTATAATCGGGCTTCAGGCTGGAAAAAATCGC                                                                                                    <  2:977080/149‑1         CCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGAAAAAATCGCC                                                                                                   <  2:31204/149‑1                  GCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGAAAAAATCGCCGGATATTGA                                                                                          <  2:419528/149‑1                  GCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGAAAAAATCGCCGGATATTGA                                                                                          <  2:1289335/149‑1                    TGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACCCCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGAAAAAATCGCCGGATATTGAGG                                                                                        >  2:535245/1‑149                     GAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGAAAAAATCGCCGGATATTGAGGA                                                                                       >  1:553783/1‑149                     GAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGAAAAAATCGCCGGATATTGAGGA                                                                                       >  1:1000961/1‑149                           GAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGAAAAAATCGCCGGATATTGAGGATTATCA                                                                                 >  1:954092/1‑149                                      GATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGAAAAAATCGCCGGATATTGAGGATTATCAGGAACGCCCGG                                                                      >  2:676945/1‑149                                             ACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGAAAAAATCGCCGGATATTGAGGATTATCAGGAACGCCCGGCGAATGG                                                               >  2:645863/1‑149                                                 AAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGAAAAAATCGCCGGATATTGAGGATTATCAGGAACGCCCGGCGAATGGCTGG                                                           <  1:509250/149‑1                                                 AAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGAAAAAATCGCCGGATATTGAGGATTATCAGGAACGCCCGGCGAATGGCTGG                                                           <  1:583817/149‑1                                                  AGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGATAAAATCGCCGGATATTGAGGATTATCAGGAACGCCCGGCGATTGGCTGGG                                                          >  2:1202321/1‑149                                                  AGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGAAAAAATCGCCGGATATTGAGGATTATCAGGAACGCCCGGCGAATGGCTGGG                                                          >  2:1421851/1‑149                                                   GCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCTGAGCGCCAATGGTTATCTTCGGGCTTCTGGCTGGAAAAAATCGCCGGATATTGAGGATTATCAGGAACGCCCGGCGAATGGCTGGGA                                                         <  2:879428/149‑1                                                      ACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGTCAGCGTCACCCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGAAAAAATCGCCGGATATTGAGGATTATCAGGAACACCCGGCGAATGTCTGGGATAT                                                      >  1:283956/1‑149                                                                CTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGAAAAAATCGCCGGATATTGAGGATTATCAGGAACGCCCGGCGAATGGCTGGGATATTCGTGCTGAG                                            <  2:1000961/149‑1                                                                CTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGAAAAAATCGCCGGATATTGAGGATTATCAGGAACGCCCGGCGAATGGCTGGGATATTCGTGCTGAG                                            <  2:553783/149‑1                                                                 TCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGAAAAAATCGCCGGATATTGAGGATTATCAGGAACGCCCGGCGAATGGCTGGGATATTCGTGCTGAGG                                           >  1:1443078/1‑149                                                                  aAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGAAAAAATCGCCGGATATTGAGGATTATCAGGAACGCCCGGCGAATGGCTGGGATATTCGTGCTGAGGG                                          <  1:1560760/148‑1                                                                  CAAAAACCCCATAATACACTAAATACTTAAGTTGGCAGCATCAACCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGTAAAAAATCGCCGGATATTGAGGATTATCAGTAACGCCCGGCGAATGGCTGGGATATTCGTGCTGAGGG                                          <  1:1630924/149‑1                                                                               ATACACTAAATCAGTAAGTTGGCAGCATCACCCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGAAAAAATCGCCGGATATTGAGGATTATCAGGAACGCCCGGCGAATGGCTGGGATATTCGTGCTGAGGGCTATTTACCCGCC                             >  1:1045912/1‑149                                                                                TACACTAAATCAGTAAGTTGGCAGCATCACCCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGAAAAAATCGCCGGATATTGAGGATTATCAGGAACGCCCGGCGAATGGCTGGGATATTCGTGCTGAGGGCTATTTACCCGCCT                            <  2:688742/149‑1                                                                                         TCAGTAAGTTGGCAGCATCACACTGAGCGCCAATGGTTATATTCGGGCTTCTGGATGGAAAAAATCGCCGGATATTGAGGATTATCAGGAACGCCCGGCGAATGGCTGGGATATTCGTGCTGAGGGCTATTTACCCGCCTGTACGCAGC                   >  2:1456002/1‑149                                                                                          CAGTAAGTTGGCAGCATCACCCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGAAAAAATCGCCGGATATTGAGGATTATCAGGAACGCCCGGCGAATGGCTGGGATATTCGTGCTGAGGGCTATTTACCCGCCTGGCCGCAGCT                  >  1:187741/1‑149                                                                                          CAGTAAGTTGGCAGCATCACCCTGAGCGCCAATGGTTATATTCGGGCTGCTGGCTGGAAAAAATCGCCGGATATTGAGGATTATCAGGAACGCCCGGCGAATGGCTGGGATATTCGTGCTGAGGGCTATTTACCCGCCTGGCCGCAGCT                  <  1:316583/149‑1                                                                                           AGTAAGTTGGCAGCATCACCCTGAGCGCCAATGGTTATATTCGGGCATCTGGCTGGAAAAAATCGCCGGATATTGAGGATTATCAGGACCGCCCGGCGAATGGCTGGGATATTCGTGCTGAGGGCTATTTACCCGCCTGGCCGCAGCTT                 >  2:895565/1‑149                                                                                                GTTGGCAGCATCACCCTGAGCGCCAATGGTTATATTCGGGGTTCTGGCTGGAAAAAATCGCCGTATATTGAGGATTATCAGGAACGACCGGCGAATGGCTGGGATATTCGTGGTGAGGGCTATTTCCCCGCCTGGCCGCAGCTTGGCGC            >  2:1075119/1‑149                                                                                                       GCATCACCCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGAAAAAATCGCCGGATATTGAGGATTATCAGGAACGCCCGGCGAATGGCTGGGATATTCGTGCTGAGGGCTATTTACCCGCCTGGCCGCAGCTTGGCGCAAGCCTG     <  2:1443078/149‑1                                                                                                         ATCACCCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCGGGAAAAAATCGCCGGATATTGAGGATTATCAGGAACGCCCGGCGAATGGCTGGGATATTCGTGCTGAGGGCTATTTACCCGCCTGGCCGCAGCTTGGCGCAAGCCTGAT   <  2:507410/149‑1                                                                                                          TCACCCTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGAAAAAATCGCCGGATATTGAGGATTATCAGGAACGCCCGGCGAATGGCTGGGATATTCGTGCTGAGGGCTATTTACCCGCCTGGCCGCAGCTTGGCGCAAGCCAGATG  >  2:1002131/1‑149                                                                                                                                                                                                                                                                GCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913_3_hsa_pgi/291292‑291401 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CTGAGCGCCAATGGTTATATTCGGGCTTCTGGCTGGAAAAAATCGCCGGATATTGAGGATTATCAGGAACGCCCGGCGAATGGCTGGGATATTCGTGCTGAGGGCTATTTACCCGCCTGGCCGCAGCTTGGCGCAAGCCTGATG  >  NC_000913_3_hsa_pgi/314984‑315127

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.