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The information given by your doctor is right. The baby may have birth defects and infection. The extent and the chances for these to occur can be better discussed with a perinatologist. If the risks are found more, then abortion will be advised. Otherwise you can carry on with the pregnancy.
If you do go in for abortion, then get adequately treated before you plan your next pregnancy. Get a TORCH screening done. Get started on birth control measures until all infection is cleared.
Take care.